Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008117.1 Hibiscus syriacus cultivar Beakdansim tig00110656_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: 1567030
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 7
Found at i:260303 original size:19 final size:21
Alignment explanation
Indices: 260279--260318 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
260269 CTATTCAATG
260279 TAAAAAA-ATCA-TTATATAC
1 TAAAAAATATCATTTATATAC
*
260298 TAAAAAATATTATTTATATAC
1 TAAAAAATATCATTTATATAC
260319 GAACTCAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 8 0.44
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (21 bp):
TAAAAAATATCATTTATATAC
Found at i:281468 original size:18 final size:18
Alignment explanation
Indices: 281447--281485 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
281437 TTTTTAATAA
281447 AAAATACATAAAAAATTT
1 AAAATACATAAAAAATTT
* * *
281465 AAAATATATAATAATTTT
1 AAAATACATAAAAAATTT
281483 AAA
1 AAA
281486 TTTTCAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATACATAAAAAATTT
Found at i:284555 original size:12 final size:12
Alignment explanation
Indices: 284538--284563 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
284528 AACTATTTCC
284538 TTTTCTTTTTTT
1 TTTTCTTTTTTT
284550 TTTTCTTTTTTT
1 TTTTCTTTTTTT
284562 TT
1 TT
284564 CTTTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:285432 original size:20 final size:20
Alignment explanation
Indices: 285380--285438 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
285370 TATAAAACCA
*
285380 AAAATTTTATAATATATTCTC
1 AAAATTTTA-AATATATTTTC
* *
285401 ATAATCTTAAAT-TATTTTAC
1 AAAATTTTAAATATATTTT-C
285421 AAAATTTTAAATATATTT
1 AAAATTTTAAATATATTT
285439 ATGGTTTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
19 5 0.16
20 14 0.45
21 12 0.39
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATTTTAAATATATTTTC
Found at i:286053 original size:2 final size:2
Alignment explanation
Indices: 286046--286070 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
286036 GCATATTTAT
286046 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 T
286071 TCTATCAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:289271 original size:13 final size:13
Alignment explanation
Indices: 289253--289277 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
289243 TTTGTATTAC
289253 TTTTATATGTGTA
1 TTTTATATGTGTA
289266 TTTTATATGTGT
1 TTTTATATGTGT
289278 CATAAAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTTTATATGTGTA
Found at i:289296 original size:3 final size:3
Alignment explanation
Indices: 289288--289312 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
289278 CATAAAATCA
289288 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
289313 ACTATAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:292681 original size:37 final size:35
Alignment explanation
Indices: 292631--292765 Score: 164
Period size: 37 Copynumber: 3.8 Consensus size: 35
292621 GTGTTTGTGG
* * * * *
292631 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAG-A-AAATCT
*
292668 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT-CT
*
292705 ATCCTATTTTTAGGAGTTTGAATCCTA-AAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAATCT
292739 ATCCTATTTTTAGGAGTTTGAATCCTA
1 ATCCTATTTTTAGGAGTTTGAATCCTA
292766 ATAGGACGAA
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
34 28 0.32
35 4 0.05
36 3 0.03
37 53 0.60
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (35 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGAAAATCT
Found at i:292742 original size:34 final size:35
Alignment explanation
Indices: 292665--292766 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 35
292655 TTAGTAGAAC
292665 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
292703 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
292736 TCTATCCTATTTTTAGGAGTTTGAATCCTAA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAA
292767 TAGGACGAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.02
34 34 0.54
37 27 0.43
38 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:292918 original size:20 final size:20
Alignment explanation
Indices: 292893--292934 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
292883 TGTTTCAATA
292893 ACTCCCTCTCGAATTGAGTT
1 ACTCCCTCTCGAATTGAGTT
292913 ACTCCCTCTCGAATTGAGTT
1 ACTCCCTCTCGAATTGAGTT
292933 AC
1 AC
292935 GGATGACTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.33
Consensus pattern (20 bp):
ACTCCCTCTCGAATTGAGTT
Found at i:293556 original size:105 final size:105
Alignment explanation
Indices: 293334--294170 Score: 1359
Period size: 105 Copynumber: 8.0 Consensus size: 105
293324 CATTGTTCCA
* * * ** * * *
293334 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAG
* * * * * * *
293399 CAACCGTCCATTCGTTGTGAAGTTGAACGTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
293440 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
293505 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
293545 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
*
293610 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
293650 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
*
293715 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
293755 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
*
293820 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
293860 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
*
293925 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
293965 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
294030 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
294070 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAG
* * *
294135 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
294171 CCTCGAGTGC
Statistics
Matches: 691, Mismatches: 39, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
105 604 0.87
106 87 0.13
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:294808 original size:33 final size:33
Alignment explanation
Indices: 294771--294836 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 33
294761 GTCTTGAAAG
*
294771 AGATATAAT-TTGTTTCAAGGGAAACGATCTCAA
1 AGATAT-ATGTTGTTTCAAGAGAAACGATCTCAA
* * *
294804 AGATATCTGTTGTTTCATGAGAAACGGTCTCAA
1 AGATATATGTTGTTTCAAGAGAAACGATCTCAA
294837 GGGAAACAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 1 0.04
33 27 0.96
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (33 bp):
AGATATATGTTGTTTCAAGAGAAACGATCTCAA
Found at i:294946 original size:67 final size:65
Alignment explanation
Indices: 294813--295266 Score: 284
Period size: 65 Copynumber: 6.7 Consensus size: 65
294803 AAGATATCTG
* * * **
294813 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
294878 TT
64 TT
* * *
294880 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
294945 T
65 T
* ** * * *
294946 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T--A-A-AT
* *
295011 ACAAA-ACT
57 TCAAAGATT
* * * * * * * * * * *
295019 TAGTTCCAAAAGCAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* * * * * *
295084 TTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T--A-A-AT
*
295149 ACAAA-ATT
57 TCAAAGATT
* * * * * * *** *
295157 TTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATG-TT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
*
295221 TATGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAA
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAA
295267 AAAAGCAATC
Statistics
Matches: 299, Mismatches: 66, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
64 11 0.04
65 121 0.40
66 4 0.01
67 24 0.08
68 32 0.11
70 1 0.00
72 2 0.01
73 94 0.31
74 10 0.03
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:294997 original size:36 final size:36
Alignment explanation
Indices: 294945--295207 Score: 254
Period size: 36 Copynumber: 7.4 Consensus size: 36
294935 ATTCAAAGAT
* *
294945 TTTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
294981 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** * * *
295017 CTTAGTTCCAAAAGCAACTGTCTCAAGGGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * * *
295054 TTTGTTTCAAAGAAAACATAT-TC-----A-A-ATAT
1 TTTGTTTCAAGGGAAAC-TGTCTCAAGAGAGACAAAA
*
295083 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
295119 TTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* *
295155 TTTTGTTTCAAGGGAAACTATCTCAAGAGAGACGAAA
1 -TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
295192 TTTATTTCAAGGGAAA
1 TTTGTTTCAAGGGAAA
295208 TGTTTTCAAT
Statistics
Matches: 184, Mismatches: 32, Indels: 22
0.77 0.13 0.09
Matches are distributed among these distances:
28 2 0.01
29 17 0.09
30 1 0.01
31 1 0.01
34 1 0.01
35 1 0.01
36 97 0.53
37 64 0.35
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:295077 original size:138 final size:138
Alignment explanation
Indices: 294897--295266 Score: 463
Period size: 138 Copynumber: 2.7 Consensus size: 138
294887 CAAGAGTAAT
* * * *
294897 TGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAAC
1 TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAC
* *
294962 TGTCTCAAGATAGACGAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
66 TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
*
295027 AAAGCAAC
131 AAAGAAAC
* * * * *
295035 TGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGAAAT
1 TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAC
* * * * * *
295100 TGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTTGTTTCA
66 TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
**
295165 AGGGAAAC
131 AAAGAAAC
* * * * * * * *
295173 TATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATG-TTTATGTTTTAAGAGAAA
1 TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTT-TGTTTCAAGGGAAA
*
295237 CTGTCTCAAGGGAGACAAAATTTGTTTTAA
