Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 66 of 91
Found at i:14870415 original size:44 final size:45
Alignment explanation
Indices: 14870254--14870422 Score: 252
Period size: 45 Copynumber: 3.8 Consensus size: 45
14870244 TATAAAATTT
* *
14870254 CTTATCATTTA-TCCTATAAGCTCGTAAGCTTATTCTACCAATATA
1 CTTACCATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
14870299 CTTACCATTTATTGCATAAGCTCGTATGCTTATTTCACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
14870344 CTTATCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
14870389 CTTGCCA-TTATTCCATAAGCTCGTAAGCTTATTT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTT
14870423 GCATGGTTAC
Statistics
Matches: 112, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
44 27 0.24
45 83 0.74
46 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:14870594 original size:40 final size:40
Alignment explanation
Indices: 14870534--14870615 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
14870524 ATCGTAGTGC
* * *
14870534 TACAGATAAGGTCGTTCCCACCATATACACCGAAGTTTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
14870574 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
14870614 TA
1 TA
14870616 TAAACCTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:14871520 original size:30 final size:30
Alignment explanation
Indices: 14871461--14871530 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
14871451 TACAACCATT
** *
14871461 CCCAACTTTTTCCAAAATTATGAATTGGTC
1 CCCAACTTTTTCCAAAATTAAAAAATGGTC
*
14871491 CCTCAACTTTTT-GAAAATTAAAAAATGGTC
1 CC-CAACTTTTTCCAAAATTAAAAAATGGTC
*
14871521 CCCAAATTTT
1 CCCAACTTTT
14871531 CTATGGTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 18 0.53
31 9 0.26
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (30 bp):
CCCAACTTTTTCCAAAATTAAAAAATGGTC
Found at i:14874379 original size:6 final size:6
Alignment explanation
Indices: 14874363--14874428 Score: 64
Period size: 6 Copynumber: 11.0 Consensus size: 6
14874353 TCTCTCATTT
* * * *
14874363 TTTTCTC TTTTTC -TTTTC TTTTTC TATTTG TTTTT- TTCTTC GTTTTC
1 TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
14874410 TTTTTC TTCTTTC TTTTTC
1 TTTTTC TT-TTTC TTTTTC
14874429 AGTTTTTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
5 9 0.18
6 30 0.61
7 10 0.20
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:14874396 original size:12 final size:11
Alignment explanation
Indices: 14874368--14874426 Score: 57
Period size: 11 Copynumber: 5.1 Consensus size: 11
14874358 CATTTTTTTC
14874368 TCTTTTTCTTT
1 TCTTTTTCTTT
14874379 TCTTTTTCTATT
1 TCTTTTTCT-TT
*
14874391 TGTTTTT-TTCT
1 TCTTTTTCTT-T
*
14874402 TCGTTTTCTTTT
1 TCTTTTTC-TTT
14874414 TCTTCTTTCTTT
1 TCTT-TTTCTTT
14874426 T
1 T
14874427 TCAGTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
10 1 0.03
11 16 0.41
12 16 0.41
13 6 0.15
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (11 bp):
TCTTTTTCTTT
Found at i:14877149 original size:44 final size:45
Alignment explanation
Indices: 14877034--14877152 Score: 186
Period size: 45 Copynumber: 2.7 Consensus size: 45
14877024 AATTTCTTAT
* * *
14877034 CATTTATCCCATAAGCTCGTAAGCTTATTCTACCAATATACTTTC
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGC
* *
14877079 CATTTATTCCATAAGCTCGTATGCTTATTTTACCAATATGCTTGC
1 CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGC
14877124 CA-TTATTCCATAAGCTCGTAAGCTTATTT
1 CATTTATTCCATAAGCTCGTAAGCTTATTT
14877153 GCATGGTTAT
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
44 26 0.38
45 42 0.62
ACGTcount: A:0.27, C:0.24, G:0.09, T:0.40
Consensus pattern (45 bp):
CATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATACTTGC
Found at i:14877326 original size:40 final size:40
Alignment explanation
Indices: 14877271--14877432 Score: 279
Period size: 40 Copynumber: 4.0 Consensus size: 40
14877261 ACTGTAGTGC
14877271 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
14877311 TACACATAAGGTCGTGCCCACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
14877351 TACACATAAGGTCATGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * *
14877391 TACACATAAGGTTGTGCCCACCATATATACAGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
14877431 TA
1 TA
14877433 TAAACCTACA
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 115 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:14878326 original size:30 final size:31
Alignment explanation
Indices: 14878281--14878340 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
14878271 CAACCATTCC
* *
14878281 CAACTTTTTCCAAAATTATAAATTGGTCCCT
1 CAACTTTTTCCAAAATTACAAAATGGTCCCT
*
14878312 CAACTTTTT-GAAAATTACAAAATGGTCCC
1 CAACTTTTTCCAAAATTACAAAATGGTCCC
14878341 GAATTTTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (31 bp):
CAACTTTTTCCAAAATTACAAAATGGTCCCT
Found at i:14879338 original size:30 final size:30
Alignment explanation
Indices: 14879298--14879376 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
14879288 CTTTTTAAAA
* *
14879298 TTATATTTTGGTCCCTAAACTTT-TCAAAGT
1 TTATAATTTGGTCCCTAAACTTTAACAAA-T
*
14879328 TTATACTTTGGTCACC-AAACTTTAACAAAT
1 TTATAATTTGGTC-CCTAAACTTTAACAAAT
*
14879358 TTATAATTTGGTCACTAAA
1 TTATAATTTGGTCCCTAAA
14879377 TAAATCCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 35 0.83
31 6 0.14
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (30 bp):
TTATAATTTGGTCCCTAAACTTTAACAAAT
Found at i:14879623 original size:18 final size:18
Alignment explanation
Indices: 14879602--14879696 Score: 83
Period size: 18 Copynumber: 5.5 Consensus size: 18
14879592 TAAATATTTA
*
14879602 TTTATTTTATCGTTATCT
1 TTTATTTTATCATTATCT
*
14879620 TTTATTTTTATCATTATAT
1 TTTA-TTTTATCATTATCT
*
14879639 TTTA-TTTA--ATT-T-A
1 TTTATTTTATCATTATCT
*
14879652 TTTATTTTATCTTTATCT
1 TTTATTTTATCATTATCT
* * *
14879670 TTTATTTGATTATAATCT
1 TTTATTTTATCATTATCT
14879688 TTTATTTTA
1 TTTATTTTA
14879697 AAAACAATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
13 4 0.07
14 5 0.08
15 3 0.05
16 2 0.03
17 5 0.08
18 26 0.43
19 16 0.26
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (18 bp):
TTTATTTTATCATTATCT
Found at i:14879630 original size:19 final size:19
Alignment explanation
Indices: 14879602--14879645 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
14879592 TAAATATTTA
* *
14879602 TTTA-TTTTATCGTTATCT
1 TTTATTTTTATCATTATAT
14879620 TTTATTTTTATCATTATAT
1 TTTATTTTTATCATTATAT
14879639 TTTATTT
1 TTTATTT
14879646 AATTTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTATTTTTATCATTATAT
Found at i:14879697 original size:50 final size:50
Alignment explanation
Indices: 14879597--14879694 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
14879587 AAATTTAAAT
* *
14879597 ATTTATTTATTTTATCGTTATCTTTTATTTTTATCATTATATTTTATTTA
1 ATTTATTTATTTTATCGTTATCTTTTATTTTGATCATAATATTTTATTTA
* * *
14879647 ATTTATTTATTTTATCTTTATCTTTTA-TTTGATTATAATCTTTTATTT
1 ATTTATTTATTTTATCGTTATCTTTTATTTTGATCATAATATTTTATTT
14879695 TAAAAACAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 17 0.40
50 26 0.60
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.68
Consensus pattern (50 bp):
ATTTATTTATTTTATCGTTATCTTTTATTTTGATCATAATATTTTATTTA
Found at i:14886126 original size:2 final size:2
Alignment explanation
Indices: 14886119--14886174 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
14886109 GATGAGACTT
14886119 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14886160 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
14886175 TGGTAAAATG
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 52 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14886510 original size:48 final size:48
Alignment explanation
Indices: 14886445--14886541 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
14886435 TTCTTTCATG
14886445 CCACTGTGTGCTTGTACCTCAAATCATTAGTTATGCCATGAATTCTTA
1 CCACTGTGTGCTTGTACCTCAAATCATTAGTTATGCCATGAATTCTTA
14886493 CCACTGTGTGCTTGTACCTCAAATCATTAGTTATGCCATGAATTCTTA
1 CCACTGTGTGCTTGTACCTCAAATCATTAGTTATGCCATGAATTCTTA
14886541 C
1 C
14886542 TTCATTTCCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (48 bp):
CCACTGTGTGCTTGTACCTCAAATCATTAGTTATGCCATGAATTCTTA
Found at i:14899680 original size:44 final size:45
Alignment explanation
Indices: 14899596--14899680 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
14899586 GCTAGATACC
* * *
14899596 ATAAAATTTAAAATATTAAACTCTAATAGTAATTTTTTAAAATAT
1 ATAAAATTTAAAATACTAAACTCTAATACTAATTTATTAAAATAT
*
14899641 ATAAAATTTAAAA-ACTAAACTCTAAATTCTAA-TTATTAAA
1 ATAAAATTTAAAATACTAAACTCT-AATACTAATTTATTAAA
14899681 TTTTAAGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 16 0.46
45 19 0.54
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.39
Consensus pattern (45 bp):
ATAAAATTTAAAATACTAAACTCTAATACTAATTTATTAAAATAT
Found at i:14904897 original size:2 final size:2
Alignment explanation
Indices: 14904890--14904914 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14904880 ATAGGAAACG
14904890 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
14904915 GGACAGAGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:14906342 original size:15 final size:15
Alignment explanation
Indices: 14906319--14906372 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
14906309 AGAAACAAAA
14906319 TATAATAATATATAC
1 TATAATAATATATAC
* *
14906334 TATATTAATCT-TAC
1 TATAATAATATATAC
*
14906348 ATATAATAATATATAA
1 -TATAATAATATATAC
*
14906364 TATATTAAT
1 TATAATAAT
14906373 CTTACTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
14 3 0.10
15 26 0.84
16 2 0.06
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (15 bp):
TATAATAATATATAC
Found at i:14906354 original size:30 final size:30
Alignment explanation
Indices: 14906318--14906377 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
14906308 CAGAAACAAA
*
14906318 ATATAATAATATATACTATATTAATCTTAC
1 ATATAATAATATATAATATATTAATCTTAC
14906348 ATATAATAATATATAATATATTAATCTTAC
1 ATATAATAATATATAATATATTAATCTTAC
14906378 TTTTTCTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.43
Consensus pattern (30 bp):
ATATAATAATATATAATATATTAATCTTAC
Found at i:14906412 original size:3 final size:3
Alignment explanation
Indices: 14906404--14906457 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
14906394 TAAAAATAAT
*
14906404 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14906452 TTA TTA
1 TTA TTA
14906458 GCAGCAACAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:14911040 original size:12 final size:12
Alignment explanation
Indices: 14911023--14911085 Score: 74
Period size: 12 Copynumber: 5.1 Consensus size: 12
14911013 AAAGTAGGAC
14911023 TAAATTAAGAAT
1 TAAATTAAGAAT
14911035 TAAATTAA-AAT
1 TAAATTAAGAAT
* *
