Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003263.1 Hibiscus syriacus cultivar Beakdansim tig00006859_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: 89839
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:118 original size:33 final size:33
Alignment explanation
Indices: 84--208 Score: 178
Period size: 33 Copynumber: 3.8 Consensus size: 33
74 AGTTGTATCT
* * *
84 CTTCACGAAATGGTACCTCTAAAAGTTATGTCT
1 CTTCACCAAAGGGTACCTCTAAAAGTTATGTCA
*
117 CTTCACCAAAGGGTGCCTCTAAAAGTTATGTCA
1 CTTCACCAAAGGGTACCTCTAAAAGTTATGTCA
*
150 CTTCACCAAAGGGTGCCTCTAAAAGTTATGTCA
1 CTTCACCAAAGGGTACCTCTAAAAGTTATGTCA
* * *
183 CTTCACCAAATGTTACCTCCAAAAGT
1 CTTCACCAAAGGGTACCTCTAAAAGT
209 CACGAATTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (33 bp):
CTTCACCAAAGGGTACCTCTAAAAGTTATGTCA
Found at i:207 original size:66 final size:66
Alignment explanation
Indices: 67--208 Score: 178
Period size: 66 Copynumber: 2.2 Consensus size: 66
57 ACCTAGAGTG
* * * * *
67 CCTCC-AAAGTTGTATCTCTTCACGAAATGGTACCTCTAAAAGTTATGTCTCTTCACCAAAGGGT
1 CCTCCAAAAGTTATATCACTTCACCAAAGGGTACCTCTAAAAGTTATGTCACTTCACCAAAGGGT
*
131 G
66 A
* * * * *
132 CCTCTAAAAGTTATGTCACTTCACCAAAGGGTGCCTCTAAAAGTTATGTCACTTCACCAAATGTT
1 CCTCCAAAAGTTATATCACTTCACCAAAGGGTACCTCTAAAAGTTATGTCACTTCACCAAAGGGT
197 A
66 A
198 CCTCCAAAAGT
1 CCTCCAAAAGT
209 CACGAATTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
65 4 0.06
66 60 0.94
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (66 bp):
CCTCCAAAAGTTATATCACTTCACCAAAGGGTACCTCTAAAAGTTATGTCACTTCACCAAAGGGT
A
Found at i:8126 original size:3 final size:3
Alignment explanation
Indices: 8118--8149 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8108 AAAATTTAAT
*
8118 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
8150 GCGAGATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8649 original size:134 final size:133
Alignment explanation
Indices: 8299--8983 Score: 770
Period size: 134 Copynumber: 5.1 Consensus size: 133
8289 GCTGTCACTT
* * ** * * *
8299 AGGGAATATCAGATCT-GGAGATATTGATTTATTCCGCTGTTACTCAGGGAAGATTGAATCGAGG
1 AGGGAATATCAGATCTGGGGGA-GTTGATCCATTCCCCTGTCACTCAGGGAAGATTGAATCGGGG
* * * * *
8363 CAGACTTGTTCCACTATCACTCAGGGAATATCAAATCTT-GAAAGAGAGATTTGTTCCACTTCTT
65 CAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAAAGGGATATGTTCCGCTTCTT
8427 CTGA
130 CTGA
* * * * *
8431 AGGGAATATCA-ATCTGGGGGAGTTGA-CCTATTCAGCATGTCATTCAGAGAAGATTGAATCGAG
1 AGGGAATATCAGATCTGGGGGAGTTGATCC-ATTC-CCCTGTCACTCAGGGAAGATTGAATCGGG
* * *
8494 GCAGACTTGTTCCGCTGTCACTCAGAGAATATCAAATATTGGTAAAAAGGGATATGTTCCGCTT-
64 GCAGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGG-AAAAAGGGATATGTTCCGCTTC
*
8558 TCTCTAA
128 T-TCTGA
* * * *
8565 AGGGAATATCGGATCTGGGGGAGTTGATCCATTCCCCTGTCACTTATGGAAGATTGAATCGGGGA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCCCTGTCACTCAGGGAAGATTGAATCGGGGC
* * * * * *
8630 ATACTTGTCCCACTATCACTTAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCCGTTTCTT
66 AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAA-AGGGATATGTTCCGCTTCTT
8695 CTGA
130 CTGA
* ** ** * * * * * *
8699 AGGCAATATCAGATCTGAAGGAGTTGATCCATTCCGTTGTCACACAGGGAATACTAAATCAGGGA
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCCCTGTCACTCAGGGAAGATTGAATCGGGGC
* * * *
8764 AAACTTGTTCCACTGTTACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGATCCGCTTCTT
66 AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAA-AGGGATATGTTCCGCTTCTT
8829 CTGA
130 CTGA
* * * *
8833 AGGTAATATCAGATCTTGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCAGGGC
1 AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCCCTGTCACTCAGGGAAGATTGAATCGGGGC
* *
8898 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAAAGGGACT-TGGTCCGCTTCT
66 AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGG-AAAAAGGGA-TATGTTCCGCTTCT
8962 TCTGA
129 TCTGA
*
8967 AGGGAATATCATATCTG
1 AGGGAATATCAGATCTG
8984 CAAATTAAAC
Statistics
Matches: 465, Mismatches: 76, Indels: 22
0.83 0.13 0.04
Matches are distributed among these distances:
131 12 0.03
132 74 0.16
133 6 0.01
134 347 0.75
135 24 0.05
136 2 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (133 bp):
AGGGAATATCAGATCTGGGGGAGTTGATCCATTCCCCTGTCACTCAGGGAAGATTGAATCGGGGC
AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTGGAAAAAGGGATATGTTCCGCTTCTTC
TGA
Found at i:18267 original size:134 final size:133
Alignment explanation
Indices: 17953--18738 Score: 879
Period size: 134 Copynumber: 5.9 Consensus size: 133
17943 TCACTCAGGC
* * * *
17953 AATATCATATCT-GGGGATGTTGATTCATTCCGCTATCACATAGGGAAGATTGAATCGAGGCAGA
1 AATATCAGATCTGGGGGA-GTTGATCCATTCCGCTGTCACTTAGGGAAGATTGAATCGAGGCAGA
* * * * * ** *
18017 TTTGTTCCACTGTTAGTCAAGGAATATCAAATCTT-G-AAAGATAGATC-TGTTCCCCTTCTTCT
65 CTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGA-CATGTT-CACTTCTTCT
18079 GAAGGG
128 GAAGGG
* * * * * *
18085 AATATCAAATCTGGGGGAGTTAATCCATTCCGCTATCA-TATAGAGAAGATTGAATTGGGGCAGA
1 AATATCAGATCTGGGGGAGTTGATCCATTCCGCTGTCACT-TAGGGAAGATTGAATCGAGGCAGA
* * * *
18149 CTGGTTCCGCTCTCACTCAGGGAATATTAAATCTTGGAAAAGAGGGACATGTTACGCTT-TCTCT
65 CTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTT-CACTTCT-TCT
18213 GAAGGG
128 GAAGGG
* * * *
18219 AATATCAGATCTGGGGGAGTTGATCCATTCTGCTGTCACTTAGGGAAGATTGAATTGGGGTAGAC
1 AATATCAGATCTGGGGGAGTTGATCCATTCCGCTGTCACTTAGGGAAGATTGAATCGAGGCAGAC
* * *
18284 TTGTTCCGCTGTCACTTAGGGAATATCAAATCTTGGAAAAGAGGGACGTGTTTCGCTTCTTCTGA
66 TTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATG-TTCACTTCTTCTGA
* *
18349 AAGT
130 AGGG
* ** *
18353 AATATCAGATCTGGGGGAGTTGATCCATTTCATTGTCACTCAGGGAAGATTGAATC-AGGGCAGA
1 AATATCAGATCTGGGGGAGTTGATCCATTCCGCTGTCACTTAGGGAAGATTGAATCGA-GGCAGA
* * * * *
18417 CTTGTTCCGTTGTCACTCGGGGAATATTAAATCTTGGAAAAGAGGGACATGTTCCACTTATTCTT
65 CTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTT-CACTTCTTCTG
18482 AAGGG
129 AAGGG
* ** * * * *
18487 AATATCAAAT-TCGGAAGAGTTGATCCATTCCGTTGTCACTCAGGGAAGATTGAATCGAAGTAGA
1 AATATCAGATCT-GGGGGAGTTGATCCATTCCGCTGTCACTTAGGGAAGATTGAATCGAGGCAGA
* *
18551 CTTGTTTCGCTGTCACTCAGGGAATATCAAATATTGGAAAAGAGGGACATGTTCTACTTCTTCTG
65 CTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTC-ACTTCTTCTG
18616 AAGGG
129 AAGGG
* * * * * *
18621 AATATCAGATATGTGGTAGTTGATCCATTCTGCAGTCACTTAGGGAAGATTGAATCAAGGCAGAC
1 AATATCAGATCTGGGGGAGTTGATCCATTCCGCTGTCACTTAGGGAAGATTGAATCGAGGCAGAC
* * *
18686 TTGTAT-CGCTGTCACTTAGGGAATATTAAATCTTGGAAAAGAGGGACTTGTTC
66 TTGT-TCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTC
18739 CGGTTCTTCT
Statistics
Matches: 558, Mismatches: 80, Indels: 30
0.84 0.12 0.04
Matches are distributed among these distances:
132 77 0.14
133 12 0.02
134 462 0.83
135 7 0.01
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (133 bp):
AATATCAGATCTGGGGGAGTTGATCCATTCCGCTGTCACTTAGGGAAGATTGAATCGAGGCAGAC
TTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTCACTTCTTCTGAA
GGG
Found at i:18698 original size:402 final size:400
Alignment explanation
