Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004008.1 Hibiscus syriacus cultivar Beakdansim tig00008737_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: 207271
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:12217 original size:24 final size:24
Alignment explanation
Indices: 12162--12217 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
12152 GAATATAAAA
* * *
12162 TCTATGTGGCACTTCGGTGCATAT
1 TCTACGTGGCACTTCAGTGCAAAT
* *
12186 TTTGCGTGGCACTTCAGTGCAAAT
1 TCTACGTGGCACTTCAGTGCAAAT
12210 TCTACGTG
1 TCTACGTG
12218 TCAGTTTCGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (24 bp):
TCTACGTGGCACTTCAGTGCAAAT
Found at i:13191 original size:23 final size:23
Alignment explanation
Indices: 13161--13213 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
13151 GAGTCGAGGG
*
13161 TTCTATGTGGTTCTACAGGACAA
1 TTCTATGTGGTTATACAGGACAA
* *
13184 TTCTATGTGGTTATTCGGGACAA
1 TTCTATGTGGTTATACAGGACAA
13207 TTCTATG
1 TTCTATG
13214 CGGTCCTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.40
Consensus pattern (23 bp):
TTCTATGTGGTTATACAGGACAA
Found at i:13226 original size:23 final size:23
Alignment explanation
Indices: 13178--13247 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 23
13168 TGGTTCTACA
* *
13178 GGACAATTCTATGTGGTTATTCG
1 GGACAATTCTATGCGGTCATTCG
* *
13201 GGACAATTCTATGCGGTCCTTGG
1 GGACAATTCTATGCGGTCATTCG
* *
13224 GGACAAATCTACGCGG-CACTTCG
1 GGACAATTCTATGCGGTCA-TTCG
13247 G
1 G
13248 TGCATATTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (23 bp):
GGACAATTCTATGCGGTCATTCG
Found at i:13258 original size:24 final size:24
Alignment explanation
Indices: 13227--13289 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
13217 TCCTTGGGGA
* *
13227 CAAA-TCTACGCGGCACTTCGGTG
1 CAAATTCTACGTGGCACTTCAGTG
*
13250 CATATTCTACGTGGCACTTCAGTG
1 CAAATTCTACGTGGCACTTCAGTG
13274 CAAATTCTACGTGGCA
1 CAAATTCTACGTGGCA
13290 GCTTTGACTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
23 3 0.09
24 32 0.91
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (24 bp):
CAAATTCTACGTGGCACTTCAGTG
Found at i:15145 original size:19 final size:19
Alignment explanation
Indices: 15118--15154 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15108 ATTAGGATAG
* *
15118 TATTGTTATTGTTATTTTT
1 TATTATTATTATTATTTTT
15137 TATTATTATTATTATTTT
1 TATTATTATTATTATTTT
15155 CAAGTATTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (19 bp):
TATTATTATTATTATTTTT
Found at i:15504 original size:21 final size:18
Alignment explanation
Indices: 15460--15503 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
15450 CATATATTTT
*
15460 TCATCTTCCACTACTCTA
1 TCATCATCCACTACTCTA
15478 TCATCATCCACTACTCTA
1 TCATCATCCACTACTCTA
15496 TCATCATC
1 TCATCATC
15504 ACCAAATCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.25, C:0.39, G:0.00, T:0.36
Consensus pattern (18 bp):
TCATCATCCACTACTCTA
Found at i:15793 original size:18 final size:18
Alignment explanation
Indices: 15770--15804 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
15760 TCATCCGCTA
15770 TAGCATCTCTATCAGCTG
1 TAGCATCTCTATCAGCTG
15788 TAGCATCTCTATCAGCT
1 TAGCATCTCTATCAGCT
15805 AGAGGAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (18 bp):
TAGCATCTCTATCAGCTG
Found at i:16144 original size:39 final size:40
Alignment explanation
Indices: 16051--16157 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 40
16041 ATAAAATAGC
*
16051 AGTAGTTTAGATTAACTAGAA-TTATATCTTATTTGATTT
1 AGTAGTTTAGATTAATTAGAACTTATATCTTATTTGATTT
16090 AGTAGTTTAGATTAATTAGAACTCTATA-C-TATTTGATTT
1 AGTAGTTTAGATTAATTAGAACT-TATATCTTATTTGATTT
* *
16129 AGTAGTTTAAATTAATTATAACTT-TATCT
1 AGTAGTTTAGATTAATTAGAACTTATATCT
16158 AGGAGTAATT
Statistics
Matches: 61, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
37 2 0.03
38 2 0.03
39 51 0.84
40 2 0.03
41 4 0.07
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.48
Consensus pattern (40 bp):
AGTAGTTTAGATTAATTAGAACTTATATCTTATTTGATTT
Found at i:29746 original size:14 final size:15
Alignment explanation
Indices: 29710--29748 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
29700 GTGAAATTCT
*
29710 AAATATTTAAATAAA
1 AAATATTTATATAAA
29725 AAATATTTATATAAA
1 AAATATTTATATAAA
29740 AAA-ATTTAT
1 AAATATTTAT
29749 TTGTTGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AAATATTTATATAAA
Found at i:36634 original size:26 final size:26
Alignment explanation
Indices: 36598--36679 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
36588 AATTTTTCGT
36598 AGAGGCAAGGGGAGAAGAAGATACAC
1 AGAGGCAAGGGGAGAAGAAGATACAC
36624 AGAGGCAAGGGGAGAAGAAGATACAC
1 AGAGGCAAGGGGAGAAGAAGATACAC
*
36650 AGAGGCAAAGGGAGAAGAAGATACAC
1 AGAGGCAAGGGGAGAAGAAGATACAC
36676 AGAG
1 AGAG
36680 ACAAACGGGG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.48, C:0.11, G:0.38, T:0.04
Consensus pattern (26 bp):
AGAGGCAAGGGGAGAAGAAGATACAC
Found at i:37195 original size:23 final size:23
Alignment explanation
Indices: 37160--37216 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
37150 ATCAAATACA
* *
37160 ATAATATATTAGGTAGCGCTTAT
1 ATAATAAAATAGGTAGCGCTTAT
* *
37183 ATAATGAAATAGGTTGCGCTTAT
1 ATAATAAAATAGGTAGCGCTTAT
37206 ATAATAAAATA
1 ATAATAAAATA
37217 TACATTTAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (23 bp):
ATAATAAAATAGGTAGCGCTTAT
Found at i:37292 original size:87 final size:87
Alignment explanation
Indices: 37133--37294 Score: 234
Period size: 87 Copynumber: 1.9 Consensus size: 87
37123 ATGTTATATT
* * * *
37133 ATTTAACTGAAAATATTATCAAATACAATAATATATTAGGTAGCGCTTATATAATGAAATAGGTT
1 ATTTAACCGAAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATGAAATAGGTA
*
37198 GCGCTTATATAATAAAATATAC
66 GCACTTATATAATAAAATATAC
* * * * *
37220 ATTTAACCGGAAATATTATTAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATATGTA
1 ATTTAACCGAAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATGAAATAGGTA
37285 GCACTTATAT
66 GCACTTATAT
37295 TAACATATTT
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 65 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (87 bp):
ATTTAACCGAAAATATTATCAAATACAATAACATATTAGGTAACGCTTATATAATGAAATAGGTA
GCACTTATATAATAAAATATAC
Found at i:37720 original size:200 final size:199
Alignment explanation
Indices: 37297--38010 Score: 811
Period size: 200 Copynumber: 3.6 Consensus size: 199
37287 ACTTATATTA
** * * * * * * *
37297 ACATATTTTCTAACT-AAATTGGTATATTTGTTCAGGTAACATTGCAAATTTACCTATTATATTA
1 ACATATTTTCTAA-TAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATTA
* * * *
37361 TAATTATCAGTTTCGCTATTTTTGGGATTGATA-TAATTT--TAAATATATCGACACTTTATTTG
65 TAATTATCAGTTTCGATGTTTTTGGGATCGATACT--TTTAATAAATGTATCGACACTTTA-TTG
* * * *
37423 TGCATCTCGTTGGGCATTCATTCT-GA-AACAAAGTATCGACACAAACTTAAAAAGTATCGATAC
127 TGCACCTCGTTTGGCATTCATTCTGGACAAC-AAGTATCGACACAAATTTAAAAAGTAGCGATAC
*
37486 ATTATGTAG
191 ATTATGTTG
* ** * * * *
37495 ACATATTTTATTGTAAAATCGGTATATTTCTACCGGGTACATTGTAAATTTACATATTACATTGT
1 ACATATTTTCTAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATTAT
* * *
37560 AATTATCAGTTTTGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATTCATAC
66 AATTATCAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATT-GTGC
*
37625 ACCTCGTTTGACATTCATTCTGGACAA-AATGTATCGACACAAATTTAAAAAGTAGCGATACATT
130 ACCTCGTTTGGCATTCATTCTGGACAACAA-GTATCGACACAAATTTAAAAAGTAGCGATACATT
37689 ATGTTG
194 ATGTTG
* * * * *
37695 ACCTATTCTCTCATAAAACCGGTATATTTATACCGATTACATTATAAATTTACATATTACATTAT
1 ACATATTTTCTAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATTAT
*
37760 AATTATCGGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGTGTGC
66 AATTATCAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTAT-TGTGC
* * ** *
37825 ACCTCGTTTGGGCATTCATTCTGGACAATAAGTATCAACACAAATTCCACAAGT-GTCGATACAT
130 ACCTCGTTT-GGCATTCATTCTGGACAACAAGTATCGACACAAATTTAAAAAGTAG-CGATACAT
37889 TATGTTG
193 TATGTTG
* * * * * *
37896 ACTTGTTTTCTAAT-TAACCGGTATCTTTATACCGGTTACATTGTTAATTTACCTATTACATTAT
1 ACATATTTTCTAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATTAT
* *
37960 AATTA-CTGTTTTCGATGTTTTTGGGGTCGATACTTTTAGA-AAATGTATCGA
66 AATTATCAG-TTTCGATGTTTTTGGGATCGATACTTTTA-ATAAATGTATCGA
38011 TATATATGTT
Statistics
Matches: 444, Mismatches: 58, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
197 4 0.01
198 80 0.18
199 43 0.10
200 250 0.56
201 65 0.15
202 2 0.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (199 bp):
ACATATTTTCTAATAAAACCGGTATATTTATACCGGTTACATTGTAAATTTACATATTACATTAT
AATTATCAGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATTGTGCA
CCTCGTTTGGCATTCATTCTGGACAACAAGTATCGACACAAATTTAAAAAGTAGCGATACATTAT
GTTG
Found at i:38341 original size:12 final size:12
Alignment explanation
Indices: 38324--38353 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
38314 ACCCTTCAAC
38324 TACCACTACCAA
1 TACCACTACCAA
38336 TACCACTACCAA
1 TACCACTACCAA
38348 TACCAC
1 TACCAC
38354 ATCCTATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (12 bp):
TACCACTACCAA
Found at i:40808 original size:19 final size:19
Alignment explanation
Indices: 40784--40830 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
40774 TTACATTCAC
40784 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
40803 ATACAAAATTATGAATCGT
1 ATACAAAATTATAAATCGT
40822 ATACAAAAT
1 ATACAAAAT
40831 CTCCCCTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:42005 original size:200 final size:200
Alignment explanation
Indices: 41656--42618 Score: 1261
Period size: 199 Copynumber: 4.8 Consensus size: 200
41646 GCGTAATTTA
* * * * **
41656 AAAAAATATCGACATAAACTTAAAAAGTGTCGATACTTTATGTAGACCTATTTTCTCATAAAATT
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
** * * *
41721 GGTATATTTCTACTAGTTACATTATTAATTTACCTATTGCATTGTAATTATCGGTTTCGATGTTT
66 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTT
41786 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCATTC
131 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCATTC
41851 TGGAC
196 TGGAC
* * *
41856 AAAAAGTATCGACATAAATTTAGAAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* *
41921 GGTATATTTCTACCGGTTACATTGTTAATTTACCTATTACATTGTAATTATCGGTATCGATGTTT
66 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTT
* * ** * *
41986 TTTGGATCGATACAATTTTAAATGTATTGACACTTTATTTGTGCACCTCGTTT-GTCATTCATTA
131 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCATTC
42050 TGGAC
196 TGGAC
* * * *
42055 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACATGTTTTCTCATAAAATC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * * * * ** * * *
42120 GGTGTATTTATACTGGATACATTGTAAAGTTATATATTACATTATAATTATGGGTTTCGATGGTT
66 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTT
*
42185 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCATTTGG-CATTCATTC
131 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCATTC
42249 TGGAC
196 TGGAC
* * * * * * *
42254 AAAATGTATCAACACAAATTTAAAAAGTGTCGATATATTATGTTGACATATTTTCTAATTAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * * * * *
42319 AGTATATTTATATCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTT
66 GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTT
* * *
42384 TTGGGATCGATAC-TTGTTATAAATGTATCGACACTTTATGCGTACACCTCGTTTGGACATTTAT
131 TTGGGATCGATACAAT-TT-TAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCAT
42448 TCTGGAC
194 TCTGGAC
* * * * * *
42455 AAAAAGTATCAACACAAATTTAGAAAGTGTCAATACATTATGTAGACCCATTCTCTCACAAAACC
1 AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
* * * *
42520 AGTATATTTCTACCGGTTACAATT-CAAATTTACCTATTACATTGTAATTATCAGTTTCGATGCT
66 GGTATATTTCTACCGGTTAC-ATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTT
* *
42584 TTTGGGATTGATAC-TTTTAATAAATGTATCGACAC
130 TTTGGGATCGATACAATTT--TAAATGTATCGACAC
42619 ATTTGTTTAC
Statistics
Matches: 672, Mismatches: 85, Indels: 11
0.88 0.11 0.01
Matches are distributed among these distances:
198 1 0.00
199 311 0.46
200 205 0.31
201 152 0.23
202 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (200 bp):
AAAAAGTATCGACACAAATTTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAACC
GGTATATTTCTACCGGTTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGTTT
TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCATTC
TGGAC
Found at i:42409 original size:399 final size:399
Alignment explanation
Indices: 41656--42618 Score: 1277
Period size: 399 Copynumber: 2.4 Consensus size: 399
41646 GCGTAATTTA
* * * * *
41656 AAAAAATATCGACATAAACTTAAAAAGTGTCGATACTTTATGTAGACCTATTTTCTCATAAAATT
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAATC
* * * *
41721 GGTATATTTCTACTAGTTACATTATTAATTTACCTATTGCATTGTAATTATCGGTTTCGATGTTT
66 GGTATATTTCTACTGGTTACATT-TAAATTTACCTATTACATTGTAATTATCGGTTTCGATGCTT
*
41786 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGACATTCATTC
130 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCATTTGGACATTCATTC
* * * * *
41851 TGGACAAAAAGTATCGACATAAATTTAGAAAGTGTCGATACATTATGTAGACCTATTCTCTCATA
195 TGGACAAAAAGTATCAACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTCTCTAATA
* * ** * *
41916 AAACCGGTATATTTCTACCGGTTACATTGTTAATTTACCTATTACATTGTAATTATCGGTATCGA
260 AAACCAGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTATCGA
* * ** * *
41981 TGTTTTTTGGATCGATACAATTTTAAATGTATTGACACTTTATTTGTGCACCTCGTTT-GTCATT
