Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003381.1 Hibiscus syriacus cultivar Beakdansim tig00007116_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: 66642
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Found at i:2976 original size:26 final size:26
Alignment explanation
Indices: 2943--3002 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
2933 TAGGGTGGAG
2943 ATAA-AACGCCACAAAAATTAAACAT
1 ATAACAACGCCACAAAAATTAAACAT
2968 ATAACAACGCCACAAAAATTAAACAT
1 ATAACAACGCCACAAAAATTAAACAT
2994 ATAACAACG
1 ATAACAACG
3003 TTTACAATCG
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.12
26 30 0.88
ACGTcount: A:0.58, C:0.22, G:0.05, T:0.15
Consensus pattern (26 bp):
ATAACAACGCCACAAAAATTAAACAT
Found at i:3343 original size:83 final size:82
Alignment explanation
Indices: 3256--3458 Score: 216
Period size: 82 Copynumber: 2.5 Consensus size: 82
3246 CGTTTATACC
* ***
3256 ACAAACGACGCAATAG-ATTACA-CATATAGTGGCATTTATTCTTAAAACGCCGTAATAGTGATA
1 ACAAACGCCGCAATAGTATTA-ATCA-ATAGTGGCATTT-TTAGAAAAACGCCGTAATAGTGATA
*
3319 ATAAATAGTGGCG-TTTTTA
63 ATAAATAGTAGCGTTTTTTA
* * * **
3338 GACAAACGCCGCAATAGTGTTAATCACTAGTGGCGTTTTTAGAAAAACGCCGTAATAGTTTTAAT
1 -ACAAACGCCGCAATAGTATTAATCAATAGTGGCATTTTTAGAAAAACGCCGTAATAGTGATAAT
*
3403 CAATAGTAGCGTTTTTTA
65 AAATAGTAGCGTTTTTTA
* * *
3421 ACAAACGCCACAATAGT-GTAATCAATAGTGGCGTTTTT
1 ACAAACGCCGCAATAGTATTAATCAATAGTGGCATTTTT
3459 TTATAAACGC
Statistics
Matches: 103, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
81 19 0.18
82 47 0.46
83 32 0.31
84 5 0.05
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (82 bp):
ACAAACGCCGCAATAGTATTAATCAATAGTGGCATTTTTAGAAAAACGCCGTAATAGTGATAATA
AATAGTAGCGTTTTTTA
Found at i:3354 original size:41 final size:41
Alignment explanation
Indices: 3300--3481 Score: 217
Period size: 41 Copynumber: 4.5 Consensus size: 41
3290 TTTATTCTTA
* * *
3300 AAACGCCGTAATAGTGATAATAAATAGTGGCGTTTTTAGAC
1 AAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTAGAC
* *
3341 AAACGCCGCAATAGTGTTAATCACTAGTGGCGTTTTTAGAA
1 AAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTAGAC
* * *
3382 AAACGCCGTAATAGTTTTAATCAATAGTAGCGTTTTTTA-AC
1 AAACGCCGCAATAGTGTTAATCAATAGTGGCG-TTTTTAGAC
* ** *
3423 AAACGCCACAATAGTG-TAATCAATAGTGGCGTTTTTTTAT
1 AAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTAGAC
*
3463 AAACGCCGCAA-AATGTTAA
1 AAACGCCGCAATAGTGTTAA
3482 ATATATAGTC
Statistics
Matches: 120, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 8 0.07
40 28 0.23
41 78 0.65
42 6 0.05
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (41 bp):
AAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTAGAC
Found at i:3459 original size:82 final size:82
Alignment explanation
Indices: 3299--3458 Score: 243
Period size: 82 Copynumber: 2.0 Consensus size: 82
3289 ATTTATTCTT
* *
3299 AAAACGCCGTAATAGTGATAATAAATAGTGGCGTTTTTAGACAAACGCCGCAATAGTGTTAATCA
1 AAAACGCCGTAATAGTGATAATAAATAGTAGCGTTTTTAGACAAACGCCACAATAGTGTTAATCA
*
3364 CTAGTGGCGTTTTTAGA
66 ATAGTGGCGTTTTTAGA
** *
3381 AAAACGCCGTAATAGTTTTAATCAATAGTAGCGTTTTTTA-ACAAACGCCACAATAGTG-TAATC
1 AAAACGCCGTAATAGTGATAATAAATAGTAGCG-TTTTTAGACAAACGCCACAATAGTGTTAATC
3444 AATAGTGGCGTTTTT
65 AATAGTGGCGTTTTT
3459 TTATAAACGC
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
81 19 0.27
82 46 0.65
83 6 0.08
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (82 bp):
AAAACGCCGTAATAGTGATAATAAATAGTAGCGTTTTTAGACAAACGCCACAATAGTGTTAATCA
ATAGTGGCGTTTTTAGA
Found at i:3499 original size:81 final size:83
Alignment explanation
Indices: 3332--3499 Score: 193
Period size: 81 Copynumber: 2.1 Consensus size: 83
3322 AATAGTGGCG
* * * *
