Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001970.1 Hibiscus syriacus cultivar Beakdansim tig00003980_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: 88513
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Found at i:3529 original size:22 final size:21
Alignment explanation
Indices: 3485--3530 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
3475 CATCGATGTG
* *
3485 CCACATAATTGTCCCGAATGA
1 CCACATAATTGTCCCAAAGGA
*
3506 CCACATAATTTGTCCTAAAGGA
1 CCACATAA-TTGTCCCAAAGGA
3528 CCA
1 CCA
3531 AATAGAACCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (21 bp):
CCACATAATTGTCCCAAAGGA
Found at i:10409 original size:20 final size:20
Alignment explanation
Indices: 10380--10417 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
10370 ATCGATGCTC
*
10380 AGGGTGAGTATCAATACTCA
1 AGGGTCAGTATCAATACTCA
*
10400 AGGGTCAGTATCGATACT
1 AGGGTCAGTATCAATACT
10418 GCTTGCACAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (20 bp):
AGGGTCAGTATCAATACTCA
Found at i:15538 original size:2 final size:2
Alignment explanation
Indices: 15531--15556 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15521 TCTATTAATT
15531 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
15557 AGATATTTAT
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:15881 original size:132 final size:133
Alignment explanation
Indices: 15542--15905 Score: 454
Period size: 134 Copynumber: 2.7 Consensus size: 133
15532 ATATATATAT
* * * *
15542 ATATATATATATA-TAAGATATTTATTTATTTAGAAATATTAGAAAAT-GACT-TCTAGGTACTT
1 ATATATATA-AAAGTAAGATA-TTATTTATTTAAAAATATTAGAAAATAGA-TATCCAGTTACTT
* * * * *
15604 TAAGACAGTTCTTTTCTCAATATTAAAAAATAAATAAATATTAATAAAACATTAATCTAAAATAA
63 TAAGACTG-CCCTTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTAATCTAAAATAA
*
15669 TTTAAAA
127 TATAAAA
*
15676 ATATATATAAAAGTAAGATATTTATTTATTTAAAAATATTTA-AAAATAGACATCCAGTTACTTT
1 ATATATATAAAAGTAAGATA-TTATTTATTTAAAAATA-TTAGAAAATAGATATCCAGTTACTTT
*
15740 AAGACTGCCCTTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTTATCTAAAAATAAT
64 AAGACTGCCCTTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTAATCT-AAAATAAT
* *
15805 ATATAT
128 ATAAAA
* * *
15811 ATAATTTATAAAAGTAA-A-A-TATTTATTTAAAAATATCAGAAAATAGATATCCAGTTGCTTTA
1 AT-ATATATAAAAGTAAGATATTATTTATTTAAAAATATTAGAAAATAGATATCCAGTTACTTTA
15873 AGACTGCCCTTTCTTAATATTGAAAAATAAATA
65 AGACTGCCCTTTCTTAATATTGAAAAATAAATA
15906 TTAAAACATG
Statistics
Matches: 205, Mismatches: 18, Indels: 16
0.86 0.08 0.07
Matches are distributed among these distances:
131 2 0.01
132 70 0.34
133 2 0.01
134 83 0.40
135 35 0.17
136 13 0.06
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (133 bp):
ATATATATAAAAGTAAGATATTATTTATTTAAAAATATTAGAAAATAGATATCCAGTTACTTTAA
GACTGCCCTTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTAATCTAAAATAATATA
AAA
Found at i:15925 original size:122 final size:129
Alignment explanation
Indices: 15564--15950 Score: 377
Period size: 134 Copynumber: 3.0 Consensus size: 129
15554 ATAAGATATT
* * * * * * * *
15564 TATTTATTTAGAAATATT-AGAAAAT-GACTTCTAGGTACTTTAAGACAGTTCTTTTCTCAATAT
1 TATTTATTTAAAAATATTCA-AAAATAGACATCCAGTTACTTTAAGACTG-CCCTTTCTTAATAT
* * * * *
15627 TAAAAAATAAATAAATATTAATAAAACATTAATCT-AAAATAATTTAAAAAT-ATATATAAAAGT
64 T--GAAATAAATAAATATT-ATAAAACATTGATCTAAAAATAATATAAAAGTAATTTATAAAAGT
15690 AAGATA
126 AA-A-A
*
15696 TTTATTTATTTAAAAATATTTAAAAATAGACATCCAGTTACTTTAAGACTGCCCTTTCTTAATAT
1 --TATTTATTTAAAAATATTCAAAAATAGACATCCAGTTACTTTAAGACTGCCCTTTCTTAATAT
* *
15761 TGAAAAATAAATAAATATTAATAAAACATTTATCTAAAAATAATATATATA-TAATTTATAAAAG
64 TG--AAATAAATAAATATT-ATAAAACATTGATCTAAAAATAATATA-AAAGTAATTTATAAAAG
15825 TAAAA
125 TAAAA
* *
15830 TATTTATTTAAAAATA-TCAGAAAATAGATATCCAGTTGCTTTAAGACTGCCCTTTCTTAATATT
1 TATTTATTTAAAAATATTCA-AAAATAGACATCCAGTTACTTTAAGACTGCCCTTTCTTAATATT
* *
15894 G-AA-AAATAAATA-T-TAAAACA-TGAT-T-AAAATAATTTAAAAGTAATTTATAAAATTAAA
65 GAAATAAATAAATATTATAAAACATTGATCTAAAAATAATATAAAAGTAATTTATAAAAGTAAA
15951 TTTATAAATA
Statistics
Matches: 224, Mismatches: 20, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
121 2 0.01
122 26 0.12
123 1 0.00
124 3 0.01
125 7 0.03
127 1 0.00
128 9 0.04
129 2 0.01
131 2 0.01
132 59 0.26
134 65 0.29
135 32 0.14
136 15 0.07
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (129 bp):
TATTTATTTAAAAATATTCAAAAATAGACATCCAGTTACTTTAAGACTGCCCTTTCTTAATATTG
AAATAAATAAATATTATAAAACATTGATCTAAAAATAATATAAAAGTAATTTATAAAAGTAAAA
Found at i:16264 original size:2 final size:2
Alignment explanation
Indices: 16257--16289 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
16247 TTTATCCTAA
*
16257 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16290 AGGACTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:17394 original size:3 final size:3
Alignment explanation
Indices: 17386--17489 Score: 95
Period size: 3 Copynumber: 35.0 Consensus size: 3
17376 TTGTAATATG
* * * * * *
17386 TAA TAA TAA TATT TAT TAT TAA TAA TAA TAT TAA TAA TAC TTA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
17432 TAA TTA TAA CAA TAA TAA TAA TAA TAA TAA TCA -AA TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
17478 TAA TAA AAA TAA
1 TAA TAA TAA TAA
17490 AAAAACAAAA
Statistics
Matches: 82, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
2 3 0.04
3 77 0.94
4 2 0.02
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:17499 original size:28 final size:28
Alignment explanation
Indices: 17442--17500 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
17432 TAATTATAAC
* ** *
17442 AATAATAATAATAATAATAATCAAATAA
1 AATAATAATAATAAAAATAAAAAAACAA
17470 AATAATAATAATAAAAATAAAAAAACAA
1 AATAATAATAATAAAAATAAAAAAACAA
17498 AAT
1 AAT
17501 GAAAAAACTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (28 bp):
AATAATAATAATAAAAATAAAAAAACAA
Found at i:17505 original size:20 final size:20
Alignment explanation
Indices: 17454--17506 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
17444 TAATAATAAT
* *
17454 AATAATAATCAAATAAAATAAT
1 AATAATAA--AAATAAAAAAAC
17476 AATAATAAAAATAAAAAAAC
1 AATAATAAAAATAAAAAAAC
17496 AA-AATGAAAAA
1 AATAAT-AAAAA
17507 ACTGGTGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 17 0.61
22 8 0.29
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (20 bp):
