Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_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: 4287485
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 24
Found at i:2388472 original size:13 final size:13
Alignment explanation
Indices: 2388456--2388485 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2388446 AAGTTCAATA
2388456 AATTCAAATACTT
1 AATTCAAATACTT
*
2388469 AATTGAAATACTT
1 AATTCAAATACTT
2388482 AATT
1 AATT
2388486 AACTCAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (13 bp):
AATTCAAATACTT
Found at i:2388592 original size:32 final size:33
Alignment explanation
Indices: 2388496--2388594 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
2388486 AACTCAACAT
* * *
2388496 AATTGAAATACTTAAATACTTCCAAGTTTGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
2388529 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
2388562 AATTCAAATACTTAAAAACTT-CAAGTTCGATA
1 AATTCAAATACTTAAAAACTTCCAAGTTCGATA
2388594 A
1 A
2388595 TTAAAACAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 12 0.19
33 51 0.81
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (33 bp):
AATTCAAATACTTAAAAACTTCCAAGTTCGATA
Found at i:2388613 original size:21 final size:21
Alignment explanation
Indices: 2388589--2388628 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2388579 ACTTCAAGTT
2388589 CGATAATTAAAACAAAGTTTA
1 CGATAATTAAAACAAAGTTTA
* *
2388610 CGATAATTGAAATAAAGTT
1 CGATAATTAAAACAAAGTT
2388629 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.30
Consensus pattern (21 bp):
CGATAATTAAAACAAAGTTTA
Found at i:2391162 original size:29 final size:29
Alignment explanation
Indices: 2391120--2391192 Score: 146
Period size: 29 Copynumber: 2.5 Consensus size: 29
2391110 TGCACCCCTA
2391120 ATGGCGACCTCCAAGGTCGCCCGGATGCC
1 ATGGCGACCTCCAAGGTCGCCCGGATGCC
2391149 ATGGCGACCTCCAAGGTCGCCCGGATGCC
1 ATGGCGACCTCCAAGGTCGCCCGGATGCC
2391178 ATGGCGACCTCCAAG
1 ATGGCGACCTCCAAG
2391193 CTCACTGTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.19, C:0.37, G:0.30, T:0.14
Consensus pattern (29 bp):
ATGGCGACCTCCAAGGTCGCCCGGATGCC
Found at i:2392696 original size:26 final size:26
Alignment explanation
Indices: 2392649--2392698 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
2392639 AAAATTTGTT
* *
2392649 TTTTTTAAATATATATATAATTTTGA
1 TTTTTTAAATATAAATAAAATTTTGA
* *
2392675 TTTTTTAATTTTAAATAAAATTTT
1 TTTTTTAAATATAAATAAAATTTT
2392699 TAAAATTACC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (26 bp):
TTTTTTAAATATAAATAAAATTTTGA
Found at i:2392982 original size:5 final size:5
Alignment explanation
Indices: 2392968--2393016 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
2392958 GTCCGTCCGT
* *
2392968 CTCGT CTCGG CTCGG CAT-GG CTCGG CTCGG CACGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG C-TCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
2393017 TGGTCGTGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
4 1 0.03
5 37 0.95
6 1 0.03
ACGTcount: A:0.04, C:0.39, G:0.37, T:0.20
Consensus pattern (5 bp):
CTCGG
Found at i:2392993 original size:15 final size:15
Alignment explanation
Indices: 2392973--2393013 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
2392963 TCCGTCTCGT
*
2392973 CTCGGCTCGGCATGG
1 CTCGGCTCGGCACGG
2392988 CTCGGCTCGGCACGG
1 CTCGGCTCGGCACGG
2393003 CTCGGCTCGGC
1 CTCGGCTCGGC
2393014 TCGTGGTCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.05, C:0.39, G:0.39, T:0.17
Consensus pattern (15 bp):
CTCGGCTCGGCACGG
Found at i:2393343 original size:22 final size:22
Alignment explanation
Indices: 2393313--2393367 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
2393303 TCAGGAGTTA
* *
2393313 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
2393335 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
2393357 CAGGAGTTATA
1 CAGGAGTTATA
2393368 ACAGCTGAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:2398932 original size:5 final size:5
Alignment explanation
Indices: 2398921--2398950 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
2398911 TCTCGTATCT
*
2398921 GCTCG GCACG GCTCG GCTCG GCTCG GCTCG
1 GCTCG GCTCG GCTCG GCTCG GCTCG GCTCG
2398951 TGGTCGTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.03, C:0.40, G:0.40, T:0.17
Consensus pattern (5 bp):
GCTCG
Found at i:2398959 original size:6 final size:6
Alignment explanation
Indices: 2398948--2398996 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
2398938 TCGGCTCGGC
* *
2398948 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
2398996 T
1 T
2398997 AATACGTGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.04, C:0.16, G:0.49, T:0.31
Consensus pattern (6 bp):
TCGTGG
Found at i:2399296 original size:22 final size:22
Alignment explanation
Indices: 2399271--2399325 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2399261 TCAAGAGTTA
* *
2399271 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
2399293 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
2399315 CGGGAGTTATA
1 CAGGAGTTATA
2399326 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:2399970 original size:6 final size:6
Alignment explanation
Indices: 2399959--2400031 Score: 92
Period size: 6 Copynumber: 12.2 Consensus size: 6
2399949 TCGGCTCGGC
* * ** *
2399959 TCGTGG TCGTGG TCGAGG TCGAGG TCGTGG TCGTGG TCGTTA ACGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
*
2400007 TCGTGG TCGTGG TCGTGA TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
2400032 AATACGTGTC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.07, C:0.16, G:0.45, T:0.32
Consensus pattern (6 bp):
TCGTGG
Found at i:2400331 original size:22 final size:22
Alignment explanation
Indices: 2400306--2400360 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2400296 TCAGGAGTTA
* *
2400306 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
2400328 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
2400350 CGGGAGTTATA
1 CAGGAGTTATA
2400361 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:2400624 original size:17 final size:17
Alignment explanation
Indices: 2400602--2400634 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
2400592 TTTCCTATCA
2400602 GAAGTACAATACCACCT
1 GAAGTACAATACCACCT
2400619 GAAGTACAATACCACC
1 GAAGTACAATACCACC
2400635 AGCAGTCCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.30, G:0.12, T:0.15
Consensus pattern (17 bp):
GAAGTACAATACCACCT
Found at i:2405954 original size:6 final size:6
Alignment explanation
Indices: 2405943--2406015 Score: 119
Period size: 6 Copynumber: 12.2 Consensus size: 6
2405933 ACGGCTCGGC
* * *
2405943 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCATGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
2405991 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
2406016 AATACGTGTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.04, C:0.16, G:0.48, T:0.32
Consensus pattern (6 bp):
TCGTGG
Found at i:2406315 original size:22 final size:22
Alignment explanation
Indices: 2406290--2406344 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
2406280 TCAGGAGTTA
* *
2406290 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
2406312 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
2406334 CGGGAGTTATA
1 CAGGAGTTATA
2406345 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:2414429 original size:20 final size:20
Alignment explanation
Indices: 2414401--2414446 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
2414391 AGGATTAAGA
*
2414401 AGTTCAAAGCATTAGAAATG
1 AGTTTAAAGCATTAGAAATG
2414421 AGTTTAAAGCATTAGAAATG
1 AGTTTAAAGCATTAGAAATG
2414441 AGTTTA
1 AGTTTA
2414447 GAACACATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (20 bp):
AGTTTAAAGCATTAGAAATG
Found at i:2416392 original size:18 final size:18
Alignment explanation
Indices: 2416369--2416404 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2416359 TTAGTGACTA
2416369 ATTTTCTTT-TGCATTTTT
1 ATTTTCTTTCT-CATTTTT
2416387 ATTTTCTTTCTCATTTTT
1 ATTTTCTTTCTCATTTTT
2416405 GCATTGCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.72
Consensus pattern (18 bp):
ATTTTCTTTCTCATTTTT
Found at i:2418544 original size:21 final size:21
Alignment explanation
Indices: 2418518--2418563 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
2418508 GGAGGGAAAA
*
2418518 AAGAGAAAAATAAACAACTAG
1 AAGAGAAAAAGAAACAACTAG
* *
2418539 AAGAGAAATAGAAACAACTGG
1 AAGAGAAAAAGAAACAACTAG
2418560 AAGA
1 AAGA
2418564 TGATATCAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.63, C:0.09, G:0.20, T:0.09
Consensus pattern (21 bp):
AAGAGAAAAAGAAACAACTAG
Found at i:2422249 original size:29 final size:31
Alignment explanation
Indices: 2422196--2422259 Score: 105
Period size: 29 Copynumber: 2.1 Consensus size: 31
2422186 GCAGTCGGAA
*
2422196 CAAAATTGCACTTAAGTTTTGAGCTAGTGAC
1 CAAAATTGCACTTAAATTTTGAGCTAGTGAC
2422227 CAAAATTGC-C-TAAATTTTGAGCTAGTGAC
1 CAAAATTGCACTTAAATTTTGAGCTAGTGAC
2422256 CAAA
1 CAAA
2422260 CAATATGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 22 0.69
30 1 0.03
31 9 0.28
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (31 bp):
CAAAATTGCACTTAAATTTTGAGCTAGTGAC
Found at i:2435418 original size:13 final size:13
Alignment explanation
Indices: 2435400--2435436 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
2435390 CTAATATAAA
2435400 GAGTTGTTCTAAG
1 GAGTTGTTCTAAG
2435413 GAGTTGTTCTAAG
1 GAGTTGTTCTAAG
*
2435426 GAGTCGTTCTA
1 GAGTTGTTCTA
2435437 GGATCAACAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.11, G:0.30, T:0.38
Consensus pattern (13 bp):
GAGTTGTTCTAAG
Found at i:2438773 original size:20 final size:19
Alignment explanation
Indices: 2438731--2438779 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
2438721 AGCTCAAACT
2438731 GGTATCGATA-CTAAGGCC
1 GGTATCGATACCTAAGGCC
* *
2438749 AGTATCGATACCTTAAGGTC
1 GGTATCGATACC-TAAGGCC
2438769 GGTATCGATAC
1 GGTATCGATAC
2438780 TGACAGGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 9 0.35
19 1 0.04
20 16 0.62
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (19 bp):
GGTATCGATACCTAAGGCC
Found at i:2439190 original size:30 final size:29
Alignment explanation
Indices: 2439150--2439249 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
