Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_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: 3152351
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 17
Found at i:2521 original size:13 final size:13
Alignment explanation
Indices: 2503--2531 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2493 AAGATTCCTT
2503 TTGAACCTTCAAA
1 TTGAACCTTCAAA
2516 TTGAACCTTCAAA
1 TTGAACCTTCAAA
2529 TTG
1 TTG
2532 CTATTTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (13 bp):
TTGAACCTTCAAA
Found at i:4007 original size:17 final size:17
Alignment explanation
Indices: 3985--4018 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3975 TCTTTACCTT
3985 TTTTTTTACTTAACTTA
1 TTTTTTTACTTAACTTA
4002 TTTTTTTACTTAACTTA
1 TTTTTTTACTTAACTTA
4019 AACTTAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTTACTTAACTTA
Found at i:4158 original size:21 final size:21
Alignment explanation
Indices: 4116--4156 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
4106 TTTGTTTTAT
4116 TCATGAAAACTATCTATAAAA
1 TCATGAAAACTATCTATAAAA
4137 TCATG-AAACTATCTATAAAA
1 TCATGAAAACTATCTATAAAA
4157 ATAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (21 bp):
TCATGAAAACTATCTATAAAA
Found at i:6269 original size:12 final size:12
Alignment explanation
Indices: 6252--6308 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 12
6242 ATTATTAATA
6252 TATAAATATTAT
1 TATAAATATTAT
*
6264 TATAAATAGTATTAA
1 TAT-AA-A-TATTAT
6279 TATAAATATTAT
1 TATAAATATTAT
6291 TAATATAATATTACT
1 T-ATA-AATATTA-T
6306 TAT
1 TAT
6309 TCAACAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
12 9 0.24
13 6 0.16
14 12 0.32
15 10 0.27
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (12 bp):
TATAAATATTAT
Found at i:6270 original size:29 final size:28
Alignment explanation
Indices: 6237--6303 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 28
6227 TTCTTAGAAT
6237 TAAATATTATTAATATATAAATATTATT-A
1 TAAATATTATT-A-ATATAAATATTATTAA
*
6266 TAAATAGTATTAATATAAATATTATTAA
1 TAAATATTATTAATATAAATATTATTAA
6294 TATAATATTA
1 TA-AATATTA
6304 CTTATTCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 14 0.41
28 4 0.12
29 16 0.47
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
TAAATATTATTAATATAAATATTATTAA
Found at i:6281 original size:27 final size:29
Alignment explanation
Indices: 6237--6292 Score: 89
Period size: 27 Copynumber: 2.0 Consensus size: 29
6227 TTCTTAGAAT
*
6237 TAAATATTATTAATATATAAATATTATTA
1 TAAATAGTATTAATATATAAATATTATTA
6266 TAAATAGTATT-A-ATATAAATATTATTA
1 TAAATAGTATTAATATATAAATATTATTA
6293 ATATAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 15 0.58
28 1 0.04
29 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
TAAATAGTATTAATATATAAATATTATTA
Found at i:6282 original size:15 final size:15
Alignment explanation
Indices: 6237--6303 Score: 86
Period size: 15 Copynumber: 4.6 Consensus size: 15
6227 TTCTTAGAAT
6237 TAAATATTATTAATA
1 TAAATATTATTAATA
*
6252 TATAA-A-TATTATTA
1 TA-AATATTATTAATA
*
6266 TAAATAGTATTAATA
1 TAAATATTATTAATA
6281 TAAATATTATTAATA
1 TAAATATTATTAATA
6296 T-AATATTA
1 TAAATATTA
6304 CTTATTCAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
13 2 0.04
14 17 0.37
15 25 0.54
16 2 0.04
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (15 bp):
TAAATATTATTAATA
Found at i:7603 original size:17 final size:17
Alignment explanation
Indices: 7581--7615 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7571 TTTCGAAATA
7581 ATTACGAATATAGTAAT
1 ATTACGAATATAGTAAT
7598 ATTACGAATATAGTAAT
1 ATTACGAATATAGTAAT
7615 A
1 A
7616 GATTTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.34
Consensus pattern (17 bp):
ATTACGAATATAGTAAT
Found at i:7866 original size:28 final size:28
Alignment explanation
Indices: 7783--7866 Score: 141
Period size: 28 Copynumber: 3.0 Consensus size: 28
7773 ATCTTTACTT
*
7783 TAATAGAATAGGAGGTTTACTTACTCAA
1 TAATAGAATAGGAGGTTTACTTACTCAG
*
7811 TAATAGAATAAGAGGTTTACTTACTCAG
1 TAATAGAATAGGAGGTTTACTTACTCAG
*
7839 TAATAGACTAGGAGGTTTACTTACTCAG
1 TAATAGAATAGGAGGTTTACTTACTCAG
7867 ATTTTCTTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (28 bp):
TAATAGAATAGGAGGTTTACTTACTCAG
Found at i:11593 original size:2 final size:2
Alignment explanation
Indices: 11586--11616 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11576 TTAATAAGTA
11586 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
11617 AATAAAACTC
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:19646 original size:131 final size:131
Alignment explanation
Indices: 19415--19771 Score: 475
Period size: 131 Copynumber: 2.7 Consensus size: 131
19405 AGAGAAAACA
* * * *
19415 ATAATATCTAATTATTTCCAATTGAGAATAAATGACCTTTCATGCGTTAAAACAATCATTTATTA
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAATCATTTATTA
* * * **
19480 C-CTCAATTGAAATGAAGAGATATCACTATTTCGTCTTAAAATTCAATATTGATTCAAG-TGAAA
66 CTC-CAACTGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATTGACACAAGAT-AAA
