Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007282.1 Hibiscus syriacus cultivar Beakdansim tig00019321_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: 77339
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:6037 original size:20 final size:20
Alignment explanation
Indices: 5952--6037 Score: 86
Period size: 20 Copynumber: 4.3 Consensus size: 20
5942 ACTTTAGGTA
5952 AAGTTTTGAAACTCTTG-AG
1 AAGTTTTGAAACTCTTGTAG
*
5971 ATAGTTTTGAAACTCTTGCA-
1 A-AGTTTTGAAACTCTTGTAG
* * * * *
5991 AAGTATCGAAACTGTTTTGG
1 AAGTTTTGAAACTCTTGTAG
6011 AAAGTTTTGAAACTCTTGTAG
1 -AAGTTTTGAAACTCTTGTAG
6032 AAGTTT
1 AAGTTT
6038 CAAAACTTCT
Statistics
Matches: 52, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
19 13 0.25
20 23 0.44
21 16 0.31
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (20 bp):
AAGTTTTGAAACTCTTGTAG
Found at i:9162 original size:19 final size:20
Alignment explanation
Indices: 9085--9164 Score: 65
Period size: 20 Copynumber: 4.0 Consensus size: 20
9075 ATATGACTGT
9085 TTGAGACAAAGTATCGAAACT-
1 TTGAGA-AAA-TATCGAAACTC
* * * *
9106 TTAGGGAAAGTTTCGGAACTC
1 TT-GAGAAAATATCGAAACTC
* *
9127 TTGAGACAATTTCGAAACTC
1 TTGAGAAAATATCGAAACTC
9147 TTGA-AAAATATCGAAACT
1 TTGAGAAAATATCGAAACT
9165 TTTTGGGAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
19 12 0.26
20 26 0.55
21 6 0.13
22 3 0.06
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (20 bp):
TTGAGAAAATATCGAAACTC
Found at i:9417 original size:20 final size:19
Alignment explanation
Indices: 9387--9446 Score: 84
Period size: 20 Copynumber: 3.1 Consensus size: 19
9377 AAAATCTGTT
9387 TTCGCCCCTTAAAATTTTA
1 TTCGCCCCTTAAAATTTTA
9406 TTCGCCCTCTTAAAATTTTA
1 TTCGCCC-CTTAAAATTTTA
* *
9426 TTTGCCCCCTATAAATTTTA
1 TTCGCCCCTTA-AAATTTTA
9446 T
1 T
9447 AAGTTTAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 10 0.27
20 27 0.73
ACGTcount: A:0.25, C:0.25, G:0.05, T:0.45
Consensus pattern (19 bp):
TTCGCCCCTTAAAATTTTA
Found at i:9505 original size:37 final size:37
Alignment explanation
Indices: 9464--9574 Score: 150
Period size: 38 Copynumber: 3.0 Consensus size: 37
9454 AGTTCGTCCT
* *
9464 TCTAATATAATATCCTGCTTCCGTCCCTGTATACACC
1 TCTAATATAATATCTTGCTTTCGTCCCTGTATACACC
* * *
9501 TCTAATATAATATCTTACTTTCGTTCCTTCTATACACC
1 TCTAATATAATATCTTGCTTTCG-TCCCTGTATACACC
* *
9539 TCTGATATAATATCTTGCTTTCGTTCCTGTATACAC
1 TCTAATATAATATCTTGCTTTCGTCCCTGTATACAC
9575 TAACATTCCC
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 30 0.48
38 33 0.52
ACGTcount: A:0.24, C:0.27, G:0.07, T:0.41
Consensus pattern (37 bp):
TCTAATATAATATCTTGCTTTCGTCCCTGTATACACC
Found at i:9806 original size:6 final size:6
Alignment explanation
Indices: 9797--9841 Score: 51
Period size: 6 Copynumber: 8.0 Consensus size: 6
9787 ATTATAATTA
* *
9797 TTATTT TTATTT TTA--- TTATTT TTATTT TTATTA TTATTA TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
9842 AAAGACTAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
6 31 0.91
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (6 bp):
TTATTT
Found at i:9806 original size:9 final size:9
Alignment explanation
Indices: 9793--9840 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
9783 AATTATTATA
9793 ATTATTATTT
1 ATTATT-TTT
9803 -TTATTTTT
1 ATTATTTTT
9811 ATTATTTTT
1 ATTATTTTT
9820 ATT-TTTATT
1 ATTATTT-TT
*
9829 ATTATTATT
1 ATTATTTTT
9838 ATT
1 ATT
9841 TAAAGACTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
8 6 0.18
9 26 0.76
10 2 0.06
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (9 bp):
ATTATTTTT
Found at i:9812 original size:15 final size:15
Alignment explanation
Indices: 9794--9842 Score: 80
Period size: 15 Copynumber: 3.2 Consensus size: 15
9784 ATTATTATAA
9794 TTATTATTTTTATTT
1 TTATTATTTTTATTT
9809 TTATTATTTTTATTT
1 TTATTATTTTTATTT
*
9824 TTATTATTATTATTAT
1 TTATTATTTTTATT-T
9840 TTA
1 TTA
9843 AAGACTAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 28 0.88
16 4 0.12
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTATTATTTTTATTT
Found at i:12975 original size:24 final size:23
Alignment explanation
Indices: 12904--13003 Score: 103
Period size: 23 Copynumber: 4.3 Consensus size: 23
12894 GGTTCAACGC
* * *
12904 GGTCCTTCGAGACAAATCTATGT
1 GGTCATTCGGGACAAATCTACGT
* * *
12927 GGTCCTTCGGGATAAATCTATGT
1 GGTCATTCGGGACAAATCTACGT
12950 GGTCATTCGGGACAAATTCTACGT
1 GGTCATTCGGGACAAA-TCTACGT
* *
12974 GGTCATTCAGGACAAATTCTACAT
1 GGTCATTCGGGACAAA-TCTACGT
12998 GG-CATT
1 GGTCATT
13004 TCGGTGCAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
23 39 0.57
24 30 0.43
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (23 bp):
GGTCATTCGGGACAAATCTACGT
Found at i:17430 original size:18 final size:17
Alignment explanation
Indices: 17407--17440 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17397 GTTGACATGG
17407 TAATTAAAATATTTGGTA
1 TAATT-AAATATTTGGTA
*
17425 TAATTACATATTTGGT
1 TAATTAAATATTTGGT
17441 CAATGTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (17 bp):
