Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003003.1 Hibiscus syriacus cultivar Beakdansim tig00006217_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: 50957
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Found at i:3083 original size:35 final size:37
Alignment explanation
Indices: 3044--3116 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
3034 TTCGGAACCT
*
3044 TTAACTTAA-TTGATCTGT-TTTCTTTTCGATCTTTA
1 TTAACTTAATTTGATCTGTATCTCTTTTCGATCTTTA
3079 TTAACTTAATTTGATCTGTATCTCTTTTCGATCTTTA
1 TTAACTTAATTTGATCTGTATCTCTTTTCGATCTTTA
3116 T
1 T
3117 CAGACACTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 9 0.26
36 9 0.26
37 17 0.49
ACGTcount: A:0.21, C:0.15, G:0.08, T:0.56
Consensus pattern (37 bp):
TTAACTTAATTTGATCTGTATCTCTTTTCGATCTTTA
Found at i:8536 original size:199 final size:197
Alignment explanation
Indices: 8093--8809 Score: 872
Period size: 199 Copynumber: 3.6 Consensus size: 197
8083 AGCGCTTGTA
* *
8093 TTGACCTATTTTCTAAGTAAACC-GATATATTTATACCGGTAACATTGCAAATTTACCTATTACA
1 TTGACCTATTTTCTAA-TAAACCAG-TATATTTATACCGGTTACATTGTAAATTTACCTATTACA
* * * *
8157 TTATAATTATCGGTTTCGATGTTTTTTGGATTGATACAATTT--TAAATGTATCAACACTTTATG
64 TTATAATTATC-GTTTCGATGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATG
* * * * *
8220 CTTGCACCTCGTTGGGCATTCATTCTGGAAAAAAATATCGACACAAACTTAAAAAGTGTCGATAC
127 CGTGCACCTCGTTTGGCATTCATTCTGGACAAAAATATCGACACAAATTTAACAAGTGTCGATAC
8285 ATTAT-
192 ATTATG
* * * * *
8290 TTAGACCTATTTTCTCATAAAATCGGTATATTTATACCGGGTACATTGTAAATTTACCTATCACA
1 TT-GACCTATTTTCTAAT-AAACCAGTATATTTATACCGGTTACATTGTAAATTTACCTATTACA
* * *
8355 TTGTAATTTTCGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTCTATGCG
64 TTATAATTATCGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCG
* * * * *
8420 TGCA-CTCCGTTTGGCATTCATTATGGACAAAATGTATCAATACAAATTTAACAAGTGTTGATAC
129 TGCACCT-CGTTTGGCATTCATTCTGGACAAAA-ATATCGACACAAATTTAACAAGTGTCGATAC
*
8484 TTTATG
192 ATTATG
* * *
8490 TTGACCTATTTTCTCATAAAACCAGTATATTTATATCGGTTACATTGTAAATTTACATATTACAT
1 TTGACCTATTTTCTAAT-AAACCAGTATATTTATACCGGTTACATTGTAAATTTACCTATTACAT
**
8555 TATAATTATCGTTTCGATGTTTTTAAGATCGATACTTTTAATAAATGTATCGACACTTTATGCGT
65 TATAATTATCGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGT
* * **
8620 GCACCTCATTTGGGCATTCATTCTGGACAATAAATATTGACACAAATTCCACAAGTGTCGATACA
130 GCACCTCGTTT-GGCATTCATTCTGGACAA-AAATATCGACACAAATTTAACAAGTGTCGATACA
8685 TTATG
193 TTATG
* * * * *
8690 TTGATCTGTTTTCTAATTAACCAGGTATATTTATACCCGTTACATTGTTAATTTACCTATTACAT
1 TTGACCTATTTTCTAATAAACCA-GTATATTTATACCGGTTACATTGTAAATTTACCTATTACAT
* * * *
8755 TATAATTATTAGTTTTGATGTTTTTGGG-TAGATACTTGTAGA-AAATGTATCGACA
65 TATAATTA-TCGTTTCGATGTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACA
8810 TATATTAGGT
Statistics
Matches: 447, Mismatches: 59, Indels: 25
0.84 0.11 0.05
Matches are distributed among these distances:
196 3 0.01
197 28 0.06
198 107 0.24
199 159 0.36
200 132 0.30
201 18 0.04
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (197 bp):
TTGACCTATTTTCTAATAAACCAGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATT
ATAATTATCGTTTCGATGTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTG
CACCTCGTTTGGCATTCATTCTGGACAAAAATATCGACACAAATTTAACAAGTGTCGATACATTA
TG
Found at i:12452 original size:201 final size:199
Alignment explanation
Indices: 11959--12899 Score: 1268
Period size: 201 Copynumber: 4.9 Consensus size: 199
11949 TATAATGGAT
* *
11959 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAAACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATC
** ** *
12024 AATATATTTATACCAATTATATTACAAAATTACCTATTACATTATAATTATGAATTTCGATGTTT
66 GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGATTTCGATG-TT
* * *
12089 TTTTAGATCGACACCTTTTGAAAATGTATCGACACTTTATGCTTTCACCCTATTTTGGCATCCAT
130 TTTGAGATCGACA-CTTTTGAAAATGTATCGACACTTTATG-ATTCACCCTTTTTTGGCATCCAT
12154 TCTATAC
193 TCTATAC
*
12161 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATATTGTAGACCTATTCTCTCATAAAATC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATC
* * *
12226 GGTATA-TTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATGTTT
66 GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGATTTCGATGTTT
* * *
12290 TTGGGATTGACACGTTTTAAAAATGTATCGACACTTTATGAGTTCACCCTTTTTTGGCATCCATT
131 TTGAGATCGACAC-TTTTGAAAATGTATCGACACTTTATGA-TTCACCCTTTTTTGGCATCCATT
12355 CTATAC
194 CTATAC
* *
12361 AAAAAGTATCGACACAAAATTAAAAAATGTTGATACATGTTGTAGACCTATTCTCTCATAAAATC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATC
* *
12426 GATATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGATTTCGATATTT
66 GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGATTTCGATGTTT
*
12491 TCGAGATCGACACTTTTTGAAAATGTATCGACACTTTATGCATTCACCCTTTTTTGGCATCCA-T
131 TTGAGATCGACAC-TTTTGAAAATGTATCGACACTTTATG-ATTCACCCTTTTTTGGCATCCATT
12555 -TAT--
194 CTATAC
* *
12558 -----GTA-C-A-A-AAAATTAAAAAGTGTTGATACATATTGTAGACCTATTCTCTCATAAAATC
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATC
*
12614 GGTATATTTATATCGGTTATATTACAAAATTACCTATTACATTATAATTATGGATTTCGATGTTT
66 GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGATTTCGATGTTT
12679 TTGAGATCGACAC---T-----T-TAT-G---C-----G-TTCACCCTTTTTTGGCATCCATTCT
131 TTGAGATCGACACTTTTGAAAATGTATCGACACTTTATGATTCACCCTTTTTTGGCATCCATTCT
*
12725 GTAC
196 ATAC
12729 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA-C
1 AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATC
* * *
12793 TGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATATT
66 -GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGATTTCGATGTT
* *
12858 TTT-AGGATCGACTCATTTTTAAAATGTATCGACACTTTATGA
130 TTTGA-GATCGACAC-TTTTGAAAATGTATCGACACTTTATGA
12900 GAAACTTTAA
Statistics
Matches: 656, Mismatches: 44, Indels: 80
0.84 0.06 0.10
Matches are distributed among these distances:
167 21 0.03
168 1 0.00
169 3 0.00
174 1 0.00
176 3 0.00
177 2 0.00
178 4 0.01
179 4 0.01
180 117 0.18
184 2 0.00
188 122 0.19
189 2 0.00
190 4 0.01
191 2 0.00
192 3 0.00
194 1 0.00
199 5 0.01
200 133 0.20
201 159 0.24
202 67 0.10
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.38
Consensus pattern (199 bp):
AAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAATC
GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGATTTCGATGTTT
TTGAGATCGACACTTTTGAAAATGTATCGACACTTTATGATTCACCCTTTTTTGGCATCCATTCT
ATAC
Found at i:12625 original size:188 final size:183
Alignment explanation
Indices: 12346--12898 Score: 710
Period size: 188 Copynumber: 3.0 Consensus size: 183
12336 CCCTTTTTTG
* * *
12346 GCATCCATTCTATACAAAAAGTATCGACACAAAATTAAAAAATGTTGATACATGTTGTAGACCTA
1 GCATCCATTCTGTACAAAAAGTATCGACAAAAAATTAAAAAGTGTTGATACATGTTGTAGACCTA
*
12411 TTCTCTCATAAAATCGATATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTA
66 TTCTCTCATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTA
12476 TGGATTTCGATATTTTCGAGATCGACACTTTTTGAAAATGTATCGACACTTTAT
131 TGGATTTCGATATTTT-GAGATCGACACTTTTTGAAAATGTATCGACACTTTAT
* * * * *** * *
12530 GCATTCACCCTTTTTTGGCATCCATTAT-GTACAAAAAATTAAAAAGTGTTGATACATATTGTAG
1 GCA-T--CCATTCTGT-ACAAAAAGTATCG-ACAAAAAATTAAAAAGTGTTGATACATGTTGTAG
*
12594 ACCTATTCTCTCATAAAATCGGTATATTTATATCGGTTATATTACAAAATTACCTATTACATTAT
61 ACCTATTCTCTCATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTAT
* * * * *
12659 AATTATGGATTTCGATGTTTTTGAGATCGACACTTTATG----CGT-TC-ACCCTTTTTT
126 AATTATGGATTTCGAT-ATTTTGAGATCGACACTTTTTGAAAATGTATCGACAC-TTTAT
* *
12713 GGCATCCATTCTGTACAAAAAGTATCGACACAAAATTAAAAAGTGTCGATACATGTTGTAGACCT
1 -GCATCCATTCTGTACAAAAAGTATCGACAAAAAATTAAAAAGTGTTGATACATGTTGTAGACCT
12778 ATTCTCTCATAAAA-CTGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAAT
65 ATTCTCTCATAAAATC-GGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAAT
* * * *
12842 TATGGGTTTCAATATTTTTAGGATCGACTCATTTTT-AAAATGTATCGACACTTTAT
129 TATGGATTTCGATATTTTGA-GATCGACAC-TTTTTGAAAATGTATCGACACTTTAT
12898 G
1 G
12899 AGAAACTTTA
Statistics
Matches: 312, Mismatches: 39, Indels: 36
0.81 0.10 0.09
Matches are distributed among these distances:
179 6 0.02
180 121 0.39
181 11 0.04
182 3 0.01
183 7 0.02
184 11 0.04
185 7 0.02
186 3 0.01
187 7 0.02
188 132 0.42
189 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (183 bp):
GCATCCATTCTGTACAAAAAGTATCGACAAAAAATTAAAAAGTGTTGATACATGTTGTAGACCTA
TTCTCTCATAAAATCGGTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTA
TGGATTTCGATATTTTGAGATCGACACTTTTTGAAAATGTATCGACACTTTAT
Found at i:12813 original size:180 final size:180
Alignment explanation
Indices: 12316--12869 Score: 749
Period size: 180 Copynumber: 3.0 Consensus size: 180
12306 TTAAAAATGT
12316 ATCGACACTTTATGAGTTCACCCTTTTTTGGCATCCATTCTATACAAAAAGTATCGACACAAAAT
1 ATCGACACTTTATGAGTTCACCCTTTTTTGGCATCCATTCTATACAAAAAGTATCGACACAAAAT
* *
12381 TAAAAAATGTTGATACATGTTGTAGACCTATTCTCTCATAAAATCGATATATTTATACCGGTTAT
66 TAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATATTTATACCGGTTAT
*
12446 ATTACAAAATTACCTATTACATTATAATTATGGATTTCGATATTTTCGAG
131 ATTACAAAATTACCTATTACATTATAATTATGGATTTCGATATTTTTGAG
* * * * * * * *** *
12496 ATCGACACTTTTTGAAAATGTATCGACAC-TTTAT-GCATTCACCCTTTTTTGGCATCCATTAT-
1 ATCGACACTTTATG---A-GT-TC-ACCCTTTTTTGGCA-T--CCATTCTAT-ACAAAAAGTATC
* *
12558 GTACAAAAAATTAAAAAGTGTTGATACATATTGTAGACCTATTCTCTCATAAAATCGGTATATTT
56 G-ACACAAAATTAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATATTT
* *
12623 ATATCGGTTATATTACAAAATTACCTATTACATTATAATTATGGATTTCGATGTTTTTGAG
120 ATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGATTTCGATATTTTTGAG
* *
12684 ATCGACACTTTATGCGTTCACCCTTTTTTGGCATCCATTCTGTACAAAAAGTATCGACACAAAAT
1 ATCGACACTTTATGAGTTCACCCTTTTTTGGCATCCATTCTATACAAAAAGTATCGACACAAAAT
*
12749 TAAAAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAA-CTGGTATATTTATACCGGTTA
66 TAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAATC-GGTATATTTATACCGGTTA
* *
12813 TATTACAAAATTACCTATTACATTATAATTATGGGTTTCAATATTTTT-AGG
130 TATTACAAAATTACCTATTACATTATAATTATGGATTTCGATATTTTTGA-G
12864 ATCGAC
1 ATCGAC
12870 TCATTTTTAA
Statistics
Matches: 321, Mismatches: 37, Indels: 32
0.82 0.09 0.08
Matches are distributed among these distances:
179 2 0.01
180 138 0.43
181 7 0.02
182 3 0.01
183 8 0.02
184 10 0.03
185 7 0.02
186 3 0.01
187 7 0.02
188 136 0.42
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (180 bp):
ATCGACACTTTATGAGTTCACCCTTTTTTGGCATCCATTCTATACAAAAAGTATCGACACAAAAT
TAAAAAGTGTTGATACATGTTGTAGACCTATTCTCTCATAAAATCGGTATATTTATACCGGTTAT
ATTACAAAATTACCTATTACATTATAATTATGGATTTCGATATTTTTGAG
Found at i:15966 original size:21 final size:21
Alignment explanation
Indices: 15942--15987 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
15932 ATAAATAGTA
* *
15942 TCGACACAAATTTTATAAGTG
1 TCGACACAAATTTCAGAAGTG
15963 TCGACACAAATTTCAGAAGTG
1 TCGACACAAATTTCAGAAGTG
15984 TCGA
1 TCGA
15988 TACATTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TCGACACAAATTTCAGAAGTG
Found at i:16700 original size:18 final size:19
Alignment explanation