19543 ATG
129 ATG
* * *
19546 ATAATATCTAATGATTTCCAATCGAGAATAAATAACCTCTCATGCCTTAAAGCAATAATTTATTA
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAATCATTTATTA
* *
19611 CTCCAACTAAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATTGACACGAGATAAAAT
66 CTCCAACTGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATTGACACAAGATAAAAT
19676 G
131 G
* * * * *
19677 GTAATATCTGATTATTTCCAATCGAGAATAAATGACATCTCATGCCTTAAAGAAATCATTTACTA
1 ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAATCATTTATTA
* * * *
19742 CTCCGACTGAAACGAGGAGATATTACTATT
66 CTCCAACTGAAATGAAGAGATATCACTATT
19772 TTCAATATTG
Statistics
Matches: 197, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
131 195 0.99
132 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (131 bp):
ATAATATCTAATTATTTCCAATCGAGAATAAATGACCTCTCATGCCTTAAAGCAATCATTTATTA
CTCCAACTGAAATGAAGAGATATCACTATTCCGTCTTAAAAATCAATATTGACACAAGATAAAAT
G
Found at i:21882 original size:3 final size:3
Alignment explanation
Indices: 21874--21910 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
21864 AATGTAACAA
21874 AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21911 AGTCAGGACG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21896 original size:17 final size:17
Alignment explanation
Indices: 21874--21906 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21864 AATGTAACAA
21874 AATAATAATAATAATAT
1 AATAATAATAATAATAT
21891 AATAATAATAATAATA
1 AATAATAATAATAATA
21907 ATAAAGTCAG
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:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATAATAATAATAT
Found at i:22554 original size:21 final size:21
Alignment explanation
Indices: 22524--22577 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
22514 TATAGTATCA
22524 ATACTTCATTTGATCAATACTG
1 ATAC-TCATTTGATCAATACTG
* *
22546 ATACTCATTTGATTAGTACTG
1 ATACTCATTTGATCAATACTG
22567 ATACTCTATTT
1 ATACTC-ATTT
22578 CCCCAATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 21 0.72
22 8 0.28
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (21 bp):
ATACTCATTTGATCAATACTG
Found at i:29755 original size:3 final size:3
Alignment explanation
Indices: 29749--29836 Score: 160
Period size: 3 Copynumber: 29.7 Consensus size: 3
29739 TTTTTATCCA
*
29749 TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
29797 TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
29837 AATATATATT
Statistics
Matches: 82, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
2 2 0.02
3 80 0.98
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:31193 original size:18 final size:19
Alignment explanation
Indices: 31153--31193 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
31143 TTAATTTTAT
*
31153 TTTTCGTTTATTTTATATG
1 TTTTCATTTATTTTATATG
31172 TTTTCATTTATTTTAT-TG
1 TTTTCATTTATTTTATATG
31190 TTTT
1 TTTT
31194 GAAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.15, C:0.05, G:0.07, T:0.73
Consensus pattern (19 bp):
TTTTCATTTATTTTATATG
Found at i:31259 original size:24 final size:25
Alignment explanation
Indices: 31232--31296 Score: 62
Period size: 24 Copynumber: 2.6 Consensus size: 25
31222 TTTTATTATA
31232 TTATTAATATTTTATTAAATA-TTT
1 TTATTAATATTTTATTAAATAGTTT
* * *
31256 TTATAAATA-TATAATAAATAGTTT
1 TTATTAATATTTTATTAAATAGTTT
* *
31280 TTTTTAAAATATTTATT
1 TTATTAATAT-TTTATT
31297 TTTAATATTG
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
23 9 0.30
24 17 0.57
26 4 0.13
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (25 bp):
TTATTAATATTTTATTAAATAGTTT
Found at i:42583 original size:10 final size:10
Alignment explanation
Indices: 42568--42601 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
42558 GAAGAGAATT
42568 AAAAAAAATA
1 AAAAAAAATA
42578 AAAAAAAATA
1 AAAAAAAATA
42588 AAAAAAAATA
1 AAAAAAAATA
42598 AAAA
1 AAAA
42602 GAAAGGGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:43859 original size:83 final size:83
Alignment explanation
Indices: 43719--44228 Score: 847
Period size: 83 Copynumber: 6.2 Consensus size: 83
43709 ATATCTTAGT
43719 CCAATCATTGAATTTGGAAGATG-ATTTGCTCAATAGCATCTTCTAGGAAGTGTTCTTTGAGTTA
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCT-GGAAGTGTTCTTTGAGTTA
* *
43783 TCTGATCTGGTTGGCATAGA
65 TCTGATCTGTTTGGCAGA-A
43803 -CAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
43867 CTGATCTGATTGGCAGAA
66 CTGATCTGTTTGGCAGAA
43885 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
43950 CTGATCTGATTTGGCAGAA
66 CTGATCTG-TTTGGCAGAA
43969 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
*
44034 CTGATCTATTTGGCAGAA
66 CTGATCTGTTTGGCAGAA
44052 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
44117 CTGATCTGATTTGGCAGAA
66 CTGATCTG-TTTGGCAGAA
44136 CCAATCATTGAATTTGGAAGATG-A-----TCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
* *
44195 CTAATCTGGTTGGACAGAA
66 CTGATCTGTTTGG-CAGAA
*
44214 CCAATCGTTGGAATT
1 CCAATCATT-GAATT
