Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003492.1 Hibiscus syriacus cultivar Beakdansim tig00007388_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: 104441
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:4373 original size:43 final size:43
Alignment explanation
Indices: 4311--4400 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
4301 TAAATTATAC
** *
4311 AATTCATCACTCAGTTATTTTCTCTTTTCTATTTTGGTCACTA
1 AATTCATCACTCAACTATTTTCTCTCTTCTATTTTGGTCACTA
*
4354 AATTCATCACTCAACTATTTTCTCTCTTCTATTTTGGTCATTA
1 AATTCATCACTCAACTATTTTCTCTCTTCTATTTTGGTCACTA
4397 AATT
1 AATT
4401 TTAAAAGGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.50
Consensus pattern (43 bp):
AATTCATCACTCAACTATTTTCTCTCTTCTATTTTGGTCACTA
Found at i:5563 original size:201 final size:201
Alignment explanation
Indices: 5206--6013 Score: 1043
Period size: 201 Copynumber: 4.0 Consensus size: 201
5196 AGGGTTATTT
* * *
5206 ATACTCATATATAAAGTATCGATACTTGTAATTTCGAAACAC-ATTACTTTACAGTAATAGGTAA
1 ATACACATATAAAAAGTATCGATACTTGTAATTTCGAAAC-CTATTACTTTAAAGTAATAGGTAA
* * * * * * * * *
5270 ATATATAATGGAAACGGTAAAAATTTATCGGTTTAATGATAATGGGCGTAAACATAAAGCATCTA
65 ATTTACAATGAAAACGGTAAAAATCTACCGGTTGAATGATAATAGGCGTAAACATAAAGTATCGA
* *
5335 TACGTATTATTTAAGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACACAAAAA
130 TACTTATTATATAAGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACACAAAAA
*
5400 AGTAGCG
195 AGTATCG
* * *
5407 ATACATATATAAAAAGTATCGATACTTAG-AATTTCGAAACCTTTTATTTTAAAGTAATAGGTAA
1 ATACACATATAAAAAGTATCGATACTT-GTAATTTCGAAACCTATTACTTTAAAGTAATAGGTAA
* * * *
5471 ATTTACAATGAAAATGGAAAAAATATACCTGTTGAATGATAATAGGCGTAAACATAAAGTATCGA
65 ATTTACAATGAAAACGGTAAAAATCTACCGGTTGAATGATAATAGGCGTAAACATAAAGTATCGA
* * * * **
5536 TACTTATTATATATGTATCGATACTTTTAGTCCATTATGCATCTTAAACAATTTGCATGC-AAAA
130 TACTTATTATATAAGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACACAAAAA
*
5600 AGTATTG
195 AGTATCG
* ** * * *
5607 ATACACATATAAACAAATATAAATACTTGTAATTTTGAAACCTATTTCTTTAAAGAAATAGGTAA
1 ATACACATATAAA-AAGTATCGATACTTGTAATTTCGAAACCTATTACTTTAAAGTAATAGGTAA
*
5672 ATTTACAATGAAAACGGTAAAAATCTACCGGTTGAATGATAATAGGCGTAAACATAGAGTATCGA
65 ATTTACAATGAAAACGGTAAAAATCTACCGGTTGAATGATAATAGGCGTAAACATAAAGTATCGA
** *
5737 TACTTATTATATAAGTATCGATACTTTTATAACAGTATGCATCTTAAACAATTTGCACGTA-AAA
130 TACTTATTATATAAGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCAC--ACAAA
*
5801 AAAATATCG
193 AAAGTATCG
* *
5810 ATACACATATAACAAGTATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAA
1 ATACACATATAAAAAGTATCGATACTTGTAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAA
* * * * * *
5875 TTTACAAT-ATAAATGGTAAAAATCTATCGGTTTAATGATAATAGGCATAAACATCAAGTATTGA
66 TTTACAATGA-AAACGGTAAAAATCTACCGGTTGAATGATAATAGGCGTAAACATAAAGTATCGA
* * * *
5939 TACTTATTATATAAGTATCGATACTTGTATTCCAATATGCATCACAAACAATTTGCACGCAAAAA
130 TACTTATTATATAAGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACACAAAAA
*
6004 A-TATCA
195 AGTATCG
6010 ATAC
1 ATAC
6014 TTATAATTTC
Statistics
Matches: 524, Mismatches: 74, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
200 31 0.06
201 319 0.61
202 153 0.29
203 21 0.04
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (201 bp):
ATACACATATAAAAAGTATCGATACTTGTAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAA
TTTACAATGAAAACGGTAAAAATCTACCGGTTGAATGATAATAGGCGTAAACATAAAGTATCGAT
ACTTATTATATAAGTATCGATACTTTTATTCCAGTATGCATCTCAAACAATTTGCACACAAAAAA
GTATCG
Found at i:5774 original size:20 final size:21
Alignment explanation
Indices: 5729--5767 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5719 GTAAACATAG
5729 AGTATCGATACTTATTATATA
1 AGTATCGATACTTATTATATA
5750 AGTATCGATACTT-TTATA
1 AGTATCGATACTTATTATA
5768 ACAGTATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AGTATCGATACTTATTATATA
Found at i:6138 original size:178 final size:179
Alignment explanation
Indices: 5826--6167 Score: 526
Period size: 178 Copynumber: 1.9 Consensus size: 179
5816 ATATAACAAG
* * * *
5826 TATCGATACTTATAATTTCGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATATAAATGG
1 TATCAATACTTATAATTTCAAAACCTATTACTTTAAAGAAATAGGTAAATTTACAATATAAAAGG
* * * * *
5891 TAAAAATCTATCGGTTTAATGATAATAGGCATAAACATCAAGTATTGATACTTATTATATAAGTA
66 TAAAAATCGACCGGTTGAATGATAATAGGCATAAACATAAAGTATTGATACTTAATATATAAGTA
5956 TCGATACTTGTATTCCAATATGCATCACAAACAATTTGCACGCAAAAAA
131 TCGATACTTGTATTCCAATATGCATCACAAACAATTTGCACGCAAAAAA
* *
6005 TATCAATACTTATAATTTCAAAACCTATTTCTTTAAAGAAATATGTAAATTTACAATGA-AAAAG
1 TATCAATACTTATAATTTCAAAACCTATTACTTTAAAGAAATAGGTAAATTTACAAT-ATAAAAG
*
6069 GT-AAAATCGGCCGGTTGAATGATAATAGGCATAAACATAAAGTATTGATACTTAATATATAAGT
65 GTAAAAATCGACCGGTTGAATGATAATAGGCATAAACATAAAGTATTGATACTTAATATATAAGT
* * *
6133 ATCGATACTTTTATTCCAGTATGCATCTCAAACAA
130 ATCGATACTTGTATTCCAATATGCATCACAAACAA
6168 GTATCGATGC
Statistics
Matches: 147, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
178 88 0.60
179 58 0.39
180 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (179 bp):
TATCAATACTTATAATTTCAAAACCTATTACTTTAAAGAAATAGGTAAATTTACAATATAAAAGG
