Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003190.1 Hibiscus syriacus cultivar Beakdansim tig00006707_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: 51374
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Found at i:1523 original size:18 final size:18
Alignment explanation
Indices: 1500--1544 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
1490 TGTAGGGTTA
1500 ATTTTGTATAAGATTTAT
1 ATTTTGTATAAGATTTAT
*
1518 ATTTTGTATACGATTTAT
1 ATTTTGTATAAGATTTAT
*
1536 ATTTCGTAT
1 ATTTTGTAT
1545 GTGAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.56
Consensus pattern (18 bp):
ATTTTGTATAAGATTTAT
Found at i:2215 original size:192 final size:193
Alignment explanation
Indices: 1661--3263 Score: 2403
Period size: 192 Copynumber: 8.5 Consensus size: 193
1651 TGGCAAAAGG
1661 ATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1725 T-TCGACACT-ATATAGTTTTGTGTCGATATTTTTTTTCCAGAATGAAT-G-AAACAGGGTGCAC
66 TGTCGACACTAATATAG-TTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCAC
1786 CAT-AAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATG-T
129 CATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGAT
*
1848 AAGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT-TGTGAGAATATGTCT-AATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1911 TGTCGACACTAATATA-TTTGTGTCGATAATTTTTTTTTCCAGAATGAATGG-AAACAGGGTGCA
66 TGTCGACACTAATATAGTTTGTGTCGAT-A--TTTTTTTCCAGAATGAATGGAAAACAGGGTGCA
1974 CCAT-AAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAATC-TCGAACCCAAAAGTATAATG
128 CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATG
2037 -T
192 AT
2038 ATGTAATTTTTCAATCTAACC-GTACAATTATACCCGGTTTTATGTGAGAATATGTCTAAAATAA
1 ATGTAATTTTTCAATCTAACCGGTACAATTATA-CCGGTTTTATGTGAGAATATGTCT-AAATAA
*
2102 TGTGTCGACACTAATAGAGTTTTGTGTCGATATTTTTTTCCAGAATGAAT-GAAAACA-GGTGCA
64 TGTGTCGACACTAATATAG-TTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCA
* *
2165 CCATAAAGTGTCGATCTATATATAAAAGTATCGATCCCAAATCATCGAACCC--AAGTATAATG-
128 CCATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGA
2227 T
193 T
2228 AATGTAATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTATGTGAGAATATGTCTAAATAAT
1 -ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAAT
2292 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACA-GG-GCACC
65 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
*
2355 ATAAAGTGTTGATCCATATA-AAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAA
130 ATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATG--A
2419 T
193 T
2420 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
2485 TGTCGACACTAATATAGTTTGTGTCGAT-TTTATTTCCAGAATGAATGGAAAACA-GGTGCACCA
66 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
* *
2548 TACAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATAATCGAACCCAAAAGTATAATGTA
131 TAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAA-ATCATCGAACCCAAAAGTATAATG-A
2613 T
193 T
*
2614 ATGTAATTTTTCAATATAACCGGTACAATTATACCGG-TTTATGTGAGAATA-GTCTAAAATAAT
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCT-AAATAAT
*
2677 GTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATG-ATGG-AAACAGGGTGCACC
65 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
2740 ATAAAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGTA
130 ATAAAGTGTCGATCCATATATAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATG--
2803 AT
192 AT
*
2805 ATGTAATTTTTTCAATCTAACCGGTACAATTATACTGGTTTTATGTGAGAATATGTCTAAAT-AT
1 ATGTAA-TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAAT
2869 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACA-GGTGCAC
65 GTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCAC
2933 CATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
129 CATAAAGTGTCGATCCATATATAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATG-
2998 AAT
192 -AT
*
3001 ATGTAATTTTTCAATCTAACCAGTACAATTATACCGGTTTTATGTGAGAATATTGTCTAAATAAT
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATA-TGTCTAAATAAT
*
3066 GTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACAGGGTGCACC
65 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACC
*
3131 ATAAAGTGTCGATCC-------CAA----C-AT-----A--ATCGAACCCAAAAGTATAATGTAA
130 ATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATG--A
3177 T
193 T
3178 ATGTAATTTTTCAATCTAACC-GT--AATTATACCGGTTTTATGTGAGAATATGTCT--A-AATG
1 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
3237 TGTCGACACTAATAT--TTTGTGTCGATA
66 TGTCGACACTAATATAGTTTGTGTCGATA
3264 CTAATTTAAA
Statistics
Matches: 1345, Mismatches: 25, Indels: 111
0.91 0.02 0.07
Matches are distributed among these distances:
168 12 0.01
170 19 0.01
171 1 0.00
173 5 0.00
174 26 0.02
176 2 0.00
177 46 0.03
179 1 0.00
185 2 0.00
186 20 0.01
187 72 0.05
188 96 0.07
189 88 0.07
190 97 0.07
191 179 0.13
192 214 0.16
193 135 0.10
194 107 0.08
195 113 0.08
196 55 0.04
197 55 0.04
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (193 bp):
ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCA
TAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGAT
Found at i:2590 original size:21 final size:21
Alignment explanation
Indices: 2551--2590 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2541 TGCACCATAC
*
2551 AGTGTCGATCCATATATAAAA
1 AGTGTCGATCCATACATAAAA
2572 AGTGTCGATCCCA-ACATAA
1 AGTGTCGAT-CCATACATAA
2591 TCGAACCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (21 bp):
AGTGTCGATCCATACATAAAA
Found at i:2717 original size:385 final size:381
Alignment explanation
Indices: 1661--3262 Score: 2445
Period size: 385 Copynumber: 4.2 Consensus size: 381
1651 TGGCAAAAGG
