Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 49 of 75
Found at i:15641445 original size:19 final size:19
Alignment explanation
Indices: 15641421--15641458 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15641411 AGAGCACTAA
15641421 CGTGCTAGTAATCAAAGAG
1 CGTGCTAGTAATCAAAGAG
* *
15641440 CGTGCTATTAATCAGAGAG
1 CGTGCTAGTAATCAAAGAG
15641459 TACTGACGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (19 bp):
CGTGCTAGTAATCAAAGAG
Found at i:15641458 original size:44 final size:44
Alignment explanation
Indices: 15641397--15641484 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
15641387 GAGCACCAAT
* *
15641397 GTGCTAATAATCGGAGAGCACTAACGTGCTAGTAATCAAAGAGC
1 GTGCTAATAATCAGAGAGCACTAACGTGCTAATAATCAAAGAGC
* * * *
15641441 GTGCTATTAATCAGAGAGTACTGACGTGCTAATAATCAGAGAGC
1 GTGCTAATAATCAGAGAGCACTAACGTGCTAATAATCAAAGAGC
15641485 ATTGATGTGC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (44 bp):
GTGCTAATAATCAGAGAGCACTAACGTGCTAATAATCAAAGAGC
Found at i:15650092 original size:22 final size:22
Alignment explanation
Indices: 15650050--15650091 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15650040 CTTTTCAAAA
15650050 CTTGTTTTATTTTGCTATTTTT
1 CTTGTTTTATTTTGCTATTTTT
*
15650072 CTTGTTTTCTTTT-C-ATTTTT
1 CTTGTTTTATTTTGCTATTTTT
15650092 TACAGGTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 12 0.63
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (22 bp):
CTTGTTTTATTTTGCTATTTTT
Found at i:15660000 original size:14 final size:14
Alignment explanation
Indices: 15659977--15660009 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15659967 TTAAAACTGC
15659977 TTTTTAAAATAG-T
1 TTTTTAAAATAGCT
15659990 TTTTCTAAAATAGCT
1 TTTT-TAAAATAGCT
15660005 TTTTT
1 TTTTT
15660010 TTACTTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 9 0.50
15 5 0.28
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (14 bp):
TTTTTAAAATAGCT
Found at i:15669945 original size:91 final size:91
Alignment explanation
Indices: 15669819--15670026 Score: 308
Period size: 91 Copynumber: 2.3 Consensus size: 91
15669809 TTGATTTTAG
* *
15669819 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
* * *
15669884 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
15669911 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
15669976 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* * * *
15670002 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
15670027 GTTATAATTA
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 89 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:15669995 original size:26 final size:28
Alignment explanation
Indices: 15669941--15670001 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
15669931 TATTATCAAG
* *
15669941 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
15669969 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
15669995 AATTATA
1 AATTATA
15670002 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:15670001 original size:44 final size:43
Alignment explanation
Indices: 15669859--15670001 Score: 112
Period size: 44 Copynumber: 3.2 Consensus size: 43
15669849 GAATTTTATG
* * *
15669859 AAATTATATATCACTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
15669903 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
15669950 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
15669994 AAATTATA
1 AAATTATA
15670002 CAAATTCATA
Statistics
Matches: 75, Mismatches: 13, Indels: 22
0.68 0.12 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.15
47 12 0.16
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:15672635 original size:77 final size:77
Alignment explanation
Indices: 15672508--15672776 Score: 538
Period size: 77 Copynumber: 3.5 Consensus size: 77
15672498 NNNNNNNNNN
15672508 AATCATCTTTAAATTGAAGTACGAGTGGGGGAAAACAATCAATCAATACCATTTTTACCATAGGA
1 AATCATCTTTAAATTGAAGTACGAGTGGGGGAAAACAATCAATCAATACCATTTTTACCATAGGA
15672573 CTAGGAATTGCT
66 CTAGGAATTGCT
15672585 AATCATCTTTAAATTGAAGTACGAGTGGGGGAAAACAATCAATCAATACCATTTTTACCATAGGA
1 AATCATCTTTAAATTGAAGTACGAGTGGGGGAAAACAATCAATCAATACCATTTTTACCATAGGA
15672650 CTAGGAATTGCT
66 CTAGGAATTGCT
15672662 AATCATCTTTAAATTGAAGTACGAGTGGGGGAAAACAATCAATCAATACCATTTTTACCATAGGA
1 AATCATCTTTAAATTGAAGTACGAGTGGGGGAAAACAATCAATCAATACCATTTTTACCATAGGA
15672727 CTAGGAATTGCT
66 CTAGGAATTGCT
15672739 AATCATCTTTAAATTGAAGTACGAGTGGGGGAAAACAA
1 AATCATCTTTAAATTGAAGTACGAGTGGGGGAAAACAA
15672777 GGAGAAACTT
Statistics
Matches: 192, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 192 1.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (77 bp):
AATCATCTTTAAATTGAAGTACGAGTGGGGGAAAACAATCAATCAATACCATTTTTACCATAGGA
CTAGGAATTGCT
Found at i:15673089 original size:16 final size:17
Alignment explanation
Indices: 15673063--15673095 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
15673053 TAAATTTTCA
15673063 GATATAAGTGAGAAAGT
1 GATATAAGTGAGAAAGT
15673080 GATA-AAGTGAGAAAGT
1 GATATAAGTGAGAAAGT
15673096 AGGGGGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (17 bp):
GATATAAGTGAGAAAGT
Found at i:15675252 original size:45 final size:44
Alignment explanation
Indices: 15675169--15675259 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
15675159 ACCTCTATTC
* *
15675169 CATTCAACCAAACACAAGATTACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTACTATTACACATCTATTCCATTA
*** *
15675213 CATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCCATTA
1 CATTCAACCAAACACAAGA-TTACTATTACACATCTATTCCATTA
15675258 CA
1 CA
15675260 CCTCTATTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 16 0.40
45 24 0.60
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.32
Consensus pattern (44 bp):
CATTCAACCAAACACAAGATTACTATTACACATCTATTCCATTA
Found at i:15675286 original size:16 final size:16
Alignment explanation
Indices: 15675238--15675273 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
15675228 TTGATTTGCT
*
15675238 ATTACACATCTATTCC
1 ATTACACCTCTATTCC
15675254 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
15675270 ATTA
1 ATTA
15675274 TGCCTCTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:15681745 original size:21 final size:21
Alignment explanation
Indices: 15681719--15681773 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
15681709 TATTGTTAAG
*
15681719 AAGGAAGTTGCTGCTGCAGAA
1 AAGGAAGTTGCTGCTGAAGAA
* *
15681740 GAGGAAGTTGTTGCTGAAGAA
1 AAGGAAGTTGCTGCTGAAGAA
*
15681761 AAAGAAGTTGCTG
1 AAGGAAGTTGCTG
15681774 AAGATGAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.22
Consensus pattern (21 bp):
AAGGAAGTTGCTGCTGAAGAA
Found at i:15682210 original size:17 final size:17
Alignment explanation
Indices: 15682188--15682220 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15682178 ATAAGTACAC
*
15682188 ATTGTCATTCCATTTTT
1 ATTGTCATTACATTTTT
15682205 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
15682221 CATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:15686830 original size:3 final size:3
Alignment explanation
Indices: 15686822--15686853 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15686812 TTTACTGCCT
15686822 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15686854 CTTTTCTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15687756 original size:3 final size:3
Alignment explanation
Indices: 15687746--15687776 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
15687736 TTCTTTTTTT
15687746 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
15687777 TTGGACCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15694865 original size:51 final size:50
Alignment explanation
Indices: 15694782--15695033 Score: 216
Period size: 51 Copynumber: 5.2 Consensus size: 50
15694772 ACTTCTGATC
* *
15694782 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTG-CAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
15694833 AGTGGCAAGTGATAAGTGATAGCTTCAACTACACTTATCTGATCAGTG---
1 AGT-GCAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
15694881 A---CAAGTGATAAGTGGTAGC--CA-CTTA-TCTGATCAGTGA-CAAGTGAC-
1 AGTGCAAGTGATAAGTGGTAGCTTCAGC-TACACTTATC--TGATC-AGTGACA
*
15694926 -----AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGCAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
15694971 AGTGGCAAGTGATAAGTGGTAGCTT-AGCTACACTTATTTGATCAGGGACA
1 AGT-GCAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
*
15695021 AGTGATAAGTGAT
1 AGTG-CAAGTGAT
15695034 CATACGTAAG
Statistics
Matches: 168, Mismatches: 13, Indels: 41
0.76 0.06 0.18
Matches are distributed among these distances:
41 6 0.04
42 5 0.03
43 24 0.14
44 26 0.15
45 4 0.02
46 6 0.04
48 1 0.01
49 1 0.01
50 33 0.20
51 61 0.36
52 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (50 bp):
AGTGCAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:15694959 original size:87 final size:91
Alignment explanation
Indices: 15694775--15694974 Score: 300
Period size: 87 Copynumber: 2.2 Consensus size: 91
15694765 TTTGAATACT
*
15694775 TCTGATCAGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCA
1 TCTGATCAGTGACAAGTGATAAGTAG-AG--TTAGC-ACACTTATCTGATCAGTGACAAGTGACA
15694840 AGTGATAAGTGATAGCTTCAACTACACTTA
62 AGTGATAAGTGATAGCTTCAACTACACTTA
15694870 TCTGATCAGTGACAAGTGATAAGT-G-G-TAGC-CACTTATCTGATCAGTGACAAGTGACAAGTG
1 TCTGATCAGTGACAAGTGATAAGTAGAGTTAGCACACTTATCTGATCAGTGACAAGTGACAAGTG
* * *
15694931 ATAAGTGGTAGCTTTAGCTACACTTA
66 ATAAGTGATAGCTTCAACTACACTTA
15694957 TCTGATCAGTGACAAGTG
1 TCTGATCAGTGACAAGTG
15694975 GCAAGTGATA
Statistics
Matches: 101, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
87 71 0.70
89 4 0.04
92 1 0.01
94 1 0.01
95 24 0.24
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.29
Consensus pattern (91 bp):
TCTGATCAGTGACAAGTGATAAGTAGAGTTAGCACACTTATCTGATCAGTGACAAGTGACAAGTG
ATAAGTGATAGCTTCAACTACACTTA
Found at i:15695021 original size:50 final size:51
Alignment explanation
Indices: 15694900--15695033 Score: 225
Period size: 51 Copynumber: 2.6 Consensus size: 51
15694890 AAGTGGTAGC
15694900 CACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTA
1 CACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTA
*