14911046 TAAATTTTACAAT
1 TAAA-TTAAGAAT
14911059 CTAAATTAAGAAT
1 -TAAATTAAGAAT
14911072 TAAATTATAGAAT
1 TAAATTA-AGAAT
14911085 T
1 T
14911086 TAAAAAGGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
11 7 0.16
12 18 0.41
13 15 0.34
14 4 0.09
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (12 bp):
TAAATTAAGAAT
Found at i:14911089 original size:26 final size:25
Alignment explanation
Indices: 14911023--14911089 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 25
14911013 AAAGTAGGAC
14911023 TAAATTA-AGAA-TTAAATTAAAAT
1 TAAATTATAGAATTTAAATTAAAAT
* * *
14911046 TAAATTTTACAATCTAAATTAAGAAT
1 TAAATTATAGAATTTAAATTAA-AAT
14911072 TAAATTATAGAATTTAAA
1 TAAATTATAGAATTTAAA
14911090 AAGGTGAGAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
23 6 0.17
24 3 0.09
25 8 0.23
26 18 0.51
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.37
Consensus pattern (25 bp):
TAAATTATAGAATTTAAATTAAAAT
Found at i:14911410 original size:18 final size:18
Alignment explanation
Indices: 14911383--14911426 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
14911373 GTATAACCCC
14911383 TTTT-TTCCTTTTTACTT
1 TTTTCTTCCTTTTTACTT
14911400 TTTTCTTCC-TTTTACTT
1 TTTTCTTCCTTTTTACTT
*
14911417 TCTTCTTCCT
1 TTTTCTTCCT
14911427 CTTTCAACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.05, C:0.25, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTCTTCCTTTTTACTT
Found at i:14917582 original size:46 final size:46
Alignment explanation
Indices: 14917261--14917581 Score: 516
Period size: 46 Copynumber: 7.0 Consensus size: 46
14917251 TGCATTAAGA
*
14917261 CATGAAAGGATGCATTAAGGCATGAAAGGATGCAATAAATGAAATG
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATG
* * *
14917307 TATGAAAGGTTGCATTAAGGCATGAAAGGATGCCATAAATAAAATG
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATG
*
14917353 CATGAAAGAATGCATTAAGGCATGAAAGGATGCCATAAATGAAATG
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATG
* * * *
14917399 CATGAGAGGATGCATTAAGGCATGAAAGGACGTCGTAAATGAAATG
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATG
* * *
14917445 CATGAAAGGATGCATTAAGGCATGAAAGGATTCTATAAATGAAATA
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATG
* *
14917491 CATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATT
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATG
14917537 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAAT
1 CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAAT
14917582 TAACAAATAA
Statistics
Matches: 250, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 250 1.00
ACGTcount: A:0.44, C:0.10, G:0.25, T:0.21
Consensus pattern (46 bp):
CATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAAATGAAATG
Found at i:14923329 original size:3 final size:3
Alignment explanation
Indices: 14923309--14923367 Score: 84
Period size: 3 Copynumber: 19.3 Consensus size: 3
14923299 CCGGGCTTAA
*
14923309 ATT ATT A-T ACTT ATTT ATT ATT ATT AAT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14923355 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
14923368 ATTTTGTATA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
2 2 0.04
3 44 0.86
4 5 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:14927060 original size:32 final size:32
Alignment explanation
Indices: 14927019--14927108 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 32
14927009 GTATTAAATG
*
14927019 ATTTCTTTCCTTTTGTTTGTGTACATTAA-CT
1 ATTTATTTCCTTTTGTTTGTGTACATTAACCT
* *
14927050 AATTTATTTCCTTTTGTTTATGTACACTAACCT
1 -ATTTATTTCCTTTTGTTTGTGTACATTAACCT
* *
14927083 ATTTATTTTCTTTTGATTGTGT-CATT
1 ATTTATTTCCTTTTGTTTGTGTACATT
14927109 TTTCATCATT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
31 3 0.06
32 45 0.90
33 2 0.04
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.58
Consensus pattern (32 bp):
ATTTATTTCCTTTTGTTTGTGTACATTAACCT
Found at i:14929364 original size:27 final size:25
Alignment explanation
Indices: 14929334--14929383 Score: 73
Period size: 27 Copynumber: 1.9 Consensus size: 25
14929324 GGATCAATAT
14929334 TTTTGCATATGCATTTACATATTTTCA
1 TTTTGCATATGCATTT-CAT-TTTTCA
*
14929361 TTTTGCATCTGCATTTCATTTTT
1 TTTTGCATATGCATTTCATTTTT
14929384 AAGCATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 3 0.14
27 15 0.68
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (25 bp):
TTTTGCATATGCATTTCATTTTTCA
Found at i:14934572 original size:19 final size:19
Alignment explanation
Indices: 14934525--14934563 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
14934515 AGTATATTTA
*
14934525 AGCTAACTGGTCTTTACTT
1 AGCTAACAGGTCTTTACTT
14934544 AGCTAACAGGTCTTTACTT
1 AGCTAACAGGTCTTTACTT
14934563 A
1 A
14934564 CTCGACAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (19 bp):
AGCTAACAGGTCTTTACTT
Found at i:14934577 original size:19 final size:19
Alignment explanation
Indices: 14934525--14934577 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
14934515 AGTATATTTA
* *
14934525 AGCTAACTGGTCTTTACTT
1 AGCTAACAGGGCTTTACTT
*
14934544 AGCTAACAGGTCTTTACTT
1 AGCTAACAGGGCTTTACTT
*
14934563 A-CTCGACAGGGCTTT
1 AGCT-AACAGGGCTTT
14934578 CCTAAAGTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
18 2 0.07
19 28 0.93
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.36
Consensus pattern (19 bp):
AGCTAACAGGGCTTTACTT
Found at i:14934982 original size:24 final size:24
Alignment explanation
Indices: 14934938--14934987 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
14934928 ATAAAGAACC
*
14934938 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
14934962 AAAATAAAGTTCAAACA-ACCATTA
1 AAAATAAACTT-AAACATACCATTA
14934986 AA
1 AA
14934988 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.60, C:0.14, G:0.02, T:0.24
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:14946867 original size:20 final size:20
Alignment explanation
Indices: 14946858--14946906 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
14946848 TGTTCTTTTG
14946858 GTATCGATATTATTCATCTC
1 GTATCGATATTATTCATCTC
14946878 GTATCGATATTATTCATCTC
1 GTATCGATATTATTCATCTC
14946898 GTATCGATA
1 GTATCGATA
14946907 CTTGAACCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (20 bp):
GTATCGATATTATTCATCTC
Found at i:14951474 original size:50 final size:50
Alignment explanation
Indices: 14951415--14951609 Score: 354
Period size: 50 Copynumber: 3.9 Consensus size: 50
14951405 CGTTGATCTT
*
14951415 CATTGGATATTTGTATTGCTTCACTTCAATGAGTTGTAAAGAATGACATG
1 CATTGGATATTTTTATTGCTTCACTTCAATGAGTTGTAAAGAATGACATG
14951465 CATTGGATATTTTTATTGCTTCACTTCAATGAGTTGTAAAGAATGACATG
1 CATTGGATATTTTTATTGCTTCACTTCAATGAGTTGTAAAGAATGACATG
*
14951515 CATTGGATATTTTTATTGCTTCACTTCAATGAGTTGTAAAGAACGACATG
1 CATTGGATATTTTTATTGCTTCACTTCAATGAGTTGTAAAGAATGACATG
* *
14951565 CATTGGATATTTTTATTGCTTTACTTCAATGAGTTGTATAGAATG
1 CATTGGATATTTTTATTGCTTCACTTCAATGAGTTGTAAAGAATG
14951610 GTATGCGTTG
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 140 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (50 bp):
CATTGGATATTTTTATTGCTTCACTTCAATGAGTTGTAAAGAATGACATG
Found at i:14957753 original size:97 final size:97
Alignment explanation
Indices: 14957490--14957766 Score: 289
Period size: 97 Copynumber: 2.8 Consensus size: 97
14957480 AGTGTAATAT
*
14957490 TTGTTTTTAATT-TAAAT-TATAATTATTAGACTATTTATTTTGATTTTACAGATTAAGTTGTAT
1 TTGTTTTT-ATTGTAAATATA-AATTATTAGACTATTTATTTTGATTTTACAGATTAA-ATGTAT
** * *
14957553 TTGAGTAAAATTTGGTTAGTGTAGTTTAAATTATTACA
63 TTGAGT--GGTTTGGTAACTGTAGTTTAAA-TATTACA
*
14957591 TTATTTTTTATTG-AGTAATATAAATTATTAGACTATTT-TTTT-ATTTTACAGATTAAATCGTA
1 TT-GTTTTTATTGTA--AATATAAATTATTAGACTATTTATTTTGATTTTACAGATTAAAT-GTA
* *
14957653 TTTGAGTGGTTTGGTAACTTTAGTTTAAA-ATT-TA
62 TTTGAGTGGTTTGGTAACTGTAGTTTAAATATTACA
* * *
14957687 TTGTTTTTATTGTAAATATAAATTAATTATATTATTTATTTTGATTTTACAGATTAAACTATATT
1 TTGTTTTTATTGTAAATATAAATT-ATTAGACTATTTATTTTGATTTTACAGATTAAA-TGTATT
*
14957752 TGAATGGTTTGGTAA
64 TGAGTGGTTTGGTAA
14957767 GTTAAAAAAA
Statistics
Matches: 152, Mismatches: 13, Indels: 26
0.80 0.07 0.14
Matches are distributed among these distances:
94 10 0.07
95 19 0.12
96 8 0.05
97 36 0.24
98 1 0.01
99 17 0.11
100 1 0.01
101 30 0.20
102 9 0.06
103 19 0.12
104 2 0.01
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.52
Consensus pattern (97 bp):
TTGTTTTTATTGTAAATATAAATTATTAGACTATTTATTTTGATTTTACAGATTAAATGTATTTG
AGTGGTTTGGTAACTGTAGTTTAAATATTACA
Found at i:14957948 original size:316 final size:316
Alignment explanation
Indices: 14957375--14958016 Score: 893
Period size: 316 Copynumber: 2.0 Consensus size: 316
14957365 TCATTTTTAA
* * *
14957375 TTTTTATTTGAAATATAAATAAATTAGATTATATATTTTGATTTTAGAAATTAAATTGTATTCGA
1 TTTTTATTTGAAATATAAATAAATTAGATTATATATTTTGATTTTACAAATTAAACTATATTCGA
* * *** *
14957440 GTGGTTTGGTAAGTTTAACTTAAATTTTCGTGTAATTTTTAGTGTAATATTTGTTTTTAATTTAA
66 ATGGTTTGGTAAGTTAAAAAAAAATTTTCGTGTAATTTTTAGTATAATATTTGTTTTTAATTTAA
* *
14957505 ATTATAATTATTAGACTATTTATTTTGATTTTACAGATTAAGTTGTATTTGAGTAAAATTTGGTT
131 ATTATAATTATTACACTATTTATTTTGATTTTACAGATTAAGTTGTATTTGAGT-AAATTTGGTA
14957570 AGTGTAGTTTAAATTATTACATTATTTTTTATTGAGTAATATAAATTATTAGACTA-TTTTTTT-
195 AGTGTAGTTTAAATTATTACATTATTTTTTATTGAGTAATATAAATTATTAGACTATTTTTTTTG
* * **
14957633 ATTTTACAGATTAAATCGTATTTGAGTGGTTTGGTAACTTTAGTTTAAAATTTATTG
260 ATATTACAGATTAAATCATATTTGAGTGGTTTGAAAACTTTAGTTTAAAATTTATTG
* * * * *
14957690 TTTTTA-TTGTAAATATAAATTAATTATATTATTTATTTTGATTTTACAGATTAAACTATATTTG
1 TTTTTATTTG-AAATATAAATAAATTAGATTATATATTTTGATTTTACAAATTAAACTATATTCG
*
14957754 AATGGTTTGGTAAGTTAAAAAAATAATTTTCGTGTAATTTTTAGTATAATTTTTGTTTTTAATTT
65 AATGGTTTGGTAAGTTAAAAAAA-AATTTTCGTGTAATTTTTAGTATAATATTTGTTTTTAATTT
* *
14957819 AAATTATAATTATTACACTATTTATTTTGATTTTACATATTAAGTTGTATTTGAGT-AGTTTGGT
129 AAATTATAATTATTACACTATTTATTTTGATTTTACAGATTAAGTTGTATTTGAGTAAATTTGGT
* * * **
14957883 AAGTTTATTTTAAGTTA-TATTTTTATTTTTTATTGAGTAATATAAATTATT-GAACTATTTTTT
194 AAGTGTAGTTTAAATTATTA-CATTATTTTTTATTGAGTAATATAAATTATTAG-ACTA---TTT
* *
14957946 TTTTTGATATTACAGATTAAATCATATTTGAGTGGTTTGAAAAGTTTAGTTTAAATTTTATTG
254 TTTTTGATATTACAGATTAAATCATATTTGAGTGGTTTGAAAACTTTAGTTTAAAATTTATTG
14958009 -TTTTATTT
1 TTTTTATTT
14958017 TTTGTTTTTA
Statistics
Matches: 287, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
313 3 0.01
314 56 0.20
315 70 0.24
316 93 0.32
318 12 0.04
319 53 0.18
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (316 bp):
TTTTTATTTGAAATATAAATAAATTAGATTATATATTTTGATTTTACAAATTAAACTATATTCGA
ATGGTTTGGTAAGTTAAAAAAAAATTTTCGTGTAATTTTTAGTATAATATTTGTTTTTAATTTAA
ATTATAATTATTACACTATTTATTTTGATTTTACAGATTAAGTTGTATTTGAGTAAATTTGGTAA
GTGTAGTTTAAATTATTACATTATTTTTTATTGAGTAATATAAATTATTAGACTATTTTTTTTGA
TATTACAGATTAAATCATATTTGAGTGGTTTGAAAACTTTAGTTTAAAATTTATTG
