Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4740655
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 24
Found at i:479672 original size:20 final size:21
Alignment explanation
Indices: 479647--479686 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
479637 CTTTGTATAG
479647 TAGTATCGATACCAT-AGGCA
1 TAGTATCGATACCATCAGGCA
479667 TAGTATCGATACCATCAGGC
1 TAGTATCGATACCATCAGGC
479687 TCCAACGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.25
Consensus pattern (21 bp):
TAGTATCGATACCATCAGGCA
Found at i:483493 original size:2 final size:2
Alignment explanation
Indices: 483486--483515 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
483476 AATAAAGTAA
483486 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
483516 TAAACATGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:483909 original size:42 final size:43
Alignment explanation
Indices: 483815--483909 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 43
483805 TATAAGGAAT
*
483815 TAAAATAAAAATTATTAAAAATATAGGGCTAAAAATAAAATAC
1 TAAAATAAAAATTATTAAAAATAAAGGGCTAAAAATAAAATAC
* * *
483858 TAAATTAAAAA-TATTAAAAAATAAAGGAGC-AATAATAAAGTA-
1 TAAAATAAAAATTATT-AAAAATAAAGG-GCTAAAAATAAAATAC
483900 TAAAATAAAA
1 TAAAATAAAA
483910 TAAAATAGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 13 0.29
43 30 0.67
44 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.24
Consensus pattern (43 bp):
TAAAATAAAAATTATTAAAAATAAAGGGCTAAAAATAAAATAC
Found at i:484967 original size:22 final size:22
Alignment explanation
Indices: 484937--484991 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
484927 GAACATAGCA
*
484937 GCGGAGCAGTTGGATGTAGGCG
1 GCGGAGCAGTTGGATATAGGCG
*
484959 GCGGGGCAGTTGGATATAGGCG
1 GCGGAGCAGTTGGATATAGGCG
484981 GCGGAGCAGTT
1 GCGGAGCAGTT
484992 TGAGGCAGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.18, C:0.15, G:0.49, T:0.18
Consensus pattern (22 bp):
GCGGAGCAGTTGGATATAGGCG
Found at i:485955 original size:137 final size:136
Alignment explanation
Indices: 485708--486285 Score: 702
Period size: 137 Copynumber: 4.3 Consensus size: 136
485698 TTTTTTCCGG
* * ** * ** * *
485708 TTCCTTCGTGATGAGGACACCTGGCTATCTAAGGATGATGCTGCTACTTTATGATGAGGAATTTT
1 TTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATG-TTTTTCTTCGTGATGAGGAGTTCT
* * *
485773 GATCAATGGATGACATTGTTCCTTCGTGATGAGGACATATAGCCATCTTTAAAGATATTTGAGAT
65 GATCAATGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGAT
485838 AACAC-A
130 AACACGA
*
485844 TTTCCTTCGTGATGAGGACATCTGGTTATCTAATGATGATGCTTTTTCTTCGTGATGAGGAGTTC
1 -TTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATG-TTTTTCTTCGTGATGAGGAGTTC
* * *
485909 TGATCAGTGGATGACATTGTTTCTTCATGATGAGGACGTCTGGCCAT-TTGTAAAGATATTTGAG
64 TGATCAATGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTT-TAAAGATATTTGAG
485973 ATAACACGA
128 ATAACACGA
485982 TTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTGTTTCTTCGTGATGAGGAGTTCT
1 TTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTT-TTTCTTCGTGATGAGGAGTTCT
**
486047 GATCGGTGGATGACATTGTT-C--C-T--T-----CG--TGGCCATCTTT-AAGATATTTGAGAT
65 GATCAATGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGAT
* *
486098 AGCTCGA
130 AACACGA
* * * * * *
486105 TTCTTTCGTGATGAGGACGTCTGGTTATCTAAGGATTATGTTGCTCCTTCGTGATGAGGAGTTAT
1 TTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTT-TTTCTTCGTGATGAGGAGTTCT
* * *
486170 GATCAATGGATGACATTGTTCCTTCGTGATGTGAATGTCTGGCCATCTTTAAAGATATTTGAGAT
65 GATCAATGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGAT
* *
486235 AACATGG
130 AACACGA
*
486242 TTCCTTCGTGATGAGGACGTCTGGTTATCTAAGGATGATGTTTT
1 TTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTTT
486286 ATAAGGATGT
Statistics
Matches: 387, Mismatches: 36, Indels: 37
0.84 0.08 0.08
Matches are distributed among these distances:
123 96 0.25
124 9 0.02
125 2 0.01
126 3 0.01
127 1 0.00
129 1 0.00
131 1 0.00
133 1 0.00
134 2 0.01
136 17 0.04
137 253 0.65
138 1 0.00
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.37
Consensus pattern (136 bp):
TTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTTTTCTTCGTGATGAGGAGTTCTG
ATCAATGGATGACATTGTTCCTTCGTGATGAGGACGTCTGGCCATCTTTAAAGATATTTGAGATA
ACACGA
Found at i:486113 original size:123 final size:123
Alignment explanation
Indices: 485961--486283 Score: 403
Period size: 123 Copynumber: 2.5 Consensus size: 123
485951 GCCATTTGTA
*
485961 AAGATATTTGAGATAACACGATTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTGT
1 AAGATATTTGAGATAACACGATTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTGC
* * **
486026 TTCTTCGTGATGAGGAGTTCTGATCGGTGGATGACATTGTTCCTTCGTGGCCATCTTT
66 TCCTTCGTGATGAGGAGTTATGATCAATGGATGACATTGTTCCTTCGTGGCCATCTTT
* * * * *
486084 AAGATATTTGAGATAGCTCGATTCTTTCGTGATGAGGACGTCTGGTTATCTAAGGATTATGTTGC
1 AAGATATTTGAGATAACACGATTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTGC
486149 TCCTTCGTGATGAGGAGTTATGATCAATGGATGACATTGTTCCTTCGTGATGTGAATGTCTGGCC
66 TCCTTCGTGATGAGGAGTTATGATCAATGGATGACATTGTTCCTTC-----------G--TGGCC
486214 ATCTTT
118 ATCTTT
* * *
486220 AAAGATATTTGAGATAACATGGTTCCTTCGTGATGAGGACGTCTGGTTATCTAAGGATGATGTT
1 -AAGATATTTGAGATAACACGATTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTT
486284 TTATAAGGAT
Statistics
Matches: 170, Mismatches: 16, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
123 101 0.59
134 1 0.01
136 11 0.06
137 57 0.34
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (123 bp):
AAGATATTTGAGATAACACGATTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTGC
TCCTTCGTGATGAGGAGTTATGATCAATGGATGACATTGTTCCTTCGTGGCCATCTTT
Found at i:493580 original size:23 final size:21
Alignment explanation
Indices: 493530--493589 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
493520 AAATGAATGC
*
493530 AAAA-AAAATGCTAAATAAATA
1 AAAATAAAATGC-AAATAAACA
*
493551 AATATAATAATGCAAATATAACA
1 AAAATAA-AATGCAAATA-AACA
*
493574 AAAATAAAATGAAAAT
1 AAAATAAAATGCAAAT
493590 GCATGTATGC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 3 0.09
22 15 0.47
23 14 0.44
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (21 bp):
AAAATAAAATGCAAATAAACA
Found at i:494627 original size:19 final size:21
Alignment explanation
Indices: 494605--494659 Score: 69
Period size: 19 Copynumber: 2.7 Consensus size: 21
494595 ATAAAAAATA
494605 AAATAAAATGAATTG-AAA-G
1 AAATAAAATGAATTGTAAACG
* *
494624 AAATAAAAAGAATTGTAAACT
1 AAATAAAATGAATTGTAAACG
494645 AAATAAATATGAATT
1 AAATAAA-ATGAATT
494660 CTCAATTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 7 0.23
22 6 0.20
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.25
Consensus pattern (21 bp):
AAATAAAATGAATTGTAAACG
Found at i:495299 original size:2 final size:2
Alignment explanation
Indices: 495292--495338 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
495282 TTAAATAAAG
495292 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
495334 AA TA T
1 TA TA T
495339 GACTAATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:495430 original size:21 final size:18
Alignment explanation
Indices: 495393--495431 Score: 51
Period size: 21 Copynumber: 2.0 Consensus size: 18
495383 ATGTGCGTGA
495393 CTAATAATAAAATATATT
1 CTAATAATAAAATATATT
495411 CTAATAAAGTAAATATATATT
1 CTAAT-AA-TAAA-ATATATT
495432 TTAAACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 2 0.11
20 4 0.22
21 7 0.39
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (18 bp):
CTAATAATAAAATATATT
Found at i:496819 original size:22 final size:22
Alignment explanation
Indices: 496763--496824 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
496753 TGGGGAACAT
* * *
496763 AGCGGCAGAGTAGTTGGATGTA
1 AGCGGCGGAGCAGTTGGATATA
* *
496785 GGTGGCAGG-GCAGTTGGATATA
1 AGCGGC-GGAGCAGTTGGATATA
496807 AGCGGCGGAGCAGTTGGA
1 AGCGGCGGAGCAGTTGGA
496825 GGCAACACCA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
21 2 0.06
22 28 0.90
23 1 0.03
ACGTcount: A:0.24, C:0.11, G:0.45, T:0.19
Consensus pattern (22 bp):
AGCGGCGGAGCAGTTGGATATA
Found at i:497100 original size:26 final size:26
Alignment explanation
Indices: 497066--497123 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
497056 TAGTATTTAT
* * *
497066 TAATAATATTTATAGTAATAATA-CAA
1 TAATAATATATA-AATAATAATATAAA
497092 TAATAATATATAAATAATAATATAAA
1 TAATAATATATAAATAATAATATAAA
497118 TAATAA
1 TAATAA
497124 CGGGACGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (26 bp):
TAATAATATATAAATAATAATATAAA
Found at i:497107 original size:14 final size:14
Alignment explanation
Indices: 497081--497123 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 14
497071 ATATTTATAG
497081 TAATA-ATACAATAA
1 TAATATATA-AATAA
497095 TAATATATAAATAA
1 TAATATATAAATAA
497109 T-A-ATATAAATAA
1 TAATATATAAATAA
497121 TAA
1 TAA
497124 CGGGACGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 11 0.41
13 2 0.07
14 11 0.41
15 3 0.11
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
TAATATATAAATAA
Found at i:499479 original size:13 final size:13
Alignment explanation
Indices: 499461--499485 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
499451 GTTTTTTTTC
499461 TGGTTTCCCCGAA
1 TGGTTTCCCCGAA
499474 TGGTTTCCCCGA
1 TGGTTTCCCCGA
499486 TCCCTCTTCT
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:0.12, C:0.32, G:0.24, T:0.32
Consensus pattern (13 bp):
TGGTTTCCCCGAA
Found at i:507393 original size:19 final size:19
Alignment explanation
Indices: 507371--507434 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
507361 AATCAACGAC
507371 AAGGAAGGCAATGAGCAAG
1 AAGGAAGGCAATGAGCAAG
* * * * *
507390 AAGGGAAGATGCGATCAACGAC
1 AA-GGAAG--GCAATGAGCAAG
507412 AAGGAAGGCAATGAGCAAG
1 AAGGAAGGCAATGAGCAAG
507431 AAGG
1 AAGG
507435 GATGGAAATG
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
19 13 0.41
20 5 0.16
21 5 0.16
22 9 0.28
ACGTcount: A:0.45, C:0.12, G:0.36, T:0.06
Consensus pattern (19 bp):
AAGGAAGGCAATGAGCAAG
Found at i:507410 original size:41 final size:41
Alignment explanation
Indices: 507353--507436 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
507343 CACGGGCCAC
507353 GAAGATGCAATCAACGACAAGGAAGGCAATGAGCAAGAAGG
1 GAAGATGCAATCAACGACAAGGAAGGCAATGAGCAAGAAGG
*
507394 GAAGATGCGATCAACGACAAGGAAGGCAATGAGCAAGAAGG
1 GAAGATGCAATCAACGACAAGGAAGGCAATGAGCAAGAAGG
507435 GA
1 GA
507437 TGGAAATGGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.45, C:0.14, G:0.33, T:0.07
Consensus pattern (41 bp):
GAAGATGCAATCAACGACAAGGAAGGCAATGAGCAAGAAGG
Found at i:518690 original size:59 final size:59
Alignment explanation
Indices: 518537--518739 Score: 182
Period size: 59 Copynumber: 3.5 Consensus size: 59
518527 GGCACTTTGT
* * * *
518537 GTGCTAAAATGATAAAGAAATCATTCTGAGTATATAGATTTCCATATGGAGCACTGAGT
1 GTGCTAAAATGATAAGGAAATCATACTGAGTATATGGATTTCCATATGGAGCACTGAGA
* ** * *
