Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002616.1 Hibiscus syriacus cultivar Beakdansim tig00005294_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1287628
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:400777 original size:30 final size:30
Alignment explanation
Indices: 400721--400862 Score: 86
Period size: 30 Copynumber: 4.8 Consensus size: 30
400711 ATATATATAT
* * *
400721 ATATTTTTTATTCTTATCTAAACTTTTAAAA
1 ATATATTTTATTATTAT-TTAACTTTTAAAA
*
400752 ATATATTTTATTATTATTTAACTTTTCAAA
1 ATATATTTTATTATTATTTAACTTTTAAAA
* *
400782 GTATA---TATT-TTATCTTAA--TTTACTAA
1 ATATATTTTATTATTAT-TTAACTTTTA-AAA
* *
400808 ATATATTATATTATTATTTTAAATTATT--AA
1 ATATATTTTATTATTA-TTTAACTT-TTAAAA
400838 ATATATTTTA-TACTTATTTTAACTT
1 ATATATTTTATTA-TTA-TTTAACTT
400863 CAAAATATTT
Statistics
Matches: 90, Mismatches: 10, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
25 3 0.03
26 10 0.11
27 8 0.09
29 6 0.07
30 44 0.49
31 16 0.18
32 1 0.01
33 2 0.02
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (30 bp):
ATATATTTTATTATTATTTAACTTTTAAAA
Found at i:400793 original size:32 final size:31
Alignment explanation
Indices: 400719--400794 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
400709 ATATATATAT
* *
400719 ATATATTTTTTATTCTTATCTAAACTTTTAA
1 ATATATATTTTATTATTATCTAAACTTTTAA
* *
400750 AAATATATTTTATTATTAT-TTAACTTTTCAA
1 ATATATATTTTATTATTATCTAAACTTTT-AA
400781 AGTATATATTTTAT
1 A-TATATATTTTAT
400795 CTTAATTTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 8 0.21
31 19 0.50
32 11 0.29
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.57
Consensus pattern (31 bp):
ATATATATTTTATTATTATCTAAACTTTTAA
Found at i:400884 original size:15 final size:16
Alignment explanation
Indices: 400852--400885 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
400842 ATTTTATACT
*
400852 TATTTTAACTTCAAAA
1 TATTTTAACATCAAAA
400868 TATTTTAACAT-AAAA
1 TATTTTAACATCAAAA
400883 TAT
1 TAT
400886 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (16 bp):
TATTTTAACATCAAAA
Found at i:400922 original size:27 final size:27
Alignment explanation
Indices: 400886--400943 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
400876 CATAAAATAT
400886 ATATTTTTAAATTCAAA-TAAAAATAAA
1 ATATTTTTAAATT-AAATTAAAAATAAA
*
400913 ATATTTTTAAATTAAATTAATAATAAA
1 ATATTTTTAAATTAAATTAAAAATAAA
400940 ATAT
1 ATAT
400944 ATAAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (27 bp):
ATATTTTTAAATTAAATTAAAAATAAA
Found at i:400951 original size:27 final size:27
Alignment explanation
Indices: 400894--400956 Score: 65
Period size: 27 Copynumber: 2.3 Consensus size: 27
400884 ATATATTTTT
* **
400894 AAATTCAAA-TAAAAATAAAATATTTTT
1 AAATT-AAATTAAAAATAAAATATATAA
*
400921 AAATTAAATTAATAATAAAATATATAA
1 AAATTAAATTAAAAATAAAATATATAA
*
400948 AAATAAAAT
1 AAATTAAAT
400957 ATTTTTAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.10
27 27 0.90
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATTAAATTAAAAATAAAATATATAA
Found at i:400953 original size:42 final size:42
Alignment explanation
Indices: 400902--400987 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
400892 TTAAATTCAA
400902 ATAAAAATAAAATATTTTTAAATTAAATTAATAATAAAATAT
1 ATAAAAATAAAATATTTTTAAATTAAATTAATAATAAAATAT
*
400944 ATAAAAATAAAATATTTTTAAATTAAGTTAATAATAAAATAT
1 ATAAAAATAAAATATTTTTAAATTAAATTAATAATAAAATAT
400986 AT
1 AT
400988 TTAATAAGTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (42 bp):
ATAAAAATAAAATATTTTTAAATTAAATTAATAATAAAATAT
Found at i:401029 original size:27 final size:28
Alignment explanation
Indices: 400952--401039 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 28
400942 ATATAAAAAT
*
400952 AAAATATTTTTAAATTAAGTTAATA-AT-
1 AAAATATTTTTTAA-TAAGTTAATATATA
*
400979 AAAATA-TATTTAATAAGTT-A-ATATA
1 AAAATATTTTTTAATAAGTTAATATATA
401004 AAAATATTTTTTAA-AAGTTAATATATA
1 AAAATATTTTTTAATAAGTTAATATATA
401031 TAAAATATT
1 -AAAATATT
401040 ATGAATTTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
23 1 0.02
24 3 0.06
25 17 0.33
26 12 0.23
27 11 0.21
28 8 0.15
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (28 bp):
AAAATATTTTTTAATAAGTTAATATATA
Found at i:402132 original size:2 final size:2
Alignment explanation
Indices: 402125--402153 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
402115 GTAAATATGT
402125 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
402154 GTCGGGTCGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:402328 original size:15 final size:15
Alignment explanation
Indices: 402300--402335 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
402290 AATTGGTGGG
*
402300 AAAT-AAATATATTA
1 AAATAAAATAAATTA
402314 AAATAAAATAAATTA
1 AAATAAAATAAATTA
402329 AAATAAA
1 AAATAAA
402336 GTTAGTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATAAAATAAATTA
Found at i:410128 original size:26 final size:27
Alignment explanation
Indices: 410078--410128 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
410068 ATCAATTGAT
* *
410078 ATGATACTATGTGTGCTTTGTTGTGAA
1 ATGATACTATGTGTGCTATGATGTGAA
*
410105 ATGATA-TATGTGTTCTATGATGTG
1 ATGATACTATGTGTGCTATGATGTG
410129 TATAGAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.45
Consensus pattern (27 bp):
ATGATACTATGTGTGCTATGATGTGAA
Found at i:410287 original size:25 final size:25
Alignment explanation
Indices: 410266--410334 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
410256 TACAGGATTC
*
410266 ATGTATTGGTTATATGAAAGGATAT
1 ATGTATTAGTTATATGAAAGGATAT
* * * *
410291 ATGTTTTAGTTATATGAAATGTTTT
1 ATGTATTAGTTATATGAAAGGATAT
410316 ATG-ATTTAGTTATATGAAA
1 ATGTA-TTAGTTATATGAAA
410335 TGTTGTTGGG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (25 bp):
ATGTATTAGTTATATGAAAGGATAT
Found at i:410335 original size:25 final size:25
Alignment explanation
Indices: 410274--410338 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
410264 TCATGTATTG
* * *
410274 GTTATATGAAAGGATATATGTTTTA
1 GTTATATGAAATGTTATATGATTTA
*
410299 GTTATATGAAATGTTTTATGATTTA
1 GTTATATGAAATGTTATATGATTTA
410324 GTTATATGAAATGTT
1 GTTATATGAAATGTT
410339 GTTGGGATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (25 bp):
GTTATATGAAATGTTATATGATTTA
Found at i:411023 original size:20 final size:20
Alignment explanation
Indices: 410998--411051 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
410988 TTGCAGCCTT
410998 GATGCATGGATGCATGGCAG
1 GATGCATGGATGCATGGCAG
*
411018 GATGCATGGATGTATGGCAG
1 GATGCATGGATGCATGGCAG
*
411038 GATGCATCGATGCA
1 GATGCATGGATGCA
411052 CTAAGTGCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.15, G:0.37, T:0.22
Consensus pattern (20 bp):
GATGCATGGATGCATGGCAG
Found at i:411103 original size:20 final size:20
Alignment explanation
Indices: 410998--411127 Score: 69
Period size: 20 Copynumber: 6.7 Consensus size: 20
410988 TTGCAGCCTT
* *
410998 GATGCATGGATGCATGGCAG
1 GATGCATCGATGCATTGCAG
* * *
411018 GATGCATGGATGTATGGCAG
1 GATGCATCGATGCATTGCAG
* *
411038 GATGCATCGATGCACT--AA
1 GATGCATCGATGCATTGCAG
*
411056 G-TGCATTCGATG-TTTG-A-
1 GATGCA-TCGATGCATTGCAG
* *
411073 G-TGCATGGATGCATTGCAT
1 GATGCATCGATGCATTGCAG
411092 GATGCATCGATGCACTAGTGCAG
1 GATGCATCGATGCA-T--TGCAG
*
411115 G-TGCATGGATGCA
1 GATGCATCGATGCA
411128 CTGGAGGGAT
Statistics
Matches: 88, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
16 5 0.06
17 13 0.15
18 10 0.11
19 1 0.01
20 42 0.48
21 1 0.01
22 11 0.12
23 5 0.06
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (20 bp):
GATGCATCGATGCATTGCAG
Found at i:411125 original size:22 final size:21
Alignment explanation
Indices: 411073--411129 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
411063 CGATGTTTGA
411073 GTGCATGGATGCA-TTGCATG
1 GTGCATGGATGCACTTGCATG
* *
411093 ATGCATCGATGCACTAGTGCA-G
1 GTGCATGGATGCACT--TGCATG
411115 GTGCATGGATGCACT
1 GTGCATGGATGCACT
411130 GGAGGGATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 11 0.37
21 1 0.03
22 14 0.47
23 4 0.13
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (21 bp):
GTGCATGGATGCACTTGCATG
Found at i:411139 original size:13 final size:13
Alignment explanation
Indices: 411121--411157 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
411111 GCAGGTGCAT
411121 GGATGCACTGGAG
1 GGATGCACTGGAG
411134 GGATGCACTGGAG
1 GGATGCACTGGAG
*
411147 AGATGCA-TGGA
1 GGATGCACTGGA
411158 TGCACTTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.17
13 19 0.83
ACGTcount: A:0.27, C:0.14, G:0.43, T:0.16
Consensus pattern (13 bp):
GGATGCACTGGAG
Found at i:411264 original size:29 final size:29
Alignment explanation
Indices: 411232--411294 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
411222 GAAACCTTTT
411232 AAAACTTTGAATAAATTCAATT-AAGTCCAA
1 AAAACTTTG--TAAATTCAATTCAAGTCCAA
*
411262 AAATATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTCAATTCAAGTCCAA
411292 AAA
1 AAA
411295 CATTTTGCCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 11 0.37
30 14 0.47
31 5 0.17
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAACTTTGTAAATTCAATTCAAGTCCAA
Found at i:411290 original size:30 final size:29
Alignment explanation
Indices: 411243--411301 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 29
411233 AAACTTTGAA
*
411243 TAAATTCAATTAAGTCCAAAAATATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
411272 TAAATTCAATTCAAGTCCAAAAACATTTTG
1 TAAATTCAATT-AAGTCCAAAAACATTTTG
411302 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.44, C:0.14, G:0.07, T:0.36
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:413989 original size:21 final size:21
Alignment explanation
Indices: 413918--414015 Score: 94
Period size: 21 Copynumber: 4.7 Consensus size: 21
413908 GATGTTTGAG
* *
413918 TGCATGGATGCATTGCA-TGA
1 TGCATGGATGCACTGCAGGGA
**
413938 TGCAACGATGCACTAGTGCA-GG-
1 TGCATGGATGCAC---TGCAGGGA
413960 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCAGGGA
*
413981 TGTATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCAGGGA
*
414002 TGCATTGATGCACT
1 TGCATGGATGCACT
414016 TTGACACCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.06
20 12 0.19
21 32 0.50
22 11 0.17
23 5 0.08
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.24
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGGA
Found at i:421151 original size:29 final size:29
Alignment explanation
Indices: 421100--421162 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
421090 ACTGAACTTT
* *
421100 TTTTAAAACTTTCATTTAGGTCCCCCAAC
1 TTTTAAAACTTGCATATAGGTCCCCCAAC
*
421129 TTTTAAAACTTGCAATATA-GTCCTCCAAC
1 TTTTAAAACTTGC-ATATAGGTCCCCCAAC
*
421158 ATTTA
1 TTTTA
421163 GTCCGTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (29 bp):
TTTTAAAACTTGCATATAGGTCCCCCAAC
Found at i:421546 original size:245 final size:245
Alignment explanation
Indices: 421108--421560 Score: 705
Period size: 245 Copynumber: 1.8 Consensus size: 245
421098 TTTTTTAAAA
*
421108 CTTTCATTTAGGTCCCCCAACTTTTAAAACTTGCAATATAGTCCTCCAACATTTAGTCCGTTTAC
1 CTTTCATTTAGGTCCCCCAACTTTTAAAACTTGCAATACAGTCCTCCAACATTTAGTCCGTTTAC
* *
421173 AATATGGTCCCCCAACAGTTACGTCAGGGACCATATTGCAAACGAATTAAATGTTAGGGGATTGT
66 AATATGGTCCCCCAACAATTACGTCAGGGACCATATTGCAAACGAACTAAATGTTAGGGGATTGT
