Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 158 of 203
Found at i:50180898 original size:16 final size:17
Alignment explanation
Indices: 50180867--50180911 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
50180857 CCGATATAAT
* * *
50180867 AAATATATTTATTTTTT
1 AAATATTTTTAATTTTA
50180884 AAAT-TTTTTAATTTTA
1 AAATATTTTTAATTTTA
50180900 AAATATTTTTAA
1 AAATATTTTTAA
50180912 AATACTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:50180909 original size:11 final size:11
Alignment explanation
Indices: 50180895--50181024 Score: 68
Period size: 11 Copynumber: 12.4 Consensus size: 11
50180885 AATTTTTTAA
50180895 TTTTAAAATAT
1 TTTTAAAATAT
50180906 TTTTAAAATACTT
1 TTTTAAAATA--T
** *
50180919 TTTTTTATTAT
1 TTTTAAAATAT
50180930 TTGTT--AA--T
1 TT-TTAAAATAT
50180938 TT-TAAAATAT
1 TTTTAAAATAT
50180948 TTTTAAAATACT
1 TTTTAAAATA-T
*
50180960 TTTTTAAAT-T
1 TTTTAAAATAT
50180970 TTTT----TAT
1 TTTTAAAATAT
50180977 TTTTAAAATAT
1 TTTTAAAATAT
50180988 TTTTAAAATACT
1 TTTTAAAATA-T
**
50181000 TTTT-TTA-AT
1 TTTTAAAATAT
50181009 TTTTAAAATAAT
1 TTTTAAAAT-AT
50181021 TTTT
1 TTTT
50181025 TGGTATTTAT
Statistics
Matches: 92, Mismatches: 9, Indels: 35
0.68 0.07 0.26
Matches are distributed among these distances:
6 2 0.02
7 5 0.05
8 5 0.05
9 5 0.05
10 11 0.12
11 34 0.37
12 22 0.24
13 8 0.09
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50180937 original size:42 final size:41
Alignment explanation
Indices: 50180888--50181005 Score: 193
Period size: 42 Copynumber: 2.9 Consensus size: 41
50180878 TTTTTTAAAT
50180888 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTATTA
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTATTA
**
50180929 TTTGTTAATTTTAAAATATTTTTAAAATACTTTTTTAAATT-
1 TTT-TTAATTTTAAAATATTTTTAAAATACTTTTTTTTATTA
*
50180970 TTTTTATTTTTAAAATATTTTTAAAATACTTTTTTT
1 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT
50181006 AATTTTTAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
40 31 0.43
41 6 0.08
42 35 0.49
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.63
Consensus pattern (41 bp):
TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTATTA
Found at i:50180968 original size:12 final size:11
Alignment explanation
Indices: 50180937--50181024 Score: 73
Period size: 11 Copynumber: 8.4 Consensus size: 11
50180927 TATTTGTTAA
50180937 TTTTAAAATAT
1 TTTTAAAATAT
50180948 TTTTAAAATACT
1 TTTTAAAATA-T
*
50180960 TTTTTAAAT-T
1 TTTTAAAATAT
50180970 TTTT----TAT
1 TTTTAAAATAT
50180977 TTTTAAAATAT
1 TTTTAAAATAT
50180988 TTTTAAAATACT
1 TTTTAAAATA-T
**
50181000 TTTT-TTA-AT
1 TTTTAAAATAT
50181009 TTTTAAAATAAT
1 TTTTAAAAT-AT
50181021 TTTT
1 TTTT
50181025 TGGTATTTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
6 1 0.02
7 5 0.08
9 5 0.08
10 7 0.11
11 24 0.39
12 20 0.32
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:50180981 original size:40 final size:40
Alignment explanation
Indices: 50180878--50181012 Score: 209
Period size: 40 Copynumber: 3.4 Consensus size: 40
50180868 AATATATTTA
50180878 TTTTTTAAA-TTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
**
50180917 TTTTTTTTATTATTTGTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATT-TTT-TTAATTTTAAAATATTTTTAAAATAC
*
50180959 TTTTTTAAATTTTTTTATTTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
*
50180999 TTTTTTTAATTTTT
1 TTTTTTAAATTTTT
50181013 AAAATAATTT
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
39 7 0.08
40 39 0.45
41 6 0.07
42 35 0.40
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (40 bp):
TTTTTTAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:50180985 original size:17 final size:17
Alignment explanation
Indices: 50180959--50180992 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50180949 TTTAAAATAC
* *
50180959 TTTTTTAAATTTTTTTA
1 TTTTTAAAATATTTTTA
50180976 TTTTTAAAATATTTTTA
1 TTTTTAAAATATTTTTA
50180993 AAATACTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTAAAATATTTTTA
Found at i:50181490 original size:38 final size:39
Alignment explanation
Indices: 50181439--50181531 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 39
50181429 CATAAGGTGG
50181439 AAAAT-TATTATTATATATAT-TATTA-ATAA-ATTAAAGTT
1 AAAATATA-TATTATA-ATATGTATTACATAATATTAAAG-T
* * *
50181477 AAAATATATATTATAATATGTTTTACTTAATATTTAAGT
1 AAAATATATATTATAATATGTATTACATAATATTAAAGT
50181516 AAATATATATATTATA
1 AAA-ATATATATTATA
50181532 GTAATAAAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
37 4 0.09
38 16 0.34
39 9 0.19
40 18 0.38
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (39 bp):
AAAATATATATTATAATATGTATTACATAATATTAAAGT
Found at i:50182393 original size:16 final size:16
Alignment explanation
Indices: 50182374--50182404 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50182364 ATAATTAAAG
50182374 GTGTATTGGATTAGAA
1 GTGTATTGGATTAGAA
50182390 GTGTATTGGATTAGA
1 GTGTATTGGATTAGA
50182405 TTATAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (16 bp):
GTGTATTGGATTAGAA
Found at i:50184781 original size:19 final size:20
Alignment explanation
Indices: 50184757--50184797 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
50184747 GAATTTAGGC
*
50184757 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
*
50184776 AAATATTCAATATGAAATTG
1 AAATATTCAATATAAAATTG
50184796 AA
1 AA
50184798 TCGTGTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:50190903 original size:541 final size:543
Alignment explanation
Indices: 50189881--50192598 Score: 4429
Period size: 544 Copynumber: 5.0 Consensus size: 543
50189871 TTTCTGAATG
* *
50189881 GGAATGAGATTGTATCACAATGGATTTTGTAACAGGGTTACCTTTATCGGTAAGTAAGAAAAATG
1 GGAATGGGATTGTATCACAATGGATTTTGTAACAGGGTTACCTTTATCGGCAAGTAAGAAAAATG
* * * *
50189946 TTGTATGAGTGATTGTTGATCGACTTACGAAATCGGCTCATTTCATTGTAGCTAGGACAAATTGT
66 CTGTATGGGTGATTGTTGATCGACTTACGAAATCGGCTCATTTCATTGTAGCCAGGACAAATTGG
* *
50190011 TCACTTCAAAAGCTTGCTGAAGTTTATTTTTAAGAAATAGTAAGATTGCACGGTGTCCCTATGTC
131 TCACTTCAAAAGCTTGCTGAAGTTTATATTTAAGAAATAGTAAGATTGCACGGTGTCCCTATGTT
*
50190076 AATAATTTCTGATCGAGATCCGCGGTTCACTTCGAGATTTTGGAAACAATTGCACGAATCTCTTG
196 AATAATTTCTGATCGAGATCCGCGGTTCACTTCGAGATTTTGGAAACAGTTGCACGAATCTCTTG
** * * ** * *
50190141 GTATACGACTTAATTTTAGCACAACTTTTCACCAGCAGACTGACGGGTAATCTAAGTATGTTATT
261 GTACGCGACTTAATTTTAGCACAGCTTTTCACCAGCAGACTGATGGACAATCTGAGCATGTTATT
* * *
50190206 CAGATTTTGAAAGACATGCTTCGTACTTATGTTATTGATTTTGAGTCAGGTTGGGAGCGTTACTT
326 CAGATTTTGGAAGACATGCTTCGTACTTGTGTTATTGATTTTGAATCAGGTTGGGAGCGTTACTT
50190271 ACCTTTGGCCGAATTTGTATACAACAATAGTTTTCAATCGAGTATTCAAATGGCTCCGTATGAAG
391 ACCTTTGGCCGAATTTGTATACAACAATAGTTTTCAATCGAGTATTCAAATGGCTCCGTATGAAG
* *
50190336 CCTTATATGGTCGTAGGTGTCGATAACTTGTTTGTTGGATGGAATTGAGTGAAAGAAGAATGACC
456 CCTTATATGGTCGTAGGTGTCGATAACTTGTTTGTTGGATGAAATTGAGTGAAAGAAGAATGATC
*
50190401 GGGCCG-AATTAATTCAAGAAAG
521 GGGCCGAAATTAATTCAAGAAAC
50190423 GGAATGGGATTGTATCACAATGGATTTTGTAACAGGGTTACCTTTATCGGCAAGTAAGAAAAATG
1 GGAATGGGATTGTATCACAATGGATTTTGTAACAGGGTTACCTTTATCGGCAAGTAAGAAAAATG
* * * * *
50190488 CTGTATAGGTGATTGTTGATCGACTTATGAAATCAGCT-ACTTCATTGTAGCCGGGACAAATTGG
66 CTGTATGGGTGATTGTTGATCGACTTACGAAATCGGCTCATTTCATTGTAGCCAGGACAAATTGG
* *
50190552 TCACTTCAAAAGCTTGCTGAAGTTTATATTTAAGAAATAGTAAGATTGTATGGTGTCCCTATGTT
131 TCACTTCAAAAGCTTGCTGAAGTTTATATTTAAGAAATAGTAAGATTGCACGGTGTCCCTATGTT
* * * *
50190617 AATAATTTCTGATCGAGATCCGTGGTTCACTTCGAGATTTTGGAAACTGTTACACAAATCTCTTG
196 AATAATTTCTGATCGAGATCCGCGGTTCACTTCGAGATTTTGGAAACAGTTGCACGAATCTCTTG
*
50190682 GTACGCGACTTAATTTTAGCACAGCTTTTCACCAGCAGACTGACGGACAATCTGAGCATGTTATT
261 GTACGCGACTTAATTTTAGCACAGCTTTTCACCAGCAGACTGATGGACAATCTGAGCATGTTATT
* * *
50190747 CAGATTTTGGAAGACATGCTTCGTACTTGTGTTATAGATTTCGAAGCAGGTTGGGAGCGTTACTT
326 CAGATTTTGGAAGACATGCTTCGTACTTGTGTTATTGATTTTGAATCAGGTTGGGAGCGTTACTT
* *
50190812 ACCTTTGGCCGAATTTGTATACAACAATAGTTTTCAATAGAGTATCCAAATGGCTCCGTATGAAG
391 ACCTTTGGCCGAATTTGTATACAACAATAGTTTTCAATCGAGTATTCAAATGGCTCCGTATGAAG
* * *
50190877 CCTTATATGGTCGTAGGTGTCGATAACTTATTTGTTAGATGGAATTGAGTGAAAGAAGAATGATC
456 CCTTATATGGTCGTAGGTGTCGATAACTTGTTTGTTGGATGAAATTGAGTGAAAGAAGAATGATC
*
50190942 GGGCTGAAATTAATTCAAGAAAC
521 GGGCCGAAATTAATTCAAGAAAC
* *
50190965 GGAATGAGATTGTATCATAATGGATTTTGTAACAGGGTTACCTTTATCGGCAAGTAAGAAAAATG
1 GGAATGGGATTGTATCACAATGGATTTTGTAACAGGGTTACCTTTATCGGCAAGTAAGAAAAATG
* *
50191030 CTGTATGGGTGATTATTGATCGACTTATGAAATCGGCTCATTTCATTGTAGCCAGGACAAATTGG
66 CTGTATGGGTGATTGTTGATCGACTTACGAAATCGGCTCATTTCATTGTAGCCAGGACAAATTGG
50191095 TCACTTCAAAAGCTTGCTGAAGTTTATATTTAAGAAATAGTAAGATTGCACGGTGTCCCCTATGT
131 TCACTTCAAAAGCTTGCTGAAGTTTATATTTAAGAAATAGTAAGATTGCACGGTGT-CCCTATGT
* * * *
50191160 CAATAATTTCTGA-CTGAGATTCGCGGTTCACTTCGAGATTTTAGAAACAGTTGCACGACTCTCT
195 TAATAATTTCTGATC-GAGATCCGCGGTTCACTTCGAGATTTTGGAAACAGTTGCACGAATCTCT
50191224 TGGTACGCGACTTAATTTTAGCACAGCTTTTCACCAGCAGACTGATGGACAATCTGAGCATGTTA
259 TGGTACGCGACTTAATTTTAGCACAGCTTTTCACCAGCAGACTGATGGACAATCTGAGCATGTTA
*
50191289 TTCAGATTTTGGAAGACATGCTTCGTAGTTGTGTTATTGATTTTGAATCAGGTTGGGAGCGTTAC
324 TTCAGATTTTGGAAGACATGCTTCGTACTTGTGTTATTGATTTTGAATCAGGTTGGGAGCGTTAC
* * *
50191354 TTACCTTTGGCCAAATTTGTATACAATAATAGTTTTCAATCGAGTATTCAAATGGCTCCGTATGG
389 TTACCTTTGGCCGAATTTGTATACAACAATAGTTTTCAATCGAGTATTCAAATGGCTCCGTATGA
*
50191419 AGCTTTATATGGTCGTAGGTGTCGATAACTTGTTTGTTGGATGAAATTGAGTGAAAGAAGAATGA
454 AGCCTTATATGGTCGTAGGTGTCGATAACTTGTTTGTTGGATGAAATTGAGTGAAAGAAGAATGA
* *
50191484 TTGGGCCGAAATTAATTCAAAAAAC
519 TCGGGCCGAAATTAATTCAAGAAAC
* * * *
50191509 GGAATGGGATTGTATCACAATGGATTTTGTAATAGGGTTACCTTTATTGGCAAGTAAGGAAAATA
1 GGAATGGGATTGTATCACAATGGATTTTGTAACAGGGTTACCTTTATCGGCAAGTAAGAAAAATG
* * *
50191574 CTGTATGGGTGATTGTTGATCGACTTACGAAATCGTCTCATTTTATTGTAGCCAGGAAAAATTGG
66 CTGTATGGGTGATTGTTGATCGACTTACGAAATCGGCTCATTTCATTGTAGCCAGGACAAATTGG
* *
50191639 TCACTTCAAAAGCTTGTTGAAGTTTATATTTAAGAAATAGTAAGATTTCACGGTGTCCCCTATGT
131 TCACTTCAAAAGCTTGCTGAAGTTTATATTTAAGAAATAGTAAGATTGCACGGTGT-CCCTATGT
* * * * *
50191704 TAATAATTTCTGATTGAGATTCACGGTTCACTTCGAGATTTTAGAAACAGTTGCACGACTCTCTT
195 TAATAATTTCTGATCGAGATCCGCGGTTCACTTCGAGATTTTGGAAACAGTTGCACGAATCTCTT
50191769 GGTACGCGACTTAATTTTAGCACAGCTTTTCACCAGCAGACTGATGGACAATCTGAGCAAT-TTA
260 GGTACGCGACTTAATTTTAGCACAGCTTTTCACCAGCAGACTGATGGACAATCTGAGC-ATGTTA
*
50191833 TTCAGATTTTGGAAGACATGCTTCGTACTTGTGTTATTGATTTTGAATCAGGTTGGGAGCGTTAT
324 TTCAGATTTTGGAAGACATGCTTCGTACTTGTGTTATTGATTTTGAATCAGGTTGGGAGCGTTAC
* *
50191898 TTACCTTTGGCCAAATTTGTATACAACAATAGTTTTCAATCGAGTATTCAAATGGCTTCGTATGA
389 TTACCTTTGGCCGAATTTGTATACAACAATAGTTTTCAATCGAGTATTCAAATGGCTCCGTATGA
* * *
50191963 AGCCTTATATGGTCGTAGGTGTTGATAACTTGTTTGCTGGACGAAATTGAGTGAAAGAAGAATGA
454 AGCCTTATATGGTCGTAGGTGTCGATAACTTGTTTGTTGGATGAAATTGAGTGAAAGAAGAATGA
* *
50192028 TCGAGTCGAAATTAATTCAAGAAAC
519 TCGGGCCGAAATTAATTCAAGAAAC
*
50192053 GGAATGGGATTGTATCACAATGGATTTTGTAACAGGGTTACCTTTATCGGCAAGTAAGAAAAATA
1 GGAATGGGATTGTATCACAATGGATTTTGTAACAGGGTTACCTTTATCGGCAAGTAAGAAAAATG
50192118 CTGTATGGGTGATTGTTGATCGACTTACGAAATCGGCTCATTTCATTGTAGCCAGGACAAATTGG
66 CTGTATGGGTGATTGTTGATCGACTTACGAAATCGGCTCATTTCATTGTAGCCAGGACAAATTGG
* *
50192183 TCACTTCAAAAGCTTGCTGAAGTTTATATTTAAGAAATATTAAGATTGCACGGTTTCCCTATGTT
131 TCACTTCAAAAGCTTGCTGAAGTTTATATTTAAGAAATAGTAAGATTGCACGGTGTCCCTATGTT
* * * *
50192248 AATAATTTCAGATCGAGATCCGTGGTTCACTTCAAGATTTTGGAAACAGTTGTACGAATCTCTTG
196 AATAATTTCTGATCGAGATCCGCGGTTCACTTCGAGATTTTGGAAACAGTTGCACGAATCTCTTG
* * *
50192313 GTACACGACTTAATTTTAGCACAGCTTTTCACCAGCAGATTGATGGACAATCTAAGCATGTTATT
261 GTACGCGACTTAATTTTAGCACAGCTTTTCACCAGCAGACTGATGGACAATCTGAGCATGTTATT
* * *
50192378 CAGATTTTGGAAGACATGCTTCGTACTTATGTTATTGATTTTGAATTAGGTTGTGAGCGTTACTT
326 CAGATTTTGGAAGACATGCTTCGTACTTGTGTTATTGATTTTGAATCAGGTTGGGAGCGTTACTT
** *
50192443 ACCAATGGCCGAATTTGTATACAAAAATAGTTTTCAATCGAGTATTCAAATGGCTCCGTATGAAG
391 ACCTTTGGCCGAATTTGTATACAACAATAGTTTTCAATCGAGTATTCAAATGGCTCCGTATGAAG