Indices: 17994--18748 Score: 1002
Period size: 402 Copynumber: 1.9 Consensus size: 400
17984 GCTATCACAT
* * * *
17994 AGGGAAGATTGAATCGAGGCAGATTTGTTCCACTGTTAGTCAAGGAATATCAAATCTTGAAAGAT
1 AGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAAGGAATATCAAATCTTGAAAGAG
* * **
18059 AGATCTGTTCCCCTTCTTCTGAAGGGAATATCAAATCTGGGGGAGTTAATCCATTCCGCTATCAT
66 AGATCTGTTCCACTTATTCTGAAGGGAATATCAAATCTGGAAGAGTTAATCCATTCCGCTATCAT
* * ** * *
18124 ATAGAGAAGATTGAATTGGGGCAGACTGGTTCCGCTCTCACTCAGGGAATATTAAATCTTGGAAA
131 ACAGAGAAGATTGAATCGAAGCAGACTGGTTCCGCTCTCACTCAGGGAATATCAAATATTGGAAA
* * *
18189 AGAGGGACATGTTACGCTTTCTCTGAAGGGAATATCAGATCTGGGGGAGTTGATCCATTCTGCTG
196 AGAGGGACATGTTACACTTTCTCTGAAGGGAATATCAGATATGGGGGAGTTGATCCATTCTGCAG
*** *
18254 TCACTTAGGGAAGATTGAATTGGGGTAGACTTGTTCCGCTGTCACTTAGGGAATATCAAATCTTG
261 TCACTTAGGGAAGATTGAATCAAGGCAGACTTGTTCCGCTGTCACTTAGGGAATATCAAATCTTG
*
18319 GAAAAGAGGGACGTGTTTCGCTTCTTCTGAAAGTAATATCAGATCTGGGGGAGTTGATCCATTTC
326 GAAAAGAGGGACGTGTTCCGCTTCTTCTGAAAGTAATATCAGATCTGGGGGAGTTGATCCATTTC
18384 ATTGTCACTC
391 ATTGTCACTC
** ** *
18394 AGGGAAGATTGAATC-AGGGCAGACTTGTTCCGTTGTCACTCGGGGAATATTAAATCTTGGAAAA
1 AGGGAAGATTGAATCGA-GGCAGACTTGTTCCACTGTCACTCAAGGAATATCAAATCTT-G-AAA
* * * *
18458 GAGGGA-CATGTTCCACTTATTCTTAAGGGAATATCAAAT-TCGGAAGAGTTGATCCATTCCGTT
63 GAGAGATC-TGTTCCACTTATTCTGAAGGGAATATCAAATCT-GGAAGAGTTAATCCATTCCGCT
* * * * * *
18521 GTCACT-CAGGGAAGATTGAATCGAAGTAGACTTGTTTCGCTGTCACTCAGGGAATATCAAATAT
126 ATCA-TACAGAGAAGATTGAATCGAAGCAGACTGGTTCCGCTCTCACTCAGGGAATATCAAATAT
* *
18585 TGGAAAAGAGGGACATGTT-CTAC-TTCTTCTGAAGGGAATATCAGATATGTGGTAGTTGATCCA
190 TGGAAAAGAGGGACATGTTAC-ACTTTC-TCTGAAGGGAATATCAGATATGGGGGAGTTGATCCA
18648 TTCTGCAGTCACTTAGGGAAGATTGAATCAAGGCAGACTTGTAT-CGCTGTCACTTAGGGAATAT
253 TTCTGCAGTCACTTAGGGAAGATTGAATCAAGGCAGACTTGT-TCCGCTGTCACTTAGGGAATAT
* * *
18712 TAAATCTTGGAAAAGAGGGACTTGTTCCGGTTCTTCT
317 CAAATCTTGGAAAAGAGGGACGTGTTCCGCTTCTTCT
18749 TATCAGATAT
Statistics
Matches: 304, Mismatches: 42, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
399 1 0.00
400 48 0.16
401 7 0.02
402 246 0.81
403 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (400 bp):
AGGGAAGATTGAATCGAGGCAGACTTGTTCCACTGTCACTCAAGGAATATCAAATCTTGAAAGAG
AGATCTGTTCCACTTATTCTGAAGGGAATATCAAATCTGGAAGAGTTAATCCATTCCGCTATCAT
ACAGAGAAGATTGAATCGAAGCAGACTGGTTCCGCTCTCACTCAGGGAATATCAAATATTGGAAA
AGAGGGACATGTTACACTTTCTCTGAAGGGAATATCAGATATGGGGGAGTTGATCCATTCTGCAG
TCACTTAGGGAAGATTGAATCAAGGCAGACTTGTTCCGCTGTCACTTAGGGAATATCAAATCTTG
GAAAAGAGGGACGTGTTCCGCTTCTTCTGAAAGTAATATCAGATCTGGGGGAGTTGATCCATTTC
ATTGTCACTC
Found at i:26128 original size:3 final size:3
Alignment explanation
Indices: 26120--26148 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26110 AAAATTTAAT
26120 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
26149 GAGGGACGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:28765 original size:20 final size:20
Alignment explanation
Indices: 28739--28787 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
28729 TGGTAAGAAC
28739 CAAAATCCCCAAATCCATAT
1 CAAAATCCCCAAATCCATAT
*
28759 TAAAATCCCCAAATCCATAT
1 CAAAATCCCCAAATCCATAT
28779 CAAAATCCC
1 CAAAATCCC
28788 TAAAATTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (20 bp):
CAAAATCCCCAAATCCATAT
Found at i:35421 original size:19 final size:18
Alignment explanation
Indices: 35399--35447 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
35389 ATTTTGAAAA
35399 TAATTTTTAATAATATTTT
1 TAATTTTTAATAAT-TTTT
*
35418 TAATGTTTTAATACTTTTT
1 TAAT-TTTTAATAATTTTT
*
35437 GAATTTTTAAT
1 TAATTTTTAAT
35448 GTTTATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 7 0.26
19 11 0.41
20 9 0.33
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (18 bp):
TAATTTTTAATAATTTTT
Found at i:35458 original size:2 final size:2
Alignment explanation
Indices: 35451--35475 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35441 TTTTAATGTT
35451 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35476 TATTTTAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:39011 original size:18 final size:18
Alignment explanation
Indices: 38958--39015 Score: 66
Period size: 19 Copynumber: 3.3 Consensus size: 18
38948 TTGATTTCTA
38958 TAATTTTTAA-ATA-TTT
1 TAATTTTTAATATATTTT
* *
38974 TAATTTTTATTAAATATTT
1 TAATTTTTAATATAT-TTT
*
38993 TAATTTTAAATATATTTT
1 TAATTTTTAATATATTTT
39011 TAATT
1 TAATT
39016 CTAACTCTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
16 9 0.26
17 2 0.06
18 8 0.24
19 15 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TAATTTTTAATATATTTT
Found at i:45749 original size:19 final size:19
Alignment explanation
Indices: 45727--45788 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 19
45717 GTGTAAATGA
*
45727 TTTTAGAATATTTAAATATT
1 TTTTAGAATATTTTAATA-T
*
45747 TTTTTGAAT-TTTTAATAT
1 TTTTAGAATATTTTAATAT
*
45765 TTTTAATAATATTTTTAATAT
1 TTTT-AGAATA-TTTTAATAT
45786 TTT
1 TTT
45789 AATACTTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 5 0.14
19 10 0.29
20 8 0.23
21 12 0.34
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTAGAATATTTTAATAT
Found at i:45755 original size:20 final size:19
Alignment explanation
Indices: 45727--45768 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
45717 GTGTAAATGA
45727 TTTTAGAATATTTAAATATT
1 TTTTAGAAT-TTTAAATATT
* *
45747 TTTTTGAATTTTTAATATT
1 TTTTAGAATTTTAAATATT
45766 TTT
1 TTT
45769 AATAATATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTAGAATTTTAAATATT
Found at i:45766 original size:9 final size:9
Alignment explanation
Indices: 45754--45852 Score: 55
Period size: 9 Copynumber: 10.7 Consensus size: 9
45744 ATTTTTTTGA
45754 ATTTTTAAT
1 ATTTTTAAT
45763 ATTTTTAATAAT
1 A-TTTT--TAAT
45775 ATTTTTAAT
1 ATTTTTAAT
45784 A-TTTTAAT
1 ATTTTTAAT
*
45792 ACTTTT-AT
1 ATTTTTAAT
45800 GATATTTTAAT
1 -AT-TTTTAAT
*
45811 -TTATGTAATT
1 ATT-TTTAA-T
45821 ATTTTTAA-
1 ATTTTTAAT
*
45829 ATTTTAGAAT
1 ATTTT-TAAT
*
45839 A-TTTAAAT
1 ATTTTTAAT
45847 ATTTTT
1 ATTTTT
45853 TTTTGAATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 26
0.69 0.06 0.25
Matches are distributed among these distances:
8 20 0.28
9 24 0.34
10 14 0.20
11 8 0.11
12 5 0.07
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:45769 original size:29 final size:29
Alignment explanation
Indices: 45737--45807 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
45727 TTTTAGAATA
45737 TTTAAATATTTTTTTGAAT-TTTTAATA-T
1 TTTAAATATTTTTTT-AATATTTTAATACT
* *
45765 TTTTAATAATATTTTTAATATTTTAATACT
1 TTTAAAT-ATTTTTTTAATATTTTAATACT
*
45795 TTTATGATATTTT
1 TTTA-AATATTTT
45808 AATTTATGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
28 9 0.26
29 15 0.44
30 8 0.24
31 2 0.06
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (29 bp):
TTTAAATATTTTTTTAATATTTTAATACT
Found at i:45776 original size:12 final size:12
Alignment explanation
Indices: 45759--45784 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45749 TTTGAATTTT
45759 TAATATTTTTAA
1 TAATATTTTTAA
