Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008929.1 Hibiscus syriacus cultivar Beakdansim tig00112234_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: 268382
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1014 original size:3 final size:3
Alignment explanation
Indices: 1008--1048 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
998 TATTTAACAA
*
1008 TAT TAT T-T TAT TAT TAT TACT T-T TAT TAT TCT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
1049 ATAAATAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.82
4 2 0.06
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1033 original size:15 final size:14
Alignment explanation
Indices: 953--1048 Score: 56
Period size: 15 Copynumber: 6.9 Consensus size: 14
943 TTCATTTTTG
* *
953 ATTATTTTTTTAAT
1 ATTATTATTTTATT
* *
967 ATTTTATATTTTAAT
1 ATTAT-TATTTTATT
*
982 ACTA-TATTTTA--
1 ATTATTATTTTATT
**
993 ATTATTA-TTTAAC
1 ATTATTATTTTATT
*
1006 AATATTATTTTATT
1 ATTATTATTTTATT
1020 ATTATTACTTTTATT
1 ATTATTA-TTTTATT
*
1035 ATTCTTATTATTAT
1 ATTATTATT-TTAT
1049 ATAAATAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 13
0.74 0.11 0.15
Matches are distributed among these distances:
11 7 0.11
12 2 0.03
13 13 0.20
14 16 0.25
15 27 0.42
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTATTATTTTATT
Found at i:1035 original size:12 final size:12
Alignment explanation
Indices: 1008--1048 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
998 TATTTAACAA
1008 TATTATT-TTAT
1 TATTATTCTTAT
1019 TATTATTACTT-T
1 TATTATT-CTTAT
1031 TATTATTCTTAT
1 TATTATTCTTAT
1043 TATTAT
1 TATTAT
1049 ATAAATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.37
12 15 0.56
13 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTATTCTTAT
Found at i:1252 original size:20 final size:19
Alignment explanation
Indices: 1218--1266 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
1208 TAAATATCCT
* *
1218 ATTTTTAAATCATATATTA
1 ATTTTTTAATTATATATTA
*
1237 ATTATTTTAATTATATATTT
1 ATT-TTTTAATTATATATTA
1257 ATTTTTTAAT
1 ATTTTTTAAT
1267 ATTGAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTTTAATTATATATTA
Found at i:1342 original size:15 final size:15
Alignment explanation
Indices: 1322--1351 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1312 ATATTTCTAA
1322 ATAAATAAATATTTT
1 ATAAATAAATATTTT
*
1337 ATAAATTAATATTTT
1 ATAAATAAATATTTT
1352 CCATAATTAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATAAATAAATATTTT
Found at i:2329 original size:25 final size:25
Alignment explanation
Indices: 2299--2348 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
2289 GATATGTTAG
2299 CAATCAATCACACCCACATTGTGTT
1 CAATCAATCACACCCACATTGTGTT
2324 CAATCAATCACACCCACATTGTGTT
1 CAATCAATCACACCCACATTGTGTT
2349 GATCCCGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (25 bp):
CAATCAATCACACCCACATTGTGTT
Found at i:3243 original size:3 final size:3
Alignment explanation
Indices: 3237--3329 Score: 111
Period size: 3 Copynumber: 30.7 Consensus size: 3
3227 TTTTTATCCA
*
3237 TAT TAT TAT TAT TAA TAT TAT TAT TACCT TAT TAT TAT TAAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA--T TAT TAT TAT T-AT TAT TAT
*
3285 TA- TCT TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT
3328 TA
1 TA
3330 AATATATTAA
Statistics
Matches: 79, Mismatches: 4, Indels: 14
0.81 0.04 0.14
Matches are distributed among these distances:
2 5 0.06
3 65 0.82
4 6 0.08
5 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4708 original size:19 final size:19
Alignment explanation
Indices: 4667--4708 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4657 TTTAGTCAGT
* *
4667 TATTTTATATGTTTTCATT
1 TATTTTATATGTTTTAATA
4686 TATTTTAT-TGTTTTAAATA
1 TATTTTATATGTTTT-AATA
4705 TATT
1 TATT
4709 GTTTTAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (19 bp):
TATTTTATATGTTTTAATA
Found at i:4717 original size:13 final size:15
Alignment explanation
Indices: 4691--4722 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
4681 TCATTTATTT
4691 TATTGTTTTAAATA-
1 TATTGTTTTAAATAG
4705 TATTGTTTT-AATAG
1 TATTGTTTTAAATAG
4719 TATT
1 TATT
4723 TGTATTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.59
Consensus pattern (15 bp):
TATTGTTTTAAATAG
Found at i:16147 original size:16 final size:16
Alignment explanation
Indices: 16103--16148 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
16093 ATTATGCTTG
16103 AAGAGAATAAAAAAAA
1 AAGAGAATAAAAAAAA
*
16119 ATAGAAAATAAAAAAAA
1 A-AGAGAATAAAAAAAA
*
16136 AAGAGAAGAAAAA
1 AAGAGAATAAAAA
16149 GAAAGGGGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAGAGAATAAAAAAAA
Found at i:17444 original size:50 final size:50
Alignment explanation
Indices: 17294--17436 Score: 250
Period size: 50 Copynumber: 2.9 Consensus size: 50
17284 AAAGAGACTC
* *
17294 ATAGCATCTTTTGGAAGTGTTCTTAGAGTTATCTGATCTGGTTAGACAGA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGA
* *
17344 AAAGCATCTTCTGGAAATGTTCTTTGAGTTATCTGATCTGGTTAGACAGA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGA
17394 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
17437 TGGCAGAACC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 87 1.00
ACGTcount: A:0.24, C:0.13, G:0.23, T:0.39
Consensus pattern (50 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGACAGA
Found at i:17859 original size:83 final size:83
Alignment explanation
Indices: 17393--17851 Score: 875
Period size: 83 Copynumber: 5.5 Consensus size: 83
17383 GGTTAGACAG
17393 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
17458 TTGGAAGATGAATTTGCT
66 TTGGAAGATGAATTTGCT
17476 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
*
17541 TTAGAAGATGAATTTGCT
66 TTGGAAGATGAATTTGCT
*
17559 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATATGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
17624 TTGGAAGATGAATTTGCT
66 TTGGAAGATGAATTTGCT
17642 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
17707 TTGGAAGATGAATTTGCT
66 TTGGAAGATGAATTTGCT
17725 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAATCATTGAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAATCATTGAA
*
17789 TTTAGAAGATGAATTTGCT
65 TTTGGAAGATGAATTTGCT
17808 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
17852 AGACAGAATA
Statistics
Matches: 369, Mismatches: 5, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
82 4 0.01
83 364 0.99
84 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
TTGGAAGATGAATTTGCT
Found at i:17977 original size:134 final size:133
Alignment explanation
Indices: 17725--17982 Score: 473
Period size: 134 Copynumber: 1.9 Consensus size: 133
17715 TGAATTTGCT
17725 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
*
17790 TTAGAAGATGAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA
66 TTAGAAGATAAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA
17855 CAG
131 CAG
17858 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAGAACCAATCATTTGA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TTGGACAGAACCAATCA-TTGA
*
17922 ATTTGGAAGATAAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
64 ATTTAGAAGATAAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
17983 TTTTGGTAAG
Statistics
Matches: 121, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
133 54 0.45
134 67 0.55
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (133 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACCAATCATTGAAT
TTAGAAGATAAATTTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA
CAG
Found at i:18848 original size:114 final size:114
Alignment explanation
Indices: 18670--19517 Score: 1377
Period size: 114 Copynumber: 7.5 Consensus size: 114
18660 CAGGTAGAGC
18670 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
18735 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGT
66 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGT
18784 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
*
18849 CTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAG--AGT
66 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGT
18896 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* *
18961 CTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAGGT
66 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGT
19010 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* * * * * *
19075 CTTTTACCTGAATCCATC-ATTTGGTGAATCATCTTTTCCAGAGAAAGT
66 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGT
* *
19123 TCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* *** * * * * * *
19188 TTTTTGTTTAAATTCATC-ATTTGATGGATCAACATTGCCAGAGAAGGT
66 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGT
19236 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
19301 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGT
66 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGT
*
19350 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* * * * * *
19415 CTTTTACTTGAATCCATC-ATTTGATGGATCAACATTGCCAG-GTAAAGT
66 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAG-AAAGT