Indices: 16657--16697 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
16647 ATTCACATAA
*
16657 AAAATTATTAATCGTATAC
1 AAAATTATAAATCGTATAC
*
16676 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
16695 AAA
1 AAA
16698 TTAACCCTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:18729 original size:26 final size:26
Alignment explanation
Indices: 18699--18752 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
18689 TCGACAACGT
*
18699 ACTTTTCCATTCTACTACAGCAACAA
1 ACTTTTCCATTCGACTACAGCAACAA
18725 ACTTTTCCATTCGACTACAGCAACAA
1 ACTTTTCCATTCGACTACAGCAACAA
18751 AC
1 AC
18753 AAACAAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.35, C:0.31, G:0.06, T:0.28
Consensus pattern (26 bp):
ACTTTTCCATTCGACTACAGCAACAA
Found at i:19402 original size:182 final size:182
Alignment explanation
Indices: 18974--19410 Score: 621
Period size: 182 Copynumber: 2.4 Consensus size: 182
18964 TATTTCGTTG
* * * * * *
18974 AAAGTATCGATAATTTATTATTAACGTATCGACACTTTCAATATATTCGATAGCTCTTTACCGGT
1 AAAGTGTCGAT-ACTTA-TATTAAAGTATCGACACTTTAAATATATCCGGTAGCTCTTTACCGGT
* *
19039 TTTATCATTTCAAGACCAGTTTTGTCATATTTTTACATGTTATATCATTATGGATCGATACATTT
64 TTTGTCATTTCAAGACCAGTTTTATCATATTTTTACATGTTATATCATTATGGATCGATACATTT
* * *
19104 TTATAAAGTATCGACACTTTATAGGCGTTAAAACTGCTTCTCTTTTAAATTAAC
129 TTATAAAGTATCAACACTTTATAGGCGCTAAAACTGCTTATCTTTTAAATTAAC
* * *
19158 AAAGTGTCGATACTTATATTAAAGTATCGACACTTTCAATATATCCGGTCGCTCTATACCGGTTT
1 AAAGTGTCGATACTTATATTAAAGTATCGACACTTTAAATATATCCGGTAGCTCTTTACCGGTTT
* *
19223 TGTCCTTT-AGAGACTCA-TTTTATCATATTTTTACATGTTATATCATTGTGGATCGATACATTT
66 TGTCATTTCA-AGAC-CAGTTTTATCATATTTTTACATGTTATATCATTATGGATCGATACATTT
*
19286 TTATAAAGTATCAACACTTTATAGGCGCTAAAACTGCTTATCTTTTAAATTCAC
129 TTATAAAGTATCAACACTTTATAGGCGCTAAAACTGCTTATCTTTTAAATTAAC
* *
19340 AAAGTGTCGATACTTATATTAAAGTATCGACA-TTGTAAATATATCTGGTAG-TGTTTTACCGGT
1 AAAGTGTCGATACTTATATTAAAGTATCGACACTT-TAAATATATCCGGTAGCT-CTTTACCGGT
19403 TTTGTCAT
64 TTTGTCAT
19411 ATTTTTACTT
Statistics
Matches: 228, Mismatches: 21, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
181 4 0.02
182 208 0.91
183 6 0.03
184 10 0.04
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (182 bp):
AAAGTGTCGATACTTATATTAAAGTATCGACACTTTAAATATATCCGGTAGCTCTTTACCGGTTT
TGTCATTTCAAGACCAGTTTTATCATATTTTTACATGTTATATCATTATGGATCGATACATTTTT
ATAAAGTATCAACACTTTATAGGCGCTAAAACTGCTTATCTTTTAAATTAAC
Found at i:21549 original size:21 final size:21
Alignment explanation
Indices: 21498--21556 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
21488 AAATCAGTTC
21498 CCAGAATCGCAATGCGATAGT
1 CCAGAATCGCAATGCGATAGT
* * **
21519 ACA-AATTCGCATTGCGATTTT
1 CCAGAA-TCGCAATGCGATAGT
*
21540 CCAGAATCGCAACGCGA
1 CCAGAATCGCAATGCGA
21557 ATATGAAAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.22
Consensus pattern (21 bp):
CCAGAATCGCAATGCGATAGT
Found at i:21569 original size:20 final size:20
Alignment explanation
Indices: 21544--21796 Score: 149
Period size: 20 Copynumber: 12.5 Consensus size: 20
21534 GATTTTCCAG
*
21544 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
* *
21564 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
*
21584 AATCGCAACGCG-ATTCTGAA
1 AATCGCAACGCGAATAC-GAA
* * * *
21604 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * * * *
21625 AATCACAACGTGTATCCGTA
1 AATCGCAACGCGAATACGAA
21645 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* *
21666 AATCGCAACGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* *
21686 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * *
21706 AATCGCAACGTGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* *
21726 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * * *
21746 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
21766 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
21787 AATCGCAACG
1 AATCGCAACG
21797 TTTATCCGTA
Statistics
Matches: 186, Mismatches: 33, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
19 3 0.02
20 134 0.72
21 49 0.26
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:21650 original size:41 final size:41
Alignment explanation
Indices: 21605--21816 Score: 302
Period size: 41 Copynumber: 5.2 Consensus size: 41
21595 GATTCTGAAT
* * *
21605 ATCGCAACGAGTATCCGTAAAATCACAACGTGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGTGTATCCGTAA
* * *
21646 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGTGTATCCGTAA
*
21687 ATCGCAACGAGAATACGT-AAATCGCAACGTGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGTGTATCCGTAA
* *
21727 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGTGTATCCGTAA
* *
21767 ATCGCAACGACAATACGTAAAATCGCAACGTTTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGTGTATCCGTAA
*
21808 ATCGAAACG
1 ATCGCAACG
21817 CGATCTCCGG
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 75 0.49
41 79 0.51
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGTGTATCCGTAA
Found at i:21721 original size:40 final size:41
Alignment explanation
Indices: 21544--21816 Score: 306
Period size: 40 Copynumber: 6.7 Consensus size: 41
21534 GATTTTCCAG
* * * * *
21544 AATCGCAACGCGAATATGAAAATCGCAACGCG-A-ACATATA
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTA-A
* *
21584 AATCGCAACGCG-ATTCTG-AATATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGTA-TCTGTAA-ATCGCAACGAGAATACGTAA
* * * *
21625 AATCACAACGTGTATCCGTAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAA
21666 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGT-A
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAA
*
21706 AATCGCAACGTGTATCTGTAAATCGCAACGAGAATACGT-A
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAA
* * *
21746 AATCGCAATGCGTATCCGTAAATCGCAACGACAATACGTAA
1 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAA
** * *
21787 AATCGCAACGTTTATCCGTAAATCGAAACG
1 AATCGCAACGCGTATCTGTAAATCGCAACG
21817 CGATCTCCGG
Statistics
Matches: 203, Mismatches: 23, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.01
40 100 0.49
41 94 0.46
42 6 0.03
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (41 bp):
AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTAA
Found at i:21811 original size:20 final size:20
Alignment explanation
Indices: 21605--21816 Score: 208
Period size: 20 Copynumber: 10.4 Consensus size: 20
21595 GATTCTGAAT
21605 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGAGTATCCGT-AA
* *
21626 ATCACAACGTGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
21646 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
* *
21667 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGTATCCGTAA
* *
21687 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* *
21707 ATCGCAACGTGTATCTGTAA
1 ATCGCAACGAGTATCCGTAA
* *
21727 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* *
21747 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
21767 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
**
21788 ATCGCAACGTTTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
*
21808 ATCGAAACG
1 ATCGCAACG
21817 CGATCTCCGG
Statistics
Matches: 151, Mismatches: 38, Indels: 5
0.78 0.20 0.03
Matches are distributed among these distances:
20 104 0.69
21 47 0.31
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGTATCCGTAA
Found at i:21898 original size:21 final size:21
Alignment explanation
Indices: 21869--21915 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
21859 ATTCTGACTA
21869 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
21890 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
21911 TCGCA
1 TCGCA
21916 ACGCGAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:21957 original size:20 final size:20
Alignment explanation
Indices: 21911--21957 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
21901 TTTTCCTAAT
*
21911 TCGCAACGCGAATACATAAA
1 TCGCAATGCGAATACATAAA
*
21931 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACATAAA
21951 TCGCAAT
1 TCGCAAT
21958 TCAAATCTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.19
Consensus pattern (20 bp):
TCGCAATGCGAATACATAAA
Found at i:21969 original size:20 final size:20
Alignment explanation
Indices: 21911--21973 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
21901 TTTTCCTAAT
* * *
21911 TCGCAACGCGAATACATAAA
1 TCGCAATGCAAATACGTAAA
*
21931 TCGCAATGCGAATACGTAAA
1 TCGCAATGCAAATACGTAAA
*
21951 TCGCAATTCAAAT-CTGTAAA
1 TCGCAATGCAAATAC-GTAAA
21971 TCG
1 TCG
21974 AAACGAGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 1 0.03
20 37 0.97
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (20 bp):
TCGCAATGCAAATACGTAAA
Found at i:22992 original size:15 final size:14
Alignment explanation
Indices: 22974--23009 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
22964 GAAAAAGAAG
22974 AAGAAGAAATCCCCA
1 AAGAA-AAATCCCCA
*
22989 AAGAAAAGTCCCCA
1 AAGAAAAATCCCCA
23003 AAGAAAA
1 AAGAAAA
23010 TACCACAGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.58, C:0.22, G:0.14, T:0.06
Consensus pattern (14 bp):
AAGAAAAATCCCCA
Found at i:25139 original size:20 final size:20
Alignment explanation
Indices: 25114--25202 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
25104 CAACGCGGAA
25114 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
25134 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* * *
25154 ATCGCAATGCAGAATTGACT
1 ATCGCAACGCGGAAATGACT
25174 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
25194 ATCGCAACG
1 ATCGCAACG
25203 AGAGAATCGC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:25173 original size:40 final size:40
Alignment explanation
Indices: 25114--25202 Score: 144
Period size: 40 Copynumber: 2.2 Consensus size: 40
25104 CAACGCGGAA
25114 ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
1 ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
* *
25154 ATCGCAATGCAGAAT-TGACTATCGCAACGCGGAAATGACT
1 ATCGCAACGC-GAATATGACTATCGCAACACGGAAATGACT
25194 ATCGCAACG
1 ATCGCAACG
25203 AGAGAATCGC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 41 0.91
41 4 0.09
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACTATCGCAACACGGAAATGACT
Found at i:25315 original size:33 final size:33
Alignment explanation
Indices: 25258--25342 Score: 134
Period size: 33 Copynumber: 2.5 Consensus size: 33
25248 CGCGTTTTCG
25258 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
25292 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
**
25325 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
25343 CGCGTTGTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 34 0.71
34 14 0.29
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:25474 original size:14 final size:14
Alignment explanation
Indices: 25455--25491 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
25445 CATCAATTAA
25455 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
25469 ACAAATCATCTTTT
1 ACAAATCAACATTT
25483 ACAAATCAA
1 ACAAATCAA
25492 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:27459 original size:20 final size:20
Alignment explanation