Found at i:14959870 original size:27 final size:27
Alignment explanation
Indices: 14959839--14959910 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
14959829 TTAATATCCT
* *
14959839 TCACATTTATTCAAATTTTGATATTAA
1 TCACATTAATTCAAATATTGATATTAA
*
14959866 TCACATTAATTCAACTATTGATATTAA
1 TCACATTAATTCAAATATTGATATTAA
* *
14959893 TCACATTCATTAAAATAT
1 TCACATTAATTCAAATAT
14959911 AGCGTCAACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (27 bp):
TCACATTAATTCAAATATTGATATTAA
Found at i:14963270 original size:103 final size:102
Alignment explanation
Indices: 14963082--14963270 Score: 236
Period size: 103 Copynumber: 1.8 Consensus size: 102
14963072 TTTTAAAATC
* * * *
14963082 ATTATATGACTTGTGGTGACCCGATCAGGGGTATGATCCACATTATTATGGTTCAGACTCTATTA
1 ATTATACGACTTGTGGTAACCCAATCAGGGGTATGATCCACATTATTATGGTCCAGACTCTATTA
** * **
14963147 ACTCCTAATTGTTAGTTTTTATTAATTTGTTTGAATT
66 ACTCCTAACCGCTAACTTTTATTAATTTGTTTGAATT
* * * *
14963184 ATTATACGACCTTGTGGTAACTCAATCCGGGGTATGATCCACATTATTATGGTCCATACTCTGTT
1 ATTATACGA-CTTGTGGTAACCCAATCAGGGGTATGATCCACATTATTATGGTCCAGACTCTATT
14963249 AACAT-CTAACCGCTAACTTTTA
65 AAC-TCCTAACCGCTAACTTTTA
14963271 ATCGCTAGCT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
102 8 0.11
103 63 0.88
104 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (102 bp):
ATTATACGACTTGTGGTAACCCAATCAGGGGTATGATCCACATTATTATGGTCCAGACTCTATTA
ACTCCTAACCGCTAACTTTTATTAATTTGTTTGAATT
Found at i:14963617 original size:14 final size:14
Alignment explanation
Indices: 14963598--14963633 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
14963588 TTTTTACATA
14963598 TTTAATTTCAGTT-C
1 TTTAATTTCA-TTAC
14963612 TTTAATTTCATTAC
1 TTTAATTTCATTAC
14963626 TTTAATTT
1 TTTAATTT
14963634 ACTAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 2 0.10
14 19 0.90
ACGTcount: A:0.25, C:0.11, G:0.03, T:0.61
Consensus pattern (14 bp):
TTTAATTTCATTAC
Found at i:14963654 original size:11 final size:13
Alignment explanation
Indices: 14963636--14963680 Score: 58
Period size: 14 Copynumber: 3.5 Consensus size: 13
14963626 TTTAATTTAC
14963636 TAATTTTTAT-TT
1 TAATTTTTATCTT
14963648 T-ATTTTTATCTT
1 TAATTTTTATCTT
*
14963660 TAATTTTTTTACTT
1 TAATTTTTAT-CTT
14963674 TAATTTT
1 TAATTTT
14963681 AGTTATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 8 0.28
12 4 0.14
13 7 0.24
14 10 0.34
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (13 bp):
TAATTTTTATCTT
Found at i:14963674 original size:14 final size:15
Alignment explanation
Indices: 14963650--14963730 Score: 58
Period size: 15 Copynumber: 5.1 Consensus size: 15
14963640 TTTTATTTTA
14963650 TTTTTATCTTTAATT
1 TTTTTATCTTTAATT
14963665 TTTTTA-CTTTAATT
1 TTTTTATCTTTAATT
*
14963679 TTAGTTAT-TTTATATAT
1 TT-TTTATCTTTA-AT-T
*
14963696 TTTAATTATCTTTAATA
1 TTT--TTATCTTTAATT
*
14963713 TTTGTATCCTTTTAATT
1 TTTTTAT-C-TTTAATT
14963730 T
1 T
14963731 AGTCCTTGAT
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
14 10 0.19
15 16 0.31
16 3 0.06
17 13 0.25
18 6 0.12
19 4 0.08
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTTATCTTTAATT
Found at i:14963699 original size:18 final size:18
Alignment explanation
Indices: 14963653--14963715 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
14963643 TATTTTATTT
14963653 TTATCTTTAAT-TTTT--
1 TTATCTTTAATATTTTAA
*
14963668 TTA-CTTT-A-ATTTTAG
1 TTATCTTTAATATTTTAA
14963683 TTAT-TTTATATATTTTAA
1 TTATCTTTA-ATATTTTAA
14963701 TTATCTTTAATATTT
1 TTATCTTTAATATTT
14963716 GTATCCTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
13 5 0.13
14 4 0.10
15 9 0.23
17 1 0.03
18 16 0.41
19 4 0.10
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATCTTTAATATTTTAA
Found at i:14967108 original size:10 final size:9
Alignment explanation
Indices: 14967087--14967159 Score: 64
Period size: 10 Copynumber: 8.1 Consensus size: 9
14967077 CATAAAAAAG
14967087 AGAAAGAAA
1 AGAAAGAAA
14967096 AGAAAGTAAA
1 AGAAAG-AAA
14967106 AGAAA-AATGA
1 AGAAAGAA--A
*
14967116 AAAAAGAAA
1 AGAAAGAAA
14967125 A-AAAG-AA
1 AGAAAGAAA
14967132 AGAAA-AAA
1 AGAAAGAAA
14967140 AGAAAGAAGA
1 AGAAAGAA-A
*
14967150 AAAAAGAAA
1 AGAAAGAAA
14967159 A
1 A
14967160 CTTATCAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 16
0.75 0.03 0.22
Matches are distributed among these distances:
7 3 0.06
8 16 0.30
9 12 0.22
10 21 0.39
11 2 0.04
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
AGAAAGAAA
Found at i:14967133 original size:26 final size:27
Alignment explanation
Indices: 14967080--14967158 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
14967070 GAAAACACAT
*
14967080 AAAAAAG-AGAAAGAAAAGAAAGTAAA-A
1 AAAAAAGAAAAAAGAAAA-AAAG-AAAGA
*
14967107 GAAAAATGAAAAAAGAAAAAAAGAAAGA
1 -AAAAAAGAAAAAAGAAAAAAAGAAAGA
*
14967135 AAAAAAGAAAGAAG-AAAAAAGAAA
1 AAAAAAGAAAAAAGAAAAAAAGAAA
14967159 ACTTATCAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.22
27 15 0.33
28 11 0.24
29 9 0.20
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.03
Consensus pattern (27 bp):
AAAAAAGAAAAAAGAAAAAAAGAAAGA
Found at i:14967136 original size:41 final size:42
Alignment explanation
Indices: 14967080--14967159 Score: 119
Period size: 41 Copynumber: 1.9 Consensus size: 42
14967070 GAAAACACAT
* *
14967080 AAAAAAGAGAAAGAAAAGAAAGTAA-AAGAAAAATGAAAAAAG
1 AAAAAAGAGAAAGAAAA-AAAGAAAGAAGAAAAAAGAAAAAAG
14967122 AAAAAA-AGAAAGAAAAAAAGAAAGAAGAAAAAAGAAAA
1 AAAAAAGAGAAAGAAAAAAAGAAAGAAGAAAAAAGAAAA
14967160 CTTATCAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
40 6 0.17
41 23 0.66
42 6 0.17
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (42 bp):
AAAAAAGAGAAAGAAAAAAAGAAAGAAGAAAAAAGAAAAAAG
Found at i:14969120 original size:20 final size:20
Alignment explanation
Indices: 14969095--14969166 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
14969085 TAATGTGTTT
*
14969095 TTTTTAGAAACTAAGTCTGA
1 TTTTTAGAAACTAAGTATGA
** **
14969115 TTTTTAGAAGTTTCGTGATGA
1 TTTTTAGAAACTAAGT-ATGA
14969136 TTTTTAATGAAACTAAGTATGA
1 TTTTT-A-GAAACTAAGTATGA
14969158 TTTTTAGAA
1 TTTTTAGAA
14969167 GTTTCTTGGT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
20 15 0.38
21 9 0.22
22 10 0.25
23 6 0.15
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (20 bp):
TTTTTAGAAACTAAGTATGA
Found at i:14969136 original size:21 final size:21
Alignment explanation
Indices: 14969112--14969182 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
14969102 AAACTAAGTC
14969112 TGATTTTTAGAAGTTTCGTGA
1 TGATTTTTAGAAGTTTCGTGA
** **
14969133 TGATTTTTAATGAAACTAAGT-A
1 TGATTTTT-A-GAAGTTTCGTGA
* *
14969155 TGATTTTTAGAAGTTTCTTGG
1 TGATTTTTAGAAGTTTCGTGA
14969176 TGATTTT
1 TGATTTT
14969183 CAAATGATTT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
20 5 0.14
21 16 0.43
22 10 0.27
23 6 0.16
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (21 bp):
TGATTTTTAGAAGTTTCGTGA
Found at i:14969159 original size:43 final size:43
Alignment explanation
Indices: 14969101--14969182 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
14969091 GTTTTTTTTA
*
14969101 GAAACTAAGTCTGATTTTTAGAAGTTTCGTGATGATTTTTAAT
1 GAAACTAAGTATGATTTTTAGAAGTTTCGTGATGATTTTTAAT
* *
14969144 GAAACTAAGTATGATTTTTAGAAGTTTCTTGGTGATTTT
1 GAAACTAAGTATGATTTTTAGAAGTTTCGTGATGATTTT
14969183 CAAATGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (43 bp):
GAAACTAAGTATGATTTTTAGAAGTTTCGTGATGATTTTTAAT
Found at i:14969195 original size:55 final size:55
Alignment explanation
Indices: 14969132--14969957 Score: 937
Period size: 55 Copynumber: 15.0 Consensus size: 55
14969122 AAGTTTCGTG
* * * *
14969132 ATGA-TTTTTAATGAAACTAAGTATGATTTTTAGAAGTTTCTTGGTGATTTTCAA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* * * *
14969186 ATGATTTTTTTTAAAGAAACTAAGTATGATTTCCAAAAGTTTCTTGATGATTTTCAA
1 ATGA--GTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* * *
14969243 ATGAGTTTTTATAGAAACTAAGTCTGATTTTCAAAAGTTTCCTGATGATTTT-AA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* * *
14969297 ATGAGTTTTTAAAGAAAGTAAGTATGATTTTCAGAAGTTTCCTGATGATTTT-AA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* ** * *
14969351 ATGAATTTTTGTAGAAACTAAGTCTGATTTTC-GAAAGTTTCTTGATTATTTTTAA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAG-AAGTTTCTTGATGATTTTCAA
* *
14969406 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGACGATTTTTAA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* ** * * *
14969461 ATTAGTTTTTAAAGAAACTAAGTCCAATTTTCTGAAGTTTCTTGATTATTTTTAA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* * * *
14969516 ATGAGGTTTCAAAGAAACTAAGTCTTATTTTCAGAAGTTTCGTGATGATTTT-AA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* * *
14969570 ATGAGTTTTTAATGAAACTAAGTCTGATTTTCAAAAGTTTCTTGACGATTTTCAA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* ** * ** * *
14969625 GTGAGTTTTTAAAGAAACTAAGTCTGATTTTTGGAATGTTTTTTTTTCAATTTTTAA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAA-GTTTCTTGAT-GATTTTCAA
* * * * * *
14969682 ATGAGCTTTAAAAAAAACTAAGTCTGGTTTTCAAAAGTTTCTTAATGATTTTCAA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* ** **
14969737 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTTATCAGTTTCTTGGCGATTTTCAA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* * * *
14969792 ATGATTTTTTAAAGAAACTAAGTCTGCTTTTCAGTAGTTTCTTGATAATTTTTC-A
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGA-TTTTCAA
* * * * *
14969847 ATGAATTTTTAAAGAAACTAAGTTTGATTTTCATAAGTTTCTTGATTATTTTTAA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
* * * ** *
14969902 ATGGGTTTTTAAAGAAACTAAGCCTGATTTTTAGGGGTTTCTTTAT-ATTTTCAA
1 ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
14969956 AT
1 AT
14969958 ATAGAAGCTA
Statistics
Matches: 655, Mismatches: 106, Indels: 22
0.84 0.14 0.03
Matches are distributed among these distances:
53 1 0.00
54 159 0.24
55 392 0.60
56 19 0.03
57 84 0.13
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.44
Consensus pattern (55 bp):
ATGAGTTTTTAAAGAAACTAAGTCTGATTTTCAGAAGTTTCTTGATGATTTTCAA
Found at i:14970129 original size:139 final size:138
Alignment explanation
Indices: 14969928--14970189 Score: 386
Period size: 139 Copynumber: 1.9 Consensus size: 138
14969918 ACTAAGCCTG
*
14969928 ATTTTTAGGGGTTTCTTTATATTTTCAAATATAGAAGCTAAGCCAATTTATTAAGGGTTTCTTAA
1 ATTTTTAGGGGTTTCTTGATATTTTCAAATATAGAAGCTAAGCCAATTTATTAAGGGTTTCTTAA
* * *
14969993 TGTTTTTAAATGAATTTAAAAGAAGATAAGCGTGATTTTCAGGGGTTTCTTGATTTTTTTATAAA
66 TGTTTTCAAATGAATTTAAAAGAAGATAAGCCTGATTTTCAGGGG-TTCTTGATATTTTTATAAA
14970058 CCAAGTCTA
130 CCAAGTCTA
*
14970067 ATTTTTAGGGGTTTCTTGATGTTTTCAAATGA-AGAAGCTAAGCCTAATTT-TTAGAGGG-TTCT
1 ATTTTTAGGGGTTTCTTGATATTTTCAAAT-ATAGAAGCTAAGCC-AATTTATTA-AGGGTTTCT
* * * *
14970129 TAATGTTTTCAAATGAATTTGAAATAAGTTAAGCCTTATTTTCAGGGGTTCTTGATATTTT
