Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold207
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: 1047254
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 71453 characters in sequence are not A, C, G, or T
File 3 of 6
Found at i:313876 original size:2 final size:2
Alignment explanation
Indices: 313871--313904 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
313861 GAAAAGGAAT
*
313871 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
313905 GATCTAGCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:319196 original size:21 final size:21
Alignment explanation
Indices: 319170--319209 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
319160 ATTAAAGAAT
319170 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
319191 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
319210 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:326285 original size:16 final size:15
Alignment explanation
Indices: 326258--326295 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
326248 TTGTTTTTTG
326258 AATAAATT--TTTAA
1 AATAAATTAATTTAA
326271 AATAATATTAATTTAA
1 AATAA-ATTAATTTAA
326287 AATAAATTA
1 AATAAATTA
326296 CTTAAATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.23
14 3 0.14
15 4 0.18
16 10 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAATTAATTTAA
Found at i:326597 original size:19 final size:19
Alignment explanation
Indices: 326573--326609 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
326563 TTTTTTAAAT
*
326573 TAATAAAAAATTATATTAC
1 TAATAAAAAATAATATTAC
*
326592 TAATAAAATATAATATTA
1 TAATAAAAAATAATATTA
326610 TTATAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (19 bp):
TAATAAAAAATAATATTAC
Found at i:326723 original size:14 final size:14
Alignment explanation
Indices: 326706--326750 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
326696 GTTTAATTAT
326706 TTTAAAATATTTAA
1 TTTAAAATATTTAA
* *
326720 TTTAAATTGTTTAA
1 TTTAAAATATTTAA
326734 TTT-AAA-ATTTAA
1 TTTAAAATATTTAA
326746 TTTAA
1 TTTAA
326751 GTTATAATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
12 8 0.31
13 3 0.12
14 15 0.58
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TTTAAAATATTTAA
Found at i:326807 original size:39 final size:37
Alignment explanation
Indices: 326734--326819 Score: 111
Period size: 39 Copynumber: 2.3 Consensus size: 37
326724 AATTGTTTAA
*
326734 TTTAAAATTT-AATTTAAGTTATAATCATCTAATTATT
1 TTTAAAATTTAAATTAAAGTTATAATCATCTAATTA-T
* * *
326771 TTTTAAATTTAAATTAAGAGTTGTAATCGTCTAATTAT
1 TTTAAAATTTAAATTAA-AGTTATAATCATCTAATTAT
326809 TTTAAAATTTA
1 TTTAAAATTTA
326820 TATTGTAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 9 0.21
38 16 0.38
39 17 0.40
ACGTcount: A:0.40, C:0.05, G:0.06, T:0.50
Consensus pattern (37 bp):
TTTAAAATTTAAATTAAAGTTATAATCATCTAATTAT
Found at i:326886 original size:17 final size:17
Alignment explanation
Indices: 326857--326904 Score: 78
Period size: 17 Copynumber: 2.8 Consensus size: 17
326847 TGTAATCATT
326857 TAATTATTTTTAAAATTG
1 TAATTA-TTTTAAAATTG
*
326875 TAATTATTTTAAAATTT
1 TAATTATTTTAAAATTG
326892 TAATTATTTTAAA
1 TAATTATTTTAAA
326905 TTGCTAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
17 23 0.79
18 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TAATTATTTTAAAATTG
Found at i:327043 original size:13 final size:13
Alignment explanation
Indices: 327025--327050 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
327015 AGATAATTTT
327025 AATTTAAATTAAA
1 AATTTAAATTAAA
327038 AATTTAAATTAAA
1 AATTTAAATTAAA
327051 TATTATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTTAAATTAAA
Found at i:327084 original size:51 final size:51
Alignment explanation
Indices: 326991--327095 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 51
326981 ATTATAGTCC
* * * ** * *
326991 TTAATTTAAATTTAAAAAATAATTAGATAATTTTAATTTAAATTAA-AAAT
1 TTAAATTAAATTTAAAAAATAATTACACAATTACAATCTAAATAAACAAAT
*
327041 TTAAATTAAATATTATAAAATAATTACACAATTACAATCTAAATAAACAAAT
1 TTAAATTAAAT-TTAAAAAATAATTACACAATTACAATCTAAATAAACAAAT
327093 TTA
1 TTA
327096 TTATCATTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
50 10 0.22
51 28 0.62
52 7 0.16
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (51 bp):
TTAAATTAAATTTAAAAAATAATTACACAATTACAATCTAAATAAACAAAT
Found at i:327188 original size:18 final size:19
Alignment explanation
Indices: 327149--327193 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
327139 TATGATTATA
* *
327149 TTTA-TAATAATATTATTT
1 TTTATTAATAATATTAATC
327167 TTTATTAATAATA-TAATC
1 TTTATTAATAATATTAATC
327185 TTTATTAAT
1 TTTATTAAT
327194 TTAAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTATTAATAATATTAATC
Found at i:329515 original size:15 final size:15
Alignment explanation
Indices: 329487--329520 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
329477 TTTAAATTCA
329487 AACTCTTTTGGTTTG
1 AACTCTTTTGGTTTG
329502 AACT-TTTTGTGTTTG
1 AACTCTTTTG-GTTTG
329517 AACT
1 AACT
329521 ATTCGGATCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.53
Consensus pattern (15 bp):
AACTCTTTTGGTTTG
Found at i:330598 original size:77 final size:76
Alignment explanation
Indices: 330514--330682 Score: 241
Period size: 77 Copynumber: 2.2 Consensus size: 76
330504 TTGGTATTAA
* * *
330514 AGACTTGATATTGAATCAATAGGTTTGCTTCAGAGGTCTTCAACACTTGATATTGAAATTTGTTT
1 AGACTTGATATTGAATCAATAGGTTTGCTTCAAAGGTCTTCAACACTTGATATAG-AATTTGCTT
330579 CAAA-GATCTTTG
65 -AAAGGATCTTTG
** *
330591 AGACTTGATATTGAATCAATAGGTTTGCTTCAAAGGTCTTTGACACTTGATCTAGAATTTGCTTA
1 AGACTTGATATTGAATCAATAGGTTTGCTTCAAAGGTCTTCAACACTTGATATAGAATTTGCTTA
*
330656 AAGGGTCTTTG
66 AAGGATCTTTG
*
330667 AGACTTGATATCGAAT
1 AGACTTGATATTGAAT
330683 TTTGCTTTAA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 3 0.04
76 30 0.36
77 50 0.60
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.38
Consensus pattern (76 bp):
AGACTTGATATTGAATCAATAGGTTTGCTTCAAAGGTCTTCAACACTTGATATAGAATTTGCTTA
AAGGATCTTTG
Found at i:330604 original size:35 final size:34
Alignment explanation
Indices: 330558--330824 Score: 171
Period size: 36 Copynumber: 7.4 Consensus size: 34
330548 GGTCTTCAAC
* *
330558 ACTTGATATTGAAATTTGTTTCAAAGATCTTTGAG
1 ACTTGATCTTGAAATTTGTTT-AAAGGTCTTTGAG
* * *
330593 ACTTGATATTGAATCAATAGGTTTGCTTCAAAGGTCTTTGAC
1 ACTTGATCTTG----AA-A--TTTG-TTTAAAGGTCTTTGAG
* *
330635 ACTTGATCTAG-AATTTGCTTAAAGGGTCTTTGAG
1 ACTTGATCTTGAAATTTGTTTAAA-GGTCTTTGAG
* * *
330669 ACTTGATATCGAATTTTGCTTT-AAGGATCTTTGAG
1 ACTTGATCTTGAAATTTG-TTTAAAGG-TCTTTGAG
* * *
330704 ATTTGATCTTGAAATCTTGCTTTAAGGGTTTTTGAG
1 ACTTGATCTTGAAAT-TTG-TTTAAAGGTCTTTGAG
* * * *
330740 TCTTGATCTTAAAATCTTGTTTCAAGGGCCTTTGAG
1 ACTTGATCTTGAAAT-TTGTTT-AAAGGTCTTTGAG
* *
330776 ACTTGATCTTGAAATCTTGTTTTAAAGGT-TTTCAA
1 ACTTGATCTTGAAAT-TTG-TTTAAAGGTCTTTGAG
*
330811 ACTTAATCTTGAAA
1 ACTTGATCTTGAAA
330825 AACAGGGTCT
Statistics
Matches: 186, Mismatches: 30, Indels: 32
0.75 0.12 0.13
Matches are distributed among these distances:
33 4 0.02
34 24 0.13
35 57 0.31
36 65 0.35
37 7 0.04
39 2 0.01
40 1 0.01
42 24 0.13
43 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (34 bp):
ACTTGATCTTGAAATTTGTTTAAAGGTCTTTGAG
Found at i:330738 original size:36 final size:36
Alignment explanation
Indices: 330615--330824 Score: 205
Period size: 36 Copynumber: 5.9 Consensus size: 36
330605 ATCAATAGGT
* * * *
330615 TTGCTTCAAAGGTCTTTGACACTTGATCTAG-AAT-
1 TTGCTTTAAGGGTCTTTGAGACTTGATCTTGAAATC
* * * *
330649 TTGCTTAAAGGGTCTTTGAGACTTGATATCG-AATT
1 TTGCTTTAAGGGTCTTTGAGACTTGATCTTGAAATC
* *
330684 TTGCTTTAAGGATCTTTGAGATTTGATCTTGAAATC
1 TTGCTTTAAGGGTCTTTGAGACTTGATCTTGAAATC
* * *
330720 TTGCTTTAAGGGTTTTTGAGTCTTGATCTTAAAATC
1 TTGCTTTAAGGGTCTTTGAGACTTGATCTTGAAATC
*
330756 TTG-TTTCAAGGGCCTTTGAGACTTGATCTTGAAATC
1 TTGCTTT-AAGGGTCTTTGAGACTTGATCTTGAAATC
* * * * *
330792 TTGTTTTAAAGGT-TTTCAAACTTAATCTTGAAA
1 TTGCTTTAAGGGTCTTTGAGACTTGATCTTGAAA
330825 AACAGGGTCT
Statistics
Matches: 147, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
34 29 0.20
35 46 0.31
36 69 0.47
37 3 0.02
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (36 bp):
TTGCTTTAAGGGTCTTTGAGACTTGATCTTGAAATC
Found at i:334665 original size:27 final size:29
Alignment explanation
Indices: 334609--334667 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
334599 TTTAATTTAA
*
334609 TTAGAGGTAAAACTCTTTTATTTATCCTT
1 TTAGAGATAAAACTCTTTTATTTATCCTT
*
334638 TTAGAGATAAAA-TTTTTTATTTAT-CTT
1 TTAGAGATAAAACTCTTTTATTTATCCTT
334665 TTA
1 TTA
334668 ATAAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 6 0.21
28 11 0.39
29 11 0.39
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (29 bp):
TTAGAGATAAAACTCTTTTATTTATCCTT
Found at i:335962 original size:13 final size:13
Alignment explanation
Indices: 335944--335968 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
335934 ATTAAAATTT
335944 TTAAAAATTATTA
1 TTAAAAATTATTA
335957 TTAAAAATTATT
1 TTAAAAATTATT
335969 TGATATATAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAAAAATTATTA
Found at i:336101 original size:15 final size:16
Alignment explanation
Indices: 336068--336103 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
336058 ATAAGATAAT
336068 TAATAATTTATAATCA
1 TAATAATTTATAATCA
*
336084 TAATAATTT-TAATTA
1 TAATAATTTATAATCA
336099 TAATA
1 TAATA
336104 TAATTACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TAATAATTTATAATCA
Found at i:342728 original size:24 final size:24
Alignment explanation
Indices: 342696--342741 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
342686 CATTTAGCAA
342696 TGTTATCTACTAAGGTATCGATAG
1 TGTTATCTACTAAGGTATCGATAG
342720 TGTTATCTACTAAGGTATCGAT
1 TGTTATCTACTAAGGTATCGAT
342742 GTGAGGCAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.39
Consensus pattern (24 bp):
TGTTATCTACTAAGGTATCGATAG
Found at i:344761 original size:82 final size:82
Alignment explanation
Indices: 344620--344799 Score: 261
Period size: 82 Copynumber: 2.2 Consensus size: 82
344610 CATTCTTATG
* *
344620 TGCTTCAGAATTTAGCACGAGTGATAACACAGATATTTTGGCTAGTTACTTATTTAACTGATCGA
1 TGCTTCAGAATTTAACACGAGTGATAACACAGATATTTTGGCTAGTTACTTATTCAACTGATCGA
* *
344685 TGATGCTATACTCATTA
66 CGATGCTATACTCACTA
* * * * *
344702 TGCTTCAGAATTTAATAGGAGTGATAACACGGATATTTTGGCTGGTTACTTATTCAACTGATTGA
1 TGCTTCAGAATTTAACACGAGTGATAACACAGATATTTTGGCTAGTTACTTATTCAACTGATCGA
344767 CGATGCTATACTCACTA
66 CGATGCTATACTCACTA
*
344784 TGCTTGATGAATTTAA
1 TGCTTCA-GAATTTAA
344800 AAAACTCAGC
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
82 79 0.91
83 8 0.09
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (82 bp):
TGCTTCAGAATTTAACACGAGTGATAACACAGATATTTTGGCTAGTTACTTATTCAACTGATCGA
CGATGCTATACTCACTA
Found at i:347537 original size:9 final size:8
Alignment explanation
Indices: 347522--347546 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
347512 GAAATAACAG
347522 TAAAAAAA
1 TAAAAAAA
347530 TAAAAAAA
1 TAAAAAAA
347538 TAAAAAAA
1 TAAAAAAA
347546 T
1 T
347547 TATCATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:347780 original size:138 final size:138
Alignment explanation