518596 GTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCATATAGG-GCATTTTA-A
1 GTGCTAAAATGATAAGGAAATCATACTGAGTATATGGATTTCCATAT-GGAGCA-CTGAGA
* * * * * ** *
518654 GTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCTAGATAAAGCACT-AAA
1 GTGCTAAAATGATAAGGAAATCATACTGAGTATATGGATTTCCATATGGAGCACTGAGA
518712 GGTGCTACAAAT-ATAAGGAAATCATACT
1 -GTGCTA-AAATGATAAGGAAATCATACT
518740 AATGTATGGG
Statistics
Matches: 115, Mismatches: 22, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
57 1 0.01
58 45 0.39
59 65 0.57
60 4 0.03
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.30
Consensus pattern (59 bp):
GTGCTAAAATGATAAGGAAATCATACTGAGTATATGGATTTCCATATGGAGCACTGAGA
Found at i:518829 original size:59 final size:58
Alignment explanation
Indices: 518730--518840 Score: 143
Period size: 59 Copynumber: 1.9 Consensus size: 58
518720 AAATATAAGG
* *
518730 AAATCATACTAATGTATGGGTTTTAACATAGGACATTTCATGTGATAAAATGGTAACA
1 AAATCATACTAATGTATGAGTTTTAACATAGGACACTTCATGTGATAAAATGGTAACA
* * * *
518788 AAATCATACTAATGGTATGAATTTTTGA-ATAGGGCACTTCATGTGCTAAAATG
1 AAATCATACTAAT-GTATG-AGTTTTAACATAGGACACTTCATGTGATAAAATG
518841 AAAGGGGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 13 0.29
59 27 0.60
60 5 0.11
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (58 bp):
AAATCATACTAATGTATGAGTTTTAACATAGGACACTTCATGTGATAAAATGGTAACA
Found at i:519455 original size:22 final size:22
Alignment explanation
Indices: 519430--519479 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
519420 TACAACACTG
* *
519430 TTCATCACTGTTCATAGTATTA
1 TTCATAACTATTCATAGTATTA
* *
519452 TTCATAACTATTCATGGTATTG
1 TTCATAACTATTCATAGTATTA
519474 TTCATA
1 TTCATA
519480 CAATATAGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (22 bp):
TTCATAACTATTCATAGTATTA
Found at i:520133 original size:192 final size:194
Alignment explanation
Indices: 519803--520192 Score: 599
Period size: 192 Copynumber: 2.0 Consensus size: 194
519793 CTATTTTGGT
* * * *
519803 TTATACTCAATGGATGTATTTGTACGTATTTAGAGACTCTCATATTTTGTAAACTTGATTTCAAT
1 TTATACTCAATGGATGTATTTATACGTATTGAGAAACTCTCATA-TTTGTAAACTCGATTTCAAT
* *
519868 TCTGAAAAATTTATGGTGAATGATTTTGATGTTATTAAACGTTTTGAAAATGAATTTTTGGGTTC
65 TCTGAAAAATTTATGATGAATGATTTTGATGTTATTAAACGTTTTGAAAATGAATTTTCGGGTTC
*
519933 ACCATTTCTTTGGTTCTGTGTGACATTGTAATCCATGGATCCTCGGATC-GAACTATATTAGGGT
130 ACCATTTCTTTGGTTCTGTGTGACATTGTAATCCATGGATCCTCGGATCAGAA-TAGATTAGGGT
519997 G
194 G
* * *
519998 TTATACTCAATTGATGTATTTATATGTATTGGGAAACTCTCATA-TT-TAAACTCGATTTCAATT
1 TTATACTCAATGGATGTATTTATACGTATTGAGAAACTCTCATATTTGTAAACTCGATTTCAATT
* * *
520061 CTGAACAATTTATGATTAATGATTTTGATGTTATTAAACGTTTTGAAAA-GAAATTTTCGGGTTG
66 CTGAAAAATTTATGATGAATGATTTTGATGTTATTAAACGTTTTGAAAATG-AATTTTCGGGTTC
*
520125 ACCATTTCTTTGGTTCTGTGTGACATTGTAATCCATGGATCCTCGGATCAGAATGGATTAGGGTG
130 ACCATTTCTTTGGTTCTGTGTGACATTGTAATCCATGGATCCTCGGATCAGAATAGATTAGGGTG
520190 TTA
1 TTA
520193 CATACCATAC
Statistics
Matches: 179, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
191 1 0.01
192 135 0.75
193 5 0.03
195 38 0.21
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.42
Consensus pattern (194 bp):
TTATACTCAATGGATGTATTTATACGTATTGAGAAACTCTCATATTTGTAAACTCGATTTCAATT
CTGAAAAATTTATGATGAATGATTTTGATGTTATTAAACGTTTTGAAAATGAATTTTCGGGTTCA
CCATTTCTTTGGTTCTGTGTGACATTGTAATCCATGGATCCTCGGATCAGAATAGATTAGGGTG
Found at i:523241 original size:38 final size:38
Alignment explanation
Indices: 523190--523288 Score: 164
Period size: 38 Copynumber: 2.6 Consensus size: 38
523180 TGTTTTCAAA
*
523190 ATTTCTTGCCACGACTTAATTTTTCATTTGTTCATACC
1 ATTTCTTGCCACGACATAATTTTTCATTTGTTCATACC
*
523228 ATTTCTTGCCACGACATAATTTTCCATTTGTTCATACC
1 ATTTCTTGCCACGACATAATTTTTCATTTGTTCATACC
*
523266 ATTTCTTG-CATGACATAATTTTT
1 ATTTCTTGCCACGACATAATTTTT
523289 TTACTGTGTA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
37 13 0.23
38 44 0.77
ACGTcount: A:0.23, C:0.22, G:0.08, T:0.46
Consensus pattern (38 bp):
ATTTCTTGCCACGACATAATTTTTCATTTGTTCATACC
Found at i:523862 original size:18 final size:17
Alignment explanation
Indices: 523809--523859 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
523799 TTATTCAAGG
*
523809 ATAAATTAAACAAATTA
1 ATAATTTAAACAAATTA
***
523826 ATAATTTAAATTTGATTA
1 ATAATTTAAA-CAAATTA
523844 ATAATTTAAACAAATT
1 ATAATTTAAACAAATT
523860 TAAAAAACTA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (17 bp):
ATAATTTAAACAAATTA
Found at i:524918 original size:24 final size:23
Alignment explanation
Indices: 524858--524918 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 23
524848 AAATCAACAC
*
524858 TAGGGGTATCAATACCTTTGGGA
1 TAGGGGTATCAATACCTTTGGCA
** *
524881 TA--GGTATCGGTACCTCTTTGCA
1 TAGGGGTATCAATACCT-TTGGCA
*
524903 TAGGGGTATCATTACC
1 TAGGGGTATCAATACC
524919 ATGTGGGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
21 11 0.38
22 6 0.21
23 2 0.07
24 10 0.34
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (23 bp):
TAGGGGTATCAATACCTTTGGCA
Found at i:527043 original size:11 final size:13
Alignment explanation
Indices: 527027--527060 Score: 54
Period size: 11 Copynumber: 2.8 Consensus size: 13
527017 AATGGGCAAT
527027 TTTGAAAAAT-A-
1 TTTGAAAAATAAG
527038 TTTGAAAAATAAG
1 TTTGAAAAATAAG
527051 TTTGAAAAAT
1 TTTGAAAAAT
527061 CATTATATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.48
12 1 0.05
13 10 0.48
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (13 bp):
TTTGAAAAATAAG
Found at i:533402 original size:24 final size:23
Alignment explanation
Indices: 533342--533402 Score: 54
Period size: 21 Copynumber: 2.7 Consensus size: 23
533332 AAATAAAATC
*
533342 TAGGGGTATCGGTACCTTTGGGA
1 TAGGTGTATCGGTACCTTTGGGA
* * * *
533365 TA--TGTATTGATACCTCTTTGTA
1 TAGGTGTATCGGTACCT-TTGGGA
533387 TAGGTGTATCGGTACC
1 TAGGTGTATCGGTACC
533403 CTGGGGGTAT
Statistics
Matches: 28, Mismatches: 7, Indels: 5
0.70 0.17 0.12
Matches are distributed among these distances:
21 10 0.36
22 6 0.21
23 2 0.07
24 10 0.36
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.38
Consensus pattern (23 bp):
TAGGTGTATCGGTACCTTTGGGA
Found at i:535620 original size:23 final size:23
Alignment explanation
Indices: 535600--535644 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
535590 AAAGATAATT
535600 TTGAAACAAACAAACAAATAAAC
1 TTGAAACAAACAAACAAATAAAC
* * *
535623 TTGAAATAAATAAATAAATAAA
1 TTGAAACAAACAAACAAATAAA
535645 TAATTTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.20
Consensus pattern (23 bp):
TTGAAACAAACAAACAAATAAAC
Found at i:535633 original size:4 final size:4
Alignment explanation
Indices: 535626--535701 Score: 53
Period size: 4 Copynumber: 18.0 Consensus size: 4
535616 AATAAACTTG
* * * *
535626 AAAT AAAT AAAT AAAT AAAT AATTT GAAAT AAAT AAAT CAAAC AAAC AAACA
1 AAAT AAAT AAAT AAAT AAAT AA-AT -AAAT AAAT AAAT -AAAT AAAT AAA-T
* * *
535678 AAAT TATT AAAG AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT
535702 TATTCAAAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
4 47 0.82
5 8 0.14
6 2 0.04
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:536130 original size:91 final size:90
Alignment explanation
Indices: 536018--536187 Score: 259
Period size: 91 Copynumber: 1.9 Consensus size: 90
536008 AGGACCTCGT
* * *
536018 GTTCTGGGAAACGCGAGGTACTAAATAATCATATTAAATTGGGTAAACTAAAAAGTTCAAGGTAC
1 GTTCTGGGAAACGAGAGGTACTAAATAATCAGATTAAATT-GGTAAACTAAAAAGTGCAAGGTAC
*
536083 CTCATGTCTTGTAGATCGCATCTCAC
65 CTCACGTCTTGTAGATCGCATCTCAC
* * *
536109 GTTCTGGGAAATGATAGGTACTAAATAATCAGATTAAATTGGTAAACTAAAAAGTGCAAGGTTCC
1 GTTCTGGGAAACGAGAGGTACTAAATAATCAGATTAAATTGGTAAACTAAAAAGTGCAAGGTACC
*
536174 TCGCGTCTTGTAGA
66 TCACGTCTTGTAGA
536188 ACACGAGACA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 35 0.49
91 36 0.51
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (90 bp):
GTTCTGGGAAACGAGAGGTACTAAATAATCAGATTAAATTGGTAAACTAAAAAGTGCAAGGTACC
TCACGTCTTGTAGATCGCATCTCAC
Found at i:551386 original size:2 final size:2
Alignment explanation
Indices: 551379--551414 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
551369 AAATAACTTA
551379 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
551415 TTTTAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:551422 original size:66 final size:64
Alignment explanation
Indices: 551305--551450 Score: 222
Period size: 66 Copynumber: 2.2 Consensus size: 64
551295 ATTTTTACAT
* * * *
551305 AAATAACTTAATATAAGTTTCTATTATTTATAATTTATATATATTTTTAATAAAATTTGTATAC
1 AAATAACTTAATATAAGTATATATTATATATAATATATATATATTTTTAATAAAATTTGTATAC
551369 AAATAACTTAATATATA-TATATATATATATATATATATATATATATTTTTAATAAAATTTGTAT
1 AAATAACTTAATATA-AGTATATAT-TATATATA-ATATATATATATTTTTAATAAAATTTGTAT
551433 AC
63 AC
551435 AAATAACTTAATATAA
1 AAATAACTTAATATAA
551451 CTTAAAATTT
Statistics
Matches: 75, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
64 20 0.27
65 9 0.12
66 46 0.61
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (64 bp):
AAATAACTTAATATAAGTATATATTATATATAATATATATATATTTTTAATAAAATTTGTATAC
Found at i:552712 original size:28 final size:28
Alignment explanation
Indices: 552671--552751 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 28
552661 GTAGGACCAC
* *
552671 TATGTCCCGAAGGACCACATAGAACACA
1 TATGTCCCGTAGGACCACGTAGAACACA
552699 TATGTCCCGTAGGACCACGTAGAACACA
1 TATGTCCCGTAGGACCACGTAGAACACA
* *
552727 TGTGTCCCATAGGACCACGTAGAAC
1 TATGTCCCGTAGGACCACGTAGAAC
552752 CCTCGACTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.17
Consensus pattern (28 bp):
TATGTCCCGTAGGACCACGTAGAACACA
Found at i:557015 original size:28 final size:28
Alignment explanation
Indices: 556974--557082 Score: 200
Period size: 28 Copynumber: 3.9 Consensus size: 28
556964 GTAGGACCAC
* *
556974 TATGTCCCGAAGGACCACATAGAACACA
1 TATGTCCCGTAGGACCACGTAGAACACA
557002 TATGTCCCGTAGGACCACGTAGAACACA
1 TATGTCCCGTAGGACCACGTAGAACACA
557030 TATGTCCCGTAGGACCACGTAGAACACA
1 TATGTCCCGTAGGACCACGTAGAACACA
557058 TATGTCCCGTAGGACCACGTAGAAC
1 TATGTCCCGTAGGACCACGTAGAAC
557083 CCTCGACTAT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.17
Consensus pattern (28 bp):
TATGTCCCGTAGGACCACGTAGAACACA
Found at i:564087 original size:32 final size:32
Alignment explanation
Indices: 564048--564143 Score: 147
Period size: 32 Copynumber: 3.0 Consensus size: 32
564038 TGTGACACTA
*
564048 ACACTGATGTGCATTATTTGAATGCAATATTG
1 ACACTGATGTGCATTATCTGAATGCAATATTG
* * *
564080 ACTCTGATCTGCATTATCTGAATGCAACATTG
1 ACACTGATGTGCATTATCTGAATGCAATATTG
*
564112 ACACTGATGTGCATTATCTGAATGTAATATTG
1 ACACTGATGTGCATTATCTGAATGCAATATTG
564144 CTAGTATATG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (32 bp):
ACACTGATGTGCATTATCTGAATGCAATATTG
Found at i:568554 original size:27 final size:29
Alignment explanation
Indices: 568523--568580 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
568513 TTTAGTCACT
568523 TTTTAATT-TTTGA-TTTAGTCACTATTA