63 TAATGTTTTCAAATGAATTTAAAAGAAGATAAGCCTGATTTTCAGGGGTTCTTGATATTTT
14970190 CAAATGAATT
Statistics
Matches: 111, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
138 12 0.11
139 89 0.80
140 10 0.09
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.44
Consensus pattern (138 bp):
ATTTTTAGGGGTTTCTTGATATTTTCAAATATAGAAGCTAAGCCAATTTATTAAGGGTTTCTTAA
TGTTTTCAAATGAATTTAAAAGAAGATAAGCCTGATTTTCAGGGGTTCTTGATATTTTTATAAAC
CAAGTCTA
Found at i:14970135 original size:46 final size:46
Alignment explanation
Indices: 14970064--14970249 Score: 162
Period size: 52 Copynumber: 3.8 Consensus size: 46
14970054 TAAACCAAGT
*
14970064 CTAATTTTTAGGGGTTTCTTGATGTTTTCAAATGAAGAAGCTAAGC
1 CTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAAGAAGCTAAGC
*
14970110 CTAATTTTTAGAGGG-TTCTTAATGTTTTCAAATGAATTTGAAATAAGTTAAGC
1 CTAATTTTTAG-GGGTTTCTTAATGTTTTCAAATGAA---G----AAGCTAAGC
* * * *
14970163 CTTATTTTCAGGGG-TTCTTGATATTTTCAAATGAATTTTAAAGAAGCTAAGC
1 CTAATTTTTAGGGGTTTCTTAATGTTTTCAAATG-------AAGAAGCTAAGC
14970215 CTAA-TTTTAGGGGTTTCTTAATGTTTTCAAATGAA
1 CTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAA
14970250 TTTTAAAGAA
Statistics
Matches: 113, Mismatches: 11, Indels: 33
0.72 0.07 0.21
Matches are distributed among these distances:
45 2 0.02
46 31 0.27
47 3 0.03
49 1 0.01
51 8 0.07
52 48 0.42
53 17 0.15
56 1 0.01
59 2 0.02
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (46 bp):
CTAATTTTTAGGGGTTTCTTAATGTTTTCAAATGAAGAAGCTAAGC
Found at i:14970190 original size:52 final size:52
Alignment explanation
Indices: 14970098--14970285 Score: 272
Period size: 52 Copynumber: 3.6 Consensus size: 52
14970088 TTTTCAAATG
*
14970098 AAGAAGCTAAGCCTAATTTTTAGAGGG-TTCTTAATGTTTTCAAATGAATTTGA
1 AAGAAGCTAAGCCTAA-TTTTAG-GGGTTTCTTAATGTTTTCAAATGAATTTTA
* * * * *
14970151 AATAAGTTAAGCCTTATTTTCAGGGG-TTCTTGATATTTTCAAATGAATTTTA
1 AAGAAGCTAAGCCTAATTTT-AGGGGTTTCTTAATGTTTTCAAATGAATTTTA
14970203 AAGAAGCTAAGCCTAATTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTTA
1 AAGAAGCTAAGCCTAATTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTTA
*
14970255 AAGAAGCTAAGCCTAAATTTAGGGGTTTCTT
1 AAGAAGCTAAGCCTAATTTTAGGGGTTTCTT
14970286 GATGATAATT
Statistics
Matches: 121, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
51 5 0.04
52 101 0.83
53 15 0.12
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (52 bp):
AAGAAGCTAAGCCTAATTTTAGGGGTTTCTTAATGTTTTCAAATGAATTTTA
Found at i:14970649 original size:3 final size:3
Alignment explanation
Indices: 14970641--14970735 Score: 190
Period size: 3 Copynumber: 31.7 Consensus size: 3
14970631 AAAGAAGTGG
14970641 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14970689 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14970736 ATTACTAGAT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 92 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14971305 original size:14 final size:14
Alignment explanation
Indices: 14971276--14971317 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
14971266 TAATCACCTT
14971276 TTTTATTATT-TT-
1 TTTTATTATTATTA
*
14971288 TTTTATTTTTATTA
1 TTTTATTATTATTA
14971302 TTTTATTATTATTA
1 TTTTATTATTATTA
14971316 TT
1 TT
14971318 AAAAAAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 9 0.35
13 2 0.08
14 15 0.58
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:14971316 original size:9 final size:9
Alignment explanation
Indices: 14971275--14971318 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
14971265 GTAATCACCT
14971275 TTTTTATTA
1 TTTTTATTA
*
14971284 TTTTTTTTA
1 TTTTTATTA
14971293 TTTTTATTA
1 TTTTTATTA
14971302 -TTTTATTA
1 TTTTTATTA
*
14971310 TTATTATTA
1 TTTTTATTA
14971319 AAAAAGATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
8 8 0.26
9 23 0.74
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTATTA
Found at i:14977851 original size:22 final size:21
Alignment explanation
Indices: 14977800--14977851 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 21
14977790 TTTAACAATG
14977800 TTAACAAATTAAACAACAAAAC
1 TTAA-AAATTAAACAACAAAAC
*
14977822 TTATAAAATTAAA-AGACAATAAT
1 TTA-AAAATTAAACA-ACAA-AAC
14977845 TTAAAAA
1 TTAAAAA
14977852 AACAGAACTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.04
22 19 0.73
23 6 0.23
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (21 bp):
TTAAAAATTAAACAACAAAAC
Found at i:14980608 original size:45 final size:45
Alignment explanation
Indices: 14980543--14980633 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
14980533 ACACAAGAGG
*
14980543 ATAGTTCGTAGAGGTTATTTTTGCATTAAAACTTGATATGAGTAA
1 ATAGTTCGTAGAGGTCATTTTTGCATTAAAACTTGATATGAGTAA
14980588 ATAGTTCGTAGAGGTCATTTTTGCATTAAAACTTGATATGAGTAA
1 ATAGTTCGTAGAGGTCATTTTTGCATTAAAACTTGATATGAGTAA
14980633 A
1 A
14980634 GCTTACGACA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.38
Consensus pattern (45 bp):
ATAGTTCGTAGAGGTCATTTTTGCATTAAAACTTGATATGAGTAA
Found at i:14983015 original size:3 final size:3
Alignment explanation
Indices: 14983007--14983118 Score: 224
Period size: 3 Copynumber: 37.3 Consensus size: 3
14982997 CCCCCGCCCC
14983007 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
14983055 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
14983103 CCA CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA C
14983119 ACTCAGTTTA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 109 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:14983347 original size:16 final size:17
Alignment explanation
Indices: 14983318--14983370 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
14983308 TCTATATCTA
14983318 TTTATATATAAATAAAT
1 TTTATATATAAATAAAT
*
14983335 TTTAT-TATTAATAAAT
1 TTTATATATAAATAAAT
**
14983351 ATTTGCATATAAATATAAT
1 -TTTATATATAAATA-AAT
14983370 T
1 T
14983371 AATGTTTCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 10 0.34
17 8 0.28
18 8 0.28
19 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TTTATATATAAATAAAT
Found at i:14983739 original size:31 final size:31
Alignment explanation
Indices: 14983687--14983795 Score: 141
Period size: 31 Copynumber: 3.5 Consensus size: 31
14983677 TAACTTAATA
* *
14983687 AAATAAAAT-TTAATTTTAATCTTAAACTT-T
1 AAATAAAATATTAATTTGAATCTTGAA-TTAT
14983717 AAATAAAATATTAATTTGAATCTTGAATTAT
1 AAATAAAATATTAATTTGAATCTTGAATTAT
* *
14983748 ATATTAAATATTAATTTGAATCTTGAATTAT
1 AAATAAAATATTAATTTGAATCTTGAATTAT
* *
14983779 ATATTAAATATTAATTT
1 AAATAAAATATTAATTT
14983796 AACATATAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
30 11 0.15
31 62 0.85
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (31 bp):
AAATAAAATATTAATTTGAATCTTGAATTAT
Found at i:14989919 original size:3 final size:3
Alignment explanation
Indices: 14989913--14989977 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
14989903 TTTACTTTTT
*
14989913 TTA TTA TT- TAA TTA TTA TTA TTA TTA TTA TT- TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
14989957 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
14989978 ATAAAAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 2 0.04
3 54 0.95
4 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14991828 original size:16 final size:16
Alignment explanation
Indices: 14991791--14991837 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
14991781 CCATTTTCTG
*
14991791 ATATA-TTTAAATAAAT
1 ATATATTTTAAAT-TAT
*
14991807 AAATATTTTAAATTAT
1 ATATATTTTAAATTAT
14991823 ATATATTTT-AATTAT
1 ATATATTTTAAATTAT
14991838 TTTTAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.22
16 14 0.52
17 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTTTAAATTAT
Found at i:14992502 original size:16 final size:15
Alignment explanation
Indices: 14992457--14992516 Score: 58
Period size: 15 Copynumber: 4.2 Consensus size: 15
14992447 AAAATTTTTA
14992457 TATATACTTATTATTT
1 TATATA-TTATTATTT
14992473 T-TATA--A-TA-TT
1 TATATATTATTATTT
14992483 TATATATGTATTATTT
1 TATATAT-TATTATTT
*
14992499 TATATATTTTTATTT
1 TATATATTATTATTT
14992514 TAT
1 TAT
14992517 TTTCAAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
10 3 0.08
11 6 0.16
12 1 0.03
14 1 0.03
15 16 0.43
16 10 0.27
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATATATTATTATTT
Found at i:14992510 original size:26 final size:27
Alignment explanation
Indices: 14992449--14992511 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 27
14992439 TTTCATTCAA
*
14992449 AATTTTTATATATACTTATTATTTTTAT
1 AATTTTTATATATA-GTATTATTTTTAT
*
14992477 AATATTTATATAT-GTATTA-TTTTAT
1 AATTTTTATATATAGTATTATTTTTAT
14992502 ATATTTTTAT
1 A-ATTTTTAT
14992512 TTTATTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 7 0.23
26 12 0.39
28 12 0.39
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (27 bp):
AATTTTTATATATAGTATTATTTTTAT
Found at i:14992518 original size:20 final size:20
Alignment explanation
Indices: 14992452--14992519 Score: 57
Period size: 20 Copynumber: 3.2 Consensus size: 20
14992442 CATTCAAAAT
** *
14992452 TTTTATATATACTTATTAT-
1 TTTTATATATTTTTATTTTA
14992471 TTTTATAATATTTATATATGTATTA
1 TTTTAT-ATATTT-T-TAT-T-TTA
14992496 TTTTATATATTTTTATTTTA
1 TTTTATATATTTTTATTTTA
14992516 TTTT
1 TTTT
14992520 CAAGTATTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
19 6 0.15
20 11 0.28
21 2 0.05
22 6 0.15
23 2 0.05
24 7 0.17
25 6 0.15
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (20 bp):
TTTTATATATTTTTATTTTA
Found at i:14998502 original size:43 final size:43
Alignment explanation
Indices: 14998455--14998539 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
14998445 AAATCTACTC
* *
14998455 ATCAATTGCTCCAACCGATCACCATTCAGTTCTTGCATATCTA
1 ATCAATTACTCCAACCGATCACCATTCAGTTCTTGCACATCTA
14998498 ATCAATTACTCCAACCGATCACCATTCAGTTCTTGCACATCT
1 ATCAATTACTCCAACCGATCACCATTCAGTTCTTGCACATCT
14998540 GTTTTCAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (43 bp):
ATCAATTACTCCAACCGATCACCATTCAGTTCTTGCACATCTA
Found at i:15002348 original size:45 final size:45
Alignment explanation
Indices: 15002284--15002673 Score: 613
Period size: 45 Copynumber: 8.7 Consensus size: 45
15002274 TTTCCAACAA
* *
15002284 CTGTAAGCGCTTCAGTGCATGATGTTTTCAAAACCTTTGGGTCAT
1 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
*
15002329 CTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
1 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
* *
15002374 CTGTAAGTCCTT-AGTGCATGATGTTTTCAAAACCTTCTGGTCAT
1 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
* ** *
15002418 CTGTAAGTCCTTCAGTGCATGATGTTTTCAAAACCTTCGAATCGT
1 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
* *
15002463 CTGTAAGTCCTTCAGTGCATGATGTTTTCAAAATCTTCGGGTCAT
1 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