* * *
421238 ATTGCAAGTTTTAAAAGTTGGGGGACCTAAATGAAAGCTTTAAAAAAGTTCAGTGATCATTACTA
131 ATTGCAAGTTTTAAAAGTTAGGAGACCTAAATGAAAGCTTTAAAAAAGTTCAGTGACCATTACTA
*
421303 TACTTTATCCTTATTTTTATTAAACTAATAATAGGGTAAAGTATAATAAG
196 TACTTTACCCTTATTTTTATTAAACTAATAATAGGGTAAAGTATAATAAG
* *
421353 CTTTCATTTAGGTCTCCCAACTTTTAAAACTTGCAATACAGT-CTCCCAACATTTAGTTCG-TTA
1 CTTTCATTTAGGTCCCCCAACTTTTAAAACTTGCAATACAGTCCT-CCAACATTTAGTCCGTTTA
* * *
421416 GTAATATGGTCCCCCAACAATTACGTCGGGGACCATATTGCAAAC-AGACTAAATGTTGGGGGAT
65 -CAATATGGTCCCCCAACAATTACGTCAGGGACCATATTGCAAACGA-ACTAAATGTTAGGGGAT
* * * * *
421480 TGTATTGTAAGTTTTAAAAGTTAGGAGACCTAAATGGAAGCTTTAGAAAAGTTTAGTGGCCATTA
128 TGTATTGCAAGTTTTAAAAGTTAGGAGACCTAAATGAAAGCTTTAAAAAAGTTCAGTGACCATTA
421545 CTATACTTTACCCTTA
193 CTATACTTTACCCTTA
421561 AATTTAAATA
Statistics
Matches: 188, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
244 6 0.03
245 182 0.97
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Consensus pattern (245 bp):
CTTTCATTTAGGTCCCCCAACTTTTAAAACTTGCAATACAGTCCTCCAACATTTAGTCCGTTTAC
AATATGGTCCCCCAACAATTACGTCAGGGACCATATTGCAAACGAACTAAATGTTAGGGGATTGT
ATTGCAAGTTTTAAAAGTTAGGAGACCTAAATGAAAGCTTTAAAAAAGTTCAGTGACCATTACTA
TACTTTACCCTTATTTTTATTAAACTAATAATAGGGTAAAGTATAATAAG
Found at i:429270 original size:21 final size:21
Alignment explanation
Indices: 429216--429329 Score: 101
Period size: 21 Copynumber: 5.6 Consensus size: 21
429206 CACTTCGACT
*
429216 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGAAA
**
429235 ATCGCAACGTAAACTTGGAAA
1 ATCGCAACGCGAACTTGGAAA
* **
429256 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGAAA
* *
429277 ATCGCAATGCGAA-TAT-GTAA
1 ATCGCAACGCGAACT-TGGAAA
*
429297 ATCGCAACGCGAATTTGGAAA
1 ATCGCAACGCGAACTTGGAAA
*
429318 ATCGCAATGCGA
1 ATCGCAACGCGA
429330 TAGTCGAAGT
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
19 7 0.09
20 15 0.20
21 53 0.71
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGAAA
Found at i:429315 original size:62 final size:61
Alignment explanation
Indices: 429207--429329 Score: 167
Period size: 62 Copynumber: 2.0 Consensus size: 61
429197 TTAAGAGAAC
* *
429207 ACTTCGACTATCGCAACGAATTTGGAAAATCGCAACGTAAACTTGGAAAATCGCAACGCGA
1 ACTTCGACTATCGCAACGAATATGGAAAATCGCAACGCAAACTTGGAAAATCGCAACGCGA
* * * *
429268 ACTTCGACTATCGCAATGCGAATAT-GTAAATCGCAACGCGAATTTGGAAAATCGCAATGCGA
1 ACTTCGACTATCGCAA--CGAATATGGAAAATCGCAACGCAAACTTGGAAAATCGCAACGCGA
429330 TAGTCGAAGT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
61 16 0.30
62 32 0.59
63 6 0.11
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (61 bp):
ACTTCGACTATCGCAACGAATATGGAAAATCGCAACGCAAACTTGGAAAATCGCAACGCGA
Found at i:429404 original size:19 final size:19
Alignment explanation
Indices: 429380--429447 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
429370 ATATTGGACT
*
429380 ATCGCAACGAATTTGAAAA
1 ATCGCAACGAATTTGGAAA
* **
429399 ATCGCAACGCGAACTTGGACT
1 ATCGCAA--CGAATTTGGAAA
429420 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
429439 ATCGCAACG
1 ATCGCAACG
429448 CGAACTTCGA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 25 0.62
21 15 0.38
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:429417 original size:40 final size:40
Alignment explanation
Indices: 429373--429468 Score: 165
Period size: 40 Copynumber: 2.4 Consensus size: 40
429363 ATTTGCGATA
429373 TTGGACTATCGCAACGAATTTGAAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGAAAAATCGCAACGCGAAC
*
429413 TTGGACTATCGCAACGAATTTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAATTTGAAAAATCGCAACGCGAAC
* *
429453 TTCGATTATCGCAACG
1 TTGGACTATCGCAACG
429469 TGAACTTTGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (40 bp):
TTGGACTATCGCAACGAATTTGAAAAATCGCAACGCGAAC
Found at i:429423 original size:21 final size:21
Alignment explanation
Indices: 429373--429489 Score: 107
Period size: 21 Copynumber: 5.8 Consensus size: 21
429363 ATTTGCGATA
*
429373 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* **
429392 TTGAAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
429413 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
**
429432 TTGGAAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
* * *
429453 TTCGATTATCGCAACGTGAAC
1 TTGGACTATCGCAACGCGAAC
*
429474 TTTGACTATCGCAACG
1 TTGGACTATCGCAACG
429490 AATTTGGACT
Statistics
Matches: 77, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
19 27 0.35
21 50 0.65
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:429546 original size:21 final size:21
Alignment explanation
Indices: 429516--429590 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
429506 AATTTGGAAA
*
429516 ATCGCATTGCGATTATGTATT
1 ATCGCGTTGCGATTATGTATT
**
429537 ATCGCGTTGCGA-TA-GTCAGA
1 ATCGCGTTGCGATTATGT-ATT
** *
429557 ATCATGTTGCGATTTTGTATT
1 ATCGCGTTGCGATTATGTATT
429578 ATCGCGTTGCGAT
1 ATCGCGTTGCGAT
429591 AGTCAGAATC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.32
21 24 0.59
22 2 0.05
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (21 bp):
ATCGCGTTGCGATTATGTATT
Found at i:429603 original size:20 final size:20
Alignment explanation
Indices: 429537--429610 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
429527 ATTATGTATT
429537 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
** * **
429557 ATCATGTTGCGATTTTGT-ATT
1 ATCGCGTTGCGA--TAGTCAGA
429578 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
*
429598 ATCGCGTTACGAT
1 ATCGCGTTGCGAT
429611 TTACATATTC
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 3 0.08
20 23 0.57
21 11 0.28
22 3 0.08
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:429611 original size:41 final size:41
Alignment explanation
Indices: 429515--429612 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
429505 AAATTTGGAA
* *
429515 AATCGCATTGCGATTATGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
**
429556 AATCATGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
1 AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
*
429597 AATCGCGTTACGATTT
1 AATCGCGTTGCGATTT
429613 ACATATTCGC
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (41 bp):
AATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTCAG
Found at i:429650 original size:21 final size:21
Alignment explanation
Indices: 429626--429672 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
429616 TATTCGCATT
*
429626 GCGATTTTCTAAAATCGCAAC
1 GCGATTTTCGAAAATCGCAAC
* * *
429647 GCGAATTTGGAAAATCGCAAT
1 GCGATTTTCGAAAATCGCAAC
429668 GCGAT
1 GCGAT
429673 AGTCAAAATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (21 bp):
GCGATTTTCGAAAATCGCAAC
Found at i:430470 original size:38 final size:38
Alignment explanation
Indices: 430419--430528 Score: 211
Period size: 38 Copynumber: 2.9 Consensus size: 38
430409 TTTACCCTTA
430419 AAATAATTAGGTCTCTATCACGTCACGTGCACTTGTAT
1 AAATAATTAGGTCTCTATCACGTCACGTGCACTTGTAT
*
430457 AAATAATTAGGTCTCTATCACGTCACGTGCAATTGTAT
1 AAATAATTAGGTCTCTATCACGTCACGTGCACTTGTAT
430495 AAATAATTAGGTCTCTATCACGTCACGTGCACTT
1 AAATAATTAGGTCTCTATCACGTCACGTGCACTT
430529 ATACAAATTA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 70 1.00
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (38 bp):
AAATAATTAGGTCTCTATCACGTCACGTGCACTTGTAT
Found at i:432787 original size:61 final size:61
Alignment explanation
Indices: 432696--432853 Score: 298
Period size: 61 Copynumber: 2.6 Consensus size: 61
432686 CTTATGTTCA
432696 TAATTAATTAAGTCAAAGTAAAAATTCTAATCAATTCAACACCAGTCTAATCCTAATTAAT
1 TAATTAATTAAGTCAAAGTAAAAATTCTAATCAATTCAACACCAGTCTAATCCTAATTAAT
432757 TAATTAATTAAGTCAAAGTAAAAATTCTAATCAATTCAACACCAGTCTAATCCTAATTAAT
1 TAATTAATTAAGTCAAAGTAAAAATTCTAATCAATTCAACACCAGTCTAATCCTAATTAAT
* *
432818 TAATTAATTAAGTCAAAGTAAAAATCCTAATTAATT
1 TAATTAATTAAGTCAAAGTAAAAATTCTAATCAATT
432854 AATAGAAAGA
Statistics
Matches: 95, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 95 1.00
ACGTcount: A:0.47, C:0.15, G:0.05, T:0.34
Consensus pattern (61 bp):
TAATTAATTAAGTCAAAGTAAAAATTCTAATCAATTCAACACCAGTCTAATCCTAATTAAT
Found at i:440613 original size:14 final size:14
Alignment explanation
Indices: 440594--440624 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
440584 ATAACAAGGC
440594 AAAAAAAGAAAAAG
1 AAAAAAAGAAAAAG
*
440608 AAAAAAAGAAAAGG
1 AAAAAAAGAAAAAG
440622 AAA
1 AAA
440625 GCTGCAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAAAG
Found at i:443642 original size:13 final size:13
Alignment explanation
Indices: 443626--443653 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
443616 TCGCCACCTA
443626 TCCACAGCATCTC
1 TCCACAGCATCTC
443639 TCCACAGCATCTC
1 TCCACAGCATCTC
443652 TC
1 TC
443654 AAACCAGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.46, G:0.07, T:0.25
Consensus pattern (13 bp):
TCCACAGCATCTC
Found at i:455602 original size:18 final size:18
Alignment explanation
Indices: 455559--455625 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
455549 GACCCTGGAC
* *
455559 AAAAATAGAGAAA-AAAT
1 AAAAATAAATAAATAAAT
* *
455576 GAAATTAAATAAATAAAT
1 AAAAATAAATAAATAAAT
* *
455594 AAAAATAAAAAAAGAAAT
1 AAAAATAAATAAATAAAT
*
455612 AATAAT-AATAAATA
1 AAAAATAAATAAATA
455626 CCAATAATAT
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
17 15 0.39
18 23 0.61
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (18 bp):
AAAAATAAATAAATAAAT
Found at i:455764 original size:33 final size:33
Alignment explanation
Indices: 455712--455785 Score: 107
Period size: 33 Copynumber: 2.3 Consensus size: 33
455702 CAAATACTAT
455712 ATATTATATAGTTTCCAAAAATGAT-TTAAAAA
1 ATATTATATAGTTTCCAAAAATGATCTTAAAAA
* *
455744 ATATTATATGAGTTTTCAAAAATGTTCTTAAAAA
1 ATATTATAT-AGTTTCCAAAAATGATCTTAAAAA
455778 ATA-TATAT
1 ATATTATAT
455786 TATATAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 9 0.24
33 19 0.50
34 10 0.26
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (33 bp):
ATATTATATAGTTTCCAAAAATGATCTTAAAAA
Found at i:455798 original size:38 final size:37
Alignment explanation
Indices: 455677--456073 Score: 209
Period size: 38 Copynumber: 10.2 Consensus size: 37
455667 TTTTTTAACT
* * * * *
455677 TTATATTATTTTTCTAAAATCTTTCCAAATACTATATA
1 TTATATAATTTTTCAAAAATGTTT-TAAAAACTATATA
* * *
455715 TTATAT-AGTTTCCAAAAATGATTT-AAAA--A-ATA
1 TTATATAATTTTTCAAAAATGTTTTAAAAACTATATA
* * *
455747 TTATATGAGTTTTCAAAAATGTTCTTAAAAAATATATA
1 TTATATAATTTTTCAAAAATGTT-TTAAAAACTATATA
*
455785 TTATATAATTTTTCAAAAATGCTTTTTATTTAAAACCATATA
1 TTATATAATTTTTCAAAAATG--TTTTA---AAAACTATATA
*
455827 TTATATAAAATTTT-AAAAATGTTTTAAAAACTATATA
1 TTATAT-AATTTTTCAAAAATGTTTTAAAAACTATATA
* *
455864 TTATATATTTATTTTC-AAAGTGTTTTAAAAACTATATA
1 TTATATA-AT-TTTTCAAAAATGTTTTAAAAACTATATA
* * * **
455902 ATATATATATATTTCCAAAAATCGTTTTCAAAACTGCATA
1 TTATATA-AT-TTTTCAAAAAT-GTTTTAAAAACTATATA
* * ** *
455942 ATATATACA-TCTTCGAAAACCGTTTTCTGAAAACTATATA
1 TTATATA-ATTTTTC-AAAAATG-TTT-TAAAAACTATATA
*
455982 TTATATCTTTTCAAAAGCATTTTCAAAAATGTTTTAAAAACTATATA
1 TTATA-----T---AA--TTTTTCAAAAATGTTTTAAAAACTATATA
* *
456029 TTATATATTTAATTTC-AAAGTGTTTTAAAAACTATATA
1 TTATATAATT--TTTCAAAAATGTTTTAAAAACTATATA
*
456067 ATATATA
1 TTATATA
456074 TATATATATA