15694951 CACTTATCTGATCAGTGACAAGTGGCAAGTGATAAGTGGTAGC-TTAGCTA
1 CACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTA
* * *
15695001 CACTTATTTGATCAGGGACAAGTGATAAGTGAT
1 CACTTATCTGATCAGTGACAAGTGACAAGTGAT
15695034 CATACGTAAG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 36 0.46
51 42 0.54
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (51 bp):
CACTTATCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTA
Found at i:15695068 original size:138 final size:137
Alignment explanation
Indices: 15694782--15695033 Score: 407
Period size: 138 Copynumber: 1.8 Consensus size: 137
15694772 ACTTCTGATC
15694782 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
1 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
* * * * *
15694847 AGTGATAGCTTCAACTACACTTATCTGATCAGTGACAAGTGATAAGTGGTAGCCACTTATCTGAT
66 AGTGATAGCTTCAACTACACTTATCTGATCAGGGACAAGTGATAAGTGATA-CCACTAAACTAAT
15694912 CAGTGACA
130 CAGTGACA
*
15694920 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
1 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
* * *
15694985 AGTGGTAGCTT-AGCTACACTTATTTGATCAGGGACAAGTGATAAGTGAT
66 AGTGATAGCTTCAACTACACTTATCTGATCAGGGACAAGTGATAAGTGAT
15695034 CATACGTAAG
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
137 34 0.31
138 74 0.69
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (137 bp):
AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
AGTGATAGCTTCAACTACACTTATCTGATCAGGGACAAGTGATAAGTGATACCACTAAACTAATC
AGTGACA
Found at i:15699629 original size:22 final size:23
Alignment explanation
Indices: 15699543--15699644 Score: 99
Period size: 23 Copynumber: 4.6 Consensus size: 23
15699533 TAATAATTGC
15699543 AAAT-TAAATTAT-ATTATTTTT
1 AAATGTAAATTATAATTATTTTT
** *
15699564 ATATATGT-AATTACCA-TACTTTT
1 A-A-ATGTAAATTATAATTATTTTT
*
15699587 ATAT-TAAATTATAATTATTTTT
1 AAATGTAAATTATAATTATTTTT
15699609 AAATGTAAATTATAATT-TTTTT
1 AAATGTAAATTATAATTATTTTT
15699631 AAATGTATAATTAT
1 AAATGTA-AATTAT
15699645 CACTTTTATT
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.02
21 9 0.14
22 22 0.33
23 32 0.48
24 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (23 bp):
AAATGTAAATTATAATTATTTTT
Found at i:15699651 original size:22 final size:22
Alignment explanation
Indices: 15699583--15699644 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
15699573 ATTACCATAC
* *
15699583 TTTTATAT-TAAATTATAATTAT
1 TTTTAAATGTAAATTATAA-TCT
*
15699605 TTTTAAATGTAAATTATAATTT
1 TTTTAAATGTAAATTATAATCT
15699627 TTTTAAATGTATAATTAT
1 TTTTAAATGTA-AATTAT
15699645 CACTTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (22 bp):
TTTTAAATGTAAATTATAATCT
Found at i:15699651 original size:23 final size:22
Alignment explanation
Indices: 15699583--15699651 Score: 77
Period size: 23 Copynumber: 3.1 Consensus size: 22
15699573 ATTACCATAC
* *
15699583 TTTTATAT-TAAATTATAATTAT
1 TTTTAAATGTAAATTATAACT-T
*
15699605 TTTTAAATGTAAATTATAATTT
1 TTTTAAATGTAAATTATAACTT
*
15699627 TTTTAAATGTATAATTATCACTT
1 TTTTAAATGTA-AATTATAACTT
15699650 TT
1 TT
15699652 ATTTTACGTG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
22 19 0.45
23 23 0.55
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (22 bp):
TTTTAAATGTAAATTATAACTT
Found at i:15700153 original size:2 final size:2
Alignment explanation
Indices: 15700146--15700186 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
15700136 CAAACTCGTG
*
15700146 TA TA TA TA TA TA TA TA TA TA TA -A TA TA GA T- TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15700185 TA
1 TA
15700187 GATAAAATCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:15700165 original size:14 final size:14
Alignment explanation
Indices: 15700146--15700186 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
15700136 CAAACTCGTG
15700146 TATATATATATATA
1 TATATATATATATA
15700160 TATATATA-ATATA
1 TATATATATATATA
*
15700173 GAT-TATATAT-TA
1 TATATATATATATA
15700185 TA
1 TA
15700187 GATAAAATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 7 0.29
13 9 0.38
14 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
TATATATATATATA
Found at i:15700187 original size:14 final size:15
Alignment explanation
Indices: 15700146--15700190 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
15700136 CAAACTCGTG
*
15700146 TATATATA-TATATA
1 TATATATATTATAGA
*
15700160 TATATATAATATAGA
1 TATATATATTATAGA
15700175 T-TATATATTATAGA
1 TATATATATTATAGA
15700189 TA
1 TA
15700191 AAATCACTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 21 0.78
15 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (15 bp):
TATATATATTATAGA
Found at i:15700454 original size:16 final size:16
Alignment explanation
Indices: 15700433--15700475 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
15700423 GGTTGGGGTG
* *
15700433 AATGGAATAGGGCTGT
1 AATGGAATAGAGCTGC
*
15700449 AATGGAATATAGCTGC
1 AATGGAATAGAGCTGC
15700465 AATGGAATAGA
1 AATGGAATAGA
15700476 ACTGTAATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (16 bp):
AATGGAATAGAGCTGC
Found at i:15706299 original size:2 final size:2
Alignment explanation
Indices: 15706292--15706316 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15706282 ACGAAAAAGA
15706292 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 A
15706317 AATTAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15708805 original size:17 final size:16
Alignment explanation
Indices: 15708777--15708887 Score: 69
Period size: 17 Copynumber: 6.3 Consensus size: 16
15708767 GACATGTGAC
15708777 AAAAAAAGATAAAAAAT
1 AAAAAAA-ATAAAAAAT
*
15708794 AAAAATAAATAAAAGTTAT
1 AAAAA-AAATAAAA--AAT
* * *
15708813 AAAAAATATTAAATATT
1 AAAAAA-AATAAAAAAT
15708830 AATAAAAAATATAAAAAT
1 AA-AAAAAATA-AAAAAT
*
15708848 ATAAAAAATAGAAAAAT
1 AAAAAAAATA-AAAAAT
**
15708865 AGAAAAGTATAAAAAAT
1 A-AAAAAAATAAAAAAT
15708882 AGAAAA
1 A-AAAA
15708888 TATTATAAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
17 44 0.59
18 18 0.24
19 12 0.16
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAAAAAATAAAAAAT
Found at i:15708819 original size:20 final size:18
Alignment explanation
Indices: 15708794--15708857 Score: 67
Period size: 20 Copynumber: 3.4 Consensus size: 18
15708784 GATAAAAAAT
15708794 AAAAATAAATAAAAGTTATA
1 AAAAAT-AATAAAA-TTATA
*
15708814 AAAAATATTAAATATTAATA
1 AAAAATAATAAA-ATT-ATA
*
15708834 AAAAAT-ATAAAAATATA
1 AAAAATAATAAAATTATA
15708851 AAAAATA
1 AAAAATA
15708858 GAAAAATAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 9 0.24
18 2 0.05
19 11 0.29
20 16 0.42
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (18 bp):
AAAAATAATAAAATTATA
Found at i:15708835 original size:29 final size:26
Alignment explanation
Indices: 15708778--15708879 Score: 82
Period size: 26 Copynumber: 3.8 Consensus size: 26
15708768 ACATGTGACA
*
15708778 AAAAAAGATAAAAAATAAAAATAAAT
1 AAAAAATATAAAAAATAAAAATAAAT
** *
15708804 AAAAGTTATAAAAAATATTAAATATTAAT
1 AAAAAATATAAAAAATA--AAA-ATAAAT
*
15708833 AAAAAATAT-AAAAATATAAA-AAAT
1 AAAAAATATAAAAAATAAAAATAAAT
* *
15708857 AGAAAAATAGAAAAGTATAAAAA
1 A-AAAAATATAAAA-AATAAAAA
15708880 ATAGAAAATA
Statistics
Matches: 59, Mismatches: 11, Indels: 11
0.73 0.14 0.14
Matches are distributed among these distances:
24 4 0.07
25 8 0.14
26 19 0.32
27 6 0.10
28 10 0.17
29 12 0.20
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.22
Consensus pattern (26 bp):
AAAAAATATAAAAAATAAAAATAAAT
Found at i:15708870 original size:25 final size:25
Alignment explanation
Indices: 15708830--15708887 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
15708820 ATTAAATATT
*
15708830 AATA-AAAAATATAAAAATATAAAA
1 AATAGAAAAATAGAAAAATATAAAA
*
15708854 AATAGAAAAATAGAAAAGTATAAAA
1 AATAGAAAAATAGAAAAATATAAAA
15708879 AATAGAAAA
1 AATAGAAAA
15708888 TATTATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (25 bp):
AATAGAAAAATAGAAAAATATAAAA
Found at i:15708880 original size:10 final size:9
Alignment explanation
Indices: 15708778--15708897 Score: 79
Period size: 9 Copynumber: 13.4 Consensus size: 9
15708768 ACATGTGACA
*
15708778 AAAAAAGAT
1 AAAAAATAT
15708787 AAAAAATA-
1 AAAAAATAT
15708795 AAAATAA-AT
1 AAAA-AATAT
**
15708804 AAAAGTTAT
1 AAAAAATAT
15708813 AAAAAATATT
1 AAAAAATA-T
* *
15708823 AAATATTAAT
1 AAAAAAT-AT
15708833 AAAAAATAT
1 AAAAAATAT
15708842 -AAAAATAT
1 AAAAAATAT
15708850 AAAAAATA-
1 AAAAAATAT
*
15708858 GAAAAATA-
1 AAAAAATAT
* *
15708866 GAAAAGTAT
1 AAAAAATAT
*
15708875 AAAAAATAG
1 AAAAAATAT
*
15708884 AAAATATTAT
1 AAAA-AATAT
15708894 AAAA
1 AAAA
15708898 TTTGAAAAAA
Statistics
Matches: 87, Mismatches: 16, Indels: 15
0.74 0.14 0.13
Matches are distributed among these distances:
8 27 0.31
9 40 0.46
10 19 0.22
11 1 0.01
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:15709094 original size:9 final size:9
Alignment explanation
Indices: 15709080--15709158 Score: 52
Period size: 9 Copynumber: 8.3 Consensus size: 9
15709070 TTTTGATGCA
15709080 TTTTATAAT
1 TTTTATAAT
*
15709089 TTTTATAAAA
1 TTTTAT-AAT
*
15709099 TTTTACAATT
1 TTTTATAA-T
**
15709109 TTTTATTGT
1 TTTTATAAT
15709118 TTTTATAATTAT
1 TTTTAT-A--AT
15709130 TTTTATAAT
1 TTTTATAAT
*
15709139 TTATA-AAT
1 TTTTATAAT
*
15709147 TATTATAAT
1 TTTTATAAT
15709156 TTT
1 TTT
15709159 ATTAAAAATT
Statistics
Matches: 52, Mismatches: 12, Indels: 12
0.68 0.16 0.16
Matches are distributed among these distances:
8 6 0.12
9 26 0.50
10 12 0.23
11 1 0.02
12 7 0.13
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:15709554 original size:28 final size:28
Alignment explanation
Indices: 15709514--15709569 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
15709504 ATTTTTTTCC
15709514 TTGTAGGTCTGAATTTAGTTATCTCCAA
1 TTGTAGGTCTGAATTTAGTTATCTCCAA
15709542 TTGTAGGTCTGAATTTAGTTATCTCCAA
1 TTGTAGGTCTGAATTTAGTTATCTCCAA
15709570 ATTTGGACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (28 bp):
TTGTAGGTCTGAATTTAGTTATCTCCAA
Found at i:15711670 original size:8 final size:8
Alignment explanation
Indices: 15711657--15711683 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15711647 TGAAAAAAGA
15711657 TTTAAAAT
1 TTTAAAAT
15711665 TTTAAAAT
1 TTTAAAAT
15711673 TTTAAAAT
1 TTTAAAAT
15711681 TTT
1 TTT