AATAATAAAAATAAAAAAAC
Found at i:18268 original size:107 final size:107
Alignment explanation
Indices: 17946--18442 Score: 581
Period size: 107 Copynumber: 4.5 Consensus size: 107
17936 TGATAGTCAT
* *
17946 GCAAAA-GTTGAACAAGCTCTTCTCATTATGAACTTATTCTTCA-TCTTCAGATAAGTTCTTCTC
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAAC---TTCTTCATTCTTCAGATGAGTTC-T-T-
* ** *
18009 ATTATGAACTTTCTCTGGAAAAGTTGATCCATGGAGTGATGAATTCAA
60 ATTATGAACTTTTTCTGGAAAAGTTGATCCATCTAGTGATGAATTCGA
* * * *
18057 ACAAAAGGTTTGAACAAATTCTTCTTC-TTATAAATTTCTTCTTCCTTCTTCAGATGAGTTTTTC
1 GCAAAAGG-TTGAACAAGTTCTTC-TCATTATGAA---CTTCTTCATTCTTCAGATGAG---TTC
* * ** * *
18121 TCATTATGAACTCTACCT-GACAATGTTGATCCATCAAGTGATGAATTCGA
58 TTATTATGAACTTTTTCTGGA-AAAGTTGATCCATCTAGTGATGAATTCGA
*
18171 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTACTTCATTCTTCAGATGAGTTCTTATTATG
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCATTCTTCAGATGAGTTCTTATTATG
*
18236 AACTTTTTCTGGAAAAGTTGATCCATCTAGTGATGAATTTGA
66 AACTTTTTCTGGAAAAGTTGATCCATCTAGTGATGAATTCGA
*
18278 GCAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCATTCTTCAGATGAGTTCTTATTATG
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCATTCTTCAGATGAGTTCTTATTATG
* *
18343 AACTTTTTCTGGAAAAGTTGAT-TATCTAGTGATGAATTTGA
66 AACTTTTTCTGGAAAAGTTGATCCATCTAGTGATGAATTCGA
* * *
18384 ACAAAAGGTTGAAAAAGTTCTTCTCATTATAAACTTCTTCTTCATTCTTCAGATGAGTT
1 GCAAAAGGTTGAACAAGTTCTTCTCATTATGAA---CTTCTTCATTCTTCAGATGAGTT
18443 TACCACTTTG
Statistics
Matches: 337, Mismatches: 33, Indels: 34
0.83 0.08 0.08
Matches are distributed among these distances:
106 47 0.14
107 128 0.38
108 2 0.01
109 23 0.07
110 19 0.06
111 5 0.01
112 3 0.01
113 47 0.14
114 58 0.17
116 2 0.01
117 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (107 bp):
GCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCATTCTTCAGATGAGTTCTTATTATG
AACTTTTTCTGGAAAAGTTGATCCATCTAGTGATGAATTCGA
Found at i:20459 original size:17 final size:18
Alignment explanation
Indices: 20426--20459 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20416 TGATTATACC
20426 ATGAAAAGCCATCCATGA
1 ATGAAAAGCCATCCATGA
*
20444 ATGAAAA-CCATGCATG
1 ATGAAAAGCCATCCATG
20460 TCCTGTAGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (18 bp):
ATGAAAAGCCATCCATGA
Found at i:27824 original size:138 final size:138
Alignment explanation
Indices: 27489--27857 Score: 448
Period size: 138 Copynumber: 2.8 Consensus size: 138
27479 TCTATTAATT
* * * *
27489 TATATATATATATAT-AAA-TAAG--A-TATTTATTTAGAAATATCAGAAAA-GGACTTCTAGGT
1 TATATATATATATATAAAAGTAAGATATTATTTATTTAAAAATATCAGAAAATGGACATCCAGTT
* *
27548 GTTTTAAGACAT-CTCTTTTCTTAATATT-----A-AAA-AAATATTAATAAAACATTTATCTAA
66 GCTTTAAGAC-TGC-CCTTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTTATCTAA
27605 AATAATTAAA
129 AATAATTAAA
* **
27615 TATATATATATATATATAAGTAAGATATTTATTTATTTAAAAATATTTGAAAATGGACATCCAGT
1 TATATATATATATATAAAAGTAAGATA-TTATTTATTTAAAAATATCAGAAAATGGACATCCAGT
27680 TGCTTTAAGACTGCCCTTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTTATCTAAA
65 TGCTTTAAGACTGCCCTTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTTATCT-AA
*
27745 AATAATATATA
129 AATAAT-TAAA
* *
27756 TATATATATAATTTATAAAAGTAA-A-A-TATTTATTTAAAAATATCAGAAAATGGATATCCAGT
1 TATATATAT-ATATATAAAAGTAAGATATTATTTATTTAAAAATATCAGAAAATGGACATCCAGT
*
27818 TGCTTTAAGACTGTCCTTTCTTAATATTGAAAAATAAATA
65 TGCTTTAAGACTGCCCTTTCTTAATATTGAAAAATAAATA
27858 TTAAAATATG
Statistics
Matches: 209, Mismatches: 16, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
126 15 0.07
127 2 0.01
128 4 0.02
130 1 0.00
132 35 0.17
133 19 0.09
137 1 0.00
138 75 0.36
139 23 0.11
140 9 0.04
141 13 0.06
142 12 0.06
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.39
Consensus pattern (138 bp):
TATATATATATATATAAAAGTAAGATATTATTTATTTAAAAATATCAGAAAATGGACATCCAGTT
GCTTTAAGACTGCCCTTTCTTAATATTGAAAAATAAATAAATATTAATAAAACATTTATCTAAAA
TAATTAAA
Found at i:29375 original size:3 final size:3
Alignment explanation
Indices: 29367--29480 Score: 140
Period size: 3 Copynumber: 38.0 Consensus size: 3
29357 CTATAATATG
* * * * * *
29367 TAA TAA TAA TATT TAT TAA TAA TAA TAA TTA TTA TTA TTA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
29413 TTA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
29460 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
29481 AACAAAATAA
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
2 2 0.02
3 97 0.96
4 2 0.02
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:29990 original size:19 final size:20
Alignment explanation
Indices: 29966--30015 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
29956 AGCAATTTTT
* *
29966 AGTATCGATGCTC-AGGGTG
1 AGTATCGATACTCAAGGGTC
*
29985 AGTATCGATATTCAAGGGTC
1 AGTATCGATACTCAAGGGTC
30005 AGTATCGATAC
1 AGTATCGATAC
30016 CATAGTTGAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (20 bp):
AGTATCGATACTCAAGGGTC
Found at i:42289 original size:19 final size:20
Alignment explanation
Indices: 42265--42302 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
42255 TTTTAAGTAT
*
42265 TTTAATTAGGATTT-TCTTC
1 TTTAATTAAGATTTATCTTC
42284 TTTAATTAAGATTTATCTT
1 TTTAATTAAGATTTATCTT
42303 TACCTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTAATTAAGATTTATCTTC
Found at i:51956 original size:2 final size:2
Alignment explanation
Indices: 51951--51983 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
51941 TCTCTCTCTC
51951 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51984 AATTTAGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57449 original size:8 final size:8
Alignment explanation
Indices: 57438--60020 Score: 2434
Period size: 8 Copynumber: 322.9 Consensus size: 8
57428 CACACACACT
57438 TACATACA
1 TACATACA
*
57446 TACACACA
1 TACATACA
*
57454 TATATACA
1 TACATACA
57462 TACATACA
1 TACATACA
57470 TACATACA
1 TACATACA
57478 TACATACA
1 TACATACA
57486 TACATACA
1 TACATACA
57494 TACATACA
1 TACATACA
57502 TACATACA
1 TACATACA
57510 TACATACA
1 TACATACA
57518 TACATACA
1 TACATACA
57526 TACATACA
1 TACATACA
57534 TACATACA
1 TACATACA
* * *
57542 CACACACT
1 TACATACA
57550 TACATACA
1 TACATACA
*
57558 TACACACA
1 TACATACA
*
57566 TATATACA
1 TACATACA
57574 TACATACA
1 TACATACA
57582 TACATACA
1 TACATACA
57590 TACATACA