Statistics
Matches: 284, Mismatches: 42, Indels: 66
0.72 0.11 0.17
Matches are distributed among these distances:
32 9 0.03
33 15 0.05
34 2 0.01
35 7 0.02
36 1 0.00
37 30 0.11
38 97 0.34
39 19 0.07
40 43 0.15
42 23 0.08
43 6 0.02
45 1 0.00
47 18 0.06
48 4 0.01
49 5 0.02
50 4 0.01
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (37 bp):
TTATATAATTTTTCAAAAATGTTTTAAAAACTATATA
Found at i:456104 original size:50 final size:45
Alignment explanation
Indices: 456023--456123 Score: 112
Period size: 50 Copynumber: 2.1 Consensus size: 45
456013 TTTTAAAAAC
* * *
456023 TATATATTATATATTTAATTTCAAAGTGTTTTAAAAACTATATAA
1 TATATATTATATATATAATTTCAAAATGTTTTAAAAACTACATAA
* *
456068 TATATATATATATATATATATTTCCAAAAATCGTTTTCAAAACTGCATAA
1 TATATAT-TATATATATA-ATTT-C-AAAAT-GTTTTAAAAACTACATAA
456118 TATATA
1 TATATA
456124 CATTCGAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
45 7 0.15
46 9 0.20
47 4 0.09
48 1 0.02
49 4 0.09
50 21 0.46
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.44
Consensus pattern (45 bp):
TATATATTATATATATAATTTCAAAATGTTTTAAAAACTACATAA
Found at i:456193 original size:2 final size:2
Alignment explanation
Indices: 456188--456233 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
456178 AAAATTACAC
456188 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
456230 TA TA
1 TA TA
456234 ACAAAATAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:456204 original size:175 final size:163
Alignment explanation
Indices: 455836--456180 Score: 545
Period size: 165 Copynumber: 2.1 Consensus size: 163
455826 ATTATATAAA
*
455836 ATTTT-AAAAATGTTTTAAAAACTATATATTATATATTTATTTTCAAAGTGTTTTAAAAACTATA
1 ATTTTCAAAAATGTTTTAAAAACTATATATTATATATTTAATTTCAAAGTGTTTTAAAAACTATA
455900 TAATATATATATATTTCCAAAAATCGTTTTCAAAACTGCATAATATATACATCTTCGAAAACCGT
66 TAATATATATATATTTCCAAAAATCGTTTTCAAAACTGCATAATATATACA-CTTCGAAAACCGT
455965 TTTCTGAAAACTATATATTATATCTTTTCAAAAGC
130 TTTCTGAAAAC-ATATATTATATCTTTTCAAAAGC
456000 ATTTTCAAAAATGTTTTAAAAACTATATATTATATATTTAATTTCAAAGTGTTTTAAAAACTATA
1 ATTTTCAAAAATGTTTTAAAAACTATATATTATATATTTAATTTCAAAGTGTTTTAAAAAC----
456065 TAATATATATATATATATATATATTTCCAAAAATCGTTTTCAAAACTGCATAATATATACA-TTC
62 -----TATATA-ATATATATATATTTCCAAAAATCGTTTTCAAAACTGCATAATATATACACTTC
456129 GAAAACCGTTTTCTGAAAAC-TATA-TATATCTTTTCAAAAGC
121 GAAAACCGTTTTCTGAAAACATATATTATATCTTTTCAAAAGC
456170 ATTTTCAAAAA
1 ATTTTCAAAAA
456181 ATTACACTAT
Statistics
Matches: 169, Mismatches: 1, Indels: 16
0.91 0.01 0.09
Matches are distributed among these distances:
164 5 0.03
165 54 0.32
170 28 0.17
171 4 0.02
173 23 0.14
174 6 0.04
175 49 0.29
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (163 bp):
ATTTTCAAAAATGTTTTAAAAACTATATATTATATATTTAATTTCAAAGTGTTTTAAAAACTATA
TAATATATATATATTTCCAAAAATCGTTTTCAAAACTGCATAATATATACACTTCGAAAACCGTT
TTCTGAAAACATATATTATATCTTTTCAAAAGC
Found at i:456750 original size:21 final size:21
Alignment explanation
Indices: 456686--456753 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
456676 TCAATCCCTT
*
456686 TTTTACCTTTATAATTGAGGC
1 TTTTAACTTTATAATTGAGGC
* * * * *
456707 CTCTAATTTTGTAATCTTA--C
1 TTTTAACTTTATAAT-TGAGGC
456727 TTTTAACTTTATAATTGAGGC
1 TTTTAACTTTATAATTGAGGC
456748 TTTTAA
1 TTTTAA
456754 TTTTTTCAAT
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
19 2 0.06
20 12 0.36
21 17 0.52
22 2 0.06
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.50
Consensus pattern (21 bp):
TTTTAACTTTATAATTGAGGC
Found at i:456771 original size:128 final size:130
Alignment explanation
Indices: 456630--457021 Score: 405
Period size: 128 Copynumber: 3.0 Consensus size: 130
456620 CATAATATTA
* * * * ** *
456630 TTCAATCTAACTTTCTATCTTTATAATTGAA-ATCTCTAATTTTTTTTCAATC-CCTTTTTTACC
1 TTCAATCTCACTTTCTAACTTT-TAATTGAAGACCTCTAA-GTTTTTTCAATCTCAATTTCTACC
* * *
456693 TTTATAATTGAGGCCTCTAATTTTGTAATCTTAC-TTTTAACTTTATAATTGAGGCTTTTAA-TT
64 TTTATAATTGAGGCCCCTAATTTTGTAATCTCACTTTTTAACTTTATAATTGAGGCTCTTAAGTT
456756 TT
129 TT
* *
456758 TTCAATCTCACTTTCTACCTTTTCAATT-AAGGCCTCTAAGTTTTTTCAATCTCAATTTCTACCT
1 TTCAATCTCACTTTCTAACTTTT-AATTGAAGACCTCTAAGTTTTTTCAATCTCAATTTCTACCT
*
456822 TTATAATTGAGGCCCCTAATTTTTTAATCTCACTTTTTTAACTTTATAATTGAGGCTCTTAAGTT
65 TTATAATTGAGGCCCCTAATTTTGTAATCTCAC-TTTTTAACTTTATAATTGAGGCTCTTAAGTT
456887 TT
129 TT
* * * *
456889 TT-AATCTCACTTTCTAACTTTCTAATTG-AGGCCTCTAAGATTTTTT-TATCTCAA-TTATACA
1 TTCAATCTCACTTTCTAACTTT-TAATTGAAGACCTCTAAG-TTTTTTCAATCTCAATTTCTACC
* * * * *
456950 TTTATAATTG-GCGCCCCT-ATTTTTTCAATCTCAATTTCTACCTTTATAATTAAGGC-CTTTAA
64 TTTATAATTGAG-GCCCCTAATTTTGT-AATCTCACTTTTTAACTTTATAATTGAGGCTC-TTAA
457012 -TTTT
126 GTTTT
*
457016 TACAAT
1 TTCAAT
457022 TTCATAAAAT
Statistics
Matches: 230, Mismatches: 21, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
127 20 0.09
128 103 0.45
129 28 0.12
130 66 0.29
131 13 0.06
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.49
Consensus pattern (130 bp):
TTCAATCTCACTTTCTAACTTTTAATTGAAGACCTCTAAGTTTTTTCAATCTCAATTTCTACCTT
TATAATTGAGGCCCCTAATTTTGTAATCTCACTTTTTAACTTTATAATTGAGGCTCTTAAGTTTT
Found at i:456867 original size:43 final size:43
Alignment explanation
Indices: 456630--457021 Score: 342
Period size: 43 Copynumber: 9.1 Consensus size: 43
456620 CATAATATTA
* * ***
456630 TTCAATCTAACTTTCTATCTTTATAATTGAAATCTCTAATTTTTT
1 TTCAATCTCACTTTCTAACTTTATAATTGAGGCCTCTAA--TTTT
* *
456675 TTCAATC-C-CTTTTTTACCTTTATAATTGAGGCCTCTAATTTT
1 TTCAATCTCAC-TTTCTAACTTTATAATTGAGGCCTCTAATTTT
* * * *
456717 GT-AATCTTACTTT-TAACTTTATAATTGAGGCTTTTAATTTT
1 TTCAATCTCACTTTCTAACTTTATAATTGAGGCCTCTAATTTT
* *
456758 TTCAATCTCACTTTCTACCTTT-TCAATTAAGGCCTCTAAGTTTT
1 TTCAATCTCACTTTCTAACTTTAT-AATTGAGGCCTCTAA-TTTT
* * *
456802 TTCAATCTCAATTTCTACCTTTATAATTGAGGCCCCTAATTTT
1 TTCAATCTCACTTTCTAACTTTATAATTGAGGCCTCTAATTTT
*
456845 TT-AATCTCACTTTTTTAACTTTATAATTGAGG-CTCTTAAGTTTT
1 TTCAATCTCAC-TTTCTAACTTTATAATTGAGGCCTC-TAA-TTTT
*
456889 TT-AATCTCACTTTCTAACTTTCTAATTGAGGCCTCTAAGATTTT
1 TTCAATCTCACTTTCTAACTTTATAATTGAGGCCTCT-A-ATTTT
* * * *
456933 TT-TATCTCA-ATTAT-ACATTTATAATTG-GCGCCCCT-ATTTT
1 TTCAATCTCACTTTCTAAC-TTTATAATTGAG-GCCTCTAATTTT
* * * *
456973 TTCAATCTCAATTTCTACCTTTATAATTAAGGCCTTTAATTTT
1 TTCAATCTCACTTTCTAACTTTATAATTGAGGCCTCTAATTTT
*
457016 TACAAT
1 TTCAAT
457022 TTCATAAAAT
Statistics
Matches: 287, Mismatches: 39, Indels: 44
0.78 0.11 0.12
Matches are distributed among these distances:
40 7 0.02
41 36 0.13
42 47 0.16
43 97 0.34
44 91 0.32
45 9 0.03
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.49
Consensus pattern (43 bp):
TTCAATCTCACTTTCTAACTTTATAATTGAGGCCTCTAATTTT
Found at i:457089 original size:16 final size:16
Alignment explanation
Indices: 457068--457100 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
457058 CTCTCTCGCT
457068 AATTCATTTAATTTTG
1 AATTCATTTAATTTTG
457084 AATTCATTTAATTTTG
1 AATTCATTTAATTTTG
457100 A
1 A
457101 GTTAAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (16 bp):
AATTCATTTAATTTTG
Found at i:457628 original size:18 final size:18
Alignment explanation
Indices: 457582--457628 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
457572 ATATAAAATT
*
457582 TTTTTAAAAAAATTAACA
1 TTTTTAAAAAAATAAACA
*
457600 TTATTTTAAAAAATAAAGC-
1 TT-TTTAAAAAAATAAA-CA
457619 TTTTTAAAAA
1 TTTTTAAAAA
457629 TTTAACAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 9 0.38
19 14 0.58
20 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (18 bp):
TTTTTAAAAAAATAAACA
Found at i:471030 original size:6 final size:6
Alignment explanation
Indices: 471019--471065 Score: 94
Period size: 6 Copynumber: 7.8 Consensus size: 6
471009 TTAGAGGTCT
471019 GTTGAG GTTGAG GTTGAG GTTGAG GTTGAG GTTGAG GTTGAG GTTGA
1 GTTGAG GTTGAG GTTGAG GTTGAG GTTGAG GTTGAG GTTGAG GTTGA
471066 AGTAGACGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.17, C:0.00, G:0.49, T:0.34
Consensus pattern (6 bp):
GTTGAG
Found at i:472203 original size:16 final size:16
Alignment explanation
Indices: 472182--472236 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
472172 AATAAACGAT
472182 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
472198 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
* *
472214 ATAAATGAACATGAAC
1 ATAAACGAACACGAAC
472230 ATAAACG
1 ATAAACG
472237 TTGGAGACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.56, C:0.20, G:0.13, T:0.11
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:473354 original size:14 final size:14
Alignment explanation
Indices: 473311--473354 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
473301 TGAACATAAG
473311 CGAACATAACCGAA
1 CGAACATAACCGAA
* *
473325 CAAACATAAACGAA
1 CGAACATAACCGAA
*
473339 CGAACATAACCAAA
1 CGAACATAACCGAA
473353 CG
1 CG
473355 TTCACGAACG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.55, C:0.27, G:0.11, T:0.07
Consensus pattern (14 bp):
CGAACATAACCGAA
Found at i:474641 original size:3 final size:3
Alignment explanation
Indices: 474633--474677 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
474623 ATTTTTAACT
474633 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
474678 AATAAAAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:475020 original size:22 final size:22
Alignment explanation
Indices: 474975--475020 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
474965 CGTCGAAGCC
* **
474975 CTATGGTGAGTCACCACCGTAG
1 CTATGGTGACTCACCACCCCAG
*
474997 CTATGGTGACTCACCGCCCCAG
1 CTATGGTGACTCACCACCCCAG
475019 CT
1 CT
475021 GCCGCCTCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.35, G:0.24, T:0.22
Consensus pattern (22 bp):
CTATGGTGACTCACCACCCCAG
Found at i:475137 original size:184 final size:184
Alignment explanation
Indices: 474828--475196 Score: 738
Period size: 184 Copynumber: 2.0 Consensus size: 184
474818 CTAAACCCTA
474828 GCCCCAGCTGCCGCCTCAAGCTTCCAGAAGCTCGTCGCAGCTCGTTGCCGACGCTCCCACTGCCA
1 GCCCCAGCTGCCGCCTCAAGCTTCCAGAAGCTCGTCGCAGCTCGTTGCCGACGCTCCCACTGCCA
474893 GATGACCCAACCCGCTACAGCCACGACACCGCCGCCTCGACGAAGCCTCCAGAAACGCCACGAAG
66 GATGACCCAACCCGCTACAGCCACGACACCGCCGCCTCGACGAAGCCTCCAGAAACGCCACGAAG
474958 CCCCCCACGTCGAAGCCCTATGGTGAGTCACCACCGTAGCTATGGTGACTCACC
131 CCCCCCACGTCGAAGCCCTATGGTGAGTCACCACCGTAGCTATGGTGACTCACC
475012 GCCCCAGCTGCCGCCTCAAGCTTCCAGAAGCTCGTCGCAGCTCGTTGCCGACGCTCCCACTGCCA
1 GCCCCAGCTGCCGCCTCAAGCTTCCAGAAGCTCGTCGCAGCTCGTTGCCGACGCTCCCACTGCCA
475077 GATGACCCAACCCGCTACAGCCACGACACCGCCGCCTCGACGAAGCCTCCAGAAACGCCACGAAG
66 GATGACCCAACCCGCTACAGCCACGACACCGCCGCCTCGACGAAGCCTCCAGAAACGCCACGAAG
475142 CCCCCCACGTCGAAGCCCTATGGTGAGTCACCACCGTAGCTATGGTGACTCACC
131 CCCCCCACGTCGAAGCCCTATGGTGAGTCACCACCGTAGCTATGGTGACTCACC
475196 G
1 G
475197 AGGGCCATTC
Statistics
Matches: 185, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
184 185 1.00
ACGTcount: A:0.22, C:0.42, G:0.22, T:0.14
Consensus pattern (184 bp):
GCCCCAGCTGCCGCCTCAAGCTTCCAGAAGCTCGTCGCAGCTCGTTGCCGACGCTCCCACTGCCA
GATGACCCAACCCGCTACAGCCACGACACCGCCGCCTCGACGAAGCCTCCAGAAACGCCACGAAG
CCCCCCACGTCGAAGCCCTATGGTGAGTCACCACCGTAGCTATGGTGACTCACC
Found at i:481840 original size:72 final size:72
Alignment explanation
Indices: 481754--481890 Score: 247
Period size: 72 Copynumber: 1.9 Consensus size: 72