TAAAAATCGACCGGTTGAATGATAATAGGCATAAACATAAAGTATTGATACTTAATATATAAGTA
TCGATACTTGTATTCCAATATGCATCACAAACAATTTGCACGCAAAAAA
Found at i:7366 original size:21 final size:20
Alignment explanation
Indices: 7342--7380 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
7332 CATAAACATA
7342 AAGTATCGAAACTTATTATAT
1 AAGTATCGAAACTT-TTATAT
*
7363 AAGTATCGATACTTTTAT
1 AAGTATCGAAACTTTTAT
7381 TTCACTATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
AAGTATCGAAACTTTTATAT
Found at i:7433 original size:203 final size:199
Alignment explanation
Indices: 7031--8957 Score: 1601
Period size: 203 Copynumber: 9.6 Consensus size: 199
7021 TTTCGGCAAC
* * * *
7031 AAAGT-TTCGATACTTAGAATTTTTAAACGTATTACTTTAAAGTAATATGTAAATTTACAATGTA
1 AAAGTATT-GATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTA
* * * * *
7095 AACGGTAAAAATATGCCGGTTTAATGATAATAGGCGTAAATATAACGTATCGATACTTATTATAT
65 AACGGT-AAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTGTAT
* * * *
7160 AAGTATATCAATACTTTTATTCCAGTATGCATCTCAAATAATGTGCATGCAAAAACGTATCGAT-
129 AAG--TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGCAAAAA-GTATCGATA
7224 -ACATGTAT
191 CACATGTAT
* * *
7232 AACAAGTATTGATACTTATAATTTTGAAACTTATTTCTTTAAAGTAATAGGTAAATTTACAACGT
1 -A-AAGTATTGATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGT
** * * *
7297 AAACAATAAGAATCTACCGGTTTAATGATAATAGGCATAAACATAAAGTATCGAAACTTATTATA
64 AAACGGTAA-AATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTGTA
* * *
7362 TAAGTATCGATACTTTTATTTCACTATGCATT-TCAAACAATTTTCATGCAAAAAAGTATCGATA
128 TAAGTATCGATACTTTTATTCCAGTATGC-TTCTCAAACAATTTGCATGC-AAAAAGTATCGATA
7426 CACATGTAT
191 CACATGTAT
* * * * *
7435 AAAGTATTGATACTTA-GACTTTCAAACCAATTTCTTTAAAGTAATAGGTAAATTTACAATGTAA
1 AAAGTATTGATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
* * *
7499 ACGGTAAAAATCTATCGTTTTAATGATAATAGGCGTAAACATAAAGTATCGATACATTTTTGTAT
66 ACGGT-AAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATAC-TTATTGTAT
* * * *
7564 -AGATATCTATACTTTTATTCCAGTATGCTTCTCAAATATTTTGCACGCAAAAAGTATCGATACA
129 AAG-TATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGCAAAAAGTATCGATACA
*
7628 CATGTAC
193 CATGTAT
* * ** * * *
7635 ACATTATCAATACTTGTAATTTTGAAACCTATTACTATAAAGTAATACGTAAA-TTACAATGTAA
1 AAAGTATTGATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
* * * * * *
7699 ACGGTAAAAATCTATCAGTTTAATGATAATATGTGTAAACATAAAGTATCTATCAATACTTATTC
66 ACGGT-AAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAG----TATCGATACTTATTG
* * * ** *
7764 TATAAGTATCGATATTTTTATTCCAGCATGCATCTCAAACAATTTGCA--CAAAAAAAAATTGAT
126 TATAAGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGC-AAAAAGTATCGAT
7827 ACACATGTAT
190 ACACATGTAT
* * * * *
7837 AAAGTATTGATACTTGTAATTTTTGAAACCTATTACTATAAAATAATAAGTAAATTTATAATGTA
1 AAAGTATTGATACTTATAA-TTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTA
* * * *
7902 AACGGTAAAATCTACCAGTTTAATTATAATAGGCGTAAACATCAAGTATCGATAGTCTA--GTAT
65 AACGGTAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACT-TATTGTAT
*** * * * * * * ** * * * * *
7965 GCTTCTCAACAATTTGCA-TGCAAAAAG--TATCAATAC-A--T--ATGTATAAAGTATCAATAC
129 AAGTATCGATACTTT-TATTCCAGTATGCTTCTCAA-ACAATTTGCATGCAAAAAGTATCGATAC
8022 ACATGTAT
192 ACATGTAT
* ** * * *
8030 AAAGTATAGATA-TTCGGAATTTCGAAACCGATTACTTTAAAGTTATAGGTAAATTTACAATGTA
1 AAAGTATTGATACTT-ATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTA
*** * * *
8094 AACGGTAAAAGTCTATTAGTTTAATGATAATAGGCGTAAACATCAAGTATCGATAGTTTTTGTAT
65 AACGGTAAAA-TCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTGTAT
* * * *
8159 AGGTATCGATACTTTTAGTCCAGTATACTTCTC-AACAATTTGCATGCACAAAGTATCGATACAC
129 AAGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGCAAAAAGTATCGATACAC
8223 ATGTAT
194 ATGTAT
* ***** * * *
8229 AAAGTATAGATAAACGGAA-TTTGAAACCGATTACTTT-AAGTTATAGGTAAATTTATAATGTAA
1 AAAGTATTGATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
* * * *
8292 ACAGTAAAAGTCTACCGGTTTAATGATAATAGGCGTAAACATCAAGTATCGAAACTTTTTGTAT-
66 ACGGTAAAA-TCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTGTATA
* * * * *
8356 AG-GT--ATACTTTTAGTCCAGTGTGCTTCTC-AACAATTTGCAAGCACAAAGTATCGATACACA
130 AGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGCAAAAAGTATCGATACACA
* *
8417 TGCAC
195 TGTAT
* * *
8422 AAAGTATCGATACACATGTATAAAGTATCGATAAGTGAAATTTCGAAACCGATTACTTTAAAGTT
1 AAAG--T--AT-----TG-AT--ACT-T--ATAA-T----TTT-GAAACCTATTACTTTAAAGTA
* *
8487 ATAGGTAAATTT-CAATGTAAACGATAAAAGTCTACCGGTTTAATGATAATAGGCATAAACA-AC
45 ATAGGTAAATTTACAATGTAAACGGTAAAA-TCTACCGGTTTAATGATAATAGGCGTAAACATA-
** * * * * *
8550 AAGTATATATACTT-TT-TATAGGTATCGATACTTTTAGTCTAATATGCTTCTC-AATAATTTGC
108 AAGTATCGATACTTATTGTATAAGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGC
* * **
8612 ACGCACAAAGTATCGATACACACATAT
173 ATGCAAAAAGTATCGATACACATGTAT
* * * * * * *
8639 AAATTATTGATA-TGCAGAATTTTGAAACCGATTACTTTAAAGTTATATGTAAATTTACAATGTC
1 AAAGTATTGATACT-TATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTA
* ** * * *
8703 AACGGTAAAAACCTATTGGTATT-TTGATAATAGGCGTAAATATAAAGTATCGATAC-TATCTAT