Indices: 347603--347891 Score: 454
Period size: 138 Copynumber: 2.1 Consensus size: 138
347593 AATGCAATGT
* *
347603 AGCATGCAATCATAAGGAACACAAGTAAATAGAAAGAAAGCAAAGCAACGTGCAAATGAAAAAGT
1 AGCATGCAATCATGAGGAACACAAGCAAATAGAAAGAAAGCAAAGCAACGTGCAAATGAAAAAGT
* * * *
347668 GAAGGGAGATGCAAATCATAAAGAAACATATAGCAAACAAAATGAATTGGAGGCCACATGGAGAA
66 GAAGGAAGATGCAAATCATAAAGAAACATATAGCAAACAAAATGAATTAGAGACCACATGAAGAA
347733 AATCATGA
131 AATCATGA
* * *
347741 AGCACGCAATCATGAGGAACACAAGCAAATGGAAAGAAAGCAAAGCAATGTGCAAATGAAAAAGT
1 AGCATGCAATCATGAGGAACACAAGCAAATAGAAAGAAAGCAAAGCAACGTGCAAATGAAAAAGT
* * * *
347806 GATGGAAGATGCAAATCATGAAGAAACATATGGCAAACAAAATGAATTAGAGACCACATGAATAA
66 GAAGGAAGATGCAAATCATAAAGAAACATATAGCAAACAAAATGAATTAGAGACCACATGAAGAA
347871 AATCATGA
131 AATCATGA
347879 AGCATGCAA-CATG
1 AGCATGCAATCATG
347892 TGGGGGCTGA
Statistics
Matches: 137, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
137 4 0.03
138 133 0.97
ACGTcount: A:0.51, C:0.14, G:0.21, T:0.14
Consensus pattern (138 bp):
AGCATGCAATCATGAGGAACACAAGCAAATAGAAAGAAAGCAAAGCAACGTGCAAATGAAAAAGT
GAAGGAAGATGCAAATCATAAAGAAACATATAGCAAACAAAATGAATTAGAGACCACATGAAGAA
AATCATGA
Found at i:354062 original size:11 final size:12
Alignment explanation
Indices: 354042--354078 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
354032 GTACAAAACA
354042 AAATAAATGAAT
1 AAATAAATGAAT
354054 AAA-AAATGAAT
1 AAATAAATGAAT
*
354065 AAATAAATAAAT
1 AAATAAATGAAT
354077 AA
1 AA
354079 GCACTTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (12 bp):
AAATAAATGAAT
Found at i:355579 original size:14 final size:14
Alignment explanation
Indices: 355560--355592 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
355550 TTAAATCTCG
355560 ATTTTTTTGATT-TT
1 ATTTTTTT-ATTATT
355574 ATTTTTTTATTATT
1 ATTTTTTTATTATT
355588 ATTTT
1 ATTTT
355593 GATATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.17
14 15 0.83
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (14 bp):
ATTTTTTTATTATT
Found at i:358670 original size:51 final size:50
Alignment explanation
Indices: 358597--358730 Score: 196
Period size: 51 Copynumber: 2.7 Consensus size: 50
358587 AAATGTCTGG
* * * *
358597 ATGTATCGATACATTGAGAAATGTATCGATACATCTGGGTTAAAACCTAGA
1 ATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTTAAAACC-AAA
*
358648 ATGTATCGATACAATGAAAAATGTATCCATACATCTAGGTTAAAACCAAA
1 ATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTTAAAACCAAA
* *
358698 ATATATCGATATAATGAAAAATGTATCGATACA
1 ATGTATCGATACAATGAAAAATGTATCGATACA
358731 AATAGTAAAT
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 32 0.43
51 43 0.57
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (50 bp):
ATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTTAAAACCAAA
Found at i:364136 original size:6 final size:6
Alignment explanation
Indices: 364125--364173 Score: 71
Period size: 6 Copynumber: 8.0 Consensus size: 6
364115 ATAGAAGTTA
* *
364125 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAAGG GAAAGG GAGAGGG
1 GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GAAGGG GA-AGGG
364174 AGCTAGCACT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 37 0.93
7 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GAAGGG
Found at i:364844 original size:15 final size:14
Alignment explanation
Indices: 364826--364877 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
364816 TATTAATTTT
364826 TATTTATAAATATAA
1 TATTTA-AAATATAA
**
364841 TATTTAAAA-ATTT
1 TATTTAAAATATAA
364854 TATTTTAAAATATAA
1 TA-TTTAAAATATAA
364869 TATATTAAA
1 TAT-TTAAA
364878 TAATTTTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
13 4 0.13
14 11 0.37
15 15 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTTAAAATATAA
Found at i:364856 original size:28 final size:30
Alignment explanation
Indices: 364823--364919 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 30
364813 TTATATTAAT
364823 TTTTA-TTTATAAATATAATAT-TTAAA-AA
1 TTTTATTTTA-AAATATAATATATTAAATAA
364851 TTTTATTTTAAAATATAATATATTAAATAA
1 TTTTATTTTAAAATATAATATATTAAATAA
* * *
364881 TTTTATAATTTATATTTTAATATATTTAATATAA
1 TTTTAT--TTTAAAATATAATATA-TTAA-ATAA
364915 TTTTA
1 TTTTA
364920 AGAGATTAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 8
0.84 0.04 0.11
Matches are distributed among these distances:
28 16 0.27
29 9 0.15
30 8 0.14
32 13 0.22
33 4 0.07
34 9 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
TTTTATTTTAAAATATAATATATTAAATAA
Found at i:364910 original size:9 final size:9
Alignment explanation
Indices: 364866--364913 Score: 50
Period size: 8 Copynumber: 5.8 Consensus size: 9
364856 TTTTAAAATA
364866 TAATATATT
1 TAATATATT
*
364875 AAATA-ATT
1 TAATATATT
*
364883 TTATA-ATT
1 TAATATATT
364891 T-ATAT-TT
1 TAATATATT
364898 TAATATATT
1 TAATATATT
364907 TAATATA
1 TAATATA
364914 ATTTTAAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
7 6 0.18
8 14 0.42
9 13 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
TAATATATT
Found at i:368417 original size:2 final size:2
Alignment explanation
Indices: 368412--368442 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
368402 TCTATCCATT
368412 TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
368443 AAATAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:368930 original size:20 final size:20
Alignment explanation
Indices: 368893--368930 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
368883 AAAATCCACA
*
368893 TAAAATTAAAATATTTTAAT
1 TAAAATTAAAATAGTTTAAT
368913 TAAAATATAAAAT-GTTTA
1 TAAAAT-TAAAATAGTTTA
368931 CTCTAAGCCG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (20 bp):
TAAAATTAAAATAGTTTAAT
Found at i:370032 original size:13 final size:13
Alignment explanation
Indices: 370014--370039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
370004 TACATTATGA
370014 TATGTATCGATAC
1 TATGTATCGATAC
370027 TATGTATCGATAC
1 TATGTATCGATAC
370040 AAATAAGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TATGTATCGATAC
Found at i:372169 original size:163 final size:163
Alignment explanation
Indices: 371899--372224 Score: 652
Period size: 163 Copynumber: 2.0 Consensus size: 163
371889 ATTCATCCAA
371899 GCTAAACAAAAAGGGAAAAGAAAAGTGTAAGATGTTTCTTGTAATTGCTACTAATTATCTTGAGA
1 GCTAAACAAAAAGGGAAAAGAAAAGTGTAAGATGTTTCTTGTAATTGCTACTAATTATCTTGAGA
371964 TAACCGAATTGACAGTTTAGAGATTTATCCGAATTCTTTGATTAATTGACGTAAAAAAAGAATAT
66 TAACCGAATTGACAGTTTAGAGATTTATCCGAATTCTTTGATTAATTGACGTAAAAAAAGAATAT
372029 GACTCAAAATTTGGGAGGAAAAAAGATTTAATT
131 GACTCAAAATTTGGGAGGAAAAAAGATTTAATT
372062 GCTAAACAAAAAGGGAAAAGAAAAGTGTAAGATGTTTCTTGTAATTGCTACTAATTATCTTGAGA
1 GCTAAACAAAAAGGGAAAAGAAAAGTGTAAGATGTTTCTTGTAATTGCTACTAATTATCTTGAGA
372127 TAACCGAATTGACAGTTTAGAGATTTATCCGAATTCTTTGATTAATTGACGTAAAAAAAGAATAT
66 TAACCGAATTGACAGTTTAGAGATTTATCCGAATTCTTTGATTAATTGACGTAAAAAAAGAATAT
372192 GACTCAAAATTTGGGAGGAAAAAAGATTTAATT
131 GACTCAAAATTTGGGAGGAAAAAAGATTTAATT
372225 TTTAGTTAAA
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 163 1.00
ACGTcount: A:0.42, C:0.09, G:0.18, T:0.31
Consensus pattern (163 bp):
GCTAAACAAAAAGGGAAAAGAAAAGTGTAAGATGTTTCTTGTAATTGCTACTAATTATCTTGAGA
TAACCGAATTGACAGTTTAGAGATTTATCCGAATTCTTTGATTAATTGACGTAAAAAAAGAATAT
GACTCAAAATTTGGGAGGAAAAAAGATTTAATT
Found at i:374725 original size:20 final size:21
Alignment explanation
Indices: 374683--374734 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
374673 ACATGGTCTA
374683 GTATCGATACATTTTAAGCAT
1 GTATCGATACATTTTAAGCAT
* **
374704 GTATTGATACA-TTTAATTAT
1 GTATCGATACATTTTAAGCAT
374724 GTATCGATACA
1 GTATCGATACA
374735 CTCACTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (21 bp):
GTATCGATACATTTTAAGCAT
Found at i:377712 original size:2 final size:2
Alignment explanation
Indices: 377705--377739 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
377695 TCTTTCACTC
377705 AT AT AT AT AT AT AT AT AT AT AT AT AT CAT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT A
377740 AATTTCTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:378028 original size:32 final size:31
Alignment explanation
Indices: 377990--378053 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
377980 AATTAAACAT
377990 AATTATTCATAAATTTAATGAATATTAGATAA
1 AATTATTCATAAATTTAATGAATATTA-ATAA
* *
378022 AATTATTTATAAATTTGATGAATATTAATAA
1 AATTATTCATAAATTTAATGAATATTAATAA
378053 A
1 A
378054 TTTTAAACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 5 0.17
32 25 0.83
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (31 bp):
AATTATTCATAAATTTAATGAATATTAATAA
Found at i:378186 original size:21 final size:23
Alignment explanation
Indices: 378162--378212 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
378152 TATTTAATCT
378162 TATTTATTT-TATAT-TTAAAAA
1 TATTTATTTATATATATTAAAAA
378183 TATTT-TTTATATATAAATTAAAAA
1 TATTTATTTATATAT--ATTAAAAA
378207 TATTTA
1 TATTTA
378213 AAATTCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 3 0.12
21 10 0.40
24 12 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTATTTATATATATTAAAAA
Found at i:378638 original size:22 final size:22
Alignment explanation
Indices: 378613--378661 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
378603 ATAAATATAG
*
378613 AAAAAAATAAA-AAGGGAAGATT
1 AAAAAAA-AAATAAGAGAAGATT
*
378635 AAAAAAAAAATAAGAGAAGGTT
1 AAAAAAAAAATAAGAGAAGATT
378657 AAAAA
1 AAAAA
378662 TTTTAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 21 0.88
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAAAAAAATAAGAGAAGATT
Found at i:380321 original size:2 final size:2
Alignment explanation
Indices: 380314--380348 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
380304 AGACAGATAG
380314 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
380349 GCCTAGTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:386875 original size:52 final size:51
Alignment explanation
Indices: 386819--386929 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 51
386809 ATACATTTCT
** *
386819 ATTGTATTGATACATTTTGGGTTTTTGACCCAAATGTATCGATACATTATTC
1 ATTGTATCAATACATTCTGGG-TTTTGACCCAAATGTATCGATACATTATTC
*
386871 ATTGTATCAATACATTCTGGGTTTTGACCCAAATGTATCGATACATTCTTC
1 ATTGTATCAATACATTCTGGGTTTTGACCCAAATGTATCGATACATTATTC
*
386922 AATGTATC
1 ATTGTATC
386930 TGTCGTAACG
Statistics
Matches: 54, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 36 0.67
52 18 0.33
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.41
Consensus pattern (51 bp):
ATTGTATCAATACATTCTGGGTTTTGACCCAAATGTATCGATACATTATTC
Found at i:390094 original size:13 final size:13
Alignment explanation
Indices: 390076--390103 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
390066 TACAAGAAAT
390076 CAATGTATCGATA
1 CAATGTATCGATA
390089 CAATGTATCGATA
1 CAATGTATCGATA
390102 CA
1 CA
390104 TTTGAGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:390166 original size:13 final size:13
Alignment explanation
Indices: 390148--390231 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
390138 AGCTTCGTAG
390148 CGATACATTGTAT
1 CGATACATTGTAT
390161 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