481744 ATACAATAAA
*
481754 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGGCTTTATGGATAATATTCAACTAAT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATATTCAACTAAT
481819 TTGTTAT
66 TTGTTAT
* *
481826 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATCGCCCCGACTTTATGGATAATATTCAGCTAAT
1 GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATATTCAACTAAT
481891 CTTGGGGTCG
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (72 bp):
GCTTGAGTTATCCCCCTAAAGCAATTGGTTAATAGCCCCGACTTTATGGATAATATTCAACTAAT
TTGTTAT
Found at i:483945 original size:75 final size:75
Alignment explanation
Indices: 483782--483961 Score: 211
Period size: 75 Copynumber: 2.4 Consensus size: 75
483772 GTTTGTAAGA
* *
483782 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAATTAGCAATATTGACACATTTTAAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTCCAATCAGAATTAGCAATATTAACACATTTTAAA
483847 CGTTTGCATC
66 CGTTTGCATC
* * * * * * * *
483857 AGTAAAAGATGGGGCATGTTGAAAGCCTATTCCAATCAGAAATT-GGAATATTAACTCATTTTGA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTCCAATCAG-AATTAGCAATATTAACACATTTTAA
* * *
483921 TCGTTTGTATT
65 ACGTTTGCATC
483932 AGCAAATGTTGGGGCATGCT-AAAGGCCCAT
1 AGCAAATGTTGGGGCATGCTGAAA-GCCCAT
483962 ATCATCTTAT
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
74 3 0.04
75 78 0.92
76 4 0.05
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAGCCCATTCCAATCAGAATTAGCAATATTAACACATTTTAAA
CGTTTGCATC
Found at i:485094 original size:54 final size:55
Alignment explanation
Indices: 484836--485099 Score: 241
Period size: 54 Copynumber: 4.9 Consensus size: 55
484826 AAAAATTTGT
* * * * *
484836 GCAGAAGCCACATGAAATTATGAATGTGAT-ACTAAATGTATTACGAACATTTGTA
1 GCAGAAGCCACATGAAATGATGAATGTGTTGTC-AAATGTTTTACGAACATCTGTA
* * * * *
484891 -CAGAAGACATAGGAAATGATGAATGTGTTGTCAAATATTTTACGAACATCTAT-
1 GCAGAAGCCACATGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGTA
* * * * * *
484944 GCAGAAACCATATGAAAGGATGAATATGTTGTCAAATGTATTACGAAAATCTGTA
1 GCAGAAGCCACATGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGTA
* * * *
484999 -CAGAAACCACATAAAATGATGAATGTGCTGTCAAATTTTTTACGAACATCT-TA
1 GCAGAAGCCACATGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGTA
* * * ** * *
485052 GCAGAAGCAACAGGAAATGATAAATGTGTTACCAGATGTTTTATGAAC
1 GCAGAAGCCACATGAAATGATGAATGTGTTGTCAAATGTTTTACGAAC
485100 CAGTGATTAT
Statistics
Matches: 167, Mismatches: 38, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
53 2 0.01
54 164 0.98
55 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (55 bp):
GCAGAAGCCACATGAAATGATGAATGTGTTGTCAAATGTTTTACGAACATCTGTA
Found at i:486509 original size:77 final size:75
Alignment explanation
Indices: 486382--486525 Score: 225
Period size: 77 Copynumber: 1.9 Consensus size: 75
486372 CTTCAGTGCA
*
486382 TGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCGGGTCATACATAAGACCTACAGTGCAGGATGTTTTC--AAAGCCTT
486447 CGGGAGCTTTTT
64 CGGGAGCTTTTT
* * * *
486459 TGATGTTTTCAAAACCTTTGGGTCATATATAAGACCTTCAGTGCATGATGTTTTCAAAGCCTTCG
1 TGATGTTTTCAAAACCTTCGGGTCATACATAAGACCTACAGTGCAGGATGTTTTCAAAGCCTTCG
486524 GG
66 GG
486526 TCATCTGTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 12 0.19
77 50 0.81
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (75 bp):
TGATGTTTTCAAAACCTTCGGGTCATACATAAGACCTACAGTGCAGGATGTTTTCAAAGCCTTCG
GGAGCTTTTT
Found at i:486527 original size:45 final size:45
Alignment explanation
Indices: 486459--486572 Score: 156
Period size: 45 Copynumber: 2.5 Consensus size: 45
486449 GGAGCTTTTT
* * *
486459 TGATGTTTTCAAAACCTTTGGGTCATATATAAGACCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATATATAAGACCTACAGTGCA
* *
486504 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATATATAAGACCTACAGTGCA
*
486549 TGATATTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC--AAAGCCTTCGGG
486573 AACTTTTTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 49 0.80
47 12 0.20
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATATATAAGACCTACAGTGCA
Found at i:486585 original size:77 final size:75
Alignment explanation
Indices: 486504--486647 Score: 198
Period size: 77 Copynumber: 1.9 Consensus size: 75
486494 CTTCAGTGCA
* * *
486504 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATATTTTCAAAAAGCCTT
1 TGATGTTTTCAAAACCTTCAGGTCATCTATAAGACCTACAGTGCATGATATTTTC-AAAA-CCTT
486569 CGGGAACTTTTT
64 CGGGAACTTTTT
* * ** *
486581 TGATGTTTTCAAAACCTTCAGGTCATCTATAAGCCCTTCAGTTTATGATGTTTTCAAAACCTTCG
1 TGATGTTTTCAAAACCTTCAGGTCATCTATAAGACCTACAGTGCATGATATTTTCAAAACCTTCG
486646 GG
66 GG
486648 TCATCTGTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 8 0.14
76 4 0.07
77 47 0.80
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (75 bp):
TGATGTTTTCAAAACCTTCAGGTCATCTATAAGACCTACAGTGCATGATATTTTCAAAACCTTCG
GGAACTTTTT
Found at i:486588 original size:122 final size:122
Alignment explanation
Indices: 486371--486818 Score: 549
Period size: 122 Copynumber: 3.6 Consensus size: 122
486361 ATCTGTAATC
** *
486371 CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCCATAAGACCTACAGTGCAGGATGTTTT
1 CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
* ** *
486436 CAAAAAGCCTTCGGGAGCTTTTTTGATGTTTTCAAAACCTTTGGGTCATATATAAGA
66 CAAAAAGCCTTCGGGAACTTTTTTGATGTTTTCAAAACCTTCAGGTCATCTATAAGA
* *
486493 CCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCATGATATTTT
1 CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
*
486558 CAAAAAGCCTTCGGGAACTTTTTTGATGTTTTCAAAACCTTCAGGTCATCTATAAGC
66 CAAAAAGCCTTCGGGAACTTTTTTGATGTTTTCAAAACCTTCAGGTCATCTATAAGA
** * *
486615 CCTTCAGTTTATGATGTTTTCAAAACCTTCGGGTCATCTGTAATACCTTCAGTGCATGATGTTTT
1 CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
* * *
486680 C--AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGGGCATGATGTTTTCAAAGCCTTCAGGTCATC
66 CAAAAAGCCTTCGGG--AACT-T------TT------TTGATGTTTTCAAAACCTTCAGGTCATC
*
486743 TATAAGT
116 TATAAGA
* * * *
486750 CCTTCAGTGCATGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTT
1 CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
486815 CAAA
66 CAAA
486819 GCCTTCCGGT
Statistics
Matches: 283, Mismatches: 26, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
120 12 0.04
122 175 0.62
123 1 0.00
129 2 0.01
135 92 0.33
137 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (122 bp):
CCTTCAGTGCATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGACCTACAGTGCATGATGTTTT
CAAAAAGCCTTCGGGAACTTTTTTGATGTTTTCAAAACCTTCAGGTCATCTATAAGA
Found at i:486632 original size:45 final size:45
Alignment explanation
Indices: 486581--486916 Score: 483
Period size: 45 Copynumber: 7.4 Consensus size: 45
486571 GGAACTTTTT
* **
486581 TGATGTTTTCAAAACCTTCAGGTCATCTATAAGCCCTTCAGTTTA
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
* **
486626 TGATGTTTTCAAAACCTTCGGGTCATCTGTAATACCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
* * *
486671 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGGGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
* * *
486716 TGATGTTTTCAAAGCCTTCAGGTCATCTATAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
*
486761 TGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
* * *
486806 TGATGTTTTCAAAGCCTTCCGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
* * *
486851 TGATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGTA
1 TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
486896 TGATGTTTTCCAAAAGCCTTC
1 TGATGTTTT-CAAAA-CCTTC
486917 GGGAGCTTTT
Statistics
Matches: 265, Mismatches: 24, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 255 0.96
46 5 0.02
47 5 0.02
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:486978 original size:45 final size:45
Alignment explanation
Indices: 486927--487038 Score: 179
Period size: 45 Copynumber: 2.5 Consensus size: 45
486917 GGGAGCTTTT
*
486927 TGATGTTTTCAAAACCTTTGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * * *
486972 TTATGTTTTCAAAGCCTTCGGGTCATCTGTTAGGCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
487017 TGATGTTTTCAAAACCTTCGGG
1 TGATGTTTTCAAAACCTTCGGG
487039 AGCTTTTTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:486978 original size:76 final size:74
Alignment explanation
Indices: 486851--486993 Score: 232
Period size: 76 Copynumber: 1.9 Consensus size: 74
486841 CTTCAGTGCA
*
486851 TGATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCCAAAAGCCTT
1 TGATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTT-C-AAAGCCTT
486916 CGGGAGCTTTT
64 CGGGAGCTTTT
* * *
486927 TGATGTTTTCAAAACCTTTGGGTCATCTGTAAGCCCTTCAGTGCATTATGTTTTCAAAGCCTTCG
1 TGATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCG
486992 GG
66 GG
486994 TCATCTGTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
74 12 0.19
75 1 0.02
76 50 0.79
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (74 bp):
TGATGTTATCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCG
GGAGCTTTT
Found at i:487020 original size:121 final size:121
Alignment explanation
Indices: 486806--487337 Score: 714
Period size: 121 Copynumber: 4.4 Consensus size: 121
486796 CTTCAGTGCA
* *
486806 TGATGTTTTCAAAGCCTTCCGGTCATCTGTAAGTCCTTCAGTGCATGATGTTATCAAAACCTTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCG
* *
486871 GGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCCAAAAGCCTTCGGGAGCTTTT
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* * * * *
486927 TGATGTTTTCAAAACCTTTGGGTCATCTGTAAGCCCTTCAGTGCATTATGTTTTCAAAGCCTTCG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCG
* *
486992 GGTCATCTGTTAGGCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGGAGCTTTT
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* * *
487046 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCG
* * ** *
487111 GGTCATCTGTAAGCCCTTCAGTGCAAGATGTTTTTAAAAAGCCTTCATGATCTTTT
66 GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
*
487167 T-AAGATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACACCT
1 TGATG-TTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATC-AAA-ACCT
** ** * *
487231 TCGGGTCATCCATAAAACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
63 TCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
* * * * * *
487290 TGAT-ATTT-AAAGCCTCCAGGTCATCTGTAAGACCTACAGTGCAAGATG
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATG
487338 ATAAGACCTC
Statistics
Matches: 363, Mismatches: 42, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
119 107 0.29
120 10 0.03
121 187 0.52
122 6 0.02
123 52 0.14
124 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (121 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAAAACCTTCG
GGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTT
Found at i:487099 original size:45 final size:45
Alignment explanation
Indices: 487046--487144 Score: 180
Period size: 45 Copynumber: 2.2 Consensus size: 45
487036 GGGAGCTTTT
*
487046 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
487091 TGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
*
487136 AGATGTTTT
1 TGATGTTTT
487145 TAAAAAGCCT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCAGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:487233 original size:47 final size:47