* ** *
50192508 CCTTATATGGTCGTAAGTGTCGATCGCTTGTTTGTTGGATGAAATTTAGTGAAAGAAGAATGATC
456 CCTTATATGGTCGTAGGTGTCGATAACTTGTTTGTTGGATGAAATTGAGTGAAAGAAGAATGATC
** *
50192573 GGG-CTTAATTAATTCATGAAAC
521 GGGCCGAAATTAATTCAAGAAAC
50192595 GGAA
1 GGAA
50192599 GACATTGTTA
Statistics
Matches: 2024, Mismatches: 145, Indels: 14
0.93 0.07 0.01
Matches are distributed among these distances:
541 390 0.19
542 231 0.11
543 384 0.19
544 1017 0.50
545 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.34
Consensus pattern (543 bp):
GGAATGGGATTGTATCACAATGGATTTTGTAACAGGGTTACCTTTATCGGCAAGTAAGAAAAATG
CTGTATGGGTGATTGTTGATCGACTTACGAAATCGGCTCATTTCATTGTAGCCAGGACAAATTGG
TCACTTCAAAAGCTTGCTGAAGTTTATATTTAAGAAATAGTAAGATTGCACGGTGTCCCTATGTT
AATAATTTCTGATCGAGATCCGCGGTTCACTTCGAGATTTTGGAAACAGTTGCACGAATCTCTTG
GTACGCGACTTAATTTTAGCACAGCTTTTCACCAGCAGACTGATGGACAATCTGAGCATGTTATT
CAGATTTTGGAAGACATGCTTCGTACTTGTGTTATTGATTTTGAATCAGGTTGGGAGCGTTACTT
ACCTTTGGCCGAATTTGTATACAACAATAGTTTTCAATCGAGTATTCAAATGGCTCCGTATGAAG
CCTTATATGGTCGTAGGTGTCGATAACTTGTTTGTTGGATGAAATTGAGTGAAAGAAGAATGATC
GGGCCGAAATTAATTCAAGAAAC
Found at i:50193510 original size:21 final size:21
Alignment explanation
Indices: 50193481--50193525 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
50193471 AAGAAAGACA
* *
50193481 AAAGCAAAACGAAACAG-AAAG
1 AAAG-AAAAAGAAAAAGAAAAG
50193502 AAAGAAAAAGAAAAAGAAAAG
1 AAAGAAAAAGAAAAAGAAAAG
50193523 AAA
1 AAA
50193526 AAAGAACCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.76, C:0.07, G:0.18, T:0.00
Consensus pattern (21 bp):
AAAGAAAAAGAAAAAGAAAAG
Found at i:50212410 original size:14 final size:14
Alignment explanation
Indices: 50212393--50212419 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50212383 GGGTTTATGA
50212393 GTTTTGGTTATAGG
1 GTTTTGGTTATAGG
50212407 GTTTTGGTTATAG
1 GTTTTGGTTATAG
50212420 ACAAATGATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (14 bp):
GTTTTGGTTATAGG
Found at i:50212930 original size:25 final size:24
Alignment explanation
Indices: 50212902--50212969 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
50212892 AAAAAGTTTC
*
50212902 AAATAAACAATATATAAAAAACTTA
1 AAATAAATAATATA-AAAAAACTTA
* * **
50212927 AAATGAATAATAGTAAAACAGTTTA
1 AAATAAATAATA-TAAAAAAACTTA
50212952 AAATAAATAATATAAAAA
1 AAATAAATAATATAAAAA
50212970 TAACATATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
24 5 0.14
25 28 0.80
26 2 0.06
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.25
Consensus pattern (24 bp):
AAATAAATAATATAAAAAAACTTA
Found at i:50212956 original size:50 final size:50
Alignment explanation
Indices: 50212848--50213127 Score: 177
Period size: 48 Copynumber: 5.9 Consensus size: 50
50212838 AGTAAATAAT
** *
50212848 AGTTTAAGCTAAATAATTTATAAGAACAA-TTCAAAATAAAT-A-A-TAAAA-
1 AGTTTAAAATAAATAATATATAA-AA-AACTT-AAAATAAATAATAGTAAAAC
* * *
50212896 AGTTTCAAATAAACAATATATAAAAAACTTAAAATGAATAATAGTAAAAC
1 AGTTTAAAATAAATAATATATAAAAAACTTAAAATAAATAATAGTAAAAC
* * *
50212946 AGTTTAAAATAAAT-A-ATAT-AAAAA--TAACAT--ATAA-A--ACAAT
1 AGTTTAAAATAAATAATATATAAAAAACTTAAAATAAATAATAGTAAAAC
** * ** * ** * *
50212986 TTTTAAAAAAGAATAATATATACAAATTTAAAAGAT-AATATATA-TAATA-
1 AGTTTAAAATAAATAATATATAAAAAACTTAAA-ATAAATA-ATAGTAAAAC
*
50213035 -GTTTAAAATAAATAATATATAAAAAAATT-AAATAAATAATATGTAAAAC
1 AGTTTAAAATAAATAATATATAAAAAACTTAAAATAAATAATA-GTAAAAC
50213084 AGTTTAAAATAAATAATATATAAAAAAACTTAAAATAAATAATA
1 AGTTTAAAATAAATAATATAT-AAAAAACTTAAAATAAATAATA
50213128 ATGAAAGAGC
Statistics
Matches: 178, Mismatches: 32, Indels: 40
0.71 0.13 0.16
Matches are distributed among these distances:
40 12 0.07
41 1 0.01
42 5 0.03
43 7 0.04
45 7 0.04
46 17 0.10
47 19 0.11
48 49 0.28
49 7 0.04
50 34 0.19
51 8 0.04
52 12 0.07
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (50 bp):
AGTTTAAAATAAATAATATATAAAAAACTTAAAATAAATAATAGTAAAAC
Found at i:50213039 original size:24 final size:22
Alignment explanation
Indices: 50212992--50213057 Score: 71
Period size: 24 Copynumber: 2.9 Consensus size: 22
50212982 CAATTTTTAA
*
50212992 AAAAGAATAATATATACAAATTT
1 AAAAG-ATAATATATATAAATTT
50213015 AAAAGATAATATATATAATAGTTT
1 AAAAGATAATATATATAA-A-TTT
*
50213039 AAAATA-AATAATATATAAA
1 AAAAGATAAT-ATATATAAA
50213058 AAAATTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 12 0.32
23 10 0.26
24 16 0.42
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (22 bp):
AAAAGATAATATATATAAATTT
Found at i:50213045 original size:22 final size:21
Alignment explanation
Indices: 50212997--50213057 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 21
50212987 TTTAAAAAAG
*
50212997 AATAATATATACAAATTTAAA
1 AATAATATATATAAATTTAAA
50213018 AGATAATATATATAATAGTTT-AA
1 A-ATAATATATATAA-A-TTTAAA
50213041 AATAAATAATATATAAA
1 AAT-AAT-ATATATAAA
50213058 AAAATTAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
21 1 0.03
22 14 0.41
23 8 0.24
24 11 0.32
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (21 bp):
AATAATATATATAAATTTAAA
Found at i:50213100 original size:26 final size:25
Alignment explanation
Indices: 50212967--50213127 Score: 141
Period size: 26 Copynumber: 6.3 Consensus size: 25
50212957 AATAATATAA
* *
50212967 AAATAACATATAAAACAATTTTTAAAAA
1 AAATAATATATAAAA-AA--TTTAAAAT
*
50212995 AGAATAATATAT-ACAAATTT-AAA-
1 A-AATAATATATAAAAAATTTAAAAT
* * *
50213018 AGATAATATATATAATAGTTTAAAAT
1 AAATAATATATA-AAAAATTTAAAAT
*
50213044 AAATAATATATAAAAAAATT-AAAT
1 AAATAATATATAAAAAATTTAAAAT
* *
50213068 AAATAATATGTAAAACAGTTTAAAAT
1 AAATAATATATAAAA-AATTTAAAAT
*
50213094 AAATAATATATAAAAAAACTTAAAAT
1 AAATAATATAT-AAAAAATTTAAAAT
50213120 AAATAATA
1 AAATAATA
50213128 ATGAAAGAGC
Statistics
Matches: 109, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
22 9 0.08
23 1 0.01
24 26 0.24
25 14 0.13
26 41 0.38
27 6 0.06
28 3 0.03
29 9 0.08
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.30
Consensus pattern (25 bp):
AAATAATATATAAAAAATTTAAAAT
Found at i:50213151 original size:52 final size:50
Alignment explanation
Indices: 50212987--50213127 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 50
50212977 TAAAACAATT
* * * * * * *
50212987 TTTAAAAAAGAATAATATAT-ACAAATTTAAA-AGATAATATATATAATAG
1 TTTAAAATA-AATAATATATAAAAAAATTAAATAAATAATATGTAAAACAG
50213036 TTTAAAATAAATAATATATAAAAAAATTAAATAAATAATATGTAAAACAG
1 TTTAAAATAAATAATATATAAAAAAATTAAATAAATAATATGTAAAACAG
50213086 TTTAAAATAAATAATATATAAAAAAACTTAAAATAAATAATA
1 TTTAAAATAAATAATATATAAAAAAA-TT-AAATAAATAATA
50213128 ATGAAAGAGC
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
48 10 0.12
49 17 0.21
50 40 0.49
51 2 0.02
52 12 0.15
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (50 bp):
TTTAAAATAAATAATATATAAAAAAATTAAATAAATAATATGTAAAACAG
Found at i:50215180 original size:104 final size:104
Alignment explanation
Indices: 50215000--50215266 Score: 453
Period size: 104 Copynumber: 2.6 Consensus size: 104
50214990 TGTATATAAA
** * * * *
50215000 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTTATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
50215065 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
50215104 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
50215169 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
50215208 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGTGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
50215267 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 153 1.00
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:50220313 original size:14 final size:15
Alignment explanation
Indices: 50220290--50220322 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
50220280 ATCAACGTTT
*
50220290 TTCCAGATAAGG-CC
1 TTCCACATAAGGTCC
50220304 TTCCACATAAGGTCC
1 TTCCACATAAGGTCC
50220319 TTCC
1 TTCC
50220323 CAATTTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.27
Consensus pattern (15 bp):
TTCCACATAAGGTCC
Found at i:50223408 original size:15 final size:15
Alignment explanation
Indices: 50223377--50223421 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
50223367 TGTGAAATTT
50223377 AATGC-ATGCAATGA
1 AATGCAATGCAATGA
50223391 AATGCAATGCAGAT-A
1 AATGCAATGCA-ATGA
*
50223406 AATGGAATG-AATGA
1 AATGCAATGCAATGA
50223420 AA
1 AA
50223422 AAAAAAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 9 0.33
15 14 0.52
16 2 0.07
ACGTcount: A:0.49, C:0.09, G:0.22, T:0.20
Consensus pattern (15 bp):
AATGCAATGCAATGA
Found at i:50225455 original size:25 final size:24
Alignment explanation
Indices: 50225410--50225494 Score: 91
Period size: 25 Copynumber: 3.5 Consensus size: 24
50225400 AATTCAAAAT
* *
50225410 AAATAATAAAAAGTTTCAAATAAA
1 AAATAATAAAAAATTTAAAATAAA
* *
50225434 AAATATATAAAAAACTTAAAATGAA
1 AAATA-ATAAAAAATTTAAAATAAA
*
50225459 TAATAATAAAACAATTTAAAATAAA
1 AAATAATAAAA-AATTTAAAATAAA
*
50225484 TAAT-ATAAAAA
1 AAATAATAAAAA
50225495 TAACATATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.02
24 17 0.33
25 34 0.65
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (24 bp):
AAATAATAAAAAATTTAAAATAAA
Found at i:50225543 original size:50 final size:47
Alignment explanation
Indices: 50225479--50225635 Score: 145
Period size: 50 Copynumber: 3.1 Consensus size: 47
50225469 ACAATTTAAA
* *
50225479 ATAAATAATATAAAAATAACATATAAAACAGTTTTTAAAA-AAGAATAATAT
1 ATAAA-AATTTAAAAATAATATATAAAACAG--TTTAAAATAA-AA-AATAT
* *
50225530 ATAAAAATTTAAAAGATAATATATATAATAGTTTAAAATAAAAAATAT
1 ATAAAAATTTAAAA-ATAATATATAAAACAGTTTAAAATAAAAAATAT
* * * *
50225578 ATAAAAAATTTAAATAAATAATATGTAAAACAATTTCAAATAAATAATAT
1 AT-AAAAATTT-AA-AAATAATATATAAAACAGTTTAAAATAAAAAATAT
50225628 ATGAAAAA
1 AT-AAAAA
50225636 AAACTTAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
48 7 0.08
49 17 0.19
50 46 0.51
51 20 0.22
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (47 bp):
ATAAAAATTTAAAAATAATATATAAAACAGTTTAAAATAAAAAATAT
Found at i:50225553 original size:24 final size:24
Alignment explanation
Indices: 50225512--50225629 Score: 105
Period size: 25 Copynumber: 4.7 Consensus size: 24
50225502 TAAAACAGTT
*
50225512 TTTAAAAAAGAATAATATATAAAAA
1 TTTAAAAAATAAT-ATATATAAAAA
* * *
50225537 TTTAAAAGATAATATATATAATAG
1 TTTAAAAAATAATATATATAAAAA
*
50225561 TTTAAAATAA-AAAATATATAAAAAA
1 TTTAAAA-AATAATATATAT-AAAAA
*
50225586 TTTAAATAAATAATATGTA-AAACAA
1 TTTAAA-AAATAATATATATAAA-AA
50225611 TTTCAAATAAATAATATAT
1 TTT-AAA-AAATAATATAT
50225630 GAAAAAAAAC
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
24 27 0.36
25 28 0.37
26 21 0.28
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (24 bp):
TTTAAAAAATAATATATATAAAAA
Found at i:50225576 original size:26 final size:24
Alignment explanation
Indices: 50225522--50225654 Score: 126
Period size: 26 Copynumber: 5.3 Consensus size: 24
50225512 TTTAAAAAAG
50225522 AATAATATAT-AAAAATTTAAA-A
1 AATAATATATAAAAAATTTAAATA
* * *
50225544 GATAATATATATAATAGTTTAAAATA
1 AATAATATATA-AAAAATTT-AAATA
*
50225570 AAAAATATATAAAAAATTTAAATA
1 AATAATATATAAAAAATTTAAATA
*
50225594 AATAATATGTAAAACAATTTCAAATA
1 AATAATATATAAAA-AATTT-AAATA
*
50225620 AATAATATATGAAAAAAAACTTAAAATA
1 AATAATATAT---AAAAAA-TTTAAATA
50225648 AATAATA
1 AATAATA
50225655 ATGAAAGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
22 9 0.10
24 23 0.26
25 14 0.16
26 24 0.27
28 14 0.16
29 6 0.07
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
AATAATATATAAAAAATTTAAATA
Found at i:50226870 original size:15 final size:15
Alignment explanation
Indices: 50226839--50226883 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
50226829 TGTGAAATTT
50226839 AATGC-ATGCAATGA
1 AATGCAATGCAATGA
50226853 AATGCAATGCAGAT-A
1 AATGCAATGCA-ATGA
*
50226868 AATGGAATG-AATGA
1 AATGCAATGCAATGA
50226882 AA
1 AA
50226884 AAAAAAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 2 0.07
14 9 0.33
15 14 0.52
16 2 0.07
ACGTcount: A:0.49, C:0.09, G:0.22, T:0.20