1 TACATACA
57598 TACATACA
1 TACATACA
57606 TACATACA
1 TACATACA
57614 TACATACA
1 TACATACA
*
57622 TATATACA
1 TACATACA
57630 TACATACA
1 TACATACA
57638 TACATACA
1 TACATACA
57646 TACATACA
1 TACATACA
57654 TACATACA
1 TACATACA
57662 TACATACA
1 TACATACA
57670 TACATACA
1 TACATACA
57678 TACATACA
1 TACATACA
57686 TACATACA
1 TACATACA
57694 TACATACA
1 TACATACA
57702 TACATACA
1 TACATACA
57710 TACATACA
1 TACATACA
57718 TACATACA
1 TACATACA
57726 TACATACA
1 TACATACA
57734 TACATACA
1 TACATACA
57742 TACATACA
1 TACATACA
57750 TACATACA
1 TACATACA
57758 TACATACA
1 TACATACA
57766 TACATACA
1 TACATACA
57774 TACATACA
1 TACATACA
57782 TACATACA
1 TACATACA
57790 TACATACA
1 TACATACA
57798 TACATACA
1 TACATACA
57806 TACATACA
1 TACATACA
57814 TACATACA
1 TACATACA
57822 TACATACA
1 TACATACA
57830 TACATACA
1 TACATACA
57838 TACATACA
1 TACATACA
57846 TACATACA
1 TACATACA
57854 TACATACA
1 TACATACA
57862 TACATACA
1 TACATACA
57870 TACATACA
1 TACATACA
57878 TACATACA
1 TACATACA
57886 TACATACA
1 TACATACA
57894 TACATACA
1 TACATACA
57902 TACATACA
1 TACATACA
57910 TACATACA
1 TACATACA
57918 TACATACA
1 TACATACA
57926 TACATACA
1 TACATACA
57934 TACATACA
1 TACATACA
57942 TACATACA
1 TACATACA
57950 TACATACA
1 TACATACA
57958 TACATACA
1 TACATACA
57966 TACATACA
1 TACATACA
57974 TACATACA
1 TACATACA
57982 TACATACA
1 TACATACA
57990 TACATACA
1 TACATACA
57998 TACATACA
1 TACATACA
58006 TACATACA
1 TACATACA
58014 TACATACA
1 TACATACA
58022 TACATACA
1 TACATACA
58030 TACATACA
1 TACATACA
58038 TACATACA
1 TACATACA
58046 TACATACA
1 TACATACA
58054 TACATACA
1 TACATACA
58062 TACATACA
1 TACATACA
58070 TACATACA
1 TACATACA
58078 TACATACA
1 TACATACA
58086 TACATACA
1 TACATACA
58094 TACATACA
1 TACATACA
58102 TACATACA
1 TACATACA
58110 TACATACA
1 TACATACA
58118 TACATACA
1 TACATACA
58126 TACATACA
1 TACATACA
58134 TACATACA
1 TACATACA
58142 TACATACA
1 TACATACA
58150 TACATACA
1 TACATACA
58158 TACATACA
1 TACATACA
58166 TACATACA
1 TACATACA
58174 TACATACA
1 TACATACA
*
58182 TACATAAA
1 TACATACA
58190 TACATACA
1 TACATACA
58198 TACATACA
1 TACATACA
58206 TACATACA
1 TACATACA
58214 TACATACA
1 TACATACA
58222 TACATACA
1 TACATACA
*
58230 TATATACA
1 TACATACA
* *
58238 TATATACC
1 TACATACA
58246 TACATACA
1 TACATACA
*
58254 AACATACA
1 TACATACA
58262 TACATACA
1 TACATACA
58270 TACATACA
1 TACATACA
58278 TACATACA
1 TACATACA
*
58286 TACGTACA
1 TACATACA
58294 TACATACA
1 TACATACA
58302 TACATACA
1 TACATACA
*
58310 TACGTACA
1 TACATACA
*
58318 TACGTACA
1 TACATACA
* *
58326 TACGTATA
1 TACATACA
** *
58334 TATGTACC
1 TACATACA
**
58342 TACGCACA
1 TACATACA
*
58350 TACGTACA
1 TACATACA
**
58358 TACGCACA
1 TACATACA
* *
58366 TACGTACC
1 TACATACA
**
58374 TACGCACA
1 TACATACA
*
58382 TACGTACA
1 TACATACA
* *
58390 TACGTATA
1 TACATACA
** *
58398 TATGTACC
1 TACATACA
**
58406 TACGCACA
1 TACATACA
*
58414 TACGTACA
1 TACATACA
**
58422 TACGCACA
1 TACATACA
* *
58430 TACGTACC
1 TACATACA
**
58438 TACGCACA
1 TACATACA
*
58446 TACGTACA
1 TACATACA
* *
58454 TACGTACT
1 TACATACA
**
58462 TATGTATC-
1 TACATA-CA
** *
58470 TATGTATA
1 TACATACA
*
58478 TACATATA
1 TACATACA
* *
58486 TACGTATA
1 TACATACA
*
58494 TACGTACA
1 TACATACA
**
58502 TACGCACA
1 TACATACA
*
58510 TACGTACA
1 TACATACA
**
58518 TACGCACA
1 TACATACA
** *
58526 TATGTACC
1 TACATACA
**
58534 TACGCACA
1 TACATACA
*
58542 TACGTACA
1 TACATACA
* *
58550 TACGTATA
1 TACATACA
**
58558 TATGTACA
1 TACATACA
* * *
58566 TTCGTATA
1 TACATACA
*
58574 TACGTACA
1 TACATACA
* *
58582 TACGTACC
1 TACATACA
*
58590 TACGTACA
1 TACATACA
* *
58598 TACGTACC
1 TACATACA
*
58606 TACGTACA
1 TACATACA
* *
58614 TACGTACC
1 TACATACA
*
58622 TACGTACA
1 TACATACA
* *
58630 TACGTACC
1 TACATACA
*
58638 TACGTACA
1 TACATACA
*
58646 TACGTACA
1 TACATACA
*
58654 TACATACG
1 TACATACA
* *
58662 TACCTACG
1 TACATACA
*
58670 TACATATA
1 TACATACA
*
58678 TACGTACA
1 TACATACA
*
58686 TACGTACA
1 TACATACA
*
58694 TACATACG
1 TACATACA
*
58702 TACATACG
1 TACATACA
*
58710 TACATATA
1 TACATACA
*
58718 TACATACG
1 TACATACA
*
58726 TACATACG
1 TACATACA
*
58734 TACATATA
1 TACATACA
*
58742 TACATACG
1 TACATACA
*
58750 TACATACG
1 TACATACA
*
58758 TACATATA
1 TACATACA
*
58766 TACATACG
1 TACATACA
*
58774 TACATATA
1 TACATACA
*
58782 TACATACG
1 TACATACA
*
58790 TACATACG
1 TACATACA
*
58798 TACATATA
1 TACATACA
*
58806 TACATACC
1 TACATACA
* *
58814 TACACACG
1 TACATACA
58822 TACATACA
1 TACATACA
*
58830 TACATACG
1 TACATACA
58838 TACATACA
1 TACATACA
* *
58846 TACACACG
1 TACATACA
58854 TACATACA
1 TACATACA
**
58862 TATGTACA
1 TACATACA
58870 TACATACA
1 TACATACA
**
58878 TACGCACA
1 TACATACA
*
58886 TACGTACA
1 TACATACA
*
58894 TACGTACA
1 TACATACA
*
58902 TACATATA
1 TACATACA
*
58910 TACGTACA
1 TACATACA
**
58918 TACGCACA
1 TACATACA
* *
58926 TACGTACC
1 TACATACA
*
58934 TACGTACA
1 TACATACA
** *
58942 TATGTATA
1 TACATACA
* *
58950 TACGTACC
1 TACATACA
* *
58958 TACGTACC
1 TACATACA
* *
58966 TACGTACT
1 TACATACA
*
58974 TACGTACA
1 TACATACA
*
58982 TACGTACA
1 TACATACA
** *
58990 TATGTACT
1 TACATACA
*
58998 TACGTACA
1 TACATACA
** *
59006 TATGTATA
1 TACATACA
* *
59014 TACGTACC
1 TACATACA
*
59022 TACGTACA
1 TACATACA
*
59030 TACGTACA
1 TACATACA
*
59038 TACGTACA
1 TACATACA
*
59046 TACATACG
1 TACATACA
* *
59054 TATATACG
1 TACATACA
*
59062 TACATATA
1 TACATACA
*
59070 TACATATA
1 TACATACA
*
59078 TACGTACA
1 TACATACA
*
59086 TACGTACA
1 TACATACA
*
59094 TACATACG
1 TACATACA
59102 TACATACA
1 TACATACA
*
59110 TACGTACA
1 TACATACA
59118 TACATACA
1 TACATACA
*
59126 TATATACA
1 TACATACA
*
59134 TACGTACA
1 TACATACA
*
59142 TACGTACA
1 TACATACA
*
59150 TATATACA
1 TACATACA
*
59158 TACCTACA
1 TACATACA
* *
59166 CACGTACA
1 TACATACA
59174 TACATACA
1 TACATACA
* *
59182 CACGTACA
1 TACATACA
59190 TACATACA
1 TACATACA
* *
59198 CACGTACA
1 TACATACA
*
59206 TACATACG
1 TACATACA
59214 TACATACA
1 TACATACA
* *
59222 TATATACG
1 TACATACA
* *
59230 CACATACG
1 TACATACA
*
59238 TACATACG
1 TACATACA
*
59246 TACATACG
1 TACATACA
*
59254 TACATACG
1 TACATACA
* *
59262 CACATACG
1 TACATACA
* *
59270 CACATACG
1 TACATACA
*
59278 TACATACG
1 TACATACA
* *
59286 CACATACG
1 TACATACA
*
59294 TACATACG
1 TACATACA
*
59302 TATATACA
1 TACATACA
* **
59310 TATATATG
1 TACATACA
*
59318 TACATACG
1 TACATACA
*
59326 TACATACG
1 TACATACA
* *
59334 TATATACG
1 TACATACA
*
59342 TACATACG
1 TACATACA