Alignment explanation
Indices: 487177--487282 Score: 133
Period size: 47 Copynumber: 2.3 Consensus size: 47
487167 TAAGATTTTC
** ** * *
487177 AAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTATCAA
1 AAAGCCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTATCAA
*
487224 AACA-CCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTTTCAA
1 AA-AGCCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTATCAA
487271 AAAGCCTTCGGG
1 AAAGCCTTCGGG
487283 AGCTTTTTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
46 1 0.02
47 48 0.96
48 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (47 bp):
AAAGCCTTCGGGTCATCCATAAAACCTACAGTGCAGGATGTTATCAA
Found at i:487518 original size:3 final size:3
Alignment explanation
Indices: 487512--487580 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
487502 TTCATTTTTA
487512 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
487559 ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT A
487581 AATAAAAAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 63 0.97
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:488951 original size:2 final size:2
Alignment explanation
Indices: 488944--488981 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
488934 AGTCATTCTA
488944 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
488982 GCATATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:490687 original size:21 final size:20
Alignment explanation
Indices: 490601--490757 Score: 93
Period size: 20 Copynumber: 7.8 Consensus size: 20
490591 AAATGACCAA
**
490601 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
490620 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
490640 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
490660 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * **
490681 GAAAATCGCAATGCGATAGT
1 CAAAATCGCAACGCGATTTT
* **
490701 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
490721 ACAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
490742 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
490758 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
19 16 0.15
20 56 0.54
21 32 0.31
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:490710 original size:41 final size:41
Alignment explanation
Indices: 490660--490757 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
490650 AATCAGTTTC
* *
490660 CAAAATCGCAACGCGATTCTT-GAAAATCGCAATGCG-ATAGT
1 CAAAATCGCAACGCGATT-TTACAAAATCGCAACGCGAATA-T
* **
490701 CAAATTCGCATTGCGATTTTACAAAATCGCAACGCGAATAT
1 CAAAATCGCAACGCGATTTTACAAAATCGCAACGCGAATAT
*
490742 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
490758 ACACATAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.04
41 41 0.89
42 3 0.07
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.21
Consensus pattern (41 bp):
CAAAATCGCAACGCGATTTTACAAAATCGCAACGCGAATAT
Found at i:490767 original size:20 final size:20
Alignment explanation
Indices: 490744--490917 Score: 118
Period size: 20 Copynumber: 8.7 Consensus size: 20
490734 GCGAATATGA
490744 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
490764 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
490784 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
490804 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
490824 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * **
490844 ATATCGCAACGCGTATCGGT
1 AAATCGCAACGCGTAACCAT
* *
490864 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
490884 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
490905 AAATCGCAACGCG
1 AAATCGCAACGCG
490918 ATATTTAAAG
Statistics
Matches: 126, Mismatches: 24, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
19 2 0.02
20 107 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:490771 original size:61 final size:61
Alignment explanation
Indices: 490600--490776 Score: 182
Period size: 61 Copynumber: 2.9 Consensus size: 61
490590 AAAATGACCA
* * * *
490600 ACAAAATCGCAACGCGAA-ATAAAAATCGCAACGCGATCCCCAGAATCGCAAAT-C-AGTTT
1 ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACAAAATCGC-AATGCGAGTTT
* * * * ** * * *
490659 CCAAAATCGCAACGCGATTCTTGAAAATCGCAATGCGATAGTCAAATTCGCATTGCGATTTT
1 ACAAAATCGCAACGCGAAT-ATGAAAATCGCAACGCGATACACAAAATCGCAATGCGAGTTT
490721 ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGA-ACACATAAATCGCAATGCG
1 ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACA-AAATCGCAATGCG
490777 TATCCGTAAA
Statistics
Matches: 93, Mismatches: 20, Indels: 8
0.77 0.17 0.07
Matches are distributed among these distances:
59 16 0.17
60 5 0.05
61 51 0.55
62 21 0.23
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.19
Consensus pattern (61 bp):
ACAAAATCGCAACGCGAATATGAAAATCGCAACGCGATACACAAAATCGCAATGCGAGTTT
Found at i:490788 original size:40 final size:39
Alignment explanation
Indices: 490724--490918 Score: 183
Period size: 40 Copynumber: 4.9 Consensus size: 39
490714 CGATTTTACA
* ** *
490724 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * * *
490764 AAATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
490804 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* * ** *
490844 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
490884 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
490919 TATTTAAAGC
Statistics
Matches: 127, Mismatches: 25, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.74
41 32 0.25
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:490809 original size:60 final size:60
Alignment explanation
Indices: 490724--490917 Score: 244
Period size: 60 Copynumber: 3.2 Consensus size: 60
490714 CGATTTTACA
* ** * *
490724 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ***
490784 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
* * ** *
490844 ATATCGCAACGCGTATCGGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGT
490905 AAATCGCAACGCG
1 AAATCGCAACGCG
490918 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGT
Found at i:491339 original size:33 final size:33
Alignment explanation
Indices: 491300--491370 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
491290 TTCACTTAGA
491300 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
491333 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
491366 TTTCA
1 TTTCA
491371 AGTTAGTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:491507 original size:41 final size:41
Alignment explanation
Indices: 491449--491526 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
491439 TTGCAGAAGA
*
491449 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGACT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
491490 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT
491527 CGCAAAGCGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.45, C:0.17, G:0.26, T:0.13
Consensus pattern (41 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATGACT
Found at i:491523 original size:21 final size:21
Alignment explanation
Indices: 491450--491525 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
491440 TGCAGAAGAG
*
491450 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
491471 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
491491 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
491512 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
491526 TCGCAAAGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:491529 original size:14 final size:14
Alignment explanation
Indices: 491510--491566 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
491500 GAGAAATGAA
491510 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
491524 AATCGCAAAGCGATATGAA
1 AATCGC-AA-CG--A-GAG
491543 AATCGCAACGAGAG
1 AATCGCAACGAGAG
491557 AATCGCAACG
1 AATCGCAACG
491567 CGAAACCAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
15 3 0.08
16 2 0.06
17 2 0.06
18 3 0.08
19 8 0.22
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:491543 original size:33 final size:33
Alignment explanation
Indices: 491505--491569 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
491495 AACGAGAGAA
491505 ATGAAAATCGCAACGAGAGAATCGCAAAGCGAT
1 ATGAAAATCGCAACGAGAGAATCGCAAAGCGAT
*
491538 ATGAAAATCGCAACGAGAGAATCGCAACGCGA
1 ATGAAAATCGCAACGAGAGAATCGCAAAGCGA
491570 AACCAATAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.45, C:0.20, G:0.25, T:0.11
Consensus pattern (33 bp):
ATGAAAATCGCAACGAGAGAATCGCAAAGCGAT
Found at i:493459 original size:14 final size:14
Alignment explanation
Indices: 493440--493475 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
493430 ATTGTTTAAT
493440 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
493454 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
493468 TGATTTGT
1 TGATTTGT
493476 GCAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:493650 original size:20 final size:19
Alignment explanation
Indices: 493582--493660 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 19
493572 AAAAATGACT
493582 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
493601 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
493615 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
493634 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
493654 ATCGCAA
1 ATCGCAA
493661 CGAGAGAATC
Statistics
Matches: 52, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 20 0.38
20 16 0.31
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:493722 original size:33 final size:33
Alignment explanation
Indices: 493685--493942 Score: 188
Period size: 33 Copynumber: 7.5 Consensus size: 33
493675 TGCGTTTATA
493685 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
493718 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * * * *
493758 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
*
493789 ATTTCGCATTGCGATTCTCACGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
493822 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * *
493862 GTTGCG-ATTTTC-ATT-TC-CGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTCTCTCG--TTGCGATTTTC
* *
493894 ATTTCGCATTGCGATTATCACGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
493927 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
493943 TTCATTTCGC
Statistics
Matches: 181, Mismatches: 21, Indels: 46
0.73 0.08 0.19
Matches are distributed among these distances:
31 9 0.05
32 14 0.08
33 82 0.45
34 14 0.08
35 11 0.06
36 7 0.04
37 4 0.02
38 16 0.09
39 6 0.03
40 18 0.10
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:493731 original size:19 final size:19
Alignment explanation
Indices: 493707--494028 Score: 353
Period size: 19 Copynumber: 18.4 Consensus size: 19
493697 GATTCTCTCG
493707 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
493726 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
493745 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
493759 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
493778 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
493797 TTGCGATTCTCA---CG--
1 TTGCGATTTTCATTTCGCA
493811 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
