Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 108 of 310
Found at i:34487910 original size:133 final size:132
Alignment explanation
Indices: 34487773--34488066 Score: 347
Period size: 133 Copynumber: 2.2 Consensus size: 132
34487763 TTCAGTTTGT
* * * **
34487773 TCCACTGGAACTTCAGGTAGACAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGG-AGATAAGATTTATAGCTTTAATCTACTCTACTGAAACTTCAAAGAGA
* * * * *
34487838 TAATATTTGTTATCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACTTAT-AATTTCAAC
65 CAAGATTTGCTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGACAAGACTTATGAATTT-AAC
34487902 CTGC
129 CTGC
* * * *
34487906 TCCACCGCAACTTCAGCGAGATAAGGTTTATAGCTTTAATCTTCTCTTCTGAAACTTCAAAGAGA
1 TCCACTGCAACTTCAG-GAGATAAGATTTATAGCTTTAATCTACTCTACTGAAACTTCAAAGAGA
* ** * * ** *
34487971 CAAGATTTGCTATCTTCAGTCTGCTCCACTGCAATTTCAGGGAGACAAGATTTGTGGCTTTAATC
65 CAAGATTTGCTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGACAAGACTTATGAATTTAACC
34488036 TGC
130 TGC
34488039 TCCACTGCAACTTCAGGGAGATAAGATT
1 TCCACTGCAACTTCA-GGAGATAAGATT
34488067 CACCATGATG
Statistics
Matches: 134, Mismatches: 24, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
133 129 0.96
134 5 0.04
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (132 bp):
TCCACTGCAACTTCAGGAGATAAGATTTATAGCTTTAATCTACTCTACTGAAACTTCAAAGAGAC
AAGATTTGCTATCTTCAATCTGCTCCACTGCAACCTCAGGGAGACAAGACTTATGAATTTAACCT
GC
Found at i:34488974 original size:5 final size:5
Alignment explanation
Indices: 34488955--34489000 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
34488945 CCTCTCACTT
*
34488955 TTTTC TCTT- TTTTC TTTTC TTTTC TTTTC TTTTC -TTTC -TTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
34489001 GCTCTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
4 11 0.30
5 26 0.70
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:34488977 original size:10 final size:10
Alignment explanation
Indices: 34488955--34489000 Score: 62
Period size: 9 Copynumber: 4.9 Consensus size: 10
34488945 CCTCTCACTT
*
34488955 TTTTCTCTT-
1 TTTTCTTTTC
34488964 TTTTCTTTTC
1 TTTTCTTTTC
34488974 TTTTCTTTTC
1 TTTTCTTTTC
34488984 TTTTC-TTTC
1 TTTTCTTTTC
34488993 -TTTCTTTT
1 TTTTCTTTT
34489001 GCTCTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
8 4 0.12
9 15 0.44
10 15 0.44
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTCTTTTC
Found at i:34488979 original size:19 final size:21
Alignment explanation
Indices: 34488955--34489010 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
34488945 CCTCTCACTT
34488955 TTTTCTCTTTTTTC-T-TTTC
1 TTTTCTCTTTTTTCTTCTTTC
*
34488974 TTTTCTTTTCTTTTCTTTCTTTC
1 TTTTCTCTT-TTTTC-TTCTTTC
34488997 TTTTGCTCTTTTTT
1 TTTT-CTCTTTTTT
34489011 TTAGGTGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 8 0.27
20 5 0.17
22 1 0.03
23 12 0.40
24 4 0.13
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTCTCTTTTTTCTTCTTTC
Found at i:34489011 original size:24 final size:24
Alignment explanation
Indices: 34488955--34489000 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
34488945 CCTCTCACTT
34488955 TTTTCTCTTT-TTTCTTTTCTTTTC
1 TTTTCT-TTTCTTTCTTTTCTTTTC
34488979 TTTTCTTTTCTTTC-TTTCTTTT
1 TTTTCTTTTCTTTCTTTTCTTTT
34489001 GCTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTTCTTTTCTTTCTTTTCTTTTC
Found at i:34498155 original size:50 final size:50
Alignment explanation
Indices: 34498035--34498219 Score: 237
Period size: 50 Copynumber: 3.7 Consensus size: 50
34498025 CTGGTATGCA
*
34498035 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAATTATCCGGTACACG
* * * *
34498084 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAATTATCCGGTACACG
* * * * * * *
34498134 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-TTATCCGGTACACG
*
34498185 TAGTAGCCTGCACTTAGTACTACACATGCGACCTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTA
34498220 GCTACATATA
Statistics
Matches: 116, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
49 31 0.27
50 46 0.40
51 39 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAATTATCCGGTACACG
Found at i:34498237 original size:101 final size:99
Alignment explanation
Indices: 34498035--34498219 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 99
34498025 CTGGTATGCA
* * *
34498035 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAATACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
34498100 GTACTACACACGTGACCTAACTATCTGATACACG
66 GTACTACACACGCGACCTAACTATCTGATACACG
* * * *
34498134 TAGTAGCCTGCACTTAATACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAATACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
34498199 TAGTACTACACATGCGACCTA
64 TAGTACTACACACGCGACCTA
34498220 GCTACATATA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
99 28 0.37
100 3 0.04
101 44 0.59
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAATACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACTATCTGATACACG
Found at i:34501963 original size:22 final size:22
Alignment explanation
Indices: 34501938--34501981 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
34501928 TTTTCATATA
34501938 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* *
34501960 ATAAATTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
34501982 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:34502017 original size:13 final size:13
Alignment explanation
Indices: 34502001--34502026 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34501991 TTTCAATTTT
34502001 ATTTTAAAAATAA
1 ATTTTAAAAATAA
34502014 ATTTTAAAAATAA
1 ATTTTAAAAATAA
34502027 TAATATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTTAAAAATAA
Found at i:34502084 original size:15 final size:15
Alignment explanation
Indices: 34502064--34502120 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
34502054 ATTCAATATT
34502064 AATATTTTAATAATA
1 AATATTTTAATAATA
*
34502079 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
34502098 AATATATTAATAATA
1 AATATTTTAATAATA
34502113 AATATTTT
1 AATATTTT
34502121 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 18 0.53
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:34502562 original size:14 final size:14
Alignment explanation
Indices: 34502543--34502581 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
34502533 CTAAAAAAGT
34502543 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
34502557 AAATTATTTTTCGA
1 AAATTATTTTTCAA
34502571 AAATTATTTTT
1 AAATTATTTTT
34502582 AATGAAACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:34509106 original size:25 final size:26
Alignment explanation
Indices: 34509055--34509157 Score: 69
Period size: 25 Copynumber: 4.2 Consensus size: 26
34509045 TATAACTGGT
*
34509055 AGCTCC-GAATAGCCAT-TAATCGAGA
1 AGCTCCAGAATAGCCATAT-ATCGGGA
34509080 AGCTCCAG-ATAGCCATATATCGGGA
1 AGCTCCAGAATAGCCATATATCGGGA
* * *
34509105 AGTTCAAGCA-AGCC--ATATCGGGA
1 AGCTCCAGAATAGCCATATATCGGGA
* * *
34509128 AGCTCTA-AAGAGCCA-ATTAACGGGA
1 AGCTCCAGAATAGCCATA-TATCGGGA
34509153 AGCTC
1 AGCTC
34509158 ACGAAGAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
22 1 0.02
23 18 0.28
24 1 0.02
25 42 0.65
26 3 0.05
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (26 bp):
AGCTCCAGAATAGCCATATATCGGGA
Found at i:34509169 original size:25 final size:23
Alignment explanation
Indices: 34509115--34509189 Score: 64
Period size: 25 Copynumber: 3.1 Consensus size: 23
34509105 AGTTCAAGCA
*
34509115 AGCC-ATATCGGGAAGCTCTAAAG
1 AGCCAATAACGGGAAGCTC-AAAG
34509138 AGCCAATTAACGGGAAGCTCACGAAG
1 AGCCAA-TAACGGGAAGCTCA--AAG
* *
34509164 AG-CAATAACAGGACGCTCATAAG
1 AGCCAATAACGGGAAGCTCA-AAG
34509187 AGC
1 AGC
34509190 TAAGGTGTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
23 9 0.21
24 14 0.33
25 15 0.35
26 5 0.12
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.13
Consensus pattern (23 bp):
AGCCAATAACGGGAAGCTCAAAG
Found at i:34509181 original size:24 final size:26
Alignment explanation
Indices: 34509135--34509182 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
34509125 GGAAGCTCTA
*
34509135 AAGAGCCAATTAACGGGAAGCTCACG
1 AAGAGCCAATTAACAGGAAGCTCACG
*
34509161 AAGAG-CAA-TAACAGGACGCTCA
1 AAGAGCCAATTAACAGGAAGCTCA
34509183 TAAGAGCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 3 0.15
26 5 0.25
ACGTcount: A:0.42, C:0.23, G:0.25, T:0.10
Consensus pattern (26 bp):
AAGAGCCAATTAACAGGAAGCTCACG
Found at i:34514190 original size:18 final size:18
Alignment explanation
Indices: 34514167--34514227 Score: 95
Period size: 18 Copynumber: 3.4 Consensus size: 18
34514157 GCACTTGAAT
*
34514167 AACTCAATTTCTAGTATA
1 AACTCAATTTCCAGTATA
34514185 AACTCAATTTCCAGTATA
1 AACTCAATTTCCAGTATA
*
34514203 AACTCAATTTCCAGCATA
1 AACTCAATTTCCAGTATA
*
34514221 GACTCAA
1 AACTCAA
34514228 ATTTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (18 bp):
AACTCAATTTCCAGTATA
Found at i:34515022 original size:15 final size:15
Alignment explanation
Indices: 34515004--34515033 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
34514994 AAATTTTAAT
34515004 TTTTTATAATTTATA
1 TTTTTATAATTTATA
34515019 TTTTTATAATTTATA
1 TTTTTATAATTTATA
34515034 AAAGATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTATA
Found at i:34515546 original size:27 final size:27
Alignment explanation
Indices: 34515508--34515565 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
34515498 CATTTTGAGC
* *
34515508 TTCTCTAACTCCAATCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCACCCTCTCA
34515535 TTCTCTAACTCCAATCTCACCCTCTCA
1 TTCTCTAACTCCAATCTCACCCTCTCA
34515562 TTCT
1 TTCT
34515566 GGTGCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.40, G:0.02, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCACCCTCTCA
Found at i:34517321 original size:3 final size:3