19463 TCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAA
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAGAA
19518 CTCATCAAGA
Statistics
Matches: 687, Mismatches: 42, Indels: 11
0.93 0.06 0.01
Matches are distributed among these distances:
112 115 0.17
113 275 0.40
114 297 0.43
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (114 bp):
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGT
Found at i:19064 original size:226 final size:226
Alignment explanation
Indices: 18670--19517 Score: 1371
Period size: 226 Copynumber: 3.7 Consensus size: 226
18660 CAGGTAGAGC
18670 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* * *
18735 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAAC
66 CTTTTACCTGAATTCATC-AATTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAAC
18800 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCA
130 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCA
18865 TCAAATTGATGGATTATCTTTTCCAGAG-AGT
195 TCAAATTGATGGATTATCTTTTCCAGAGAAGT
18896 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* * * * *
18961 CTTTTACCTGAATTCATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAAC
66 CTTTTACCTGAATTCATC-AATTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAAC
*
19026 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCCA
130 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCA
* * * *
19091 TC-ATTTGGTGAATCATCTTTTCCAGAGAAAGT
195 TCAAATTGATGGATTATCTTTTCCAGAG-AAGT
* *
19123 TCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* *** * * *
19188 TTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACT
66 CTTTTACCTGAATTCATCAATTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACT
19253 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCAT
131 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCAT
*
19318 CAAATTGATGGATTAACTTTTCCAGAGAAAGT
196 CAAATTGATGGATTATCTTTTCCAGAG-AAGT
*
19350 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* * *
19415 CTTTTACTTGAATCCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAAC
66 CTTTTACCTGAATTCATCAATTGATGGATCAACATTGCCAGAG-AAAGTTCATAATGAGAAGAAC
19479 TCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAA
130 TCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAGAA
19518 CTCATCAAGA
Statistics
Matches: 583, Mismatches: 34, Indels: 9
0.93 0.05 0.01
Matches are distributed among these distances:
225 21 0.04
226 304 0.52
227 258 0.44
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (226 bp):
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
CTTTTACCTGAATTCATCAATTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACT
CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCAT
CAAATTGATGGATTATCTTTTCCAGAGAAGT
Found at i:19290 original size:340 final size:339
Alignment explanation
Indices: 18670--19519 Score: 1418
Period size: 340 Copynumber: 2.5 Consensus size: 339
18660 CAGGTAGAGC
18670 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* * *
18735 CTTTTACCTGAATTCATCAAATTGATGGATTAACTTTTCCAGAGAAAGTTCATAATGAGAAGAAC
66 CTTTTACCTGAATCCATC-ATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAAC
* *
18800 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCA
130 TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATTCA
* * * *
18865 TCAAATTGATGGATTATCTTTTCCAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
195 TCAAATTGATGGATCAACATTGCCAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
*
18930 AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTATC
260 AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAAC
*
18995 TTTTCCAGAGAAGGT
325 TTTTCCAGAGAAAGT
19010 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* * *
19075 CTTTTACCTGAATCCATCATTTGGTGAATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
66 CTTTTACCTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
* * ***
19140 CATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCAT
131 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATTCAT
*
19205 C-ATTTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
196 CAAATTGATGGATCAACATTGCCAGAG-A-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
19269 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAA
259 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAA
19334 CTTTTCCAGAGAAAGT
324 CTTTTCCAGAGAAAGT
*
19350 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAAAAGAATTTGTTCAAC
1 TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
* * *
19415 CTTTTACTTGAATCCATCATTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAAC
66 CTTTTACCTGAATCCATCATTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAAC
19479 TCATCTGAAGAAGGAAG-AGAAAGTTCATAATGAGAAGAACT
130 TCATCTGAAGAAGGAAGAAG-AAGTTCATAATGAGAAGAACT
19520 CATCAAGAGT
Statistics
Matches: 478, Mismatches: 28, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
338 20 0.04
339 105 0.22
340 353 0.74
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (339 bp):
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAAC
CTTTTACCTGAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTAAATTCAT
CAAATTGATGGATCAACATTGCCAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
GAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCAAATTGATGGATTAACT
TTTCCAGAGAAAGT
Found at i:19777 original size:3 final size:3
Alignment explanation
Indices: 19771--19846 Score: 102
Period size: 3 Copynumber: 26.0 Consensus size: 3
19761 TTATCCATAT
** * *
19771 TTA TTA TTA -TA TTA TTA TTA TCC TTA TTA TTA -AA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19817 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
19847 ATTTATATTA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
2 3 0.05
3 60 0.95
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:20132 original size:22 final size:21
Alignment explanation
Indices: 20089--20132 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
20079 TACCCTAGGG
*
20089 CCACGCGGCGCCGCCCAGCTT
1 CCACGCGGCGCCGCACAGCTT
20110 CCACGCGGCTGCCG-ACAGTCTT
1 CCACGCGGC-GCCGCACAG-CTT
20132 C
1 C
20133 TCGCCGCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.11, C:0.48, G:0.27, T:0.14
Consensus pattern (21 bp):
CCACGCGGCGCCGCACAGCTT
Found at i:28116 original size:3 final size:3
Alignment explanation
Indices: 28058--28100 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
28048 CAACAATTTA
* * *
28058 TTC TTC TTC TTC TTCC TTC TTT TTC TTT TTC TCC TTC TTC TTC
1 TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC
28101 CCTCATTTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:32410 original size:31 final size:31
Alignment explanation
Indices: 32336--32411 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
32326 TTCAGAAGTT
**
32336 ATAAATTGGGCACTAACATTATCGATTTGTA
1 ATAAATTGATCACTAACATTATCGATTTGTA
* *
32367 ATGAGTTGATCACTAACATTATCGATTTGTA
1 ATAAATTGATCACTAACATTATCGATTTGTA
32398 ATAAAATT-ATCACT
1 AT-AAATTGATCACT
32412 CGACGTTAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 35 0.92
32 3 0.08
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (31 bp):
ATAAATTGATCACTAACATTATCGATTTGTA
Found at i:39449 original size:45 final size:45
Alignment explanation
Indices: 39397--39482 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
39387 TTTTTATGGA
* * *
39397 TTTTTAACAGATTTGGTTGGTTCTGCTCCTTTTCCTTTATCCCCT
1 TTTTTAACAGATTTGATAGGTTCTGCTCCTTTGCCTTTATCCCCT
*
39442 TTTTTAACAGTTTTGATAGGTTCTGCTCCTTTGCCTTTATC
1 TTTTTAACAGATTTGATAGGTTCTGCTCCTTTGCCTTTATC
39483 TGAGGAGCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.13, C:0.22, G:0.14, T:0.51
Consensus pattern (45 bp):
TTTTTAACAGATTTGATAGGTTCTGCTCCTTTGCCTTTATCCCCT
Found at i:42924 original size:20 final size:20
Alignment explanation
Indices: 42899--42955 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
42889 ATTCTATTCC
42899 CTGATAATCTTACATTCCCA
1 CTGATAATCTTACATTCCCA
**
42919 CTGATAATCTTACATTATCA
1 CTGATAATCTTACATTCCCA
42939 CT-AGTAATCTTACATTC
1 CTGA-TAATCTTACATTC
42956 TGTAAACCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 1 0.03
20 32 0.97
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.39
Consensus pattern (20 bp):
CTGATAATCTTACATTCCCA
Found at i:43996 original size:23 final size:23
Alignment explanation
Indices: 43957--44001 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
43947 AAAACTATAA
** *
43957 TAATATTTTAAGTTTTTTTAAAC
1 TAATATTTTAAAATTTTATAAAC
43980 TAATATTTTAAAATTTTATAAA
1 TAATATTTTAAAATTTTATAAA
44002 TGTGACACGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TAATATTTTAAAATTTTATAAAC
Found at i:49414 original size:122 final size:122
Alignment explanation
Indices: 49197--49433 Score: 384
Period size: 122 Copynumber: 1.9 Consensus size: 122
49187 AACACATCTA
*
49197 GTAAAAATATAGCATACTCCAGTTCTTCCCCAATATCCTAGCCCAAATCCTTTCCTCAGCCGAAT
1 GTAAAAATATAGCATAATCCAGTTCTTCCCCAATATCCTAGCCCAAATCCTTTCCTCAGCCGAAT
* ***
49262 CAATGGTTAAATCATTTTTCTATAATACTCTTTGAGGTGAAGCTCTCGAACATATAT
66 CAATGGTTAAATCATTTTTCCATAATACTCTACAAGGTGAAGCTCTCGAACATATAT