1 TTTTAATTGTTTGATTTTAGTCACTATTA
* *
568550 TTTTAATTGTTTTATTTTAGTCACTGTTA
1 TTTTAATTGTTTGATTTTAGTCACTATTA
568579 TT
1 TT
568581 AGATTTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 8 0.30
28 4 0.15
29 15 0.56
ACGTcount: A:0.22, C:0.07, G:0.09, T:0.62
Consensus pattern (29 bp):
TTTTAATTGTTTGATTTTAGTCACTATTA
Found at i:568674 original size:17 final size:17
Alignment explanation
Indices: 568633--568686 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
568623 TTGTTATTTA
568633 TGTTGTTTACTT-TTAC-
1 TGTTGTTTA-TTATTACT
*
568649 TGTTTTTTATTATTACT
1 TGTTGTTTATTATTACT
*
568666 TGTTGTTTATTATTAAT
1 TGTTGTTTATTATTACT
568683 TGTT
1 TGTT
568687 TTGCTTCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
15 2 0.06
16 12 0.36
17 19 0.58
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.67
Consensus pattern (17 bp):
TGTTGTTTATTATTACT
Found at i:572286 original size:9 final size:8
Alignment explanation
Indices: 572258--572353 Score: 72
Period size: 8 Copynumber: 11.8 Consensus size: 8
572248 GAAAAGATAT
572258 AGAAAAAA
1 AGAAAAAA
* *
572266 AGACATAA
1 AGAAAAAA
572274 A-AAAAAA
1 AGAAAAAA
*
572281 CG-AAAAA
1 AGAAAAAA
*
572288 GGAAAAAA
1 AGAAAAAA
572296 AGAGAAAAA
1 AGA-AAAAA
*
572305 GGAAAAAGAA
1 AG-AAAA-AA
572315 AGGAAAAAA
1 A-GAAAAAA
572324 AGAAAAAA
1 AGAAAAAA
*
572332 A-AAAAAG
1 AGAAAAAA
572339 AGAAAAAAA
1 AG-AAAAAA
572348 AGAAAA
1 AGAAAA
572354 GGAAATGAAG
Statistics
Matches: 69, Mismatches: 11, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
7 16 0.23
8 26 0.38
9 19 0.28
10 7 0.10
11 1 0.01
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.01
Consensus pattern (8 bp):
AGAAAAAA
Found at i:572302 original size:58 final size:56
Alignment explanation
Indices: 572238--572366 Score: 133
Period size: 56 Copynumber: 2.2 Consensus size: 56
572228 GACGACACAG
* *
572238 AGAGAAAGAAGAAAAGATATA-GAAAAAAAGACATAAAAAAAAACGA-AAAAGGAAA-AAA
1 AGAGAAAGAAGAAAAGA-A-AGGAAAAAAAGA-A-AAAAAAAAAAGAGAAAA-AAAAGAAA
572296 AGAGAAA-AAGGAAAAAGAAAGGAAAAAAAGAAAAAAAAAAAAGAGAAAAAAAAGAAA
1 AGAGAAAGAA-G-AAAAGAAAGGAAAAAAAGAAAAAAAAAAAAGAGAAAAAAAAGAAA
572353 AG-GAAATGAAGAAA
1 AGAGAAA-GAAGAAA
572367 TAAAACCGAT
Statistics
Matches: 62, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
56 21 0.34
57 14 0.23
58 21 0.34
59 6 0.10
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (56 bp):
AGAGAAAGAAGAAAAGAAAGGAAAAAAAGAAAAAAAAAAAAGAGAAAAAAAAGAAA
Found at i:572303 original size:28 final size:26
Alignment explanation
Indices: 572259--572353 Score: 86
Period size: 24 Copynumber: 3.5 Consensus size: 26
572249 AAAAGATATA
572259 GAAAAAAAGACATAAAAAAAAACGAAAAAG
1 GAAAAAAAGA-A-AAAAAAAAA--AAAAAG
* *
572289 GAAAAAAAGAGAAAAAGGAAAAAGAAAG
1 GAAAAAAAGA-AAAAA-AAAAAAAAAAG
*
572317 GAAAAAAAG--AAAAAAAAAAAAGAG
1 GAAAAAAAGAAAAAAAAAAAAAAAAG
*
572341 AAAAAAAAGAAAA
1 GAAAAAAAGAAAA
572354 GGAAATGAAG
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
24 16 0.29
25 4 0.07
26 2 0.04
28 14 0.25
29 4 0.07
30 15 0.27
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.01
Consensus pattern (26 bp):
GAAAAAAAGAAAAAAAAAAAAAAAAG
Found at i:572337 original size:43 final size:44
Alignment explanation
Indices: 572274--572358 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 44
572264 AAAGACATAA
** * *
572274 AAAAAAACGAAAAAGGAAAAAAAGAGAAAAAGGAAAAAGAAAGG
1 AAAAAAACGAAAAAAAAAAAAAAGAAAAAAAAGAAAAAGAAAGG
* *
572318 AAAAAAA-GAAAAAAAAAAAAGAGAAAAAAAAGAAAAGGAAA
1 AAAAAAACGAAAAAAAAAAAAAAGAAAAAAAAGAAAAAGAAA
572359 TGAAGAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
43 28 0.80
44 7 0.20
ACGTcount: A:0.80, C:0.01, G:0.19, T:0.00
Consensus pattern (44 bp):
AAAAAAACGAAAAAAAAAAAAAAGAAAAAAAAGAAAAAGAAAGG
Found at i:572342 original size:15 final size:15
Alignment explanation
Indices: 572260--572358 Score: 66
Period size: 15 Copynumber: 6.9 Consensus size: 15
572250 AAAGATATAG
* *
572260 AAAAAAAGACATAAA
1 AAAAAAAGAGAAAAA
* *
572275 AAAAAACGA-AAAAGG
1 AAAAAAAGAGAAAA-A
572290 AAAAAAAGAG-AAAA
1 AAAAAAAGAGAAAAA
** *
572304 AGGAAAA-AG-AAAG
1 AAAAAAAGAGAAAAA
*
572317 GAAAAAA-AGAAAAA
1 AAAAAAAGAGAAAAA
572331 AAAAAAAGAGAAAAA
1 AAAAAAAGAGAAAAA
572346 AAAGAAAAG-GAAA
1 AAA-AAAAGAGAAA
572359 TGAAGAAATA
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
13 11 0.17
14 17 0.26
15 33 0.50
16 5 0.08
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.01
Consensus pattern (15 bp):
AAAAAAAGAGAAAAA
Found at i:572366 original size:38 final size:40
Alignment explanation
Indices: 572274--572358 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 40
572264 AAAGACATAA
572274 AAAAAAACGAAAAAGGAAAAAAAGAGAAAAAGGAAAAAGAAAGG
1 AAAAAAA-GAAAAA--AAAAAAAGAGAAAAA-GAAAAAGAAAGG
*
572318 AAAAAAAGAAAAAAAAAAAAGAGAAAAA-AAAGA-AAAGG
1 AAAAAAAGAAAAAAAAAAAAGAGAAAAAGAAAAAGAAAGG
572356 AAA
1 AAA
572359 TGAAGAAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
38 8 0.20
39 4 0.10
41 15 0.38
43 6 0.15
44 7 0.17
ACGTcount: A:0.80, C:0.01, G:0.19, T:0.00
Consensus pattern (40 bp):
AAAAAAAGAAAAAAAAAAAAGAGAAAAAGAAAAAGAAAGG
Found at i:572467 original size:10 final size:11
Alignment explanation
Indices: 572441--572465 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
572431 AGAGAACACC
572441 AAAAGAAAATA
1 AAAAGAAAATA
572452 AAAAGAAAATA
1 AAAAGAAAATA
572463 AAA
1 AAA
572466 GACATGCGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAAGAAAATA
Found at i:573916 original size:73 final size:73
Alignment explanation
Indices: 573787--574247 Score: 599
Period size: 73 Copynumber: 6.3 Consensus size: 73
573777 CAAAGATAAA
* *
573787 AAAATTTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTTCGTGTCGCTGGAGACAGTTTTCC
1 AAAATTTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACAGTTTTCC
*
573852 TTTGAAAC
66 CTTGAAAC
* * * * * * *
573860 AAAATTTATCTCACTTGAGATTGATTTTCTCAAAA-CAAGTTTCGTCTCACTAGAGACAG-TTTC
1 AAAATTTATCTCACTCGAGATGGTTTTTCTTAAAACCAA-CTTCGTCTCGCTTGAGACAGTTTTC
573923 CCTTGAAAC
65 CCTTGAAAC
* * * ** *
573932 AAGAAATTTTATCTTACTTGAGATGGTTTTTTCTTAAAACCAATTTTATCTCAC-TGAGACAG-T
1 -A-AAA-TTTATCTCACTCGAGATGG-TTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACAGTT
573995 TTCCCTTGAAAC
62 TTCCCTTGAAAC
574007 AAGAAATTTTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACAGTTT
1 -A-AAA-TTTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACAGTTT
574072 TCCCTTGAAAC
63 TCCCTTGAAAC
* *
574083 AAAATTTATCTCACTTGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACAGTTCTCC
1 AAAATTTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACAGTTTTCC
574148 CTTGAAAC
66 CTTGAAAC
* * * *
574156 AAAATTTATCTAACTCGAGATGGTTTTTCTTAAAA-CTACTTTGTCTCGCTTGAGACATTTTTCC
1 AAAATTTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACAGTTTTCC
*
574220 CTTGAAAA
66 CTTGAAAC
*
574228 AAAAATTATCTCACTCGAGA
1 AAAATTTATCTCACTCGAGA
574248 GAGCTTCTCT
Statistics
Matches: 347, Mismatches: 33, Indels: 17
0.87 0.08 0.04
Matches are distributed among these distances:
72 65 0.19
73 148 0.43
74 29 0.08
75 70 0.20
76 32 0.09
77 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.13, T:0.36
Consensus pattern (73 bp):
AAAATTTATCTCACTCGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTGAGACAGTTTTCC
CTTGAAAC
Found at i:574019 original size:38 final size:39
Alignment explanation
Indices: 573904--574029 Score: 134
Period size: 38 Copynumber: 3.3 Consensus size: 39
573894 ACAAGTTTCG
573904 TCTCACTAGAGACAGTTTCCCTTGAAACAAGAAATTTTA
1 TCTCACTAGAGACAGTTTCCCTTGAAACAAGAAATTTTA
* * ** ** **
573943 TCTTACTTGAGATGGTTTTTTCTT--AA-AACCAATTTTA
1 TCTCACTAGAGACAG-TTTCCCTTGAAACAAGAAATTTTA
573980 TCTCACT-GAGACAGTTTCCCTTGAAACAAGAAATTTTA
1 TCTCACTAGAGACAGTTTCCCTTGAAACAAGAAATTTTA
*
574018 TCTCACTCGAGA
1 TCTCACTAGAGA
574030 TGGTTTTTCT
Statistics
Matches: 67, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
35 6 0.09
36 5 0.07
37 17 0.25
38 18 0.27
39 15 0.22
40 6 0.09
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (39 bp):
TCTCACTAGAGACAGTTTCCCTTGAAACAAGAAATTTTA
Found at i:574680 original size:40 final size:40
Alignment explanation
Indices: 574633--574769 Score: 240
Period size: 40 Copynumber: 3.4 Consensus size: 40
574623 TTAAATGGAG
574633 AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGA
1 AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGA
* *
574673 AGTTCATAATGAGAAGAAATCATCCGA-AAAGAGGAGAAGA
1 AGTTCATAATGAGAAGAACTCATCCGACAGAG-GGAGAAGA
574713 AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGA
1 AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGA
574753 AGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGA
574770 GTTTGTTCGA
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
39 3 0.03
40 85 0.93
41 3 0.03
ACGTcount: A:0.45, C:0.12, G:0.26, T:0.16
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGA
Found at i:574988 original size:91 final size:91
Alignment explanation
Indices: 574833--575192 Score: 503
Period size: 91 Copynumber: 4.0 Consensus size: 91
574823 TGAGGGATTG
* * *
574833 ACATTTCCAATGGAGAGTTCATAATGATAAGAACTCATCCAACGAGAGAGAAGAAGTTCATAATG
1 ACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATG
574898 AGAAGAACTTGTTCAACCTTGGATCA
66 AGAAGAACTTGTTCAACCTTGGATCA
* *
574924 ACATTTCCCA-TAGG-GAGTTCATAATGAGAAGAACTCGTCTAACGAGGGAGAAGAAGTTCATAA
1 ACATTT-CCAGT-GGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAA
* *
574987 TGAGAAGAACTTGTTCATCCTTGGCTCA
64 TGAGAAGAACTTGTTCAACCTTGGATCA
* *
575015 A-ATTTCCAGTAGAGAGTTCATAATGAGAAGAACTCATTCCAACGAGGGAGAAGAAGTTGATAAT
1 ACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCA-TCCAACGAGGGAGAAGAAGTTCATAAT
* *
575079 GAGAAGAACTTGTTCGACCTTGGATTA
65 GAGAAGAACTTGTTCAACCTTGGATCA
* * *
575106 ACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCGAC-AAGGACGAAGAAATTCATAAT
1 ACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGA-GAAGAAGTTCATAAT
* * *
575170 GATAAGAACTAGTTCAACTTTGG
65 GAGAAGAACTTGTTCAACCTTGG
575193 TGATTCCATC
Statistics
Matches: 239, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
89 4 0.02
90 31 0.13
91 165 0.69
92 39 0.16
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (91 bp):
ACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACCTTGGATCA
Found at i:575002 original size:20 final size:20
Alignment explanation
Indices: 574939--575004 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 20
574929 TCCCATAGGG
574939 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
* * * **
574959 CG-TC-TAACGAGGGAGAAGA
1 AGTTCATAATGA-GAAGAACT
574978 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
*
574998 TGTTCAT
1 AGTTCAT
575005 CCTTGGCTCA
Statistics
Matches: 32, Mismatches: 11, Indels: 6
0.65 0.22 0.12
Matches are distributed among these distances:
18 5 0.16
19 8 0.25
20 14 0.44
21 5 0.16
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACT
Found at i:576520 original size:26 final size:29
Alignment explanation
Indices: 576491--576547 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
576481 TTTAGTCACT
*
576491 TTTTAATT-TTG-A-TTTAGTTACTATTA
1 TTTTAATTGTTGCATTTTAGTCACTATTA
*
576517 TTTTAATTGTTGCATTTTAGTCATTATTA
1 TTTTAATTGTTGCATTTTAGTCACTATTA
576546 TT
1 TT
576548 ATATTTTATG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 8 0.31
27 3 0.12
28 1 0.04
29 14 0.54
ACGTcount: A:0.25, C:0.05, G:0.09, T:0.61
Consensus pattern (29 bp):
TTTTAATTGTTGCATTTTAGTCACTATTA
Found at i:588730 original size:20 final size:20
Alignment explanation
Indices: 588705--588743 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
588695 TCATATTTTC
588705 AATTAACTTA-ATAATATAAA
1 AATTAA-TTATATAATATAAA
*
588725 AATTAATTATATCATATAA
1 AATTAATTATATAATATAA
588744 TTTATTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTAATTATATAATATAAA
Found at i:589258 original size:38 final size:38
Alignment explanation
Indices: 589216--589303 Score: 119
Period size: 38 Copynumber: 2.3 Consensus size: 38
589206 ATTTTAAAAT
589216 ATTTAGAATGTTAT-GTGA-AATAATTTAAGAAATTAAGA
1 ATTTAGAATGTTATGGTGATAA-AATTTAAGAAA-TAAGA
* *
589254 ATTTAGAATGTTATGGTGATAAAATTTAATAAATATGA
1 ATTTAGAATGTTATGGTGATAAAATTTAAGAAATAAGA
589292 A-TTAGAATGTTA
1 ATTTAGAATGTTA
589304 GAATGAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
37 11 0.24
38 19 0.41
39 14 0.30
40 2 0.04
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (38 bp):
ATTTAGAATGTTATGGTGATAAAATTTAAGAAATAAGA
Found at i:596248 original size:26 final size:28
Alignment explanation
Indices: 596219--596279 Score: 108
Period size: 26 Copynumber: 2.2 Consensus size: 28
596209 ATAATCTTAC
596219 ATTTTATTAACC-AACGCTCCTT-AATA
1 ATTTTATTAACCAAACGCTCCTTAAATA
596245 ATTTTATTAACCAAACGCTCCTTAAATA
1 ATTTTATTAACCAAACGCTCCTTAAATA
596273 ATTTTAT
1 ATTTTAT
596280 ATTTTATCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
26 12 0.36
27 10 0.30
28 11 0.33
ACGTcount: A:0.36, C:0.20, G:0.03, T:0.41
Consensus pattern (28 bp):
ATTTTATTAACCAAACGCTCCTTAAATA
Found at i:598527 original size:20 final size:21
Alignment explanation
Indices: 598482--598528 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
598472 CCACTGATTT
* **
598482 AGAAGATGATAATACATATTA
1 AGAAAATGATAATACATAAAA
598503 A-AAAATGATAATAC-TAAAA
1 AGAAAATGATAATACATAAAA
598522 AGAAAAT
1 AGAAAAT
598529 ATATTTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.62, C:0.04, G:0.11, T:0.23
Consensus pattern (21 bp):
AGAAAATGATAATACATAAAA
Found at i:598815 original size:2 final size:2
Alignment explanation
Indices: 598804--598842 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
598794 GTCAATTAAC
598804 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
598843 TTAATACATT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:599217 original size:25 final size:27
Alignment explanation
Indices: 599183--599236 Score: 85
Period size: 26 Copynumber: 2.1 Consensus size: 27
599173 GTATGTTAAT
*
599183 AACATAAAA-TTTTAAATTGGAT-GAC
1 AACATAAAATTTTTAAATGGGATGGAC
599208 AACATAAAATTTTTAAATGGGATGGAC
1 AACATAAAATTTTTAAATGGGATGGAC
599235 AA
1 AA
599237 AAAATTTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 9 0.35
26 12 0.46
27 5 0.19
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (27 bp):
AACATAAAATTTTTAAATGGGATGGAC
Found at i:604125 original size:6 final size:6
Alignment explanation
Indices: 604114--604163 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
604104 AAGAAGATAT
* *
604114 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ACATAC ACATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
604162 AT
1 AT
604164 GAGAATCTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (6 bp):
ATATAC
Found at i:613559 original size:6 final size:6
Alignment explanation
Indices: 613548--613604 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
613538 CTATTTTTTT
* **
613548 CAAAAA CAAAAA CAAAAA -AAAAGA C-AAAA -AAAAG GTAAAA CAAAAA
1 CAAAAA CAAAAA CAAAAA CAAAA-A CAAAAA CAAAAA CAAAAA CAAAAA
613594 C-AAAA CAAAAA
1 CAAAAA CAAAAA
613605 GCCAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
5 13 0.32
6 28 0.68
ACGTcount: A:0.81, C:0.12, G:0.05, T:0.02
Consensus pattern (6 bp):
CAAAAA
Found at i:613569 original size:11 final size:11
Alignment explanation
Indices: 613548--613621 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
613538 CTATTTTTTT
613548 CAAAAACAAAAA
1 CAAAAA-AAAAA
613560 CAAAAAAAAAGA
1 CAAAAAAAAA-A
**
613572 CAAAAAAAAGG
1 CAAAAAAAAAA
* *
613583 TAAAACAAAAA
1 CAAAAAAAAAA
*
613594 CAAAACAAAAAG
1 CAAAA-AAAAAA
* *
613606 CCAAAAAAAAC
1 CAAAAAAAAAA
613617 CAAAA
1 CAAAA
613622 TTTCAAAAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
11 24 0.50
12 24 0.50
ACGTcount: A:0.78, C:0.15, G:0.05, T:0.01
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:613593 original size:34 final size:35
Alignment explanation
Indices: 613550--613615 Score: 116
Period size: 34 Copynumber: 1.9 Consensus size: 35
613540 ATTTTTTTCA
613550 AAAACAAAAACAAAA-AAAAAGACAAAAAAAAGGT
1 AAAACAAAAACAAAACAAAAAGACAAAAAAAAGGT
*
613584 AAAACAAAAACAAAACAAAAAGCCAAAAAAAA
1 AAAACAAAAACAAAACAAAAAGACAAAAAAAA
613616 CCAAAATTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 15 0.50
35 15 0.50
ACGTcount: A:0.80, C:0.12, G:0.06, T:0.02
Consensus pattern (35 bp):
AAAACAAAAACAAAACAAAAAGACAAAAAAAAGGT
Found at i:618291 original size:125 final size:125
Alignment explanation
Indices: 618107--618354 Score: 408
Period size: 125 Copynumber: 2.0 Consensus size: 125
618097 CTATCAGTAG
* * *
618107 GACTGAACCCACATCATGTTGAGATGACAAGATTCAGACCAATGAGGCATTAAGAATGAGCCTTA
1 GACTGAACCCACATCATGTTAAGATAACAAGATTAAGACCAATGAGGCATTAAGAATGAGCCTTA
*
618172 CAATTTGAGGTGTTGGGGCATTTTAAAGGCCCGTACCAGTATAAGATAATGTTGGGGCGC
66 CAATTTGAGGTGTTGGGGCATTTTAAAGACCCGTACCAGTATAAGATAATGTTGGGGCGC
* * *
618232 GACTGAACCCACATCATGTTAAGATAACAAGATTAAGACCAA-GAATGCATTGAGCATGAGCCTT
1 GACTGAACCCACATCATGTTAAGATAACAAGATTAAGACCAATG-AGGCATTAAGAATGAGCCTT
*
618296 ACAATTTGAGGTGTTGGGGCATTTTGAAGACCCGTACCAGTATAAGATAATGTTGGGGC
65 ACAATTTGAGGTGTTGGGGCATTTTAAAGACCCGTACCAGTATAAGATAATGTTGGGGC
618355 ACTAGTGAAG
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
124 1 0.01
125 113 0.99
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (125 bp):
GACTGAACCCACATCATGTTAAGATAACAAGATTAAGACCAATGAGGCATTAAGAATGAGCCTTA
CAATTTGAGGTGTTGGGGCATTTTAAAGACCCGTACCAGTATAAGATAATGTTGGGGCGC
Found at i:619821 original size:151 final size:151
Alignment explanation
Indices: 619543--620709 Score: 1882
Period size: 151 Copynumber: 7.7 Consensus size: 151
619533 TTTATAAGTG
* * *
619543 AAAAAATGAGCAAGGTTTCTCATTCAAATTTG-AAATTTAAAATTTTTGAAAAGTAAGAAAGGTT
1 AAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
*
619607 TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCTATCCATAAGACCTTTGGGCA
66 TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCA
619672 GGATGTTTTCACATGTCTATC
131 GGATGTTTTCACATGTCTATC
619693 AAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
1 AAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
* *
619758 TCTTACCAAGTAAAATATTTCCAAAATTTATAAGTCATTCGGGCCATCCATAAGACCTTTGGGCA
66 TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCA
619823 GGATGTTTTCACATGTCTATC
131 GGATGTTTTCACATGTCTATC
619844 AAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
1 AAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
* * * *
619909 TCTTACCTAGTAAAATATTTCCAAAATTT-TAAGTCCTTTGGGTCATCTATAAGACCTTTGGGTA
66 TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCA
619973 GGATGTTTTCACATGTCCT-T-
131 GGATGTTTTCACATGT-CTATC
* * *
619993 TAAATATGAGAAAGGTTTCTCATATTAAATCTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGT
1 AAAATATGAGAAAGGTTTCTCAT-TCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGT
*
620058 TTCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTAAGGGCCATCCATAAGACCTTTGGG
65 TTCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTT-CGGGCCATCCATAAGACCTTTGGG
*
620123 CAGGATGTTTTCACATGCCTATC
129 CAGGATGTTTTCACATGTCTATC
* *
620146 AAAAAATGAGAAAGGTTTCTCATTCAAATTTG-AAATTTGAAATTTTTGAAAAGTAAAAAAGGTT
1 AAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
* * *
620210 TCTTACTTAGTAAAATATTTCCAAAATTTATAAGTCTTTCAGGG-CATCCATAAGACCTTTGGAC
66 TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTC-GGGCCATCCATAAGACCTTTGGGC
620274 AGGATGTTTTCACATGTCTATC
130 AGGATGTTTTCACATGTCTATC
620296 AAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
1 AAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
*
620361 TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCAGGCCATCCATAAGACCTTTGGGCA
66 TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCA
*
620426 GGATGTTTTCACATGCCTATC
131 GGATGTTTTCACATGTCTATC
* *
620447 AAAATATGAGAAAAGTTTCCCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
1 AAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
* ***
620512 TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCATTCGGGCCATCCATAAGACCTTCAAGCA
66 TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCA
* * *
620577 AGATGTTTTCACATGTCTTTT
131 GGATGTTTTCACATGTCTATC
* * * *
620598 AAAATATGAGAAAGGTTTCTCATATTAAATCT-AAAAATTGAAA-TTTTGAAAAGAAAGAAAGGT
1 AAAATATGAGAAAGGTTTCTCAT-TCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGT
* * * *
620661 TTCTTACTTAGTAAACTATTTCCAAAATTTATAAATCCTTCGGGTCATC
65 TTCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATC
620710 TGTAAGCCTT
Statistics
Matches: 947, Mismatches: 59, Indels: 22
0.92 0.06 0.02
Matches are distributed among these distances:
149 22 0.02
150 282 0.30
151 571 0.60
152 51 0.05
153 21 0.02
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (151 bp):
AAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTT
TCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCCATCCATAAGACCTTTGGGCA
GGATGTTTTCACATGTCTATC
Found at i:620687 original size:603 final size:603
Alignment explanation
Indices: 619543--620700 Score: 2025
Period size: 603 Copynumber: 1.9 Consensus size: 603
619533 TTTATAAGTG
* *
619543 AAAAAATGAGCAAGGTTTCTCATTCAAATTTGAAATTTAAAATTTTTGAAAAGTAAGAAAGGTTT
1 AAAAAATGAGAAAGGTTTCTCATTCAAATTTGAAATTTAAAATTTTTGAAAAGTAAAAAAGGTTT
*
619608 CTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCTATCCATAAGACCTTTGGGCAG
66 CTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCTATCCATAAGACCTTTGGACAG
619673 GATGTTTTCACATGTCTATCAAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATT
131 GATGTTTTCACATGTCTATCAAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATT
*
619738 TTTGAAAAGTAAGAAAGGTTTCTTACCAAGTAAAATATTTCCAAAATTTATAAGTCATTCGGGCC
196 TTTGAAAAGTAAGAAAGGTTTCTTACCAAGTAAAATATTTCCAAAATTTATAAGTCATTCAGGCC
* * *
619803 ATCCATAAGACCTTTGGGCAGGATGTTTTCACATGTCTATCAAAATATGAGAAAGGTTTCTCATT