65 AACGGT-AAAATCTACCGGT-TTAATGATAATAGGCGTAAACATAAAGTATCGATACTTAT-TGT
* * * *
8766 ATAGGTATCGATACTTTTATTCCAGTAT-CTTCTCAAA-AATTTTGCACGCAAAATGTATCGAGA
127 ATAAGTATCGATACTTTTATTCCAGTATGCTTCTCAAACAA-TTTGCATGCAAAAAGTATCGATA
*
8829 CACATATAT
191 CACATGTAT
* * * * * * *
8838 AAAGTATCGATACTTATAA-TTTCAACACTTATTACTATAAAGTAATAGGTTAATTTATAATGAA
1 AAAGTATTGATACTTATAATTTTGAA-ACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTA
* * * * * *
8902 AACGGTAAAAGTCTACTGATATAATGATAATAGGCGTAAATATCAAGTATTGATAC
65 AACGGTAAAA-TCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATAC
8958 ACATGTATAA
Statistics
Matches: 1425, Mismatches: 221, Indels: 161
0.79 0.12 0.09
Matches are distributed among these distances:
192 52 0.04
193 137 0.10
194 19 0.01
195 4 0.00
196 43 0.03
197 135 0.09
198 59 0.04
199 189 0.13
200 181 0.13
201 134 0.09
202 48 0.03
203 231 0.16
204 28 0.02
205 2 0.00
207 2 0.00
208 4 0.00
213 5 0.00
214 6 0.00
215 73 0.05
216 17 0.01
217 56 0.04
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (199 bp):
AAAGTATTGATACTTATAATTTTGAAACCTATTACTTTAAAGTAATAGGTAAATTTACAATGTAA
ACGGTAAAATCTACCGGTTTAATGATAATAGGCGTAAACATAAAGTATCGATACTTATTGTATAA
GTATCGATACTTTTATTCCAGTATGCTTCTCAAACAATTTGCATGCAAAAAGTATCGATACACAT
GTAT
Found at i:8012 original size:21 final size:21
Alignment explanation
Indices: 7988--8036 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
7978 TTGCATGCAA
*
7988 AAAGTATCAATACATATGTAT
1 AAAGTATCAATACACATGTAT
8009 AAAGTATCAATACACATGTAT
1 AAAGTATCAATACACATGTAT
8030 AAAGTAT
1 AAAGTAT
8037 AGATATTCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (21 bp):
AAAGTATCAATACACATGTAT
Found at i:8126 original size:193 final size:195
Alignment explanation
Indices: 7404--8361 Score: 631
Period size: 200 Copynumber: 4.8 Consensus size: 195
7394 TCAAACAATT
* * * * * * * *
7404 TTCATGCAAAAAAGTATCGATACACATGTATAAAGTATTGATACTT-AGACTTTCAAACCAATTT
1 TTCATGC-ACAAAGTATCAATACACATGTATAAAGTATAGATA-TTCGGAATTTGAAACCGATTA
* * * *
7468 CTTTAAAGTAATAGGTAAATTTACAATGTAAACGGTAAAAATCTATC-GTTTTAATGATAATAGG
64 CTTTAAAGTTATAGGTAAATTTATAATGTAAACGGTAAAAGTCTACCAG-TTTAATGATAATAGG
* * * * * * * * * * * * *
7532 CGTAAACATAAAGTATCGATACATTTTTGTATAGATATCTATACTTTTATTCCAG-TATGCTTCT
128 CGTAAACATCAAGTATCGATA-GTTCTAGTATAGGTATCAACAATTTCAGTCCAGAAAAG--TAT
7596 CAA-ATA
190 CAACA-A
* * * * * * * *
7602 TTTTGCACGCAAAAAGTATCGATACACATGTACACATTATCA-ATACTT-GTAATTTTGAAACCT
1 --TT-CATGCACAAAGTATCAATACACATGTATAAAGTAT-AGATA-TTCGGAA-TTTGAAACCG
* * * * * *
7665 ATTACTATAAAGTAATACGTAAA-TTACAATGTAAACGGTAAAAATCTATCAGTTTAATGATAAT
60 ATTACTTTAAAGTTATAGGTAAATTTATAATGTAAACGGTAAAAGTCTACCAGTTTAATGATAAT
* * * * * * * * * * * * * * *
7729 ATGTGTAAACATAAAGTATCTATCAATACTTATTCTATAAGTATCGATATTTTTATTCCAG-CAT
125 AGGCGTAAACATCAAGTATCGAT-AGTTC-TA--GTATAGGTATCAACAATTTCAGTCCAGAAAA
*
7793 GCATCTCAAACAA
186 G--TATC-AACAA
** ** * * *
7806 TT--TGCACAAAAAAAAATTGATACACATGTATAAAGTATTGATACTT-GTAATTTTTGAAACCT
1 TTCATGCAC---AAAGTATCAATACACATGTATAAAGTATAGATA-TTCGGAA--TTTGAAACCG
* * * * *
7868 ATTACTATAAAATAATAAGTAAATTTATAATGTAAACGGTAAAA-TCTACCAGTTTAATTATAAT
60 ATTACTTTAAAGTTATAGGTAAATTTATAATGTAAACGGTAAAAGTCTACCAGTTTAATGATAAT
* * *
7932 AGGCGTAAACATCAAGTATCGATAG-TCTAGTAT-GCTTCTCAACAATTTGCA-TGCA-AAAAGT
125 AGGCGTAAACATCAAGTATCGATAGTTCTAGTATAG-GTATCAACAATTT-CAGTCCAGAAAAGT
*
7993 ATCAATACA
188 ATCAACA-A
* *
8002 -T-ATGTATAAAGTATCAATACACATGTATAAAGTATAGATATTCGGAATTTCGAAACCGATTAC
1 TTCATGCACAAAGTATCAATACACATGTATAAAGTATAGATATTCGGAATTT-GAAACCGATTAC
* **
8065 TTTAAAGTTATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATTAGTTTAATGATAATAGGCG
65 TTTAAAGTTATAGGTAAATTTATAATGTAAACGGTAAAAGTCTACCAGTTTAATGATAATAGGCG
* * * * * * * ** *
8130 TAAACATCAAGTATCGATAGTTTTTGTATAGGTATCGATACTTTTAGTCCAGTATACTTCTCAAC
130 TAAACATCAAGTATCGATAGTTCTAGTATAGGTATCAACAATTTCAGTCCAG-AAAAGTATCAAC
8195 AA
194 AA
* **
8197 TTTGCATGCACAAAGTATCGATACACATGTATAAAGTATAGATAAACGGAATTTGAAACCGATTA
1 -TT-CATGCACAAAGTATCAATACACATGTATAAAGTATAGATATTCGGAATTTGAAACCGATTA
* *
8262 CTTT-AAGTTATAGGTAAATTTATAATGTAAACAGTAAAAGTCTACCGGTTTAATGATAATAGGC
64 CTTTAAAGTTATAGGTAAATTTATAATGTAAACGGTAAAAGTCTACCAGTTTAATGATAATAGGC
* * * *
8326 GTAAACATCAAGTATCGAAACTTTTTGTATAGGTAT
129 GTAAACATCAAGTATCGATAGTTCTAGTATAGGTAT
8362 ACTTTTAGTC
Statistics
Matches: 623, Mismatches: 102, Indels: 69
0.78 0.13 0.09
Matches are distributed among these distances:
191 3 0.00
192 47 0.08
193 74 0.12
194 17 0.03
195 6 0.01
196 15 0.02
197 90 0.14
198 31 0.05
199 48 0.08
200 99 0.16
201 36 0.06
202 35 0.06
203 99 0.16
204 22 0.04
205 1 0.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (195 bp):
TTCATGCACAAAGTATCAATACACATGTATAAAGTATAGATATTCGGAATTTGAAACCGATTACT
TTAAAGTTATAGGTAAATTTATAATGTAAACGGTAAAAGTCTACCAGTTTAATGATAATAGGCGT
AAACATCAAGTATCGATAGTTCTAGTATAGGTATCAACAATTTCAGTCCAGAAAAGTATCAACAA
Found at i:8423 original size:21 final size:21
Alignment explanation
Indices: 8397--8454 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
8387 CAATTTGCAA
8397 GCACAAAGTATCGATACACAT
1 GCACAAAGTATCGATACACAT