15711684 TTAAGACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTAAAAT
Found at i:15712052 original size:148 final size:149
Alignment explanation
Indices: 15711876--15712174 Score: 591
Period size: 148 Copynumber: 2.0 Consensus size: 149
15711866 TATAATATAT
15711876 AAAAAAGTATTTTAAAATAAAACATATATACTACTAAAGTTTTATATTATTTATAATATTAAAAC
1 AAAAAAGTATTTTAAAATAAAACATATATACTACTAAAGTTTTATATTATTTATAATATTAAAAC
15711941 AATCATATATATACATATATAATATGTATGTATGTAATGGAAAAGAAAGAAAGAAATGTAATTGA
66 AATCATATATATACATATATAATATGTATGTATGTAATGGAAAAGAAAGAAAGAAATGTAATTGA
15712006 AGAGAGGTGTCTTTGTGTA
131 AGAGAGGTGTCTTTGTGTA
15712025 AAAAAAGTA-TTTAAAATAAAACATATATACTACTAAAGTTTTATATTATTTATAATATTAAAAC
1 AAAAAAGTATTTTAAAATAAAACATATATACTACTAAAGTTTTATATTATTTATAATATTAAAAC
15712089 AATCATATATATACATATATAATATGTATGTATGTAATGGAAAAGAAAGAAAGAAATGTAATTGA
66 AATCATATATATACATATATAATATGTATGTATGTAATGGAAAAGAAAGAAAGAAATGTAATTGA
15712154 AGAGAGGTGTCTTTGTGTA
131 AGAGAGGTGTCTTTGTGTA
15712173 AA
1 AA
15712175 TAGACATAAC
Statistics
Matches: 150, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
148 141 0.94
149 9 0.06
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.34
Consensus pattern (149 bp):
AAAAAAGTATTTTAAAATAAAACATATATACTACTAAAGTTTTATATTATTTATAATATTAAAAC
AATCATATATATACATATATAATATGTATGTATGTAATGGAAAAGAAAGAAAGAAATGTAATTGA
AGAGAGGTGTCTTTGTGTA
Found at i:15712775 original size:29 final size:30
Alignment explanation
Indices: 15712719--15712797 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
15712709 ATCTCAAAAT
* * *
15712719 TATACATGAATTTTAGTTTAATGTGCAATTG
1 TATACATGAACTTTAATTTAA-GTGCAATTA
*
15712750 TATACATGAACTTTAATTTGA-TGCAATTA
1 TATACATGAACTTTAATTTAAGTGCAATTA
* *
15712779 TACACATTAAACTTTAATT
1 TATACA-TGAACTTTAATT
15712798 ATGGTTCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
29 12 0.29
30 11 0.27
31 18 0.44
ACGTcount: A:0.37, C:0.10, G:0.10, T:0.43
Consensus pattern (30 bp):
TATACATGAACTTTAATTTAAGTGCAATTA
Found at i:15725735 original size:18 final size:17
Alignment explanation
Indices: 15725702--15725739 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
15725692 TTTTATAAAT
15725702 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
15725720 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
15725737 TGT
1 TGT
15725740 AGAAGGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:15725992 original size:23 final size:23
Alignment explanation
Indices: 15725965--15726086 Score: 192
Period size: 23 Copynumber: 5.3 Consensus size: 23
15725955 AGTGTTATTG
15725965 ATCAGTGGTAGCTTCGGCTACA-
1 ATCAGTGGTAGCTTCGGCTACAT
*
15725987 ATTCAGTGGTAGCTACGGCTACAT
1 A-TCAGTGGTAGCTTCGGCTACAT
*
15726011 ATCAGTGGTCGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
15726034 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15726057 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15726080 ATCAGTG
1 ATCAGTG
15726087 TGGCACTTAT
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
22 1 0.01
23 88 0.98
24 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:15726338 original size:23 final size:25
Alignment explanation
Indices: 15726292--15726339 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
15726282 GAAATTGCTA
*
15726292 AGAAATGTTTAATTAGTTATATGAG
1 AGAAATGTTTAATTAGTTAAATGAG
15726317 AGAAATG-TTAATT-GTTAAATGAG
1 AGAAATGTTTAATTAGTTAAATGAG
15726340 TATTTATAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 6 0.27
25 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.21, T:0.38
Consensus pattern (25 bp):
AGAAATGTTTAATTAGTTAAATGAG
Found at i:15738575 original size:7 final size:7
Alignment explanation
Indices: 15738533--15738571 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
15738523 AAATTATCCA
15738533 TAAATTT
1 TAAATTT
15738540 TAAATTT
1 TAAATTT
15738547 TAAATTT
1 TAAATTT
15738554 TAAATTT
1 TAAATTT
*
15738561 TAAACTT
1 TAAATTT
15738568 TAAA
1 TAAA
15738572 CTTTCTCTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (7 bp):
TAAATTT
Found at i:15741773 original size:18 final size:18
Alignment explanation
Indices: 15741746--15741787 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
15741736 AAGTTCTCAT
*
15741746 GTAACTGAAACCTTTAAC
1 GTAACCGAAACCTTTAAC
15741764 GTAACCGAAACCTTTAAC
1 GTAACCGAAACCTTTAAC
*
15741782 ATAACC
1 GTAACC
15741788 AACTTGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.26, G:0.10, T:0.24
Consensus pattern (18 bp):
GTAACCGAAACCTTTAAC
Found at i:15743220 original size:12 final size:12
Alignment explanation
Indices: 15743203--15743237 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
15743193 GTTGTGTCAT
*
15743203 CAAACTGTGTGC
1 CAAACTATGTGC
15743215 CAAACTATGTGC
1 CAAACTATGTGC
15743227 CAAACTATGTG
1 CAAACTATGTG
15743238 TGATTCGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (12 bp):
CAAACTATGTGC
Found at i:15750656 original size:5 final size:5
Alignment explanation
Indices: 15750646--15750670 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15750636 GCCTAGGGTG
15750646 TGAAT TGAAT TGAAT TGAAT TGAAT
1 TGAAT TGAAT TGAAT TGAAT TGAAT
15750671 AGGAATTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TGAAT
Found at i:15751178 original size:26 final size:26
Alignment explanation
Indices: 15751149--15751221 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
15751139 CCCGTTATAT
15751149 GGCTCTTTGTGAGCTTCCTGATTAAA
1 GGCTCTTTGTGAGCTTCCTGATTAAA
*
15751175 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTTGTGAGCTTCCTGATTAAA
* * *
15751201 GGTTCTCTG-GAGTTTCCTGAT
1 GGCTCTTTGTGAGCTTCCTGAT
15751222 ATGGCCAGCT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
25 11 0.26
26 32 0.74
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.41
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTGATTAAA
Found at i:15754355 original size:17 final size:18
Alignment explanation
Indices: 15754333--15754366 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
15754323 TTTGGGCCGA
15754333 GTGGG-CCACACGGGCAT
1 GTGGGCCCACACGGGCAT
15754350 GTGGGCCCACACGGGCA
1 GTGGGCCCACACGGGCA
15754367 GACCACATGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.18, C:0.32, G:0.41, T:0.09
Consensus pattern (18 bp):
GTGGGCCCACACGGGCAT
Found at i:15758593 original size:27 final size:27
Alignment explanation
Indices: 15758563--15758982 Score: 352
Period size: 27 Copynumber: 15.5 Consensus size: 27
15758553 AGGCCTATTT
* *
15758563 ATAGGATAAAATGACCAAAATACCTCC
1 ATAGGGTAAAATGACCGAAATACCTCC
* *
15758590 ATAGGGTAAAGTGACCGAAACA-CTCCC
1 ATAGGGTAAAATGACCGAAATACCT-CC
* * *
15758617 ATAAGATAAAATGACTGAAATA-CTCTC
1 ATAGGGTAAAATGACCGAAATACCTC-C
* *
15758644 ATAAGGTAAAATGACCAAAATACCTCC
1 ATAGGGTAAAATGACCGAAATACCTCC
* * * *
15758671 ACAGGATAGAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCTCC
*
15758698 ATAGGGTAAAATGATCGAAATACC-CTC
1 ATAGGGTAAAATGACCGAAATACCTC-C
*
15758725 ATAGGGTAAAATGATCGAAATACC-CTC
1 ATAGGGTAAAATGACCGAAATACCTC-C
*
15758752 ATAGGGTAAAATGATCGAAATACC-CTC
1 ATAGGGTAAAATGACCGAAATACCTC-C
* * *
15758779 ATAGGGTAGAATAACC-AGAATACCCCCC
1 ATAGGGTAAAATGACCGA-AATA-CCTCC
* * * ** *
15758807 ATTGAGTAAAATAACTAAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCTCC
* * *
15758834 ATAGGGTAAAATGATCGAAATATCTCT
1 ATAGGGTAAAATGACCGAAATACCTCC
*
15758861 ATAGGGTAAAATGA-CTAAGATACC-CTC
1 ATAGGGTAAAATGACCGAA-ATACCTC-C
* * *
15758888 ATAGGATGAAATGACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCTCC
* * * *
15758915 ATTGGGTAGAATAACCGAAATACCCCC
1 ATAGGGTAAAATGACCGAAATACCTCC
* * *
15758942 ATTGGGTAAAATGACTGAGATACCTCC
1 ATAGGGTAAAATGACCGAAATACCTCC
15758969 ATAGGGTAAAATGA
1 ATAGGGTAAAATGA
15758983 TTGTTATACC
Statistics
Matches: 326, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
26 9 0.03
27 289 0.89
28 26 0.08
29 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
ATAGGGTAAAATGACCGAAATACCTCC
Found at i:15758993 original size:81 final size:81
Alignment explanation
Indices: 15758563--15758982 Score: 414
Period size: 81 Copynumber: 5.2 Consensus size: 81
15758553 AGGCCTATTT
* * * * * * * *
15758563 ATAGGATAAAATGACCAAAATACCTCCATAGGGTAAAGTGACCGAAACACTCCCATAAGATAAAA
1 ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
* *
15758628 TGACTGAAATACTCTC
66 TGACTGAGATACCCTC
* * * * * *
15758644 ATAAGGTAAAATGACCAAAATACCTCCACAGGATAGAATGACCGAAATACCCCCATAGGGTAAAA
1 ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
*
15758709 TGA-TCGAAATACCCTC
66 TGACT-GAGATACCCTC
* * * * *
15758725 ATAGGGTAAAATGATCGAAATACCCTCATAGGGTAAAATGATCGAAATACCCTCATAGGGTAGAA
1 ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
* * *
15758790 TAAC-CAGAATACCCCCC
66 TGACTGAG-ATA-CCCTC
* * * ** * * * *
15758807 ATTGAGTAAAATAACTAAAATACCCCCATAGGGTAAAATGATCGAAATATCTCTATAGGGTAAAA
1 ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
*
15758872 TGACTAAGATACCCTC
66 TGACTGAGATACCCTC
* * * * * *
15758888 ATAGGATGAAATGACCGAAATACCCCCATTGGGTAGAATAACCGAAATACCCCCATTGGGTAAAA
1 ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
15758953 TGACTGAGATA-CCTCC
66 TGACTGAGATACCCT-C
15758969 ATAGGGTAAAATGA
1 ATAGGGTAAAATGA
15758983 TTGTTATACC
Statistics
Matches: 274, Mismatches: 59, Indels: 12
0.79 0.17 0.03
Matches are distributed among these distances:
80 5 0.02
81 204 0.74
82 63 0.23
83 2 0.01
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (81 bp):
ATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAA
TGACTGAGATACCCTC
Found at i:15759421 original size:28 final size:28
Alignment explanation
Indices: 15759376--15759467 Score: 134
Period size: 28 Copynumber: 3.3 Consensus size: 28
15759366 TGCACTGCAT
15759376 TGTTACTGTATTGGGCTAAGGCCCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
*
15759404 TGATT-CTGTATTGGGCTAAGTCCCACAC
1 TG-TTACTGTATTGGGCTAAGGCCCACAC
* *
15759432 TGTTATTGTATTGGGCTAAAGCCCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
15759460 TG-TACTGT
1 TGTTACTGT
15759468 CGCTGAATAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.12
28 48 0.84
29 2 0.04
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.33
Consensus pattern (28 bp):
TGTTACTGTATTGGGCTAAGGCCCACAC
Found at i:15762364 original size:27 final size:27