261 ATCCATAAGACCTTTGGGCAGGATGTTTTCACATGCCTATCAAAATATGAGAAAAGTTTCCCATT
619868 CAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAAATATTTCCAA
326 CAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAAATATTTCCAA
* * * * *** * *
619933 AATTTTAAGTCCTTTGGGTCATCTATAAGACCTTTGGGTAGGATGTTTTCACATGTCCTTTAAAT
391 AATTTTAAGTCATTCGGGCCATCCATAAGACCTTCAAGCAAGATGTTTTCACATGTCCTTTAAAT
* *
619998 ATGAGAAAGGTTTCTCATATTAAATCTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTT
456 ATGAGAAAGGTTTCTCATATTAAATCTGAAAAATTGAAATTTTTGAAAAGAAAGAAAGGTTTCTT
*
620063 ACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTAAGGGCCATCCATAAGACCTTTGGGCAGGA
521 ACCTAGTAAAATATTTCCAAAATTTATAAATCCTTAAGGGCCATCCATAAGACCTTTGGGCAGGA
620128 TGTTTTCACATGCCTATC
586 TGTTTTCACATGCCTATC
*
620146 AAAAAATGAGAAAGGTTTCTCATTCAAATTTGAAATTTGAAATTTTTGAAAAGTAAAAAAGGTTT
1 AAAAAATGAGAAAGGTTTCTCATTCAAATTTGAAATTTAAAATTTTTGAAAAGTAAAAAAGGTTT
* *
620211 CTTACTTAGTAAAATATTTCCAAAATTTATAAGTCTTTCAGGGC-ATCCATAAGACCTTTGGACA
66 CTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTC-GGGCTATCCATAAGACCTTTGGACA
620275 GGATGTTTTCACATGTCTATCAAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAAT
130 GGATGTTTTCACATGTCTATCAAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAAT
* *
620340 TTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCAGGC
195 TTTTGAAAAGTAAGAAAGGTTTCTTACCAAGTAAAATATTTCCAAAATTTATAAGTCATTCAGGC
620405 CATCCATAAGACCTTTGGGCAGGATGTTTTCACATGCCTATCAAAATATGAGAAAAGTTTCCCAT
260 CATCCATAAGACCTTTGGGCAGGATGTTTTCACATGCCTATCAAAATATGAGAAAAGTTTCCCAT
620470 TCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAAATATTTCCA
325 TCAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAAATATTTCCA
*
620535 AAATTTATAAGTCATTCGGGCCATCCATAAGACCTTCAAGCAAGATGTTTTCACATGTCTTTTAA
390 AAATTT-TAAGTCATTCGGGCCATCCATAAGACCTTCAAGCAAGATGTTTTCACATGTCCTTT-A
620600 AATATGAGAAAGGTTTCTCATATTAAATCT-AAAAATTGAAA-TTTTGAAAAGAAAGAAAGGTTT
453 AATATGAGAAAGGTTTCTCATATTAAATCTGAAAAATTGAAATTTTTGAAAAGAAAGAAAGGTTT
* *
620663 CTTACTTAGTAAACTATTTCCAAAATTTATAAATCCTT
518 CTTACCTAGTAAAATATTTCCAAAATTTATAAATCCTT
620701 CGGGTCATCT
Statistics
Matches: 525, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
603 434 0.83
604 60 0.11
605 31 0.06
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (603 bp):
AAAAAATGAGAAAGGTTTCTCATTCAAATTTGAAATTTAAAATTTTTGAAAAGTAAAAAAGGTTT
CTTACCTAGTAAAATATTTCCAAAATTTATAAGTCCTTCGGGCTATCCATAAGACCTTTGGACAG
GATGTTTTCACATGTCTATCAAAATATGAGAAAGGTTTCTCATTCAAATTTGAAAATTTGAAATT
TTTGAAAAGTAAGAAAGGTTTCTTACCAAGTAAAATATTTCCAAAATTTATAAGTCATTCAGGCC
ATCCATAAGACCTTTGGGCAGGATGTTTTCACATGCCTATCAAAATATGAGAAAAGTTTCCCATT
CAAATTTGAAAATTTGAAATTTTTGAAAAGTAAGAAAGGTTTCTTACCTAGTAAAATATTTCCAA
AATTTTAAGTCATTCGGGCCATCCATAAGACCTTCAAGCAAGATGTTTTCACATGTCCTTTAAAT
ATGAGAAAGGTTTCTCATATTAAATCTGAAAAATTGAAATTTTTGAAAAGAAAGAAAGGTTTCTT
ACCTAGTAAAATATTTCCAAAATTTATAAATCCTTAAGGGCCATCCATAAGACCTTTGGGCAGGA
TGTTTTCACATGCCTATC
Found at i:621044 original size:115 final size:115
Alignment explanation
Indices: 620841--621247 Score: 598
Period size: 115 Copynumber: 3.5 Consensus size: 115
620831 ATTTTGAAAA
* * * * * *
620841 ATCTGATATTCCCTTCAGAAGAAGCTGAACAGATTCCTCTTTTTCAAGGTTTGATATTCCCTGAG
1 ATCTGATATTCCCTTCAGAAGAAGCGGAACAAATTCCTATCTTCCAAGATTTGATATTCCCTGAG
* * * *
620906 TGACAGTGAAACAAATCTGCCCTAATTCAGTGTATCACAACTCTTTCCAG
66 TGACAGAGGAACAAATCTGCCCTAATTCAGTGGATCACATCTCTTTCCAG
* *
620956 ATCTGATATTCCCTTCAGAAGAAGCGAAACAGATTCCTATCTTCCAAGATTTGATATTCCCTGAG
1 ATCTGATATTCCCTTCAGAAGAAGCGGAACAAATTCCTATCTTCCAAGATTTGATATTCCCTGAG
* * * *
621021 TGACAGAGGAATAAATCTACCCTAATTCAGTGGGTCACATCTCTTTCTAG
66 TGACAGAGGAACAAATCTGCCCTAATTCAGTGGATCACATCTCTTTCCAG
*
621071 ATCTGATATTCCCTTCAGAAGAAGCGGAACAAATTCCTATCTTCCAGGATTTGATATTCCCTGAG
1 ATCTGATATTCCCTTCAGAAGAAGCGGAACAAATTCCTATCTTCCAAGATTTGATATTCCCTGAG
* * * *
621136 TGATAGCGGAACAAATCTGCCCTAATTCAATGGATCATATCTCTTTCCAG
66 TGACAGAGGAACAAATCTGCCCTAATTCAGTGGATCACATCTCTTTCCAG
* * *
621186 ATCTGATATTCCATTCAGACGAAGCGGAACAAATTCCTATCTTCCAAGATTTAATATTCCCT
1 ATCTGATATTCCCTTCAGAAGAAGCGGAACAAATTCCTATCTTCCAAGATTTGATATTCCCT
621248 TCAGAGATAA
Statistics
Matches: 263, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
115 263 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.31
Consensus pattern (115 bp):
ATCTGATATTCCCTTCAGAAGAAGCGGAACAAATTCCTATCTTCCAAGATTTGATATTCCCTGAG
TGACAGAGGAACAAATCTGCCCTAATTCAGTGGATCACATCTCTTTCCAG
Found at i:623340 original size:42 final size:42
Alignment explanation
Indices: 623280--623370 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
623270 CTGAAATCCT
* ** *
623280 GTGTCTGTTTCATGTAATTCGTTTTCCGGAAAATATTTTCCC
1 GTGTTTGTTTCACATAATTCGTTTTCCGGAAAATATTTTCCA
*
623322 GTGTTTGTTTCACATAATTCGTTTTCCGGAAAATGTTTTCCA
1 GTGTTTGTTTCACATAATTCGTTTTCCGGAAAATATTTTCCA
623364 GTGTTTG
1 GTGTTTG
623371 GTTGGAGGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (42 bp):
GTGTTTGTTTCACATAATTCGTTTTCCGGAAAATATTTTCCA
Found at i:623593 original size:10 final size:10
Alignment explanation
Indices: 623578--623623 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
623568 AAATATCTAA
623578 AATATTTATT
1 AATATTTATT
623588 AATATTTATAT
1 AATATTTAT-T
*
623599 AATATAATATT
1 AATAT-TTATT
623610 -ATATTT-TT
1 AATATTTATT
623618 AATATT
1 AATATT
623624 ATAATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
8 2 0.06
9 6 0.19
10 13 0.42
11 7 0.23
12 3 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
AATATTTATT
Found at i:623610 original size:22 final size:22
Alignment explanation
Indices: 623584--623629 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
623574 CTAAAATATT
623584 TATTAATATTTAT-ATAATATAA
1 TATT-ATATTTATAATAATATAA
* *
623606 TATTATATTTTTAATATTATAA
1 TATTATATTTATAATAATATAA
623628 TA
1 TA
623630 AAATAATCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTATATTTATAATAATATAA
Found at i:623622 original size:14 final size:14
Alignment explanation
Indices: 623579--623626 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
623569 AATATCTAAA
623579 ATATTTATTAATATTT
1 ATATTT-TTAATA-TT
* *
623595 ATATAATATAATATT
1 ATAT-TTTTAATATT
623610 ATATTTTTAATATT
1 ATATTTTTAATATT
623624 ATA
1 ATA
623627 ATAAAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
14 11 0.41
15 6 0.22
16 9 0.33
17 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATTTTTAATATT
Found at i:623648 original size:23 final size:23
Alignment explanation
Indices: 623619--623671 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
623609 TATATTTTTA
623619 ATATTATAATAAAATAATCA-ATT
1 ATATTATAATAAAATAA-CATATT
* *
623642 ATATTATAATAATATAAGATATT
1 ATATTATAATAAAATAACATATT
623665 ATATTAT
1 ATATTAT
623672 TATTTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATTATAATAAAATAACATATT
Found at i:623692 original size:22 final size:24
Alignment explanation
Indices: 623655--623700 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
623645 TTATAATAAT
623655 ATAAGATATTATATT-ATTATTTTA
1 ATAAGATATTATATTAATT-TTTTA
623679 ATAA-ATA-TATATTAATTTTTTA
1 ATAAGATATTATATTAATTTTTTA
623701 TATATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.52
23 6 0.29
24 4 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATAAGATATTATATTAATTTTTTA
Found at i:623751 original size:18 final size:21
Alignment explanation
Indices: 623584--623765 Score: 56
Period size: 22 Copynumber: 8.4 Consensus size: 21
623574 CTAAAATATT
*
623584 TATTAATATTTATATAATATAA
1 TATTAATATATATAT-ATATAA
* *
623606 TATT-ATATTTTTAATATTATAA
1 TATTAATATATAT-ATA-TATAA
*
623628 TA-AAATA-ATCAATTATATTATAA
1 TATTAATATAT--A-TATA-TATAA
* *
623651 TAATATAAGATAT-TATATTATTA
1 T-AT-TAATATATATATA-TATAA
* *
623674 TTTTAATAAATATATAT-TAA
1 TATTAATATATATATATATAA
** *
623694 T-TTTTTATATATTTA-ATAA
1 TATTAATATATATATATATAA
* *
623713 TGAATAATATTATTTATATATTTAA
1 T-ATTAATA-TA--TATATATATAA
623738 TATTAATATA-ATATATATAA
1 TATTAATATATATATATATAA
*
623758 TTTTAATA
1 TATTAATA
623766 AAGATATAAA
Statistics
Matches: 119, Mismatches: 23, Indels: 38
0.66 0.13 0.21
Matches are distributed among these distances:
19 14 0.12
20 19 0.16
21 19 0.16
22 23 0.19
23 22 0.18
24 13 0.11
25 4 0.03
26 3 0.03
27 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (21 bp):
TATTAATATATATATATATAA
Found at i:623756 original size:26 final size:27
Alignment explanation
Indices: 623699--623765 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
623689 ATTAATTTTT
* *
623699 TATATATTTAATAATGAATAATATTATT
1 TATATATTTAAT-ATGAATAATAATATA
*
623727 TATATATTTAATATTAAT-ATAATATA
1 TATATATTTAATATGAATAATAATATA
623753 TATA-ATTTTAATA
1 TATATA-TTTAATA
623766 AAGATATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.03
26 17 0.49
27 5 0.14
28 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
TATATATTTAATATGAATAATAATATA
Found at i:623772 original size:26 final size:29
Alignment explanation
Indices: 623660--623774 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 29
623650 ATAATATAAG
*
623660 ATATTATAT-TATTATTTTAATAAATATATA
1 ATATTATATATA-TA-TTTAATAAAGATATA
* * * *
623690 TTAATTTTTTATATATTTAATAATGA-ATA
1 AT-ATTATATATATATTTAATAAAGATATA
* *
623719 ATATTATTTATATATTTAATATTA-ATATA
1 ATATTATATATATATTTAATA-AAGATATA
623748 ATA-TATATA-AT-TTTAATAAAGATATA
1 ATATTATATATATATTTAATAAAGATATA
623774 A
1 A
623775 AAATACTAAT
Statistics
Matches: 69, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
25 1 0.01
26 13 0.19
27 2 0.03
28 24 0.35
29 10 0.14
30 10 0.14
31 7 0.10
32 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (29 bp):
ATATTATATATATATTTAATAAAGATATA
Found at i:623959 original size:22 final size:23
Alignment explanation
Indices: 623917--623975 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
623907 AATTAATAAT
* *
623917 AAATAATTAT-TTTAATATTTTA
1 AAATAATAATATTAAATATTTTA
623939 AAATAATAATATTAAAT-TTTTA
1 AAATAATAATATTAAATATTTTA
**
623961 TGATAAATAATATTA
1 AAAT-AATAATATTA
623976 TTTATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 16 0.52
23 15 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATAATAATATTAAATATTTTA
Found at i:624181 original size:15 final size:15
Alignment explanation
Indices: 624145--624211 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
624135 TTCCATAAAT
**
624145 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
*
624160 G-AATTCAAATTCTA
1 GTAATTCAAATTCCA
**
624174 GTAATTCATTTTCCA
1 GTAATTCAAATTCCA
624189 GTAATTCAAATTCCA
1 GTAATTCAAATTCCA
*
624204 ATAATTCA
1 GTAATTCA
624212 TTTTCCAGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
14 11 0.26
15 31 0.74
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.40
Consensus pattern (15 bp):
GTAATTCAAATTCCA
Found at i:624197 original size:30 final size:29
Alignment explanation
Indices: 624145--624221 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 29