Indices: 27436--27504 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
27426 GAAACTTAAA
*
27436 ATCGCAACGTGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
27456 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
27476 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
27496 ATCGCAACG
1 ATCGCAACG
27505 AGAGAATCGC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:27569 original size:19 final size:19
Alignment explanation
Indices: 27547--27655 Score: 105
Period size: 19 Copynumber: 5.7 Consensus size: 19
27537 GCGATTAGAG
27547 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
27566 TTTCGCGTTGCAATTTTCA
1 TTTCGCGTTGCGATTTTCA
* *
27585 TTTCTCGTTGTGA--TTCA
1 TTTCGCGTTGCGATTTTCA
**
27602 TTTCGCGTTGCGATAATCA
1 TTTCGCGTTGCGATTTTCA
* *
27621 TTTTTCACGTTGCGATTTTAA
1 --TTTCGCGTTGCGATTTTCA
*
27642 GTTTCGTGTTGCGA
1 -TTTCGCGTTGCGA
27656 AAGTAAACTA
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
17 15 0.21
19 31 0.43
20 11 0.15
21 15 0.21
ACGTcount: A:0.15, C:0.18, G:0.20, T:0.47
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:27849 original size:94 final size:93
Alignment explanation
Indices: 27703--28081 Score: 668
Period size: 94 Copynumber: 4.0 Consensus size: 93
27693 ATGGATTGTA
* *
27703 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
27768 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
*
27796 TTACTTTCAACTAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
27861 TTAGCAGAATTGGCAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
27890 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
*
27955 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
27984 TTACTTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAGT
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* *
28049 TTAGCAGTATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
28078 TTAC
1 TTAC
28082 AAAGCAATCT
Statistics
Matches: 277, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
93 23 0.08
94 254 0.92
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:29795 original size:20 final size:20
Alignment explanation
Indices: 29772--29827 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
29762 TGAAATGAAA
*
29772 ATCGCAACAAGAGAATGACT
1 ATCGCAACGAGAGAATGACT
*
29792 ATCGCAACGCG-GAAATGACT
1 ATCGCAACGAGAG-AATGACT
29812 ATCGCAACGAGAGAAT
1 ATCGCAACGAGAGAAT
29828 CGCAACGCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.03
20 29 0.94
21 1 0.03
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.14
Consensus pattern (20 bp):
ATCGCAACGAGAGAATGACT
Found at i:29808 original size:40 final size:33
Alignment explanation
Indices: 29763--29851 Score: 97
Period size: 40 Copynumber: 2.5 Consensus size: 33
29753 TCTTTTGGTT
29763 GAAATGAAAATCGCAACAAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAAC--GAG-A-GA--ATCGCAACGC
**
29802 GGAAATGACTATCGCAACGAGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAGAATCGCAACGC
29836 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
29852 TGCGATTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
33 14 0.31
34 10 0.22
36 2 0.04
37 1 0.02
38 3 0.07
40 15 0.33
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:29868 original size:19 final size:19
Alignment explanation
Indices: 29852--29959 Score: 108
Period size: 20 Copynumber: 5.5 Consensus size: 19
29842 AAAATCGCAA
**
29852 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
29871 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
29890 TGCGATTTTCATTTCTCTCGT
1 TGCGATTTTCA-TT-TCGCGT
** *
29911 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCA-TTTCGCGT
**
29931 TGCGATTTTCATTTTCATGT
1 TGCGATTTTCA-TTTCGCGT
29951 TGCGATTTT
1 TGCGATTTT
29960 AAGTTTAGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
19 28 0.36
20 32 0.42
21 17 0.22
ACGTcount: A:0.11, C:0.18, G:0.21, T:0.50
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:29934 original size:20 final size:20
Alignment explanation
Indices: 29863--29959 Score: 117
Period size: 20 Copynumber: 4.8 Consensus size: 20
29853 GCGATTTTGG
*
29863 TTTCGCGTTGCGATTTTCA-
1 TTTCGTGTTGCGATTTTCAT
*
29882 TTTCGCGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
**
29902 TTCTC-TCGTTGCGATAGTCAT
1 TT-TCGT-GTTGCGATTTTCAT
29923 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTCAT
*
29943 TTTCATGTTGCGATTTT
1 TTTCGTGTTGCGATTTT
29960 AAGTTTAGAA
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
19 19 0.28
20 32 0.47
21 17 0.25
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.51
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTCAT
Found at i:30521 original size:20 final size:20
Alignment explanation
Indices: 30496--30707 Score: 166
Period size: 20 Copynumber: 10.5 Consensus size: 20
30486 TTTAAAAATC
30496 GCGTTGCGATTTACGGATAT
1 GCGTTGCGATTTACGGATAT
30516 GCGTTGCGATTTTAC-G-TAT
1 GCGTTGCGA-TTTACGGATAT
*
30535 GTCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAT
* * *
30556 GCATTACGATTTACGTAT-T
1 GCGTTGCGATTTACGGATAT
* * *
30575 CTCGTTGCGATTTACAGATAC
1 -GCGTTGCGATTTACGGATAT
* * *
30596 ACATTGCGATTTACGTAT-T
1 GCGTTGCGATTTACGGATAT
* *
30615 CTCGTTGCGATTTACGGATAC
1 -GCGTTGCGATTTACGGATAT
*
30636 GCGTTGCGATTTTACGTAT-T
1 GCGTTGCGA-TTTACGGATAT
*
30656 GTCGTTGCGATTTACGGATAC
1 G-CGTTGCGATTTACGGATAT
* *
30677 GCATTACGATTTTACGGATACT
1 GCGTTGCGA-TTTACGGATA-T
30699 -CGTTGCGAT
1 GCGTTGCGAT
30708 AGTCAGAATT
Statistics
Matches: 149, Mismatches: 30, Indels: 26
0.73 0.15 0.13