3332 TTTTTAGACAAACGCCGCAATAGTGTTAATCACTAGTGGCGTTTTTAGAAAAACGCCGTAATAGT
1 TTTTTAGACAAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGAAAAACGCCGCAAAAGT
* *
3397 TTTAATCAATAGTAGCGT
66 TTAAATCAATAGTACCGT
** *
3415 TTTTTA-ACAAACGCCACAATAGTG-TAATCAATAGTGGCGTTTTTTTATAAACGCCGCAAAA-T
1 TTTTTAGACAAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGAAAAACGCCGCAAAAGT
*
3477 GTTAAAT-ATATAGT-CCTT
66 -TTAAATCA-ATAGTACCGT
3495 TTTTT
1 TTTTT
3500 CTCTTACTCG
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
80 9 0.12
81 41 0.56
82 17 0.23
83 6 0.08
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (83 bp):
TTTTTAGACAAACGCCACAATAGTGTTAATCAATAGTGGCGTTTTTAGAAAAACGCCGCAAAAGT
TTAAATCAATAGTACCGT
Found at i:5034 original size:133 final size:134
Alignment explanation
Indices: 4822--5081 Score: 387
Period size: 133 Copynumber: 1.9 Consensus size: 134
4812 GCATATTGTC
* * * *
4822 ATTTATAGCGGCGTTTTTCAATCAAACGCCGCAAAATACTCTTAATTTAGTAGCGTTTGGTAACA
1 ATTTATAACGGCGTTTTTCAAGCAAACGCCACAAAATACTCTAAATTTAGTAGCGTTTGGTAACA
4887 AACGCCGCTAAAAAGTTATACTTTAAAGGCGTTTTTGACATAAACGCCGTAATAGAGTTGTATAT
66 AACGCCGCTAAAAAGTTATACTTTAAAGGCGTTTTTGACATAAACGCCGTAATAGAGTTGTATAT
4952 TATT
131 TATT
* * * * *
4956 ATTTATAACGGCGTTTTT-AAGCAAATGCCATAAAATACTCTAAATTTAGTGGCGTTTGTTACCA
1 ATTTATAACGGCGTTTTTCAAGCAAACGCCACAAAATACTCTAAATTTAGTAGCGTTTGGTAACA
* ** * *
5020 AACGCCGCTAAAAAGTTGTACTTTAGTGGTGTTTTTGACATAAACGTCGTAATAGAGTTGTA
66 AACGCCGCTAAAAAGTTATACTTTAAAGGCGTTTTTGACATAAACGCCGTAATAGAGTTGTA
5082 ATTTAGTGGC
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
133 95 0.85
134 17 0.15
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (134 bp):
ATTTATAACGGCGTTTTTCAAGCAAACGCCACAAAATACTCTAAATTTAGTAGCGTTTGGTAACA
AACGCCGCTAAAAAGTTATACTTTAAAGGCGTTTTTGACATAAACGCCGTAATAGAGTTGTATAT
TATT
Found at i:5065 original size:42 final size:42
Alignment explanation
Indices: 5019--5151 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 42
5009 GTTTGTTACC
5019 AAACGCCGCTAAAAAGTTGTACTTTAGTGGTGTTTTTG-ACAT
1 AAACGCCGCTAAAAAGTTGTACTTTAGTGGTGTTTTTGTA-AT
* * * *
5061 AAACGTCG-TAATAGAGTTGTAATTTAGTGG-CTTTTTGTAAT
1 AAACGCCGCTAA-AAAGTTGTACTTTAGTGGTGTTTTTGTAAT
* * * * *
5102 AAACACCGC--AATAGTGTGTCCCTTAGTGGTGTTTTCGTAAT
1 AAACGCCGCTAAAAAGT-TGTACTTTAGTGGTGTTTTTGTAAT
*
5143 AAACACCGC
1 AAACGCCGC
5152 AGTAGAATAG
Statistics
Matches: 74, Mismatches: 12, Indels: 11
0.76 0.12 0.11
Matches are distributed among these distances:
39 4 0.05
40 11 0.15
41 35 0.47
42 24 0.32
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.35
Consensus pattern (42 bp):
AAACGCCGCTAAAAAGTTGTACTTTAGTGGTGTTTTTGTAAT
Found at i:13272 original size:21 final size:21
Alignment explanation
Indices: 13248--13319 Score: 108
Period size: 21 Copynumber: 3.4 Consensus size: 21
13238 AAACAGATAA
*
13248 AGAAGCAGCGGCAGCACAAAG
1 AGAAGCAACGGCAGCACAAAG
* *
13269 AGAAGCAACGACAGCACATAG
1 AGAAGCAACGGCAGCACAAAG
13290 AGAAGCAACGGCAGCACAAAG
1 AGAAGCAACGGCAGCACAAAG
*
13311 AGAAACAAC
1 AGAAGCAAC
13320 ATATCAACAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.49, C:0.24, G:0.26, T:0.01
Consensus pattern (21 bp):
AGAAGCAACGGCAGCACAAAG
Found at i:13766 original size:43 final size:42
Alignment explanation
Indices: 13686--13851 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 42
13676 TGTTTTTAGC
* * * * * **
13686 AAAAACGCCGAAAAAAATCAATACCTATTGCAACGTTTGTGAG
1 AAAAACGCCGCAAAACATCAAAATCTACTGCGGCGTTTGTG-G
*
13729 AAAAATGCCGCAAAACATCAAAA-CTTACTGCGGCGTTTGTGG
1 AAAAACGCCGCAAAACATCAAAATC-TACTGCGGCGTTTGTGG
* *
13771 AATTAACGCCGCAAAACATCAAAATCTACTGCGGCGTTTATGTG
1 AA-AAACGCCGCAAAACATCAAAATCTACTGCGGCGTTTGTG-G
* * * * * *
13815 -AAAACACCACAAAACATTAACACCTATTGCGGCGTTT