390180 CGATACATTGTAT
1 CGATACATTGTAT
390193 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
390212 CGATACATTGTAT
1 CGATACATTGTAT
390225 CGATACA
1 CGATACA
390232 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:390180 original size:19 final size:18
Alignment explanation
Indices: 390156--390252 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
390146 AGCGATACAT
390156 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
390175 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
390188 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
390207 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
390220 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
390239 TGTATCGATACAAA
1 TGTATCGATACAAA
390253 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 3 0.05
19 35 0.53
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:390189 original size:32 final size:32
Alignment explanation
Indices: 390148--390250 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
390138 AGCTTCGTAG
*
390148 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
390180 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
390212 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
390244 CGATACA
1 CGATACA
390251 AATCGTTGAA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:392837 original size:3 final size:3
Alignment explanation
Indices: 392819--392855 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
392809 AACCATCAAA
* *
392819 GAT GAT GAA GAA GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
392856 TAGAAGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (3 bp):
GAT
Found at i:393075 original size:24 final size:24
Alignment explanation
Indices: 393043--393102 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
393033 GTCCAAGATT
393043 GAAGGAGAAGAATTTAAATAAACC
1 GAAGGAGAAGAATTTAAATAAACC
*
393067 GAAGGAGAAGAATTTAAATAAGCC
1 GAAGGAGAAGAATTTAAATAAACC
* *
393091 AAAGAAGAAGAA
1 GAAGGAGAAGAA
393103 GGCTATGGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.57, C:0.07, G:0.23, T:0.13
Consensus pattern (24 bp):
GAAGGAGAAGAATTTAAATAAACC
Found at i:396372 original size:20 final size:19
Alignment explanation
Indices: 396330--396400 Score: 99
Period size: 20 Copynumber: 3.6 Consensus size: 19
396320 CACACCCAGA
*
396330 TGTATCGATACATG-TTCAT
1 TGTATCGATACATGCAT-AT
396349 TGTATCGATACATGCATAAT
1 TGTATCGATACATGCAT-AT
396369 TGTATCGATACATGGCATAT
1 TGTATCGATACAT-GCATAT
396389 TGTATCGATACA
1 TGTATCGATACA
396401 CTGTATCGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
19 14 0.29
20 30 0.62
21 4 0.08
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATGCATAT
Found at i:396407 original size:13 final size:13
Alignment explanation
Indices: 396389--396413 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
396379 CATGGCATAT
396389 TGTATCGATACAC
1 TGTATCGATACAC
396402 TGTATCGATACA
1 TGTATCGATACA
396414 TAATGAATTA
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:404510 original size:21 final size:22
Alignment explanation
Indices: 404486--404528 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
404476 TTTTAAAAGA
*
404486 TTATCAAGGGGGA-AAATTTTT
1 TTATCAAGAGGGAGAAATTTTT
*
404507 TTATCAAGAGGTAGAAATTTTT
1 TTATCAAGAGGGAGAAATTTTT
404529 AAACGAGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.35, C:0.05, G:0.21, T:0.40
Consensus pattern (22 bp):
TTATCAAGAGGGAGAAATTTTT
Found at i:405150 original size:20 final size:19
Alignment explanation
Indices: 405107--405178 Score: 99
Period size: 20 Copynumber: 3.7 Consensus size: 19
405097 ACATTATGCT
**
405107 TTGTATCGATACATGTTCA
1 TTGTATCGATACATGCACA
*
405126 TTGTATCAATACATGCACAA
1 TTGTATCGATACATGCAC-A
405146 TTGTATCGATACATGGCACA
1 TTGTATCGATACAT-GCACA
405166 TTGTATCGATACA
1 TTGTATCGATACA
405179 ATGTATCGAT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
19 15 0.32
20 28 0.60
21 4 0.09
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGCACA
Found at i:405185 original size:13 final size:13
Alignment explanation
Indices: 405167--405191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
405157 CATGGCACAT
405167 TGTATCGATACAA
1 TGTATCGATACAA
405180 TGTATCGATACA
1 TGTATCGATACA
405192 TGATGAATTA
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:409932 original size:13 final size:13
Alignment explanation
Indices: 409914--409938 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
409904 ACATTATGCT
409914 TTGTATCGATACC
1 TTGTATCGATACC
409927 TTGTATCGATAC
1 TTGTATCGATAC
409939 ATGAACATTG
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:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACC
Found at i:410162 original size:125 final size:125
Alignment explanation
Indices: 410009--410272 Score: 492
Period size: 125 Copynumber: 2.1 Consensus size: 125
409999 CTACCACTGT
*
410009 TTGTATCGATGCATGGCACATTGTATCGTTATAATGTATCGATACATGAAGAATTGTATCGATAC
1 TTGTATCGATACATGGCACATTGTATCGTTATAATGTATCGATACATGAAGAATTGTATCGATAC
* *
410074 ATTGTCTCAAACGGCTATAAACGGTTATAGTTTCAAATGCATATATCGATACATTATGAA
66 ATTGTCTCAAACGACTATAAACGGCTATAGTTTCAAATGCATATATCGATACATTATGAA
410134 TTGTATCGATACATGGCACATTGTATCGTTATAATGTATCGATACATGAAGAATTGTATCGATAC
1 TTGTATCGATACATGGCACATTGTATCGTTATAATGTATCGATACATGAAGAATTGTATCGATAC
410199 ATTGTCTCAAACGACTATAAACGGCTATAGTTTCAAATGCATATATCGATACATTATGAA
66 ATTGTCTCAAACGACTATAAACGGCTATAGTTTCAAATGCATATATCGATACATTATGAA
*
410259 TTGTATTGATACAT
1 TTGTATCGATACAT
410273 AGCAATGGGA
Statistics
Matches: 135, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
125 135 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (125 bp):
TTGTATCGATACATGGCACATTGTATCGTTATAATGTATCGATACATGAAGAATTGTATCGATAC
ATTGTCTCAAACGACTATAAACGGCTATAGTTTCAAATGCATATATCGATACATTATGAA
Found at i:411470 original size:572 final size:569
Alignment explanation
Indices: 410374--411513 Score: 1471
Period size: 572 Copynumber: 2.0 Consensus size: 569
410364 AGCCTATAAA
* ** * *
410374 TTTGAGTCTCCAATATCTGAACATTAAGAGAATCCATCAAGAAACACCAAGAGATCAAAGCATTC
1 TTTGAGTCTCCAATAGCTGAACAACAAGAGAAACAATCAAGAAACACCAAGAGATCAAAGCATTC
* * *
410439 AAAGTTCAATTTATTTTCTCATTTTCAAGAGCTTTTACATTCATTGTTGTTATTCTTTGAAAGCT
66 AAAGTTCAATTTATTTTCTCATTTTCAAAAGCTTTTACACTCATTATTGTTATTCTTTGAAAGCT
* *
410504 GTTTGTATTTGATTTGTGTTTATTCTTTCACAAACATCTAGAGGCAATTTTCGTTTGTACAATTT
131 GTTTGCATTTGATTTGTGTTTATTCTTTCACAAACATCTAGAGGCAATTTTCGTTTGTAAAATTT
* * * *
410569 CCTTGAATTTCGTAAGGTTGTATTCAACCTTGGGTTACAATTTCTCAAGAATTTGGGGTATAATT
196 CCTTGAATTTCATAAGGTTGCATTCAACCTTGGGTTACAATCTCTCAAGAATTTAGGGTATAATT
* * *
410634 CTTGGAGAGATCGGGAGGTTTTTATATTAGCCTAGAAAAGATAAAGTATTGCAAGGTTATACCGT
261 CTTGAAGAGATCGAGAGGTTCTTATATTAGCCTAGAAAAGATAAAGTATTGCAAGGTTATACCGT
* * * * * *
410699 TCCTAAAAGGTCAAACAATTGGTGTAGTGAATTGTGGTAACACTCAATAAGGAAGTATTGGGGAG
326 TCCTAAAAGGTCAAACAATTCGTGCAGTGAATTGTGGTAACACTCAACAAGGAAGTAGTCGAGAG
410764 AGAGGAGGACGTAGGTACCGTGTTTGGACCGAACCTCTATAAAAACTCGTGTCATGTTCTCTCTT
391 AGAGGAGGACGTAGGTACCGTGTTTGGACCGAACCTCTATAAAAACTCGTGTCATGTTCTCTCTT
** * *
410829 TTCCCTATTATCTTCATCGTCAAGTTGTTTTTGAAACAATTCTTTCAAAACCTTTAAATTTCAAA
456 TTCCCTATTATCTTCATCGTCAAGTTGTTTTCAAAACAATTCTTTCAAAACATTCAAATTTCAAA
410894 AAGAACCAATTCACCCCCCTCTTGGTTCATCC-ATCCTTGAGCTTACAG
521 AAGAACCAATTCACCCCCCTCTTGGTTCATCCAATCCTTGAGCTTACAG
* *
410942 TTTGAGTCTCCAATAGCTGAAGAACAAGAGAAACAATCAAGAAACATCAAGAGATCAAAGCATTC
1 TTTGAGTCTCCAATAGCTGAACAACAAGAGAAACAATCAAGAAACACCAAGAGATCAAAGCATTC
** *
411007 AAAGTTTTA-TTATTTTCTCATTTTCAAAAGCTTTTATACTCATTATTGTTATTCTTTGAAAGCT
66 AAAGTTCAATTTATTTTCTCATTTTCAAAAGCTTTTACACTCATTATTGTTATTCTTTGAAAGC-
* * *
411071 TTTTTGCATTTGTTTTGTGCTTT-TTCTTTCACAAACACCAGCCTACTTAGAGGTAA-TTTCTGT
130 TGTTTGCATTTGATTTGTG-TTTATTCTTTCAC-AA-A-CA---T-C-TAGAGGCAATTTTC-GT
* * *
411134 TTGTAAAATTTTCTTGAGTTGT-ATAAGGTTGCATTCAACCTTGGGTTACAATCTCTTAAGAATT
185 TTGTAAAATTTCCTTGAATT-TCATAAGGTTGCATTCAACCTTGGGTTACAATCTCTCAAGAATT
* * * * *
411198 TAGGGTATAATTCTTGAAGAGATTGAGAGGTTCTTATCTTAGCCTTGAAAAGAT-AAGTGTTGTA
249 TAGGGTATAATTCTTGAAGAGATCGAGAGGTTCTTATATTAGCCTAGAAAAGATAAAGTATTGCA
* * * *
411262 AGGTTATACCTTTGCCTGAAAGGT-AAACAATTCGTGCAGTGGATTGTGGTAACACTCGACAAGG
314 AGGTTATACCGTT-CCTAAAAGGTCAAACAATTCGTGCAGTGAATTGTGGTAACACTCAACAAGG
* * *** *
411326 AAGT-GTCGAG-GAGA-GAGGACGTAGGTACCGTGTTTGGACCGAACCTTTATACATTTTTGTGT
378 AAGTAGTCGAGAGAGAGGAGGACGTAGGTACCGTGTTTGGACCGAACCTCTATAAAAACTCGTG-
* * * * *
411388 TGA-GCTT-TCTCTTTTCCTTACTTTAT-TT-ATCTTCAAGTTGTTTTCAAAATAATTTTTTCAA
442 TCATG-TTCTCTCTTTTCCCTA--TTATCTTCATCGTCAAGTTGTTTTCAAAACAATTCTTTCAA
* * * *
411449 AATATTCAAATTTCGAAAAGAACCAATTCACCCCCTTCTTGGTTCATCCAATCTTTGAGCTTACA
504 AACATTCAAATTTCAAAAAGAACCAATTCACCCCCCTCTTGGTTCATCCAATCCTTGAGCTTACA
411514 AAGATAAATA
Statistics
Matches: 492, Mismatches: 62, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
567 50 0.10
568 90 0.18
569 5 0.01
570 1 0.00
571 2 0.00
572 126 0.26
573 24 0.05
574 8 0.02
575 64 0.13
576 121 0.25
577 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (569 bp):
TTTGAGTCTCCAATAGCTGAACAACAAGAGAAACAATCAAGAAACACCAAGAGATCAAAGCATTC
AAAGTTCAATTTATTTTCTCATTTTCAAAAGCTTTTACACTCATTATTGTTATTCTTTGAAAGCT
GTTTGCATTTGATTTGTGTTTATTCTTTCACAAACATCTAGAGGCAATTTTCGTTTGTAAAATTT
CCTTGAATTTCATAAGGTTGCATTCAACCTTGGGTTACAATCTCTCAAGAATTTAGGGTATAATT
CTTGAAGAGATCGAGAGGTTCTTATATTAGCCTAGAAAAGATAAAGTATTGCAAGGTTATACCGT
TCCTAAAAGGTCAAACAATTCGTGCAGTGAATTGTGGTAACACTCAACAAGGAAGTAGTCGAGAG
AGAGGAGGACGTAGGTACCGTGTTTGGACCGAACCTCTATAAAAACTCGTGTCATGTTCTCTCTT
TTCCCTATTATCTTCATCGTCAAGTTGTTTTCAAAACAATTCTTTCAAAACATTCAAATTTCAAA
AAGAACCAATTCACCCCCCTCTTGGTTCATCCAATCCTTGAGCTTACAG
Found at i:413545 original size:79 final size:81
Alignment explanation
Indices: 413405--413557 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 81
413395 TAAAATTCTC
* * * * **
413405 CTTCCAAAAGCATCAAAATTTTCACTATTAGGGATATTCCAACCCTATCATTCTCGGGAGGATAC
1 CTTCCAAAAGCATCAAAATTTTCACCATTAGAGATACTCCAACCCCATCATTCTCAAGAGGATAC
*
413470 TCTAACCCCGTTTTTA
66 TCCAACCCCGTTTTTA
* * *
413486 CTTCCAAAA-TATCAAAATTTTCACCA-TCGAGATACTCCAACCCCATCATTTTCAAGAGGATAC
1 CTTCCAAAAGCATCAAAATTTTCACCATTAGAGATACTCCAACCCCATCATTCTCAAGAGGATAC
413549 TCCAACCCC
66 TCCAACCCC
413558 ATAATTTTTG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
79 38 0.61
80 15 0.24
81 9 0.15
ACGTcount: A:0.32, C:0.29, G:0.10, T:0.29
Consensus pattern (81 bp):
CTTCCAAAAGCATCAAAATTTTCACCATTAGAGATACTCCAACCCCATCATTCTCAAGAGGATAC
TCCAACCCCGTTTTTA
Found at i:413550 original size:28 final size:28
Alignment explanation
Indices: 413516--413583 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
413506 TCACCATCGA
*
413516 GATACTCCAACCCCATCA-TTTTCAAGAG
1 GATACTCCAACCCCATAATTTTTCAAG-G
*
413544 GATACTCCAACCCCATAATTTTTGAAGG
1 GATACTCCAACCCCATAATTTTTCAAGG
413572 GATACTCCAACC
1 GATACTCCAACC
413584 TCGTTTTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 30 0.81
29 7 0.19
ACGTcount: A:0.32, C:0.31, G:0.12, T:0.25
Consensus pattern (28 bp):
GATACTCCAACCCCATAATTTTTCAAGG
Found at i:413576 original size:107 final size:109
Alignment explanation