Consensus pattern (15 bp):
AATGCAATGCAATGA
Found at i:50228917 original size:25 final size:24
Alignment explanation
Indices: 50228872--50228956 Score: 91
Period size: 25 Copynumber: 3.5 Consensus size: 24
50228862 AATTCAAAAT
* *
50228872 AAATAATAAAAAGTTTCAAATAAA
1 AAATAATAAAAAATTTAAAATAAA
* *
50228896 AAATATATAAAAAACTTAAAATGAA
1 AAATA-ATAAAAAATTTAAAATAAA
*
50228921 TAATAATAAAACAATTTAAAATAAA
1 AAATAATAAAA-AATTTAAAATAAA
*
50228946 TAAT-ATAAAAA
1 AAATAATAAAAA
50228957 TAACATATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.02
24 17 0.33
25 34 0.65
ACGTcount: A:0.68, C:0.04, G:0.02, T:0.26
Consensus pattern (24 bp):
AAATAATAAAAAATTTAAAATAAA
Found at i:50229005 original size:50 final size:47
Alignment explanation
Indices: 50228941--50229097 Score: 145
Period size: 50 Copynumber: 3.1 Consensus size: 47
50228931 ACAATTTAAA
* *
50228941 ATAAATAATATAAAAATAACATATAAAACAGTTTTTAAAA-AAGAATAATAT
1 ATAAA-AATTTAAAAATAATATATAAAACAG--TTTAAAATAA-AA-AATAT
* *
50228992 ATAAAAATTTAAAAGATAATATATATAATAGTTTAAAATAAAAAATAT
1 ATAAAAATTTAAAA-ATAATATATAAAACAGTTTAAAATAAAAAATAT
* * * *
50229040 ATAAAAAATTTAAATAAATAATATGTAAAACAATTTCAAATAAATAATAT
1 AT-AAAAATTT-AA-AAATAATATATAAAACAGTTTAAAATAAAAAATAT
50229090 ATGAAAAA
1 AT-AAAAA
50229098 AAACTTAAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
48 7 0.08
49 17 0.19
50 46 0.51
51 20 0.22
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (47 bp):
ATAAAAATTTAAAAATAATATATAAAACAGTTTAAAATAAAAAATAT
Found at i:50229015 original size:24 final size:24
Alignment explanation
Indices: 50228974--50229091 Score: 105
Period size: 25 Copynumber: 4.7 Consensus size: 24
50228964 TAAAACAGTT
*
50228974 TTTAAAAAAGAATAATATATAAAAA
1 TTTAAAAAATAAT-ATATATAAAAA
* * *
50228999 TTTAAAAGATAATATATATAATAG
1 TTTAAAAAATAATATATATAAAAA
*
50229023 TTTAAAATAA-AAAATATATAAAAAA
1 TTTAAAA-AATAATATATAT-AAAAA
*
50229048 TTTAAATAAATAATATGTA-AAACAA
1 TTTAAA-AAATAATATATATAAA-AA
50229073 TTTCAAATAAATAATATAT
1 TTT-AAA-AAATAATATAT
50229092 GAAAAAAAAC
Statistics
Matches: 76, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
24 27 0.36
25 28 0.37
26 21 0.28
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (24 bp):
TTTAAAAAATAATATATATAAAAA
Found at i:50229038 original size:26 final size:24
Alignment explanation
Indices: 50228984--50229116 Score: 126
Period size: 26 Copynumber: 5.3 Consensus size: 24
50228974 TTTAAAAAAG
50228984 AATAATATAT-AAAAATTTAAA-A
1 AATAATATATAAAAAATTTAAATA
* * *
50229006 GATAATATATATAATAGTTTAAAATA
1 AATAATATATA-AAAAATTT-AAATA
*
50229032 AAAAATATATAAAAAATTTAAATA
1 AATAATATATAAAAAATTTAAATA
*
50229056 AATAATATGTAAAACAATTTCAAATA
1 AATAATATATAAAA-AATTT-AAATA
*
50229082 AATAATATATGAAAAAAAACTTAAAATA
1 AATAATATAT---AAAAAA-TTTAAATA
50229110 AATAATA
1 AATAATA
50229117 ATGAAAGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
22 9 0.10
24 23 0.26
25 14 0.16
26 24 0.27
28 14 0.16
29 6 0.07
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (24 bp):
AATAATATATAAAAAATTTAAATA
Found at i:50230129 original size:22 final size:23
Alignment explanation
Indices: 50230099--50230141 Score: 63
Period size: 21 Copynumber: 1.9 Consensus size: 23
50230089 TTTTTGTTTT
50230099 TTTTAGTTG-TTTCT-TCTGCTG
1 TTTTAGTTGATTTCTCTCTGCTG
50230120 TTTTACGTTGATTTCTCTCTGC
1 TTTTA-GTTGATTTCTCTCTGC
50230142 AGGTGTCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 4 0.21
23 5 0.26
24 5 0.26
ACGTcount: A:0.07, C:0.19, G:0.16, T:0.58
Consensus pattern (23 bp):
TTTTAGTTGATTTCTCTCTGCTG
Found at i:50230735 original size:24 final size:23
Alignment explanation
Indices: 50230706--50230762 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 23
50230696 CCCTCTTCCT
*
50230706 AGTTAATTCTAATTTTTTAA-AAAG
1 AGTTAATT-T-ATTTTTTAACAAAA
50230730 AGTTAAATTTATTTTTTAACAAAA
1 AGTT-AATTTATTTTTTAACAAAA
50230754 ATGTTAATT
1 A-GTTAATT
50230763 AAAATATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
23 9 0.31
24 13 0.45
25 7 0.24
ACGTcount: A:0.42, C:0.04, G:0.07, T:0.47
Consensus pattern (23 bp):
AGTTAATTTATTTTTTAACAAAA
Found at i:50232309 original size:18 final size:18
Alignment explanation
Indices: 50232286--50232372 Score: 61
Period size: 18 Copynumber: 4.8 Consensus size: 18
50232276 CCAAATTATT
50232286 ATTTTAGAAATTTTTTAA
1 ATTTTAGAAATTTTTTAA
*
50232304 ATTTTA-AATTTTTTTAA
1 ATTTTAGAAATTTTTTAA
** *
50232321 AGATTATG-ATTTTTTTAA
1 ATTTTA-GAAATTTTTTAA
* * **
50232339 ATTATATAAATTTTAGAA
1 ATTTTAGAAATTTTTTAA
*
50232357 TTTTTAGAAATATTTT
1 ATTTTAGAAAT-TTTT
50232373 GAATCATTTT
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
17 14 0.27
18 34 0.67
19 3 0.06
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
ATTTTAGAAATTTTTTAA
Found at i:50232318 original size:17 final size:18
Alignment explanation
Indices: 50232286--50232341 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
50232276 CCAAATTATT
*
50232286 ATTTTAGAAATTTTTTAA
1 ATTTTAGAATTTTTTTAA
50232304 ATTTTA-AATTTTTTTAA
1 ATTTTAGAATTTTTTTAA
**
50232321 AGATTATG-ATTTTTTTAA
1 ATTTTA-GAATTTTTTTAA
50232339 ATT
1 ATT
50232342 ATATAAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
17 14 0.45
18 17 0.55
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATTTTAGAATTTTTTTAA
Found at i:50233316 original size:3 final size:3
Alignment explanation
Indices: 50233308--50233333 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50233298 TTCTATGACC
50233308 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
50233334 GTGCCTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:50234430 original size:10 final size:9
Alignment explanation
Indices: 50234393--50234458 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 9
50234383 CTTCTCCTTC
50234393 TTTTTATAA
1 TTTTTATAA
50234402 -TTTTATAA
1 TTTTTATAA
50234410 TATTTTA-AA
1 T-TTTTATAA
50234419 TTTTTAATAA
1 TTTTT-ATAA
*
50234429 TTTCTTTTTACA
1 -TT-TTTATA-A
50234441 TTTTTA-AA
1 TTTTTATAA
50234449 -TTTTATAA
1 TTTTTATAA
50234457 TT
1 TT
50234459 AAAAAAATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 18
0.70 0.03 0.27
Matches are distributed among these distances:
7 5 0.11
8 15 0.33
9 6 0.13
10 10 0.22
11 6 0.13
12 4 0.09
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50236197 original size:26 final size:25
Alignment explanation
Indices: 50236168--50236427 Score: 129
Period size: 26 Copynumber: 10.0 Consensus size: 25
50236158 AAACGAAACA
* *
50236168 AAATAATATATAGAGCAATTTGAAGT
1 AAATAATATATA-AGCAATTTAAAAT
* * *
50236194 AAATAGTATA-AAACAATTTAAAGT
1 AAATAATATATAAGCAATTTAAAAT
* * *
50236218 -AATAATATGTAAAACAAATTAAAAT
1 AAATAATATAT-AAGCAATTTAAAAT
*
50236243 AAATAATATACAAAGCAATTTAAAAT
1 AAATAATATA-TAAGCAATTTAAAAT
* *
50236269 AAATAACATATAAGACAGTTT--AA-
1 AAATAATATATAAG-CAATTTAAAAT
*
50236292 AAATAATATATAA-AAAGTTTAAAAT
1 AAATAATATATAAGCAA-TTTAAAAT
* * * *
50236317 AAATAATATACAAAACAGTTAAAACAT
1 AAATAATATA-TAAGCAATTTAAA-AT
* *
50236344 AAATGATATATATAAAAAAAACAATTCAAAAT
1 AAAT-A-ATATAT-----AAGCAATTTAAAAT
*
50236376 AAATAATATATATG-ATAGTTTAAAAAT
1 AAATAATATATAAGCA-A-TTT-AAAAT
**
50236403 AAATAATATATAAAAAATTTAAAAT
1 AAATAATATATAAGCAATTTAAAAT
50236428 GGATAATAGT
Statistics
Matches: 182, Mismatches: 29, Indels: 47
0.71 0.11 0.18
Matches are distributed among these distances:
21 1 0.01
22 3 0.02
23 19 0.10
24 16 0.09
25 33 0.18
26 55 0.30
27 25 0.14
28 2 0.01
29 5 0.03
30 6 0.03
31 1 0.01
32 6 0.03
33 10 0.05
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.29
Consensus pattern (25 bp):
AAATAATATATAAGCAATTTAAAAT
Found at i:50236261 original size:75 final size:74
Alignment explanation
Indices: 50236168--50236330 Score: 195
Period size: 75 Copynumber: 2.2 Consensus size: 74
50236158 AAACGAAACA
* * * * * *
50236168 AAATAATATATAGAGCAATTTGAAGTAAAT-A-GTATAAAACAATTTAAAGTAATAATATGTAAA
1 AAATAATATACAAAGCAATTTAAAATAAATAACATATAAAACAATTTAAA--AATAATATATAAA
50236231 ACAAATTAAAAT
64 A-AAATTAAAAT
* *
50236243 AAATAATATACAAAGCAATTTAAAATAAATAACATATAAGACAGTTTAAAAATAATATATAAAAA
1 AAATAATATACAAAGCAATTTAAAATAAATAACATATAAAACAATTTAAAAATAATATATAAAAA
**
50236308 GTTTAAAAT
66 AATTAAAAT
50236317 AAATAATATACAAA
1 AAATAATATACAAA
50236331 ACAGTTAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
74 22 0.29
75 39 0.51
76 1 0.01
77 14 0.18
ACGTcount: A:0.60, C:0.05, G:0.07, T:0.28
Consensus pattern (74 bp):
AAATAATATACAAAGCAATTTAAAATAAATAACATATAAAACAATTTAAAAATAATATATAAAAA
AATTAAAAT
Found at i:50236292 original size:52 final size:50
Alignment explanation
Indices: 50236168--50236514 Score: 202
Period size: 52 Copynumber: 6.7 Consensus size: 50
50236158 AAACGAAACA
* * * * * * *
50236168 AAATAATATATAGAGCAATTTGAAGTAAATAGTATAAAACAATTTAAAGT
1 AAATAATATATAAAACAGTTTAAAATAAATAATATAAAACAATTTAAAAT
* **
50236218 -AATAATATGTAAAACAAATTAAAATAAATAATATACAAAGCAATTTAAAAT
1 AAATAATATATAAAACAGTTTAAAATAAATAATATA-AAA-CAATTTAAAAT
* * *
50236269 AAATAACATATAAGACAGTTTAAAA-ATAAT-ATATAAAA-AGTTTAAAAT
1 AAATAATATATAAAACAGTTTAAAATA-AATAATATAAAACAATTTAAAAT
* * *
50236317 AAATAATATACAAAACAGTTAAAACATAAATGATATATATAAAAAAAACAATTCAAAAT
1 AAATAATATATAAAACAGTTTAAA-AT-AA--ATA-ATAT----AAAACAATTTAAAAT
** * *
50236376 AAATAATATATATGATAGTTTAAAAATAAATAATATATAAAAAATTTAAAAT
1 AAATAATATATAAAACAGTTT-AAAATAAATAATATA-AAACAATTTAAAAT
** * * * * * * * ** *
50236428 GGATAATAGTTTGAAATAGGTTAAAAGACATGATAGGTGGAA-AACTTAAAAT
1 AAATAATA-TATAAAACAGTTTAAAATAAATAATA--TAAAACAATTTAAAAT
*
50236480 AAATAATA-ATAAAACAATTTAAAATAAATAATATA
1 AAATAATATATAAAACAGTTTAAAATAAATAATATA
50236515 TGAGAAAAAG
Statistics
Matches: 225, Mismatches: 51, Indels: 44
0.70 0.16 0.14
Matches are distributed among these distances:
48 30 0.13
49 29 0.13
50 24 0.11
51 18 0.08
52 67 0.30
53 10 0.04
54 5 0.02
55 4 0.02
56 3 0.01
58 6 0.03
59 26 0.12
60 3 0.01
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.29
Consensus pattern (50 bp):
AAATAATATATAAAACAGTTTAAAATAAATAATATAAAACAATTTAAAAT
Found at i:50236317 original size:48 final size:47
Alignment explanation
Indices: 50236243--50236345 Score: 127
Period size: 48 Copynumber: 2.1 Consensus size: 47
50236233 AAATTAAAAT
* *
50236243 AAATAATATACAAAGCAATTTAAAATAAATAACATATAAGACAGTTTAA
1 AAATAATATACAAA-CAATTTAAAATAAATAACATACAAAACAG-TTAA
* *
50236292 AAATAATATATAAA-AAGTTTAAAATAAATAATATACAAAACAGTTAA
1 AAATAATATACAAACAA-TTTAAAATAAATAACATACAAAACAGTTAA
50236339 AACATAA
1 AA-ATAA
50236346 ATGATATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
47 8 0.17
48 27 0.56
49 13 0.27
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (47 bp):
AAATAATATACAAACAATTTAAAATAAATAACATACAAAACAGTTAA
Found at i:50236318 original size:21 final size:23
Alignment explanation
Indices: 50236269--50236315 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
50236259 AATTTAAAAT
*
50236269 AAATAACATATAAGACAGTTTAA
1 AAATAACATATAAGAAAGTTTAA
*
50236292 AAATAATATATAA-AAAGTTTAA
1 AAATAACATATAAGAAAGTTTAA
50236314 AA
1 AA
50236316 TAAATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (23 bp):
AAATAACATATAAGAAAGTTTAA
Found at i:50236326 original size:25 final size:25
Alignment explanation
Indices: 50236195--50236536 Score: 158
Period size: 25 Copynumber: 13.0 Consensus size: 25
50236185 ATTTGAAGTA
* *
50236195 AATAGTATAAAACAATTTAAAGT-AAT
1 AATA-TATAAAA-AGTTTAAAATAAAT
* **
50236221 AATATGTAAAACAAATTAAAATAAAT
1 AATATATAAAA-AGTTTAAAATAAAT
*
50236247 AATATACAAAGCAA-TTTAAAATAAAT
1 AATATATAAA--AAGTTTAAAATAAAT
* *
50236273 AACATATAAGACAGTTT--AA-AAAT
1 AATATATAA-AAAGTTTAAAATAAAT
50236296 AATATATAAAAAGTTTAAAATAAAT
1 AATATATAAAAAGTTTAAAATAAAT
* *
50236321 AATATACAAAACAGTTAAAACATAAAT
1 AATATATAAAA-AGTTTAAA-ATAAAT
* *
50236348 GATATATATAAAAAAAACAATTCAAAATAAAT
1 -A-ATATAT----AAAA-AGTTTAAAATAAAT
* *
50236380 AATATATATGATAGTTTAAAAATAAAT
1 AATATATA-AAAAGTTT-AAAATAAAT
* **
50236407 AATATATAAAAAATTTAAAATGGAT