65 CTGTCTCAAGAGAGACAAAATTTGTTTTAA
295267 AAAAGCAATC
Statistics
Matches: 195, Mismatches: 36, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
137 3 0.02
138 192 0.98
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (138 bp):
TGTCTCAAGGGAGACGAAATTTGTTTCAAGGGAAATATATTCAAAGATTTTGTTTCAAGGGAAAC
TGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
AAAGAAAC
Found at i:295114 original size:102 final size:102
Alignment explanation
Indices: 294981--295165 Score: 264
Period size: 102 Copynumber: 1.8 Consensus size: 102
294971 ATAGACGAAA
* * *
294981 TTTGTTTTAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAAGCAACTGTCTCAAGGG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTA-TTCCAAAAGAAACTGTCTCAAGAG
*
295046 AGACGAAA-TTTGTTTCAAAGAAAACATATTCAAATAT
65 AGACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
* * * * **
295083 TTTGTTTCAAGGGAAATTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
295148 GACAAAATTTTGTTTCAA
66 GACAAAATTTTGTTTCAA
295166 GGGAAACTAT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 26 0.36
102 46 0.64
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (102 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTATTCCAAAAGAAACTGTCTCAAGAGA
GACAAAATTTTGTTTCAAAGAAAACATATTCAAATAT
Found at i:295655 original size:18 final size:18
Alignment explanation
Indices: 295628--295663 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
295618 TGTTGAATCC
* *
295628 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
295646 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
295664 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:296094 original size:22 final size:22
Alignment explanation
Indices: 296068--296122 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
296058 TTGTGTTTGG
296068 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
296090 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
296112 TCAAATGTTTG
1 TCAAAGGTTTG
296123 ATGGGATAGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:296786 original size:16 final size:15
Alignment explanation
Indices: 296767--296849 Score: 62
Period size: 16 Copynumber: 5.1 Consensus size: 15
296757 TCTTTTTGAT
296767 TTTTGCTCTTTTTTTC
1 TTTTGCT-TTTTTTTC
296783 TTTTG-TTCTTGTTTCTC
1 TTTTGCTT-TT-TTT-TC
* *
296800 TTTTTCTTTGTTTTTT
1 TTTTGCTTT-TTTTTC
296816 TTTTGCTTTTTTGCTTC
1 TTTTGCTTTTTT--TTC
296833 TTTT-CTTTTTTGTTC
1 TTTTGCTTTTTT-TTC
296848 TT
1 TT
296850 GATTGGATCT
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
14 1 0.02
15 11 0.20
16 24 0.44
17 16 0.29
18 3 0.05
ACGTcount: A:0.00, C:0.14, G:0.08, T:0.77
Consensus pattern (15 bp):
TTTTGCTTTTTTTTC
Found at i:300184 original size:2 final size:2
Alignment explanation
Indices: 300177--300219 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
300167 AAAATAGGAA
*
300177 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
300219 A
1 A
300220 ATAACACTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:300675 original size:37 final size:35
Alignment explanation
Indices: 300625--300759 Score: 164
Period size: 37 Copynumber: 3.8 Consensus size: 35
300615 GTGTTTGTGG
* * * * *
300625 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAG-A-AAATCT
*
300662 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATGTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT-CT
*
300699 ATCCTATTTTTAGGAGTTTGAATCCTA-AAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGAAAATCT
300733 ATCCTATTTTTAGGAGTTTGAATCCTA
1 ATCCTATTTTTAGGAGTTTGAATCCTA
300760 ATAGGACGAA
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
34 28 0.32
35 4 0.05
36 3 0.03
37 53 0.60
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (35 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGAAAATCT
Found at i:300736 original size:34 final size:35
Alignment explanation
Indices: 300659--300760 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 35
300649 TTAGTAGAAC
300659 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATG
1 TCTATCCTATTTTTAGGAGTTTGAATCCT---AAAATG
300697 T-TATCCTATTTTTAGGAGTTTGAATCCTAAAAT-
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
300730 TCTATCCTATTTTTAGGAGTTTGAATCCTAA
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAA
300761 TAGGACGAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
33 1 0.02
34 34 0.54
37 27 0.43
38 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (35 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAAAATG
Found at i:301109 original size:2 final size:2
Alignment explanation
Indices: 301102--301126 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
301092 AATAGGAAAT
301102 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 T
301127 TTGGGGGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:302140 original size:131 final size:131
Alignment explanation
Indices: 301906--302167 Score: 515
Period size: 131 Copynumber: 2.0 Consensus size: 131
301896 AGAAGAAGAA
*
301906 GAAGAAGTTTCTGTTAACTCAACTCAAGTTTCTGTTAACTCGTTAACGACCAAGAGCATGGATGG
1 GAAGAAGTTTCTGTTAACTCAACTCAAGTTTCTGTTAACTCGTTAACGACCAAGAGCATGGATGA
301971 ATTGAGTGGGGGCGGACTGGGACATTAGCCCCTAAATTTTAAAATTATTATACATTTTATATTTT
66 ATTGAGTGGGGGCGGACTGGGACATTAGCCCCTAAATTTTAAAATTATTATACATTTTATATTTT
302036 T
131 T
302037 GAAGAAGTTTCTGTTAACTCAACTCAAGTTTCTGTTAACTCGTTAACGACCAAGAGCATGGATGA
1 GAAGAAGTTTCTGTTAACTCAACTCAAGTTTCTGTTAACTCGTTAACGACCAAGAGCATGGATGA
302102 ATTGAGTGGGGGCGGACTGGGACATTAGCCCCTAAATTTTAAAATTATTATACATTTTATATTTT
66 ATTGAGTGGGGGCGGACTGGGACATTAGCCCCTAAATTTTAAAATTATTATACATTTTATATTTT
302167 T
131 T
302168 CCTATATATT
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 130 1.00
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (131 bp):
GAAGAAGTTTCTGTTAACTCAACTCAAGTTTCTGTTAACTCGTTAACGACCAAGAGCATGGATGA
ATTGAGTGGGGGCGGACTGGGACATTAGCCCCTAAATTTTAAAATTATTATACATTTTATATTTT
T
Found at i:302547 original size:2 final size:2
Alignment explanation
Indices: 302540--302570 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
302530 ACACTTTACA
302540 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
302571 ATCGTAGTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:306293 original size:21 final size:21
Alignment explanation
Indices: 306268--306309 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
306258 TGCATAGTTT
306268 TTTCTTCCTTTCCCCCCTCCG
1 TTTCTTCCTTTCCCCCCTCCG
306289 TTTCTTCCTTTCCCCCCTCCG
1 TTTCTTCCTTTCCCCCCTCCG
306310 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.00, C:0.52, G:0.05, T:0.43
Consensus pattern (21 bp):
TTTCTTCCTTTCCCCCCTCCG
Found at i:309914 original size:14 final size:14
Alignment explanation
Indices: 309879--309920 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
309869 GTATGTGGTT
309879 CAAATTTAATAAAAA
1 CAAATTTAA-AAAAA
309894 CAAATTTAAAATAAA
1 CAAATTTAAAA-AAA
309909 -AAATTTAAAAAA
1 CAAATTTAAAAAA
309921 TAAGAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.08
14 12 0.46
15 12 0.46
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (14 bp):
CAAATTTAAAAAAA
Found at i:309920 original size:16 final size:16
Alignment explanation
Indices: 309880--309930 Score: 54
Period size: 14 Copynumber: 3.3 Consensus size: 16
309870 TATGTGGTTC
* *
309880 AAATTTAATAAA-AAC
1 AAATTTAAAAAATAAA
309895 AAATTT--AAAATAAA
1 AAATTTAAAAAATAAA
309909 AAATTTAAAAAATAAGA
1 AAATTTAAAAAATAA-A
309926 AAATT
1 AAATT
309931 AGGATCTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
13 3 0.10
14 8 0.27
15 6 0.20
16 7 0.23
17 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (16 bp):
AAATTTAAAAAATAAA
Found at i:310449 original size:4 final size:4
Alignment explanation
Indices: 310440--310466 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
310430 CAATGCATGT
310440 ATAA ATAA ATAA ATAA ATAA ATAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATA
310467 CATATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAA
Found at i:315456 original size:20 final size:20
Alignment explanation
Indices: 315431--315468 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
315421 TTTGGTTCAC
315431 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
315451 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
315469 GGAATAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:315478 original size:16 final size:18
Alignment explanation
Indices: 315431--315481 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
315421 TTTGGTTCAC
315431 GGAATGTAAGATTACCAGTG
1 GGAA-GTAAGATTACCAG-G
315451 GGAATGTAAGATTACCA-G
1 GGAA-GTAAGATTACCAGG
315469 GGAA-TAAGATTAC
1 GGAAGTAAGATTAC
315482 TGGGAATGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.29
18 5 0.16
20 17 0.55
ACGTcount: A:0.39, C:0.10, G:0.27, T:0.24
Consensus pattern (18 bp):
GGAAGTAAGATTACCAGG
Found at i:316644 original size:26 final size:26
Alignment explanation
Indices: 316608--316659 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
316598 CAGCTGAGCA
316608 AAAATAGTTAGAGACTGAACCATCAT
1 AAAATAGTTAGAGACTGAACCATCAT
316634 AAAATAGTTAGAGACTGAACCATCAT
1 AAAATAGTTAGAGACTGAACCATCAT
316660 CAGACAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAATAGTTAGAGACTGAACCATCAT
Found at i:322877 original size:13 final size:14
Alignment explanation
Indices: 322848--322883 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
322838 AACGAACACG
322848 AACGAACAAACATA
1 AACGAACAAACATA
*
322862 AACGAACACA-ATA
1 AACGAACAAACATA
322875 AACGAACAA
1 AACGAACAA
322884 CACAAACACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.64, C:0.22, G:0.08, T:0.06
Consensus pattern (14 bp):
AACGAACAAACATA
Found at i:323165 original size:14 final size:14
Alignment explanation
Indices: 323146--323193 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
323136 GTCCTCTGTT
323146 CGAACATAAATGAA
