Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006652.1 Hibiscus syriacus cultivar Beakdansim tig00016422_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: 100341
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:4023 original size:21 final size:21
Alignment explanation
Indices: 3998--4046 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
3988 CACATCTATT
3998 AAAGTCAAGAAGAAGTATTAC
1 AAAGTCAAGAAGAAGTATTAC
* * * *
4019 AAAGTCAAGGAGGATTGTTAC
1 AAAGTCAAGAAGAAGTATTAC
4040 AAAGTCA
1 AAAGTCA
4047 TAATTTGTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.10, G:0.22, T:0.20
Consensus pattern (21 bp):
AAAGTCAAGAAGAAGTATTAC
Found at i:9486 original size:20 final size:20
Alignment explanation
Indices: 9463--9511 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
9453 TGTACACGTA
9463 GTACTGATATTGTTCATATG
1 GTACTGATATTGTTCATATG
*
9483 GTACCGATATTGTTCATATG
1 GTACTGATATTGTTCATATG
*
9503 ATACTGATA
1 GTACTGATA
9512 CCACATGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (20 bp):
GTACTGATATTGTTCATATG
Found at i:26882 original size:49 final size:49
Alignment explanation
Indices: 26829--26953 Score: 241
Period size: 49 Copynumber: 2.6 Consensus size: 49
26819 TCCTATCGAG
26829 CCCTCCTAGTCGCAATGAAAAGGCAAACACGATAAATGGCTCTAACCAA
1 CCCTCCTAGTCGCAATGAAAAGGCAAACACGATAAATGGCTCTAACCAA
26878 CCCTCCTAGTCGCAATGAAAAGGCAAACACGATAAATGGCTCTAACCAA
1 CCCTCCTAGTCGCAATGAAAAGGCAAACACGATAAATGGCTCTAACCAA
*
26927 CCCTCCTAGTCGCGATGAAAAGGCAAA
1 CCCTCCTAGTCGCAATGAAAAGGCAAA
26954 TTGGAGTGTG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 75 1.00
ACGTcount: A:0.38, C:0.29, G:0.18, T:0.16
Consensus pattern (49 bp):
CCCTCCTAGTCGCAATGAAAAGGCAAACACGATAAATGGCTCTAACCAA
Found at i:33012 original size:33 final size:32
Alignment explanation
Indices: 32967--33035 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
32957 AAATTTTGGC
* *
32967 TTTTTTGGCTTTTTTTTCT-CGTTTTTTTGTCTT
1 TTTTTTGCCTTTTTTTT-TGCCTTTTTTTGT-TT
33000 TTTTTTGCCTTTTTTTTTGCCTTTTTTTGTTT
1 TTTTTTGCCTTTTTTTTTGCCTTTTTTTGTTT
33032 TTTT
1 TTTT
33036 GAAGAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 7 0.21
33 26 0.79
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (32 bp):
TTTTTTGCCTTTTTTTTTGCCTTTTTTTGTTT
Found at i:33035 original size:11 final size:11
Alignment explanation
Indices: 32967--33035 Score: 70
Period size: 11 Copynumber: 6.4 Consensus size: 11
32957 AAATTTTGGC
*
32967 TTTTTTGGCTT
1 TTTTTTGTCTT
* *
32978 TTTTTTCTCGT
1 TTTTTTGTCTT
32989 TTTTTTGTCTT
1 TTTTTTGTCTT
*
33000 TTTTTTGCCTT
1 TTTTTTGTCTT
*
33011 TTTTTT-TGCCT
1 TTTTTTGT-CTT
33022 TTTTTTGT-TT
1 TTTTTTGTCTT
33032 TTTT
1 TTTT
33036 GAAGAAAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
10 5 0.11
11 41 0.87
12 1 0.02
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (11 bp):
TTTTTTGTCTT
Found at i:36988 original size:42 final size:41
Alignment explanation
Indices: 36932--37064 Score: 151
Period size: 42 Copynumber: 3.2 Consensus size: 41
36922 ATTAAACTTC
36932 ACCCTAAACTGACCCCAATATTATAAAATTTAAATTAATTCG
1 ACCC-AAACTGACCCCAATATTATAAAATTTAAATTAATTCG
** *
36974 ACCCAAAGCTGACCCGGATATTATAAAATTTAAATCAATTCG
1 ACCCAAA-CTGACCCCAATATTATAAAATTTAAATTAATTCG
** * * *
37016 AGTCAAACCTGA-ACCAAGTATTATGAAATTTAAATTAATTTG
1 ACCCAAA-CTGACCCCAA-TATTATAAAATTTAAATTAATTCG
37058 ACCCAAA
1 ACCCAAA
37065 ACTAGCCCAA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
41 5 0.07
42 70 0.93
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.29
Consensus pattern (41 bp):
ACCCAAACTGACCCCAATATTATAAAATTTAAATTAATTCG
Found at i:49606 original size:2 final size:2
Alignment explanation
Indices: 49599--49630 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
49589 TAGCCAATTG
49599 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
49631 CTTAAGCTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51696 original size:14 final size:15
Alignment explanation
Indices: 51677--51706 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
51667 GGGCTTTGTA
51677 ATTTAATAT-TATTT
1 ATTTAATATATATTT
51691 ATTTAATATATATTT
1 ATTTAATATATATTT
51706 A
1 A
51707 ATAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTAATATATATTT
Found at i:51713 original size:3 final size:3
Alignment explanation
Indices: 51705--51775 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
51695 AATATATATT
* *
51705 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
51753 TAA TAA TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
51776 TGGGTAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:52229 original size:116 final size:117
Alignment explanation
Indices: 52091--52649 Score: 838