Indices: 413464--413664 Score: 280
Period size: 109 Copynumber: 1.9 Consensus size: 109
413454 ATTCTCGGGA
* *
413464 GGATACTCTAACCCCGTTTTTACTTCCAAAA-TATCAAAATTTTCACCATC-GAGATACTCCAAC
1 GGATACTCCAACCCCGTTTTTACTTCCAAAAGCATCAAAATTTTCACCATCGGAGATACTCCAAC
413527 CCCATCATTTTCAAGAGGATACTCCAACCCCATAATTTTTGAAG
66 CCCATCATTTTCAAGAGGATACTCCAACCCCATAATTTTTGAAG
* * * * *
413571 GGATACTCCAACCTCGTTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGGATACTCTAAC
1 GGATACTCCAACCCCGTTTTTACTTCCAAAAGCATCAAAATTTTCACCATCGGAGATACTCCAAC
* ** * *
413636 CCCATTATTTTTGAGGGGATACTCTAACC
66 CCCATCATTTTCAAGAGGATACTCCAACC
413665 ATGTTTTTAC
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
107 29 0.36
108 16 0.20
109 35 0.44
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (109 bp):
GGATACTCCAACCCCGTTTTTACTTCCAAAAGCATCAAAATTTTCACCATCGGAGATACTCCAAC
CCCATCATTTTCAAGAGGATACTCCAACCCCATAATTTTTGAAG
Found at i:413630 original size:81 final size:79
Alignment explanation
Indices: 413543--413728 Score: 257
Period size: 81 Copynumber: 2.3 Consensus size: 79
413533 ATTTTCAAGA
* *
413543 GGATACTCCAACCCCATAATTTTTGAAGGGATACTCCAACC-TCGTTTTTACTTCCAAAAGCATC
1 GGATACTCTAACCCCATTATTTTTGAAGGGATACTCCAACCAT-GTTTTTACTT-CAAAAGCATC
** *
413607 GAATTTTTCACCATCGG
64 -AAAATTTCACCATCAG
* * **
413624 GGATACTCTAACCCCATTATTTTTGAGGGGATACTCTAACCATGTTTTTACTTCAAAATTATCAA
1 GGATACTCTAACCCCATTATTTTTGAAGGGATACTCCAACCATGTTTTTACTTCAAAAGCATCAA
413689 AATTTCACCATCAG
66 AATTTCACCATCAG
413703 GGATACTCTAACCCCATTATTTTTGA
1 GGATACTCTAACCCCATTATTTTTGA
413729 GAGAATAATT
Statistics
Matches: 95, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 39 0.41
80 8 0.08
81 47 0.49
82 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (79 bp):
GGATACTCTAACCCCATTATTTTTGAAGGGATACTCCAACCATGTTTTTACTTCAAAAGCATCAA
AATTTCACCATCAG
Found at i:413724 original size:79 final size:78
Alignment explanation
Indices: 413543--413772 Score: 266
Period size: 79 Copynumber: 2.9 Consensus size: 78
413533 ATTTTCAAGA
* * * * *
413543 GGATACTCCAACCCCATAATTTTTGAAGGGATACTCCAACCTCGTTTTTACTTCCAAAAGCATCG
1 GGATACTCTAACCCCATTATTTTTGAGGGGATACTCTAACCT-GTTTTTACTTCCAAAA-TATC-
** *
413608 AATTTTTCACCATCGG
63 AAAATTTCACCATCAG
413624 GGATACTCTAACCCCATTATTTTTGAGGGGATACTCTAACCATGTTTTTACTT-CAAAATTATCA
1 GGATACTCTAACCCCATTATTTTTGAGGGGATACTCTAACC-TGTTTTTACTTCCAAAA-TATCA
413688 AAATTTCACCATCAG
64 AAATTTCACCATCAG
* * * * *
413703 GGATACTCTAACCCCATTATTTTTGAGAGAATAAT-TCAACCCTATTTTTACTTCCAAAATATTA
1 GGATACTCTAACCCCATTATTTTTGAGGGGATACTCT-AA-CCTGTTTTTACTTCCAAAATATCA
413767 AAATTT
64 AAATTT
413773 TCATCTCGAG
Statistics
Matches: 131, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 67 0.51
80 15 0.11
81 47 0.36
82 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (78 bp):
GGATACTCTAACCCCATTATTTTTGAGGGGATACTCTAACCTGTTTTTACTTCCAAAATATCAAA
ATTTCACCATCAG
Found at i:419050 original size:11 final size:12
Alignment explanation
Indices: 419020--419096 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 12
419010 TTTCTTTGAC
419020 ATTAAAGAA-ATA
1 ATTAAA-AATATA
419032 ATTAAAAATATA
1 ATTAAAAATATA
419044 A-TAAAAATATA
1 ATTAAAAATATA
*
419055 ACATATAAAATA-A
1 A-TTA-AAAATATA
*
419068 TTTAAAAATAT-
1 ATTAAAAATATA
*
419079 A-TAAAATTGATA
1 ATTAAAAAT-ATA
419091 ATTAAA
1 ATTAAA
419097 TAAAAAAGAA
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
10 6 0.11
11 21 0.40
12 13 0.25
13 7 0.13
14 6 0.11
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (12 bp):
ATTAAAAATATA
Found at i:419078 original size:18 final size:18
Alignment explanation
Indices: 419027--419079 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
419017 GACATTAAAG
419027 AAATAA-TTAAAAATATA
1 AAATAATTTAAAAATATA
* * *
419044 ATAAAAATAT-AACATATA
1 A-AATAATTTAAAAATATA
419062 AAATAATTTAAAAATATA
1 AAATAATTTAAAAATATA
419080 TAAAATTGAT
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
17 7 0.26
18 19 0.70
19 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (18 bp):
AAATAATTTAAAAATATA
Found at i:419321 original size:16 final size:17
Alignment explanation
Indices: 419281--419325 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
419271 TCATAAGTTC
419281 ATTTCATGCATTGCATTG
1 ATTTCATGCA-TGCATTG
* *
419299 CTTTCATGCATGC-TTT
1 ATTTCATGCATGCATTG
419315 ATTTCATGCAT
1 ATTTCATGCAT
419326 TTCATGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.50
17 3 0.12
18 9 0.38
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.47
Consensus pattern (17 bp):
ATTTCATGCATGCATTG
Found at i:419342 original size:60 final size:59
Alignment explanation
Indices: 419213--419343 Score: 174
Period size: 60 Copynumber: 2.2 Consensus size: 59
419203 CGTTGCATGC
* **
419213 ATATGTTCATTTCATGCATTGCATTGCATTTCATGCATGCTTTCTTTCATGTTTCACGTC
1 ATAT-TTCATTTCATGCATTGCATTGCATTTCATGCATGCTTTATTTCATGTTTCACGAA
* *
419273 ATAAGTTCATTTCATGCATTGCATTGC-TTTCATGCATGCTTTATTTCATGCATTTCATGAA
1 AT-ATTTCATTTCATGCATTGCATTGCATTTCATGCATGCTTTATTTCATG--TTTCACGAA
419334 ATATTTCATT
1 ATATTTCATT
419344 CATTAATATG
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
59 22 0.35
60 31 0.50
61 9 0.15
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (59 bp):
ATATTTCATTTCATGCATTGCATTGCATTTCATGCATGCTTTATTTCATGTTTCACGAA
Found at i:419942 original size:22 final size:22
Alignment explanation
Indices: 419917--419958 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
419907 ATAAAAAATA
419917 AAAATGAAAA-AAAAACAGCACC
1 AAAA-GAAAAGAAAAACAGCACC
*
419939 AAAAGAAAAGAAAAATAGCA
1 AAAAGAAAAGAAAAACAGCA
419959 AAAGCAACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.12, G:0.12, T:0.05
Consensus pattern (22 bp):
AAAAGAAAAGAAAAACAGCACC
Found at i:419943 original size:38 final size:39
Alignment explanation
Indices: 419878--419955 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 39
419868 GTTGAAACAA
** *
419878 AAAAATGAAAAAAAAAAGCGAGGAAAAGAATA-AAAAAT
1 AAAAATGAAAAAAAAAAGCGACCAAAAGAAAAGAAAAAT
419916 AAAAATGAAAAAAAAACAGC-ACCAAAAGAAAAGAAAAAT
1 AAAAATGAAAAAAAAA-AGCGACCAAAAGAAAAGAAAAAT
419955 A
1 A
419956 GCAAAAGCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
38 25 0.71
39 10 0.29
ACGTcount: A:0.74, C:0.06, G:0.13, T:0.06
Consensus pattern (39 bp):
AAAAATGAAAAAAAAAAGCGACCAAAAGAAAAGAAAAAT
Found at i:426319 original size:90 final size:89
Alignment explanation
Indices: 426176--426580 Score: 465
Period size: 90 Copynumber: 4.5 Consensus size: 89
426166 ACACATTTCC
* * *
426176 TAATCATATGCCC-TTCACTCAGCC-CTTAGATGGTATTGATGCATCACAAAGCTTGATTTCATG
1 TAATCATATCCCCTTTCACCCAACCAC-TAGATGGTATTGATGCATCACAAAGCTTGATTTCATG
*
426239 GAACAAAGGTGCAGCCCACACATTAT
65 GAAC-AAGGTGTAGCCCACACATTAT
* ** * * *
426265 TAATCACATCCCCTTTCACTTAGCCCCTAGATGGTATTGATGCATCACAAAGCTTGATTTCCTAG
1 TAATCATATCCCCTTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTTCAT-G
** * * *
426330 GGGCAAGGTGTAGCCCATAGATTCT
65 GAACAAGGTGTAGCCCACACATTAT
* * *
426355 TAATCATATCCCCTTTTACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATCTCGTGG
1 TAATCATATCCCCTTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTTCATGG
426420 AACAAAGGTGTAGCCCACACATTAT
66 AAC-AAGGTGTAGCCCACACATTAT
** * * *
426445 TAATCATATCCCCTTTTTCCCAAACACTAGATGGTATTGATGCATCACAAAGTTTGATTTCCTTG
1 TAATCATATCCCCTTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTT-CATG
* * * *
426510 GAGCAAGGTGTAGCCCATAGATTCT
65 GAACAAGGTGTAGCCCACACATTAT
* * * *
426535 TAATCATATCCCCTTT-ATCCAATCACTAGATAGTACTGATGCATCA
1 TAATCATATCCCCTTTCACCCAACCACTAGATGGTATTGATGCATCA
426581 AAATTTGTCT
Statistics
Matches: 274, Mismatches: 37, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
89 39 0.14
90 225 0.82
91 10 0.04
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (89 bp):
TAATCATATCCCCTTTCACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATTTCATGG
AACAAGGTGTAGCCCACACATTAT
Found at i:426504 original size:180 final size:179
Alignment explanation
Indices: 426176--426580 Score: 587
Period size: 180 Copynumber: 2.3 Consensus size: 179
426166 ACACATTTCC
* * * * *
426176 TAATCATATGCCCTTCACTCAGCC-CTTAGATGGTATTGATGCATCACAAAGCTTGATTTCATGG
1 TAATCATATCCCCTTTACCCAACCAC-TAGATGGTATTGATGCATCACAAAGCTTGATCTCATGG
** ** *
426240 AACAAAGGTGCAGCCCACACATTATTAATCACATCCCCTTTCACTTAGCCCCTAGATGGTATTGA
65 AACAAAGGTGCAGCCCACACATTATTAATCACATCCCCTTTCACCCAAACACTAGATGGTATTGA
*
426305 TGCATCACAAAGCTTGATTTCCTAGGGGCAAGGTGTAGCCCATAGATTCT
130 TGCATCACAAAGCTTGATTTCCTAGGAGCAAGGTGTAGCCCATAGATTCT
*
426355 TAATCATATCCCCTTTTACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATCTCGTGG
1 TAATCATATCCCC-TTTACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATCTCATGG
* * **
426420 AACAAAGGTGTAGCCCACACATTATTAATCATATCCCCTTTTTCCCAAACACTAGATGGTATTGA
65 AACAAAGGTGCAGCCCACACATTATTAATCACATCCCCTTTCACCCAAACACTAGATGGTATTGA
* *
426485 TGCATCACAAAGTTTGATTTCCTTGGAGCAAGGTGTAGCCCATAGATTCT
130 TGCATCACAAAGCTTGATTTCCTAGGAGCAAGGTGTAGCCCATAGATTCT
* * * *
426535 TAATCATATCCCCTTTATCCAATCACTAGATAGTACTGATGCATCA
1 TAATCATATCCCCTTTACCCAACCACTAGATGGTATTGATGCATCA
426581 AAATTTGTCT
Statistics
Matches: 202, Mismatches: 22, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
179 41 0.20
180 160 0.79
181 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (179 bp):
TAATCATATCCCCTTTACCCAACCACTAGATGGTATTGATGCATCACAAAGCTTGATCTCATGGA
ACAAAGGTGCAGCCCACACATTATTAATCACATCCCCTTTCACCCAAACACTAGATGGTATTGAT
GCATCACAAAGCTTGATTTCCTAGGAGCAAGGTGTAGCCCATAGATTCT
Found at i:426797 original size:47 final size:47
Alignment explanation
Indices: 426726--426927 Score: 218
Period size: 47 Copynumber: 4.4 Consensus size: 47
426716 AAATTTTTCT
*
426726 TTGTTTGACCGTATTGGCATTAGGACCT-GATCAAACTCTTTCCACCC
1 TTGTTTGACTGTATTGGCATTAGGACCTAG-TCAAACTCTTTCCACCC
* * * *
426773 TCGTTTGGCTGTATTGGCATTAGGACCTAGTCAAACTCTTTTCACCT
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACCC
* *
426820 TTGTTTGACTATATTGGCATTAGGACCTAGTCTAACT-TTTCTCA-CC
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTC-CACCC
* * * *
426866 TTATTTGACTGTATTGACATTATGACCTGGTCAAA--CTTTCCA-CC
1 TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACCC
* *
426910 TTAGTTTGATTATATTGG
1 TT-GTTTGACTGTATTGG
426928 TTTTAATTCC
Statistics
Matches: 130, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
44 6 0.05
45 15 0.12
46 33 0.25
47 75 0.58
48 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (47 bp):
TTGTTTGACTGTATTGGCATTAGGACCTAGTCAAACTCTTTCCACCC
Found at i:427091 original size:42 final size:42
Alignment explanation
Indices: 427039--428107 Score: 517
Period size: 42 Copynumber: 25.4 Consensus size: 42
427029 CCTCATCTTA
* *
427039 AGTCTGCCTATTGGCTTTGACCTTGGAGACTTTCTCACTTTC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* * * * *
427081 AGTCTACCTATGGGCTTTGACTTTAGAGACTAAT-TCA-TCTC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACT-TTCTCACTCTC
* * * *
427122 AAGTCTACGTGTTGGCTTTGACCTTGGAGA-TATTCTCAC-CTTC
1 -AGTCTGCCTATCGGCTTTGACCTTGGAGACT-TTCTCACTC-TC
* * * *
427165 AGTCTGCCTATCAGCTTTGACCCTAGAGAC-TGCTTCA-TCTC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTC-TCACTCTC
* *