Matches are distributed among these distances:
19 9 0.06
20 99 0.66
21 41 0.28
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GCGTTGCGATTTACGGATAT
Found at i:30552 original size:40 final size:41
Alignment explanation
Indices: 30497--30707 Score: 302
Period size: 40 Copynumber: 5.2 Consensus size: 41
30487 TTAAAAATCG
* * *
30497 CGTTGCGATTTACGGATATGCGTTGCGATTTTACGTA-TGT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
*
30537 CGTTGCGATTTACGGATACGCATTACGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* *
30577 CGTTGCGATTTACAGATACACATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* *
30617 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTATTGT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* * *
30658 CGTTGCGATTTACGGATACGCATTACGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
30699 CGTTGCGAT
1 CGTTGCGAT
30708 AGTCAGAATT
Statistics
Matches: 153, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 8 0.05
40 89 0.58
41 56 0.37
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
Found at i:30762 original size:20 final size:22
Alignment explanation
Indices: 30718--30770 Score: 74
Period size: 20 Copynumber: 2.5 Consensus size: 22
30708 AGTCAGAATT
* *
30718 GCGTTGTGATTTATATATGTTC
1 GCGTTGCGATTTATATATATTC
30740 GCGTTGCGATTT-T-TATATTC
1 GCGTTGCGATTTATATATATTC
30760 GCGTTGCGATT
1 GCGTTGCGATT
30771 CTGGAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 17 0.59
21 1 0.03
22 11 0.38
ACGTcount: A:0.15, C:0.13, G:0.25, T:0.47
Consensus pattern (22 bp):
GCGTTGCGATTTATATATATTC
Found at i:30831 original size:42 final size:42
Alignment explanation
Indices: 30738--30892 Score: 103
Period size: 42 Copynumber: 3.8 Consensus size: 42
30728 TTATATATGT
* * *
30738 TCGCGTTGCG-ATTTTTATATTCGCGTTGCGATTCTGGAAAA
1 TCGCGTTGCGAATTTGTATATTCGCATTGCGATTCTGCAAAA
** * *
30779 TCGCAATGCGAATTTGTACTA-TCGCATTGCGATTCTTCATAA
1 TCGCGTTGCGAATTTGTA-TATTCGCATTGCGATTCTGCAAAA
* * * *
30821 TCGCGTTGCG-ATTCTGGGA-ACT-G-ATTTGCGATTCTG-GAGA
1 TCGCGTTGCGAATT-T-GTATATTCGCA-TTGCGATTCTGCAAAA
*
30861 TCGCGTTGCG-ATTTTTAT-TTCGCATTGCGATT
1 TCGCGTTGCGAATTTGTATATTCGCATTGCGATT
30893 TTGTTGGTCA
Statistics
Matches: 88, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
38 2 0.02
39 10 0.11
40 16 0.18
41 23 0.26
42 33 0.38
43 4 0.05
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (42 bp):
TCGCGTTGCGAATTTGTATATTCGCATTGCGATTCTGCAAAA
Found at i:30869 original size:20 final size:19
Alignment explanation
Indices: 30820--30873 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
30810 ATTCTTCATA
30820 ATCGCGTTGCGATTCTGGG
1 ATCGCGTTGCGATTCTGGG
* **
30839 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCTGG-G
30860 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
30874 TTTATTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGGG
Found at i:31355 original size:23 final size:23
Alignment explanation
Indices: 31320--31367 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
31310 ATCAAGTACA
* *
31320 ATAATATATTAGGTAGCGGTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
31343 ATAATGTAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
31366 AT
1 AT
31368 TGATCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:32138 original size:182 final size:182
Alignment explanation
Indices: 31819--32249 Score: 654
Period size: 182 Copynumber: 2.4 Consensus size: 182
31809 TATCGTTTTG
*
31819 AGACCAATTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATC
1 AGACCAGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATC
* * *
31884 GACACTTTATTGGCGCTATAACTTTTTTTCTTTTAAATTCCAAAAGTATCGATACTTATAATAAA
66 GACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTATCGATACTTATAATAAA
**
31949 GTATCGACACTTTCAACATATCCGGTAGCTCTTTA-TCGGTTTTGTCATTT-T
131 GTATCGACACTTTCAACATATCCGGTAGAGCTTTACT-GGTTTTGTCATTTAT
* * * *
32000 GATACCGGTTTTATCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTATAAAGTAT
1 -AGACCAGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTAT
*
32065 CGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATAATAA
65 CGACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTATCGATACTTATAATAA
* * *
32130 AGTATCGACACTTTCAATATATCCGGTAGAGCTTTACTTGTTTTGTTATTTAT
130 AGTATCGACACTTTCAACATATCCGGTAGAGCTTTACTGGTTTTGTCATTTAT
* * * *
32183 AGACCAG--TTGTCATTTTTTTACCTGTTATATTTTTATAGATCGATATATTTTTATAAAGTATC
1 AGACCAGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATC
32246 GACA
66 GACA
32250 ATTTCAATAT
Statistics
Matches: 226, Mismatches: 21, Indels: 6
0.89 0.08 0.02
Matches are distributed among these distances:
180 55 0.24
182 169 0.75
183 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (182 bp):
AGACCAGTTTTGTCATATTTTTACCTGTTATATTATTATGGATCGATACATTTTTATAAAGTATC
GACACTTTATTAGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTATCGATACTTATAATAAA
GTATCGACACTTTCAACATATCCGGTAGAGCTTTACTGGTTTTGTCATTTAT
Found at i:32415 original size:112 final size:112
Alignment explanation
Indices: 32126--32695 Score: 880
Period size: 112 Copynumber: 5.1 Consensus size: 112
32116 GATACTTATA
* * * *
32126 ATAAAGTATCGACACTTTCAATATATCCGGTAGAGCTTTACTTGTTTTGTTATTTATAGACCAG-
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* *
32190 -TTGTCATTTTTTTACCTGTTATATTTTTATAGATCGATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
* * *
32236 ATAAAGTATCGACAATTTCAATAT-T-TGGTAGCGCTTTACCTGTTTTGTCAATTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