TAATTAAATATTTGGTA
Found at i:21985 original size:24 final size:24
Alignment explanation
Indices: 21930--21986 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
21920 TAAGAATATA
* *
21930 TATGTC-TTTGTGGCATGTTTATT
1 TATGTCTTTTGTGGAACGTTTATT
*
21953 TATGCCTTTTGTGGAACGTTTATCT
1 TATGTCTTTTGTGGAACGTTTAT-T
21978 T-TGTCTTTT
1 TATGTCTTTT
21987 TGTAATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 5 0.18
24 21 0.75
25 2 0.07
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.56
Consensus pattern (24 bp):
TATGTCTTTTGTGGAACGTTTATT
Found at i:23076 original size:229 final size:228
Alignment explanation
Indices: 22676--23170 Score: 902
Period size: 229 Copynumber: 2.2 Consensus size: 228
22666 GTTATATTGT
* * *
22676 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
*
22741 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
66 TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
22806 TAATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
131 TAATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
*
22871 AAAAATTGAAACATAAATTACATAACTTTAAAC
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
*
22904 AAAGTATATATCATTTTTATAAAAGTGTACATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
*
22969 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAA
65 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
23033 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
130 ATAA-TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTA
23098 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
194 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
23133 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
23171 AAAAGTAGGT
Statistics
Matches: 257, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
228 56 0.22
229 201 0.78
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:23452 original size:20 final size:19
Alignment explanation
Indices: 23429--23475 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
23419 CGATATACCA
*
23429 GGTAAAAATATGATAAAACT
1 GGTAAAAA-ATGATAAAACC
23449 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
23469 GGTAAAA
1 GGTAAAA
23476 CGTTACCGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:23538 original size:181 final size:182
Alignment explanation
Indices: 23276--23689 Score: 591
Period size: 181 Copynumber: 2.3 Consensus size: 182
23266 AGATAAAACT
* * * * * * * *
23276 ATGACAAAACCGGTAAAGCGCTACCGAATACATTTAAAGTGTCGGTACTTTAATATAAGGATTGA
1 ATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
* *
23341 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTA-AATCCTATAAAGTGTCGATACTTTTAAAAAAT
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAGAAT-CTATAAAGTGTCGATACTTTAAAAAAAA
* * *
23405 GTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAA-CTGGTAACAAA
130 ATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATC-GATAACAAA
*
23458 ATGATAAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGA
1 ATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
* ** *
23522 CACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGTCTATAATGTGTCGATACTTTAAAAAAAAA
66 CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAGAATCTATAAAGTGTCGATACTTTAAAAAAAAA
* * *
23587 TATCGATCCACAACGATATAACATGTAAAAATATGATAAAATCGATATCAAA
131 TATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGATAACAAA
*
23639 ATGATAAAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
1 ATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
23690 CGTAAGTACG
Statistics
Matches: 208, Mismatches: 22, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
181 162 0.78
182 46 0.22
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
ATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGA
CACTTCGTGAATTTAAAAGAGAAGCAGTTTTAGAATCTATAAAGTGTCGATACTTTAAAAAAAAA
TATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAATCGATAACAAA
Found at i:25937 original size:21 final size:21
Alignment explanation
Indices: 25878--25943 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
25868 AAGACAATCA
* *
25878 AGAGTCGAAGAGAAACTTAAT
1 AGAGTCGAAGAGAAACTTGAG
25899 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
25920 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
25941 AGA
1 AGA
25944 CATAAGGGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.44, C:0.11, G:0.29, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:27854 original size:19 final size:19
Alignment explanation
Indices: 27830--27878 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
27820 AATGTAGGGT
27830 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
27849 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
27868 TATTTTTGTAT
1 TAATTTTGTAT
27879 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:28351 original size:200 final size:200
Alignment explanation
Indices: 27997--29749 Score: 2925