44229 AAAAGATGAA
Statistics
Matches: 412, Mismatches: 8, Indels: 17
0.94 0.02 0.04
Matches are distributed among these distances:
77 4 0.01
78 55 0.13
79 5 0.01
82 1 0.00
83 212 0.51
84 135 0.33
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGTTTGGCAGAA
Found at i:44000 original size:167 final size:167
Alignment explanation
Indices: 43719--44228 Score: 860
Period size: 167 Copynumber: 3.1 Consensus size: 167
43709 ATATCTTAGT
43719 CCAATCATTGAATTTGGAAGATG-ATTTGCTCAATAGCATCTTCTAGGAAGTGTTCTTTGAGTTA
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCT-GGAAGTGTTCTTTGAGTTA
* *
43783 TCTGATCTG-GTTGGCATAGA-CAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTC
65 TCTGATCTGATTTGGCAGA-ACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTC
43846 TGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGCAGAA
129 TGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGCAGAA
43885 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
43950 CTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTG
66 CTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTG
44015 GAAGTGTTCTTTGAGTTATCTGATCT-ATTTGGCAGAA
131 GAAGTGTTCTTTGAGTTATCTGATCTGA-TTGGCAGAA
44052 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
1 CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
44117 CTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATG-A-----TCAATAGCATCTTCTG
66 CTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTG
* *
44176 GAAGTGTTCTTTGAGTTATCTAATCTGGTTGGACAGAA
131 GAAGTGTTCTTTGAGTTATCTGATCTGATTGG-CAGAA
*
44214 CCAATCGTTGGAATT
1 CCAATCATT-GAATT
44229 AAAAGATGAA
Statistics
Matches: 332, Mismatches: 5, Indels: 17
0.94 0.01 0.05
Matches are distributed among these distances:
161 45 0.14
162 13 0.04
163 5 0.02
166 54 0.16
167 215 0.65
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (167 bp):
CCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT
CTGATCTGATTTGGCAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTG
GAAGTGTTCTTTGAGTTATCTGATCTGATTGGCAGAA
Found at i:44998 original size:16 final size:16
Alignment explanation
Indices: 44950--45002 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
44940 TCATTGCCAG
44950 AGAAGTTCATAATGAGA
1 AGAAGTTCAT-ATGAGA
* * *
44967 AGAA-CTCAAGAAGAGA
1 AGAAGTTC-ATATGAGA
44983 AGAAGTTCATATGAGA
1 AGAAGTTCATATGAGA
44999 AGAA
1 AGAA
45003 CTTGTTCAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
16 21 0.75
17 7 0.25
ACGTcount: A:0.51, C:0.08, G:0.25, T:0.17
Consensus pattern (16 bp):
AGAAGTTCATATGAGA
Found at i:45226 original size:111 final size:112
Alignment explanation
Indices: 44928--45573 Score: 999
Period size: 111 Copynumber: 5.9 Consensus size: 112
44918 TTTCAAATCC
*
44928 TTGATGGATCATTCATTGCCAGAG-AAGTTCATAATGAGAAGAA--C-TC--AAGAA-G-AGAAG
1 TTGATGGATCA-ACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
44985 AAGTTCAT-ATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
65 AAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGTTTAAATTCATCAT
45033 TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
45098 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGTTTAAATTCATCAT
45146 TTGA-GGATCAACATTGCCAGAGAAAGTTCATAATGAG-AGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
45209 AGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCAT
*
45256 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAA-AAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
45320 AGTTCATAATGAGAAGAACTTGTTCAACCTTTTGTTTAAATTCATCAT
66 AGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGTTTAAATTCATCAT
*
45368 TTGATGGATCAACATTTCCAGAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAA-G--GAAG
1 TTGATGGATCAACATTGCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGGAAGAAG
* *
45430 AAGTTCATAATGAGAAGAATTTGTTCAACTTTTGTTTGAATTCATCA-
65 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCAT
* * ** *
45477 CT--TGGAT-TATTTTGCCAGAGAAGGTTCATAATGAGAAGAACT-ATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
* *
45538 AGTTCATAATGAGAAGAGCTTGTTCAACCTTTGTTT
66 AGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTT
45574 GATACTATCA
Statistics
Matches: 509, Mismatches: 15, Indels: 32
0.92 0.03 0.06
Matches are distributed among these distances:
104 21 0.04
105 44 0.09
106 17 0.03
107 44 0.09
108 2 0.00
109 1 0.00
110 46 0.09
111 156 0.31
112 110 0.22
113 66 0.13
114 2 0.00
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (112 bp):
TTGATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
AGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCAT
Found at i:45614 original size:170 final size:172
Alignment explanation
Indices: 45426--45746 Score: 497
Period size: 170 Copynumber: 1.9 Consensus size: 172
45416 TCTGAAGAAG
* * * **
45426 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTGTTTGAATTCATCA-CT-TGGAT-TATT
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCATCTATGGATCAACA
*
45488 TTGCCAGAGAAGGTTCATAATGAGAAGAACTATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
66 TTGCCAGAGAAAGTTCATAATGAGAAGAAC--TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
*
45553 GAGCTTGTTCAAC-CTTTGTTTGATACTATCACAGAAGAAGGAA
129 GAACTTGTTCAACTCTTTGTTTGATACTATCACAGAAGAAGGAA
*
45596 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCATTTGATGGATCAAC
1 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCATCT-ATGGATCAAC
*
45661 ATTGCCAGAGAAAGTTCATAATGAGAAGAACTCTGACGAAGGAAGAAGAAGTTCATAATGAGAAG
65 ATTGCCAGAGAAAGTTCATAATGAGAAGAACTCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAG
*
45726 AACTTGTTCAACTTTTTGTTT
130 AACTTGTTCAACTCTTTGTTT
45747 AAATTCATCA
Statistics
Matches: 136, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
170 49 0.36
171 1 0.01
172 44 0.32
173 12 0.09
174 30 0.22
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (172 bp):
GAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCATCTATGGATCAACA
TTGCCAGAGAAAGTTCATAATGAGAAGAACTCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGA
ACTTGTTCAACTCTTTGTTTGATACTATCACAGAAGAAGGAA
Found at i:45877 original size:113 final size:111
Alignment explanation
Indices: 45586--46078 Score: 768
Period size: 111 Copynumber: 4.5 Consensus size: 111
45576 TACTATCACA
45586 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCATTTG
1 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCATTTG
45651 ATGGATCAACATTGCCAGAGAAAGTTCATAATGAGAAGAA--C-TCT
66 ATGGAT-AACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
*
45695 GACGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTT
1 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGTTTAAATTCATCATTT
*
45760 GATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
65 GATGGAT-AACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
*
45808 GAAAAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTT
1 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAAC-TTTTGTTTAAATTCATCATTT
45873 GATGGAT--CATTGCCAGAGAAAGTTCATGAATGAGAAGAACTCATCT
65 GATGGATAACATTGCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCT
* * *
45919 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTGTTTAAATTCATCATTT
* ** *
45984 GATGGATTATTTTGCCAGAGAAGGTTCAT-ATGAGAAGAACTCATCT
65 GATGGATAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
* *
46030 GAAGAAGGAAGAAGAAGTTCATAAT--GAAGATCTTGTTCAACCTTTGTTT
1 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTT
46079 GATACTATCA
Statistics
Matches: 361, Mismatches: 15, Indels: 17
0.92 0.04 0.04
Matches are distributed among these distances:
108 8 0.02
109 55 0.15
110 80 0.22
111 126 0.35
112 2 0.01
113 90 0.25
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.30
Consensus pattern (111 bp):
GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTGTTTAAATTCATCATTTG
ATGGATAACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
Found at i:46405 original size:3 final size:3
Alignment explanation
Indices: 46389--46458 Score: 94
Period size: 3 Copynumber: 24.7 Consensus size: 3
46379 TTTTTATCCA
*
46389 ATT A-T ATT -TT ATT ATT ATT ATT ATT AGT ATT ATT A-T ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
46433 ATT ATT ATT ATC ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
46459 AAATATATTA
Statistics
Matches: 59, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
2 8 0.14
3 51 0.86
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:46424 original size:31 final size:31
Alignment explanation
Indices: 46389--46455 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 31
46379 TTTTTATCCA
* *
46389 ATTATATTTTATTATTATTATTATTAGTATT
1 ATTATATTATATTATTATTATTATCAGTATT
*
46420 ATTATATTATATTATTATTATTATCATTATT
1 ATTATATTATATTATTATTATTATCAGTATT
46451 ATTAT
1 ATTAT
46456 TATAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (31 bp):
ATTATATTATATTATTATTATTATCAGTATT
Found at i:47754 original size:18 final size:17
Alignment explanation
Indices: 47728--47765 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
47718 TAGATTTTTT
*
47728 TTTCGTTTATTTTATATG
1 TTTCATTTATTTTAT-TG
47746 TTTCATTTATTTTATTG
1 TTTCATTTATTTTATTG
47763 TTT
1 TTT
47766 TTAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.71
Consensus pattern (17 bp):
TTTCATTTATTTTATTG
Found at i:47836 original size:11 final size:12
Alignment explanation
Indices: 47805--47837 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
47795 TTTAATTATA
47805 TTATTAAATATT
1 TTATTAAATATT
47817 TTATTAAATATT
1 TTATTAAATATT
47829 TT-TTAAATA
1 TTATTAAATA
47838 ATAATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.33
12 14 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTAAATATT
Found at i:60420 original size:6 final size:6
Alignment explanation
Indices: 60409--60435 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
60399 ATACTTCTAT
60409 ATATAC ATATAC ATATAC ATATAC ATA
1 ATATAC ATATAC ATATAC ATATAC ATA