1 CGAACATAAATGAA
323160 CGAACATAAAT---
1 CGAACATAAATGAA
323171 -GAACATAAATGAA
1 CGAACATAAATGAA
323184 CGAACATAAA
1 CGAACATAAA
323194 CAAACATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.33
14 20 0.67
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:323176 original size:24 final size:24
Alignment explanation
Indices: 323146--323211 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
323136 GTCCTCTGTT
323146 CGAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACATAAA
*
323170 TGAACATAAATGAACGAACATAAA
1 CGAACATAAATGAACGAACATAAA
*
323194 CAAACATATAATCGAACG
1 CGAACATA-AAT-GAACG
323212 TTCACGAACG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 29 0.78
25 3 0.08
26 5 0.14
ACGTcount: A:0.56, C:0.17, G:0.12, T:0.15
Consensus pattern (24 bp):
CGAACATAAATGAACGAACATAAA
Found at i:328850 original size:21 final size:21
Alignment explanation
Indices: 328826--328872 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
328816 ATCAGAAACA
328826 TTATTATTTCTACCGATTTTG
1 TTATTATTTCTACCGATTTTG
* * *
328847 TTATTTTTTCTACTGGTTTTG
1 TTATTATTTCTACCGATTTTG
328868 TTATT
1 TTATT
328873 GTTGGACACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.11, G:0.11, T:0.64
Consensus pattern (21 bp):
TTATTATTTCTACCGATTTTG
Found at i:329796 original size:21 final size:20
Alignment explanation
Indices: 329770--329808 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
329760 TCCACGTCAA
329770 CTCCTCATCTTCTTTCTCCTC
1 CTCCTCATCTTC-TTCTCCTC
*
329791 CTCCTCCTCTTCTTCTCC
1 CTCCTCATCTTCTTCTCC
329809 GGGTCAACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.03, C:0.51, G:0.00, T:0.46
Consensus pattern (20 bp):
CTCCTCATCTTCTTCTCCTC
Found at i:329892 original size:22 final size:22
Alignment explanation
Indices: 329822--329881 Score: 120
Period size: 22 Copynumber: 2.7 Consensus size: 22
329812 TCAACTCTTC
329822 TTCTTCTTCTTCTCCACACTAT
1 TTCTTCTTCTTCTCCACACTAT
329844 TTCTTCTTCTTCTCCACACTAT
1 TTCTTCTTCTTCTCCACACTAT
329866 TTCTTCTTCTTCTCCA
1 TTCTTCTTCTTCTCCA
329882 TTCTGTTTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.12, C:0.37, G:0.00, T:0.52
Consensus pattern (22 bp):
TTCTTCTTCTTCTCCACACTAT
Found at i:331298 original size:540 final size:540
Alignment explanation
Indices: 329911--332516 Score: 4907
Period size: 540 Copynumber: 4.8 Consensus size: 540
329901 GATTTCTACC
* * * * *
329911 TTTATAATTGATGCCCATATTTTTTATTCTTGATTTCTACCTTTATAATTAAAGCCCGTAA-TGT
1 TTTATAATTGATGCCCCTATTTTTTATTCTTGTTTTCTACCATTATAATTAAAGCCCATAATTTT
* *
329975 TTTTACAATTTCATAAAATTCTCAATTTTTCATCCCTTTCTCCATCTCTCTCGTTAATTTATTTA
66 TTTTACAATTTCATAAAATTCTCAATTTCTCATCCCTTTCTTCATCTCTCTCGTTAATTTATTTA
*
330040 ATTTTGAATTAAATCTAATCATATTCTTCTTTTCTCACAAATATTTTTTTCTTCAATTTACCAAA
131 ATTTTGAATTAAATCTAATCATATTCTTCTTTTTTCACAAATATTTTTTTCTTCAATTTACCAAA
*
330105 TATTCTTTAATTCTTAGTCTTCTTCAATCTCAATCTAACGATAACATAATATGTTATTCTTTATT
196 TATTCTTTAATTCTTAGTCTTCTTCAATCTCAATCTAACGATAACCTAATATGTTATTCTTTATT
*
330170 TTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACCCACGTTCGATTTTTTTGTT
261 TTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACGCACGTTCGATTTTTTTGTT
*
330235 CTCTTGGT-GTATTTAAGATGTTTTCTTAACAAAACAATGAAATTAATGTTTGAAAAAGTTTAAT
326 CTCTTGGTCGTATTTAAGATGTTTTCTTAAAAAAACAATGAAATTAATGTTTGAAAAAGTTTAAT
* *
330299 AAATTTTCTACAATATTAAATTCACTGTTTAAAGTAATTAAATATTTTTTTTTCAATCTCAATTT
391 AAATTTTCTACAATATTAAATTAATTGTTTAAAGTAATTAAATATTTTTTTTTCAATCTCAATTT
* *
330364 CTACCTTTATAATTGAGGCCCTTATGATTTATTTAATCTCACTTTCTAATTGAGACTCCTAAATT
456 CTACCTTTATAATTGAGGCCCTTATGGTTTATTTAATCTCACTTTCTAATTGAGACCCCTAAATT
* *
330429 TTTTCGATCTCAATTATACA
521 TTTTCAATCTCAATTATGCA
* * * * *
330449 TTTATAATTGATGCCCATATTTTTTATTCTTGATTTCTACCTTTATAATTAAAGCCCGTAA-TAT
1 TTTATAATTGATGCCCCTATTTTTTATTCTTGTTTTCTACCATTATAATTAAAGCCCATAATTTT
*
330513 TTTTACAATTTCATAAAATTCTCAATTTCTCATCCCTTTCTCCATCTCTCTCGTTAATTTATTTA
66 TTTTACAATTTCATAAAATTCTCAATTTCTCATCCCTTTCTTCATCTCTCTCGTTAATTTATTTA
330578 ATTTTGAATTAAATCTAATCATATTCTTCTTTTTTCACAAATATTTTTTTCTTCAATTTACCAAA
131 ATTTTGAATTAAATCTAATCATATTCTTCTTTTTTCACAAATATTTTTTTCTTCAATTTACCAAA
* *
330643 TATTCTTTAATTCTTAGTCCTCTTCAATCTCAATCTAACGATAACATAATATGTTATTCTTTATT
196 TATTCTTTAATTCTTAGTCTTCTTCAATCTCAATCTAACGATAACCTAATATGTTATTCTTTATT
330708 TTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACGCACGTTCGATTTTTTTGTT
261 TTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACGCACGTTCGATTTTTTTGTT
330773 CTCTTGGTCGTATTTAAGATGTTTTCTTAAAAAAACAATGAAATTAATGTTTGAAAAAGTTTAAT
326 CTCTTGGTCGTATTTAAGATGTTTTCTTAAAAAAACAATGAAATTAATGTTTGAAAAAGTTTAAT
330838 AAATTTTCTACAATATTAAATTAATTGTTTAAAGTAATTAAATATTTTTTTTTCAATCTCAATTT
391 AAATTTTCTACAATATTAAATTAATTGTTTAAAGTAATTAAATATTTTTTTTTCAATCTCAATTT
330903 CTACCTTTATAATTGAGGCCCTTATGGTTTATTTAATCTCACTTTCTAATTGAGACCCCTAAATT
456 CTACCTTTATAATTGAGGCCCTTATGGTTTATTTAATCTCACTTTCTAATTGAGACCCCTAAATT
330968 TTTTCAATCTCAATTATGCA
521 TTTTCAATCTCAATTATGCA
330988 TTTATAATTGATGCCCCTATTTTTTATTCTTGTTTTCTACCATTATAATTAAAGCCCATAATTTT
1 TTTATAATTGATGCCCCTATTTTTTATTCTTGTTTTCTACCATTATAATTAAAGCCCATAATTTT
331053 TTTTACAATTTCATAAAATTCTCAATTTCTCATCCCTTTCTTCATCTCTCTCGTTAATTTATTTA
66 TTTTACAATTTCATAAAATTCTCAATTTCTCATCCCTTTCTTCATCTCTCTCGTTAATTTATTTA
331118 ATTTTGAATTAAATCTAATCATATTCTTCTTTTTTCACAAATATTTTTTTCTTCAATTTACCAAA
131 ATTTTGAATTAAATCTAATCATATTCTTCTTTTTTCACAAATATTTTTTTCTTCAATTTACCAAA
331183 TATTCTTTAATTCTTAGTCTTCTTCAATCTCAATCTAACGATAACCTAATATGTTATTCTTTATT
196 TATTCTTTAATTCTTAGTCTTCTTCAATCTCAATCTAACGATAACCTAATATGTTATTCTTTATT
331248 TTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACGCACGTTCGATTTTTTTGTT
261 TTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACGCACGTTCGATTTTTTTGTT
331313 CTCTTGGTCGTATTTAAGATGTTTTCTTAAAAAAACAATGAAATTAATGTTTGAAAAAGTTTAAT
326 CTCTTGGTCGTATTTAAGATGTTTTCTTAAAAAAACAATGAAATTAATGTTTGAAAAAGTTTAAT
331378 AAATTTTCTACAATATTAAATTAATTGTTTAAAGTAATTAAATA-TTTTTTTTCAATCTCAATTT
391 AAATTTTCTACAATATTAAATTAATTGTTTAAAGTAATTAAATATTTTTTTTTCAATCTCAATTT
331442 CTACCTTTATAATTGAGGCCCTTATGGTTTATTTAATCTCACTTTCTAATTGAGACCCCTAAATT
456 CTACCTTTATAATTGAGGCCCTTATGGTTTATTTAATCTCACTTTCTAATTGAGACCCCTAAATT
331507 TTTTCAATCTCAATTATGCA
521 TTTTCAATCTCAATTATGCA
331527 TTTATAATTGATGCCCCTATTTTTTATTCTTGTTTTCTACCATTATAATTAAAGCCCATAATTTT
1 TTTATAATTGATGCCCCTATTTTTTATTCTTGTTTTCTACCATTATAATTAAAGCCCATAATTTT
331592 TTTTACAATTTCATAAAATTCTCAATTTCTCATCCCTTTCTTCATCTCTCTCGTTAATTTATTTA
66 TTTTACAATTTCATAAAATTCTCAATTTCTCATCCCTTTCTTCATCTCTCTCGTTAATTTATTTA
*
331657 ATTTTGAATTAAATCTAATCATATTCTTCTTTTTTCACAAATATTTTTTTCTTCAATTTGCCAAA
131 ATTTTGAATTAAATCTAATCATATTCTTCTTTTTTCACAAATATTTTTTTCTTCAATTTACCAAA
331722 TATTCTTTAATTCTTAGTCTTCTTCAATCTCAATCTAACGATAACCTAATATGTTATTCTTTAGT
196 TATTCTTTAATTCTTAGTCTTCTTCAATCTCAATCTAACGATAACCTAATATGTTATTCTTTA-T
331787 TTTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACGCACGTTCGATTTTTTTGT
260 TTTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACGCACGTTCGATTTTTTTGT
331852 TCTCTTGGTCGTATTTAAGATGTTTTCTTAAAAAAACAATGAAATTAATGTTTGAAAAAGTTTAA
325 TCTCTTGGTCGTATTTAAGATGTTTTCTTAAAAAAACAATGAAATTAATGTTTGAAAAAGTTTAA
331917 TAAATTTTCTACAATATTAAATTAATTGTTTAAAGTAATTAAATA-TTTTTTTTCAATCTCAATT
390 TAAATTTTCTACAATATTAAATTAATTGTTTAAAGTAATTAAATATTTTTTTTTCAATCTCAATT
331981 TCTACCTTTATAATTGAGGCCCTTATGGTTTATTTAATCTCACTTTCTAATTGAGACCCCTAAAT
455 TCTACCTTTATAATTGAGGCCCTTATGGTTTATTTAATCTCACTTTCTAATTGAGACCCCTAAAT
332046 TTTTTCAATCTCAATTATGCA
520 TTTTTCAATCTCAATTATGCA
332067 TTTATAATTGATGCCCCTATTTTTTATTCTTGTTTTCTACCATTATAATTAAAGCCCATAATTTT
1 TTTATAATTGATGCCCCTATTTTTTATTCTTGTTTTCTACCATTATAATTAAAGCCCATAATTTT
332132 TTTTACAATTTCATAAAATTCTCAATTTCTCATCCCTTTCTTCATCTCTCTCGTTAATTTATTTA
66 TTTTACAATTTCATAAAATTCTCAATTTCTCATCCCTTTCTTCATCTCTCTCGTTAATTTATTTA
*
332197 ATTTTGAATTAAATCTAATCATATTCTTCTTTTTTCACAAATATTTTTTTCTTCAATTTGCCAAA
131 ATTTTGAATTAAATCTAATCATATTCTTCTTTTTTCACAAATATTTTTTTCTTCAATTTACCAAA
332262 TATTCTTTAATTCTTAGTCTTCTTCAATCTCAATCTAACGATAACCTAATATGTTATTCTTTAGT
196 TATTCTTTAATTCTTAGTCTTCTTCAATCTCAATCTAACGATAACCTAATATGTTATTCTTTA-T
332327 TTTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACGCACGTTCGATTTTTTTGT
260 TTTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACGCACGTTCGATTTTTTTGT
332392 TCTCTTGGTCGTATTTAAGATGTTTTCTTAAAAAAACAATGAAATTAATGTTTGAAAAAGTTTAA
325 TCTCTTGGTCGTATTTAAGATGTTTTCTTAAAAAAACAATGAAATTAATGTTTGAAAAAGTTTAA
332457 TAAATTTTCTACAATATTAAATTAATTGTTTAAAGTAATTAAATATTTTTTTTGTCAATC
390 TAAATTTTCTACAATATTAAATTAATTGTTTAAAGTAATTAAATATTTTTTTT-TCAATC
332517 AGGGACTATT
Statistics
Matches: 2042, Mismatches: 21, Indels: 6
0.99 0.01 0.00
Matches are distributed among these distances:
538 327 0.16
539 618 0.30
540 1084 0.53
541 7 0.00
542 6 0.00
ACGTcount: A:0.30, C:0.16, G:0.07, T:0.47
Consensus pattern (540 bp):
TTTATAATTGATGCCCCTATTTTTTATTCTTGTTTTCTACCATTATAATTAAAGCCCATAATTTT
TTTTACAATTTCATAAAATTCTCAATTTCTCATCCCTTTCTTCATCTCTCTCGTTAATTTATTTA
ATTTTGAATTAAATCTAATCATATTCTTCTTTTTTCACAAATATTTTTTTCTTCAATTTACCAAA
TATTCTTTAATTCTTAGTCTTCTTCAATCTCAATCTAACGATAACCTAATATGTTATTCTTTATT
TTTTAATTTATTATTCAGAACAAAGCTCCATATCGTAATTTATACGCACGTTCGATTTTTTTGTT
CTCTTGGTCGTATTTAAGATGTTTTCTTAAAAAAACAATGAAATTAATGTTTGAAAAAGTTTAAT
AAATTTTCTACAATATTAAATTAATTGTTTAAAGTAATTAAATATTTTTTTTTCAATCTCAATTT
CTACCTTTATAATTGAGGCCCTTATGGTTTATTTAATCTCACTTTCTAATTGAGACCCCTAAATT
TTTTCAATCTCAATTATGCA
Found at i:336622 original size:35 final size:36
Alignment explanation
Indices: 336505--336644 Score: 214
Period size: 36 Copynumber: 3.9 Consensus size: 36
336495 TGAATAAGAA
336505 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGT
1 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGT
*
336541 GAACCG-AATGAAGCATC-GACACTTTCGATTCAAAGT
1 GAA-CGAAAGGAAGCATCAG-CACTTTCGATTCAAAGT
*
336577 GAACGAAAGGAAGCATCGGCACTTTCGATTC-AAGT