Period size: 200 Copynumber: 8.9 Consensus size: 200
27987 CAATATGGCC
* * *
27997 AACAAGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
28062 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAGCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
28127 GAATATGTCTAAATAATATGTCGACACTTTTTTAGTTTGTGTCGATATTTGTGGTCCATAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
28192 TGGAA
196 TGGAA
* *
28197 AACAGGGTGCAACCATAAAGTGTCGATCCAAATATAAAAGGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
28262 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
28327 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
28391 TGGAA
196 TGGAA
* *
28396 AACAGGGTGCAACCATAAAGTGTCGATCC-----CAAAAA----C-AT--CGAAAAC--C-AAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
** * * * * * ** * * *
28446 GTATAATGTA-ATATGTAATTTTTCAA--TCT-AACCGGT-ACAAGT---A-TA-CCGGTT-TTA
66 CCA-AAAGTATA-ATGTAATATGT-AATTTTTCAATC--TAACCGGTACAAGTATACCGGTTTTA
28500 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
126 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
28565 ATGAATGGAA
191 ATGAATGGAA
*
28575 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAATGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
28640 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
28705 GAATATGTCTAAATAATGTGTCGACATTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
28770 TGGAA
196 TGGAA
*
28775 AACAGGGTGCAATCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
28839 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
28904 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTCTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
28969 TGGAA
196 TGGAA
**
28974 AACAGGGTGCAACCATAAAGTGTTTATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
29039 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
29104 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
29168 TGGAA
196 TGGAA
* *
29173 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
29238 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
29303 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
29368 TAGAA
196 TGGAA
*
29373 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
29438 CCAAAAGTATAATGTAATATGTAATTTGTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
29503 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
29568 TGGAA
196 TGGAA
*
29573 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
29638 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGATA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
29703 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
29750 CTAATTTAAA
Statistics
Matches: 1460, Mismatches: 59, Indels: 68
0.92 0.04 0.04
Matches are distributed among these distances:
178 35 0.02
179 74 0.05
180 2 0.00
181 1 0.00
183 3 0.00
184 17 0.01
185 16 0.01
186 2 0.00
187 6 0.00
188 1 0.00
189 4 0.00
190 1 0.00
191 6 0.00
192 2 0.00
193 16 0.01
194 16 0.01
195 3 0.00
197 1 0.00
198 2 0.00
199 458 0.31
200 794 0.54
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:28960 original size:399 final size:399
Alignment explanation
Indices: 27997--29749 Score: 3118
Period size: 399 Copynumber: 4.4 Consensus size: 399
27987 CAATATGGCC
* * *
27997 AACAAGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
28062 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAGCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
28127 GAATATGTCTAAATAATATGTCGACACTTTTTTAGTTTGTGTCGATATTTGTGGTCCATAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
* *
28192 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCAAATATAAAAGGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
28257 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
*
28322 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAA
326 TGAGAGAATATGTCTAAATAATGTGTCGACATTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAA
28387 TGAATGGAA
391 TGAATGGAA
28396 AACAGGGTG----C----A------A-CC----AT--AAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
28440 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
28505 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
28570 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAATGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
28635 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
28700 TGAGAGAATATGTCTAAATAATGTGTCGACATTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACA-TTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
28765 ATGAATGGAA
390 ATGAATGGAA
*
28775 AACAGGGTGCAATCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
28839 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
28904 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTCTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
**
28969 TGGAAAACAGGGTGCAACCATAAAGTGTTTATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