* * *
49319 GTAAAAATATAGCATAATTCAGTTCTTCCCTAATATCCTAGCCCAAATCCTTTCCTCAGCTGAAT
1 GTAAAAATATAGCATAATCCAGTTCTTCCCCAATATCCTAGCCCAAATCCTTTCCTCAGCCGAAT
* *
49384 CAATTGTTAAATCATTTTTCCATATTACTCTACAAGGTGAAGCTCTCGAA
66 CAATGGTTAAATCATTTTTCCATAATACTCTACAAGGTGAAGCTCTCGAA
49434 TATACCATGT
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
122 105 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (122 bp):
GTAAAAATATAGCATAATCCAGTTCTTCCCCAATATCCTAGCCCAAATCCTTTCCTCAGCCGAAT
CAATGGTTAAATCATTTTTCCATAATACTCTACAAGGTGAAGCTCTCGAACATATAT
Found at i:50145 original size:126 final size:126
Alignment explanation
Indices: 49975--50323 Score: 515
Period size: 126 Copynumber: 2.8 Consensus size: 126
49965 AAAGACTCTA
* * * *
49975 TTCTTTTTTTCTCTTGCATC-AAATTCCTCATGCCCACATGATAATATCAAACTAGAAAAACTGC
1 TTCTTTATTTCTCTTGCATCAAAATTCCTCATGCCCACATAATAATATCAAAATAGAATAACTGC
* *
50039 CACATAGACAACTCTTCTATGAAATGGTTCGAAAAA-CTAGTAATGTACTTACAGGACACAG
66 CACATAGGCAACTTTTCTATGAAATGGTTC-AAAAATCTAGTAATGTACTTACAGGACACAG
* * *
50100 TTCTTTCTTTCTGTTGCATCAAAATTCTTCATGCCCACATAATAATATCAAAATAGAATAACTGC
1 TTCTTTATTTCTCTTGCATCAAAATTCCTCATGCCCACATAATAATATCAAAATAGAATAACTGC
* * *
50165 CACATAGGCAACTTTTCTATGAAATAGTTAAAAAATCTAGTAATGTACTTACATGACACAG
66 CACATAGGCAACTTTTCTATGAAATGGTTCAAAAATCTAGTAATGTACTTACAGGACACAG
* * * *
50226 TTCTTTATTTCTCTTGCAT-AAAATTCCTCATGGCCACATTATAATATAAAAATAGAATAACTGT
1 TTCTTTATTTCTCTTGCATCAAAATTCCTCATGCCCACATAATAATATCAAAATAGAATAACTGC
*
50290 CACATAGGCAAATTTTCTATGAAATGGTTCAAAA
66 CACATAGGCAACTTTTCTATGAAATGGTTCAAAA
50324 GGACCAAGCA
Statistics
Matches: 201, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
125 94 0.47
126 107 0.53
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (126 bp):
TTCTTTATTTCTCTTGCATCAAAATTCCTCATGCCCACATAATAATATCAAAATAGAATAACTGC
CACATAGGCAACTTTTCTATGAAATGGTTCAAAAATCTAGTAATGTACTTACAGGACACAG
Found at i:52767 original size:20 final size:19
Alignment explanation
Indices: 52740--52778 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
52730 ATTCTTTTGA
* *
52740 TAATAAATTTCTTACTTTT
1 TAATAAATCTCTTAATTTT
52759 TAATAAAATCTCTTAATTTT
1 TAAT-AAATCTCTTAATTTT
52779 ATATTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.36, C:0.10, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAAATCTCTTAATTTT
Found at i:53719 original size:21 final size:22
Alignment explanation
Indices: 53684--53724 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
53674 TTTTTATGTT
* *
53684 ATATTATATTTTATATAAATAA
1 ATATAATATTTTATAAAAATAA
53706 ATATAATA-TTTATAAAAAT
1 ATATAATATTTTATAAAAAT
53725 TATTTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATAATATTTTATAAAAATAA
Found at i:63910 original size:117 final size:118
Alignment explanation
Indices: 63664--63880 Score: 310
Period size: 117 Copynumber: 1.8 Consensus size: 118
63654 TATTAAGCAC
* * * * * * * *
63664 AATAATATATTAGGTAGCGTTTATATAACGTAATAGGTAACGCCTTGTTAAAGCTGATGGGGTTT
1 AATAACATATTAGATATCGCTTATATAACGTAATAGATAACACATTGTTAAAGCTGATAGGGTTT
* *
63729 TAGAAATCCGACGATAACATAATTGGTTAATTACTCGAAACATTATCAAACAT
66 TAGAAATCCGACGATAACAAAATAGGTTAATTACTCGAAACATTATCAAACAT
* *
63782 AATAACATATTAGATATCGCTTATATAACGTAATAGATATCACATT-TTTAAGCTGATAGGGTTT
1 AATAACATATTAGATATCGCTTATATAACGTAATAGATAACACATTGTTAAAGCTGATAGGGTTT
*
63846 TGGAAATCCGACGATAACAAAATAGGTTAATTACT
66 TAGAAATCCGACGATAACAAAATAGGTTAATTACT
63881 TAATTTGTTA
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
117 48 0.56
118 38 0.44
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (118 bp):
AATAACATATTAGATATCGCTTATATAACGTAATAGATAACACATTGTTAAAGCTGATAGGGTTT
TAGAAATCCGACGATAACAAAATAGGTTAATTACTCGAAACATTATCAAACAT
Found at i:67794 original size:15 final size:14
Alignment explanation
Indices: 67770--67825 Score: 62
Period size: 15 Copynumber: 4.1 Consensus size: 14
67760 GCAGCAAAAA
*
67770 TTTCTTCTTCTTTC
1 TTTCTTCTTCCTTC
67784 TTTCTTTCTTCCTTC
1 TTTC-TTCTTCCTTC
67799 TTT-TTC-TCCTTC
1 TTTCTTCTTCCTTC
**
67811 TCCCTTCTTCCTTC
1 TTTCTTCTTCCTTC
67825 T
1 T
67826 GACGTGGCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
12 7 0.19
13 6 0.17
14 11 0.31
15 12 0.33
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTCTTCTTCCTTC
Found at i:67800 original size:19 final size:19
Alignment explanation
Indices: 67770--67819 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
67760 GCAGCAAAAA
67770 TTTCTT-CTTCTTTCTT-TC
1 TTTCTTCCTTCTTT-TTCTC
67788 TTTCTTCCTTCTTTTTCTC
1 TTTCTTCCTTCTTTTTCTC
* *
67807 CTTCTCCCTTCTT
1 TTTCTTCCTTCTT
67820 CCTTCTGACG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 8 0.29
19 20 0.71
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTCTTCCTTCTTTTTCTC
Found at i:68713 original size:11 final size:11
Alignment explanation
Indices: 68693--68763 Score: 83
Period size: 11 Copynumber: 6.5 Consensus size: 11
68683 ACGGGTTGTG
*
68693 AGAAGAAAGAA
1 AGAAGGAAGAA
68704 AGAAGGAAGAA
1 AGAAGGAAGAA
68715 AGAA-GAAGAA
1 AGAAGGAAGAA
* *
68725 TGAGAAGAAAAAA
1 --AGAAGGAAGAA
68738 AGAAGGAAGAA
1 AGAAGGAAGAA
68749 AGAAGGAAG-A
1 AGAAGGAAGAA
68759 AGAAG
1 AGAAG
68764 AATAAATTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
10 12 0.23
11 32 0.62
12 4 0.08
13 4 0.08
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.01
Consensus pattern (11 bp):
AGAAGGAAGAA
Found at i:68722 original size:3 final size:3
Alignment explanation
Indices: 68693--68765 Score: 51
Period size: 3 Copynumber: 22.3 Consensus size: 3
68683 ACGGGTTGTG
*
68693 AGA AGAA AGAA AGA AGGA AGAA AGA AGA AGA ATG- AGA AGA A-A AAA
1 AGA AG-A AG-A AGA A-GA AG-A AGA AGA AGA A-GA AGA AGA AGA AGA
68738 AGA AGGA AGAA AGA AGGA AGA AGA AGA A
1 AGA A-GA AG-A AGA A-GA AGA AGA AGA A
68766 TAAATTGTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 18
0.76 0.01 0.23
Matches are distributed among these distances:
2 3 0.05
3 34 0.57
4 23 0.38
ACGTcount: A:0.67, C:0.00, G:0.32, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:68734 original size:34 final size:35
Alignment explanation
Indices: 68691--68759 Score: 122
Period size: 34 Copynumber: 2.0 Consensus size: 35
68681 TAACGGGTTG
*
68691 TGAGAAGAAAGAAAGAAGGAAGAAAGAA-GAAGAA
1 TGAGAAGAAAAAAAGAAGGAAGAAAGAAGGAAGAA
68725 TGAGAAGAAAAAAAGAAGGAAGAAAGAAGGAAGAA
1 TGAGAAGAAAAAAAGAAGGAAGAAAGAAGGAAGAA
68760 GAAGAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 27 0.82
35 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (35 bp):
TGAGAAGAAAAAAAGAAGGAAGAAAGAAGGAAGAA
Found at i:69361 original size:20 final size:22
Alignment explanation
Indices: 69336--69375 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
69326 AGTCGTATAT
69336 AGCCG-TTGGGGA-TATTTTGA
1 AGCCGTTTGGGGATTATTTTGA
69356 AGCCGTTTGGGGATTATTTT
1 AGCCGTTTGGGGATTATTTT
69376 TCTGCAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 7 0.39
22 6 0.33
ACGTcount: A:0.17, C:0.10, G:0.33, T:0.40
Consensus pattern (22 bp):
AGCCGTTTGGGGATTATTTTGA
Found at i:69508 original size:20 final size:20
Alignment explanation
Indices: 69483--69557 Score: 70
Period size: 20 Copynumber: 4.0 Consensus size: 20
69473 CCGTTGCAGC
*
69483 CAGGGTGTATGGATACACTG
1 CAGGGTGTATCGATACACTG
69503 CAGGGTGTATCGATACACT-
1 CAGGGTGTATCGATACACTG
*
69522 -A--GTGTATCGGTACACT-
1 CAGGGTGTATCGATACACTG
* *
69538 CATAGGTGTATCGGTACACT
1 CA-GGGTGTATCGATACACT
69558 AATTTCATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
16 14 0.29
17 1 0.02
18 1 0.02
20 33 0.67
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
CAGGGTGTATCGATACACTG
Found at i:69528 original size:16 final size:16
Alignment explanation
Indices: 69507--69537 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
69497 ACACTGCAGG
69507 GTGTATCGATACACTA
1 GTGTATCGATACACTA
*
69523 GTGTATCGGTACACT
1 GTGTATCGATACACT
69538 CATAGGTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (16 bp):
GTGTATCGATACACTA
Found at i:69536 original size:36 final size:36
Alignment explanation
Indices: 69487--69558 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
69477 TGCAGCCAGG
*
69487 GTGTATGGATACACTGCA-GGGTGTATCGATACACTA
1 GTGTATGGATACACT-CATAGGTGTATCGATACACTA
*
69523 GTGTATCGG-TACACTCATAGGTGTATCGGTACACTA
1 GTGTAT-GGATACACTCATAGGTGTATCGATACACTA
69559 ATTTCATTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 2 0.06
36 28 0.88
37 2 0.06
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (36 bp):
GTGTATGGATACACTCATAGGTGTATCGATACACTA
Found at i:69611 original size:20 final size:20
Alignment explanation
Indices: 69586--69656 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 20
69576 AGCAGTCATA
69586 GGTGTATGGATACACTACAG
1 GGTGTATGGATACACTACAG
69606 GGTGTATCGG-TACAC--CA-
1 GGTGTAT-GGATACACTACAG
* *
69623 -ATGTATGGATACACTCATAG
1 GGTGTATGGATACACT-ACAG
*
69643 GG-GTATCGATACAC
1 GGTGTATGGATACAC
69657 ATTTACATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
15 2 0.05
16 10 0.25
18 2 0.05
19 1 0.03
20 23 0.57
21 2 0.05
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (20 bp):
GGTGTATGGATACACTACAG
Found at i:69628 original size:36 final size:36