8418 GCACAAAGTATCGATACACAT
1 GCACAAAGTATCGATACACAT
* *
8439 GTATAAAGTATCGATA
1 GCACAAAGTATCGATA
8455 AGTGAAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (21 bp):
GCACAAAGTATCGATACACAT
Found at i:8978 original size:199 final size:197
Alignment explanation
Indices: 8009--8966 Score: 559
Period size: 199 Copynumber: 4.7 Consensus size: 197
7999 ACATATGTAT
* * * *
8009 AAAGTATCAATACACATGTATAAAGTATAGATATTCGGAATTTCGAAACCGATTACTTTAAAGTT
1 AAAGTATCGATACACATATATAAAGTATCGATA-TC-AAATTTC-AAACCGATTACTTTAAAGTT
* * * *
8074 ATAGGTAAATTTACAATGTAAACGGTAAAAGTCTATTAGTTTAATGATAATAGGCGTAAACATCA
63 ATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACTGGTATAATGATAATAGGCGTAAATATCA
* *** * * * * *
8139 AGTATCGATA-GTTTTTGTATAGGTATCGATACTTTTAGTCCAGTATACTTCTCAACAATTTGCA
128 AGTATTGATACACATCTATATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAAAATTTGCA
*
8203 TGCAC
193 CGCAC
* * * * *
8208 AAAGTATCGATACACATGTATAAAGTATAGATAAACGGAATTTGAAACCGATTACTTT-AAGTTA
1 AAAGTATCGATACACATATATAAAGTATCGAT-ATC-AAATTTCAAACCGATTACTTTAAAGTTA
* * * * *
8272 TAGGTAAATTTATAATGTAAACAGTAAAAGTCTACCGGTTTAATGATAATAGGCGTAAACATCAA
64 TAGGTAAATTTACAATGTAAACGGTAAAAGTCTACTGGTATAATGATAATAGGCGTAAATATCAA
* * * * * * *
8337 GTATCGA-A-ACTTTTTGTATAGG--T--ATACTTTTAGTCCAGTGTGCTTCTCAACAATTTGCA
129 GTATTGATACAC-ATCTATATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAAAATTTGCA
*
8396 AGCAC
193 CGCAC
** * * * * ** * *
8401 AAAGTATCGATACACATGCACAAAGTATCGATA-CACATGTATAAAGTATCGA-TAAGTGAAATT
1 AAAGTATCGATACACATATATAAAGTATCGATATCAAAT-T-TCAA--ACCGATTACTTTAAAGT
* * * * * ** * *
8464 TCGAAACCGATTACTTTA-AA-GTTATA-GGTAAATTTC-AAT-GTA-AACGATAAAAGTCTACC
62 T--ATA--GGTAAATTTACAATG-TAAACGGTAAAAGTCTACTGGTATAATGAT--AA---TA--
** ** ** * * * *
8523 GGTTTAATGATAATAGGCATAAACAACAAGTATATATACTTTTTATAGGTATCGATACTTTTAGT
115 GGCGTAA--AT-AT---C---AAGTA-TTG-ATACACA-TCTATATAGGTATCGATACTTTTAGT
* *
8588 CTAATATGCTTCTCAATAATTTGCACGCAC
168 CCAATATGCTTCTCAAAAATTTGCACGCAC
* * * *
8618 AAAGTATCGATACACACATATAAATTATTGATATGCAGAATTTTGAAACCGATTACTTTAAAGTT
1 AAAGTATCGATACACATATATAAAGTATCGATAT-CA-AA-TTTCAAACCGATTACTTTAAAGTT
* * ** * ** *
8683 ATATGTAAATTTACAATGTCAACGGTAAAAACCTATTGGTATTTTGATAATAGGCGTAAATATAA
63 ATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACTGGTATAATGATAATAGGCGTAAATATCA
* * * *
8748 AGTATCGATAC-TATCTATATAGGTATCGATACTTTTATTCCAGTAT-CTTCTCAAAAATTTTGC
128 AGTATTGATACACATCTATATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAAAA-TTTGC
8811 ACGCA-
192 ACGCAC
* * ** *
8816 AAATGTATCGAGACACATATATAAAGTATCGATACTTATAATTTCAACACTTATTACTATAAAGT
1 AAA-GTATCGATACACATATATAAAGTATCGATA-TCA-AATTTCAA-ACCGATTACTTTAAAGT
* * * * *
8881 AATAGGTTAATTTATAATGAAAACGGTAAAAGTCTACTGATATAATGATAATAGGCGTAAATATC
62 TATAGGTAAATTTACAATGTAAACGGTAAAAGTCTACTGGTATAATGATAATAGGCGTAAATATC
*
8946 AAGTATTGATACACATGTATA
127 AAGTATTGATACACATCTATA
8967 AAATATCGAT
Statistics
Matches: 588, Mismatches: 118, Indels: 105
0.73 0.15 0.13
Matches are distributed among these distances:
190 2 0.00
191 2 0.00
192 4 0.01
193 75 0.13
194 10 0.02
195 4 0.01
196 11 0.02
197 89 0.15
198 41 0.07
199 183 0.31
200 15 0.03
201 3 0.01
202 2 0.00
203 5 0.01
206 1 0.00
209 5 0.01
210 3 0.01
211 1 0.00
212 6 0.01
213 10 0.02
214 8 0.01
215 5 0.01
216 10 0.02
217 71 0.12
218 11 0.02
219 8 0.01
220 2 0.00
221 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (197 bp):
AAAGTATCGATACACATATATAAAGTATCGATATCAAATTTCAAACCGATTACTTTAAAGTTATA
GGTAAATTTACAATGTAAACGGTAAAAGTCTACTGGTATAATGATAATAGGCGTAAATATCAAGT
ATTGATACACATCTATATAGGTATCGATACTTTTAGTCCAATATGCTTCTCAAAAATTTGCACGC
AC
Found at i:9362 original size:118 final size:117
Alignment explanation
Indices: 9181--9584 Score: 368
Period size: 118 Copynumber: 3.5 Consensus size: 117
9171 GTTGATAATA
** * * * * *
9181 TTGATAATAAATCAAGTAATTAATCTATTTTGTTATCGTCAGATTTCTAAGGCCTCATTAGCTTT
1 TTGATAATGTATCAA-TAATTAACCTATTTTGTTATCGTCGGATTTCTAAGACTTCATCAGCTTT
* *
9246 AAATAGACGCTATATATTACATTAAATAAACGTTACTTGTTATGTTATTATGG
65 AAATAGACGCTATATATTACATTAAATAAGCGCTACTTGTTATGTTATTATGG
* *
9299 TTGATAATGTGTCCAATAATTAACCTATTTTGTTACCGTCGGATTTCTAAGACTTCATCAGC-TT
1 TTGATAATGTAT-CAATAATTAACCTATTTTGTTATCGTCGGATTTCTAAGACTTCATCAGCTTT
* * * * * *
9363 --AT--A--CT-T-TGGTAACATT--TTAAGCGCTACCTT-ATATGTTCATAAT-A
65 AAATAGACGCTATAT-ATTACATTAAATAAGCGCTA-CTTGTTATGTT-ATTATGG
*** *
9407 TTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTAA-AGCTTTATCAGCTT
1 TTGATAATGTATCAA-TAATTAACCTATTTTGTTATCGTCGGATTTCTAAGA-CTTCATCAGCTT
* * *
9471 TAAACAGACGCTACATATTACATTAAATAAGCGCTACATGTTATGTTATTATGG
64 TAAATAGACGCTATATATTACATTAAATAAGCGCTACTTGTTATGTTATTATGG
* * ** * *
9525 TTGATAATGTTTTCAGTAATTAATTTATTTTGTTATCGTCGGATTTCTAAGGCTCCATCA
1 TTGATAATG-TATCAATAATTAACCTATTTTGTTATCGTCGGATTTCTAAGACTTCATCA
9585 ATTTAAACTT
Statistics
Matches: 223, Mismatches: 42, Indels: 42
0.73 0.14 0.14
Matches are distributed among these distances:
107 4 0.02
108 63 0.28
109 10 0.04
110 7 0.03
111 3 0.01
113 2 0.01
115 4 0.02
116 6 0.03
117 9 0.04
118 109 0.49
119 6 0.03