1661 ATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATGT
1 ATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATGT
1726 -TCGACACT-ATATAGTTTTGTGTCGATATTTTTTTTCCAGAATGAATG-AAACAGGGTGCACCA
66 GTCGACACTAATATAG-TTTGTGTCG--ATTTTTTTTCCAGAATGAATGAAAACA-GGTGCACCA
1788 T-AAGTGTCGATCCATATA-AAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAA-
127 TAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAAT
1850 GTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT-TGTGAGAATATGTCT-AATAATGTG
192 GTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATGTG
*
1913 TCGACACTAATATA-TTTGTGTCGATAATTTTTTTTTCCAGAATGAATGGAAACAGGGTGCACCA
257 TCGACACTAATATAGTTTGTGTCGAT-A--TTTATTTCCAGAATGAATGGAAACAGGGTGCACCA
1977 TAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAATC-TCGAACCCAAAAGTATAATG---T
319 TAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAAT
2038 ATGTAATTTTTCAATCTAACCGTACAATTATACCCGGTTTTATGTGAGAATATGTCTAAAATAAT
1 ATGTAATTTTTCAATCTAACCGTACAATTATA-CCGGTTTTATGTGAGAATATGTCT-AAATAAT
*
2103 GTGTCGACACTAATAGAGTTTTGTGTCGATATTTTTTTCCAGAATGAATGAAAACAGGTGCACCA
64 GTGTCGACACTAATATAG-TTTGTGTCGAT-TTTTTTTCCAGAATGAATGAAAACAGGTGCACCA
* *
2168 TAAAGTGTCGATCTATATATAAAAGTATCGATCCCAAATCATCGAACCC--AAGTATAATGTAAT
127 TAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAAT
2231 GTAATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTATGTGAGAATATGTCTAAATAATGTG
192 GTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATGTG
*
2295 TCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACA-GG-GCACCATA
257 TCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGG-AAACAGGGTGCACCAT-
*
2358 AAGTGTTGATCCATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAAT
320 AAGTGTCGATCCATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAAT
2420 ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
1 ATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATG
*
2485 TGTCGACACTAATATAGTTTGTGTCGATTTTATTTCCAGAATGAATGGAAAACAGGTGCACCATA
65 TGTCGACACTAATATAGTTTGTGTCGATTTTTTTTCCAGAATGAAT-GAAAACAGGTGCACCATA
* *
2550 CAGTGTCGATCCATATATAAAAAGTGTCGATCCCAACATAATCGAACCCAAAAGTATAATGTATA
129 AAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAA-ATCATCGAACCCAAAAGTATAATGTA-A
*
2615 TGTAATTTTTCAATATAACCGGTACAATTATACCGG-TTTATGTGAGAATA-GTCTAAAATAATG
191 TGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCT-AAATAATG
2678 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATG-ATGGAAACAGGGTGCACCAT
255 TGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAACAGGGTGCACCAT
2742 AAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGTAAT
320 -AAGTGTCGATCCATATAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGTAAT
*
2805 ATGTAATTTTTTCAATCTAACCGGTACAATTATACTGGTTTTATGTGAGAATATGTCTAAAT-AT
1 ATGTAA-TTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAAT
2869 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGTGCACC
64 GTGTCGACACTAATATAGTTTGTGTCG--ATTTTTTTTCCAGAATGAAT-GAAAACAGGTGCACC
2934 ATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
126 ATAAAGTGTCGATCCATATATAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGT-
*
2999 ATATGTAATTTTTCAATCTAACCAGTACAATTATACCGGTTTTATGTGAGAATATTGTCTAAATA
189 A-ATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATA-TGTCTAAATA
3064 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAAACA--G-G--
252 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGG-AAACAGGGTGCA
*
3124 ------GTG-C-A-CC--AT--AAAGTGTCGATCCCAACATAATCGAACCCAAAAGTATAATGTA
316 CCATAAGTGTCGATCCATATAAAAAGTGTCGATCCCAA-ATCATCGAACCCAAAAGTATAATGTA
3176 AT
380 AT
3178 ATGTAATTTTTCAATCTAACCGT--AATTATACCGGTTTTATGTGAGAATATGTCT--A-AATGT
1 ATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATGT
3238 GTCGACACTAATAT--TTTGTGTCGAT
66 GTCGACACTAATATAGTTTGTGTCGAT
3263 ACTAATTTAA
Statistics
Matches: 1161, Mismatches: 21, Indels: 100
0.91 0.02 0.08
Matches are distributed among these distances:
363 2 0.00
365 9 0.01
367 19 0.02
369 30 0.03
371 4 0.00
372 40 0.03
373 21 0.02
374 2 0.00
376 2 0.00
377 33 0.03
378 50 0.04
379 58 0.05
380 142 0.12
381 120 0.10
382 109 0.09
383 27 0.02
384 22 0.02
385 179 0.15
386 117 0.10
387 94 0.08
388 15 0.01
389 53 0.05
390 8 0.01
391 5 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (381 bp):
ATGTAATTTTTCAATCTAACCGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATGT
GTCGACACTAATATAGTTTGTGTCGATTTTTTTTCCAGAATGAATGAAAACAGGTGCACCATAAA
GTGTCGATCCATATATAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAATGTAA
TTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGTGAGAATATGTCTAAATAATGTGTCGA
CACTAATATAGTTTGTGTCGATATTTATTTCCAGAATGAATGGAAACAGGGTGCACCATAAGTGT
CGATCCATATAAAAAGTGTCGATCCCAAATCATCGAACCCAAAAGTATAATGTAAT
Found at i:5109 original size:23 final size:23
Alignment explanation
Indices: 5081--5133 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
5071 ACATAACTAC
* * *
5081 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
5104 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
5127 ATATAAT
1 ATATAAT
5134 ATATGTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.42
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:5576 original size:18 final size:18
Alignment explanation
Indices: 5555--5591 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
5545 GTAATTGGAG
5555 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
5573 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
5591 T
1 T
5592 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:5599 original size:24 final size:24
Alignment explanation
Indices: 5547--5593 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