Alignment explanation
Indices: 69588--69656 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
69578 CAGTCATAGG
*
69588 TGTATGGATACACT-ACAGGGTGTATCGGTACACCAA
1 TGTATGGATACACTCACAGGG-GTATCGATACACCAA
*
69624 TGTATGGATACACTCATAGGGGTATCGATACAC
1 TGTATGGATACACTCACAGGGGTATCGATACAC
69657 ATTTACATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
36 25 0.83
37 5 0.17
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (36 bp):
TGTATGGATACACTCACAGGGGTATCGATACACCAA
Found at i:69915 original size:18 final size:19
Alignment explanation
Indices: 69868--69919 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 19
69858 ATGTTTAATG
69868 AAAAAGATACCAATTGTTA
1 AAAAAGATACCAATTGTTA
*
69887 ACAAAAGGATATCAATTGTT-
1 A-AAAA-GATACCAATTGTTA
69907 AAAAAGATACCAA
1 AAAAAGATACCAA
69920 CTATTGGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
18 7 0.24
19 5 0.17
20 5 0.17
21 12 0.41
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.23
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTA
Found at i:72593 original size:33 final size:33
Alignment explanation
Indices: 72548--72617 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
72538 CTTTACAAAC
* * *
72548 TCCCTAGTTTTTCACGGGCTAAACTAGAACTTT
1 TCCCTAGCTTTTCACGGGATAAACTAGAACATT
* *
72581 TCCCTAGCTTTTCACGGGATCAGCTAGAACATT
1 TCCCTAGCTTTTCACGGGATAAACTAGAACATT
72614 TCCC
1 TCCC
72618 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (33 bp):
TCCCTAGCTTTTCACGGGATAAACTAGAACATT
Found at i:72924 original size:21 final size:21
Alignment explanation
Indices: 72899--72939 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
72889 CCATAACATG
* *
72899 GGGTATCGGTACCCCTTCATA
1 GGGTATCGATACACCTTCATA
*
72920 GGGTATTGATACACCTTCAT
1 GGGTATCGATACACCTTCAT
72940 TAAATTCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (21 bp):
GGGTATCGATACACCTTCATA
Found at i:72994 original size:20 final size:20
Alignment explanation
Indices: 72969--73042 Score: 68
Period size: 20 Copynumber: 3.9 Consensus size: 20
72959 CGTTGCAGCT
*
72969 AGGGTGTATGGATACACTGC
1 AGGGTGTATCGATACACTGC
72989 AGGGTGTATCGATACACT--
1 AGGGTGTATCGATACACTGC
*
73007 A--GTGTATCGGTACACT-C
1 AGGGTGTATCGATACACTGC
* *
73024 ATAGGTGTATCAATACACT
1 A-GGGTGTATCGATACACT
73043 AGTTGTATTC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
16 14 0.30
17 1 0.02
18 1 0.02
20 30 0.65
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (20 bp):
AGGGTGTATCGATACACTGC
Found at i:73013 original size:16 final size:16
Alignment explanation
Indices: 72992--73050 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 16
72982 ACACTGCAGG
72992 GTGTATCGATACACTA
1 GTGTATCGATACACTA
*
73008 GTGTATCGGTACACTCATA
1 GTGTATCGATACA--C-TA
*
73027 GGTGTATCAATACACTA
1 -GTGTATCGATACACTA
73044 GTTGTAT
1 G-TGTAT
73051 TCGGTGTTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
16 13 0.37
17 7 0.20
18 2 0.06
19 2 0.06
20 11 0.31
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (16 bp):
GTGTATCGATACACTA
Found at i:73120 original size:16 final size:18
Alignment explanation
Indices: 73070--73121 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 18
73060 GAACAGTCAT
73070 AGGTGTATGGATACACTAC
1 AGGTGTATGGATACAC-AC
73089 AGGATGTATCGG-TACAC-C
1 AGG-TGTAT-GGATACACAC
73107 A-GTGTATGGATACAC
1 AGGTGTATGGATACAC
73122 TCATAAGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 2 0.07
16 10 0.33
17 1 0.03
18 2 0.07
19 3 0.10
20 10 0.33
21 2 0.07
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (18 bp):
AGGTGTATGGATACACAC
Found at i:73134 original size:36 final size:35
Alignment explanation
Indices: 73072--73141 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 35
73062 ACAGTCATAG
* *
73072 GTGTATGGATACACTACAGGATGTATCGGTACACCA
1 GTGTATGGATACACTAAAGGA-GTATCGATACACCA
73108 GTGTATGGATACACTCATAAGG-GTATCGATACAC
1 GTGTATGGATACACT-A-AAGGAGTATCGATACAC
73142 ATTTACATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 26 0.87
37 1 0.03
38 3 0.10
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (35 bp):
GTGTATGGATACACTAAAGGAGTATCGATACACCA
Found at i:84919 original size:12 final size:12
Alignment explanation
Indices: 84902--84937 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
84892 AATGCCCCTC
84902 TGGTATCAATAT
1 TGGTATCAATAT
84914 TGGTATCAATAT
1 TGGTATCAATAT
*
84926 TCGTATCAATAT
1 TGGTATCAATAT
84938 CAAAATCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (12 bp):
TGGTATCAATAT
Found at i:84996 original size:12 final size:12
Alignment explanation
Indices: 84980--85020 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
84970 ATACATGTAC
*
84980 CAATACCGGTAT
1 CAATACCAGTAT
*
84992 TAATACCAGTAT
1 CAATACCAGTAT
*
85004 CAATACCAATAT
1 CAATACCAGTAT
85016 CAATA
1 CAATA
85021 TTGTCTAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (12 bp):
CAATACCAGTAT
Found at i:85020 original size:24 final size:23
Alignment explanation
Indices: 84928--85020 Score: 69
Period size: 24 Copynumber: 3.9 Consensus size: 23
84918 ATCAATATTC
* * *
84928 GTATCAATATCAAAATCAATATAA
1 GTATCAATACCAATATCAATA-CA
* * *
84952 GCATCAATACTAATACCAATACA
1 GTATCAATACCAATATCAATACA
* ** *
84975 TGTACCAATACCGGTATTAATACCA
1 -GTATCAATACCAATATCAATA-CA
85000 GTATCAATACCAATATCAATA
1 GTATCAATACCAATATCAATA
85021 TTGTCTAATA
Statistics
Matches: 50, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
23 1 0.02
24 47 0.94
25 2 0.04
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.27
Consensus pattern (23 bp):
GTATCAATACCAATATCAATACA
Found at i:88948 original size:142 final size:141
Alignment explanation
Indices: 88690--88976 Score: 529
Period size: 142 Copynumber: 2.0 Consensus size: 141
88680 TCTTTGTTGT
* *
88690 TGTTGCTTCCGCCGTTAGGTCTACTAGCAACCTTTGGAATTTAGGGCCATTAGTTAGAGGGAAAA
1 TGTTGCTTCCGCCGTTAGGTCTACTAGCAACCTTTGAAATTTAGGGCCATTAGTAAGAGGGAAAA
88755 GTTACTAGCAACAAATACATCATTTTCAAGCAACAGGTAGATCAATCTGCTTGTTCGGAGTTAAA
66 GTTACTAGCAACAAATACATCATTTTCAAGCAACAGGTAGATCAATCTGCTTGTTCGGAGTTAAA
88820 ATGCTTGGATA
131 ATGCTTGGATA
*
88831 TGTTGCTTCCGCCGTTAGGTCTACTAGTAACCTTTGAAATTTAGGGCCATTAGTAAGAGGGAAAA
1 TGTTGCTTCCGCCGTTAGGTCTACTAGCAACCTTTGAAATTTAGGGCCATTAGTAAGAGGG-AAA
*
88896 AGTTACTAGTAACAAATACATCATTTTCAAGCAACAGGTAGATCAATCTGCTTGTTCGGAGTTAA
65 AGTTACTAGCAACAAATACATCATTTTCAAGCAACAGGTAGATCAATCTGCTTGTTCGGAGTTAA
88961 AATGCTTGGATA
130 AATGCTTGGATA
88973 TGTT
1 TGTT
88977 TCCTATGGCC
Statistics
Matches: 141, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
141 58 0.41
142 83 0.59
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (141 bp):
TGTTGCTTCCGCCGTTAGGTCTACTAGCAACCTTTGAAATTTAGGGCCATTAGTAAGAGGGAAAA
GTTACTAGCAACAAATACATCATTTTCAAGCAACAGGTAGATCAATCTGCTTGTTCGGAGTTAAA
ATGCTTGGATA
Found at i:92622 original size:21 final size:22
Alignment explanation
Indices: 92586--92632 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
92576 AAATTTTAGT
92586 TTTTCTCTACCCAAGATTCGAG
1 TTTTCTCTACCCAAGATTCGAG
*
92608 TTTTCTCTA-CCAAGATTCGGG
1 TTTTCTCTACCCAAGATTCGAG
92629 TTTT
1 TTTT
92633 TGTTGTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (22 bp):
TTTTCTCTACCCAAGATTCGAG
Found at i:92633 original size:22 final size:23
Alignment explanation
Indices: 92583--92633 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
92573 ATAAAATTTT
92583 AGTTTTTCTCTACCCAAGATTCG
1 AGTTTTTCTCTACCCAAGATTCG
92606 AG-TTTTCTCTA-CCAAGATTCG
1 AGTTTTTCTCTACCCAAGATTCG
*
92627 GGTTTTT
1 AGTTTTT
92634 GTTGTTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
22 13 0.50
23 2 0.08
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.43
Consensus pattern (23 bp):
AGTTTTTCTCTACCCAAGATTCG
Found at i:96037 original size:29 final size:29
Alignment explanation
Indices: 95995--96081 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
95985 GTCCCGGGGG
*
95995 TAGGTCGCCATGCACGCCCGGCGACCTAC
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
**
96024 TAGGTCGCCATGCACGCCCAGCGACCTGG
1 TAGGTCGCCATGCACGCCCAGCGACCTAC
*
96053 TAGGTCGCCATGCATGCCCTA-CGACCTAC
1 TAGGTCGCCATGCACGCCC-AGCGACCTAC
96082 CAGCACGCCC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
29 50 0.98
30 1 0.02
ACGTcount: A:0.18, C:0.39, G:0.26, T:0.16
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCCAGCGACCTAC
Found at i:96132 original size:30 final size:31
Alignment explanation
Indices: 96068--96153 Score: 131
Period size: 30 Copynumber: 2.8 Consensus size: 31
96058 CGCCATGCAT
* *
96068 GCCCTACGACCTACCA-GCACGCCCAGATCAC
1 GCCCAACGACCT-CCATGCACGCCCAGAGCAC
96099 GCCCAACGACCTCCATGCACGCCCAG-GCAC
1 GCCCAACGACCTCCATGCACGCCCAGAGCAC
96129 GCCCAACGACCTCCATGCACGCCCA
1 GCCCAACGACCTCCATGCACGCCCA
96154 ACGACCTCCA
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
30 31 0.60
31 21 0.40
ACGTcount: A:0.24, C:0.50, G:0.17, T:0.08
Consensus pattern (31 bp):
GCCCAACGACCTCCATGCACGCCCAGAGCAC
Found at i:96150 original size:20 final size:20
Alignment explanation
Indices: 96125--96173 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
96115 GCACGCCCAG
96125 GCACGCCCAACGACCTCCAT
1 GCACGCCCAACGACCTCCAT