Alignment explanation
Indices: 15761966--15762352 Score: 461
Period size: 27 Copynumber: 14.3 Consensus size: 27
15761956 ACTCCATCGA
* *
15761966 GTAAAATGACCAAAATACCCTCATAGG
1 GTAAAATGACCGAAATACCCCCATAGG
* ** * *
15761993 GTAGAATGATTGAAATACCCTCGTAGG
1 GTAAAATGACCGAAATACCCCCATAGG
* *
15762020 GTAAAATGACCGAAATACCCCTATAAG
1 GTAAAATGACCGAAATACCCCCATAGG
* * * * *
15762047 ATAAAATAACAGAAATACCTCTATAGG
1 GTAAAATGACCGAAATACCCCCATAGG
*
15762074 GTAAAATAACCGAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCCCATAGG
**
15762101 GTAAAATGATTGAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCCCATAGG
* * *
15762128 GTGAAATGACTGAAATACCCTCATAGG
1 GTAAAATGACCGAAATACCCCCATAGG
* * **
15762155 GTAGAATGATC-AGAATACCCTTATAGG
1 GTAAAATGACCGA-AATACCCCCATAGG
*
15762182 GTAAAATGACCGGAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCCCATAGG
* *
15762209 GTAAAATGACCGAGATACCCCCATAAG
1 GTAAAATGACCGAAATACCCCCATAGG
*
15762236 GTAAAATGACCGAAATACCCCTATAGG
1 GTAAAATGACCGAAATACCCCCATAGG
* *
15762263 GTAAAATGACCAAAATACCCCAATAGG
1 GTAAAATGACCGAAATACCCCCATAGG
* * *
15762290 GTAGAATGACCAAAATACCCCGATAGG
1 GTAAAATGACCGAAATACCCCCATAGG
15762317 GTAAAATGACCGAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCCCATAGG
15762344 GTAAAATGA
1 GTAAAATGA
15762353 GTGTTATACC
Statistics
Matches: 308, Mismatches: 50, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 307 1.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCCCATAGG
Found at i:15766518 original size:13 final size:13
Alignment explanation
Indices: 15766500--15766524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15766490 AACCATCACA
15766500 TATTCATTTCAAG
1 TATTCATTTCAAG
15766513 TATTCATTTCAA
1 TATTCATTTCAA
15766525 ATGTCTCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.04, T:0.48
Consensus pattern (13 bp):
TATTCATTTCAAG
Found at i:15766535 original size:14 final size:14
Alignment explanation
Indices: 15766503--15766544 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
15766493 CATCACATAT
* *
15766503 TCATTTCAAGTAT-
1 TCATTTCAAATGTC
15766516 TCATTTCAAATGTC
1 TCATTTCAAATGTC
*
15766530 TCATTTCACATGTC
1 TCATTTCAAATGTC
15766544 T
1 T
15766545 AATTCCATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (14 bp):
TCATTTCAAATGTC
Found at i:15785010 original size:16 final size:16
Alignment explanation
Indices: 15784989--15785045 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
15784979 TTTGGTTCGC
*
15784989 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
15785005 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
15785021 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
15785037 TGTAATGGA
1 TGTAATGGA
15785046 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:15801051 original size:7 final size:6
Alignment explanation
Indices: 15801021--15801050 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
15801011 CTATTTTCTA
15801021 AAAATG AAAATG AAAATG AAAATAG AAAAT
1 AAAATG AAAATG AAAATG AAAAT-G AAAAT
15801051 ATTTTCAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.70, C:0.00, G:0.13, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:15801389 original size:13 final size:13
Alignment explanation
Indices: 15801371--15801396 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15801361 GTCATGCAAT
15801371 ACATAATAAAAAA
1 ACATAATAAAAAA
15801384 ACATAATAAAAAA
1 ACATAATAAAAAA
15801397 GTGGCCTTAA
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:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
ACATAATAAAAAA
Found at i:15805843 original size:125 final size:124
Alignment explanation
Indices: 15805621--15805998 Score: 571
Period size: 125 Copynumber: 3.0 Consensus size: 124
15805611 TTAGGGTTTT
* ** * * *
15805621 TAGGTCCTGGAAGAAAT-AATTTCGAGTTGACGTTTCTAATCAAACAGTATAAAATCGCTTCTAG
1 TAGGTCATGGAAGAAATAAATTT--TTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAG
* *
15805685 CAGGATGTTATTTGAGAAGAATTTGTGAAATCGCACCCTCGTGGACTCGCTTTTGCTACAG
64 CAGGATGCTATTTGAGAAGAATTTGTAAAATCGCACCCTCGTGGACTCGCTTTTGCTACAG
15805746 TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
1 TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
15805811 GGATGCTATTCTGAGAAGAATTTGTAAAATCGCACCCTCGTGGACGT-GCTTTTGCTACAG
66 GGATGCTATT-TGAGAAGAATTTGTAAAATCGCACCCTCGTGGAC-TCGCTTTTGCTACAG
* *
15805871 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATACTATAAAATCGCTTCTAGCA
1 TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
* * * *
15805936 GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTAGACGCGTTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGT-AAAATCGCACCCTCGTGGACTCGCTTTTGCTACAG
15805996 TAG
1 TAG
15805999 CATGTTTGGG
Statistics
Matches: 234, Mismatches: 14, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
124 60 0.26
125 168 0.72
126 6 0.03
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (124 bp):
TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCA
GGATGCTATTTGAGAAGAATTTGTAAAATCGCACCCTCGTGGACTCGCTTTTGCTACAG
Found at i:15808524 original size:14 final size:14
Alignment explanation
Indices: 15808505--15808537 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
15808495 TATCGTGTAC
15808505 ACTTGCGAAATAAG
1 ACTTGCGAAATAAG
*
15808519 ACTTGCGAAATAGG
1 ACTTGCGAAATAAG
15808533 ACTTG
1 ACTTG
15808538 TGACAGAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (14 bp):
ACTTGCGAAATAAG
Found at i:15810173 original size:12 final size:12
Alignment explanation
Indices: 15810149--15810191 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
15810139 ATTTTTACGG
15810149 TTTAAAAAA-AT
1 TTTAAAAAATAT
15810160 TTTAAAAAATAT
1 TTTAAAAAATAT
* *
15810172 TTTTAAAATTA-
1 TTTAAAAAATAT
15810183 TTTAAAAAA
1 TTTAAAAAA
15810192 AGAGTTAAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTTAAAAAATAT
Found at i:15815802 original size:28 final size:28
Alignment explanation
Indices: 15815760--15815824 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
15815750 TGATTTTTCT
*
15815760 AGAAAAGTGTGAGCGTTCTTCCTGAAGC
1 AGAAAAGTGTAAGCGTTCTTCCTGAAGC
15815788 AGAAAAGTGTAAGCGTTCTTCCTGAAGC
1 AGAAAAGTGTAAGCGTTCTTCCTGAAGC
15815816 AGAAAAGTG
1 AGAAAAGTG
15815825 ATGTGCTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (28 bp):
AGAAAAGTGTAAGCGTTCTTCCTGAAGC
Found at i:15825567 original size:24 final size:24
Alignment explanation
Indices: 15825533--15825580 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
15825523 TTTACTGCAA
*
15825533 TATTCAATGGCTTGACTACAACAT
1 TATTCAATGGCTTGACCACAACAT
*
15825557 TATTCAGTGGCTTGACCACAACAT
1 TATTCAATGGCTTGACCACAACAT
15825581 GCCACTTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (24 bp):
TATTCAATGGCTTGACCACAACAT
Found at i:15828512 original size:35 final size:35
Alignment explanation
Indices: 15828472--15828540 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
15828462 ATTAATTGGG
* *
15828472 TTCAAACTCAATTA-TAAATTTAAAATTGGTGCTAA
1 TTCAAACTCAA-TAGTAAAATTAAAATTAGTGCTAA
*
15828507 TTCAAACTCAATAGTAAAATTAATATTAGTGCTA
1 TTCAAACTCAATAGTAAAATTAAAATTAGTGCTA
15828541 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 2 0.07
35 28 0.93
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (35 bp):
TTCAAACTCAATAGTAAAATTAAAATTAGTGCTAA
Found at i:15834259 original size:9 final size:9
Alignment explanation
Indices: 15834245--15834275 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
15834235 CTGATTACAG
15834245 TTGAAGCAT
1 TTGAAGCAT
15834254 TTGAAGCA-
1 TTGAAGCAT
15834262 TTGAAGCAT
1 TTGAAGCAT
15834271 TTGAA
1 TTGAA
15834276 ATGGCATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (9 bp):
TTGAAGCAT
Found at i:15835490 original size:15 final size:15
Alignment explanation
Indices: 15835441--15835473 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
15835431 ATTATTAACA
15835441 TTTCTTTTATACTAT
1 TTTCTTTTATACTAT
15835456 TTTCTTTTATACTAT
1 TTTCTTTTATACTAT
15835471 TTT
1 TTT
15835474 ATACTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTCTTTTATACTAT
Found at i:15836119 original size:18 final size:18
Alignment explanation
Indices: 15836096--15836130 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15836086 ATTGGTTAAA
*
15836096 ATAAAAATATTTAAATTC
1 ATAAAAATAATTAAATTC
*
15836114 ATAAAACTAATTAAATT
1 ATAAAAATAATTAAATT
15836131 ATATATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAAAAATAATTAAATTC
Found at i:15836453 original size:33 final size:33
Alignment explanation
Indices: 15836416--15836481 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
15836406 AAATGGAATT
*
15836416 TTAATTTTAGCTCAATTATGCATATACCAACAA
1 TTAATTTTAGCTCAATTATACATATACCAACAA
*
15836449 TTAATTTTAGCTCAATTATACATATACCTACAA
1 TTAATTTTAGCTCAATTATACATATACCAACAA
15836482 ATTTTAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (33 bp):
TTAATTTTAGCTCAATTATACATATACCAACAA
Found at i:15836877 original size:25 final size:25
Alignment explanation
Indices: 15836849--15836900 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
15836839 AAAATTGGTA
15836849 AGACATTTTCCATTCT-TCTCTAAGC
1 AGACATTTTCCATTCTCT-TCTAAGC
15836874 AGACATTTTCCATTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGC
15836899 AG
1 AG
15836901 CAGACATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.25, C:0.27, G:0.10, T:0.38
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGC
Found at i:15839834 original size:2 final size:2
Alignment explanation
Indices: 15839827--15839870 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
15839817 GGAAGTCCTT
*
15839827 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
15839868 TA T
1 TA T
15839871 TTTCATGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:15840654 original size:47 final size:47
Alignment explanation
Indices: 15840580--15840679 Score: 146
Period size: 47 Copynumber: 2.1 Consensus size: 47
15840570 ATTAAACTTG
* *
15840580 TTTTAACGTTAATTTTACTAATGCATCGCAAACACATAACAATAGAA
1 TTTTAAAGTTAATTTTACTAATACATCGCAAACACATAACAATAGAA
* * *
15840627 TTTTAAAGTTAGTTTTATTAATACATCGCAAACACATAACGATAGAA
1 TTTTAAAGTTAATTTTACTAATACATCGCAAACACATAACAATAGAA
15840674 TATTTA
1 T-TTTA
