Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001329.1 Hibiscus syriacus cultivar Beakdansim tig00002595_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: 56686
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Found at i:1620 original size:49 final size:48
Alignment explanation
Indices: 1547--1655 Score: 150
Period size: 49 Copynumber: 2.2 Consensus size: 48
1537 TAACTTATGG
1547 GAGATGTACATACTTAACACAGTGTAAGTATGTGTTT-ATTTTTAGGTTGA
1 GAGATGT--ATACTTAACACAGTGTAAGTATGTGTTTCA-TTTTAGGTTGA
*
1597 GAGATGGTATACTT-ACACCAGTGTAAGTATGTGTTTCATTTTAGGTTGG
1 GAGAT-GTATACTTAACA-CAGTGTAAGTATGTGTTTCATTTTAGGTTGA
1646 GAGATGTATA
1 GAGATGTATA
1656 TAGTTACACT
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
48 8 0.15
49 39 0.71
50 6 0.11
51 2 0.04
ACGTcount: A:0.28, C:0.08, G:0.25, T:0.39
Consensus pattern (48 bp):
GAGATGTATACTTAACACAGTGTAAGTATGTGTTTCATTTTAGGTTGA
Found at i:2431 original size:39 final size:40
Alignment explanation
Indices: 2338--2484 Score: 135
Period size: 39 Copynumber: 3.8 Consensus size: 40
2328 TTACAATCGC
* *
2338 CGCTACAG-ACCATACTATAGTGGCGTTTTAGACAAACGT
1 CGCTACAGAACCATACTTTAGTGGCGTTTTAGAAAAACGT
**
2377 CTTTA-A-ATACTCATACTTTAGTGGCGTTTTA-AAAAACGT
1 CGCTACAGA-AC-CATACTTTAGTGGCGTTTTAGAAAAACGT
* * * *
2416 CGCTACAGAACCATACTTTAGTGGCATTTTAGATAAATGC
1 CGCTACAGAACCATACTTTAGTGGCGTTTTAGAAAAACGT
* *
2456 CGTTA-A-TACTCATACTTTAGTGGCGTTTT
1 CGCTACAGAAC-CATACTTTAGTGGCGTTTT
2485 TTAAAAAATG
Statistics
Matches: 88, Mismatches: 13, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 53 0.60
40 31 0.35
41 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (40 bp):
CGCTACAGAACCATACTTTAGTGGCGTTTTAGAAAAACGT
Found at i:2472 original size:78 final size:78
Alignment explanation
Indices: 2338--2484 Score: 224
Period size: 78 Copynumber: 1.9 Consensus size: 78
2328 TTACAATCGC
* * *
2338 CGCTACAGACCATACTATAGTGGCGTTTTAGACAAACGTCTTTAAATACTCATACTTTAGTGGCG
1 CGCTACAGACCATACTATAGTGGCATTTTAGACAAACGCCGTTAAATACTCATACTTTAGTGGCG
2403 TTTTAAAAAACGT
66 TTTTAAAAAACGT
* * *
2416 CGCTACAGAACCATACTTTAGTGGCATTTTAGATAAATGCCGTT-AATACTCATACTTTAGTGGC
1 CGCTACAG-ACCATACTATAGTGGCATTTTAGACAAACGCCGTTAAATACTCATACTTTAGTGGC
2480 GTTTT
65 GTTTT
2485 TTAAAAAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
78 33 0.53
79 29 0.47
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (78 bp):
CGCTACAGACCATACTATAGTGGCATTTTAGACAAACGCCGTTAAATACTCATACTTTAGTGGCG
TTTTAAAAAACGT
Found at i:2506 original size:41 final size:40
Alignment explanation
Indices: 2283--2530 Score: 166
Period size: 40 Copynumber: 6.2 Consensus size: 40
2273 TAACGGCGTT
* * * * * *
2283 TTTTTCAAAAACGCTGCTACAAACTCGTACTTTAGTGGCA
1 TTTTTAAAAAATGCCGCTACATACTCATACTTTAGTGGCG
** * * *
2323 TTTTTTTACAATCGCCGCTACAGAC-CATACTATAGTGGCG
1 TTTTTAAAAAAT-GCCGCTACATACTCATACTTTAGTGGCG
* * * ** *
2363 -TTTTAGACAAACGTCTTTAAATACTCATACTTTAGTGGCG
1 TTTTTA-AAAAATGCCGCTACATACTCATACTTTAGTGGCG
* * *
2403 -TTTTAAAAAACGTCGCTACAGAAC-CATACTTTAGTGGC-
1 TTTTTAAAAAATGCCGCTACA-TACTCATACTTTAGTGGCG
* * *
2441 ATTTTAGATAAATGCCGTTA-ATACTCATACTTTAGTGGCG
1 TTTTTA-AAAAATGCCGCTACATACTCATACTTTAGTGGCG
* * *
2481 TTTTTTAAAAAATGCCGCAACATACTCATATTTTAGTGGTG
1 -TTTTTAAAAAATGCCGCTACATACTCATACTTTAGTGGCG
2522 TTTATTAAA
1 TTT-TTAAA
2531 TAAACGCCTC
Statistics
Matches: 161, Mismatches: 36, Indels: 21
0.74 0.17 0.10
Matches are distributed among these distances:
38 2 0.01
39 56 0.35
40 65 0.40
41 38 0.24
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (40 bp):
TTTTTAAAAAATGCCGCTACATACTCATACTTTAGTGGCG
Found at i:2531 original size:78 final size:77
Alignment explanation
Indices: 2335--2519 Score: 194
Period size: 78 Copynumber: 2.4 Consensus size: 77
2325 TTTTTACAAT
* * * * * * *
2335 CGCCGCTACAG-ACCATACTATAGTGGCGTTTTAGACAAACGTCTTTAAATACTCATACTTTAGT
1 CGCCGCAACAGAACCATACTTTAGTGG-ATTTTAGATAAATGCCGTT-AATACTCATACTTTAGT
2399 GGCGTTTTAAAAAA
64 GGCGTTTTAAAAAA
* *
2413 CGTCGCTACAGAACCATACTTTAGTGGCATTTTAGATAAATGCCGTTAATACTCATACTTTAGTG
1 CGCCGCAACAGAACCATACTTTAGTGG-ATTTTAGATAAATGCCGTTAATACTCATACTTTAGTG
2478 GCGTTTTTTAAAAAA
65 GCG--TTTTAAAAAA
* * *
2493 TGCCGCAACA-TACTCATATTTTAGTGG
1 CGCCGCAACAGAAC-CATACTTTAGTGG
2520 TGTTTATTAA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 31 0.34
79 31 0.34
80 29 0.32
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (77 bp):
CGCCGCAACAGAACCATACTTTAGTGGATTTTAGATAAATGCCGTTAATACTCATACTTTAGTGG
CGTTTTAAAAAA
Found at i:4716 original size:41 final size:41
Alignment explanation
Indices: 4671--4985 Score: 320
Period size: 41 Copynumber: 7.8 Consensus size: 41
4661 CTTAAAATGT
* * * *
4671 CGCTAAAGATTCGTACTTTAGTGGCGTTTTTATAAAAATGC
1 CGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
* * * *
4712 CGCTATAGAATCATACTTTAGTGGTGTTTTTATACAAATGC
1 CGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
* *
4753 CACTATAGACTCGTAC--TA--GCCGTGTTTTATACAAACGC
1 CGCTATAGACTCGTACTTTAGTGGCGT-TTTTATACAAACGC
* * * * * * *
4791 CACTATATACTCGCACTTTAGTGACATTTTTATACAAAGGA
1 CGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
* *
4832 CGCTATAGACT-GTACTTTAGCGGCGTTTTTATACAAACGT
1 CGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
* * * * *
4872 CGTTATATACTCATACTTTAGTGGCATTTTCATACAAACG-
1 CGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
*
4912 CGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAGACGC
1 CGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
* *
4953 CGCTA-AGGACTTGTACTTTATTGGCGTTTTTAT
1 CGCTATA-GACTCGTACTTTAGTGGCGTTTTTAT
4986 TCAATCTGAT
Statistics
Matches: 227, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
37 3 0.01
38 27 0.12
39 2 0.01
40 69 0.30
41 123 0.54
42 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.36
Consensus pattern (41 bp):
CGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAAACGC
Found at i:4892 original size:81 final size:81
Alignment explanation
Indices: 4671--4957 Score: 323
Period size: 81 Copynumber: 3.6 Consensus size: 81
4661 CTTAAAATGT
* * * * * * *