1 AATATATAAAAAGTTTAAAATAAAT
* * * * *
50236432 AATAGTTTGAAATAGGTTAAAAGACAT
1 AATA-TAT-AAAAAGTTTAAAATAAAT
* ** * *
50236459 GATAGGTGGAAAA-CTTAAAATAAAT
1 AATATAT-AAAAAGTTTAAAATAAAT
*
50236484 AATA-ATAAAACAATTTAAAATAAAT
1 AATATATAAAA-AGTTTAAAATAAAT
50236509 AATATATGAGAAAAAGGTTTAAAATAAA
1 AATATAT---AAAAA-GTTTAAAATAAA
50236537 CAAATAAAAA
Statistics
Matches: 244, Mismatches: 45, Indels: 51
0.72 0.13 0.15
Matches are distributed among these distances:
22 6 0.02
23 15 0.06
24 6 0.02
25 68 0.28
26 61 0.25
27 41 0.17
28 3 0.01
29 20 0.08
30 6 0.02
31 1 0.00
32 6 0.02
33 11 0.05
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (25 bp):
AATATATAAAAAGTTTAAAATAAAT
Found at i:50237626 original size:18 final size:17
Alignment explanation
Indices: 50237599--50237632 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50237589 ACGGTGGCGG
50237599 TGGTGCGCGTGAGGAGGC
1 TGGTGCGCGTG-GGAGGC
*
50237617 TGGTGTGCGTGGGAGG
1 TGGTGCGCGTGGGAGG
50237633 AGTGGCGGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.09, C:0.12, G:0.59, T:0.21
Consensus pattern (17 bp):
TGGTGCGCGTGGGAGGC
Found at i:50249565 original size:50 final size:49
Alignment explanation
Indices: 50249511--50249666 Score: 139
Period size: 50 Copynumber: 3.2 Consensus size: 49
50249501 TATACTCCTG
* *
50249511 AAGTTGTAGTGGGTCAGATTGAAACTACAATGGCATATCTTATCTCCTTA
1 AAGTTGCAGTGGGTCAGATTGAAACTACAATGGCAAATCTTATC-CCTTA
* * *
50249561 AAGTTGTAGTGGAG-CAAGA-TGAAGCT---AT---AAATCCTATACCCTTA
1 AAGTTGCAGTGG-GTC-AGATTGAAACTACAATGGCAAATCTTAT-CCCTTA
* * *
50249605 AAGTTGCAGTGGGTCAAATTGAAACTACAATGGCAGATCTTATCCCCTTG
1 AAGTTGCAGTGGGTCAGATTGAAACTACAATGGCAAATCTTAT-CCCTTA
50249655 AAGTTGCAGTGG
1 AAGTTGCAGTGG
50249667 AGCAAGATGA
Statistics
Matches: 85, Mismatches: 10, Indels: 22
0.73 0.09 0.19
Matches are distributed among these distances:
43 3 0.04
44 30 0.35
45 1 0.01
47 4 0.05
50 43 0.51
51 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (49 bp):
AAGTTGCAGTGGGTCAGATTGAAACTACAATGGCAAATCTTATCCCTTA
Found at i:50249616 original size:94 final size:94
Alignment explanation
Indices: 50249493--50250324 Score: 828
Period size: 94 Copynumber: 8.9 Consensus size: 94
50249483 CAATGAAACC
* * * * *
50249493 ACAAACCCTATACTCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAATGGCATATCTTATCTCC
1 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCAGATCTTATCTCC
*
50249558 TTAAAGTTGTAGTGGAGCAAGATGAAGCT
66 TTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
50249587 ATAAATCCTATACCCTTAAAGTTGCAGTGGGTCAAATTGAAACTACAATGGCAGATCTTATCCCC
1 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCAGATCTTATCTCC
* *
50249652 TTGAAGTTGCAGTGGAGCAAGATGAAGCA
66 TTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * **
50249681 ATAAATCCTATACCCCTAAAGTTGTAGTGGTTCAGATTGAAACCAGAATGGTGGATCTTATCTCC
1 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCAGATCTTATCTCC
* *
50249746 CTAAAGTTGTAGTGGAGCAAGATGAAGCT
66 TTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * *
50249775 AGAAATCCTATACCCCTAAAGTTGCAGTGGGCCGGATTGAAGCTACCATAGC-GAATCTTATCTC
1 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCAG-ATCTTATCTC
* * * *
50249839 CCTAAAGTTGCAGCGGAGTAAGATGAAACT
65 CTTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * * **
50249869 ACAAACCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGACATTACAATAGTGGATCTTATCTCC
1 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCAGATCTTATCTCC
* * * *
50249934 TTGAAGTTGTAGTGAAGTAAGATGAAGCT
66 TTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * *
50249963 ACAAATCCTATACCCCTAGAGTTGCAGTGGGTCAGATTGAAGCTACCATAGTG-A-ATCTTATCT
1 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAACTACAAT-G-GCAGATCTTATCT
* * * *
50250026 CCTTGAAGTTACAGTGAAGCAAGATGAAACT
64 CCTTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * **
50250057 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAAACTACAATGGTGGATCTTATCTCC
1 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCAGATCTTATCTCC
* * *
50250122 CTGAAGTTACAGTGGAGCAAGATGAAGCT
66 TTAAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * ** * * *** * *
50250151 ACAAAACTTATATCCCTAAAATTACAGTAGAAT-GGATTAAAACTACAACAACAAATCTCATCTC
1 ACAAATCCTATACCCCTAAAGTTGCAGT-GGGTCAGATTGAAACTACAATGGCAGATCTTATCTC
* * *
50250215 TTTAAAGTTGCAGTAGAGTAAGATGAAGCT
65 CTTAAAGTTGCAGTGGAGCAAGATGAAGCT
** * ** * * *
50250245 ACAAATCCTATACCCCTGGAGTTGTAGTGGGTTGGATTTAAACTACCATAGCTA-ATCTTATCTC
1 ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAACTACAATGGC-AGATCTTATCTC
*
50250309 CCTAAAGTTGCAGTGG
65 CTTAAAGTTGCAGTGG
50250325 GTCAGATTAA
Statistics
Matches: 607, Mismatches: 122, Indels: 18
0.81 0.16 0.02
Matches are distributed among these distances:
92 1 0.00
93 4 0.01
94 597 0.98
95 4 0.01
96 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (94 bp):
ACAAATCCTATACCCCTAAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCAGATCTTATCTCC
TTAAAGTTGCAGTGGAGCAAGATGAAGCT
Found at i:50249835 original size:188 final size:188
Alignment explanation
Indices: 50249485--50250324 Score: 932
Period size: 188 Copynumber: 4.5 Consensus size: 188
50249475 TAACAGATCA
* * * ***
50249485 ATGAAACCACAAACCCTATACTCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAATGGCATATC
1 ATGAAACTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAATGGTGGATC
* * *
50249550 TTATCTCCTTAAAGTTGTAGTGGAGCAAGATGAAGCTATAAATCCTATACCCTTAAAGTTGCAGT
66 TTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGT
* * *
50249615 GGGTCAAATTGAAACTACAATGGC-AGATCTTATCCCCTTGAAGTTGCAGTGGAGCAAG
131 GGGTCAGATTGAAACTACAATAGCGA-ATCTTATCCCCTTAAAGTTGCAGTGGAGCAAG
* * * * * * *
50249673 ATGAAGCAATAAATCCTATACCCCTAAAGTTGTAGTGGTTCAGATTGAAACCAGAATGGTGGATC
1 ATGAAACTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAATGGTGGATC
*
50249738 TTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTAGAAATCCTATACCCCTAAAGTTGCAGT
66 TTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGT
* * * * * *
50249803 GGGCCGGATTGAAGCTACCATAGCGAATCTTATCTCCC-TAAAGTTGCAGCGGAGTAAG
131 GGGTCAGATTGAAACTACAATAGCGAATCTTATC-CCCTTAAAGTTGCAGTGGAGCAAG
* * * * * * *
50249861 ATGAAACTACAAACCCTATACCCTTGAAGTTGCAGTGGGTCGGATTGACATTACAATAGTGGATC
1 ATGAAACTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAATGGTGGATC
* * * * *
50249926 TTATCTCCTTGAAGTTGTAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAGAGTTGCAGT
66 TTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGT
* * * * * * *
50249991 GGGTCAGATTGAAGCTACCATAGTGAATCTTATCTCCTTGAAGTTACAGTGAAGCAAG
131 GGGTCAGATTGAAACTACAATAGCGAATCTTATCCCCTTAAAGTTGCAGTGGAGCAAG
* *
50250049 ATGAAACTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAAACTACAATGGTGGATC
1 ATGAAACTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAATGGTGGATC
* ** * * * * *
50250114 TTATCTCCCTGAAGTTACAGTGGAGCAAGATGAAGCTACAAAACTTATATCCCTAAAATTACAGT
66 TTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGT
** * * * * * * * * * *
50250179 AGAAT-GGATTAAAACTACAACAACAAATCTCATCTCTTTAAAGTTGCAGTAGAGTAAG
131 -GGGTCAGATTGAAACTACAATAGCGAATCTTATCCCCTTAAAGTTGCAGTGGAGCAAG
* * ** * * * *
50250237 ATGAAGCTACAAATCCTATACCCCTGGAGTTGTAGTGGGTTGGATTTAAACTACCATAGCT-AAT
1 ATGAAACTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAAT-GGTGGAT
*
50250301 CTTATCTCCCTAAAGTTGCAGTGG
65 CTTATCTCCCTAAAGTTGTAGTGG
50250325 GTCAGATTAA
Statistics
Matches: 547, Mismatches: 100, Indels: 10
0.83 0.15 0.02
Matches are distributed among these distances:
187 2 0.00
188 537 0.98
189 8 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (188 bp):
ATGAAACTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAATGGTGGATC
TTATCTCCCTAAAGTTGTAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTAAAGTTGCAGT
GGGTCAGATTGAAACTACAATAGCGAATCTTATCCCCTTAAAGTTGCAGTGGAGCAAG
Found at i:50249966 original size:50 final size:49
Alignment explanation
Indices: 50249912--50250154 Score: 138
Period size: 50 Copynumber: 5.1 Consensus size: 49
50249902 GGATTGACAT
*
50249912 TACAATAGTGGATCTTATCTCCTTGAAGTTGTAGTGAAGTAAGATGAAGC
1 TACAATAGT-GATCTTATCTCCTTGAAGTTGCAGTGAAGTAAGATGAAGC
* * * * *
50249962 TAC-A-A---ATCCTATACCCCTAG-AGTTGCAGTG-GGTCAGATTGAAGC
1 TACAATAGTGATCTTAT-CTCCTTGAAGTTGCAGTGAAGTAAGA-TGAAGC
* * * *
50250006 TACCATAGTGAATCTTATCTCCTTGAAGTTACAGTGAAGCAAGATGAAAC
1 TACAATAGTG-ATCTTATCTCCTTGAAGTTGCAGTGAAGTAAGATGAAGC
* * * *
50250056 TAC-A-A---ATCCTATAC-CCCTGAAGTTGCAGTG-GGTCAA-ATTGAAAC
1 TACAATAGTGATCTTAT-CTCCTTGAAGTTGCAGTGAAGT-AAGA-TGAAGC
* * * * *
50250100 TACAATGGTGGATCTTATCTCCCTGAAGTTACAGTGGAGCAAGATGAAGC
1 TACAATAGT-GATCTTATCTCCTTGAAGTTGCAGTGAAGTAAGATGAAGC
50250150 TACAA
1 TACAA
50250155 AACTTATATC
Statistics
Matches: 146, Mismatches: 25, Indels: 44
0.68 0.12 0.20
Matches are distributed among these distances:
43 7 0.05
44 55 0.38
45 8 0.05
46 1 0.01
48 2 0.01
49 8 0.05
50 59 0.40
51 6 0.04
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (49 bp):
TACAATAGTGATCTTATCTCCTTGAAGTTGCAGTGAAGTAAGATGAAGC
Found at i:50250003 original size:282 final size:282
Alignment explanation
Indices: 50249485--50250323 Score: 950
Period size: 282 Copynumber: 3.0 Consensus size: 282
50249475 TAACAGATCA
* * * *
50249485 ATGAAACCACAAACCCTATACTCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAATGGC-ATAT
1 ATGAAACTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCGA-AT
* * * *
50249549 CTTATCTCCTTAAAGTTGTAGTGGAGCAAGATGAAGCTATAAATCCTATACCCTTAAAGTTGCAG
65 CTTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAAACCTATACCCTTAAAGTTGCAG
** * * * *
50249614 TGGGTCAAATTGAAACTACAATGGCAGATCTTATCCCCTTGAAGTTGCAGTGGAGCAAGATGAAG
130 TGGGTCGGATTGAAACTACAATAGCAGATCTTATCTCCTTGAAGTTGCAGTGAAGTAAGATGAAG
* * * * * * *
50249679 CAATAAATCCTATACCCCTAAAGTTGTAGTGGTTCAGATTGAAACCAGAATGGTGGATCTTATCT
195 CTACAAATCCTATACCCCTAGAGTTGTAGTGGGTCAGATTGAAACCACAATAGTGAATCTTATCT
** *
50249744 CCCTAAAGTTGTAGTGGAGCAAG
260 CCCTAAAGTTACAGTGAAGCAAG
* * * * * * * *
50249767 ATGAAGCTAGAAATCCTATACCCCTAAAGTTGCAGTGGGCCGGATTGAAGCTACCATAGCGAATC
1 ATGAAACTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCGAATC
* * * * *
50249832 TTATCTCCCTAAAGTTGCAGCGGAGTAAGATGAAACTACAAACCCTATACCCTTGAAGTTGCAGT
66 TTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAAACCTATACCCTTAAAGTTGCAGT
* * ** *
50249897 GGGTCGGATTGACATTACAATAGTGGATCTTATCTCCTTGAAGTTGTAGTGAAGTAAGATGAAGC
131 GGGTCGGATTGAAACTACAATAGCAGATCTTATCTCCTTGAAGTTGCAGTGAAGTAAGATGAAGC
* * * *
50249962 TACAAATCCTATACCCCTAGAGTTGCAGTGGGTCAGATTGAAGCTACCATAGTGAATCTTATCTC
196 TACAAATCCTATACCCCTAGAGTTGTAGTGGGTCAGATTGAAACCACAATAGTGAATCTTATCTC
* *
50250027 CTTGAAGTTACAGTGAAGCAAG
261 CCTAAAGTTACAGTGAAGCAAG
* * *
50250049 ATGAAACTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAAATTGAAACTACAATGGTGGATC
1 ATGAAACTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCGAATC
* * * * *
50250114 TTATCTCCCTGAAGTTACAGTGGAGCAAGATGAAGCTACAAAACTTATATCCC-TAAAATTACAG
66 TTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAAACCTATA-CCCTTAAAGTTGCAG
** * * * * * * *
50250178 TAGAAT-GGATTAAAACTACAACAACAAATCTCATCTCTTTAAAGTTGCAGT-AGAGTAAGATGA
130 T-GGGTCGGATTGAAACTACAATAGCAGATCTTATCTCCTTGAAGTTGCAGTGA-AGTAAGATGA
* ** * * *
50250241 AGCTACAAATCCTATACCCCTGGAGTTGTAGTGGGTTGGATTTAAACTACCATAGCT-AATCTTA
193 AGCTACAAATCCTATACCCCTAGAGTTGTAGTGGGTCAGATTGAAACCACAATAG-TGAATCTTA
*
50250305 TCTCCCTAAAGTTGCAGTG
257 TCTCCCTAAAGTTACAGTG
50250324 GGTCAGATTA
Statistics
Matches: 461, Mismatches: 91, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
281 1 0.00
282 453 0.98
283 7 0.02
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (282 bp):
ATGAAACTACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAACTACAATGGCGAATC
TTATCTCCCTAAAGTTGCAGTGGAGCAAGATGAAGCTACAAAACCTATACCCTTAAAGTTGCAGT
GGGTCGGATTGAAACTACAATAGCAGATCTTATCTCCTTGAAGTTGCAGTGAAGTAAGATGAAGC