60436 GTGCACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:63638 original size:2 final size:2
Alignment explanation
Indices: 63631--63662 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
63621 TGAAAAATGC
63631 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63663 TCATGGGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65562 original size:139 final size:138
Alignment explanation
Indices: 65305--65932 Score: 882
Period size: 139 Copynumber: 4.5 Consensus size: 138
65295 ACGATGAAAA
* * *
65305 CAAGCTAAGGTTGAACAAGTTCTTTTCATTATGAACTTCTTCTTCCTTATCGGATGAGTTCTTCT
1 CAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCT
** *
65370 CATTACAAACTCTCCACTGGAAATTTTGATCCCTCGAGTGAGGTGTTAATGATTCAACTCCATAT
66 CATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTT-ATGATTCAACTCCATAT
65435 GTGATGAAT
130 GTGATGAAT
* * * * * *
65444 CAAGTTAAGGTTGAACAAGTTCATATCATTATGAACTTTTTCTCCCTCATTGGATAAGTTCTTCT
1 CAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCT
*
65509 CATTATGAACTCTTCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTACTGATTCAACTCCATAT
66 CATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTA-TGATTCAACTCCATAT
65574 GTGATGAA-
130 GTGATGAAT
* * * *
65582 CTGAGCTAAGGGTGAACAAGTTCTTCTCATTATGAATTTATTCTCCCTCATCGGATGAGTTCTTC
1 C-AAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTC
* * * * * *
65647 TCATTATGAATTCTTCACTGGAAATGTTGATCCTTCGAGTGAGGTGTTGTTGATTTAACTCTATA
65 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTT-ATGATTCAACTCCATA
*
65712 TGCGATGAAT
129 TGTGATGAAT
* *
65722 CGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCGTCGGATGAGTTCTTCT
1 CAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCT
* * *
65787 CATTATGAACTCTCCATTGGAAATGTTGATCCCTCTAGTGAGGTGTTGATGATTCAACTCTATAT
66 CATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTT-ATGATTCAACTCCATAT
65852 GTG-TGAAT
130 GTGATGAAT
* * * * * *
65860 CATGGTAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTCCTTCTTTGGATGAGTTCTTCT
1 CAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCT
65925 CATTATGA
66 CATTATGA
65933 GCCCTTCCAA
Statistics
Matches: 439, Mismatches: 46, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
138 73 0.17
139 365 0.83
140 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (138 bp):
CAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCT
CATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGTGTTATGATTCAACTCCATATG
TGATGAAT
Found at i:67139 original size:55 final size:55
Alignment explanation
Indices: 67055--67385 Score: 346
Period size: 55 Copynumber: 6.2 Consensus size: 55
67045 ATTCATCATG
* * * *
67055 TCAAGAAAGCTT-TGAAAATCATACTTAGTTTTTTTGAAAGCTCATTTAAAAATTA
1 TCAAGAAA-CTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATTA
* * * **
67110 TCAAGAAACTTCTAAAAATCAAAGTTAGTTTCTTT-AAAA---A-TTAATCATGT-
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAAT-TA
* *
67160 T-AAGAAACCTT-T-AGAAATCAGACTTAGTTTC-TTATAAAGCTCGTTTAAAAATTA
1 TCAAGAAA-CTTCTGA-AAATCAGACTTAGTTTCTTTA-AAAACTCATTTAAAAATTA
* * * *
67214 TCAAGAAACTTCTGAAAATTAGACTTAGTTTCTTTAAAAAATCATTTGAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATTA
* *
67269 TCAAGAAACTTCTGAAAATCAAACTTGGTTTCTTTAAAAACTCATTT-AAAATTA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATTA
* * *
67323 TTAGGAAACTTCTGAAAATTAGACTTAGTTTCTTTAAAAACTCATTTAAAAA-TA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATTA
67377 TCAAGAAAC
1 TCAAGAAAC
67386 CCTTGAAAAT
Statistics
Matches: 229, Mismatches: 31, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
48 3 0.01
49 22 0.10
50 13 0.06
51 2 0.01
53 1 0.00
54 73 0.32
55 111 0.48
56 4 0.02
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (55 bp):
TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTAAAAACTCATTTAAAAATTA
Found at i:67143 original size:104 final size:102
Alignment explanation
Indices: 66959--67367 Score: 372
Period size: 104 Copynumber: 3.9 Consensus size: 102
66949 AAAAAAACCC
* * * * * * **
66959 TTGAAAATCAAGCTTAGTTTCTTTAAAGAATTCATTGGAAATAATCATCTAGAAACCCCTGAAAA
1 TTGAAAATCAAACTTAGTTTTTTTAAAG--CTCATT-TAAA-AATTATCAAGAAACTTCTGAAAA
* * * *
67024 TCAGGCATAGCTTCTTTAAAAATTCATCATGTCAAGAAAGCT
62 TTAGACTTAGTTTCTTTAAAAATTCATCATGTCAAGAAA-CT
* * *
67066 TTGAAAATCATACTTAGTTTTTTTGAAAGCTCATTTAAAAATTATCAAGAAACTTCTAAAAATCA
1 TTGAAAATCAAACTTAGTTTTTTT-AAAGCTCATTTAAAAATTATCAAGAAACTTCTGAAAATTA
* * * *
67131 AAGTTAGTTTCTTTAAAAATTAATCATGTTAAGAAACCT
65 GACTTAGTTTCTTTAAAAATTCATCATGTCAAGAAA-CT
* * *
67170 TT-AGAAATCAGACTTAGTTTCTTATAAAGCTCGTTTAAAAATTATCAAGAAACTTCTGAAAATT
1 TTGA-AAATCAAACTTAGTTT-TTTTAAAGCTCATTTAAAAATTATCAAGAAACTTCTGAAAATT
* * *
67234 AGACTTAGTTTCTTTAAAAAATCATTTGAAAATCATCAAGAAACT
64 AGACTTAGTTTCTTTAAAAATTCA--T---CAT-GTCAAGAAACT
* * * * *
67279 TCTGAAAATCAAACTTGGTTTCTTTAAAAACTCATTT-AAAATTATTAGGAAACTTCTGAAAATT
1 T-TGAAAATCAAACTTAGTTT-TTTTAAAGCTCATTTAAAAATTATCAAGAAACTTCTGAAAATT
*