* *
59350 TATATACG
1 TACATACA
* *
59358 CACATACG
1 TACATACA
*
59366 TACCTACA
1 TACATACA
*
59374 TACATACG
1 TACATACA
* *
59382 TATATACG
1 TACATACA
*
59390 TACATACG
1 TACATACA
* *
59398 TATATACG
1 TACATACA
*
59406 TACATACG
1 TACATACA
*
59414 TACATACG
1 TACATACA
59422 TACATACA
1 TACATACA
*
59430 TATATACA
1 TACATACA
*
59438 TACATACG
1 TACATACA
*
59446 TACATACG
1 TACATACA
*
59454 TACATACG
1 TACATACA
* * *
59462 TTCTTACG
1 TACATACA
**
59470 TACATATG
1 TACATACA
* *
59478 TATATACG
1 TACATACA
* *
59486 TACCTACG
1 TACATACA
*
59494 TACATACG
1 TACATACA
*
59502 TACATACG
1 TACATACA
59510 TACATACA
1 TACATACA
*
59518 TACGTACA
1 TACATACA
59526 TA-AGTACA
1 TACA-TACA
*
59534 TATATACA
1 TACATACA
*
59542 TACGTACA
1 TACATACA
*
59550 TACGTACA
1 TACATACA
* *
59558 TATATACG
1 TACATACA
* *
59566 TATATACG
1 TACATACA
*
59574 TACATATA
1 TACATACA
*
59582 TACATACG
1 TACATACA
*
59590 TACATACG
1 TACATACA
*
59598 TACATATA
1 TACATACA
*
59606 TACATACC
1 TACATACA
* *
59614 TACACACG
1 TACATACA
59622 TACATACA
1 TACATACA
* *
59630 TACACACG
1 TACATACA
59638 TACATACA
1 TACATACA
* *
59646 TACACACG
1 TACATACA
59654 TACATACA
1 TACATACA
*
59662 TACGTACA
1 TACATACA
59670 TACATACA
1 TACATACA
* *
59678 TACGTATA
1 TACATACA
*
59686 TACGTACA
1 TACATACA
*
59694 TATATACA
1 TACATACA
*
59702 TACCTACA
1 TACATACA
* *
59710 CACGTACA
1 TACATACA
59718 TACATACA
1 TACATACA
* *
59726 CACGTACA
1 TACATACA
59734 TACATACA
1 TACATACA
* *
59742 CACGTACA
1 TACATACA
*
59750 TACATACG
1 TACATACA
*
59758 TACATACC
1 TACATACA
* *
59766 TACACACG
1 TACATACA
*
59774 TACATACG
1 TACATACA
*
59782 TACATATA
1 TACATACA
*
59790 TACATACC
1 TACATACA
* *
59798 TACACACG
1 TACATACA
* *
59806 TATATATA
1 TACATACA
* *
59814 TACACACG
1 TACATACA
59822 TACATACA
1 TACATACA
* *
59830 TACACACG
1 TACATACA
59838 TACATACA
1 TACATACA
* *
59846 TACGTACG
1 TACATACA
*
59854 TACATATA
1 TACATACA
*
59862 TACGTACA
1 TACATACA
*
59870 TACATGCA
1 TACATACA
* *
59878 TACGTGCA
1 TACATACA
59886 TACATACA
1 TACATACA
* *
59894 TACGTGCA
1 TACATACA
* *
59902 TATATACG
1 TACATACA
59910 TACATACA
1 TACATACA
* *
59918 TGCATACG
1 TACATACA
*
59926 TGCATACA
1 TACATACA
* *
59934 TGCATACG
1 TACATACA
*
59942 TGCATACA
1 TACATACA
* *
59950 TGCATACG
1 TACATACA
*
59958 TGCATACA
1 TACATACA
* *
59966 TGCATACG
1 TACATACA
*
59974 TGCATACA
1 TACATACA
* *
59982 TGCATACG
1 TACATACA
*
59990 TGCATACA
1 TACATACA
* *
59998 TGCATACG
1 TACATACA
*
60006 TGCATACA
1 TACATACA
*
60014 TGCATAC
1 TACATAC
60021 GTACGTACGT
Statistics
Matches: 2226, Mismatches: 345, Indels: 8
0.86 0.13 0.00
Matches are distributed among these distances:
8 2224 1.00
9 2 0.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (8 bp):
TACATACA
Found at i:57454 original size:12 final size:12
Alignment explanation
Indices: 57438--60020 Score: 2434
Period size: 12 Copynumber: 215.2 Consensus size: 12
57428 CACACACACT
57438 TACATACATACA
1 TACATACATACA
* *
57450 CACATATATACA
1 TACATACATACA
57462 TACATACATACA
1 TACATACATACA
57474 TACATACATACA
1 TACATACATACA
57486 TACATACATACA
1 TACATACATACA
57498 TACATACATACA
1 TACATACATACA
57510 TACATACATACA
1 TACATACATACA
57522 TACATACATACA
1 TACATACATACA
*
57534 TACATACACACA
1 TACATACATACA
* *
57546 CACTTACATACA
1 TACATACATACA
* *
57558 TACACACATATA
1 TACATACATACA
57570 TACATACATACA
1 TACATACATACA
57582 TACATACATACA
1 TACATACATACA
57594 TACATACATACA
1 TACATACATACA
57606 TACATACATACA
1 TACATACATACA
*
57618 TACATATATACA
1 TACATACATACA
57630 TACATACATACA
1 TACATACATACA
57642 TACATACATACA
1 TACATACATACA
57654 TACATACATACA
1 TACATACATACA
57666 TACATACATACA
1 TACATACATACA
57678 TACATACATACA
1 TACATACATACA
57690 TACATACATACA
1 TACATACATACA
57702 TACATACATACA
1 TACATACATACA
57714 TACATACATACA
1 TACATACATACA
57726 TACATACATACA
1 TACATACATACA
57738 TACATACATACA
1 TACATACATACA
57750 TACATACATACA
1 TACATACATACA
57762 TACATACATACA
1 TACATACATACA
57774 TACATACATACA
1 TACATACATACA
57786 TACATACATACA
1 TACATACATACA
57798 TACATACATACA
1 TACATACATACA
57810 TACATACATACA
1 TACATACATACA
57822 TACATACATACA
1 TACATACATACA
57834 TACATACATACA
1 TACATACATACA
57846 TACATACATACA
1 TACATACATACA
57858 TACATACATACA
1 TACATACATACA
57870 TACATACATACA
1 TACATACATACA
57882 TACATACATACA
1 TACATACATACA
57894 TACATACATACA
1 TACATACATACA
57906 TACATACATACA
1 TACATACATACA
57918 TACATACATACA
1 TACATACATACA
57930 TACATACATACA
1 TACATACATACA
57942 TACATACATACA
1 TACATACATACA
57954 TACATACATACA
1 TACATACATACA
57966 TACATACATACA
1 TACATACATACA
57978 TACATACATACA
1 TACATACATACA
57990 TACATACATACA
1 TACATACATACA
58002 TACATACATACA
1 TACATACATACA
58014 TACATACATACA
1 TACATACATACA
58026 TACATACATACA
1 TACATACATACA
58038 TACATACATACA
1 TACATACATACA
58050 TACATACATACA
1 TACATACATACA
58062 TACATACATACA
1 TACATACATACA
58074 TACATACATACA
1 TACATACATACA
58086 TACATACATACA
1 TACATACATACA
58098 TACATACATACA
1 TACATACATACA
58110 TACATACATACA
1 TACATACATACA
58122 TACATACATACA
1 TACATACATACA
58134 TACATACATACA
1 TACATACATACA
58146 TACATACATACA
1 TACATACATACA
58158 TACATACATACA
1 TACATACATACA
58170 TACATACATACA
1 TACATACATACA
*
58182 TACATAAATACA
1 TACATACATACA
58194 TACATACATACA
1 TACATACATACA
58206 TACATACATACA
1 TACATACATACA
58218 TACATACATACA
1 TACATACATACA
* *
58230 TATATACATATA
1 TACATACATACA
*
58242 TACCTACATACA
1 TACATACATACA
*
58254 AACATACATACA
1 TACATACATACA
58266 TACATACATACA
1 TACATACATACA
*
58278 TACATACATACG
1 TACATACATACA
58290 TACATACATACA
1 TACATACATACA
*
58302 TACATACATACG
1 TACATACATACA
*
58314 TACATACGTACA
1 TACATACATACA
* * **
58326 TACGTATATATG
1 TACATACATACA
* **
58338 TACCTACGCACA
1 TACATACATACA
* *
58350 TACGTACATACG
1 TACATACATACA
* * *
58362 CACATACGTACC
1 TACATACATACA
** *
58374 TACGCACATACG
1 TACATACATACA
* *
58386 TACATACGTATA
1 TACATACATACA
** * *
58398 TATGTACCTACG
1 TACATACATACA
* *
58410 CACATACGTACA
1 TACATACATACA
** *
58422 TACGCACATACG
1 TACATACATACA
* **
58434 TACCTACGCACA
1 TACATACATACA
* *
58446 TACGTACATACG
1 TACATACATACA
* **
58458 TACTTATGTATC-
1 TACATACATA-CA
** *
58470 TATGTATATACA
1 TACATACATACA
* * *
58482 TATATACGTATA
1 TACATACATACA
* *
58494 TACGTACATACG
1 TACATACATACA
* *
58506 CACATACGTACA
1 TACATACATACA
** **
58518 TACGCACATATG
1 TACATACATACA
* **
58530 TACCTACGCACA
1 TACATACATACA
* *
58542 TACGTACATACG