Period size: 116 Copynumber: 4.9 Consensus size: 117
52081 TGATAGAATT
*
52091 ATTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
* *
52156 TGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAG
66 TGAACTCTTCTCTGGCAATGATGATCCATCAAATGATGAATTCAAGCAAAAG
52207 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
* *
52272 TGAACTCTTC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAA-
66 TGAACTCTTCTCTGGCAATGATGATCCATCAAATGATGAATTCAAGCAAAAG
52322 AGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATT
1 A-TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATT
* * *
52384 ATGAACT-TTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAG
65 ATGAACTCTTCTCTGGCAATGATGATCCATCAAATGATGAATTCAAGCAAAAG
* * *
52436 GTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
** * *
52501 TGAAC-CTTCTCTGGCAAAAATAATCCATCAAGTGATGAATTC-AGACAAAAG
66 TGAACTCTTCTCTGGCAATGATGATCCATCAAATGATGAATTCAAG-CAAAAG
* *
52552 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTA
1 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
* *
52614 TGAACT-TTCTTTGGAAATGATGATCCATCAAATGAT
66 TGAACTCTTCTCTGGCAATGATGATCCATCAAATGAT
52650 AGATTTGAAT
Statistics
Matches: 409, Mismatches: 25, Indels: 21
0.90 0.05 0.05
Matches are distributed among these distances:
112 3 0.01
113 144 0.35
115 3 0.01
116 259 0.63
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (117 bp):
ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTA
TGAACTCTTCTCTGGCAATGATGATCCATCAAATGATGAATTCAAGCAAAAG
Found at i:52429 original size:229 final size:229
Alignment explanation
Indices: 52092--52654 Score: 896
Period size: 229 Copynumber: 2.4 Consensus size: 229
52082 GATAGAATTA
*
52092 TTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTAT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTAT
* * * * *
52157 GAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCT
63 GAACT-TTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGCAAAAGATTGAACAAATTCT
52221 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTTC-CTG
127 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC-CTTCTCTG
*** *
52285 GCAATGTTGATCCATCAAATGATGAATTCAAACAAAAAG
191 GCAAAAATAATCCATCAAATGATGAATTCAAACAAAAAG
52324 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
52389 CTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAGGTTGAACAAATTCTTCTC
66 CTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGCAAAAGATTGAACAAATTCTTCTC
*
52454 ATTATGAACTTTTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACCTTCTCTGGCAAA
131 ATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACCTTCTCTGGCAAA
* * *
52519 AATAATCCATCAAGTGATGAATTCAGACAAAAGG
196 AATAATCCATCAAATGATGAATTCAAACAAAAAG
*
52553 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
52618 CTTTCTTTGGAAATGATGATCCATCAAATGATAGATT
66 CTTTCTCTGGAAATGATGATCCATCAAATGATGGATT
52655 TGAATCTTTG
Statistics
Matches: 310, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
228 6 0.02
229 259 0.84
232 45 0.15
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (229 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGCAAAAGATTGAACAAATTCTTCTC
ATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACCTTCTCTGGCAAA
AATAATCCATCAAATGATGAATTCAAACAAAAAG
Found at i:53569 original size:83 final size:83
Alignment explanation
Indices: 53430--53629 Score: 364
Period size: 83 Copynumber: 2.4 Consensus size: 83
53420 TCTTCTATGA
53430 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
*
53495 TTCCAGAAGATGCTATTG
66 TTCCAGAAAATGCTATTG
* *
53513 GCAAATTCATTTTCCAAATTCAATGATTGGTTCTGCCAAATCAGATCAGATAACTCAAAGAACAC
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
53578 TTCCAGAAAATGCTATTG
66 TTCCAGAAAATGCTATTG
*
53596 GCAAATTCATCTTCTAAATTCAATGATTGGTTCT
1 GCAAATTCATCTTCCAAATTCAATGATTGGTTCT
53630 TAGATATCAC
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 112 1.00
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (83 bp):
GCAAATTCATCTTCCAAATTCAATGATTGGTTCTGCCAAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAAATGCTATTG
Found at i:67342 original size:2 final size:2
Alignment explanation
Indices: 67335--67364 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
67325 TAGCCAATTG
67335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
67365 CTTAAGCTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:69300 original size:12 final size:12
Alignment explanation
Indices: 69283--69316 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
69273 TTAGGGTTAG
69283 GAAACCCTAACT
1 GAAACCCTAACT
69295 GAAACCCTAACT
1 GAAACCCTAACT
69307 GAAACCCTAA
1 GAAACCCTAA
69317 ATGTTTTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.32, G:0.09, T:0.15