67343 AGACTTAGTTTCTTTAAAAACTCAT
64 AGACTTAGTTTCTTTAAAAATTCAT
67368 TTAAAAATAT
Statistics
Matches: 252, Mismatches: 39, Indels: 22
0.81 0.12 0.07
Matches are distributed among these distances:
103 1 0.00
104 125 0.50
105 6 0.02
106 6 0.02
107 22 0.09
108 4 0.02
109 53 0.21
110 34 0.13
111 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (102 bp):
TTGAAAATCAAACTTAGTTTTTTTAAAGCTCATTTAAAAATTATCAAGAAACTTCTGAAAATTAG
ACTTAGTTTCTTTAAAAATTCATCATGTCAAGAAACT
Found at i:67417 original size:109 final size:109
Alignment explanation
Indices: 67207--67416 Score: 289
Period size: 109 Copynumber: 1.9 Consensus size: 109
67197 AGCTCGTTTA
*
67207 AAAATTATCAAGAAACTTCTGAAAATTAGACTTAGTTTCTTTAAAAAATCATTTGAAAATCATCA
1 AAAATTATCAAGAAACTTCTGAAAATTAGACTTAGTTTCTTTAAAAAATCATTTAAAAATCATCA
* *** **
67272 AGAAACTTCTGAAAATCAAACTTGGTTTCTTTAAAAACTCATTT
66 AGAAACCTCTGAAAATCAAACTTAACTTCTAAAAAAACTCATTT
* * *
67316 AAAATTATTAGGAAACTTCTGAAAATTAGACTTAGTTTCTTTAAAAACTCATTTAAAAAT-ATCA
1 AAAATTATCAAGAAACTTCTGAAAATTAGACTTAGTTTCTTTAAAAAATCATTTAAAAATCATCA
**
67380 AGAAACC-CTTGAAAATCATGCTTAACTTCTAAAAAAA
66 AGAAACCTC-TGAAAATCAAACTTAACTTCTAAAAAAA
67417 ATCGTGTTAC
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
107 1 0.01
108 31 0.35
109 56 0.64
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (109 bp):
AAAATTATCAAGAAACTTCTGAAAATTAGACTTAGTTTCTTTAAAAAATCATTTAAAAATCATCA
AGAAACCTCTGAAAATCAAACTTAACTTCTAAAAAAACTCATTT
Found at i:68744 original size:28 final size:28
Alignment explanation
Indices: 68712--68765 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
68702 TTTTAGATTA
** *
68712 ATTTGAGGAGGTAATGTGTTTCAGGTCG
1 ATTTGAGGAGACAATGTGTTCCAGGTCG
*
68740 ATTTGGGGAGACAATGTGTTCCAGGT
1 ATTTGAGGAGACAATGTGTTCCAGGT
68766 TGGCTTCTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.22, C:0.09, G:0.35, T:0.33
Consensus pattern (28 bp):
ATTTGAGGAGACAATGTGTTCCAGGTCG
Found at i:69538 original size:3 final size:3
Alignment explanation
Indices: 69532--69566 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
69522 TATTTTTTTC
69532 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
69567 CACTTTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:69609 original size:52 final size:51
Alignment explanation
Indices: 69504--69618 Score: 128
Period size: 52 Copynumber: 2.2 Consensus size: 51
69494 GAAGTGTTTT
** * *
69504 TTCTTTTTTCTCTTTTTTTATTTTTTTCTCTTCTTCTTCTTCTTCTTCTTC
1 TTCTTTTTTCTCACTTTTTATTTTTTTCTCTTCTTATTCTTCTTCTTATTC
69555 TTCTTCTTTTCTCACTTTTTATATTTTTT-TCTTCTTATT-TT-TTCTATATCTC
1 TTCTT-TTTTCTCACTTTTTAT-TTTTTTCTCTTCTTATTCTTCTTCT-TAT-TC
*
69607 TTCTTTTCTCTC
1 TTCTTTTTTCTC
69619 TCTGTGTTGT
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
50 4 0.07
51 15 0.27
52 30 0.55
53 6 0.11
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (51 bp):
TTCTTTTTTCTCACTTTTTATTTTTTTCTCTTCTTATTCTTCTTCTTATTC
Found at i:70888 original size:22 final size:22
Alignment explanation
Indices: 70857--70899 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
70847 GCAATGTACA
*
70857 ATGTATAGATGCTA-ATGCAAAG
1 ATGTAAAGATG-TACATGCAAAG
70879 ATGTAAAGATGTACATGCAAA
1 ATGTAAAGATGTACATGCAAA
70900 TGCAAAGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (22 bp):
ATGTAAAGATGTACATGCAAAG
Found at i:70927 original size:28 final size:29
Alignment explanation
Indices: 70870--70934 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
70860 TATAGATGCT
* * * *
70870 AATGCAAAGATGTAAAGATGTACATGC-A
1 AATGCAAAGATGCAAAAATGGACATACAA
70898 AATGCAAAGATGCAAAAATGGGA-ATACAA
1 AATGCAAAGATGCAAAAAT-GGACATACAA
70927 AATGCAAA
1 AATGCAAA
70935 ATATAAATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 20 0.65
29 11 0.35
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.17
Consensus pattern (29 bp):
AATGCAAAGATGCAAAAATGGACATACAA
Found at i:73219 original size:2 final size:2
Alignment explanation
Indices: 73212--73253 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
73202 TGCAACATGC
73212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
73254 TCATTAGACT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:74284 original size:2 final size:2
Alignment explanation
Indices: 74277--74324 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
74267 AGTTATTTCA
74277 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
74319 AT AT AT
1 AT AT AT
74325 GTGTAGAACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76687 original size:27 final size:26
Alignment explanation
Indices: 76657--76737 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 26
76647 TAGATTATTA
76657 TATTATTATTAAATACATAAATAATAT
1 TATTATTATTAAATA-ATAAATAATAT
* *
76684 TATTCATTATTAAAAAATATATAATATT
1 TATT-ATTATTAAATAATAAATAATA-T
*
76712 TATT-TTATGAAATTAATAAATAATAT
1 TATTATTATTAAA-TAATAAATAATAT
76738 AAATTTATTT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
26 8 0.17
27 23 0.50
28 15 0.33
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (26 bp):