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (117 bp):
TTGATAATGTATCAATAATTAACCTATTTTGTTATCGTCGGATTTCTAAGACTTCATCAGCTTTA
AATAGACGCTATATATTACATTAAATAAGCGCTACTTGTTATGTTATTATGG
Found at i:9567 original size:226 final size:225
Alignment explanation
Indices: 9165--9774 Score: 785
Period size: 226 Copynumber: 2.7 Consensus size: 225
9155 ATGTACACGG
* *
9165 TAATATGTTGATAATATTGATAATAAATCAAGTAATTAATCTATTTTGTTATCGTCAGATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
* * * *
9230 AGGCCTCATTAGCTTTAAATAGACGCTATATATTACATTAAATAAACGTTACTTGTTATGTTATT
66 AGGCCTCATTAGCTTTAAAAAGACGCTACATATTACATTAAAT-AACGCTACATGTTATGTTATT
* * * * * *
9295 ATGGTTGATAATGTGTCCAATAATTAACCTATTTTGTTACCGTCGGATTTCTAAGACTTCATCAG
130 ATGGTTGATAATGTTTTCAGTAATTAATCTATTTTGTTACCGTCGGATTTCTAAGACTCCATCAA
* *
9360 CTTATACTTTGGTAACATTTTA-AGCGCTACC
195 CTTAAACTTTGGTAACATTTTAGA-CACTACC
* * *
9391 TTATATGTTCATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCGGATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
* * * * *
9456 AAGCTTTATCAGCTTTAAACAGACGCTACATATTACATTAAATAAGCGCTACATGTTATGTTATT
66 AGGCCTCATTAGCTTTAAAAAGACGCTACATATTACATTAAATAA-CGCTACATGTTATGTTATT
* * *
9521 ATGGTTGATAATGTTTTCAGTAATTAATTTATTTTGTTATCGTCGGATTTCTAAGGCTCCATCAA
130 ATGGTTGATAATGTTTTCAGTAATTAATCTATTTTGTTACCGTCGGATTTCTAAGACTCCATCAA
* *
9586 TTTAAACTTTGGTAACATTTTAGACATTACC
195 CTTAAACTTTGGTAACATTTTAGACACTACC
* * **
9617 TAATATGTTGATAATATTAATAACAAATCAAGTAATTAACATATTTTGTTATTATCAGATTTCTA
1 TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
* * * * * * * * *
9682 AGGCCCCATTAGCTTTAAAAATG-TGCTACCTATTGCGTTACATGAACACTACCT-ATATGTTAT
66 AGGCCTCATTAGCTTTAAAAA-GACGCTACATATTACATTAAAT-AACGCTACATGTTATGTTAT
*
9745 TATGGTTGATAATGTTTTTAGTAATTAATC
129 TATGGTTGATAATGTTTTCAGTAATTAATC
9775 GGTTATGTTA
Statistics
Matches: 331, Mismatches: 49, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
225 38 0.11
226 289 0.87
227 4 0.01
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (225 bp):
TAATATGTTGATAATATTGATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAGATTTCTA
AGGCCTCATTAGCTTTAAAAAGACGCTACATATTACATTAAATAACGCTACATGTTATGTTATTA
TGGTTGATAATGTTTTCAGTAATTAATCTATTTTGTTACCGTCGGATTTCTAAGACTCCATCAAC
TTAAACTTTGGTAACATTTTAGACACTACC
Found at i:13023 original size:14 final size:15
Alignment explanation
Indices: 12999--13027 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12989 TTATCCCAAA
12999 AATATTTATTATTAT
1 AATATTTATTATTAT
13014 AATA-TTATTATTAT
1 AATATTTATTATTAT
13028 TACCAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATATTTATTATTAT
Found at i:32494 original size:20 final size:20
Alignment explanation
Indices: 32469--32520 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
32459 AGGTAAGGGA
32469 AGTATCGATACTCACTAGGT
1 AGTATCGATACTCACTAGGT
32489 AGTATCGATACTCACTAGGT
1 AGTATCGATACTCACTAGGT
32509 AGTATCGATACT
1 AGTATCGATACT
32521 ACCAGCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTATCGATACTCACTAGGT
Found at i:34558 original size:19 final size:19
Alignment explanation
Indices: 34522--34558 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34512 TGAAAATGAT
*
34522 TTGATTTTGAAAGCCAAAG
1 TTGATTTTGAAAACCAAAG
*
34541 TTGATTTTGAAAATCAAA
1 TTGATTTTGAAAACCAAA
34559 ATGAAATTTT
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:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAACCAAAG
Found at i:40432 original size:25 final size:25
Alignment explanation
Indices: 40388--40435 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
40378 GATATTGGGT
*
40388 GAACTTTAAAATTTTAAGAGGGAAA
1 GAACTTTAAAATTCTAAGAGGGAAA
40413 GAACTTATAAAATTCT-AGAGGGA
1 GAACTT-TAAAATTCTAAGAGGGA
40436 GAAAATATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.46, C:0.06, G:0.21, T:0.27
Consensus pattern (25 bp):
GAACTTTAAAATTCTAAGAGGGAAA
Found at i:50420 original size:19 final size:19
Alignment explanation
Indices: 50396--50461 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
50386 TTGGTATATT
*
50396 TGTTTTTTTTTCCTTTCTC
1 TGTTTTTTTTTCCTGTCTC
*
50415 TGTTTTTTTTTTCTGTCTC
1 TGTTTTTTTTTCCTGTCTC
* *
50434 TGTCTCTATTTT-CTGTCTC
1 TGT-TTTTTTTTCCTGTCTC
50453 TGCTTTTTT
1 TG-TTTTTT
50462 CTTTTTCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 32 0.82
20 7 0.18
ACGTcount: A:0.02, C:0.20, G:0.09, T:0.70
Consensus pattern (19 bp):
TGTTTTTTTTTCCTGTCTC
Found at i:50949 original size:3 final size:3
Alignment explanation
Indices: 50941--51011 Score: 115
Period size: 3 Copynumber: 23.7 Consensus size: 3
50931 AATATATATT
* *
50941 TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
50989 TAA TAA TGA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
51012 TGGATAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:51479 original size:113 final size:113
Alignment explanation
Indices: 51330--51988 Score: 1108
Period size: 113 Copynumber: 5.9 Consensus size: 113
51320 TAGTATCAAC
*
51330 AAAGGTTGAAC-AGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
51394 ATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGATGAATTCAGGTA
66 ATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGACGAATTCAAGTA
*
51442 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
51507 ATGAACTTTCTCTGGAAAGGATGATCCATCAATTGACGAATTCATGTA
66 ATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGACGAATTCAAGTA
51555 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * **
51620 ATGAACTTTTTCTGGAAAAGCTGATCCATCAATTGACGAATTCAAACA
66 ATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGACGAATTCAAGTA
*
51668 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
51733 ATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGATGAATTCATGTA
66 ATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGACGAATTCAAGTA
51781 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * **
51846 ATG-ACTTTTTCTGGAAAAGCTGATCCATCAATTGACGAATTCAAACA
66 ATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGACGAATTCAAGTA
51893 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
51958 ATGAAC-TTATCTGGCAATGTTGATCCATCAA
66 ATGAACTTTCTCTGGAAAGGCTGATCCATCAA
51989 GTGATGGATT
Statistics
Matches: 515, Mismatches: 30, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
112 138 0.27
113 377 0.73
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAGGCTGATCCATCAATTGACGAATTCAAGTA
Found at i:52800 original size:83 final size:83
Alignment explanation
Indices: 52644--52968 Score: 530
Period size: 83 Copynumber: 3.9 Consensus size: 83
52634 TCTTACAACA
* *
52644 AACCAGATCA-ACTAA--CAAAGAACACTTCCAGAAGATGCTATTGAGCACATTCATCTTCTAAA
1 AACCAGATCAGA-TAACTCAAAGAACACTTCCAGAAGATGCTATT-AACACATTCATCTTCCAAA
52706 TTCAATGATTGATTCTGTCC
64 TTCAATGATTGATTCTGTCC
*
52726 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACACATTCTTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACACATTCATCTTCCAAATT
52791 CAATGATTGATTCTGTCC
66 CAATGATTGATTCTGTCC
** * *
52809 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCTAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACACATTCATCTTCCAAATT
*
52874 CAATGATTGATTCGGTCC
66 CAATGATTGATTCTGTCC
*
52892 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACACATTCTTCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACACATTCATCTTCCAAATT
52957 CAATGATTGATT
66 CAATGATTGATT
52969 AAGATATCAC
Statistics
Matches: 226, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
82 13 0.06
83 186 0.82
84 27 0.12
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACACATTCATCTTCCAAATT
CAATGATTGATTCTGTCC
Found at i:53894 original size:1 final size:1
Alignment explanation
Indices: 53890--53998 Score: 128
Period size: 1 Copynumber: 109.0 Consensus size: 1
53880 CTTGACCCCC
* * * * * * *
53890 TTTTTCTTTTTTTTCTTCTTTTTTTCTTTTTTTTTTTTTTTTTTCTTTTTTTCTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
53955 TTTTTTTTTTCTTTTTTTTCTTTTTTTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
53999 CTTCAAGCAT
Statistics
Matches: 88, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 88 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (1 bp):
T
Found at i:53930 original size:30 final size:30
Alignment explanation
Indices: 53890--53992 Score: 165
Period size: 30 Copynumber: 3.5 Consensus size: 30
53880 CTTGACCCCC
*
53890 TTTTTCTTTTTTTTCTTCTTTTTTTCTTTT
1 TTTTTTTTTTTTTTCTTCTTTTTTTCTTTT
*
53920 TTTTTTTTTTTTTTCTT-TTTTTCTCTTTT
1 TTTTTTTTTTTTTTCTTCTTTTTTTCTTTT
53949 TTTTTTTTTTTTTT-TTCTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTCTTC-TTTTTTTCTTTT
53979 TTTTTTTTTTTTTT
1 TTTTTTTTTTTTTT
53993 TCTTTTCTTC
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
28 2 0.03
29 25 0.37
30 41 0.60
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (30 bp):
TTTTTTTTTTTTTTCTTCTTTTTTTCTTTT
Found at i:53969 original size:50 final size:50
Alignment explanation
Indices: 53896--53998 Score: 163
Period size: 50 Copynumber: 2.1 Consensus size: 50
53886 CCCCTTTTTC
53896 TTTTTTTTCTTCTTTTTTTCTTTTTTTT-TTTTTTTTTTCTTTTTTTCTCT
1 TTTTTTTTCTTCTTTTTTTCTTTTTTTTCTTTTTTTTTT-TTTTTTTCTCT
* * *
53946 TTTTTTTTTTTTTTTTTTTCTTTTTTTTCTTTTTTTTTTTTTTTTTTTCT
1 TTTTTTTTCTTCTTTTTTTCTTTTTTTTCTTTTTTTTTTTTTTTTTCTCT
53996 TTT
1 TTT
53999 CTTCAAGCAT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
50 39 0.80
51 10 0.20
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (50 bp):
TTTTTTTTCTTCTTTTTTTCTTTTTTTTCTTTTTTTTTTTTTTTTTCTCT
Found at i:53993 original size:30 final size:30
Alignment explanation
Indices: 53890--53998 Score: 168
Period size: 29 Copynumber: 3.6 Consensus size: 30
53880 CTTGACCCCC
* *
53890 TTTTTCTTTTTTTTCTTCTTTTTT-TCTTTT
1 TTTTTTTTTTTTTTCTT-TTTTTTCTTTTTT
53920 TTTTTTTTTTTTTTCTTTTTTTCTCTTTTTT
1 TTTTTTTTTTTTTTCTTTTTTT-TCTTTTTT
53951 TTTTTTTTTTTTTTCTTTTTTTTC-TTTTT
1 TTTTTTTTTTTTTTCTTTTTTTTCTTTTTT
53980 TTTTTTTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTCTTTT
53999 CTTCAAGCAT
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
29 29 0.39
30 19 0.25
31 27 0.36
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (30 bp):
TTTTTTTTTTTTTTCTTTTTTTTCTTTTTT
Found at i:66686 original size:3 final size:3
Alignment explanation