29034 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
*
29099 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAA
326 TGAGAGAATATGTCTAAATAATGTGTCGACATTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAA
29164 TGAATGGAA
391 TGAATGGAA
* *
29173 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
29238 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
29303 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
29368 TAGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
* *
29433 GAAACCCAAAAGTATAATGTAATATGTAATTTGTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
29498 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACA-TTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
29563 ATGAATGGAA
390 ATGAATGGAA
*
29573 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
29638 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGATA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
29703 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
29750 CTAATTTAAA
Statistics
Matches: 1302, Mismatches: 29, Indels: 45
0.95 0.02 0.03
Matches are distributed among these distances:
378 312 0.24
379 51 0.04
380 2 0.00
383 1 0.00
384 2 0.00
385 1 0.00
387 1 0.00
391 1 0.00
393 1 0.00
394 2 0.00
398 77 0.06
399 635 0.49
400 216 0.17
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (399 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
TGAGAGAATATGTCTAAATAATGTGTCGACATTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAA
TGAATGGAA
Found at i:29549 original size:599 final size:599
Alignment explanation
Indices: 27997--29749 Score: 3093
Period size: 599 Copynumber: 3.0 Consensus size: 599
27987 CAATATGGCC
* * * *
27997 AACAAGGTGCAACAATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAATGTCGATCCCAAAAACATCGAAAA
*
28062 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAGCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * *
28127 GAATATGTCTAAATAATATGTCGACACTTTTTTAGTTTGTGTCGATATTTGTGGTCCATAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
* *
28192 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCAAATATAAAAGGTGTCGATCCCAAAAACATC
196 TAGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAA-GTGTCGATCCCAAAAACATC
*
28257 GAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
260 GAAAACCAAAAGTATAATGTAATATGTAATTTGTCAATCTAACCGGTACAAGTATACCGGTTTTA
*
28322 TGAGAGAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
325 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTCTTGGTCCAGA
28386 ATGAATGGAAAACAGGGTG----C----A------A-CC----AT--AAAGTGTCGATCCCAAAA
390 ATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
28430 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG
455 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG
28495 TTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGT
520 TTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGT
28560 CCAGAATGAATGGAA
585 CCAGAATGAATGGAA
28575 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAATGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAATGTCGATCCCAAAAACATCGAAAA
28640 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
28705 GAATATGTCTAAATAATGTGTCGACATTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
* *
28770 TGGAAAACAGGGTGCAATCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAAACATCG
196 TAGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAAACATCG
*
28835 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTAT
261 AAAACCAAAAGTATAATGTAATATGTAATTTGTCAATCTAACCGGTACAAGTATACCGGTTTTAT
28900 GAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTCTTGGTCCAGAA
326 GAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTCTTGGTCCAGAA
**
28965 TGAATGGAAAACAGGGTGCAACCATAAAGTGTTTATCCATATATAAAAAGTGTCGATCCCAAAAA
391 TGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAA
29030 CATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGT
456 CATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGT
29095 TTTATGAGAGAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATATTTTTGGTC
521 TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTC
29159 CAGAATGAATGGAA
586 CAGAATGAATGGAA
* * *
29173 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAATGTCGATCCCAAAAACATCGAAAA
*
29238 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
29303 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
29368 TAGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TAGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATC
*
29433 GAAACCCAAAAGTATAATGTAATATGTAATTTGTCAATCTAACCGGTACAAGTATACCGGTTTTA
260 GAAAACCAAAAGTATAATGTAATATGTAATTTGTCAATCTAACCGGTACAAGTATACCGGTTTTA
*
29498 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGA
325 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTCTTGGTCCAGA
29563 ATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
390 ATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
*