96145 GCACGCCCAACGACCTCCAT
1 GCACGCCCAACGACCTCCAT
96165 GCACGCCCA
1 GCACGCCCA
96174 GCTCGCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.51, G:0.16, T:0.08
Consensus pattern (20 bp):
GCACGCCCAACGACCTCCAT
Found at i:96846 original size:21 final size:21
Alignment explanation
Indices: 96821--96864 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
96811 AATTTAGTTA
96821 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
96842 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
96863 AT
1 AT
96865 ATTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:96878 original size:28 final size:28
Alignment explanation
Indices: 96841--96894 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
96831 TAGTATAAAT
*
96841 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAATTTGTTAGTTTAAGTTATATTA
96869 TATTAATTTGTTAGTTTAAGTTATAT
1 TATTAATTTGTTAGTTTAAGTTATAT
96895 ATTAGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAATTTGTTAGTTTAAGTTATATTA
Found at i:100039 original size:60 final size:59
Alignment explanation
Indices: 99967--100324 Score: 460
Period size: 60 Copynumber: 6.2 Consensus size: 59
99957 TTTATAAGAT
* *
99967 TTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAA--TGA
* *
100028 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATGGTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
*
100086 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
100146 TTTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAA-TATTTAATGATTTGATAGTAATGA
*
100206 TTTAGTAATGATTAGTAATAATGAAATTATTATT--TTTTTAATGATTTGATAGTAATGA
1 -TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
*
100264 TTAG---T-A--A-TAATAAT----TTATTATTAATATTTAATGATTTGATATTAATGA
1 TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
100312 TTTAGTAATGATT
1 -TTAGTAATGATT
100325 TGATAGTAAT
Statistics
Matches: 269, Mismatches: 13, Indels: 36
0.85 0.04 0.11
Matches are distributed among these distances:
46 8 0.03
48 22 0.08
49 4 0.01
50 7 0.03
51 1 0.00
52 1 0.00
53 2 0.01
54 1 0.00
57 7 0.03
58 21 0.08
59 3 0.01
60 185 0.69
61 7 0.03
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (59 bp):
TTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAGTAATGA
Found at i:100102 original size:10 final size:11
Alignment explanation
Indices: 100079--100164 Score: 50
Period size: 11 Copynumber: 7.5 Consensus size: 11
100069 TGATTTGATG
100079 GTAATGATTTA
1 GTAATGATTTA
100090 GTAATGATTAGTA
1 GTAATGATT--TA
* *
100103 ATAATGAAATTA
1 GTAATG-ATTTA
* * *
100115 TTATTAATTT-
1 GTAATGATTTA
*
100125 TTAATGATTTGATA
1 GTAATGA-TT--TA
100139 GTAATGATTTA
1 GTAATGATTTA
100150 GTAATGA-TTA
1 GTAATGATTTA
100160 GTAAT
1 GTAAT
100165 AATGAAATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
10 13 0.22
11 23 0.39
12 5 0.08
13 10 0.17
14 8 0.14
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (11 bp):
GTAATGATTTA
Found at i:100115 original size:120 final size:120
Alignment explanation
Indices: 99964--100324 Score: 513
Period size: 120 Copynumber: 3.1 Consensus size: 120
99954 GTATTTATAA
*
99964 GATTTAGTAATGATTAGTAATGATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGAT
*
100029 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATGGTAAT
66 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
* *
100084 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATTTTTAATGATTTGATAGTAA--TGAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGA-
100147 TTAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
65 -TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
100204 GATTTAGTAATGATTAGTAATAATG-AA--ATTA-T--TATTT--T--TTTAAT-G--ATTTGAT
1 GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGAT
* * *
100256 AGTAATGATTAGTAATAAT-AATTTATTATTAA-TATTTAATGATTTGATATTAAT
66 AGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAAT
100310 GATTTAGTAATGATT
1 GATTTAGTAATGATT
100325 TGATAGTAAT
Statistics
Matches: 227, Mismatches: 9, Indels: 24
0.87 0.03 0.09
Matches are distributed among these distances:
105 4 0.02
106 42 0.19
107 21 0.09
109 4 0.02
110 5 0.02
112 1 0.00
114 4 0.02
116 1 0.00
117 4 0.02
118 3 0.01
119 2 0.01
120 136 0.60
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (120 bp):
GATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTAATAGTAATTTGAT
AGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAAT
Found at i:100295 original size:21 final size:22
Alignment explanation
Indices: 100271--100340 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 22
100261 TGATTAGTAA
100271 TAATAATTT-ATTATTAAT-ATT
1 TAATAATTTGA-TATTAATGATT
*
100292 TAATGATTTGATATTAATGATTT
1 TAATAATTTGATATTAATGA-TT
* *
100315 AGTAATGATTTGATAGTAATGATT
1 --TAATAATTTGATATTAATGATT
100339 TA
1 TA
100341 CGACTTGAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
21 15 0.36
22 4 0.10
23 2 0.05
24 2 0.05
25 19 0.45
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TAATAATTTGATATTAATGATT
Found at i:100308 original size:14 final size:14
Alignment explanation
Indices: 100292--100339 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
100282 TATTAATATT
*
100292 TAATGATTTGATAT
1 TAATGATTTGATAG
100306 TAATGA-TT--TAG
1 TAATGATTTGATAG
100317 TAATGATTTGATAG
1 TAATGATTTGATAG
100331 TAATGATTT
1 TAATGATTT
100340 ACGACTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 8 0.27
12 2 0.07
13 2 0.07
14 18 0.60
ACGTcount: A:0.35, C:0.00, G:0.17, T:0.48
Consensus pattern (14 bp):
TAATGATTTGATAG
Found at i:100310 original size:48 final size:47
Alignment explanation
Indices: 100208--100320 Score: 165
Period size: 48 Copynumber: 2.4 Consensus size: 47
100198 AGTAATGATT
*
100208 TAGTAATGATTAGTAATAATGAAATTATTATTTTTTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTTATTTAATGATTTGA
*
100255 TAGTAATGATTAGTAATAAT-AATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATT--TATTTAATGATTTGA
*
100303 TATTAATGATTTAGTAAT
1 TAGTAATGA-TTAGTAAT
100321 GATTTGATAG
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
46 10 0.17
47 20 0.33
48 22 0.37
49 8 0.13
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.49
Consensus pattern (47 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTTATTTAATGATTTGA
Found at i:100355 original size:106 final size:107
Alignment explanation
Indices: 100148--100355 Score: 260
Period size: 106 Copynumber: 2.0 Consensus size: 107
100138 AGTAATGATT
100148 TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTA
** * ****
100213 ATGATTAGTAATAATGAAATTATTATTTTTTTAATGATTTGA
66 ATGATTAGTAATAATGAAATTACGACTTGAACAATGATTTGA
* * *
100255 TAGTAATGATTAGTAATAAT-AATTTATTATTAA-TATTTAATGATTTGATATTAATGATTTAGT
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGT-ATGATTTGATAGTAATGATTTAGT
* * *
100318 AATGATTTGATAGTAATG-ATTTACGACTTGAACAATGA
65 AATGATTAG-TAATAATGAAATTACGACTTGAACAATGA
100356 ACAATGTTTG
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
105 4 0.05
106 55 0.64
107 27 0.31
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.45
Consensus pattern (107 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATTATGTATGATTTGATAGTAATGATTTAGTA
ATGATTAGTAATAATGAAATTACGACTTGAACAATGATTTGA
Found at i:102926 original size:21 final size:21
Alignment explanation
Indices: 102902--102941 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
102892 TTTCTATATG
102902 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
102923 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
102942 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:103022 original size:18 final size:18
Alignment explanation
Indices: 102969--103023 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
102959 TTGTTTTACC
*
102969 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
102987 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
102999 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
103016 CTAATTTA
1 CTAATTTA
103024 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:103082 original size:35 final size:38
Alignment explanation
Indices: 103043--103115 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 38
103033 TCTTTTATAT
103043 AACTT-AA-ACTAATAAACT-A-TTTTTTATTATAATAA
1 AACTTAAACACTAATAAACTAATTTTTTTA-TATAATAA
103078 AACTTAAACTACTAATAAACTAATTTTTTTATATAATA
1 AACTTAAAC-ACTAATAAACTAATTTTTTTATATAATA
103116 TAAATTCAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
35 5 0.15
36 2 0.06
38 11 0.33
39 8 0.24
40 7 0.21
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (38 bp):
AACTTAAACACTAATAAACTAATTTTTTTATATAATAA
Found at i:103175 original size:27 final size:29
Alignment explanation
Indices: 103140--103204 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
103130 AAAATATAAC
*
103140 TTAACTATTTA-ACTAACT-ACAAACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
103167 TTAAATA-TTAGACTAACTAACACACTAA
1 TTAAATATTTAGACTAACTAACAAACTAA
*
103195 TTAATTATTT
1 TTAAATATTT
103205 TTTTAATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 14 0.44
29 2 0.06
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (29 bp):