4671 CGCTAAAGATTCGTACTTTAGTGGCGTTTTTATAAAAATGCCGCTATAGAATCATACTTTAGTGG
1 CGCTATAGACTCGTACTTTAGCGGCGTTTTTATACAAACGCCGCTATATACTCATACTTTAGTGG
** *
4736 TGTTTTTATACAAATG
66 CATTTTTATACAAACG
* * **
4752 CCACTATAGACTCGTAC--TAGC--CGTGTTTTATACAAACGCCACTATATACTCGCACTTTAGT
1 -CGCTATAGACTCGTACTTTAGCGGCGT-TTTTATACAAACGCCGCTATATACTCATACTTTAGT
* *
4813 GACATTTTTATACAAAGG
64 GGCATTTTTATACAAACG
* *
4831 ACGCTATAGACT-GTACTTTAGCGGCGTTTTTATACAAACGTCGTTATATACTCATACTTTAGTG
1 -CGCTATAGACTCGTACTTTAGCGGCGTTTTTATACAAACGCCGCTATATACTCATACTTTAGTG
*
4895 GCATTTTCATACAAACG
65 GCATTTTTATACAAACG
* *
4912 CGCTATAGACTCGTACTTTAGTGGCGTTTTTATACAGACGCCGCTA
1 CGCTATAGACTCGTACTTTAGCGGCGTTTTTATACAAACGCCGCTA
4958 AGGACTTGTA
Statistics
Matches: 170, Mismatches: 29, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
78 7 0.04
79 53 0.31
80 18 0.11
81 76 0.45
82 16 0.09
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (81 bp):
CGCTATAGACTCGTACTTTAGCGGCGTTTTTATACAAACGCCGCTATATACTCATACTTTAGTGG
CATTTTTATACAAACG
Found at i:6823 original size:21 final size:21
Alignment explanation
Indices: 6797--6854 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
6787 TGATTTATTA
*
6797 TTATGGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTCG
*
6818 TTATGGATTTCAAGTTTGTCG
1 TTATGGATTTCAAGTTTCTCG
*
6839 TTATGGATGTCAAGTT
1 TTATGGATTTCAAGTT
6855 ATTGGATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.21, C:0.09, G:0.22, T:0.48
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTCG
Found at i:7442 original size:19 final size:20
Alignment explanation
Indices: 7404--7443 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
7394 GTATAGTATT
7404 AAATAAAAATAATAATAGAA
1 AAATAAAAATAATAATAGAA
7424 AAATAAGAAAT-AT-ATAGAA
1 AAATAA-AAATAATAATAGAA
7443 A
1 A
7444 CATATAGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 8 0.42
21 4 0.21
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.20
Consensus pattern (20 bp):
AAATAAAAATAATAATAGAA
Found at i:9657 original size:66 final size:68
Alignment explanation
Indices: 9512--9660 Score: 196
Period size: 66 Copynumber: 2.2 Consensus size: 68
9502 AGATATATGT
* *
9512 TGTTT-AATGAGAAACGGCCTCAAGTGAGACAAAATTTTGTTTTAAAGGAAATAAACTCAAAGAT
1 TGTTTCAA-GAGAAACGGCCTCAAGGGAGACAAAATTTTGTTTCAAAGGAAATAAACTCAAAGAT
9576 TTTG
65 TTTG
* * * * * *
9580 TGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAA-TTTGTTTCAAGGGAAA-AATCTCAAAGGTT
1 TGTTTCAAGAGAAACGGCCTCAAGGGAGACAAAATTTTGTTTCAAAGGAAATAAACTCAAAGATT
9643 TTG
66 TTG
9646 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
9661 ATTTCAAAGG
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
66 29 0.40
67 14 0.19
68 27 0.38
69 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (68 bp):
TGTTTCAAGAGAAACGGCCTCAAGGGAGACAAAATTTTGTTTCAAAGGAAATAAACTCAAAGATT
TTG
Found at i:9682 original size:32 final size:32
Alignment explanation
Indices: 9616--9726 Score: 154
Period size: 30 Copynumber: 3.4 Consensus size: 32
9606 AGACGAAATT
* * *
9616 TGTTTCAAGGGAAAAATCTCAAAGG--TTTTG
1 TGTTTCAAGAGAAACATTTCAAAGGTTTTTTG
9646 TGTTTCAAGAGAAACATTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACATTTCAAAGGTTTTTTG
9678 TGTTTCAAGAGAAACAATTTCAAAGGTTTCTTTTG
1 TGTTTCAAGAGAAAC-ATTTCAAAGG-TT-TTTTG
9713 TGTTTCAAGAGAAA
1 TGTTTCAAGAGAAA
9727 ACTGTATCAA
Statistics
Matches: 73, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
30 22 0.30
32 20 0.27
33 10 0.14
34 2 0.03
35 19 0.26
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (32 bp):
TGTTTCAAGAGAAACATTTCAAAGGTTTTTTG
Found at i:9826 original size:38 final size:36
Alignment explanation
Indices: 9769--10287 Score: 186
Period size: 37 Copynumber: 15.4 Consensus size: 36
9759 CAAGGATTGA
*
9769 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * *
9806 TGTTTTAAGAAAAACATGTCTTAAGAGAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
9843 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
9879 TGTTT-AATGTA-AAACATAT-TC-A-A-AG----ATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* *
9908 TGTTTCAAGGGAAACT-TTTC-A-A-AG------TT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* *
9934 TATGTTCAATAGAAACTGTCTCAA-AGGAGACAAAATT
1 TGT-TTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
9971 TGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
10006 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
10034 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
10072 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
10106 TATTTCAAGGGAAA-TGCTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
10134 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * * *
10172 TGTTCCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
10200 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
10238 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** *
10274 CATTTCAAGGGAAA
1 TGTTTCAAGAGAAA
10288 TGTTTTTAAT
Statistics
Matches: 364, Mismatches: 63, Indels: 111
0.68 0.12 0.21
Matches are distributed among these distances:
26 4 0.01
27 12 0.03
28 16 0.04
29 59 0.16
30 11 0.03
31 3 0.01
32 5 0.01
33 5 0.01
34 22 0.06
35 25 0.07
36 71 0.20
37 108 0.30
38 23 0.06
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:10012 original size:35 final size:36
Alignment explanation
Indices: 9945--10019 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
9935 ATGTTCAATA
* **
9945 GAAACTGTCTCAAAGGAGACAAAATTTGTTTCAAGG
1 GAAACTATCTCAAAGGAGACAAAATTCATTTCAAGG
9981 GAAACTATCTC-AAGAGAGAC-AAATTCATTTCAAGG
1 GAAACTATCTCAAAG-GAGACAAAATTCATTTCAAGG
10016 GAAA
1 GAAA
10020 TGTTTTCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 20 0.57
36 15 0.43
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.23
Consensus pattern (36 bp):
GAAACTATCTCAAAGGAGACAAAATTCATTTCAAGG
Found at i:10111 original size:100 final size:99
Alignment explanation
Indices: 9843--10185 Score: 461
Period size: 100 Copynumber: 3.5 Consensus size: 99
9833 AGACAAAATT
* **
9843 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTT-AATGTAAAACATAT-TC-A-A-A