45771 TAATATTTTTAA
1 TAATATTTTTAA
45783 TA
1 TA
45785 TTTTAATACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATATTTTTAA
Found at i:45779 original size:20 final size:20
Alignment explanation
Indices: 45733--45792 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 20
45723 ATGATTTTAG
* *
45733 AATATTTAAATATTTTT-TT
1 AATATTTTAATATTTTTAAT
45752 GAAT-TTTTAATATTTTTAAT
1 -AATATTTTAATATTTTTAAT
45772 AATATTTTTAATA-TTTTAAT
1 AATA-TTTTAATATTTTTAAT
45792 A
1 A
45793 CTTTTATGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 15 0.43
20 12 0.34
21 8 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
AATATTTTAATATTTTTAAT
Found at i:45780 original size:21 final size:20
Alignment explanation
Indices: 45754--45810 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
45744 ATTTTTTTGA
45754 ATTTTTAATATTTTTAATAAT
1 ATTTTTAATA-TTTTAATAAT
*
45775 ATTTTTAATATTTTAATACT
1 ATTTTTAATATTTTAATAAT
* *
45795 -TTTATGATATTTTAAT
1 ATTTTTAATATTTTAAT
45811 TTATGTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 14 0.42
20 9 0.27
21 10 0.30
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTAATATTTTAATAAT
Found at i:45810 original size:48 final size:46
Alignment explanation
Indices: 45733--45834 Score: 111
Period size: 48 Copynumber: 2.2 Consensus size: 46
45723 ATGATTTTAG
* * * *
45733 AATATTTAAATATTTTTTTGAATTTTTAATATT-TTTAATAATATTTTT
1 AATATTTTAATACTTTTATGAATTTTTAAT-TTATGTAAT--TATTTTT
45781 AATATTTTAATACTTTTATG-ATATTTTAATTTATGTAATTATTTTT
1 AATATTTTAATACTTTTATGAAT-TTTTAATTTATGTAATTATTTTT
45827 AA-ATTTTA
1 AATATTTTA
45835 GAATATTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
45 6 0.12
46 9 0.19
47 4 0.08
48 29 0.60
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (46 bp):
AATATTTTAATACTTTTATGAATTTTTAATTTATGTAATTATTTTT
Found at i:45878 original size:16 final size:17
Alignment explanation
Indices: 45847--45886 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
45837 ATATTTAAAT
45847 ATTTTTTTTTGAATTTTG
1 ATTTTTTTTT-AATTTTG
* *
45865 ATTTTTTTTTATTTTTT
1 ATTTTTTTTTAATTTTG
45882 ATTTT
1 ATTTT
45887 AGGAGCAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (17 bp):
ATTTTTTTTTAATTTTG
Found at i:49513 original size:21 final size:20
Alignment explanation
Indices: 49427--49584 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
49417 AAATGACCAA
**
49427 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
49446 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
49466 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
49486 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
49507 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
49528 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
49548 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
49569 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
49585 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:49613 original size:20 final size:20
Alignment explanation
Indices: 49551--49724 Score: 172
Period size: 20 Copynumber: 8.7 Consensus size: 20
49541 CGATTTTCCA
* ** *
49551 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
49571 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
49591 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
49611 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
49631 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
* *
49651 AAATCACAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * * *
49671 ATATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
49691 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
49712 AAATCGCAACGCG
1 AAATCGCAACGCG
49725 ATATTTAAAG
Statistics
Matches: 124, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
19 2 0.02
20 105 0.85
21 16 0.13
22 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:50146 original size:33 final size:33
Alignment explanation
Indices: 50107--50174 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 33
50097 TTCACTTAGA
*
50107 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
50140 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
50173 TT
1 TT
50175 CAAGTTAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.10, C:0.22, G:0.19, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:50280 original size:21 final size:20
Alignment explanation
Indices: 50256--50361 Score: 91
Period size: 21 Copynumber: 5.5 Consensus size: 20
50246 TGCAGAAGAG
*
50256 TCGCAATGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* ***
50277 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAAAATGAAAA
50297 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
50318 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
50332 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
50351 TCGCAACGAGA
1 TCGCAACGAGA
50362 GAATCGCAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
14 11 0.16
16 2 0.03
17 2 0.03
19 11 0.16
20 16 0.24
21 25 0.37
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:50300 original size:20 final size:20
Alignment explanation
Indices: 50269--50365 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
50259 CAATGAGATA
50269 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
50289 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
50309 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
50328 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
50343 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
50363 AAT
1 AAT
50366 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:50313 original size:41 final size:38
Alignment explanation
Indices: 50249--50365 Score: 136
Period size: 41 Copynumber: 3.1 Consensus size: 38
50239 TTCAATTTGC
* * *
50249 AGAAGAGTCGCAATGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
50287 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
50328 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
50361 AGAAT
1 AGAAT
50366 CGCAACGCGA
Statistics
Matches: 70, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
33 23 0.33
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 32 0.46
ACGTcount: A:0.46, C:0.16, G:0.26, T:0.12
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:50335 original size:14 final size:14
Alignment explanation
Indices: 50316--50372 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
50306 GAGAAATGAA
50316 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
50330 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
50349 AATCGCAACGAGAG
1 AATCGCAACGAGAG
50363 AATCGCAACG
1 AATCGCAACG
50373 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:50348 original size:33 final size:33
Alignment explanation
Indices: 50308--50388 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
50298 CGCAACGAGA
50308 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
50341 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
50374 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