Alignment explanation
Indices: 34517315--34517345 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
34517305 CATCATCATC
34517315 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
34517346 AATTTTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:34520170 original size:65 final size:65
Alignment explanation
Indices: 34520062--34520208 Score: 240
Period size: 65 Copynumber: 2.3 Consensus size: 65
34520052 GATACATGGA
* *
34520062 TCTCCAACATACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAATAC
1 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
* * * *
34520127 TCTCCAACACACCAATTGACTCATAGAGTTGAACATATTCCAAAAGTGAAGCATAAAGTTAACAC
1 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
34520192 TCTCCAACACACCAAAT
1 TCTCCAACACACCAAAT
34520209 ATGTCCTGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 75 1.00
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.21
Consensus pattern (65 bp):
TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
Found at i:34522397 original size:4 final size:4
Alignment explanation
Indices: 34522388--34522412 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
34522378 TCTAACATTC
34522388 ACAA ACAA ACAA ACAA ACAA ACAA A
1 ACAA ACAA ACAA ACAA ACAA ACAA A
34522413 GGTGTGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (4 bp):
ACAA
Found at i:34524226 original size:15 final size:15
Alignment explanation
Indices: 34524206--34524239 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
34524196 TTCATAAAGT
34524206 ATAAAAACTAATAGC
1 ATAAAAACTAATAGC
34524221 ATAAAAACTAATAGC
1 ATAAAAACTAATAGC
34524236 ATAA
1 ATAA
34524240 TTTAACCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (15 bp):
ATAAAAACTAATAGC
Found at i:34526542 original size:27 final size:27
Alignment explanation
Indices: 34526504--34526561 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
34526494 CATTTTGAGC
* *
34526504 TTCTCTAACTCCAGTCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
34526531 TTCTCTAACTCCAATCTCAGCCTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
34526558 TTCT
1 TTCT
34526562 GGTGCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCAGCCTCTCA
Found at i:34532218 original size:26 final size:27
Alignment explanation
Indices: 34532189--34532261 Score: 87
Period size: 26 Copynumber: 2.7 Consensus size: 27
34532179 TCGGTCATTG
*
34532189 AGCACTAAGTGTG-AAAGTTGGTTTTA-
1 AGCACTAAGTGTGCAAA-TTGGATTTAC
34532215 AGCACTAAGTGTGCAAATTGGATTTAC
1 AGCACTAAGTGTGCAAATTGGATTTAC
*
34532242 GAGCACTAAGTTTGCGAAAT
1 -AGCACTAAGTGTGC-AAAT
34532262 CAGTTATTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
26 21 0.51
27 3 0.07
28 13 0.32
29 4 0.10
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCAAATTGGATTTAC
Found at i:34533617 original size:18 final size:17
Alignment explanation
Indices: 34533575--34533632 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
34533565 TAAATAAGTG
34533575 AATAAA-TAATGATAA-
1 AATAAAGTAATGATAAT
34533590 AAT-AAG-AATGATAGAT
1 AATAAAGTAATGATA-AT
*
34533606 AATAAAGTAATGACAAT
1 AATAAAGTAATGATAAT
34533623 AATAGAAGTA
1 AATA-AAGTA
34533633 TAAATAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.25
15 4 0.11
16 3 0.08
17 9 0.25
18 11 0.31
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (17 bp):
AATAAAGTAATGATAAT
Found at i:34534686 original size:7 final size:7
Alignment explanation
Indices: 34534674--34534706 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
34534664 GACAAAAGAT
34534674 AAATATA
1 AAATATA
34534681 AAATATA
1 AAATATA
34534688 AAA-ATA
1 AAATATA
34534694 AAA-ATA
1 AAATATA
34534700 AAATATA
1 AAATATA
34534707 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAATATA
Found at i:34534694 original size:6 final size:6
Alignment explanation
Indices: 34534667--34534728 Score: 52
Period size: 6 Copynumber: 9.7 Consensus size: 6
34534657 GATTTATGAC
* * *
34534667 AAAAGAT AAATAT AAAATAT AAAAAT AAAAAT AAAATAT AGAAAAA AAAAAC
1 AAAA-AT AAAAAT AAAA-AT AAAAAT AAAAAT AAAA-AT A-AAAAT AAAAAT
*
34534719 AAAAAG AAAA
1 AAAAAT AAAA
34534729 CGAAATGTAG
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
6 30 0.64
7 14 0.30
8 3 0.06
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:34534700 original size:19 final size:19
Alignment explanation
Indices: 34534667--34534722 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
34534657 GATTTATGAC
*
34534667 AAAAGATAAATATAAAATAT
1 AAAA-ATAAAAATAAAATAT
34534687 AAAAATAAAAATAAAATAT
1 AAAAATAAAAATAAAATAT
* *
34534706 AGAAAAAAAAAACAAAA
1 A-AAAATAAAAATAAAA
34534723 AGAAAACGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.16
Consensus pattern (19 bp):
AAAAATAAAAATAAAATAT
Found at i:34534715 original size:13 final size:13
Alignment explanation
Indices: 34534674--34534715 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
34534664 GACAAAAGAT
34534674 AAATATAAAATATA
1 AAATATAAAA-ATA
34534688 AAA-ATAAAAATA
1 AAATATAAAAATA
34534700 AAATATAGAAAA-A
1 AAATATA-AAAATA
34534713 AAA
1 AAA
34534716 AACAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.23
13 13 0.50
14 7 0.27
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (13 bp):
AAATATAAAAATA
Found at i:34534716 original size:26 final size:26
Alignment explanation
Indices: 34534667--34534728 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
34534657 GATTTATGAC
* *
34534667 AAAAGATAAATATAAAATATAAAAATA
1 AAAAGA-AAATATAAAATAAAAAAACA
*
34534694 AAAATAAAATATAGAAA-AAAAAAACA
1 AAAAGAAAATATA-AAATAAAAAAACA
34534720 AAAAGAAAA
1 AAAAGAAAA
34534729 CGAAATGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 22 0.73
27 8 0.27
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.15
Consensus pattern (26 bp):
AAAAGAAAATATAAAATAAAAAAACA
Found at i:34534910 original size:18 final size:19
Alignment explanation
Indices: 34534879--34534916 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
34534869 TGCCTATGCC
* *
34534879 TTTTGTTTTCTTGCTTTGT
1 TTTTGCTTTCTTGCTCTGT
34534898 TTTTGCTTT-TTGCTCTGT
1 TTTTGCTTTCTTGCTCTGT
34534916 T
1 T
34534917 GTCTTGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.13, G:0.16, T:0.71
Consensus pattern (19 bp):
TTTTGCTTTCTTGCTCTGT
Found at i:34540281 original size:4 final size:4
Alignment explanation
Indices: 34540268--34540332 Score: 50
Period size: 4 Copynumber: 17.0 Consensus size: 4
34540258 ATAAAACACC
* *
34540268 TAAA -AAA TAAA TAAA T-AA TAAA T-AA TAAA T-AA TAAA TTAA TAAGGT
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA--A
*
34540314 TAAA -AAT TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA
34540333 AATAAAAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
3 14 0.29
4 31 0.65
6 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:34540282 original size:11 final size:11
Alignment explanation
Indices: 34540268--34540340 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
34540258 ATAAAACACC
34540268 TAAAAAATAAA
1 TAAAAAATAAA
*
34540279 TAAATAATAAA
1 TAAAAAATAAA
*
34540290 TAATAAAT-AA
1 TAAAAAATAAA
* *
34540300 TAAATTAATAAGGT
1 TAAA-AAATAA--A
*
34540314 TAAAAATTAAA
1 TAAAAAATAAA
*
34540325 TAAATAA-AAA
1 TAAAAAATAAA
34540335 TAAAAA
1 TAAAAA
34540341 CCAAGCTGTA
Statistics
Matches: 46, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
10 13 0.28
11 24 0.52
12 1 0.02
13 4 0.09
14 4 0.09
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:34540287 original size:7 final size:7
Alignment explanation
Indices: 34540272--34540310 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
34540262 AACACCTAAA
34540272 AAATAAAT
1 AAAT-AAT
34540280 AAATAAT
1 AAATAAT
34540287 AAATAAT
1 AAATAAT
34540294 AAATAAT
1 AAATAAT
34540301 AAATTAAT
1 AAA-TAAT
34540309 AA
1 AA
34540311 GGTTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 20 0.67
8 10 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:34545192 original size:77 final size:77
Alignment explanation
Indices: 34545064--34545292 Score: 449
Period size: 77 Copynumber: 3.0 Consensus size: 77
34545054 CACTTAGGCT
*
34545064 ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACGCCCTGAGACACATATCAT
1 ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
34545129 GACATCATTTAA
66 GACATCATTTAA
34545141 ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
1 ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
34545206 GACATCATTTAA
66 GACATCATTTAA
34545218 ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
1 ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
34545283 GACATCATTT
66 GACATCATTT
34545293 TAATGATTTA
Statistics
Matches: 151, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 151 1.00
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.37
Consensus pattern (77 bp):
ATTTTCCAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
GACATCATTTAA
Found at i:34546908 original size:49 final size:46
Alignment explanation
Indices: 34546791--34547061 Score: 208
Period size: 49 Copynumber: 5.7 Consensus size: 46
34546781 GTAGGATGCT
* * * *
34546791 GATGTCATGTGCCAAACATGGTCTTACACTGACTCAT-ACATCAAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCACATC-AGCC
34546838 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAC-ATC-A-GCC
* * * * * *
34546887 CACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCGTGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAC--AT-C-AGCC
* * * * *
34546937 GATGCCATGTCCTAAACATGGTCTTACACTAACACATCTCAT-AGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCACATCAGCC
* ** *
34546983 GATGCCATGTCGCAGACATGGTCTTACACT-AGCCCTCGTC-TCCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTATC-ACAT-CA-GCC
*
34547031 AATGCCATGTCCCAGACATGGTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