1 AAAAACGCCGCAAAACATCAAAATCTACTGCGGCGTTT
13852 ATCTAAAAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
42 33 0.32
43 67 0.66
44 2 0.02
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCAAAACATCAAAATCTACTGCGGCGTTTGTGG
Found at i:13846 original size:42 final size:43
Alignment explanation
Indices: 13739--13890 Score: 126
Period size: 43 Copynumber: 3.6 Consensus size: 43
13729 AAAAATGCCG
* * * ** ** * *
13739 CAAAACATCAAAACTTACTGCGGCGTTTGTGGAATTAACGCCG
1 CAAAACATCAAAACCTATTGCGGCGTTTATCTAAAAAACACCA
* * * *
13782 CAAAACATCAAAATCTACTGCGGCGTTTATGT-GAAAACACCA
1 CAAAACATCAAAACCTATTGCGGCGTTTATCTAAAAAACACCA
* * *
13824 CAAAACATTAACACCTATTGCGGCGTTTATCTAAAAAACACCG
1 CAAAACATCAAAACCTATTGCGGCGTTTATCTAAAAAACACCA
* * *
13867 CTAAATATCAATACCTATTGCGGC
1 CAAAACATCAAAACCTATTGCGGC
13891 ATTTTTCTGA
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 32 0.36
43 56 0.64
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (43 bp):
CAAAACATCAAAACCTATTGCGGCGTTTATCTAAAAAACACCA
Found at i:13883 original size:43 final size:43
Alignment explanation
Indices: 13800--13980 Score: 168
Period size: 43 Copynumber: 4.2 Consensus size: 43
13790 CAAAATCTAC
* * * * * *
13800 TGCGGCGTTTATGT-GAAAACACCACAAAACATTAACACCTAT
1 TGCGGCGTTTATCTAAAAAACACCGCTAAATATCAACACCTAT
*
13842 TGCGGCGTTTATCTAAAAAACACCGCTAAATATCAATACCTAT
1 TGCGGCGTTTATCTAAAAAACACCGCTAAATATCAACACCTAT
* * * * *
13885 TGCGGCATTTTTCTGACAAACGCCGCTAAATATCAACACCTAT
1 TGCGGCGTTTATCTAAAAAACACCGCTAAATATCAACACCTAT
* * * * * * *
13928 TACGACATTTGTC-ACACAAACGCCGCTAAATATCAATACCTAT
1 TGCGGCGTTTATCTA-AAAAACACCGCTAAATATCAACACCTAT
13971 TGCGGCGTTT
1 TGCGGCGTTT
13981 TTTGTTTAAA
Statistics
Matches: 116, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
42 13 0.11
43 103 0.89
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
TGCGGCGTTTATCTAAAAAACACCGCTAAATATCAACACCTAT
Found at i:19624 original size:45 final size:46
Alignment explanation
Indices: 19538--19642 Score: 149
Period size: 45 Copynumber: 2.3 Consensus size: 46
19528 CATCAATACC
* * *
19538 ATGCATCGATGCATTAATGAATAAATTGAAACATTGAATGCATTTG
1 ATGCATCGATGCACTAATGAATAAATTAAAACATCGAATGCATTTG
* * *
19584 ATGCATCGATGCACT-CTGATTTAATTAAAACATCGAATGCATTTG
1 ATGCATCGATGCACTAATGAATAAATTAAAACATCGAATGCATTTG
19629 ATGCATCGATGCAC
1 ATGCATCGATGCAC
19643 AAGCCATGCA
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 39 0.74
46 14 0.26
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (46 bp):
ATGCATCGATGCACTAATGAATAAATTAAAACATCGAATGCATTTG
Found at i:19706 original size:17 final size:19
Alignment explanation
Indices: 19678--19726 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
19668 ATTTTTCAAA
19678 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
19696 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
19715 CACCGATGCACT
1 CATCGATGCACT
19727 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:25544 original size:24 final size:22
Alignment explanation
Indices: 25516--25595 Score: 92
Period size: 24 Copynumber: 3.5 Consensus size: 22
25506 TACTTAACAA
25516 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCAT-CC-TTGAATG
*
25540 TGCATCGATGCATCC--GCATG
1 TGCATCGATGCATCCTTGAATG
*
25560 ATGCACCGATGCATGCCTTGAATG
1 -TGCATCGATGCAT-CCTTGAATG
25584 TGCATCGATGCA
1 TGCATCGATGCA
25596 CAAGACCATG
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
20 4 0.08
21 12 0.25
22 2 0.04
23 13 0.27
24 17 0.35
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:28249 original size:19 final size:19
Alignment explanation
Indices: 28225--28263 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
28215 TCGAATGCAT