325 TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTACACCTCGTTTGGACATT
42045 CATTATGGAC
390 CATTATGGAC
* *
42055 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACATGTTTTCTCATAAAATC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAATC
* * * * ** * * *
42120 GGTGTATTTATACTGGATACATTGTAAAGTTATATATTACATTATAATTATGGGTTTCGATGGTT
66 GGTATATTTCTACTGGTTACATT-TAAATTTACCTATTACATTGTAATTATCGGTTTCGATGCTT
42185 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCATTTGG-CATTCATTC
130 TTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCATTTGGACATTCATTC
* * * * *
42249 TGGACAAAATGTATCAACACAAATTTAAAAAGTGTCGATATATTATGTTGACATATTTTCTAATT
195 TGGACAAAAAGTATCAACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTCTCTAATA
* *
42314 AAACCAGTATATTTATATCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTTTCGA
260 AAACCAGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTATCGA
*
42379 TGTTTTTGGGATCGATAC-TTGTTATAAATGTATCGACACTTTATGCGTACACCTCGTTTGGACA
325 TGTTTTTGGGATCGATACAAT-TT-TAAATGTATCGACACTTTATGCGTACACCTCGTTTGGACA
* *
42443 TTTATTCTGGAC
388 TTCATTATGGAC
* * * * * * * *
42455 AAAAAGTATCAACACAAATTTAGAAAGTGTCAATACATTATGTAGACCCATTCTCTCACAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAATC
* * * *
42520 AGTATATTTCTACCGGTTACAATTCAAATTTACCTATTACATTGTAATTATCAGTTTCGATGCTT
66 GGTATATTTCTACTGGTTAC-ATTTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGCTT
* *
42585 TTGGGATTGATAC-TTTTAATAAATGTATCGACAC
130 TTGGGATCGATACAATTT--TAAATGTATCGACAC
42619 ATTTGTTTAC
Statistics
Matches: 485, Mismatches: 73, Indels: 10
0.85 0.13 0.02
Matches are distributed among these distances:
397 1 0.00
398 140 0.29
399 198 0.41
400 128 0.26
401 18 0.04
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.38
Consensus pattern (399 bp):
AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATTATGTAGACCTATTTTCTCATAAAATC
GGTATATTTCTACTGGTTACATTTAAATTTACCTATTACATTGTAATTATCGGTTTCGATGCTTT
TGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCATTTGGACATTCATTCT
GGACAAAAAGTATCAACACAAATTTAAAAAGTGTCGATACATTATGTAGACATATTCTCTAATAA
AACCAGTATATTTATACCGGTTACATTGCAAAATTACCTATTACATTATAATTATCGGTATCGAT
GTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTACACCTCGTTTGGACATTC
ATTATGGAC
Found at i:45865 original size:162 final size:162
Alignment explanation
Indices: 45598--45976 Score: 679
Period size: 162 Copynumber: 2.3 Consensus size: 162
45588 TACACGTACT
*
45598 TATTAAAGTATCACCACTTTCAACATATCCGGTAGCGCTTTACC-GATTTTGTCATATTTTTACA
1 TATTAAAGTATCAACACTTTCAACATATCCGGTAGCGCTTTACCAG-TTTTGTCATATTTTTACA
*
45662 TGTTATATTGTTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGC
65 TGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGC
45727 TTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
130 TTCTCTTTTAAATTCAAAAAGTGTCGATACTTA
* *
45760 TATTAAAGTATCAAAACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATATTTTTACCT
1 TATTAAAGTATCAACACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATATTTTTACAT
45825 GTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCT
66 GTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCT
*
45890 TCTCTTTTAAATTCCAAAAGTGTCGATACTTA
131 TCTCTTTTAAATTCAAAAAGTGTCGATACTTA
* *
45922 TATTAAAGTATCGACACTTTCAACATATCTGGTAGCGCTTTACCAGTTTTGTCAT
1 TATTAAAGTATCAACACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCAT
45977 TTCGAGACTA
Statistics
Matches: 208, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
162 207 1.00
163 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (162 bp):
TATTAAAGTATCAACACTTTCAACATATCCGGTAGCGCTTTACCAGTTTTGTCATATTTTTACAT
GTTATATTATTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGCTATTACTGCT
TCTCTTTTAAATTCAAAAAGTGTCGATACTTA
Found at i:46127 original size:182 final size:181
Alignment explanation
Indices: 45801--46215 Score: 609
Period size: 182 Copynumber: 2.3 Consensus size: 181
45791 GTAGCGCTTT
*
45801 ACCAGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATCGA
1 ACCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACA-TTTTATAAAGTATCGA
* * *
45866 CACTTTATAGGCGCTATTACTGCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGT
65 CACTTTATAGGCGATATTACTACTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAACT
* * *
45931 ATCGACACTTTCAACATATCTGGTAGCGCTTTACCAGTTTTGTCAT-TTCGAG
130 ATCGACACTTTCAACATATCTGGTAGCACTTTACCAGTTTTGTCATAAT-GAA
* * *
45983 ACTAGTTTTGTCATATTTTTACCTGTTATATTGTTATGAATCGATACATTTTATAAATTATCGAC
1 ACCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGAC
* *
46048 ACTTTATAGGCGATATTACTACTTCTCTTTTAAATTCTAAAAGTGTCGATACTTAT-TTCAATCT
66 ACTTTATAGGCGATATTACTACTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATT-AAACT
* * *
46112 AATCGATACTTTCAACATATCTGGTAGCACTTTATCGGTTTTGTCATAATGAA
130 -ATCGACACTTTCAACATATCTGGTAGCACTTTACCAGTTTTGTCATAATGAA
* * * *
46165 ACCGGTTTTGTCATATTTTTACCTGCTATATTGCTATGGCTCGATACATTT
1 ACCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTT
46216 ATATTTGTGT
Statistics
Matches: 209, Mismatches: 21, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
180 2 0.01
181 72 0.34
182 134 0.64
183 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (181 bp):
ACCAGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTATAAAGTATCGAC
ACTTTATAGGCGATATTACTACTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAACTA
TCGACACTTTCAACATATCTGGTAGCACTTTACCAGTTTTGTCATAATGAA
Found at i:50264 original size:57 final size:57
Alignment explanation
Indices: 50190--50450 Score: 364
Period size: 57 Copynumber: 4.6 Consensus size: 57
50180 CTTAGTGTAT
50190 AAAAAGTTAAGAAATTCATAATTT-TTTATGAATTTCCGTATGAGCACTTTGTGTGC
1 AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGAGCACTTTGTGTGC
* * * *
50246 AAAAAAGTTAAAAAATTCATAATTTGTTTATGAATTTCCGAATGGGTACTTTGTGTGC
1 -AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGAGCACTTTGTGTGC
** * *
50304 AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTTTGTATG-GTAACTTTGAGTGC
1 AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGAG-CACTTTGTGTGC
* * ** * *
50361 AAAAAGTTAAAAAATTAATAATTTGTTTATGAATTTTTGTATGAGCACTTCGGGTGC
1 AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGAGCACTTTGTGTGC
50418 AAAAAGTTAAGAAATTCATAATTTGTTTATGAA
1 AAAAAGTTAAGAAATTCATAATTTGTTTATGAA
50451 ATCCTATATA
Statistics
Matches: 184, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
56 1 0.01
57 153 0.83
58 30 0.16
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.39
Consensus pattern (57 bp):
AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGAGCACTTTGTGTGC
Found at i:50749 original size:68 final size:68
Alignment explanation
Indices: 50663--51071 Score: 575
Period size: 68 Copynumber: 6.0 Consensus size: 68
50653 AAATATTAAT
* * * * *
50663 GGCCTAGATGTGTATTTGACATAAAGGTGTCATTTATGCCAGTTAAATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
50728 TGA
66 TGA
* * *
50731 GGCCTAGCTGTGCATTTGACAAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGGGTCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
50796 TGA
66 TGA
*
50799 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATTCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
50864 TGA
66 TGA
* * ** ** * * *
50867 GGTCTAACTGTGCATTTGATTGAAATATTTCAATTATGCCAATTAAATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
50932 TGA
66 TGA
* * *
50935 GGCCTCGCTGTGCATTTGACAGAAATGTGTCAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
51000 TGA
66 TGA
* * * * * *
51003 GGCCTAGCTGTGCATTTGACAGAAAGTTATCAATTATACCAGTTAGATGAAAGGTTAAATACCTT
1 GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
51068 TGA
66 TGA
51071 G
1 G
51072 TAAAAGATTA
Statistics
Matches: 301, Mismatches: 40, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 301 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (68 bp):
GGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:51047 original size:204 final size:204
Alignment explanation
Indices: 50696--51071 Score: 635
Period size: 204 Copynumber: 1.8 Consensus size: 204
50686 AAGGTGTCAT
*
50696 TTATGCCAGTTAAATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAAAAAGGTGT
1 TTATGCCAATTAAATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAAAAAGGTGT
*
50761 CAATTATGCCAGTTAGATGAAAGGCTAAGGGTCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGG
66 CAATTATGCCAGTTAGATGAAAGGCTAAGGGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGG
* * * *
50826 TGTCAATTATTCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGTCTAACTGTGCATTTGATTGAA
131 TATCAATTATACCAGTTAGATGAAAGGCTAAATACCTTTGAGGTCTAACTGTGCATTTGATTGAA
50891 ATATTTCAA
196 ATATTTCAA
* * *
50900 TTATGCCAATTAAATGAAAGGCTAAGTGCCTTTGAGGCCTCGCTGTGCATTTGACAGAAATGTGT
1 TTATGCCAATTAAATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAAAAAGGTGT
* * *
50965 CAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGT
66 CAATTATGCCAGTTAGATGAAAGGCTAAGGGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGG
*
51030 TATCAATTATACCAGTTAGATGAAAGGTTAAATACCTTTGAG
131 TATCAATTATACCAGTTAGATGAAAGGCTAAATACCTTTGAG
51072 TAAAAGATTA
Statistics
Matches: 159, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
204 159 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (204 bp):
TTATGCCAATTAAATGAAAGGCTAAGTGCCTTTGAGGCCTAGCTGTGCATTTGACAAAAAGGTGT
CAATTATGCCAGTTAGATGAAAGGCTAAGGGCCTTTGAGGCCTAGCTGTGCATTTGACAGAAAGG
TATCAATTATACCAGTTAGATGAAAGGCTAAATACCTTTGAGGTCTAACTGTGCATTTGATTGAA
ATATTTCAA
Found at i:51142 original size:81 final size:81
Alignment explanation
Indices: 51007--51159 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
50997 CTTTGAGGCC
* * *
51007 TAGCTGTGCATTTGACAGAAAGTTATCAATTATACCAGTTAGATGAAAGGTTAAATACCTTTGAG
1 TAGCTGTGCATTTAACAGAAAGATATCAATTATACCAATTAGATGAAAGGTTAAATACCTTTGAG
51072 TAAAAGATTAATAGGT
66 TAAAAGATTAATAGGT
* * * *
51088 TAGCTGTGCATTTAACATAAAGATGTCAATTATGCCAATTAGATGAAAGGTTAAATGCCTTTGAG
1 TAGCTGTGCATTTAACAGAAAGATATCAATTATACCAATTAGATGAAAGGTTAAATACCTTTGAG
51153 TAAAAGA
66 TAAAAGA
51160 CTAGAGGTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (81 bp):
TAGCTGTGCATTTAACAGAAAGATATCAATTATACCAATTAGATGAAAGGTTAAATACCTTTGAG
TAAAAGATTAATAGGT
Found at i:51245 original size:46 final size:46
Alignment explanation
Indices: 51168--51301 Score: 223
Period size: 46 Copynumber: 2.9 Consensus size: 46
51158 GACTAGAGGT
*
51168 ATGACAATGCATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAA
1 ATGA-AATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAA
*
51215 ATGAAGTGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAA
1 ATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAA
* *
51261 ATGAAATGTATAATAGCATATAAAAGGGCAAGAAAGGATGC
1 ATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGGATGC
51302 TTAAATAAAA
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 78 0.95
47 4 0.05
ACGTcount: A:0.46, C:0.10, G:0.25, T:0.20
Consensus pattern (46 bp):
ATGAAATGTATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAA
Found at i:51360 original size:45 final size:45
Alignment explanation
Indices: 51303--51401 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
51293 AAAGGATGCT
* *
51303 TAAATAAAATGCATATGGGTGCATTATCGGCATGAAATGATGCCA
1 TAAATGAAATGCATATGGGTGCATTATCGGCATGAAATAATGCCA
* * *
51348 TAATTGAAATGCATATGGGTGCATTATTGGCATGAAATAATGTCA
1 TAAATGAAATGCATATGGGTGCATTATCGGCATGAAATAATGCCA
51393 TAAATGAAA
1 TAAATGAAA
51402 ATACATAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.29
Consensus pattern (45 bp):
TAAATGAAATGCATATGGGTGCATTATCGGCATGAAATAATGCCA
Found at i:51376 original size:23 final size:23
Alignment explanation
Indices: 51309--51376 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
51299 TGCTTAAATA
*
51309 AAATGCATATGGGTGCATTATCG
1 AAATGCATATGGGTGCATTATTG
** * * *
51332 GCATG-AAAT-GATGCCATAATTG
1 AAATGCATATGGGTG-CATTATTG
51354 AAATGCATATGGGTGCATTATTG
1 AAATGCATATGGGTGCATTATTG
51377 GCATGAAATA
Statistics
Matches: 31, Mismatches: 11, Indels: 6
0.65 0.23 0.12
Matches are distributed among these distances:
21 3 0.10
22 12 0.39
23 13 0.42
24 3 0.10
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (23 bp):
AAATGCATATGGGTGCATTATTG
Found at i:60274 original size:2 final size:2
Alignment explanation
Indices: 60267--60306 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
60257 GATGTTAGAA
60267 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60307 GCTTTTATGG
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60292 original size:17 final size:17
Alignment explanation
Indices: 60270--60303 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
60260 GTTAGAAATA
60270 TATATATATATATATAT
1 TATATATATATATATAT
60287 TATATATATATATATAT
1 TATATATATATATATAT
60304 ATAGCTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:60539 original size:43 final size:43
Alignment explanation
Indices: 60480--60916 Score: 358
Period size: 43 Copynumber: 10.2 Consensus size: 43
60470 TGAGAACAAA
* * * *
60480 AAACGCCGCAATAGGTCAATATCTATTA-CGACGTTTTTTGA-AC
1 AAACGCCGCAAAAGGTC-AGACCTA-TAGCGGCGTTTTTTGATAC
* * * *
60523 AAACGCCGCAAAAGGTCGATATCTATAGCGGC-ATTTTTGCA-AT
1 AAACGCCGCAAAAGGTC-AGACCTATAGCGGCGTTTTTTG-ATAC
* * * ** * * *
60566 AAACGCCACAAAAAGTTATGATATATAGCGGCGTTTCTAGA-AA
1 AAACGCCGCAAAAGGTCA-GACCTATAGCGGCGTTTTTTGATAC
* * * * *