29628 ACATCGAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG
455 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGG
*
29693 TTTTATGATAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
520 TTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
29750 CTAATTTAAA
Statistics
Matches: 1125, Mismatches: 26, Indels: 26
0.96 0.02 0.02
Matches are distributed among these distances:
577 117 0.10
578 278 0.25
582 1 0.00
586 1 0.00
592 1 0.00
593 2 0.00
597 2 0.00
598 270 0.24
599 434 0.39
600 19 0.02
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (599 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAATGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TAGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAAACATCG
AAAACCAAAAGTATAATGTAATATGTAATTTGTCAATCTAACCGGTACAAGTATACCGGTTTTAT
GAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTCTTGGTCCAGAA
TGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAA
CATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGT
TTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTC
CAGAATGAATGGAA
Found at i:31217 original size:6 final size:6
Alignment explanation
Indices: 31206--31287 Score: 65
Period size: 6 Copynumber: 13.7 Consensus size: 6
31196 CAAGCGGTCA
* * * * * *
31206 ATGAAG ATGAAG CTGACG ATGAAG ATGATG ATGACG ATGAAG CTGACG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * *
31254 ATGAAG ATGATG ACGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
31288 TGATCCAAAC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:31227 original size:18 final size:18
Alignment explanation
Indices: 31206--31287 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 18
31196 CAAGCGGTCA
*
31206 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGACG
*
31224 ATGAAGATGATGATGACG
1 ATGAAGATGAAGATGACG
* * *
31242 ATGAAGCTGACGATGAAG
1 ATGAAGATGAAGATGACG
* * * *
31260 ATGATGACGATGATGATG
1 ATGAAGATGAAGATGACG
*
31278 ATGATGATGA
1 ATGAAGATGA
31288 TGATCCAAAC
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 53 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (18 bp):
ATGAAGATGAAGATGACG
Found at i:31237 original size:3 final size:3
Alignment explanation
Indices: 31223--31291 Score: 75
Period size: 3 Copynumber: 23.0 Consensus size: 3
31213 TGAAGCTGAC
* * * * * * *
31223 GAT GAA GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT GAC GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
31271 GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT
31292 CCAAACAAGT
Statistics
Matches: 52, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:31245 original size:30 final size:30
Alignment explanation
Indices: 31206--31275 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
31196 CAAGCGGTCA
31206 ATGAAGATGAAGCTGACGATGAAGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGATG
*
31236 ATGACGATGAAGCTGACGATGAAGATGATG
1 ATGAAGATGAAGCTGACGATGAAGATGATG
* *
31266 ACGATGATGA
1 ATGAAGATGA
31276 TGATGATGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.39, C:0.09, G:0.33, T:0.20
Consensus pattern (30 bp):
ATGAAGATGAAGCTGACGATGAAGATGATG
Found at i:32598 original size:23 final size:23
Alignment explanation
Indices: 32567--32639 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
32557 ATAAGTAAAA
*
32567 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
32590 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
32613 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
32636 ATAT
1 ATAT
32640 TGTAAATTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:35884 original size:25 final size:25
Alignment explanation
Indices: 35850--35914 Score: 121
Period size: 25 Copynumber: 2.6 Consensus size: 25
35840 ATTTCATTAA
35850 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
35875 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
35900 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
35915 TCTTTTGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:36305 original size:22 final size:22
Alignment explanation
Indices: 36256--36327 Score: 99
Period size: 23 Copynumber: 3.2 Consensus size: 22
36246 AATAGGTAAA
* *
36256 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCG-TT
36279 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTATCGTT
*
36301 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTA-TCGTT
36324 ATAT
1 ATAT
36328 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
22 19 0.42
23 26 0.58
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (22 bp):
ATATAATGTAATAGGTATCGTT
Found at i:36771 original size:23 final size:23
Alignment explanation
Indices: 36741--36813 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
36731 ATAGGTAAAA
36741 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
36764 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
36787 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
36810 ATAT
1 ATAT