2439140 TTTTTATCTT
* *
2439150 AAATACATTTTATTCTTATTTTAACTTAAA
1 AAATATATTTTAGTCTTATTTTAACTT-AA
*
2439180 AAATATATTTTAGTCTTATCTTAACTTAA
1 AAATATATTTTAGTCTTATTTTAACTTAA
* * *
2439209 AACTATAATTTAGTCTTACTTTAACTTAA
1 AAATATATTTTAGTCTTATTTTAACTTAA
*
2439238 ATATATATTTTA
1 AAATATATTTTA
2439250 ATTTAAAAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 36 0.60
30 24 0.40
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (29 bp):
AAATATATTTTAGTCTTATTTTAACTTAA
Found at i:2439266 original size:18 final size:18
Alignment explanation
Indices: 2439228--2439265 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2439218 TTAGTCTTAC
*
2439228 TTTAACTTAAATATATAT
1 TTTAACTTAAAAATATAT
*
2439246 TTTAATTTAAAAATAT-T
1 TTTAACTTAAAAATATAT
2439263 TTT
1 TTT
2439266 TTTTTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTAACTTAAAAATATAT
Found at i:2439328 original size:29 final size:27
Alignment explanation
Indices: 2439243--2439344 Score: 114
Period size: 29 Copynumber: 3.6 Consensus size: 27
2439233 CTTAAATATA
*
2439243 TATTTTAATTTAAAAATATTTTTTTTT
1 TATTTTAATTTAAAAATATATTTTTTT
* *
2439270 TATTTTTATTTAAAAAGTTATATATTTTT
1 TATTTTAATTTAAAAA--TATATTTTTTT
2439299 TATTTTAATTTAAAATATATATTTTATTTT
1 TATTTTAATTTAAAA-ATATA-TTT-TTTT
* *
2439329 TATCTTAATTTTAAAA
1 TATTTTAATTTAAAAA
2439345 CATAAGAATA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
27 15 0.24
28 4 0.06
29 26 0.41
30 18 0.29
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (27 bp):
TATTTTAATTTAAAAATATATTTTTTT
Found at i:2439426 original size:43 final size:41
Alignment explanation
Indices: 2439379--2439480 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 41
2439369 AAGTTGAAGT
*
2439379 AATAATAATTTATATTTTTAAGTTAAATTAAAATTAAGATA
1 AATAATAATATATATTTTTAAGTTAAATTAAAATTAAGATA
*
2439420 AA-AATAAAATATATTTTATTTAAGTTAAATTAAAATTAAGATA
1 AATAAT--AATATATATT-TTTAAGTTAAATTAAAATTAAGATA
*
2439463 AATTATAATATATATTTT
1 AATAATAATATATATTTT
2439481 AAAACGTCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
40 3 0.06
41 4 0.08
42 17 0.32
43 27 0.51
44 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (41 bp):
AATAATAATATATATTTTTAAGTTAAATTAAAATTAAGATA
Found at i:2440108 original size:23 final size:23
Alignment explanation
Indices: 2440082--2440129 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2440072 ATAAAGTACA
*
2440082 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
2440105 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2440128 AT
1 AT
2440130 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2440880 original size:18 final size:18
Alignment explanation
Indices: 2440857--2440893 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2440847 CGAAATATAT
2440857 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
2440875 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
2440893 A
1 A
2440894 CTCCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:2441123 original size:23 final size:23
Alignment explanation
Indices: 2441097--2441161 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
2441087 ATGCGAGATA
2441097 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
2441120 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
2441143 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
2441162 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:2441543 original size:21 final size:20
Alignment explanation
Indices: 2441513--2441566 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
2441503 GATAGACACT
*
2441513 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
2441534 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
2441557 TTACATTATA
1 TTACATTATA
2441567 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:2441554 original size:23 final size:23
Alignment explanation
Indices: 2441528--2441590 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2441518 ATATAACCAT
2441528 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2441551 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
2441574 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2441591 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2441969 original size:21 final size:20
Alignment explanation
Indices: 2441939--2441992 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
2441929 GATAGACACT
*
2441939 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
2441960 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
2441983 TTACATTATA
1 TTACATTATA
2441993 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:2441980 original size:23 final size:23
Alignment explanation
Indices: 2441954--2442016 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2441944 ATATAACCAT
2441954 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2441977 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
2442000 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2442017 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2442202 original size:30 final size:29
Alignment explanation
Indices: 2442162--2442228 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
2442152 TCATTTGCAC
* * *
2442162 AAAAAATTATTT-GATTGTTTTATATTTTAT
1 AAAATATTATTTAGAAT-TTTTA-ATTTAAT
2442192 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
2442221 AATAATAT
1 AA-AATAT
2442229 ACCGTAACGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:2442321 original size:428 final size:428
Alignment explanation
Indices: 2441099--2442542 Score: 2808
Period size: 427 Copynumber: 3.4 Consensus size: 428
2441089 GCGAGATAGA
2441099 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2441164 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2441228 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
131 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
2441293 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTA
196 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTA
2441358 ATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
261 ATTTAATAAT-A-ATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
2441423 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
324 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
2441488 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
389 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
2441528 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2441593 TTACCTATTAT-TTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2441657 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
131 TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
2441722 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTA
196 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTA
2441787 ATTTAATAATAATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
261 ATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
*
2441851 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCATAGTGAAAAAAGTATGGACA
326 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
2441916 CTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
391 CTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
2441954 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2442019 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2442084 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
131 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
2442149 ATTTCATTTGCACAAAAAATTATTTGATTG-TTTTATATTTTATAAAATATTATTTAGAATTTTT
195 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
2442213 AATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
260 AATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
2442278 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
325 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
2442343 ACTTTTAT-AAAAGGATAGACACTTTACAATATAACCAT
390 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
2442381 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2442446 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2442511 TGTAATTTATGTTTCAATTTTTTTAACAGTGT
131 TGTAATTTATGTTTCAA-TTTTTTAACAGTGT
2442543 ACTGCGAATT
Statistics
Matches: 1009, Mismatches: 2, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
426 217 0.22
427 336 0.33
428 226 0.22
429 230 0.23
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (428 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
TGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTTA
ATTTAATAATAATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
CTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
Found at i:2442391 original size:21 final size:20
Alignment explanation
Indices: 2442366--2442419 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
2442356 GATAGACACT
2442366 TTACAATATAACCATTACCTA
1 TTACAATATAACCA-TACCTA
*
2442387 TTACATTATATAAACGATACCTA
1 TTACA--ATAT-AACCATACCTA
*
2442410 TTACATTATA
1 TTACAATATA
2442420 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
23 15 0.54
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACAATATAACCATACCTA
Found at i:2442407 original size:23 final size:23
Alignment explanation
Indices: 2442381--2442443 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2442371 ATATAACCAT
2442381 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2442404 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
2442427 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2442444 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2445306 original size:184 final size:184
Alignment explanation
Indices: 2444997--2446036 Score: 2017
Period size: 184 Copynumber: 5.7 Consensus size: 184
2444987 TTTTAAATGG
* *
2444997 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2445062 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
2445127 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
2445181 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2445246 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
2445311 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
2445365 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2445430 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