15002508 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
1 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
*
15002553 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACATTCGGGTCAT
1 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
* * * *
15002598 CTGTAACCCCATT-AGTGCATGATGTTTTCAAAAACTTCAGGTTAT
1 CTGTAAGCCC-TTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
15002643 CTGTAAGCCCTTCAGTGCATGATGTTTTCAA
1 CTGTAAGCCCTTCAGTGCATGATGTTTTCAA
15002674 CACTTTCATC
Statistics
Matches: 321, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
44 45 0.14
45 274 0.85
46 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.36
Consensus pattern (45 bp):
CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCAT
Found at i:15002822 original size:3 final size:3
Alignment explanation
Indices: 15002814--15002848 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
15002804 TGATTATTTA
15002814 ATT ATT ATT ATT ATT ATT ATT ATT ATAT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT A
15002849 ATAAATAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:15004580 original size:4 final size:4
Alignment explanation
Indices: 15004571--15004595 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
15004561 TTATGTTTAA
15004571 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
15004596 CAAATATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:15004682 original size:16 final size:16
Alignment explanation
Indices: 15004645--15004691 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
15004635 CCATTTTCTG
*
15004645 ATATA-TTTAAATAAAT
1 ATATATTTTAAAT-TAT
*
15004661 AAATATTTTAAATTAT
1 ATATATTTTAAATTAT
15004677 ATATATTTT-AATTAT
1 ATATATTTTAAATTAT
15004692 TTTTAGATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 6 0.22
16 14 0.52
17 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTTTAAATTAT
Found at i:15007923 original size:76 final size:77
Alignment explanation
Indices: 15007839--15007987 Score: 237
Period size: 77 Copynumber: 1.9 Consensus size: 77
15007829 ATGTTTTTTT
* *
15007839 TTCTTTTATTATTTCATTA-TTATTTCATTTTATATTTGCATGAAAATAATGGTCCGAACAGTAG
1 TTCTTTTATTATTTCATTATTTATTTCATTTTATATTTGCAAGAAAATAATGGTCCGAACAGCAG
15007903 TACAATGCTTTC
66 TACAATGCTTTC
* * **
15007915 TTCTTTTATTATTTCATTATTTTTTTCATTTTATATTTGTAAGAAAATAATGGTTTGAACAGCAG
1 TTCTTTTATTATTTCATTATTTATTTCATTTTATATTTGCAAGAAAATAATGGTCCGAACAGCAG
15007980 TACAATGC
66 TACAATGC
15007988 ATAAAACAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
76 19 0.29
77 47 0.71
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (77 bp):
TTCTTTTATTATTTCATTATTTATTTCATTTTATATTTGCAAGAAAATAATGGTCCGAACAGCAG
TACAATGCTTTC
Found at i:15011581 original size:13 final size:13
Alignment explanation
Indices: 15011559--15011611 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
15011549 TCATAAATCT
15011559 ATGACGCGCATTG
1 ATGACGCGCATTG
* *
15011572 ATGACACGCATTT
1 ATGACGCGCATTG
* * *
15011585 ATGACTCACATTT
1 ATGACGCGCATTG
15011598 ATGACGCGCATTG
1 ATGACGCGCATTG
15011611 A
1 A
15011612 GCGTCATTGA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (13 bp):
ATGACGCGCATTG
Found at i:15011596 original size:26 final size:26
Alignment explanation
Indices: 15011558--15011609 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
15011548 GTCATAAATC
*
15011558 TATGACGCGCATTGATGACACGCATT
1 TATGACGCACATTGATGACACGCATT
* * *
15011584 TATGACTCACATTTATGACGCGCATT
1 TATGACGCACATTGATGACACGCATT
15011610 GAGCGTCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (26 bp):
TATGACGCACATTGATGACACGCATT
Found at i:15028167 original size:137 final size:137
Alignment explanation
Indices: 15027918--15028201 Score: 370
Period size: 137 Copynumber: 2.1 Consensus size: 137
15027908 CAGGAAATAA
** * * *
15027918 ATTATCCCTAAAGATGATTAGATGTCCTCATCACGAAGGAATAATGTCATCTACCGACCAGATCT
1 ATTATCCCTAAAGATGACCAGACGTCCTCATCACGAAGGAACAATGTCATCTACAGACCAGATCT
* ** * ** *
15027983 CCTAATCACGCAGGAACCGTGTCATCCTTAGATAACCAGAATTCCTCATCATGTAGGAACTGTGT
66 CCTAATCACGAAGGAACCGCATCATCCTTAGATAACCAAAACACCTCATCACGTAGGAACTGTGT
*
15028048 TATCTCT
131 TATCTCC
* * *
15028055 ATTATCCCTATAGATGACCAGACGTCCTCATCACGAAGGAACAATGTCATCTACATATCAGATCT
1 ATTATCCCTAAAGATGACCAGACGTCCTCATCACGAAGGAACAATGTCATCTACAGACCAGATCT
* ** * **
15028120 CCTCATCACGAAGGAGTCGCATGATCCTTAGATAGTCAAAACACCTCATCACGTAGGAACTGTGT
66 CCTAATCACGAAGGAACCGCATCATCCTTAGATAACCAAAACACCTCATCACGTAGGAACTGTGT
15028185 TATCTCC
131 TATCTCC
15028192 ATTATCCCTA
1 ATTATCCCTA
15028202 CTATTTTCTT
Statistics
Matches: 125, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
137 125 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (137 bp):
ATTATCCCTAAAGATGACCAGACGTCCTCATCACGAAGGAACAATGTCATCTACAGACCAGATCT
CCTAATCACGAAGGAACCGCATCATCCTTAGATAACCAAAACACCTCATCACGTAGGAACTGTGT
TATCTCC
Found at i:15050046 original size:21 final size:19
Alignment explanation
Indices: 15050013--15050053 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
15050003 TGCATCAAGG
15050013 TCTTTATTGAGGCCATGAAA
1 TCTTTATTGAGGCCAT-AAA
*
15050033 TCTTTTTTCGAGGCCATAAA
1 TCTTTATT-GAGGCCATAAA
15050053 T
1 T
15050054 TCCTGCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (19 bp):
TCTTTATTGAGGCCATAAA
Found at i:15054571 original size:35 final size:35
Alignment explanation
Indices: 15054507--15054574 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
15054497 AAAATTTATG
* *
15054507 TTTATATTTGGATTATGCAATTTGAATTTTTAAAC
1 TTTATATTTAGATTATGCAATTTCAATTTTTAAAC
*
15054542 TTTATATTTAGATTATGTAA-TTCATATTTTTAA
1 TTTATATTTAGATTATGCAATTTCA-ATTTTTAA
15054575 GCATTTAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 3 0.10
35 26 0.90
ACGTcount: A:0.32, C:0.04, G:0.09, T:0.54
Consensus pattern (35 bp):
TTTATATTTAGATTATGCAATTTCAATTTTTAAAC
Found at i:15056950 original size:22 final size:22
Alignment explanation
Indices: 15056897--15056950 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
15056887 ACAACACTCT
15056897 GTATCAATAC-CCCAATTTAGG
1 GTATCAATACTCCCAATTTAGG
* * *
15056918 GTATTAATACTCCCATTTTGGG
1 GTATCAATACTCCCAATTTAGG
*
15056940 GTATCAGTACT
1 GTATCAATACT
15056951 ACCCCAGGTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 9 0.33
22 18 0.67
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (22 bp):
GTATCAATACTCCCAATTTAGG
Found at i:15059823 original size:2 final size:2
Alignment explanation
Indices: 15059810--15059871 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
15059800 TGTCATTTTG
*
15059810 TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15059852 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
15059872 GTTATCCATA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15064097 original size:20 final size:20
Alignment explanation
Indices: 15064061--15064098 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
15064051 ATTTATATGA
*
15064061 AAAAATATAGAATACATACT
1 AAAAATATAAAATACATACT
15064081 AAAAAT-TAAAATAACATA
1 AAAAATATAAAAT-ACATA
15064099 AAATAGAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (20 bp):
AAAAATATAAAATACATACT
Found at i:15064116 original size:15 final size:14
Alignment explanation
Indices: 15064071--15064130 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
15064061 AAAAATATAG
15064071 AATAC-ATACTAAAA
1 AATACAATAC-AAAA
* * *
15064085 ATTAAAATAACATAA
1 AATACAAT-ACAAAA
*
15064100 AATAGAATATCAAAA
1 AATACAATA-CAAAA
15064115 AATACAATACAAAA
1 AATACAATACAAAA
15064129 AA
1 AA
15064131 ATAAAAGTAC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
14 11 0.31
15 23 0.64
16 2 0.06
ACGTcount: A:0.68, C:0.10, G:0.02, T:0.20
Consensus pattern (14 bp):
AATACAATACAAAA
Found at i:15064963 original size:22 final size:22
Alignment explanation
Indices: 15064938--15064987 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
15064928 GCCCAAAATA
* *
15064938 TATTTTAT-AGAATAAAGATATT
1 TATTTTATCA-AAAAAAGATAAT
*
15064960 TATTTAATCAAAAAAAGATAAT
1 TATTTTATCAAAAAAAGATAAT
15064982 TATTTT
1 TATTTT
15064988 TATAAGAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (22 bp):
TATTTTATCAAAAAAAGATAAT
Found at i:15065299 original size:17 final size:16
Alignment explanation
Indices: 15065277--15065362 Score: 56
Period size: 16 Copynumber: 5.5 Consensus size: 16
15065267 ATCAAAGATA
15065277 AAAATAAAATAATAAAC
1 AAAATAAAATAAT-AAC
15065294 AAAAT-AAA-AAT-A-
1 AAAATAAAATAATAAC
*
15065306 GAAATAAAATAATATAC
1 AAAATAAAATAATA-AC
*
15065323 AAAATAAAA-ATAGAAC
1 AAAATAAAATA-ATAAC
* * * *
15065339 GAGATAAAAAAATAAT
1 AAAATAAAATAATAAC
15065355 AAAATAAA
1 AAAATAAA
15065363 GTAAAGTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
12 4 0.08
13 4 0.08
14 3 0.06
15 3 0.06
16 23 0.43
17 16 0.30
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.17
Consensus pattern (16 bp):
AAAATAAAATAATAAC
Found at i:15065316 original size:11 final size:12
Alignment explanation
Indices: 15065274--15065314 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
15065264 TATATCAAAG
15065274 ATAAAAATA-AA
1 ATAAAAATAGAA
*
15065285 ATAATAAACA-AA
1 ATAA-AAATAGAA
15065297 ATAAAAATAGAA
1 ATAAAAATAGAA
15065309 ATAAAA
1 ATAAAA
15065315 TAATATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (12 bp):
ATAAAAATAGAA
Found at i:15065324 original size:29 final size:29
Alignment explanation
Indices: 15065278--15065337 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
15065268 TCAAAGATAA
15065278 AAATAAAATAATAAACAAAATAAAAATAG
1 AAATAAAATAATAAACAAAATAAAAATAG
*
15065307 AAATAAAATAATATACAAAATAAAAATAG
1 AAATAAAATAATAAACAAAATAAAAATAG
15065336 AA
1 AA
15065338 CGAGATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (29 bp):
AAATAAAATAATAAACAAAATAAAAATAG
Found at i:15065548 original size:31 final size:31
Alignment explanation
Indices: 15065512--15065579 Score: 109
Period size: 31 Copynumber: 2.2 Consensus size: 31
15065502 AAGACTGATT
15065512 TATATAAAAAAAATAAGGTTTAAATAATATA
1 TATATAAAAAAAATAAGGTTTAAATAATATA
* * *
15065543 TATATATATATAATAAGGTTTAAATAATATA
1 TATATAAAAAAAATAAGGTTTAAATAATATA
15065574 TATATA
1 TATATA
15065580 TATATGCGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (31 bp):
TATATAAAAAAAATAAGGTTTAAATAATATA
Found at i:15065580 original size:31 final size:31
Alignment explanation
Indices: 15065523--15065584 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
15065513 ATATAAAAAA
15065523 AATAAGGTTTAAATAATATATATATATATAT
1 AATAAGGTTTAAATAATATATATATATATAT
15065554 AATAAGGTTTAAATAATATATATATATATAT
1 AATAAGGTTTAAATAATATATATATATATAT
15065585 GCGCTTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (31 bp):
AATAAGGTTTAAATAATATATATATATATAT
Found at i:15066359 original size:33 final size:33
Alignment explanation