36814 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:36851 original size:486 final size:490
Alignment explanation
Indices: 35914--37705 Score: 3372
Period size: 489 Copynumber: 3.7 Consensus size: 490
35904 AGGTATATAC
35914 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
35979 GTTACG--ATATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
36041 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATC-AAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
36105 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
36170 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
261 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
36235 ACTTTCAATATAATAGGT-AAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
36299 -TTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
391 TTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
*
36363 ACTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
456 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
* *
36398 ATCTTTTGAGTGAGTTTTAATATATTAATTTAATAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
36463 GTTACGATATATATTATTATT-AATT-AAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
36526 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
36591 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
36655 AAAATTGAAACAT-AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
261 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
* *
36719 ACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAGATATCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
36784 TTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
391 TTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
*
36849 ACTTTTTTCACTGTGGAAAATATTAATTTAAGGTT
456 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
36884 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
36948 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
37013 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
37078 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
37143 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
261 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
*
37208 ACTTTCAATATAATAGGTAAAATTATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
37273 TTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
391 TTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
37338 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
456 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
37373 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
37438 GTCACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
37503 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* *
37568 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* * * *
37633 TAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGAAC
261 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
37698 ACTTTCAA
326 ACTTTCAA
37706 CATATTATAA
Statistics
Matches: 1276, Mismatches: 21, Indels: 16
0.97 0.02 0.01
Matches are distributed among these distances:
484 138 0.11
485 177 0.14
486 239 0.19
487 170 0.13
488 16 0.01
489 269 0.21
490 267 0.21
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (490 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
TTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:37265 original size:23 final size:23
Alignment explanation
Indices: 37235--37302 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
37225 TAAAATTATG
37235 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
37258 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
37281 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGCGCTTATAT
37303 TGTAAAGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:37332 original size:489 final size:489
Alignment explanation
Indices: 35914--37705 Score: 3370
Period size: 490 Copynumber: 3.7 Consensus size: 489
35904 AGGTATATAC
35914 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
35979 GTTACG--ATATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
36041 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATC-AAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
36105 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
36170 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
261 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
36235 ACTTTCAATATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-
326 ACTTTCAATATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
36299 TTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATA
391 TTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATA
*
36364 CTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
456 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
* *
36398 ATCTTTTGAGTGAGTTTTAATATATTAATTTAATAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
36463 GTTACGATATATATTATTATT-AATT-AAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