5537 TTTCATATGT
* *
5547 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
5571 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
5594 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:5889 original size:38 final size:39
Alignment explanation
Indices: 5847--5931 Score: 138
Period size: 38 Copynumber: 2.2 Consensus size: 39
5837 TCCGATGCTC
5847 ATCAAAATCCAAAGCTCATATG-TGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
5885 ATC-AAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
5923 ATCAAAATC
1 ATCAAAATC
5932 TACAACTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 16 0.38
38 22 0.52
39 4 0.10
ACGTcount: A:0.48, C:0.20, G:0.13, T:0.19
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:6377 original size:21 final size:23
Alignment explanation
Indices: 6346--6407 Score: 83
Period size: 21 Copynumber: 2.8 Consensus size: 23
6336 AATAGGTAAA
*
6346 ATATGATGTAATAGGTAGCG-CT
1 ATATAATGTAATAGGTAGCGTCT
* *
6368 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGTCT
6390 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
6408 TGGTTATATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.50
22 1 0.03
23 16 0.47
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTCT
Found at i:6414 original size:23 final size:23
Alignment explanation
Indices: 6346--6418 Score: 80
Period size: 23 Copynumber: 3.3 Consensus size: 23
6336 AATAGGTAAA
* * *
6346 ATATGATGTAATAGGTAG-CGCT
1 ATATAATGTAATAGGTAGTGGTT
*
6368 -TATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GGTT
6390 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGGTT
6413 ATATAA
1 ATATAA
6419 GTGTCTATCT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
21 15 0.36
22 1 0.02
23 25 0.60
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGGTT
Found at i:6442 original size:22 final size:23
Alignment explanation
Indices: 6411--6456 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
6401 TAGGTAGTGG
* *
6411 TTATATAAGTGTCTAT-CTTTTT
1 TTATAAAAGTGTCCATACTTTTT
6433 TTATAAAAGTGTCCATACTTTTT
1 TTATAAAAGTGTCCATACTTTTT
6456 T
1 T
6457 CACTGTGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (23 bp):
TTATAAAAGTGTCCATACTTTTT
Found at i:6814 original size:19 final size:21
Alignment explanation
Indices: 6764--6830 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
6754 TAAAAATATG
6764 ATGTAATAGGTAGCGCTTATA
1 ATGTAATAGGTAGCGCTTATA
* *
6785 ATGTAATAGGTATCGTTTAT-
1 ATGTAATAGGTAGCGCTTATA
* *
6805 ATGT-ATAGGTAGTGGTTATA
1 ATGTAATAGGTAGCGCTTATA
*
6825 TTGTAA
1 ATGTAA
6831 GTGTCTATCC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
19 12 0.32
20 7 0.18
21 19 0.50
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.40
Consensus pattern (21 bp):
ATGTAATAGGTAGCGCTTATA
Found at i:7095 original size:414 final size:420
Alignment explanation
Indices: 6140--7161 Score: 1664
Period size: 414 Copynumber: 2.5 Consensus size: 420
6130 TTATCTTTGG
*
6140 TTAATGTTGTTAAATT-AAAATTCTAAATAATATTTTATAAAATATCAAA-AATCAAATAATTTT
1 TTAA-GTTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
6203 TTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAATTGA
65 TTGTGCAAATG-AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAATTGA
6268 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGGTATGGACACTTTCAA
129 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTA-AAAA-GTATGGACACTTTCAA
6333 TATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGTTTATATAATG
192 TATAATAGGTAAAATATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGTTTATATAATG
*
6398 TAATAGGTAGTGGTTATATAAGTGTCTATCTTTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
257 TAATAGGTAGTGGTTATATAAGTGTCTATCCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
6463 GGAAAACATTAATTTAAGGTTATCTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCG
322 GGAAAACATTAATTTAAGGTTATCTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCG
*
6528 TCTAATGATTTATTTTTTACGTTACGATATATAT
387 TCTAATGATTTATTTTTTACATTACGATATATAT
*
6562 TTAATGTTGTTAAATTAAAAATTCTAAAT-A-ATTTT-T---ATA--AAAT-ATCAAAT-A-TTT
1 TTAA-GTTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTT
6616 TTGTGCAAATGAATTATTAAATTAATATTGTAGGTGGAAAACA-GAAACACTATTAAAAAAAATT
65 TTGTGCAAATGAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT---AAAAATT
6680 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAAAAAGTATGGACACTTTCAA
127 GAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAAAAAGTATGGACACTTTCAA
6745 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCG-TT-TAT-AT
192 TATAATAGGT-AAAATATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGTTTATATAAT
6807 GT-ATAGGTAGTGGTTATATTGTAAGTGTCTATCCTTTTTTAT-AAAGTGTCCATAC-TTTTTCA
256 GTAATAGGTAGTGGTTATA---TAAGTGTCTATCCTTTTTTATAAAAGTGTCCATACTTTTTTCA
*
6869 CTGTTGAAAAC-TTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTAT
318 CTGTGGAAAACATTAATTTAAGGTTATC-TTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTAT
6933 AGGCGTCTAATGATTTA-TTTTTACATTACGATATATA-
382 AGGCGTCTAATGATTTATTTTTTACATTACGATATATAT
6970 TT-A-TTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTT
1 TTAAGTTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTT
7033 TGTGCAAATGAATTATTAAATTAATATTGTAGGTGGAAAACATG-AACACTATTCAAAAATTGAA
66 TGTGCAAATGAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAATTGAA
7097 ACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTTATAAAAAGTATGGACACTTTCAA
130 ACATAAATTACATAACTTTAAAAGAAGTATCGATCC--TTTT-TAAAAAGTATGGACACTTTCAA
7162 CATATTATAA
Statistics
Matches: 570, Mismatches: 5, Indels: 55
0.90 0.01 0.09
Matches are distributed among these distances:
405 22 0.04
406 1 0.00
407 6 0.01
408 3 0.01
409 51 0.09
410 74 0.13
411 30 0.05
412 80 0.14
413 66 0.12
414 106 0.19
415 11 0.02
416 59 0.10
417 26 0.05
420 1 0.00
421 5 0.01
422 17 0.03
423 12 0.02
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (420 bp):
TTAAGTTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTT
TGTGCAAATGAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAATTGAAA
CATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAAAAAGTATGGACACTTTCAATATA
ATAGGTAAAATATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGTTTATATAATGTAAT
AGGTAGTGGTTATATAAGTGTCTATCCTTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAA
AACATTAATTTAAGGTTATCTTTGAGTGAGTTTTAAGATTTTAATTTAGTAATTATAGGCGTCTA
ATGATTTATTTTTTACATTACGATATATAT
Found at i:9573 original size:38 final size:38
Alignment explanation
Indices: 9530--9602 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
9520 GTTTAAGAAT
*
9530 TAATTAACTCTAAATTATTGTTACGAATC-AATATGATA
1 TAATTAACTCTAAATTA-TGTTACAAATCAAATATGATA
9568 TAATTAACTCTAAATTATGTTACAAATCAAATATG
1 TAATTAACTCTAAATTATGTTACAAATCAAATATG
9603 CATGTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
37 10 0.30
38 23 0.70
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.38
Consensus pattern (38 bp):
TAATTAACTCTAAATTATGTTACAAATCAAATATGATA
Found at i:16069 original size:229 final size:223
Alignment explanation
Indices: 15647--16091 Score: 746
Period size: 229 Copynumber: 2.0 Consensus size: 223
15637 GTAAATTATC
* * *
15647 TATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAATATATTTATTATCTTTAGTTAA
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATATTTAGTTAA
*
15712 TATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTG
66 TATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATTTTGTG
15777 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
131 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
15842 ATAAATTACATAACTTTCAAAAAAGTATA
196 ATAAATTACATAACTTT-AAAAAAGTATA
* *
15871 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TG-AAA-ATATAT-TTATTATATTTAG
*
15936 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
62 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAAT-AAATT
* * *
16001 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACTTGAAACACTATTAAATAAATT
126 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
16066 GAAACATAAATTACATAACTTTAAAA
191 GAAACATAAATTACATAACTTTAAAA
16092 GCAGTTTTAA
Statistics
Matches: 206, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
224 35 0.17
225 2 0.01
226 3 0.01
227 5 0.02
228 73 0.35
229 88 0.43
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (223 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATATTTAGTTAA
TATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATTTTGTG
TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
ATAAATTACATAACTTTAAAAAAGTATA
Found at i:16180 original size:20 final size:19
Alignment explanation
Indices: 16157--16202 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
16147 CGATATACCA
16157 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
16177 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
16197 GGTAAA
1 GGTAAA
16203 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:16346 original size:20 final size:19
Alignment explanation
Indices: 16323--16369 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
16313 CGATATAACA
16323 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
16343 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
16363 GGTAAAA
1 GGTAAAA
16370 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:16371 original size:17 final size:19
Alignment explanation
Indices: 16332--16374 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
16322 AGGTAAAAAT
16332 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
16352 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
16369 ATGATA
1 ATGATA
16375 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:18749 original size:32 final size:33
Alignment explanation
Indices: 18688--18752 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
18678 AAATAGATGG
*
18688 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
*
18721 AGTGGTGAAAGAAGTTG-GGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
18753 TATTAAGATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:20568 original size:19 final size:19
Alignment explanation
Indices: 20544--20592 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
20534 AATGTAGGGT
20544 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
20563 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
20582 TATTTTTGTAT
1 TAATTTTGTAT
20593 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:21050 original size:198 final size:199
Alignment explanation
Indices: 20711--22071 Score: 2580
Period size: 199 Copynumber: 6.9 Consensus size: 199
20701 CAATATGGCC
20711 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
*
20776 CCAAAAGTTTAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
20841 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAA
20905 TGGAA
195 TGGAA
20910 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
20975 CAAAAGTTTAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
21040 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
21105 GGAA
196 GGAA
*
21109 AACAGAGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
21174 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
21239 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
21304 GGAA
196 GGAA