60609 AAACGTCGCAAAAGTTCAGATCTATAGCGGCATTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTTGATAC
* ** *
60652 AAACGCCGCAAAAGAG-AAGACCTATA-CTGGCACTTTTAGA-AC
1 AAACGCCGCAAAAG-GTCAGACCTATAGC-GGCGTTTTTTGATAC
*
60694 AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATAC
1 AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTTGATAC
* * * * *
60737 AAACACCGTAAAAGGTCAGACCTATAACGACG-TTTTTGAACAC
1 AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTTG-ATAC
* *
60780 AAACGCCGCAAAAGAG-AAGACCTATA-CTGGCGTTTTTAGA-AC
1 AAACGCCGCAAAAG-GTCAGACCTATAGC-GGCGTTTTTTGATAC
* *
60822 AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGACAC
1 AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTTGATAC
** *
60865 AAACATCGCAAAAAGTCAGACCTATAGCGGCGTTTTTTGATAC
1 AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTTGATAC
60908 AAACGCCGC
1 AAACGCCGC
60917 TAATTACCTT
Statistics
Matches: 323, Mismatches: 54, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.01
42 104 0.32
43 207 0.64
44 10 0.03
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTTGATAC
Found at i:60692 original size:85 final size:83
Alignment explanation
Indices: 60514--60916 Score: 316
Period size: 85 Copynumber: 4.7 Consensus size: 83
60504 ATTACGACGT
* * * * * * * *
60514 TTTTTGAACAAACGCCGCAAAAGGTCGATATCTATAGCGGCATTTTTGCA-ATAAACGCCACAAA
1 TTTTAGAAAAAACGCCGCAAAA-GTC-AGACCTATAGCGGCGTTTTTGGATACAAACGCCGCAAA
* * ** *
60578 AAGTTATGATATATAGCGGC-G
64 AGGTCA-GACCTATA-CGGCAC
* * *
60599 TTTCTAGAAAAAACGTCGCAAAAGTTCAGATCTATAGCGGCATTTTTGGATACAAACGCCGCAAA
1 TTT-TAGAAAAAACGCCGCAAAAG-TCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGCAAA
*
60664 AGAG-AAGACCTATACTGGCAC
64 AG-GTCAGACCTATAC-GGCAC
* * *
60685 TTTTAGAACAAACGCCGCAAAAGGTCAGACCTATAGCGGCGTTTTTGGATACAAACACCGTAAAA
1 TTTTAGAAAAAACGCCGCAAAA-GTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAA
60750 GGTCAGACCTATAAC-G-AC
65 GGTCAGACCTAT-ACGGCAC
* ** *
60768 GTTTTTGAACACAAACGCCGCAAAAGAGAAGACCTATA-CTGGCGTTTTTAGA-ACAAACGCCGC
1 -TTTTAGAA-A-AAACGCCGCAAAAG-TCAGACCTATAGC-GGCGTTTTTGGATACAAACGCCGC
**
60831 AAAAGGTCAGACCTATAGCGGCGT
61 AAAAGGTCAGACCTATA-CGGCAC
* * ** *
60855 TTTTGGACACAAACATCGCAAAAAGTCAGACCTATAGCGGCGTTTTTTGATACAAACGCCGC
1 TTTTAGA-AAAAACGCCGC-AAAAGTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGC
60917 TAATTACCTT
Statistics
Matches: 262, Mismatches: 35, Indels: 41
0.78 0.10 0.12
Matches are distributed among these distances:
83 2 0.01
84 11 0.04
85 152 0.58
86 95 0.36
87 2 0.01
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (83 bp):
TTTTAGAAAAAACGCCGCAAAAGTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAG
GTCAGACCTATACGGCAC
Found at i:60706 original size:128 final size:127
Alignment explanation
Indices: 60589--60916 Score: 478
Period size: 128 Copynumber: 2.6 Consensus size: 127
60579 AGTTATGATA
* * * * * *
60589 TATAGCGGCGTTTCTAGA-AAAAACGTCGCAAAAGTTCAGATCTATAGCGGCATTTTTGGATACA
1 TATAGCGGCGTTTTTGGACACAAACATCGCAAAAG-TCAGACCTATAGCGGCGTTTTTGGATACA
60653 AACGCCGCAAAAGAGAAGACCTATACTGGCACTTTTAGAACAAACGCCGCAAAAGGTCAGACC
65 AACGCCGCAAAAGAGAAGACCTATACTGGCACTTTTAGAACAAACGCCGCAAAAGGTCAGACC
* * * * * * *
60716 TATAGCGGCGTTTTTGGATACAAACACCGTAAAAGGTCAGACCTATAACGACGTTTTTGAACACA
1 TATAGCGGCGTTTTTGGACACAAACATCGCAAAA-GTCAGACCTATAGCGGCGTTTTTGGATACA
**
60781 AACGCCGCAAAAGAGAAGACCTATACTGGCGTTTTTAGAACAAACGCCGCAAAAGGTCAGACC
65 AACGCCGCAAAAGAGAAGACCTATACTGGCACTTTTAGAACAAACGCCGCAAAAGGTCAGACC
*
60844 TATAGCGGCGTTTTTGGACACAAACATCGCAAAAAGTCAGACCTATAGCGGCGTTTTTTGATACA
1 TATAGCGGCGTTTTTGGACACAAACATCGC-AAAAGTCAGACCTATAGCGGCGTTTTTGGATACA
60909 AACGCCGC
65 AACGCCGC
60917 TAATTACCTT
Statistics
Matches: 176, Mismatches: 22, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
127 16 0.09
128 155 0.88
129 5 0.03
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (127 bp):
TATAGCGGCGTTTTTGGACACAAACATCGCAAAAGTCAGACCTATAGCGGCGTTTTTGGATACAA
ACGCCGCAAAAGAGAAGACCTATACTGGCACTTTTAGAACAAACGCCGCAAAAGGTCAGACC
Found at i:64583 original size:39 final size:39
Alignment explanation
Indices: 64516--64837 Score: 170
Period size: 39 Copynumber: 8.3 Consensus size: 39
64506 TTGTAAACAC
* * * *
64516 AAACGCCACTATAGTACAAGTGTATAGCGGCGTTGAATAA
1 AAACGCCACTA-AGTACGAGTCTTTAGCGGCGTTGTATAA
* *
64556 AAATGCCACTAAGTACGAGTCTTTAGCGG-TTTGTATAA
1 AAACGCCACTAAGTACGAGTCTTTAGCGGCGTTGTATAA
*** *
64594 AAATATCAATAA-TACGAGTCTTTA---GCG--GTATAA
1 AAACGCCACTAAGTACGAGTCTTTAGCGGCGTTGTATAA
* * * *
64627 AAACGCCACTAAATTATGAGTCTTTAGCGAC-TTGTAAACA
1 AAACGCCACT-AAGTACGAGTCTTTAGCGGCGTTGTATA-A
* * *
64667 CAAACGCCACTATAGTAC-ATGTGTATAAC-GCGTTTGTATAA
1 -AAACGCCACTA-AGTACGA-GTCTTTAGCGGCG-TTGTATAA
* * *
64708 AAACGCCACTAAAGTACAATTCTATAG-GGCGGTTGTA-AA
1 AAACGCCACT-AAGTACGAGTCTTTAGCGGC-GTTGTATAA
* *
64747 AAATGCCACTAAATTACGAGTC-TTAGCGGCGTTTGTAT-A
1 AAACGCCACT-AAGTACGAGTCTTTAGCGGCG-TTGTATAA
* * * * *
64786 AAACGCCACTAAATACTACTTTTTTTGCGGCGTTTGTGA-AA
1 AAACGCCACTAAGTACGA-GTCTTTAGCGGCG-TTGT-ATAA
64827 AAACGCCACTA
1 AAACGCCACTA
64838 TAGATGAACC
Statistics
Matches: 219, Mismatches: 38, Indels: 49
0.72 0.12 0.16
Matches are distributed among these distances:
33 12 0.05
34 3 0.01
35 11 0.05
37 12 0.05
38 27 0.12
39 58 0.26
40 54 0.25
41 36 0.16
42 6 0.03
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (39 bp):
AAACGCCACTAAGTACGAGTCTTTAGCGGCGTTGTATAA
Found at i:66830 original size:20 final size:20
Alignment explanation
Indices: 66804--66856 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
66794 CGATTCAAGT
66804 GGTATCGATACCAAGAGG-G
1 GGTATCGATACCAAGAGGAG
* * *
66823 GAGTATCGATACTATGAGGAT
1 G-GTATCGATACCAAGAGGAG
66844 GGTATCGATACCA
1 GGTATCGATACCA
66857 TTGTTAACAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 1 0.04
20 26 0.93
21 1 0.04
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (20 bp):
GGTATCGATACCAAGAGGAG
Found at i:67363 original size:59 final size:57
Alignment explanation
Indices: 67281--67530 Score: 326
Period size: 57 Copynumber: 4.4 Consensus size: 57
67271 TGGCACTGAG
* *
67281 TGTGTAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTTCGTATGAGCACTTTA
1 TGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGAGCACTTTA
* * * *
67338 TGTGCAAAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTTCGAATGGGCACTTTG
1 TGTGC--AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGAGCACTTTA
* * *
67397 TGTGCAAAAAGTTAAGAAAATCATAATTTATTTATGAATTTCCGTAT-AGGCACTTCGA
1 TGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGA-GCACTT-TA
* * *
67455 -GTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTCCCGTATAAGAACTTTA
1 TGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGAGCACTTTA
*
67511 TGTGCAAAAA-CTAAGAAATT
1 TGTGCAAAAAGTTAAGAAATT
67531 TTATGAATTT
Statistics
Matches: 170, Mismatches: 17, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
56 10 0.06
57 105 0.62
58 1 0.01
59 54 0.32
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (57 bp):
TGTGCAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTCCGTATGAGCACTTTA
Found at i:67412 original size:116 final size:114
Alignment explanation
Indices: 67280--67493 Score: 333
Period size: 116 Copynumber: 1.9 Consensus size: 114
67270 ATGGCACTGA
* * * * *
67280 GTGTGTAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTTCGTAT-GAGCACTT-TATGTGC
1 GTGTGCAAAAAGTTAAGAAAATCATAATTTATTTATGAATTTCCGTATAG-GCACTTCGA-GTGC
67343 AAAAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTTCGAATGGGCACTTT
64 --AAAAAGTTAAGAAATTCATAATTTGTTTATGAATTTTCGAATGGGCACTTT
67396 GTGTGCAAAAAGTTAAGAAAATCATAATTTATTTATGAATTTCCGTATAGGCACTTCGAGTGCAA
1 GTGTGCAAAAAGTTAAGAAAATCATAATTTATTTATGAATTTCCGTATAGGCACTTCGAGTGCAA
67461 AAAGTTAAGAAATTCATAATTTGTTTATGAATT
66 AAAGTTAAGAAATTCATAATTTGTTTATGAATT
67494 CCCGTATAAG
Statistics
Matches: 91, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
114 35 0.38
116 54 0.59
117 2 0.02
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (114 bp):
GTGTGCAAAAAGTTAAGAAAATCATAATTTATTTATGAATTTCCGTATAGGCACTTCGAGTGCAA
AAAGTTAAGAAATTCATAATTTGTTTATGAATTTTCGAATGGGCACTTT
Found at i:67785 original size:68 final size:68
Alignment explanation
Indices: 67705--68181 Score: 616
Period size: 68 Copynumber: 7.0 Consensus size: 68
67695 AAAGATTAAT
* * *
67705 GGCCTAGTTGTGCATTTGACAAAAATGTATCAATTATGACAGTTAGATGATAGGCTAAGTGCCTT
1 GGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
67770 TGA
66 TGA
* * *
67773 GGCCTAGCTGTGCATTTGACAGAAATGTATCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
*
67838 TAA
66 TGA
** * * *
67841 GGCCTAGTTGTGCATTTGACCGAAA-GATGTCAATTATGCCAGTTAGATGAAATGTTAAGTTCCT
1 GGCCTAGTTGTGCATTTGACAAAAATG-TGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
67905 TTGA
65 TTGA
* ** * * *
67909 GGCTTAACTGTGCATTTGACAGAAAGGTGTCAGTTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
1 GGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
67974 TGA
66 TGA
** * * * * * *
67977 GGCCTAACTGTACATTTGACATAAAGGTGTCAATTATGCTAGTTAGATGAAAGGATAAGTGTCTT
1 GGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
68042 TGA
66 TGA
* *
68045 GGCCTAGTTGTGCATTTAACAGAAA-GATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 GGCCTAGTTGTGCATTTGACAAAAATG-TGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
*
68109 TTAA
65 TTGA
* * * * *
68113 GGCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTT
1 GGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
68178 TGA
66 TGA
68181 G
1 G
68182 TAAAATATTA
Statistics
Matches: 363, Mismatches: 42, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
67 2 0.01
68 359 0.99
69 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (68 bp):
GGCCTAGTTGTGCATTTGACAAAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TGA
Found at i:68072 original size:204 final size:204
Alignment explanation
Indices: 67713--68181 Score: 695
Period size: 204 Copynumber: 2.3 Consensus size: 204
67703 ATGGCCTAGT
* * *
67713 TGTGCATTTGACAAAAATGTATCAATTATGACAGTTAGATGATAGGCTAAGTGCCTTTGAGGCCT
1 TGTGCATTTGACAGAAATGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCT
* * * *
67778 AGCTGTGCATTTGACAGAAATGTATCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGG
66 AACTGTACATTTGACAGAAAGGTATCAATTATGCCAGTTAGATGAAAGGATAAGTGCCTTTAAGG
* * * * * *
67843 CCTAGTTGTGCATTTGACCGAAAGATGTCAATTATGCCAGTTAGATGAAATGTTAAGTTCCTTTG
131 CCTAGTTGTGCATTTAACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTA
*
67908 AGGCTTAAC
196 AGGCCTAAC
* * *
67917 TGTGCATTTGACAGAAAGGTGTCAGTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCT
1 TGTGCATTTGACAGAAATGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCT
* * * * *
67982 AACTGTACATTTGACATAAAGGTGTCAATTATGCTAGTTAGATGAAAGGATAAGTGTCTTTGAGG
66 AACTGTACATTTGACAGAAAGGTATCAATTATGCCAGTTAGATGAAAGGATAAGTGCCTTTAAGG
68047 CCTAGTTGTGCATTTAACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTA
131 CCTAGTTGTGCATTTAACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTA
**
68112 AGGCCTAGT
196 AGGCCTAAC
* * *
68121 TGTGCATTTGACAGAAATGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTTGAG
1 TGTGCATTTGACAGAAATGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTTTGAG
68182 TAAAATATTA
Statistics
Matches: 235, Mismatches: 30, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
204 235 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (204 bp):
TGTGCATTTGACAGAAATGTGTCAATTATGACAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCT
AACTGTACATTTGACAGAAAGGTATCAATTATGCCAGTTAGATGAAAGGATAAGTGCCTTTAAGG
CCTAGTTGTGCATTTAACAGAAAGATGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTA
AGGCCTAAC
Found at i:68249 original size:81 final size:81
Alignment explanation
Indices: 68114--68267 Score: 256
Period size: 81 Copynumber: 1.9 Consensus size: 81
68104 TGCCTTTAAG
* * *
68114 GCCTAGTTGTGCATTTGACAGAAATGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTT
1 GCCTAGCTGTGAATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTT
68179 GAGTAAAATATTAATA
66 GAGTAAAATATTAATA
*
68195 GCCTAGCTGTGAATTTGACAGAAAGGTGTCAATTATG-CAAGTTAGATGAAAGGTTAAATGCCTT
1 GCCTAGCTGTGAATTTGACAGAAAGGTGTCAATTATGAC-AGTTAGATGAAAGGTTAAATACCTT
68259 TGAGTAAAA
65 TGAGTAAAA
68268 GCCTAGAGGT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
80 1 0.01
81 67 0.99
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (81 bp):
GCCTAGCTGTGAATTTGACAGAAAGGTGTCAATTATGACAGTTAGATGAAAGGTTAAATACCTTT
GAGTAAAATATTAATA
Found at i:68361 original size:46 final size:46
Alignment explanation
Indices: 68278--68423 Score: 186
Period size: 46 Copynumber: 3.2 Consensus size: 46
68268 GCCTAGAGGT
* *
68278 ATGACAATGCATAATAGCGTATAAAAGGGCATGAAAGGATGCCATAA
1 ATGA-AATGTATAATAGAGTATAAAAGGGCATGAAAGGATGCCATAA
* * * *
68325 ATGAAGTGTGTAATAGATTATAAAAGGGCATAAAAGGATGCCATAA
1 ATGAAATGTATAATAGAGTATAAAAGGGCATGAAAGGATGCCATAA
** *
68371 ATGAAATGTATAATATCGTATAAAAGGGCATGAAAGGATG-TATAA
1 ATGAAATGTATAATAGAGTATAAAAGGGCATGAAAGGATGCCATAA
*
68416 ATAAAATG
1 ATGAAATG
68424 CATATGGGTG
Statistics
Matches: 85, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
45 11 0.13
46 70 0.82
47 4 0.05
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAATGTATAATAGAGTATAAAAGGGCATGAAAGGATGCCATAA
Found at i:68485 original size:46 final size:46
Alignment explanation