1 TACATACATACA
* **
58554 TATATATGTACA
1 TACATACATACA
* * * *
58566 TTCGTATATACG
1 TACATACATACA
* *
58578 TACATACGTACC
1 TACATACATACA
* *
58590 TACGTACATACG
1 TACATACATACA
* *
58602 TACCTACGTACA
1 TACATACATACA
* * *
58614 TACGTACCTACG
1 TACATACATACA
* *
58626 TACATACGTACC
1 TACATACATACA
* *
58638 TACGTACATACG
1 TACATACATACA
*
58650 TACATACATACG
1 TACATACATACA
* *
58662 TACCTACGTACA
1 TACATACATACA
* *
58674 TATATACGTACA
1 TACATACATACA
*
58686 TACGTACATACA
1 TACATACATACA
* *
58698 TACGTACATACG
1 TACATACATACA
*
58710 TACATATATACA
1 TACATACATACA
* *
58722 TACGTACATACG
1 TACATACATACA
*
58734 TACATATATACA
1 TACATACATACA
* *
58746 TACGTACATACG
1 TACATACATACA
*
58758 TACATATATACA
1 TACATACATACA
* *
58770 TACGTACATATA
1 TACATACATACA
*
58782 TACATACGTACA
1 TACATACATACA
* *
58794 TACGTACATATA
1 TACATACATACA
*
58806 TACATACCTACA
1 TACATACATACA
* *
58818 CACGTACATACA
1 TACATACATACA
*
58830 TACATACGTACA
1 TACATACATACA
* *
58842 TACATACACACG
1 TACATACATACA
**
58854 TACATACATATG
1 TACATACATACA
58866 TACATACATACA
1 TACATACATACA
** *
58878 TACGCACATACG
1 TACATACATACA
*
58890 TACATACGTACA
1 TACATACATACA
* *
58902 TACATATATACG
1 TACATACATACA
**
58914 TACATACGCACA
1 TACATACATACA
* * *
58926 TACGTACCTACG
1 TACATACATACA
** *
58938 TACATATGTATA
1 TACATACATACA
* * *
58950 TACGTACCTACG
1 TACATACATACA
* * *
58962 TACCTACGTACT
1 TACATACATACA
* *
58974 TACGTACATACG
1 TACATACATACA
** *
58986 TACATATGTACT
1 TACATACATACA
* **
58998 TACGTACATATG
1 TACATACATACA
* * *
59010 TATATACGTACC
1 TACATACATACA
* *
59022 TACGTACATACG
1 TACATACATACA
*
59034 TACATACGTACA
1 TACATACATACA
* *
59046 TACATACGTATA
1 TACATACATACA
* *
59058 TACGTACATATA
1 TACATACATACA
* *
59070 TACATATATACG
1 TACATACATACA
*
59082 TACATACGTACA
1 TACATACATACA
*
59094 TACATACGTACA
1 TACATACATACA
*
59106 TACATACGTACA
1 TACATACATACA
*
59118 TACATACATATA
1 TACATACATACA
*
59130 TACATACGTACA
1 TACATACATACA
* *
59142 TACGTACATATA
1 TACATACATACA
*
59154 TACATACCTACA
1 TACATACATACA
* *
59166 CACGTACATACA
1 TACATACATACA
* *
59178 TACACACGTACA
1 TACATACATACA
* *
59190 TACATACACACG
1 TACATACATACA
*
59202 TACATACATACG
1 TACATACATACA
*
59214 TACATACATATA
1 TACATACATACA
** *
59226 TACGCACATACG
1 TACATACATACA
*
59238 TACATACGTACA
1 TACATACATACA
* *
59250 TACGTACATACG
1 TACATACATACA
* **
59262 CACATACGCACA
1 TACATACATACA
* *
59274 TACGTACATACG
1 TACATACATACA
* *
59286 CACATACGTACA
1 TACATACATACA
* *
59298 TACGTATATACA
1 TACATACATACA
* **
59310 TATATATGTACA
1 TACATACATACA
* *
59322 TACGTACATACG
1 TACATACATACA
* *
59334 TATATACGTACA
1 TACATACATACA
* * *
59346 TACGTATATACG
1 TACATACATACA
* * *
59358 CACATACGTACC
1 TACATACATACA
*
59370 TACATACATACG
1 TACATACATACA
* *
59382 TATATACGTACA
1 TACATACATACA
* * *
59394 TACGTATATACG
1 TACATACATACA
*
59406 TACATACGTACA
1 TACATACATACA
*
59418 TACGTACATACA
1 TACATACATACA
*
59430 TATATACATACA
1 TACATACATACA
* *
59442 TACGTACATACG
1 TACATACATACA
* * *
59454 TACATACGTTCT
1 TACATACATACA
* **
59466 TACGTACATATG
1 TACATACATACA
* * *
59478 TATATACGTACC
1 TACATACATACA
* *
59490 TACGTACATACG
1 TACATACATACA
*
59502 TACATACGTACA
1 TACATACATACA
*
59514 TACATACGTACA
1 TACATACATACA
*
59526 TA-AGTACATATA
1 TACA-TACATACA
*
59538 TACATACGTACA
1 TACATACATACA
* *
59550 TACGTACATATA
1 TACATACATACA
* * *
59562 TACGTATATACG
1 TACATACATACA
*
59574 TACATATATACA
1 TACATACATACA
* *
59586 TACGTACATACG
1 TACATACATACA
*
59598 TACATATATACA
1 TACATACATACA
* * *
59610 TACCTACACACG
1 TACATACATACA
59622 TACATACATACA
1 TACATACATACA
* *
59634 CACGTACATACA
1 TACATACATACA
* *
59646 TACACACGTACA
1 TACATACATACA
*
59658 TACATACGTACA
1 TACATACATACA
*
59670 TACATACATACG
1 TACATACATACA
* *
59682 TATATACGTACA
1 TACATACATACA
* *
59694 TATATACATACC
1 TACATACATACA
* *
59706 TACACACGTACA
1 TACATACATACA
* *
59718 TACATACACACG
1 TACATACATACA
59730 TACATACATACA
1 TACATACATACA
* *
59742 CACGTACATACA
1 TACATACATACA
* *
59754 TACGTACATACC
1 TACATACATACA
* *
59766 TACACACGTACA
1 TACATACATACA
* *
59778 TACGTACATATA
1 TACATACATACA
*
59790 TACATACCTACA
1 TACATACATACA
* * * *
59802 CACGTATATATA
1 TACATACATACA
* *
59814 TACACACGTACA
1 TACATACATACA
* *
59826 TACATACACACG
1 TACATACATACA
*
59838 TACATACATACG
1 TACATACATACA
* *
59850 TACGTACATATA
1 TACATACATACA
*
59862 TACGTACATACA
1 TACATACATACA
* * *
59874 TGCATACGTGCA
1 TACATACATACA
*
59886 TACATACATACG
1 TACATACATACA
* * *
59898 TGCATATATACG
1 TACATACATACA
*
59910 TACATACATGCA
1 TACATACATACA
* *
59922 TACGTGCATACA
1 TACATACATACA
* * *
59934 TGCATACGTGCA
1 TACATACATACA
* *
59946 TACATGCATACG
1 TACATACATACA
* *
59958 TGCATACATGCA
1 TACATACATACA
* *
59970 TACGTGCATACA
1 TACATACATACA
* * *
59982 TGCATACGTGCA
1 TACATACATACA
* *
59994 TACATGCATACG
1 TACATACATACA
* *
60006 TGCATACATGCA
1 TACATACATACA
60018 TAC
1 TAC
60021 GTACGTACGT
Statistics
Matches: 2051, Mismatches: 516, Indels: 8
0.80 0.20 0.00
Matches are distributed among these distances:
11 2 0.00
12 2047 1.00
13 2 0.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (12 bp):
TACATACATACA
Found at i:61059 original size:62 final size:62
Alignment explanation
Indices: 60990--61113 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
60980 GTATCCTATT
*
60990 GCTGATTTCAAATTGATTTGATTTTCGTTGAATTATTATTTATCGATGAAATATTTTTATAG
1 GCTGATTTCAAATTGATTTGATTTTCGTTGAATTATTATTTATCGATGAAAGATTTTTATAG
*
61052 GCTGATTTCAAATTGATTTGATTTTCGTTGAATTATTATTTATTGATGAAAGATTTTTATAG
1 GCTGATTTCAAATTGATTTGATTTTCGTTGAATTATTATTTATCGATGAAAGATTTTTATAG
61114 AATTTATAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.50
Consensus pattern (62 bp):
GCTGATTTCAAATTGATTTGATTTTCGTTGAATTATTATTTATCGATGAAAGATTTTTATAG
Found at i:62073 original size:3 final size:3
Alignment explanation
Indices: 62067--62127 Score: 70
Period size: 3 Copynumber: 19.7 Consensus size: 3
62057 TCTAAAAAAA
* *
62067 TAT TAT TAAT TAT TAT TAT AAT AAT TAT TAT TAT TACT T-T TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT
62113 TAT TAAT TAT TAT TA
1 TAT T-AT TAT TAT TA
62128 CATTATTTTG
Statistics
Matches: 52, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 2 0.04
3 42 0.81
4 8 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:63678 original size:29 final size:31
Alignment explanation