TACAAATCCTATACCCCTAGAGTTGTAGTGGGTCAGATTGAAACCACAATAGTGAATCTTATCTC
CCTAAAGTTACAGTGAAGCAAG
Found at i:50253339 original size:3 final size:3
Alignment explanation
Indices: 50253331--50253359 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50253321 AGGAAAACAC
50253331 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
50253360 GGTCATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:50255069 original size:35 final size:35
Alignment explanation
Indices: 50255029--50255175 Score: 123
Period size: 35 Copynumber: 4.5 Consensus size: 35
50255019 AAAGGTGACT
* ** * *
50255029 TTAAAAAGGTTGGGATAGACGTGTTTAAGTCAACC
1 TTAAAAAGGTTGGGATACACCCGTCTAAGGCAACC
*
50255064 TTAAAAAAGTTGGGATACACCCGTCTAAGGCAACC
1 TTAAAAAGGTTGGGATACACCCGTCTAAGGCAACC
** **
50255099 TTAAAAA-----GG----ACCCGTCTAAGAAAATT
1 TTAAAAAGGTTGGGATACACCCGTCTAAGGCAACC
*
50255125 TTAAAAAGGTTGGGATAGACCCGTCTAAGGCAACC
1 TTAAAAAGGTTGGGATACACCCGTCTAAGGCAACC
*
50255160 TTAAAAATGTTGGGAT
1 TTAAAAAGGTTGGGAT
50255176 GGACATGTCT
Statistics
Matches: 88, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
26 20 0.23
30 2 0.02
31 2 0.02
35 64 0.73
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (35 bp):
TTAAAAAGGTTGGGATACACCCGTCTAAGGCAACC
Found at i:50259330 original size:16 final size:15
Alignment explanation
Indices: 50259309--50259338 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
50259299 AGCATTGATA
50259309 CATTTATATTCAAAAT
1 CATTTATATT-AAAAT
50259325 CATTTATATTAAAA
1 CATTTATATTAAAA
50259339 CAACATAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (15 bp):
CATTTATATTAAAAT
Found at i:50261729 original size:140 final size:140
Alignment explanation
Indices: 50261477--50261736 Score: 387
Period size: 140 Copynumber: 1.9 Consensus size: 140
50261467 AAAACACGGC
* *
50261477 ATAGTGTTGGACAAAGTCGACTCATATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCATTAT
1 ATAGTGATGGACAAAGCCGACTCATATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCATTAT
* * * * *
50261542 ACAATGAGCTGGCCAAAGCGTATGTCGGCAAGTTGATCTCAACACTTAGGAAACTGTAAGCCCCA
66 ACAAAGAGCTGGCCAAAGCATATATCAGCAAGTTGATCCCAACACTTAGGAAACTGTAAGCCCCA
50261607 AAGTGTCGGT
131 AAGTGTCGGT
* * *
50261617 ATAGTGATGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCTAACCCTTAT
1 ATAGTGATGGACAAAGCCGACTCATATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCATTAT
* * *
50261682 ACAAAGAGTTGGTCAAAGCATATATTAGCAAGTCT-ATCCCAACACTTAGGAAACT
66 ACAAAGAGCTGGCCAAAGCATATATCAGCAAGT-TGATCCCAACACTTAGGAAACT
50261737 ATCGACCCAG
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
140 105 0.99
141 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (140 bp):
ATAGTGATGGACAAAGCCGACTCATATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCATTAT
ACAAAGAGCTGGCCAAAGCATATATCAGCAAGTTGATCCCAACACTTAGGAAACTGTAAGCCCCA
AAGTGTCGGT
Found at i:50263867 original size:24 final size:24
Alignment explanation
Indices: 50263835--50263889 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
50263825 TCCGGTGCTT
*
50263835 CCCGTTAATT-GTTATTCGGAGCTA
1 CCCGTTAATTACTT-TTCGGAGCTA
*
50263859 CCCGTTAATTACTTTTTGGAGCTA
1 CCCGTTAATTACTTTTCGGAGCTA
50263883 CCCGTTA
1 CCCGTTA
50263890 TAGGCTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (24 bp):
CCCGTTAATTACTTTTCGGAGCTA
Found at i:50263900 original size:24 final size:22
Alignment explanation
Indices: 50263852--50263916 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 22
50263842 ATTGTTATTC
*
50263852 GGAGCTACCCGTTAATTACTTTTT
1 GGAGCTACCCGTT-A-TACTCTTT
50263876 GGAGCTACCCGTTATAGGCTCTTT
1 GGAGCTACCCGTTATA--CTCTTT
*
50263900 GTGAGCTTCCCGTTATA
1 G-GAGCTACCCGTTATA
50263917 TTGCCTGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
22 2 0.06
23 1 0.03
24 19 0.53
25 14 0.39
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (22 bp):
GGAGCTACCCGTTATACTCTTT
Found at i:50265187 original size:5 final size:5
Alignment explanation
Indices: 50265177--50265207 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
50265167 AACCAACGTT
50265177 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A
1 AGAAG AGAAG AGAAG AGAAG AGAAG AGAAG A
50265208 AAGTTTTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (5 bp):
AGAAG
Found at i:50272474 original size:13 final size:13
Alignment explanation
Indices: 50272456--50272482 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50272446 AACCTCTTTA
50272456 CTAGTAAGATTTT
1 CTAGTAAGATTTT
50272469 CTAGTAAGATTTT
1 CTAGTAAGATTTT
50272482 C
1 C
50272483 GAGGACGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (13 bp):
CTAGTAAGATTTT
Found at i:50274149 original size:24 final size:24
Alignment explanation
Indices: 50274115--50274169 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
50274105 TCCAGTGCTT
*
50274115 CCCGTTAATTGCTCTTCGGAGCTA
1 CCCGTTAATTGATCTTCGGAGCTA
* *
50274139 CTCGTTAATTGATCTTTGGAGCTA
1 CCCGTTAATTGATCTTCGGAGCTA
50274163 CCCGTTA
1 CCCGTTA
50274170 TAGGCTCTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (24 bp):
CCCGTTAATTGATCTTCGGAGCTA
Found at i:50274178 original size:24 final size:24
Alignment explanation
Indices: 50274115--50274179 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
50274105 TCCAGTGCTT
* *
50274115 CCCGTTAATTGCTCTTCGGAGCTA
1 CCCGTTAATGGCTCTTTGGAGCTA
* * *
50274139 CTCGTTAATTGATCTTTGGAGCTA
1 CCCGTTAATGGCTCTTTGGAGCTA
50274163 CCCGTT-ATAGGCTCTTT
1 CCCGTTAAT-GGCTCTTT
50274180 ATGAGCTTCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
23 2 0.06
24 32 0.94
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (24 bp):
CCCGTTAATGGCTCTTTGGAGCTA
Found at i:50289531 original size:10 final size:11
Alignment explanation
Indices: 50289511--50289564 Score: 50
Period size: 9 Copynumber: 5.5 Consensus size: 11
50289501 AAATACATAC
50289511 AAAAAATTATT
1 AAAAAATTATT
50289522 AAAAAA-TATT
1 AAAAAATTATT
50289532 -AAAAATTA-T
1 AAAAAATTATT
50289541 --AAAATTA-T
1 AAAAAATTATT
50289549 -AAAAATTAATT
1 AAAAAATT-ATT
50289560 AAAAA
1 AAAAA
50289565 GTTGCAAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.21
9 12 0.32
10 7 0.18
11 7 0.18
12 4 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAAATTATT
Found at i:50289544 original size:17 final size:17
Alignment explanation
Indices: 50289519--50289557 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
50289509 ACAAAAAATT
50289519 ATTAAAAAA-TATTAAAA
1 ATTAAAAAATTA-TAAAA
*
50289536 ATTATAAAATTATAAAA
1 ATTAAAAAATTATAAAA
50289553 ATTAA
1 ATTAA
50289558 TTAAAAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATTAAAAAATTATAAAA
Found at i:50293815 original size:124 final size:124
Alignment explanation
Indices: 50293591--50293834 Score: 398
Period size: 124 Copynumber: 2.0 Consensus size: 124
50293581 ATATTGAAGC
* *
50293591 AAAAATTATCAATGAAACAACCTTTGTACTCAATACTTCCATAATTCTCTTGTACACACTTATGA
1 AAAAATTATCAATCAAACAACCTTTGTACTCAATACTTCCATAATTCTCTTGTACACACCTATGA
* * *
50293656 GCTCTTATCGTCTTTCTTTTGCCCAAGTGTGTTCTTGTCTATTTGTGCTTAATTGGAAA
66 GCTCTTATCGGCTTTCTTTTGCCCAAGTGTATTCTTGTCTACTTGTGCTTAATTGGAAA
* *
50293715 AAAAATTATCAATCAAACAACCTTTGTACTTAATACTTCCATAATTCTCTTGTACACACCTGTGA
1 AAAAATTATCAATCAAACAACCTTTGTACTCAATACTTCCATAATTCTCTTGTACACACCTATGA
* **
50293780 GCTCTTATTGGCTTTCTTTTGCTTAAGTGTATTCTTGTCTACTTGTGCTTAATTG
66 GCTCTTATCGGCTTTCTTTTGCCCAAGTGTATTCTTGTCTACTTGTGCTTAATTG
50293835 ACAAACATTT
Statistics
Matches: 110, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 110 1.00
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (124 bp):
AAAAATTATCAATCAAACAACCTTTGTACTCAATACTTCCATAATTCTCTTGTACACACCTATGA
GCTCTTATCGGCTTTCTTTTGCCCAAGTGTATTCTTGTCTACTTGTGCTTAATTGGAAA
Found at i:50299035 original size:42 final size:42
Alignment explanation
Indices: 50298957--50299043 Score: 104
Period size: 42 Copynumber: 2.1 Consensus size: 42
50298947 GGTACAATAC
* *
50298957 CACACGGCTAGGGACACGGGCGTCTGCCCAGGCCGTGTAAGT
1 CACACGGCTAGGGACACGGGCGTCTGCCCAGCCCGTGTAACT
* * * *
50298999 CACACGGGTAGGGATACGGGCGTGTGTCC-GACCCGTGTAACT
1 CACACGGCTAGGGACACGGGCGTCTGCCCAG-CCCGTGTAACT
50299041 CAC
1 CAC
50299044 TATTTATGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.03
42 37 0.97
ACGTcount: A:0.20, C:0.30, G:0.34, T:0.16
Consensus pattern (42 bp):
CACACGGCTAGGGACACGGGCGTCTGCCCAGCCCGTGTAACT
Found at i:50301035 original size:51 final size:51
Alignment explanation
Indices: 50300970--50301197 Score: 315
Period size: 51 Copynumber: 4.6 Consensus size: 51
50300960 CAACTCCTGT
* * *
50300970 TTACAAGTATAAGTCTCCACCACCTCCACCACCATCACCACCCAAGCATCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
* * *
50301021 TTACAAGTACAAGTCTCCTCCACCTCCACCACCATCACCACCCAAGCATCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
* * *
50301072 TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCTAAACACCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
*
50301123 CTACAAGTACAAG--TCC-CCA-C-CC-CCACCATCACCACCCAAGCACCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
*
50301168 TTACAAGTACAAGTCTCCACCCCCACCACC
1 TTACAAGTACAAGTCTCCACCACCACCACC
50301198 TCCAGTTTAC
Statistics
Matches: 157, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
45 33 0.21
46 2 0.01
47 4 0.03
48 5 0.03
49 3 0.02
50 2 0.01
51 108 0.69
ACGTcount: A:0.32, C:0.48, G:0.06, T:0.14
Consensus pattern (51 bp):
TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
Found at i:50301197 original size:39 final size:42
Alignment explanation
Indices: 50301100--50301193 Score: 109
Period size: 45 Copynumber: 2.2 Consensus size: 42
50301090 ACCACCACCA
*
50301100 CCACCATCACCACCTAAACACCCCTACAAGTACAAGTCCCCACCC
1 CCACCA-CACCACCCAAACACCCCTACAAGTACAAGTCCCCA--C
* * *
50301145 CCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCTCCAC
1 CCACCA-CACCACCCAAACACCCCTACAAGTACAAGTCCCCAC
50301188 CC-CCAC
1 CCACCAC
50301194 CACCTCCAGT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
41 1 0.02
42 3 0.07
43 3 0.07
45 38 0.84
ACGTcount: A:0.32, C:0.51, G:0.05, T:0.12
Consensus pattern (42 bp):
CCACCACACCACCCAAACACCCCTACAAGTACAAGTCCCCAC
Found at i:50301208 original size:36 final size:36
Alignment explanation
Indices: 50301168--50301236 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
50301158 CCAAGCACCC
*
50301168 TTACAAGTACAAGTCTCCACCCCCACCACCTCCAGT
1 TTACAAGTACAAGTCTCCACCACCACCACCTCCAGT
* *
50301204 TTACAAGTATAAGTCTCCACCACCTCCACCTCC
1 TTACAAGTACAAGTCTCCACCACCACCACCTCC
50301237 GTCACCACCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.28, C:0.43, G:0.07, T:0.22
Consensus pattern (36 bp):
TTACAAGTACAAGTCTCCACCACCACCACCTCCAGT
Found at i:50301323 original size:87 final size:87
Alignment explanation
Indices: 50301151--50301323 Score: 251
Period size: 87 Copynumber: 2.0 Consensus size: 87
50301141 ACCCCCACCA
* * *
50301151 TCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCACCTCCAGTTTACAAGTATAA
1 TCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCCCCACCACCTCCAGTCTACAAATATAA
*
50301216 GTCTCCACCACCTCCACCTCCG
66 GTCTCCACCACCCCCACCTCCG
50301238 TCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCACCTC-CCA-CTCCAGTCTACAAATAT
1 TCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACC-CC-CACCACCTCCAGTCTACAAATAT
* * *
50301301 AAGTCTCCTCCCCCCCCTCCTCC
64 AAGTCTCCACCACCCCCACCTCC
50301324 AGCTTACTAT
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
87 71 0.92
88 5 0.06
89 1 0.01
ACGTcount: A:0.27, C:0.48, G:0.07, T:0.18
Consensus pattern (87 bp):
TCACCACCCAAGCACCCTTACAAGTACAAGTCCCCACCCCCACCACCTCCAGTCTACAAATATAA
GTCTCCACCACCCCCACCTCCG
Found at i:50304158 original size:27 final size:27
Alignment explanation
Indices: 50304099--50304161 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
50304089 AAATATTTAT
* * *
50304099 AAATTTTAATATATATATTTATTATTA
1 AAATATTAATATAAATATTTATTAATA
50304126 AAATATTAATATAAATATTT-TTCAATA
1 AAATATTAATATAAATATTTATT-AATA
*