427206 AAGTCTGTCTATCAGCTTTGACCTTTGGAGACTTTCTCAC-CTTC
1 -AGTCTGCCTATCGGCTTTGACC-TTGGAGACTTTCTCACTC-TC
* ** *
427250 AGTCTGCTTATTAGCTTTGACCTTGGAGACTTTCTCACCCTC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* * * * *
427292 CGTCTACCTATTGGCTTTGACCTTGGAGA-TTGCTTCAC-CTTA
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTC-TCACTC-TC
* * * *
427334 AGTTTGCCTGTCGACTTTGACCTTGGAGACTTTCTTAC-CTTC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTC-TC
* * * * * * *
427376 AGTCTACTTTTTGCCTTTGACCTTGGA-AATTACCTCA-TCTC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTT-TCTCACTCTC
* * * *
427417 AAGTCTGCCTATCAGCTTTGACCCTGGAGACTTTCTTACCCTC
1 -AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* ** * ** **
427460 AGTCTGCCTGTCAACTTTAACCTTAAAGACTGCCTCA-TCTC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* * * * *
427501 AAGTCTGCTTATTGGCTTTGA-CTCGAAAGACTTTCTTAC-CTTC
1 -AGTCTGCCTATCGGCTTTGACCTTG-GAGACTTTCTCACTC-TC
*
427544 AGTCTGTCCTGA-CGGCTTTGACCTTGGAGAC-TGCTTCAC-CTC
1 AGTCTG-CCT-ATCGGCTTTGACCTTGGAGACTTTC-TCACTCTC
* * * **
427586 AAGTCTACCTATTGGCTTTGACCCTGGAGACTGCCTCAC-CTC
1 -AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* * * * * *
427628 AAG-CTTGCCTATTGGCTTTGACCCTAGAGACTTTTTTAC-CTTT
1 -AGTC-TGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTC-TC
* *
427671 AGTCTGCCT-GCTGGCTTTGACCTTGGAGA-TTACCTCAC-CTC
1 AGTCTGCCTATC-GGCTTTGACCTTGGAGACTT-TCTCACTCTC
* * * *
427712 AAGTCTGCCTGTCAGCTTTGACCTTGG-GACTTTCTTACCCTC
1 -AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* * * * * * ** *
427754 AGTTTACCTGTCGGCTTTGACCCTAGAGAATGCCTTA-TCTC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* * * *
427795 AAGTCTACCTGTCTGCTTTGACCTTGGAGACTTTCTCACTTTC
1 -AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* * * * *
427838 AATCTGCTTGTCGGCTTTGACCCTGGAGACTGTCTCA-TCTC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* * * * *
427879 AAGTCTGCTTATCGGCTTTGACCCTAGAGACTTTCTTACCCTC
1 -AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* * * * * * ** *
427922 AGTCAGCCTGTCGACTTTGACCCTAGTGACTACCTCA-TCTTA
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTC-TC
* * ** * * *
427964 AGTCTACCTGTCAACTTTGGCCTTGGAGACTTTCTTAC-CTTT
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTC-TC
** **
428006 AGTCTGCCTGCCGGCTTTGACCTTGGAGACTGCCTCA-TCTC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* * * * * * *
428047 AAGTCTGCTTGTCGACTTTCACCCTAGAGACTTTTTCA-TCTC
1 -AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
* *
428089 TTGTCTGCCTGTCGGCTTT
1 -AGTCTGCCTATCGGCTTT
428108 AACTCAGGAG
Statistics
Matches: 789, Mismatches: 187, Indels: 102
0.73 0.17 0.09
Matches are distributed among these distances:
41 64 0.08
42 640 0.81
43 77 0.10
44 8 0.01
ACGTcount: A:0.17, C:0.28, G:0.18, T:0.36
Consensus pattern (42 bp):
AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCTCACTCTC
Found at i:427565 original size:295 final size:293
Alignment explanation
Indices: 427029--427910 Score: 968
Period size: 295 Copynumber: 3.0 Consensus size: 293
427019 TCAAACTCTA
* * * * *
427029 CCTCATCTTAAGTCTGCCTATTGGCTTTGACCTTGGAGACTTTCTCACTTTCAGTCTACCTATGG
1 CCTCACCTTAAGTTTGCCTATTGGCTTTGACCTTGGAGACTTTCTTACCTTCAGTCTACCTATTG
* * * ** * * **
427094 GCTTTGACTTTAGAGACTAATTCATCTCAAGTCTACGTGTTGGCTTTGACCTTGGAGA-TATTCT
66 GCTTTGACCTTGGAGATTACCTCATCTCAAGTCTGCCTGTCAGCTTTGACCTTGGAGACT-TTCT
* * * * *
427158 CACCTTCAGTCTGCCTATCAGCTTTGACCCTAGAGACTGCTTCATCTCAAGTCTG-TCTATCAGC
130 TACCCTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCCTCATCTCAAGTCTGCT-TAT-TGC
* **
427222 TTTGACCTTTGGAGACTTTCTCACCTTCAGTCTG-CTTATTAGCTTTGACCTTGGAGACTTTCTC
193 TTTGACC-TTGGAGACTTTCTCACCTTCAGTCTGCCTGA-CGGCTTTGACCTTGGAGACTTTCTC
* * *
427286 ACCCTC-CGTCTACCTATTGGCTTTGACCTTGGAGATTG
256 A-CCTCAAGTCTACCTATTGGCTTTGACCCTGGAGACTG
* * * * * *
427324 CTTCACCTTAAGTTTGCCTGTCGACTTTGACCTTGGAGACTTTCTTACCTTCAGTCTACTTTTTG
1 CCTCACCTTAAGTTTGCCTATTGGCTTTGACCTTGGAGACTTTCTTACCTTCAGTCTACCTATTG
* * * *
427389 CCTTTGACCTTGGAAATTACCTCATCTCAAGTCTGCCTATCAGCTTTGACCCTGGAGACTTTCTT
66 GCTTTGACCTTGGAGATTACCTCATCTCAAGTCTGCCTGTCAGCTTTGACCTTGGAGACTTTCTT
* * * *
427454 ACCCTCAGTCTGCCTGTCAACTTTAACCTTAAAGACTGCCTCATCTCAAGTCTGCTTATTGGCTT
131 ACCCTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCCTCATCTCAAGTCTGCTTATT-GCTT
* * * *
427519 TGA-CTCGAAAGACTTTCTTACCTTCAGTCTGTCCTGACGGCTTTGACCTTGGAGAC-TGCTTCA
195 TGACCTTG-GAGACTTTCTCACCTTCAGTCTG-CCTGACGGCTTTGACCTTGGAGACTTTC-TCA
427582 CCTCAAGTCTACCTATTGGCTTTGACCCTGGAGACTG
257 CCTCAAGTCTACCTATTGGCTTTGACCCTGGAGACTG
* * * * * * * **
427619 CCTCACCTCAAGCTTGCCTATTGGCTTTGACCCTAGAGACTTTTTTACCTTTAGTCTGCCTGCTG
1 CCTCACCTTAAGTTTGCCTATTGGCTTTGACCTTGGAGACTTTCTTACCTTCAGTCTACCTATTG
*
427684 GCTTTGACCTTGGAGATTACCTCACCTCAAGTCTGCCTGTCAGCTTTGACCTTGG-GACTTTCTT
66 GCTTTGACCTTGGAGATTACCTCATCTCAAGTCTGCCTGTCAGCTTTGACCTTGGAGACTTTCTT
* * * * * * * *
427748 ACCCTCAGTTTACCTGTCGGCTTTGACCCTAGAGAATGCCTTATCTCAAGTCTACCTGTCTGCTT
131 ACCCTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCCTCATCTCAAGTCTGCTTAT-TGCTT
* * * * * * *
427813 TGACCTTGGAGACTTTCTCACTTTCAATCTGCTTGTCGGCTTTGACCCTGGAGACTGTCTCATCT
195 TGACCTTGGAGACTTTCTCACCTTCAGTCTGCCTGACGGCTTTGACCTTGGAGACTTTCTCACCT
* * * *
427878 CAAGTCTGCTTATCGGCTTTGACCCTAGAGACT
260 CAAGTCTACCTATTGGCTTTGACCCTGGAGACT
427911 TTCTTACCCT
Statistics
Matches: 487, Mismatches: 89, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
293 57 0.12
294 111 0.23
295 314 0.64
296 5 0.01
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (293 bp):
CCTCACCTTAAGTTTGCCTATTGGCTTTGACCTTGGAGACTTTCTTACCTTCAGTCTACCTATTG
GCTTTGACCTTGGAGATTACCTCATCTCAAGTCTGCCTGTCAGCTTTGACCTTGGAGACTTTCTT
ACCCTCAGTCTGCCTGTCAGCTTTGACCCTAGAGACTGCCTCATCTCAAGTCTGCTTATTGCTTT
GACCTTGGAGACTTTCTCACCTTCAGTCTGCCTGACGGCTTTGACCTTGGAGACTTTCTCACCTC
AAGTCTACCTATTGGCTTTGACCCTGGAGACTG
Found at i:428011 original size:126 final size:126
Alignment explanation
Indices: 427039--428012 Score: 579
Period size: 126 Copynumber: 7.7 Consensus size: 126
427029 CCTCATCTTA
* * * ** * * * * ** *
427039 AGTCTGCCTATTGGCTTTGACCTTGGAGACTTTCTCACTTTCAGTCTACCTATGGGCTTTGACTT
1 AGTCTGCCTGTCGACTTTGACCTTGGAGACTGCCTCACCTTAAGTCTGCCTGTCAGCTTTGACCT
* * * * * * * * * * *
427104 TAGAGACTAAT-TCATCTCAAGTCTACGTGTTGGCTTTGACCTTGGAGA-TATTCTCACCTTC
66 TGGAGACT-TTCTCACCTTAAGTCTGCTTATTGGCTTTGACCCTAGAGACT-TTCTTACCCTC
* * * * * * * *
427165 AGTCTGCCTATC-AGCTTTGACCCTAGAGACTGCTTCATCTCAAGTCTGTCTATCAGCTTTGACC
1 AGTCTGCCTGTCGA-CTTTGACCTTGGAGACTGCCTCACCTTAAGTCTGCCTGTCAGCTTTGACC
* * * * *
427229 TTTGGAGACTTTCTCACCTTCAGTCTGCTTATTAGCTTTGACCTTGGAGACTTTCTCACCCTC
65 -TTGGAGACTTTCTCACCTTAAGTCTGCTTATTGGCTTTGACCCTAGAGACTTTCTTACCCTC
* * * * * * * *
427292 CGTCTACCTATTGGCTTTGACCTTGGAGATTGCTTCACCTTAAGTTTGCCTGTC-GACTTTGACC
1 AGTCTGCCTGTCGACTTTGACCTTGGAGACTGCCTCACCTTAAGTCTGCCTGTCAG-CTTTGACC
* * * * * * * * * * *
427356 TTGGAGACTTTCTTACCTTCAGTCTACTTTTTGCCTTTGACCTTGGA-AATTACCT-CATCTC
65 TTGGAGACTTTCTCACCTTAAGTCTGCTTATTGGCTTTGACCCTAGAGACTTTCTTAC-CCTC
* * ** * * * * *
427417 AAGTCTGCCTATC-AGCTTTGACCCTGGAGACTTTCTTACCCTCAGTCTGCCTGTCAACTTTAAC
1 -AGTCTGCCTGTCGA-CTTTGACCTTGGAGACTGCCTCACCTTAAGTCTGCCTGTCAGCTTTGAC
** ** * * * * * *
427481 CTTAAAGACTGCCTCATCTCAAGTCTGCTTATTGGCTTTGACTCGAAAGACTTTCTTACCTTC
64 CTTGGAGACTTTCTCACCTTAAGTCTGCTTATTGGCTTTGACCCTAGAGACTTTCTTACCCTC
* * * * * * **
427544 AGTCTGTCCTGACGGCTTTGACCTTGGAGACTGCTTCACCTCAAGTCTACCTATTGGCTTTGACC
1 AGTCTG-CCTGTCGACTTTGACCTTGGAGACTGCCTCACCTTAAGTCTGCCTGTCAGCTTTGACC
* ** * * * * *
427609 CTGGAGACTGCCTCACCTCAAG-CTTGCCTATTGGCTTTGACCCTAGAGACTTTTTTACCTTT
65 TTGGAGACTTTCTCACCTTAAGTC-TGCTTATTGGCTTTGACCCTAGAGACTTTCTTACCCTC
* * * *
427671 AGTCTGCCTG-CTGGCTTTGACCTTGGAGATTACCTCACCTCAAGTCTGCCTGTCAGCTTTGACC
1 AGTCTGCCTGTC-GACTTTGACCTTGGAGACTGCCTCACCTTAAGTCTGCCTGTCAGCTTTGACC
* * * * * * * * * ** *
427735 TTGG-GACTTTCTTACCCTCAGTTTACCTGTCGGCTTTGACCCTAGAGAATGCCTTA-TCTC
65 TTGGAGACTTTCTCACCTTAAGTCTGCTTATTGGCTTTGACCCTAGAGACTTTCTTACCCTC
* ** * * *
427795 AAGTCTACCTGTCTG-CTTTGACCTTGGAGACTTTCTCACTTTCAA-TCTGCTTGTCGGCTTTGA
1 -AGTCTGCCTGTC-GACTTTGACCTTGGAGACTGCCTCACCTT-AAGTCTGCCTGTCAGCTTTGA
* * * * *
427858 CCCTGGAGACTGTCTCATCTCAAGTCTGCTTATCGGCTTTGACCCTAGAGACTTTCTTACCCTC
63 CCTTGGAGACTTTCTCACCTTAAGTCTGCTTATTGGCTTTGACCCTAGAGACTTTCTTACCCTC
* * * * * * * * *
427922 AGTCAGCCTGTCGACTTTGACCCTAGTGACTACCTCATCTTAAGTCTACCTGTCAACTTTGGCCT
1 AGTCTGCCTGTCGACTTTGACCTTGGAGACTGCCTCACCTTAAGTCTGCCTGTCAGCTTTGACCT
* *
427987 TGGAGACTTTCTTACCTTTAGTCTGC
66 TGGAGACTTTCTCACCTTAAGTCTGC
428013 CTGCCGGCTT
Statistics
Matches: 645, Mismatches: 179, Indels: 48
0.74 0.21 0.06
Matches are distributed among these distances:
124 2 0.00
125 100 0.16
126 338 0.52
127 203 0.31
128 2 0.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (126 bp):
AGTCTGCCTGTCGACTTTGACCTTGGAGACTGCCTCACCTTAAGTCTGCCTGTCAGCTTTGACCT
TGGAGACTTTCTCACCTTAAGTCTGCTTATTGGCTTTGACCCTAGAGACTTTCTTACCCTC
Found at i:428065 original size:84 final size:84
Alignment explanation
Indices: 427029--428107 Score: 585
Period size: 84 Copynumber: 12.8 Consensus size: 84
427019 TCAAACTCTA
* * * * * * * *
427029 CCTCATCTTAAGTCTGCCTATTGGCTTTGACCTTGGAGACTTTCTCA-CTTTCAGTCTACCTATG
1 CCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTTCTTACCTTT-AGTCTGCCTGTC
** * *
427093 GGCTTTGACTTTAGAGACTA
65 GGCTTTGACCCTGGAGACTG
** * * * * * * *
427113 ATTCATCTCAAGTCTACGTGTTGGCTTTGACCTTGGAGA-TATTCTCACCTTCAGTCTGCCTATC
1 CCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTGGAGACT-TTCTTACCTTTAGTCTGCCTGTC
* *
427177 AGCTTTGACCCTAGAGACTG
65 GGCTTTGACCCTGGAGACTG
* * * * * * *
427197 CTTCATCTCAAGTCTGTCTATC-AGCTTTGACCTTTGGAGACTTTCTCACCTTCAGTCTGCTTAT
1 CCTCATCTCAAGTCTGCCTGTCGA-CTTTGACC-TTGGAGACTTTCTTACCTTTAGTCTGCCTGT
** * *
427261 TAGCTTTGACCTTGGAGACTT
64 CGGCTTTGACCCTGGAGACTG
* * * * * * * * * *
427282 TCTCACCCTC-CGTCTACCTATTGGCTTTGACCTTGGAGA-TTGCTTCACCTTAAGTTTGCCTGT
1 CCTCA-TCTCAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTTCTT-ACCTTTAGTCTGCCTGT
* * *
427345 CGACTTTGACCTTGGAGACTT
64 CGGCTTTGACCCTGGAGACTG
* * * * * * * * * * * * ** *
427366 TCTTACCTTC-AGTCTACTTTTTGCCTTTGACCTTGGA-AATTACCTCATCTCAAGTCTGCCTAT
1 CCTCATC-TCAAGTCTGCCTGTCGACTTTGACCTTGGAGACTT-TCTTACCTTTAGTCTGCCTGT
* *
427429 CAGCTTTGACCCTGGAGACTT
64 CGGCTTTGACCCTGGAGACTG
* * * * * ** ** * * ** * * *
427450 TCTTACCCTC-AGTCTGCCTGTCAACTTTAACCTTAAAGACTGCCTCATCTCAAGTCTGCTTATT
1 CCTCA-TCTCAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCCTGTC
* * *
427514 GGCTTTGACTC-GAAAGACTT
65 GGCTTTGACCCTG-GAGACTG
* * * * * * ** * *
427534 TCTTACCTTC-AGTCTGTCCTGACGGCTTTGACCTTGGAGAC-TGCTTCACCTCAAGTCTACCTA
1 CCTCATC-TCAAGTCTG-CCTGTCGACTTTGACCTTGGAGACTTTCTT-ACCTTTAGTCTGCCTG
*
427597 TTGGCTTTGACCCTGGAGACTG
63 TCGGCTTTGACCCTGGAGACTG
* * * * * * *
427619 CCTCACCTCAAG-CTTGCCTATTGGCTTTGACCCTAGAGACTTTTTTACCTTTAGTCTGCCTG-C
1 CCTCATCTCAAGTC-TGCCTGTCGACTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCCTGTC
* * *
427682 TGGCTTTGACCTTGGAGATTA
65 -GGCTTTGACCCTGGAGACTG
* * * * *
427703 CCTCACCTCAAGTCTGCCTGTC-AGCTTTGACCTTGG-GACTTTCTTACCCTCAGTTTACCTGTC