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA-GGGAAAC-TATCTCAAGAGA
* * * *
9903 G--ATTTTGTTTCAAGGGAAA-CTTTTCAAAGTTTA
64 GACAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
* *
9936 TG-TTCAATAGAAACTGTCTCAAAGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
*
10000 CAAATTCATTTCAAGGGAAATGTTTTCAATGTTTA
66 C-AATTTATTTCAAGGGAAATGTTTTCAATGTTTA
*
10035 TGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAACTATCTCAAGAGAG
*
10100 ACAATTTATTTCAAGGGAAATGCTTTCAATGTTTA
65 ACAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
*
10135 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGGGAAA
10186 TGTTTTCAAT
Statistics
Matches: 222, Mismatches: 17, Indels: 15
0.87 0.07 0.06
Matches are distributed among these distances:
91 3 0.01
92 42 0.19
93 5 0.02
94 1 0.00
95 2 0.01
98 15 0.07
99 14 0.06
100 108 0.49
101 32 0.14
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (99 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGAGAGA
CAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
Found at i:10206 original size:66 final size:65
Alignment explanation
Indices: 10072--10251 Score: 276
Period size: 66 Copynumber: 2.8 Consensus size: 65
10062 GACAAAATTT
* * *
10072 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATTTAT-TTCAAGGGAAATGCTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT-TGTTCAAGGGAAATGCTTTCAATGTTT
10134 A
65 A
*
10135 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTT-CAAGGGAAATGCTTTCAATGTTT
10200 A
65 A
10201 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTG-TTCAAGGGAAA
10252 CTATCTCAAG
Statistics
Matches: 108, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
63 27 0.25
64 1 0.01
65 7 0.06
66 71 0.66
67 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (65 bp):
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:10222 original size:166 final size:166
Alignment explanation
Indices: 9971--10354 Score: 603
Period size: 166 Copynumber: 2.3 Consensus size: 166
9961 AGACAAAATT
* * *
9971 TGTTTCAAGGGAAACTATCTCAAGAGAGAC-AAATTCAT-TTCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-TTGTTCAAGGGAAATGTTTTCAATGTTT
*
10034 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
65 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
*
10099 GAC-AATTTATTTCAAGGGAAATGCTTTCAATGTTTA
130 GACAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
*
10135 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTT-CAAGGGAAATGTTTTCAATGTTT
10200 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
65 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGA
* *
10265 GACAAAATTCATTTCAAGGGAAATGTTTTTAATGTTTA
130 GAC-AAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
* * *
10303 TGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTCTGTTCGAGGGAAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTT-TGTTCAAGGGAAA
10355 CTATCTCAAG
Statistics
Matches: 202, Mismatches: 11, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
164 28 0.14
165 7 0.03
166 90 0.45
168 62 0.31
169 11 0.05
170 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (166 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTTGTTCAAGGGAAATGTTTTCAATGTTTA
TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAG
ACAAATTCATTTCAAGGGAAATGCTTTCAATGTTTA
Found at i:10313 original size:102 final size:105
Alignment explanation
Indices: 10135--10375 Score: 348
Period size: 103 Copynumber: 2.3 Consensus size: 105
10125 TCAATGTTTA
* * * *
10135 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTCCAAGGGAAATGTTTTCAATGTTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTATGTTCCAAGGGAAATGTTTTCAATGTTT
*
10200 ATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA-TTT-
66 ATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
*
10238 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCAT-TT-CAAGGGAAATGTTTTTAATGTT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT-ATGTTCCAAGGGAAATGTTTTCAATGTT
*
10301 TATGTTTAAAGAGAAACTGTCTCAAGTGAGACAAAACTTTC
65 TATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
* * *
10342 TG-TTCGAGGGAAACTATCTCAAGCGAGATAAAAT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT
10376 CTTGTTTTAG
Statistics
Matches: 125, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
102 55 0.44
103 67 0.54
104 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (105 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTATGTTCCAAGGGAAATGTTTTCAATGTTT
ATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAACTTTC
Found at i:11880 original size:183 final size:183
Alignment explanation
Indices: 11572--11921 Score: 637
Period size: 183 Copynumber: 1.9 Consensus size: 183
11562 GGTTTAACTA
11572 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
* **
11637 AGTGTCCGAGCAATGTCATGGTTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
*
11702 CTATAACCAATTGTCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
* *
11755 AAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAATCAGTGGAGCAAACACCGAATTGCCA
1 AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
*
11820 AGTGTCTGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
66 AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
11885 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
11922 CGGATTTAAT
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 160 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (183 bp):
AAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATTGCCA
AGTGTCCGAGCAATGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTTTCCT
CTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATCACTG
Found at i:15913 original size:21 final size:21
Alignment explanation
Indices: 15875--15925 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
15865 ACATAGTATT
15875 AAATAA-AAATAATAATAGAA
1 AAATAAGAAATAATAATAGAA
15895 AAATAAGAAAT-ATATATAGAA
1 AAATAAGAAATAATA-ATAGAA
*
15916 ACATATAGAA
1 AAATA-AGAA
15926 CAAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 9 0.33
21 14 0.52