50389 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:50406 original size:19 final size:19
Alignment explanation
Indices: 50384--50477 Score: 82
Period size: 19 Copynumber: 5.5 Consensus size: 19
50374 GAAACCAAAA
*
50384 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
50403 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
50417 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
50436 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
50450 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
50469 TCGCGTTGC
1 TCGCGTTGC
50478 AATTCTCTCG
Statistics
Matches: 59, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 20 0.34
16 5 0.08
17 6 0.10
19 28 0.47
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:50425 original size:14 final size:14
Alignment explanation
Indices: 50406--50495 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
50396 TTTCATTTCG
50406 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
50420 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
50439 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
50453 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
*
50472 CGTTGCAATTCTCT
1 CGTTGCGATTCTCT
50486 CGTTGCGATT
1 CGTTGCGATT
50496 TTCATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 29 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 19 0.32
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:50431 original size:33 final size:33
Alignment explanation
Indices: 50389--50503 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
50379 CAAAATCGCA
50389 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
50422 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
50455 TTGCGATTGTCATTTCGCGTTGCAATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
50488 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
50504 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 79 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:52354 original size:93 final size:93
Alignment explanation
Indices: 52195--52568 Score: 718
Period size: 93 Copynumber: 4.1 Consensus size: 93
52185 TAGATTGCTT
*
52195 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52260 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
52288 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52353 TTTGTC-TTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
52379 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52444 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
52472 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52537 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
52564 AGTAA
1 AGTAA
52569 TGCAATCCAT
Statistics
Matches: 278, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
91 81 0.29
92 26 0.09
93 171 0.62
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:52504 original size:184 final size:185
Alignment explanation
Indices: 52195--52568 Score: 716
Period size: 184 Copynumber: 2.0 Consensus size: 185
52185 TAGATTGCTT
52195 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52260 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
52325 GTGTATTCTTTAACACTGTGAAATAGTATTTGTC-TTGTTTTGTC-TTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
52379 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
52444 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
52509 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
52564 AGTAA
1 AGTAA
52569 TGCAATCCAT
Statistics
Matches: 187, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
184 163 0.87
185 16 0.09
186 8 0.04
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:52736 original size:19 final size:19
Alignment explanation
Indices: 52616--52730 Score: 141
Period size: 19 Copynumber: 6.3 Consensus size: 19
52606 TAGTTTACTT
* *
52616 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
52636 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
52655 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
52674 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
52693 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
52707 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
52726 TCGCA
1 TCGCA
52731 TTGCGATTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 53 0.65
20 13 0.16
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:52748 original size:19 final size:18
Alignment explanation
Indices: 52726--52846 Score: 87
Period size: 19 Copynumber: 6.8 Consensus size: 18
52716 GAAACCAAAA
*
52726 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
52745 TCGCGTTGCGA--TTCTT
1 TCGCGTTGCGATTTTCTT
*
52761 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
*
52778 TCGCGTT--GATTGATTCTG
1 TCGCGTTGCGATT--TTCTT
*
52796 T--CGTTACGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
52813 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
52832 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
52847 AAGTTTCGTG
Statistics
Matches: 82, Mismatches: 7, Indels: 26
0.71 0.06 0.23
Matches are distributed among these distances:
14 8 0.10
16 12 0.15
17 12 0.15
18 6 0.07
19 44 0.54
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:52800 original size:35 final size:33
Alignment explanation
Indices: 52731--52825 Score: 127
Period size: 35 Copynumber: 2.8 Consensus size: 33
52721 CAAAATCGCA
*
52731 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
** *
52764 TTGCGATTTTGGTTTCGCGTTGATTGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTG--CGATTCTGTCG
*
52799 TTACGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
52826 TTGGTTTCGC
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
33 24 0.46
35 28 0.54
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:52854 original size:20 final size:19
Alignment explanation
Indices: 52726--52862 Score: 82
Period size: 19 Copynumber: 7.6 Consensus size: 19
52716 GAAACCAAAA
*
52726 TCGCATTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
52745 TCGCGTTGCGA--TT-CTT
1 TCGCGTTGCGATTTTAGTT
*
52761 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
*
52778 TCGCGTT--GA--TT-GAT
1 TCGCGTTGCGATTTTAGTT
*
52792 TCTGTCGTTACGATTTTCA-TT
1 TC-G-CGTTGCGATTTT-AGTT
*
52813 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
52832 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-AGTT
*
52852 TCGTGTTGCGA
1 TCGCGTTGCGA
52863 AAGTAAACTA
Statistics
Matches: 94, Mismatches: 8, Indels: 31
0.71 0.06 0.23
Matches are distributed among these distances:
14 12 0.13
15 3 0.03
16 9 0.10
17 7 0.07
18 2 0.02
19 42 0.45
20 16 0.17
21 3 0.03
ACGTcount: A:0.11, C:0.18, G:0.25, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGTT
Found at i:54803 original size:14 final size:14
Alignment explanation
Indices: 54784--54819 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
54774 ATTGTTTAAT
54784 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
54798 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