15840680 TTACTTAATA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 43 0.91
48 4 0.09
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (47 bp):
TTTTAAAGTTAATTTTACTAATACATCGCAAACACATAACAATAGAA
Found at i:15843983 original size:47 final size:47
Alignment explanation
Indices: 15843926--15844070 Score: 131
Period size: 47 Copynumber: 3.1 Consensus size: 47
15843916 ATAAGAACAT
* *
15843926 TTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATA
1 TTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTATA
** * *
15843973 TTTAATATTAATTA-TTT-T-AAATTGTATA-AATTCATATAAGA--AAA
1 TTTAATATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATTATA
* * *
15844017 TTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTATA
*
15844064 TGTAATA
1 TTTAATA
15844071 ATAATTATTT
Statistics
Matches: 74, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
43 3 0.04
44 23 0.31
45 8 0.11
46 8 0.11
47 29 0.39
48 3 0.04
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (47 bp):
TTTAATATTAAGAATTTTATGAAATTATATATAATTATTAAATTATA
Found at i:15844033 original size:91 final size:91
Alignment explanation
Indices: 15843907--15844114 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 91
15843897 ATGAGTTTAG
* *
15843907 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
15843972 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
15843999 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
15844064 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* * * *
15844090 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
15844115 GTTATAATTA
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
91 90 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:15844083 original size:26 final size:28
Alignment explanation
Indices: 15844029--15844089 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
15844019 TATTATCAAG
* *
15844029 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
15844057 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
15844083 AATTATA
1 AATTATA
15844090 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:15844089 original size:44 final size:43
Alignment explanation
Indices: 15843947--15844089 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
15843937 GAATTTTATG
* *
15843947 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
15843991 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
15844038 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
15844082 AAATTATA
1 AAATTATA
15844090 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:15844445 original size:16 final size:16
Alignment explanation
Indices: 15844424--15844464 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15844414 NNNNNNNNNT
15844424 ATATATTTTAATTAA-A
1 ATATATTTTAA-TAATA
15844440 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
15844455 AT-TATTTTAA
1 ATATATTTTAA
15844465 ATTATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:15844526 original size:7 final size:7
Alignment explanation
Indices: 15844514--15844546 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
15844504 TTCATGTAAG
15844514 AATATTT
1 AATATTT
15844521 AATATTT
1 AATATTT
15844528 AATATTT
1 AATATTT
15844535 AATATTT
1 AATATTT
15844542 AATAT
1 AATAT
15844547 GATTAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
AATATTT
Found at i:15844766 original size:16 final size:16
Alignment explanation
Indices: 15844745--15844784 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
15844735 AAAAGATTAC
*
15844745 CTATTACGCCTCTATT
1 CTATTACACCTCTATT
15844761 CTATTACACCTCTATT
1 CTATTACACCTCTATT
*
15844777 CCATTACA
1 CTATTACA
15844785 GCGAACCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.25, C:0.33, G:0.03, T:0.40
Consensus pattern (16 bp):
CTATTACACCTCTATT
Found at i:15845968 original size:27 final size:27
Alignment explanation
Indices: 15845937--15846004 Score: 127
Period size: 27 Copynumber: 2.5 Consensus size: 27
15845927 GGGTGAAAAT
15845937 GATCCTTAATCAGTTAAACTACTCAAG
1 GATCCTTAATCAGTTAAACTACTCAAG
*
15845964 GATCCTTAATCAGTTAAACTACTCGAG
1 GATCCTTAATCAGTTAAACTACTCAAG
15845991 GATCCTTAATCAGT
1 GATCCTTAATCAGT
15846005 CATTCTTCTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.31
Consensus pattern (27 bp):
GATCCTTAATCAGTTAAACTACTCAAG
Found at i:15848770 original size:23 final size:23
Alignment explanation
Indices: 15848723--15848787 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
15848713 TGTTAGAAGA
* *
15848723 TTTGTAATTTTATAAAATTCCAT
1 TTTGTAATTTTATAAGATTCAAT
*
15848746 TTTGTAATTTTATAAGATTTAAT
1 TTTGTAATTTTATAAGATTCAAT
* * *
15848769 TTTATAATCTTAGAAGATT
1 TTTGTAATTTTATAAGATT
15848788 GTGTAGATCC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.35, C:0.05, G:0.08, T:0.52
Consensus pattern (23 bp):
TTTGTAATTTTATAAGATTCAAT
Found at i:15851869 original size:24 final size:25
Alignment explanation
Indices: 15851820--15851869 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
15851810 GCATGGTAGG
* *
15851820 TCCACAAATGAAATTTGGTTGGAGT
1 TCCACAAATGAAATTTGGATGCAGT
15851845 TCCA-AAATG-AATTTAGGATGCAGT
1 TCCACAAATGAAATTT-GGATGCAGT
15851869 T
1 T
15851870 TCAACCACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 5 0.23
24 13 0.59
25 4 0.18
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (25 bp):
TCCACAAATGAAATTTGGATGCAGT
Found at i:15852745 original size:18 final size:18
Alignment explanation
Indices: 15852722--15852761 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
15852712 ATTGGATTAA
15852722 TACTCTGTTGGTTCCTTT
1 TACTCTGTTGGTTCCTTT
15852740 TACTCTGTTGGTTCCTTT
1 TACTCTGTTGGTTCCTTT
15852758 TACT
1 TACT
15852762 GATTGCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.07, C:0.23, G:0.15, T:0.55
Consensus pattern (18 bp):
TACTCTGTTGGTTCCTTT
Found at i:15854812 original size:16 final size:16
Alignment explanation
Indices: 15854788--15854831 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
15854778 ATAAACGAGC
*
15854788 AAAATAATACAAAAG-A
1 AAAAAAATA-AAAAGCA
*
15854804 AAAAAAATAAATAGCA
1 AAAAAAATAAAAAGCA
15854820 AAAAAAATAAAA
1 AAAAAAATAAAA
15854832 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.80, C:0.05, G:0.05, T:0.11
Consensus pattern (16 bp):
AAAAAAATAAAAAGCA
Found at i:15854831 original size:21 final size:20
Alignment explanation
Indices: 15854788--15854835 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
15854778 ATAAACGAGC
15854788 AAAAT-AATACAAAAGAAAA
1 AAAATAAATACAAAAGAAAA
15854807 AAAATAAATAGCAAAA-AAAA
1 AAAATAAATA-CAAAAGAAAA
15854827 TAAAATAAA
1 -AAAATAAA
15854836 AATAAAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 8 0.31
21 13 0.50
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.12
Consensus pattern (20 bp):
AAAATAAATACAAAAGAAAA
Found at i:15856931 original size:129 final size:130
Alignment explanation
Indices: 15856631--15857056 Score: 455
Period size: 129 Copynumber: 3.2 Consensus size: 130
15856621 ATCTTTAATC
* * * * * *
15856631 TGCTCCACTGCAACTTCAGGGAGATAAGA-TT-CATTTATTTAGTCTACCCCACTGGAATTTCAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTCCA--TCTTCAGTCTGCCTCACTGCAACTTCAG
* * * * * * * *
15856694 GGGGATAAGACTTGCTTTCATGAGTCGGCTCCACTGCAAATTCAGGTAGATAAGACTATCGGCTT
64 GAGGATAAGACTTGCTTAC-TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-C-GATG
* *
15856759 TAATC
126 CAATA
15856764 TGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-TTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGG
* *
15856829 AGGATAAGTCTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTA-GATGCGAT
65 AGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTACGATGCAAT
15856893 A
130 A
* * *
15856894 TGCT-CTCTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTTAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTT-CCATCTTCAGTCTGCCTCACTGCAACTTCAGG
* * * * * * **
15856958 AGGATAAGACTTACTTACTTAGTCTGCTCCACTGGAACTTCAGAGAGATAAGATCCAAGGTTTTA
65 AGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTACGATGCA
*
15857023 ATC
128 ATA
* *
15857026 TGCTCCACTACAACTTCAGGGAGATAGGATT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT
15857057 ATCGGCTCTA
Statistics
Matches: 250, Mismatches: 35, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
128 3 0.01
129 102 0.41
130 8 0.03
131 2 0.01
132 8 0.03
133 85 0.34
134 38 0.15
135 2 0.01
136 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (130 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTCCATCTTCAGTCTGCCTCACTGCAACTTCAGGA
GGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTACGATGCAATA
Found at i:15857169 original size:89 final size:86
Alignment explanation
Indices: 15856629--15857187 Score: 375
Period size: 89 Copynumber: 6.4 Consensus size: 86
15856619 CTATCTTTAA
* *
15856629 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-CATTTATTTAGTCTACC-CCACTGGAATTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCA--T-TTTAGTCT-CCTCCACTGCAACTT
*
15856691 CAGGGGGATAAGACTTGCTTTCATGAG
62 CAGGGAGATAAGACTTGC-TTC-TGAG
* * * * * *
15856718 TCGGCTCCACTGCAAATTCAGGTAGATAAGACTATCGGC--TTTAATCTGCTCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-T-TGCATTTTAGTCTCCTCCACTGCAACTTC
* * * *
15856781 AGGGAGATAAGATTTTCCATCTTCAG
63 AGGGAGATAAGA-CTTGCTTC-TGAG
*
15856807 TCTGC-CTCACTGCAACTTCA-GGAGGATAAG-TCTTGC-TTACTTAGTCTGCTCCACTGCAACT
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGAT-TTGCATT--TTAGTCTCCTCCACTGCAACT
* * *
15856868 TCAGGGAGATAAGACTAGATGC-GA-
61 TCAGGGAGATAAGACTTGCTTCTGAG
* * * * *
15856892 TATGCT-CTCTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTGCCT-CACTGCAACTTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-CAT-TTTAGTCT-CCTCCACTGCAACTTC
* *
15856955 A-GGAGGATAAGACTTACTTACTTAG
63 AGGGA-GATAAGACTTGCTT-CTGAG
* * * * * *
15856980 TCTGCTCCACTGGAACTTCAGAGAGATAAGA--TCCAAGGTTTTAATCTGCTCCACTACAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC-A--TTTTAGTCTCCTCCACTGCAACTTC
* * *
15857043 AGGGAGATAGGATTATCGGC-TCT-AA
63 AGGGAGATAAGACT-T--GCTTCTGAG
15857068 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGACATTTTCAGTCTACCT-CACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-CATTTT-AGTCT-CCTCCACTGCAACTTC