34547062 GCTCTTATAA
Statistics
Matches: 183, Mismatches: 29, Indels: 22
0.78 0.12 0.09
Matches are distributed among these distances:
45 5 0.03
46 34 0.19
47 34 0.19
48 35 0.19
49 39 0.21
50 31 0.17
51 5 0.03
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACATCAGCC
Found at i:34546965 original size:50 final size:49
Alignment explanation
Indices: 34546791--34547106 Score: 192
Period size: 47 Copynumber: 6.6 Consensus size: 49
34546781 GTAGGATGCT
* * * * *
34546791 GATGTCATGTGCCAAACATGGTCTTACACTGACTCAT-AC-ATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCACAATCGAGGAC
*
34546838 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
* * * * *
34546887 CACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCG-TGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACA-AT-CGAGGAC
* * * * * *
34546937 GATGCCATGTCCTAAACATGGTCTTACACTAACACATCTC-AT--A-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCACAATCGAGGAC
* ** * * * *
34546983 GATGCCATGTCGCAGACATGGTCTTACACT-AGCCCTCGTC--TCCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTATC-ACAATCGAGGAC
* * * * * * *
34547031 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
*
34547079 GATG-TATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
34547107 AGCACACATG
Statistics
Matches: 217, Mismatches: 37, Indels: 31
0.76 0.13 0.11
Matches are distributed among these distances:
45 5 0.02
46 44 0.20
47 47 0.22
48 43 0.20
49 42 0.19
50 31 0.14
51 5 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
Found at i:34547063 original size:144 final size:145
Alignment explanation
Indices: 34546791--34547066 Score: 364
Period size: 144 Copynumber: 1.9 Consensus size: 145
34546781 GTAGGATGCT
* * * *
34546791 GATGTCATGTGCCAAACATGGTCTTACACTGACTCATACATCAAGTCGATGCCATGTCCCAGACA
1 GATGCCATGTGCCAAACATGGTCTTACACTAACACATACATCAAGCCGATGCCATGTCCCAGACA
* * *
34546856 TGGTCTTACACTGACTATCACAATCGAGGCCCACGCCATGTCCCAGACATGGTCTTACACTGGCT
66 TGGTCTTACACTGACCATCAC-ATCCAGGCCAACGCCATGTCCCAGACATGGTCTTACACTGGCT
34546921 CTCACATATCCGTGAC
130 CTCACATATCCGTGAC
*
34546937 GATGCCATGT-CCTAAACATGGTCTTACACTAACACAT-C-TCATAGCCGATGCCATGTCGCAGA
1 GATGCCATGTGCC-AAACATGGTCTTACACTAACACATACATCA-AGCCGATGCCATGTCCCAGA
* * * *
34546999 CATGGTCTTACACT-AGCCCTCGTC-TCCATGCCAATGCCATGTCCCAGACATGGTCTTACACTG
64 CATGGTCTTACACTGA-CCATC-ACATCCAGGCCAACGCCATGTCCCAGACATGGTCTTACACTG
34547062 GCTCT
127 GCTCT
34547067 TATAATGTGG
Statistics
Matches: 114, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
144 44 0.39
145 38 0.33
146 32 0.28
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (145 bp):
GATGCCATGTGCCAAACATGGTCTTACACTAACACATACATCAAGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGACCATCACATCCAGGCCAACGCCATGTCCCAGACATGGTCTTACACTGGCTC
TCACATATCCGTGAC
Found at i:34547101 original size:94 final size:98
Alignment explanation
Indices: 34546839--34547109 Score: 275
Period size: 94 Copynumber: 2.8 Consensus size: 98
34546829 CATCAAGTCG
* * * * * *
34546839 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGCCCACGCCATGTCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATAAT-GTGGCCGATGCCATGTCCCAGAC
* * *
34546904 ATGGTCTTACACTGGCTCTCACATATCCGTGACG
65 ATGGTCTTACACTAGCTCTCACATATCCATGACA
* * * * * * * * *
34546938 ATGCCATGTCCTAAACATGGTCTTACACTAACACATCTCA--TAGCCGATGCCATGTCGCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATAATGTGGCCGATGCCATGTCCCAGACA
* * * *
34547001 TGGTCTTACACTAGC-C-CTCGTCTCCATGCCA
66 TGGTCTTACACTAGCTCTCACATATCCATGACA
* *
34547032 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAATGTGGCCGATG-TATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATAATGTGGCCGATGCCATGTCCCAGACA
34547096 T-GTCTTACACTAGC
66 TGGTCTTACACTAGC
34547110 ACACATGTCA
Statistics
Matches: 137, Mismatches: 33, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
94 54 0.39
95 13 0.09
96 40 0.29
99 30 0.22
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.26
Consensus pattern (98 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCTTATAATGTGGCCGATGCCATGTCCCAGACA
TGGTCTTACACTAGCTCTCACATATCCATGACA
Found at i:34552438 original size:27 final size:27
Alignment explanation
Indices: 34552398--34552451 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
34552388 CAGGTACAAC
* *
34552398 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
34552425 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
34552452 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:34557381 original size:17 final size:17
Alignment explanation
Indices: 34557361--34557393 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
34557351 GGATAGACTA
*
34557361 ATTATTAGGAGAGATTG
1 ATTACTAGGAGAGATTG
34557378 ATTACTAGGAGAGATT
1 ATTACTAGGAGAGATT
34557394 ACTTAATACA
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:0.36, C:0.03, G:0.27, T:0.33
Consensus pattern (17 bp):
ATTACTAGGAGAGATTG
Found at i:34558124 original size:21 final size:21
Alignment explanation
Indices: 34558098--34558149 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
34558088 GTGCATTTGG
34558098 AGCTTCTC-TAACTCCAATCTC
1 AGCTTCTCAT-ACTCCAATCTC
*
34558119 AGCTTCTCATTCTCCAATCTC
1 AGCTTCTCATACTCCAATCTC
*
34558140 AGCCTCTCAT
1 AGCTTCTCAT
34558150 TCTGGTGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.21, C:0.38, G:0.06, T:0.35
Consensus pattern (21 bp):
AGCTTCTCATACTCCAATCTC
Found at i:34558150 original size:21 final size:21
Alignment explanation
Indices: 34558109--34558152 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
34558099 GCTTCTCTAA
*
34558109 CTCCAATCTCAGCTTCTCATT
1 CTCCAATCTCAGCCTCTCATT
34558130 CTCCAATCTCAGCCTCTCATT
1 CTCCAATCTCAGCCTCTCATT
34558151 CT
1 CT
34558153 GGTGCAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.18, C:0.41, G:0.05, T:0.36
Consensus pattern (21 bp):
CTCCAATCTCAGCCTCTCATT
Found at i:34559542 original size:28 final size:28
Alignment explanation
Indices: 34559510--34559565 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
34559500 ACGAGGGAAA
34559510 GAGAAGGGGCTTTAGAAAGCTGTTCTTG
1 GAGAAGGGGCTTTAGAAAGCTGTTCTTG
*
34559538 GAGAAGGGGTTTTAGAAAGCTGTTCTTG
1 GAGAAGGGGCTTTAGAAAGCTGTTCTTG
34559566 TGAGGTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.30
Consensus pattern (28 bp):
GAGAAGGGGCTTTAGAAAGCTGTTCTTG
Found at i:34561688 original size:96 final size:96
Alignment explanation
Indices: 34561524--34561713 Score: 308
Period size: 96 Copynumber: 2.0 Consensus size: 96
34561514 TCGCTTCTTT
* *
34561524 TTGCTCCTCTTTTCCCTCTTGGCTTCGGATTTTCCCTTACTCGAATCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
* *
34561589 GTCTGCTCCATCATTCCCTTCGATGACAGAC
66 GTCTACTCCATCATTCCCATCGATGACAGAC
* * *
34561620 TTGCTCCTCTTTGCCCTCTTGGCTTCGGTTTTTCCCTTGCTCGAACCAAGTTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGGATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
*
34561685 GTCTACTCCATCGTTCCCATCGATGACAG
66 GTCTACTCCATCATTCCCATCGATGACAG
34561714 GCTTCCTCGG
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.12, C:0.33, G:0.17, T:0.38
Consensus pattern (96 bp):
TTGCTCCTCTTTGCCCTCTTGGCTTCGGATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
GTCTACTCCATCATTCCCATCGATGACAGAC
Found at i:34563855 original size:12 final size:12
Alignment explanation
Indices: 34563838--34563863 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34563828 CATTCATTCT
34563838 TACATATATATA
1 TACATATATATA
34563850 TACATATATATA
1 TACATATATATA
34563862 TA
1 TA
34563864 TTTCTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TACATATATATA
Found at i:34565176 original size:19 final size:19
Alignment explanation
Indices: 34565152--34565188 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34565142 AAAAATCTAT
34565152 TAAAAATAATTCGGAAAAA
1 TAAAAATAATTCGGAAAAA
* *
34565171 TAAAAATATTTTGGAAAA
1 TAAAAATAATTCGGAAAA
34565189 TTAATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (19 bp):
TAAAAATAATTCGGAAAAA
Found at i:34565327 original size:27 final size:27
Alignment explanation
Indices: 34565271--34565329 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
34565261 ATTGGGGGTT
* **
34565271 AATTTGAGTTAATTTAAATATTAATTA
1 AATTTGAGTTAATTTAAATATAAAGGA
*
34565298 AATTTGATTTAATTGTAAA-ATAAAGGA
1 AATTTGAGTTAATT-TAAATATAAAGGA
34565325 AATTT
1 AATTT
34565330 TGGAGTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (27 bp):
AATTTGAGTTAATTTAAATATAAAGGA
Found at i:34566961 original size:6 final size:6
Alignment explanation
Indices: 34566950--34566979 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
34566940 CAATCCGGGA
34566950 CTGATT CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT
34566980 GGGAGTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
CTGATT
Found at i:34584339 original size:20 final size:19
Alignment explanation
Indices: 34584314--34584361 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
34584304 AAAACATAAA
34584314 ATTTTAAAAACTATAATTTT
1 ATTTTAAAAACTATAA-TTT
* *
34584334 ATTTTAAAAATTTTAATTT
1 ATTTTAAAAACTATAATTT
34584353 -TTTTAAAAA
1 ATTTTAAAAA
34584362 AAATTATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 9 0.35
19 3 0.12
20 14 0.54
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTTTAAAAACTATAATTT
Found at i:34584660 original size:15 final size:17
Alignment explanation
Indices: 34584633--34584667 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
34584623 TAAAGCAAAT
34584633 AAATTATTAAAA-TAAA
1 AAATTATTAAAATTAAA
34584649 AAATTA-TAAAATTAAA
1 AAATTATTAAAATTAAA
34584665 AAA
1 AAA
34584668 ATGGGTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAATTATTAAAATTAAA
Found at i:34584838 original size:28 final size:28
Alignment explanation