624135 TTCCATAAAT
*
624145 GTAATTCATTTTCCAGAATTCAAATTCTA
1 GTAATTCATTTTCCAGAATTCAAATTCCA
624174 GTAATTCATTTTCCAGTAATTCAAATTCCA
1 GTAATTCATTTTCCAG-AATTCAAATTCCA
*
624204 ATAATTCATTTTCCAGAA
1 GTAATTCATTTTCCAGAA
624222 AACCAATTAC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 18 0.40
30 27 0.60
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.40
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAAATTCCA
Found at i:627741 original size:54 final size:54
Alignment explanation
Indices: 627680--628051 Score: 399
Period size: 55 Copynumber: 6.8 Consensus size: 54
627670 GTTACCAAAT
* * * * * *
627680 AGGCACTAAGTGTGCATTCCACAGAATTCATCCT-ATGTAGATGAATAACCATAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGA-GTTGATGAATAACCGTAC
* * * * * *
627734 ATGCACTAAGTGTGCATTCCACGGAATTCATCCT-ATGTGGATGAATAACCGTGC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGA-GTTGATGAATAACCGTAC
* * * * *
627788 AGGCAATAAGTGTGCATTCCACGGAATTCATCCT-ATGTGGATGAATAACCGTAC
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGA-GTTGATGAATAACCGTAC
* * * *
627842 AGGCACTATGAGTGCAAATCCACGGAATTCGTCATGAGTTGGTGAATAACAGTAC
1 AGGCACTATGTGTGC-AATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * **
627897 AGGCGCTATGTGTGCAAACCCACAAAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGC-AATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
*
627952 ATGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
1 AGGCACTATGTGTGC-AATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
* * * *
628007 ATGCACTATGTGTGTAACCCACGGAATTCATCGTGAGTTGATGAA
1 AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAA
628052 ATATTGTATA
Statistics
Matches: 283, Mismatches: 33, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
54 140 0.49
55 142 0.50
56 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (54 bp):
AGGCACTATGTGTGCAATCCACGGAATTCATCATGAGTTGATGAATAACCGTAC
Found at i:628076 original size:164 final size:164
Alignment explanation
Indices: 627773--628076 Score: 389
Period size: 164 Copynumber: 1.9 Consensus size: 164
627763 ATCCTATGTG
* * *
627773 GATGAATAACCGTGCAGGCAATAAGTGTGCATTCCACGGAATTCATCCTATGTGGATGAATAACC
1 GATGAATAACCGTACAGGCAATAAGTGTGCAATCCACGGAATTCATCATATGTGGATGAATAACC
* * * *
627838 GTACAGGCACTATGAGTGCAAATCCACGGAATTCGTCATGAGTTGGTGAATAACAGTACAGGCGC
66 GTACAGGCACTATGAGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACAGTACAGGCAC
*
627903 TATGTGTGCAAACCCACAAAATTCATCATGAGTT
131 TACGTGTGCAAACCCACAAAATTCATCATGAGTT
* * * *
627937 GATGAATAACCGTACATGCACTATGTGTGCAAATCCACGGAATTCATCATGA-GTTGATGAATAA
1 GATGAATAACCGTACAGGCAATAAGTGTGC-AATCCACGGAATTCATCAT-ATGTGGATGAATAA
* * * * ** *
628001 CCGTACATGCACTATGTGTG-TAACCCACGGAATTCATCGTGAGTTGATGAA-ATATTGTATAGG
64 CCGTACAGGCACTATGAGTGCAAACCCACGGAATTCATCATGAGTTGATGAATA-ACAGTACAGG
628064 CACTACGTGTGCA
128 CACTACGTGTGCA
628077 TCTTAATAAA
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
163 1 0.01
164 70 0.59
165 46 0.39
166 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (164 bp):
GATGAATAACCGTACAGGCAATAAGTGTGCAATCCACGGAATTCATCATATGTGGATGAATAACC
GTACAGGCACTATGAGTGCAAACCCACGGAATTCATCATGAGTTGATGAATAACAGTACAGGCAC
TACGTGTGCAAACCCACAAAATTCATCATGAGTT
Found at i:628297 original size:45 final size:45
Alignment explanation
Indices: 628233--628400 Score: 291
Period size: 45 Copynumber: 3.7 Consensus size: 45
628223 TAGATGGATA
628233 GAAATGCATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAAT
1 GAAATGCATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAAT
* *
628278 GAAATGCATAATAGTGTATAAAAGGAATGAAAGGATGCCATAAAT
1 GAAATGCATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAAT
*
628323 GAAATGTATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAAT
1 GAAATGCATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAAT
* *
628368 GAAATGTATCATGGTGTATAAAAGGCATGAAAG
1 GAAATGCATAATGGTGTATAAAAGGCATGAAAG
628401 AAAGTATAAC
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 117 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.23
Consensus pattern (45 bp):
GAAATGCATAATGGTGTATAAAAGGCATGAAAGGATGCCATAAAT
Found at i:633847 original size:17 final size:17
Alignment explanation
Indices: 633825--633865 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
633815 GTTTGGGTTA
633825 AGCTCTACCTAGGTTCT
1 AGCTCTACCTAGGTTCT
633842 AGCTCTACCTAGGTTCT
1 AGCTCTACCTAGGTTCT
633859 AGCTCTA
1 AGCTCTA
633866 GGTTCACTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (17 bp):
AGCTCTACCTAGGTTCT
Found at i:640759 original size:4 final size:4
Alignment explanation
Indices: 640750--640798 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
640740 CAATCATATG
* * * *
640750 CATA CATA CATA CATA CATA CATA CACA CATA CACA CATG CACA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
640798 C
1 C
640799 GTAGTTTCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (4 bp):
CATA
Found at i:640771 original size:16 final size:16
Alignment explanation
Indices: 640750--640798 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
640740 CAATCATATG
*
640750 CATACATACATACATA
1 CATACATACACACATA
640766 CATACATACACACATA
1 CATACATACACACATA
* *
640782 CACACATGCACACATA
1 CATACATACACACATA
640798 C
1 C
640799 GTAGTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.47, C:0.33, G:0.02, T:0.18
Consensus pattern (16 bp):
CATACATACACACATA
Found at i:642345 original size:20 final size:20
Alignment explanation
Indices: 642303--642341 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
642293 GAATTTTGTA
642303 AAATTTTAAAAGATAAAAAT
1 AAATTTTAAAAGATAAAAAT
*
642323 AAATTTT-TAA-ATAAAAAT
1 AAATTTTAAAAGATAAAAAT
642341 A
1 A
642342 TAAAAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAATTTTAAAAGATAAAAAT
Found at i:645307 original size:13 final size:13
Alignment explanation
Indices: 645289--645314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
645279 TGACCACATG
645289 GAACTTAGATAAC
1 GAACTTAGATAAC
645302 GAACTTAGATAAC
1 GAACTTAGATAAC
645315 TAAGTTGGGT
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:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (13 bp):
GAACTTAGATAAC
Found at i:661447 original size:22 final size:22
Alignment explanation
Indices: 661399--661452 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
661389 TTCAGCTGTT
* *
661399 ATAACTCCTGAAATTATATCAT
1 ATAACTCCTGAAATTAAATCAA
* * *
661421 GTAACCCCTGGAATTAAATCAA
1 ATAACTCCTGAAATTAAATCAA
661443 ATAACTCCTG
1 ATAACTCCTG
661453 TAACTCCTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (22 bp):
ATAACTCCTGAAATTAAATCAA
Found at i:666553 original size:3 final size:3
Alignment explanation
Indices: 666524--666591 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
666514 TTGGGTTTTG
* * * * * *
666524 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TCA TTA TTA TTA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
666571 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
666592 ATTTTAAAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
3 50 0.89
4 6 0.11
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:667246 original size:113 final size:113
Alignment explanation
Indices: 667062--668410 Score: 2485
Period size: 113 Copynumber: 12.0 Consensus size: 113
667052 GAATTATGCG
* ** * * *
667062 AAAGGTTGAATAAGCTCTTCTCATTGTGAACTTT-ATCTT-CTCCTTCAGATGAGTTCTTCTCAT
1 AAAGGTTGAACAAATTCTTCTCATTATGAA-TTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
667125 TATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
65 TATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
667174 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
667239 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
66 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
*
667287 AAAGGTTGACCAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
667352 ATGAACTTTCTCTGGAAAAGATGATCCATCAGATGATGGATTTGAGCA
66 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
667400 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
667465 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
66 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
667513 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
667578 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
66 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
667626 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
667691 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
66 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
667739 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
667804 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAG-A
66 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
667851 TAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAG---TTCTCAT
1 -AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
667913 TATGAACTTTTTCTGGAAAAGTTGATCCATCAGATGATGGATTTGAGCA
65 TATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
667962 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
668027 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
66 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
*
668075 AAAGGTTGAAAAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
668140 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
66 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
* *
668188 AAAGGTTGAACAAATTCTTCTCATTATGAATGTCTTCTTCCTTCTTCAGATGTGTTCTTCTCATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
668253 ATGAACTTTTTCTGAAAAAGTTGATCCATCAGATGATGGATTTGAGCA
66 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
* *
668301 AAAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTTCCTTCTTCAGATGAGTTCTTCTAATT
1 AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
668366 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
66 ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGA
668411 ATCTTTGCTA
Statistics
Matches: 1204, Mismatches: 26, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
110 107 0.09
111 4 0.00
112 31 0.03
113 1062 0.88
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (113 bp):
AAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTTTCTGGAAAAGCTGATCCATCAGATGATGGATTTGAGCA
Found at i:668225 original size:20 final size:20
Alignment explanation
Indices: 668202--668257 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
668192 GTTGAACAAA
668202 TTCTTCTCATTATGAATGTC
1 TTCTTCTCATTATGAATGTC
*
668222 TTCTTCCTTC-TTCA-G-ATGTG
1 TTCTT-C-TCATT-ATGAATGTC
668242 TTCTTCTCATTATGAA
1 TTCTTCTCATTATGAA
668258 CTTTTTCTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 12
0.69 0.02 0.29
Matches are distributed among these distances:
18 3 0.10
19 4 0.14
20 15 0.52
21 4 0.14
22 3 0.10
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (20 bp):