Indices: 15066322--15066385 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 33
15066312 TTAGTTTGTG
15066322 CAAT-AAAATAAAATGTTAGTAA-GTTAGTAAGAA
1 CAATAAAAATAAAA-GTTAG-AATGTTAGTAAGAA
15066355 CAATAAAAATAAAAGTTAGAATGTTAGTAAG
1 CAATAAAAATAAAAGTTAGAATGTTAGTAAG
15066386 TTAGAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 2 0.07
33 18 0.62
34 9 0.31
ACGTcount: A:0.55, C:0.03, G:0.16, T:0.27
Consensus pattern (33 bp):
CAATAAAAATAAAAGTTAGAATGTTAGTAAGAA
Found at i:15067455 original size:122 final size:122
Alignment explanation
Indices: 15067214--15067615 Score: 448
Period size: 122 Copynumber: 3.3 Consensus size: 122
15067204 GTTGAGAACT
* * * * * *
15067214 TCGGGTCAGTCTGGATATAATTTGGTGTTGAAGACAACACTGCTCATCTATATTGAAAATATCTT
1 TCGGGTCAATCTGGAGATAATTTGGTGTTGAAGATAACTCTGCTCATCTATGTTGAAAAGATC-T
* * * * * *
15067279 GGTCGCTTTCAGATATATTGTTTATTGAAGATGACGTTATTCCTTATCGTTGAGGAAA
65 AGTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTGAGGAAA
* *
15067337 TCGGGTCAATCTGGAGAAAATTTTGTGTTGAAGATAACTCTGCTCATCTATGTTGAAAAGATCTA
1 TCGGGTCAATCTGGAGATAATTTGGTGTTGAAGATAACTCTGCTCATCTATGTTGAAAAGATCTA
15067402 GTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTGAGGAAA
66 GTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTGAGGAAA
* * ** * * * ** * *
15067459 TCAGGTCAATCCGGAGATAATACGGTGTCGAAGATGACTTTGCTCATCCGTGTT-AAAGAGTTTT
1 TCGGGTCAATCTGGAGATAATTTGGTGTTGAAGATAACTCTGCTCATCTATGTTGAAA-AGATCT
* * * * * * *
15067523 AGCCACTTTCAGGTAAATTGTTTGCTGAAGATGACAATGTTCCTTCTTGTT-AAGAAA
65 AGTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTGAGGAAA
* * *
15067580 GTTGGGTCAATATGGAGGTAATTTGGTGTTGAAGAT
1 -TCGGGTCAATCTGGAGATAATTTGGTGTTGAAGAT
15067616 GTTCTGAAGT
Statistics
Matches: 235, Mismatches: 42, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
121 8 0.03
122 172 0.73
123 55 0.23
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (122 bp):
TCGGGTCAATCTGGAGATAATTTGGTGTTGAAGATAACTCTGCTCATCTATGTTGAAAAGATCTA
GTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTGAGGAAA
Found at i:15068304 original size:104 final size:100
Alignment explanation
Indices: 15068111--15068332 Score: 234
Period size: 104 Copynumber: 2.2 Consensus size: 100
15068101 TGTGAAATAA
* * * *
15068111 AATTTTGTTTCGAGTAAAACATTTCAAAATTTGTGTTTCAAGGGAGATTTGTCTCGAGTGAGACA
1 AATTTTGTTTCAAGTAAAACATTTCAAAATTTGTGTTTCAAGGGAGAATTGTCTCAAGCGAGACA
***
15068176 ATTTGTTTTTAAGAAAAACAATCTCAAATTTTATC
66 ATTTGTTTTTAAGAAAAACAATCTCAAATGAGATC
* * * * *
15068211 AATTTTGTTTTAAGTGAAACAATTTCCAAATTTTTTGTTTTAAGGGCA-AATTGTCTCAAGCGAG
1 AATTTTGTTTCAAGTAAAAC-ATTT-CAAAATTTGTGTTTCAAGGG-AGAATTGTCTCAAGCGAG
* * *
15068275 ACGTAATTTGTTTTGTGAG-AAATCAATCTCAAGTGAGATC
63 AC--AATTTGTTTT-TAAGAAAAACAATCTCAAATGAGATC
15068315 AATTTTGTTTCAA-TAAAA
1 AATTTTGTTTCAAGTAAAA
15068333 ATTGTCTCAA
Statistics
Matches: 99, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
100 17 0.17
101 4 0.04
102 32 0.32
103 5 0.05
104 38 0.38
105 3 0.03
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (100 bp):
AATTTTGTTTCAAGTAAAACATTTCAAAATTTGTGTTTCAAGGGAGAATTGTCTCAAGCGAGACA
ATTTGTTTTTAAGAAAAACAATCTCAAATGAGATC
Found at i:15071522 original size:14 final size:15
Alignment explanation
Indices: 15071493--15071528 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
15071483 AATATAATAT
15071493 AAAATACAATACCAA
1 AAAATACAATACCAA
*
15071508 AAAATACAATACAAA
1 AAAATACAATACCAA
15071523 AAAATA
1 AAAATA
15071529 AAATTACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAATACAATACCAA
Found at i:15072001 original size:20 final size:20
Alignment explanation
Indices: 15071970--15072007 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
15071960 GTTGAATACA
15071970 TAAAATATCATTTTAAAGAGT
1 TAAAATATCA-TTTAAAGAGT
15071991 TAAAA-ATCATTTAAAGA
1 TAAAATATCATTTAAAGA
15072008 CGAAAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.53, C:0.05, G:0.08, T:0.34
Consensus pattern (20 bp):
TAAAATATCATTTAAAGAGT
Found at i:15072688 original size:17 final size:15
Alignment explanation
Indices: 15072651--15072706 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
15072641 CTTATATCAA
*
15072651 AGATAAAAAAATAAT
1 AGATAAAAAAAGAAT
*
15072666 AAATAAAAAATAGAACT
1 AGATAAAAAA-AGAA-T
15072683 AGATAAAAAAA-AAT
1 AGATAAAAAAAGAAT
15072697 A-ATAAAAAAA
1 AGATAAAAAAA
15072707 ATAAAAACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 9 0.25
14 2 0.06
15 11 0.31
16 4 0.11
17 10 0.28
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (15 bp):
AGATAAAAAAAGAAT
Found at i:15072887 original size:2 final size:2
Alignment explanation
Indices: 15072880--15072921 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
15072870 GGTTTAAATA
15072880 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15072922 CTGCGCGTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15073529 original size:34 final size:34
Alignment explanation
Indices: 15073469--15073553 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
15073459 TTAGTTTGTG
* *
15073469 AAATAAAATAAAATGTTAATAAGTTAGTAAGAAC
1 AAATAAAATAAAAAGTTAATAAGTTAGCAAGAAC
* * *
15073503 -AATAAAAATAAAAAGTTACTATGTTAGCACGAAC
1 AAAT-AAAATAAAAAGTTAATAAGTTAGCAAGAAC
15073537 AAATAAAAT-AAAAGTTA
1 AAATAAAATAAAAAGTTA
15073554 GGGGTTGTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
33 11 0.25
34 30 0.68
35 3 0.07
ACGTcount: A:0.59, C:0.06, G:0.11, T:0.25
Consensus pattern (34 bp):
AAATAAAATAAAAAGTTAATAAGTTAGCAAGAAC
Found at i:15073618 original size:201 final size:201
Alignment explanation
Indices: 15073343--15073725 Score: 563
Period size: 201 Copynumber: 1.9 Consensus size: 201
15073333 TGCATACATT
* * * *
15073343 TAAAAGTTAGGGGGTTGATTTTAACCGTTTAACTCGTACTATAAATAGTGCAGATTGTCCCCTAG
1 TAAAAGTTAGGGGGTTGATTTTAACCGTTTAACCCGTACTATAAATAATGCAGATCGTCCCCCAG
* *
15073408 GGCGGGTCACCACAAGGTCATTGAATATTCGAATGTTAGAAAATTAGCGGGTTAGTTTGTGAAAT
66 GGCGGGTCACCACAAGGTCATTGAATACTCGAATGTTAGAAAATTAGCGGGTTAGTTTGTGAAAC
15073473 AAAATAAAATGTTAATAAGTTAGTAAGAACAATAAAAATAAAAAGTTACTATGTTAGCACGAACA
131 AAAATAAAATGTTAATAAGTTAGTAAGAACAATAAAAAT-AAAAGTTACTATGTTAGCACGAACA
15073538 AATAAAA
195 AATAAAA
* * **
15073545 TAAAAGTTA-GGGGTTGTTTTTAATCGTTTAACCCGTAGC-ATAAATAATGTGGATCGTCCCCCA
1 TAAAAGTTAGGGGGTTGATTTTAACCGTTTAACCCGTA-CTATAAATAATGCAGATCGTCCCCCA
* ** ** *
15073608 GGGTGGGTCACTGCAAGGTTGTTGAATACTCGAATGTTAGAAAATTAGCGGGTTAGTTTGTGCAA
65 GGGCGGGTCACCACAAGGTCATTGAATACTCGAATGTTAGAAAATTAGCGGGTTAGTTTGTGAAA
* * *
15073673 CAAAATAAATTGTTAGTAAGTTAGTAAGAACAATAAAAATAAAAGTTAGTATG
130 CAAAATAAAATGTTAATAAGTTAGTAAGAACAATAAAAATAAAAGTTACTATG
15073726 AACAATAAAA
Statistics
Matches: 161, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
200 12 0.07
201 139 0.86
202 10 0.06
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (201 bp):
TAAAAGTTAGGGGGTTGATTTTAACCGTTTAACCCGTACTATAAATAATGCAGATCGTCCCCCAG
GGCGGGTCACCACAAGGTCATTGAATACTCGAATGTTAGAAAATTAGCGGGTTAGTTTGTGAAAC
AAAATAAAATGTTAATAAGTTAGTAAGAACAATAAAAATAAAAGTTACTATGTTAGCACGAACAA
ATAAAA
Found at i:15073720 original size:25 final size:26
Alignment explanation
Indices: 15073690--15073746 Score: 98
Period size: 25 Copynumber: 2.2 Consensus size: 26
15073680 AATTGTTAGT
15073690 AAGTTAGTAAGAACAATAAAAAT-AA
1 AAGTTAGTAAGAACAATAAAAATAAA
*
15073715 AAGTTAGTATGAACAATAAAAATAAA
1 AAGTTAGTAAGAACAATAAAAATAAA
15073741 AAGTTA
1 AAGTTA
15073747 TAATGTTAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 22 0.73
26 8 0.27
ACGTcount: A:0.61, C:0.04, G:0.12, T:0.23
Consensus pattern (26 bp):
AAGTTAGTAAGAACAATAAAAATAAA
Found at i:15073784 original size:32 final size:32
Alignment explanation
Indices: 15073717--15073821 Score: 156
Period size: 32 Copynumber: 3.2 Consensus size: 32
15073707 AAAAATAAAA
* * *
15073717 GTTAGTATGAACAATAAAAATAAAAAGTTATAAT
1 GTTAGTATAAATAAT-AAAAT-AAAAGTTAGAAT
*
15073751 GTTAGTATAAATAATAAAGTAAAAGTTAGAAT
1 GTTAGTATAAATAATAAAATAAAAGTTAGAAT
15073783 GTTAGTATAAATAATAAAATAAAAGTTAGAAT
1 GTTAGTATAAATAATAAAATAAAAGTTAGAAT
15073815 GTTAGTA
1 GTTAGTA
15073822 AGTTAAAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 49 0.74
33 4 0.06
34 13 0.20
ACGTcount: A:0.53, C:0.01, G:0.14, T:0.31
Consensus pattern (32 bp):
GTTAGTATAAATAATAAAATAAAAGTTAGAAT
Found at i:15075342 original size:122 final size:122
Alignment explanation
Indices: 15075091--15075493 Score: 437
Period size: 122 Copynumber: 3.3 Consensus size: 122
15075081 GTTGAGAACT
* * * * * * *
15075091 TCGGGTCTATCTGAATATAATTTGGTGTTGAAGACGACACTGCTCATTCATGTTGAAGAGATCTT
1 TCGGGTCAATCTGGAGATAATTTGGTGTTGAAGATGACTCTGCTCATCCATGTTGAAGAGAT-AT
* * * * * *
15075156 GGTTGCTTTTAGATATATTGTTTGTTGAAGATGACGCTATTCCTTCTCGTTGAGGAAA
65 GGTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTAAGGAAA
** * * *
15075214 TCGGGTCAATCTGGAGATAATTTTTTGTTGAAGATAACTCTGCTTATCCATGTTGAAAAGATATG
1 TCGGGTCAATCTGGAGATAATTTGGTGTTGAAGATGACTCTGCTCATCCATGTTGAAGAGATATG
* * * *
15075279 GTCACTTTCAGATAAATTATTTGTTGAAGATGACGATGTTCCTTATCGTTAAAGAAA
66 GTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTAAGGAAA
* * **** * * *
15075336 TTGGGTCAATCCGGAGATAATACAATGTTGAAGATGACTCTGCTCATCCATGTTGAAGAGTTCTA
1 TCGGGTCAATCTGGAGATAATTTGGTGTTGAAGATGACTCTGCTCATCCATGTTGAAGAGATATG
* * * * * * *
15075401 GCCGCTTTCAGGTAAATTGTTTGCTGAAGATAACGATGTTCTTTCTTGTTAAGGAAG
66 GTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTAAGGAAA
* *
15075458 TCGGGTCAATCTAGAGGTAATTTGGTGTTGAAGATG
1 TCGGGTCAATCTGGAGATAATTTGGTGTTGAAGATG
15075494 TTATGGAAGT
Statistics
Matches: 227, Mismatches: 53, Indels: 1
0.81 0.19 0.00
Matches are distributed among these distances:
122 176 0.78
123 51 0.22
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.36
Consensus pattern (122 bp):
TCGGGTCAATCTGGAGATAATTTGGTGTTGAAGATGACTCTGCTCATCCATGTTGAAGAGATATG
GTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTAAGGAAA
Found at i:15075773 original size:138 final size:139
Alignment explanation
Indices: 15075515--15075774 Score: 353
Period size: 138 Copynumber: 1.9 Consensus size: 139
15075505 TTTGGGTAAA
* ** * * * *
15075515 TTGGAGACAATATGGTTCCTTCGTGTTGTTGAAGTCTGATTGTCTAAGGATAATATTGCTCCTTT
1 TTGGAGACAACATGGTTCCTTCACGTTGTAGAAGTCTGATTGTCTAAGGATAACACTGCTCCTTA
*
15075580 GAGTTGAGAAGATATGGTCGGTGAACGACATTGTTCCTTCGTGTTGAGGTAGTCTAGCAGTTTTA
66 GAGTTGAGAAGATATGGTCGGTGAACGACATTGTTCCTTCGTGTTAAGGTAGTCTAGCAGTTTTA
15075645 GAAGATAAT
131 GAAGATAAT
* * *
15075654 TTGGAGACAACATGGTTCCTTCACGTTG-AGAAGTCTGATTGTTTTAGGATGACACTGCTCCTTA
1 TTGGAGACAACATGGTTCCTTCACGTTGTAGAAGTCTGATTGTCTAAGGATAACACTGCTCCTTA
* ** * *
15075718 GCGTTGATTAGATCTGGTCGGTGGACGACATTGTTCCTTCGTGTTAAGG-ACGTCTAG
66 GAGTTGAGAAGATATGGTCGGTGAACGACATTGTTCCTTCGTGTTAAGGTA-GTCTAG
15075775 TCATCTAGAG
Statistics