2445495 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
2445549 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2445614 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
2445679 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
2445733 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2445798 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
*
2445863 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
2445917 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
2445982 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
2446037 ATGTTGAAAG
Statistics
Matches: 849, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 849 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
Found at i:2447411 original size:3 final size:3
Alignment explanation
Indices: 2447403--2447489 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
2447393 ACTTGTTTGG
* * * **
2447403 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
2447451 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
2447490 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:2447426 original size:18 final size:18
Alignment explanation
Indices: 2447403--2447504 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
2447393 ACTTGTTTGG
2447403 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
2447421 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
2447439 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
2447457 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
2447475 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
2447493 AGCTTCATCTTC
1 ATCATCATCTTC
2447505 TGCGACCGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:2447470 original size:42 final size:42
Alignment explanation
Indices: 2447411--2447501 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
2447401 GGATCATCAT
*
2447411 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
2447453 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
2447495 CTTCATC
1 CTTCATC
2447502 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:2450434 original size:199 final size:199
Alignment explanation
Indices: 2448966--2450582 Score: 3028
Period size: 198 Copynumber: 8.1 Consensus size: 199
2448956 TTTAAATTAG
* * *
2448966 TATCGACACAAAATATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATT
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2449031 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * * *
2449096 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTTATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2449161 AAAA
196 AAAA
*
2449165 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTTATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2449230 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2449295 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2449359 AAAA
196 AAAA
2449363 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2449428 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2449493 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2449557 AAAA
196 AAAA
2449561 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2449626 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
2449691 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTG-TTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2449755 AAAA
196 AAAA
2449759 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2449824 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2449889 CGACAC-TTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2449953 AAAA
196 AAAA
2449957 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2450022 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* * *
2450087 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAA
2450152 AAAAA
195 AAAAA
2450157 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
2450222 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2450287 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2450352 AAAA
196 AAAA
2450356 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
2450421 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
2450486 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGG-AAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
2450550 AAAA
196 AAAA
*
2450554 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
2450583 TGACCCTTAA
Statistics
Matches: 1387, Mismatches: 26, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
197 51 0.04
198 707 0.51
199 435 0.31
200 194 0.14
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAA
Found at i:2450691 original size:19 final size:19
Alignment explanation
Indices: 2450664--2450708 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2450654 ATTCACATAA
*
2450664 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
2450683 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
2450702 AAAATTA
1 AAAATTA
2450709 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:2452541 original size:33 final size:33
Alignment explanation
Indices: 2452504--2452569 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2452494 CATCTTAATA
*
2452504 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
2452537 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
2452570 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:2454714 original size:24 final size:24
Alignment explanation
Indices: 2454677--2454729 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2454667 CCGTTCTATC
2454677 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA-CTTA
** *
2454701 TATTTTCATCGGATATGTTATTTA
1 TATTTTCAGAGGATATGTTACTTA
2454725 TATTT
1 TATTT
2454730 AATCGATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.26, C:0.08, G:0.13, T:0.53
Consensus pattern (24 bp):
TATTTTCAGAGGATATGTTACTTA
Found at i:2454920 original size:20 final size:19
Alignment explanation
Indices: 2454874--2454920 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2454864 TCCGGTATCA
*
2454874 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
2454893 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
2454914 TTTTACC
1 TTTTACC
2454921 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:2457814 original size:47 final size:46
Alignment explanation
Indices: 2457745--2457833 Score: 151
Period size: 46 Copynumber: 1.9 Consensus size: 46
2457735 TACATTGTAT
*
2457745 AATTTGGTACCTAAATTTATTTTTATCTAATTAGATATTTAAATTAC
1 AATTTGGTACCTAAATTTA-TTTTATCTAATTAGATATCTAAATTAC
*
2457792 AATTTGTTACCTAAATTTATTTTATCTAATTAGATATCTAAA
1 AATTTGGTACCTAAATTTATTTTATCTAATTAGATATCTAAA
2457834 CTTTTTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
46 22 0.55
47 18 0.45
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (46 bp):
AATTTGGTACCTAAATTTATTTTATCTAATTAGATATCTAAATTAC
Found at i:2459797 original size:20 final size:21
Alignment explanation
Indices: 2459772--2459823 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2459762 TTTTCCCAAT
*
2459772 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2459792 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2459813 TCGCAATGCGA
1 TCGCAATGCGA
2459824 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2459837 original size:20 final size:20
Alignment explanation
Indices: 2459812--2459905 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
2459802 AATTGGGAAA
*
2459812 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
2459832 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
2459853 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
2459873 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
2459893 TTCGCAACGCGAT
1 ATCGCAACGCGAT
2459906 TTACATAGCG
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 45 0.73
21 13 0.21
22 2 0.03
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:2460498 original size:19 final size:19
Alignment explanation
Indices: 2460462--2460503 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
2460452 ACGAGAGAAT
*
2460462 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
2460481 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
2460500 CGCA
1 CGCA
2460504 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:2460521 original size:19 final size:19
Alignment explanation
Indices: 2460499--2460662 Score: 150
Period size: 19 Copynumber: 9.1 Consensus size: 19
2460489 GAAACCAAAA
*
2460499 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2460518 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
2460532 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2460551 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
*
2460570 TCGCGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
2460589 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
2460603 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* * *
2460622 TTGCGTTGCGATTCTCTTT
1 TCGCGTTGCGATTTTCATT
*
2460641 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2460661 TC
1 TC
2460663 AACCAAAAGA
Statistics
Matches: 116, Mismatches: 18, Indels: 22
0.74 0.12 0.14
Matches are distributed among these distances:
14 20 0.17
16 5 0.04
17 6 0.05
19 70 0.60
20 15 0.13
ACGTcount: A:0.11, C:0.21, G:0.20, T:0.48
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2460546 original size:33 final size:33
Alignment explanation
Indices: 2460504--2460638 Score: 171
Period size: 33 Copynumber: 3.9 Consensus size: 33
2460494 CAAAATCGCA
2460504 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
2460537 TTGCGATTTTCATTTCGCGTTGCGATTTTTATTTCGCG
1 TTGCGATTTTCATTTCGCGTTGCGA----T-TCTCTCG
*
2460575 TTGTGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** *
2460608 TTGCGATAGTCATTTTGCGTTGCGATTCTCT
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCT
2460639 TTATCTCGTT
Statistics
Matches: 88, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
33 57 0.65
34 1 0.01
37 1 0.01
38 29 0.33
ACGTcount: A:0.10, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:2460586 original size:38 final size:35
Alignment explanation
Indices: 2460499--2460662 Score: 147
Period size: 33 Copynumber: 4.6 Consensus size: 35
2460489 GAAACCAAAA
*
2460499 TCGCATTGCGATTTTCATTTCGCGTTGCGA--TTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