15857132 A-GGAGGATAAGACTTGCTTGCTGAG
63 AGGGA-GATAAGACTTGCTT-CTGAG
* *
15857157 TCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
15857188 CTAGATGCGA
Statistics
Matches: 367, Mismatches: 62, Indels: 82
0.72 0.12 0.16
Matches are distributed among these distances:
84 24 0.07
85 36 0.10
86 10 0.03
87 10 0.03
88 75 0.20
89 200 0.54
90 8 0.02
91 2 0.01
92 1 0.00
94 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.29
Consensus pattern (86 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCATTTTAGTCTCCTCCACTGCAACTTCAGG
GAGATAAGACTTGCTTCTGAG
Found at i:15857188 original size:44 final size:42
Alignment explanation
Indices: 15856629--15857227 Score: 321
Period size: 44 Copynumber: 13.7 Consensus size: 42
15856619 CTATCTTTAA
* *
15856629 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-CATTTATTTAG
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGC--TT-CTGAG
* * * * *
15856673 TCTACCCCACTGGAATTTCAGGGGGATAAGACTTGCTTTCATGAG
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGC-TTC-TGAG
* * *
15856718 TCGGCTCCACTGCAAATTCAGGTAGATAAGACTATCGGCTT-T-AA
1 TCTGCTCCACTGCAACTTCAGG-AGATAAGACT-T--GCTTCTGAG
* * * *
15856762 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTTCCATCTTCAG
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGA-CTTGCTTC-TGAG
* *
15856807 TCTGC-CTCACTGCAACTTCAGGAGGATAAGTCTTGCTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGA-GATAAGACTTGCTT-CTGAG
* * *
15856851 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGC-GA-
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGCTTCTGAG
* * * * *
15856892 TATGCT-CTCTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGACTTG-CTTC-TGAG
* * *
15856936 TCTGC-CTCACTGCAACTTTAGGAGGATAAGACTTACTTACTTAG
1 TCTGCTC-CACTGCAACTTCAGGA-GATAAGACTTGCTT-CTGAG
* ** * * *
15856980 TCTGCTCCACTGGAACTTCAGAGAGATAAGATCCAAGGTT-TTAA
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGA--CTTGCTTCTGAG
* * * *
15857024 TCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGGC-TCT-AA
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACT-T--GCTTCTGAG
* * *
15857068 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGACATTTTCAG
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTTG-C-TTCTGAG
*
15857113 TCTAC-CTCACTGCAACTTCAGGAGGATAAGACTTGCTTGCTGAG
1 TCTGCTC-CACTGCAACTTCAGGA-GATAAGACTTGCTT-CTGAG
* * * *
15857157 TCTGCTCTACTGCAACTTCAGAGAGATAAGACTAGATGC-GA-
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGCTTCTGAG
*
15857198 TCTGCT-CTCTGCAACTTCAGAGAGATAAGA
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGA
15857228 TCCAAGGTNN
Statistics
Matches: 437, Mismatches: 74, Indels: 92
0.72 0.12 0.15
Matches are distributed among these distances:
39 1 0.00
40 45 0.10
41 13 0.03
42 6 0.01
43 6 0.01
44 232 0.53
45 125 0.29
46 5 0.01
47 2 0.00
48 2 0.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (42 bp):
TCTGCTCCACTGCAACTTCAGGAGATAAGACTTGCTTCTGAG
Found at i:15857851 original size:44 final size:43
Alignment explanation
Indices: 15857713--15857871 Score: 139
Period size: 44 Copynumber: 3.7 Consensus size: 43
15857703 CAGTCTGCCT
* *
15857713 CACTGCAACTTCA-GGAGGATAAG-TCTTGCTTACTTAGTCTGCTC
1 CACTGCAACTTCAGGGA-GATAAGATCTTGGTT--TTAATCTGCTC
* * * *
15857757 CACTGCAACTTCAGGGAGATAAGA-C-TAGATGTGATCTGCT-
1 CACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTC
* * *
15857797 CTCTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCAGCTC
1 CACTGCAACTTCAGGGAGATAAGATCT-TGGTTTTAATCTGCTC
* *
15857841 CACTGCAACTTTAGGGAGATAGGATCATTGG
1 CACTGCAACTTCAGGGAGATAAGATC-TTGG
15857872 CTTTCGATCT
Statistics
Matches: 91, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
40 22 0.24
41 8 0.09
43 12 0.13
44 45 0.49
45 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (43 bp):
CACTGCAACTTCAGGGAGATAAGATCTTGGTTTTAATCTGCTC
Found at i:15857857 original size:84 final size:84
Alignment explanation
Indices: 15857706--15857861 Score: 210
Period size: 84 Copynumber: 1.8 Consensus size: 84
15857696 CCATCTTCAG
* *
15857706 TCTGCCTCACTGCAACTTCAGGAGGATAAGTCTTGCTTACTTAGTCTGCTCCACTGCAACTTCAG
1 TCTGCCTCACTGCAACTTCAGGAGGATAAGTCTTGCTTA-TTAATCAGCTCCACTGCAACTTCAG
15857771 GGAGATAAGACTAGATGTGA
65 GGAGATAAGACTAGATGTGA
* * *
15857791 TCTG-CTCTCTGCAACTTCA-GAGAGATAAGATCTGTGGTT-TTAATCAGCTCCACTGCAACTTT
1 TCTGCCTCACTGCAACTTCAGGAG-GATAAG-TCT-TGCTTATTAATCAGCTCCACTGCAACTTC
15857853 AGGGAGATA
63 AGGGAGATA
15857862 GGATCATTGG
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
83 3 0.05
84 49 0.78
85 7 0.11
86 4 0.06
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (84 bp):
TCTGCCTCACTGCAACTTCAGGAGGATAAGTCTTGCTTATTAATCAGCTCCACTGCAACTTCAGG
GAGATAAGACTAGATGTGA
Found at i:15869668 original size:19 final size:19
Alignment explanation
Indices: 15869627--15869669 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
15869617 ATGCTACATT
* *
15869627 AAATATACAATGTGATAAT
1 AAATATACAATGTCATAAG
15869646 AAATATTACAATGTCAT-AG
1 AAATA-TACAATGTCATAAG
15869665 AAATA
1 AAATA
15869670 ATGCATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.30
Consensus pattern (19 bp):
AAATATACAATGTCATAAG
Found at i:15871054 original size:141 final size:142
Alignment explanation
Indices: 15870783--15871065 Score: 480
Period size: 141 Copynumber: 2.0 Consensus size: 142
15870773 CCAAAACGGT
* * *
15870783 GTCGTTCCAGTAGGGTTAAATTGGAATTAAAAATAAATTAAAGGGCGAATTAAAAAATAAAAAAA
1 GTCGTTCCAATAGGGCTAAATTGAAATTAAAAATAAATTAAAGGGCGAATTAAAAAATAAAAAAA
15870848 CCTAATTATAAAATACATTAAAAAGGCGGAGGGACTAAAAGCGCAATTTATCCCTCCGCTCAAAA
66 CCTAATTATAAAATACATTAAAAAGGCGGAGGGACTAAAAGCGCAATTTATCCCTCCGCTCAAAA
15870913 ACACGCGGATCC
131 ACACGCGGATCC
* *
15870925 GTCGTTCTAATAGGGCTAAATTTAAATTAAAAATAAATTAAAGGGCGAATTAAAAAATAAAAAAA
1 GTCGTTCCAATAGGGCTAAATTGAAATTAAAAATAAATTAAAGGGCGAATTAAAAAAT-AAAAAA
* *
15870990 ACCTAATTAT-AAA-ACATTAAAAAGGTGGAGGGACTAAAAGCGCAATTTATCCCTCCGCTGAAA
65 ACCTAATTATAAAATACATTAAAAAGGCGGAGGGACTAAAAGCGCAATTTATCCCTCCGCTCAAA
15871053 AACACGCGGATCC
130 AACACGCGGATCC
15871066 TAGGCCGGGT
Statistics
Matches: 133, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
141 61 0.46
142 56 0.42
143 16 0.12
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (142 bp):
GTCGTTCCAATAGGGCTAAATTGAAATTAAAAATAAATTAAAGGGCGAATTAAAAAATAAAAAAA
CCTAATTATAAAATACATTAAAAAGGCGGAGGGACTAAAAGCGCAATTTATCCCTCCGCTCAAAA
ACACGCGGATCC
Found at i:15878998 original size:68 final size:67
Alignment explanation
Indices: 15878838--15879208 Score: 415
Period size: 67 Copynumber: 5.5 Consensus size: 67
15878828 ACCTCAAAAG
* * * **
15878838 GGGTTACAAGGTGTAAAACCATAGCTCAACTTTGACGAA-CAATAGATTCCATTAGGACATTAAA
1 GGGTTACAAGGTGTAAGACCATAGCTCAACTATGAC-AACCAATAGAGTCCACCAGGACATTAAA
15878902 CAT
65 CAT
* * * * * *
15878905 GGGTTATAAGGTGTAAGGCCATAGCTCGACTATGGCAACCAATAAAGTCCGCCAGGACATTAAAC
1 GGGTTACAAGGTGTAAGACCATAGCTCAACTATGACAACCAATAGAGTCCACCAGGACATTAAAC
15878970 AT
66 AT
* * * *
15878972 AAGGTTACAAGGTGTAAAACCATAGCTCAACTATGACAACCAATAGAGTCCTCTAGGACATTAAA
1 -GGGTTACAAGGTGTAAGACCATAGCTCAACTATGACAACCAATAGAGTCCACCAGGACATTAAA
15879037 CAT
65 CAT
* * * * * *
15879040 GAGGTTACAAGGTGTAAGACCATAGCACGATTATGAC-ACCAATAGAGTTCACCAAGAAATTAAA
1 G-GGTTACAAGGTGTAAGACCATAGCTCAACTATGACAACCAATAGAGTCCACCAGGACATTAAA
15879104 CAT
65 CAT
* * * *
15879107 GGGTTTACATGGTGTAAGACCATAACCCAACTATGACAACCAATAGAGTCTACCAGGACATTAAA
1 GGG-TTACAAGGTGTAAGACCATAGCTCAACTATGACAACCAATAGAGTCCACCAGGACATTAAA
*
15879172 CTT
65 CAT
* * *
15879175 GGGGTTAC-ATGTGTAAGACTATAGCTCGACTATG
1 -GGGTTACAAGGTGTAAGACCATAGCTCAACTATG
15879209 GCAGCATATC
Statistics
Matches: 252, Mismatches: 46, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
66 4 0.02
67 127 0.50
68 118 0.47
69 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.23
Consensus pattern (67 bp):
GGGTTACAAGGTGTAAGACCATAGCTCAACTATGACAACCAATAGAGTCCACCAGGACATTAAAC
AT
Found at i:15879081 original size:135 final size:134
Alignment explanation
Indices: 15878839--15879208 Score: 453
Period size: 135 Copynumber: 2.7 Consensus size: 134
15878829 CCTCAAAAGG
* *
15878839 GGTTACAAGGTGTAAAACCATAGCTCAACTTTGACGAA-CAATAGATTCCAT-TAGGACATTAAA
1 GGTTACAAGGTGTAAAACCATAGCTCAACTATGAC-AACCAATAGAGTCC-TCTAGGACATTAAA
* * * * * *
15878902 CATGGGTTATAAGGTGTAAGGCCATAGCTCGACTATGGCAACCAATAAAGTCCGCCAGGACATTA
64 CATGGGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAAAGTCCACCAAGAAATTA
15878967 AACATAA
129 AACAT-A
15878974 GGTTACAAGGTGTAAAACCATAGCTCAACTATGACAACCAATAGAGTCCTCTAGGACATTAAACA
1 GGTTACAAGGTGTAAAACCATAGCTCAACTATGACAACCAATAGAGTCCTCTAGGACATTAAACA
* * * *
15879039 TGAGGTTACAAGGTGTAAGACCATAGCACGATTATGAC-ACCAATAGAGTTCACCAAGAAATTAA
66 TG-GGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAAAGTCCACCAAGAAATTAA
*
15879103 ACATG
130 ACATA
* * * * *
15879108 GGTTTACATGGTGTAAGACCATAACCCAACTATGACAACCAATAGAGT-CTACCAGGACATTAAA
1 GG-TTACAAGGTGTAAAACCATAGCTCAACTATGACAACCAATAGAGTCCT-CTAGGACATTAAA
* * *
15879172 CTTGGGGTTAC-ATGTGTAAGACTATAGCTCGACTATG
64 CAT-GGGTTACAAGGTGTAAGACCATAGCTCGACTATG
15879209 GCAGCATATC
Statistics
Matches: 206, Mismatches: 23, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
134 29 0.14
135 146 0.71
136 31 0.15
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (134 bp):
GGTTACAAGGTGTAAAACCATAGCTCAACTATGACAACCAATAGAGTCCTCTAGGACATTAAACA
TGGGTTACAAGGTGTAAGACCATAGCTCGACTATGACAACCAATAAAGTCCACCAAGAAATTAAA
CATA
Found at i:15881533 original size:29 final size:29
Alignment explanation
Indices: 15881501--15881568 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
15881491 GAGAGTTCGC
**
15881501 AGTGACTATCCGTTAAACAAGAGTCT-GA
1 AGTGACTATCCGCCAAACAAGAGTCTAGA
* *
15881529 TAGTGACTATCTGCCAAACAAGAGTTTAGA
1 -AGTGACTATCCGCCAAACAAGAGTCTAGA
15881559 AGTGACTATC
1 AGTGACTATC
15881569 ATTTAAGAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 32 0.94
30 2 0.06
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (29 bp):
AGTGACTATCCGCCAAACAAGAGTCTAGA
Found at i:15882025 original size:180 final size:180
Alignment explanation
Indices: 15881717--15882069 Score: 528
Period size: 180 Copynumber: 2.0 Consensus size: 180