Indices: 63631--63688 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
63621 ATTTCTAGTG
*
63631 TCTGTATTTGTTTAAAAT-GTAGATTAGGGC
1 TCTGTATTTGTTCAAAATGGTAGATTAGGGC
* *
63661 TCTG-ATTTGTTCATAATGGTTGATTAGG
1 TCTGTATTTGTTCAAAATGGTAGATTAGG
63689 TCCTTAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (31 bp):
TCTGTATTTGTTCAAAATGGTAGATTAGGGC
Found at i:65024 original size:23 final size:23
Alignment explanation
Indices: 64998--65043 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
64988 CACCACAACT
*
64998 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* *
65021 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
65044 TATAAGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:71611 original size:3 final size:3
Alignment explanation
Indices: 71599--71642 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
71589 CTTAGTGAGG
71599 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
71643 GGAAATATCA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:71921 original size:23 final size:23
Alignment explanation
Indices: 71862--71922 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
71852 CTCGTATAAA
*
71862 TGCACCGAAGTGCCATGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
71885 TGTACCGAAATGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
71908 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
71923 AATAAGATTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:73251 original size:13 final size:13
Alignment explanation
Indices: 73233--73257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
73223 GTCTTCACTG
73233 TGAAGAAGAAGAA
1 TGAAGAAGAAGAA
73246 TGAAGAAGAAGA
1 TGAAGAAGAAGA
73258 GAAATCTGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (13 bp):
TGAAGAAGAAGAA
Found at i:74652 original size:15 final size:14
Alignment explanation
Indices: 74619--74661 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 14
74609 GGATCAATTT
74619 TTTTGCATA-TGCA
1 TTTTGCATATTGCA
74632 -TTTGCATATTTGCA
1 TTTTGCATA-TTGCA
74646 TTTTGCATA-TGCA
1 TTTTGCATATTGCA
74659 TTT
1 TTT
74662 CTTTTAAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
14 4 0.15
15 8 0.30
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (14 bp):
TTTTGCATATTGCA
Found at i:77159 original size:36 final size:37
Alignment explanation
Indices: 77117--77201 Score: 136
Period size: 37 Copynumber: 2.3 Consensus size: 37
77107 CATCCCACTA
*
77117 GAGACAGTTTTCT-TAAAAACAAATTTTGTCTCGCTT
1 GAGACAGTTTTCTCTAAAAACAAATTTTATCTCGCTT
*
77153 GAGACAGTTTTCTCTAAAATCAAATTTTATCTCGCTT
1 GAGACAGTTTTCTCTAAAAACAAATTTTATCTCGCTT
*
77190 GAGACATTTTTC
1 GAGACAGTTTTC
77202 CTTTGAGATA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 13 0.29
37 32 0.71
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (37 bp):
GAGACAGTTTTCTCTAAAAACAAATTTTATCTCGCTT
Found at i:77295 original size:102 final size:103
Alignment explanation
Indices: 77133--77371 Score: 308
Period size: 102 Copynumber: 2.3 Consensus size: 103
77123 GTTTTCTTAA
* *
77133 AAACAAATTTTGTCTCGCTTGAGACAGTTTTCTCTAAAATCAAATTTTATCTCGCTTGAGACA-T
1 AAACAAATTTTGTCTCACTTGAGACAGTTTTCTCTAAAATCAAATTTTATCTCCCTTGAGACAGT
* * *
77197 TTTTCCTTTGAGATACAAAT-TTTGAGTTTGTTTCACTTG
66 TTCT-C-TTGAAAAACAAATCTTTGAGTTTGTTTCACTTG
* * * * *
77236 AAACAAAGTTTATCTCACTTGAGATTATTTTTCTC-AAAA-CAAATTTTGTCTCCCTTGAGACAG
1 AAACAAATTTTGTCTCACTTGAGA-CAGTTTTCTCTAAAATCAAATTTTATCTCCCTTGAGACAG
*
77299 TTTCTCTTGAAAAACAAATCTTTGAGTTTGTTTCTCTTG
65 TTTCTCTTGAAAAACAAATCTTTGAGTTTGTTTCACTTG
*
77338 AAACAAATTTTGTCTCCCTTGAGACAG-TTTCTCT
1 AAACAAATTTTGTCTCACTTGAGACAGTTTTCTCT
77372 TGAAAGACAA
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
100 6 0.05
101 12 0.10
102 61 0.53
103 29 0.25
104 8 0.07
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (103 bp):
AAACAAATTTTGTCTCACTTGAGACAGTTTTCTCTAAAATCAAATTTTATCTCCCTTGAGACAGT
TTCTCTTGAAAAACAAATCTTTGAGTTTGTTTCACTTG
Found at i:77324 original size:66 final size:66
Alignment explanation
Indices: 77254--77643 Score: 500
Period size: 66 Copynumber: 5.9 Consensus size: 66
77244 TTTATCTCAC
* * ** *
77254 TTGAGATTATTTTTCTCAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAAACAAATC
1 TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATC
77319 T
66 T
* *
77320 TTGAGTTTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAGACAAATC
1 TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATC
77385 T
66 T
* * * *** *
77386 TTGAGCA-TGTTTATATTGAAACAAATTTTGTCTCCTTTGAGACAGTTTCTCTTGTTTCACAGAT
1 TTGAG-ATTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAT
77450 CT
65 CT
*
77452 TTGAG-TCTGTTTCTCTTGAAACAAATTTTGTCTCCAC-TGAGACAGTTTATCTTGAAACACAAA
1 TTGAGAT-TGTTTCTCTTGAAACAAATTTTGTCTCC-CTTGAGACAGTTTCTCTTGAAACACAAA
77515 TCT
64 TCT
* * * * *
77518 TTGAGTTTGTTTCTCTTGAAACAAATGTTGCCTCCCTTGAGATATTTTCTCTTGAAACACAAATC
1 TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATC
77583 T
66 T
* * *
77584 TTGA-ATTTATTTCCCTTGAAACAAAGTTTTGTCTCCCTTGAGGCAGTTTCTCTTGAAACA
1 TTGAGA-TTGTTTCTCTTGAAACAAA-TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
77644 AATCCCTAAA
Statistics
Matches: 280, Mismatches: 36, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
65 1 0.00
66 249 0.89
67 30 0.11
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (66 bp):
TTGAGATTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAATC
T
Found at i:77507 original size:198 final size:199
Alignment explanation
Indices: 77272--77638 Score: 567
Period size: 198 Copynumber: 1.8 Consensus size: 199
77262 ATTTTTCTCA
*
77272 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAAACAAATCTTTGAGTTTGTTTCTCTT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTATCTTGAAAAACAAATCTTTGAGTTTGTTTCTCTT
* * * * * *
77337 GAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAGACAAATCTTTGAGCATGTTTATAT
66 GAAACAAATGTTGCCTCCCTTGAGACAGTTTCTCTTGAAACACAAATCTTTGAACATATTTACAT
*
77402 TGAAACAAA-TTTTGTCTCCTTTGAGACAGTTTCTCTTGTTTCACAGATCTTTGAGTCTGTTTCT
131 TGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGTTTCACAGATCTTTGAGTCTGTTTCT
77466 CTTG
196 CTTG
*
77470 AAACAAATTTTGTCTCCAC-TGAGACAGTTTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCT
1 AAACAAATTTTGTCTCC-CTTGAGACAGTTTATCTTGAAAAACAAATCTTTGAGTTTGTTTCTCT
* * ** * *