54812 TGATTTGT
1 TGATTTGT
54820 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:54942 original size:19 final size:19
Alignment explanation
Indices: 54926--55025 Score: 147
Period size: 19 Copynumber: 5.5 Consensus size: 19
54916 AAAAATGACT
54926 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
54945 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
54964 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
54978 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
54997 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
55017 ATCGCAATG
1 ATCGCAATG
55026 ATAGAATCGC
Statistics
Matches: 73, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.53
20 18 0.25
ACGTcount: A:0.45, C:0.17, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:55055 original size:53 final size:53
Alignment explanation
Indices: 54926--55041 Score: 207
Period size: 53 Copynumber: 2.2 Consensus size: 53
54916 AAAAATGACT
54926 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
* *
54978 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAATGATAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
55031 ATCGCAATGCG
1 ATCGCAATGCG
55042 TTTATAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
52 29 0.48
53 32 0.52
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.16
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:55085 original size:33 final size:33
Alignment explanation
Indices: 55048--55200 Score: 159
Period size: 33 Copynumber: 4.5 Consensus size: 33
55038 TGCGTTTATA
55048 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
55081 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
55121 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
55152 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
55185 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
55201 TTCATTTCGC
Statistics
Matches: 97, Mismatches: 12, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
31 9 0.09
32 5 0.05
33 52 0.54
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.08
39 3 0.03
40 9 0.09
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:55094 original size:19 final size:19
Alignment explanation
Indices: 55070--55286 Score: 231
Period size: 19 Copynumber: 12.4 Consensus size: 19
55060 GATTCTCTCG
55070 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55089 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
55108 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
55122 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55141 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
55160 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
55174 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
55193 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
55212 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
55226 TTGCGATTTTCATTTCCACA
1 TTGCGATTTTCATTT-CGCA
55246 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
55260 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
55279 TTGCGATT
1 TTGCGATT
55287 CTCTCGTTGC
Statistics
Matches: 166, Mismatches: 11, Indels: 42
0.76 0.05 0.19
Matches are distributed among these distances:
14 29 0.17
16 22 0.13
17 20 0.12
18 2 0.01
19 81 0.49
20 12 0.07
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:55105 original size:52 final size:52
Alignment explanation
Indices: 55048--55258 Score: 395
Period size: 52 Copynumber: 4.0 Consensus size: 52
55038 TGCGTTTATA
55048 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
55100 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
55152 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
* *
55204 ATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCCACATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
55257 AT
1 AT
55259 GTTGGGATTT
Statistics
Matches: 156, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
52 140 0.90
53 16 0.10
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:55230 original size:33 final size:33
Alignment explanation
Indices: 55089--55300 Score: 216
Period size: 33 Copynumber: 6.2 Consensus size: 33
55079 TCATTTCGCA
55089 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
55122 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
55158 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
*
55193 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
55226 TTGCGATTTTCATTTCCACATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
55260 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
55293 TTGCGATT
1 TTGCGATT
55301 GTAATTTACG
Statistics
Matches: 145, Mismatches: 20, Indels: 28
0.75 0.10 0.15
Matches are distributed among these distances:
31 9 0.06
32 5 0.03
33 72 0.50
34 27 0.19
35 6 0.04
36 4 0.03
37 2 0.01
38 8 0.06
39 3 0.02
40 9 0.06
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:57596 original size:12 final size:12
Alignment explanation
Indices: 57579--57603 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57569 TCTTCGGGGA
57579 CTTTTTCTTCTT
1 CTTTTTCTTCTT
57591 CTTTTTCTTCTT
1 CTTTTTCTTCTT
57603 C
1 C
57604 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:57812 original size:24 final size:24
Alignment explanation
Indices: 57778--57824 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
57768 CTGAAACATC
57778 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
57802 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
57825 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:58535 original size:20 final size:20
Alignment explanation
Indices: 58507--58736 Score: 219
Period size: 20 Copynumber: 11.5 Consensus size: 20
58497 AAATTTCAGT
* * *
58507 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
58527 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
58547 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
58567 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
58587 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
58607 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
* ** *
58627 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* * *
58647 GTTGTGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
58667 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
58687 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
58707 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
58727 GTTGCGATTT
1 GTTGCGATTT
58737 TGGAAAATCG
Statistics
Matches: 178, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 177 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:58753 original size:21 final size:21
Alignment explanation
Indices: 58723--58805 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
58713 ATTTTCATAT
*
58723 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
58744 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
58765 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
58786 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