* *
2460532 TCTCGTTGCGATTTTCATTTCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGA--TTT-TC
*
2460570 TCGCGTTGTGATTTTCATTTCGCGTTGCGA--TTC
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
* ** * *
2460603 TCTCGTTGCGATAGTCATTTTGCGTTGCGATTCTCTTTA
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGA---T-TTTC
*
2460642 TCTCGTTGCGATTTTCATTTC
1 TCGCGTTGCGATTTTCATTTC
2460663 AACCAAAAGA
Statistics
Matches: 105, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
33 54 0.51
34 1 0.01
37 1 0.01
38 29 0.28
39 20 0.19
ACGTcount: A:0.11, C:0.21, G:0.20, T:0.48
Consensus pattern (35 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTC
Found at i:2460628 original size:71 final size:72
Alignment explanation
Indices: 2460498--2460662 Score: 244
Period size: 71 Copynumber: 2.3 Consensus size: 72
2460488 CGAAACCAAA
* **
2460498 ATCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCGTTGCGAT
1 ATCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGAT
2460563 T-T-TTAT
66 TCTCTT-T
* * *
2460569 TTCGCGTTGTGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTTGCGTTGCGAT
1 ATCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGAT
2460634 TCTCTTT
66 TCTCTTT
*
2460641 ATCTCGTTGCGATTTTCATTTC
1 ATCGCGTTGCGATTTTCATTTC
2460663 AACCAAAAGA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
71 60 0.72
72 21 0.25
73 2 0.02
ACGTcount: A:0.12, C:0.21, G:0.20, T:0.47
Consensus pattern (72 bp):
ATCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCGCGTTGCGAT
TCTCTTT
Found at i:2462214 original size:63 final size:63
Alignment explanation
Indices: 2462115--2462245 Score: 253
Period size: 63 Copynumber: 2.1 Consensus size: 63
2462105 GTTACGTGAT
*
2462115 GAGGTCAATGCCTTGCGTGGGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
2462178 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
1 GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
2462241 GAGGT
1 GAGGT
2462246 GTCTACTTTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.20, C:0.18, G:0.38, T:0.24
Consensus pattern (63 bp):
GAGGTCAATGCCTTGCGTGAGGAGATCGGTACTCTACGCGATAACGATGGTGCATGGCGTGTG
Found at i:2462894 original size:42 final size:42
Alignment explanation
Indices: 2462815--2462978 Score: 134
Period size: 42 Copynumber: 3.9 Consensus size: 42
2462805 CTCGACTCGC
* * * * * * * *
2462815 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCC
1 CTGTCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCA
*
2462857 CTATCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCA
1 CTGTCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCA
* * ** * * *
2462899 CTGTCATCCCTCAAGAGTCTACTCCTATCATTGAAGAGGCCA
1 CTGTCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCA
* *
2462941 CTGTCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 CTGTCATTCCTCG-AGA-GTCCCCTCCCACCATTCAAGAG
2462979 CCCGATTCAC
Statistics
Matches: 94, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
41 2 0.02
42 90 0.96
43 2 0.02
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
CTGTCATTCCTCGAGAGTCCCCTCCCACCATTCAAGAGGCCA
Found at i:2462964 original size:84 final size:84
Alignment explanation
Indices: 2462815--2462978 Score: 242
Period size: 84 Copynumber: 2.0 Consensus size: 84
2462805 CTCGACTCGC
* *
2462815 CTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCT
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCACTATCATTCCTCGAGAGTCCCCT
2462880 CCCACCATTCAAGAGGCCA
66 CCCACCATTCAAGAGGCCA
* * * *
2462899 CTGTCATCCCTCAAGAGTCTACTCCTATCATTGAAGAGGCCACTGTCA-TCGTTGAAGAGGT-CC
1 CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCACTATCATTCCTCG-AGA-GTCCC
2462962 CTCCCACCATTCAAGAG
64 CTCCCACCATTCAAGAG
2462979 CCCGATTCAC
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
83 4 0.06
84 66 0.92
85 2 0.03
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (84 bp):
CTGTCATCCCTCAAGAGTCCACTCCTATCATTGAAGAGGCCACTATCATTCCTCGAGAGTCCCCT
CCCACCATTCAAGAGGCCA
Found at i:2464370 original size:14 final size:14
Alignment explanation
Indices: 2464335--2464371 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2464325 GATTGTTTAA
*
2464335 TTGATTTATAAAAG
1 TTGATTTGTAAAAG
*
2464349 GTGATTTGTAAAAG
1 TTGATTTGTAAAAG
2464363 TTGATTTGT
1 TTGATTTGT
2464372 TTAATTGATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:2464502 original size:19 final size:19
Alignment explanation
Indices: 2464478--2464544 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
2464468 AAAAAGTACT
*
2464478 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
* *
2464497 ATCGCAA--TG--A-GAGA
1 ATCGCAACGCGAAATGAAA
2464511 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
2464530 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
2464545 TAAATTCACG
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 25 0.64
ACGTcount: A:0.45, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:2464595 original size:33 final size:32
Alignment explanation
Indices: 2464553--2464679 Score: 184
Period size: 33 Copynumber: 3.9 Consensus size: 32
2464543 ATTAAATTCA
2464553 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
2464586 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
*
2464619 CGTTGCGATTTTCATTTCACATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
2464652 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
2464680 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:2464632 original size:66 final size:66
Alignment explanation
Indices: 2464553--2464678 Score: 234
Period size: 66 Copynumber: 1.9 Consensus size: 66
2464543 ATTAAATTCA
*
2464553 CGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTA
1 CGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTA
2464618 G
66 G
*
2464619 CGTTGCGATTTTCATTTCACATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGA
1 CGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGA
2464679 TAGTAATTTC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.16, C:0.23, G:0.19, T:0.42
Consensus pattern (66 bp):
CGTTGCGATTTTCATTTCACATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGCGAAATTA
G
Found at i:2466988 original size:12 final size:12
Alignment explanation
Indices: 2466971--2466995 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2466961 TCTTCGGGGA
2466971 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2466983 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2466995 C
1 C
2466996 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2467204 original size:24 final size:24
Alignment explanation
Indices: 2467170--2467223 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2467160 CTGAAACATC
*
2467170 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
2467194 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
2467218 ATCAAA
1 ATCAAA
2467224 TTTTGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:2467993 original size:20 final size:20
Alignment explanation
Indices: 2467968--2468018 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
2467958 TGTATTATCT
2467968 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
2467988 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
2468008 CGTTGCGAAAG
1 CGTTGCGAAAG
2468019 GCAATCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:2468341 original size:19 final size:19
Alignment explanation
Indices: 2468319--2468364 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
2468309 GATTTTCTCG
2468319 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2468338 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
2468357 TTGCGATT
1 TTGCGATT
2468365 CTCTCGTTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:2468348 original size:14 final size:14
Alignment explanation
Indices: 2468291--2468329 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
2468281 GAAAATCGCA
2468291 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
2468305 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
2468319 TTGCGATTTTC
1 TTGCGATTTTC
2468330 ATTTCGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.08, C:0.21, G:0.21, T:0.51
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:2468395 original size:20 final size:20
Alignment explanation
Indices: 2468370--2468408 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2468360 CGATTCTCTC
2468370 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
2468390 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
2468409 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:2468510 original size:14 final size:14
Alignment explanation
Indices: 2468491--2468527 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2468481 CATCAATATA
2468491 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
2468505 ACAAATCATCTTTT
1 ACAAATCAACATTT
2468519 ACAAATCAA
1 ACAAATCAA
2468528 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:2470431 original size:19 final size:20
Alignment explanation
Indices: 2470388--2470443 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
2470378 TGCAACACGA
2470388 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
2470408 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
2470427 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
2470444 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:2470451 original size:14 final size:14
Alignment explanation
Indices: 2470432--2470489 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
2470422 ATGCGAAATG
2470432 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
2470446 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
2470462 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
2470478 AAAATCGCAACG
1 AAAATCGCAACG
2470490 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:2470474 original size:32 final size:33
Alignment explanation
Indices: 2470416--2470494 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
2470406 GGAAATGGCT
2470416 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
2470449 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
2470481 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
2470495 CACAAATCGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 29 0.64