Consensus pattern (12 bp):
GAAACCCTAACT
Found at i:69402 original size:3 final size:3
Alignment explanation
Indices: 69396--69457 Score: 85
Period size: 3 Copynumber: 21.7 Consensus size: 3
69386 TTTATATATT
*
69396 TAA TAA TAA TAA TAA T-A TAA -GA TAA TAA TAA T-A TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
69441 TAA TAA TAA TTA TAA TA
1 TAA TAA TAA TAA TAA TA
69458 TGGGTAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
2 5 0.10
3 47 0.90
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:71459 original size:20 final size:22
Alignment explanation
Indices: 71406--71462 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
71396 GCACCTTCAT
71406 GGTGTATCGATGCACATTTAAA
1 GGTGTATCGATGCACATTTAAA
*
71428 GGATGCATCGATGCAC-TGTT-AA
1 GG-TGTATCGATGCACAT-TTAAA
71450 -GTGTATCGATGCA
1 GGTGTATCGATGCA
71463 TCACAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
20 11 0.35
21 1 0.03
22 5 0.16
23 14 0.45
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (22 bp):
GGTGTATCGATGCACATTTAAA
Found at i:79838 original size:137 final size:137
Alignment explanation
Indices: 79464--80282 Score: 907
Period size: 137 Copynumber: 6.0 Consensus size: 137
79454 GGTAAATTTT
* * * * ** *
79464 GAGATAACACGGTTCCTACATGATGAGGAAATCTGATTATCTAAGGGTGACGATGCTTC-TACGT
1 GAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACGCGGC-TCATACAT
* * *
79528 GATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCAGGCCATCTTTAG
65 GATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAG
*
79593 GGATAAATT
130 GGAT-AATA
* * * * * *
79602 GAGATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACACAGCTCCTATATG
1 GAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACGCGGCTCATACATG
* * * ** *
79667 ATAATGATATCTGGTCGGTGGATGACACAATTCCTATGTGATGAGGATGTCTGGCCATCTTTAGG
66 ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGG
*
79732 GATAATG
131 GATAATA
* * * * * *
79739 GAGATAACACGGTTCCTACATGATGTGGAAGTCTGGCTATATAAGGATGATGCGGCTCATACATT
1 GAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACGCGGCTCATACATG
* * * * *
79804 ATGAGGAGATCTAGTCGGTGGAAGATACGGTTCCTACGTGATGAGAATGTCTGACCATCTTTAGG
66 ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGG
79869 GATAATA
131 GATAATA
* * *
79876 GAGATAACACAGTTCCTACACGATGACGAAGTCTGACTATCCAAGGATGACGCGGCTCATACATG
1 GAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACGCGGCTCATACATG
* * * *
79941 ATGAGGAGATATGGTCTGTGGATGACACAGTTCCTACGTGATGAGGA---C-GTCCATCTTTAGG
66 ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGG
80002 GATAAATA
131 GAT-AATA
* * * * ** *
80010 GAGATAACATGGTTCCTACGCGACGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCCTA-AGT
1 GAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACGCGGCTCATACA-T
* * * * * *
80074 GATGAGGAGATCTGGTCGGTGGATGACATGGTTCTTACTTGATGAGGACGTCTAGCCATGTTTAG
65 GATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAG
*
80139 GGATAATG
130 GGATAATA
* * ** * * **
80147 GATACAACATTGTTCCTACACGATGAAGAAGTCTAACTATCTAAGGATGACGCAACTCCA-ACAT
1 GAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACGCGGCT-CATACAT
* * * * *
80211 GATGAGGAGATTTGGTCGGTGGATAACATGGTTCCTACGTGATGAGGAAT-TCTAGCCATTTTTA
65 GATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGG-ATGTCTGGCCATCTTTA
80275 GGGATAAT
129 GGGATAAT
80283 TTATTTCAAG
Statistics
Matches: 572, Mismatches: 99, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
133 16 0.03
134 99 0.17
137 331 0.58
138 126 0.22
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (137 bp):
GAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACGCGGCTCATACATG
ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGATGTCTGGCCATCTTTAGG
GATAATA
Found at i:80094 original size:271 final size:272
Alignment explanation
Indices: 79464--80282 Score: 948
Period size: 271 Copynumber: 3.0 Consensus size: 272
79454 GGTAAATTTT
* ** * * *
79464 GAGATAACACGGTTCCTACATGATGAGGAAATCTGATTATCTAAGGGTGACGAT-GCTTCTACGT
1 GAGATAACACGGTTCCTACATGATGAGGAAGTCTGGCTATCTAAGGATGAC-ATGGCTCCTAAGT
* *
79528 GATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCAGGCCATCTTTAG
65 GATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCTGACCATCTTTAG
* * * * * *
79593 GGATAAATTGAGATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACACAGC
130 GGAT-AATAGAGATAACACAGTTCCTACACGATGAAGAAGTCTGACTATCTAAGGATGACGCAGC
* * * * * * * *
79658 TCCTATATGATAATGATATCTGGTCGGTGGATGACACAATTCCTATGTGATGAGGATGTCTGGCC
194 TCATACATGATGAGGAGATATGGTCGGTGGATGACACAGTTCCTACGTGATGAGGA--TCTGGCC
*
79723 ATCTTTAGGGATAATG
257 ATCTTTAGGGATAATA
* * *** *
79739 GAGATAACACGGTTCCTACATGATGTGGAAGTCTGGCTATATAAGGATGATGCGGCTCATACA-T
1 GAGATAACACGGTTCCTACATGATGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCCTA-AGT
* * * * * * *
79803 TATGAGGAGATCTAGTCGGTGGAAGATACGGTTCCTACGTGATGAGAATGTCTGACCATCTTTAG
65 GATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCTGACCATCTTTAG
* * *
79868 GGATAATAGAGATAACACAGTTCCTACACGATGACGAAGTCTGACTATCCAAGGATGACGCGGCT
130 GGATAATAGAGATAACACAGTTCCTACACGATGAAGAAGTCTGACTATCTAAGGATGACGCAGCT
* *
79933 CATACATGATGAGGAGATATGGTCTGTGGATGACACAGTTCCTACGTGATGAGGA-C-GTCCATC
195 CATACATGATGAGGAGATATGGTCGGTGGATGACACAGTTCCTACGTGATGAGGATCTGGCCATC
79996 TTTAGGGATAAATA
260 TTTAGGGAT-AATA
* ** *
80010 GAGATAACATGGTTCCTACGCGACGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCCTAAGTG
1 GAGATAACACGGTTCCTACATGATGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCCTAAGTG
* * * *
80075 ATGAGGAGATCTGGTCGGTGGATGACATGGTTCTTACTTGATGAGGACGTCT-AGCCATGTTTAG
66 ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCTGA-CCATCTTTAG
* * * ** * *
80139 GGATAATGGATACAACATTGTTCCTACACGATGAAGAAGTCTAACTATCTAAGGATGACGCAACT
130 GGATAATAGAGATAACACAGTTCCTACACGATGAAGAAGTCTGACTATCTAAGGATGACGCAGCT
* * ** *
80204 CCA-ACATGATGAGGAGATTTGGTCGGTGGATAACATGGTTCCTACGTGATGAGGAATTCTAGCC
195 -CATACATGATGAGGAGATATGGTCGGTGGATGACACAGTTCCTACGTGATGAGG-A-TCTGGCC
*
80268 ATTTTTAGGGATAAT
257 ATCTTTAGGGATAAT
80283 TTATTTCAAG
Statistics
Matches: 456, Mismatches: 78, Indels: 21
0.82 0.14 0.04
Matches are distributed among these distances:
270 17 0.04
271 210 0.46
272 3 0.01
274 103 0.23
275 123 0.27
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (272 bp):
GAGATAACACGGTTCCTACATGATGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCCTAAGTG
ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCTGACCATCTTTAGG
GATAATAGAGATAACACAGTTCCTACACGATGAAGAAGTCTGACTATCTAAGGATGACGCAGCTC
ATACATGATGAGGAGATATGGTCGGTGGATGACACAGTTCCTACGTGATGAGGATCTGGCCATCT
TTAGGGATAATA
Found at i:80231 original size:408 final size:409
Alignment explanation
Indices: 79464--80282 Score: 1060
Period size: 408 Copynumber: 2.0 Consensus size: 409
79454 GGTAAATTTT
* * * * * * * *
79464 GAGATAACACGGTTCCTACATGATGAGGAAATCTGATTATCTAAGGGTGACGATGCTTCTACGTG
1 GAGATAACACAGTTCCTACACGATGACGAAATCTGACTATCCAAGGATGACGAGGCTTCTACATG
* *
79529 ATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACATGATGAGGACGTCAGGCCATCTTTAGG
66 ATGAGGAGATATGGTCGGTGGATGACACAGTTCCTACATGATGAGGACGT---GCCATCTTTAGG
* *
79594 GATAAATTGAGATAACACGGTTCCTACGCGATGAGGAAGTCTGGCTATCTAAGGATGACACAGCT
128 GATAAATAGAGATAACACGGTTCCTACGCGACGAGGAAGTCTGGCTATCTAAGGATGACACAGCT
* * * *
79659 CCTATATGATAATGATATCTGGTCGGTGGATGACACAATTCCTATGTGATGAGGATGTCTGGCCA
193 CCTATATGATAAGGAGATCTGGTCGGTGGATGACACAATTCCTATGTGATGAGGACGTCTAGCCA
* * ** **
79724 TCTTTAGGGATAATGGAGATAACACGGTTCCTACATGATGTGGAAGTCTGGCTATATAAGGATGA
258 TCTTTAGGGATAATGGAGACAACACGGTTCCTACACGATGAAGAAGTCTAACTATATAAGGATGA
* ** * *
79789 TGCGGCTCATACATTATGAGGAGATCTAGTCGGTGGA-AGATACGGTTCCTACGTGATGA-GAAT
323 CGCAACTCATACATGATGAGGAGATCTAGTCGGTGGATA-ACACGGTTCCTACGTGATGAGGAAT
79852 GTCT-GACCATCTTTAGGGATAATA
387 -TCTAG-CCATCTTTAGGGATAATA
* *
79876 GAGATAACACAGTTCCTACACGATGACGAAGTCTGACTATCCAAGGATGACGCGGC-TCATACAT
1 GAGATAACACAGTTCCTACACGATGACGAAATCTGACTATCCAAGGATGACGAGGCTTC-TACAT
* *
79940 GATGAGGAGATATGGTCTGTGGATGACACAGTTCCTACGTGATGAGGACGT-CCATCTTTAGGGA
65 GATGAGGAGATATGGTCGGTGGATGACACAGTTCCTACATGATGAGGACGTGCCATCTTTAGGGA
* **
80004 TAAATAGAGATAACATGGTTCCTACGCGACGAGGAAGTCTGGCTATCTAAGGATGACATGGCTCC
130 TAAATAGAGATAACACGGTTCCTACGCGACGAGGAAGTCTGGCTATCTAAGGATGACACAGCTCC
* *** *
80069 TA-AGTGATGAGGAGATCTGGTCGGTGGATGACATGGTTCTTACT-TGATGAGGACGTCTAGCCA
195 TATA-TGATAAGGAGATCTGGTCGGTGGATGACACAATTCCTA-TGTGATGAGGACGTCTAGCCA
* * ** *
80132 TGTTTAGGGATAATGGATACAACATTGTTCCTACACGATGAAGAAGTCTAACTATCTAAGGATGA
258 TCTTTAGGGATAATGGAGACAACACGGTTCCTACACGATGAAGAAGTCTAACTATATAAGGATGA
* * *
80197 CGCAACTCCA-ACATGATGAGGAGATTTGGTCGGTGGATAACATGGTTCCTACGTGATGAGGAAT
323 CGCAACT-CATACATGATGAGGAGATCTAGTCGGTGGATAACACGGTTCCTACGTGATGAGGAAT
*
80261 TCTAGCCATTTTTAGGGATAAT
387 TCTAGCCATCTTTAGGGATAAT
80283 TTATTTCAAG
Statistics
Matches: 352, Mismatches: 48, Indels: 18
0.84 0.11 0.04
Matches are distributed among these distances:
407 1 0.00
408 242 0.69
409 9 0.03
411 2 0.01
412 98 0.28
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (409 bp):
GAGATAACACAGTTCCTACACGATGACGAAATCTGACTATCCAAGGATGACGAGGCTTCTACATG
ATGAGGAGATATGGTCGGTGGATGACACAGTTCCTACATGATGAGGACGTGCCATCTTTAGGGAT
AAATAGAGATAACACGGTTCCTACGCGACGAGGAAGTCTGGCTATCTAAGGATGACACAGCTCCT
ATATGATAAGGAGATCTGGTCGGTGGATGACACAATTCCTATGTGATGAGGACGTCTAGCCATCT
TTAGGGATAATGGAGACAACACGGTTCCTACACGATGAAGAAGTCTAACTATATAAGGATGACGC