Indices: 34584804--34584863 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
34584794 GTGTTTTGTT
*
34584804 AAAATAATTTAGGGTTTAAGAATT-TTAA
1 AAAATAAATTAGGGTTT-AGAATTGTTAA
*
34584832 AAAATAAATTAGGGTTTAGAGTTGTTAA
1 AAAATAAATTAGGGTTTAGAATTGTTAA
34584860 AAAA
1 AAAA
34584864 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (28 bp):
AAAATAAATTAGGGTTTAGAATTGTTAA
Found at i:34584959 original size:34 final size:33
Alignment explanation
Indices: 34584836--34584965 Score: 163
Period size: 34 Copynumber: 3.8 Consensus size: 33
34584826 TTTTAAAAAA
* *
34584836 TAAATTAGGGTTTAGAGTTGTTAAAAAAATTAAT
1 TAAATTAGGGTTTAGAGTT-TTTAAAATATTAAT
* *
34584870 TAAATTAGGTTTTAGGAG-TTTTAAATTAATTAAT
1 TAAATTAGGGTTTA-GAGTTTTTAAAAT-ATTAAT
34584904 TAAATTAGGGTTTAGAGTTTTTAAGAATATTAAT
1 TAAATTAGGGTTTAGAGTTTTTAA-AATATTAAT
**
34584938 TAAATTAGGGTTTAGTTTTTTTAAAATA
1 TAAATTAGGGTTTAGAGTTTTTAAAATA
34584966 AATTTGTGTT
Statistics
Matches: 84, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
33 12 0.14
34 67 0.80
35 5 0.06
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (33 bp):
TAAATTAGGGTTTAGAGTTTTTAAAATATTAAT
Found at i:34585273 original size:125 final size:126
Alignment explanation
Indices: 34585060--34585444 Score: 472
Period size: 125 Copynumber: 3.1 Consensus size: 126
34585050 TTTTTTTATG
* * * * *** *
34585060 GTAGTTTCAGAAAAATTAATTTTGGGAAGACAATTCTGAAAAGATAATGTCAAAAACGCTTCAAG
1 GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAG
** * * *
34585125 CAAGATGCACCATCAGCAAAATTACTGAAAAAAGCTTCTACGTGAACGCCCTTTTTCTACA
66 CAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
* *
34585186 ATAGTTCCTGAAAAAATAATTTTGAG-AGATGGTTCTGAAAAAATATTGTCAAAAACGCTTCAAG
1 GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAG
* ** * * *
34585250 CAAAATGTGCTGTCAGCAAAATTACTGAAAAAA-CTCCAACGTGGAC-ATTTTTTTCTACA
66 CAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
* * *
34585309 GTAGTTCCTAAAAAAATAATTTTGAGAAGATGGTTCT-AAAAAATAGTGTCAAAAAACACTTCAA
1 GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTC-AAAAACGCTTCAA
** * * *
34585373 GCCGGATGCACTGTTAACAAAATTACTAAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
65 GCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
34585435 GTAGTTCCTG
1 GTAGTTCCTG
34585445 CTTGGCCTTA
Statistics
Matches: 218, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
123 46 0.21
124 58 0.27
125 73 0.33
126 41 0.19
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAG
CAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
Found at i:34587468 original size:27 final size:27
Alignment explanation
Indices: 34587427--34587532 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
34587417 TGAACATCTT
* *
34587427 TAACTCTAATATCAGCTTCTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
*
34587454 TAACTCCAATCTCAGCTTTTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
*
34587481 TAACTCCCATCTCAGCTTCTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
* *
34587508 CAACTCCAATCTCA-CCTCTCATTCT
1 TAACTCCAATCTCAGCTTCTCATTCT
34587533 GGTGCAACAA
Statistics
Matches: 71, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
26 10 0.14
27 61 0.86
ACGTcount: A:0.23, C:0.37, G:0.03, T:0.38
Consensus pattern (27 bp):
TAACTCCAATCTCAGCTTCTCATTCTC
Found at i:34587667 original size:93 final size:93
Alignment explanation
Indices: 34587509--34587717 Score: 278
Period size: 93 Copynumber: 2.3 Consensus size: 93
34587499 CTCATTCTCC
* ** * * *
34587509 AACTCCAATCTCA-CCTCT-CATTCTGGTGCAACAATTGTTCTTTTTCGTTGATCACTTGAATCA
1 AACTCCAATCTCAGCCT-TGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCA
* *
34587572 ATTCCAAGTTCTGTTCCCTTTGACGCTCA
65 ATTCCAAATTCTGTTCCCTTTCACGCTCA
*
34587601 AACTCCAATCTCAGCCTTGCATTCCGGTGCAATAATTGACCTTCTACATTGATCACTTGAATCAA
1 AACTCCAATCTCAGCCTTGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCAA
* * *
34587666 TTTCAAATTCTGTTCCGTTTCACGCTCT
66 TTCCAAATTCTGTTCCCTTTCACGCTCA
*
34587694 AACTCCAATCTCAGCCTCGCATTC
1 AACTCCAATCTCAGCCTTGCATTC
34587718 TCCTTCTCCA
Statistics
Matches: 102, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
92 14 0.14
93 88 0.86
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.35
Consensus pattern (93 bp):
AACTCCAATCTCAGCCTTGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCAA
TTCCAAATTCTGTTCCCTTTCACGCTCA
Found at i:34589039 original size:65 final size:65
Alignment explanation
Indices: 34588935--34589065 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
34588925 ACTAATGATG
*
34588935 AGGGAAAGAGAAGGGTTTTAAGAAAGCTTTTGTTTAAAATTTTAAAATTACAAAAGTATACAGCA
1 AGGGAAAGAGAAGGGGTTTAAGAAAGCTTTTGTTTAAAATTTTAAAATTACAAAAGTATACAGCA
34589000 AGGGAAAGAGAAGGGGTTTAAGAAAGCTTTTGTTTAAAATTTTAAAATTACAAAAGTATACAGCA
1 AGGGAAAGAGAAGGGGTTTAAGAAAGCTTTTGTTTAAAATTTTAAAATTACAAAAGTATACAGCA
34589065 A
1 A
34589066 ATCACTTTAT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (65 bp):
AGGGAAAGAGAAGGGGTTTAAGAAAGCTTTTGTTTAAAATTTTAAAATTACAAAAGTATACAGCA
Found at i:34592142 original size:40 final size:40
Alignment explanation
Indices: 34592070--34592346 Score: 254
Period size: 41 Copynumber: 6.8 Consensus size: 40
34592060 AATAGAGCTT
* * *
34592070 TAGCGGCGTTTTAACTAAAAACGCTGCTAAAAATAGAGCAA
1 TAGCGGCGTTTTACCT-AAAACGCCGCTAAAAACAGAGCAA
***
34592111 TAGCGGCGTTTTTGGTAAAACGCCGCTAAAAAACAGAGCAA
1 TAGCGGCGTTTTACCTAAAACGCCGCT-AAAAACAGAGCAA
* * *
34592152 TAGCGGCGTTTTACCAAAAATGCTGCTAAAAACAGAGCAA
1 TAGCGGCGTTTTACCTAAAACGCCGCTAAAAACAGAGCAA
* *
34592192 TAGCAGCGTTTTACCAAAAACGCCGCTAAAAACCAGAGCAA
1 TAGCGGCGTTTTACCTAAAACGCCGCTAAAAA-CAGAGCAA
** * *
34592233 TAGCATCGTTTTACCAAAAACGCGCCGCTAAAAACCAGAGCAT
1 TAGCGGCGTTTTACCTAAAA--CGCCGCTAAAAA-CAGAGCAA
* * *
34592276 TAGCGGCGCTTT-CAGTAAAACGCCGCTTAAAACCAGAGC-A
1 TAGCGGCGTTTTAC-CTAAAACGCCGC-TAAAAACAGAGCAA
* * * *
34592316 TTGCGACGCTTT-CGATAAAACGCCGCTAAAA
1 TAGCGGCGTTTTAC-CTAAAACGCCGCTAAAA
34592347 GTCATAAAAC
Statistics
Matches: 203, Mismatches: 27, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
39 5 0.02
40 74 0.36
41 85 0.42
42 6 0.03
43 33 0.16
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (40 bp):
TAGCGGCGTTTTACCTAAAACGCCGCTAAAAACAGAGCAA
Found at i:34592201 original size:81 final size:81
Alignment explanation
Indices: 34592070--34592315 Score: 303
Period size: 81 Copynumber: 3.0 Consensus size: 81
34592060 AATAGAGCTT
* * **
34592070 TAGCGGCGTTTTAACTAAAAACGCTGCTAAAAATAGAGCAATAGCGGCGTTTTTGGTAAAACGCC
1 TAGCGGCGTTTT-ACCAAAAACGCTGCTAAAAACAGAGCAATAGCGGCGTTTTAAGTAAAACGCC
*
34592135 GCTAAAAAACAGAGCAA
65 GCTAAAAACCAGAGCAA
* * ***
34592152 TAGCGGCGTTTTACCAAAAATGCTGCTAAAAACAGAGCAATAGCAGCGTTTTACCAAAAACGCCG
1 TAGCGGCGTTTTACCAAAAACGCTGCTAAAAACAGAGCAATAGCGGCGTTTTAAGTAAAACGCCG
34592217 CTAAAAACCAGAGCAA
66 CTAAAAACCAGAGCAA
** * * * *
34592233 TAGCATCGTTTTACCAAAAACGCGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCAGTAAAACG
1 TAGCGGCGTTTTACCAAAAA--CGCTGCTAAAAA-CAGAGCAATAGCGGCGTTTTAAGTAAAACG
*
34592298 CCGCTTAAAACCAGAGCA
63 CCGCTAAAAACCAGAGCA
34592316 TTGCGACGCT
Statistics
Matches: 140, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
81 78 0.56
82 12 0.09
83 10 0.07
84 40 0.29
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (81 bp):
TAGCGGCGTTTTACCAAAAACGCTGCTAAAAACAGAGCAATAGCGGCGTTTTAAGTAAAACGCCG
CTAAAAACCAGAGCAA
Found at i:34607520 original size:45 final size:45
Alignment explanation
Indices: 34607456--34607543 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 45
34607446 ATTGTTGCTG
34607456 GAGTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTACTA
1 GAGTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTACTA
*
34607501 GAGTGTTGGTCCTGATGAATTTGGGAGGAATCAATGCACTTAC
1 GAGTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTAC
34607544 ATATTATTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (45 bp):
GAGTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTACTA
Found at i:34608629 original size:43 final size:43
Alignment explanation
Indices: 34608536--34608763 Score: 264
Period size: 43 Copynumber: 5.3 Consensus size: 43
34608526 AAGTTTATAT
* * * *
34608536 TCTTTAGCGGCGTTTGTGAAAAAAGTGCCGCTAAAGGT-TTGA
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* * * * *
34608578 TATATAGCGGCGTTTTTAGAAAAAGCGACGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
*
34608621 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* *
34608664 TCTTTAGCGGCGTTTGGGGAAAAAGCGCTGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
* * * * *
34608707 TCTTTAACGGCGTTTTTTTG-CAAA-CGCCGCTAAAAGTCATGG
1 TCTTTAGCGGCG-TTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
*
34608749 TCTTTTGCGGCGTTT
1 TCTTTAGCGGCGTTT
34608764 TTTGCGGCGC
Statistics
Matches: 157, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
41 3 0.02
42 57 0.36
43 93 0.59
44 4 0.03
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGG
Found at i:34612325 original size:24 final size:24
Alignment explanation
Indices: 34612298--34612347 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
34612288 ACTAATGGAC
*
34612298 TTTTATTGTTTTTA-TTTTGGTTTT
1 TTTTATT-TTTTAATTTTTGGTTTT
*
34612322 TTTTGTTTTTTAATTTTTGGTTTT
1 TTTTATTTTTTAATTTTTGGTTTT
34612346 TT
1 TT
34612348 GGTTTTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.08, C:0.00, G:0.12, T:0.80
Consensus pattern (24 bp):
TTTTATTTTTTAATTTTTGGTTTT
Found at i:34614302 original size:23 final size:23
Alignment explanation
Indices: 34614261--34614312 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
34614251 AGTAATATAC
* *
34614261 AAAATAATATACATTAATTCAAA
1 AAAATAATATACATAAATTAAAA
* *
34614284 TAAATAATATACCTAAATTAAAA
1 AAAATAATATACATAAATTAAAA
34614307 AAAATA
1 AAAATA
34614313 GTGTAATGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (23 bp):