15881707 ATCTGCATGT
*
15881717 AAAAAAATTCTCCAAGTGTGAATCTCTATGCATGAGTTTTCTGAAATCAATCTACCGTACGTTAA
1 AAAAAAATTCTCCAAGTGTGAATCTCTATGCATGAGTTTTCTGAAATCAATCTACCATACGTTAA
* * * **
15881782 TCCGCAATGAAAGCAATTACTAAGGTAATTGGCATATGTTCTACTGGAAAAAGAGTTAATAATCC
66 TCCACAATGAAAACAATTACTAAGGTAATTCGCATATGTTCTACTGGAAAAAGAGGCAATAATCC
** * *
15881847 ATCTTGTATGAAATTAGTGCAAATGGGTAAGCGAAATCATTCCGCTTGTA
131 ATCTTGTATGAAATTAGCACAAATGAGCAAGCGAAATCATTCCGCTTGTA
***
15881897 AAAAAAATTCTCCAAGTGTGAATCTCTATGCATGAGTTTTCT-AGAATCAATCTGTTATACGTTA
1 AAAAAAATTCTCCAAGTGTGAATCTCTATGCATGAGTTTTCTGA-AATCAATCTACCATACGTTA
* * **
15881961 ATTCACAATGAAAATAATTGTTAAGGTAATTCGCATATGTTCTACTGGAAAAAGAGGCAATAATC
65 ATCCACAATGAAAACAATTACTAAGGTAATTCGCATATGTTCTACTGGAAAAAGAGGCAATAATC
*
15882026 CATCTTGTATGAAATTAGCACAAATGAGCAAGTGAAATCATTCC
130 CATCTTGTATGAAATTAGCACAAATGAGCAAGCGAAATCATTCC
15882070 ACATTATAGC
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
179 1 0.01
180 153 0.99
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (180 bp):
AAAAAAATTCTCCAAGTGTGAATCTCTATGCATGAGTTTTCTGAAATCAATCTACCATACGTTAA
TCCACAATGAAAACAATTACTAAGGTAATTCGCATATGTTCTACTGGAAAAAGAGGCAATAATCC
ATCTTGTATGAAATTAGCACAAATGAGCAAGCGAAATCATTCCGCTTGTA
Found at i:15896092 original size:77 final size:76
Alignment explanation
Indices: 15895979--15896127 Score: 210
Period size: 77 Copynumber: 1.9 Consensus size: 76
15895969 TTATAAATAT
*
15895979 CATTCAACAATTCATTTCAAACAAACAACATTTAAATAACACCATCT-AAAAAAAAATGGAAATT
1 CATTCAACAATTCATTTCAAACAAACAACATCTAAATAACACCAT-TGAAAAAAAAATGGAAATT
15896043 ATTTTATTATTG
65 ATTTTATTATTG
* * ** * *
15896055 CATTCAACACTTCATATTCAAACAAACATCATCTAAATAACTTCATTGATAAAATAATGGAAATT
1 CATTCAACAATTCAT-TTCAAACAAACAACATCTAAATAACACCATTGAAAAAAAAATGGAAATT
15896120 ATTTTATT
65 ATTTTATT
15896128 GGCATTGGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
76 15 0.23
77 49 0.77
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (76 bp):
CATTCAACAATTCATTTCAAACAAACAACATCTAAATAACACCATTGAAAAAAAAATGGAAATTA
TTTTATTATTG
Found at i:15901947 original size:61 final size:62
Alignment explanation
Indices: 15901842--15901961 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 62
15901832 TTTGATCTAA
* *
15901842 TAACAAATTTAGCCCTCCAATGTTTACATATTCTATCAATTTAGTTTTAAATCTAAAAAATT
1 TAACAAATTTAGCCCTCCAATGTTTACAGATTCTATCAATTTAGTTATAAATCTAAAAAATT
* * * * *
15901904 TAACAAATTTAG-CCTTCAGTGTTTACAAGATT-TGTCACTTTAGTTATAATTCTAAAAA
1 TAACAAATTTAGCCCTCCAATGTTTAC-AGATTCTATCAATTTAGTTATAAATCTAAAAA
15901962 TTCTGAAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
61 34 0.68
62 16 0.32
ACGTcount: A:0.38, C:0.15, G:0.07, T:0.40
Consensus pattern (62 bp):
TAACAAATTTAGCCCTCCAATGTTTACAGATTCTATCAATTTAGTTATAAATCTAAAAAATT
Found at i:15909085 original size:15 final size:16
Alignment explanation
Indices: 15909065--15909095 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15909055 ATTAACTAAG
15909065 TAAAAT-AAAATAAAA
1 TAAAATAAAAATAAAA
15909080 TAAAATAAAAATAAAA
1 TAAAATAAAAATAAAA
15909096 GTTCCAATGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:15909092 original size:6 final size:5
Alignment explanation
Indices: 15909065--15909095 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
15909055 ATTAACTAAG
15909065 TAAAA TAAAA TAAAA TAAAA TAAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA
15909096 GTTCCAATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:15910850 original size:16 final size:17
Alignment explanation
Indices: 15910826--15910858 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
15910816 TCTTTGACTC
15910826 TTGTATTAG-TTTTCTT
1 TTGTATTAGCTTTTCTT
*
15910842 TTGTTTTAGCTTTTCTT
1 TTGTATTAGCTTTTCTT
15910859 ATTCCATTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.09, C:0.09, G:0.12, T:0.70
Consensus pattern (17 bp):
TTGTATTAGCTTTTCTT
Found at i:15913198 original size:13 final size:13
Alignment explanation
Indices: 15913180--15913204 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15913170 TAGTTTACTG
15913180 AAATTATTATAAA
1 AAATTATTATAAA
15913193 AAATTATTATAA
1 AAATTATTATAA
15913205 TTATGATTTC
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTATTATAAA
Found at i:15914323 original size:51 final size:51
Alignment explanation
Indices: 15914237--15914352 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
15914227 CTCTAAGATG
* * * * *
15914237 AAAATGAAAATGGAGAAATGAGATCATTTCAAAATGATTATGATTTTCTTC
1 AAAATGAAAATGAAGAAATGAAATAATTTCAAAATGAATATGATTTTCTCC
** * *
15914288 AAAATGAAAATGAAGAAATGAAATAATTTGGAAATGAATGTGGTTTTCTCC
1 AAAATGAAAATGAAGAAATGAAATAATTTCAAAATGAATATGATTTTCTCC
15914339 AAAATGAAAATGAA
1 AAAATGAAAATGAA
15914353 ATGACTTGGA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.47, C:0.06, G:0.17, T:0.29
Consensus pattern (51 bp):
AAAATGAAAATGAAGAAATGAAATAATTTCAAAATGAATATGATTTTCTCC
Found at i:15929155 original size:18 final size:18
Alignment explanation
Indices: 15929132--15929172 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
15929122 CCGATCTGAG
15929132 TTGCTGTCCTGCAAGCTA
1 TTGCTGTCCTGCAAGCTA
15929150 TTGCTGTCCTGCAAGCTA
1 TTGCTGTCCTGCAAGCTA
15929168 TTGCT
1 TTGCT
15929173 TCTGCAGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.37
Consensus pattern (18 bp):
TTGCTGTCCTGCAAGCTA
Found at i:15934562 original size:22 final size:22
Alignment explanation
Indices: 15934523--15934565 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15934513 GTTTACTTTC
*
15934523 AATTAAAATTATAAATTAAAAA
1 AATTAAAAATATAAATTAAAAA
**
15934545 AATTAAAAATATCGATTAAAA
1 AATTAAAAATATAAATTAAAA
15934566 TTTATTATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (22 bp):
AATTAAAAATATAAATTAAAAA
Found at i:15937078 original size:23 final size:23
Alignment explanation
Indices: 15937035--15937078 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
15937025 ATTTTAAATA
*
15937035 ATTTAACAAATTTAACCTTTCAC
1 ATTTAACAAATTTAACATTTCAC
*
15937058 ATTT-ACAAATTCTATCATTTC
1 ATTTAACAAATT-TAACATTTC
15937079 GGGCCTCAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.36, C:0.20, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTTAACAAATTTAACATTTCAC
Found at i:15940450 original size:13 final size:13
Alignment explanation
Indices: 15940432--15940476 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
15940422 GATAGGATTT
15940432 TGTATATCTGTTC
1 TGTATATCTGTTC
15940445 TGTATATCTGATTC
1 TGTATATCTG-TTC
*
15940459 CGT-TATCTGTATC
1 TGTATATCTGT-TC
15940472 TGTAT
1 TGTAT
15940477 CTGTAAAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 1 0.04
13 20 0.74
14 6 0.22
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.51
Consensus pattern (13 bp):
TGTATATCTGTTC
Found at i:15940510 original size:6 final size:6
Alignment explanation
Indices: 15940496--15940556 Score: 68
Period size: 6 Copynumber: 10.0 Consensus size: 6
15940486 ACCTAAGTCC
* * * * *
15940496 GAATAT GAATCT GAATCT GACTGT GTATAT GTAATCT GAATCT GAATCT
1 GAATCT GAATCT GAATCT GAATCT GAATCT G-AATCT GAATCT GAATCT
15940545 GAATCT GAATCT
1 GAATCT GAATCT
15940557 AGAGCACGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
6 42 0.91
7 4 0.09
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (6 bp):
GAATCT
Found at i:15942347 original size:20 final size:20
Alignment explanation
Indices: 15942290--15942347 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
15942280 AAATGGTAAC
15942290 AAAATAGTGAAAAAAATAACAAG
1 AAAATAGT--AAAAAA-AACAAG
* * *
15942313 AAAATAATAATAAAAGCAAG
1 AAAATAGTAAAAAAAACAAG
15942333 AAAATAGTAAAAAAA
1 AAAATAGTAAAAAAA
15942348 CAACAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 18 0.60
21 5 0.17
23 7 0.23
ACGTcount: A:0.72, C:0.03, G:0.10, T:0.14
Consensus pattern (20 bp):
AAAATAGTAAAAAAAACAAG
Found at i:15943178 original size:32 final size:31
Alignment explanation
Indices: 15943128--15943210 Score: 76
Period size: 32 Copynumber: 2.6 Consensus size: 31
15943118 AAATATGAAT
* *
15943128 AATTATTATACATATATAATAAATGCATTAAA
1 AATTATTTTA-ATTTATAATAAATGCATTAAA
* *** *
15943160 AATTATTTTATATTTATAATTAATTTTTTCAA
1 AATTATTTTA-ATTTATAATAAATGCATTAAA
15943192 AATGTATTTTAATTTATAA
1 AAT-TATTTTAATTTATAA
15943211 CTTAACATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
32 35 0.83
33 7 0.17
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (31 bp):
AATTATTTTAATTTATAATAAATGCATTAAA
Found at i:15944140 original size:45 final size:44
Alignment explanation
Indices: 15944086--15944176 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 44
15944076 TTTGGTTCGC
*
15944086 TGTATTGGAATAGAGGCGTAATAGCAAATCA-ATTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCATA-TGTTTGGTTGAA
* *
15944131 TGTAATGGAATAGAGGCGTAATAGTAATCTTATGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCATATGTTTGGTTGAA
15944175 TG
1 TG
15944177 GAATAGAGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 18 0.43
45 24 0.57
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCATATGTTTGGTTGAA
Found at i:15963771 original size:10 final size:10
Alignment explanation
Indices: 15963756--15963797 Score: 54
Period size: 9 Copynumber: 4.5 Consensus size: 10
15963746 CTGGGAGCAG
15963756 TTTGTTTCAT
1 TTTGTTTCAT
15963766 TTTGTTTC-T
1 TTTGTTTCAT
*
15963775 TTTGTTT-AC
1 TTTGTTTCAT
15963784 TTTG-TTCAT
1 TTTGTTTCAT
15963793 TTTGT
1 TTTGT
15963798 AATGTTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
8 2 0.07
9 17 0.63
10 8 0.30
ACGTcount: A:0.07, C:0.10, G:0.12, T:0.71
Consensus pattern (10 bp):
TTTGTTTCAT
Found at i:15968299 original size:10 final size:9
Alignment explanation
Indices: 15968284--15968325 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
15968274 CTGGGAGTAG
15968284 TTTGTTTCAT
1 TTTGTTT-AT
*
15968294 TTTGTTTCT
1 TTTGTTTAT
*
15968303 TTTGTTTAC
1 TTTGTTTAT
15968312 TTTGTTTAT
1 TTTGTTTAT
15968321 TTTGT
1 TTTGT
15968326 AATGTTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.07, C:0.07, G:0.12, T:0.74
Consensus pattern (9 bp):
TTTGTTTAT
Found at i:15980035 original size:25 final size:25
Alignment explanation
Indices: 15980007--15980058 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
15979997 ATGTGACACA