TTAAATATTTAGACTAACTAACAAACTAA
Found at i:103318 original size:9 final size:9
Alignment explanation
Indices: 103286--103323 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
103276 CTAACAAACT
103286 AATAATTTAA
1 AATAA-TTAA
103296 AATAA-TAA
1 AATAATTAA
*
103304 ACTAATTAA
1 AATAATTAA
103313 AATAATTAA
1 AATAATTAA
103322 AA
1 AA
103324 AAAAAACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 7 0.28
9 13 0.52
10 5 0.20
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (9 bp):
AATAATTAA
Found at i:103750 original size:33 final size:33
Alignment explanation
Indices: 103708--103805 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
103698 AAGCATGGAG
*
103708 TGCATGGTGACCTTTGGCGAGCTGGACGTGCAT
1 TGCATGGTGACCTTTGGCGAGATGGACGTGCAT
*
103741 TGCATGGTGACCTTTGGCGAGATGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGATGGACGTGCAT
* * * *
103774 GGGCGTGCT--CCTTTGGCGAGATGGGCGTGCAT
1 -TGCATGGTGACCTTTGGCGAGATGGACGTGCAT
103806 GGGCGTGCAT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
32 23 0.39
33 31 0.53
34 5 0.08
ACGTcount: A:0.13, C:0.20, G:0.40, T:0.27
Consensus pattern (33 bp):
TGCATGGTGACCTTTGGCGAGATGGACGTGCAT
Found at i:103777 original size:10 final size:10
Alignment explanation
Indices: 103762--103819 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
103752 CTTTGGCGAG
103762 ATGGGCGTGC
1 ATGGGCGTGC
103772 ATGGGCGTGCTCC
1 ATGGGCGTG---C
* * *
103785 TTTGGCGAG-
1 ATGGGCGTGC
103794 ATGGGCGTGC
1 ATGGGCGTGC
103804 ATGGGCGTGC
1 ATGGGCGTGC
103814 ATGGGC
1 ATGGGC
103820 ATGGAGGTCG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 6 0.16
10 25 0.66
13 7 0.18
ACGTcount: A:0.10, C:0.21, G:0.47, T:0.22
Consensus pattern (10 bp):
ATGGGCGTGC
Found at i:103792 original size:32 final size:32
Alignment explanation
Indices: 103751--103813 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
103741 TGCATGGTGA
103751 CCTTTGGCGAGATGGGCGTGCATGGGCGTGCT
1 CCTTTGGCGAGATGGGCGTGCATGGGCGTGCT
103783 CCTTTGGCGAGATGGGCGTGCATGGGCGTGC
1 CCTTTGGCGAGATGGGCGTGCATGGGCGTGC
103814 ATGGGCATGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.10, C:0.22, G:0.44, T:0.24
Consensus pattern (32 bp):
CCTTTGGCGAGATGGGCGTGCATGGGCGTGCT
Found at i:111960 original size:13 final size:13
Alignment explanation
Indices: 111944--111992 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
111934 TTAAACATTA
111944 TTTTCCAAATAGT
1 TTTTCCAAATAGT
* * *
111957 TTTTCAAAACATT
1 TTTTCCAAATAGT
111970 ATTTTCCAAATAGT
1 -TTTTCCAAATAGT
111984 TTTT-CAAAT
1 TTTTCCAAAT
111993 CATTGCCCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
12 5 0.17
13 14 0.48
14 10 0.34
ACGTcount: A:0.35, C:0.14, G:0.04, T:0.47
Consensus pattern (13 bp):
TTTTCCAAATAGT
Found at i:111967 original size:27 final size:27
Alignment explanation
Indices: 111936--111996 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
111926 TATGATTTTT
111936 AAACATTATTTTCCAAATAGTTTTTCA
1 AAACATTATTTTCCAAATAGTTTTTCA
111963 AAACATTATTTTCCAAATAGTTTTTCA
1 AAACATTATTTTCCAAATAGTTTTTCA
*
111990 AATCATT
1 AAACATT
111997 GCCCTTTAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (27 bp):
AAACATTATTTTCCAAATAGTTTTTCA
Found at i:124393 original size:2 final size:2
Alignment explanation
Indices: 124388--124413 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
124378 TTTCTCTCTC
124388 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
124414 CAAATTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125482 original size:17 final size:17
Alignment explanation
Indices: 125460--125492 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
125450 CAAAATACTC
125460 AAACTAAAGTAAATAAT
1 AAACTAAAGTAAATAAT
125477 AAACTAAAGTAAATAA
1 AAACTAAAGTAAATAA
125493 CTACCAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (17 bp):
AAACTAAAGTAAATAAT
Found at i:128871 original size:15 final size:15
Alignment explanation
Indices: 128851--128879 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
128841 CCTTATCCGC
128851 CCCGCATCCGCCCGT
1 CCCGCATCCGCCCGT
128866 CCCGCATCCGCCCG
1 CCCGCATCCGCCCG
128880 CCTACTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.62, G:0.21, T:0.10
Consensus pattern (15 bp):
CCCGCATCCGCCCGT
Found at i:130496 original size:77 final size:77
Alignment explanation
Indices: 130409--130563 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 77
130399 ATTAATAATT
*
130409 TTCTTTTTTTGGTTGTAGCAGGGACATTTCTGTCAATTCAATTCCCCTATTTAATGTACTGTTAA
1 TTCTTTTTTTGGGTGTAGCAGGGACATTTCTGTCAATTCAATTCCCCTATTTAATGTACTGTTAA
130474 ATGTTGGATCCA
66 ATGTTGGATCCA
*
130486 TTCTTTTTTTGGGTGTAGCAGGGACATTTCTGTCAATTCATTTCCCCTATTTAATGTACTGTTAA
1 TTCTTTTTTTGGGTGTAGCAGGGACATTTCTGTCAATTCAATTCCCCTATTTAATGTACTGTTAA
130551 ATGTTGGATCCA
66 ATGTTGGATCCA
130563 T
1 T
130564 AAATTTTAGG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (77 bp):
TTCTTTTTTTGGGTGTAGCAGGGACATTTCTGTCAATTCAATTCCCCTATTTAATGTACTGTTAA
ATGTTGGATCCA
Found at i:138928 original size:22 final size:22
Alignment explanation
Indices: 138903--138944 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
138893 TTTTGAAAGT
138903 GTTCATGAACTGTTCGTTTAGC
1 GTTCATGAACTGTTCGTTTAGC
* *
138925 GTTCATGCATTGTTCGTTTA
1 GTTCATGAACTGTTCGTTTA
138945 CATATTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (22 bp):
GTTCATGAACTGTTCGTTTAGC
Found at i:139244 original size:38 final size:38
Alignment explanation
Indices: 139136--139244 Score: 148
Period size: 38 Copynumber: 2.9 Consensus size: 38
139126 AAACGAGTTT
* * *
139136 ATAAATGAGTTTGTTCATGAACATAAATGAACGAGGTG
1 ATAAAAGAGTTTGTTCATGAACATAAATGAACTAGGCG
139174 ATAAACA-AGTTTGTTCATGAACATAAATGAACTAGGCG
1 ATAAA-AGAGTTTGTTCATGAACATAAATGAACTAGGCG
** *
139212 ATAAAAGAGTTTGTTTGTGAACATAAAAGAACT
1 ATAAAAGAGTTTGTTCATGAACATAAATGAACT
139245 TAACACACCT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
37 1 0.02
38 62 0.98
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (38 bp):
ATAAAAGAGTTTGTTCATGAACATAAATGAACTAGGCG
Found at i:141125 original size:37 final size:36
Alignment explanation
Indices: 141050--141125 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
141040 TTTTTATATT
*
141050 TTTAATTTTATAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTATAAAAAAATTATATAAATATTATCAA
* *
141086 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTATAAA-AAAATTATATAAATATTAT-CAA
141123 TTT
1 TTT
141126 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (36 bp):
TTTAATTTTATAAAAAAATTATATAAATATTATCAA
Found at i:141307 original size:19 final size:18
Alignment explanation
Indices: 141265--141307 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
141255 CAGTAATCCT
**
141265 ATTCCCTGGTAATCTTTT
1 ATTCCCTGGTAATCTTAC
141283 ATTTCCACTGGTAATCTTAC
1 A-TTCC-CTGGTAATCTTAC
141303 ATTCC
1 ATTCC
141308 GTTAACTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 8 0.38
20 12 0.57
ACGTcount: A:0.21, C:0.26, G:0.09, T:0.44
Consensus pattern (18 bp):
ATTCCCTGGTAATCTTAC
Found at i:155410 original size:35 final size:35
Alignment explanation
Indices: 155360--155428 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
155350 ACTAAACCCG
* *
155360 TCCCCGTTTAACATAAACGGTTTTTCCCCATCCCT
1 TCCCCGTTTAACATAAACGATTTTTACCCATCCCT
* *
155395 TCCCCGTTTAGCATAAACGATTTTTATCCATCCC
1 TCCCCGTTTAACATAAACGATTTTTACCCATCCC
155429 CGTTTAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.22, C:0.35, G:0.09, T:0.35
Consensus pattern (35 bp):
TCCCCGTTTAACATAAACGATTTTTACCCATCCCT
Found at i:155580 original size:17 final size:19
Alignment explanation
Indices: 155554--155594 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
155544 TCTCTATTTT
155554 TTTTAAA-TTTTTA-TATA
1 TTTTAAATTTTTTATTATA
*
155571 TTTTAGATTTTTTATTATA
1 TTTTAAATTTTTTATTATA
155590 TTTTA
1 TTTTA
155595 TATTAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTAAATTTTTTATTATA
Found at i:161303 original size:35 final size:35
Alignment explanation
Indices: 161262--161332 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
161252 TTCATGTTCA
*
161262 AAATTCCAAAACACTTCAATTACATTCTAAACCCT
1 AAATTCCAAAACACTTCAATTACATTATAAACCCT
* * *
161297 AAATTCCAAAATACTTTAATTATATTATAAACCCT
1 AAATTCCAAAACACTTCAATTACATTATAAACCCT
161332 A
1 A
161333 CATTGAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTATAAACCCT
Found at i:161373 original size:35 final size:35
Alignment explanation
Indices: 161334--161408 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 35
161324 TAAACCCTAC
*
161334 ATTGAAGTATTTT-AAACTTTAGGGTTTAGAATATA
1 ATTGAAGTATTTTGAAA-TTTAGGGTTTAGAATAAA
* *
161369 ATTGAATTATTTTGAAATTTGGGGTTTAGAATAAA
1 ATTGAAGTATTTTGAAATTTAGGGTTTAGAATAAA
161404 ATTGA
1 ATTGA
161409 GGACTGTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 33 0.92
36 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.43
Consensus pattern (35 bp):
ATTGAAGTATTTTGAAATTTAGGGTTTAGAATAAA
Found at i:163228 original size:5 final size:5
Alignment explanation
Indices: 163218--163243 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