493830 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
493849 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
493863 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
493883 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
493902 TTGCGATTATCA---CG--
1 TTGCGATTTTCATTTCGCA
493916 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
493935 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
493954 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
493968 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
493988 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
494002 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
494021 TTGCGATT
1 TTGCGATT
494029 GTAATTTCCG
Statistics
Matches: 259, Mismatches: 12, Indels: 64
0.77 0.04 0.19
Matches are distributed among these distances:
14 51 0.20
16 27 0.10
17 22 0.08
18 5 0.02
19 127 0.49
20 27 0.10
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:493742 original size:52 final size:52
Alignment explanation
Indices: 493685--494000 Score: 587
Period size: 52 Copynumber: 6.0 Consensus size: 52
493675 TGCGTTTATA
493685 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
493737 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
493789 ATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
493841 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
* *
493894 ATTTCGCATTGCGATTATCACGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
493946 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
493999 AT
1 AT
494001 GTTGGGATTT
Statistics
Matches: 256, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
52 189 0.74
53 67 0.26
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:493949 original size:105 final size:105
Alignment explanation
Indices: 493685--494000 Score: 607
Period size: 105 Copynumber: 3.0 Consensus size: 105
493675 TGCGTTTATA
*
493685 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
493750 ATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
66 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
493789 ATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
493854 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
66 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
*
493894 ATTTCGCATTGCGATTATCACGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
493959 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
66 ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
493999 AT
1 AT
494001 GTTGGGATTT
Statistics
Matches: 209, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
104 88 0.42
105 121 0.58
ACGTcount: A:0.15, C:0.23, G:0.17, T:0.45
Consensus pattern (105 bp):
ATTTCGCATTGCGATTCTCACGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
Found at i:493972 original size:33 final size:33
Alignment explanation
Indices: 493726--494028 Score: 251
Period size: 33 Copynumber: 8.8 Consensus size: 33
493716 TCATTTCGCA
493726 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
493759 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
493795 CATTGCGATTCTCACGTT-GCGATTTTC-ATT-TCGCA
1 --TTGCGATTTTCA-TTTCGC-A-TTGCGATTCTCTCG
493830 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
493863 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTT-CGCATTGCGA--TTC-TCTCG
* * * * *
493900 CATTGCGATTATCACGTT-GCGATTTTC-ATT-TCGCA
1 --TTGCGATTTTCA-TTTCGC-A-TTGCGATTCTCTCG
493935 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
493968 TTGCGATTTTCATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
* *
494002 TTGGGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
494029 GTAATTTCCG
Statistics
Matches: 218, Mismatches: 27, Indels: 50
0.74 0.09 0.17
Matches are distributed among these distances:
31 6 0.03
32 12 0.06
33 98 0.45
34 39 0.18
35 8 0.04
36 7 0.03
37 8 0.04
38 15 0.07
39 17 0.08
40 8 0.04
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:496543 original size:24 final size:24
Alignment explanation
Indices: 496509--496555 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
496499 CTGAAACATC
496509 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
496533 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
496556 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:497266 original size:20 final size:20
Alignment explanation
Indices: 497238--497447 Score: 206
Period size: 20 Copynumber: 10.5 Consensus size: 20
497228 AAATTTCAGT
* * *
497238 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
497258 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
497278 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
497298 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
497318 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* **
497338 GTTGCGATATACGGAAACGC
1 GTTGCGATTTACGGATTCGC
** *
497358 GTTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
497378 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
497398 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
497418 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
497438 GTTGCGATTT
1 GTTGCGATTT
497448 TGGAAAATCG
Statistics
Matches: 162, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
20 161 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:497464 original size:21 final size:20
Alignment explanation
Indices: 497414--497515 Score: 78
Period size: 20 Copynumber: 5.0 Consensus size: 20
497404 ATTTATGTGT
* * * *
497414 TCGCGTTGCGATTTTCATAT
1 TCGCATTGCGATTTTGAAAA
*
497434 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTT-GAAAA
* * **
497455 TCGCAATGCGAATTTGACTA
1 TCGCATTGCGATTTTGAAAA
*
497475 TCGCATTGCGATTTTCAAGAA
1 TCGCATTGCGATTTTGAA-AA
*
497496 TCGCGTTGCGATTTTAGAAA
1 TCGCATTGCGATTTT-GAAA
497516 CTGATTTTCG
Statistics
Matches: 64, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
20 32 0.50
21 30 0.47
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTTGAAAA
Found at i:497506 original size:41 final size:41
Alignment explanation
Indices: 497414--497506 Score: 100
Period size: 41 Copynumber: 2.3 Consensus size: 41
497404 ATTTATGTGT
* * *
497414 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTCATATTCGCATTGCGATTTTGCAAAA
** *
497455 TCGCAATGCGAATTTGACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTCA-TATTCGCATTGCGATTTTGCAA-AA
497496 TCGCGTTGCGA
1 TCGCGTTGCGA
497507 TTTTAGAAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
40 2 0.05
41 38 0.90
42 2 0.05
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (41 bp):
TCGCGTTGCGAATTTCATATTCGCATTGCGATTTTGCAAAA
Found at i:499536 original size:17 final size:16
Alignment explanation
Indices: 499516--499550 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
499506 AGTATTTATT
499516 TATTTTAAATATTTAAA
1 TATTTTAAAT-TTTAAA
*
499533 TATTTTGAATTTTAAA
1 TATTTTAAATTTTAAA
499549 TA
1 TA
499551 AATAATTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TATTTTAAATTTTAAA
Found at i:500277 original size:46 final size:46
Alignment explanation
Indices: 500210--500306 Score: 194
Period size: 46 Copynumber: 2.1 Consensus size: 46
500200 TCTTTTTCTT
500210 TGGGTGAAAAGTATTGAGATTACACCAATCTGGATTATTTGGGTGA
1 TGGGTGAAAAGTATTGAGATTACACCAATCTGGATTATTTGGGTGA
500256 TGGGTGAAAAGTATTGAGATTACACCAATCTGGATTATTTGGGTGA
1 TGGGTGAAAAGTATTGAGATTACACCAATCTGGATTATTTGGGTGA
500302 TGGGT
1 TGGGT
500307 TTTTCTTTTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 51 1.00
ACGTcount: A:0.29, C:0.08, G:0.30, T:0.33
Consensus pattern (46 bp):
TGGGTGAAAAGTATTGAGATTACACCAATCTGGATTATTTGGGTGA
Found at i:500794 original size:28 final size:28
Alignment explanation
Indices: 500754--500812 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
500744 TGTATCTTTC
500754 CTTGCTAATATATCTGTTTTATT-ATTTA
1 CTTGCTAATATATCTGTTTTATTGA-TTA
* *
500782 CTTGCTATTATATTTGTTTTATTGATTA
1 CTTGCTAATATATCTGTTTTATTGATTA
500810 CTT
1 CTT
500813 TTAAATATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 27 0.96
29 1 0.04
ACGTcount: A:0.22, C:0.10, G:0.08, T:0.59
Consensus pattern (28 bp):
CTTGCTAATATATCTGTTTTATTGATTA
Found at i:503397 original size:36 final size:36
Alignment explanation
Indices: 503350--503420 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
503340 TTGTTTAACT
503350 TTGGAATCTCGACTATATTTGAGGTGACCTACAGGA
1 TTGGAATCTCGACTATATTTGAGGTGACCTACAGGA
503386 TTGGAATCTCGACTATATTTGAGGTGACCTACAGG
1 TTGGAATCTCGACTATATTTGAGGTGACCTACAGG
503421 CCTTCTGATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (36 bp):
TTGGAATCTCGACTATATTTGAGGTGACCTACAGGA
Found at i:504189 original size:22 final size:22
Alignment explanation
Indices: 504156--504203 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
504146 TATTAAATTA
* *
504156 TAAAAATATATAAATTTTAGTT
1 TAAAAATATATAAAATTTAGAT
504178 TAAAAGAT-TATAAAATTTAGAT
1 TAAAA-ATATATAAAATTTAGAT
504200 TAAA
1 TAAA
504204 TTACACCGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (22 bp):
TAAAAATATATAAAATTTAGAT
Found at i:504931 original size:7 final size:7
Alignment explanation
Indices: 504919--504949 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
504909 CATGGTTCAA
504919 ATTTTAG
1 ATTTTAG
504926 ATTTTAG
1 ATTTTAG
504933 ATTTTAG
1 ATTTTAG
504940 ATTTT-G
1 ATTTTAG
504946 ATTT
1 ATTT
504950 CAGGTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (7 bp):
ATTTTAG
Found at i:506575 original size:23 final size:22
Alignment explanation
Indices: 506537--506582 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
506527 AAGTGATTGC
506537 TAATGTGTAAATCAGATTAACT
1 TAATGTGTAAATCAGATTAACT
*
506559 TAATGTGATGAATCAGATTAACT
1 TAATGTG-TAAATCAGATTAACT
506582 T
1 T
506583 TAGCAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (22 bp):
TAATGTGTAAATCAGATTAACT
Found at i:513999 original size:13 final size:13
Alignment explanation
Indices: 513981--514023 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
513971 AATAATAGTT
*
513981 AATAAAGATTTTA
1 AATAAATATTTTA
*
513994 AATAAATATTGTTT
1 AATAAATATT-TTA
*
514008 TATAAATATTTTA
1 AATAAATATTTTA
514021 AAT
1 AAT
514024 TATTCAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.47
Consensus pattern (13 bp):
AATAAATATTTTA
Found at i:514188 original size:29 final size:30
Alignment explanation
Indices: 514152--514227 Score: 136
Period size: 29 Copynumber: 2.5 Consensus size: 30
514142 AAATATATTG
514152 GATTTTATTACAATTATT-TTTTTATTAAT
1 GATTTTATTACAATTATTGTTTTTATTAAT
514181 GATTTTATTACAATTATTGTTTTTATTAAT
1 GATTTTATTACAATTATTGTTTTTATTAAT
514211 GATTTTTATTACAATTA
1 GA-TTTTATTACAATTA
514228 GATATAAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 18 0.40
30 13 0.29
31 14 0.31
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (30 bp):
GATTTTATTACAATTATTGTTTTTATTAAT
Found at i:515880 original size:19 final size:19
Alignment explanation
Indices: 515851--515900 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
515841 TTAATAAAAA
* * *
515851 AATATAATATTTTATTTAT
1 AATAAAATATTATATATAT
*
515870 AATTAAATATTATATATAT
1 AATAAAATATTATATATAT
*
515889 TATAAAATATTA
1 AATAAAATATTA