1 GAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGT
*
336612 GAACGGAAGGAAGCATCAGCACTTTCGATTCAA
1 GAACGAAAGGAAGCATCAGCACTTTCGATTCAA
336645 TTGTTCATCT
Statistics
Matches: 95, Mismatches: 4, Indels: 10
0.87 0.04 0.09
Matches are distributed among these distances:
35 36 0.38
36 56 0.59
37 3 0.03
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (36 bp):
GAACGAAAGGAAGCATCAGCACTTTCGATTCAAAGT
Found at i:339958 original size:23 final size:23
Alignment explanation
Indices: 339924--339989 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
339914 GAGTCGAGGG
*
339924 TTCTACGCGGTCATTCGGGACAA
1 TTCTACGTGGTCATTCGGGACAA
*
339947 TTCTACGTGGTCATTCGGGACAT
1 TTCTACGTGGTCATTCGGGACAA
*
339970 TTCTACGTGGTCCTTCGGGA
1 TTCTACGTGGTCATTCGGGA
339990 TATATCTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.17, C:0.24, G:0.27, T:0.32
Consensus pattern (23 bp):
TTCTACGTGGTCATTCGGGACAA
Found at i:339997 original size:23 final size:23
Alignment explanation
Indices: 339925--340004 Score: 99
Period size: 23 Copynumber: 3.5 Consensus size: 23
339915 AGTCGAGGGT
*
339925 TCTACGCGGTCATTCGGGACA-A
1 TCTACGTGGTCATTCGGGACATA
*
339947 TTCTACGTGGTCATTCGGGACATT
1 -TCTACGTGGTCATTCGGGACATA
* *
339971 TCTACGTGGTCCTTCGGGATATA
1 TCTACGTGGTCATTCGGGACATA
*
339994 TCTATGTGGTC
1 TCTACGTGGTC
340005 CTTCCAGATA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.17, C:0.23, G:0.26, T:0.34
Consensus pattern (23 bp):
TCTACGTGGTCATTCGGGACATA
Found at i:340003 original size:46 final size:46
Alignment explanation
Indices: 339924--340025 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 46
339914 GAGTCGAGGG
* **
339924 TTCTACGCGGTCATTCGGGACAATTCTACGTGGTCATTCGGGACAT
1 TTCTACGTGGTCATTCGGGACAATTCTACGTGGTCATTCCAGACAT
* * * * *
339970 TTCTACGTGGTCCTTCGGGA-TATATCTATGTGGTCCTTCCAGATAT
1 TTCTACGTGGTCATTCGGGACAAT-TCTACGTGGTCATTCCAGACAT
340016 TTCTACGTGG
1 TTCTACGTGG
340026 AACTTCGGTG
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 2 0.04
46 45 0.96
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.35
Consensus pattern (46 bp):
TTCTACGTGGTCATTCGGGACAATTCTACGTGGTCATTCCAGACAT
Found at i:340031 original size:23 final size:23
Alignment explanation
Indices: 339947--340025 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 23
339937 TTCGGGACAA
* ** *
339947 TTCTACGTGGTCATTCGGGACAT
1 TTCTACGTGGTCCTTCCAGATAT
**
339970 TTCTACGTGGTCCTTCGGGATAT
1 TTCTACGTGGTCCTTCCAGATAT
* *
339993 ATCTATGTGGTCCTTCCAGATAT
1 TTCTACGTGGTCCTTCCAGATAT
340016 TTCTACGTGG
1 TTCTACGTGG
340026 AACTTCGGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCCAGATAT
Found at i:340044 original size:46 final size:45
Alignment explanation
Indices: 339937--340048 Score: 118
Period size: 46 Copynumber: 2.4 Consensus size: 45
339927 TACGCGGTCA
* ** **
339937 TTCGGGACAATTCTACGTGGTCATTCGGGACATTTCTACGTGGTCC
1 TTCGGG-CAATTCTATGTGGTCATTCCAGACATTTCTACGTGGAAC
* *
339983 TTCGGG-ATATATCTATGTGGTCCTTCCAGATATTTCTACGTGGAAC
1 TTCGGGCA-AT-TCTATGTGGTCATTCCAGACATTTCTACGTGGAAC
340029 TTCGGTGCAATTCTATGTGG
1 TTCGG-GCAATTCTATGTGG
340049 CAGATTCGAC
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
44 1 0.02
45 2 0.04
46 48 0.87
47 3 0.05
48 1 0.02
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.36
Consensus pattern (45 bp):
TTCGGGCAATTCTATGTGGTCATTCCAGACATTTCTACGTGGAAC
Found at i:342769 original size:261 final size:259
Alignment explanation
Indices: 342323--342811 Score: 761
Period size: 261 Copynumber: 1.9 Consensus size: 259
342313 ATTATTTCGG
* * * * * *
342323 GTCGGGTTTCTAATTCATATATTCGGGTTAGGTCGGGTGAAACTTTATTTTGGTCTGGTCGGTTG
1 GTCGGATTTCTAATTCATATATTCAGGTCAGGTCCGGTGAAACTTTATTTTGGTCGGGTCGGTCG
342388 GTTTTTTTAAGCGTGATATTCGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATACCCGACCCT
66 GTTTTTTTAAGCGTGATATTCGGGTCGGGT---GTTCGGGTTTAGGGTGAAAAATACCCGACCCT
342453 AAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCTCTAAATATA-AT
128 AAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCTCTAAATATATAT
*
342517 TTTTTCAATTAAGTCATTGTTTTTATTGAATAAAAGTAATTTTTATTATTATTTCGGGTCGGGTC
193 TTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAGTAATTTTTATTATTATTTCGGGTCGGGTC
342582 GA
258 GA
* *
342584 GTCGGATTTCTAATTCATATATTTAGGTCGGGTCCGGTGAAACTTTATTTTGGTCGGGTCGGGTC
1 GTCGGATTTCTAATTCATATATTCAGGTCAGGTCCGGTGAAACTTTATTTTGGTCGGGTC-GGTC
* *
342649 GGTTTTTTTAAGTGTGATATTCGGGTCGGGT-TT-GGGTTTAGGGTGAAAAATATCCGACCCGAC
65 GGTTTTTTTAAGCGTGATATTCGGGTCGGGTGTTCGGGTTTAGGGTGAAAAATACCCGA--C--C
*
342712 CTAAAA-ATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATATA
126 CTAAAATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATA-CCCTCTAAATATA
342776 TATTTTTTCAATTAAGTCACTGTTTTTATTGAATAA
190 TATTTTTTCAATTAAGTCACTGTTTTTATTGAATAA
342812 GAAAAAAAAA
Statistics
Matches: 209, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
257 23 0.11
258 2 0.01
259 1 0.00
260 44 0.21
261 72 0.34
262 67 0.32
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (259 bp):
GTCGGATTTCTAATTCATATATTCAGGTCAGGTCCGGTGAAACTTTATTTTGGTCGGGTCGGTCG
GTTTTTTTAAGCGTGATATTCGGGTCGGGTGTTCGGGTTTAGGGTGAAAAATACCCGACCCTAAA
ATATATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCTCTAAATATATATTTT
TTCAATTAAGTCACTGTTTTTATTGAATAAAAGTAATTTTTATTATTATTTCGGGTCGGGTCGA
Found at i:343279 original size:17 final size:18
Alignment explanation
Indices: 343254--343300 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
343244 ATATGGAATT
* *
343254 GGATACCAATTCC-TGAC
1 GGATTCCAATTCCTTCAC
343271 GGATTCCAATTCCTTCAC
1 GGATTCCAATTCCTTCAC
*
343289 AGATTCCAATTC
1 GGATTCCAATTC
343301 TCTCAGAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.28, C:0.30, G:0.13, T:0.30
Consensus pattern (18 bp):
GGATTCCAATTCCTTCAC
Found at i:343295 original size:18 final size:17
Alignment explanation
Indices: 343259--343305 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
343249 GAATTGGATA
* *
343259 CCAATTCCTGACGGATT
1 CCAATTCCTCACAGATT
343276 CCAATTCCTTCACAGATT
1 CCAATTCC-TCACAGATT
343294 CCAATTCTCTCA
1 CCAATTC-CTCA
343306 GAAACATTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 8 0.31
18 17 0.65
19 1 0.04
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.32
Consensus pattern (17 bp):
CCAATTCCTCACAGATT
Found at i:345375 original size:14 final size:14
Alignment explanation
Indices: 345358--345385 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
345348 AAGAGAAAGC
345358 ATCAAACCTCAAGT
1 ATCAAACCTCAAGT
345372 ATCAAACCTCAAGT
1 ATCAAACCTCAAGT
345386 TTGAGCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.07, T:0.21
Consensus pattern (14 bp):
ATCAAACCTCAAGT
Found at i:353621 original size:6 final size:6
Alignment explanation
Indices: 353604--353634 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
353594 ACACTTGTAT
*
353604 CATGAC CGTGAC CATGAC CATGAC CATGAC C
1 CATGAC CATGAC CATGAC CATGAC CATGAC C
353635 CATAGGTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.16
Consensus pattern (6 bp):
CATGAC
Found at i:355492 original size:47 final size:48
Alignment explanation
Indices: 355368--355498 Score: 135
Period size: 47 Copynumber: 2.8 Consensus size: 48
355358 ATATAAATTT
* *
355368 CTTACC-TTTTATCCCATAAGCTCATAAGCTTA-TTTTTACCAAAATA
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
* ** *
355414 CTTACCATTTAAAATTCCATAAGCTCGTAAGCTTATTTATTTTTCAATATA
1 CTTACCATTT--AATTCCATAAGCTCATAAGCTTATTT-TTTACCAAAATA
* *
355465 CTTGCCA-TT-ATTCCGTAAGCTCATAAGCTTATTT
1 CTTACCATTTAATTCCATAAGCTCATAAGCTTATTT
355499 GCATGGTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
46 6 0.08
47 26 0.37
49 20 0.28
50 4 0.06
51 15 0.21
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (48 bp):
CTTACCATTTAATTCCATAAGCTCATAAGCTTATTTTTTACCAAAATA
Found at i:361483 original size:21 final size:21
Alignment explanation
Indices: 361449--361527 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
361439 TGGTACAGAA
*
361449 GGAATCGA-TCCCCCCATGAG
1 GGAACCGATTCCCCCCATGAG
**
361469 GGAACCGATTCCCCCTTTGAAGG
1 GGAACCGATTCCCCCCATG-A-G
**
361492 GGAACCGATTCCCCCCACAAG
1 GGAACCGATTCCCCCCATGAG
* *
361513 GGAATCGATACCCCC
1 GGAACCGATTCCCCC
361528 TGGGGTTCTG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 7 0.15
21 22 0.47
22 2 0.04
23 16 0.34
ACGTcount: A:0.25, C:0.37, G:0.23, T:0.15
Consensus pattern (21 bp):
GGAACCGATTCCCCCCATGAG
Found at i:363660 original size:22 final size:22
Alignment explanation
Indices: 363635--363680 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
363625 GTTTACAAAT
*
363635 AGGGAATCGATTCCCCTGCTAC
1 AGGGAACCGATTCCCCTGCTAC
363657 AGGGAACCGATTCCCCTGCTAC
1 AGGGAACCGATTCCCCTGCTAC
363679 AG
1 AG
363681 TACTGCTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.20
Consensus pattern (22 bp):
AGGGAACCGATTCCCCTGCTAC
Found at i:364242 original size:21 final size:21
Alignment explanation
Indices: 364193--364256 Score: 83
Period size: 21 Copynumber: 3.0 Consensus size: 21
364183 CATATGAAAT
* *
364193 TTGTCCCGAAGGACCTGTGAA
1 TTGTCCCGAATGACCTATGAA
* *
364214 TATGTCCCAAATGACCTATGAG
1 T-TGTCCCGAATGACCTATGAA
364236 TTGTCCCGAATGACCTATGAA
1 TTGTCCCGAATGACCTATGAA
364257 ACCCTCGACT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
21 19 0.53
22 17 0.47
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (21 bp):
TTGTCCCGAATGACCTATGAA
Found at i:365274 original size:19 final size:20
Alignment explanation
Indices: 365242--365279 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
365232 CGTTTGGAAG
*
365242 AAGAGAAGAGTGAAGAAGAT
1 AAGAGAAGAATGAAGAAGAT
365262 AAGA-AAGAATGAAGAAGA
1 AAGAGAAGAATGAAGAAGA
365280 GATGAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.08
Consensus pattern (20 bp):
AAGAGAAGAATGAAGAAGAT
Found at i:365660 original size:24 final size:23
Alignment explanation
Indices: 365610--365683 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