21308 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
21372 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
21437 AATATGTCTAAATAATGTATCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
21501 -GAA
196 GGAA
21504 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
21568 CAAAAGTATAATGT-ATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
21632 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
21697 GGAA
196 GGAA
21701 AACAGGGTGCACCCAT-AAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
21765 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
21829 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
21893 GGAA
196 GGAA
21897 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
** *
21961 CAAAAGTATAATGTAATATGTAATTTTTCAATCTTTCCGGTACAATTATACCAGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
22026 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
22072 CTAATTTAAA
Statistics
Matches: 1146, Mismatches: 8, Indels: 18
0.98 0.01 0.02
Matches are distributed among these distances:
195 110 0.10
196 204 0.18
197 241 0.21
198 287 0.25
199 304 0.27
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:23567 original size:3 final size:3
Alignment explanation
Indices: 23532--23600 Score: 66
Period size: 3 Copynumber: 23.0 Consensus size: 3
23522 AGCGGTCGCA
* * * * * * *
23532 GAT GAT GAA GCT GAC GAT GAA GAT GAC GAT GAT GAT GAC GAC GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
23580 GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT
23601 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:0.07, G:0.33, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:24907 original size:198 final size:199
Alignment explanation
Indices: 24367--25483 Score: 2156
Period size: 198 Copynumber: 5.6 Consensus size: 199
24357 ATTTTAGGTC
*
24367 CCCAAAATCATCGAACCCAAAAGTTTAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
24432 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
24497 TTTTTTCCAGAATGAATGG-AAACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGT
131 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
24560 CGAT
196 CGAT
24564 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
24629 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
24694 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
131 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
24759 CGAT
196 CGAT
24763 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
24828 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-T
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
24892 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
131 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
24957 CGAT
196 CGAT
24961 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
25025 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
25090 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
131 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
25155 CGAT
196 CGAT
25159 CCCAAAATCATCGAACCC-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
25223 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-T
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
25287 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
131 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
25352 CGAT
196 CGAT
**
25356 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTTTCCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
*
25421 TACCAGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
25484 CTAATTTAAA
Statistics
Matches: 911, Mismatches: 4, Indels: 9
0.99 0.00 0.01
Matches are distributed among these distances:
197 344 0.38
198 427 0.47
199 140 0.15
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (199 bp):
CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
CGAT
Found at i:26962 original size:12 final size:12
Alignment explanation
Indices: 26945--26997 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
26935 GGTCGCAGAA
*
26945 GATGAAGCTGAC
1 GATGAAGATGAC
26957 GATGAAGATGAC
1 GATGAAGATGAC
*
26969 GATGATGATGAC
1 GATGAAGATGAC
* *
26981 GATGATGATGAT
1 GATGAAGATGAC
26993 GATGA
1 GATGA
26998 TGAAGATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:26977 original size:3 final size:3
Alignment explanation
Indices: 26957--27010 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
26947 TGAAGCTGAC
* * * *
26957 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
27005 GAT GAT
1 GAT GAT
27011 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:26978 original size:18 final size:18
Alignment explanation
Indices: 26942--27010 Score: 72
Period size: 18 Copynumber: 4.0 Consensus size: 18
26932 AGCGGTCGCA
* *
26942 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
26960 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
*
26978 GACGAT---GATGATGAT
1 GAAGATGAAGATGATGAT
*
26993 GATGATGAAGATGATGAT
1 GAAGATGAAGATGATGAT
27011 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 14 0.33
18 29 0.67
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:26998 original size:12 final size:12
Alignment explanation
Indices: 26953--27010 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
26943 AAGATGAAGC
*
26953 TGACGATGAAGA
1 TGACGATGATGA
26965 TGACGATGATGA
1 TGACGATGATGA
26977 TGACGATGATGA
1 TGACGATGATGA
*
26989 TGATGATGATGA
1 TGACGATGATGA
* *
27001 AGATGATGAT
1 TGACGATGAT
27011 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:28154 original size:199 final size:199
Alignment explanation
Indices: 27814--28933 Score: 2147
Period size: 198 Copynumber: 5.6 Consensus size: 199