1 CCTCATCTCAAGTCTGCCTGTCGA-CTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCCTGTC
* *
427766 GGCTTTGACCCTAGAGAATG
65 GGCTTTGACCCTGGAGACTG
* * * * *
427786 CCTTATCTCAAGTCTACCTGTCTG-CTTTGACCTTGGAGACTTTCTCA-CTTTCAATCTGCTTGT
1 CCTCATCTCAAGTCTGCCTGTC-GACTTTGACCTTGGAGACTTTCTTACCTTT-AGTCTGCCTGT
427849 CGGCTTTGACCCTGGAGACTG
64 CGGCTTTGACCCTGGAGACTG
* * * * * * * * *
427870 TCTCATCTCAAGTCTGCTTATCGGCTTTGACCCTAGAGACTTTCTTACCCTCAGTCAGCCTGTCG
1 CCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCCTGTCG
* * * *
427935 ACTTTGACCCTAGTGACTA
66 GCTTTGACCCTGGAGACTG
* * * * *
427954 CCTCATCTTAAGTCTACCTGTCAACTTTGGCCTTGGAGACTTTCTTACCTTTAGTCTGCCTGCCG
1 CCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCCTGTCG
*
428019 GCTTTGACCTTGGAGACTG
66 GCTTTGACCCTGGAGACTG
* * * * *
428038 CCTCATCTCAAGTCTGCTTGTCGACTTTCACCCTAGAGACTTT-TTCATCTCTT-GTCTGCCTGT
1 CCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTTCTT-ACCT-TTAGTCTGCCTGT
428101 CGGCTTT
64 CGGCTTT
428108 AACTCAGGAG
Statistics
Matches: 786, Mismatches: 176, Indels: 66
0.76 0.17 0.06
Matches are distributed among these distances:
83 83 0.11
84 560 0.71
85 138 0.18
86 5 0.01
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (84 bp):
CCTCATCTCAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTTCTTACCTTTAGTCTGCCTGTCG
GCTTTGACCCTGGAGACTG
Found at i:428658 original size:11 final size:11
Alignment explanation
Indices: 428642--428697 Score: 53
Period size: 11 Copynumber: 4.9 Consensus size: 11
428632 ACATTAAAAA
428642 AATAAAAATAT
1 AATAAAAATAT
428653 AATAAAAATAT
1 AATAAAAATAT
428664 AAAATACAAAATA-
1 --AATA-AAAATAT
*
428677 ATTAAAAA-AT
1 AATAAAAATAT
428687 ATATAAAAATA
1 A-ATAAAAATA
428698 GTGATAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
9 1 0.03
10 5 0.14
11 20 0.54
12 1 0.03
13 4 0.11
14 6 0.16
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAAAATAT
Found at i:428674 original size:25 final size:26
Alignment explanation
Indices: 428640--428694 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 26
428630 TGACATTAAA
428640 AAAATAAAAAT-A-TAATAAAA-ATAT
1 AAAATAAAAATAATTAA-AAAATATAT
428664 AAAATACAAAATAATTAAAAAATATAT
1 AAAATA-AAAATAATTAAAAAATATAT
428691 AAAA
1 AAAA
428695 ATAGTGATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.22
25 5 0.19
26 5 0.19
27 11 0.41
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (26 bp):
AAAATAAAAATAATTAAAAAATATAT
Found at i:429189 original size:25 final size:25
Alignment explanation
Indices: 429117--429192 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
429107 AATCAACAAG
*
429117 AAAGAAACGAAAAGAAA-TGGCAGC
1 AAAGAAAAGAAAAGAAATTGGCAGC
* * **
429141 AATGAAAAAGTAATTAAATT-GCAGC
1 AAAG-AAAAGAAAAGAAATTGGCAGC
*
429166 AAAGAAATGAAAAGAAATTGGCAGC
1 AAAGAAAAGAAAAGAAATTGGCAGC
429191 AA
1 AA
429193 CTGCTGTAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
24 14 0.36
25 24 0.62
26 1 0.03
ACGTcount: A:0.57, C:0.09, G:0.21, T:0.13
Consensus pattern (25 bp):
AAAGAAAAGAAAAGAAATTGGCAGC
Found at i:429519 original size:25 final size:23
Alignment explanation
Indices: 429485--429544 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 23
429475 GTGGAGAGCT
*
429485 GAAAC-AAAAAAAGGAAAAAAAA
1 GAAACGAAAAAAAAGAAAAAAAA
* * *
429507 GAAGCGAGAAAAAGAATAAAAAATA
1 GAAACGA-AAAAA-AAGAAAAAAAA
429532 GAAACGAAAAAAA
1 GAAACGAAAAAAA
429545 TAGCACCGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
22 4 0.13
23 2 0.07
24 10 0.33
25 14 0.47
ACGTcount: A:0.75, C:0.05, G:0.17, T:0.03
Consensus pattern (23 bp):
GAAACGAAAAAAAAGAAAAAAAA
Found at i:429544 original size:15 final size:15
Alignment explanation
Indices: 429524--429564 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
429514 GAAAAAGAAT
429524 AAAAAATAGAAACGA
1 AAAAAATAGAAACGA
* *
429539 AAAAAATAGCACCGA
1 AAAAAATAGAAACGA
429554 AAAAAA-AGAAA
1 AAAAAATAGAAA
429565 AACAGCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 3 0.14
15 19 0.86
ACGTcount: A:0.73, C:0.10, G:0.12, T:0.05
Consensus pattern (15 bp):
AAAAAATAGAAACGA
Found at i:429657 original size:21 final size:22
Alignment explanation
Indices: 429619--429664 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
429609 AGCAATAAAA
429619 AAAGACAACAGCAAACATCAAGC
1 AAAGACAACA-CAAACATCAAGC
429642 AAAGACAACA-AAACATCAAGC
1 AAAGACAACACAAACATCAAGC
429663 AA
1 AA
429665 TAGCAGCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.57
23 10 0.43
ACGTcount: A:0.61, C:0.24, G:0.11, T:0.04
Consensus pattern (22 bp):
AAAGACAACACAAACATCAAGC
Found at i:429687 original size:31 final size:31
Alignment explanation
Indices: 429652--429739 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 31
429642 AAAGACAACA
429652 AAACATCAAGCAATAGCAGCAAGATATAAAG
1 AAACATCAAGCAATAGCAGCAAGATATAAAG
* * *
429683 AAACA--AA-C---ACCAACAAGAAAT-AAG
1 AAACATCAAGCAATAGCAGCAAGATATAAAG
429707 ---CATCAAGCAATAGCAGCAAGATATAAAG
1 AAACATCAAGCAATAGCAGCAAGATATAAAG
429735 AAACA
1 AAACA
429740 AACACCAGCA
Statistics
Matches: 41, Mismatches: 6, Indels: 20
0.61 0.09 0.30
Matches are distributed among these distances:
21 2 0.05
23 2 0.05
24 4 0.10
25 10 0.24
27 10 0.24
28 4 0.10
29 2 0.05
31 7 0.17
ACGTcount: A:0.58, C:0.18, G:0.14, T:0.10
Consensus pattern (31 bp):
AAACATCAAGCAATAGCAGCAAGATATAAAG
Found at i:429705 original size:25 final size:25
Alignment explanation
Indices: 429668--429758 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
429658 CAAGCAATAG
*
429668 CAGCAAGATATAAAGAAACAAACAC
1 CAGCAAGAAATAAAGAAACAAACAC
* * *
429693 CAACAAGAAAT-AAGCATCAAGC-AATAG
1 CAGCAAGAAATAAAG-A--AA-CAAACAC
*
429720 CAGCAAGATATAAAGAAACAAACAC
1 CAGCAAGAAATAAAGAAACAAACAC
429745 CAGCAAGAAATAAA
1 CAGCAAGAAATAAA
429759 CATCAAACAA
Statistics
Matches: 51, Mismatches: 9, Indels: 12
0.71 0.12 0.17
Matches are distributed among these distances:
24 4 0.08
25 28 0.55
27 15 0.29
28 4 0.08
ACGTcount: A:0.59, C:0.19, G:0.13, T:0.09
Consensus pattern (25 bp):
CAGCAAGAAATAAAGAAACAAACAC
Found at i:429711 original size:52 final size:52
Alignment explanation
Indices: 429652--429764 Score: 208
Period size: 52 Copynumber: 2.2 Consensus size: 52
429642 AAAGACAACA
429652 AAACATCAAGCAATAGCAGCAAGATATAAAGAAACAAACACCAACAAGAAAT
1 AAACATCAAGCAATAGCAGCAAGATATAAAGAAACAAACACCAACAAGAAAT
* *
429704 AAGCATCAAGCAATAGCAGCAAGATATAAAGAAACAAACACCAGCAAGAAAT
1 AAACATCAAGCAATAGCAGCAAGATATAAAGAAACAAACACCAACAAGAAAT
429756 AAACATCAA
1 AAACATCAA
429765 ACAAGCAGAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.58, C:0.19, G:0.12, T:0.10
Consensus pattern (52 bp):
AAACATCAAGCAATAGCAGCAAGATATAAAGAAACAAACACCAACAAGAAAT
Found at i:429767 original size:28 final size:28
Alignment explanation
Indices: 429683--429768 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 28
429673 AGATATAAAG
* *
429683 AAACAAACACCAACAAGAAATAAGCATC
1 AAACAAACACCAGCAAGAAATAAACATC
* * * * *
429711 AAGC-AATAGCAGCAAGATAT-AA-A-G
1 AAACAAACACCAGCAAGAAATAAACATC
429735 AAACAAACACCAGCAAGAAATAAACATC
1 AAACAAACACCAGCAAGAAATAAACATC
429763 AAACAA
1 AAACAA
429769 GCAGAACAGC
Statistics
Matches: 42, Mismatches: 12, Indels: 8
0.68 0.19 0.13
Matches are distributed among these distances:
24 3 0.07
25 14 0.33
26 3 0.07
27 13 0.31
28 9 0.21
ACGTcount: A:0.60, C:0.21, G:0.10, T:0.08
Consensus pattern (28 bp):
AAACAAACACCAGCAAGAAATAAACATC
Found at i:429788 original size:52 final size:52
Alignment explanation
Indices: 429652--429789 Score: 145
Period size: 52 Copynumber: 2.7 Consensus size: 52
429642 AAAGACAACA
* * * *
429652 AAACATCAAGCAATAGCAGCAAGATATAAAGAAACAAACACCAACAAGAAAT
1 AAACATCAAACAATAGCAGAAAGAAAGAAAGAAACAAACACCAACAAGAAAT
* * * * * *
429704 AAGCATCAAGCAATAGCAGCAAGATATAAAGAAACAAACACCAGCAAGAAAT
1 AAACATCAAACAATAGCAGAAAGAAAGAAAGAAACAAACACCAACAAGAAAT
*
429756 AAACATCAAAC-A-AGCAGAACAGCAAAGCAAGAAA
1 AAACATCAAACAATAGCAGAA-AG-AAAGAAAGAAA
429790 TGAAGCAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
50 6 0.08
51 3 0.04
52 67 0.88
ACGTcount: A:0.59, C:0.20, G:0.14, T:0.08
Consensus pattern (52 bp):
AAACATCAAACAATAGCAGAAAGAAAGAAAGAAACAAACACCAACAAGAAAT
Found at i:438082 original size:20 final size:20
Alignment explanation
Indices: 438057--438111 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
438047 TTTTAGGTAA
438057 ATGTATTAATACATTCACTT
1 ATGTATTAATACATTCACTT
* * *
438077 ATGTATCAAAACATTTACTT
1 ATGTATTAATACATTCACTT
* *
438097 ATGCATTGATACATT
1 ATGTATTAATACATT
438112 TTGGTCTAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.36, C:0.15, G:0.07, T:0.42
Consensus pattern (20 bp):
ATGTATTAATACATTCACTT
Found at i:439002 original size:51 final size:53
Alignment explanation
Indices: 438865--439002 Score: 129
Period size: 51 Copynumber: 2.6 Consensus size: 53
438855 TATACAAGTC
* * * *
438865 CTAGCTAATGTAAACTTTGACTTTATAGGGCTTGCCCTCTCTCTATATAGGTA
1 CTAGTTAATGTGAACTTTGACTCTATAAGGCTTGCCCTCTCTCTATATAGGTA
* * *** ** * *
438918 CCAATTAGCATGAACTTCAACTCTAT-AGCGCTTG-GC-CTCTCTATATAGGTG
1 CTAGTTAATGTGAACTTTGACTCTATAAG-GCTTGCCCTCTCTCTATATAGGTA
438969 CTAGTTAATGTGAACTTTGACTCTATAAGGCTTG
1 CTAGTTAATGTGAACTTTGACTCTATAAGGCTTG
439003 ACTTCCCTAG
Statistics
Matches: 63, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
51 38 0.60
52 4 0.06
53 21 0.33
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (53 bp):
CTAGTTAATGTGAACTTTGACTCTATAAGGCTTGCCCTCTCTCTATATAGGTA
Found at i:443529 original size:20 final size:21
Alignment explanation
Indices: 443484--443538 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
443474 CATAAGTAAG
**
443484 TGTATCGATACATTTACTGTT
1 TGTATCGATACATTTACTCAT
*
443505 TGTATCGATACATTT-TTCAT
1 TGTATCGATACATTTACTCAT
*
443525 TGTATCGGTACATT
1 TGTATCGATACATT
443539 CTGGGTTGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.47
Consensus pattern (21 bp):
TGTATCGATACATTTACTCAT
Found at i:443581 original size:51 final size:51
Alignment explanation
Indices: 443505--443641 Score: 186
Period size: 51 Copynumber: 2.7 Consensus size: 51
443495 ATTTACTGTT
* * *
443505 TGTATCGATACATTTTTCATTGTATCGGTACATTCTGGGTTGTAACCCAAA
1 TGTATCGATACATTTTTAATTGTATCGATACATTCTGAGTTGTAACCCAAA
* **
443556 TGTATCGATACATTTTTAATTGTATCGATACATTCTGAGTTTTAACCCTGA
1 TGTATCGATACATTTTTAATTGTATCGATACATTCTGAGTTGTAACCCAAA
* *
443607 TGTATCGATACATTTCTCAA-TGTATCGATATATTC
1 TGTATCGATACATTT-TTAATTGTATCGATACATTC
443642 AAGCATTTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
51 74 0.96
52 3 0.04
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (51 bp):
TGTATCGATACATTTTTAATTGTATCGATACATTCTGAGTTGTAACCCAAA
Found at i:446103 original size:79 final size:79
Alignment explanation
Indices: 445986--446386 Score: 391
Period size: 79 Copynumber: 5.1 Consensus size: 79
445976 TCATTGATGT
* *
445986 TTTTATTTTTAAAACACCGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCTAAGAGAA
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCTAAGAGAA
**
446051 TACTTCAACCCCAA
66 TACTTCAACCCCGG
* * * * * * * * * *
446065 TTTTATTTTTAAAACATTGATTTTTCACTATCGGGGATACTACAACCTCGTTATTTTTTAGGGGA