365600 GCTTCAACTT
* *
365610 TTTGGATTGTTTGATTTTGTGAC
1 TTTGGATTGTTTGATGTTGTGAA
365633 TTTGGATTTGTTTGGATGTT-TGAA
1 TTTGGA-TTGTTT-GATGTTGTGAA
*
365657 TTTGTGGATTGATTGAT-TT-TGAA
1 -TT-TGGATTGTTTGATGTTGTGAA
365680 TTTG
1 TTTG
365684 TTTGGATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.05
22 2 0.05
23 12 0.27
24 12 0.27
25 12 0.27
26 4 0.09
ACGTcount: A:0.16, C:0.01, G:0.27, T:0.55
Consensus pattern (23 bp):
TTTGGATTGTTTGATGTTGTGAA
Found at i:376514 original size:16 final size:16
Alignment explanation
Indices: 376493--376525 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
376483 GTTGTTGCAT
376493 CATTATCAAGGGCCAC
1 CATTATCAAGGGCCAC
376509 CATTATCAAGGGCCAC
1 CATTATCAAGGGCCAC
376525 C
1 C
376526 GCAAGCAAAT
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:0.30, C:0.33, G:0.18, T:0.18
Consensus pattern (16 bp):
CATTATCAAGGGCCAC
Found at i:384282 original size:30 final size:30
Alignment explanation
Indices: 384246--384334 Score: 160
Period size: 30 Copynumber: 3.0 Consensus size: 30
384236 CACGGGTAAC
*
384246 TACCGAATTATGGTCATTAATAATTTTGAT
1 TACCGAATTATGGTCATTAATCATTTTGAT
*
384276 TACCGAATTATGATCATTAATCATTTTGAT
1 TACCGAATTATGGTCATTAATCATTTTGAT
384306 TACCGAATTATGGTCATTAATCATTTTGA
1 TACCGAATTATGGTCATTAATCATTTTGA
384335 CCATCAATGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (30 bp):
TACCGAATTATGGTCATTAATCATTTTGAT
Found at i:384522 original size:2 final size:2
Alignment explanation
Indices: 384515--384551 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
384505 TTATTTTAAT
384515 TA TA TA TA 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 TA TA TA TA T
384552 TAAATTATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:389730 original size:15 final size:15
Alignment explanation
Indices: 389707--389736 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
389697 ATATTAATCC
389707 TTTAAGTTTTGGTGA
1 TTTAAGTTTTGGTGA
*
389722 TTTAGGTTTTGGTGA
1 TTTAAGTTTTGGTGA
389737 ACTATCTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (15 bp):
TTTAAGTTTTGGTGA
Found at i:390081 original size:26 final size:28
Alignment explanation
Indices: 390025--390081 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 28
390015 AACTTTATAT
* **
390025 AACAACATATCAAGGGATAATTTGATTA
1 AACAACATATCAAGGGATAATATGACCA
*
390053 AACAA-AT-TCAAGGGCTAATATGACCA
1 AACAACATATCAAGGGATAATATGACCA
390079 AAC
1 AAC
390082 TCATCAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 18 0.72
27 2 0.08
28 5 0.20
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.23
Consensus pattern (28 bp):
AACAACATATCAAGGGATAATATGACCA
Found at i:395051 original size:23 final size:23
Alignment explanation
Indices: 395021--395072 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
395011 AGTGTTATAT
395021 TATATTTTAAAAATATTAATTAA
1 TATATTTTAAAAATATTAATTAA
* * *
395044 TATATTTTAAATATCTTTATTAA
1 TATATTTTAAAAATATTAATTAA
*
395067 AATATT
1 TATATT
395073 ATTTAAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAA
Found at i:395112 original size:19 final size:20
Alignment explanation
Indices: 395060--395112 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
395050 TTAAATATCT
395060 TTATTAAA-ATATTATTTAA
1 TTATTAAATATATTATTTAA
* *
395079 ATATAGAAATAATATTA-TTAA
1 TTAT-TAAAT-ATATTATTTAA
395100 TTATTAAATATAT
1 TTATTAAATATAT
395113 AAAAATATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
19 7 0.26
20 7 0.26
21 7 0.26
22 6 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TTATTAAATATATTATTTAA
Found at i:395126 original size:21 final size:20
Alignment explanation
Indices: 395100--395139 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
395090 ATATTATTAA
395100 TTATTAAATATATAAAAATAT
1 TTATTAAAT-TATAAAAATAT
* *
395121 TTATTATATTATTAAAATA
1 TTATTAAATTATAAAAATA
395140 AAAATATAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATTAAATTATAAAAATAT
Found at i:395156 original size:29 final size:29
Alignment explanation
Indices: 395068--395232 Score: 116
Period size: 29 Copynumber: 5.8 Consensus size: 29
395058 CTTTATTAAA
* *
395068 ATATTATTTAAATATAGAAATAATATTATT
1 ATATTATTAAAATATAAAAATAATA-TATT
*
395098 A-ATTATTAAATATATAAAAAT-ATTTATT
1 ATATTATTAAA-ATATAAAAATAATATATT
*
395126 ATATTATTAAAATA-AAAATATAATATCTT
1 ATATTATTAAAATATAAAA-ATAATATATT
* * *
395155 ATATTATTATAATAT--AATTGAT-TATT
1 ATATTATTAAAATATAAAAATAATATATT
* *
395181 TTA-TA-TAATAT-TAAAAATACA-ATATT
1 ATATTATTAAAATATAAAAATA-ATATATT
395207 ATATTATTATAAATATTAATAAATAA
1 ATATTATTA-AAATA-TAA-AAATAA
395233 ATAAATAATG
Statistics
Matches: 104, Mismatches: 16, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
23 1 0.01
24 4 0.04
25 5 0.05
26 12 0.12
27 9 0.09
28 14 0.13
29 40 0.38
30 10 0.10
31 4 0.04
32 5 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (29 bp):
ATATTATTAAAATATAAAAATAATATATT
Found at i:395225 original size:31 final size:31
Alignment explanation
Indices: 395177--395235 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
395167 TATAATTGAT
395177 TATTTTATATAATATTAA-AAATACAATATTA
1 TATTTTATATAATATTAATAAATA-AATATTA
395208 TATTATTATA-AATATTAATAAATAAATA
1 TATT-TTATATAATATTAATAAATAAATA
395236 AATAATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (31 bp):
TATTTTATATAATATTAATAAATAAATATTA
Found at i:396333 original size:16 final size:17
Alignment explanation
Indices: 396314--396347 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
396304 AGTATTTTTC
396314 AAATATATTT-TTTAAA
1 AAATATATTTATTTAAA
*
396330 AAATTTATTTATTTAAA
1 AAATATATTTATTTAAA
396347 A
1 A
396348 TATTTAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAATATATTTATTTAAA
Found at i:396346 original size:17 final size:16
Alignment explanation
Indices: 396314--396353 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
396304 AGTATTTTTC
*
396314 AAATATATTTTTTAAA
1 AAATTTATTTTTTAAA
396330 AAATTTATTTATTTAAA
1 AAATTTATTT-TTTAAA
*
396347 ATATTTA
1 AAATTTA
396354 AAATAATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTTATTTTTTAAA
Found at i:413279 original size:11 final size:11
Alignment explanation
Indices: 413263--413296 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
413253 ACTGAAATTA
413263 ATATATATTTT
1 ATATATATTTT
**
413274 ATATATATTAA
1 ATATATATTTT
413285 ATATATATTTT
1 ATATATATTTT
413296 A
1 A
413297 AGCTAATATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATATATATTTT
Found at i:413806 original size:27 final size:28
Alignment explanation
Indices: 413725--413806 Score: 139
Period size: 28 Copynumber: 3.0 Consensus size: 28
413715 CATCTTTGTC
413725 CTTATTTTATTTTACTAAATAATAAATA
1 CTTATTTTATTTTACTAAATAATAAATA
413753 CTTATTTTATTTTACTAAATAATAAATA
1 CTTATTTTATTTTACTAAATAATAAATA
* *
413781 CTTATTTTATTTT-TTAAATCATAAAT
1 CTTATTTTATTTTACTAAATAATAAAT
413807 TAAAAAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
27 11 0.21
28 41 0.79
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.52
Consensus pattern (28 bp):
CTTATTTTATTTTACTAAATAATAAATA
Found at i:420490 original size:20 final size:20
Alignment explanation
Indices: 420465--420505 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
420455 ATTGAACATA
420465 CAACAAGGGTAAAAGTCACC
1 CAACAAGGGTAAAAGTCACC
*
420485 CAACAAGGGTAAAAGTTACC
1 CAACAAGGGTAAAAGTCACC
420505 C
1 C
420506 TTTTACCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.44, C:0.24, G:0.20, T:0.12
Consensus pattern (20 bp):
CAACAAGGGTAAAAGTCACC
Found at i:421820 original size:74 final size:75
Alignment explanation
Indices: 421668--421879 Score: 291
Period size: 74 Copynumber: 2.7 Consensus size: 75
421658 AAAAAAATTC
* * *
421668 GAGTTGACGGGTCGTATTTTACAACTCGAACTTAACTTGAAATTTTTTTTGAGTCGAGTCGAGTT
1 GAGTTGACGAGTCGTATTTTACAACTCGAACTTAACTTG-AATTTTTTTCGAGTCAAGTCGAG--
421733 TAAAAAATTTGAGTTATTT
63 ------ATTTGAGTTATTT
*
421752 GAGTTGACGAGTCATATTTTACAACTCGAACTTAACTTGAATTTTTTTCGAGTCAAGTCGAG-TT
1 GAGTTGACGAGTCGTATTTTACAACTCGAACTTAACTTGAATTTTTTTCGAGTCAAGTCGAGATT
421816 TGAGTTATTT
66 TGAGTTATTT
421826 GAGTTGACGAGTCGTATTTTACAACTCGAACTTAACTTGAATTTTTTTTCGAGT
1 GAGTTGACGAGTCGTATTTTACAACTCGAACTTAACTTGAA-TTTTTTTCGAGT
421880 TTAAGAAATT
Statistics
Matches: 122, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
74 52 0.43
75 12 0.10
83 21 0.17
84 37 0.30
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (75 bp):
GAGTTGACGAGTCGTATTTTACAACTCGAACTTAACTTGAATTTTTTTCGAGTCAAGTCGAGATT
TGAGTTATTT
Found at i:421913 original size:14 final size:14
Alignment explanation
Indices: 421891--421922 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
421881 TAAGAAATTT
*
421891 GAGTTGAGTTATTC
1 GAGTCGAGTTATTC
421905 GAGTCGAGTTATTC
1 GAGTCGAGTTATTC
421919 GAGT
1 GAGT
421923 TTCTGTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (14 bp):
GAGTCGAGTTATTC
Found at i:422551 original size:153 final size:156
Alignment explanation
Indices: 422280--422671 Score: 531
Period size: 156 Copynumber: 2.5 Consensus size: 156
422270 AGTTACATAG
* * * * * * * * * *
422280 GTATTTTATTATGGTATATGAGCATGTGGTTCAAATTTGGTAAAAAAGATAATTAAACTAAATCA
1 GTATTCTACTATGGTTTAGGAGCATGTGGCTCAAATTTGGTAAAAATG-GACTTAAAATAAATGA
* * * * *
422345 CAAATTAAAGGAATAAGGAGATTATGAAAAATTGAAGGATTAAATTGAAAAAT-AAAAA-TGTTA
65 CGAATTGAAGAAATAAGGAGATTATAAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTGTTA
422408 TCAAAAAGAGGAATTGAAAGTACAAAT
130 TCAAAAAGAGGAATTGAAAGTACAAAT
422435 GTATTCTACTATGGTTTAGGAGCATGTGGCTCAAATTTGGT-AAAATGGACTTAAAATAAATGAC
1 GTATTCTACTATGGTTTAGGAGCATGTGGCTCAAATTTGGTAAAAATGGACTTAAAATAAATGAC
*
422499 GAATTGAAGAAATAAGGAGATTATAAAAAATTGAATGACTAAATTGAAAAATAAAAAATTTGTTA
66 GAATTGAAGAAATAAGGAGATTATAAAAAATTGAAGGACTAAATTGAAAAATAAAAAA-TTGTTA
* *
422564 TCAAAAAGAGTAATTGAAAGTACAGAT
130 TCAAAAAGAGGAATTGAAAGTACAAAT
* * *
422591 GTATTCTACTATGGTTTAGGAGCATGTGGGTCAAATTTGGTAAAAAAATGGACTTAAAATGAAGG