27804 ATTTTAGGTA
*
27814 CCCAAAATCATCGAACCCAAAAGTTTAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
27879 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
27944 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
131 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
28009 CGAT
196 CGAT
28013 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
28078 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
28143 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
131 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
28208 CGAT
196 CGAT
28212 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
*
28277 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTTTCGATA-T
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
28341 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
131 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
28406 CGAT
196 CGAT
28410 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
28475 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
*
28540 TTTTTCCCAGAATGAATGG-AAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
131 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
28604 CGAT
196 CGAT
28608 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
28673 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-T
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
*
28737 TTTTTTCCATAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
131 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
28802 CGAT
196 CGAT
**
28806 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTTTCCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
* *
28871 TACCAGTTTTATGAGAAAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
28934 CTAATTTAAA
Statistics
Matches: 909, Mismatches: 10, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
197 18 0.02
198 547 0.60
199 344 0.38
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (199 bp):
CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
CGAT
Found at i:30414 original size:12 final size:12
Alignment explanation
Indices: 30397--30449 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
30387 GGTCGCAGAA
*
30397 GATGAAGCTGAC
1 GATGAAGATGAC
30409 GATGAAGATGAC
1 GATGAAGATGAC
*
30421 GATGATGATGAC
1 GATGAAGATGAC
* *
30433 GATGATGATGAT
1 GATGAAGATGAC
30445 GATGA
1 GATGA
30450 TGAAGATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:30429 original size:3 final size:3
Alignment explanation
Indices: 30409--30462 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
30399 TGAAGCTGAC
* * * *
30409 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
30457 GAT GAT
1 GAT GAT
30463 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:30430 original size:18 final size:18
Alignment explanation
Indices: 30394--30462 Score: 72
Period size: 18 Copynumber: 4.0 Consensus size: 18
30384 AGCGGTCGCA
* *
30394 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
30412 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
*
30430 GACGAT---GATGATGAT
1 GAAGATGAAGATGATGAT
*
30445 GATGATGAAGATGATGAT
1 GAAGATGAAGATGATGAT
30463 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 14 0.33
18 29 0.67
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:30450 original size:12 final size:12
Alignment explanation
Indices: 30405--30462 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
30395 AAGATGAAGC
*
30405 TGACGATGAAGA
1 TGACGATGATGA
30417 TGACGATGATGA
1 TGACGATGATGA
30429 TGACGATGATGA
1 TGACGATGATGA
*
30441 TGATGATGATGA
1 TGACGATGATGA
* *
30453 AGATGATGAT
1 TGACGATGAT
30463 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:31932 original size:198 final size:198
Alignment explanation
Indices: 31266--32382 Score: 2123
Period size: 199 Copynumber: 5.6 Consensus size: 198
31256 ATTTTAGGTA
*
31266 CCCAAAATCATCGAACCCAAAAGTTTAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
31331 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-T
31396 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
130 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
31461 CGAT
195 CGAT
31465 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
31530 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-T
31595 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
130 TTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGT
31660 CGAT
195 CGAT
31664 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
*
31729 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTTTCGATATT
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
31794 TTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTC
131 TTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTC
31859 GAT
196 GAT
31862 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
31927 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
31992 TTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTC
131 TTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTC
32056 GAT
196 GAT
32059 CCCAAAATCATCGAACCC-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
* *
32123 TACCGGTTTTATGAGAGAATATGTCTAAATAACGTGTCTACACTAATATAGTTTGTGTCGATA-T
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
*
32187 TTTTTCCATAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTC
131 TTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTC
32252 GAT
196 GAT
**
32255 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTTTCCGGTACAATTA
1 CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
*
32320 TACCAGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