Indices: 68398--68514 Score: 134
Period size: 46 Copynumber: 2.6 Consensus size: 46
68388 GTATAAAAGG
* * *
68398 GCATGAAAGGATG-TATAAAT-AAAATGCATATGGGTGCATTATCA
1 GCATGAAAGGATGCCATAAATGAAAATGCATATGGGTGAATTATAA
68442 GCATGAAAGGATGCCATAAATGAAAATGCATAAT-GGTGAATTATAA
1 GCATGAAAGGATGCCATAAATGAAAATGCAT-ATGGGTGAATTATAA
* * *
68488 GTATGAATGGATGCTC-TCAATGAAAAT
1 GCATGAAAGGATGC-CATAAATGAAAAT
68515 AAAGAATAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
44 13 0.21
45 6 0.10
46 41 0.65
47 3 0.05
ACGTcount: A:0.42, C:0.09, G:0.22, T:0.26
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAAATGAAAATGCATATGGGTGAATTATAA
Found at i:74659 original size:55 final size:55
Alignment explanation
Indices: 74562--74764 Score: 232
Period size: 55 Copynumber: 3.7 Consensus size: 55
74552 TGAATATTTC
* * * * * * *
74562 AACTCATTATAAATTCCATG-GTTTTGCACACGTAGTGCCAATACAGTAATTCACA
1 AACTCATTATGAATTTCATGAG-GTTGCACACATAGTGCCAATACGGAAATTCATA
* * * * *
74617 AACTCACTATGAATTAT-GTGGGGTTGCACACATAATGTCAATACGGAAATTCATA
1 AACTCATTATGAATT-TCATGAGGTTGCACACATAGTGCCAATACGGAAATTCATA
74672 AACTCATTATGAATTTCATGAGGTTGCACACATAGTGCCAATACGGAAATTCATA
1 AACTCATTATGAATTTCATGAGGTTGCACACATAGTGCCAATACGGAAATTCATA
* * *
74727 AACTTATTATGAATTTC-TTAAGTTGCACACATAGTGCC
1 AACTCATTATGAATTTCATGAGGTTGCACACATAGTGCC
74765 CATTCGGTAA
Statistics
Matches: 126, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
54 20 0.16
55 105 0.83
56 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (55 bp):
AACTCATTATGAATTTCATGAGGTTGCACACATAGTGCCAATACGGAAATTCATA
Found at i:81296 original size:55 final size:55
Alignment explanation
Indices: 81217--81341 Score: 144
Period size: 55 Copynumber: 2.3 Consensus size: 55
81207 GTAGTGTCAG
* * * * * ** *
81217 TACAGTAATTCACAAACTTATTATGAATTACGTGGCGTTGCACATATAGTACCAA
1 TACAGAAATTCATAATCTCATTATGAATTACATAACGTTGCACACATAGTACCAA
* *
81272 TAC-GAAAATTCATAATCTCATTATGAATTTCATAACGTTGTACACATAGTACCAA
1 TACAG-AAATTCATAATCTCATTATGAATTACATAACGTTGCACACATAGTACCAA
81327 TACAGAAATTCATAA
1 TACAGAAATTCATAA
81342 ACTTTATCGG
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
54 1 0.02
55 56 0.97
56 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (55 bp):
TACAGAAATTCATAATCTCATTATGAATTACATAACGTTGCACACATAGTACCAA
Found at i:84061 original size:54 final size:54
Alignment explanation
Indices: 83867--84097 Score: 275
Period size: 55 Copynumber: 4.3 Consensus size: 54
83857 TCCATGGTTC
* * * * * * * *
83867 TGCACACGTAGTGCCGATACAGTAATTCATAAACTCATTACGAATTACGTGGGG
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCAATATGAATTTCGTGAGG
* *
83921 TTGCACACATAGTGCCAATACGGAAATTCATAAACTCAATATGATTTTTGTGAGG
1 -TGCACACATAGTGCCAATACGGAAATTCATAAACTCAATATGAATTTCGTGAGG
* * *
83976 TGTCACACATAGTACCGATACGGAAATTCATAAACTTAATATGAATTTCGTGAGG
1 TG-CACACATAGTGCCAATACGGAAATTCATAAACTCAATATGAATTTCGTGAGG
* * * * *
84031 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTCAATATGAATTTCGTGAGG
84085 TGCAC-CATAGTGC
1 TGCACACATAGTGC
84098 ATATTCGGTA
Statistics
Matches: 154, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
53 8 0.05
54 53 0.34
55 93 0.60
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (54 bp):
TGCACACATAGTGCCAATACGGAAATTCATAAACTCAATATGAATTTCGTGAGG
Found at i:84073 original size:109 final size:110
Alignment explanation
Indices: 83869--84065 Score: 306
Period size: 110 Copynumber: 1.8 Consensus size: 110
83859 CATGGTTCTG
* * * * *
83869 CACACGTAGTGCCGATACAGTAATTCATAAACTCATTACGAATTACGTGGGGTTGCACACATAGT
1 CACACATAGTACCGATACAGAAATTCATAAACTCAATACGAATTACGTGAGGTTGCACACATAGT
83934 GCCAATACGGAAATTCATAAACTCAATATGATTTTTGTGAGGTGT
66 GCCAATACGGAAATTCATAAACTCAATATGATTTTTGTGAGGTGT
* * * *
83979 CACACATAGTACCGATACGGAAATTCATAAACTTAATATGAATTTCGTGAGG-TGCACACATAGT
1 CACACATAGTACCGATACAGAAATTCATAAACTCAATACGAATTACGTGAGGTTGCACACATAGT
84043 GCCAATACGGAAATTCATAAACT
66 GCCAATACGGAAATTCATAAACT
84066 TATTATGAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
109 35 0.45
110 43 0.55
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (110 bp):
CACACATAGTACCGATACAGAAATTCATAAACTCAATACGAATTACGTGAGGTTGCACACATAGT
GCCAATACGGAAATTCATAAACTCAATATGATTTTTGTGAGGTGT
Found at i:91593 original size:55 final size:55
Alignment explanation
Indices: 91534--91743 Score: 246
Period size: 55 Copynumber: 3.8 Consensus size: 55
91524 TTGATACAAT
* *
91534 AATTCACAAACTCATTATGAATTACGTGGGGTTGCACACATAGTGCCAATACGAA
1 AATTCATAAACTCATTATGAATTACGTGAGGTTGCACACATAGTGCCAATACGAA
* * **
91589 AATTCATAAATTCGTTATGAATTTTGTGAGGTTGCACACATAGTGCCAATAC-AGA
1 AATTCATAAACTCATTATGAATTACGTGAGGTTGCACACATAGTGCCAATACGA-A
* * * * *
91644 AATTCATAAACTTATTATTAATTTA-ATGAGGTTGCACACATAGTGTCAATACGGA
1 AATTCATAAACTCATTATGAA-TTACGTGAGGTTGCACACATAGTGCCAATACGAA
* * * *
91699 AATTCATAAACTTATTATGAATTTC-TTAAGTTGCACACATAGTGC
1 AATTCATAAACTCATTATGAATTACGTGAGGTTGCACACATAGTGC
91744 TCATTCGGTA
Statistics
Matches: 132, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
54 20 0.15
55 110 0.83
56 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (55 bp):
AATTCATAAACTCATTATGAATTACGTGAGGTTGCACACATAGTGCCAATACGAA
Found at i:94786 original size:63 final size:65
Alignment explanation
Indices: 94713--94837 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 65
94703 TAATAATATC
* * * *
94713 TTTTATTTTGAAATATTCAAAAG-ATATAAA-CTCTTTTTATTATTC-AAACTTAAATAGATATT
1 TTTTAATTTGAAATATTCAAAAGTATATAAATATC-TTTTAATACTCAAAACTTAAATAGATATT
94775 A
65 A
*
94776 TTTTAATTTGAAATATTCAAAAGTATATAAATATCTTTTAATACTCAAAAGTTAAATAGATA
1 TTTTAATTTGAAATATTCAAAAGTATATAAATATCTTTTAATACTCAAAACTTAAATAGATA
94838 ATAAATACCT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
63 22 0.41
64 16 0.30
65 16 0.30
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.43
Consensus pattern (65 bp):
TTTTAATTTGAAATATTCAAAAGTATATAAATATCTTTTAATACTCAAAACTTAAATAGATATTA
Found at i:102349 original size:65 final size:61
Alignment explanation
Indices: 102227--102351 Score: 160
Period size: 65 Copynumber: 2.0 Consensus size: 61
102217 GATACTAATA
* * *
102227 TATTTTAATTTAAATATTCAAAAGATATAATTCCTTTTACTATTTAAACTTAAATAGATAT
1 TATTTTAATTTAAATATTCAAAAGATATAATTACTTTTAATATTCAAACTTAAATAGATAT
* * *
102288 TATTTTAATTTAAAATATTTAAAAGTATATAATTATATTTTTAATATTCAAAGTTAAATAGATA
1 TATTTTAATTT-AAATATTCAAAAG-ATATAA-T-TACTTTTAATATTCAAACTTAAATAGATA
102352 ATATATATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
61 11 0.20
62 12 0.22
63 6 0.11
64 1 0.02
65 24 0.44
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (61 bp):
TATTTTAATTTAAATATTCAAAAGATATAATTACTTTTAATATTCAAACTTAAATAGATAT
Found at i:111651 original size:33 final size:33
Alignment explanation
Indices: 111614--111683 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
111604 AAAAATATCT
111614 TATAAAGTAACTAATAATAAAAAATTAAATAAA
1 TATAAAGTAACTAATAATAAAAAATTAAATAAA
** * * * *
111647 TATAATTTAACTAATATTAACAAATTATATATA
1 TATAAAGTAACTAATAATAAAAAATTAAATAAA
111680 TATA
1 TATA
111684 TATATATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (33 bp):
TATAAAGTAACTAATAATAAAAAATTAAATAAA
Found at i:111679 original size:2 final size:2
Alignment explanation
Indices: 111672--111721 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
111662 ATTAACAAAT
111672 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111713 TA TA TA TA T
1 TA TA TA TA T
111722 GCGTAAAATA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:113055 original size:17 final size:17
Alignment explanation
Indices: 113005--113056 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
112995 TTGTAAAATA
*
113005 ATAATATTAATAATAATT
1 ATAATA-TAATAATTATT
*
113023 ATAATACAATAATTATT
1 ATAATATAATAATTATT
*
113040 ATAATATAATATTTATT
1 ATAATATAATAATTATT
113057 TTCCAGACAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 24 0.80
18 6 0.20
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATATAATAATTATT
Found at i:113495 original size:21 final size:21
Alignment explanation
Indices: 113456--113495 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
113446 AAATATGATT
* * *
113456 TAATATTTAATTAATAAATAG
1 TAATATTAAAATAAAAAATAG
113477 TAATATTAAAATAAAAAAT
1 TAATATTAAAATAAAAAAT
113496 GATATAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (21 bp):
TAATATTAAAATAAAAAATAG
Found at i:119559 original size:17 final size:17
Alignment explanation
Indices: 119539--119585 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
119529 AAATATTTTC
119539 ATTTTAAATAAAAATTA
1 ATTTTAAATAAAAATTA
119556 ATTTTAAATAAAAATTA
1 ATTTTAAATAAAAATTA
*
119573 ATTTTAATTAAAA
1 ATTTTAAATAAAA
119586 CAACAAATTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTTAAATAAAAATTA
Found at i:122757 original size:13 final size:13
Alignment explanation
Indices: 122741--122779 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
122731 TCTTCAAACA
*
122741 TCATTTTCTCATT
1 TCATTTTCTAATT
122754 TCATTTTCTAATT
1 TCATTTTCTAATT
*
122767 TCATTTTCAAATT
1 TCATTTTCTAATT
122780 CATGTGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.23, C:0.18, G:0.00, T:0.59
Consensus pattern (13 bp):
TCATTTTCTAATT
Found at i:123136 original size:215 final size:214
Alignment explanation
Indices: 122765--123543 Score: 1278
Period size: 215 Copynumber: 3.6 Consensus size: 214
122755 CATTTTCTAA
*
122765 TTTCATTTTCAAATTCATGTGAAAACATCCTACCC-AGAGGTCTTATGGATGGCCCGAATGACTT
1 TTTCATTTTCAAATTCATGTGAAAACATCCTACCCGA-AGGTCTTATGGATGGCCCGAAGGACTT
*
122829 ATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTAC
65 ATCATCTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTAC
*
122894 TGATGGCCCGAATGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTAAAAAATTT
130 TGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTT-AAAAATTT
122959 CATCTTCTTAAAACATCATTT
194 CATCTTCTTAAAACATCATTT
* *
122980 TTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGGTGGCCCGAAGGACTTA
1 TTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA
* * *
123045 TCATCTTGCTCTAACA-GCTTACAGATAACCCAAAGGATTTAAACATCATGCTCGAAAGACTTAT
66 TCATCTTGCTCTAA-AGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTAC
*
123109 TGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAATTTC
130 TGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTAAAAATTTC
123174 ATCTTCTTAAAACATCATTT
195 ATCTTCTTAAAACATCATTT
* *
123194 TTT-ATTTTCAAATTCAAGTGAAAACATCCAACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA
1 TTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA
* * *
123258 TCATCCTGCTCTAAAGGCTTACAGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTTACT
66 TCATCTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACT
* *
123323 GATGGCCCGAAGGACTTATAAATTGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAAA-TTC
131 GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTT-AAAAATTTC
123387 ATTCTTCTTAAAACATCATTTT
195 A-TCTTCTTAAAACATCA-TTT
* * * * *
123409 TTTTATTTCCAAATTCATGTGAAAACATCATACTCGAAGGTCTTATGGATGGCCAGAAGGACTTA
1 TTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA
*
123474 TCATCTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGTATCATGCTCGAAAGACTTACT
66 TCATCTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACT
123539 GATGG
131 GATGG
123544 GTTTGCTTCA
Statistics
Matches: 525, Mismatches: 32, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
212 1 0.00
213 171 0.33
214 51 0.10
215 179 0.34
216 123 0.23
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (214 bp):
TTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTA
TCATCTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACT
GATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTAAAAATTTCA
TCTTCTTAAAACATCATTT
Found at i:123290 original size:41 final size:41
Alignment explanation
Indices: 123240--123341 Score: 123
Period size: 42 Copynumber: 2.5 Consensus size: 41
123230 AGGTCTTATG
* * *
123240 GATGGCCCGAAGGACTTATCATCCTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
* ** * *
123281 GATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGACTTACA
123323 GATGGCCCGAAGGACTTAT
1 GATGGCCCGAAGGACTTAT
123342 AAATTGTGAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
41 15 0.31
42 33 0.69
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTATCATCATGCTCGAAAGACTTACA
Found at i:123307 original size:213 final size:213
Alignment explanation
Indices: 122769--123543 Score: 1259
Period size: 213 Copynumber: 3.6 Consensus size: 213
122759 TTCTAATTTC
* *
122769 ATTTTCAAATTCATGTGAAAACATCCTACCC-AGAGGTCTTATGGATGGCCCGAATGACTTATCA
1 ATTTTCAAATTCATGTGAAAACATCCAACCCGA-AGGTCTTATGGATGGCCCGAAGGACTTATCA
*
122833 TCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
65 TCTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
* *
122898 GGCCCGAATGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTAAAAAATTTCATC
130 GGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTT-CAAAATTTCATC
122963 TTCTTAAAACATCATTTTTT
194 TTCTTAAAACATCATTTTTT
* * *
122983 CATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATGGGTGGCCCGAAGGACTTATCA
1 -ATTTTCAAATTCATGTGAAAACATCCAACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCA
* * *
123048 TCTTGCTCTAACA-GCTTACAGATAACCCAAAGGATTTAAACATCATGCTCGAAAGACTTATTGA
65 TCTTGCTCTAA-AGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGA
123112 TGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAATTTCATC
129 TGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAATTTCATC
123177 TTCTTAAAACATCATTTTTT
194 TTCTTAAAACATCATTTTTT
*
123197 ATTTTCAAATTCAAGTGAAAACATCCAACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCAT
1 ATTTTCAAATTCATGTGAAAACATCCAACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCAT
* * *
123262 CCTGCTCTAAAGGCTTACAGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTTACTGATG
66 CTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
* * *
123327 GCCCGAAGGACTTATAAATTGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAAATTCATTCT
131 GCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAATTTCA-TCT
123392 TCTTAAAACATCATTTTTTTT
195 TCTTAAAACATCA--TTTTTT
* * *
123413 ATTTCCAAATTCATGTGAAAACAT-CATACTCGAAGGTCTTATGGATGGCCAGAAGGACTTATCA
1 ATTTTCAAATTCATGTGAAAACATCCA-ACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCA
*
123477 TCTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGTATCATGCTCGAAAGACTTACTGAT
65 TCTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
123542 GG
130 GG
123544 GTTTGCTTCA
Statistics
Matches: 523, Mismatches: 30, Indels: 13
0.92 0.05 0.02
Matches are distributed among these distances:
212 1 0.00
213 176 0.34
214 47 0.09
215 171 0.33
216 128 0.24
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (213 bp):
ATTTTCAAATTCATGTGAAAACATCCAACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCAT
CTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
GCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAATTTCATCTT
CTTAAAACATCATTTTTT
Found at i:123385 original size:428 final size:429
Alignment explanation
Indices: 122769--123543 Score: 1315
Period size: 428 Copynumber: 1.8 Consensus size: 429
122759 TTCTAATTTC
* * *
122769 ATTTTCAAATTCATGTGAAAACATCCTACCCAGAGGTCTTATGGATGGCCCGAATGACTTATCAT
1 ATTTTCAAATTCAAGTGAAAACATCCAACCCAGAGGTCTTATGGATGGCCCGAAGGACTTATCAT
*
122834 CTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
66 CCTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
* *
122899 GCCCGAATGACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTAAAAAATTTCA-TC
131 GCCCGAAGGACTTATAAATTGTGAAAATTTGAAAATCGCATTCTTAGTTTTAAAAAA-TTCATTC
* * *
122963 TTCTTAAAACATCA-TTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTTTTATG
195 TTCTTAAAACATCATTTTTTTCATTTCCAAATTCATGTGAAAACATCATACCCGAAGGTCTTATG
* *
123027 GGTGGCCCGAAGGACTTATCATCTTGCTCTAACA-GCTTACAGATAACCCAAAGGATTTAAACAT
260 GATGGCCAGAAGGACTTATCATCTTGCTCTAA-AGGCTTACAGATAACCCAAAGGATTTAAACAT
*
123091 CATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATT
324 CATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATT
123156 CTTAGTTTTCAAAATTTCATCTTCTTAAAACATCATTTTTT
389 CTTAGTTTTCAAAATTTCATCTTCTTAAAACATCATTTTTT
123197 ATTTTCAAATTCAAGTGAAAACATCCAACCC-GAAGGTCTTATGGATGGCCCGAAGGACTTATCA
1 ATTTTCAAATTCAAGTGAAAACATCCAACCCAG-AGGTCTTATGGATGGCCCGAAGGACTTATCA
*
123261 TCCTGCTCTAAAGGCTTACAGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTTACTGAT
65 TCCTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGAT
* *
123326 GGCCCGAAGGACTTATAAATTGTGAAAATTTGAAAATCGCATTCTTCGTTTTCAAAAATTCATTC
130 GGCCCGAAGGACTTATAAATTGTGAAAATTTGAAAATCGCATTCTTAGTTTTAAAAAATTCATTC
* *
123391 TTCTTAAAACATCATTTTTTTTATTTCCAAATTCATGTGAAAACATCATACTCGAAGGTCTTATG
195 TTCTTAAAACATCATTTTTTTCATTTCCAAATTCATGTGAAAACATCATACCCGAAGGTCTTATG
* **
123456 GATGGCCAGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCAAAGGATTTAAGTATC
260 GATGGCCAGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAACCCAAAGGATTTAAACATC
123521 ATGCTCGAAAGACTTACTGATGG
325 ATGCTCGAAAGACTTACTGATGG
123544 GTTTGCTTCA
Statistics
Matches: 323, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
427 5 0.02
428 193 0.60
429 125 0.39
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (429 bp):
ATTTTCAAATTCAAGTGAAAACATCCAACCCAGAGGTCTTATGGATGGCCCGAAGGACTTATCAT
CCTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATG
GCCCGAAGGACTTATAAATTGTGAAAATTTGAAAATCGCATTCTTAGTTTTAAAAAATTCATTCT
TCTTAAAACATCATTTTTTTCATTTCCAAATTCATGTGAAAACATCATACCCGAAGGTCTTATGG
ATGGCCAGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATAACCCAAAGGATTTAAACATCA
TGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTGAAAATCGCATTCT
TAGTTTTCAAAATTTCATCTTCTTAAAACATCATTTTTT
Found at i:123703 original size:36 final size:36
Alignment explanation
Indices: 123546--123837 Score: 179
Period size: 36 Copynumber: 8.0 Consensus size: 36
123536 ACTGATGGGT
** * * *
123546 TTGCTTCACTATTCTTCTGTGAAGGCTCAAG-GTG-
1 TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTGA
* * * * *
123580 GTGCTTCACTACTCTTCGGTGAAGGTTTACAAATTGA
1 TTGCTTCACTCCTCTTCAGTGAAGGCTTA-AGATTGA
* * * *
123617 TTTGCTTCACT-AT-TT-GGTAAAGACTTAAGATTGA
1 -TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTGA
* *
123651 TTTGCTTCACTACTCTTCAGTGAAGGCATAAGATTGA
1 -TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTGA
*
123688 TTGCTTCACTCCTCTTCGGTGAAGGCTTAAGATTG-
1 TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTGA
* * * *
123723 TCGTGAGGACTTAATCATCATGCTT--G-GAAGGCTTACTGATGGA
1 T--T---G-CTTCA-C-TCCT-CTTCAGTGAAGGCTTA-AGATTGA
* *
123766 TTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGA
1 -TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTGA
*
123803 TTGCTTCACTCCTCTTCGGTGAAGGCTTAAGATTG
1 TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTG
123838 CCCTGAGGAC
Statistics
Matches: 204, Mismatches: 32, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
34 41 0.20
35 15 0.07
36 72 0.35
37 25 0.12
38 22 0.11
39 1 0.00
40 1 0.00
41 13 0.06
42 7 0.03
43 3 0.01
44 4 0.02
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (36 bp):
TTGCTTCACTCCTCTTCAGTGAAGGCTTAAGATTGA
Found at i:123786 original size:115 final size:115
Alignment explanation
Indices: 123649--123915 Score: 462
Period size: 115 Copynumber: 2.3 Consensus size: 115
123639 ACTTAAGATT
*
123649 GATTTGCTTCACTACTCTTCAGTGAAGGCATAAGATTGATTGCTTCACTCCTCTTCGGTGAAGGC
1 GATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATTGCTTCACTCCTCTTCGGTGAAGGC
* * * **
123714 TTAAGATTGTCGTGAGGACTTAATCATCATGCTTGGAAGGCTTACTGATG
66 TTAAGATTGCCCTGAGGACATAATCATCATGCTCAGAAGGCTTACTGATG
*
123764 GATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATGGATTGCTTCACTCCTCTTCGGTGAAGGC
1 GATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATTGCTTCACTCCTCTTCGGTGAAGGC
*
123829 TTAAGATTGCCCTGAGGACATAATCATCATGCTCATAAGGCTTACTGATG
66 TTAAGATTGCCCTGAGGACATAATCATCATGCTCAGAAGGCTTACTGATG
123879 GATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATT
1 GATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATT
123916 AACTTGCCCA
Statistics
Matches: 143, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 143 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (115 bp):
GATTTGCTTCACTACTCTTCAGTGAAGGCTTAAGATTGATTGCTTCACTCCTCTTCGGTGAAGGC
TTAAGATTGCCCTGAGGACATAATCATCATGCTCAGAAGGCTTACTGATG
Found at i:124412 original size:17 final size:17
Alignment explanation
Indices: 124390--124436 Score: 85
Period size: 17 Copynumber: 2.8 Consensus size: 17
124380 AAACATTGTC
124390 ATTTTAAATAAAAATTA
1 ATTTTAAATAAAAATTA
124407 ATTTTAAATAAAAATTA
1 ATTTTAAATAAAAATTA
*
124424 ATTTTAATTAAAA
1 ATTTTAAATAAAA
124437 CAACAAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTTAAATAAAAATTA
Found at i:127800 original size:220 final size:215
Alignment explanation
Indices: 127418--128179 Score: 1075
Period size: 215 Copynumber: 3.5 Consensus size: 215
127408 ATCTTGGTGA
* * * * * * *
127418 AAAACATCCTGCCCGAAGATCTTATGGATGACCCGAAAGATTTATCATCTTGCT-TGAGAGACTC
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCT-A-AGGCTT
* * *
127482 ACAAATGACCAGAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTACT
64 ACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA-T
* * * * *
127547 -AAGTGTGAAATTTTGGAAATCGCATTCTTAGTTTCCAAAAATTTCATCATCTTCAAACATCATT
128 AAATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCA-T
127611 TTCTCATTTCATTTTCAAATTCATGTG
192 TT-T--TTTCATTTTCAAATTCATGTG
* *
127638 AAAACATCCTACCC-AGAGGTCTTATGGATGGCTCGAATGACTTATCATCTTGCTCTATAGGCTT
1 AAAACATCCTACCCGA-AGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTA-AGGCTT
* * *
127702 ACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCTGAATGACTTATA
64 ACAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATA
*
127767 AATTGTGAAATTTTGAAAATCGTATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCA-TT
129 AATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTT
127831 TTTTCATTTTCAAATTCATGTG
194 TTTTCATTTTCAAATTCATGTG
* * * * *
127853 AAAACATCATACCCGAAGGTTTTATGGGTGGCCCGAAGGACTTATTATCTTGCTCTAATGGTTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAA-GGCTTA
*
127918 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTATAA
65 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAA
* *
127983 ATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTCCATCTTCTTAAAACATCATTTT
130 ATTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTT
*
128048 TTT-ATTTCCAAATTCATGTG
195 TTTCATTTTCAAATTCATGTG
* *
128068 AAAACATCCTACCCGAAGGTCTTATGGATGGCCAGAAGGACTTATCATCTTGCTTTAAAGGCTTA
1 AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCT-AAGGCTTA
* **
128133 CAGATGACCCAAAGGATTTAAGTATCATGCTCGAAAGACTTACTGAT
65 CAGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGAT
128180 AGGTTTGCTT
Statistics
Matches: 488, Mismatches: 47, Indels: 19
0.88 0.08 0.03
Matches are distributed among these distances:
214 1 0.00
215 308 0.63
216 9 0.02
217 1 0.00
218 2 0.00
219 2 0.00
220 164 0.34
221 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (215 bp):
AAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAGGCTTAC
AGATGACCCGAAGGATTTAAACATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAA
TTGTGAAATTTTGAAAATCGCATTCTTAGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTT
TTCATTTTCAAATTCATGTG
Found at i:128391 original size:36 final size:36
Alignment explanation
Indices: 128184--128401 Score: 138
Period size: 36 Copynumber: 5.9 Consensus size: 36
128174 ACTGATAGGT
* * * *
128184 TTGCTTCACTATTCTTCTGTGAAGGCTCAAGGTGG-
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
* *
128219 -TGCTTCACTACTATTCGGTGAAGGCTTGAGA-GTGA
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATG-GA
* **
128254 TTGCTTCACTCCTCTTCGGTGAAGGCTTAAGATTGCC
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGA-TGGA
* *** * * * *
128291 GTG-AGGACTTAATCATCATGCTCGGAAGGCTTATTGATGGA
1 TTGCTTCAC-TACTCTTC--GGT--GAAGGCTTA-AGATGGA
* * *
128332 TTTGATTTACTACTCTTCAGTGAAGGCTTAAGATGGA
1 -TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
*
128369 TTGCTTCACTCCTCTTCGGTGAAGGCTTAAGAT
1 TTGCTTCACTACTCTTCGGTGAAGGCTTAAGAT
128402 TGCTCTGAGG
Statistics
Matches: 135, Mismatches: 35, Indels: 25
0.69 0.18 0.13
Matches are distributed among these distances:
33 1 0.01
34 26 0.19
36 59 0.44
37 13 0.10
38 10 0.07
39 2 0.01
40 1 0.01
41 11 0.08
42 10 0.07
43 2 0.01
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (36 bp):
TTGCTTCACTACTCTTCGGTGAAGGCTTAAGATGGA
Found at i:128431 original size:115 final size:116
Alignment explanation
Indices: 128222--128480 Score: 407
Period size: 115 Copynumber: 2.2 Consensus size: 116
128212 AAGGTGGTGC
* * *
128222 TTCACTACTATTCGGTGAAGGCTTGAGA-GTGATTGCTTCACTCCTCTTCGGTGAAGGCTTAAGA
1 TTCACTACTCTTCAGTGAAGGCTTAAGATGTGATTGCTTCACTCCTCTTCGGTGAAGGCTTAAGA
*
128286 TTGCCGTGAGGACTTAATCATCATGCTCGGAAGGCTTATTGATGGATTTGA
66 TTGCCGTGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGGATTTGA
*
128337 TTTACTACTCTTCAGTGAAGGCTTAAGATG-GATTGCTTCACTCCTCTTCGGTGAAGGCTTAAGA
1 TTCACTACTCTTCAGTGAAGGCTTAAGATGTGATTGCTTCACTCCTCTTCGGTGAAGGCTTAAGA
* * *
128401 TTGCTC-TGAGGACTTAATCATTATGTTCGGAAGGCTTACTGATGGATTTGC
66 TTGC-CGTGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGGATTTGA
*
128452 TTCACTACTCTTTAGTGAAGGCTTAAGAT
1 TTCACTACTCTTCAGTGAAGGCTTAAGAT
128481 TAACTTGCCC
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
115 130 0.98
116 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (116 bp):
TTCACTACTCTTCAGTGAAGGCTTAAGATGTGATTGCTTCACTCCTCTTCGGTGAAGGCTTAAGA
TTGCCGTGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGGATTTGA
Found at i:130138 original size:125 final size:124
Alignment explanation
Indices: 129771--130149 Score: 503
Period size: 125 Copynumber: 3.0 Consensus size: 124
129761 TTCACTAGTT
* * * * *
129771 CCCCAACATTATATTATAGTGGCACTGGTCTTCAAAATGCCCCAACACCTCAAATTGTAATGCTC
1 CCCCAACATTATCTTATACTGGTAC-GGTCTTCAAAATGCCCCAACACCTCAAATTATAAGGCTC
* * * *
129836 ATTCTCAATGTCC-TCTTGGTCTGAAAT-TTGTCATTTCAACATGATATGGGTTCAATCACG
65 ATTCTCAATG-CCTTCTTGGTCTG-AATCTTGTCATCTCAACATGATGTGGGTTCAGTCATG
* ** * *
129896 CCCCACCATTATCTTATACTGGTACATTCCTTCAAAATACCCCAATACCTCAAATTATAAGGCTC
1 CCCCAACATTATCTTATACTGGTACGGT-CTTCAAAATGCCCCAACACCTCAAATTATAAGGCTC
* *
129961 ATTCTCAATGCCTTCTTGGCCTGAATCTTGTCATCTCAACATGATGTCGGTTCAGTCATG
65 ATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATG
** *
130021 TTCCAACATTATCTTATACTGGTACGGGTCTTCAGAATGCCCCAACACCTCAAATTATAAGGCTC
1 CCCCAACATTATCTTATACTGGTAC-GGTCTTCAAAATGCCCCAACACCTCAAATTATAAGGCTC
*
130086 ATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAA-AGTAATGTGGGTTCAGTCATG