Matches: 104, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
137 1 0.01
138 78 0.75
139 25 0.24
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (139 bp):
TTGGAGACAACATGGTTCCTTCACGTTGTAGAAGTCTGATTGTCTAAGGATAACACTGCTCCTTA
GAGTTGAGAAGATATGGTCGGTGAACGACATTGTTCCTTCGTGTTAAGGTAGTCTAGCAGTTTTA
GAAGATAAT
Found at i:15079999 original size:15 final size:16
Alignment explanation
Indices: 15079977--15080006 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15079967 ATAGAACGAG
15079977 ATAAAAAAA-TAAAAA
1 ATAAAAAAAGTAAAAA
15079992 ATAAAAAAAGTAAAA
1 ATAAAAAAAGTAAAA
15080007 CAAAGAAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
ATAAAAAAAGTAAAAA
Found at i:15080561 original size:15 final size:16
Alignment explanation
Indices: 15080521--15080560 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
15080511 ATTAAAAGAA
15080521 AAAAATAAAATGTTGG
1 AAAAATAAAATGTTGG
**
15080537 -AATTTAAAATGTTGG
1 AAAAATAAAATGTTGG
15080552 AAAAATAAA
1 AAAAATAAA
15080561 TAAAATAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.15, T:0.28
Consensus pattern (16 bp):
AAAAATAAAATGTTGG
Found at i:15081183 original size:29 final size:29
Alignment explanation
Indices: 15081128--15081183 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
15081118 ATGGTTTGAA
**
15081128 TGCAAGAAAATAAAAGCCAGTGGTTAATG
1 TGCAAGAAAATAAAAGCCAGTAATTAATG
* **
15081157 TGCAATAAAATAAAAGTTAGTAATTAA
1 TGCAAGAAAATAAAAGCCAGTAATTAA
15081184 CTTGAAATAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (29 bp):
TGCAAGAAAATAAAAGCCAGTAATTAATG
Found at i:15082476 original size:122 final size:123
Alignment explanation
Indices: 15082226--15082624 Score: 342
Period size: 122 Copynumber: 3.3 Consensus size: 123
15082216 GAGAACTTTT
* * * *** * * * * * *
15082226 GGTCAAACTGGATATAATTTGGTGTTGAAGACGGCACTGCTTATCCATGTTGAATAGATATTGGT
1 GGTCAATCTGGAGATAATTTCGTGTTGAAGATAACTCTGCTCATCCATGTTGAAAAGAT-CTAGC
* * * *
15082291 CAC-TTTCAGA-TATATTGTTTGTT-AACGATGACGTTATTCTTTCTCGTTGAGGAAATCG
65 CGCTTTTCAGATTA-ATTGTTTGTTGAA-GATGACGATGTTCCTTCTCGTTGAGGAAATCG
* * * * * * *
15082349 TGTCAATATGGAGATAATTTTGTGTTGAAGATAACTTTGCTCATCTATGTTGAAAAGATCTTGTC
1 GGTCAATCTGGAGATAATTTCGTGTTGAAGATAACTCTGCTCATCCATGTTGAAAAGATCTAGCC
* * *
15082414 G-TTTTCAGATTAATTGTTTGTTGAAGATGAGGATGTTCCTTCTCGTTGAGAAAATTG
66 GCTTTTCAGATTAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTGAGGAAATCG
* ** * * *
15082471 GGTCAATCTGGAGATAA-TACGATGTTGAAGACGACTCTGCTCATCCGTGTTGAAGAGTTCTAGC
1 GGTCAATCTGGAGATAATTTCG-TGTTGAAGATAACTCTGCTCATCCATGTTGAAAAGATCTAGC
* * * * * * *
15082535 CGCTTTCCAG-TAAATTGTTTGCTGAAGATGACAATGTTCCTTCTTGTTAAGGAAGTCG
65 CGCTTTTCAGATTAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTGAGGAAATCG
* * *
15082593 GGTCAATCTTGAGGTAATTTGGTGTTGAAGAT
1 GGTCAATCTGGAGATAATTTCGTGTTGAAGAT
15082625 GTTATGGAAG
Statistics
Matches: 220, Mismatches: 50, Indels: 13
0.78 0.18 0.05
Matches are distributed among these distances:
121 2 0.01
122 160 0.73
123 58 0.26
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (123 bp):
GGTCAATCTGGAGATAATTTCGTGTTGAAGATAACTCTGCTCATCCATGTTGAAAAGATCTAGCC
GCTTTTCAGATTAATTGTTTGTTGAAGATGACGATGTTCCTTCTCGTTGAGGAAATCG
Found at i:15084131 original size:19 final size:21
Alignment explanation
Indices: 15084100--15084153 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
15084090 ATGCAAAATG
* *
15084100 GTATCGGTGCCATA-ATAG-A
1 GTATCGATACCATAGATAGTA
15084119 GTATCGATACCATAGTATAGTA
1 GTATCGATACCATAG-ATAGTA
15084141 GTATCGATACCAT
1 GTATCGATACCAT
15084154 GGTGGGGGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 12 0.40
21 4 0.13
22 14 0.47
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
GTATCGATACCATAGATAGTA
Found at i:15084564 original size:58 final size:58
Alignment explanation
Indices: 15084502--15084836 Score: 482
Period size: 58 Copynumber: 5.8 Consensus size: 58
15084492 ATGGCACTAA
* * * * *
15084502 GTGTGCAAAAAGTTAAGAAATTAATATTAAATCTATGAATTTTCGTATTGGGCACATT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
*
15084560 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC--T
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
15084616 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAA-TTTCTGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTC-GTATTGGGCACTTT
* * *
15084674 GTGTGCAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTTTGTATTTGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
* *
15084732 GTGTTCAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTAT-GTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTT-TCGTATTGGGCACTTT
* * * *
15084790 GTGTGCAAAAAGTTAAGAGATTCATACTGAGTG-ATGCATTTCCGTAT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTAT
15084837 GGGAAATATA
Statistics
Matches: 256, Mismatches: 15, Indels: 13
0.90 0.05 0.05
Matches are distributed among these distances:
55 3 0.01
56 51 0.20
57 11 0.04
58 187 0.73
59 4 0.02
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTT
Found at i:15084702 original size:114 final size:114
Alignment explanation
Indices: 15084502--15084836 Score: 503
Period size: 114 Copynumber: 2.9 Consensus size: 114
15084492 ATGGCACTAA
* * * * *
15084502 GTGTGCAAAAAGTTAAGAAATTAATATTAAATCTATGAATTTTCGTATTGGGCACATTGTGTGCA
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTT-GTATTGGGCACTTTGTGTGCA
*
15084567 AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC-T
65 AAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTT
15084616 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTTGTGTGCA
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTT-TGTATTGGGCACTTTGTGTGCA
** *
15084681 AAAAGTTAAGAGATTCATACTAAGTGTATGAATTTTTGTATTTGGCACTTT
65 AAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC-TT
* *
15084732 GTGTTCAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTATGTATTGGGCACTTTGTGTGCA
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTT-TGTATTGGGCACTTTGTGTGCA
* *
15084797 AAAAGTTAAGAGATTCATACTGAGTG-ATGCATTTCCGTAT
65 AAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCGTAT
15084837 GGGAAATATA
Statistics
Matches: 202, Mismatches: 16, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
114 102 0.50
115 12 0.06
116 88 0.44
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (114 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTGTATTGGGCACTTTGTGTGCAA
AAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTT
Found at i:15084760 original size:172 final size:172
Alignment explanation
Indices: 15084502--15084836 Score: 501
Period size: 172 Copynumber: 1.9 Consensus size: 172
15084492 ATGGCACTAA
*
15084502 GTGTGCAAAAAGTTAAGAAATTAATATTAAATCTATGAATTTTCGTATTGGGCACATTGTGTGCA
1 GTGTGCAAAAAGTTAAGAAATTAATACTAAATCTATGAATTTTCGTATTGGGCACATTGTGTGCA
*
15084567 AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCAC-TGTGTGCAAAAAGTTA
66 AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTACGTATTGGGCACTTGTGTGCAAAAAGTTA
*
15084631 AGAAATTCATACTAAGTGTATGAATTTCTGTATTGGGCACTTT
131 AGAAATTCATACTAAGTG-ATGAATTTCCGTATTGGGCACTTT
* * * * * * * *
15084674 GTGTGCAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTTTGTATTTGGCACTTTGTGTTCA
1 GTGTGCAAAAAGTTAAGAAATTAATACTAAATCTATGAATTTTCGTATTGGGCACATTGTGTGCA
* *
15084739 AAAAGTTAAGAGATTCATACTAAGTGTATGAATTTATGTATTGGGCACTTTGTGTGCAAAAAGTT
66 AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTACGTATTGGGCAC-TTGTGTGCAAAAAGTT
* * *
15084804 AAGAGATTCATACTGAGTGATGCATTTCCGTAT
130 AAGAAATTCATACTAAGTGATGAATTTCCGTAT
15084837 GGGAAATATA
Statistics
Matches: 145, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
172 101 0.70
173 12 0.08
174 32 0.22
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (172 bp):
GTGTGCAAAAAGTTAAGAAATTAATACTAAATCTATGAATTTTCGTATTGGGCACATTGTGTGCA
AAAAGTTAAGAAATTCATACTAAGTGTATGAATTTACGTATTGGGCACTTGTGTGCAAAAAGTTA
AGAAATTCATACTAAGTGATGAATTTCCGTATTGGGCACTTT
Found at i:15085131 original size:68 final size:68
Alignment explanation
Indices: 15085052--15085368 Score: 467
Period size: 68 Copynumber: 4.7 Consensus size: 68
15085042 AAGATAAATA
*
15085052 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTTCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
15085117 GAG
66 GAG
* * * **
15085120 GCCTAACTGTGCAATTGATAGAAAGGTGTCAATTATTCCAGTTAGATG-AAGTTTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
15085184 GAG
66 GAG
* * * * * *
15085187 TCCTAACTGTGTAATTGACAGAAAGATATCTATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
15085252 GAG
66 GAG
* * *
15085255 GCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTATATGAAAGGCTTAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
15085320 GAG
66 GAG
* *
15085323 GCTTAATTGTGCATTTGACAGAAAGGTGTCAATTATG-CAGTTAGAT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
15085369 AAACGGTTAA
Statistics
Matches: 220, Mismatches: 28, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
67 65 0.30
68 155 0.70
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:15085296 original size:135 final size:136
Alignment explanation
Indices: 15085052--15085368 Score: 469
Period size: 135 Copynumber: 2.3 Consensus size: 136
15085042 AAGATAAATA
*
15085052 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTTCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
* * *
15085117 GAGGCCTAACTGTGCAATTGATAGAAAGGTGTCAATTATTCCAGTTAGATG-AA-GTTTAAGTGC
66 GAGGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTT-AGTGC
15085180 CTTTGAG
130 CTTTGAG
* * * * * *
15085187 TCCTAACTGTGTAATTGACAGAAAGATATCTATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
* * *
15085252 GAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTATATGAAAGGCTTAGTGCC
66 GAGGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTTAGTGCC
15085317 TTTGAG
131 TTTGAG
* *
15085323 GCTTAATTGTGCATTTGACAGAAAGGTGTCAATTATG-CAGTTAGAT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGAT
15085369 AAACGGTTAA
Statistics
Matches: 159, Mismatches: 21, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
135 113 0.71
136 43 0.27
137 3 0.02
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (136 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAGGCCTAACTGTGCAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTTAGTGCC
TTTGAG
Found at i:15085513 original size:81 final size:82
Alignment explanation
Indices: 15085330--15085563 Score: 264
Period size: 81 Copynumber: 2.9 Consensus size: 82
15085320 GAGGCTTAAT
* * *
15085330 TGTGCATTTGACAGAAAGGTGTCAATTATGCAGTTAGATAAACGGTTAAAGACCGATGAGTAAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGCAGTTAGATGAACAGTTAAAGACCGTTGAGTAAAA
*
15085395 GATAAATGGCCTAACTG
66 GATAAATAGCCTAACTG
*