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGAGGATACTCCAACCCCGTTA-TTTCTAAGAGA
*
446130 A-AC-TCAAACCCTGG
65 ATACTTC-AACCCCGG
* * * * * * *
446144 TTTTATTTGTAAAACACTGATTTTTCACAATC-ATGGATACTCCAACCTCGTTATTTCTGAGGGG
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGA-GGATACTCCAACCCCGTTATTTCTAAGAGA
*
446208 ATACTGCAACCCCGG
65 ATACTTCAACCCCGG
* **
446223 TTATT-TTTCTAAAACACTAATTTTCCACCATCGAGGATACTCCAACCCTATTATTTCTGAA-AG
1 TT-TTATTTCTAAAACACTGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCT-AAGAG
*
446286 GATAC-TCTAACCCCGG
64 AATACTTC-AACCCCGG
* ** * *
446302 TTTTATTTCTAAAACATTGATTTTCCATAATCGAGGATACTCCAATCCCGTTATTTCTGAGAGAA
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCTAAGAGAA
* * *
446367 TACTCCAACCCTGT
66 TACTTCAACCCCGG
446381 TTTTAT
1 TTTTAT
446387 CTCCAAAATA
Statistics
Matches: 264, Mismatches: 46, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
78 14 0.05
79 235 0.89
80 15 0.06
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.36
Consensus pattern (79 bp):
TTTTATTTCTAAAACACTGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCTAAGAGAA
TACTTCAACCCCGG
Found at i:446277 original size:158 final size:157
Alignment explanation
Indices: 445986--446377 Score: 448
Period size: 158 Copynumber: 2.5 Consensus size: 157
445976 TCATTGATGT
* * * *
445986 TTTTATTTTTAAAACACCGATTTTCCACCATCGAGGATACTCCAACCCCGTTATTTCTAAGAGAA
1 TTTTATTTCTAAAACACTGATTTTCCACAATCGAGGATACTCCAA-CCCGTTATTTCTGAGAGAA
* * * * * * * *
446051 TACTTCAACCCCAATTTTATTTTTAAAACATTGATTTTTCACTATCGGGGATACTACAACCTCGT
65 TACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTCCACCATCGAGGATACTACAACCTCAT
* * ** *
446116 TATTTTTTAGGGGAAACTCAAACCCTGG
130 TATTTCTGAAAGGAAACTCAAACCCCGG
* * * *
446144 TTTTATTTGTAAAACACTGATTTTTCACAATC-ATGGATACTCCAACCTCGTTATTTCTGAGGGG
1 TTTTATTTCTAAAACACTGATTTTCCACAATCGA-GGATACTCCAACC-CGTTATTTCTGAGAGA
* ** *
446208 ATACTGCAACCCCGGTTATT-TTTCTAAAACACTAATTTTCCACCATCGAGGATACTCCAACC-C
64 ATACTCCAACCCCAATT-TTATTTCTAAAACACTAATTTTCCACCATCGAGGATACTACAACCTC
* *
446271 TATTATTTCTGAAAGGATACTCTAACCCCGG
128 -ATTATTTCTGAAAGGAAACTCAAACCCCGG
* *
446302 TTTTATTTCTAAAACATTGATTTTCCATAATCGAGGATACTCCAATCCCGTTATTTCTGAGAGAA
1 TTTTATTTCTAAAACACTGATTTTCCACAATCGAGGATACTCCAA-CCCGTTATTTCTGAGAGAA
446367 TACTCCAACCC
65 TACTCCAACCC
446378 TGTTTTTATC
Statistics
Matches: 196, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
157 4 0.02
158 187 0.95
159 5 0.03
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (157 bp):
TTTTATTTCTAAAACACTGATTTTCCACAATCGAGGATACTCCAACCCGTTATTTCTGAGAGAAT
ACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTCCACCATCGAGGATACTACAACCTCATT
ATTTCTGAAAGGAAACTCAAACCCCGG
Found at i:459833 original size:61 final size:61
Alignment explanation
Indices: 459730--460129 Score: 350
Period size: 61 Copynumber: 6.6 Consensus size: 61
459720 AACCTTTTAT
* * * *
459730 CCTTCCAGTCCTCAAAGAGCAGGACGCTTTCTCTTTTGAAAGCCCATACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCATTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* *
459791 CCTTTCAGTCCTCATAGAGCAGGACGCATTCTCTTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCATTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA
** * * * *** * * * *
459852 ATTTTTAGTCATTAAAGAGCTTAACAC-TT-TCCTTTCAAAGCCCAAACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCATTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
459911 CCTTTTAGTCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAGGACGCATTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
459972 -CTTTCCAATCCTCAAAGAGCAGGA--CATTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTT-CAGTCCTCAAAGAGCAGGACGCATTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
460031 -TTTTCTAGTCCCCAAAGAGCATGACAC-TTCT-TTTTTAAAAGCCCACATAAGCTGGT-GCTA
1 CCTTTC-AGTCCTCAAAGAGCAGGACGCATTCTCTTTTT-AAAGCCCACACAAGTTGGTGGC-A
* * * *
460091 CTTTTTAGTCCTCAAAGAGTAGGATGCATCTCTCTTTTT
1 CCTTTCAGTCCTCAAAGAGCAGGACGCAT-TCTCTTTTT
460130 CCATCTTAAA
Statistics
Matches: 276, Mismatches: 51, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
58 1 0.00
59 100 0.36
60 45 0.16
61 122 0.44
62 3 0.01
63 5 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (61 bp):
CCTTTCAGTCCTCAAAGAGCAGGACGCATTCTCTTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:459989 original size:120 final size:120
Alignment explanation
Indices: 459732--460114 Score: 396
Period size: 120 Copynumber: 3.2 Consensus size: 120
459722 CCTTTTATCC
* * * *
459732 TTCCAGTCCTCAAAGAGCAGGACGCTTTCTCTTTTGAAAGCCCATACAAGTTGGTGGCACCTTTC
1 TTCCAGTCCTCAAAGAGCAGGACACTTTC-C-TTTCAAAGCCCAAACAAGTTGGTGGCACCTTTT
* * * *
459797 AGTCCTCATAGAGCAGGACGCATTCTCTTTTTAAAGCCTACACAAGTTGGTGGCAAT
64 AGTCCTCAAAGAGCAAGACGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAAT
** * * ***
459854 TTTTAGTCATTAAAGAGCTTAACACTTTCCTTTCAAAGCCCAAACAAGTTGGTGGCACCTTTTAG
1 TTCCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCAAACAAGTTGGTGGCACCTTTTAG
* * * *
459919 TCCTCAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACT
66 TCCTCAAAGAGCAAGACGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAAT
* * * *
459974 TTCCAATCCTCAAAGAGCAGGACATTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTA
1 TTCCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCAAACAAGTTGGTGGCACCTTT-TA
* * * * * * *
460038 GTCCCCAAAGAGCATGACAC-TTCT-TTTTTAAAAGCCCACATAAGCTGGT-GCTACT
65 GTCCTCAAAGAGCAAGACGCATTCTCCTTTT-AAAGCCCACACAAGTTGGTGGC-AAT
** *
460093 TTTTAGTCCTCAAAGAGTAGGA
1 TTCCAGTCCTCAAAGAGCAGGA
460115 TGCATCTCTC
Statistics
Matches: 216, Mismatches: 42, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
118 6 0.03
119 44 0.20
120 144 0.67
121 1 0.00
122 21 0.10
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (120 bp):
TTCCAGTCCTCAAAGAGCAGGACACTTTCCTTTCAAAGCCCAAACAAGTTGGTGGCACCTTTTAG
TCCTCAAAGAGCAAGACGCATTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAAT
Found at i:460178 original size:70 final size:70
Alignment explanation
Indices: 460065--460216 Score: 227
Period size: 70 Copynumber: 2.2 Consensus size: 70
460055 CACTTCTTTT
* * * *
460065 TTAAAAGCCCACATAAGCTGGTGCTACTTTTTAGTCCTCAAAGAGTAGGATGCATCTCTCTTTTT
1 TTAAAAGCCCACATAAGCTGGTGCTACTTTCTAGTCCTCAAAGAGCAAGACGCATCTCTCTTTTT
460130 CCATC
66 CCATC
* *
460135 TTAAAAGCCTACATAAGCTGGTGGC-ACTTTCTAGTCCTCAAAGAGCAAGACGCCTCTCTCTTTT
1 TTAAAAGCCCACATAAGCTGGT-GCTACTTTCTAGTCCTCAAAGAGCAAGACGCATCTCTCTTTT
460199 TCCATC
65 TCCATC
460205 TT-AAAGCCCACA
1 TTAAAAGCCCACA
460217 CAAGTTGTGG
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
69 9 0.12
70 63 0.85
71 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (70 bp):
TTAAAAGCCCACATAAGCTGGTGCTACTTTCTAGTCCTCAAAGAGCAAGACGCATCTCTCTTTTT
CCATC
Found at i:460752 original size:13 final size:13
Alignment explanation
Indices: 460734--460758 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
460724 ACAAATAGTA
460734 AATGTATCGATAC
1 AATGTATCGATAC
460747 AATGTATCGATA
1 AATGTATCGATA
460759 TAAGCCTAAA
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:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:460933 original size:50 final size:51
Alignment explanation
Indices: 460850--460984 Score: 173
Period size: 50 Copynumber: 2.7 Consensus size: 51
460840 ATTTACTATT
* ** * *
460850 TGTATCGATACATTTTTCATCATATCGAGACATTTTGCGTTTTGACCTAGA
1 TGTATCGATACATTTTTTATTGTATCGATACATTTTGCGTTTTAACCTAGA
* * *
460901 TGTA-CGTTACATTTTTTATTGTATCGATACATTTTGGGTTTTAACCTAGT
1 TGTATCGATACATTTTTTATTGTATCGATACATTTTGCGTTTTAACCTAGA
* *
460951 TGTATCGATACATTTCTTAATGTATCGATACATT
1 TGTATCGATACATTTTTTATTGTATCGATACATT
460985 CAAGTATTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
50 42 0.58
51 30 0.42
ACGTcount: A:0.25, C:0.15, G:0.15, T:0.45
Consensus pattern (51 bp):
TGTATCGATACATTTTTTATTGTATCGATACATTTTGCGTTTTAACCTAGA
Found at i:463578 original size:79 final size:78
Alignment explanation
Indices: 463341--463726 Score: 402
Period size: 79 Copynumber: 4.9 Consensus size: 78
463331 ATTGATGTTC
* * * ** *
463341 TTATTTCTAAAACATCGATTTTGCAACATC-GAGGATACTCTAACCCCGTTATTTCCGAGGAGAT
1 TTATTTCTAAAACATCGATTTTTCACCATCAG-GGATACTCTAACCCTGTTATTTTTGAGGGGAT
*
463405 ACTCTAACCCCAGTT
65 ACTCTAACCCGA-TT
** * **
463420 TTATTTCTAAAACATCGA-TTTTCACCATTTGGGATACTC-AAACCTCGTTATTTTTGATAGGAT
1 TTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAACCCT-GTTATTTTTGAGGGGAT
*
463483 ACTCTAACCCTAATT
65 ACTCTAACCC-GATT
* * * *
463498 TTATTTTTAAAACACCGATTTTCCACCATCAGGGATACTCTAACCCTGTTATTTTTTAGGGGATA
1 TTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAACCCTGTTATTTTTGAGGGGATA
* *
463563 CTCCAACTTCGATT
66 CTCTAAC-CCGATT
* * * * * *
463577 TTATTTCTAAAACATTGATTTTTCACCGTCGGGGATACACTAACCTTGTTATTTTCGAGGGGATA
1 TTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAACCCTGTTATTTTTGAGGGGATA
463642 CTCTAACCTCGATT
66 CTCTAACC-CGATT
* * * * * *
463656 TTATTTCTAAAACA-CTGATTTTTTACAATGAGGGATACTTTGACCCTGTTATTTCTGAGGGGAT
1 TTATTTCTAAAACATC-GATTTTTCACCATCAGGGATACTCTAACCCTGTTATTTTTGAGGGGAT
463720 ACTCTAA
65 ACTCTAA
463727 TCTCGTTTTT
Statistics
Matches: 252, Mismatches: 47, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
77 4 0.02
78 56 0.22
79 186 0.74
80 6 0.02
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (78 bp):
TTATTTCTAAAACATCGATTTTTCACCATCAGGGATACTCTAACCCTGTTATTTTTGAGGGGATA
CTCTAACCCGATT
Found at i:465868 original size:22 final size:23
Alignment explanation
Indices: 465841--465901 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
465831 TAAAGTAATA
465841 TTTATTTATTATTTTATTT-TAT
1 TTTATTTATTATTTTATTTATAT
* *
465863 TTTATTTTTTATTTT-TTTATTT
1 TTTATTTATTATTTTATTTATAT
465885 TTTATTTATTATCTTTA
1 TTTATTTATTAT-TTTA
465902 AAATTCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 3 0.09
22 27 0.82
23 3 0.09
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.79
Consensus pattern (23 bp):
TTTATTTATTATTTTATTTATAT
Found at i:465891 original size:15 final size:15
Alignment explanation
Indices: 465839--465891 Score: 70
Period size: 15 Copynumber: 3.3 Consensus size: 15
465829 GATAAAGTAA
*
465839 TATTTATTTATTATTT
1 TATTTTTTTATT-TTT
465855 TATTTTATTTTATTTTT
1 TA-TTT-TTTTATTTTT
465872 TATTTTTTTATTTTT
1 TATTTTTTTATTTTT
465887 TATTT
1 TATTT
465892 ATTATCTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
15 15 0.44
16 5 0.15
17 8 0.24
18 6 0.18
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TATTTTTTTATTTTT
Found at i:466795 original size:14 final size:13
Alignment explanation
Indices: 466751--466800 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
466741 AATTTTTCTA
466751 TTTTTTCTCCTTT-
1 TTTTTTCT-CTTTC
466764 TTTTTTCT-TTTC
1 TTTTTTCTCTTTC
466776 TCTTTTTCTCTTTGC
1 T-TTTTTCTCTTT-C
*
466791 TTTTTCCTCT
1 TTTTTTCTCT
466801 CCACTAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
11 3 0.09
12 1 0.03
13 15 0.47
14 11 0.34
15 2 0.06
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (13 bp):
TTTTTTCTCTTTC
Found at i:467588 original size:165 final size:165
Alignment explanation
Indices: 467399--467713 Score: 411
Period size: 165 Copynumber: 1.9 Consensus size: 165