AACTCATACATGATGAGGAGATCTAGTCGGTGGATAACACGGTTCCTACGTGATGAGGAATTCTA
GCCATCTTTAGGGATAATA
Found at i:80415 original size:66 final size:66
Alignment explanation
Indices: 80286--80416 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
80276 GGATAATTTA
* * * **
80286 TTTCAAGAGAAACTGTCTCAAGTGAGACAAAATTTATTTCGAAGGAAACAATCTTAATTGTTTAT
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCGAAGGAAACAATCTCAAAGGTTTAT
80351 G
66 G
*
80352 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTT-TAAGGGAAACAATCTCAAAGGTTTA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCGAA-GGAAACAATCTCAAAGGTTTA
80416 T
65 T
80417 CAATTTTGTT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 2 0.03
66 56 0.97
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.31
Consensus pattern (66 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTTCGAAGGAAACAATCTCAAAGGTTTAT
G
Found at i:80794 original size:37 final size:33
Alignment explanation
Indices: 80753--80821 Score: 86
Period size: 37 Copynumber: 2.0 Consensus size: 33
80743 CAACAGAAAT
80753 TGTCTCAAG-TGAGACAAAATTTGTTTTTAGAGAAAAC
1 TGTCTCAAGCTG-GAC--AATTT-TTTTTA-AGAAAAC
80790 TGTCTCAAGCTGGACAATTTTTTTTAAGAAAA
1 TGTCTCAAGCTGGACAATTTTTTTTAAGAAAA
80822 ATTGTCTCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
33 6 0.19
34 6 0.19
35 5 0.16
37 12 0.39
38 2 0.06
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.35
Consensus pattern (33 bp):
TGTCTCAAGCTGGACAATTTTTTTTAAGAAAAC
Found at i:82648 original size:14 final size:14
Alignment explanation
Indices: 82629--82656 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
82619 CTTGTTCACG
82629 ATGAAGAAGAAGAA
1 ATGAAGAAGAAGAA
82643 ATGAAGAAGAAGAA
1 ATGAAGAAGAAGAA
82657 GATAACTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
ATGAAGAAGAAGAA
Found at i:83233 original size:26 final size:26
Alignment explanation
Indices: 83204--83256 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
83194 ATACATTTCC
*
83204 ATCACATAATTTTGTTAGCCATTGCT
1 ATCACATAATTTTGCTAGCCATTGCT
83230 ATCACATAATTTTGCTAGCCATTGCT
1 ATCACATAATTTTGCTAGCCATTGCT
83256 A
1 A
83257 ATTCTTTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (26 bp):
ATCACATAATTTTGCTAGCCATTGCT
Found at i:83474 original size:23 final size:21
Alignment explanation
Indices: 83423--83477 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
83413 ACCTTTTTCC
83423 CTTATCCTTTTACATTCCTTT
1 CTTATCCTTTTACATTCCTTT
* * *
83444 CATATCCTTTATACTTTTCTTT
1 CTTATCCTTT-TACATTCCTTT
83466 CTTTATCCTTTT
1 C-TTATCCTTTT
83478 TAATCTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 9 0.32
22 11 0.39
23 8 0.29
ACGTcount: A:0.15, C:0.25, G:0.00, T:0.60
Consensus pattern (21 bp):
CTTATCCTTTTACATTCCTTT
Found at i:83614 original size:2 final size:2
Alignment explanation
Indices: 83607--83678 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
83597 TCAAACTATC
83607 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
83649 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
83679 TATATATATA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:85119 original size:22 final size:21
Alignment explanation
Indices: 85094--85137 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
85084 ATTGTAATAG
*
85094 GGGAACCGATTCCCCTGCTACA
1 GGGAACCGA-TACCCTGCTACA
**
85116 GGGAATTGATACCCTGCTACA
1 GGGAACCGATACCCTGCTACA
85137 G
1 G
85138 TACTGCTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (21 bp):
GGGAACCGATACCCTGCTACA
Found at i:86399 original size:24 final size:24
Alignment explanation
Indices: 86354--86403 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
86344 ATAAAGAACC
*
86354 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
86378 AAAATAAAGTTTAAACAT-CCATTA
1 AAAATAAA-CTTAAACATACCATTA
86402 AA
1 AA
86404 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 16 0.70
25 7 0.30
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:87662 original size:31 final size:31
Alignment explanation
Indices: 87627--87687 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
87617 ACCTAGGCAA
**
87627 ACTATCAATATGATCCTTAAA-ACATAGGTAT
1 ACTATCAATATG-TCCCGAAAGACATAGGTAT
*
87658 ACTATCCATATGTCCCGAAAGACATAGGTA
1 ACTATCAATATGTCCCGAAAGACATAGGTA
87688 ATTCTGTCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (31 bp):
ACTATCAATATGTCCCGAAAGACATAGGTAT
Found at i:88739 original size:137 final size:137
Alignment explanation
Indices: 88453--89073 Score: 770
Period size: 137 Copynumber: 4.5 Consensus size: 137
88443 GATGCTTCTG
* * *
88453 CGTGATGAGGAAATCTGGTTGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGGCCATCTT
1 CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTT
* **
88518 TAGGGATAAATTA-AGATAACACGATTCCTACGTGATGAGGAAGTCTGACTATCTAAGGATGACA
66 TAGGGAT-AA-TAGAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACA
* *
88582 CAGCTCTTA
129 CGGCTCCTA
** *
88591 CGTGATGAGGAGATCTGGTCGGTGGATGACACAATTCCTACGTGATGAGGACGTCTGACCATGTT
1 CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTT
* * * * * * *
88656 TAGAGATAATGGAGATAACATGGTTCCTACATGATGTGGAAGTCT-AGCTATATAAGGATGACAT
66 TAGGGATAATAGAGATAACACGGTTCCTACACGATGAGGAAGTCTGA-CTATCTAAGGATGACAC
*
88720 GGATCCTA
130 GGCTCCTA
* * * **
88728 CGTGATGAGGAGATCTAGTCGGTGGATGATACGATTCCTACGTGATGAAAACGTCTGACCATCTT
1 CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTT
* * * * * *
88793 TAGGGGTAATAGAGATAACATGGTTCCTATACGATGACGAAGTCTGACTATCCAAGGATGACGCG
66 TAGGGATAATAGAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACACG
*
88858 GCTCATA
131 GCTCCTA
* * * *
88865 CATGACGAGGAGATCTGGTCTGTGGATGACACAGTTCCTACGTGATGAGGACG--T--CCATCTT
1 CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTT
* * * *
88926 TAGGGATAAATAGAGATAACACGGTTCCTACGCGACGAGGAAGTCTGGCTATCTAAGGATGACAT
66 TAGGGAT-AATAGAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACAC
88991 GGCTCCTA
130 GGCTCCTA
* * *
88999 AGTGATGAGGAGATCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGGAAGTCTAGA-CATCT
1 CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCT-GACCATCT
89063 TTAGGGATAAT
65 TTAGGGATAAT
89074 TTGTTTCAAG
Statistics
Matches: 411, Mismatches: 63, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
133 13 0.03
134 101 0.25
135 1 0.00
136 3 0.01
137 214 0.52
138 79 0.19
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (137 bp):
CGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGACCATCTT
TAGGGATAATAGAGATAACACGGTTCCTACACGATGAGGAAGTCTGACTATCTAAGGATGACACG
GCTCCTA
Found at i:89043 original size:271 final size:271
Alignment explanation
Indices: 88454--89073 Score: 816
Period size: 271 Copynumber: 2.3 Consensus size: 271
88444 ATGCTTCTGC
* * * *
88454 GTGATGAGGAAATCTGGTTGGTGGATGACACGGTTCCTACGTGATGAGGACGTCTGGCCATCTTT
1 GTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGAACGTCTGACCATCTTT
** * *
88519 AGGGATAAATTAAGATAACACGATTCCTACGTGATGAGGAAGTCTGACTATCTAAGGATGACACA
66 AGGGAT-AA-TAAGATAACACGATTCCTACACGATGACGAAGTCTGACTATCCAAGGATGACACA
* * *
88584 GCTCTTACGTGATGAGGAGATCTGGTCGGTGGATGACACAATTCCTACGTGATGAGGACGTCTGA
129 GCTCATACATGACGAGGAGATCTGGTCGGTGGATGACACAATTCCTACGTGATGAGGACG-CT-A
* * * * * *
88649 CCATGTTTAGAGATAATGGAGATAACATGGTTCCTACATGATGTGGAAGTCTAGCTATATAAGGA
192 CCATCTTTAGAGATAATAGAGATAACACGGTTCCTACACGACGAGGAAGTCTAGCTATATAAGGA
*
88714 TGACATGGATCCTAC
257 TGACATGGATCCTAA
* * * *
88729 GTGATGAGGAGATCTAGTCGGTGGATGATACGATTCCTACGTGATGAAAACGTCTGACCATCTTT
1 GTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGAACGTCTGACCATCTTT
* * * * * *
88794 AGGGGTAATAGAGATAACATGGTTCCTATACGATGACGAAGTCTGACTATCCAAGGATGACGCGG
66 AGGGATAATA-AGATAACACGATTCCTACACGATGACGAAGTCTGACTATCCAAGGATGACACAG
* *
88859 CTCATACATGACGAGGAGATCTGGTCTGTGGATGACACAGTTCCTACGTGATGAGGACG-T-CCA
130 CTCATACATGACGAGGAGATCTGGTCGGTGGATGACACAATTCCTACGTGATGAGGACGCTACCA
* * * *
88922 TCTTTAGGGATAAATAGAGATAACACGGTTCCTACGCGACGAGGAAGTCTGGCTATCTAAGGATG
195 TCTTTAGAGAT-AATAGAGATAACACGGTTCCTACACGACGAGGAAGTCTAGCTATATAAGGATG
*
88987 ACATGGCTCCTAA
259 ACATGGATCCTAA
*
89000 GTGATGAGGAGATCTGGTCGGTGGATGACATGGTTCCTACGTGATGAGGAA-GTCTAGA-CATCT
1 GTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGA-GAACGTCT-GACCATCT
89063 TTAGGGATAAT
64 TTAGGGATAAT
89074 TTGTTTCAAG
Statistics
Matches: 300, Mismatches: 41, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
270 12 0.04
271 118 0.39
272 5 0.02
273 2 0.01
274 101 0.34
275 62 0.21
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (271 bp):
GTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACGTGATGAGAACGTCTGACCATCTTT
AGGGATAATAAGATAACACGATTCCTACACGATGACGAAGTCTGACTATCCAAGGATGACACAGC
TCATACATGACGAGGAGATCTGGTCGGTGGATGACACAATTCCTACGTGATGAGGACGCTACCAT
CTTTAGAGATAATAGAGATAACACGGTTCCTACACGACGAGGAAGTCTAGCTATATAAGGATGAC
ATGGATCCTAA
Found at i:89181 original size:66 final size:66
Alignment explanation
Indices: 89075--89199 Score: 205
Period size: 66 Copynumber: 1.9 Consensus size: 66
89065 AGGGATAATT
* * *
89075 TGTTTCAAGAGAAACTGTCTCAAGCGAGATAAAATTTGTTTCAAGGGAAACAATCTCAATTGTTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAACTTGTTTCAAGGGAAACAATCTCAATTGTTT
89140 A
66 A
* *
89141 TGTTTCAAGAGAAACTTTCTCAAGAGAGAAAAAACTTGTTTTAAGGGAAACAATCTCAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAACTTGTTTCAAGGGAAACAATCTCAA