66 TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
32383 CTAATTTAAA
Statistics
Matches: 905, Mismatches: 11, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
195 55 0.06
196 137 0.15
197 134 0.15
198 254 0.28
199 325 0.36
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (198 bp):
CCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTA
TACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATT
TTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTC
GAT
Found at i:33863 original size:12 final size:12
Alignment explanation
Indices: 33846--33898 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
33836 GGTCGCAGAA
*
33846 GATGAAGCTGAC
1 GATGAAGATGAC
33858 GATGAAGATGAC
1 GATGAAGATGAC
*
33870 GATGATGATGAC
1 GATGAAGATGAC
* *
33882 GATGATGATGAT
1 GATGAAGATGAC
33894 GATGA
1 GATGA
33899 TGAAGATGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.36, C:0.08, G:0.34, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:33878 original size:3 final size:3
Alignment explanation
Indices: 33858--33911 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
33848 TGAAGCTGAC
* * * *
33858 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
33906 GAT GAT
1 GAT GAT
33912 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:33879 original size:18 final size:18
Alignment explanation
Indices: 33843--33911 Score: 72
Period size: 18 Copynumber: 4.0 Consensus size: 18
33833 AGCGGTCGCA
* *
33843 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
33861 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
*
33879 GACGAT---GATGATGAT
1 GAAGATGAAGATGATGAT
*
33894 GATGATGAAGATGATGAT
1 GAAGATGAAGATGATGAT
33912 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 14 0.33
18 29 0.67
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:33899 original size:12 final size:12
Alignment explanation
Indices: 33854--33911 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
33844 AAGATGAAGC
*
33854 TGACGATGAAGA
1 TGACGATGATGA
33866 TGACGATGATGA
1 TGACGATGATGA
33878 TGACGATGATGA
1 TGACGATGATGA
*
33890 TGATGATGATGA
1 TGACGATGATGA
* *
33902 AGATGATGAT
1 TGACGATGAT
33912 CCAAACAAGT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:35642 original size:183 final size:183
Alignment explanation
Indices: 35359--35859 Score: 921
Period size: 183 Copynumber: 2.7 Consensus size: 183
35349 GTAAATTTGC
35359 AATATAACTGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1 AATATAACTGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
35424 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
66 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
*
35489 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATCGATAATTTAGT
131 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTAGT
**
35542 AATATAACTGGTATAAATATTTCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
1 AATATAACTGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
35607 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
66 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
*
35672 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTGGT
131 TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTAGT
* *
35725 AATATAACCGGTATAAATATACCGGTTTTATGCGCGAATATGTCTACAACCTATATCGACACTTT
1 AATATAACTGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
* * *
35790 ATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAG
66 TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
35855 TGTCG
131 TGTCG
35860 GTAATTTTAA
Statistics
Matches: 307, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 307 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
AATATAACTGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTT
TTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAG
TGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTAGT
Found at i:37752 original size:23 final size:23
Alignment explanation
Indices: 37717--37779 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
37707 ATAGGTAAAC
*
37717 ATATGATGTAATAGGTATCCCTT
1 ATATAATGTAATAGGTATCCCTT
* **
37740 ATGTAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
37763 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
37780 GTGGTTATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.35, C:0.06, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:37787 original size:23 final size:23
Alignment explanation
Indices: 37717--37789 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
37707 ATAGGTAAAC
* **
37717 ATATGATGTAATAGGTATCCCTT
1 ATATAATGTAATAGGTATCGGTT
* *
37740 ATGTAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
37763 ATATAATGTAATAGGTAGT-GGTT
1 ATATAATGTAATAGGTA-TCGGTT
37786 ATAT
1 ATAT
37790 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:38437 original size:18 final size:18
Alignment explanation
Indices: 38416--38452 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38406 GTAATTGGAG
38416 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
38434 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
38452 T
1 T
38453 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:38460 original size:24 final size:24
Alignment explanation
Indices: 38408--38454 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
38398 TTTCATATGT
* *
38408 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
38432 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
38455 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:38753 original size:39 final size:39
Alignment explanation
Indices: 38710--38796 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
38700 TCCGATGCTC
*