Indices: 66678--66729 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
66668 AATATATATT
66678 TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA T-A TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
66722 TAA TAA TA
1 TAA TAA TA
66730 TGGATAAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.09
3 40 0.87
4 2 0.04
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:67027 original size:22 final size:22
Alignment explanation
Indices: 67002--67043 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
66992 TATATGATAA
*
67002 TAAAA-TATATTATATATTTTTT
1 TAAAATTATATT-TAAATTTTTT
67024 TAAAATTATATTTAAATTTT
1 TAAAATTATATTTAAATTTT
67044 AAAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAAAATTATATTTAAATTTTTT
Found at i:71318 original size:17 final size:18
Alignment explanation
Indices: 71293--71331 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
71283 TTTTTTATAT
*
71293 CAAATAATAAAATATAAC
1 CAAATAATAAAAAATAAC
71311 CAAA-AATAAAAAATAA-
1 CAAATAATAAAAAATAAC
71327 CAAAT
1 CAAAT
71332 TTTTAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 4 0.21
17 11 0.58
18 4 0.21
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (18 bp):
CAAATAATAAAAAATAAC
Found at i:79849 original size:31 final size:32
Alignment explanation
Indices: 79811--79872 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
79801 GTTTAATATT
*
79811 TTAATTTAATTACT-TAAATTTTAAATTAATC
1 TTAATTTAATCACTCTAAATTTTAAATTAATC
* *
79842 TTAATTTAATCATTCTAACTTTTAAATTAAT
1 TTAATTTAATCACTCTAAATTTTAAATTAAT
79873 TTTTTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (32 bp):
TTAATTTAATCACTCTAAATTTTAAATTAATC
Found at i:80058 original size:31 final size:31
Alignment explanation
Indices: 80016--80093 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
80006 CTTTTAAAAC
80016 TTGCAATATGGTCCCCCAACATTTAGTCCGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCGT
* * *
80047 TTGTAATATGGTCTCCCAACATTTAGTCTGT
1 TTGCAATATGGTCCCCCAACATTTAGTCCGT
80078 TTGCAATATGGTCCCC
1 TTGCAATATGGTCCCC
80094 GACGTAACTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCCCCCAACATTTAGTCCGT
Found at i:80403 original size:31 final size:31
Alignment explanation
Indices: 80354--80428 Score: 105
Period size: 31 Copynumber: 2.4 Consensus size: 31
80344 CTTTTAAAAC
** *
80354 TTGCAATACAGTCCCCCAACATTTAGTCCGT
1 TTGCAATATGGTCTCCCAACATTTAGTCCGT
* *
80385 TTGTAATATGGTCTCCCAACATTTAGTCTGT
1 TTGCAATATGGTCTCCCAACATTTAGTCCGT
80416 TTGCAATATGGTC
1 TTGCAATATGGTC
80429 CCCGACGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCTCCCAACATTTAGTCCGT
Found at i:82992 original size:31 final size:31
Alignment explanation
Indices: 82957--83086 Score: 206
Period size: 31 Copynumber: 4.2 Consensus size: 31
82947 TTACAATACA
*** *
82957 GTCCCCCAACATTTAGTTTGTTGGCAATATG
1 GTCCCCCAACATTTAGTCCATTTGCAATATG
82988 GTCCCCCAACATTTAGTCCATTTGCAATATG
1 GTCCCCCAACATTTAGTCCATTTGCAATATG
83019 GTCCCCCAACATTTAGTCCATTTGCAATATG
1 GTCCCCCAACATTTAGTCCATTTGCAATATG
* *
83050 GTCCCCCAACATTTAGTCCGTTTGCAACATG
1 GTCCCCCAACATTTAGTCCATTTGCAATATG
83081 GTCCCC
1 GTCCCC
83087 GATGTAACTA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 93 1.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (31 bp):
GTCCCCCAACATTTAGTCCATTTGCAATATG
Found at i:83650 original size:20 final size:19
Alignment explanation
Indices: 83625--83684 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
83615 CTCAATTTAA
83625 ATTTTAACAATAGTATAAAT
1 ATTTTAACAATA-TATAAAT
*
83645 ATTTT-ACCA-A-ATAAA-
1 ATTTTAACAATATATAAAT
83660 A-TTTAACAATAATATAAAT
1 ATTTTAACAAT-ATATAAAT
83679 ATTTTA
1 ATTTTA
83685 CCAAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
14 3 0.09
15 4 0.12
16 5 0.16
17 1 0.03
18 6 0.19
19 4 0.12
20 9 0.28
ACGTcount: A:0.52, C:0.07, G:0.02, T:0.40
Consensus pattern (19 bp):
ATTTTAACAATATATAAAT
Found at i:83670 original size:34 final size:34
Alignment explanation
Indices: 83622--83693 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
83612 TTGCTCAATT
* *
83622 TAAATTTTAACAATAGTATAAATATTTTACCAAA
1 TAAAATTTAACAATAATATAAATATTTTACCAAA
83656 TAAAATTTAACAATAATATAAATATTTTACCAAA
1 TAAAATTTAACAATAATATAAATATTTTACCAAA
83690 TAAA
1 TAAA
83694 TTAAAGGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.36
Consensus pattern (34 bp):
TAAAATTTAACAATAATATAAATATTTTACCAAA
Found at i:83691 original size:18 final size:18
Alignment explanation
Indices: 83638--83691 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
83628 TTAACAATAG
83638 TATAAATATTTTACC-AA
1 TATAAATATTTTACCAAA
* *
83655 -ATAAA-ATTTAACAATAA
1 TATAAATATTTTACCA-AA
83672 TATAAATATTTTACCAAA
1 TATAAATATTTTACCAAA
83690 TA
1 TA
83692 AATTAAAGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 6 0.21
16 5 0.17
17 2 0.07
18 9 0.31
19 7 0.24
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (18 bp):
TATAAATATTTTACCAAA
Found at i:83692 original size:16 final size:16
Alignment explanation
Indices: 83639--83694 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
83629 TAACAATAGT