163208 TAGCAAGACA
163218 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
163244 TTATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:163254 original size:2 final size:2
Alignment explanation
Indices: 163245--163280 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
163235 TTTTATTTTT
163245 TA TA -A 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
163281 TATTTCCTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:163739 original size:15 final size:15
Alignment explanation
Indices: 163719--163749 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
163709 AGTAATGCTT
163719 TTAGCTCTCTGGCCC
1 TTAGCTCTCTGGCCC
163734 TTAGCTCTCTGGCCC
1 TTAGCTCTCTGGCCC
163749 T
1 T
163750 CCCTACCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.19, T:0.35
Consensus pattern (15 bp):
TTAGCTCTCTGGCCC
Found at i:164189 original size:3 final size:3
Alignment explanation
Indices: 164168--164213 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
164158 AACTCCACTT
* * *
164168 TTA TTA CTA TTA CTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
164214 AAATTGAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:169239 original size:92 final size:92
Alignment explanation
Indices: 169083--169268 Score: 329
Period size: 93 Copynumber: 2.0 Consensus size: 92
169073 AATTTGAGCA
* *
169083 TTATATGGATTGTTAAATTGTTTTTTCCCCTTAATTTTGTGTGTGTCATTCAT-GCCCTTTTTTT
1 TTATATGGATTGTTAAATTGTTTTTTCCCCTTAATTTTATGTGTGTCATTCATACCCCTTTTTTT
*
169147 TCATCGTTGATCGAGAGTAACATCAAT
66 TCATCGTTGATAGAGAGTAACATCAAT
169174 TTATATGGATTGTTAAATTGTTTTTTCCCCCTTAATTTTATGTGTGTCATTCATACCCCTTTTTT
1 TTATATGGATTGTTAAATTGTTTTTT-CCCCTTAATTTTATGTGTGTCATTCATACCCCTTTTTT
169239 TTCATCGTTGATAGAGAGTAACATCAAT
65 TTCATCGTTGATAGAGAGTAACATCAAT
169267 TT
1 TT
169269 TGATGTTGAT
Statistics
Matches: 90, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
91 26 0.29
92 26 0.29
93 38 0.42
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (92 bp):
TTATATGGATTGTTAAATTGTTTTTTCCCCTTAATTTTATGTGTGTCATTCATACCCCTTTTTTT
TCATCGTTGATAGAGAGTAACATCAAT
Found at i:172140 original size:22 final size:24
Alignment explanation
Indices: 172088--172140 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 24
172078 ACTTTTATAG
172088 TTAAAAATTATAATTATTTTCTAT
1 TTAAAAATTATAATTATTTTCTAT
172112 TTAAAAAATT-T-A-TATTTATCTAT
1 TT-AAAAATTATAATTATTT-TCTAT
172135 TTAAAA
1 TTAAAA
172141 TAAATTGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 9 0.33
23 8 0.30
24 3 0.11
25 7 0.26
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TTAAAAATTATAATTATTTTCTAT
Found at i:177816 original size:22 final size:19
Alignment explanation
Indices: 177791--177841 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
177781 TATATTAGTT
177791 CTTCGGGACGTATGCAGTGGTC
1 CTTCGGGACG-AT--AGTGGTC
*
177813 CTTCGAGAC-ATAGTGGTC
1 CTTCGGGACGATAGTGGTC
*
177831 ATTCGGGACGA
1 CTTCGGGACGA
177842 ATACTGAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 14 0.56
19 1 0.04
20 2 0.08
22 8 0.32
ACGTcount: A:0.20, C:0.22, G:0.33, T:0.25
Consensus pattern (19 bp):
CTTCGGGACGATAGTGGTC
Found at i:182945 original size:18 final size:18
Alignment explanation
Indices: 182922--182974 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
182912 GGACGTATCC
*
182922 AGTGGTCATTCGGGACAT
1 AGTGGTCCTTCGGGACAT
182940 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
182958 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
182975 AATACTGAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:191699 original size:64 final size:66
Alignment explanation
Indices: 191548--191707 Score: 218
Period size: 65 Copynumber: 2.5 Consensus size: 66
191538 GAATAAATTG
* * * * *
191548 AACATCGAATGCATTTCATGTATCAATGCA-CATACCATGCATCGATGCACTTAGGGTTTTATGA
1 AACATCGAATGCATTTCATGCATCGATGCACCATACCATGCATCGATGCACTCAGGCTTTTATCA
191612 A
66 A
* * *
191613 AACAACGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCAGGCTTTT-TCA
1 AACATCGAATGCATTTCATGCATCGATGCACCATACCATGCATCGATGCACTCAGGCTTTTATCA
191676 A
66 A
*
191677 AACATCGAATGCATTTTATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
191708 ACTTAGTGCA
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 32 0.38
65 50 0.60
66 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.28
Consensus pattern (66 bp):
AACATCGAATGCATTTCATGCATCGATGCACCATACCATGCATCGATGCACTCAGGCTTTTATCA
A
Found at i:199628 original size:12 final size:12
Alignment explanation
Indices: 199599--199636 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
199589 GGGAGTAATT
199599 TTTCAAAAA-AA
1 TTTCAAAAATAA
* *
199610 ATTCAAAATTAA
1 TTTCAAAAATAA
199622 TTTCAAAAATAA
1 TTTCAAAAATAA
199634 TTT
1 TTT
199637 TCTTAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (12 bp):
TTTCAAAAATAA
Found at i:200092 original size:37 final size:37
Alignment explanation
Indices: 200006--200084 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
199996 AATGCATTTG
* * *
200006 ATGCATCGATGTACTCAGGGTTTTATGAAAACATCGA
1 ATGCATCGATGCACTCAGGCTTTTATCAAAACATCGA
200043 ATGCATCGATGCACTCAGGCTTTT-TCAAAACATCGA
1 ATGCATCGATGCACTCAGGCTTTTATCAAAACATCGA
200079 ATGCAT
1 ATGCAT
200085 TTTATGCATC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
36 17 0.44
37 22 0.56
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (37 bp):
ATGCATCGATGCACTCAGGCTTTTATCAAAACATCGA
Found at i:207264 original size:29 final size:29
Alignment explanation
Indices: 207187--207266 Score: 70
Period size: 29 Copynumber: 2.7 Consensus size: 29
207177 CATTATTTTT
** *
207187 TAATATTTTCGGTCAATTTTTTAACGTTTAG
1 TAATATTTTCGGTC-A-TTTTTAACGCCTAA
* * * * *
207218 TAATGTTTTTGATTATTTTTAGCGCCTAA
1 TAATATTTTCGGTCATTTTTAACGCCTAA
207247 TAATATTTTCGGTCATTTTT
1 TAATATTTTCGGTCATTTTT
207267 TCGAAAATCT
Statistics
Matches: 37, Mismatches: 12, Indels: 2
0.73 0.24 0.04
Matches are distributed among these distances:
29 26 0.70
30 1 0.03
31 10 0.27
ACGTcount: A:0.24, C:0.10, G:0.12, T:0.54
Consensus pattern (29 bp):
TAATATTTTCGGTCATTTTTAACGCCTAA
Found at i:207936 original size:20 final size:21
Alignment explanation
Indices: 207913--207956 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
207903 ATTCGCAATT
*
207913 CGAA-TAAGTAAATCGCAACG
1 CGAATTAAGAAAATCGCAACG
* *
207933 CGAATTAGGAAAATCGCAATG
1 CGAATTAAGAAAATCGCAACG
207954 CGA
1 CGA
207957 TACTGACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
CGAATTAAGAAAATCGCAACG
Found at i:207970 original size:20 final size:20
Alignment explanation
Indices: 207945--208099 Score: 134
Period size: 20 Copynumber: 7.7 Consensus size: 20
207935 AATTAGGAAA
207945 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
207965 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
207985 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
208006 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
208026 TTCGCAAAGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
208046 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
208066 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
208086 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
208100 TTTCAAAGCG
Statistics
Matches: 114, Mismatches: 16, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
19 4 0.04
20 84 0.74
21 24 0.21
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:207991 original size:61 final size:61
Alignment explanation
Indices: 207924--208058 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 61
207914 GAATAAGTAA
* * * * * *
207924 ATCGCAACGCGA-ATTAGGAAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACT
1 ATCGCAACGCGATAATA-CAAAATCGCAACGAGATACTGACTATCGCAAAGCGATACTGACT
* * *
207985 ATCGCAATGCGATAATACAAAATCGCAACGAGATACTGACTTTCGCAAAGCGATTCTGACT
1 ATCGCAACGCGATAATACAAAATCGCAACGAGATACTGACTATCGCAAAGCGATACTGACT
*
208046 TTCGCAACGCGAT
1 ATCGCAACGCGAT
208059 TCTGACTTTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 59 0.95
62 3 0.05
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (61 bp):
ATCGCAACGCGATAATACAAAATCGCAACGAGATACTGACTATCGCAAAGCGATACTGACT
Found at i:208010 original size:41 final size:40
Alignment explanation
Indices: 207965--208099 Score: 128
Period size: 41 Copynumber: 3.3 Consensus size: 40
207955 GATACTGACT
* * * *
207965 ATCGCAATGCGATACTTACTATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATACTGACTTTCGCAAAGCGATAATAC-AA
* ** *
208006 ATCGCAACGAGATACTGACTTTCGCAAAGCGATTCTGAC-T
1 ATCGCAACGCGATACTGACTTTCGCAAAGCGATAAT-ACAA
* * *
208046 TTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACATA
1 ATCGCAACGCGATACTGACTTTCGCAAAGCGATAATACA-A
*
208087 ATCGCAATGCGAT
1 ATCGCAACGCGAT
208100 TTTCAAAGCG
Statistics
Matches: 74, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
39 2 0.03
40 30 0.41
41 40 0.54
42 2 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (40 bp):
ATCGCAACGCGATACTGACTTTCGCAAAGCGATAATACAA
Found at i:208295 original size:22 final size:22
Alignment explanation
Indices: 208267--208310 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
208257 CACTCTCTCA