89200 AGGTTTATCA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 54 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (66 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAACTTGTTTCAAGGGAAACAATCTCAATTGTTT
A
Found at i:92670 original size:79 final size:79
Alignment explanation
Indices: 92534--92767 Score: 312
Period size: 79 Copynumber: 3.0 Consensus size: 79
92524 AAACCAATGA
*
92534 ATAAAAGAATAATGCATATGGGTGCATTAAT-GCATGAAAGGATGCCTTGGCTA-ATATGTATAT
1 ATAAAAGAATAATGCATATGGGTGCATTAATGGCATGAAAGGATGCCTTAGC-AGATATGTATAT
*
92597 GGGTACATTATCGGC
65 GGGTACATTATCAGC
* * *
92612 ATAACAGAATAATGCATATGGGTGTATTAGTGGCATGAAAGGATGCCTTAGCAGATATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTAATGGCATGAAAGGATGCCTTAGCAGATATGTATATG
92677 GGTACATTATCAGC
66 GGTACATTATCAGC
* * * ** * *
92691 ATAAAAGAATAATGCATATTGGTGCATTATTGGCATGACAA-GATGCCATAGTTGAAATGCATAT
1 ATAAAAGAATAATGCATATGGGTGCATTAATGGCATGA-AAGGATGCCTTAGCAGATATGTATAT
*
92755 GGGTGCATTATCA
65 GGGTACATTATCA
92768 ACAGGAAAGT
Statistics
Matches: 138, Mismatches: 15, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
78 29 0.21
79 107 0.78
80 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTAATGGCATGAAAGGATGCCTTAGCAGATATGTATATG
GGTACATTATCAGC
Found at i:92765 original size:45 final size:45
Alignment explanation
Indices: 92701--92951 Score: 193
Period size: 45 Copynumber: 5.6 Consensus size: 45
92691 ATAAAAGAAT
* ** * * *
92701 AATGCATATTGGTGCATTATTGGCATGACAAG-ATGCCATAGTTGA
1 AATGCATATGGGTGCATTATTAACAGGA-AAGTATACCAGAGTTGA
* *
92746 AATGCATATGGGTGCATTATCAACAGGAAAGTATACTAGAGTTGA
1 AATGCATATGGGTGCATTATTAACAGGAAAGTATACCAGAGTTGA
* * *** *
92791 AATGCATATGGGTGCATTATTAACAGAAAAATATGTTAGAGTTAA
1 AATGCATATGGGTGCATTATTAACAGGAAAGTATACCAGAGTTGA
* * * * * **
92836 AATGTATATGAGTACATTATCAACAGAAAAGTATATTATG-GTTGA
1 AATGCATATGGGTGCATTATTAACAGGAAAGTATACCA-GAGTTGA
* * ** * * *
92881 AATGTATATGGGTACATTATCT-ACATAAAAGTATACTATAATTGA
1 AATGCATATGGGTGCATTAT-TAACAGGAAAGTATACCAGAGTTGA
*
92926 AATGCATATGGGTGCATTATCAACAG
1 AATGCATATGGGTGCATTATTAACAG
92952 AAAATATGTT
Statistics
Matches: 170, Mismatches: 31, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
44 3 0.02
45 166 0.98
46 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATTAACAGGAAAGTATACCAGAGTTGA
Found at i:92974 original size:45 final size:44
Alignment explanation
Indices: 92740--92978 Score: 246
Period size: 45 Copynumber: 5.3 Consensus size: 44
92730 AAGATGCCAT
* * *
92740 AGTTGAAATGCATATGGGTGCATTATCAACAGGAAAGTATACTAG
1 AGTTGAAATGCATATGGGTGCATTATCAACA-GAAAATATATTAA
* * *
92785 AGTTGAAATGCATATGGGTGCATTATTAACAGAAAAATATGTTAG
1 AGTTGAAATGCATATGGGTGCATTATCAACAG-AAAATATATTAA
* * * * *
92830 AGTTAAAATGTATATGAGTACATTATCAACAGAAAAGTATATTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAA-TATATTAA
* * * * * *
92875 GGTTGAAATGTATATGGGTACATTATCTACATAAAAGTATACTATA
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAA-TATATTA-A
*
92921 A-TTGAAATGCATATGGGTGCATTATCAACAGAAAATATGTTAA
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAATATATTAA
*
92964 AGTTTAAAATGCATA
1 AG-TTGAAATGCATA
92979 ATGATGTATT
Statistics
Matches: 163, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.01
44 10 0.06
45 151 0.93
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.31
Consensus pattern (44 bp):
AGTTGAAATGCATATGGGTGCATTATCAACAGAAAATATATTAA
Found at i:93636 original size:2 final size:2
Alignment explanation
Indices: 93629--93679 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
93619 TGAAGGGATG
93629 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93671 AT AT AT AT A
1 AT AT AT AT A
93680 ATGTATAACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93762 original size:44 final size:46
Alignment explanation
Indices: 93707--93796 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 46
93697 ATTGGTATGG
93707 AAGAATGCCATAAATG-AAAT-GTATAATAGTGTA-TAAAAGCATGA
1 AAGAATGCCAT-AATGAAAATGGTATAATAGTGTATTAAAAGCATGA
* * *
93751 AAGAATTCCATAATGAAAATGGGTATAATGGTGTATTATAAGCATG
1 AAGAATGCCATAATGAAAAT-GGTATAATAGTGTATTAAAAGCATG
93797 GTGGGATGCT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
43 4 0.10
44 14 0.36
46 12 0.31
47 9 0.23
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (46 bp):
AAGAATGCCATAATGAAAATGGTATAATAGTGTATTAAAAGCATGA
Found at i:97642 original size:95 final size:95
Alignment explanation
Indices: 97472--97645 Score: 235
Period size: 95 Copynumber: 1.8 Consensus size: 95
97462 CAAGCAATGT
* *
97472 GGTATCGATACCATGGTAAGGGTATAGATACCAGTAAACATCGAATCTAATTTATGTATTGATAT
1 GGTATCGATACCATGGTAAGGGTATAGATACCAGGAAACATCGAAGCTAATTTATGTATTGATAT
*
97537 CAAGATGGGGTATTAGTACCATAGCTTAGG
66 CAAGAGGGGGTATTAGTACCATAGCTTAGG
* * * **
97567 GGTATCGATACCATGGTGAGGGTATCGATACTAGGCTACATCGAAGCTAATTT-TGGTATTGATA