33 16 0.36
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:2470523 original size:19 final size:19
Alignment explanation
Indices: 2470501--2470564 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
2470491 GAAACACAAA
2470501 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
2470520 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
2470536 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
2470553 TCGCATTGCGAT
1 TCGCATTGCGAT
2470565 AGCCATTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 17 0.46
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:2470583 original size:20 final size:19
Alignment explanation
Indices: 2470549--2470603 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
2470539 TTGCGATTTT
*
2470549 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
2470568 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
2470588 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
2470604 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:2472475 original size:20 final size:20
Alignment explanation
Indices: 2472450--2472491 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
2472440 ATAGTTTCTA
2472450 AAAATGAAAATCGCAACACG
1 AAAATGAAAATCGCAACACG
** *
2472470 AAAATGACTATCGCAACGCG
1 AAAATGAAAATCGCAACACG
2472490 AA
1 AA
2472492 TTTGACTATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.21, G:0.17, T:0.12
Consensus pattern (20 bp):
AAAATGAAAATCGCAACACG
Found at i:2472497 original size:20 final size:20
Alignment explanation
Indices: 2472459--2472527 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
2472449 AAAAATGAAA
* **
2472459 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAATTTGACT
2472479 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
2472499 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAATTTGACT
*
2472519 ATCACAACG
1 ATCGCAACG
2472528 AGAGAATCGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAATTTGACT
Found at i:2472815 original size:22 final size:20
Alignment explanation
Indices: 2472781--2472830 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
2472771 TCTGAGAGAT
2472781 GGAGATAGACGGATTTCGCC
1 GGAGATAGACGGATTTCGCC
* *
2472801 GGAGATGAGGACGGATTTTGTC
1 GGAGAT-A-GACGGATTTCGCC
2472823 GGAGATAG
1 GGAGATAG
2472831 GTGAGAGAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 7 0.27
21 2 0.08
22 17 0.65
ACGTcount: A:0.26, C:0.12, G:0.40, T:0.22
Consensus pattern (20 bp):
GGAGATAGACGGATTTCGCC
Found at i:2473029 original size:21 final size:21
Alignment explanation
Indices: 2472999--2473073 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
2472989 CGCTTTGAAA
2472999 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGATTATGTATT
* * *
2473020 ATCGCGTTGCGA--AAGTCAGT
1 ATCGCATTGCGATTATGT-ATT
* * *
2473040 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGATTATGTATT
2473061 ATCGCATTGCGAT
1 ATCGCATTGCGAT
2473074 AGTAAGTTTG
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 3 0.07
20 13 0.31
21 24 0.57
22 2 0.05
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (21 bp):
ATCGCATTGCGATTATGTATT
Found at i:2478789 original size:20 final size:20
Alignment explanation
Indices: 2478746--2478797 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
2478736 AAGTTACCCC
*
2478746 AGTATCGATACCTCCCTGAG
1 AGTATCGATACCTACCTGAG
*
2478766 AGTATCGATACCTTACCT-AT
1 AGTATCGATACC-TACCTGAG
*
2478786 AGTATCAATACC
1 AGTATCGATACC
2478798 CATTGTTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 24 0.86
21 4 0.14
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (20 bp):
AGTATCGATACCTACCTGAG
Found at i:2481631 original size:16 final size:16
Alignment explanation
Indices: 2481610--2481642 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2481600 TAATAAATAA
2481610 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2481626 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
2481642 A
1 A
2481643 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:2481729 original size:16 final size:16
Alignment explanation
Indices: 2481708--2481766 Score: 118
Period size: 16 Copynumber: 3.7 Consensus size: 16
2481698 CATTTAATAA
2481708 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
2481724 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
2481740 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
2481756 ATAAACGAACA
1 ATAAACGAACA
2481767 TAAACGTTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.07
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:2481733 original size:10 final size:10
Alignment explanation
Indices: 2481718--2481772 Score: 54
Period size: 10 Copynumber: 6.3 Consensus size: 10
2481708 ATAAACGAAC
2481718 ACGAACATAA
1 ACGAACATAA
2481728 ACGAAC----
1 ACGAACATAA
2481734 ACGAACATAA
1 ACGAACATAA
2481744 ACGAAC----
1 ACGAACATAA
2481750 ACGAACATAA
1 ACGAACATAA
2481760 ACGAACATAA
1 ACGAACATAA
2481770 ACG
1 ACG
2481773 TTGGAGACCC
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
6 12 0.32
10 25 0.68
ACGTcount: A:0.56, C:0.24, G:0.13, T:0.07
Consensus pattern (10 bp):
ACGAACATAA
Found at i:2482531 original size:24 final size:24
Alignment explanation
Indices: 2482496--2482570 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
2482486 GATTGTGTTA
*
2482496 AACATAAATGAATGAACATAAACG
1 AACATAAATGAACGAACATAAACG
*
2482520 AACATAATTGAACGAACATAAACG
1 AACATAAATGAACGAACATAAACG
*** *
2482544 AACATAACCAAACGAACATAACCG
1 AACATAAATGAACGAACATAAACG
2482568 AAC
1 AAC
2482571 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAAATGAACGAACATAAACG
Found at i:2482556 original size:14 final size:14
Alignment explanation
Indices: 2482539--2482571 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
2482529 GAACGAACAT
2482539 AAACGAACATAACC
1 AAACGAACATAACC
2482553 AAACGAACATAACC
1 AAACGAACATAACC
*
2482567 GAACG
1 AAACG
2482572 TTCACGAACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.55, C:0.27, G:0.12, T:0.06
Consensus pattern (14 bp):
AAACGAACATAACC
Found at i:2486626 original size:3 final size:3
Alignment explanation
Indices: 2486611--2486690 Score: 124
Period size: 3 Copynumber: 26.7 Consensus size: 3
2486601 TAAACACACT
* *
2486611 TAA TAA TAC TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
**
2486659 TAA TAA TAA TAA TAA TAA TAA TTT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
2486691 TTTTTTAACT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2486857 original size:27 final size:27
Alignment explanation
Indices: 2486819--2486912 Score: 170
Period size: 27 Copynumber: 3.5 Consensus size: 27
2486809 CAAAACAGTG
*
2486819 CTGAATGATTCAGCACAGAAGTACATT
1 CTGAATGATTCAACACAGAAGTACATT
2486846 CTGAATGATTCAACACAGAAGTACATT
1 CTGAATGATTCAACACAGAAGTACATT
*
2486873 CTGAATGATTTAACACAGAAGTACATT
1 CTGAATGATTCAACACAGAAGTACATT
2486900 CTGAATGATTCAA
1 CTGAATGATTCAA
2486913 AACCATTATC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (27 bp):
CTGAATGATTCAACACAGAAGTACATT
Found at i:2486860 original size:50 final size:51
Alignment explanation
Indices: 2486796--2486912 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 51
2486786 TGATTCAGTG
* *
2486796 CTGACTGATTCAACA-AA-ACAGTGCTGAATGATTCAGCACAGAAGTACATT
1 CTGAATGATTCAACAGAAGACA-TGCTGAATGATTCAACACAGAAGTACATT
* *
2486846 CTGAATGATTCAACACAGAAGTACATTCTGAATGATTTAACACAGAAGTACATT
1 CTGAATGATTC-A-ACAGAAG-ACATGCTGAATGATTCAACACAGAAGTACATT
2486900 CTGAATGATTCAA
1 CTGAATGATTCAA
2486913 AACCATTATC
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
50 10 0.17
51 1 0.02
52 4 0.07
53 3 0.05
54 37 0.64
55 3 0.05
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (51 bp):
CTGAATGATTCAACAGAAGACATGCTGAATGATTCAACACAGAAGTACATT
Found at i:2492535 original size:223 final size:224
Alignment explanation
Indices: 2491567--2493126 Score: 1923
Period size: 224 Copynumber: 7.0 Consensus size: 224
2491557 GATGGCAATG
* * * * *
2491567 CTGCTGGCGATAAAATGAAGGATTTAGAAGGTA-A-A---TTTCTTCCTTCTGATAATATGAAGG
1 CTGCTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTGAAGG
* * * ** * * * * * *
2491627 ATTTAAAAGGGAAATATACTCTTCCTTTCTTTCTTTAAGGTGCAGGTGACAAAATCAAGAATTTG
66 ATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCTCTAAAGTACAGGTGACAAATTCAAGGATTTG
* * * *
2491692 GAAGAAAAATATGCTATTCTTTTCTCTAAAAGTA-CA-A-ATGACCAAATGAAGGATTTGGAAA-
131 GAAGAAAAATATGTTATTCTTTTCTCCAAAAGAAGCACAGGTGACCAAATGAAGGATTT-GAAAG
* * * *
2491753 ACGAATATATTTGGTTGTACTTCTACAAAA
195 ACAAATATATTTGGTCGAATTTCTACAAAA
* * * * *
2491783 CTGCTAGAGACGAAATGGATGATTTAGAAGGTACATAT-CTTCTGTTCTTTGTGATAATTTGAAG
1 CTGCTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTT-TGTTCCTTGTGATAATTTGAAG
* * *
2491847 GATTTAGAAGGTAAATATGTTCTTCCTTCCTTT-TACTAAAGTGCAGGTGACAAAATCAAGGATT
65 GATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCT-CTAAAGTACAGGTGACAAATTCAAGGATT
* * * * * *
2491911 TGGAAGAAAAATATGTTCTTCTTTTTTCTAAAAGAAGCGCAAGTGACCAGATGAAGGATTTGAAA
129 TGGAAGAAAAATATGTTATTCTTTTCTCCAAAAGAAGCACAGGTGACCAAATGAAGGATTTGAAA
* *
2491976 GACAAATATATTTGGTCAAATTTTTACAAAA
194 GACAAATATATTTGGTCGAATTTCTACAAAA
* * *
2492007 CTACTAGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTAAAGG
1 CTGCTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTGAAGG
* * * *
2492072 ATTTAGAAGGTAAACATGTTCTTCTTTTCTTTATCTAAAGTACAGATGACAAATTCAAGGATTTG
66 ATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCTCTAAAGTACAGGTGACAAATTCAAGGATTTG
* * ** * * * *
2492137 GAAGAAAAATATGCTCTTCTTTTCTCCAAAAGAAGCGTAGGCGGCCAGATGAAGGATTTAAAAGA
131 GAAGAAAAATATGTTATTCTTTTCTCCAAAAGAAGCACAGGTGACCAAATGAAGGATTTGAAAGA
*
2492202 CAAATGTATTTGGTCGAATTTCTACAAAA
196 CAAATATATTTGGTCGAATTTCTACAAAA
* * * *
2492231 TTGCTGGCGACAAAATGAATTATTTAGAAGGTAAATATCCTTTGTTCTTTGTGATAATTTGAAGG
1 CTGCTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTGAAGG
* * * *
2492296 ATTTAGAAGATAAACATGTTCTTCATTCCTTTCTCTAAAGTACAGGTGACAAATTCAATGATTTA
66 ATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCTCTAAAGTACAGGTGACAAATTCAAGGATTTG
* * *
2492361 GAATAAAAATATGTTATTCTTTTCTCTAAAAGAAGCAC-GGTGACCATATGAAGGATTTGAAAGA
131 GAAGAAAAATATGTTATTCTTTTCTCCAAAAGAAGCACAGGTGACCAAATGAAGGATTTGAAAGA
** *
2492425 CATGTATATTTGGTCGAATTTCTATAAAA
196 CAAATATATTTGGTCGAATTTCTACAAAA