AAAATAATATACATAAATTAAAA
Found at i:34616359 original size:15 final size:15
Alignment explanation
Indices: 34616339--34616378 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
34616329 ATTCTATTTA
34616339 TATTTTATTTCAT-AT
1 TATTTTATTT-ATAAT
34616354 TATTTTATTTATAAT
1 TATTTTATTTATAAT
*
34616369 TAATTTATTT
1 TATTTTATTT
34616379 TGTTCGATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.09
15 21 0.91
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTATTTATAAT
Found at i:34616405 original size:36 final size:36
Alignment explanation
Indices: 34616364--34616435 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
34616354 TATTTTATTT
34616364 ATAATTAATTTATTTTGTTCGATAACGTGTTTTGTC
1 ATAATTAATTTATTTTGTTCGATAACGTGTTTTGTC
* * *
34616400 ATAATTAATTTATTTTGTTTGCTAACTTGTTTTGTC
1 ATAATTAATTTATTTTGTTCGATAACGTGTTTTGTC
34616436 TAACAATCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.56
Consensus pattern (36 bp):
ATAATTAATTTATTTTGTTCGATAACGTGTTTTGTC
Found at i:34616937 original size:76 final size:76
Alignment explanation
Indices: 34616810--34617026 Score: 240
Period size: 76 Copynumber: 2.8 Consensus size: 76
34616800 TTTTGGGATT
* * * *
34616810 GATTCTCGCCGTTTAATGATTTTATTTCAAAATTGTTTTATTTCCAAAAACGAGTTAAATAAAAT
1 GATTCTCACCATTTAATGATTTTA-TTCCAAATTTTTTTATTTCCAAAAACGAGTTAAATAAAAT
*
34616875 CATTTCGGGACC
65 CATTTCAGGACC
* *
34616887 GATT-TCCACCATTTAATGATTTTATTCCAAATTTTTTTATTTTCAAAAACGAGTAAAATAAAAT
1 GATTCT-CACCATTTAATGATTTTATTCCAAATTTTTTTATTTCCAAAAACGAGTTAAATAAAAT
* *
34616951 CGTTTCAGGATC
65 CATTTCAGGACC
** * * * * *
34616963 GATTCTCGTCGTTCAACGATTTTATTCCAATTTTGTTTTATTTCCAAAAACAAG-TAACATAAAA
1 GATTCTCACCATTTAATGATTTTATTCCAAATTT-TTTTATTTCCAAAAACGAGTTAA-ATAAAA
34617027 ATCTTTCTGG
Statistics
Matches: 118, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
76 74 0.63
77 44 0.37
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.40
Consensus pattern (76 bp):
GATTCTCACCATTTAATGATTTTATTCCAAATTTTTTTATTTCCAAAAACGAGTTAAATAAAATC
ATTTCAGGACC
Found at i:34617061 original size:78 final size:77
Alignment explanation
Indices: 34616783--34617091 Score: 325
Period size: 77 Copynumber: 4.0 Consensus size: 77
34616773 GGGAAATTAA
* * * * * * *
34616783 AAGTAAAATAAAAATCGTTTTGGGATTGATTCTCGCCGTTTAATGATTTTATTTCAAAATTGTTT
1 AAGTAAAAT-AAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
34616848 TATTTCCAAAAAC
65 TATTTCCAAAAAC
* * * * * * * * *
34616861 GAGTTAAATAAAATCATTTCGGGACCGATTTCCACCATTTAATGATTTTATTCCAAATTT-TTTT
1 AAGTAAAATAAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
*
34616925 ATTTTCAAAAAC
66 ATTTCCAAAAAC
* * * * *
34616937 GAGTAAAATAAAATCGTTTCAGGATCGATTCTCGTCGTTCAACGATTTTATTCCAATTTTGTTTT
1 AAGTAAAATAAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
34617002 ATTTCCAAAAAC
66 ATTTCCAAAAAC
* * * * *
34617014 AAGTAACATAAAAATC-TTTCTGGGATTGATTCCCGTCGTTCAACGATTTCATTCCAAATTTGGT
1 AAGTAAAAT-AAAATCGTTTC-GGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTT
*
34617078 TTATTTCCAGAAAC
64 TTATTTCCAAAAAC
34617092 GAGAAATTAA
Statistics
Matches: 193, Mismatches: 35, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
76 63 0.33
77 67 0.35
78 63 0.33
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (77 bp):
AAGTAAAATAAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
ATTTCCAAAAAC
Found at i:34617266 original size:84 final size:83
Alignment explanation
Indices: 34617174--34617327 Score: 211
Period size: 84 Copynumber: 1.8 Consensus size: 83
34617164 ATTAGAATAG
* * *
34617174 AATTAAATAAAATCTGTTTCGAGATTTATT-CTCGCCATTTAACAAGATTTTATTTGATTTTATT
1 AATTAAATAAAATATGTTTCGAGATTTATTCCT-GCCATTTAACAAGATTTTA-TCGATATTATT
34617238 TTGTTTCTTAATTCAAATTA
64 TTGTTTCTTAATTCAAATTA
* * * * *
34617258 AATTAAATAAAATATGTTTTGGGATTTATTCCTGTCGTTTAACAAGATTTTATCGATATTGTTTT
1 AATTAAATAAAATATGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTATCGATATTATTTT
34617323 GTTTC
66 GTTTC
34617328 CAAACAAAGA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
83 15 0.25
84 44 0.72
85 2 0.03
ACGTcount: A:0.31, C:0.10, G:0.11, T:0.49
Consensus pattern (83 bp):
AATTAAATAAAATATGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTATCGATATTATTTT
GTTTCTTAATTCAAATTA
Found at i:34617414 original size:19 final size:20
Alignment explanation
Indices: 34617376--34617414 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
34617366 TATTCTTGTC
* *
34617376 ATTTAATAGATTTTATTTTG
1 ATTTAATAGATATAATTTTG
34617396 ATTTAAT-GATATAATTTTG
1 ATTTAATAGATATAATTTTG
34617415 TTTTGAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTAATAGATATAATTTTG
Found at i:34620935 original size:21 final size:21
Alignment explanation
Indices: 34620910--34620974 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
34620900 TAGCCTTCGG
34620910 GCTTCCATTTAGCACTTATGT
1 GCTTCCATTTAGCACTTATGT
* ** *
34620931 GCTT-CAGTTAGC-C-TCCGA
1 GCTTCCATTTAGCACTTATGT
*
34620949 GCTTCCGTTTAGCACTTATGT
1 GCTTCCATTTAGCACTTATGT
34620970 GCTTC
1 GCTTC
34620975 AGCTAGATTT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
18 6 0.19
19 7 0.22
20 8 0.25
21 11 0.34
ACGTcount: A:0.15, C:0.28, G:0.18, T:0.38
Consensus pattern (21 bp):
GCTTCCATTTAGCACTTATGT
Found at i:34620938 original size:39 final size:39
Alignment explanation
Indices: 34620892--34620992 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
34620882 GCTCTGATGA
34620892 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
* * *
34620931 GCTTCAGTTAGCCTCCGAGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
* **
34620970 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
34620993 AGATCACGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAGCACTTATGT
Found at i:34621887 original size:20 final size:20
Alignment explanation
Indices: 34621862--34621902 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
34621852 TAATAAAAGT
34621862 AAAAAAAATCACTTTATCTA
1 AAAAAAAATCACTTTATCTA
34621882 AAAAAAAATCACTTTATCTA
1 AAAAAAAATCACTTTATCTA
34621902 A
1 A
34621903 TACATAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAAAATCACTTTATCTA
Found at i:34625524 original size:14 final size:14
Alignment explanation
Indices: 34625505--34625532 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34625495 TTTTATGAAG
34625505 TATATACGAATTGT
1 TATATACGAATTGT
34625519 TATATACGAATTGT
1 TATATACGAATTGT
34625533 CACGACAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
TATATACGAATTGT
Found at i:34628707 original size:21 final size:20
Alignment explanation
Indices: 34628683--34628733 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
34628673 ACAAATGTGG
34628683 TTATTTGAAAATCATAAAATA
1 TTATTT-AAAATCATAAAATA
* *
34628704 TTATCTAGAAATTATAAAATA
1 TTATTTA-AAATCATAAAATA
34628725 TT-TTTAAAA
1 TTATTTAAAA
34628734 AAATTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 19 0.73
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (20 bp):
TTATTTAAAATCATAAAATA
Found at i:34628755 original size:22 final size:22
Alignment explanation
Indices: 34628690--34628755 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 22
34628680 TGGTTATTTG
* **
34628690 AAAATCATAAAATATTAT-CTA
1 AAAATTATAAAATATTATAAAA
* * *
34628711 GAAATTATAAAATATTTTTAAA
1 AAAATTATAAAATATTATAAAA
34628733 AAAATTATAAAA-ATTAATAAAA
1 AAAATTATAAAATATT-ATAAAA
34628755 A
1 A
34628756 GCAATATATA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATTATAAAATATTATAAAA
Found at i:34629219 original size:21 final size:21
Alignment explanation
Indices: 34629195--34629238 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
34629185 TTTTAATAAA
34629195 TTGTAAATAAATTTTATAATT
1 TTGTAAATAAATTTTATAATT
* * *
34629216 TTGTAATTTAATTTTATTATT
1 TTGTAAATAAATTTTATAATT
34629237 TT
1 TT
34629239 AATAATTTAT
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:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TTGTAAATAAATTTTATAATT
Found at i:34629247 original size:22 final size:21
Alignment explanation
Indices: 34629204--34629253 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
34629194 ATTGTAAATA
*
34629204 AATTTTATAATTTTGTAATTT
1 AATTTTATAATTTTATAATTT
*
34629225 AATTTTATTATTTTAATAATTT
1 AATTTTATAATTTT-ATAATTT
34629247 ATATTTT
1 A-ATTTT
34629254 TGGAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.52
22 7 0.28
23 5 0.20
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
AATTTTATAATTTTATAATTT
Found at i:34629303 original size:19 final size:21
Alignment explanation
Indices: 34629279--34629317 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
34629269 TTTTATAATT
34629279 ATTTT-AAA-AATATTTTAAA
1 ATTTTAAAATAATATTTTAAA
34629298 ATTTTAAAATAATATTTTAA
1 ATTTTAAAATAATATTTTAA
34629318 TGATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTAAAATAATATTTTAAA
Found at i:34633927 original size:222 final size:220
Alignment explanation
Indices: 34633541--34634003 Score: 786
Period size: 222 Copynumber: 2.1 Consensus size: 220
34633531 TGCAAACTTT
* *
34633541 TCTTCCACACCCAATTTGGTACGGCCCCGCTTATTTGGTTGTTTGAAAGGTCAAGTTCTTCTAAG
1 TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
* *
34633606 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAGGATCTGAAACGCAACGAAAT
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATC-GAAAC-CAACAAAAT
34633671 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
129 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
*
34633736 AAGAAAGGTCTACCGATATAAGTGTGC
194 AAGAAAGGCCTACCGATATAAGTGTGC
*
34633763 TCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
1 TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
*
34633828 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGAT-GCCAA-CAACAAAAAT