50304153 ATATATTAA
1 AAATATTAA
50304162 AAATATGATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (27 bp):
AAATATTAATATAAATATTTATTAATA
Found at i:50308775 original size:31 final size:32
Alignment explanation
Indices: 50308740--50308804 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 32
50308730 TTATTAAAAT
* * *
50308740 ATATAATAATAAATAATATTTAAA-TAATTTA
1 ATATAATAATAAATAAAATATAAATTAATCTA
* *
50308771 ATATAATGATATATAAAATATAAATTAATCTA
1 ATATAATAATAAATAAAATATAAATTAATCTA
50308803 AT
1 AT
50308805 TTTTATATAC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (32 bp):
ATATAATAATAAATAAAATATAAATTAATCTA
Found at i:50308776 original size:25 final size:22
Alignment explanation
Indices: 50308694--50308776 Score: 58
Period size: 25 Copynumber: 3.4 Consensus size: 22
50308684 TTTAAGTAAT
*
50308694 TAATATAAATTATTTGTAAAATAGA
1 TAATATAAATTA--T-TAAAATATA
50308719 TGATATATAAATTATTAAAATATA
1 T-A-ATATAAATTATTAAAATATA
* *
50308743 TAATAATAAATAATATTTAAATAATT
1 TAAT-ATAAAT--TATTAAAAT-ATA
50308769 TAATATAA
1 TAATATAA
50308777 TGATATATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
22 2 0.04
23 7 0.14
24 9 0.18
25 14 0.29
26 7 0.14
27 10 0.20
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (22 bp):
TAATATAAATTATTAAAATATA
Found at i:50308780 original size:58 final size:63
Alignment explanation
Indices: 50308632--50308793 Score: 158
Period size: 59 Copynumber: 2.6 Consensus size: 63
50308622 AAATTATGTG
* * * ** *
50308632 ATATTTAAATAATTTAATATAATGATACATGAAATATAAGTTCCAAATATTTTTTAAGTAATTA
1 ATATTTAAATAATTTAATATAATGATATAT-AAATATAAGTTCAAAATATATAATAAGTAAATA
* *
50308696 ATA--TAAATTATTTGTAAAATAGATGATATATAAAT-T-A-TT-AAAATATATAATAA-TAAAT
1 ATATTTAAA-TAATT-TAATATA-ATGATATATAAATATAAGTTCAAAATATATAATAAGTAAAT
50308754 A
63 A
50308755 ATATTTAAATAATTTAATATAATGATATATAAAATATAA
1 ATATTTAAATAATTTAATATAATGATATAT-AAATATAA
50308794 ATTAATCTAA
Statistics
Matches: 80, Mismatches: 10, Indels: 19
0.73 0.09 0.17
Matches are distributed among these distances:
58 9 0.11
59 18 0.22
60 15 0.19
61 7 0.09
62 5 0.06
63 5 0.06
64 13 0.16
65 8 0.10
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (63 bp):
ATATTTAAATAATTTAATATAATGATATATAAATATAAGTTCAAAATATATAATAAGTAAATA
Found at i:50311079 original size:15 final size:15
Alignment explanation
Indices: 50311040--50311084 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
50311030 TATTCTAGCT
50311040 GTTAGAAAAATAAATA
1 GTTAGAAAAATAAA-A
* *
50311056 -ATAGGAAAATAAAA
1 GTTAGAAAAATAAAA
50311070 GTTAGAAAAATAAAA
1 GTTAGAAAAATAAAA
50311085 TAATGTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.20
Consensus pattern (15 bp):
GTTAGAAAAATAAAA
Found at i:50311277 original size:33 final size:33
Alignment explanation
Indices: 50311235--50311297 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
50311225 ATCTAATAGG
* * *
50311235 TGTATCTTTTCATGAGATACCCTTTCATATGGA
1 TGTATCTTTTAATAAGATACACTTTCATATGGA
*
50311268 TGTATCTTTTAATAAGATACATTTTCATAT
1 TGTATCTTTTAATAAGATACACTTTCATAT
50311298 AATTTTGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (33 bp):
TGTATCTTTTAATAAGATACACTTTCATATGGA
Found at i:50312041 original size:21 final size:21
Alignment explanation
Indices: 50312017--50312059 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
50312007 GTGTTTCCAT
50312017 TATCAGTTTCTAATAATAGGG
1 TATCAGTTTCTAATAATAGGG
50312038 TATCAGTTTCTAATAATAGGG
1 TATCAGTTTCTAATAATAGGG
50312059 T
1 T
50312060 TGAAACACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (21 bp):
TATCAGTTTCTAATAATAGGG
Found at i:50312354 original size:25 final size:25
Alignment explanation
Indices: 50312326--50312375 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
50312316 AACGTGGTGT
50312326 CTTTGAAAACATTTACCTTTTGAAA
1 CTTTGAAAACATTTACCTTTTGAAA
50312351 CTTTGAAAACATTTACCTTTTGAAA
1 CTTTGAAAACATTTACCTTTTGAAA
50312376 ACCCGTCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (25 bp):
CTTTGAAAACATTTACCTTTTGAAA
Found at i:50316781 original size:27 final size:26
Alignment explanation
Indices: 50316763--50316868 Score: 140
Period size: 27 Copynumber: 4.0 Consensus size: 26
50316753 TTATCCTACG
*
50316763 GGGGTATTTCGATCGTTTTACCTTATA
1 GGGGTATTTCGATCATTTTACC-TATA
* * *
50316790 GGGGTATTTCAATCATTTTATCCTTTG
1 GGGGTATTTCGATCATTTTA-CCTATA
*
50316817 GGGGTATTTCGGTCATTTTACTCTATA
1 GGGGTATTTCGATCATTTTAC-CTATA
50316844 GGGGTATTTCGATCATTTTACCTAT
1 GGGGTATTTCGATCATTTTACCTAT
50316869 TTTGGGTCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.07
27 61 0.90
28 2 0.03
ACGTcount: A:0.19, C:0.15, G:0.21, T:0.45
Consensus pattern (26 bp):
GGGGTATTTCGATCATTTTACCTATA
Found at i:50316820 original size:54 final size:54
Alignment explanation
Indices: 50316750--50316867 Score: 168
Period size: 54 Copynumber: 2.2 Consensus size: 54
50316740 TATAATAGTT
*
50316750 ATTTTATCCTACGGGGGTATTTCGATCGTTTTAC-CTTATAGGGGTATTTCAATC
1 ATTTTATCCTACGGGGGTATTTCGATCATTTTACTC-TATAGGGGTATTTCAATC
** * *
50316804 ATTTTATCCTTTGGGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTCGATC
1 ATTTTATCCTACGGGGGTATTTCGATCATTTTACTCTATAGGGGTATTTCAATC
50316858 ATTTTA-CCTA
1 ATTTTATCCTA
50316868 TTTTGGGTCT
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
53 3 0.05
54 53 0.93
55 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.45
Consensus pattern (54 bp):
ATTTTATCCTACGGGGGTATTTCGATCATTTTACTCTATAGGGGTATTTCAATC
Found at i:50320180 original size:20 final size:20
Alignment explanation
Indices: 50320151--50320238 Score: 79
Period size: 20 Copynumber: 4.3 Consensus size: 20
50320141 ACTCGTACGG
* *
50320151 GTTTGTACTTTGGTGCATCT
1 GTTTGCACTTCGGTGCATCT
* *
50320171 GTTTTCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCATCT
* *
50320191 GATTGCACATTC-GTGCATTT
1 GTTTGCAC-TTCGGTGCATCT
* *
50320211 GTCTGCACTTCGGTGCCTCT
1 GTTTGCACTTCGGTGCATCT
50320231 GTTATGCA
1 GTT-TGCA
50320239 TCATTGATAC
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
19 3 0.06
20 42 0.81
21 7 0.13
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.42
Consensus pattern (20 bp):
GTTTGCACTTCGGTGCATCT
Found at i:50323838 original size:29 final size:30
Alignment explanation
Indices: 50323785--50323841 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
50323775 TTCGAGCCTT
50323785 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGTAAAAGTTTA
*
50323815 GGGGC-AAAATCGTAATTTTG-AAAAGTT
1 GGGGCAAAAAT-GTAATTATGTAAAAGTT
50323842 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGTAAAAGTTTA
Found at i:50324073 original size:13 final size:13
Alignment explanation
Indices: 50324055--50324084 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
50324045 TCCAGCAACT
50324055 ATGAATTTATTTC
1 ATGAATTTATTTC
*
50324068 ATGAATTTATTTG
1 ATGAATTTATTTC
50324081 ATGA
1 ATGA
50324085 TTATCCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:50324254 original size:50 final size:50
Alignment explanation
Indices: 50324179--50324362 Score: 260
Period size: 50 Copynumber: 3.7 Consensus size: 50
50324169 ATTTGGATAA
50324179 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAATG
*
50324229 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAATG
** * * * *
50324279 AGAGGTCCCCCGTAAGACCATGACTGGGACATGGCATGGGCACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAATG
** * *
50324329 AGAACATCTCATGTAAGACCATGTTTGGGACATG
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATG
50324363 AGAGGTCCCC
Statistics
Matches: 119, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 95 0.80
51 24 0.20
ACGTcount: A:0.27, C:0.23, G:0.31, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAAATG
Found at i:50326295 original size:13 final size:13
Alignment explanation
Indices: 50326277--50326301 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50326267 ATTATTAATA
50326277 TTATTTTGTGTGT
1 TTATTTTGTGTGT
50326290 TTATTTTGTGTG
1 TTATTTTGTGTG
50326302 CATTTTAGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:50334057 original size:11 final size:11
Alignment explanation
Indices: 50334041--50334069 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
50334031 GGCCGAATAT
50334041 AGAAAAGAAAA
1 AGAAAAGAAAA
50334052 AGAAAAG-AAA
1 AGAAAAGAAAA
50334062 AGAAAAGA
1 AGAAAAGA
50334070 GAACAACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:50334062 original size:16 final size:17
Alignment explanation
Indices: 50334041--50334072 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
50334031 GGCCGAATAT
50334041 AGAAAAGAAAA-AGAAA
1 AGAAAAGAAAAGAGAAA
50334057 AGAAAAGAAAAGAGAA
1 AGAAAAGAAAAGAGAA
50334073 CAACAAGGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAAAGAAAAGAGAAA
Found at i:50343978 original size:17 final size:17
Alignment explanation
Indices: 50343952--50343992 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
50343942 GGAGTCGCCA
* *
50343952 TTTGGTGAACTCCAGGT
1 TTTGGCGAACTCCAGGG
*
50343969 TTTGGCGAACTCTAGGG
1 TTTGGCGAACTCCAGGG
50343986 TTTGGCG
1 TTTGGCG
50343993 GGCTCTTCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.15, C:0.17, G:0.34, T:0.34
Consensus pattern (17 bp):
TTTGGCGAACTCCAGGG
Found at i:50345080 original size:3 final size:3
Alignment explanation
Indices: 50345072--50345105 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
50345062 TTAATATTTG
50345072 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
50345106 AATTTATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:50346017 original size:13 final size:13
Alignment explanation
Indices: 50345999--50346025 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50345989 TTTATAATTG
50345999 TATGACTAACTGC
1 TATGACTAACTGC
50346012 TATGACTAACTGC
1 TATGACTAACTGC
50346025 T
1 T
50346026 TACTAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TATGACTAACTGC
Found at i:50351103 original size:13 final size:13
Alignment explanation
Indices: 50351085--50351109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50351075 TTTATACTTG
50351085 TATGACTAACTGT
1 TATGACTAACTGT
50351098 TATGACTAACTG
1 TATGACTAACTG
50351110 CTGCTAACTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TATGACTAACTGT
Found at i:50352909 original size:42 final size:44
Alignment explanation
Indices: 50352863--50352948 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
50352853 TAACGTATTT
* * *
50352863 AATATTTTTCAATAA-TTTTTATTATTAATAAAT-TTTGAATTA
1 AATATTTATCAATAATTTTTTACTATTAACAAATATTTGAATTA
50352905 AATATTTATCAATAATTTTTTACTATTAACAAATATTTGAATTA
1 AATATTTATCAATAATTTTTTACTATTAACAAATATTTGAATTA
50352949 TGTTTTTTCA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 14 0.36
43 16 0.41
44 9 0.23
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (44 bp):
AATATTTATCAATAATTTTTTACTATTAACAAATATTTGAATTA
Found at i:50354445 original size:51 final size:51
Alignment explanation
Indices: 50354380--50354799 Score: 431
Period size: 51 Copynumber: 8.5 Consensus size: 51
50354370 CAACTCCTGT
* * * *
50354380 TTACAAGTATAAGTCTCCACCACCTCCTCCACCATCACCACCCAAGCATCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
*
50354431 TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCCAAGCACCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
* * * **
50354482 TTACAAGTACAAGTCTCCACCCCCACCATCTCCAGT--TTA--CAAG-----
1 TTACAAGTACAAGTCTCCACCACCACCACCACCA-TCACCACCCAAGCACCC
* ** * * * *
50354525 -TATAAGT-C--TCCACCACCTCCACCACCATCACCACC---CAAGCACCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
* * * *
50354569 TTACAAGTACAAGTCCCCACCACCTCCACCACCATCACCACCAAAGCATCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
* * * * *
50354620 TTATAAGTACAGGTCTCCACCACCACCACCACCATCACCTCCAAAGCATCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
* * *
50354671 TTACAAGTACAAGTCTCCGCCACCACCACCTCCATCCCCACCCAAGCACCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
* * *