TATTATTATTAAATAATAAATAATAT
Found at i:76835 original size:20 final size:21
Alignment explanation
Indices: 76789--76847 Score: 59
Period size: 23 Copynumber: 2.8 Consensus size: 21
76779 ATAATATCAT
* *
76789 ATATTATTATAATATAGCTGAAT
1 ATATTATTATAATATA--TAAAA
76812 ATATTATTATAATAT-TAAAA
1 ATATTATTATAATATATAAAA
*
76832 ATATTAAT-TAATATAT
1 ATATTATTATAATATAT
76848 TTTAAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 6 0.19
20 11 0.34
23 15 0.47
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (21 bp):
ATATTATTATAATATATAAAA
Found at i:76861 original size:23 final size:24
Alignment explanation
Indices: 76826--76875 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
76816 TATTATAATA
76826 TTAAAAATATTAATTAA-T-ATATT
1 TTAAAAATATTAA-TAATTAATATT
* *
76849 TTAAATATTTTAATAATTAATATT
1 TTAAAAATATTAATAATTAATATT
76873 TTA
1 TTA
76876 TTAAAATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.13
23 12 0.52
24 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TTAAAAATATTAATAATTAATATT
Found at i:79493 original size:20 final size:21
Alignment explanation
Indices: 79470--79514 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
79460 ATTTTGTATC
*
79470 TTTTAGTT-TTATTAATTTA-A
1 TTTTA-TTATTATAAATTTATA
79490 TTTTATTATTATAAATTTATA
1 TTTTATTATTATAAATTTATA
79511 TTTT
1 TTTT
79515 GCAATCAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 2 0.09
20 15 0.68
21 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTATTATTATAAATTTATA
Found at i:79821 original size:34 final size:34
Alignment explanation
Indices: 79757--79856 Score: 182
Period size: 34 Copynumber: 2.9 Consensus size: 34
79747 TTGTAATCAT
79757 TACTACTTGATATTCATATATTAAGACAATAATTAG
1 TACTACTTGATATTCATA-A-TAAGACAATAATTAG
79793 TACTACTTGATATTCATAATAAGACAATAATTAG
1 TACTACTTGATATTCATAATAAGACAATAATTAG
79827 TACTACTTGATATTCATAATAAGACAATAA
1 TACTACTTGATATTCATAATAAGACAATAA
79857 CATAGTCTTA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
34 45 0.70
35 1 0.02
36 18 0.28
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (34 bp):
TACTACTTGATATTCATAATAAGACAATAATTAG
Found at i:79956 original size:47 final size:47
Alignment explanation
Indices: 79905--79994 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
79895 GTCGATGTTT
* * *
79905 ATAATTAAAATTATAACACATTTAAAGTTAAAATATTGTCTAATAGC
1 ATAATTAAAACTACAACACATTTAAAGCTAAAATATTGTCTAATAGC
** *
79952 ATAATTAGTACTACAGCACATTTAAAGCTAAAATATTGTCTAA
1 ATAATTAAAACTACAACACATTTAAAGCTAAAATATTGTCTAA
79995 GTGCGTAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (47 bp):
ATAATTAAAACTACAACACATTTAAAGCTAAAATATTGTCTAATAGC
Found at i:82331 original size:15 final size:16
Alignment explanation
Indices: 82295--82332 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
82285 TAACATTCTA
* *
82295 GTAACTTTTTAGGTTG
1 GTAACATTTCAGGTTG
82311 GTAACATTTCAGGTT-
1 GTAACATTTCAGGTTG
82326 GTAACAT
1 GTAACAT
82333 AAATTCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (16 bp):
GTAACATTTCAGGTTG
Found at i:85564 original size:37 final size:37
Alignment explanation
Indices: 85521--85695 Score: 153
Period size: 37 Copynumber: 4.8 Consensus size: 37
85511 AGAAATCCTA
85521 TCTCACTTGAGATTGTTTTTCTTAAAACAAATTATTT
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAATTATTT
* ***
85558 TCTCACTTGAGATTGCTTTTCTTAAAACAAATTGCGT
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAATTATTT
* * * **
85595 T-TCACTTAAGATTGTTTTTATTATAACAAATT-TCG
1 TCTCACTTGAGATTGTTTTTCTTAAAACAAATTATTT
* **
85630 TCTAACTTGAGATTGTTTCCCCTT-AAACAAA--ATTT
1 TCTCACTTGAGATTGTTT-TTCTTAAAACAAATTATTT
* * *
85665 CATCTCACTTGAGATAGTTTCTCTTGAAACA
1 --TCTCACTTGAGATTGTTTTTCTTAAAACA
85696 TAAAGTTTGA
Statistics
Matches: 110, Mismatches: 22, Indels: 12
0.76 0.15 0.08
Matches are distributed among these distances:
35 2 0.02
36 51 0.46
37 57 0.52
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (37 bp):
TCTCACTTGAGATTGTTTTTCTTAAAACAAATTATTT
Found at i:85607 original size:36 final size:36
Alignment explanation
Indices: 85523--85647 Score: 151
Period size: 36 Copynumber: 3.4 Consensus size: 36
85513 AAATCCTATC
**
85523 TCACTTGAGATTGTTTTTCTTAAAACAAATTATTTT
1 TCACTTGAGATTGTTTTTCTTAAAACAAATTACGTT
* *
85559 CTCACTTGAGATTGCTTTTCTTAAAACAAATTGCGTT
1 -TCACTTGAGATTGTTTTTCTTAAAACAAATTACGTT
* * * * *
85596 TCACTTAAGATTGTTTTTATTATAACAAATTTCGTC
1 TCACTTGAGATTGTTTTTCTTAAAACAAATTACGTT
*
85632 TAACTTGAGATTGTTT
1 TCACTTGAGATTGTTT
85648 CCCCTTAAAC
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
36 44 0.58
37 32 0.42
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (36 bp):
TCACTTGAGATTGTTTTTCTTAAAACAAATTACGTT
Found at i:85673 original size:73 final size:73
Alignment explanation
Indices: 85520--85684 Score: 183
Period size: 73 Copynumber: 2.3 Consensus size: 73
85510 AAGAAATCCT
* ** * *
85520 ATCTCACTTGAGATTGTTTTTCTTAAAACAAATTATTTTCTCACTTGAGATTGCTTTTCTTAAAA