1 GTATTCTACTATGGTTTAGGAGCATGTGGCTCAAATTTGGT--AAAAATGGACTTAAAATAAATG
422656 A-GAATTGAAGAAATAA
64 ACGAATTGAAGAAATAA
422672 TTAAATCAGG
Statistics
Matches: 210, Mismatches: 21, Indels: 9
0.88 0.09 0.04
Matches are distributed among these distances:
153 59 0.28
154 10 0.05
155 36 0.17
156 70 0.33
158 15 0.07
159 20 0.10
ACGTcount: A:0.46, C:0.06, G:0.19, T:0.29
Consensus pattern (156 bp):
GTATTCTACTATGGTTTAGGAGCATGTGGCTCAAATTTGGTAAAAATGGACTTAAAATAAATGAC
GAATTGAAGAAATAAGGAGATTATAAAAAATTGAAGGACTAAATTGAAAAATAAAAAATTGTTAT
CAAAAAGAGGAATTGAAAGTACAAAT
Found at i:426535 original size:2 final size:2
Alignment explanation
Indices: 426528--426568 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
426518 ATAGCACTAT
426528 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
426569 TTTATAGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:433189 original size:14 final size:14
Alignment explanation
Indices: 433170--433197 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
433160 CTTTCTATAG
433170 TATTAACTTACGAT
1 TATTAACTTACGAT
433184 TATTAACTTACGAT
1 TATTAACTTACGAT
433198 GATAACGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TATTAACTTACGAT
Found at i:434023 original size:23 final size:23
Alignment explanation
Indices: 433997--434098 Score: 58
Period size: 22 Copynumber: 4.6 Consensus size: 23
433987 ATATTTACTA
433997 ATAATTTTAATAATATATATAAT
1 ATAATTTTAATAATATATATAAT
* * *
434020 ATAATATTT-TTATTGT-TATAAT
1 ATAAT-TTTAATAATATATATAAT
434042 -TATATTATTAATACATATA-AT-AT
1 ATA-ATT-TTAATA-ATATATATAAT
* *
434065 TTTATTTTAAT-A-ATATATAAT
1 ATAATTTTAATAATATATATAAT
434086 A-AATTATTAATAA
1 ATAATT-TTAATAA
434099 AATTAATATT
Statistics
Matches: 59, Mismatches: 9, Indels: 23
0.65 0.10 0.25
Matches are distributed among these distances:
19 3 0.05
20 6 0.10
21 10 0.17
22 16 0.27
23 16 0.27
24 8 0.14
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (23 bp):
ATAATTTTAATAATATATATAAT
Found at i:434069 original size:25 final size:23
Alignment explanation
Indices: 434041--434118 Score: 56
Period size: 25 Copynumber: 3.4 Consensus size: 23
434031 ATTGTTATAA
*
434041 TTATATTATTAATACATATAATATT
1 TTATATTAATAAT--ATATAATATT
* *
434066 TTATTTTAATAATATATAATA-A
1 TTATATTAATAATATATAATATT
* *
434088 AT-TATTAATAAAAT-TAATATT
1 TTATATTAATAATATATAATATT
434109 ATT-TATTAAT
1 -TTATATTAAT
434119 TTCATAAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
20 5 0.12
21 10 0.23
22 9 0.21
23 8 0.19
25 11 0.26
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
TTATATTAATAATATATAATATT
Found at i:434118 original size:43 final size:44
Alignment explanation
Indices: 434036--434118 Score: 100
Period size: 43 Copynumber: 1.9 Consensus size: 44
434026 TTTTTATTGT
* * *
434036 TATAATTATATTATTAATACATATAATATTTTATTTTAATAATA
1 TATAATTAAATTATTAATAAATATAATATTTTATATTAATAATA
434080 TATAA-TAAATTATTAATAAA-ATTAATATTATT-TATTAAT
1 TATAATTAAATTATTAATAAATA-TAATATT-TTATATTAAT
434119 TTCATAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
42 1 0.03
43 26 0.76
44 7 0.21
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (44 bp):
TATAATTAAATTATTAATAAATATAATATTTTATATTAATAATA
Found at i:434198 original size:13 final size:15
Alignment explanation
Indices: 434178--434218 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
434168 TAAAGTATAA
434178 TATAATATTTTA-TT
1 TATAATATTTTATTT
*
434192 T-TAATATTATAATTT
1 TATAATATT-TTATTT
434207 TATAATATTTTA
1 TATAATATTTTA
434219 ATAATATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.32
14 3 0.14
15 5 0.23
16 7 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATAATATTTTATTT
Found at i:434284 original size:22 final size:22
Alignment explanation
Indices: 434249--434332 Score: 59
Period size: 22 Copynumber: 3.9 Consensus size: 22
434239 AATATAAATA
*
434249 ATAATATATTATTATTATTATTT
1 ATAATA-ATAATTATTATTATTT
* *
434272 -TAATAGATAATTAATATAATTT
1 ATAATA-ATAATTATTATTATTT
* *
434294 ATACTAATAATT-TTATT-TTA
1 ATAATAATAATTATTATTATTT
*
434314 ATAA-AATATAATATTATTA
1 ATAATAATA-ATTATTATTA
434333 ATATTTTATA
Statistics
Matches: 47, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
19 4 0.09
20 7 0.15
21 8 0.17
22 24 0.51
23 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (22 bp):
ATAATAATAATTATTATTATTT
Found at i:434592 original size:14 final size:14
Alignment explanation
Indices: 434527--434585 Score: 91
Period size: 14 Copynumber: 4.2 Consensus size: 14
434517 TAGAAAATAT
*
434527 AATTCATTTTGCGA
1 AATTCATTTTTCGA
*
434541 AATTCATTTTACGA
1 AATTCATTTTTCGA
434555 AATTCATTTTTCGA
1 AATTCATTTTTCGA
*
434569 AATACATTTTTCGA
1 AATTCATTTTTCGA
434583 AAT
1 AAT
434586 CTATTTTCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 42 1.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (14 bp):
AATTCATTTTTCGA
Found at i:435764 original size:19 final size:19
Alignment explanation
Indices: 435740--435778 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
435730 TGTTATGGAA
435740 ATAAATCCATA-ATTAAAAC
1 ATAAAT-CATATATTAAAAC
*
435759 ATAAATCATATTTTAAAAC
1 ATAAATCATATATTAAAAC
435778 A
1 A
435779 ATATGAGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAAATCATATATTAAAAC
Found at i:453587 original size:2 final size:2
Alignment explanation
Indices: 453582--453607 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
453572 TGTGTGTGTG
453582 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
453608 ATTTACATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:463055 original size:25 final size:25
Alignment explanation
Indices: 463027--463079 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
463017 CATGAATGGT
*
463027 CCATCCTGGCAAAGGTGAGCATTAA
1 CCATCCTAGCAAAGGTGAGCATTAA
*
463052 CCATCCTAGCAAAGGTGAGCATTGA
1 CCATCCTAGCAAAGGTGAGCATTAA
463077 CCA
1 CCA
463080 ATCCCAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (25 bp):
CCATCCTAGCAAAGGTGAGCATTAA
Found at i:464076 original size:63 final size:63
Alignment explanation
Indices: 463908--464091 Score: 211
Period size: 59 Copynumber: 2.9 Consensus size: 63
463898 TTTGTAAATT
* *
463908 TAGGATTTTTAGTTTGATTATTTTATTATTTTAGGAATCAATTATTTTAATTATTTAGAACTTCT
1 TAGGATTTTTAGTTTGATTA--TT-TTA-TTTAGGAATTAATTATTTTATTTATTTAGAACTTCT
*
463973 AG
62 AC
*
463975 TGGGACTATTTTA--TT-ATTA--TT-TTTAGGAA-TAAGTTATTTTATTTATTTAGAACTTCTA
1 TAGGA-T-TTTTAGTTTGATTATTTTATTTAGGAATTAA-TTATTTTATTTATTTAGAACTTCTA
464033 C
63 C
*
464034 TAGGATTTTTAGTTTGATTATTTTATTTAGGAATTAATTATTTTATTTACTTAGAACT
1 TAGGATTTTTAGTTTGATTATTTTATTTAGGAATTAATTATTTTATTTATTTAGAACT
464092 CTCAGGTTAT
Statistics
Matches: 101, Mismatches: 6, Indels: 24
0.77 0.05 0.18
Matches are distributed among these distances:
57 5 0.05
58 3 0.03
59 38 0.38
60 4 0.04
61 2 0.02
62 2 0.02
63 28 0.28
64 3 0.03
66 4 0.04
67 6 0.06
68 1 0.01
69 5 0.05
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.54
Consensus pattern (63 bp):
TAGGATTTTTAGTTTGATTATTTTATTTAGGAATTAATTATTTTATTTATTTAGAACTTCTAC
Found at i:465762 original size:24 final size:23
Alignment explanation
Indices: 465735--465790 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
465725 GGCTTTATAT
*
465735 TGTATAAACAACATGTTTAAAATG
1 TGTATAAACAACAGGTTTAAAA-G
* * *
465759 TGTAAAAAACAATAGGTTTAATAG
1 TGT-ATAAACAACAGGTTTAAAAG
465783 TGTATAAA
1 TGTATAAA
465791 TATAGTCGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
23 4 0.15
24 7 0.27
25 15 0.58
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.32
Consensus pattern (23 bp):
TGTATAAACAACAGGTTTAAAAG
Found at i:465804 original size:26 final size:26
Alignment explanation
Indices: 465758--465847 Score: 69
Period size: 26 Copynumber: 3.5 Consensus size: 26
465748 TGTTTAAAAT
* *
465758 GTGTA-AAAAACAATAG-GTTTAATA
1 GTGTATAAAAACAGTAGAATTTAATA
* * *
465782 GTGTATAAATATAGTCGAATTTAA-A
1 GTGTATAAAAACAGTAGAATTTAATA
* *
465807 TGTGTGTAAAAACATTAGAATTTAATA
1 -GTGTATAAAAACAGTAGAATTTAATA
*
465834 GTGCATAAACAACA
1 GTGTATAAA-AACA
465848 CATATTTTAA
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
24 5 0.10
25 8 0.16
26 31 0.63
27 5 0.10
ACGTcount: A:0.47, C:0.07, G:0.16, T:0.31
Consensus pattern (26 bp):
GTGTATAAAAACAGTAGAATTTAATA
Found at i:466629 original size:12 final size:12
Alignment explanation
Indices: 466614--466639 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
466604 TTCATCTTCA
466614 TCCTCTTCCTCC
1 TCCTCTTCCTCC
466626 TCCTCTTCCTCC
1 TCCTCTTCCTCC
466638 TC
1 TC
466640 ATCGGATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (12 bp):
TCCTCTTCCTCC
Found at i:468977 original size:77 final size:76
Alignment explanation
Indices: 468875--469017 Score: 180
Period size: 75 Copynumber: 1.9 Consensus size: 76
468865 AGTTGTAGCA
* * *
468875 GCGTTTGTTTAAAAACGCCACTATATATGAAACTTATTGCGGAGTTT-TCTAAAAAAACGCCACT
1 GCGTTTGTTCAAAAACACCAC--TATATGAAACCTATTGCGGAGTTTATCTAAAAAAACGCCACT
468939 AAGGTCTGTAAGG
64 AAGGTCTGTAAGG
* * * * * *
468952 GCGTTTGTTCAAAAATATCACTATATGAAACCTATTGTGGCGTTTATGTAAAAAAATGCCACTAA
1 GCGTTTGTTCAAAAACACCACTATATGAAACCTATTGCGGAGTTTATCTAAAAAAACGCCACTAA
469017 G
66 G
469018 TATCAATTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
75 21 0.38
76 18 0.32
77 17 0.30
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (76 bp):
GCGTTTGTTCAAAAACACCACTATATGAAACCTATTGCGGAGTTTATCTAAAAAAACGCCACTAA
GGTCTGTAAGG
Found at i:469100 original size:41 final size:41
Alignment explanation
Indices: 469028--469129 Score: 125
Period size: 41 Copynumber: 2.5 Consensus size: 41
469018 TATCAATTTT
* *
469028 TTGTGGCGGTTGTCTAAAAATGTCACAATATATGTACCCTA
1 TTGTGGCGTTTGTCTAAAAATGTCACAATATATATACCCTA
* *
469069 TTGTGGCGTTTGTCTAAAAATG-CGACGATATATATTCCCTA
1 TTGTGGCGTTTGTCTAAAAATGTC-ACAATATATATACCCTA
** *
469110 TTACGGCGTTTGTTTAAAAA
1 TTGTGGCGTTTGTCTAAAAA
469130 CACCACTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
40 1 0.02