65 ATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACA-TGATGTGGGTTCAGTCATG
130146 CCCC
1 CCCC
130150 CATGTGGGTA
Statistics
Matches: 220, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
124 7 0.03
125 212 0.96
126 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.14, T:0.33
Consensus pattern (124 bp):
CCCCAACATTATCTTATACTGGTACGGTCTTCAAAATGCCCCAACACCTCAAATTATAAGGCTCA
TTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACATGATGTGGGTTCAGTCATG
Found at i:135566 original size:21 final size:21
Alignment explanation
Indices: 135547--135633 Score: 122
Period size: 21 Copynumber: 4.1 Consensus size: 21
135537 TGGTTTTCAT
*
135547 GTCTTTATGAAGGGTCTTCAT-
1 GTCTTTATGAATGGTCTTC-TC
135568 GTCTTTATGAATGGTCTTCTC
1 GTCTTTATGAATGGTCTTCTC
* *
135589 GTCTTTACGAATAGTCTTCTC
1 GTCTTTATGAATGGTCTTCTC
*
135610 ATCTTTATGAATGGTCTTCTC
1 GTCTTTATGAATGGTCTTCTC
135631 GTC
1 GTC
135634 CTTGGTAGGG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 1 0.02
21 57 0.98
ACGTcount: A:0.17, C:0.20, G:0.18, T:0.45
Consensus pattern (21 bp):
GTCTTTATGAATGGTCTTCTC
Found at i:141349 original size:2 final size:2
Alignment explanation
Indices: 141342--141368 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
141332 ATGTGAGTAT
141342 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
141369 TTTCCGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:142582 original size:13 final size:14
Alignment explanation
Indices: 142566--142702 Score: 53
Period size: 13 Copynumber: 10.1 Consensus size: 14
142556 TTAATATATT
142566 TTATATCTA-ATAC
1 TTATATCTATATAC
*
142579 TTATATTTATATAC
1 TTATATCTATATAC
*
142593 TT-TA---ATAT-T
1 TTATATCTATATAC
*
142602 TTATATTTA-ATAC
1 TTATATCTATATAC
*
142615 TTATAT-TATATAG
1 TTATATCTATATAC
*
142628 TT-TAATACTTTATA-
1 TTAT-AT-CTATATAC
* *
142642 TTATAACTTTAGTAC
1 TTATATCTATA-TAC
*
142657 TTATGTACTCATATAC
1 TTATAT-CT-ATATAC
*
142673 TTTATATTTA-ATAC
1 -TTATATCTATATAC
*
142687 TTATATTTATATAC
1 TTATATCTATATAC
142701 TT
1 TT
142703 TAATACTTAT
Statistics
Matches: 96, Mismatches: 11, Indels: 33
0.69 0.08 0.24
Matches are distributed among these distances:
9 2 0.02
10 6 0.06
12 5 0.05
13 38 0.40
14 21 0.22
15 11 0.11
16 6 0.06
17 7 0.07
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (14 bp):
TTATATCTATATAC
Found at i:142598 original size:22 final size:22
Alignment explanation
Indices: 142560--142765 Score: 116
Period size: 22 Copynumber: 9.5 Consensus size: 22
142550 TGATTATTAA
*
142560 TATATTT-TATA-TCTAATACT
1 TATATTTATATACTTTAATACT
*
142580 TATATTTATATACTTTAATATTT
1 TATATTTATATACTTTAATA-CT
*
142603 TATATTTA-ATAC-TT-ATATT
1 TATATTTATATACTTTAATACT
142622 ATATAGTTTA-ATACTTT-ATA-T
1 -TATA-TTTATATACTTTAATACT
* *
142643 TATAACTTTA-GTAC-TTATGTACT
1 TAT-A-TTTATATACTTTA-ATACT
*
142666 CATATACTT-TATA-TTTAATACT
1 --TATATTTATATACTTTAATACT
142688 TATATTTATATACTTTAATACT
1 TATATTTATATACTTTAATACT
** * * *
142710 TATATCCAAACACTTTATTACT
1 TATATTTATATACTTTAATACT
142732 T-TATATTATATACTTT-ATACTT
1 TATAT-TTATATACTTTAATAC-T
*
142754 TATATATATATA
1 TATATTTATATA
142766 TATATATACA
Statistics
Matches: 147, Mismatches: 20, Indels: 36
0.72 0.10 0.18
Matches are distributed among these distances:
19 2 0.01
20 25 0.17
21 33 0.22
22 63 0.43
23 20 0.14
24 1 0.01
25 3 0.02
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (22 bp):
TATATTTATATACTTTAATACT
Found at i:142609 original size:43 final size:42
Alignment explanation
Indices: 142560--142643 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 42
142550 TGATTATTAA
*
142560 TATATTTTATATCTAATACT-TATA-TTTATATACTTTAATATTT
1 TATATTTAATA-CTAATACTATATAGTTTA-ATACTTT-ATATTT
* *
142603 TATATTTAATACTTATATTATATAGTTTAATACTTTATATT
1 TATATTTAATACTAATACTATATAGTTTAATACTTTATATT
142644 ATAACTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
42 11 0.31
43 21 0.58
44 4 0.11
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (42 bp):
TATATTTAATACTAATACTATATAGTTTAATACTTTATATTT
Found at i:142743 original size:72 final size:73
Alignment explanation
Indices: 142601--142774 Score: 205
Period size: 72 Copynumber: 2.4 Consensus size: 73
142591 ACTTTAATAT
* * * *
142601 TTTATATTTAATACTTATA-TTATATAGTTTAATACTTTATATTATAACTTTAGTACTTATGTAC
1 TTTATATTTAATACTTATATTTATATACTTTAATACTTTATATCAAAACTTTAGTACTTATATAC
142665 TCATATAC
66 TCATATAC
*
142673 TTTATATTTAATACTTATATTTATATACTTTAATAC-TTATATCCAAACACTTTATTACTT-TAT
1 TTTATATTTAATACTTATATTTATATACTTTAATACTTTATAT-CAAA-ACTTTAGTACTTATAT
*
142736 A-TTATATAC
64 ACTCATATAC
*
142745 TTTATACTTTATATA-TATATATATATATAC
1 TTTATA-TTTA-ATACT-TATATTTATATAC
142775 ACACACACTT
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
72 38 0.43
73 25 0.28
74 26 0.29
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (73 bp):
TTTATATTTAATACTTATATTTATATACTTTAATACTTTATATCAAAACTTTAGTACTTATATAC
TCATATAC
Found at i:142759 original size:9 final size:8
Alignment explanation
Indices: 142575--142759 Score: 67
Period size: 8 Copynumber: 25.4 Consensus size: 8
142565 TTTATATCTA
142575 ATACTTAT
1 ATACTTAT
142583 AT--TTAT
1 ATACTTAT
142589 ATACTT-T
1 ATACTTAT
*
142596 AATA-TTTT
1 -ATACTTAT
*
142604 ATATTTA-
1 ATACTTAT
142611 ATAC-T-T
1 ATACTTAT
142617 ATA-TTAT
1 ATACTTAT
*
142624 ATAGTT-T
1 ATACTTAT
142631 AATACTT-T
1 -ATACTTAT
142639 ATA-TTAT
1 ATACTTAT
142646 A-ACTT-T
1 ATACTTAT
142652 AGTACTTAT
1 A-TACTTAT
* *
142661 GTACTCAT
1 ATACTTAT
142669 ATACTT-T
1 ATACTTAT
*
142676 ATATTTA-
1 ATACTTAT
142683 ATACTTAT
1 ATACTTAT
142691 AT--TTAT
1 ATACTTAT
142697 ATACTT-T
1 ATACTTAT
142704 AATACTTAT
1 -ATACTTAT
* *
142713 AT-C-CAA
1 ATACTTAT
*
142719 ACACTT-T
1 ATACTTAT
142726 ATTACTT-T
1 A-TACTTAT
142734 ATA-TTAT
1 ATACTTAT
142741 ATACTT-T
1 ATACTTAT
142748 ATACTTTAT
1 ATAC-TTAT
142757 ATA
1 ATA
142760 TATATATATA
Statistics
Matches: 134, Mismatches: 15, Indels: 55
0.66 0.07 0.27
Matches are distributed among these distances:
6 26 0.19
7 48 0.36
8 54 0.40
9 6 0.04
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (8 bp):
ATACTTAT
Found at i:142771 original size:21 final size:21
Alignment explanation
Indices: 142728--142771 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
142718 AACACTTTAT
*
142728 TACTTTATATTATATACTTTA
1 TACTTTATATTATATACTATA
142749 TACTTTATATATATATA-TATA
1 TACTTTATAT-TATATACTATA
142770 TA
1 TA
142772 TACACACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TACTTTATATTATATACTATA
Found at i:143372 original size:22 final size:20
Alignment explanation
Indices: 143327--143398 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 20
143317 TAATACATTA
*
143327 ATACATTATAAATATAAACTTAT
1 ATACA-TAT-AATATAAA-ATAT
*
143350 ATATATATTAATATAAAAGTAT
1 ATACATA-TAATATAAAA-TAT
143372 ATACATATAAGTATATAAATAT
1 ATACATATAA-TATA-AAATAT
143394 ATACA
1 ATACA
143399 CTTATTTAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
21 3 0.07
22 31 0.74
23 8 0.19
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.38
Consensus pattern (20 bp):
ATACATATAATATAAAATAT
Found at i:143395 original size:16 final size:16
Alignment explanation
Indices: 143353--143544 Score: 92
Period size: 14 Copynumber: 12.4 Consensus size: 16
143343 AACTTATATA
* *
143353 TATATTAATATAAAAG
1 TATATAAATATATAAG
*
143369 TATAT--ACATATAAG
1 TATATAAATATATAAG
*
143383 TATATAAATATATACACT
1 TATATAAATATATA-A-G
* *
143401 TATTTAAATATA-CA-
1 TATATAAATATATAAG
*
143415 TATATAAAAAAGTATAAG
1 TATAT-AAATA-TATAAG
143433 TATAT--ATATA-AAG
1 TATATAAATATATAAG
*
143446 TATA-AACTATA-AAG
1 TATATAAATATATAAG
143460 TATAT-AATATAT-A-
1 TATATAAATATATAAG
*
143473 TATATATATATATATA-
1 TATATAAATATATA-AG
*
143489 TATATAAA-GTATAAG
1 TATATAAATATATAAG
143504 TATATTAAAAGTATATATA-
1 TATA-T-AAA-TATATA-AG
143523 TATATAAACTATA-AAG
1 TATATAAA-TATATAAG
143539 TATATA
1 TATATA
143545 TACTTTATAC
Statistics
Matches: 137, Mismatches: 17, Indels: 44
0.69 0.09 0.22
Matches are distributed among these distances:
13 12 0.09
14 42 0.31
15 15 0.11
16 30 0.22
17 12 0.09
18 17 0.12
19 8 0.06
20 1 0.01
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (16 bp):
TATATAAATATATAAG
Found at i:143471 original size:2 final size:2
Alignment explanation
Indices: 143460--143701 Score: 132
Period size: 2 Copynumber: 120.0 Consensus size: 2
143450 AACTATAAAG
*
143460 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
143502 -A GTA TA T- TA -A AA GTA TA TA TA TA TA TA AA CTA TA AA GTA TA
1 TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* * * *
143543 TA TA CTT TA TA CTA -A AA CTT TA TA TA TA TA T- TA TA TA CTT TA
1 TA TA -TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
* *
143585 TA TCA TA TA CT- TT TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA T-A TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
143628 TA TA TA TA TA TA -A T- TT TA GTA TA AA GTA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
*
143670 -A TA -A TA TA AA GTA TA -A GTA TA T- TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA
143702 ATAAGTATAA
Statistics
Matches: 188, Mismatches: 24, Indels: 56
0.70 0.09 0.21
Matches are distributed among these distances:
1 13 0.07
2 158 0.84
3 17 0.09
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:143658 original size:34 final size:33
Alignment explanation
Indices: 143602--143847 Score: 163
Period size: 32 Copynumber: 7.8 Consensus size: 33
143592 TACTTTTATT
*
143602 TATATATAT-AT-ATATATA-TAT-A-TATATA
1 TATATATATAATAATATAAAGTATAAGTATATA
*
143630 TATATATATAATT-T-T--AGTATAAAGTATATA
1 TATATATATAATAATATAAAGTAT-AAGTATATA
*
143660 TACATATATAATAATATAAAGTATAAGTATAT-
1 TATATATATAATAATATAAAGTATAAGTATATA
* *
143692 TATATATATAATAAGTAT-AATTATAAAG-ACTAAAA
1 TATATATATAATAA-TATAAAGTAT-AAGTA-T-ATA
* *
143727 TATATATGTATATATTATAAAGTATATAAGTATATA
1 TATATATATA-ATAATATAAAG--TATAAGTATATA
* * *
143763 -A-AGTATAT-ATACATATAAAGTATAAGTGTGTG
1 TATA-TATATAATA-ATATAAAGTATAAGTATATA
*
143795 TACATATATAA-AATAT-AAGTATAAGTATAT-
1 TATATATATAATAATATAAAGTATAAGTATATA
143825 TATATATAT-AT-ATATAAAGTATA
1 TATATATATAATAATATAAAGTATA
143848 TTTGTTGAAC
Statistics
Matches: 174, Mismatches: 17, Indels: 52
0.72 0.07 0.21
Matches are distributed among these distances:
26 1 0.01
27 3 0.02
28 10 0.06
29 9 0.05
30 32 0.18
31 13 0.07
32 33 0.19
33 25 0.14
34 16 0.09
35 17 0.10
36 7 0.04
37 4 0.02
38 4 0.02
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (33 bp):
TATATATATAATAATATAAAGTATAAGTATATA
Found at i:143764 original size:17 final size:17
Alignment explanation
Indices: 143742--143786 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
143732 ATGTATATAT
*
143742 TATAAAGTATATA-AGTA
1 TATAAAGTATATATA-CA
143759 TATAAAGTATATATACA
1 TATAAAGTATATATACA
143776 TATAAAGTATA
1 TATAAAGTATA
143787 AGTGTGTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 25 0.96
18 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (17 bp):
TATAAAGTATATATACA
Found at i:143766 original size:9 final size:9
Alignment explanation
Indices: 143742--143786 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
143732 ATGTATATAT
143742 TATAAAGTA
1 TATAAAGTA
143751 TAT-AAGTA
1 TATAAAGTA
143759 TATAAAGTA
1 TATAAAGTA
* *
143768 TATATA-CA
1 TATAAAGTA
143776 TATAAAGTA
1 TATAAAGTA
143785 TA
1 TA
143787 AGTGTGTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 14 0.47
9 16 0.53
ACGTcount: A:0.53, C:0.02, G:0.09, T:0.36
Consensus pattern (9 bp):
TATAAAGTA
Found at i:147432 original size:20 final size:18
Alignment explanation
Indices: 147407--147458 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
147397 AGGTAAGGGA
147407 AGTATCGATACTCACTAAGT
1 AGTATCGATACT-AC-AAGT
* *
147427 AGTATCAATACTACCAGT
1 AGTATCGATACTACAAGT
147445 AGTATCGATACTAC
1 AGTATCGATACTAC
147459 CAGCTTTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 16 0.55
19 2 0.07
20 11 0.38
ACGTcount: A:0.37, C:0.21, G:0.13, T:0.29
Consensus pattern (18 bp):
AGTATCGATACTACAAGT
Found at i:148227 original size:22 final size:22
Alignment explanation
Indices: 148202--148254 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
148192 ATTTAATGCC
*
148202 TATATATATTAAGTATAATTAA
1 TATATATATTAAGTATAAATAA
* *
148224 TATAAAGTA-TAAGTATAAATAT
1 TATATA-TATTAAGTATAAATAA
148246 TATATATAT
1 TATATATAT
148255 ATATATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 21 0.84
23 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (22 bp):
TATATATATTAAGTATAAATAA
Found at i:148299 original size:8 final size:7
Alignment explanation
Indices: 148237--148428 Score: 81
Period size: 6 Copynumber: 27.6 Consensus size: 7
148227 AAAGTATAAG
148237 TATAA-A
1 TATAATA
*
148243 TATTATA
1 TATAATA
148250 TAT-ATA
1 TATAATA
148256 TAT-ATA
1 TATAATA
148262 TATAA-A
1 TATAATA
148268 GTATAAT-
1 -TATAATA
148275 TATAA-A
1 TATAATA
*
148281 GACTAAAGTA
1 TA-T-AA-TA
148291 TATAAGTA
1 TATAA-TA
*
148299 TATAACA
1 TATAATA
* *
148306 TAAAAAA
1 TATAATA
148313 TATAAGTA
1 TATAA-TA
148321 TATAA-A
1 TATAATA
148327 GTAT-ATA
1 -TATAATA
*
148334 TA-CATA
1 TATAATA
148340 TATAATA
1 TATAATA
148347 -ATAATA
1 TATAATA
148353 TA-AAGTA
1 TATAA-TA
148360 TATACATA
1 TATA-ATA
148368 TATACACGTA
1 TATA-A--TA
148378 TATAATAA
1 TATAAT-A
*
148386 TATAAAA
1 TATAATA
148393 TAT-ATAA
1 TATAAT-A
148400 TATAA-A