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATCG-AAACCAAC-AAAA-
*
34633891 CTCAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTTGGAATGTCAATCGCATT
128 -TCAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATT
34633956 GGAAGAAAGGCCTACCGATATAAGTGTGC
192 GGAAGAAAGGCCTACCGATATAAGTGTGC
34633985 TCTTCCACAACCAATTTGG
1 TCTTCCACAACCAATTTGG
34634004 AACAAGACCG
Statistics
Matches: 229, Mismatches: 8, Indels: 8
0.93 0.03 0.03
Matches are distributed among these distances:
219 4 0.02
220 4 0.02
221 2 0.01
222 219 0.96
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (220 bp):
TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATCGAAACCAACAAAATCA
GCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGGAA
GAAAGGCCTACCGATATAAGTGTGC
Found at i:34640946 original size:7 final size:7
Alignment explanation
Indices: 34640934--34640966 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
34640924 TTTTGTACTC
34640934 TTTAAAA
1 TTTAAAA
34640941 TTTAAAA
1 TTTAAAA
34640948 TTTAAAA
1 TTTAAAA
34640955 TTTAAAA
1 TTTAAAA
34640962 TTTAA
1 TTTAA
34640967 TCTCTATACT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TTTAAAA
Found at i:34644402 original size:26 final size:25
Alignment explanation
Indices: 34644332--34644451 Score: 96
Period size: 25 Copynumber: 4.5 Consensus size: 25
34644322 AAGTATATAC
**
34644332 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATAAATACATAAT
** * *
34644357 ATAGCGTTCAAAATACATACATAAT
1 ATAGTATTAAAAATAAATACATAAT
*
34644382 ATAGTTATTAAAAATAAATACATAAG
1 ATAG-TATTAAAAATAAATACATAAT
* *
34644408 ATAATATGTAAAAAATATATATATAAATAAT
1 ATAGTAT-T--AAAA-ATA-A-ATACATAAT
34644439 ATAGTATTAAAAA
1 ATAGTATTAAAAA
34644452 ATATAGTATT
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
25 27 0.36
26 20 0.27
27 1 0.01
28 8 0.11
29 3 0.04
30 2 0.03
31 13 0.18
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.33
Consensus pattern (25 bp):
ATAGTATTAAAAATAAATACATAAT
Found at i:34644434 original size:15 final size:15
Alignment explanation
Indices: 34644411--34644476 Score: 71
Period size: 15 Copynumber: 4.3 Consensus size: 15
34644401 ACATAAGATA
*
34644411 ATATGTAAAAAATAT
1 ATATATAAAAAATAT
*
34644426 ATATATAAATAATAT
1 ATATATAAAAAATAT
34644441 AGTAT-TAAAAAATAT
1 A-TATATAAAAAATAT
* *
34644456 AGTATTTAAAAGATAT
1 A-TATATAAAAAATAT
34644472 ATATA
1 ATATA
34644477 CGTAATATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
15 31 0.70
16 13 0.30
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (15 bp):
ATATATAAAAAATAT
Found at i:34644506 original size:24 final size:24
Alignment explanation
Indices: 34644473--34644535 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
34644463 AAAAGATATA
*
34644473 TATACGTAATATATA-TAAAAAAT
1 TATACATAATATATATTAAAAAAT
*
34644496 GTATACATAATATAGTATTAAAATAT
1 -TATACATAATATA-TATTAAAAAAT
34644522 T-TACATAATATATA
1 TATACATAATATATA
34644536 CATATTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.66
25 3 0.09
26 7 0.20
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (24 bp):
TATACATAATATATATTAAAAAAT
Found at i:34644614 original size:21 final size:20
Alignment explanation
Indices: 34644586--34644650 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
34644576 AATACTACAT
34644586 AAATATATACATATATATTA
1 AAATATATACATATATATTA
*
34644606 AAGATATATACATATATAATA
1 AA-ATATATACATATATATTA
*
34644627 AAACATATA-ATA-ATATTA
1 AAATATATACATATATATTA
34644645 ATAATA
1 A-AATA
34644651 ATAATAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 6 0.15
19 6 0.15
20 8 0.21
21 19 0.49
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATATATACATATATATTA
Found at i:34644639 original size:3 final size:3
Alignment explanation
Indices: 34644633--34644699 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
34644623 AATAAAACAT
* * *
34644633 ATA ATA ATA TTA ATA ATA ATA ATA AGA ATA AT- ATAA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
*
34644678 A-A TATA ATA ATA TTAA ATA ATA
1 ATA -ATA ATA ATA AT-A ATA ATA
34644700 TTAAAAGTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 3 0.06
3 43 0.84
4 5 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:34660319 original size:17 final size:14
Alignment explanation
Indices: 34660284--34660319 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
34660274 TCAATTTCAT
34660284 TAGAAGAACTTTAC
1 TAGAAGAACTTTAC
34660298 TAGAAGAACTTTAC
1 TAGAAGAACTTTAC
34660312 TAGAAGAA
1 TAGAAGAA
34660320 AAATTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (14 bp):
TAGAAGAACTTTAC
Found at i:34662538 original size:3 final size:3
Alignment explanation
Indices: 34662532--34662689 Score: 71
Period size: 3 Copynumber: 52.7 Consensus size: 3
34662522 TTTTTTTACA
* *
34662532 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
34662576 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
34662621 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TAGT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
34662667 T-T CTAGT T-T TAT TAT TAT TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TA
34662690 ACATTAGTGT
Statistics
Matches: 115, Mismatches: 24, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
2 12 0.10
3 91 0.79
4 11 0.10
5 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:34662560 original size:23 final size:23
Alignment explanation
Indices: 34662534--34662579 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
34662524 TTTTTACATA
34662534 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
34662557 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
34662580 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:34662719 original size:17 final size:16
Alignment explanation
Indices: 34662697--34662728 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
34662687 TTAACATTAG
34662697 TGTATGTATATTATATA
1 TGTATGTATA-TATATA
34662714 TGTATGTATATATAT
1 TGTATGTATATATAT
34662729 TTACATATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:34662942 original size:8 final size:10
Alignment explanation
Indices: 34662927--34662995 Score: 54
Period size: 10 Copynumber: 6.8 Consensus size: 10
34662917 ATGTTTTCAA
34662927 TATTATAT-T
1 TATTATATAT
34662936 T-TTATATAT
1 TATTATATAT
34662945 TATTATATAT
1 TATTATATAT
*
34662955 ATTTTAATATTAT
1 -TATT-ATA-TAT
34662968 TAGTTATATAT
1 TA-TTATATAT
* *
34662979 T-TTTTATAC
1 TATTATATAT
34662988 TATTATAT
1 TATTATAT
34662996 GTATATTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
8 6 0.12
9 10 0.21
10 13 0.27
11 7 0.15
12 7 0.15
13 5 0.10
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (10 bp):
TATTATATAT
Found at i:34662979 original size:44 final size:43
Alignment explanation
Indices: 34662930--34663043 Score: 135
Period size: 45 Copynumber: 2.6 Consensus size: 43
34662920 TTTTCAATAT
34662930 TATATTTTTATATATTATTATATATATTT-TAATATTATTAGTTA
1 TATATTTTTATATATTATTATATATATTTCTAATATTA-TA-TTA
* *
34662974 TATATTTTTTATACTATTA-TATGTATATTTCTAATATTATATTG
1 TATA-TTTTTATA-TATTATTATATATATTTCTAATATTATATTA
* *
34663018 TATATTTCTA-ATACTATTATATATAT
1 TATATTTTTATATATTATTATATATAT
34663044 ATGTGTGTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
41 4 0.07
42 9 0.15
43 5 0.08
44 10 0.16
45 20 0.33
46 13 0.21
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (43 bp):
TATATTTTTATATATTATTATATATATTTCTAATATTATATTA
Found at i:34662991 original size:26 final size:23
Alignment explanation
Indices: 34662930--34663045 Score: 109
Period size: 23 Copynumber: 5.2 Consensus size: 23
34662920 TTTTCAATAT
*
34662930 TATATTTTTATA-TATTATTATA
1 TATATTTTAATATTATTATTATA
34662952 TATATTTTAATATTATTAGTTATA
1 TATATTTTAATATTATTA-TTATA
* * *
34662976 TAT-TTTTTATACTATTA-TATG
1 TATATTTTAATATTATTATTATA
*
34662997 TATATTTCTAATATTA-TATTGTA
1 TATATTT-TAATATTATTATTATA
* *
34663020 TAT-TTCTAATACTATTA-TATA
1 TATATTTTAATATTATTATTATA
34663041 TATAT
1 TATAT
34663046 GTGTGTATAT
Statistics
Matches: 76, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
21 19 0.25
22 21 0.28
23 28 0.37
24 8 0.11
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (23 bp):
TATATTTTAATATTATTATTATA
Found at i:34663042 original size:21 final size:21
Alignment explanation
Indices: 34662930--34663043 Score: 106
Period size: 21 Copynumber: 5.2 Consensus size: 21
34662920 TTTTCAATAT
*
34662930 TATATTTTTATATATTATTATA
1 TATATTTCTA-ATATTATTATA
34662952 TATATTT-TAATATTATTAGTTA
1 TATATTTCTAATATTATTA--TA
* * *
34662974 TATATTTTTTATACTATTATA
1 TATATTTCTAATATTATTATA
*
34662995 TGTATATTTCTAATATTA-TATTG
1 --TATATTTCTAATATTATTA-TA
*
34663018 TATATTTCTAATACTATTATA
1 TATATTTCTAATATTATTATA
34663039 TATAT
1 TATAT
34663044 ATGTGTGTAT
Statistics
Matches: 77, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
20 9 0.12
21 25 0.32
22 20 0.26
23 23 0.30
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (21 bp):
TATATTTCTAATATTATTATA
Found at i:34663045 original size:44 final size:44
Alignment explanation
Indices: 34662930--34663045 Score: 148
Period size: 44 Copynumber: 2.6 Consensus size: 44
34662920 TTTTCAATAT
34662930 TATATTTTTATA-TATTATTATATATATTTTAATATTATTAGTTA
1 TATATTTTTATACTATTA-TATATATATTTTAATATTATTAGTTA
* *
34662974 TATATTTTTTATACTATTATATGTATATTTCTAATATTA-TA-TTG
1 TATA-TTTTTATACTATTATATATATATTT-TAATATTATTAGTTA
*
34663018 TATATTTCTAATACTATTATATATATAT
1 TATATTT-TTATACTATTATATATATAT
34663046 GTGTGTATAT
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
43 3 0.05
44 28 0.44
45 20 0.31
46 13 0.20
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (44 bp):
TATATTTTTATACTATTATATATATATTTTAATATTATTAGTTA
Found at i:34671593 original size:22 final size:20
Alignment explanation
Indices: 34671568--34671628 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