41 52 0.98
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (41 bp):
TTGTGGCGTTTGTCTAAAAATGTCACAATATATATACCCTA
Found at i:469371 original size:27 final size:26
Alignment explanation
Indices: 469311--469389 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 26
469301 TGTTTTGCTA
*
469311 TAGTGTGTATAAAACAATATATTATT
1 TAGTGTGTATAAAACAATATAGTATT
* *
469337 TAATGTGTATAAAGACTATATAGT-TT
1 TAGTGTGTATAAA-ACAATATAGTATT
469363 TAGTAGTGTAT-AAACAATAT-GT-TT
1 TAGT-GTGTATAAAACAATATAGTATT
469387 TAG
1 TAG
469390 GATTAGTTGT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
24 7 0.15
25 6 0.13
26 19 0.41
27 14 0.30
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (26 bp):
TAGTGTGTATAAAACAATATAGTATT
Found at i:469520 original size:62 final size:61
Alignment explanation
Indices: 469415--469530 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 61
469405 ATGTTAAATG
* *
469415 TGTATAAAAATAAATTTAAATGTGTAGAAATAGTATGAATTAATAATATTTTAGGGTTAGT
1 TGTATAAAAATAAATTTAAATGTGTAAAAATAGTAGGAATTAATAATATTTTAGGGTTAGT
** *
469476 TGTATAAAAATATGTTTGAAATGTGTATAAAAT-GTAGGATTTAATAATATTTTAG
1 TGTATAAAAATAAATTT-AAATGTGTA-AAAATAGTAGGAATTAATAATATTTTAG
469531 TGCTATATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
61 15 0.31
62 29 0.60
63 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (61 bp):
TGTATAAAAATAAATTTAAATGTGTAAAAATAGTAGGAATTAATAATATTTTAGGGTTAGT
Found at i:469887 original size:36 final size:38
Alignment explanation
Indices: 469824--469901 Score: 142
Period size: 37 Copynumber: 2.1 Consensus size: 38
469814 TTTTATAAAG
469824 AATCTCATACTTAGGTTATCTTCTGTCC-AACAGTAAC
1 AATCTCATACTTAGGTTATCTTCTGTCCAAACAGTAAC
469861 AATCTCATACTTAGG-TATCTTCTGTCCAAACAGTAAC
1 AATCTCATACTTAGGTTATCTTCTGTCCAAACAGTAAC
469898 AATC
1 AATC
469902 CATCTAATTG
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 12 0.30
37 28 0.70
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.33
Consensus pattern (38 bp):
AATCTCATACTTAGGTTATCTTCTGTCCAAACAGTAAC
Found at i:471771 original size:239 final size:236
Alignment explanation
Indices: 471329--471805 Score: 838
Period size: 239 Copynumber: 2.0 Consensus size: 236
471319 ACCGATACCG
471329 TGACGGGCAAGTTTCCAATGATCTGCTGTCCGGTGTAATCAGCAGTATAGTAGATTATTCTCAAC
1 TGACGGGCAAGTTTCCAATGATCTGCTGTCCGGTGTAATCAGCAGTATAGTAGATTATTCTCAAC
471394 ATAAATGTTATATCATATATACAGAAAAAAGACGTGACATTATGTTCCGTCCAGGGGTTCGGTCT
66 ATAAATGTTATATCA-ATATACAGAAAAAAGACGTGACATTATGTTCCGTCCAGGGGTTCGGTCT
471459 ATTGTCAATGTCGACGCCGGGAGTTTTACAAAGGAAATAGGCACCTGTACTTCATACGAGACGAA
130 ATTGTCAATGTCGACGCCGGGAGTTTTACAAAGGAAATAGGCACCTGTACTTCATACGAGACGAA
471524 CTGCATCAGCGGCGAAAAGATAAGTTTCTTCTTCGCTGCATGC
195 CTGCATCAGCGGCGAAAAGAT-AGTTTCTTCTTCGCTGCATGC
471567 TGACGGGCAAGTTTCCAATGATCTTGCTGTCCGGTGTAATCAGCAGTATAGTAAGATTATTCTCA
1 TGACGGGCAAGTTTCCAATGATC-TGCTGTCCGGTGTAATCAGCAGTATAGT-AGATTATTCTCA
471632 AC-TAAATG-T-TATC-ATATACAGAAAAAAAGACGTGACATTATGTTATCCCGTCCAGGGGTTC
64 ACATAAATGTTATATCAATATACAG-AAAAAAGACGTGACATTATG-T-T-CCGTCCAGGGGTTC
471693 GGTCTATTGTCAATGTCGACGCCGGGAGTTTTTAC-AAGGAAATAGGCACCTGTACTTCATACGA
125 GGTCTATTGTCAATGTCGACGCCGGGAG-TTTTACAAAGGAAATAGGCACCTGTACTTCATACGA
471757 GACGAACTGCATCAGCGGCGAAAAGATAGTTTCTTCTTCGCTGCATGC
189 GACGAACTGCATCAGCGGCGAAAAGATAGTTTCTTCTTCGCTGCATGC
471805 T
1 T
471806 TTTAACAGCT
Statistics
Matches: 232, Mismatches: 0, Indels: 14
0.94 0.00 0.06
Matches are distributed among these distances:
235 8 0.03
236 20 0.09
237 5 0.02
238 47 0.20
239 132 0.57
240 20 0.09
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (236 bp):
TGACGGGCAAGTTTCCAATGATCTGCTGTCCGGTGTAATCAGCAGTATAGTAGATTATTCTCAAC
ATAAATGTTATATCAATATACAGAAAAAAGACGTGACATTATGTTCCGTCCAGGGGTTCGGTCTA
TTGTCAATGTCGACGCCGGGAGTTTTACAAAGGAAATAGGCACCTGTACTTCATACGAGACGAAC
TGCATCAGCGGCGAAAAGATAGTTTCTTCTTCGCTGCATGC
Found at i:489026 original size:3 final size:3
Alignment explanation
Indices: 489018--489093 Score: 98
Period size: 3 Copynumber: 25.0 Consensus size: 3
489008 TTCATTTTAA
**
489018 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
489066 ATT ATT AAT AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT
489094 TAAATATTAC
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:491336 original size:20 final size:21
Alignment explanation
Indices: 491313--491364 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
491303 AGAAATTAAA
491313 AATTCATTTATTT-AATTTTT
1 AATTCATTTATTTAAATTTTT
* *
491333 AATTCTTTTCTTTTAAATTTTT
1 AATTCATTT-ATTTAAATTTTT
491355 -ATT-ATTTATT
1 AATTCATTTATT
491365 ATTTTTATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 2 0.08
20 11 0.42
21 6 0.23
22 7 0.27
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (21 bp):
AATTCATTTATTTAAATTTTT
Found at i:496048 original size:14 final size:14
Alignment explanation
Indices: 496029--496060 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
496019 TCCAGCAAAG
*
496029 AAAGAATAAAAAAA
1 AAAGAAGAAAAAAA
496043 AAAGAAGAAAAAAA
1 AAAGAAGAAAAAAA
496057 AAAG
1 AAAG
496061 GAAAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAGAAGAAAAAAA
Found at i:496056 original size:17 final size:18
Alignment explanation
Indices: 496025--496059 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
496015 CTCATCCAGC
*
496025 AAAGAAAGAATAAAAAAA
1 AAAGAAAGAAAAAAAAAA
496043 AAAG-AAGAAAAAAAAAA
1 AAAGAAAGAAAAAAAAAA
496060 GGAAAATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (18 bp):
AAAGAAAGAAAAAAAAAA
Found at i:498513 original size:114 final size:114
Alignment explanation
Indices: 498305--498530 Score: 362
Period size: 114 Copynumber: 2.0 Consensus size: 114
498295 AAGTGCCATG
* *
498305 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
* * * *
498370 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATT
*
498419 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
* * *
498484 TGATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAA
498531 CTGCATGATC
Statistics
Matches: 102, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATC
TGATTCGGTAGGAACCCCAAAACCAATCATTGGAATTAAAAGATGAATT
Found at i:500689 original size:52 final size:53
Alignment explanation
Indices: 500612--500730 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 53
500602 AAAGAGCTTC
* ***
500612 AATGTTTGA-GAACATCTGAGCAGAAGCCACA-AAAAAATGAATGTGTTGTCA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACAGAAAAAATGAATGCACTGTCA
** *
500663 AATGTTTTACGAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCACTGTTA
1 AATGTTTTACGAACATCTGAGCAGAAGCCACA-GAAAAAATGAATGCACTGTCA
500717 AATGTTTTACGAAC
1 AATGTTTTACGAAC
500731 CTGCTATTCG
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
51 8 0.14
52 22 0.38
54 28 0.48
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (53 bp):
AATGTTTTACGAACATCTGAGCAGAAGCCACAGAAAAAATGAATGCACTGTCA
Found at i:501111 original size:22 final size:22
Alignment explanation
Indices: 501082--501136 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
501072 ATCTACACTC
501082 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
501104 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
501126 TTCAAAGATGA
1 TTCAAAGATGA
501137 AAGCTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:501939 original size:76 final size:76
Alignment explanation
Indices: 501813--502112 Score: 573
Period size: 76 Copynumber: 3.9 Consensus size: 76
501803 CTATTTCTCA
501813 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
501878 AGCCTTCGGGT
66 AACCTTCGGGT
*
501889 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
501954 AGCCTTCGGGT
66 AACCTTCGGGT
501965 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
502030 AACCTTCGGGT
66 AACCTTCGGGT
502041 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
502106 AACCTTC
66 AACCTTC
502113 AGTGCATGAT
Statistics
Matches: 221, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 221 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTCGGGT
Found at i:502098 original size:31 final size:31
Alignment explanation
Indices: 502063--502162 Score: 113
Period size: 31 Copynumber: 3.4 Consensus size: 31
502053 CTTCAGTGCA
502063 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
* ***
502094 TGATGTTTTC-AAAA-CCTTC---AG-TGCA
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
502119 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
*
502150 TGATGTTTTCAAA
1 TGATGTTTCCAAA
502163 TCCTTCGGGT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
25 10 0.19
26 6 0.11
27 5 0.09
29 5 0.09
30 6 0.11
31 22 0.41
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (31 bp):
TGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
Found at i:502138 original size:56 final size:56
Alignment explanation
Indices: 502052--502168 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
502042 ATCTGTAAGT
502052 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
*
502108 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
502164 CCTTC
1 CCTTC
502169 GGGTCATCTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (56 bp):
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAA
Found at i:502157 original size:132 final size:132
Alignment explanation
Indices: 501976--502244 Score: 511
Period size: 132 Copynumber: 2.0 Consensus size: 132
501966 ATCTGTAAGT
501976 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
*
502041 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
502106 AA
131 AA
*
502108 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
502173 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
502238 AT
131 AA
502240 CCTTC
1 CCTTC
502245 GGGTCATCTG
Statistics
Matches: 134, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 134 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (132 bp):
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AA