1 TATAATA
148406 TATAATA
1 TATAATA
*
148413 -CTAATA
1 TATAATA
148419 TAT-ATA
1 TATAATA
148425 TATA
1 TATA
148429 CACACACTTG
Statistics
Matches: 147, Mismatches: 13, Indels: 51
0.70 0.06 0.24
Matches are distributed among these distances:
6 58 0.39
7 44 0.30
8 34 0.23
9 3 0.02
10 8 0.05
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (7 bp):
TATAATA
Found at i:148320 original size:30 final size:31
Alignment explanation
Indices: 148286--148367 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
148276 ATAAAGACTA
148286 AAGTATATAAGTATATAACATAAAAAAT-AT
1 AAGTATATAAGTATATAACATAAAAAATAAT
* *
148316 AAGTATATAAAGTATATATACATATATAATAAT
1 AAGTATAT-AAGTATATA-ACATAAAAAATAAT
148349 AA-TATA-AAGTATAT-ACATA
1 AAGTATATAAGTATATAACATA
148368 TATACACGTA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
28 5 0.11
30 16 0.34
31 9 0.19
32 13 0.28
33 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (31 bp):
AAGTATATAAGTATATAACATAAAAAATAAT
Found at i:148341 original size:39 final size:39
Alignment explanation
Indices: 148284--148396 Score: 99
Period size: 39 Copynumber: 2.8 Consensus size: 39
148274 TTATAAAGAC
*
148284 TAAAGTATATAAGTATATA-ACATAAAAA-ATATAAGTATA
1 TAAAGTATATAAGCATATATA-ATAAAAATATA-AAGTATA
*
148323 TAAAGTATATATA-CATATATAATAATAATATAAAGTATA
1 TAAAGTATATA-AGCATATATAATAAAAATATAAAGTATA
* *
148362 TACA-TATATACACGTATATAATAATATAAAATATA
1 TAAAGTATATA-A-GCATAT-ATAATA-AAAATATA
148397 TAATATAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
38 7 0.11
39 32 0.52
40 9 0.15
41 6 0.10
42 7 0.11
ACGTcount: A:0.57, C:0.04, G:0.05, T:0.34
Consensus pattern (39 bp):
TAAAGTATATAAGCATATATAATAAAAATATAAAGTATA
Found at i:148371 original size:30 final size:30
Alignment explanation
Indices: 148320--148430 Score: 100
Period size: 30 Copynumber: 3.5 Consensus size: 30
148310 AAATATAAGT
* *
148320 ATATAAAGTATATATACATATATAATAATA
1 ATATAAAGTATATACATATATATAATAATA
148350 ATATAAAGTATATACATATATACACGTATATAATA
1 ATATAAAGTATATACATATAT--A--TA-ATAATA
* *
148385 ATATAAAATATATA-ATATAAATATAATACTA
1 ATATAAAGTATATACATAT--ATATAATAATA
*
148416 ATATATA-TATATACA
1 ATATAAAGTATATACA
148431 CACACTTGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
30 25 0.37
31 12 0.18
32 3 0.04
34 7 0.10
35 19 0.28
36 2 0.03
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (30 bp):
ATATAAAGTATATACATATATATAATAATA
Found at i:148459 original size:22 final size:21
Alignment explanation
Indices: 148434--148516 Score: 82
Period size: 21 Copynumber: 3.9 Consensus size: 21
148424 ATATACACAC
148434 ACTTGTATACTTTATATTATAT
1 ACTT-TATACTTTATATTATAT
*
148456 ACTTATATACTTTAGTCTT-TAT
1 ACTT-TATACTTTA-TATTATAT
* *
148478 A-ATTATACTTTGTATATATAT
1 ACTTTATACTTTATAT-TATAT
148499 AC-TTATACTTTATATTAT
1 ACTTTATACTTTATATTAT
148517 TATATATGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
19 2 0.04
20 12 0.24
21 17 0.33
22 17 0.33
23 3 0.06
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.54
Consensus pattern (21 bp):
ACTTTATACTTTATATTATAT
Found at i:148498 original size:35 final size:34
Alignment explanation
Indices: 148459--148750 Score: 93
Period size: 32 Copynumber: 8.6 Consensus size: 34
148449 ATTATATACT
*
148459 TATATACTT-TAGTCTTTATA-ATTATACTTTGTATA
1 TATATACTTATA--CTTTATATATTATA-TATGTATA
148494 TATATACTTATACTTTATATTATTATATATG--TA
1 TATATACTTATACTTTATA-TATTATATATGTATA
* * *
148527 TATATACTTTATAC-TAAAACT-TTATATATATATA
1 TATATAC-TTATACTTTATA-TATTATATATGTATA
* * *
148561 TATATA--TATA-TATATATATATATATATTTACA
1 TATATACTTATACTTTATATAT-TATATATGTATA
* *
148593 CTATATA-TTATA--TTAT-T-GTATATGCATATATA
1 -TATATACTTATACTTTATATATTATAT--ATGTATA
* * *
148625 CTTTATACTAAAACTTTATATA-TATATA--TATA
1 -TATATACTTATACTTTATATATTATATATGTATA
* * * * *
148657 TTTACAC-TATA-TAATATAAACTATATAGTGTATA
1 TATATACTTATACT-TTATATATTATATA-TGTATA
* * * *
148691 TATATA-TATATATTTTATATAAATAGTTTATATATA
1 TATATACT-TATACTTTATAT-ATTA-TATATGTATA
148727 TATATATCTATATACTTTATATAT
1 TATATA-CT-TATACTTTATATAT
148751 ACACTATAGA
Statistics
Matches: 196, Mismatches: 31, Indels: 58
0.69 0.11 0.20
Matches are distributed among these distances:
29 1 0.01
30 13 0.07
31 19 0.10
32 34 0.17
33 25 0.13
34 34 0.17
35 24 0.12
36 29 0.15
37 4 0.02
38 13 0.07
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.50
Consensus pattern (34 bp):
TATATACTTATACTTTATATATTATATATGTATA
Found at i:148549 original size:40 final size:40
Alignment explanation
Indices: 148496--148574 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
148486 TTTGTATATA
* * *
148496 TATACTTATACTTTATATTATTATATATGTATATATACTT
1 TATACTAAAACTTTATATTATTATATATATATATATACTT
148536 TATACTAAAACTTTATATATATATATATATATATATATA
1 TATACTAAAACTTTATAT-TAT-TATATATATATATATA
148575 TATATATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 16 0.47
41 3 0.09
42 15 0.44
ACGTcount: A:0.42, C:0.06, G:0.01, T:0.51
Consensus pattern (40 bp):
TATACTAAAACTTTATATTATTATATATATATATATACTT
Found at i:148556 original size:2 final size:2
Alignment explanation
Indices: 148549--148896 Score: 284
Period size: 2 Copynumber: 172.5 Consensus size: 2
148539 ACTAAAACTT
*
148549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
148591 CA CTA TA TA T- TA TA T- TA T- TG TA TA TG CA TA TA TA CTT TA TA
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* * * *
148632 CTA -A AA CTT TA TA TA TA TA TA TA TA TT TA CA CTA TA TA -A TA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
* * * *
148673 TA AA CTA TA TA GTG TA TA TA TA TA TA TA TA T- TT TA TA TA AA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
148716 GTT TA TA TA TA TA TA TA TC TA TA TA CTT TA TA TA TA CA CTA TA
1 -TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA
* * * * *
148759 GA GTT TA TA TA TA TA TA TA CA -A TT TA -A GTA TA AA CTA TA -A
1 TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA
* *
148799 TT TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
148841 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
148882 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
148897 TTTATATGAT
Statistics
Matches: 277, Mismatches: 46, Indels: 46
0.75 0.12 0.12
Matches are distributed among these distances:
1 10 0.04
2 255 0.92
3 12 0.04
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:148697 original size:92 final size:92
Alignment explanation
Indices: 148491--148896 Score: 280
Period size: 92 Copynumber: 4.3 Consensus size: 92
148481 TATACTTTGT
* *
148491 ATATATATACT-TATACTTTATATTATTATATATGTATATATACTTTATACTAAAACTTTATATA
1 ATATATACACTATATA--TTATATTATTATATATGCATATATACTTTATACTAAAACTTTATATA
* *
148555 TATATATATATATATATATATATATATAT
64 TATATATATATATACATATATATATATAA
* *
148584 ATATTTACACTATATATTATATTATTGTATATGCATATATACTTTATACTAAAACTTTATATATA
1 ATATATACACTATATATTATATTATTATATATGCATATATACTTTATACTAAAACTTTATATATA
*
148649 TATATATATTTACACTATATA-ATATAA
66 TATATATATATACA-TATATATATATAA
*** * * * * *
148676 ACTATATAGTGTATATATATATATATATT-T-TAT--ATAAATAGTTTATA-TATATA-TATATC
1 A-TATATACACTATATAT-TATAT-TATTATATATGCATATATACTTTATACTA-AAACTTTATA
* * *
148735 TATATACTTTATATATACACTATAGAGTTTATATAT
62 TATATA-TATATATATACA-TAT--A-TATATATAA
* * * * * * * * * *
148771 ATATATACAATTTA-AGTATAAACTATAATTTATACATATATA-TATATA-TATATA-TATATAT
1 ATATATACACTATATA-T-TATATTATTATATATGCATATATACTTTATACTA-AAACTTTATAT
*
148832 ATATATATATATATATATATATATATATATA
63 ATATATATATATATACATATATATATATA-A
*
148863 ATATATATA-TATATATATATATATATATATATAT
1 ATATATACACTATATAT-TATAT-TAT-TATATAT
148897 TTTATATGAT
Statistics
Matches: 253, Mismatches: 40, Indels: 40
0.76 0.12 0.12
Matches are distributed among these distances:
90 12 0.05
91 43 0.17
92 78 0.31
93 40 0.16
94 29 0.11
95 23 0.09
96 22 0.09
97 6 0.02
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (92 bp):
ATATATACACTATATATTATATTATTATATATGCATATATACTTTATACTAAAACTTTATATATA
TATATATATATACATATATATATATAA
Found at i:152665 original size:3 final size:3
Alignment explanation
Indices: 152650--152708 Score: 52
Period size: 3 Copynumber: 20.3 Consensus size: 3
152640 TATTTATATA
* * **
152650 AAT AAT AAA AAT AAT AAT AAT GA- AAT AAT AATT AA- AGC AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
152694 AAT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT A
152709 TTGCAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:152717 original size:26 final size:28
Alignment explanation
Indices: 152658--152719 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
152648 TAAATAATAA
*
152658 AAATAATAATAATGAAATAATAATTAAAGC
1 AAATAATAATAATAAAATAATAATT--AGC
152688 -AATAATAATAATAAAATAAT-ATT-GC
1 AAATAATAATAATAAAATAATAATTAGC
152713 AAATAAT
1 AAATAAT
152720 GATTAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
25 2 0.07
26 6 0.20
28 3 0.10
29 19 0.63
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (28 bp):
AAATAATAATAATAAAATAATAATTAGC
Found at i:152775 original size:14 final size:14
Alignment explanation
Indices: 152736--152776 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
152726 AATAAAAGGA
* *
152736 ATTAAAAATATAGT
1 ATTAAAAATAAAAT
152750 ATTAAAATATAAAAT
1 ATTAAAA-ATAAAAT
152765 ATTAAAAATAAA
1 ATTAAAAATAAA
152777 TAGTCAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (14 bp):
ATTAAAAATAAAAT
Found at i:152777 original size:13 final size:13
Alignment explanation
Indices: 152736--152778 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 13
152726 AATAAAAGGA
*
152736 ATTAAAAATATAGT
1 ATTAAAAATA-AAT
152750 ATTAAAATATAAAAT
1 ATTAAAA-AT-AAAT
152765 ATTAAAAATAAAT
1 ATTAAAAATAAAT
152778 A
1 A
152779 GTCAAAACTG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 5 0.19
14 9 0.35
15 11 0.42
16 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
ATTAAAAATAAAT
Found at i:152954 original size:2 final size:2
Alignment explanation
Indices: 152947--152974 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
152937 TTATCCTAAA
152947 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
152975 GTTGATAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:154089 original size:3 final size:3
Alignment explanation
Indices: 154081--154126 Score: 83
Period size: 3 Copynumber: 15.0 Consensus size: 3
154071 ATAATATAAC
154081 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA
154127 TAAGCAAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 39 0.93
4 3 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:154600 original size:113 final size:113
Alignment explanation
Indices: 154449--154653 Score: 340
Period size: 113 Copynumber: 1.8 Consensus size: 113
154439 TAGAGTCATG
*
154449 CAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
1 CAAAAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
**
154514 TTATGAACT-TTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTAAA
66 TTATGAACTCGAC-CTGGAAATGTTGATCCATCAAGTGATGAATTTAAA
* * *
154562 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
154627 TTATGAACTCGACCTGGAAATGTTGAT
66 TTATGAACTCGACCTGGAAATGTTGAT
154654 GAATTCAAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
113 84 0.99
114 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
CAAAAGGTCGAACAAACTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCA
TTATGAACTCGACCTGGAAATGTTGATCCATCAAGTGATGAATTTAAA
Found at i:154758 original size:61 final size:61
Alignment explanation
Indices: 154616--154763 Score: 244
Period size: 61 Copynumber: 2.4 Consensus size: 61
154606 TCTTCAGATG
** * *
154616 AGTTCTTCTCATTATGAAC-TCGACCTGGAAATGTTGATGAATTCAAGCAAAAAGTTTAACA
1 AGTTCTTCTCATTATGAACTTC-TTCTGGAAATGCTGATGAATTCAAGCAAAAAGTTGAACA
154677 AGTTCTTCTCATTATGAACTTCTTCTGGAAATGCTGATGAATTCAAGCAAAAAGTTGAACA
1 AGTTCTTCTCATTATGAACTTCTTCTGGAAATGCTGATGAATTCAAGCAAAAAGTTGAACA
154738 AGTTCTTCTCATTATGAACTTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCT
154764 TCATTCTTCA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
61 80 0.98
62 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (61 bp):
AGTTCTTCTCATTATGAACTTCTTCTGGAAATGCTGATGAATTCAAGCAAAAAGTTGAACA
Found at i:154909 original size:113 final size:112
Alignment explanation
Indices: 154711--155251 Score: 717
Period size: 113 Copynumber: 4.8 Consensus size: 112
154701 CTGGAAATGC
* *
154711 TGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
1 TGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* * * *
154776 TGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGTTGATCGATCAAG
66 TGAGTTCTTCTCATTATGAACTCT-TCTGGAAAAGCTGATCCATCAAG
* * *
154824 TGATGAATTTAAACAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGA
1 TGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* * ** * *
154889 TGAGTTCTTCTCATTATGAACTCTAACTGGCACTGCTGATTCACCGAA-
66 TGAGTTCTTCTCATTATGAACTCT-TCTGGAAAAGCTGATCCATC-AAG
* * * * *
154937 TGATGAATTCAAACGAAATGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* *
155002 TGAGTTCTTCTCATTATGAACTCTTCTGGAAAAGTTGATCCATCGAG
66 TGAGTTCTTCTCATTATGAACTCTTCTGGAAAAGCTGATCCATCAAG
* * ** *
155049 TAATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
* * * * *
155114 TAAGTTCTTCTCATTATGAGCT-TTCTGGTAATGCTGATCCATCGAG
66 TGAGTTCTTCTCATTATGAACTCTTCTGGAAAAGCTGATCCATCAAG
* * *
155160 TGATGAATTCGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTATTCAGA
1 TGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
*
155225 TGAGTTCTTCTCATTATGAATTCTTCT
66 TGAGTTCTTCTCATTATGAACTCTTCT
155252 TTTTTCATAT
Statistics
Matches: 371, Mismatches: 54, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
111 100 0.27
112 92 0.25
113 177 0.48
114 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (112 bp):
TGATGAATTCAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA
TGAGTTCTTCTCATTATGAACTCTTCTGGAAAAGCTGATCCATCAAG
Found at i:154990 original size:226 final size:222
Alignment explanation
Indices: 154711--155251 Score: 785
Period size: 225 Copynumber: 2.4 Consensus size: 222
154701 CTGGAAATGC
154711 TGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGA
1 TGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGA
* * * *
154776 TGAGTTCTTCTCATTATGAACTTTCTCTTGAAAAGTTGATCGATCAAGTGATGAATTTAAACAAA
65 TGAGTTCTTCTCATTATGAACTCT-TCTGGAAAAGTTGATCCATCAAGTAATGAATTTAAACAAA
* * *
154841 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATTAT
129 AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTAT
* *
154906 GAACTCTAACTGGCACTGCTGATTCACCGAA
194 GAACT-T-ACTGGCAATGCTGATCCACCGAA
* * * * *
154937 TGATGAATTCAAACGAAATGTTAAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGA
1 TGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGA
* * * *
155002 TGAGTTCTTCTCATTATGAACTCTTCTGGAAAAGTTGATCCATCGAGTAATGGATTTGAGCAAAA
65 TGAGTTCTTCTCATTATGAACTCTTCTGGAAAAGTTGATCCATCAAGTAATGAATTTAAACAAAA
155067 GGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATG
130 GGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATG
* * * * *
155132 AGCTTTCTGGTAATGCTGATCCATCGAG
195 AACTTACTGGCAATGCTGATCCACCGAA
* * *
155160 TGATGAATTCGAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTTCTTATTCAGA
1 TGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TTCTTCTTCAGA
*
155225 TGAGTTCTTCTCATTATGAATTCTTCT
65 TGAGTTCTTCTCATTATGAACTCTTCT
155252 TTTTTCATAT
Statistics
Matches: 282, Mismatches: 31, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
223 98 0.35
224 3 0.01
225 99 0.35
226 81 0.29
227 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (222 bp):
TGATGAATTCAAGCAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGAT
GAGTTCTTCTCATTATGAACTCTTCTGGAAAAGTTGATCCATCAAGTAATGAATTTAAACAAAAG
GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
ACTTACTGGCAATGCTGATCCACCGAA
Found at i:155681 original size:22 final size:22
Alignment explanation
Indices: 155656--155710 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
155646 CATAAAGCTT
155656 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
155678 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
155700 TCATCTTTGAA
1 TCATCTTTGAA
155711 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:160696 original size:22 final size:20
Alignment explanation
Indices: 160644--160697 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
160634 ATTTTCCTTT
*
160644 TTCTTCTTTTTTTTTTTTGC
1 TTCTTCTTTTTTTTTTTTCC
*
160664 TT-TTCCATTTTTCTTTTTTCC
1 TTCTT-C-TTTTTTTTTTTTCC
160685 TTCTTCTGTTTTT
1 TTCTTCT-TTTTT
160698 GCTGGATGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
19 2 0.07
20 4 0.15
21 19 0.70
22 2 0.07
ACGTcount: A:0.02, C:0.19, G:0.04, T:0.76
Consensus pattern (20 bp):
TTCTTCTTTTTTTTTTTTCC
Found at i:160998 original size:2 final size:2
Alignment explanation
Indices: 160991--161018 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
160981 ACAACAAAGG
160991 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
161019 TAAAGGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:166210 original size:3 final size:3
Alignment explanation
Indices: 166195--166252 Score: 59
Period size: 3 Copynumber: 20.3 Consensus size: 3
166185 TATTTATATA
* * **
166195 AAT AAT AAA AAT AAT AAT AAT GA- AAT AAT AAT AA- AGC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
166241 AAT AA- AAT AAT A
1 AAT AAT AAT AAT A
166253 TTGCAAATAA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:166222 original size:14 final size:14
Alignment explanation
Indices: 166195--166252 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
166185 TATTTATATA
166195 AATAATAA--AAAT
1 AATAATAATGAAAT
166207 AATAATAATGAAAT
1 AATAATAATGAAAT
* *
166221 AATAATAAAGCAAT
1 AATAATAATGAAAT
*
166235 AATAATAATAAAAT
1 AATAATAATGAAAT
166249 AATA
1 AATA
166253 TTGCAAATAA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
12 8 0.21
14 31 0.79
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (14 bp):
AATAATAATGAAAT
Found at i:166252 original size:17 final size:17
Alignment explanation
Indices: 166194--166252 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
166184 TTATTTATAT
*
166194 AAATAATAAAAATAATA
1 AAATAATAATAATAATA
*
166211 ATAATGA-AATAATAATA
1 A-AATAATAATAATAATA
**
166228 AAGCAATAATAATAATA
1 AAATAATAATAATAATA
166245 AAATAATA
1 AAATAATA
166253 TTGCAAATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
16 2 0.06
17 27 0.82
18 4 0.12
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (17 bp):
AAATAATAATAATAATA
Found at i:170292 original size:36 final size:36
Alignment explanation
Indices: 170251--170347 Score: 142
Period size: 36 Copynumber: 2.7 Consensus size: 36
170241 TCAGAGTCCG
* *
170251 TCAAGACCAACATCTATGACACTCTTTAATAATC-T
1 TCAAGACCAACATCTATGACACCCTCTAATAATCAT
*
170286 TACAAGACCAACATCTATGATACCCTCTAATAATCAT
1 T-CAAGACCAACATCTATGACACCCTCTAATAATCAT
*
170323 TCAAGACCAACATCTATAACACCCT
1 TCAAGACCAACATCTATGACACCCT
170348 TGGAGAAACA
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
35 1 0.02
36 52 0.95
37 2 0.04
ACGTcount: A:0.39, C:0.29, G:0.05, T:0.27
Consensus pattern (36 bp):
TCAAGACCAACATCTATGACACCCTCTAATAATCAT
Found at i:171824 original size:20 final size:20
Alignment explanation
Indices: 171799--171931 Score: 176
Period size: 20 Copynumber: 6.5 Consensus size: 20
171789 TTTTCCCAAT
171799 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
171819 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
171840 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
171860 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
171880 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
171900 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
171921 TCGCAATGCGA
1 TCGCAATGCGA
171932 TACTGACTAT
Statistics
Matches: 98, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
20 67 0.68
21 31 0.32
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:171922 original size:61 final size:61
Alignment explanation
Indices: 171799--171931 Score: 178
Period size: 61 Copynumber: 2.2 Consensus size: 61
171789 TTTTCCCAAT
** * *
171799 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTAAGAAAATCGCAACGCGAATAAGAAAA
* * **
171860 TCGCAATGCGAATAAGTAAATCGCAATGCGAA-TAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTAAGAAAATCGCAACGCGAA-TAAGAAAA
171921 TCGCAATGCGA
1 TCGCAATGCGA
171932 TACTGACTAT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
60 16 0.25
61 47 0.75
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.18
Consensus pattern (61 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTAAGAAAATCGCAACGCGAATAAGAAAA
Found at i:171945 original size:20 final size:20
Alignment explanation
Indices: 171920--172014 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
171910 AATTGGGAAA
* *
171920 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTAACT
* * * **
171940 ATCGCAATGCGAAAATAAAAA
1 ATCGCAACGCGATACT-AACT
* *
171961 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTAACT
*
171981 TTCGCAACGCGATACTAACT
1 ATCGCAACGCGATACTAACT
*
172001 TTCGCAACGCGATA
1 ATCGCAACGCGATA
172015 ATACATAATC
Statistics
Matches: 59, Mismatches: 15, Indels: 2
0.78 0.20 0.03
Matches are distributed among these distances:
20 46 0.78
21 13 0.22
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTAACT
Found at i:171946 original size:41 final size:41
Alignment explanation
Indices: 171799--171931 Score: 214
Period size: 41 Copynumber: 3.3 Consensus size: 41
171789 TTTTCCCAAT
*
171799 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGAAAA
* * *
171840 TCGCAATGCGAATAAGTAAATCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGAAAA
*
171880 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGAAAA
171921 TCGCAATGCGA
1 TCGCAATGCGA
171932 TACTGACTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 36 0.43
41 47 0.57
ACGTcount: A:0.41, C:0.17, G:0.23, T:0.18
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGAAAA
Found at i:172230 original size:22 final size:22
Alignment explanation
Indices: 172202--172245 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
172192 CACTCTCTCA
172202 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
172224 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
172246 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:172518 original size:20 final size:20
Alignment explanation
Indices: 172489--172552 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
172479 GCGATTTTAG
*
172489 TTTCGCGTTGCGATAGTCAT
1 TTTCGTGTTGCGATAGTCAT
172509 TTTCGTGTTGCGATAGTCAT
1 TTTCGTGTTGCGATAGTCAT
**
172529 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATAGTCAT
172549 TTTC
1 TTTC
172553 AGAAACTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (20 bp):
TTTCGTGTTGCGATAGTCAT
Found at i:173892 original size:18 final size:18
Alignment explanation
Indices: 173871--173915 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
173861 TCCACTTCGG
*
173871 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
173889 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
173907 GAGCCATCA
1 GAGCCATCA
173916 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:174422 original size:20 final size:20
Alignment explanation
Indices: 174397--174442 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
174387 TAGTTTACTT
174397 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
174417 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
174437 TCGCAA
1 TCGCAA
174443 TGCAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:174458 original size:19 final size:19
Alignment explanation
Indices: 174436--174517 Score: 86
Period size: 19 Copynumber: 4.6 Consensus size: 19
174426 GGAAATGGCT
*
174436 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
174455 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
174469 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
*
174487 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
174506 ATCGCAACGCGA
1 ATCGCAATGCGA
174518 TTTGTGTTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 1 0.02
18 18 0.34
19 21 0.40
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:174546 original size:14 final size:14
Alignment explanation
Indices: 174529--174586 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
174519 TTGTGTTTCG
174529 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
* *
174543 CGTTGCAATTTCATTT
1 CGTTGCGATTT--TGT
174559 CACGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
174575 CGTTGCGATTTT
1 CGTTGCGATTTT
174587 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.61
16 4 0.11
18 10 0.28
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:174570 original size:32 final size:33
Alignment explanation
Indices: 174524--174602 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
174514 GCGATTTGTG
174524 TTTCGCGTTGCGATTTTGTCGTTGC-AATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGAATTTCA
* *
174556 TTTCACGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGAATTTCA
*
174589 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
174603 AGCCATTTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 24 0.57
33 18 0.43
ACGTcount: A:0.13, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGAATTTCA
Found at i:174601 original size:19 final size:19
Alignment explanation
Indices: 174575--174641 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
174565 GCGATTTTGT
**
174575 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* *
174594 CATTGCGATAGCCATTTCCG
1 CGTTGCGATAGTCATTT-CG
174614 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
174633 CGTTGCGAT
1 CGTTGCGAT
174642 TTTAAGTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 24 0.59
20 17 0.41
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:174621 original size:20 final size:19
Alignment explanation
Indices: 174587--174641 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
174577 TTGCGATTTT
*
174587 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
174606 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
174626 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
174642 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:176679 original size:19 final size:19
Alignment explanation
Indices: 176657--176724 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
176647 ATCGCAACGA
176657 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
176676 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
176695 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
176709 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
176725 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Done.