22 4 0.15
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (21 bp):
AAATAAGAAATAATAATAGAA
Found at i:16102 original size:2 final size:2
Alignment explanation
Indices: 16095--16127 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16085 GTATACTTAA
16095 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16128 CTAATATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17527 original size:26 final size:26
Alignment explanation
Indices: 17450--17527 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
17440 ATCTTTTATA
17450 TTACTATCAATCTTTTATATT-AAA-
1 TTACTATCAATCTTTTATATTAAAAT
* ** * *
17474 GTACCCTC-ACCTATTTAT-TTAATTAT
1 TTACTATCAATCT-TTTATATTAA-AAT
17500 TTACTATCAATCTTTTATATTAAAAT
1 TTACTATCAATCTTTTATATTAAAAT
17526 TT
1 TT
17528 TAATTTATCA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
23 5 0.13
24 11 0.29
25 1 0.03
26 14 0.37
27 7 0.18
ACGTcount: A:0.33, C:0.15, G:0.01, T:0.50
Consensus pattern (26 bp):
TTACTATCAATCTTTTATATTAAAAT
Found at i:19314 original size:2 final size:2
Alignment explanation
Indices: 19309--19340 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19299 ATTTTTTTAA
19309 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
19341 TAATAATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21774 original size:44 final size:45
Alignment explanation
Indices: 21726--21825 Score: 121
Period size: 44 Copynumber: 2.2 Consensus size: 45
21716 TTTTACAGTC
* * *
21726 ACAAATACCACTATATGTCATAACATTTAGTGGCG-TTTTTGGGA
1 ACAAACACCACTATATGTCAGAACATTTAGCGGCGTTTTTTGGGA
* * * *
21770 ACAAACACCTCTATATGTCGGAATATTTAGCGGCGTTTTTTTGGA
1 ACAAACACCACTATATGTCAGAACATTTAGCGGCGTTTTTTGGGA
*
21815 ACAAACGCCAC
1 ACAAACACCAC
21826 AAAAGATAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 29 0.63
45 17 0.37
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (45 bp):
ACAAACACCACTATATGTCAGAACATTTAGCGGCGTTTTTTGGGA
Found at i:23320 original size:20 final size:20
Alignment explanation
Indices: 23286--23334 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
23276 AACTATATAC
23286 CAGGTAAAAATATGATAAAA
1 CAGGTAAAAATATGATAAAA
*
23306 CCGGTAACAAA-ATGATAAAA
1 CAGGTAA-AAATATGATAAAA
23326 CAGGTAAAA
1 CAGGTAAAA
23335 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.16
Consensus pattern (20 bp):
CAGGTAAAAATATGATAAAA
Found at i:23422 original size:181 final size:182
Alignment explanation
Indices: 23076--23548 Score: 680
Period size: 181 Copynumber: 2.6 Consensus size: 182
23066 GATCAAAATT
* * * *
23076 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAATTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
23140 AAAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
23205 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* *
23258 AAAAATGTATCGATCCAAAACTATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* * *
23323 AAACAGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
** *
23387 GTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* * * *
23439 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAATCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
23504 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
23549 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 165 0.63
182 95 0.37
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:23492 original size:20 final size:19
Alignment explanation
Indices: 23469--23515 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
23459 CGATATAACA
*
23469 GGTAAAAATATGATAAAATC
1 GGTAAAAA-ATGATAAAACC
*
23489 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
23509 GGTAAAA
1 GGTAAAA
23516 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.53, C:0.09, G:0.17, T:0.21
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:25774 original size:21 final size:21
Alignment explanation
Indices: 25747--25811 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
25737 AAGACAATCA
* *
25747 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTCGAG
* *
25768 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
25789 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
25810 AG
1 AG
25812 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:27749 original size:19 final size:19
Alignment explanation
Indices: 27701--27749 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
27691 AATGTAGGGT
*
27701 TAATTTTGTAAAAGATTTA
1 TAATTTTGTATAAGATTTA
*
27720 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
27739 TATTTTTGTAT
1 TAATTTTGTAT
27750 GTGAATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:28213 original size:198 final size:199
Alignment explanation
Indices: 27867--28835 Score: 1750
Period size: 198 Copynumber: 4.9 Consensus size: 199
27857 CAATATGGCC
* *
27867 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
* * *
27932 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
*
27997 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGA
129 AGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGA
28061 ATGGAA
194 ATGGAA
*
28067 AACAGTGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
28132 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
28197 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTT-CCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
28261 GGAA
196 GGAA
28265 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAA-C
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
28328 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
28393 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
28458 GGAA
196 GGAA
*
28462 AACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT-ATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
28526 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
28591 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
*
28656 GCAA
196 GGAA
*
28660 AACAGGGTGCACCGATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* * *
28725 CAAAAGTATAATGTAATATATAATTTTTCAATCTAATCGGTACAATTATACCGATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