28225 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
28244 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
28263 T
1 T
28264 GATTTAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:28289 original size:64 final size:65
Alignment explanation
Indices: 28160--28324 Score: 181
Period size: 64 Copynumber: 2.5 Consensus size: 65
28150 TTTTCAAAGG
* *
28160 CATGCACCGATGCA-TCAATACCATGCATCGATGCATTAATGAATAAATTGAAACATCGAATGCA
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTAATGAATAAATTAAAACATCGAATGCA
28224 TTC
63 TTC
* * * * *
28227 CATGCACCGATGCACTCTCCATGCATCGATGCACT-CTGATTTAATTAAAACATTGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTAATGAATAAATTAAAACATCGAATGCATTC
* * ***
28291 GATGCATCGATGCACAAGCCATGCATCGATGCAC
1 CATGCACCGATGCACTCTCCATGCATCGATGCAC
28325 CAGGCTATTT
Statistics
Matches: 85, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 52 0.61
65 16 0.19
66 1 0.01
67 14 0.16
68 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (65 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTAATGAATAAATTAAAACATCGAATGCATTC
Found at i:28369 original size:17 final size:19
Alignment explanation
Indices: 28341--28389 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
28331 ATTTTTCAAA
28341 CATCGAATGCACT-TCA-TG
1 CATCG-ATGCACTCTCAGTG
*
28359 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTCAGTG
*
28378 CACCGATGCACT
1 CATCGATGCACT
28390 AGGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCAGTG
Found at i:28385 original size:64 final size:62
Alignment explanation
Indices: 28210--28388 Score: 168
Period size: 64 Copynumber: 2.8 Consensus size: 62
28200 GAATAAATTG
* *
28210 AAACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCA-CTCTGATTTAATTA
1 AAACATCGAATGCATT-CATGCATCGATGCACTCT-CATGCATCGATGCACCGCTGATTT-ATTA
* * *
28274 AAACATTGAATGCATTTGATGCATCGATGCACAAGC-CATGCATCGATGCACCAGGCT-ATTT-T
1 AAACATCGAATGCA-TTCATGCATCGATGCAC--TCTCATGCATCGATGCACC--GCTGATTTAT
*
28336 TC
61 TA
* *
28338 AAACATCGAATGCACTTCATGCATCGATGCACTCTTAGTGCACCGATGCAC
1 AAACATCGAATGCA-TTCATGCATCGATGCACTCTCA-TGCATCGATGCAC
28389 TAGGAGTCCA
Statistics
Matches: 95, Mismatches: 12, Indels: 16
0.77 0.10 0.13
Matches are distributed among these distances:
62 1 0.01
63 1 0.01
64 83 0.87
65 3 0.03
66 5 0.05
67 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (62 bp):
AAACATCGAATGCATTCATGCATCGATGCACTCTCATGCATCGATGCACCGCTGATTTATTA
Found at i:30173 original size:4 final size:4
Alignment explanation
Indices: 30164--32737 Score: 5106
Period size: 4 Copynumber: 645.0 Consensus size: 4
30154 ATGGGTTTCT
30164 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30212 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30260 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30308 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30356 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30404 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30452 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30500 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30548 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30596 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30644 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30692 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30740 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30788 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30836 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30884 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30932 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