208267 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
208289 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
208311 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:208597 original size:20 final size:20
Alignment explanation
Indices: 208572--208640 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
208562 GCGATTCTCT
208572 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
208592 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
208612 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
208632 TGTTGCGAT
1 CGTTGCGAT
208641 TTTCATTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:208646 original size:20 final size:20
Alignment explanation
Indices: 208572--208650 Score: 95
Period size: 20 Copynumber: 4.0 Consensus size: 20
208562 GCGATTCTCT
**
208572 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
**
208592 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
208612 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
208632 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
208651 ATAAACTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:208841 original size:25 final size:24
Alignment explanation
Indices: 208787--208841 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
208777 TGTTTATTAT
* *
208787 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
208811 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
208837 TGTTT
1 TGTTT
208842 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:209989 original size:18 final size:18
Alignment explanation
Indices: 209968--210012 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
209958 TCCACTTCGG
*
209968 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
209986 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
210004 GAGCCATCA
1 GAGCCATCA
210013 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:210519 original size:20 final size:20
Alignment explanation
Indices: 210494--210539 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
210484 TAGTTTACTT
*
210494 TCGCAACATGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
210514 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
210534 TCGCAA
1 TCGCAA
210540 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:210548 original size:19 final size:20
Alignment explanation
Indices: 210505--210560 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
210495 CGCAACATGA
210505 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* *
210525 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAACGCGG
**
210544 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
210561 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:210568 original size:14 final size:14
Alignment explanation
Indices: 210549--210605 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
210539 ATGCGAAATG
210549 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
210563 AAAATCGCAATACGAAATG
1 AAAATCGC-A-ACG--A-C
210582 AAAATCGCAACGAC
1 AAAATCGCAACGAC
210596 AAAATCGCAA
1 AAAATCGCAA
210606 TGCGAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
15 2 0.06
16 3 0.08
17 3 0.08
18 2 0.06
19 8 0.22
ACGTcount: A:0.53, C:0.23, G:0.14, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:210579 original size:33 final size:33
Alignment explanation
Indices: 210533--210624 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
210523 GGAAATGGCT
210533 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
210566 ATCGCAATACGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
210599 ATCGCAATGCGAAATGAAAGTCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
210625 TACGATTTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:210587 original size:19 final size:19
Alignment explanation
Indices: 210533--210629 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 19
210523 GGAAATGGCT
*
210533 ATCGCAATGCGAAATGAAA
1 ATCGCAATACGAAATGAAA
*
210552 ATCGC-A-ACG--A-CAAA
1 ATCGCAATACGAAATGAAA
210566 ATCGCAATACGAAATGAAA
1 ATCGCAATACGAAATGAAA
*
210585 ATCGC-A-ACG--A-CAAA
1 ATCGCAATACGAAATGAAA
*
210599 ATCGCAATGCGAAATGAAA
1 ATCGCAATACGAAATGAAA
*
210618 GTCGCAATACGA
1 ATCGCAATACGA
210630 TTTGTGTTTC
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
14 16 0.27
15 4 0.07
16 5 0.08
17 5 0.08
18 4 0.07
19 26 0.43
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (19 bp):
ATCGCAATACGAAATGAAA
Found at i:210660 original size:14 final size:14
Alignment explanation
Indices: 210641--210731 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
210631 TTGTGTTTCG
210641 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
210655 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
210671 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
210687 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
210704 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
210720 CGTTGCGATTTT
1 CGTTGCGATTTT
210732 CATTTCGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 27 0.42
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.09
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:210705 original size:33 final size:33
Alignment explanation
Indices: 210636--210747 Score: 208
Period size: 33 Copynumber: 3.4 Consensus size: 33
210626 ACGATTTGTG
*
210636 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
210668 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
210701 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
210734 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
210748 AGCCATTTCC
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 26 0.33
33 52 0.67
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:210766 original size:20 final size:19
Alignment explanation
Indices: 210732--210787 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
210722 TTGCGATTTT
*
210732 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
210751 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
210771 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
210788 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:211208 original size:42 final size:40
Alignment explanation
Indices: 211149--211239 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 40
211139 GCCCGACTCA
*
211149 CCTATCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCCC-CC-ACCGTTCAAGAGGCC
*
211191 CCTATCCTCCCTCAAGAGTCCCCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCCCCCACCGTTCAAGAGGCC
* *
211231 ACTGTCATC
1 CCTATCATC
211240 GTTGAAGAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 20 0.45
41 2 0.05
42 22 0.50
ACGTcount: A:0.22, C:0.43, G:0.14, T:0.21
Consensus pattern (40 bp):
CCTATCATCCCTCAAGAGTCCCCCCACCGTTCAAGAGGCC
Found at i:212683 original size:14 final size:14
Alignment explanation
Indices: 212649--212687 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
212639 TTGATTGTTT
212649 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
212663 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
212677 TGTTGATTTGT
1 AATTGATTTGT
212688 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:212848 original size:19 final size:19
Alignment explanation
Indices: 212824--212891 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
212814 ATCGCAACGA
212824 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
212843 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
212862 GAAAATTGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
212876 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
212892 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
19 29 0.66
ACGTcount: A:0.47, C:0.16, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:212935 original size:20 final size:20
Alignment explanation
Indices: 212918--213005 Score: 115
Period size: 20 Copynumber: 4.4 Consensus size: 20
212908 CAATTTTCTA
212918 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*** *
212938 GTTGCGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
212958 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
212978 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
212998 GTTGCGAT
1 GTTGCGAT
213006 TTCCCCGTTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.05
20 50 0.89
21 3 0.05
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.39
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:212948 original size:34 final size:36
Alignment explanation
Indices: 212898--212985 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 36
212888 GCGATTTTCA
* * *
212898 TTTCGCATTGCAATTTTC-T-AGTTGCGATAGCCAT
1 TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
212932 TTTCGCGTTGCGATTTTTCATTTCGAATTGCGATAGCCAT
1 TTTCGCGTTGCGA-TTTTC--TTC-AATTGCGATAGCCAT
212972 TTTCGCGTTGCGAT
1 TTTCGCGTTGCGAT
212986 AGCCATTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
34 11 0.24
35 5 0.11
38 1 0.02
39 1 0.02
40 27 0.60
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.42
Consensus pattern (36 bp):
TTTCGCGTTGCGATTTTCTTCAATTGCGATAGCCAT
Done.