36526 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
36591 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
36655 AAAATTGAAACAT-AATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
261 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
* *
36719 ACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATAGATATCG
326 ACTTTCAATATAATAGGT-AAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
36784 TTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
390 TTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
*
36849 ACTTTTTTCACTGTGGAAAATATTAATTTAAGGTT
455 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
36884 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
36948 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
37013 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
*
37078 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
37143 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
261 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
37208 ACTTTCAATATAATAGGTAAAATTATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
326 ACTTTCAATATAATAGGTAAAA-TATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG
37273 TTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
390 TTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTAT
37338 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
455 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
37373 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
37438 GTCACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
37503 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* *
37568 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAATATGAAACACTATTAAAA
196 ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* * * *
37633 TAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCTTTTTTATAAAAAGTATGAAC
261 AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
37698 ACTTTCAA
326 ACTTTCAA
37706 CATATTATAA
Statistics
Matches: 1276, Mismatches: 20, Indels: 18
0.97 0.02 0.01
Matches are distributed among these distances:
484 138 0.11
485 177 0.14
486 239 0.19
487 170 0.13
488 20 0.02
489 265 0.21
490 267 0.21
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (489 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAAATTGAAACATAAATTACATAACTTTAAACAAAGTATCGATCCTTTTTATAAAAAGTATGGAC
ACTTTCAATATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGT
TTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATA
CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:42738 original size:19 final size:19
Alignment explanation
Indices: 42714--42750 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
42704 TAGATATTAT
42714 AAGTTG-TATTTATTTAACC
1 AAGTTGATA-TTATTTAACC
42733 AAGTTGATATTATTTAAC
1 AAGTTGATATTATTTAAC
42751 TCAGACGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.46
Consensus pattern (19 bp):
AAGTTGATATTATTTAACC
Found at i:51385 original size:17 final size:17
Alignment explanation
Indices: 51363--51406 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
51353 CATAAACCTA
51363 TCGTCGGTCGCCCTTAC
1 TCGTCGGTCGCCCTTAC
*
51380 TCGTCGGTCGCCGTTAC
1 TCGTCGGTCGCCCTTAC
51397 TCGTCGGTCG
1 TCGTCGGTCG
51407 TTCAACACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.05, C:0.36, G:0.30, T:0.30
Consensus pattern (17 bp):
TCGTCGGTCGCCCTTAC
Found at i:53114 original size:16 final size:15
Alignment explanation
Indices: 53093--53131 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
53083 ATGTTATATG
53093 TTTTATTATCATTAAT
1 TTTTATTATCATT-AT
* *
53109 TTTTATAATTATTAT
1 TTTTATTATCATTAT
53124 TTTTATTA
1 TTTTATTA
53132 CATGGGAGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTATTATCATTAT
Found at i:56129 original size:16 final size:16
Alignment explanation
Indices: 56108--56141 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
56098 TTACTATTCA
*
56108 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
56124 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
56140 CG
1 CG
56142 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:56908 original size:15 final size:16
Alignment explanation
Indices: 56890--56922 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
56880 GTGGCAGATC
56890 AAAATCCAG-ACGGGA
1 AAAATCCAGAACGGGA
*
56905 AAAATCTAGAACGGGA
1 AAAATCCAGAACGGGA
56921 AA
1 AA
56923 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.09
Consensus pattern (16 bp):
AAAATCCAGAACGGGA
Found at i:76533 original size:13 final size:14
Alignment explanation
Indices: 76507--76535 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
76497 AATTATATTA
76507 TGATTTTGTATAAC
1 TGATTTTGTATAAC
76521 TGATTTT-TATAAC
1 TGATTTTGTATAAC
76534 TG
1 TG
76536 GCTATTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.28, C:0.07, G:0.14, T:0.52
Consensus pattern (14 bp):
TGATTTTGTATAAC
Done.