Found at i:502234 original size:76 final size:76
Alignment explanation
Indices: 502108--502555 Score: 826
Period size: 76 Copynumber: 5.9 Consensus size: 76
502098 GTTTTCAAAA
*
502108 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
502173 CATCTGTAAGC
66 CATCTGTAAGC
*
502184 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
502249 CATCTGTAAGC
66 CATCTGTAAGC
502260 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
502325 CATCTGTAAGC
66 CATCTGTAAGC
502336 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
502401 CATCTGTAAGC
66 CATCTGTAAGC
* *
502412 CCTTTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
502477 CATCTGTAAGC
66 CATCTGTAAGC
* *
502488 CCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-AAACCCTCAGGG
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTC-GGG
502552 TCAT
65 TCAT
502556 TCATAAGACC
Statistics
Matches: 364, Mismatches: 7, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
75 6 0.02
76 358 0.98
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (76 bp):
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
CATCTGTAAGC
Found at i:502258 original size:208 final size:208
Alignment explanation
Indices: 501900--502320 Score: 797
Period size: 208 Copynumber: 2.0 Consensus size: 208
501890 ATCTGTAAGT
501900 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
*
501965 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
502030 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
131 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
502095 GATGTTTTCAAAA
196 GATGTTTTCAAAA
* *
502108 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
502173 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
502238 ATCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
131 AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
502303 GATGTTTTCAAAA
196 GATGTTTTCAAAA
502316 CCTTC
1 CCTTC
502321 GGGTCATCTG
Statistics
Matches: 208, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
208 208 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (208 bp):
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAA
Found at i:502334 original size:284 final size:284
Alignment explanation
Indices: 501824--502396 Score: 1092
Period size: 284 Copynumber: 2.0 Consensus size: 284
501814 ATCTGTAAGT
501824 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
*
501889 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAA
66 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAA
*
501954 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
131 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
502019 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
196 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
502084 GGGAGCTTTTTGATGTTTTCAAAA
261 GGGAGCTTTTTGATGTTTTCAAAA
*
502108 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAATCCTTCGGGT
1 CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
*
502173 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
66 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAA
*
502238 ATCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
131 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
502303 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
196 GATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
502368 GGGAGCTTTTTGATGTTTTCAAAA
261 GGGAGCTTTTTGATGTTTTCAAAA
502392 CCTTC
1 CCTTC
502397 GGGTCATCTG
Statistics
Matches: 283, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
284 283 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (284 bp):
CCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAA
Found at i:502719 original size:3 final size:3
Alignment explanation
Indices: 502711--502786 Score: 107
Period size: 3 Copynumber: 25.0 Consensus size: 3
502701 TTCATTTTAA
**
502711 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
502759 ATT ATT ATT AGT AAT ATT ATTT ATT ATT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT
502787 TAAATATTAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
3 62 0.95
4 3 0.05
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:502792 original size:18 final size:16
Alignment explanation
Indices: 502711--502795 Score: 95
Period size: 15 Copynumber: 5.2 Consensus size: 16
502701 TTCATTTTAA
502711 ATTATTATTATTAAA-
1 ATTATTATTATTAAAT
*
502726 ATTATTATTATT-ATT
1 ATTATTATTATTAAAT
*
502741 ATTATTATTATT-ATT
1 ATTATTATTATTAAAT
502756 ATTATTATTATTAGTAAT
1 ATTATTATTATTA--AAT
502774 ATTATTTATTATTTAAAT
1 ATTA-TTATTA-TTAAAT
502792 ATTA
1 ATTA
502796 CAAAGCCCAA
Statistics
Matches: 62, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
14 1 0.02
15 39 0.63
18 13 0.21
19 6 0.10
20 3 0.05
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (16 bp):
ATTATTATTATTAAAT
Found at i:504294 original size:54 final size:53
Alignment explanation
Indices: 504191--504295 Score: 124
Period size: 53 Copynumber: 2.0 Consensus size: 53
504181 ATAATTTTAC
* * * * *
504191 ATTTATTATTATTTTATTTATTTATAGTCATTGTTTAGTTATTTTTTTACTTA
1 ATTTATTATTATTTTATATATTTATAATCATTCTTTAATTATTGTTTTACTTA
504244 ATTT-TTATTATTTTAATATATTT-TAAATCATTACTTTAATTATTGTTTTACT
1 ATTTATTATTATTTT-ATATATTTAT-AATCATT-CTTTAATTATTGTTTTACT
504296 ATATTATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
52 11 0.25
53 17 0.39
54 16 0.36
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.64
Consensus pattern (53 bp):
ATTTATTATTATTTTATATATTTATAATCATTCTTTAATTATTGTTTTACTTA
Found at i:504322 original size:35 final size:35
Alignment explanation
Indices: 504247--504322 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
504237 TTACTTAATT
*
504247 TTTATTATTTTAATATATTTTAAATCATTACTTTA
1 TTTATTATTTTAATATATTATAAATCATTACTTTA
* * *
504282 ATTATTGTTTTACTATATTATAAAT-ATATA-TATTA
1 TTTATTATTTTAATATATTATAAATCAT-TACT-TTA
504317 TTTATT
1 TTTATT
504323 TAATAATGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (35 bp):
TTTATTATTTTAATATATTATAAATCATTACTTTA
Found at i:514584 original size:38 final size:38
Alignment explanation
Indices: 514542--514615 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
514532 TAACGAAATT
*
514542 GAAA-TAAACCAGAACAAAAATTAACTCAAACCGAAACC
1 GAAATTAAACC-GAACAAAAATTAACCCAAACCGAAACC
* ** *
514580 GAAATTTAACCGAACTGAAATTAACCCGAACCGAAA
1 GAAATTAAACCGAACAAAAATTAACCCAAACCGAAA
514616 GCAACCCGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 25 0.83
39 5 0.17
ACGTcount: A:0.53, C:0.23, G:0.11, T:0.14
Consensus pattern (38 bp):
GAAATTAAACCGAACAAAAATTAACCCAAACCGAAACC
Found at i:514601 original size:16 final size:16
Alignment explanation
Indices: 514576--514707 Score: 99
Period size: 16 Copynumber: 8.2 Consensus size: 16
514566 CTCAAACCGA
514576 AACCGAAATTTAA-CCG
1 AACCGAAA-TTAACCCG
*
514592 AACTGAAATTAACCCG
1 AACCGAAATTAACCCG
**
514608 AACCGAAAGCAACCCG
1 AACCGAAATTAACCCG
*
514624 AACTGAAATTAACCCG
1 AACCGAAATTAACCCG
514640 AACC-AAATTTTAACCCG
1 AACCGAAA--TTAACCCG
*** **
514657 ATTTGAAAGCAACCCG
1 AACCGAAATTAACCCG
*
514673 AACCGAATTTAACCC-
1 AACCGAAATTAACCCG
* *
514688 AACCCGAAAGTAACCTG
1 AA-CCGAAATTAACCCG
514705 AAC
1 AAC
514708 AGATTGAAAT
Statistics
Matches: 88, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
15 9 0.10
16 65 0.74
17 11 0.12
18 3 0.03
ACGTcount: A:0.42, C:0.29, G:0.13, T:0.16
Consensus pattern (16 bp):
AACCGAAATTAACCCG
Found at i:514612 original size:32 final size:33
Alignment explanation
Indices: 514576--514687 Score: 133
Period size: 32 Copynumber: 3.5 Consensus size: 33
514566 CTCAAACCGA
514576 AACCGAAATTTAA-CCGAACTGAAATTAACCCG
1 AACCGAAATTTAACCCGAACTGAAATTAACCCG
**
514608 AACCGAAA-GCAACCCGAACTGAAATTAACCCG
1 AACCGAAATTTAACCCGAACTGAAATTAACCCG
** **
514640 AACC-AAATTTTAACCCGATTTGAAAGCAACCCG
1 AACCGAAA-TTTAACCCGAACTGAAATTAACCCG
514673 AACCG-AATTTAACCC
1 AACCGAAATTTAACCC
514688 AACCCGAAAG
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
31 5 0.07
32 39 0.57
33 24 0.35
ACGTcount: A:0.42, C:0.29, G:0.12, T:0.17
Consensus pattern (33 bp):
AACCGAAATTTAACCCGAACTGAAATTAACCCG
Found at i:515313 original size:16 final size:16
Alignment explanation
Indices: 515294--515326 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
515284 TTTTTACAAA
515294 TATATATCAATT-ATTT
1 TATATAT-AATTGATTT
515310 TATATATAATTGATTT
1 TATATATAATTGATTT
515326 T
1 T
515327 GATTAGACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
TATATATAATTGATTT
Found at i:515432 original size:32 final size:31
Alignment explanation
Indices: 515387--515480 Score: 91
Period size: 32 Copynumber: 2.9 Consensus size: 31
515377 CCTAAACCAA
515387 AAATCAACCGATCTGATATTAACCCGACCCG
1 AAATCAACCGATCTGATATTAACCCGACCCG
* * * *
515418 AAATCTAACTGATCTGGTATTAACTCGACCCAAA
1 AAATC-AACCGATCTGATATTAACCCGACCC--G
* *
515452 AAATCAATCGATCCTG-TATTGACCCGACC
1 AAATCAACCGAT-CTGATATTAACCCGACC
515481 TGATATTGAC
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
31 5 0.10
32 22 0.43
33 16 0.31
34 8 0.16
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (31 bp):
AAATCAACCGATCTGATATTAACCCGACCCG
Found at i:515489 original size:16 final size:15
Alignment explanation
Indices: 515464--515494 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
515454 ATCAATCGAT
515464 CCTGTATTGACCCGA
1 CCTGTATTGACCCGA
515479 CCTGATATTGACCCGA
1 CCTG-TATTGACCCGA
515495 TCCGATCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (15 bp):
CCTGTATTGACCCGA
Found at i:515654 original size:15 final size:15
Alignment explanation
Indices: 515634--515665 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
515624 TTAATCTAGA
515634 CCGAAATGACCCGAC
1 CCGAAATGACCCGAC
*
515649 CCGAAATGACTCGAC
1 CCGAAATGACCCGAC
515664 CC
1 CC
515666 AAACTCGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.41, G:0.19, T:0.09
Consensus pattern (15 bp):
CCGAAATGACCCGAC
Done.