34671558 TCCGTAAGCT
34671568 CCCATTAAAGCCAAAATGCAAG
1 CCCATTAAA--CAAAATGCAAG
*
34671590 CCCATTCAACAAAATGCAAG
1 CCCATTAAACAAAATGCAAG
* * *
34671610 TCCATTCAACAAAAGGCAA
1 CCCATTAAACAAAATGCAA
34671629 AAGTCAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 28 0.78
22 8 0.22
ACGTcount: A:0.46, C:0.28, G:0.11, T:0.15
Consensus pattern (20 bp):
CCCATTAAACAAAATGCAAG
Found at i:34671604 original size:20 final size:20
Alignment explanation
Indices: 34671579--34671628 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
34671569 CCATTAAAGC
34671579 CAAAATGCAAGCCCATTCAA
1 CAAAATGCAAGCCCATTCAA
*
34671599 CAAAATGCAAGTCCATTCAA
1 CAAAATGCAAGCCCATTCAA
*
34671619 CAAAAGGCAA
1 CAAAATGCAA
34671629 AAGTCAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.48, C:0.26, G:0.12, T:0.14
Consensus pattern (20 bp):
CAAAATGCAAGCCCATTCAA
Found at i:34674892 original size:145 final size:144
Alignment explanation
Indices: 34674696--34675158 Score: 443
Period size: 145 Copynumber: 3.1 Consensus size: 144
34674686 CGATTTCTGT
* * * * * * * * *
34674696 TTTTCAATTTATGTTTTCAAAAGTCAATTCATATTGCTATAGGTGAATTGAGCCTCGGGGCACGC
1 TTTTCAATTTCTGCTTTCAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGC
*
34674761 TGAGGTATTTTCAATTATTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT
66 TGAGGTATTTTCAATT-TTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
**
34674826 GGGACACGTTGAGATAA
129 AAGACACGTTGAGAT-A
** * * * *
34674843 TTTT-TTTTTCTG-TTTCAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACGT
1 TTTTCAATTTCTGCTTTCAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGC
* * *
34674906 TGAGGTATTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCT
66 TGAGGTATTTTCAATTT-TGT-TTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
34674971 CAAGACACGTTGAGGTA
128 CAAGACACGTTGAGATA
* *
34674988 TTTTCAATTTCTGTCTTTCAAAATAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTG-CTTTCAAAAT--TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
* ** ** * *
34675053 CGCTGAGGTAATTTT-GATCTCCGTTTT-TGAAAATCAACTCATATTGCGAGAGGTGAGTGGAAC
63 CGCTGAGGT-ATTTTCAAT-TTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
34675116 CTC-AGATCACATGTCGAGGTA
126 CTCAAGA-CAC--GTTGAGATA
34675137 TTTTCAAATTT-TGCTTTTCAAA
1 TTTTC-AATTTCTGC-TTTCAAA
34675159 TTAAGTTTCA
Statistics
Matches: 261, Mismatches: 40, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
144 1 0.00
145 72 0.28
146 57 0.22
147 35 0.13
148 14 0.05
149 25 0.10
150 51 0.20
151 6 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (144 bp):
TTTTCAATTTCTGCTTTCAAAATTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTCAATTTTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
GACACGTTGAGATA
Found at i:34674964 original size:75 final size:73
Alignment explanation
Indices: 34674696--34675158 Score: 440
Period size: 75 Copynumber: 6.3 Consensus size: 73
34674686 CGATTTCTGT
* * * * * * * *
34674696 TTTTCAATTTATGTTTTC-AAAAGTCAATTCATATTGCTATAGGTGAATTGAGCCTCGGGGCACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
*
34674760 CTGAGGTA
66 TTGAGGTA
* **
34674768 TTTTCAATTAT-TGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACA
1 TTTTCAATT-TCTGTTT-TCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
*
34674832 CGTTGAGATAA
64 CGTTGAGGT-A
** * * * *
34674843 TTTT-TTTTTCTG-TTTC-AAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
34674905 TTGAGGTA
66 TTGAGGTA
* * *
34674913 TTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGT-TTTCAAAAAA-TCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
34674978 CGTTGAGGTA
64 CGTTGAGGTA
* *
34674988 TTTTCAATTTCTGTCTTTCAAAATAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGT-TTTCAAAA-AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACA
*
34675053 CGCTGAGGTAA
64 CGTTGAGGT-A
* * * ** * * *
34675064 TTTT-GATCTCCGTTTT-TGAAAATCAACTCATATTGCGAGAGGTGAGTGGAACCTCA-GATCAC
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGA-CAC
*
34675126 ATGTCGAGGTA
65 --GTTGAGGTA
34675137 TTTTCAAATTT-TGCTTTTCAAA
1 TTTTC-AATTTCTG-TTTTCAAA
34675159 TTAAGTTTCA
Statistics
Matches: 329, Mismatches: 43, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
70 5 0.02
71 53 0.16
72 52 0.16
73 17 0.05
74 62 0.19
75 132 0.40
76 8 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACACG
TTGAGGTA
Found at i:34683991 original size:282 final size:284
Alignment explanation
Indices: 34683484--34684051 Score: 1041
Period size: 282 Copynumber: 2.0 Consensus size: 284
34683474 AAAATAAATA
34683484 ATATATAAAAACCTAAAGTAAATAATAATAATAAAACCATTTTAAATAAATAAAAAGAGTTTAAA
1 ATATATAAAAACCTAAAGT-AATAATAATAATAAAACCATTTTAAATAAATAAAAAGAGTTTAAA
*
34683549 ATAAGATAACAATTTAAAACAAACAATAAAACAGTTATACATAAAAACAAGTTTAGAAATATATA
65 ATAAGATAACAATTTAAAACAAACAATAAAACAGTTACACATAAAAACAAGTTTAGAAATATATA
*
34683614 TAAAGCAATTCAAAGTATATAATATATGAAATAATTTAGAATAATACATCTAAAACAATCTAAAA
130 TAAAGCAATTCAAAGTATATAATATATGAAATAATTTAGAATAATACATCCAAAACAATCTAAAA
*
34683679 CAATTTATTATATAAAATTTAAAATAAATAAAACAGTTTAAAATAAATGAAAAAAAAATCAAAGA
195 CAATTTATCATATAAAATTTAAAATAAATAAAACAGTTTAAAATAAATGAAAAAAAAATCAAAGA
34683744 GTCCAAATTTACATGAAAAAGGGGT
260 GTCCAAATTTACATGAAAAAGGGGT
34683769 ATATATAAAAACCTAAAGT-A-AATAATAATAAAACCATTTTAAATAAATAAAAAGAGTTTAAAA
1 ATATATAAAAACCTAAAGTAATAATAATAATAAAACCATTTTAAATAAATAAAAAGAGTTTAAAA
*
34683832 TAAGATAACAATTTAAAACAAGCAATAAAACAGTTACACATAAAAACAAGTTTAGAAATATATAT
66 TAAGATAACAATTTAAAACAAACAATAAAACAGTTACACATAAAAACAAGTTTAGAAATATATAT
*
34683897 AAAGCAATTCAAAGTATATAATATATGAAATAATTTAGAATAATACATCCAAAACAGTCTAAAAC
131 AAAGCAATTCAAAGTATATAATATATGAAATAATTTAGAATAATACATCCAAAACAATCTAAAAC
* * *
34683962 AGTTTATCATATAAAATTTAAAATAAATAAAATAGTTTAAATTAAATGAAAAAAAAATCAAAGAG
196 AATTTATCATATAAAATTTAAAATAAATAAAACAGTTTAAAATAAATGAAAAAAAAATCAAAGAG
34684027 TCCAAATTTACATGAAAAAGGGGT
261 TCCAAATTTACATGAAAAAGGGGT
34684051 A
1 A
34684052 GATTGTAAAT
Statistics
Matches: 275, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
282 255 0.93
283 1 0.00
285 19 0.07
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (284 bp):
ATATATAAAAACCTAAAGTAATAATAATAATAAAACCATTTTAAATAAATAAAAAGAGTTTAAAA
TAAGATAACAATTTAAAACAAACAATAAAACAGTTACACATAAAAACAAGTTTAGAAATATATAT
AAAGCAATTCAAAGTATATAATATATGAAATAATTTAGAATAATACATCCAAAACAATCTAAAAC
AATTTATCATATAAAATTTAAAATAAATAAAACAGTTTAAAATAAATGAAAAAAAAATCAAAGAG
TCCAAATTTACATGAAAAAGGGGT
Found at i:34685607 original size:68 final size:65
Alignment explanation
Indices: 34685535--34685662 Score: 220
Period size: 68 Copynumber: 1.9 Consensus size: 65
34685525 TCTATATTTT
*
34685535 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTTATTTTGACGTGTGTATATATATATAT
1 ATGTATCTTGGCAAAATCAATGTTATTTCCAA-TTTTTTATTTTGA--TGTATATATATATATAT
34685600 ATG
63 ATG
34685603 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTATTTTGATGTATATATATATAT
1 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTATTTTGATGTATATATATATAT
34685663 GATGTATATC
Statistics
Matches: 59, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
65 14 0.24
67 13 0.22
68 32 0.54
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.49
Consensus pattern (65 bp):
ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTATTTTGATGTATATATATATATATATG
Found at i:34686473 original size:26 final size:26
Alignment explanation
Indices: 34686440--34686547 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
34686430 TGATACAAAT
34686440 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
34686466 TGACAATGGATTACGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34686492 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
34686518 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
34686544 TGAT
1 TGAT
34686548 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:34688718 original size:151 final size:151
Alignment explanation
Indices: 34688474--34688772 Score: 598
Period size: 151 Copynumber: 2.0 Consensus size: 151
34688464 TGTTACCTGG
34688474 ATGGGCTTAGGCCCAATGGGCTTGAGCTGACTTGGGCTTTGAATGAGTTTTCCTTACACACTGAG
1 ATGGGCTTAGGCCCAATGGGCTTGAGCTGACTTGGGCTTTGAATGAGTTTTCCTTACACACTGAG
34688539 TTTCCCCAAACTCACCCCTTTTATTTTCATCCACGCAGGAAATCCCCAACCATAGTGGGCTTGGA
66 TTTCCCCAAACTCACCCCTTTTATTTTCATCCACGCAGGAAATCCCCAACCATAGTGGGCTTGGA
34688604 GCTGTGAGGGAATTCGGATGA
131 GCTGTGAGGGAATTCGGATGA
34688625 ATGGGCTTAGGCCCAATGGGCTTGAGCTGACTTGGGCTTTGAATGAGTTTTCCTTACACACTGAG
1 ATGGGCTTAGGCCCAATGGGCTTGAGCTGACTTGGGCTTTGAATGAGTTTTCCTTACACACTGAG
34688690 TTTCCCCAAACTCACCCCTTTTATTTTCATCCACGCAGGAAATCCCCAACCATAGTGGGCTTGGA
66 TTTCCCCAAACTCACCCCTTTTATTTTCATCCACGCAGGAAATCCCCAACCATAGTGGGCTTGGA
34688755 GCTGTGAGGGAATTCGGA
131 GCTGTGAGGGAATTCGGA
34688773 GTGGCCACCC
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 148 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.28
Consensus pattern (151 bp):
ATGGGCTTAGGCCCAATGGGCTTGAGCTGACTTGGGCTTTGAATGAGTTTTCCTTACACACTGAG
TTTCCCCAAACTCACCCCTTTTATTTTCATCCACGCAGGAAATCCCCAACCATAGTGGGCTTGGA
GCTGTGAGGGAATTCGGATGA
Found at i:34692970 original size:3 final size:3
Alignment explanation
Indices: 34692962--34693047 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
34692952 GTTAGATATA
34692962 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
34693010 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
34693048 ATATATGCGA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:34693374 original size:48 final size:49
Alignment explanation
Indices: 34693316--34693409 Score: 138
Period size: 48 Copynumber: 1.9 Consensus size: 49
34693306 GGTATAATTC
* * *
34693316 TTTGGCAAAAAATATTTATATAAAAAA-TGTAAGAAAGTTAGTAGAATCT
1 TTTGGCAAAAAATATTTAGAAAAAAAATTG-AAGAAAGTTAATAGAATCT
34693365 TTTGG-AAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAA
1 TTTGGCAAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAA
34693410 AGATAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
48 34 0.83
49 7 0.17
ACGTcount: A:0.53, C:0.02, G:0.15, T:0.30
Consensus pattern (49 bp):
TTTGGCAAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAATCT
Found at i:34693435 original size:18 final size:18
Alignment explanation
Indices: 34693412--34693447 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34693402 TAATAGAAAG
34693412 ATAAAAAATTTAATTGTT
1 ATAAAAAATTTAATTGTT
34693430 ATAAAAAATTTAATTGTT
1 ATAAAAAATTTAATTGTT
34693448 TTGGGTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
ATAAAAAATTTAATTGTT
Found at i:34694130 original size:31 final size:31
Alignment explanation
Indices: 34694075--34694138 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
34694065 AAAATTTCAA
* *
34694075 AATTTAAAAAGTACAGAAATTAAAAATT-ACC
1 AATTTAAAAAGTAAAGAAACT-AAAATTGACC
* *
34694106 AATTTAAAAAGTAAAGGAGCTAAAATTGACC
1 AATTTAAAAAGTAAAGAAACTAAAATTGACC
34694137 AA
1 AA
34694139 ATAAAAGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.23
Consensus pattern (31 bp):
AATTTAAAAAGTAAAGAAACTAAAATTGACC
Found at i:34696319 original size:17 final size:17
Alignment explanation
Indices: 34696272--34696372 Score: 60
Period size: 17 Copynumber: 5.9 Consensus size: 17
34696262 TGTTCATATG
* * *
34696272 AAATAACAGTTCTTACC
1 AAATAACAGTTCATGCA
*
34696289 AAATGAA-AGCTCATGCA
1 AAAT-AACAGTTCATGCA
* ***
34696306 AAATAATAGTTCATTTG
1 AAATAACAGTTCATGCA
** * *
34696323 AAATATTAGTTCATACT
1 AAATAACAGTTCATGCA
* *
34696340 GAATAACAATTCATGCA
1 AAATAACAGTTCATGCA
34696357 AAATAACAGTTCATGC
1 AAATAACAGTTCATGC
34696373 TCTATCATAA
Statistics
Matches: 62, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
16 2 0.03
17 58 0.94
18 2 0.03
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.30
Consensus pattern (17 bp):
AAATAACAGTTCATGCA
Found at i:34702182 original size:44 final size:44
Alignment explanation
Indices: 34702132--34702215 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
34702122 TTAGAGTTAG
34702132 GGAAAGTAATCGGCCAAGGCAA-GGATGAGATTGAAGGAGGTATT
1 GGAAAGTAATCGGCCAAGGCAATGG-TGAGATTGAAGGAGGTATT
* * *
34702176 GGAAAGTAATCGGCTAAGGCAATGGTGAGCTTGGAGGAGG
1 GGAAAGTAATCGGCCAAGGCAATGGTGAGATTGAAGGAGG
34702216 ATACTTCGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 34 0.94
45 2 0.06
ACGTcount: A:0.33, C:0.10, G:0.39, T:0.18
Consensus pattern (44 bp):
GGAAAGTAATCGGCCAAGGCAATGGTGAGATTGAAGGAGGTATT
Found at i:34704256 original size:23 final size:23
Alignment explanation
Indices: 34704226--34704280 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
34704216 TAAGTGGATG
*
34704226 GGGAAGAAGAAGA-GGGAAAGAAA
1 GGGAAGAA-AAGAGGGGAAAAAAA
34704249 GGGAAGAAAAGAGGGGAAAAAAA
1 GGGAAGAAAAGAGGGGAAAAAAA
34704272 -GGAA-AAAAG
1 GGGAAGAAAAG
34704281 GAAGAAGTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 5 0.17
22 8 0.27
23 17 0.57
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (23 bp):
GGGAAGAAAAGAGGGGAAAAAAA
Found at i:34704325 original size:30 final size:31
Alignment explanation
Indices: 34704290--34704366 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
34704280 GGAAGAAGTG
34704290 GAAGGAAAAAGGGAAGAGA-AAGAGAAA-GA
1 GAAGGAAAAAGGGAAGAGAGAAGAGAAAGGA
* * *
34704319 GAAAGG-AAAAGGGAAAAGAGAGGGGAAAGGA
1 G-AAGGAAAAAGGGAAGAGAGAAGAGAAAGGA
*
34704350 GAAGGAAAAAAGGAAGA
1 GAAGGAAAAAGGGAAGA
34704367 AAGTGTGGCT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 13 0.33
30 14 0.36
31 12 0.31
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (31 bp):
GAAGGAAAAAGGGAAGAGAGAAGAGAAAGGA
Found at i:34715911 original size:20 final size:21
Alignment explanation
Indices: 34715863--34715911 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
34715853 TCAAATATGA
34715863 ATTATTT-GAAAATCATAAAAT
1 ATTATTTAG-AAATCATAAAAT
34715884 ATTATTTAGAAATCATAAAAT
1 ATTATTTAGAAATCATAAAAT
34715905 A-TATTTA
1 ATTATTTA
34715912 AAGTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.22
21 20 0.74
22 1 0.04
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (21 bp):
ATTATTTAGAAATCATAAAAT
Found at i:34716824 original size:9 final size:9
Alignment explanation
Indices: 34716812--34716981 Score: 60
Period size: 9 Copynumber: 17.9 Consensus size: 9
34716802 CAATTACTTG
34716812 AATTTTTAT
1 AATTTTTAT
34716821 AATTTTATAAT
1 AATTTT-T-AT
*
34716832 ATATATTTTAA
1 A-AT-TTTTAT
*
34716843 AAATTTTAT
1 AATTTTTAT
* *
34716852 GACTTTTAT
1 AATTTTTAT
*
34716861 ATTTTTTAAT
1 AATTTTT-AT
*
34716871 AATTTGTAAAT
1 AATTT-T-TAT
34716882 AATTTTTAT
1 AATTTTTAT
34716891 AA---TT-T
1 AATTTTTAT
*
34716896 CATTTTTAT
1 AATTTTTAT
* **
34716905 TATTTTTGG
1 AATTTTTAT
34716914 AATTTTTAAT
1 AATTTTT-AT
*
34716924 AAATTTTAT
1 AATTTTTAT
* *
34716933 AATTATTAA
1 AATTTTTAT
*
34716942 AATATTTTGT
1 AAT-TTTTAT
*
34716952 GATTTTTAGAT
1 AATTTTT--AT
34716963 AATATTTTAAT
1 AAT-TTTT-AT
34716974 AATTTTTA
1 AATTTTTA
34716982 CTAACCACAT
Statistics
Matches: 116, Mismatches: 29, Indels: 32
0.66 0.16 0.18
Matches are distributed among these distances:
5 2 0.02
6 2 0.02
8 2 0.02
9 55 0.47
10 24 0.21
11 21 0.18
12 7 0.06
13 3 0.03
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (9 bp):
AATTTTTAT
Found at i:34716839 original size:23 final size:23
Alignment explanation
Indices: 34716813--34716895 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
34716803 AATTACTTGA
34716813 ATTTTTATAATTTTATAATATAT
1 ATTTTTATAATTTTATAATATAT
* * * *
34716836 ATTTTAAAAATTTTATGACTTTTAT
1 ATTTTTATAATTTTAT-A-ATATAT
*
34716861 ATTTTT-TAATAATTTGTAA-ATA-
1 ATTTTTATAAT--TTTATAATATAT
34716883 ATTTTTATAATTT
1 ATTTTTATAATTT
34716896 CATTTTTATT
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
21 2 0.04
22 6 0.13
23 20 0.43
24 4 0.09
25 10 0.22
26 4 0.09
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTTTTATAATTTTATAATATAT
Found at i:34716930 original size:19 final size:20
Alignment explanation
Indices: 34716908--34716970 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 20
34716898 TTTTTATTAT
34716908 TTTTGGAATTTTTAATAA-A
1 TTTTGGAATTTTTAATAATA
** *
34716927 TTTTATAATTATTAA-AATA
1 TTTTGGAATTTTTAATAATA
34716946 TTTTGTG-ATTTTTAGATAATA
1 TTTTG-GAATTTTTA-ATAATA
34716967 TTTT
1 TTTT
34716971 AATAATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 2 0.06
19 23 0.68
20 1 0.03
21 8 0.24
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (20 bp):
TTTTGGAATTTTTAATAATA
Found at i:34724536 original size:16 final size:17
Alignment explanation
Indices: 34724517--34724549 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34724507 CGGTATTTCA
34724517 CATTTTTATT-ATTTAT
1 CATTTTTATTAATTTAT
*
34724533 CATTTTTCTTAATTTAT
1 CATTTTTATTAATTTAT
34724550 TTATTATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
CATTTTTATTAATTTAT
Found at i:34730226 original size:2 final size:2
Alignment explanation
Indices: 34730178--34730216 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
34730168 TCTAGTCCAA
* * *
34730178 CT CT CT CC CT CT CT CT CT CT CA CT CT CT CT CC CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
34730217 GTATTCTCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.56, G:0.00, T:0.41
Consensus pattern (2 bp):
CT
Found at i:34742263 original size:34 final size:35
Alignment explanation
Indices: 34742197--34742263 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
34742187 CAAACACCAG
*
34742197 AAAATATTTTCCAGTAAGTCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
34742232 AAAATCTTTTCCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
34742264 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:34747932 original size:24 final size:23
Alignment explanation
Indices: 34747905--34747958 Score: 83
Period size: 22 Copynumber: 2.3 Consensus size: 23
34747895 TAAGGAGAAC
*
34747905 AATCATTTTGTTCAAAAGAGGAAA
1 AATCATTTT-ATCAAAAGAGGAAA
34747929 AATCA-TTTATCAAAAGAGGAAA
1 AATCATTTTATCAAAAGAGGAAA
34747951 AATCATTT
1 AATCATTT
34747959 ACATATGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 18 0.64
23 5 0.18
24 5 0.18
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (23 bp):
AATCATTTTATCAAAAGAGGAAA
Found at i:34747944 original size:22 final size:22
Alignment explanation
Indices: 34747916--34747959 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34747906 ATCATTTTGT
34747916 TCAAAAGAGGAAAAATCATTTA
1 TCAAAAGAGGAAAAATCATTTA
34747938 TCAAAAGAGGAAAAATCATTTA
1 TCAAAAGAGGAAAAATCATTTA
34747960 CATATGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.23
Consensus pattern (22 bp):
TCAAAAGAGGAAAAATCATTTA
Found at i:34748965 original size:20 final size:19
Alignment explanation
Indices: 34748940--34748977 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
34748930 AAAAAAGTCA
*
34748940 ATTTTTTTATATTTTTTTCT
1 ATTTTTTGAT-TTTTTTTCT
34748960 ATTTTTTGATTTTTTTTC
1 ATTTTTTGATTTTTTTTC
34748978 ACTTTACGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (19 bp):
ATTTTTTGATTTTTTTTCT
Found at i:34753209 original size:32 final size:32
Alignment explanation
Indices: 34753162--34753263 Score: 107
Period size: 32 Copynumber: 3.1 Consensus size: 32
34753152 TACCCAAATG
*
34753162 GTACAACTTGAAAAGGTTATGTACACTTTGTGT
1 GTAC-ACTTGAAAAGGTTATGTATACTTTGTGT
* *
34753195 GTACACTTGGAAAGGTTAGGTATACTTTGTGT
1 GTACACTTGAAAAGGTTATGTATACTTTGTGT
* * **
34753227 ATAC-CATATAAAAAGGAAATGTATACTTTGTGT
1 GTACAC-T-TGAAAAGGTTATGTATACTTTGTGT
34753260 GTAC
1 GTAC
34753264 CATTTGGAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
31 1 0.02
32 29 0.51
33 27 0.47
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (32 bp):
GTACACTTGAAAAGGTTATGTATACTTTGTGT
Done.