467389 AGAAAAATTC
* * * *
467399 TCCCAAAAATATTTATAAAATAGAAAACTTGAT-TTTCAGAAATAGGAGAATTTCAAGGGAAAAA
1 TCCCAAAAACATTTATAAAATAGAAAACTAGATATTTCAAAAATAGGAGAATTTCAA-GAAAAAA
* * *
467463 TAAAAAACTTAGGGAAAT-AAATAAAATTTTCAAAACTGATTT-ACTATGATTTAAGTGATAATA
65 TAAAAAACTTA-GGAAATAAAATAAAATTTTAAAAACTAATTTAAC-ATGATTTAAATGATAATA
*
467526 TTTGAAGAATATTAAAAATTTTGATCCAAGAAAAACCT
128 TTTGAAGAATATAAAAAATTTTGATCCAAGAAAAACCT
* ** *
467564 TCCCGAAAACATTTATGGAATAGAAAACTAGGTATTTCAAAAATAGGAGAATTTCAAGAAAAAAT
1 TCCCAAAAACATTTATAAAATAGAAAACTAGATATTTCAAAAATAGGAGAATTTCAAGAAAAAAT
* * * * *
467629 GAAAAACTTATGAAATAAAATGAATTTTTAAAAACTAATTTAACATGATTTAAATGATGATATTT
66 AAAAAACTTAGGAAATAAAATAAAATTTTAAAAACTAATTTAACATGATTTAAATGATAATATTT
**
467694 GGTGAATATAAAAAATTTTG
131 GAAGAATATAAAAAATTTTG
467714 GACAGAGCAA
Statistics
Matches: 128, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
164 5 0.04
165 99 0.77
166 24 0.19
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.31
Consensus pattern (165 bp):
TCCCAAAAACATTTATAAAATAGAAAACTAGATATTTCAAAAATAGGAGAATTTCAAGAAAAAAT
AAAAAACTTAGGAAATAAAATAAAATTTTAAAAACTAATTTAACATGATTTAAATGATAATATTT
GAAGAATATAAAAAATTTTGATCCAAGAAAAACCT
Found at i:474959 original size:38 final size:38
Alignment explanation
Indices: 474916--474997 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
474906 CATCTCTAAG
474916 CATCATCAAAGCTGAATATACAAGCTTAGATCTAATCC
1 CATCATCAAAGCTGAATATACAAGCTTAGATCTAATCC
474954 CATCATCAAAGCTGAATATACAAGCTTAGATCTAATCC
1 CATCATCAAAGCTGAATATACAAGCTTAGATCTAATCC
474992 CATCAT
1 CATCAT
474998 TCTAGCTAAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (38 bp):
CATCATCAAAGCTGAATATACAAGCTTAGATCTAATCC
Found at i:476290 original size:20 final size:20
Alignment explanation
Indices: 476265--476316 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
476255 TTATATCAAA
476265 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
476285 GTATCGATACATAGGTATTT
1 GTATCGATACATAGGTATTT
*
476305 GTATTGATACAT
1 GTATCGATACAT
476317 TAAGGTTGAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (20 bp):
GTATCGATACATAGGTATTT
Found at i:476477 original size:13 final size:13
Alignment explanation
Indices: 476459--476484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
476449 TACACAAAGT
476459 ATGTATCGATACA
1 ATGTATCGATACA
476472 ATGTATCGATACA
1 ATGTATCGATACA
476485 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:476503 original size:34 final size:32
Alignment explanation
Indices: 476441--476505 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
476431 TAGCCAAACT
**
476441 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAATGTATCGATACAA
476473 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCGATACAC-AAAAAA-TGTATCGATACA
476506 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 13 0.45
33 4 0.14
34 12 0.41
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAAAATGTATCGATACAA
Found at i:477409 original size:19 final size:20
Alignment explanation
Indices: 477385--477439 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
477375 ACACACCCAG
**
477385 ATGTATCGATACATGTTC-A
1 ATGTATCGATACATGGACAA
477404 ATGTATCGATACATGGACAA
1 ATGTATCGATACATGGACAA
477424 ATTGTATCGATACATG
1 A-TGTATCGATACATG
477440 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 16 0.50
20 2 0.06
21 14 0.44
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATGGACAA
Found at i:483703 original size:13 final size:13
Alignment explanation
Indices: 483685--483723 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
483675 CAGCATTCCC
483685 TGTATCGATACAT
1 TGTATCGATACAT
* *
483698 TGTATCAATACAC
1 TGTATCGATACAT
483711 TGTATCGATACAT
1 TGTATCGATACAT
483724 GGCATTTATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:485626 original size:43 final size:44
Alignment explanation
Indices: 485566--485657 Score: 177
Period size: 43 Copynumber: 2.1 Consensus size: 44
485556 ATATAATTTT
485566 TTTTTTACATAAAGGGGGAGAAGATAATTGTTTAA-GGGGAGAA
1 TTTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGGGAGAA
485609 TTTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGGGAGAA
1 TTTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGGGAGAA
485653 TTTTT
1 TTTTT
485658 AAAGGAAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 35 0.73
44 13 0.27
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.34
Consensus pattern (44 bp):
TTTTTTACATAAAGGGGGAGAAGATAATTGTTTAAGGGGGAGAA
Found at i:485645 original size:22 final size:22
Alignment explanation
Indices: 485577--485652 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
485567 TTTTTACATA
485577 AAGGGGGAGAAGATAATTGTTT
1 AAGGGGGAGAAGATAATTGTTT
* ** ** *
485599 AA-GGGGAGAA-TTTTTTACATA
1 AAGGGGGAGAAGATAATT-GTTT
485620 AAGGGGGAGAAGATAATTGTTT
1 AAGGGGGAGAAGATAATTGTTT
485642 AAGGGGGAGAA
1 AAGGGGGAGAA
485653 TTTTTAAAGG
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
20 3 0.08
21 11 0.28
22 22 0.56
23 3 0.08
ACGTcount: A:0.38, C:0.01, G:0.36, T:0.25
Consensus pattern (22 bp):
AAGGGGGAGAAGATAATTGTTT
Found at i:486217 original size:13 final size:13
Alignment explanation
Indices: 486199--486225 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
486189 ACATGCTACC
486199 TTGTATCGATACA
1 TTGTATCGATACA
486212 TTGTATCGATACA
1 TTGTATCGATACA
486225 T
1 T
486226 GTTCAATGTA
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:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:486237 original size:19 final size:21
Alignment explanation
Indices: 486211--486266 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
486201 GTATCGATAC
**
486211 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
486231 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGACAA
486251 ATTGTATCGATACATG
1 ATTGTATCGATACATG
486267 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:486340 original size:33 final size:34
Alignment explanation
Indices: 486295--486362 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 34
486285 CTGTCACTAT
*
486295 TTGTATCAATACATGGTAC-AA-TGTGTCGATACA
1 TTGTATCAATACATGG-ACAAATTGTATCGATACA
*
486328 TTGTATCGATACATGGACAAATTGTATCGATACA
1 TTGTATCAATACATGGACAAATTGTATCGATACA
486362 T
1 T
486363 GAAATTGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 2 0.06
33 17 0.55
34 12 0.39
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (34 bp):
TTGTATCAATACATGGACAAATTGTATCGATACA
Found at i:486342 original size:97 final size:97
Alignment explanation
Indices: 486232--486425 Score: 361
Period size: 97 Copynumber: 2.0 Consensus size: 97
486222 ACATGTTCAA
*
486232 TGTATCGATACATGGACAAATTGTATCGATACATGAAATTGGCAGTAGCTACCCTGTCACTATTT
1 TGTATCGATACATGGACAAATTGTATCGATACATGAAATTGGCAGTAGCTACCCTATCACTATTT
*
486297 GTATCAATACATGGTACAATGTGTCGATACAT
66 GTATCAATACATGGTACAATGTATCGATACAT
486329 TGTATCGATACATGGACAAATTGTATCGATACATGAAATTGGCAGTAGCTACCCTATCACTATTT
1 TGTATCGATACATGGACAAATTGTATCGATACATGAAATTGGCAGTAGCTACCCTATCACTATTT
*
486394 GTATCGATACATGGTACAATGTATCGATACAT
66 GTATCAATACATGGTACAATGTATCGATACAT
486426 GAAGAAATGT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (97 bp):
TGTATCGATACATGGACAAATTGTATCGATACATGAAATTGGCAGTAGCTACCCTATCACTATTT
GTATCAATACATGGTACAATGTATCGATACAT
Found at i:486418 original size:20 final size:19
Alignment explanation
Indices: 486393--486445 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
486383 TATCACTATT
486393 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
486413 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
486433 TGTATCGATACAT
1 TGTATCGATACAT
486446 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:494957 original size:13 final size:13
Alignment explanation
Indices: 494939--494963 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
494929 CATTTTATGG
494939 TGTATCGATACAA
1 TGTATCGATACAA
494952 TGTATCGATACA
1 TGTATCGATACA
494964 TACTGTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:495072 original size:13 final size:13
Alignment explanation
Indices: 495054--495078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
495044 ACATTTGGTC
495054 ATGTATCGATACA
1 ATGTATCGATACA
495067 ATGTATCGATAC
1 ATGTATCGATAC
495079 TATGCAACAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:495737 original size:32 final size:32
Alignment explanation
Indices: 495694--495759 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
495684 GCCCCCTTAA
495694 TCAAAAAATTTATTTGCACATATTTTCTCCTT
1 TCAAAAAATTTATTTGCACATATTTTCTCCTT
*
495726 TCAACAAATTTATTTGCACATATTTTCTCCTT
1 TCAAAAAATTTATTTGCACATATTTTCTCCTT
495758 TC
1 TC
495760 TTTCCCCCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (32 bp):
TCAAAAAATTTATTTGCACATATTTTCTCCTT
Found at i:497554 original size:13 final size:13
Alignment explanation
Indices: 497536--497560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
497526 ATAATCCCCT
497536 TGTATCGATACAA
1 TGTATCGATACAA
497549 TGTATCGATACA
1 TGTATCGATACA
497561 GAGAATGCTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:503713 original size:13 final size:13
Alignment explanation
Indices: 503695--503719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
503685 CATTTTATGG
503695 TGTATCGATACAA
1 TGTATCGATACAA
503708 TGTATCGATACA
1 TGTATCGATACA
503720 TACTCTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:503828 original size:13 final size:13
Alignment explanation
Indices: 503810--503834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
503800 ACATTTGGTC
503810 ATGTATCGATACA
1 ATGTATCGATACA
503823 ATGTATCGATAC
1 ATGTATCGATAC
503835 TATGCAGCAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:503834 original size:33 final size:32
Alignment explanation
Indices: 503792--503855 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 32
503782 ATCTTTTTAA
*
503792 GTATCGATACATTTG-GTCATGTATCGATACAAT
1 GTATCGATAC-TATGAG-CATGTATCGATACAAT
503825 GTATCGATACTATGCAGCATGTATCGATACA
1 GTATCGATACTATG-AGCATGTATCGATACA
503856 TTTAAATGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 3 0.11
33 24 0.86
34 1 0.04
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (32 bp):
GTATCGATACTATGAGCATGTATCGATACAAT
Found at i:504099 original size:21 final size:21
Alignment explanation
Indices: 504075--504134 Score: 93
Period size: 21 Copynumber: 2.8 Consensus size: 21
504065 AATAAAACAC
504075 ATTTTTGGTATTTTCAAAATA
1 ATTTTTGGTATTTTCAAAATA
504096 ATTTTTGGTATTTTCAAAATA
1 ATTTTTGGTATTTTCAAAATA
* *
504117 ATTTCTGGTTTTATTCAA
1 ATTTTTGGTATT-TTCAA
504135 TCCTTGTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
21 31 0.86
22 5 0.14
ACGTcount: A:0.30, C:0.07, G:0.10, T:0.53
Consensus pattern (21 bp):
ATTTTTGGTATTTTCAAAATA
Found at i:514169 original size:13 final size:13
Alignment explanation
Indices: 514151--514180 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
514141 GGCAGTAGCT
514151 TACATTGTATCGA
1 TACATTGTATCGA
*
514164 TACATTGTATTGA
1 TACATTGTATCGA
514177 TACA
1 TACA
514181 ACACTTTATG
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:0.13, G:0.13, T:0.40
Consensus pattern (13 bp):
TACATTGTATCGA
Done.