30980 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31028 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31076 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31124 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31172 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31220 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31268 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31316 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31364 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31412 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31460 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31508 TCTA TCTA TCTA TCTA TCTA TCTA TCTA --TA TCTA TC-- TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31552 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31600 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31648 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31696 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31744 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31792 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31840 TCTA TCTA TCTA TC-- TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31886 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31934 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
31982 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32030 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32078 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32126 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32174 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32222 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32270 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32318 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32366 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32414 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32462 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32510 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32558 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32606 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32654 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32702 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
32738 ATATCGGTAA
Statistics
Matches: 2564, Mismatches: 0, Indels: 12
1.00 0.00 0.00
Matches are distributed among these distances:
2 6 0.00
4 2558 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (4 bp):
TCTA
Found at i:32768 original size:14 final size:14
Alignment explanation
Indices: 32749--32778 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
32739 TATCGGTAAC
32749 ATTAACTAATTACA
1 ATTAACTAATTACA
32763 ATTAACTAATTACA
1 ATTAACTAATTACA
32777 AT
1 AT
32779 AATTGAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTAACTAATTACA
Found at i:33994 original size:12 final size:12
Alignment explanation
Indices: 33979--34024 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
33969 CGGTTTTTTT
*
33979 ACCGGATAAAAA
1 ACCGGTTAAAAA
33991 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
34006 ACCGGTTAAAAA
1 ACCGGTTAAAAA
34018 ACCGGTT
1 ACCGGTT
34025 TTTATCCGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:34006 original size:15 final size:13
Alignment explanation
Indices: 33985--34025 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
33975 TTTTACCGGA
33985 TAAAAAACCGGTT
1 TAAAAAACCGGTT
33998 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
34012 TAAAAAACCGGTT
1 TAAAAAACCGGTT
34025 T
1 T
34026 TTATCCGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:36339 original size:21 final size:21
Alignment explanation