* * * * * * *
2492454 CTACTGGTGACAAAATGAATGATTTATAAGGTACATATCTTTTGTTCTTTGTGCTAATTTAAAGG
1 CTGCTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTGAAGG
**
2492519 ATTTAGAAGGTAAACATGTTCTTTATTCCTTTCTCTAAAGTACAGGTGGA-AAATTCAAGGATTT
66 ATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCTCTAAAGTACAGGT-GACAAATTCAAGGATTT
* * * * *
2492583 GGAAGAAAAATGTGTTCTTCTTTTCTCCAAAAGAAACTCAGGTGACCAAATGAATGATTTGAAAG
130 GGAAGAAAAATATGTTATTCTTTTCTCCAAAAGAAGCACAGGTGACCAAATGAAGGATTTGAAAG
* *
2492648 ACAAATATATTTGGTTGAGCTTT-TACAAAA
195 ACAAATATATTTGGTCGA-ATTTCTACAAAA
* *
2492678 CTGCAGGCGACAAAATGAATGATTTAGAAGGTAAATATCCTTTGTTCCTTGTGATAATTTGAAGG
1 CTGCTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTGAAGG
* * * *
2492743 ATTTAGAAGGTAAACAAGTTCTTCCTTCTTTTCTCTAAAGTATAGGTGACAAATTCAAGGATTTA
66 ATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCTCTAAAGTACAGGTGACAAATTCAAGGATTTG
* * * *
2492808 GAAGAAAAATATGCTATTCTTTTCTCCAAAAGAAGCGCAGGTGA-CAGATGAATGATTTGAAAGA
131 GAAGAAAAATATGTTATTCTTTTCTCCAAAAGAAGCACAGGTGACCAAATGAAGGATTTGAAAGA
* * *
2492872 CAAATATATTTGATTGAACTAT-TACAAAA
196 CAAATATATTTGGTCGAA-TTTCTACAAAA
* * * *
2492901 CTGCAGGCAACGAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTATGATAATTTGAAGG
1 CTGCTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTGAAGG
* *
2492966 ATTTAGAAGGTAAACATGTTCTTCCTTCCTTTTTCTAAAGTACAAGTGACAAATGT-AAGGATTT
66 ATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCTCTAAAGTACAGGTGACAAAT-TCAAGGATTT
* * *
2493030 AGAAGAAAAATATGTTATTCTTTTCTCCAAAAAAAGCGCAGGTGACCAAATGAAGGATTTGAAAG
130 GGAAGAAAAATATGTTATTCTTTTCTCCAAAAGAAGCACAGGTGACCAAATGAAGGATTTGAAAG
* * *
2493095 ACAAATATACTTGGTTGAGCTTT-TACAAAA
195 ACAAATATATTTGGTCGA-ATTTCTACAAAA
2493125 CT
1 CT
2493127 ATGGTCGGTA
Statistics
Matches: 1175, Mismatches: 149, Indels: 32
0.87 0.11 0.02
Matches are distributed among these distances:
216 27 0.02
217 1 0.00
218 1 0.00
220 3 0.00
221 104 0.09
222 1 0.00
223 405 0.34
224 626 0.53
225 7 0.01
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (224 bp):
CTGCTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTGAAGG
ATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCTCTAAAGTACAGGTGACAAATTCAAGGATTTG
GAAGAAAAATATGTTATTCTTTTCTCCAAAAGAAGCACAGGTGACCAAATGAAGGATTTGAAAGA
CAAATATATTTGGTCGAATTTCTACAAAA
Found at i:2492576 original size:447 final size:445
Alignment explanation
Indices: 2491570--2493126 Score: 1969
Period size: 447 Copynumber: 3.5 Consensus size: 445
2491560 GGCAATGCTG
* * * * * *
2491570 CTGGCGATAAAATGAAGGATTTAGAAGGTA-A-A---TTTCTTCCTTCTGATAATATGAAGGATT
1 CTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTAAAGGATT
* * * ** * * * * * *
2491630 TAAAAGGGAAATATACTCTTCCTTT-CTTTCTTTAAGGTGCAGGTGACAAAATCAAGAATTTGGA
66 TAGAAGGTAAACATGTTCTT--TTTCCTTTATCTAAAGTACAGGTGACAAATTCAAGGATTTGGA
* * ** *
2491694 AGAAAAATATGCTATTCTTTTCTCTAAAAGTA-C-AAATGACCAAATGAAGGATTTGGAAA-ACG
129 AGAAAAATATGCTATTCTTTTCTCCAAAAGAAGCTAGGTGACCAAATGAAGGATTT-GAAAGACA
* * * * * * *
2491756 AATATATTTGGTTGTACTTCTACAAAACTGCTAGAGACGAAATGGATGATTTAGAAGGTACATAT
193 AATATATTTGGTTGAATTTCTACAAAACTGCTGGCGACAAAATGAATGATTTAGAAGGTAAATAT
*
2491821 -CTTCTGTTCTTTGTGATAATTTGAAGGATTTAGAAGGTAAATATGTTCTTCCTTCCTTT-TACT
258 CCTT-TGTTCTTTGTGATAATTTGAAGGATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCT-CT
* * * * *
2491884 AAAGTGCAGGTGACAAAATCAAGGATTTGGAAGAAAAATATGTTCTTCTTTTTTCTAAAAGAAGC
321 AAAGTACAGGTGACAAATTCAAGGATTTAGAAGAAAAATATGTTATTCTTTTCTCTAAAAGAAGC
* *
2491949 GCAAGTGACCAGATGAAGGATTTGAAAGACAAATATATTTGGTCAAATTTTTACAAAACTA
386 GCAGGTGACCAGATGAAGGATTTGAAAGACAAATATATTTGGTCGAA-TTTTACAAAACTA
*
2492010 CTAGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTAAAGGATT
1 CTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTAAAGGATT
* *
2492075 TAGAAGGTAAACATGTTCTTCTTTTCTTTATCTAAAGTACAGATGACAAATTCAAGGATTTGGAA
66 TAGAAGGTAAACATGTTCTT-TTTCCTTTATCTAAAGTACAGGTGACAAATTCAAGGATTTGGAA
* * * * *
2492140 GAAAAATATGCTCTTCTTTTCTCCAAAAGAAGCGTAGGCGGCCAGATGAAGGATTTAAAAGACAA
130 GAAAAATATGCTATTCTTTTCTCCAAAAGAAGC-TAGGTGACCAAATGAAGGATTTGAAAGACAA
* * * *
2492205 ATGTATTTGGTCGAATTTCTACAAAATTGCTGGCGACAAAATGAATTATTTAGAAGGTAAATATC
194 ATATATTTGGTTGAATTTCTACAAAACTGCTGGCGACAAAATGAATGATTTAGAAGGTAAATATC
* *
2492270 CTTTGTTCTTTGTGATAATTTGAAGGATTTAGAAGATAAACATGTTCTTCATTCCTTTCTCTAAA
259 CTTTGTTCTTTGTGATAATTTGAAGGATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCTCTAAA
* * *
2492335 GTACAGGTGACAAATTCAATGATTTAGAATAAAAATATGTTATTCTTTTCTCTAAAAGAAGCAC-
324 GTACAGGTGACAAATTCAAGGATTTAGAAGAAAAATATGTTATTCTTTTCTCTAAAAGAAGCGCA
* ** *
2492399 GGTGACCATATGAAGGATTTGAAAGACATGTATATTTGGTCGAATTTCTATAAAACTA
389 GGTGACCAGATGAAGGATTTGAAAGACAAATATATTTGGTCGAATTT-TACAAAACTA
* * * * *
2492457 CTGGTGACAAAATGAATGATTTATAAGGTACATATCTTTTGTTCTTTGTGCTAATTTAAAGGATT
1 CTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTAAAGGATT
*
2492522 TAGAAGGTAAACATGTTCTTTATTCCTTTCTCTAAAGTACAGGTGGA-AAATTCAAGGATTTGGA
66 TAGAAGGTAAACATGTTCTTT-TTCCTTTATCTAAAGTACAGGT-GACAAATTCAAGGATTTGGA
* * * * *
2492586 AGAAAAATGTGTTCTTCTTTTCTCCAAAAGAAACTCAGGTGACCAAATGAATGATTTGAAAGACA
129 AGAAAAATATGCTATTCTTTTCTCCAAAAGAAGCT-AGGTGACCAAATGAAGGATTTGAAAGACA
* *
2492651 AATATATTTGGTTGAGCTTT-TACAAAACTGCAGGCGACAAAATGAATGATTTAGAAGGTAAATA
193 AATATATTTGGTTGA-ATTTCTACAAAACTGCTGGCGACAAAATGAATGATTTAGAAGGTAAATA
* * *
2492715 TCCTTTGTTCCTTGTGATAATTTGAAGGATTTAGAAGGTAAACAAGTTCTTCCTTCTTTTCTCTA
257 TCCTTTGTTCTTTGTGATAATTTGAAGGATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCTCTA
* * *
2492780 AAGTATAGGTGACAAATTCAAGGATTTAGAAGAAAAATATGCTATTCTTTTCTCCAAAAGAAGCG
322 AAGTACAGGTGACAAATTCAAGGATTTAGAAGAAAAATATGTTATTCTTTTCTCTAAAAGAAGCG
* * * * *
2492845 CAGGTGA-CAGATGAATGATTTGAAAGACAAATATATTTGATTGAACTATTACAAAACTG
387 CAGGTGACCAGATGAAGGATTTGAAAGACAAATATATTTGGTCGAA-TTTTACAAAACTA
* * * * *
2492904 CAGGCAACGAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTATGATAATTTGAAGGATT
1 CTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTAAAGGATT
* * * *
2492969 TAGAAGGTAAACATGTTCTTCCTTCCTTTTTCTAAAGTACAAGTGACAAATGT-AAGGATTTAGA
66 TAGAAGGTAAACATGTTCTT-TTTCCTTTATCTAAAGTACAGGTGACAAAT-TCAAGGATTTGGA
* * *
2493033 AGAAAAATATGTTATTCTTTTCTCCAAAAAAAGCGCAGGTGACCAAATGAAGGATTTGAAAGACA
129 AGAAAAATATGCTATTCTTTTCTCCAAAAGAAGC-TAGGTGACCAAATGAAGGATTTGAAAGACA
* *
2493098 AATATACTTGGTTGAGCTTT-TACAAAACT
193 AATATATTTGGTTGA-ATTTCTACAAAACT
2493127 ATGGTCGGTA
Statistics
Matches: 973, Mismatches: 121, Indels: 39
0.86 0.11 0.03
Matches are distributed among these distances:
440 27 0.03
441 1 0.00
442 1 0.00
444 4 0.00
445 100 0.10
446 8 0.01
447 630 0.65
448 198 0.20
449 4 0.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (445 bp):
CTGGCGACAAAATGAATGATTTAGAAGGTACATATCCTTTGTTCCTTGTGATAATTTAAAGGATT
TAGAAGGTAAACATGTTCTTTTTCCTTTATCTAAAGTACAGGTGACAAATTCAAGGATTTGGAAG
AAAAATATGCTATTCTTTTCTCCAAAAGAAGCTAGGTGACCAAATGAAGGATTTGAAAGACAAAT
ATATTTGGTTGAATTTCTACAAAACTGCTGGCGACAAAATGAATGATTTAGAAGGTAAATATCCT
TTGTTCTTTGTGATAATTTGAAGGATTTAGAAGGTAAACATGTTCTTCCTTCCTTTCTCTAAAGT
ACAGGTGACAAATTCAAGGATTTAGAAGAAAAATATGTTATTCTTTTCTCTAAAAGAAGCGCAGG
TGACCAGATGAAGGATTTGAAAGACAAATATATTTGGTCGAATTTTACAAAACTA
Found at i:2501162 original size:22 final size:22
Alignment explanation
Indices: 2501133--2501188 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
2501123 TGGTAAAGAT
2501133 TTAT-GAAGCTATAGGAAAATG
1 TTATAGAAGCTATAGGAAAATG
2501154 TTATAGAAGCTATAGGAAAATG
1 TTATAGAAGCTATAGGAAAATG
2501176 TTATAGAAGCTAT
1 TTATAGAAGCTAT
2501189 GTGATGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 4 0.12
22 30 0.88
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.30
Consensus pattern (22 bp):
TTATAGAAGCTATAGGAAAATG
Found at i:2501802 original size:21 final size:21
Alignment explanation
Indices: 2501776--2501853 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 21
2501766 TACGGGACGT
2501776 AGTGGTCATTCGGGACAATAC
1 AGTGGTCATTCGGGACAATAC
*
2501797 AGTGGTCATTTGGGACAATAC
1 AGTGGTCATTCGGGACAATAC
* * *
2501818 AGTGGTCCTACGAGAC-AT--
1 AGTGGTCATTCGGGACAATAC
*
2501836 AGTGGTCCTTCGGGACAA
1 AGTGGTCATTCGGGACAA
2501854 ATTTCAATGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
18 14 0.29
19 1 0.02
20 2 0.04
21 32 0.65
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (21 bp):
AGTGGTCATTCGGGACAATAC
Found at i:2501852 original size:18 final size:19
Alignment explanation
Indices: 2501758--2501852 Score: 77
Period size: 21 Copynumber: 4.9 Consensus size: 19
2501748 CGAGGGTTAC
* *
2501758 AGTGGTCCTACGGGACGT-
1 AGTGGTCCTTCGGGACATA
*
2501776 AGTGGTCATTCGGGACAATA
1 AGTGGTCCTTCGGGAC-ATA
* *
2501796 CAGTGGTCATTTGGGACAATA
1 -AGTGGTCCTTCGGGAC-ATA
* *
2501817 CAGTGGTCCTACGAGACAT-
1 -AGTGGTCCTTCGGGACATA
2501836 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
2501853 AATTTCAATG
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
18 29 0.45
19 1 0.02
20 2 0.03
21 32 0.50
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (19 bp):
AGTGGTCCTTCGGGACATA
Found at i:2502120 original size:18 final size:18
Alignment explanation
Indices: 2502097--2502158 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
2502087 AATGTTAATA
2502097 CATGATAATGATAGAGAT
1 CATGATAATGATAGAGAT
**
2502115 CATGATAATGATATTGAT
1 CATGATAATGATAGAGAT
** * *
2502133 GTTGAGAATGACAGAGAT
1 CATGATAATGATAGAGAT
2502151 CATGATAA
1 CATGATAA
2502159 AGATGTTTGT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (18 bp):
CATGATAATGATAGAGAT
Found at i:2502172 original size:36 final size:36
Alignment explanation
Indices: 2502103--2502179 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
2502093 AATACATGAT
* *
2502103 AATGATAGAGATCATGATAATGATATTGATGTTGAG
1 AATGACAGAGATCATGATAAAGATATTGATGTTGAG
* *
2502139 AATGACAGAGATCATGATAAAGATGTTTG-TGTTGAT
1 AATGACAGAGATCATGATAAAGAT-ATTGATGTTGAG
2502175 AATGA
1 AATGA
2502180 GGGTATATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
36 33 0.92
37 3 0.08
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (36 bp):
AATGACAGAGATCATGATAAAGATATTGATGTTGAG
Found at i:2507409 original size:18 final size:18
Alignment explanation
Indices: 2507380--2507441 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
2507370 AATGTTAATA
*