15085412 TGTG-A-CTGACAGAAAGGTGTCAATTATGCGAGTTAGATGAACAGTTAAAGACCGTTGAGTAAA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGC-AGTTAGATGAACAGTTAAAGACCGTTGAGTAAA
*
15085475 AGATAAATAGCCTAGCT-
65 AGATAAATAGCCTAACTG
* * * * * * *
15085492 T-TGCATTTGGCAAAAAAGTGTCAATCATACAAGTTAGATGAA-ATGTTAAATG-CCTTTGGGTA
1 TGTGCATTTGACAGAAAGGTGTCAATTATGC-AGTTAGATGAACA-GTTAAA-GACCGTTGAGTA
15085554 AAAGAGTAAA
63 AAAGA-TAAA
15085564 GGAATTATAA
Statistics
Matches: 131, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
79 2 0.02
80 26 0.20
81 94 0.72
82 9 0.07
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (82 bp):
TGTGCATTTGACAGAAAGGTGTCAATTATGCAGTTAGATGAACAGTTAAAGACCGTTGAGTAAAA
GATAAATAGCCTAACTG
Found at i:15090133 original size:58 final size:58
Alignment explanation
Indices: 15090071--15090466 Score: 639
Period size: 58 Copynumber: 6.8 Consensus size: 58
15090061 ATGGAACTAA
* *
15090071 GTGTGTAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACATT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
15090129 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTTTATGAATTTCCGTATTGGGCACTAT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
15090187 GTGTCCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTAT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * *
15090245 GTATGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTCTTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* * **
15090303 GTATACAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTTAGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
15090361 GTGTGCAAAAAGTTAAAAAATTCATACTAAGTGTATTAATTTCCGTATTGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
* *
15090419 GTGTTCAAAAAGTTAAGAGATTCATACTAAGTGTATGAATTTCCGTAT
1 GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
15090467 GGGAAATATA
Statistics
Matches: 314, Mismatches: 24, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
58 314 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (58 bp):
GTGTGCAAAAAGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTGGGCACTTT
Found at i:15091088 original size:68 final size:68
Alignment explanation
Indices: 15090681--15091070 Score: 636
Period size: 68 Copynumber: 5.7 Consensus size: 68
15090671 AAGATAAATA
* ** *
15090681 GCCTAATTGTGCAATTGACAGAAATGTGTCAATTATGTGAGTTAGATGAAAGTCTAAGTGCCTTT
1 GCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
15090746 GAG
66 GAG
* *
15090749 GTCTAACTGTGCAATTGATAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
15090814 GAG
66 GAG
* *
15090817 GCCTAACTGTGCAATTGACAGAAAAGTGTCAATTATGCCAGTTATATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
15090882 GAG
66 GAG
* * *
15090885 GCCTAACTGTGCAATTGACAAAAAGGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
15090950 GAG
66 GAG
* * *
15090953 GCCTAACTGTGTAATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTCAGTGCCTTT
1 GCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
15091018 GAG
66 GAG
* *
15091021 GCCTAATTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1 GCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
15091071 CGATTAAAGA
Statistics
Matches: 300, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
68 300 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (68 bp):
GCCTAACTGTGCAATTGACAGAAATGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:15091159 original size:81 final size:79
Alignment explanation
Indices: 15091020--15091262 Score: 279
Period size: 81 Copynumber: 3.0 Consensus size: 79
15091010 GTGCCTTTGA
*
15091020 GGCCTAATTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAAGACCAT
1 GGCCTAATTGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAACG-TTAAAG-CCAT
15091085 TGAGTAAAAGATAAAT
64 TGAGTAAAAGATAAAT
* * * * * ***
15091101 GGCCTAACTGTGCAATTGACATAAAGGTGTCAATTATGCCAGCTAGATGAACTGTTAAAGTTTGT
1 GGCCTAATTGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAAC-GTTAAAG-CCAT
15091166 TGAGTAAAAGATAAAT
64 TGAGTAAAAGATAAAT
* * * * * * *
15091182 GGCCTAGTTGTGCGTTTGGCAGAAAAGTGTCAATCATGCAAGTTAGATGAAAGGTTAAATGCCTT
1 GGCCTAATTGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATG-AACGTTAAA-GCCAT
15091247 TGAGTAAAAGACTAAA
64 TGAGTAAAAGA-TAAA
15091263 GGAATTATAA
Statistics
Matches: 135, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
81 127 0.94
82 8 0.06
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.28
Consensus pattern (79 bp):
GGCCTAATTGTGCATTTGACAGAAAAGTGTCAATTATGCCAGTTAGATGAACGTTAAAGCCATTG
AGTAAAAGATAAAT
Found at i:15091566 original size:2 final size:2
Alignment explanation
Indices: 15091559--15091587 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15091549 AATAATTGAA
15091559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
15091588 GAAGGATAGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15096921 original size:16 final size:17
Alignment explanation
Indices: 15096891--15096924 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
15096881 ATAGCAATCC
15096891 TACCCAAACATGATTTA
1 TACCCAAACATGATTTA
15096908 TACCCAAA-ATGATTTA
1 TACCCAAACATGATTTA
15096924 T
1 T
15096925 TTTCGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (17 bp):
TACCCAAACATGATTTA
Found at i:15098592 original size:38 final size:38
Alignment explanation
Indices: 15098511--15098593 Score: 91
Period size: 37 Copynumber: 2.2 Consensus size: 38
15098501 CCTTATATCA
* *
15098511 AAGATAAAAAAATAATAAACAAAATAAAAAAAAAGAATG
1 AAGAT-AAAAAATAATAAACAAAATAAAAAAAAACAAAG
*
15098550 -AGATAAAAAATAATAAA-ATAAA-AAAAGTAAAACAAAG
1 AAGATAAAAAATAATAAACA-AAATAAAA-AAAAACAAAG
15098587 AAGATAA
1 AAGATAA
15098594 TCGAATACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
36 5 0.13
37 23 0.61
38 10 0.26
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.13
Consensus pattern (38 bp):
AAGATAAAAAATAATAAACAAAATAAAAAAAAACAAAG
Found at i:15099054 original size:16 final size:16
Alignment explanation
Indices: 15099032--15099078 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
15099022 AAAGGGACTG
15099032 AAATAAAATGCAGGAA
1 AAATAAAATGCAGGAA
*
15099048 AATTAAAA-GACA-GAA
1 AAATAAAATG-CAGGAA
*
15099063 AAATAAAATGCTGGAA
1 AAATAAAATGCAGGAA
15099079 TTCAAAGTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.62, C:0.06, G:0.17, T:0.15
Consensus pattern (16 bp):
AAATAAAATGCAGGAA
Found at i:15099301 original size:34 final size:34
Alignment explanation
Indices: 15099260--15099338 Score: 106
Period size: 34 Copynumber: 2.3 Consensus size: 34
15099250 TAATTTGTGC
*
15099260 AATAAAATAAAATGTTAGTAAGTTAGTAAGAACA
1 AATAAAATAAAAAGTTAGTAAGTTAGTAAGAACA
* * *
15099294 ACA-AAAATAAAAAGTTGGTATGTTAGTATGAACA
1 A-ATAAAATAAAAAGTTAGTAAGTTAGTAAGAACA
15099328 AATAAAATAAA
1 AATAAAATAAA
15099339 TATTAGGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 1 0.03
34 37 0.95
35 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.14, T:0.25
Consensus pattern (34 bp):
AATAAAATAAAAAGTTAGTAAGTTAGTAAGAACA
Found at i:15099408 original size:200 final size:200
Alignment explanation
Indices: 15099143--15099514 Score: 577
Period size: 200 Copynumber: 1.9 Consensus size: 200
15099133 TAAAAGTTAG
* * **
15099143 GGGGTTATTTTTAACCGTTTAACCCGGACCATAAATAATGTGGATTGTCCCCCAGAACAGGTCAC
1 GGGGTTATTTTTAACCATTTAACCCAGACCATAAATAATGTGGATCCTCCCCCAGAACAGGTCAC
* *
15099208 CACAAGTTCGTTGAATATTCGAATGTTAGAAAATTAGCGGGTTAATTTGTGCAATAAAATAAAAT
66 CACAAGGTCGTTGAATATTCGAATGTTAGAAAATTAGCAGGTTAATTTGTGCAATAAAATAAAAT
* *
15099273 GTTAGTAAGTTAGTAAGAACAACAAAAATAAAAAGTTGGTATGTTAGTATGAACAAATAAAATAA
131 GTTAGTAAATTAGTAAGAACAACAAAAAT-AAAAGTTAGTATGTTAGTATGAACAAATAAAATAA
15099338 ATATTA
195 ATATTA
***
15099344 GGGGTT-TTTTTAACCATTTAACCCAGACCATAAATAATGTGGATCCTCCCCCA-AGGTGGGTCA
1 GGGGTTATTTTTAACCATTTAACCCAGACCATAAATAATGTGGATCCTCCCCCAGA-ACAGGTCA
* * *
15099407 CCGCAAGGTCGTTGAATATTCGAATGTTAGAAAATTAGTAGGTTAGTTTGTGCAATAAAATAAAA
65 CCACAAGGTCGTTGAATATTCGAATGTTAGAAAATTAGCAGGTTAATTTGTGCAATAAAATAAAA
*
15099472 TGTTAGTAAATTAGTAAGAACAATAAAAATAAAAGTTAGTATG
130 TGTTAGTAAATTAGTAAGAACAACAAAAATAAAAGTTAGTATG
15099515 AACAATAAAA
Statistics
Matches: 155, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
199 13 0.08
200 136 0.88
201 6 0.04
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (200 bp):
GGGGTTATTTTTAACCATTTAACCCAGACCATAAATAATGTGGATCCTCCCCCAGAACAGGTCAC
CACAAGGTCGTTGAATATTCGAATGTTAGAAAATTAGCAGGTTAATTTGTGCAATAAAATAAAAT
GTTAGTAAATTAGTAAGAACAACAAAAATAAAAGTTAGTATGTTAGTATGAACAAATAAAATAAA
TATTA
Found at i:15099517 original size:25 final size:26
Alignment explanation
Indices: 15099482--15099536 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
15099472 TGTTAGTAAA
15099482 TTAGTAAGAACAATAAAAAT-AAAAG
1 TTAGTAAGAACAATAAAAATAAAAAG
*
15099507 TTAGTATGAACAATAAAAATAAAAAG
1 TTAGTAAGAACAATAAAAATAAAAAG
15099533 TTAG
1 TTAG
15099537 AATGTTACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.60, C:0.04, G:0.13, T:0.24
Consensus pattern (26 bp):
TTAGTAAGAACAATAAAAATAAAAAG
Found at i:15099536 original size:59 final size:57
Alignment explanation
Indices: 15099459--15099568 Score: 143
Period size: 59 Copynumber: 1.9 Consensus size: 57
15099449 TTAGTTTGTG
* *
15099459 CAATAAAATAAAATGTTAGTAA-ATTAGTA-AGAACAATAAAAATAAAAGTTAGTATGAA
1 CAATAAAATAAAAAGTTAG-AATATTACTATA-AACAAT-AAAATAAAAGTTAGTATGAA
*
15099517 CAATAAAAATAAAAAGTTAGAATGTTACTATAAACAATAAAATAAAAGTTAG
1 CAAT-AAAATAAAAAGTTAGAATATTACTATAAACAATAAAATAAAAGTTAG
15099569 AATGTTAGTA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
58 20 0.43
59 25 0.54
60 1 0.02
ACGTcount: A:0.59, C:0.05, G:0.11, T:0.25
Consensus pattern (57 bp):
CAATAAAATAAAAAGTTAGAATATTACTATAAACAATAAAATAAAAGTTAGTATGAA
Found at i:15099569 original size:32 final size:34
Alignment explanation
Indices: 15099506--15099575 Score: 108
Period size: 32 Copynumber: 2.1 Consensus size: 34
15099496 AAAAATAAAA
* *
15099506 GTTAGTATGAACAATAAAAATAAAAAGTTAGAAT
1 GTTACTATAAACAATAAAAATAAAAAGTTAGAAT
15099540 GTTACTATAAACAAT-AAAAT-AAAAGTTAGAAT
1 GTTACTATAAACAATAAAAATAAAAAGTTAGAAT
15099572 GTTA
1 GTTA
15099576 GTAAGTTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 16 0.47
33 5 0.15
34 13 0.38
ACGTcount: A:0.54, C:0.04, G:0.13, T:0.29
Consensus pattern (34 bp):
GTTACTATAAACAATAAAAATAAAAAGTTAGAAT
Found at i:15099742 original size:29 final size:29
Alignment explanation
Indices: 15099710--15099765 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
15099700 ATGGTTAGAA
*
15099710 TGCAAGAAAATAAAAGTCAGTGGTTAATG
1 TGCAAGAAAATAAAAGTCAGTAGTTAATG
* *
15099739 TGCAATAAAATAAAAGTTAGTAGTTAA
1 TGCAAGAAAATAAAAGTCAGTAGTTAA
15099766 CTTGAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.48, C:0.05, G:0.20, T:0.27
Consensus pattern (29 bp):
TGCAAGAAAATAAAAGTCAGTAGTTAATG
Done.