Indices: 36315--36354 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
36305 TTTATTTTAT
36315 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
36336 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
36355 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:36402 original size:33 final size:33
Alignment explanation
Indices: 36349--36480 Score: 203
Period size: 33 Copynumber: 4.0 Consensus size: 33
36339 TTTGTTTCAA
* * *
36349 TTATCGAACTT-GAAGTTTTTAAATATTTGAAT
1 TTATCAAACTTGGAAGTATTTAAGTATTTGAAT
* *
36381 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCAAACTTGGAAGTATTTAAGTATTTGAAT
36414 TTATCAAACTTGGAAGTATTTAAGTATTTGAAT
1 TTATCAAACTTGGAAGTATTTAAGTATTTGAAT
*
36447 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCAAACTTGGAAGTATTTAAGTATTTGAAT
36480 T
1 T
36481 ATGTTGAGTT
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
32 11 0.12
33 84 0.88
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (33 bp):
TTATCAAACTTGGAAGTATTTAAGTATTTGAAT
Found at i:36509 original size:13 final size:13
Alignment explanation
Indices: 36466--36520 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
36456 TTGGAAGTAT
36466 TTAAGTATTTCAA
1 TTAAGTATTTCAA
* *
36479 TTATGTTGAGTT-AA
1 TTAAG-T-ATTTCAA
36493 TTAAGTATTTCAA
1 TTAAGTATTTCAA
*
36506 TTAAGTATTTGAA
1 TTAAGTATTTCAA
36519 TT
1 TT
36521 TATCGAACTT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
12 3 0.09
13 21 0.62
14 7 0.21
15 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (13 bp):
TTAAGTATTTCAA
Found at i:36742 original size:21 final size:21
Alignment explanation
Indices: 36716--36772 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
36706 TGGAGCATGG
*
36716 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
36737 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
36758 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
36773 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:36990 original size:15 final size:15
Alignment explanation
Indices: 36938--36993 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
36928 ATCTGGAATA
*
36938 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
36953 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
* *
36968 TAAAAAAACTGGTTTTT
1 T--TAAAACCGGTTTTT
36985 TTAAAACCG
1 TTAAAACCG
36994 AAACCGGTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
15 20 0.62
17 12 0.38
ACGTcount: A:0.32, C:0.11, G:0.12, T:0.45
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:37110 original size:15 final size:17
Alignment explanation
Indices: 37084--37115 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37074 TTCTATGGGA
37084 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
37100 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
37116 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:38250 original size:150 final size:150
Alignment explanation
Indices: 37976--38275 Score: 573
Period size: 150 Copynumber: 2.0 Consensus size: 150
37966 AGGCCACTGG
37976 AAACTGGAACAACAAGCGGCAGAGTCCTCCAAGTTACAATGCACATTTGGCTTAACTAAAATAAA
1 AAACTGGAACAACAAGCGGCAGAGTCCTCCAAGTTACAATGCACATTTGGCTTAACTAAAATAAA
*
38041 TTATGCTCAAAACAAGGATCAATCTGGAAAACGTATGAATATCTTGTCTGCTCTATAAAGATATA
66 TTATGCTCAAAACAAGGATCAATCTGGAAAACGTATGAATATATTGTCTGCTCTATAAAGATATA
38106 GGCATGTAGATAAAAGTACA
131 GGCATGTAGATAAAAGTACA
*
38126 AAACTGGAACAACAAGCGGCAGATTCCTCCAAGTTACAATGCACATTTGGCTTAACTAAAATAAA
1 AAACTGGAACAACAAGCGGCAGAGTCCTCCAAGTTACAATGCACATTTGGCTTAACTAAAATAAA
*
38191 TTATGCTCAAAACAAGGATCAATCTGGAAAACGTATGAATATATTGTCTGCTCTGTAAAGATATA
66 TTATGCTCAAAACAAGGATCAATCTGGAAAACGTATGAATATATTGTCTGCTCTATAAAGATATA
38256 GGCATGTAGATAAAAGTACA