50354722 TTACAAGTACAAGTCTCCACCACCTCCACCGCCATCACCACCCAAGTACCC
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
50354773 TTACAAGTACAAGTCTCCACCACCACC
1 TTACAAGTACAAGTCTCCACCACCACC
50354800 TCCTCCCGTT
Statistics
Matches: 303, Mismatches: 51, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
39 19 0.06
41 1 0.00
42 6 0.02
45 6 0.02
46 1 0.00
48 24 0.08
50 1 0.00
51 244 0.81
52 1 0.00
ACGTcount: A:0.31, C:0.46, G:0.07, T:0.16
Consensus pattern (51 bp):
TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCC
Found at i:50354508 original size:87 final size:85
Alignment explanation
Indices: 50354431--50354589 Score: 255
Period size: 87 Copynumber: 1.8 Consensus size: 85
50354421 CCAAGCATCC
50354431 TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
1 TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* *
50354496 CTCCACCCCCACCATCTCCA
66 CCCCACCCCCACCAGCTCCA
* * *
50354516 GTTTACAAGTATAAGTCTCCACCACCTCCACCACCATCACCACCCAAGCACCCTTACAAGTACAA
1 --TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAA
50354581 GTCCCCACC
64 GTCCCCACC
50354590 ACCTCCACCA
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 68 1.00
ACGTcount: A:0.31, C:0.46, G:0.07, T:0.16
Consensus pattern (85 bp):
TTACAAGTACAAGTCCCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
CCCCACCCCCACCAGCTCCA
Found at i:50354520 original size:138 final size:139
Alignment explanation
Indices: 50354321--50354816 Score: 620
Period size: 138 Copynumber: 3.5 Consensus size: 139
50354311 TTACAAGTCT
* * * * * * * *
50354321 CCACCACCACCACACAAGAAGCCTTACAAGTACAAATCTCCTCCCCCACCA-ACTCCTGTTTACA
1 CCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCATCCTCCAGTTTACA
* *
50354385 AGTATAAGTCTCCACCACCTCCTCCACCATCACCACCCAAGCATCCTTACAAGTACAAGTCCCCA
66 AGTATAAGTCTCCACCACCTCCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCA
*
50354450 CCACCACCA
131 CCACCTCCA
50354459 CCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCAT-CTCCAGTTTACA
1 CCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCATCCTCCAGTTTACA
50354523 AGTATAAGTCTCCACCACCTCCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCA
66 AGTATAAGTCTCCACCACCTCCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCA
50354588 CCACCTCCA
131 CCACCTCCA
* * * *
50354597 CCACCATCACCACCAAAGCATCCTTATAAGTACAGGTCTCCACCACCACCACCACCATCACCTCC
1 CCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCT---CCA-C-CC-CCACCAT--CCTCC
* * * * *
50354662 AAAGCATCCTTACAAGTACAAGTCTCCGCCACCACCACCTCCATCCCCACCCAAGCACCCTTACA
58 --AG--T--TTACAAGTATAAGTCTCCACCACCTCCACCACCATCACCACCCAAGCACCCTTACA
*
50354727 AGTACAAGTCTCCACCACCTCCA
117 AGTACAAGTCCCCACCACCTCCA
* * * *
50354750 CCGCCATCACCACCCAAGTACCCTTACAAGTACAAGTCTCCACCACCACC-TCCTCCCGTTTACA
1 CCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCATCCTCCAGTTTACA
50354814 AGT
66 AGT
50354817 CTCCTCCTCC
Statistics
Matches: 314, Mismatches: 28, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
138 170 0.54
140 1 0.00
141 3 0.01
142 2 0.01
143 2 0.01
144 12 0.04
146 1 0.00
147 9 0.03
148 1 0.00
149 3 0.01
150 3 0.01
151 1 0.00
153 106 0.34
ACGTcount: A:0.30, C:0.46, G:0.07, T:0.17
Consensus pattern (139 bp):
CCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCTCCACCCCCACCATCCTCCAGTTTACA
AGTATAAGTCTCCACCACCTCCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCCCCA
CCACCTCCA
Found at i:50354706 original size:153 final size:153
Alignment explanation
Indices: 50354380--50354799 Score: 573
Period size: 153 Copynumber: 2.8 Consensus size: 153
50354370 CAACTCCTGT
* * * *
50354380 TTACAAGTATAAGTCTCCACCACCTCCTCCACCATCACCACCCAAGCATCCTTACAAGTACAAGT
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* *
50354445 CCCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGTCT---CCA-C-CC-
66 CCCCACCACCTCCACCACCATCACCACCAAAGCACCCTTACAAGTACAAGTCTCCACCACCACCA
50354504 CCACCAT---CTCC--AG--T--
131 CCACCATCACCTCCAAAGCATCC
* *
50354518 TTACAAGTATAAGTCTCCACCACCTCCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* * *
50354583 CCCCACCACCTCCACCACCATCACCACCAAAGCATCCTTATAAGTACAGGTCTCCACCACCACCA
66 CCCCACCACCTCCACCACCATCACCACCAAAGCACCCTTACAAGTACAAGTCTCCACCACCACCA
50354648 CCACCATCACCTCCAAAGCATCC
131 CCACCATCACCTCCAAAGCATCC
* * *
50354671 TTACAAGTACAAGTCTCCGCCACCACCACCTCCATCCCCACCCAAGCACCCTTACAAGTACAAGT
1 TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
* * * *
50354736 CTCCACCACCTCCACCGCCATCACCACCCAAGTACCCTTACAAGTACAAGTCTCCACCACCACC
66 CCCCACCACCTCCACCACCATCACCACCAAAGCACCCTTACAAGTACAAGTCTCCACCACCACC
50354800 TCCTCCCGTT
Statistics
Matches: 248, Mismatches: 19, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
138 111 0.45
141 3 0.01
142 1 0.00
143 2 0.01
144 7 0.03
147 4 0.02
149 2 0.01
151 1 0.00
153 117 0.47
ACGTcount: A:0.31, C:0.46, G:0.07, T:0.16
Consensus pattern (153 bp):
TTACAAGTACAAGTCTCCACCACCACCACCACCATCACCACCCAAGCACCCTTACAAGTACAAGT
CCCCACCACCTCCACCACCATCACCACCAAAGCACCCTTACAAGTACAAGTCTCCACCACCACCA
CCACCATCACCTCCAAAGCATCC
Found at i:50356088 original size:39 final size:42
Alignment explanation
Indices: 50355998--50356104 Score: 112
Period size: 46 Copynumber: 2.5 Consensus size: 42
50355988 AATAGATGTG
* *
50355998 TAATGGAATAGAGACGTAATAGGTAATTCTTTTGTTTGGTTGAAA
1 TAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT---A
*
50356043 GGAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTT-
1 -TAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTA
* *
50356083 TAATGGAATAAAGGTGTAATAG
1 TAATGGAATAGAGGCGTAATAG
50356105 CATAAGGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
39 17 0.31
40 1 0.02
44 15 0.28
45 3 0.06
46 18 0.33
ACGTcount: A:0.32, C:0.04, G:0.29, T:0.36
Consensus pattern (42 bp):
TAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTA
Found at i:50356091 original size:44 final size:46
Alignment explanation
Indices: 50355999--50356091 Score: 136
Period size: 44 Copynumber: 2.1 Consensus size: 46
50355989 ATAGATGTGT
*
50355999 AATGGAATAGAGACGTAATAGGTAATTCTTTTGTTTGGTTGAAAGG
1 AATGGAATAGAGACGTAATAGGTAATTCTTGTGTTTGGTTGAAAGG
* * *
50356045 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTTAATGG
1 AATGGAATAGAGACGTAATAGGTAATTCTTGTGTTTGGTTGAAAGG
50356089 AAT
1 AAT
50356092 AAAGGTGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.51
45 3 0.07
46 18 0.42
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.37
Consensus pattern (46 bp):
AATGGAATAGAGACGTAATAGGTAATTCTTGTGTTTGGTTGAAAGG
Found at i:50356304 original size:18 final size:18
Alignment explanation
Indices: 50356251--50356303 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
50356241 TTATTATTAA
50356251 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
50356269 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
50356287 ATATGAATTTACTAAAA
1 ATAT-AATTTAATAAAA
50356304 TCATAATACA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 22 0.67
19 11 0.33
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:50356375 original size:34 final size:33
Alignment explanation
Indices: 50356237--50356376 Score: 80
Period size: 37 Copynumber: 4.2 Consensus size: 33
50356227 ATATTTTAAC
*
50356237 ATAATTATTATTAAATATAATTTAATAAAAATAT
1 ATAATTAATATTAAATATAATTTAAT-AAAATAT
** *
50356271 ATAATTTAATAAAAATATATGAATTTACTAAAATCAT
1 ATAA-TTAATATTAA-ATAT-AATTTAATAAAAT-AT
*
50356308 AATACA-TAATACTATAAAAATAA-TT--T--AA-A-
1 -ATA-ATTAATA-T-TAAATATAATTTAATAAAATAT
*
50356337 ATAATTATTATTAAATATAATTTAATAAAAATAT
1 ATAATTAATATTAAATATAATTTAAT-AAAATAT
50356371 ATAATT
1 ATAATT
50356377 TGATAAAATT
Statistics
Matches: 80, Mismatches: 9, Indels: 34
0.65 0.07 0.28
Matches are distributed among these distances:
26 8 0.10
27 4 0.05
28 7 0.09
29 1 0.01
30 1 0.01
32 4 0.05
33 1 0.01
34 11 0.14
35 7 0.09
36 11 0.14
37 16 0.20
38 6 0.08
39 3 0.04
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (33 bp):
ATAATTAATATTAAATATAATTTAATAAAATAT
Found at i:50366858 original size:26 final size:27
Alignment explanation
Indices: 50366806--50366872 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
50366796 CCAAACCCTT
50366806 AAAACTTTTTACTTTTGCTTTCCTCCC
1 AAAACTTTTTACTTTTGCTTTCCTCCC
* **
50366833 AAAACTTTTTCCTTTTG-TTTTTTCCC
1 AAAACTTTTTACTTTTGCTTTCCTCCC
50366859 AAAAC-TTTTACTTT
1 AAAACTTTTTACTTT
50366873 CTCTCAAACC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
25 8 0.22
26 12 0.33
27 16 0.44
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.52
Consensus pattern (27 bp):
AAAACTTTTTACTTTTGCTTTCCTCCC
Found at i:50369475 original size:3 final size:3
Alignment explanation
Indices: 50369467--50369505 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
50369457 CAACTTTACC
50369467 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50369506 CAATCAGACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:50370449 original size:24 final size:26
Alignment explanation
Indices: 50370422--50370472 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
50370412 ACCGACATAG
50370422 AATATACCTT-AA-AAA-AATTTTCAA
1 AATAT-CCTTAAATAAAGAATTTTCAA
*
50370446 AATATGCTTAAATAAAGAATTTTCAA
1 AATATCCTTAAATAAAGAATTTTCAA
50370472 A
1 A
50370473 TATTATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 3 0.13
24 7 0.30
25 3 0.13
26 10 0.43
ACGTcount: A:0.53, C:0.10, G:0.04, T:0.33
Consensus pattern (26 bp):
AATATCCTTAAATAAAGAATTTTCAA
Found at i:50371396 original size:15 final size:16
Alignment explanation
Indices: 50371365--50371398 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
50371355 TGTAATTCTG
*
50371365 AAAAGATATTAAATTT
1 AAAAGATAATAAATTT
50371381 AAAAGATAAT-AATTT
1 AAAAGATAATAAATTT
50371396 AAA
1 AAA
50371399 TCAAGATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
AAAAGATAATAAATTT
Found at i:50374596 original size:300 final size:299
Alignment explanation
Indices: 50374018--50374601 Score: 893
Period size: 300 Copynumber: 1.9 Consensus size: 299
50374008 CGACAACAGT
* * *
50374018 AAATATCCCAAAATTTGACCGAAAATAAAAAGATATTTTTGGGGAATGAGTGGCTCGAACCGAGG
1 AAATATCCCAAAATTTGACCGAAAATAAAAAGATACTTTTGGGGAAGGAGTGGCTCAAACCGAGG
* * *
50374083 GTCACAAGGGATGGAAGCTAACTCTTAACCATTAGGCCTAAAGTCCATTTCTTGTTCAGTTTTAA
66 GTCACAAGGAAGGGAAGCTAACTCTTAACCATTAGGCCTAAAGTCCATTTCTTGTTCAATTTTAA
* * * *
50374148 TTCTTGGCTTTATATATTTTAAGTGTTGCTTTTACCCTAGGTTGCCAAAAATAAAAGGAAGGAAA
131 TTCTTGACTGTATATATTTTAAGTGTGGCTTTTACCCTAGGTTACCAAAAATAAAAGGAAGGAAA
*
50374213 TGGGAGGAAAGGAGCTCAAACTTGGGTCTCTAAGGAGGATTCTCTAACACTTTACCATGAAGCCT
196 TGGGAGGAAAGGAGCTCAAACTTGGGTCTCTAAGGAGGATTCTCTAACACTTGACCATGAAGCCT
* *
50374278 AATTCAATTCTTGTCTATCTATTTTAGGGTGTCAACGAC
261 AATTAAATTCTTGTCTATCCATTTTAGGGTGTCAACGAC
* * * * *
50374317 AAATATCCCAAAATTTGGCTGAAAATGAAAGGAATACTTTTGGGGAAGGAGTGGTTCAAACCGAG
1 AAATATCCCAAAATTTGACCGAAAATAAAAAG-ATACTTTTGGGGAAGGAGTGGCTCAAACCGAG
*
50374382 GGTCACAAGGAAGGGAAGCTAACTCTTAACCATTAGGCCTGAAG-CCTATTTCTTGTTCAATTTT
65 GGTCACAAGGAAGGGAAGCTAACTCTTAACCATTAGGCCTAAAGTCC-ATTTCTTGTTCAATTTT
* * * *
50374446 AATTCCTT-ACTGTATATGTTTTAGGTGTGGCTTTTACCCTAGGTTATCGAAAATAAAAGGAAGG
129 AATT-CTTGACTGTATATATTTTAAGTGTGGCTTTTACCCTAGGTTACCAAAAATAAAAGGAAGG
* * *
50374510 AAATGGGAGGAATGGAGCTCAAACTTGGGTCTCTAGGGAGGATTCTTTAACACTTGACCATGAAG
193 AAATGGGAGGAAAGGAGCTCAAACTTGGGTCTCTAAGGAGGATTCTCTAACACTTGACCATGAAG
50374575 CCTAATTAAATTCTTGTCTATCCATTT
258 CCTAATTAAATTCTTGTCTATCCATTT
50374602 CACTGATCCC
Statistics
Matches: 256, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
299 30 0.12
300 223 0.87
301 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.31
Consensus pattern (299 bp):
AAATATCCCAAAATTTGACCGAAAATAAAAAGATACTTTTGGGGAAGGAGTGGCTCAAACCGAGG
GTCACAAGGAAGGGAAGCTAACTCTTAACCATTAGGCCTAAAGTCCATTTCTTGTTCAATTTTAA
TTCTTGACTGTATATATTTTAAGTGTGGCTTTTACCCTAGGTTACCAAAAATAAAAGGAAGGAAA
TGGGAGGAAAGGAGCTCAAACTTGGGTCTCTAAGGAGGATTCTCTAACACTTGACCATGAAGCCT