1 GGTATCGATACCATGGTAAGGGTATAGATACCAGGAAACATCGAAGCTAATTTAT-GTATTGATA
*
97631 -CATGAAGGGGGTATT
65 TCAAG-AGGGGGTATT
97646 GATACCCTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
94 4 0.06
95 64 0.94
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (95 bp):
GGTATCGATACCATGGTAAGGGTATAGATACCAGGAAACATCGAAGCTAATTTATGTATTGATAT
CAAGAGGGGGTATTAGTACCATAGCTTAGG
Found at i:97667 original size:95 final size:94
Alignment explanation
Indices: 97472--97675 Score: 227
Period size: 95 Copynumber: 2.1 Consensus size: 94
97462 CAAGCAATGT
* *
97472 GGTATCGATACCATGGTAAGGGTATAGATACCAGTAAACATCGAATCTAATTTATGTATTGATAT
1 GGTATCGATACCATGGTAAGGGTATAGATACCAGGAAACATCGAAGCTAATTTATGTATTGATAT
* *
97537 CAAGATGGGGTATTAGTACCATAGCTTAGG
66 CAAGAGGGGGTATTAGTACCATA-CATAGG
* * * **
97567 GGTATCGATACCATGGTGAGGGTATCGATACTAGGCTACATCGAAGCTAATTT-TGGTATTGATA
1 GGTATCGATACCATGGTAAGGGTATAGATACCAGGAAACATCGAAGCTAATTTAT-GTATTGATA
* *
97631 -CATGAAGGGGGTATT-GATACCCTA-ATAGG
65 TCAAG-AGGGGGTATTAG-TACCATACATAGG
97660 GCAGTATCGATACCAT
1 G--GTATCGATACCAT
97676 AAGCAGGGGT
Statistics
Matches: 93, Mismatches: 11, Indels: 10
0.82 0.10 0.09
Matches are distributed among these distances:
93 5 0.05
94 5 0.05
95 83 0.89
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (94 bp):
GGTATCGATACCATGGTAAGGGTATAGATACCAGGAAACATCGAAGCTAATTTATGTATTGATAT
CAAGAGGGGGTATTAGTACCATACATAGG
Found at i:97975 original size:45 final size:44
Alignment explanation
Indices: 97910--98048 Score: 129
Period size: 45 Copynumber: 3.3 Consensus size: 44
97900 AGAATAATGC
*
97910 ATATGGGTGCATTAATGGCATGAAAGGATGCCTTAACTAATATGT
1 ATATGGGTACATT-ATGGCATGAAAGGATGCCTTAACTAATATGT
* *
97955 ATATGGGTACATTATCGGCAT--AA-CA-G----AA-T-A-ATGC
1 ATATGGGTACATTAT-GGCATGAAAGGATGCCTTAACTAATATGT
* *
97989 ATATGGATGCATTAGTGGCATGAAAGGATGCCTTAACTAATATGT
1 ATATGGGTACATTA-TGGCATGAAAGGATGCCTTAACTAATATGT
98034 ATATGGGTACATTAT
1 ATATGGGTACATTAT
98049 CAGCATAAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 27
0.67 0.08 0.25
Matches are distributed among these distances:
34 20 0.28
35 2 0.03
36 3 0.04
37 3 0.04
38 1 0.01
41 1 0.01
42 3 0.04
43 3 0.04
44 4 0.06
45 32 0.44
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (44 bp):
ATATGGGTACATTATGGCATGAAAGGATGCCTTAACTAATATGT
Found at i:98127 original size:45 final size:46
Alignment explanation
Indices: 98063--98318 Score: 281
Period size: 45 Copynumber: 5.7 Consensus size: 46
98053 ATAAAAGAAT
*** * * *
98063 AATGCATATGGGTGCATTATTGGCATGAAATG-ATGCCATAGTTGA
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATACTATAGTTGA
* * * *
98108 AATGCATATGGGTGCATTAT-AAAAAGGAAAGTATACTAGAGTTGA
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATACTATAGTTGA
* * * * *
98153 AATGCATGTGGGTGCATTATCAACAT-AAACGTATGCTAGAGTTAA
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATACTATAGTTGA
* * *
98198 AATGTATATGGGTACATTATCAACA-GAAAAGTATACTATGGTTGA
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATACTATAGTTGA
* * *
98243 AATGTATATGGGTACATTATCTACAT-AAAAGTATACTATAGTTGA
1 AATGCATATGGGTGCATTATCAACATGAAAAGTATACTATAGTTGA
98288 AATGCATATGGGTGCATTATCAACA-GAAAAG
1 AATGCATATGGGTGCATTATCAACATGAAAAG
98319 ATGTTAAAGT
Statistics
Matches: 177, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
44 5 0.03
45 169 0.95
46 3 0.02
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (46 bp):
AATGCATATGGGTGCATTATCAACATGAAAAGTATACTATAGTTGA
Found at i:98127 original size:79 final size:79
Alignment explanation
Indices: 97895--98099 Score: 356
Period size: 79 Copynumber: 2.6 Consensus size: 79
97885 AAACTAATGA
97895 ATAAAAGAATAATGCATATGGGTGCATTAATGGCATGAAAGGATGCCTTAACTAATATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTAATGGCATGAAAGGATGCCTTAACTAATATGTATATG
*
97960 GGTACATTATCGGC
66 GGTACATTATCAGC
* * *
97974 ATAACAGAATAATGCATATGGATGCATTAGTGGCATGAAAGGATGCCTTAACTAATATGTATATG
1 ATAAAAGAATAATGCATATGGGTGCATTAATGGCATGAAAGGATGCCTTAACTAATATGTATATG
98039 GGTACATTATCAGC
66 GGTACATTATCAGC
* *
98053 ATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAATGATGCC
1 ATAAAAGAATAATGCATATGGGTGCATTAATGGCATGAAAGGATGCC
98100 ATAGTTGAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
79 118 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (79 bp):
ATAAAAGAATAATGCATATGGGTGCATTAATGGCATGAAAGGATGCCTTAACTAATATGTATATG
GGTACATTATCAGC
Found at i:99002 original size:2 final size:2
Alignment explanation
Indices: 98995--99034 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
98985 TGAAGGGATG
98995 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
99035 ATGTATAACT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.