131 GGCATGTAGATAAAAGTACA
38276 TATGCACATA
Statistics
Matches: 147, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
150 147 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (150 bp):
AAACTGGAACAACAAGCGGCAGAGTCCTCCAAGTTACAATGCACATTTGGCTTAACTAAAATAAA
TTATGCTCAAAACAAGGATCAATCTGGAAAACGTATGAATATATTGTCTGCTCTATAAAGATATA
GGCATGTAGATAAAAGTACA
Found at i:40626 original size:37 final size:38
Alignment explanation
Indices: 40585--40666 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
40575 AATTTCGGGT
* *
40585 TCGGGTTAGGTCGGG-TTTTTTAAGTTTGATATTC-GTG
1 TCGGGTTAGGTCGGGTTTTTTTAAATGTGATATTCAG-G
*
40622 TCGGGTCAGGTCGGGTTTTTTTAAATGTGATATTCAGG
1 TCGGGTTAGGTCGGGTTTTTTTAAATGTGATATTCAGG
40660 TCGGGTT
1 TCGGGTT
40667 CGGGTTTAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
37 14 0.36
38 24 0.62
39 1 0.03
ACGTcount: A:0.15, C:0.10, G:0.33, T:0.43
Consensus pattern (38 bp):
TCGGGTTAGGTCGGGTTTTTTTAAATGTGATATTCAGG
Found at i:41516 original size:11 final size:11
Alignment explanation
Indices: 41500--41536 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
41490 CATGACATAT
41500 ATACATTATAC
1 ATACATTATAC
41511 ATACATTATAC
1 ATACATTATAC
41522 ATGACATATATAC
1 AT-ACAT-TATAC
41535 AT
1 AT
41537 TATTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 4 0.17
13 7 0.29
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (11 bp):
ATACATTATAC
Found at i:54394 original size:28 final size:29
Alignment explanation
Indices: 54352--54420 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
54342 AAAATATGTT
54352 TTCGTCCCCTAAAA-TTTTATAAGTTCAAG
1 TTCG-CCCCTAAAATTTTTATAAGTTCAAG
* *
54381 TTCGCCCCTGAAATTTTTATAAGTTTAAG
1 TTCGCCCCTAAAATTTTTATAAGTTCAAG
*
54410 TTCTCCCCTAA
1 TTCGCCCCTAA
54421 CTTAAAATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 8 0.23
29 27 0.77
ACGTcount: A:0.28, C:0.23, G:0.10, T:0.39
Consensus pattern (29 bp):
TTCGCCCCTAAAATTTTTATAAGTTCAAG
Found at i:56420 original size:21 final size:21
Alignment explanation
Indices: 56395--56437 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
56385 GGAATTGTTA
*
56395 AAAAATATTAATGTTTTAGGT
1 AAAAATAATAATGTTTTAGGT
56416 AAAAATAATAATGTTTTAGGT
1 AAAAATAATAATGTTTTAGGT
56437 A
1 A
56438 TTTTTTTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (21 bp):
AAAAATAATAATGTTTTAGGT
Found at i:60173 original size:23 final size:23
Alignment explanation
Indices: 60147--60192 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
60137 TTTTAAATAA
* *
60147 CTCTGTTTTTATGACATGTTTTT
1 CTCTATTTTTATGACACGTTTTT
*
60170 CTCTATTTTTTTGACACGTTTTT
1 CTCTATTTTTATGACACGTTTTT
60193 ATTTGTTTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.13, C:0.15, G:0.11, T:0.61
Consensus pattern (23 bp):
CTCTATTTTTATGACACGTTTTT
Found at i:61332 original size:17 final size:16
Alignment explanation
Indices: 61301--61354 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 16
61291 TTTAATGCAA
61301 TAAAAT-AAAATATAAT
1 TAAAATAAAAATA-AAT
61317 TAACAATAGAAAATAAAT
1 TAA-AATA-AAAATAAAT
61335 ATAAAATAAAAATAAAT
1 -TAAAATAAAAATAAAT
61352 TAA
1 TAA
61355 TATTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 6 0.18
17 12 0.35
18 7 0.21
19 9 0.26
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (16 bp):
TAAAATAAAAATAAAT
Found at i:61348 original size:24 final size:24
Alignment explanation
Indices: 61302--61348 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
61292 TTAATGCAAT
* *
61302 AAAATAAAATATAATTAACAATAG
1 AAAATAAAATATAAATAAAAATAG
61326 AAAAT-AAATATAAAATAAAAATA
1 AAAATAAAATAT-AAATAAAAATA
61349 AATTAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (24 bp):
AAAATAAAATATAAATAAAAATAG
Done.