58806 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:58796 original size:42 final size:43
Alignment explanation
Indices: 58703--58801 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
58693 ATTTATGTGT
* *
58703 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
58744 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
58786 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
58802 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:59005 original size:19 final size:18
Alignment explanation
Indices: 58979--59018 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
58969 GATTTCTATA
58979 TTTTTTAAATATTTTAAT
1 TTTTTTAAATATTTTAAT
58997 TTTTATTAAATATTTTAAT
1 TTTT-TTAAATATTTTAAT
59016 TTT
1 TTT
59019 AAATATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTAAATATTTTAAT
Found at i:59030 original size:18 final size:19
Alignment explanation
Indices: 58984--59034 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
58974 CTATATTTTT
* *
58984 TAAATATTTTAATTTTTAT
1 TAAATATTTTAATTTTAAA
59003 TAAATATTTTAATTTTAAA
1 TAAATATTTTAATTTTAAA
*
59022 TATAT-TTTTAATT
1 TAAATATTTTAATT
59035 ATAACTCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 8 0.28
19 21 0.72
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TAAATATTTTAATTTTAAA
Found at i:59123 original size:9 final size:9
Alignment explanation
Indices: 59106--59189 Score: 57
Period size: 9 Copynumber: 9.1 Consensus size: 9
59096 TAAGTTTTAA
59106 TAATATTTT
1 TAATATTTT
*
59115 TAATGTTTT
1 TAATATTTT
* *
59124 TTATACTTT
1 TAATATTTT
59133 TAATTATATTT
1 TAA-TAT-TTT
*
59144 TAAT-TTATG
1 TAATATT-TT
59153 TAATTATTTT
1 TAA-TATTTT
59163 TAA-ATTTT
1 TAATATTTT
59171 TAA-ATATTT
1 TAATAT-TTT
*
59180 AAATATTTT
1 TAATATTTT
59189 T
1 T
59190 TAAATTTAGG
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
8 11 0.19
9 29 0.50
10 10 0.17
11 8 0.14
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.63
Consensus pattern (9 bp):
TAATATTTT
Found at i:62650 original size:9 final size:9
Alignment explanation
Indices: 62638--62690 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
62628 TTTCTATAAT
62638 TTTTAAATA
1 TTTTAAATA
*
62647 TTTT-AATT
1 TTTTAAATA
62655 TTATTAAATA
1 TT-TTAAATA
62665 TTTTAAAT-
1 TTTTAAATA
*
62673 TTTAAATATA
1 TTTTAA-ATA
62683 TTTTAAAT
1 TTTTAAAT
62691 TTTAACTCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
8 10 0.28
9 16 0.44
10 10 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTAAATA
Found at i:62663 original size:18 final size:19
Alignment explanation
Indices: 62640--62694 Score: 80
Period size: 18 Copynumber: 3.0 Consensus size: 19
62630 TCTATAATTT
62640 TTAAATATTTT-AATTTTA
1 TTAAATATTTTAAATTTTA
62658 TTAAATATTTTAAATTTTA
1 TTAAATATTTTAAATTTTA
62677 --AATATATTTTAAATTTTA
1 TTAA-ATATTTTAAATTTTA
62695 ACTCTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
17 2 0.06
18 26 0.74
19 7 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTAAATATTTTAAATTTTA
Found at i:62845 original size:27 final size:29
Alignment explanation
Indices: 62815--62876 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
62805 TAAGTAATTA
62815 TTTTAAAATTTTTAAATATTTA-A-ATATT
1 TTTTAAAATTTTT-AATATTTATATATATT
**
62843 TTTTTGAATTTTTAATATTTATATATATT
1 TTTTAAAATTTTTAATATTTATATATATT
62872 TTTTA
1 TTTTA
62877 TTTTAGGAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 8 0.28
28 12 0.41
29 9 0.31
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (29 bp):
TTTTAAAATTTTTAATATTTATATATATT
Found at i:62856 original size:20 final size:19
Alignment explanation
Indices: 62823--62862 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
62813 TATTTTAAAA
62823 TTTTTAAATATTTAAATATT
1 TTTTTAAATATTT-AATATT
* *
62843 TTTTTGAATTTTTAATATT
1 TTTTTAAATATTTAATATT
62862 T
1 T
62863 ATATATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TTTTTAAATATTTAATATT
Found at i:62859 original size:19 final size:20
Alignment explanation
Indices: 62823--62862 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
62813 TATTTTAAAA
62823 TTTTTAAATATTTAAATATT
1 TTTTTAAATATTTAAATATT
* *
62843 TTTTTGAAT-TTTTAATATT
1 TTTTTAAATATTTAAATATT
62862 T
1 T
62863 ATATATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTTTAAATATTTAAATATT
Found at i:65607 original size:18 final size:18
Alignment explanation
Indices: 65586--65623 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
65576 AAATATATTT
*
65586 AAAATTCAAATATTTAAA
1 AAAATTAAAATATTTAAA
65604 AAAATTAAAATATTTAAA
1 AAAATTAAAATATTTAAA
65622 AA
1 AA
65624 TTATAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAATTAAAATATTTAAA
Found at i:67061 original size:23 final size:23
Alignment explanation
Indices: 67035--67092 Score: 107
Period size: 23 Copynumber: 2.5 Consensus size: 23
67025 TGGATTGATG
67035 TGTTTTGGTTAATTTGTTTGAGT
1 TGTTTTGGTTAATTTGTTTGAGT
67058 TGTTTTGGTTAATTTGTTTGAGT
1 TGTTTTGGTTAATTTGTTTGAGT
*
67081 TTTTTTGGTTAA
1 TGTTTTGGTTAA
67093 ATAATGGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.14, C:0.00, G:0.24, T:0.62
Consensus pattern (23 bp):
TGTTTTGGTTAATTTGTTTGAGT
Found at i:69355 original size:31 final size:31
Alignment explanation
Indices: 69320--69426 Score: 90
Period size: 31 Copynumber: 3.3 Consensus size: 31
69310 GCCACTGCGA
*
69320 GTAATTCCTTTTATAGGTTCTGCACCGACTG
1 GTAATTCCTTTTATAGGTTCAGCACCGACTG
* ** * * *
69351 GTAATTACTATCTCTGGCAGGTTCAGTC-GCTATTG
1 GTAATTCCT-T-T-T-ATAGGTTCAG-CACCGACTG
*
69386 GTAATTCCTTTTATAGGTTCAGCACTGACTG
1 GTAATTCCTTTTATAGGTTCAGCACCGACTG
69417 GTAATTCCTT
1 GTAATTCCTT
69427 ATGGATCTAA
Statistics
Matches: 56, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
30 1 0.02
31 29 0.52
32 2 0.04
33 2 0.04
34 2 0.04
35 19 0.34
36 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (31 bp):
GTAATTCCTTTTATAGGTTCAGCACCGACTG
Found at i:69371 original size:66 final size:66
Alignment explanation
Indices: 69296--69422 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 66
69286 GGTACGAAGA
*
69296 CTCTGGCAGGTTCAGCCACT-GCGAGTAATTCCTTTTATAGGTTCTGCACCGACTGGTAATTACT
1 CTCTGGCAGGTTCAGCCACTAGCG-GTAATTCCTTTTATAGGTTCAGCACCGACTGGTAATTACT
69360 AT
65 AT
* * ** *
69362 CTCTGGCAGGTTCAGTCGCTATTGGTAATTCCTTTTATAGGTTCAGCACTGACTGGTAATT
1 CTCTGGCAGGTTCAGCCACTAGCGGTAATTCCTTTTATAGGTTCAGCACCGACTGGTAATT
69423 CCTTATGGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 53 0.98
67 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.35
Consensus pattern (66 bp):
CTCTGGCAGGTTCAGCCACTAGCGGTAATTCCTTTTATAGGTTCAGCACCGACTGGTAATTACTA
T
Found at i:71535 original size:30 final size:30
Alignment explanation
Indices: 71499--71571 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
71489 TGAGTCAACT
* * **
71499 CGTTGACTTTGACCGAGTTAACCCGTTTTC
1 CGTTGACTTTGACAGAGTCAACCCGTTAAC
* *
71529 CGTTGACTTTGATAGAGTCAACTCGTTAAC
1 CGTTGACTTTGACAGAGTCAACCCGTTAAC
71559 CGTTGACTTTGAC
1 CGTTGACTTTGAC
71572 TTCAAATTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (30 bp):