28790 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
28836 CTAATTTAAA
Statistics
Matches: 746, Mismatches: 19, Indels: 9
0.96 0.02 0.01
Matches are distributed among these distances:
196 117 0.16
197 82 0.11
198 373 0.50
199 140 0.19
200 34 0.05
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAAT
GGAA
Found at i:28822 original size:23 final size:23
Alignment explanation
Indices: 28796--28847 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
28786 AGAGAATATG
28796 TATAAATAATGTGTCGACACTAA
1 TATAAATAATGTGTCGACACTAA
* * *
28819 TAT-AGT-TTGTGTCGATACTAA
1 TATAAATAATGTGTCGACACTAA
*
28840 TTTAAATA
1 TATAAATA
28848 TCAAAACCGT
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
21 15 0.68
22 4 0.18
23 3 0.14
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (23 bp):
TATAAATAATGTGTCGACACTAA
Found at i:30992 original size:18 final size:19
Alignment explanation
Indices: 30957--30993 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30947 AATATATTGT
*
30957 AAAGTATCTATCCTTTTTA
1 AAAGTATCTATACTTTTTA
*
30976 AAAGTGTCTATACTTTTT
1 AAAGTATCTATACTTTTT
30994 CCACTGTGGA
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:0.30, C:0.14, G:0.08, T:0.49
Consensus pattern (19 bp):
AAAGTATCTATACTTTTTA
Found at i:31600 original size:182 final size:182
Alignment explanation
Indices: 31326--31816 Score: 842
Period size: 182 Copynumber: 2.7 Consensus size: 182
31316 GCAATGCTAT
*
31326 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
31391 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT-TAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
*
31455 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
31508 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTATACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* * *
31573 GTGTCGGTACTTTATGTCCATATTGGAATAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
31638 TTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
31691 C-GTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGATACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
31755 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
31817 GTAATTTAAG
Statistics
Matches: 291, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
182 223 0.77
183 68 0.23
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:34289 original size:24 final size:25
Alignment explanation
Indices: 34262--34325 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 25
34252 ATATCATTAA
34262 ATTTAGGTATGTACAATAACTAC-T
1 ATTTAGGTATGTACAATAACTACAT
****
34286 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
34311 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
34326 TCTTTTGAGT
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
24 19 0.61
25 12 0.39
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:34648 original size:21 final size:22
Alignment explanation
Indices: 34602--34648 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
34592 AAATTACATA
34602 ACTTTTAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAGTATCGATC
* *
34624 -CTTTTATAAAAAGTATGGA-C
1 ACTTTTAAAAAAAGTATCGATC
34644 ACTTT
1 ACTTT
34649 CAATATAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (22 bp):
ACTTTTAAAAAAAGTATCGATC
Found at i:34723 original size:23 final size:22
Alignment explanation
Indices: 34666--34742 Score: 93
Period size: 23 Copynumber: 3.5 Consensus size: 22
34656 ATAGGTAAAC
34666 ATATGATGTAATAGGTAGCGCTT
1 ATAT-ATGTAATAGGTAGCGCTT
* *
34689 ATATATGTAATAGGTATCGTTT
1 ATATATGTAATAGGTAGCGCTT
* *
34711 ATATAATGTAATAGGTAGTGGTT
1 ATAT-ATGTAATAGGTAGCGCTT
34734 ATAT-TGTAA
1 ATATATGTAA
34743 AGTATCTATC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
21 5 0.10
22 20 0.42
23 23 0.48
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGCGCTT
Found at i:35178 original size:18 final size:18
Alignment explanation
Indices: 35157--35193 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
35147 GTAATTGGAG
35157 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
35175 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
35193 T
1 T
35194 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:35201 original size:24 final size:24
Alignment explanation
Indices: 35149--35195 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
35139 TTTCATATGT
* *
35149 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
35173 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
35196 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:35494 original size:39 final size:39
Alignment explanation
Indices: 35451--35536 Score: 154
Period size: 39 Copynumber: 2.2 Consensus size: 39
35441 TCCGATGCTC
*
35451 ATCAAAATTCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATTCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
35490 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATTCAAAGCTCATATGATGCCAAGCAAAAGGAA
35529 ATCAAAAT
1 ATCAAAAT
35537 CTACAACTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (39 bp):
ATCAAAATTCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:35982 original size:23 final size:23
Alignment explanation
Indices: 35951--36023 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
35941 ATAGGTAAAA
*
35951 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
35974 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
35997 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
36020 ATAT
1 ATAT
36024 TGTAAGTGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:36410 original size:23 final size:23
Alignment explanation
Indices: 36379--36451 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
36369 ATAGGTAAAA
*
36379 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36402 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36425 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
36448 ATAT
1 ATAT
36452 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:36829 original size:23 final size:23
Alignment explanation