TTCTTCTCATTATGAATGTC
Found at i:668835 original size:22 final size:22
Alignment explanation
Indices: 668810--668864 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
668800 CATAAAGTTT
* *
668810 TCATCTTTGAAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATATA
*
668832 TCATCTTTAAAAAGAGAATATA
1 TCATCTTTGAAAAGAGAATATA
668854 TCATCTTTGAA
1 TCATCTTTGAA
668865 GAGTGTAGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATATA
Found at i:669360 original size:54 final size:54
Alignment explanation
Indices: 669236--669442 Score: 219
Period size: 54 Copynumber: 3.9 Consensus size: 54
669226 CACTGGTTCA
* * * *
669236 TAAAACATTTGACAATACATTCAT-CTTTTCCTGTGGTTTCTG-T-CGA-G-ATG
1 TAAAACATTTGACAACACATTCATCCTTTT-CTGTGGCTTCTGCTAAGATGTTTG
*
669286 TAAAACACTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTAAGATGTTTG
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTAAGATGTTTG
* * * * **
669340 TAAAACATTTGACAACACATTCATCC-TTTCTAGTGGTTTTTGCTCAGACGTTCA
1 TAAAACATTTGACAACACATTCATCCTTTTCT-GTGGCTTCTGCTAAGATGTTTG
* * * *
669394 TAAAGCGTTTGACAACACATTCATCTTTTTCTGTGGCTTCTGCCAAGAT
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTAAGAT
669443 TTCTTAATCA
Statistics
Matches: 130, Mismatches: 20, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
50 33 0.25
51 6 0.05
52 2 0.02
53 6 0.05
54 78 0.60
55 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (54 bp):
TAAAACATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTAAGATGTTTG
Found at i:669433 original size:108 final size:104
Alignment explanation
Indices: 669236--669442 Score: 274
Period size: 104 Copynumber: 2.0 Consensus size: 104
669226 CACTGGTTCA
* * *
669236 TAAAACATTTGACAATACATTCATCTTTTCCTGTGGTTTCTGTCGAGATGTAAAACACTTGACAA
1 TAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTCGAGACGTAAAACACTTGACAA
*
669301 CACATTCATCCTTTTCTGTGGCTTCTGCTAAGATGTTTG
66 CACATTCATCCTTTTCTGTGGCTTCTGCCAAGATGTTTG
* **
669340 TAAAACATTTGACAACACATTCATCCTTT-CTAGTGGTTTTTGCTC-AGACGTTCATAAAGCGTT
1 TAAAACATTTGACAACACATTCATCCTTTCCT-GTGGTTTCTG-TCGAGACG-T-A-AAA-CACT
*
669403 TGACAACACATTCATCTTTTTCTGTGGCTTCTGCCAAGAT
60 TGACAACACATTCATCCTTTTCTGTGGCTTCTGCCAAGAT
669443 TTCTTAATCA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
103 2 0.02
104 40 0.45
105 3 0.03
106 1 0.01
107 3 0.03
108 40 0.45
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (104 bp):
TAAAACATTTGACAACACATTCATCCTTTCCTGTGGTTTCTGTCGAGACGTAAAACACTTGACAA
CACATTCATCCTTTTCTGTGGCTTCTGCCAAGATGTTTG
Found at i:671871 original size:115 final size:114
Alignment explanation
Indices: 671557--671897 Score: 592
Period size: 114 Copynumber: 3.0 Consensus size: 114
671547 GATCATGCAG
* * * * * *
671557 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCATACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
671622 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
*
671671 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
671736 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
671785 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGG-TTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
671850 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
65 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
671898 CATGGCACTT
Statistics
Matches: 217, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
114 130 0.60
115 87 0.40
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
Found at i:674171 original size:17 final size:17
Alignment explanation
Indices: 674149--674181 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
674139 CTTGATTCAA
674149 TTTT-CCTTTTTCTTTTT
1 TTTTCCCTTTTT-TTTTT
674166 TTTTCCCTTTTTTTTT
1 TTTTCCCTTTTTTTTT
674182 CTTCTTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTCCCTTTTTTTTTT
Found at i:674494 original size:2 final size:2
Alignment explanation
Indices: 674487--674517 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
674477 ACAACAAAGG
674487 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 A
674518 AAGGATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:677505 original size:14 final size:14
Alignment explanation
Indices: 677471--677524 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
677461 TTGTGCAATA
* *
677471 CAAATGCAAAGATG
1 CAAATGTAAATATG
677485 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
677500 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
677514 TAAATGTAAAT
1 CAAATGTAAAT
677525 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:680008 original size:14 final size:15
Alignment explanation
Indices: 679978--680010 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
679968 AATAGAATAA
679978 ATAAATAAATATTAT
1 ATAAATAAATATTAT
*
679993 ATAAATATAT-TTAT
1 ATAAATAAATATTAT
680007 ATAA
1 ATAA
680011 CTTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAAATAAATATTAT
Found at i:680114 original size:21 final size:20
Alignment explanation
Indices: 680073--680118 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
680063 AACGTAATAA
*
680073 TAAAATAAAATAACAATAAT
1 TAAAATAAAATAACAAAAAT
680093 TAAAATGAAAATGAA-AAAAAT
1 TAAAAT-AAAAT-AACAAAAAT
680114 TAAAA
1 TAAAA
680119 GTAATAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 15 0.65
22 2 0.09
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (20 bp):
TAAAATAAAATAACAAAAAT
Found at i:681378 original size:3 final size:3
Alignment explanation
Indices: 681349--681416 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
681339 TTGGGTTTTG
* * * *
681349 TAA TAT TAA TAAA TAA TATA TAT TAA TAA TAA TAA TTA TTA TAA TAA
1 TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
681396 TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA
681417 ATTTTAAAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
3 51 0.89
4 6 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:685933 original size:73 final size:74
Alignment explanation
Indices: 685831--685967 Score: 215
Period size: 73 Copynumber: 1.9 Consensus size: 74
685821 GACATTACAT
*
685831 TTTTTCGTCAATACAAATTTGGGGGAAGGGGATGGGTTGCAC-GGGCCTTGAAACCTGGCCACTG
1 TTTTTCGTCAATACAAATTTGGGGGAAGGGGATGGGTTGCACAGGG-CTTGAAACCTGCCCACTG
685895 GTGGTAGGTA
65 GTGGTAGGTA
* * *
685905 TTTTT-GTCACTACGAATTTGGGGGAAGGGGATGGGTTGCACAGGGCTTGAACCCTGCCCACTG
1 TTTTTCGTCAATACAAATTTGGGGGAAGGGGATGGGTTGCACAGGGCTTGAAACCTGCCCACTG
685968 ATGATAGCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
73 50 0.86
74 8 0.14
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.27
Consensus pattern (74 bp):
TTTTTCGTCAATACAAATTTGGGGGAAGGGGATGGGTTGCACAGGGCTTGAAACCTGCCCACTGG
TGGTAGGTA
Found at i:687265 original size:68 final size:65
Alignment explanation
Indices: 687181--687339 Score: 171
Period size: 65 Copynumber: 2.4 Consensus size: 65
687171 TTATTTGGTT
**
687181 AAATAAATTTCAGTTCGATT-ACTGGTTACAGAAAAAAATCGGT-TAATTCGATTCGGTTAATAA
1 AAATAAATTTCAGTTCGATTAAC-GGTTA-AG-AAAAAAT-AATAT-ATTCGATTCGGTTAATAA
*
687244 TTTTC
61 TTTTA
** **
687249 AAATAAATTTTGGTTCGATTAACGGTTAAGAAAAAATAATATATTTTATTCGGTTAATAATTTTA
1 AAATAAATTTCAGTTCGATTAACGGTTAAGAAAAAATAATATATTCGATTCGGTTAATAATTTTA
*
687314 AAATAAATTT-AGATTCTATTAACGGT
1 AAATAAATTTCAG-TTCGATTAACGGT
687340 CAAATAATTT
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
64 1 0.01
65 43 0.54
66 8 0.10
67 2 0.03
68 23 0.29
69 2 0.03
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (65 bp):
AAATAAATTTCAGTTCGATTAACGGTTAAGAAAAAATAATATATTCGATTCGGTTAATAATTTTA
Found at i:687414 original size:94 final size:92
Alignment explanation
Indices: 687247--687433 Score: 243
Period size: 94 Copynumber: 2.0 Consensus size: 92
687237 TTAATAATTT
*
687247 TCAAATAAATTTTGGTTCGATTAACGGTTAAGAAAAAATAATATATTTTATTCGGTTAATAATTT
1 TCAAATAAATTTTGGTTCGATTAACGGTTAAGAAAAAATAATATATTTGATTCGGTTAATAATTT
*
687312 TAAAATAAATTTAGATTCTATTAACGG
66 TAAAATAAATTTAGATTCGATTAACGG
* ** *
687339 TCAAAT-AATTTTGGTTCGATTAATGGTTAAAGAAAAAAATCGGT-TGATTTGGTTCGGTTAATA
1 TCAAATAAATTTTGGTTCGATTAACGGTT-AAG-AAAAAAT-AATAT-ATTTGATTCGGTTAATA
* * *
687402 ATTTTCAAATAAATTTCGGTTCGATTAACGG
62 ATTTTAAAATAAATTTAGATTCGATTAACGG
687433 T
1 T
687434 TAAAGAAAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
91 21 0.26
92 9 0.11
93 8 0.10
94 44 0.54
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (92 bp):
TCAAATAAATTTTGGTTCGATTAACGGTTAAGAAAAAATAATATATTTGATTCGGTTAATAATTT
TAAAATAAATTTAGATTCGATTAACGG
Found at i:687495 original size:149 final size:153
Alignment explanation
Indices: 687193--687535 Score: 480
Period size: 159 Copynumber: 2.2 Consensus size: 153
687183 ATAAATTTCA
* *
687193 GTTCGATTACTGGTTACAGAAAAAAATCGGTTAATTCGATTCGGTTAATAATTTTCAAATAAATT
1 GTTCGATTAATGGTTAAAGAAAAAAATCGGTTAATTCGATTCGGTTAATAATTTTCAAATAAATT
*
687258 TTGGTTCGATTAACGGTTAAGAAAAAATAATATATTTTATTCGGTTAATAATTTTAAAATAAATT
66 TCGGTTCGATTAACGGTTAAGAAAAAATAATATATTTTATTCGGTT-ATAA--TT-AAAT--ATT
* * *
687323 TAGATTCTATTAACGGTCAAATAATTTTG
125 TAGATGCGATTAACAGTCAAATAATTTTG
* * *
687352 GTTCGATTAATGGTTAAAGAAAAAAATCGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATT
1 GTTCGATTAATGGTTAAAGAAAAAAATCGGTTAATTCGATTCGGTTAATAATTTTCAAATAAATT
* * *
687417 TCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTCGG-T-TAA-T-AAT-TTTGGGT
66 TCGGTTCGATTAACGGTT-AAGAAAAAATAATATATTTTATTCGGTTATAATTAAATATTTAGAT
687477 GCGATTAACAGTCAAATAATTTTG
130 GCGATTAACAGTCAAATAATTTTG
687501 GTTCGATTAATGGTTAAAGAAAAAAATCGGTTAAT
1 GTTCGATTAATGGTTAAAGAAAAAAATCGGTTAAT
687536 GATTTTCAAA
Statistics
Matches: 170, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
149 60 0.35
152 3 0.02
154 1 0.01
157 3 0.02
159 78 0.46
160 25 0.15
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (153 bp):
GTTCGATTAATGGTTAAAGAAAAAAATCGGTTAATTCGATTCGGTTAATAATTTTCAAATAAATT
TCGGTTCGATTAACGGTTAAGAAAAAATAATATATTTTATTCGGTTATAATTAAATATTTAGATG
CGATTAACAGTCAAATAATTTTG
Found at i:687589 original size:80 final size:77
Alignment explanation
Indices: 687464--687612 Score: 199
Period size: 80 Copynumber: 1.9 Consensus size: 77
687454 TTATTCGGTT
* * * * *
687464 AATAATTTTGGGTGCGATTAACAGTCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAATC
1 AATAAATTTCGGTGCGAATAACAGTCAAATAATTTCGGCTCGATTAAT-GTT-AA-AAAAAAATC
687529 GGTTAATGATTTTCA
63 GGTTAATGATTTTCA
* * *
687544 AATAAATTTCGGTTCGAATAACGGTCAAATAATTTCGGCTCGATTAATGTTAAAAAAAATTCGGT
1 AATAAATTTCGGTGCGAATAACAGTCAAATAATTTCGGCTCGATTAATGTTAAAAAAAAATCGGT
687609 TAAT
66 TAAT
687613 TTGGTTCGGT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
77 15 0.25
78 2 0.03
79 3 0.05
80 41 0.67
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.35
Consensus pattern (77 bp):
AATAAATTTCGGTGCGAATAACAGTCAAATAATTTCGGCTCGATTAATGTTAAAAAAAAATCGGT
TAATGATTTTCA
Found at i:687628 original size:80 final size:78
Alignment explanation
Indices: 687406--687722 Score: 214