CGTTGACTTTGACAGAGTCAACCCGTTAAC
Found at i:77336 original size:22 final size:22
Alignment explanation
Indices: 77262--77343 Score: 128
Period size: 22 Copynumber: 3.7 Consensus size: 22
77252 ATCAGCACCT
**
77262 GTGCAGCCCGCTTCCAGCATTC
1 GTGCAGCCTACTTCCAGCATTC
*
77284 GTGCAGCCAACTTCCAGCATTC
1 GTGCAGCCTACTTCCAGCATTC
77306 GTGCAGCCTACTTCCAGCATTC
1 GTGCAGCCTACTTCCAGCATTC
*
77328 GTGCAGCCTTCTTCCA
1 GTGCAGCCTACTTCCA
77344 CCATCCGTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.17, C:0.38, G:0.20, T:0.26
Consensus pattern (22 bp):
GTGCAGCCTACTTCCAGCATTC
Found at i:77761 original size:29 final size:29
Alignment explanation
Indices: 77680--77746 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
77670 TATAAAAATT
* * *
77680 ATTTATAAA-AAGTTTTACACTTTATTATA
1 ATTTATAAACAA-ATTTGCACTTCATTATA
77709 ATTTATAAACAAATTTGCACTTCATTATA
1 ATTTATAAACAAATTTGCACTTCATTATA
77738 ATTTATAAA
1 ATTTATAAA
77747 ACCTTTTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 32 0.94
30 2 0.06
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (29 bp):
ATTTATAAACAAATTTGCACTTCATTATA
Found at i:82878 original size:2 final size:2
Alignment explanation
Indices: 82871--82896 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
82861 TTTTAAACGC
82871 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
82897 GGTTGATTAG
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):
AT
Found at i:83695 original size:15 final size:15
Alignment explanation
Indices: 83675--83704 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
83665 AGAGTATTAG
83675 GATTCAAACAGTTAA
1 GATTCAAACAGTTAA
83690 GATTCAAACAGTTAA
1 GATTCAAACAGTTAA
83705 AATCAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
GATTCAAACAGTTAA
Found at i:86020 original size:25 final size:25
Alignment explanation
Indices: 85987--86070 Score: 150
Period size: 25 Copynumber: 3.4 Consensus size: 25
85977 TTTTAAAAGA
*
85987 AAATCATTTTCATTTTTAAAATTAG
1 AAATCATTTTCATTTCTAAAATTAG
86012 AAATCATTTTCATTTCTAAAATTAG
1 AAATCATTTTCATTTCTAAAATTAG
86037 AAATCATTTTCATTTCTAAAATTAG
1 AAATCATTTTCATTTCTAAAATTAG
*
86062 AATTCATTT
1 AAATCATTT
86071 GTTTTCATGG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (25 bp):
AAATCATTTTCATTTCTAAAATTAG
Found at i:88264 original size:81 final size:81
Alignment explanation
Indices: 88084--89265 Score: 1352
Period size: 81 Copynumber: 14.9 Consensus size: 81
88074 CCCAAAGGCA
* * * * * *
88084 TTTAACCTTTCATCTAACTTGCATTATTGACACATCTCTACCAAATGCACAGGTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
88149 C-TTTACTCAACGGTC
66 CTTTTACTCAACGGTC
* *
88164 TTTATCCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
* *
88229 ATTTTACTCAACGGTT
66 CTTTTACTCAACGGTC
* * * * * *
88245 TTTAACCGTTCATCTAACTGGTATAATTGATACCTTTTTTCCAAATGCACAGCTATGCCATTCAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
88310 CTTTTACTCAAC-GTA
66 CTTTTACTCAACGGTC
** * *
88325 TTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTGCC-AATGCACAGCTGGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
88389 C-TTTACTCAACGGTC
66 CTTTTACTCAACGGTC
** * * * **
88404 TTTAAATG-T--TC--A-T--C-TAATTGACACCTTTCTGCCAAAGGCACAACTATACCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
* *
88460 ATTTTACTCAACAGTC
66 CTTTTACTCAACGGTC
* * * *
88476 TTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATACACAGCTAGCCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
88541 CTTTTACTCAAC-GT-
66 CTTTTACTCAACGGTC
** *
88555 TTTAACCGTTCATCTAACTCACATAATTGACACCTTTCTGCCAAAT-CACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
88619 CTTTTACTCAATGGTC
66 CTTTTACTCAACGGTC
* * * *
88635 TTTAACC-ATCATTTAACTGGCATAATTGACACATTTCTACCAAATGCATAGCTAGGCCA-TTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
88698 CTTTTACTCAACGGTTT
66 CTTTTACTCAACGG-TC
* * * * * * *
88715 TTTAACCATTCATCTAACTGGAAAAATTGACACATTTCTATCGAATGCACAACTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
88780 GTTTTACTCAACGGTC
66 CTTTTACTCAACGGTC
** *
88796 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGA-GGAATGCACAACTAGGCCATTTA
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCT-ACCAAATGCACAGCTAGGCCATTTA
*
88860 TCTTTTACTCAATGGTC
65 TCTTTTACTCAACGGTC
* * * * ** * *
88877 TTTAACTGTTCATCAAACTGGCTTAATTGATACCTTTCGGCCCAATGCATAGCTAGGCC-TTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
88941 C-TTTACTCAAC-GTC
66 CTTTTACTCAACGGTC
* * ***
88955 TTTAACCGTTCATCTAACTGGCATAATTGACA-CTTTCTACCAAAGGCACATCTATTTCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
*
89019 CTTTTACTCAATGGTC
66 CTTTTACTCAACGGTC
* * * * **
89035 TTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGTACATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
* *
89100 CTTTTACTCAATGATC
66 CTTTTACTCAACGGTC
* * * ** *
89116 TTTAACCATTCATCTAACTGGCATAATTGAAACCCTTCTACCAAATGCACAGCTATTCCATTTAA
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
* *
89181 CTTTCACTTAACGGTC
66 CTTTTACTCAACGGTC
* * * * **
89197 TTT-ATCGTTCATCTAACTGGCATAATTGACACCTTTCTGCC-AATACACAGCCATACCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
89260 CTTTTA
66 CTTTTA
89266 ATCTTAGAAT
Statistics
Matches: 940, Mismatches: 137, Indels: 51
0.83 0.12 0.05
Matches are distributed among these distances:
70 19 0.02
71 18 0.02
72 19 0.02
73 2 0.00
74 1 0.00
75 2 0.00
76 2 0.00
77 18 0.02
78 77 0.08
79 162 0.17
80 198 0.21
81 404 0.43
82 18 0.02
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (81 bp):
TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCACAGCTAGGCCATTTAT
CTTTTACTCAACGGTC
Found at i:88787 original size:239 final size:241
Alignment explanation
Indices: 88084--89265 Score: 1369
Period size: 239 Copynumber: 5.0 Consensus size: 241
88074 CCCAAAGGCA
* * * * * * *
88084 TTTAACCTTTCATCTAACTTGCATTATTGACACATCTCTACCAAATGCACAGGTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
* * * *
88149 C-TTTACTCAACGGTCTTTATCCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAAATGCA
66 CTTTTACTCAATGGTCTTTAACC-ATCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCA
* * * *
88213 CAGCTAGGCCATTTATATTTTACTCAACGGTTTTTAACCGTTCATCTAACTGGTATAATTGATAC
130 CAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACAC
* * * * * *
88278 CTTTTTTCCAAATGCACAGCTATGCCATTCATCTTTTACTCAACGTA
195 ATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGTC
** *
88325 TTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTGCC-AATGCACAGCTGGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
* * * * *
88389 C-TTTACTCAACGGTCTTTAA--AT-GT-TCA-T--C-TAATTGACACCTTTCTGCCAAAGGCAC
66 CTTTTACTCAATGGTCTTTAACCATCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCAC
* ** * *
88445 AACTATACCATTTATATTTTACTCAACAGTCTTTAACCGTTCATCTAACTGGCATAATTGACACA
131 AGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACA
* * *
88510 TTTCTGCCAAATACACAGCTAGCCCATTTATCTTTTACTCAACGT-
196 TTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGTC
**
88555 TTTAACCGTTCATCTAACTCACATAATTGACACCTTTCTGCCAAAT-CACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
* * *
88619 CTTTTACTCAATGGTCTTTAACCATCATTTAACTGGCATAATTGACACATTTCTACCAAATGCAT
66 CTTTTACTCAATGGTCTTTAACCATCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCAC
* * * *
88684 AGCTAGGCCA-TTATCTTTTACTCAACGGTTTTTTAACCATTCATCTAACTGGAAAAATTGACAC
131 AGCTAGGCCATTTATCTTTTACTCAACGG-TCTTTAACCGTTCATCTAACTGGCATAATTGACAC
* * * *
88748 ATTTCTATCGAATGCACAACTAGGCCATTTATGTTTTACTCAACGGTC
195 ATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAAC-GTC
*** *
88796 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGAGGAATGCACAACTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
** * * * ** *
88861 CTTTTACTCAATGGTCTTTAACTGTTCATCAAACTGGCTTAATTGATACCTTTCGGCCCAATGCA
66 CTTTTACTCAATGGTCTTTAAC-CATCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCA
*
88926 TAGCTAGGCC-TTTATC-TTTACTCAAC-GTCTTTAACCGTTCATCTAACTGGCATAATTGACAC
130 CAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACAC
* * *** *
88988 -TTTCTACCAAAGGCACATCTATTTCATTTATCTTTTACTCAATGGTC
195 ATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAA-CGTC
* * * **
89035 TTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGTACATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
* * *
89100 CTTTTACTCAATGATCTTTAACCATTCATCTAACTGGCATAATTGAAACCCTTCTACCAAATGCA
66 CTTTTACTCAATGGTCTTTAACCA-TCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCA
** * * * *
89165 CAGCTATTCCATTTAACTTTCACTTAACGGTCTTT-ATCGTTCATCTAACTGGCATAATTGACAC
130 CAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACAC
* * * * **
89229 CTTTCTGCC-AATACACAGCCATACCATTTATCTTTTA
195 ATTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTA
89266 ATCTTAGAAT
Statistics
Matches: 802, Mismatches: 117, Indels: 44
0.83 0.12 0.05
Matches are distributed among these distances:
230 56 0.07
231 141 0.18
232 1 0.00
233 2 0.00
234 2 0.00
235 4 0.00
236 2 0.00
237 1 0.00
238 17 0.02
239 254 0.32
240 77 0.10
241 136 0.17
242 62 0.08
243 47 0.06
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (241 bp):
TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
CTTTTACTCAATGGTCTTTAACCATCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCAC
AGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACA
TTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGTC
Found at i:88808 original size:320 final size:320
Alignment explanation
Indices: 88084--89265 Score: 1400
Period size: 320 Copynumber: 3.7 Consensus size: 320
88074 CCCAAAGGCA
* * * * **
88084 TTTAACCTTTCATCTAACTTGCATTATTGACACATCTCTACCAAATGCACAGGTAGGCCATTTAT
1 TTTAACCATTCATCTAACTGGCATAATTGACACATTTCTACCAAATGCACAACTAGGCCATTTAT
* * *
88149 CTTTACTCAACGGTCTTTATCCGTTCATCTAACTGGCATAATTGGCACCTTTCTACCAAATGCAC
66 TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCAC
* * * *
88214 AGCTAGGCCATTTATATTTTACTCAACGGTTTTTAACCGTTCATCTAACTGGTATAATTGATACC
131 AGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACC
* * * * *
88279 TTTTTTCCAAATGCACAGCTATGCCATTCATCTTTTACTCAACGTATTTAA-CATTTCATCTAAC
196 TTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGTCTTTAACCA--TCATCTAAC
* *
88343 TGGCATAATTGACACCTTTCTGCC-AATGCACAGCTGGGCCATTTATC-TTTACTCAACGGTC
259 TGGCATAATTGACA-CTTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTC
* * * **
88404 TTTAA--ATGT--TC--A-T--C-TAATTGACACCTTTCTGCCAAAGGCACAACTATACCATTTA
1 TTTAACCAT-TCATCTAACTGGCATAATTGACACATTTCTACCAAATGCACAACTAGGCCATTTA
* * * *
88459 TATTTTACTCAACAGTCTTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAAATAC
65 T-TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGC
* **
88524 ACAGCTAGCCCATTTATCTTTTACTCAAC-GT-TTTAACCGTTCATCTAACTCACATAATTGACA
129 ACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACA
* *
88587 CCTTTCTGCCAAAT-CACAGCTAGGCCATTTATCTTTTACTCAATGGTCTTTAACCATCATTTAA
194 CCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAA-CGTCTTTAACCATCATCTAA
* *
88651 CTGGCATAATTGACACATTTCTACCAAATGCATAGCTAGGCCA-TTATCTTTTACTCAACGGTTT
258 CTGGCATAATTGACAC-TTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGG-TC
* * * *
88715 TTTAACCATTCATCTAACTGGAAAAATTGACACATTTCTATCGAATGCACAACTAGGCCATTTAT
1 TTTAACCATTCATCTAACTGGCATAATTGACACATTTCTACCAAATGCACAACTAGGCCATTTAT
**
88780 GTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGA-GGAATGC
66 -TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCT-ACCAAATGC
* * * * * *
88844 ACAACTAGGCCATTTATCTTTTACTCAATGGTCTTTAACTGTTCATCAAACTGGCTTAATTGATA
129 ACAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACA
* * * *
88909 CCTTTCGGCCCAATGCATAGCTAGGCC-TTTATC-TTTACTCAACGTCTTTAACCGTTCATCTAA
194 CCTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGTCTTTAACC-ATCATCTAA
* * *** *
88972 CTGGCATAATTGACACTTTCTACCAAAGGCACATCTATTTCATTTATCTTTTACTCAATGGTC
258 CTGGCATAATTGACACTTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTC
* * * **
89035 TTTAACCGTTCATCTAATTGGCATAATTGACACATTTCTGCCAAATGCACAACTAGTACATTTAT
1 TTTAACCATTCATCTAACTGGCATAATTGACACATTTCTACCAAATGCACAACTAGGCCATTTAT
* * * * *
89100 CTTTTACTCAATGATCTTTAACCATTCATCTAACTGGCATAATTGAAACCCTTCTACCAAATGCA
66 -TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCA
** * * * *
89165 CAGCTATTCCATTTAACTTTCACTTAACGGTCTTT-ATCGTTCATCTAACTGGCATAATTGACAC
130 CAGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACAC
* * **
89229 CTTTCTGCC-AATACACAGCCATACCATTTATCTTTTA
195 CTTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTA
89266 ATCTTAGAAT
Statistics
Matches: 727, Mismatches: 108, Indels: 54
0.82 0.12 0.06
Matches are distributed among these distances:
308 1 0.00
309 61 0.08
310 74 0.10
311 43 0.06
312 85 0.12
313 2 0.00
314 3 0.00
315 1 0.00
316 1 0.00
317 3 0.00
318 12 0.02
319 40 0.06
320 295 0.41
321 51 0.07
322 44 0.06
323 11 0.02
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (320 bp):
TTTAACCATTCATCTAACTGGCATAATTGACACATTTCTACCAAATGCACAACTAGGCCATTTAT
TTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTACCAAATGCAC
AGCTAGGCCATTTATCTTTTACTCAACGGTCTTTAACCGTTCATCTAACTGGCATAATTGACACC
TTTCTGCCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGTCTTTAACCATCATCTAACTG
GCATAATTGACACTTTCTACCAAATGCACAGCTAGGCCATTTATCTTTTACTCAACGGTC
Found at i:89527 original size:52 final size:54
Alignment explanation
Indices: 89460--89604 Score: 163
Period size: 52 Copynumber: 2.7 Consensus size: 54
89450 ACATCTATTT
* *
89460 CCATACGAAAA-TCATACACTTAGTATGAATTTCTTAGTTCGAC-AC-TGAGTGC
1 CCATACAAAAATTCATACACTTAGTATGAATTTCTTAGTTCGACAACAT-AGTAC
** * * **
89512 CCATA-AGGAATTCATACACTGAGTATGAATTTATTAGTTTTACATACATAGTAC
1 CCATACAAAAATTCATACACTTAGTATGAATTTCTTAGTTCGACA-ACATAGTAC
*
89566 CCATACAAAAATTCATACACTTAGTATGAATTCCTTAGT
1 CCATACAAAAATTCATACACTTAGTATGAATTTCTTAGT
89605 GTTGCACATA
Statistics
Matches: 75, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
51 2 0.03
52 33 0.44
54 11 0.15
55 29 0.39
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (54 bp):
CCATACAAAAATTCATACACTTAGTATGAATTTCTTAGTTCGACAACATAGTAC
Done.