Indices: 36803--36875 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
36793 ATAGGTAAAA
* *
36803 ATATGATGTAATAAGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36826 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36849 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
36872 ATAT
1 ATAT
36876 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:37239 original size:425 final size:427
Alignment explanation
Indices: 35751--38493 Score: 5022
Period size: 424 Copynumber: 6.5 Consensus size: 427
35741 GTTAATGTTG
35751 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAA-AATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
35815 TGAAATTATTAAATT-A-ATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
*
35878 AATCACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
130 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
35943 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
36008 TAGGTAGTGGTTATATTGT-AAGTGCCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
260 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
36072 GGAAAACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
325 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
36137 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 GTCTAATGATTTATTTTTTACGTTACG--ATATATTATTA
*
36177 TTAAATTAAAAATTCTAAATAATGTTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
36242 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* *
36307 ATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
36372 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
*
36437 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATAATTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
36502 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAA-TTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
36566 TCTAATGATTTATTTTTTACGTTACGATATATTATTA
391 TCTAATGATTTATTTTTTACGTTACGATATATTATTA
36603 TTAAATTAAAAATTCTAAAT-ATATTTTATAAAATATCAAATAATCAAATAA-TTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
36666 TAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
36731 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTAAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
*
36796 GGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
*
36861 AGGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
*
36926 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
36991 TCTAATGATTTATTTTTTACGTTACGATATA-TATTA
391 TCTAATGATTTATTTTTTACGTTACGATATATTATTA
* *
37027 TTAAATTAAAAATTCTAAATATTATTTTAT-AAATATCAAATAATCAAATAATTTTTTGTGTAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
37091 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
37156 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
37221 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
*
37286 AGGTAGTGGTTATATTGTAAAGTGCCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
*
37351 GAAAACATTAATTTAAGGTTAT-ATTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
37415 TCTAATGATTTA-TTTTTACGTTACGATATATATTATTA
391 TCTAATGATTTATTTTTTACGTTACG--ATATATTATTA
37453 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
37518 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
*
37583 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
130 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
37648 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
* *
37713 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATAATTTTTTCACTGC
260 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
37778 GGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
325 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
37843 GTCTAATGA--T-TTTTTTACGTTACGATATA-TATTA
390 GTCTAATGATTTATTTTTTACGTTACGATATATTATTA
37877 TTAAATTAAAAATTCTAAATAATATTTTAT-AAATATCAAATAATCAAATAA-TTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
37940 TAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
38004 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTAAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
*
38069 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
*
38134 AGGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATAC-TTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
* *
38198 GAAAACATTATTTTAAGGTTATC-TTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
38262 TCTAATGATTTATTTTTTACGTTACGATATATTATTA
391 TCTAATGATTTATTTTTTACGTTACGATATATTATTA
*
38299 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
38364 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* *
38429 ATTAAATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
38494 TAATGTAATA
Statistics
Matches: 2247, Mismatches: 49, Indels: 43
0.96 0.02 0.02
Matches are distributed among these distances:
418 48 0.02
419 32 0.01
420 195 0.09
421 19 0.01
422 92 0.04
423 55 0.02
424 502 0.22
425 462 0.21
426 105 0.05
427 132 0.06
428 436 0.19
429 169 0.08
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (427 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATGATTTATTTTTTACGTTACGATATATTATTA
Found at i:37259 original size:23 final size:23
Alignment explanation
Indices: 37228--37300 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
37218 ATAGGTAAAA
*
37228 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
37251 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
37274 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
37297 ATAT
1 ATAT
37301 TGTAAAGTGC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:37687 original size:23 final size:23
Alignment explanation
Indices: 37656--37728 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
37646 ATAGGTAAAA
*
37656 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
37679 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
37702 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
37725 ATAT
1 ATAT
37729 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:37751 original size:853 final size:851