Period size: 91 Copynumber: 3.8 Consensus size: 78
687396 TTAATAATTT
* *** * * *
687406 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAAATAATTTATTTTATTCGGTTAATAATT
1 TCAAAT-AATTTCGGTTCGATTAA-TGTT-AA-AAAAAATCGGTTAATTTGTTCGGTTAATAAAT
* * * *
687471 TTGGGTGCGATTAACAG
62 TTCGGTTCGAATAACGG
* *
687488 TCAAATAATTTTGGTTCGATTAATGGTTAAAGAAAAAAATCGGTTAATGATT-TTC---AAATAA
1 TCAAATAATTTCGGTTCGATTAAT-GTT--A-AAAAAAATCGGTTAAT--TTGTTCGGTTAATAA
687549 ATTTCGGTTCGAATAACGG
60 ATTTCGGTTCGAATAACGG
*
687568 TCAAATAATTTCGGCTCGATTAATGTTAAAAAAAATTCGGTTAATTTGGTTCGGTTAATAATTTT
1 TCAAATAATTTCGGTTCGATTAATGTTAAAAAAAA-TCGGTTAATTT-GTTCGG---------TT
687633 CAAATAAATTTCGGTTC-AATTAACGG
55 --AATAAATTTCGGTTCGAA-TAACGG
* * *
687659 TTAAATAATTTCAGTTCGATTAATGTT-AAAAAAATCGGTTAATTTCGTTCGGTTAATAATTTTC
1 TCAAATAATTTCGGTTCGATTAATGTTAAAAAAAATCGGTTAATTT-GTTCGGTTAATAAATTTC
687723 AAATAAATTA
Statistics
Matches: 192, Mismatches: 20, Indels: 50
0.73 0.08 0.19
Matches are distributed among these distances:
75 2 0.01
76 7 0.04
77 13 0.07
78 9 0.05
79 3 0.02
80 43 0.22
81 19 0.10
82 19 0.10
83 4 0.02
84 2 0.01
89 17 0.09
90 9 0.05
91 45 0.23
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (78 bp):
TCAAATAATTTCGGTTCGATTAATGTTAAAAAAAATCGGTTAATTTGTTCGGTTAATAAATTTCG
GTTCGAATAACGG
Found at i:687634 original size:91 final size:89
Alignment explanation
Indices: 687527--687731 Score: 331
Period size: 91 Copynumber: 2.3 Consensus size: 89
687517 AAGAAAAAAA
* *
687527 TCGGTTAATGATTTTCAAATAAATTTCGGTTCGAA-TAACGGTCAAATAATTTCGGCTCGATTAA
1 TCGGTTAATAATTTTCAAATAAATTTCGGTTC-AATTAACGGTCAAATAATTTCAGCTCGATTAA
*
687591 TGTTAAAAAAAATTCGGTTAATTTGGT
65 TGTT-AAAAAAA-TCGGTTAATTTCGT
* *
687618 TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAACGGTTAAATAATTTCAGTTCGATTAAT
1 TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAACGGTCAAATAATTTCAGCTCGATTAAT
687683 GTTAAAAAAATCGGTTAATTTCGT
66 GTTAAAAAAATCGGTTAATTTCGT
687707 TCGGTTAATAATTTTCAAATAAATT
1 TCGGTTAATAATTTTCAAATAAATT
687732 ATTTTTCCTT
Statistics
Matches: 108, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
89 38 0.35
90 9 0.08
91 61 0.56
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.40
Consensus pattern (89 bp):
TCGGTTAATAATTTTCAAATAAATTTCGGTTCAATTAACGGTCAAATAATTTCAGCTCGATTAAT
GTTAAAAAAATCGGTTAATTTCGT
Found at i:689776 original size:40 final size:40
Alignment explanation
Indices: 689731--689824 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
689721 TTGGTTTACG
* * * * * **
689731 GAATGTAAGATTATCAGTGGAATTGTAAGATTACCGGTGT
1 GAATGTAAGATTACCAATAGAAATGTAAAATTACCAATGT
*
689771 GAATGTAAAATTACCAATAGAAATGTAAAATTACCAATGT
1 GAATGTAAGATTACCAATAGAAATGTAAAATTACCAATGT
*
689811 AAATGTAAGATTAC
1 GAATGTAAGATTAC
689825 AAGAGAATAG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (40 bp):
GAATGTAAGATTACCAATAGAAATGTAAAATTACCAATGT
Found at i:689777 original size:20 final size:19
Alignment explanation
Indices: 689730--689824 Score: 82
Period size: 20 Copynumber: 4.8 Consensus size: 19
689720 TTTGGTTTAC
*
689730 GGAATGTAAGATTATCAGT
1 GGAATGTAAGATTACCAGT
*
689749 GGAATTGTAAGATTACCGGT
1 GGAA-TGTAAGATTACCAGT
* *
689769 GTGAATGTAAAATTACCAAT
1 G-GAATGTAAGATTACCAGT
* * *
689789 AGAAATGTAAAATTACCAAT
1 -GGAATGTAAGATTACCAGT
*
689809 GTAAATGTAAGATTAC
1 G-GAATGTAAGATTAC
689825 AAGAGAATAG
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.08
20 56 0.86
21 4 0.06
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.29
Consensus pattern (19 bp):
GGAATGTAAGATTACCAGT
Found at i:690071 original size:36 final size:37
Alignment explanation
Indices: 689999--690072 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
689989 GTTGGAAAAT
* *
689999 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
* * *
690036 ATTTATCTATTTTTTTTACAAAATTAAAAAT-ATAAA
1 ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
690072 A
1 A
690073 AAGTTTAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTAAAAATCATAAA
Found at i:690384 original size:21 final size:21
Alignment explanation
Indices: 690344--690387 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
690334 CGATAAAAAA
* *
690344 TTATTTAAAAAATTATTATTT
1 TTATTTAAAAAATCAATATTT
*
690365 TTATTTAAAACATCAATATTT
1 TTATTTAAAAAATCAATATTT
690386 TT
1 TT
690388 TAATATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTTAAAAAATCAATATTT
Found at i:693842 original size:31 final size:31
Alignment explanation
Indices: 693805--693883 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
693795 CAGTTACGTC
* * * *
693805 AGAGACCATATTGCAAACGGATTAAATGTTG
1 AGAGACCATATTACAAACAGACTAAATGCTG
693836 AGAGACCATATTACAAACAGACTAAATGCTG
1 AGAGACCATATTACAAACAGACTAAATGCTG
**
693867 AGAGATTATATTACAAA
1 AGAGACCATATTACAAA
693884 TTTTAAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (31 bp):
AGAGACCATATTACAAACAGACTAAATGCTG
Found at i:694788 original size:14 final size:14
Alignment explanation
Indices: 694769--694801 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
694759 TTTAGTATAT
694769 ATTTATGTGCTTTA
1 ATTTATGTGCTTTA
694783 ATTTATGTGCTTTA
1 ATTTATGTGCTTTA
694797 ATTTA
1 ATTTA
694802 AGTTCAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.58
Consensus pattern (14 bp):
ATTTATGTGCTTTA
Found at i:696094 original size:31 final size:31
Alignment explanation
Indices: 696056--696123 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
696046 CTTTTAAAAC
696056 TTGCAATATAATCCCTCAACATTTAGTCCAT
1 TTGCAATATAATCCCTCAACATTTAGTCCAT
** ** **
696087 TTGCAATATGGTTTCTCAACATTTAGTCTGT
1 TTGCAATATAATCCCTCAACATTTAGTCCAT
696118 TTGCAA
1 TTGCAA
696124 CATGGTCCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.40
Consensus pattern (31 bp):
TTGCAATATAATCCCTCAACATTTAGTCCAT
Found at i:696129 original size:31 final size:31
Alignment explanation
Indices: 696070--696129 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
696060 AATATAATCC
*
696070 CTCAACATTTAGTCCATTTGCAATATGGTTT
1 CTCAACATTTAGTCCATTTGCAACATGGTTT
**
696101 CTCAACATTTAGTCTGTTTGCAACATGGT
1 CTCAACATTTAGTCCATTTGCAACATGGT
696130 CCCCGATGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (31 bp):
CTCAACATTTAGTCCATTTGCAACATGGTTT
Found at i:698519 original size:138 final size:136
Alignment explanation
Indices: 698241--698611 Score: 609
Period size: 138 Copynumber: 2.7 Consensus size: 136
698231 TTATTTTTAT
* * * ** * *
698241 AAATAAGACATTTATTTACTT-AGAAATATCAAAAAATGACTTTTAGGTGCTTTAAGACAGTCTA
1 AAATAGGATATTTATTTATTTAAG-AATATCGGAAAAGGACTTCTAGGTGCTTTAAGACAG-CTA
*
698305 TTTCTTAATATTAAAAATAAATAAATATTAATAAAACATTTCTATTAAAATAATTAATATATATA
64 TTTCTTAATATTAAAAATAAATAAATATTAATAAAACATTTCTATAAAAATAATTAATATATATA
698370 AATTATAA
129 AATTATAA
698378 AAATAGGATATTTATTTATTTAAGAATATCGGAAAAGGACTTCTAGGTGCTTTAAGACAGCCTAT
1 AAATAGGATATTTATTTATTTAAGAATATCGGAAAAGGACTTCTAGGTGCTTTAAGACAG-CTAT
698443 TTCTTAATATTAATAAATAAATAAATATTAATAAAACATTTCTATAAAAATAATTAATATATATA
65 TTCTTAATATTAA-AAATAAATAAATATTAATAAAACATTTCTATAAAAATAATTAATATATATA
698508 AATTATAA
129 AATTATAA
698516 AAATAGGATATTTATTTATTTAAGAATATCGGAAAAGGACTTCTAGGTGCTTTAAGACAGCTCAT
1 AAATAGGATATTTATTTATTTAAGAATATCGGAAAAGGACTTCTAGGTGCTTTAAGACAGCT-AT
698581 TTCTTAATATTAAAAAATAAATAAATATTAA
65 TTCTTAATATT-AAAAATAAATAAATATTAA
698612 AATATGATTA
Statistics
Matches: 221, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
137 69 0.31
138 150 0.68
139 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.37
Consensus pattern (136 bp):
AAATAGGATATTTATTTATTTAAGAATATCGGAAAAGGACTTCTAGGTGCTTTAAGACAGCTATT
TCTTAATATTAAAAATAAATAAATATTAATAAAACATTTCTATAAAAATAATTAATATATATAAA
TTATAA
Found at i:698758 original size:21 final size:23
Alignment explanation
Indices: 698722--698778 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
698712 ATATGACTGC
698722 ATAATAA-T-AATA-ATAAA-A-
1 ATAATAATTAAATATATAAACAT
698740 ATAATAATTAAATATATAAACAT
1 ATAATAATTAAATATATAAACAT
698763 ATAA-AATATAAATATA
1 ATAATAAT-TAAATATA
698779 AATATAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
18 7 0.21
19 1 0.03
20 4 0.12
21 5 0.15
22 4 0.12
23 12 0.36
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
ATAATAATTAAATATATAAACAT
Found at i:700240 original size:3 final size:3
Alignment explanation
Indices: 700232--700292 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
700222 ATTTTTTATT
** * *
700232 TAA TAA TAA TAA TAA TATA TTT TATT TAA TTA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* *
700279 TAA AAA AAA TAA TA
1 TAA TAA TAA TAA TA
700293 GAATGAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
3 43 0.90
4 5 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:700255 original size:26 final size:26
Alignment explanation
Indices: 700225--700274 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
700215 GTTTGTAATT
700225 TTTTATTTAATAATAATAATAATATA
1 TTTTATTTAATAATAATAATAATATA
*
700251 TTTTATTTAATTATAATAATAATA
1 TTTTATTTAATAATAATAATAATA
700275 ATAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTATTTAATAATAATAATAATATA
Found at i:705701 original size:16 final size:16
Alignment explanation
Indices: 705666--705703 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
705656 CTTTTTAAAA
705666 ATTTTAAATTATTTTAT
1 ATTTTAAA-TATTTTAT
705683 ATTTTAAA-ATTTATAT
1 ATTTTAAATATTT-TAT
705699 ATTTT
1 ATTTT
705704 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 4 0.20
16 8 0.40
17 8 0.40
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTAAATATTTTAT
Found at i:705706 original size:26 final size:26
Alignment explanation
Indices: 705658--705708 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
705648 GATAATAGCT
705658 TTTTAAAAATTTTAAATTATTTTATA
1 TTTTAAAAATTTTAAATTATTTTATA
* *
705684 TTTT-AAAATTTATATATTTTTTTAT
1 TTTTAAAAATTT-TAAATTATTTTAT
705709 TAAAAATATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTAAAAATTTTAAATTATTTTATA
Found at i:706644 original size:3 final size:3
Alignment explanation
Indices: 706636--706670 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
706626 ATGAAAGGAT
706636 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
706671 TACTATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:710785 original size:2 final size:2
Alignment explanation
Indices: 710742--710767 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
710732 AAAAGACTGA
710742 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
710768 TGTGATCGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:723094 original size:19 final size:20
Alignment explanation
Indices: 723066--723103 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
723056 AAATTTCTAT
*
723066 AATTTGATTTTAAA-AATTG
1 AATTTAATTTTAAATAATTG
723085 AATTTAATTTTAAATAATT
1 AATTTAATTTTAAATAATT
723104 TTATAATACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AATTTAATTTTAAATAATTG
Done.