83639 ATAAATATTTTACCAA
1 ATAAATATTTTACCAA
* *
83655 ATAAA-ATTTAACAATAA
1 ATAAATATTTTAC--CAA
83672 TATAAATATTTTACCAA
1 -ATAAATATTTTACCAA
83689 ATAAAT
1 ATAAAT
83695 TAAAGGGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 6 0.19
16 11 0.34
17 4 0.12
18 5 0.16
19 6 0.19
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (16 bp):
ATAAATATTTTACCAA
Found at i:83887 original size:21 final size:22
Alignment explanation
Indices: 83862--83902 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
83852 TCATGCTCAA
83862 ATAATTTT-AAAAAATTAAAAT
1 ATAATTTTAAAAAAATTAAAAT
83883 ATAATTTTAAAAAAATTAAA
1 ATAATTTTAAAAAAATTAAA
83903 GTCAATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
ATAATTTTAAAAAAATTAAAAT
Found at i:84458 original size:14 final size:14
Alignment explanation
Indices: 84441--84467 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
84431 AATCGAAAAC
84441 AAATTGTAAACTTT
1 AAATTGTAAACTTT
84455 AAATTGTAAACTT
1 AAATTGTAAACTT
84468 GTAATCATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (14 bp):
AAATTGTAAACTTT
Found at i:88512 original size:26 final size:26
Alignment explanation
Indices: 88483--88554 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
88473 CAATACATTT
88483 AACCATAAACATTACATTAAATCCTC
1 AACCATAAACATTACATTAAATCCTC
88509 AACCATAAACATTACATTAAATCCTC
1 AACCATAAACATTACATTAAATCCTC
88535 AACCATAAACATTACATTAA
1 AACCATAAACATTACATTAA
88555 TGAAATAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.49, C:0.25, G:0.00, T:0.26
Consensus pattern (26 bp):
AACCATAAACATTACATTAAATCCTC
Found at i:88582 original size:36 final size:36
Alignment explanation
Indices: 88535--88675 Score: 221
Period size: 36 Copynumber: 3.9 Consensus size: 36
88525 TTAAATCCTC
*
88535 AACCATAAACATTACATTAATGAAATAAAAACAACG
1 AACCATAAACATTACATTAAGGAAATAAAAACAACG
**
88571 AACCATAAACATTACATTAA-GAACATAAAAACAATA
1 AACCATAAACATTACATTAAGGAA-ATAAAAACAACG
*
88607 AACCATAAACATTACATTAAGGATATAAAAACAACG
1 AACCATAAACATTACATTAAGGAAATAAAAACAACG
*
88643 AACCATAAACATTACATTAAGGACATAAAAACA
1 AACCATAAACATTACATTAAGGAAATAAAAACA
88676 TACGTTAAGG
Statistics
Matches: 97, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
35 3 0.03
36 92 0.95
37 2 0.02
ACGTcount: A:0.58, C:0.17, G:0.06, T:0.19
Consensus pattern (36 bp):
AACCATAAACATTACATTAAGGAAATAAAAACAACG
Found at i:88611 original size:72 final size:72
Alignment explanation
Indices: 88535--88675 Score: 255
Period size: 72 Copynumber: 2.0 Consensus size: 72
88525 TTAAATCCTC
*
88535 AACCATAAACATTACATTAATGAAATAAAAACAACGAACCATAAACATTACATTAAGAACATAAA
1 AACCATAAACATTACATTAAGGAAATAAAAACAACGAACCATAAACATTACATTAAGAACATAAA
88600 AACAATA
66 AACAATA
* *
88607 AACCATAAACATTACATTAAGGATATAAAAACAACGAACCATAAACATTACATTAAGGACATAAA
1 AACCATAAACATTACATTAAGGAAATAAAAACAACGAACCATAAACATTACATTAAGAACATAAA
88672 AACA
66 AACA
88676 TACGTTAAGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 66 1.00
ACGTcount: A:0.58, C:0.17, G:0.06, T:0.19
Consensus pattern (72 bp):
AACCATAAACATTACATTAAGGAAATAAAAACAACGAACCATAAACATTACATTAAGAACATAAA
AACAATA
Found at i:88685 original size:21 final size:22
Alignment explanation
Indices: 88649--88692 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
88639 AACGAACCAT
88649 AAACATTACATTAAGGACATAA
1 AAACATTACATTAAGGACATAA
* *
88671 AAACA-TACGTTAAGGATATAA
1 AAACATTACATTAAGGACATAA
88692 A
1 A
88693 CATACATCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (22 bp):
AAACATTACATTAAGGACATAA
Found at i:88695 original size:19 final size:20
Alignment explanation
Indices: 88647--88699 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
88637 ACAACGAACC
88647 ATAAACATTACATTAAGGACAT
1 ATAAACA-TACATTAAGGA-AT
* *
88669 AAAAACATACGTTAAGG-AT
1 ATAAACATACATTAAGGAAT
88688 ATAAACATACAT
1 ATAAACATACAT
88700 CTATTCTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 12 0.44
21 9 0.33
22 6 0.22
ACGTcount: A:0.53, C:0.13, G:0.09, T:0.25
Consensus pattern (20 bp):
ATAAACATACATTAAGGAAT
Found at i:99812 original size:5 final size:5
Alignment explanation
Indices: 99784--99827 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
99774 AAAGAAGGTA
* * *
99784 ATTTT ATTCT ATTCT ATTCT ATTTT ATTTT GATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT -ATTTT ATTTT ATT
99828 ATTAATATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 31 0.86
6 5 0.14
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (5 bp):
ATTTT
Found at i:102868 original size:50 final size:50
Alignment explanation
Indices: 102789--102888 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
102779 AACAGATATT
102789 ATTTTATATTTGTTTCTAAACAAACATTAGTGCTCGACAGC-CCCTACAAA
1 ATTTTATATTTGTTTCTAAACAAACATTAGTGCTCGACAGCGCCCT-CAAA
* *
102839 ATTTTATATTT-TCTTCTAAACAAATATTAGTTCTCGACAGCGCCCTCAAA
1 ATTTTATATTTGT-TTCTAAACAAACATTAGTGCTCGACAGCGCCCTCAAA
102889 TGATAAAAGG
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
49 1 0.02
50 41 0.89
51 4 0.09
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (50 bp):
ATTTTATATTTGTTTCTAAACAAACATTAGTGCTCGACAGCGCCCTCAAA
Done.