*
15980007 CACATCTGTGTGTCACTTATTATTT
1 CACATCTGCGTGTCACTTATTATTT
15980032 CACATCTGCGTGTCACTTATTATTT
1 CACATCTGCGTGTCACTTATTATTT
15980057 CA
1 CA
15980059 GGTGTGAGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (25 bp):
CACATCTGCGTGTCACTTATTATTT
Found at i:15980165 original size:53 final size:49
Alignment explanation
Indices: 15980073--15980213 Score: 138
Period size: 41 Copynumber: 2.9 Consensus size: 49
15980063 TGAGCATAAC
* * *
15980073 ACGGTCTAAGACACGACCATGTGTATC-AAGTCAGTGAGTTACACGGTCTAGCA
1 ACGGCCTACGACACGACCA--TGTACCTAAGTCAGTGAGTTACACGG-C-A-CA
15980126 TACGGCCTACGACACGACCATGTACCTAAGTCAGTGAGTT--A---CACA
1 -ACGGCCTACGACACGACCATGTACCTAAGTCAGTGAGTTACACGGCACA
15980171 A---CCTACGACACGACCATGTACCTAAGTCAGTGAGTTACACGGC
1 ACGGCCTACGACACGACCATGTACCTAAGTCAGTGAGTTACACGGC
15980214 TTAAGACACG
Statistics
Matches: 78, Mismatches: 3, Indels: 20
0.77 0.03 0.20
Matches are distributed among these distances:
41 35 0.45
43 1 0.01
44 1 0.01
45 2 0.03
46 2 0.03
47 1 0.01
51 1 0.01
52 5 0.06
53 13 0.17
54 17 0.22
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (49 bp):
ACGGCCTACGACACGACCATGTACCTAAGTCAGTGAGTTACACGGCACA
Found at i:15980188 original size:41 final size:41
Alignment explanation
Indices: 15980131--15980210 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
15980121 TAGCATACGG
15980131 CCTACGACACGACCATGTACCTAAGTCAGTGAGTTACACAA
1 CCTACGACACGACCATGTACCTAAGTCAGTGAGTTACACAA
15980172 CCTACGACACGACCATGTACCTAAGTCAGTGAGTTACAC
1 CCTACGACACGACCATGTACCTAAGTCAGTGAGTTACAC
15980211 GGCTTAAGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (41 bp):
CCTACGACACGACCATGTACCTAAGTCAGTGAGTTACACAA
Found at i:15980222 original size:41 final size:41
Alignment explanation
Indices: 15980127--15980223 Score: 158
Period size: 41 Copynumber: 2.4 Consensus size: 41
15980117 GGTCTAGCAT
15980127 ACGGCCTACGACACGACCATGTACCTAAGTCAGTGAGTTAC
1 ACGGCCTACGACACGACCATGTACCTAAGTCAGTGAGTTAC
**
15980168 ACAACCTACGACACGACCATGTACCTAAGTCAGTGAGTTAC
1 ACGGCCTACGACACGACCATGTACCTAAGTCAGTGAGTTAC
* *
15980209 ACGGCTTAAGACACG
1 ACGGCCTACGACACG
15980224 GGATGAGACA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.19
Consensus pattern (41 bp):
ACGGCCTACGACACGACCATGTACCTAAGTCAGTGAGTTAC
Found at i:15982624 original size:29 final size:26
Alignment explanation
Indices: 15982567--15982624 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 26
15982557 NNNNNTTATA
**
15982567 AAAAAATAATTACATATAAAAAATTT
1 AAAAAATAATTACATATAAAAAAAAT
15982593 AAAAAATAATTACATTATATTAAAAAAAT
1 AAAAAATAATTACA-TATA--AAAAAAAT
15982622 AAA
1 AAA
15982625 TATGCGTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 14 0.52
27 4 0.15
29 9 0.33
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (26 bp):
AAAAAATAATTACATATAAAAAAAAT
Found at i:15984420 original size:44 final size:44
Alignment explanation
Indices: 15984327--15984475 Score: 190
Period size: 44 Copynumber: 3.4 Consensus size: 44
15984317 ATAAGACTTG
* * ***
15984327 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGC
*
15984372 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
* ** *
15984416 TATCTTTGATCTACTTCACGCCAAGGCATGAAGACAAGGTCTGC
1 TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
*
15984460 TTTCTTCGATCTACTT
1 TATCTTCGATCTACTT
15984476 AGCCACCAGT
Statistics
Matches: 91, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
44 73 0.80
45 18 0.20
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (44 bp):
TATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC
Found at i:15984597 original size:88 final size:88
Alignment explanation
Indices: 15984502--15985081 Score: 442
Period size: 88 Copynumber: 6.7 Consensus size: 88
15984492 AGACAACATC
*
15984502 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGCTCTGCTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
*
15984567 TGTCGGTACAGGAAGGCAGGATT
66 TGTCGGTACAGGAAGGCAAGATT
15984590 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
* *
15984655 TGTCAGT-CTAGGAAGGCAATATT
66 TGTCGGTAC-AGGAAGGCAAGATT
* * *
15984678 TGTTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGCTATCTTCGATCTGCTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
* *
15984743 TGTCGGTACAGGAAGGAAAGATC
66 TGTCGGTACAGGAAGGCAAGATT
* * * ** * * * ** * * *
15984766 TGCCT-GC-TCCA-CTACAAC-CTAGGAAGGCAAGGCTGG-TA-TCTTCG-ATC-T-G-----CT
1 TG-CTATCTTCAACCTGCTCCACTA-CAA-CCTAGGGAGGCAAGGC-TGGTATCTTCGATCTGCT
* * *
15984817 TCACTGTCGATATAGGAAGGCAAGATC
62 TCACTGTCGGTACAGGAAGGCAAGATT
* * * *
15984844 CGCAATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCAATCTGCTTCAC
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
* * *
15984909 TGTCGATGCAGGAAGGCAAGATC
66 TGTCGGTACAGGAAGGCAAGATT
* * ** * ** * *** *
15984932 TG-TAATTTTTAACCTATTCCACTGCTGTCC-AGGGA-G-ATAGGATTCACAATCTTTGATCTGC
1 TGCT-ATCTTCAACCTGCTCCACTAC-AACCTAGGGAGGCA-AGG-CT-GGTATCTTCGATCTGC
* * *
15984993 TTCATTGTCAGTACAGGAAGGCAAGATC
61 TTCACTGTCGGTACAGGAAGGCAAGATT
* * * * * * * *
15985021 TGCTATCTTTAACCTGCTCCGCTGCCACCGAGTGAGGCAAGGCTAGTGTCTTCGATCTGCT
1 TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCT
15985082 CCGCTACTGC
Statistics
Matches: 385, Mismatches: 78, Indels: 58
0.74 0.15 0.11
Matches are distributed among these distances:
77 1 0.00
78 28 0.07
79 9 0.02
80 9 0.02
81 7 0.02
82 1 0.00
83 1 0.00
84 1 0.00
85 7 0.02
86 9 0.02
87 14 0.04
88 229 0.59
89 63 0.16
90 5 0.01
91 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (88 bp):
TGCTATCTTCAACCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCAC
TGTCGGTACAGGAAGGCAAGATT
Found at i:15984695 original size:45 final size:44
Alignment explanation
Indices: 15984502--15984700 Score: 118
Period size: 43 Copynumber: 4.5 Consensus size: 44
15984492 AGACAACATC
* ** * ***
15984502 TGCTATCTTCAACCTGCTCCACT-ACAACCTAGGGAGGCAAGGC
1 TGCTATCTTCAACCTGCTCCACTGTCAGTCTAGGAAGGCAAATT
* * * * *
15984545 TGGTATCTTC-GCTCTGCTTCACTGTCGGTAC-AGGAAGGCAGGATT
1 TGCTATCTTCAAC-CTGCTCCACTGTCAGT-CTAGGAAGGCA-AATT
* ** * ***
15984590 TGCTATCTTCAACCTGCTCCACT-ACAACCTAGGGAGGCAAGGC
1 TGCTATCTTCAACCTGCTCCACTGTCAGTCTAGGAAGGCAAATT
* * * *
15984633 TGGTATCTTCGATCTGCTTCACTGTCAGTCTAGGAAGGCAATATT
1 TGCTATCTTCAACCTGCTCCACTGTCAGTCTAGGAAGGCAA-ATT
*
15984678 TGTTATCTTCAACCTGCTCCACT
1 TGCTATCTTCAACCTGCTCCACT
15984701 ACAACCCAGG
Statistics
Matches: 109, Mismatches: 39, Indels: 14
0.67 0.24 0.09
Matches are distributed among these distances:
42 1 0.01
43 38 0.35
44 31 0.28
45 38 0.35
46 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (44 bp):
TGCTATCTTCAACCTGCTCCACTGTCAGTCTAGGAAGGCAAATT
Found at i:15984819 original size:78 final size:78
Alignment explanation
Indices: 15984690--15984933 Score: 317
Period size: 78 Copynumber: 3.0 Consensus size: 78
15984680 TTATCTTCAA
* *
15984690 CCTGCTCCACTACAACCCAGGGAGGCAAGGCTGCTATCTTCGATCTGCTTCACTGTCGGTACAGG
1 CCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGG
15984755 AAGGAAAGATCTG
66 AAGGAAAGATCTG
* * *
15984768 CCTGCTCCACTACAACCTAGGAAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATATAGG
1 CCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGG
*
15984833 AAGGCAAGATCCGCAATCTTCAA
66 AAGG-AA-A---G--ATC-T--G
* *
15984856 CCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCAATCTGCTTCACTGTCGATGCAGG
1 CCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGG
*
15984921 AAGGCAAGATCTG
66 AAGGAAAGATCTG
15984934 TAATTTTTAA
Statistics
Matches: 143, Mismatches: 13, Indels: 20
0.81 0.07 0.11
Matches are distributed among these distances:
78 64 0.45
79 2 0.01
80 2 0.01
81 3 0.02
83 2 0.01
85 3 0.02
86 2 0.01
87 1 0.01
88 64 0.45
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (78 bp):
CCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATACAGG
AAGGAAAGATCTG
Found at i:15984835 original size:44 final size:44
Alignment explanation
Indices: 15984786--15984928 Score: 144
Period size: 44 Copynumber: 3.2 Consensus size: 44
15984776 ACTACAACCT
* *
15984786 AGGAAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCGATAT
1 AGGAAGGCAAGGCTGGTATCTTCAATCTGCTTCACTGTCGATAC
* * ** * * * * **
15984830 AGGAAGGCAAGATCCGCAATCTTCAACCTGCTCCACT-ACAACCC
1 AGGAAGGCAAG-GCTGGTATCTTCAATCTGCTTCACTGTCGATAC
* *
15984874 AGGGAGGCAAGGCTGGTATCTTCAATCTGCTTCACTGTCGATGC
1 AGGAAGGCAAGGCTGGTATCTTCAATCTGCTTCACTGTCGATAC
15984918 AGGAAGGCAAG
1 AGGAAGGCAAG
15984929 ATCTGTAATT
Statistics
Matches: 73, Mismatches: 24, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
43 19 0.26
44 36 0.49
45 18 0.25
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (44 bp):
AGGAAGGCAAGGCTGGTATCTTCAATCTGCTTCACTGTCGATAC
Found at i:15984876 original size:166 final size:166
Alignment explanation
Indices: 15984602--15984933 Score: 540
Period size: 166 Copynumber: 2.0 Consensus size: 166
15984592 CTATCTTCAA
* *
15984602 CCTGCTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCAGTCTAGG
1 CCTGCTCCACTACAACCTAGGAAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCAGTATAGG
* ** ** *
15984667 AAGGCAATATTTGTTATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGCTATCTTCG
66 AAGGCAAGATCCGCAATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGCTATCTTCA
*
15984732 ATCTGCTTCACTGTCGGTACAGGAAGGAAAGATCTG
131 ATCTGCTTCACTGTCGATACAGGAAGGAAAGATCTG
15984768 CCTGCTCCACTACAACCTAGGAAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTC-GATATAG
1 CCTGCTCCACTACAACCTAGGAAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCAG-TATAG
*
15984832 GAAGGCAAGATCCGCAATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGGTATCTTC
65 GAAGGCAAGATCCGCAATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGCTATCTTC
* *
15984897 AATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTG
130 AATCTGCTTCACTGTCGATACAGGAAGGAAAGATCTG
15984934 TAATTTTTAA
Statistics
Matches: 153, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
165 1 0.01
166 152 0.99
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (166 bp):
CCTGCTCCACTACAACCTAGGAAGGCAAGGCTGGTATCTTCGATCTGCTTCACTGTCAGTATAGG
AAGGCAAGATCCGCAATCTTCAACCTGCTCCACTACAACCCAGGGAGGCAAGGCTGCTATCTTCA
ATCTGCTTCACTGTCGATACAGGAAGGAAAGATCTG
Done.