Alignment explanation
Indices: 35751--38493 Score: 5028
Period size: 853 Copynumber: 3.2 Consensus size: 851
35741 GTTAATGTTG
35751 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAA-AATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
35815 TGAAATTATTAAATT-A-ATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
*
35878 AATCACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
130 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
35943 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
36008 TAGGTAGTGGTTATATTGT-AAGTGCCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
260 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
36072 GGAAAACATTAATTTAAGGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
325 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
*
36137 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATGT
390 GTCTAATGATTTATTTTTTACGTTACG--ATATA-TATTATTAAATTAAAAATTCTAAATAATAT
36202 TTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAG
452 TTTAT-AAATATCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAG
36267 GTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATC
516 GTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATC
* *
36332 GATCCTTTTTATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAG
581 GATCATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAG
36397 CGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGT
646 CGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGT
* *
36462 CTATCCTTTTTATAAAAGTGTCCATAATTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTT
711 CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTAT-AT
36527 TTGAGTGAGTTTTAAGATATTAA-TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC
775 TTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTAC
36591 GATATATTATTA
840 GATATATTATTA
36603 TTAAATTAAAAATTCTAAAT-ATATTTTATAAAATATCAAATAATCAAATAA-TTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
36666 TAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
*
36731 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTAAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
*
36796 GGTAAAAATATGATGTAATAAGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
*
36861 AGGTAGTGGTTATATTGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
261 AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
*
36926 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCG
326 GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
*
36991 TCTAATGATTTATTTTTTACGTTACGATATATATTATTAAATTAAAAATTCTAAATATTATTTTA
391 TCTAATGATTTATTTTTTACGTTACGATATATATTATTAAATTAAAAATTCTAAATAATATTTTA
*
37056 TAAATATCAAATAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGA
456 TAAATATCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGA
37121 AAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCA
521 AAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCA
37186 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
586 TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
*
37251 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGCCTATC
651 ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATC
37316 CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATATTTGAGT
716 CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATATTTGAGT
37381 GAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGATATA
781 GAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG--ATA
37445 TATTATTA
844 TATTATTA
37453 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
37518 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATA
*
37583 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
130 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
37648 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
* *
37713 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATAATTTTTTCACTGC
260 TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
*
37778 GGAAAATATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
325 GGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
37843 GTCTAATGA--T-TTTTTTACGTTACGATATATATTATTAAATTAAAAATTCTAAATAATATTTT
390 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTAAATTAAAAATTCTAAATAATATTTT
*
37905 ATAAATATCAAATAATCAAATAA-TTTTTGTGCAAATAAAATTATTAAATTAATATTGTAGGTGG
455 ATAAATATCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGG
37969 AAAACATGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATC
520 AAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATC
*
38033 ATTTTTATAAAAAGTATGGACACTTTAAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT
585 ATTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT
*
38098 TATATAATGTAATAAGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTAT
650 TATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTAT
* * *
38163 CATTTTTATAAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTATTTTAAGGTTATCTTTGAG
715 CCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATATTTGAG
*
38227 TGAGTTTTAAGATTTTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
780 TGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATAT
38292 ATTATTA
845 ATTATTA
*
38299 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
*
38364 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTGAAACATAA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
* *
38429 ATTAAATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
38494 TAATGTAATA
Statistics
Matches: 1842, Mismatches: 38, Indels: 29
0.96 0.02 0.02
Matches are distributed among these distances:
845 82 0.04
846 121 0.07
847 85 0.05
848 245 0.13
849 396 0.21
850 138 0.07
851 83 0.05
852 252 0.14
853 440 0.24
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (851 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAA
ATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
AGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTG
GAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCG
TCTAATGATTTATTTTTTACGTTACGATATATATTATTAAATTAAAAATTCTAAATAATATTTTA
TAAATATCAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGA
AAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCA
TTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT
ATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATC
CTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATATTTGAGT
GAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATA
TTATTA
Found at i:38107 original size:23 final size:23
Alignment explanation
Indices: 38076--38148 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
38066 ATAGGTAAAA
*
38076 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
38099 ATATAATGTAATAAGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
38122 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
38145 ATAT
1 ATAT
38149 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:40725 original size:13 final size:13
Alignment explanation
Indices: 40707--40737 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
40697 TCCTTTTTGT
40707 TTGCTATGTAGTA
1 TTGCTATGTAGTA
40720 TTGCTATGTAGTA
1 TTGCTATGTAGTA
40733 TTGCT
1 TTGCT
40738 TTTTTCCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.10, G:0.23, T:0.48
Consensus pattern (13 bp):
TTGCTATGTAGTA
Found at i:41421 original size:37 final size:35
Alignment explanation
Indices: 41341--41630 Score: 226
Period size: 37 Copynumber: 7.9 Consensus size: 35
41331 ACTATATATA
* * *
41341 ATATATATATGTTTT-TAAAATTGTTTTTGAAATT
1 ATATATATATGTTTTCAAAAATTGTTTTTAAAACT
41375 ATATAATATATGTTTTCAAAAATTGTTTTTCAAAACT
1 ATAT-ATATATGTTTTCAAAAATTGTTTTT-AAAACT
* ** *
41412 ATAATATATATATTTTCAAATTTTG-TTTTAAAATT
1 AT-ATATATATGTTTTCAAAAATTGTTTTTAAAACT
* *
41447 ATATAATATATGTTTTCAAAAATTATTTTTTTAAACT
1 ATAT-ATATATGTTTTCAAAAATT-GTTTTTAAAACT
* * * *
41484 ATATATTATACGTTTTAAAAAATAGATTTTCAAAACTAT
1 ATATA-TATATGTTTTCAAAAATTG-TTTTTAAAAC--T
* *
41523 ATATAGTATATATATGTTCAAAAATTGTTTTTAAAATT
1 ATATA-TATATGT-T-TTCAAAAATTGTTTTTAAAACT
* * *
41561 ATATAATATATGCTTTCAAAAAATTGTGTTCTCAAACT
1 ATAT-ATATATGTTTTC-AAAAATTGT-TTTTAAAACT
* *
41599 -TGATATTATACGTTTTCAAAAATTATTTTTAA
1 AT-ATA-TATATGTTTTCAAAAATTGTTTTTAA
41631 CCGATTTTTA
Statistics
Matches: 202, Mismatches: 36, Indels: 34
0.74 0.13 0.12
Matches are distributed among these distances:
34 6 0.03
35 34 0.17
36 24 0.12
37 78 0.39
38 30 0.15
39 12 0.06
40 9 0.04
41 9 0.04
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.48
Consensus pattern (35 bp):
ATATATATATGTTTTCAAAAATTGTTTTTAAAACT
Found at i:41460 original size:72 final size:71
Alignment explanation
Indices: 41341--41581 Score: 231
Period size: 72 Copynumber: 3.3 Consensus size: 71
41331 ACTATATATA
* * *
41341 ATATATATAT-GTTTTTAAAATTGTTTTTGAAATTATATAATATATGTTTTCAAAAATTGTTTTT
1 ATATATATATAGTTTTCAAAATTGATTTTAAAATTATATAATATATGTTTTCAAAAATTGTTTTT
41405 CAAAACT
66 -AAAACT
* *
41412 ATAATATATATA-TTTTCAAATTTTG-TTTTAAAATTATATAATATATGTTTTCAAAAATTATTT
1 AT-ATATATATAGTTTTCAAA-ATTGATTTTAAAATTATATAATATATGTTTTCAAAAATT-GTT
*
41475 TTTTAAACT
63 TTTAAAACT
* * * *
41484 ATATAT-TATACGTTTTAAAAAATAGATTTTCAAAACTATATATAGTATATATATGTTCAAAAAT
1 ATATATATATA-GTTTT-CAAAATTGATTTT-AAAA-T-TATATA--ATATATGTTTTCAAAAAT
*
41548 TGTTTTTAAAATT
59 TGTTTTTAAAACT
*
41561 ATATA-ATATATGCTTTCAAAA
1 ATATATATATA-GTTTTCAAAA
41582 AATTGTGTTC
Statistics
Matches: 140, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
70 4 0.03
71 6 0.04
72 61 0.44
73 15 0.11
74 4 0.03
75 1 0.01
76 10 0.07
77 22 0.16
78 17 0.12
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.48
Consensus pattern (71 bp):
ATATATATATAGTTTTCAAAATTGATTTTAAAATTATATAATATATGTTTTCAAAAATTGTTTTT
AAAACT
Found at i:42221 original size:2 final size:2
Alignment explanation
Indices: 42214--42244 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42204 GATATTGTTC
42214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42245 AGCATTTAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48310 original size:36 final size:36
Alignment explanation
Indices: 48236--48310 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
48226 TTTTTATATT
*
48236 TTTAATTTTGTAAAAAATATATATAAATATTATGAA
1 TTTAATTTTGTAAAAAATATATATAAATATTATCAA
* *
48272 TTTAATTTTTTAAAGAAA-ATATAT-AATATTTTACAA
1 TTTAATTTTGTAAA-AAATATATATAAATATTAT-CAA
48308 TTT
1 TTT
48311 GTAATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 7 0.21
36 24 0.71
37 3 0.09
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAATATATATAAATATTATCAA
Found at i:56415 original size:44 final size:43
Alignment explanation
Indices: 56350--56490 Score: 140
Period size: 43 Copynumber: 3.2 Consensus size: 43
56340 AATCCAAGGC
* *
56350 TTTGATTATTGGGTTGTCAAAAGTAAAATCAAAGGATTAGTTCCT
1 TTTGATTATT-GGTTGCCAAAA-TAAAATCAAAGGATTAATTCCT
* *
56395 TTTGA-TATTGTGTTGCCAAAAAAAAATCAAAGGATTAATTACT
1 TTTGATTATTG-GTTGCCAAAATAAAATCAAAGGATTAATTCCT
* * * *
56438 TTCGATTATTGGATTACAAAAATTAAAAATAAAAGGATTAATTCCT
1 TTTGATTATTGG-TTGCCAAAA-T-AAAATCAAAGGATTAATTCCT
*
56484 TTAGATT
1 TTTGATT
56491 TCTGTTTGTT
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
43 25 0.31
44 25 0.31
45 5 0.06
46 25 0.31
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (43 bp):
TTTGATTATTGGTTGCCAAAATAAAATCAAAGGATTAATTCCT
Found at i:56426 original size:43 final size:44
Alignment explanation
Indices: 56350--56490 Score: 144
Period size: 46 Copynumber: 3.2 Consensus size: 44
56340 AATCCAAGGC
* *
56350 TTTGATTATTGGGTTGTCAAAAGT-AAAATCAAAGGATTAGTTCCT
1 TTTGATTATT-GGTTGCCAAAA-TAAAAATCAAAGGATTAATTCCT
*
56395 TTTGA-TATTGTGTTGCCAAAA-AAAAATCAAAGGATTAATTACT
1 TTTGATTATTG-GTTGCCAAAATAAAAATCAAAGGATTAATTCCT
* * * *
56438 TTCGATTATTGGATTACAAAAATTAAAAATAAAAGGATTAATTCCT
1 TTTGATTATTGG-TTGCCAAAA-TAAAAATCAAAGGATTAATTCCT
*
56484 TTAGATT
1 TTTGATT
56491 TCTGTTTGTT
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
43 25 0.31
44 25 0.31
45 5 0.06
46 26 0.32
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (44 bp):
TTTGATTATTGGTTGCCAAAATAAAAATCAAAGGATTAATTCCT
Done.