77534 TGAAACAAATGTTGCCTCCCTTGAGATATTTTCTCTTGAAACACAAATCTTTGAATTTATTTCCC
65 TGAAACAAATGTTGCCTCCCTTGAGACAGTTTCTCTTGAAACACAAATCTTTGAACATATTTACA
*
77599 TTGAAACAAAGTTTTGTCTCCCTTGAGGCAGTTTCTCTTG
130 TTGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTG
77639 AAACAAATCC
Statistics
Matches: 151, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
198 123 0.81
199 28 0.19
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (199 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTATCTTGAAAAACAAATCTTTGAGTTTGTTTCTCTT
GAAACAAATGTTGCCTCCCTTGAGACAGTTTCTCTTGAAACACAAATCTTTGAACATATTTACAT
TGAAACAAAGTTTTGTCTCCCTTGAGACAGTTTCTCTTGTTTCACAGATCTTTGAGTCTGTTTCT
CTTG
Found at i:77537 original size:30 final size:30
Alignment explanation
Indices: 77496--77606 Score: 82
Period size: 30 Copynumber: 3.5 Consensus size: 30
77486 CACTGAGACA
*
77496 GTTTATCTTGAAACACAAATCTTTGAGTTT
1 GTTTCTCTTGAAACACAAATCTTTGAGTTT
* *
77526 GTTTCTCTTGAAACA-AATGTTGCCTCCCTTGAGATAT
1 GTTTCTCTTGAAACACAA--AT--CT---TTGAG-TTT
*
77563 -TTTCTCTTGAAACACAAATCTTTGAATTT
1 GTTTCTCTTGAAACACAAATCTTTGAGTTT
* *
77592 ATTTCCCTTGAAACA
1 GTTTCTCTTGAAACA
77607 AAGTTTTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
29 4 0.06
30 31 0.48
31 1 0.02
33 4 0.06
35 1 0.02
36 19 0.30
37 4 0.06
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.41
Consensus pattern (30 bp):
GTTTCTCTTGAAACACAAATCTTTGAGTTT
Found at i:77570 original size:102 final size:101
Alignment explanation
Indices: 77133--77576 Score: 273
Period size: 102 Copynumber: 4.4 Consensus size: 101
77123 GTTTTCTTAA
* * * * * *
77133 AAACAAATTTTGTCTCGCTTGAGACAGTTTTCTC-TAAAATCAAATTTTATCTCGCTTGAGACA-
1 AAACAAATGTTGTCTCCCTTGAGATA-TTTTCTCTTGAAA-CAAATTTTGTCTC-CCTGAGACAG
* * * *
77196 TTTTTCCTTTGAGATACAAAT-TTTGAGTTTGTTTCACTTG
63 TTTAT-C-TTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
* * **
77236 AAACAAA-GTTTATCTCACTTGAGATTATTTT-TCTCAAAACAAATTTTGTCTCCCTTGAGACAG
1 AAACAAATG-TTGTCTCCCTTGAGA-TATTTTCTCTTGAAACAAATTTTGTCTCCC-TGAGACAG
* *
77299 TTTCTCTTGAAAAACAAATCTTTGAGTTTGTTTCTCTTG
63 TTTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
* * * *
77338 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAGACAAA-----TCT--TTGAG-CATG
1 AAACAAATGTTGTCTCCCTTGAGATATTTTCTCTTG-AA-ACAAATTTTGTCTCCCTGAGACA-G
* * ***
77395 TTTATATTGAAACA-AATTTTGTCTCCTTTGAGACAGTTTCTCTTG
63 TTTATCTTGAAACACAA------AT-CTTTGAGTTTGTTTCTCTTG
*** * * *
77440 TTTCACA-G--ATCT---TTGAG-TCTGTTTCTCTTGAAACAAATTTTGTCTCCACTGAGACAGT
1 AAACAAATGTTGTCTCCCTTGAGATAT-TTTCTCTTGAAACAAATTTTGTCTCC-CTGAGACAGT
77498 TTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
64 TTATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
*
77536 AAACAAATGTTGCCTCCCTTGAGATATTTTCTCTTGAAACA
1 AAACAAATGTTGTCTCCCTTGAGATATTTTCTCTTGAAACA
77577 CAAATCTTTG
Statistics
Matches: 257, Mismatches: 48, Indels: 73
0.68 0.13 0.19
Matches are distributed among these distances:
94 5 0.02
95 6 0.02
96 50 0.19
97 2 0.01
99 11 0.04
101 17 0.07
102 120 0.47
103 40 0.16
104 6 0.02
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (101 bp):
AAACAAATGTTGTCTCCCTTGAGATATTTTCTCTTGAAACAAATTTTGTCTCCCTGAGACAGTTT
ATCTTGAAACACAAATCTTTGAGTTTGTTTCTCTTG
Found at i:77886 original size:131 final size:132
Alignment explanation
Indices: 77645--78004 Score: 429
Period size: 131 Copynumber: 2.7 Consensus size: 132
77635 CTTGAAACAA
* * * *
77645 ATCCCTAAAGATGGTC-TGCCATCCTCATCGCGTAGGAACTGTGTCATCCACTGACTAGATC-TC
1 ATCCCTAAAGATGGCCATGCCGTCCTCATCACGTAGGAACTGTGTCATCCACCGACTAGA-CATC
* * * *
77708 CTCATCACGTAGGAGCCTTGTCACCCTTAGATAACCAGTTGTTCTCATCACGTAGGAACCATGTT
65 CTCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGTTATCCTCATCACATAGGAACCATGTT
77773 ATC
130 ATC
* *
77776 ATCCCTAAAGATGG-CATGCCGTCCTCATCACATAGGAACTGTGTCTTCCACCGACTAGACATCC
1 ATCCCTAAAGATGGCCATGCCGTCCTCATCACGTAGGAACTGTGTCATCCACCGACTAGACATCC
* ** *
77840 TCATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTTATCCTCATTGCATAGGAACCGTGTTA
66 TCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGTTATCCTCATCACATAGGAACCATGTTA
77905 TC
131 TC
* * ** ** * * *
77907 ACCCTCCCTAAAGATGGCCAAGACGTCCTCATTTCGTAGGAACAATGTCATCCCCCGACCAGATA
1 A---TCCCTAAAGATGGCCATGCCGTCCTCATCACGTAGGAACTGTGTCATCCACCGACTAGACA
* * *
77972 TCCTCATCACATAGGAGCTGTATCACCCTTAGA
63 TCCTCATCACGTAGGAGCCGTGTCACCCTTAGA
78005 CGACCAGAAC
Statistics
Matches: 195, Mismatches: 28, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
130 2 0.01
131 115 0.59
134 13 0.07
135 65 0.33
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (132 bp):
ATCCCTAAAGATGGCCATGCCGTCCTCATCACGTAGGAACTGTGTCATCCACCGACTAGACATCC
TCATCACGTAGGAGCCGTGTCACCCTTAGATAACCAGTTATCCTCATCACATAGGAACCATGTTA
TC
Found at i:82837 original size:20 final size:20
Alignment explanation
Indices: 82812--82850 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
82802 TTTTTTCCGC
82812 AACGCGAATATATAAATCGT
1 AACGCGAATATATAAATCGT
*
82832 AACGCGAATATGTAAATCG
1 AACGCGAATATATAAATCG
82851 CAACACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.18, T:0.23
Consensus pattern (20 bp):
AACGCGAATATATAAATCGT
Found at i:83423 original size:20 final size:20
Alignment explanation
Indices: 83400--83489 Score: 171
Period size: 20 Copynumber: 4.5 Consensus size: 20
83390 TTTGAAACTT
83400 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
83420 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
83440 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
83460 AAATTCGCAACACGAAAATG
1 AAATTCGCAACACGAAAATG
*
83480 AAAATCGCAA
1 AAATTCGCAA
83490 GTGATTTTAG
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.51, C:0.20, G:0.14, T:0.14
Consensus pattern (20 bp):
AAATTCGCAACACGAAAATG
Found at i:83521 original size:18 final size:18
Alignment explanation
Indices: 83500--83557 Score: 91
Period size: 18 Copynumber: 3.2 Consensus size: 18
83490 GTGATTTTAG
83500 TTTCGCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
83518 TTTCGCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
83536 TTTTC-CGTTGCGATTTTCA
1 -TTTCGCGTTGCGA-TTTCA
83555 TTT
1 TTT
83558 TCGTGTTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 29 0.76
19 9 0.24
ACGTcount: A:0.10, C:0.21, G:0.19, T:0.50
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Found at i:83592 original size:20 final size:20