AATTAAATTCTTGTCTATCCATTTTAGGGTGTCAACGAC
Found at i:50376725 original size:23 final size:23
Alignment explanation
Indices: 50376655--50376740 Score: 110
Period size: 21 Copynumber: 4.0 Consensus size: 23
50376645 CCTGATCAGT
50376655 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
50376676 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
50376696 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
50376719 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
50376741 TCGGCAAAGC
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
20 9 0.16
21 23 0.42
23 23 0.42
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:50376737 original size:44 final size:41
Alignment explanation
Indices: 50376655--50376741 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 41
50376645 CCTGATCAGT
* *
50376655 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
50376696 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
50376740 AT
1 AT
50376742 CGGCAAAGCC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 11 0.28
42 10 0.25
43 1 0.03
44 18 0.45
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:50378017 original size:5 final size:5
Alignment explanation
Indices: 50378009--50378071 Score: 117
Period size: 5 Copynumber: 12.6 Consensus size: 5
50377999 TTTTTTTTTT
*
50378009 TAATA TAATA CAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
50378059 TAATA TAATA TAA
1 TAATA TAATA TAA
50378072 AGCATAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 56 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
TAATA
Found at i:50384328 original size:9 final size:9
Alignment explanation
Indices: 50384312--50384360 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
50384302 TTTTCACTTT
50384312 TAATTATAA
1 TAATTATAA
*
50384321 TCATTATAA
1 TAATTATAA
*
50384330 TAATAATAA
1 TAATTATAA
*
50384339 TAATTATAT
1 TAATTATAA
**
50384348 TAACAATAA
1 TAATTATAA
50384357 TAAT
1 TAAT
50384361 AAAATTTTTA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (9 bp):
TAATTATAA
Found at i:50384338 original size:18 final size:18
Alignment explanation
Indices: 50384312--50384360 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
50384302 TTTTCACTTT
* *
50384312 TAATTATAATCATTATAA
1 TAATAATAATAATTATAA
*
50384330 TAATAATAATAATTATAT
1 TAATAATAATAATTATAA
*
50384348 TAACAATAATAAT
1 TAATAATAATAAT
50384361 AAAATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (18 bp):
TAATAATAATAATTATAA
Found at i:50385186 original size:5 final size:5
Alignment explanation
Indices: 50385178--50385223 Score: 83
Period size: 5 Copynumber: 9.2 Consensus size: 5
50385168 TTTTTTACTT
*
50385178 ATATA ATATA ATACA ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
50385224 AGCATAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:50389556 original size:25 final size:25
Alignment explanation
Indices: 50389528--50389584 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
50389518 AACACGTGTA
50389528 AGCATACCGATTTACAGCTCGTGAG
1 AGCATACCGATTTACAGCTCGTGAG
* *
50389553 AGCATACCGATTTATAGCTCGTGTG
1 AGCATACCGATTTACAGCTCGTGAG
50389578 AGCATAC
1 AGCATAC
50389585 ATGTACAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AGCATACCGATTTACAGCTCGTGAG
Found at i:50389864 original size:21 final size:20
Alignment explanation
Indices: 50389826--50389864 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
50389816 GTGTTCATCC
* *
50389826 ATGTTTATTGGCTTACATAT
1 ATGTTTAGTGGCTAACATAT
50389846 ATGTTTACGTGGCTAACAT
1 ATGTTTA-GTGGCTAACAT
50389865 GGTTGGTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (20 bp):
ATGTTTAGTGGCTAACATAT
Found at i:50394580 original size:20 final size:20
Alignment explanation
Indices: 50394557--50394595 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50394547 ATTTAATTAA
50394557 TTTTTAAAATTTTTAAATAT
1 TTTTTAAAATTTTTAAATAT
**
50394577 TTTTTATCATTTTTAAATA
1 TTTTTAAAATTTTTAAATA
50394596 ACTTTAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TTTTTAAAATTTTTAAATAT
Found at i:50394608 original size:20 final size:20
Alignment explanation
Indices: 50394565--50394610 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
50394555 AATTTTTAAA
** *
50394565 ATTTTTAAATATTTTTTATC
1 ATTTTTAAATAACTTTAATC
*
50394585 ATTTTTAAATAACTTTAATG
1 ATTTTTAAATAACTTTAATC
50394605 ATTTTT
1 ATTTTT
50394611 TATTTTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (20 bp):
ATTTTTAAATAACTTTAATC
Found at i:50394623 original size:29 final size:30
Alignment explanation
Indices: 50394591--50394653 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
50394581 TATCATTTTT
* *
50394591 AAATAACTTTAAT-GATTTTTTATTTTTAA
1 AAATAACTTTAATAAATTTTTGATTTTTAA
* * *
50394620 AAATAATTTTCATAAATTTTTGATTTTTTA
1 AAATAACTTTAATAAATTTTTGATTTTTAA
50394650 AAAT
1 AAAT
50394654 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (30 bp):
AAATAACTTTAATAAATTTTTGATTTTTAA
Found at i:50396088 original size:28 final size:28
Alignment explanation
Indices: 50396052--50396121 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 28
50396042 TATTTTTTAT
*
50396052 ATTTTATAGTTTTGCCATTGTTTATTAA
1 ATTTTATAGTTTTGCCACTGTTTATTAA
* * *
50396080 ATTTCATAGTTTTGCCACTGTTTTTTAG
1 ATTTTATAGTTTTGCCACTGTTTATTAA
*
50396108 ATTTTATGGTTTTG
1 ATTTTATAGTTTTG
50396122 ACTCAAAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (28 bp):
ATTTTATAGTTTTGCCACTGTTTATTAA
Found at i:50401424 original size:27 final size:27
Alignment explanation
Indices: 50401394--50401693 Score: 334
Period size: 27 Copynumber: 11.2 Consensus size: 27
50401384 AGTATAACAA
* * **
50401394 TCATTTTATCCTATGGAAGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGG
* ** * *
50401421 TCATTTTACTTTATAGGGGTATTTCAG
1 TCATTCTACCCTATGGGGGTATTTCGG
50401448 TCATTCTACCCTATGGGGGTATTTCGG
1 TCATTCTACCCTATGGGGGTATTTCGG
* * * *
50401475 TCATTTTACCCTATAGGGATA-TTCGT
1 TCATTCTACCCTATGGGGGTATTTCGG
* *
50401501 TCATTCTACCCTATTGGGGTATTTTGG
1 TCATTCTACCCTATGGGGGTATTTCGG
* * *
50401528 TCATTCTACTCTATGAGGGTATTTCAG
1 TCATTCTACCCTATGGGGGTATTTCGG
* *
50401555 TCATTCTACCCTATAGGGGTATTTTGG
1 TCATTCTACCCTATGGGGGTATTTCGG
* *
50401582 TCATTCTACCCTGTGGGGGTATTTTGG
1 TCATTCTACCCTATGGGGGTATTTCGG
* *
50401609 TCATTCTACCCTAT-GAGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGG
*
50401635 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTCTACCCTATGGGGGTATTTCGG
* * *
50401662 TCATTCAACCTTATGGGGGTATTTCAG
1 TCATTCTACCCTATGGGGGTATTTCGG
50401689 TCATT
1 TCATT
50401694 TTATCTATTT
Statistics
Matches: 229, Mismatches: 42, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
26 45 0.20
27 184 0.80
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (27 bp):
TCATTCTACCCTATGGGGGTATTTCGG
Found at i:50401533 original size:80 final size:81
Alignment explanation
Indices: 50401412--50401685 Score: 336
Period size: 80 Copynumber: 3.4 Consensus size: 81
50401402 TCCTATGGAA
* * ** * **
50401412 GTATTTCGGTCATTTTACTTTATAGGGGTATTTCAGTCATTCTACCCTATGGGGGTATTTCGGTC
1 GTATTTCGATCATTCTACCCTATGGGGGTATTTTGGTCATTCTACCCTATGGGGGTATTTCGGTC
*
50401477 ATTTTACCCTATAGGG
66 ATTCTACCCTATAGGG
* * * * * *
50401493 ATA-TTCGTTCATTCTACCCTATTGGGGTATTTTGGTCATTCTACTCTATGAGGGTATTTCAGTC
1 GTATTTCGATCATTCTACCCTATGGGGGTATTTTGGTCATTCTACCCTATGGGGGTATTTCGGTC
50401557 ATTCTACCCTATAGGG
66 ATTCTACCCTATAGGG
* * * * *
50401573 GTATTTTGGTCATTCTACCCTGTGGGGGTATTTTGGTCATTCTACCCTAT-GAGGTATTTCGATC
1 GTATTTCGATCATTCTACCCTATGGGGGTATTTTGGTCATTCTACCCTATGGGGGTATTTCGGTC
*
50401637 ATTCTACCCTATGGGG
66 ATTCTACCCTATAGGG
* *
50401653 GTATTTCGATCATTCAACCTTATGGGGGTATTT
1 GTATTTCGATCATTCTACCCTATGGGGGTATTT
50401686 CAGTCATTTT
Statistics
Matches: 164, Mismatches: 28, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 121 0.74
81 43 0.26
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (81 bp):
GTATTTCGATCATTCTACCCTATGGGGGTATTTTGGTCATTCTACCCTATGGGGGTATTTCGGTC
ATTCTACCCTATAGGG
Found at i:50401548 original size:107 final size:107
Alignment explanation
Indices: 50401394--50401696 Score: 360
Period size: 107 Copynumber: 2.8 Consensus size: 107
50401384 AGTATAACAA
* * * * *
50401394 TCATTTTATCCTATGGAAGTATTTCGGTCATTTTACTTTAT-AGGGGTATTTCAGTCATTCTACC
1 TCATTCTACCCTAT-GAGGTATTTCGGTCATTCTACTCTATGA-GGGTATTTCAGTCATTCTACC
*
50401458 CTATGGGGGTATTTCGGTCATTTTACCCTATAGGGATA-TTCGT
64 CTATGGGGGTATTTCGGTCATTTTACCCTATAGGGATATTTCGG
* *
50401501 TCATTCTACCCTATTGGGGTATTTTGGTCATTCTACTCTATGAGGGTATTTCAGTCATTCTACCC
1 TCATTCTACCCTA-TGAGGTATTTCGGTCATTCTACTCTATGAGGGTATTTCAGTCATTCTACCC
* * * * * * *
50401566 TATAGGGGTATTTTGGTCATTCTACCCTGTGGGGGTATTTTGG
65 TATGGGGGTATTTCGGTCATTTTACCCTATAGGGATATTTCGG
* * * * *
50401609 TCATTCTACCCTATGAGGTATTTCGATCATTCTACCCTATGGGGGTATTTC-GATCATTCAACCT
1 TCATTCTACCCTATGAGGTATTTCGGTCATTCTACTCTATGAGGGTATTTCAG-TCATTCTACCC
*
50401673 TATGGGGGTATTTCAGTCATTTTA
65 TATGGGGGTATTTCGGTCATTTTA
50401697 TCTATTTTGA
Statistics
Matches: 166, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
106 1 0.01
107 147 0.89
108 18 0.11
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (107 bp):
TCATTCTACCCTATGAGGTATTTCGGTCATTCTACTCTATGAGGGTATTTCAGTCATTCTACCCT
ATGGGGGTATTTCGGTCATTTTACCCTATAGGGATATTTCGG
Found at i:50403630 original size:28 final size:28
Alignment explanation
Indices: 50403590--50403709 Score: 190
Period size: 28 Copynumber: 4.3 Consensus size: 28
50403580 CTATTCAGTG
50403590 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
50403617 ACAGTAAAAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
50403645 ACAG-AATCAGTGTGGGCCTTAACCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
*
50403673 ATAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
50403701 ACAGTAACA
1 ACAGTAACA
50403710 ATGCAGTGCA
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
27 7 0.08
28 75 0.89
29 2 0.02
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:50403845 original size:26 final size:26
Alignment explanation
Indices: 50403816--50403867 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
50403806 CACACCAATA
* *
50403816 CGCAGCAAAGCTGCCAGTAATAGTAT
1 CGCAACAAAGCTGCCAGTAACAGTAT
50403842 CGCAACAAAGCTGCCAGTAACAGTAT
1 CGCAACAAAGCTGCCAGTAACAGTAT
50403868 ATGTGGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (26 bp):
CGCAACAAAGCTGCCAGTAACAGTAT
Found at i:50404051 original size:109 final size:109
Alignment explanation
Indices: 50403860--50404081 Score: 399
Period size: 109 Copynumber: 2.0 Consensus size: 109
50403850 AGCTGCCAGT
* *
50403860 AACAGTATATGTGGCAAAGCCACCAGTAGGTCCACAGTCGTCTTGCGCGACCTGTGCGACCTTAA
1 AACAGTATATGTAGCAAAGCCACCAGTAGGTCCACAGTCGTCTTGCGCGACCCGTGCGACCTTAA
50403925 CAGTACAGTACACTTCCTCCAAATATAACAACCCAACCCCATGC
66 CAGTACAGTACACTTCCTCCAAATATAACAACCCAACCCCATGC
* *
50403969 AACAGTATATGTAGCAAAGCCACTAGTAGGTCCACAGTCGTCTTGGGCGACCCGTGCGACCTTAA
1 AACAGTATATGTAGCAAAGCCACCAGTAGGTCCACAGTCGTCTTGCGCGACCCGTGCGACCTTAA
*
50404034 CAGTACAGTACATTTCCTCCAAATATAACAACCCAACCCCATGC
66 CAGTACAGTACACTTCCTCCAAATATAACAACCCAACCCCATGC
50404078 AACA
1 AACA
50404082 TGTCGTGACA
Statistics
Matches: 108, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (109 bp):
AACAGTATATGTAGCAAAGCCACCAGTAGGTCCACAGTCGTCTTGCGCGACCCGTGCGACCTTAA
CAGTACAGTACACTTCCTCCAAATATAACAACCCAACCCCATGC
Found at i:50404226 original size:27 final size:27
Alignment explanation
Indices: 50404196--50404271 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
50404186 AGAGGTATAA
*
50404196 CAGTCGTTTTACCCTATAGGGATATTT
1 CAGTCATTTTACCCTATAGGGATATTT
* * *
50404223 CAGTAATTTTATCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATAGGGATATTT
*
50404250 CGGTCATTTTACCCTATTAGGG
1 CAGTCATTTTACCCTA-TAGGG
50404272 GTAAAATAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 36 0.88
28 5 0.12
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (27 bp):
CAGTCATTTTACCCTATAGGGATATTT
Done.