515901 AAAGTTTAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAAAATATTATATATAT
Found at i:515927 original size:37 final size:36
Alignment explanation
Indices: 515885--515956 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 36
515875 AATATTATAT
* * *
515885 ATATTATAAAATATTAAAAGTTTAAAAATCAATAATA
1 ATATTATAAAACATTAAAAG-ATAAAAATAAATAATA
515922 ATATTATAAAACATTAAAAGATAAAAATAAATAAT
1 ATATTATAAAACATTAAAAGATAAAAATAAATAAT
515957 TTATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (36 bp):
ATATTATAAAACATTAAAAGATAAAAATAAATAATA
Found at i:516559 original size:30 final size:30
Alignment explanation
Indices: 516501--516562 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
516491 AAAATTTTGG
* * *
516501 TTAGTGATCAAAATGTAAAATTTTAAAAGT
1 TTAGTGATCAAAATATAAAAGTTAAAAAGT
* *
516531 TTAGTGATTAAAATATAAAGGTTAAAAAGT
1 TTAGTGATCAAAATATAAAAGTTAAAAAGT
516561 TT
1 TT
516563 TGGGACCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.37
Consensus pattern (30 bp):
TTAGTGATCAAAATATAAAAGTTAAAAAGT
Found at i:516602 original size:30 final size:31
Alignment explanation
Indices: 516552--516618 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
516542 AATATAAAGG
* *
516552 TTAAAAAGTTTTGGGACCAAAAAGATAATTT
1 TTAAAAAGTTTAGAGACCAAAAAGATAATTT
*
516583 TTAAAAA-TTTAGAGACCAAAAATATAATTT
1 TTAAAAAGTTTAGAGACCAAAAAGATAATTT
*
516613 TCAAAA
1 TTAAAA
516619 GTTAGGTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 25 0.78
31 7 0.22
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.31
Consensus pattern (31 bp):
TTAAAAAGTTTAGAGACCAAAAAGATAATTT
Found at i:516715 original size:3 final size:3
Alignment explanation
Indices: 516707--516740 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
516697 AATTTATATT
516707 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
516741 AACCCAATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:522952 original size:58 final size:58
Alignment explanation
Indices: 522845--522957 Score: 163
Period size: 58 Copynumber: 1.9 Consensus size: 58
522835 GACATAAAAA
* * *
522845 ATATGAATATCCAAATGTAATATGTCTAGGCACCGGTTTTCTCTCTCTTTAAATTAGG
1 ATATGAATATCCAAATGTAATATGTCTAGGCACCGGCTTTCCCTATCTTTAAATTAGG
* * * *
522903 ATATGAATATCCAAATGTAATATGTGTGGGCACTGGCTTTCCCTATCTTTGAATT
1 ATATGAATATCCAAATGTAATATGTCTAGGCACCGGCTTTCCCTATCTTTAAATT
522958 CTCCTATTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (58 bp):
ATATGAATATCCAAATGTAATATGTCTAGGCACCGGCTTTCCCTATCTTTAAATTAGG
Found at i:525821 original size:64 final size:64
Alignment explanation
Indices: 525741--525868 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
525731 TATATTATAT
* * *
525741 CATTTAACTGGAAATATTATCAAGCACAATAACATATTAGGTATCACTTATATAATGTAATAGG
1 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGATAGCACTTATATAATGTAATAGG
* *
525805 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGATAGCGCTTATATAATGTAATAGG
1 CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGATAGCACTTATATAATGTAATAGG
525869 TGACACTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 59 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.32
Consensus pattern (64 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACATATTAGATAGCACTTATATAATGTAATAGG
Found at i:526577 original size:182 final size:182
Alignment explanation
Indices: 526271--526942 Score: 1026
Period size: 182 Copynumber: 3.7 Consensus size: 182
526261 ATATTTTCTT
* * * *
526271 ATATTTTTAGCTGTTATATTGTTATCGATCGATACATTTTCATAAAGTGTCGACACTTTTTA-AC
1 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGC
*
526335 GCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTTC
66 GCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTAC
* * *
526400 AACATATCCGGTATCTTTTTACCGGTTTTGTCATTTTGAGACCAGTTTTGTC
131 AACATATCCAGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTC
*
526452 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTT-TTAAAAGTATCGACACTTTTTAGG
1 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCAT-AAAGTATCGACACTTTTTAGG
* *
526516 TGTTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTA
65 CGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTA
* *
526581 CAACATATCCAGTAGCGTTTTACCGGTTTTATCATTTTGAGACCGGTTTTGTC
130 CAACATATCCAGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTC
* * *
526634 ATATTTTTACCTGTTATATTGTTATAGATCAATACATTTTCATAAAGTGTCGACACTTTTTAGGC
1 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGC
* *
526699 GCTATAACTTCTTCTCTTTTAAATTCAGAAGGTGTCGATACTTATATTAAATTATCGACACTTGC
66 GCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTAC
* * * *
526764 AACAAATCCAGTATCGTTTTATCGATTTTGTCATTTTGAGACTGGTTTTGTC
131 AACATATCCAGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTC
* * ** *
526816 ATATTTTTACCTGTAATATTGTTATGAATCGATACATTTTTTTAAAGTATCGATACTTTTTAGGC
1 ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGC
* * * *
526881 GCTATAACTTCTTCTATTTTTATTTCCA-AAAGTGTCGATACTTATATTAAAGTATCGACACT
66 GCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTATATTAAATTATCGACACT
526943 GTTAATTTAC
Statistics
Matches: 447, Mismatches: 40, Indels: 7
0.90 0.08 0.01
Matches are distributed among these distances:
180 1 0.00
181 56 0.13
182 387 0.87
183 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.44
Consensus pattern (182 bp):
ATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACTTTTTAGGC
GCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTATATTAAATTATCGACACTTAC
AACATATCCAGTATCGTTTTACCGGTTTTGTCATTTTGAGACCGGTTTTGTC
Found at i:529877 original size:31 final size:31
Alignment explanation
Indices: 529810--529869 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
529800 CAATTTAAGG
*
529810 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
529841 CAAAAT-GTATTTGGACTT-AATTGAATTTA
1 CAAAATGGTATTTGGACTTGAATTGAATTTA
529870 TTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.35, C:0.07, G:0.17, T:0.42
Consensus pattern (31 bp):
CAAAATGGTATTTGGACTTGAATTGAATTTA
Found at i:529967 original size:19 final size:19
Alignment explanation
Indices: 529945--529999 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
529935 GAATAATAAT
529945 TTACTATTTGAACAGTAAA
1 TTACTATTTGAACAGTAAA
529964 TTACTATTTGAACAGTAAA
1 TTACTATTTGAACAGTAAA
* *
529983 TCACTGTTTGAACAGTA
1 TTACTATTTGAACAGTA
530000 CCCGAGGCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (19 bp):
TTACTATTTGAACAGTAAA
Found at i:531212 original size:24 final size:24
Alignment explanation
Indices: 531161--531212 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
531151 ATTTACATTT
* *
531161 AAATTCAAACTCAAATTGAAATTT
1 AAATTCAAACTCAAATTGAAAATG
*
531185 AAATTCAAACTCTAATT-ATAAATG
1 AAATTCAAACTCAAATTGA-AAATG
531209 AAAT
1 AAAT
531213 GAAAATGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATTCAAACTCAAATTGAAAATG
Found at i:531308 original size:33 final size:33
Alignment explanation
Indices: 531239--531312 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
531229 GTTAAATTGA
* *
531239 ACATGTTATAATGTAATATTTACTGTATAAGTC
1 ACATGTTATAATGTAATATTTACTGTAAAAGAC
531272 ACATGTTATAATGTAATATTCATA-T-TAAAAGAC
1 ACATGTTATAATGTAATATT--TACTGTAAAAGAC
531305 ACAT-TTAT
1 ACATGTTAT
531313 TGTGTTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
32 4 0.11
33 30 0.81
34 1 0.03
35 2 0.05
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (33 bp):
ACATGTTATAATGTAATATTTACTGTAAAAGAC
Found at i:532459 original size:12 final size:12
Alignment explanation
Indices: 532438--532477 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
532428 GTTTAGATTA
*
532438 TCATCGTCATCG
1 TCATCGTCATCT
*
532450 TCATCTTCATCT
1 TCATCGTCATCT
*
532462 TCATCGCCATCT
1 TCATCGTCATCT
532474 TCAT
1 TCAT
532478 TGACTGCTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.17, C:0.35, G:0.07, T:0.40
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:532465 original size:18 final size:18
Alignment explanation
Indices: 532438--532477 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
532428 GTTTAGATTA
*
532438 TCATCGTCATCGTCATCT
1 TCATCGTCATCGCCATCT
*
532456 TCATCTTCATCGCCATCT
1 TCATCGTCATCGCCATCT
532474 TCAT
1 TCAT
532478 TGACTGCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.17, C:0.35, G:0.07, T:0.40
Consensus pattern (18 bp):
TCATCGTCATCGCCATCT
Found at i:533663 original size:15 final size:15
Alignment explanation
Indices: 533639--533682 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
533629 AGGAGGTTGT
533639 GGTTGAGAAGAGCTG
1 GGTTGAGAAGAGCTG
* *
533654 GGTTGGGAAGAGGTG
1 GGTTGAGAAGAGCTG
*
533669 GGTTGATAAGAGCT
1 GGTTGAGAAGAGCT
533683 TTGAAAAAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.25, C:0.05, G:0.48, T:0.23
Consensus pattern (15 bp):
GGTTGAGAAGAGCTG
Found at i:534314 original size:199 final size:199
Alignment explanation
Indices: 534044--535127 Score: 1898
Period size: 199 Copynumber: 5.4 Consensus size: 199
534034 GTATTTTTAT
*
534044 ACCGGTTACATTGTTAATTTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
1 ACCGGTTACATTGTTAATTTACCTAGTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
*
534109 ACTTATTATAAATGTTTCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAG
66 ACTTATTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAG
534174 TATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATAC
131 TATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATAC
534239 TTAG
196 TTAG
* * *
534243 ACCGGTTACATTGTTAATTTACCTAGTACATTATAATTATGAGTTTCAATGTTTTTGGAATCGAC
1 ACCGGTTACATTGTTAATTTACCTAGTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
* *
534308 ACTTATTATAAATGTATCGACATTTTTTAGTGAACTTGGTTTTGAAATACATTCTGGACCAAAAG
66 ACTTATTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAG
*
534373 TATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAATCGGTATAC
131 TATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATAC
534438 TTAG
196 TTAG
* * *
534442 ACCGGTTAAATTGTTAATTTACCTATTACATCATAATTATGGGTTTCGATGTTTTTGGGATCGAC
1 ACCGGTTACATTGTTAATTTACCTAGTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
534507 ACTTATTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAG
66 ACTTATTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAG
*
534572 TATCGACACTTGTTTTATTTGTGTTGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATAC
131 TATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATAC
*
534637 TTAA
196 TTAG
* *
534641 ACCAGTTACATTGTTAATTTACCTAGTACATTATAATTATGGGTTTCAATGTTTTTGGGATCGAC
1 ACCGGTTACATTGTTAATTTACCTAGTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
534706 ACTTATTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAG
66 ACTTATTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAG
* *
534771 TATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAATCGGTATAC
131 TATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATAC
534836 TTAG
196 TTAG
* *
534840 ACCGGTTACATTGTTAATTTACGTAGTACATTATAATTATGGGTTTTGATGTTTTTGGGATCGAC
1 ACCGGTTACATTGTTAATTTACCTAGTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
* * *
534905 ACTTATTATAAATGTATCGACACTTTTTAGTGCATTTGGTTTTGAAATATATTATGGACCAAAAG
66 ACTTATTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAG
* * *
534970 TATTGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACCGATATAC
131 TATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATAC
535035 TTAG
196 TTAG
* * * *
535039 ACCAGTTAAATTGTTAATTTACCTATTACATCATAATTATGGGTTTCGATGTTTTTTGGGATCGA
1 ACCGGTTACATTGTTAATTTACCTAGTACATTATAATTATGGGTTTCGATG-TTTTTGGGATCGA
535104 CACTTATTATAAATGTATCGACAC
65 CACTTATTATAAATGTATCGACAC
535128 ATAAGTTTAT
Statistics
Matches: 840, Mismatches: 44, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
199 803 0.96
200 37 0.04
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (199 bp):
ACCGGTTACATTGTTAATTTACCTAGTACATTATAATTATGGGTTTCGATGTTTTTGGGATCGAC
ACTTATTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGACCAAAAG
TATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATAC
TTAG
Found at i:537010 original size:18 final size:18
Alignment explanation
Indices: 536987--537025 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
536977 TTCTCCCCAT
536987 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
537005 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
537023 TTC
1 TTC
537026 AAATTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.05, C:0.38, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:537693 original size:22 final size:23
Alignment explanation
Indices: 537665--537720 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
537655 AACCTGCATT
537665 TATAATAAAAGT-TATCATTTTA
1 TATAATAAAAGTCTATCATTTTA
*
537687 TATAATAAATATTCTATCATTTTA
1 TATAATAAA-AGTCTATCATTTTA
*
537711 TATAAAAAAA
1 TATAATAAAA
537721 ACAAAAACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 9 0.30
23 3 0.10
24 18 0.60
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (23 bp):
TATAATAAAAGTCTATCATTTTA
Found at i:539017 original size:18 final size:18
Alignment explanation
Indices: 538982--539041 Score: 102
Period size: 18 Copynumber: 3.3 Consensus size: 18
538972 TACAACTTAA
538982 AATATCATTTTCTACCTAT
1 AATATCATTTT-TACCTAT
539001 AATATCATTTTTACCTAT
1 AATATCATTTTTACCTAT
*
539019 AATATCATTTTTACATAT
1 AATATCATTTTTACCTAT
539037 AATAT
1 AATAT
539042 TAAATAAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
18 29 0.73
19 11 0.28
ACGTcount: A:0.37, C:0.15, G:0.00, T:0.48
Consensus pattern (18 bp):
AATATCATTTTTACCTAT
Found at i:539754 original size:182 final size:182
Alignment explanation
Indices: 539429--540639 Score: 1498
Period size: 182 Copynumber: 6.6 Consensus size: 182
539419 TACGTGTACT
*** * * *
539429 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGTAGACT
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTAACTGTTTTGTCATTTTG-AGACC
* * *
539494 TATTTTGTCCTATTTTTACCTGTTATATTATTATGGATCGATACATTTTTTTAAAGTATCGACAC
65 TGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
*
539559 TTTATATGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
130 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* *
539612 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTAACTCTTTTGTCATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTAACTGTTTTGTCATTTTGAGACCT
* * *
539677 GTCTTGTCATA-TTTTAGGCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACAC
66 GTTTTGTCATATTTTTA-CCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
* **
539741 GTTT-TAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGAAGATACTTA
130 -TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * ** * * *
539794 TATTAAATTATCGACACTTTCAATATATTAGGTA-TCGT-TTTACCGGTTTTTGTCATTTTTTAG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGT--TATTTAACTG-TTTTGTCA-TTTTGAG
** *
539857 ACCTGTTTTGTCATATTTTTATATGTTATATTGTTATGGATCGATACA-TTTTTTAAAGTATCAA
62 ACCTGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGA
539921 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
127 CACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* * * * * *
539977 TATTAAAGTATCGACACTTTCAATATATCTGGTAGTTATTGACCTGTTTTGTAATTTTGAGACCG
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTAACTGTTTTGTCATTTTGAGACCT
* *
540042 GTTTTGTCATATTTTAGTA--TGTTAAATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACA
66 GTTTTGTCATATTTT--TACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACA
* *
540105 -TGTTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-CAGAAAGTGTCGATACTTG
129 CT-TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* * * * * * * *
540159 TATTAAATTATCGACACTTTCAATATATCTGGTA-TTGTTTTACAGGTTTTGTCATTTTTTAGAA
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTAAC-TGTTTTGTCA-TTTTGAGAC
* * *
540223 CTGTTTTATCCTATTTTTACCTGTTATATTTTTATGGATCGATACATTTTTTTAAAGTATCGACA
64 CTGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACA
* * *
540288 CTTTATAGACACTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTA
129 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
* ***
540342 TATTAAAGTATCAACACTTTCAACATATCTAATAGTTATTT-ACTTGTTTTGTCATTTTGAGACC
1 TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTAAC-TGTTTTGTCATTTTGAGACC
* ** * *** *
540406 GGTTTTGTCATA-TTTTAGGTTGTTATATTATTATGGATCGATACATTTGCATAAAGTGTCGACA
65 TGTTTTGTCATATTTTTA-CCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACA
*
540470 CGTTT-TAGGCGCTATAACTTCTTCTCTTTTAAATT-TAGAAAGTGTCGATACTTA
129 C-TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCA-AAAGTGTCGATACTTA
* * * *
540524 TATTAAATTATCGACACTTTCAACATATCCGATAACATT-TTTAACTGTTTTGTCATTTTTTAGA
1 TATTAAAGTATCGACACTTTCAACATATCCGGT-A-GTTATTTAACTGTTTTGTCA-TTTTGAGA
* *
540588 CTTGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
63 CCTGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
540640 CAATTTGTAT
Statistics
Matches: 894, Mismatches: 104, Indels: 59
0.85 0.10 0.06
Matches are distributed among these distances:
181 71 0.08
182 381 0.43
183 331 0.37
184 101 0.11
185 10 0.01
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.45
Consensus pattern (182 bp):
TATTAAAGTATCGACACTTTCAACATATCCGGTAGTTATTTAACTGTTTTGTCATTTTGAGACCT
GTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACACT
TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTA
Found at i:540099 original size:365 final size:364
Alignment explanation
Indices: 539429--540639 Score: 1866
Period size: 365 Copynumber: 3.3 Consensus size: 364
539419 TACGTGTACT
* * * * *
539429 TATTAAAGTATCGACACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCATTTTGTAGACT
1 TATTAAATTATCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTTAGACC
* * *
539494 TATTTTGTCCTATTTTTACCTGTTATATTATTATGGATCGATACATTTTTTTAAAGTATCGACAC
66 TGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
*
539559 TTTATATGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
131 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
* * * *
539624 GACACTTTCAACATATCCGGTAGTTATTTAACTCTTTTGTCATTTTGAGACCGGTCTTGTCATAT
196 GACACTTTCAACATATCTGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATAT
*
539689 TTTAGGCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTA
261 TTTA-GTTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTA
* **
539754 TAACTTCTTCTCTTTTAAATTCAAAAAGTGAAGATACTTA
325 TAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* **
539794 TATTAAATTATCGACACTTTCAATATATTAGGTATCGTTTTACCGGTTTTTGTCATTTTTTAGAC
1 TATTAAATTATCGACACTTTCAACATATCCGGTATCGTTTTACCGG-TTTTGTCATTTTTTAGAC
** *
539859 CTGTTTTGTCATATTTTTATATGTTATATTGTTATGGATCGATACA-TTTTTTAAAGTATCAACA
65 CTGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACA
539923 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTAT
130 CTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTAT
* * *
539988 CGACACTTTCAATATATCTGGTAGTTATTGACCTGTTTTGTAATTTTGAGACCGGTTTTGTCATA
195 CGACACTTTCAACATATCTGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATA
* *
540053 TTTTAGTATGTTAAATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACATGTTTTAGGCGCT
260 TTTTAGT-TGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCT
*
540118 ATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTG
324 ATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * * *
540159 TATTAAATTATCGACACTTTCAATATATCTGGTATTGTTTTACAGGTTTTGTCATTTTTTAGAAC
1 TATTAAATTATCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTTAGACC
* * *
540224 TGTTTTATCCTATTTTTACCTGTTATATTTTTATGGATCGATACATTTTTTTAAAGTATCGACAC
66 TGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
* * *
540289 TTTATAGACACTATAACTTCTTCTCTTTTAAATTCTAAAAGTGTCGATACTTATATTAAAGTATC
131 TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
* ** *
540354 AACACTTTCAACATATCTAATAGTTATTTACTTGTTTTGTCATTTTGAGACCGGTTTTGTCATAT
196 GACACTTTCAACATATCTGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATAT
* ***
540419 TTTAGGTTGTTATATTATTATGGATCGATACATTTGCATAAAGTGTCGACACGTTTTAGGCGCTA
261 TTTA-GTTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTA
*
540484 TAACTTCTTCTCTTTTAAATTTAGAAAGTGTCGATACTTA
325 TAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * * *
540524 TATTAAATTATCGACACTTTCAACATATCCGATAACATTTTTAACTGTTTTGTCATTTTTTAGAC
1 TATTAAATTATCGACACTTTCAACATATCCGGTATC-GTTTTACCGGTTTTGTCATTTTTTAGAC
* *
540589 TTGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATATATTTTT
65 CTGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTT
540640 CAATTTGTAT
Statistics
Matches: 768, Mismatches: 73, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
364 59 0.08
365 581 0.76
366 128 0.17
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.45
Consensus pattern (364 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTATCGTTTTACCGGTTTTGTCATTTTTTAGACC
TGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTATCGACAC
TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTATATTAAAGTATC
GACACTTTCAACATATCTGGTAGTTATTTACCTGTTTTGTCATTTTGAGACCGGTTTTGTCATAT
TTTAGTTGTTATATTGTTATGGATCGATACATTTTTTTAAAGTGTCGACACGTTTTAGGCGCTAT
AACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
Found at i:540595 original size:21 final size:20
Alignment explanation
Indices: 540560--540613 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
540550 ATCCGATAAC
540560 ATTTTTAACTGTTTTGTCAT
1 ATTTTTAACTGTTTTGTCAT
540580 -TTTTTAGACTTGTTTTGTCAT
1 ATTTTTA-AC-TGTTTTGTCAT
*
540601 ATTTTTACCTGTT
1 ATTTTTAACTGTT
540614 ATATTGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.20
20 6 0.20
21 12 0.40
22 6 0.20
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (20 bp):
ATTTTTAACTGTTTTGTCAT
Found at i:542239 original size:64 final size:64
Alignment explanation
Indices: 542166--542310 Score: 254
Period size: 64 Copynumber: 2.3 Consensus size: 64
542156 TATAATGTAA
*
542166 TAGGTAGCGCTTATATAATAAAATAGCCATTTAACCGGAAATATTATCAAGTACAATAACATAT
1 TAGGTAGCGCTTATATAATAAAATAGCCATTTAACCAGAAATATTATCAAGTACAATAACATAT
* *
542230 TAGGTAGCGCTTATATAATAAAATAGGCATTTAACCAGAAATATTATTAAGTACAATAACATAT
1 TAGGTAGCGCTTATATAATAAAATAGCCATTTAACCAGAAATATTATCAAGTACAATAACATAT
*
542294 TAGGTAGCGCTTTTATA
1 TAGGTAGCGCTTATATA
542311 TGTAATAGGT
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 77 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (64 bp):
TAGGTAGCGCTTATATAATAAAATAGCCATTTAACCAGAAATATTATCAAGTACAATAACATAT
Done.