38710 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
38749 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
38788 ATCAAAATC
1 ATCAAAATC
38797 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:39213 original size:20 final size:22
Alignment explanation
Indices: 39188--39263 Score: 68
Period size: 23 Copynumber: 3.5 Consensus size: 22
39178 ACTTTCAATA
*
39188 TAATAGGTA-AAC-ATATGATG
1 TAATAGGTAGAACTATATAATG
*
39208 TAATAGGTAGCACTTATATAATG
1 TAATAGGTAGAAC-TATATAATG
**
39231 TAATAGGTATCG-TTTATATAATG
1 TAATAGGTA--GAACTATATAATG
39254 TAATAGGTAG
1 TAATAGGTAG
39264 TGGTTATATT
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
20 9 0.19
21 3 0.06
23 34 0.72
25 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (22 bp):
TAATAGGTAGAACTATATAATG
Found at i:39231 original size:23 final size:23
Alignment explanation
Indices: 39200--39263 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
39190 ATAGGTAAAC
*
39200 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCACTT
* **
39223 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCACTT
39246 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
39264 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCACTT
Found at i:39270 original size:23 final size:23
Alignment explanation
Indices: 39200--39272 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
39190 ATAGGTAAAC
* **
39200 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGTGCTT
*
39223 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
39246 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
39269 ATAT
1 ATAT
39273 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:39930 original size:330 final size:333
Alignment explanation
Indices: 39315--40312 Score: 1905
Period size: 330 Copynumber: 3.0 Consensus size: 333
39305 CATACTTTTT
*
39315 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAATATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
39380 TATAGGCGTCTAATGATTTATTTTTTTCGTTACGATATATATTATTATTAAATTAAAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTTCGTTACGATATATATTATTATTAAATTAAAAATTCTAA
*
39445 ATATTATTTTATAAAATATCAAAACAATCAAATAATTTCTTGTGCAAATGAAATTATTAAATTAA
131 ATA-TATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
39510 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
195 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
39575 GAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
260 GAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
39639 TTGCAATGC
325 TTGCAATGC
39648 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
39713 TATAGGCGTCTAATGATTTATTTTTTTCGTTACGATATATATTATTATTAAATT-AAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTTCGTTACGATATATATTATTATTAAATTAAAAATTCTAA
39777 ATAT-TTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAAT
131 ATATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAAT
39841 ATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA-ATAAATTACATAACTTTAAAAG
196 ATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAG
39905 AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATT
261 AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATT
39970 TGCAATGC
326 TGCAATGC
39978 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
1 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
*
40043 TATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAA
66 TATAGGCGTCTAATGATTTATTTTTTTCGTTACGATATATATTATTATTAAATTAAAAATTCTAA
40108 ATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
131 AT-ATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAA
40173 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
195 TATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAA
* *
40238 GAAATATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
260 GAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAAT
40303 TTGCAATGC
325 TTGCAATGC
40312 T
1 T
40313 ATCGGTATAA
Statistics
Matches: 655, Mismatches: 5, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
329 34 0.05
330 279 0.43
331 13 0.02
332 15 0.02
333 220 0.34
334 94 0.14
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (333 bp):
TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
TATAGGCGTCTAATGATTTATTTTTTTCGTTACGATATATATTATTATTAAATTAAAAATTCTAA
ATATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAAT
ATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAG
AAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAAATT
TGCAATGC
Found at i:44713 original size:3 final size:3
Alignment explanation
Indices: 44705--44749 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
44695 AACCCCTCGG
* * *
44705 TTC TTC TTC TTC TTC TTC CT- TTC TTC TTC TTT TTC TTC TTT TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
44750 CTCACACTCC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (3 bp):
TTC
Found at i:44730 original size:20 final size:20
Alignment explanation
Indices: 44705--44742 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
44695 AACCCCTCGG
44705 TTCTTCTTCTTCTTCTTCCT
1 TTCTTCTTCTTCTTCTTCCT
*
44725 TTCTTCTTCTTTTTCTTC
1 TTCTTCTTCTTCTTCTTC
44743 TTTTTCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (20 bp):
TTCTTCTTCTTCTTCTTCCT
Found at i:45496 original size:17 final size:17
Alignment explanation
Indices: 45476--45513 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
45466 GACCAAAGTC
45476 AATA-TTTGATTTTGGAA
1 AATATTTTGATTTT-GAA
45493 AATATTTTGATTTTGAA
1 AATATTTTGATTTTGAA
45510 AATA
1 AATA
45514 AGCACAGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.47
Consensus pattern (17 bp):
AATATTTTGATTTTGAA
Done.