Alignment explanation
Indices: 83567--83642 Score: 143
Period size: 20 Copynumber: 3.8 Consensus size: 20
83557 TTCGTGTTGC
83567 AAATGAAATTCGCAACACGA
1 AAATGAAATTCGCAACACGA
83587 AAATGAAATTCGCAACACGA
1 AAATGAAATTCGCAACACGA
83607 AAATGAAATTCGCAACACGA
1 AAATGAAATTCGCAACACGA
*
83627 AAATGAAAATCGCAAC
1 AAATGAAATTCGCAAC
83643 GTGATTTTAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.51, C:0.20, G:0.14, T:0.14
Consensus pattern (20 bp):
AAATGAAATTCGCAACACGA
Found at i:83686 original size:172 final size:175
Alignment explanation
Indices: 83400--83715 Score: 478
Period size: 172 Copynumber: 1.8 Consensus size: 175
83390 TTTGAAACTT
*
83400 AAATTCGCAACACGAAAATGAAATTCGCAACACGAAAATGAAATTCGCAACACGAAAATGAAATT
1 AAATTCGCAACACGAAAATGAAATTCGCAACACGAAAATGAAATTCGCAACACGAAAATGAAAAT
*
83465 CGCAACACGAAAATGAAAATCGCAAGTGATTTTAGTTTCGCGTTGCGA-TTTCA-TTTCGCGTTG
66 CGCAACACGAAAATGAAAATCGCAAGCGATTTTAGTTTCGCGTTGCGATTTTCATTTTCGCGTTG
83528 CGA-TTTCATTTTCCGTTGCGATTTTCATTTTCGTGTTGCAAATG
131 CGATTTTCATTTTCCGTTGCGATTTTCATTTTCGTGTTGCAAATG
83572 AAATTCGCAACACGAAAATGAAATTCGCAACACGAAAATGAAATTCGCAACACGAAAATGAAAAT
1 AAATTCGCAACACGAAAATGAAATTCGCAACACGAAAATGAAATTCGCAACACGAAAATGAAAAT
** ** * *** ** *
83637 CGCAACGTG-ATTTTAGTTTCGCGTTGCGATTTTATTTTCGCGTTGCGATTTTCATTTTCGCGTT
66 CGCAACACGAAAATGAAAATCGC-AAGCGATTTTAGTTTCGCGTTGCGATTTTCATTTTCGCGTT
83701 GCGATTTTCATTTTC
130 GCGATTTTCATTTTC
83716 GTGTTGCAAA
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
171 7 0.06
172 92 0.72
173 5 0.04
174 13 0.10
175 10 0.08
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (175 bp):
AAATTCGCAACACGAAAATGAAATTCGCAACACGAAAATGAAATTCGCAACACGAAAATGAAAAT
CGCAACACGAAAATGAAAATCGCAAGCGATTTTAGTTTCGCGTTGCGATTTTCATTTTCGCGTTG
CGATTTTCATTTTCCGTTGCGATTTTCATTTTCGTGTTGCAAATG
Found at i:83695 original size:20 final size:20
Alignment explanation
Indices: 83653--83722 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
83643 GTGATTTTAG
83653 TTTCGCGTTGCGATTTT-AT
1 TTTCGCGTTGCGATTTTCAT
83672 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
83692 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
*
83712 TTTCGTGTTGC
1 TTTCGCGTTGC
83723 AAATTTAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 17 0.35
20 32 0.65
ACGTcount: A:0.09, C:0.19, G:0.21, T:0.51
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:83696 original size:39 final size:39
Alignment explanation
Indices: 83645--83722 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
83635 ATCGCAACGT
83645 GATTTTAGTTTCGCGTTGCGATTTT-ATTTTCGCGTTGC
1 GATTTTAGTTTCGCGTTGCGATTTTCATTTTCGCGTTGC
* *
83683 GATTTTCATTTTCGCGTTGCGATTTTCATTTTCGTGTTGC
1 GATTTT-AGTTTCGCGTTGCGATTTTCATTTTCGCGTTGC
83723 AAATTTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 6 0.17
39 18 0.50
40 12 0.33
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.51
Consensus pattern (39 bp):
GATTTTAGTTTCGCGTTGCGATTTTCATTTTCGCGTTGC
Found at i:83733 original size:20 final size:20
Alignment explanation
Indices: 83653--83735 Score: 105
Period size: 20 Copynumber: 4.2 Consensus size: 20
83643 GTGATTTTAG
*
83653 TTTCGCGTTGCG-ATTTTAT
1 TTTCGCGTTGCGAATTTCAT
*
83672 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGAATTTCAT
*
83692 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGAATTTCAT
* * *
83712 TTTCGTGTTGCAAATTTAAT
1 TTTCGCGTTGCGAATTTCAT
83732 TTTC
1 TTTC
83736 AAACACTACT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 12 0.21
20 45 0.79
ACGTcount: A:0.13, C:0.17, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTCAT
Found at i:84904 original size:15 final size:15
Alignment explanation
Indices: 84884--84914 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
84874 CAATTCTAAA
84884 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
84899 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
84914 T
1 T
84915 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:85414 original size:15 final size:15
Alignment explanation
Indices: 85394--85424 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85384 TTTCATTAAG
85394 TAAGTTTAAATGAAA
1 TAAGTTTAAATGAAA
*
85409 TAAGTTTACATGAAA
1 TAAGTTTAAATGAAA
85424 T
1 T
85425 GAAGAGTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (15 bp):
TAAGTTTAAATGAAA
Found at i:86232 original size:24 final size:24
Alignment explanation
Indices: 86200--86247 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
86190 TCTCAACATG
86200 CTCAATTAAAGTAAATAAAACCTT
1 CTCAATTAAAGTAAATAAAACCTT
86224 CTCAATTAAAGTAAATAAAACCTT
1 CTCAATTAAAGTAAATAAAACCTT
86248 GGAATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.04, T:0.29
Consensus pattern (24 bp):
CTCAATTAAAGTAAATAAAACCTT
Found at i:87115 original size:43 final size:42
Alignment explanation
Indices: 87045--87236 Score: 168
Period size: 43 Copynumber: 4.4 Consensus size: 42
87035 GTTTGAGAAC
* * * * * * * *
87045 AAAAAATGCCACAATAGGTCAAGATCTATTGCGGCGTTTTTTG
1 AAAAAACGCCGCAAAAGGTC-ATATCTATAGCGGCATTTCTAG
* *
87088 AACAAACGCCGCAAAAGGTCGATATCTATAACGGCATTTCTAG
1 AAAAAACGCCGCAAAAGGTC-ATATCTATAGCGGCATTTCTAG
* * *
87131 AAAAAAAAAAGCCGCAAAAAGTCATGATCTATAGCGGCGTTTCTAG
1 ---AAAAAACGCCGCAAAAGGTCAT-ATCTATAGCGGCATTTCTAG
* * *
87177 AAAAAACGCCGCAAAAGGTCAGATCTATAGCGGCATTTTTGG
1 AAAAAACGCCGCAAAAGGTCATATCTATAGCGGCATTTCTAG
*
87219 ATACAAACGCCGCAAAAG
1 A-AAAAACGCCGCAAAAG
87237 AGCAGGCCTA
Statistics
Matches: 121, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
42 18 0.15
43 66 0.55
45 2 0.02
46 35 0.29
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (42 bp):
AAAAAACGCCGCAAAAGGTCATATCTATAGCGGCATTTCTAG
Found at i:87314 original size:43 final size:43
Alignment explanation
Indices: 87248--87373 Score: 180
Period size: 43 Copynumber: 2.9 Consensus size: 43
87238 GCAGGCCTAT
* *
87248 AGGTAAGACCTATAACGACGTTTTTGAACACAAACGCCGCAAA
1 AGGTCAGACCTATAACGGCGTTTTTGAACACAAACGCCGCAAA
* *
87291 AGGTCAGACCTATAGCGGCGTTTTTGAACACAAACGCCGTAAA
1 AGGTCAGACCTATAACGGCGTTTTTGAACACAAACGCCGCAAA
* * * *
87334 AAGTCAGACCTATAACGGCGTTTGTGGATACAAACGCCGC
1 AGGTCAGACCTATAACGGCGTTTTTGAACACAAACGCCGC
87374 TAATTACCTT
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (43 bp):
AGGTCAGACCTATAACGGCGTTTTTGAACACAAACGCCGCAAA
Done.