2507380 CATGATAGTGATAGAGAT
1 CATGATAATGATAGAGAT
* **
2507398 CACGATAATGATATTGAT
1 CATGATAATGATAGAGAT
**
2507416 GTTGATAATGATAGAGAT
1 CATGATAATGATAGAGAT
2507434 CATGATAA
1 CATGATAA
2507442 AGATGTTTGT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (18 bp):
CATGATAATGATAGAGAT
Found at i:2507429 original size:36 final size:36
Alignment explanation
Indices: 2507382--2507462 Score: 110
Period size: 36 Copynumber: 2.2 Consensus size: 36
2507372 TGTTAATACA
* *
2507382 TGATAGTGATAGAGATCACGATAATGAT-ATTGATGT
1 TGATAATGATAGAGATCACGATAAAGATGATTG-TGT
* *
2507418 TGATAATGATAGAGATCATGATAAAGATGTTTGTGT
1 TGATAATGATAGAGATCACGATAAAGATGATTGTGT
2507454 TGATAATGA
1 TGATAATGA
2507463 GGGTATATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 37 0.93
37 3 0.08
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (36 bp):
TGATAATGATAGAGATCACGATAAAGATGATTGTGT
Found at i:2508232 original size:32 final size:30
Alignment explanation
Indices: 2508163--2508282 Score: 125
Period size: 30 Copynumber: 3.9 Consensus size: 30
2508153 AGGACCACTA
* *
2508163 TCCATATGTTCCGAAGAACATAGGTAACTG
1 TCCATATGTCCCGAAGGACATAGGTAACTG
*
2508193 TCCATATGTCCCTAAGGACATAGGTAATCCTG
1 TCCATATGTCCCGAAGGACATAGGTAA--CTG
* *
2508225 TCTATATGTCCCGAAGGA-ATAGGTAAACTA
1 TCCATATGTCCCGAAGGACATAGGT-AACTG
* * * *
2508255 TCCATATGTCTCAAAAGATATAGGTAAC
1 TCCATATGTCCCGAAGGACATAGGTAAC
2508283 CCTCAACTCT
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
30 43 0.57
31 12 0.16
32 21 0.28
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (30 bp):
TCCATATGTCCCGAAGGACATAGGTAACTG
Found at i:2514167 original size:23 final size:22
Alignment explanation
Indices: 2514131--2514173 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2514121 TTTGTTCCAT
*
2514131 TTTTAAAACATTTCTTTATCAA
1 TTTTAAAACATTTCGTTATCAA
*
2514153 TTTTAAAACTTTTTCGTTATC
1 TTTTAAAAC-ATTTCGTTATC
2514174 TTGTAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.30, C:0.14, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTAAAACATTTCGTTATCAA
Found at i:2516756 original size:42 final size:41
Alignment explanation
Indices: 2516710--2516846 Score: 150
Period size: 42 Copynumber: 3.3 Consensus size: 41
2516700 TATAATGAAC
*
2516710 ACGCCGCAATAGAGTATACATTTAGCGGCGTTTATACCACAA
1 ACGCCGCAATAGAGTATA-AATTAGCGGCGTTTATACCACAA
* * *
2516752 ACGCCGCAATAGATTTGTAAATTAGTGGCGTTTATACCACAA
1 ACGCCGCAATAGA-GTATAAATTAGCGGCGTTTATACCACAA
* * * *
2516794 ACGCCGTAATAGAGTGATAAATTAGAGGTGTTTATATCTA-AA
1 ACGCCGCAATAGAGT-ATAAATTAGCGGCGTTTATA-CCACAA
*
2516836 ACGCCACAATA
1 ACGCCGCAATA
2516847 AATAATACTT
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.01
42 74 0.93
43 5 0.06
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (41 bp):
ACGCCGCAATAGAGTATAAATTAGCGGCGTTTATACCACAA
Found at i:2518678 original size:95 final size:94
Alignment explanation
Indices: 2518544--2518739 Score: 277
Period size: 95 Copynumber: 2.1 Consensus size: 94
2518534 TATAATATTA
* *
2518544 TATATATACAATAAAGCCTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCTCAGCTTTATGGA
1 TATATATACAATAAAGCCTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATGGA
* * * *
2518609 TAATATTCAGCTAGCCTGATAAAGGTAAT
66 TAAGATTCAACTAACCTAATAAAGGTAAT
* *
2518638 TATACTATACAATAAAGCTTGAGCTGTCCCTCTA-AGGCAATTGGTTAAACGCCCCGGCTTTATG
1 TATA-TATACAATAAAGCCTGAGCTGTCCCTCTAGA-GCAATTGGTTAAACGCCCCAGCTTTATG
**
2518702 GATAAGATTCAACTAACCTAATAAAGGTGTT
64 GATAAGATTCAACTAACCTAATAAAGGTAAT
2518733 TATATAT
1 TATATAT
2518740 TAAGTTGTCC
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
94 8 0.09
95 82 0.91
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (94 bp):
TATATATACAATAAAGCCTGAGCTGTCCCTCTAGAGCAATTGGTTAAACGCCCCAGCTTTATGGA
TAAGATTCAACTAACCTAATAAAGGTAAT
Found at i:2520060 original size:84 final size:84
Alignment explanation
Indices: 2519906--2520523 Score: 633
Period size: 84 Copynumber: 7.4 Consensus size: 84
2519896 CAACATTTGT
* * * * *
2519906 AGCATAACTCAAGGTTAGAAGGGTTATATGTCAA-TAAAGACCTTCGAGTTCGACTACACTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTTTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
* * *
2519970 TTCAAGGCACATCATCTGC
66 TCCAAGGCACATCATTTAC
* * * * * * *
2519989 AACATAGCTCAAGGCAAGAAGGGCTAT-TTTCCAATAAAAGACCTTCGAGTTCGACTACGTTCAA
1 AGCATAACTCAAGGCTAGAAGGGTTATCTTT-CAACAAAAGACCTTCGAGTTCGACTACGCTCAG
*
2520053 CTCCAAGGCATATCATTTAC
65 CTCCAAGGCACATCATTTAC
* * *
2520073 AGCATAACTCAAGGCTAGAAGGGTTATCTGT-AACCAAAAGACCTTC-AGATTCGACAACGTTCA
1 AGCATAACTCAAGGCTAGAAGGGTTATCTTTCAA-CAAAAGACCTTCGAG-TTCGACTACGCTCA
*
2520136 GCTCCAAGGCATATCATTTAC
64 GCTCCAAGGCACATCATTTAC
* * *
2520157 AGCATAACTCAAGGCTAGAAGGGTTATCTAT-AACCAAGAGACCTTCGAGTTCAACTACGCTCAG
1 AGCATAACTCAAGGCTAGAAGGGTTATCTTTCAA-CAAAAGACCTTCGAGTTCGACTACGCTCAG
*
2520221 CTCCAAGGCACCTCATTTAC
65 CTCCAAGGCACATCATTTAC
* * * * * * * * *
2520241 AGCATAGCTTAAGTCGAGAAGGGTTATC-TGC--C-AAAGACCCTCGAGTTTGATTACACTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTTTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
* * *
2520302 TTCGAGGGCACGTCATTTAC
66 -TCCAAGGCACATCATTTAC
* *
2520322 AGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTTTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
2520387 TCCAAGGCATATCATTTGC
66 TCCAAGGCACATCATTTAC
* * * ** ** * *
2520406 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAATTAAAGACCTTCGATTTCGACTACACTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTTTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
* *
2520471 TCCAAGGCACATCATTAAT
66 TCCAAGGCACATCATTTAC
* * * *
2520490 AGCATAACCCAAGGCAAGAAGGGCTATCTGTCAA
1 AGCATAACTCAAGGCTAGAAGGGTTATCTTTCAA
2520524 TACAATTATC
Statistics
Matches: 445, Mismatches: 78, Indels: 23
0.82 0.14 0.04
Matches are distributed among these distances:
80 23 0.05
81 41 0.09
82 3 0.01
83 29 0.07
84 320 0.72
85 29 0.07
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (84 bp):
AGCATAACTCAAGGCTAGAAGGGTTATCTTTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC
TCCAAGGCACATCATTTAC
Found at i:2520360 original size:249 final size:247
Alignment explanation
Indices: 2519906--2520519 Score: 755
Period size: 249 Copynumber: 2.5 Consensus size: 247
2519896 CAACATTTGT
* * *
2519906 AGCATAACTCAAGGTTAGAAGGGTTATATGTCAATAAAGACCTTCGAGTTCGACTACACTCAGCT
1 AGCATAACTCAAGGCTAGAAGGGTTATCTAT-AATAAAGACCTTCGAGTTCGACTACACTCAGCT
* * * * * * *
2519971 TCAAGGCACATCATCTGCAACATAGCTCAAGGCAAGAAGGGCTATTTTCCAATAAAAGACCTTCG
65 CCAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC---AAAAGACCCTCG
** *
2520036 AGTTCGACTACGTTCAACTCCAAGGCATATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATC
127 AGTTCGACTACACTCAACTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATC
*
2520101 TGTAACCAAAAGACCTTC-AGATTCGACAACGTTCAGCTCCAAGGCATATCATTTAC
192 TGTAACCAAAAGACCTTCGAG-TTCGACAACGCTCAGCTCCAAGGCATATCATTTAC
* * *
2520157 AGCATAACTCAAGGCTAGAAGGGTTATCTATAACCAAGAGACCTTCGAGTTCAACTACGCTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCTATAA-TAA-AGACCTTCGAGTTCGACTACACTCAGC
* * * * *
2520222 TCCAAGGCACCTCATTTACAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC-AAAGACCCTCGAG
64 TCCAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAAGACCCTCGAG
* * * * * *
2520286 TTTGATTACACTCAGCTTCGAGGGCACGTCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
129 TTCGACTACACTCAAC-TCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCT
* * *
2520351 GTCACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGC
193 GTAACCAAAAGACCTTCGAGTTCGACAACGCTCAGCTCCAAGGCATATCATTTAC
* * * ** *
2520406 AGCATAACTTAAGTCGAGAAGGGTTATCTGCCAATTAAAGACCTTCGATTTCGACTACACTCAGC
1 AGCATAACTCAAGGCTAGAAGGGTTATCT-ATAA-TAAAGACCTTCGAGTTCGACTACACTCAGC
* * * *
2520471 TCCAAGGCACATCATTAATAGCATAACCCAAGGCAAGAAGGGCTATCTG
64 TCCAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTG
2520520 TCAATACAAT
Statistics
Matches: 308, Mismatches: 50, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
248 23 0.07
249 182 0.59
250 8 0.03
251 30 0.10
252 65 0.21
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (247 bp):
AGCATAACTCAAGGCTAGAAGGGTTATCTATAATAAAGACCTTCGAGTTCGACTACACTCAGCTC
CAAGGCACATCATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAAGACCCTCGAGTT
CGACTACACTCAACTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTA
ACCAAAAGACCTTCGAGTTCGACAACGCTCAGCTCCAAGGCATATCATTTAC
Found at i:2521059 original size:2 final size:2
Alignment explanation
Indices: 2521054--2521096 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
2521044 TATTTTTTAT
2521054 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2521095 TA
1 TA
2521097 GTTTGCAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2521164 original size:37 final size:35
Alignment explanation
Indices: 2521123--2521351 Score: 242
Period size: 36 Copynumber: 6.2 Consensus size: 35
2521113 TGAAGATACA
2521123 TATATAATATATAGTTTCTAAAAACATTTTGAAAAT
1 TATATAATATATAGTTT-TAAAAACATTTTGAAAAT
* * *
2521159 GTATATAATATATAGTTTTTAAAACACCTTTGAAAAC
1 -TATATAATATATAGTTTTAAAAACA-TTTTGAAAAT
*
2521196 TATATAATATATAGTTTTTAAAACATTTTAGAAAAT
1 TATATAATATATAGTTTTAAAAACATTTT-GAAAAT
*
2521232 ATATATAATATATAGGTTTTAAAATCATTTTGAAAAACT
1 -TATATAATATATA-GTTTTAAAAACATTTTG-AAAA-T
** *
2521271 TATATAATATATAGTTTTTGAAAATATTTTTTTAAAACT
1 TATATAATATATAG-TTTT-AAAA-ACATTTTGAAAA-T
* **
2521310 TATATAATATATAATTAAAAAAACATTTTGGAAAAT
1 TATATAATATATAGTTTTAAAAACATTTT-GAAAAT
2521346 TATATA
1 TATATA
2521352 GTTTTCAAAA
Statistics
Matches: 165, Mismatches: 17, Indels: 21
0.81 0.08 0.10
Matches are distributed among these distances:
35 3 0.02
36 49 0.30
37 48 0.29
38 37 0.22
39 24 0.15
40 4 0.02
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (35 bp):
TATATAATATATAGTTTTAAAAACATTTTGAAAAT
Found at i:2521218 original size:73 final size:74
Alignment explanation
Indices: 2521123--2521322 Score: 255
Period size: 73 Copynumber: 2.7 Consensus size: 74
2521113 TGAAGATACA
* *
2521123 TATATAATATATAGTTTCTAAAAACATTTTGAAAATGTATATAATATATAGTTTTTAAAA-CACC
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAAT-TATATAATATATAGGTTTTAAAATCA-C
2521187 TTTG-AAAAC-
64 TTTGAAAAACT
*
2521196 TATATAATATATAGTTTTT-AAAACATTTTAGAAAATATATATAATATATAGGTTTTAAAATCAT