32299 TTTGTCATTTTTTTACCTGTTATATTGTTATGAATCGATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
* *
32346 ATAAAGTATCGGCACTTTCAATATATCCGGTAGCGCTTTATCTGTTTTGTCATTTATAGACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
32411 TTTGTCATTTTTTTAGCTGTTATATTATTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
* *
32458 ATAAAGTATTGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAAACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
* * *
32523 TTTGTCATTTTGTTACCTATTATATTGTTATGGATCGATACATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
* * *
32570 ATAAAGTATCGACACTTTCAATATATCTGGTAGCGTTTTACCTGTTTTGTCATTTATAAACCGGT
1 ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
*
32635 TTTGTCA-TTTTTTACCTGTTATATTGTTATGGATCAATATATTTTT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
*
32681 ATAAAATATCGACAC
1 ATAAAGTATCGACAC
32696 AAACCGACAA
Statistics
Matches: 421, Mismatches: 35, Indels: 7
0.91 0.08 0.02
Matches are distributed among these distances:
108 31 0.07
109 1 0.00
110 88 0.21
111 50 0.12
112 251 0.60
ACGTcount: A:0.26, C:0.14, G:0.14, T:0.46
Consensus pattern (112 bp):
ATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
Found at i:33341 original size:31 final size:31
Alignment explanation
Indices: 33240--33343 Score: 122
Period size: 31 Copynumber: 3.4 Consensus size: 31
33230 TTAAAACTTG
** *
33240 TAATATAATTTCTTAATATTTAGTCTA-TTTG
1 TAATATAATCCCTTAATATTTAGTC-AGTTTA
* * *
33271 TAATATAGT-CCTCAATATTTAGTCCGTTTA
1 TAATATAATCCCTTAATATTTAGTCAGTTTA
*
33301 TAATATAATCCCTTAACATTTAGTCAGTTTA
1 TAATATAATCCCTTAATATTTAGTCAGTTTA
33332 TAATATAATCCC
1 TAATATAATCCC
33344 CGTCATAACT
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
30 24 0.39
31 38 0.61
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (31 bp):
TAATATAATCCCTTAATATTTAGTCAGTTTA
Found at i:33979 original size:30 final size:31
Alignment explanation
Indices: 33943--34002 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
33933 TTATACGGCG
*
33943 TAGAATAGTCGTG-TCAACCCCAAATTGGCA
1 TAGAATAATCGTGCTCAACCCCAAATTGGCA
* *
33973 TAGAATAATCGTGCTCAACCTCGAATTGGC
1 TAGAATAATCGTGCTCAACCCCAAATTGGC
34003 GAATTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (31 bp):
TAGAATAATCGTGCTCAACCCCAAATTGGCA
Found at i:39424 original size:55 final size:55
Alignment explanation
Indices: 39371--39959 Score: 740
Period size: 55 Copynumber: 10.7 Consensus size: 55
39361 ACGAGTCTGT
* * * * *
39371 TCCCTATTCTTTCAGGGAGTATA-AGACTCGAACAATCTTTAACAAATGTGTCTGC
1 TCCCTATTCCTTCAGGGAGTATAGA-ACTCGAACAATCTTCAACAAACGGGTCCGC
* * * * *
39426 TCCCTATTCATTCAGGGAGTGTA-AGACTCAAACAATCTTCAATAAACGGGTCTGC
1 TCCCTATTCCTTCAGGGAGTATAGA-ACTCGAACAATCTTCAACAAACGGGTCCGC
*
39481 TCCCTATTCGTTCAGGGAGTATAGAACTCGAACAATCTTCATA-AAACGGGTCCGC
1 TCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCA-ACAAACGGGTCCGC
* *
39536 TCTCTATTCCTTCAGTGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGC
1 TCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGC
* * *
39591 TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCTGC
1 TCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGC
* * * * * *
39646 TCCCTATTCGTTCAGGGAGTATAGAACTCGAAAAATCTTCATA-AAATGGATACAC
1 TCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCA-ACAAACGGGTCCGC
* * * *
39701 TCTCTATTCCTTCAGAGAGTATAGAAATCAAACAATCTTCAACAAACGGGTCCGC
1 TCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGC
** * * *
39756 TCTTTATTCATTCAGAGAGTATAGAATTCGAACAATCTTCAACAAACGGGTCCGC
1 TCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGC
* * * * *
39811 TCCCTATTCGTTCAGGGAGTATAGAACTCGAAAAATCTTC-ATAAACAGGTTCGC
1 TCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGC
* *
39865 TCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGC
1 TCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGC
* *
39920 TCCCTATTCGTTCAGGGAGTATAG-ACTCGAAAAATCTTCA
1 TCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCA
39960 TAAAACGAGT
Statistics
Matches: 469, Mismatches: 59, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
54 64 0.14
55 402 0.86
56 3 0.01
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (55 bp):
TCCCTATTCCTTCAGGGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGC
Found at i:39640 original size:165 final size:165
Alignment explanation
Indices: 39374--39959 Score: 865
Period size: 165 Copynumber: 3.6 Consensus size: 165
39364 AGTCTGTTCC
* * * * * *
39374 CTATTCTTTCAGGGAGTATA-AGACTCGAACAATCTTTAACAAATGTGTCTGCTCCCTATTCATT
1 CTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCATT
* * * *
39438 CAGGGAGTGTA-AGACTCAAACAATCTTCAATAAACGGGTCTGCTCCCTATTCGTTCAGGGAGTA
65 CAGAGAGTATAGA-ACTCGAACAATCTTCAACAAACGGGTCTGCTCCCTATTCGTTCAGGGAGTA
* *
39502 TAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCT
129 TAGAACTCGAAAAATCTTCATAAAACGGGTACGCTCT
* * *
39539 CTATTCCTTCAGTGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCTCTATTCCTTC
1 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCATTC
39604 AGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCTGCTCCCTATTCGTTCAGGGAGTATA
66 AGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCTGCTCCCTATTCGTTCAGGGAGTATA
* * *
39669 GAACTCGAAAAATCTTCATAAAATGGATACACTCT
131 GAACTCGAAAAATCTTCATAAAACGGGTACGCTCT
* * **
39704 CTATTCCTTCAGAGAGTATAGAAATCAAACAATCTTCAACAAACGGGTCCGCTCTTTATTCATTC
1 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCATTC
* *
39769 AGAGAGTATAGAATTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCGTTCAGGGAGTATA
66 AGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCTGCTCCCTATTCGTTCAGGGAGTATA
* *
39834 GAACTCGAAAAATCTTCAT-AAACAGGTTCGCTCT
131 GAACTCGAAAAATCTTCATAAAACGGGTACGCTCT
*
39868 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCGTTC
1 CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCATTC
* *
39933 AGGGAGTATAG-ACTCGAAAAATCTTCA
66 AGAGAGTATAGAACTCGAACAATCTTCA
39960 TAAAACGAGT
Statistics
Matches: 382, Mismatches: 37, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
163 14 0.04
164 80 0.21
165 286 0.75
166 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.28
Consensus pattern (165 bp):
CTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCCGCTCCCTATTCATTC
AGAGAGTATAGAACTCGAACAATCTTCAACAAACGGGTCTGCTCCCTATTCGTTCAGGGAGTATA
GAACTCGAAAAATCTTCATAAAACGGGTACGCTCT
Found at i:41312 original size:45 final size:45
Alignment explanation
Indices: 41227--41313 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
41217 TAAACAAAAC
* * *
41227 TCAAGTCGCCCTTTACGGGTTTTCAACTTAAAACCTCCTTTTGTT
1 TCAAGACGCCCTTTACGGATTTTCAACTTAAAACCCCCTTTTGTT
* * * *
41272 TCAAGACGCCCTTTATGGATTTTCATCTTGAACCCCCCTTTT
1 TCAAGACGCCCTTTACGGATTTTCAACTTAAAACCCCCTTTT
41314 ATTTTATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.39
Consensus pattern (45 bp):
TCAAGACGCCCTTTACGGATTTTCAACTTAAAACCCCCTTTTGTT
Found at i:41332 original size:8 final size:8
Alignment explanation
Indices: 41315--41455 Score: 108
Period size: 7 Copynumber: 18.5 Consensus size: 8
41305 CCCCCTTTTA
41315 TTTT-ATT
1 TTTTCATT
41322 TTTTCA-T
1 TTTTCATT
41329 TTTTCATT
1 TTTTCATT
41337 TTTCTC-TT
1 TTT-TCATT
*
41345 TCTTC-TT
1 TTTTCATT
*
41352 TCTTC-TT
1 TTTTCATT
*
41359 TTTTTATT
1 TTTTCATT
41367 TTTTCATT
1 TTTTCATT
41375 TTTT--TT
1 TTTTCATT
**
41381 TTCACCA-T
1 TT-TTCATT
41389 TTTTCA-T
1 TTTTCATT
41396 TTTTCA-T
1 TTTTCATT
41403 TTTTCATTT
1 TTTTCA-TT
41412 TTTTCATTT
1 TTTTCA-TT
41421 TTTCTCATT
1 TTT-TCATT
41430 TTTT--TT
1 TTTTCATT
41436 TTTTCATT
1 TTTTCATT
41444 TTTTCATT
1 TTTTCATT
41452 TTTT
1 TTTT
41456 TTTATTTCTT
Statistics
Matches: 114, Mismatches: 8, Indels: 23
0.79 0.06 0.16
Matches are distributed among these distances:
6 10 0.09
7 41 0.36
8 40 0.35
9 20 0.18
10 3 0.03
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTCATT
Found at i:41338 original size:14 final size:14
Alignment explanation
Indices: 41321--41454 Score: 85
Period size: 15 Copynumber: 8.9 Consensus size: 14
41311 TTTATTTTAT
41321 TTTTTCATTTTTCA
1 TTTTTCATTTTTCA
*
41335 TTTTTCTCTTTCTTC-
1 TTTTTC-ATTT-TTCA
* *
41350 TTTCTTCTTTTTTTA
1 TTT-TTCATTTTTCA
41365 TTTTTTCATTTTT--
1 -TTTTTCATTTTTCA
41378 TTTTTCACCATTTTTCA
1 TTTTT---CATTTTTCA
41395 TTTTTCATTTTTCA
1 TTTTTCATTTTTCA
41409 TTTTTTTCATTTTTTCTCA
1 --TTTTTCA--TTTT-TCA
**
41428 TTTTTTTTTTTTCA
1 TTTTTCATTTTTCA
41442 TTTTTTCATTTTT
1 -TTTTTCATTTTT
41455 TTTTATTTCT
Statistics
Matches: 96, Mismatches: 8, Indels: 31
0.71 0.06 0.23
Matches are distributed among these distances:
12 5 0.05
14 20 0.21
15 38 0.40
16 16 0.17
17 10 0.10
18 4 0.04
19 3 0.03
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTCATTTTTCA
Found at i:41399 original size:23 final size:22
Alignment explanation
Indices: 41366--41423 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
41356 CTTTTTTTAT
41366 TTTTTCA-TTTTTTTTTTCACCA
1 TTTTTCATTTTTTTTTTTCA-CA
* **
41388 TTTTTCATTTTTCATTTTTCATT
1 TTTTTCATTTTT-TTTTTTCACA
41411 TTTTTCATTTTTT
1 TTTTTCATTTTTT
41424 CTCATTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 7 0.23
23 16 0.53
24 7 0.23
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTTCATTTTTTTTTTTCACA
Found at i:41406 original size:45 final size:42
Alignment explanation
Indices: 41315--41423 Score: 114
Period size: 45 Copynumber: 2.5 Consensus size: 42
41305 CCCCCTTTTA
*
41315 TTTTATTTTTTCATTTTTCATTTTTCTCTTTCTTCTTTCTTCTTT
1 TTTTATTTTTTCATTTTT--TTTTTCCCTTTCTTCTTTCTTC-TT
41360 TTTTATTTTTTCATTTTTTTTTTCACCATTT-TTCATTT-TTCATT
1 TTTTATTTTTTCATTTTTTTTTTC-CC-TTTCTTC-TTTCTTC-TT
*
41404 TTTCATTTTTTTCATTTTTT
1 TTTTA-TTTTTTCATTTTTT
41424 CTCATTTTTT
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
43 6 0.11
44 13 0.23
45 38 0.67
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (42 bp):
TTTTATTTTTTCATTTTTTTTTTCCCTTTCTTCTTTCTTCTT
Found at i:41416 original size:9 final size:9
Alignment explanation
Indices: 41402--41456 Score: 66
Period size: 9 Copynumber: 6.6 Consensus size: 9
41392 TCATTTTTCA
41402 TTTTTCATT
1 TTTTTCATT
41411 TTTTTCATT
1 TTTTTCATT
41420 TTTTCTCA--
1 TTTT-TCATT
41428 TTTTT--TT
1 TTTTTCATT
41435 TTTTTCA-T
1 TTTTTCATT
41443 TTTTTCATT
1 TTTTTCATT
41452 TTTTT
1 TTTTT
41457 TTATTTCTTC
Statistics
Matches: 40, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
7 6 0.15
8 12 0.30
9 19 0.47
10 3 0.08
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTCATT
Found at i:41463 original size:23 final size:22
Alignment explanation
Indices: 41357--41447 Score: 62
Period size: 24 Copynumber: 4.0 Consensus size: 22
41347 TTCTTTCTTC
41357 TTTTTTT-ATTTTTTCATTTTTT
1 TTTTTTTCATTTTTTCA-TTTTT
***
41379 TTTTCACCATTTT-TCATTTTT
1 TTTTTTTCATTTTTTCATTTTT
**
41400 CATTTTTCATTTTTTTCATTTTT
1 TTTTTTTCA-TTTTTTCATTTTT
*
41423 TCTCATTTTT-TTTTTTTCATTTTT
1 T-T--TTTTTCATTTTTTCATTTTT
41447 T
1 T
41448 CATTTTTTTT
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
21 9 0.17
22 11 0.21
23 13 0.25
24 14 0.27
26 5 0.10
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTTCATTTTTTCATTTTT
Done.