1 TATATAATATATAGTTTTTAAAAACATTTT-GAAAAT-TATATAATATATAGGTTTTAAAATCAC
2521260 TTTGAAAAACT
64 TTTGAAAAACT
** *
2521271 TATATAATATATAGTTTTTGAAAATATTTTTTTAAAACTTATATAATATATA
1 TATATAATATATAGTTTTT-AAAA-ACATTTTGAAAA-TTATATAATATATA
2521323 ATTAAAAAAA
Statistics
Matches: 112, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
72 10 0.09
73 50 0.45
74 7 0.06
75 19 0.17
77 20 0.18
78 6 0.05
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.43
Consensus pattern (74 bp):
TATATAATATATAGTTTTTAAAAACATTTTGAAAATTATATAATATATAGGTTTTAAAATCACTT
TGAAAAACT
Found at i:2521395 original size:32 final size:32
Alignment explanation
Indices: 2521324--2521417 Score: 120
Period size: 32 Copynumber: 2.9 Consensus size: 32
2521314 TAATATATAA
*
2521324 TTAAAAAAAC-ATTTTGGAAAATTATATAGTT
1 TTAAAAAAACAATTTTTGAAAATTATATAGTT
*
2521355 TTCAAAAAACAATTTTTGAAAATTATATAG-T
1 TTAAAAAAACAATTTTTGAAAATTATATAGTT
*
2521386 TTAAGAAAAAAATATTTTTGAAAATTTATATA
1 TTAA-AAAAACA-ATTTTTGAAAA-TTATATA
2521418 TAATAGTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
31 13 0.24
32 24 0.44
33 11 0.20
34 7 0.13
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.39
Consensus pattern (32 bp):
TTAAAAAAACAATTTTTGAAAATTATATAGTT
Found at i:2521488 original size:7 final size:7
Alignment explanation
Indices: 2521476--2521515 Score: 73
Period size: 7 Copynumber: 5.9 Consensus size: 7
2521466 TTTAAAAAAA
2521476 TATTTTT
1 TATTTTT
2521483 TATTTTT
1 TATTTTT
2521490 TATTTTT
1 TATTTTT
2521497 TA-TTTT
1 TATTTTT
2521503 TATTTTT
1 TATTTTT
2521510 TATTTT
1 TATTTT
2521516 ATTTTATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:2521495 original size:13 final size:13
Alignment explanation
Indices: 2521476--2521520 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
2521466 TTTAAAAAAA
2521476 TATTTTTTATTTTT
1 TATTTTTTA-TTTT
2521490 TATTTTTTATTTT
1 TATTTTTTATTTT
2521503 TATTTTTTA-TTT
1 TATTTTTTATTTT
2521515 TATTTT
1 TATTTT
2521521 ATATATATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.29
13 13 0.42
14 9 0.29
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:2521525 original size:2 final size:2
Alignment explanation
Indices: 2521520--2521548 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2521510 TATTTTATTT
2521520 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2521549 TCTTCAGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2522615 original size:18 final size:19
Alignment explanation
Indices: 2522594--2522644 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
2522584 ATTTAATCCC
2522594 TTTTTTTGTTATTTTC-AT
1 TTTTTTTGTTATTTTCTAT
2522612 TTTTTATT-TTA-TTTCTAT
1 TTTTT-TTGTTATTTTCTAT
*
2522630 TTTATTTGTTATTTT
1 TTTTTTTGTTATTTT
2522645 TTATACGGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 6 0.21
18 17 0.61
19 5 0.18
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTTTTGTTATTTTCTAT
Found at i:2522815 original size:19 final size:17
Alignment explanation
Indices: 2522766--2522815 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 17
2522756 TATATATATA
2522766 TATATATTTATTATTAT
1 TATATATTTATTATTAT
2522783 TATTATTATTTATTATTAAT
1 TA-TA-TATTTATTATT-AT
*
2522803 GTATATATATATT
1 -TATATATTTATT
2522816 TTTCTTTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 2 0.07
18 2 0.07
19 18 0.64
20 4 0.14
21 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATATTTATTATTAT
Found at i:2522860 original size:42 final size:45
Alignment explanation
Indices: 2522760--2522865 Score: 116
Period size: 44 Copynumber: 2.4 Consensus size: 45
2522750 TACATATATA
* *
2522760 TATATATATATATTTATTATT--ATTATTATTATTTATTATTAATG
1 TATATATATATTTTTATT-TTCCTTTATTATTATTTATTATTAATG
* *
2522804 TATATATATATTTTTCTTTTCCTTTATTATTA-TTATTA-TCAT-
1 TATATATATATTTTTATTTTCCTTTATTATTATTTATTATTAATG
2522846 TATATATACT-TTTTTATTTT
1 TATATATA-TATTTTTATTTT
2522866 TTTTATCTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
42 17 0.31
43 6 0.11
44 22 0.41
45 9 0.17
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.64
Consensus pattern (45 bp):
TATATATATATTTTTATTTTCCTTTATTATTATTTATTATTAATG
Found at i:2522885 original size:17 final size:16
Alignment explanation
Indices: 2522863--2522900 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
2522853 ACTTTTTTAT
2522863 TTTTTTTATCTTTACT-G
1 TTTTTTT-TCTTT-CTAG
2522880 TTTTTTTTCTTTCTAG
1 TTTTTTTTCTTTCTAG
2522896 TTTTT
1 TTTTT
2522901 ATTTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.10
16 11 0.55
17 7 0.35
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.76
Consensus pattern (16 bp):
TTTTTTTTCTTTCTAG
Found at i:2523049 original size:68 final size:74
Alignment explanation
Indices: 2522917--2523052 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 74
2522907 TTATTGTGTA
*
2522917 TTTTATTTTGTTCCGTTATTTCTTATTTCTTTATATTTTTTTTTATTATTTTTATATTTATCCTA
1 TTTTATTTTGTTCCGTTATTTCTTATTTCTTTATA--TTTTCTTATTA-TTTTATATTTATCCTA
2522982 TTTATCTATATT
63 TTTATCTATATT
* *
2522994 TTTTATTTT-TTCC-TTGTTTCTTTTTTCTTTATA-TTTCTTATTA-TTT-T-TTTATCCTATTT
1 TTTTATTTTGTTCCGTTATTTCTTATTTCTTTATATTTTCTTATTATTTTATATTTATCCTATTT
2523053 GTCATTCATG
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
68 12 0.21
69 1 0.02
70 3 0.05
72 9 0.16
75 18 0.32
76 4 0.07
77 9 0.16
ACGTcount: A:0.15, C:0.10, G:0.02, T:0.72
Consensus pattern (74 bp):
TTTTATTTTGTTCCGTTATTTCTTATTTCTTTATATTTTCTTATTATTTTATATTTATCCTATTT
ATCTATATT
Found at i:2525520 original size:39 final size:39
Alignment explanation
Indices: 2525466--2525641 Score: 246
Period size: 40 Copynumber: 4.5 Consensus size: 39
2525456 CGAATCAAAT
*
2525466 ATATGCACCGTAGTGCTTACACATAAGGTCGTGCCCACC
1 ATATGCACCGAAGTGCTTACACATAAGGTCGTGCCCACC
* * *
2525505 ATATGCACCAAAGTGCTTACACGTAAGGTCGTGTCCACC
1 ATATGCACCGAAGTGCTTACACATAAGGTCGTGCCCACC
* * * *
2525544 ATGTGCACTGAAGTACATTACACATAAGGTCGTGCCCACT
1 ATATGCACCGAAGTGC-TTACACATAAGGTCGTGCCCACC
*
2525584 ATATACACCGAAGTGCATTACACATAAGGTCGTGCCCACC
1 ATATGCACCGAAGTGC-TTACACATAAGGTCGTGCCCACC
2525624 ATATGCA-CGAAGTGCTTA
1 ATATGCACCGAAGTGCTTA
2525642 ATCGATATGC
Statistics
Matches: 119, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 3 0.03
39 55 0.46
40 61 0.51
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (39 bp):
ATATGCACCGAAGTGCTTACACATAAGGTCGTGCCCACC
Found at i:2525577 original size:79 final size:79
Alignment explanation
Indices: 2525482--2525636 Score: 240
Period size: 79 Copynumber: 2.0 Consensus size: 79
2525472 ACCGTAGTGC
* * *
2525482 TTACACATAAGGTCGTGCCCACCATATGCACCAAAGTGC-TTACACGTAAGGTCGTGTCCACCAT
1 TTACACATAAGGTCGTGCCCACCATATACACCAAAGTGCATTACACATAAGGTCGTGCCCACCAT
*
2525546 GTGCACTGAAGTACA
66 ATGCAC-GAAGTACA
* *
2525561 TTACACATAAGGTCGTGCCCACTATATACACCGAAGTGCATTACACATAAGGTCGTGCCCACCAT
1 TTACACATAAGGTCGTGCCCACCATATACACCAAAGTGCATTACACATAAGGTCGTGCCCACCAT
2525626 ATGCACGAAGT
66 ATGCACGAAGT
2525637 GCTTAATCGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
79 41 0.59
80 28 0.41
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (79 bp):
TTACACATAAGGTCGTGCCCACCATATACACCAAAGTGCATTACACATAAGGTCGTGCCCACCAT
ATGCACGAAGTACA
Found at i:2530220 original size:20 final size:20
Alignment explanation
Indices: 2530164--2530230 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
2530154 AAAAAGTCTT
2530164 GAAACTTTCTTGT--AGTTTC
1 GAAACTTTCTT-TAAAGTTTC
* *
2530183 GAAACTATC-TCAAGAGTTTC
1 GAAACTTTCTTTAA-AGTTTC
2530203 GAAACTTTCTTTAAAGTTTC
1 GAAACTTTCTTTAAAGTTTC
*
2530223 GATACTTT
1 GAAACTTT
2530231 GAGTCTAACG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 1 0.03
19 8 0.21
20 27 0.69
21 3 0.08
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.42
Consensus pattern (20 bp):
GAAACTTTCTTTAAAGTTTC
Found at i:2537584 original size:19 final size:20
Alignment explanation
Indices: 2537547--2537584 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
2537537 AAATTTTTTG
**
2537547 AGTTTTTATGCTTTTAATTA
1 AGTTTTTATGCTTAAAATTA
2537567 AGTTTTTA-GCTTAAAATT
1 AGTTTTTATGCTTAAAATT
2537585 GCTTTTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.29, C:0.05, G:0.11, T:0.55
Consensus pattern (20 bp):
AGTTTTTATGCTTAAAATTA
Found at i:2539264 original size:75 final size:75
Alignment explanation
Indices: 2539155--2539327 Score: 213
Period size: 75 Copynumber: 2.3 Consensus size: 75
2539145 TTTATGTTCA
* * * * *
2539155 TCTAGACTTAATATTATGGTTTAAATCTTAAGATTTGACACTTTAATATTATGGTTTGATTATGG
1 TCTAGAATTAATATTGTGGTTTGAATATTAAGATTTGACACTTTAATATTATGATTTGATTATGG
2539220 ATTTTATTAT
66 ATTTTATTAT
* * * * * * *
2539230 TCTAGAGTTAATATTGTAGTTTGAATATTGAGATTTGACATTTTAATATTGTTATTTGTTTATGG
1 TCTAGAATTAATATTGTGGTTTGAATATTAAGATTTGACACTTTAATATTATGATTTGATTATGG
*
2539295 ATTTTATTGT
66 ATTTTATTAT
*
2539305 T-TAAAATTAATATTGTGGTTTGA
1 TCTAGAATTAATATTGTGGTTTGA
2539328 GTCTTGATAC
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
74 19 0.23
75 64 0.77
ACGTcount: A:0.29, C:0.04, G:0.16, T:0.51
Consensus pattern (75 bp):
TCTAGAATTAATATTGTGGTTTGAATATTAAGATTTGACACTTTAATATTATGATTTGATTATGG
ATTTTATTAT
Found at i:2539559 original size:43 final size:43
Alignment explanation
Indices: 2539512--2539659 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
2539502 AATGCCACAA
*
2539512 TAGGTGTTGATGTTTAGCGGCGTTTTTTCTACAAACGTCGCAG
1 TAGGTGTTGATGTTTAGCGGCGTTTTTACTACAAACGTCGCAG
* * *
2539555 TAGGTGTT-AAGATTTAGCGGC-TTTTTACTTACGAACGCCGCAG
1 TAGGTGTTGATG-TTTAGCGGCGTTTTTAC-TACAAACGTCGCAG
* * *** * * *
2539598 TAGGTGTTGATATTTTGCAATGTTTTTCCCACAAACGTCACAG
1 TAGGTGTTGATGTTTAGCGGCGTTTTTACTACAAACGTCGCAG
* *
2539641 TAGGTGATGATTTTTAGCG
1 TAGGTGTTGATGTTTAGCG
2539660 ACCTTTTACC
Statistics
Matches: 82, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
42 8 0.10
43 67 0.82
44 7 0.09
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.36
Consensus pattern (43 bp):
TAGGTGTTGATGTTTAGCGGCGTTTTTACTACAAACGTCGCAG
Found at i:2539921 original size:28 final size:27
Alignment explanation
Indices: 2539869--2539921 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
2539859 AACAAATAAA
* *
2539869 ACAACAATAACATCAAACTCTATATCC
1 ACAACAACAACATCAAACTCAATATCC
2539896 ACAACAAACAACATCAAA-TCCAATAT
1 ACAAC-AACAACATCAAACT-CAATAT
2539922 AATAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (27 bp):
ACAACAACAACATCAAACTCAATATCC
Done.