1 ATCTCACTTGAGATTGTTTTTATTAAAACAAATTATCGTCTAACTTGAGATTGCTTTCCTTAAAA
85585 CAAATTGC
66 CAAATTGC
* * * *
85593 GTTTCACTTAAGATTGTTTTTATTATAACAAATT-TCGTCTAACTTGAGATTG-TTTCCCCTT-A
1 ATCTCACTTGAGATTGTTTTTATTAAAACAAATTATCGTCTAACTTGAGATTGCTTT--CCTTAA
*
85655 AACAAAATTTC
64 AAC-AAATTGC
*
85666 ATCTCACTTGAGATAGTTT
1 ATCTCACTTGAGATTGTTT
85685 CTCTTGAAAC
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
71 3 0.04
72 19 0.25
73 53 0.71
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (73 bp):
ATCTCACTTGAGATTGTTTTTATTAAAACAAATTATCGTCTAACTTGAGATTGCTTTCCTTAAAA
CAAATTGC
Found at i:86081 original size:14 final size:14
Alignment explanation
Indices: 86045--86080 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
86035 AATAGTTTCG
86045 AAAGAAAAAGAGAA
1 AAAGAAAAAGAGAA
*
86059 AATGAAAAAGA-AA
1 AAAGAAAAAGAGAA
86072 AAAGAAAAA
1 AAAGAAAAA
86081 AAATGATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAGAGAA
Found at i:86530 original size:17 final size:17
Alignment explanation
Indices: 86508--86561 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
86498 TTAATTAATT
86508 AGGATTTTAGTTTGCTA
1 AGGATTTTAGTTTGCTA
*
86525 AGGATTTT--TAT--T-
1 AGGATTTTAGTTTGCTA
86537 AGGATTTTAGTTTGCTA
1 AGGATTTTAGTTTGCTA
86554 AGGATTTT
1 AGGATTTT
86562 TAATAGGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 8 0.27
13 1 0.03
14 2 0.07
15 2 0.07
16 1 0.03
17 16 0.53
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.50
Consensus pattern (17 bp):
AGGATTTTAGTTTGCTA
Found at i:86539 original size:29 final size:29
Alignment explanation
Indices: 86505--86574 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
86495 TATTTAATTA
86505 ATTAGGATTTTAGTTTGCTAAGGATTTTT
1 ATTAGGATTTTAGTTTGCTAAGGATTTTT
86534 ATTAGGATTTTAGTTTGCTAAGGATTTTT
1 ATTAGGATTTTAGTTTGCTAAGGATTTTT
*
86563 AATAGGATTTTA
1 ATTAGGATTTTA
86575 TTTTCTTTAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.50
Consensus pattern (29 bp):
ATTAGGATTTTAGTTTGCTAAGGATTTTT
Found at i:86592 original size:18 final size:18
Alignment explanation
Indices: 86565--86604 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
86555 GGATTTTTAA
86565 TAGG-ATTTTATTTTCTT
1 TAGGTATTTTATTTTCTT
86582 TAGGTATTTTATTTTCTT
1 TAGGTATTTTATTTTCTT
86600 TAGGT
1 TAGGT
86605 TTTCTCAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.17, C:0.05, G:0.15, T:0.62
Consensus pattern (18 bp):
TAGGTATTTTATTTTCTT
Found at i:93390 original size:29 final size:30
Alignment explanation
Indices: 93340--93397 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
93330 TATTTAATTA
*
93340 ATTAGGATTTTAGTTTGATAAGG-ATTTTT
1 ATTAGGATTTTAGTTTCATAAGGTATTTTT
* *
93369 ATTAGGATTTTATTTTCTTAAGGTATTTT
1 ATTAGGATTTTAGTTTCATAAGGTATTTT
93398 ATTTTCTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 20 0.80
30 5 0.20
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.55
Consensus pattern (30 bp):
ATTAGGATTTTAGTTTCATAAGGTATTTTT
Found at i:93398 original size:18 final size:18
Alignment explanation
Indices: 93375--93410 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
93365 TTTTATTAGG
93375 ATTTTATTTTCTTAAGGT
1 ATTTTATTTTCTTAAGGT
*
93393 ATTTTATTTTCTTTAGGT
1 ATTTTATTTTCTTAAGGT
93411 TTTCTCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.11, T:0.64
Consensus pattern (18 bp):
ATTTTATTTTCTTAAGGT
Found at i:94386 original size:38 final size:37
Alignment explanation
Indices: 94324--94407 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 37
94314 TTTTGTTCGG
*
94324 GTCGGGTCGGGTTTTTTAAGTGTGATATTCAGGTCGA
1 GTCGGGTTGGGTTTTTTAAGTGTGATATTCAGGTCGA
* *
94361 GTCGGGTTGGGTTTTTTTAAGTGTGATATTCCGGTCGG
1 GTCGGGTTGGG-TTTTTTAAGTGTGATATTCAGGTCGA
94399 GTTCGGGTT
1 G-TCGGGTT
94408 TAGGGTGAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
37 10 0.24
38 25 0.60
39 7 0.17
ACGTcount: A:0.12, C:0.11, G:0.37, T:0.40
Consensus pattern (37 bp):
GTCGGGTTGGGTTTTTTAAGTGTGATATTCAGGTCGA
Found at i:94805 original size:17 final size:18
Alignment explanation
Indices: 94772--94805 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
94762 AAAATGAAAA
*
94772 TTTAATATTTTTTTAATT
1 TTTAATATTTTTATAATT
94790 TTTAAT-TTTTTATAAT
1 TTTAATATTTTTATAAT
94806 ATATTACTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTAATATTTTTATAATT
Found at i:94979 original size:18 final size:18
Alignment explanation
Indices: 94943--94984 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
94933 AATTGGATTT
* *
94943 CAATT-CTTGACAGATTC
1 CAATTCCTTCACAAATTC
94960 CAATTCCTTCACAAATTC
1 CAATTCCTTCACAAATTC
94978 CAATTCC
1 CAATTCC
94985 CTCAGAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.31, C:0.31, G:0.05, T:0.33
Consensus pattern (18 bp):
CAATTCCTTCACAAATTC
Found at i:108613 original size:6 final size:6
Alignment explanation
Indices: 108602--108627 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
108592 TTCGATCAAG
108602 TTAAGT TTAAGT TTAAGT TTAAGT TT
1 TTAAGT TTAAGT TTAAGT TTAAGT TT
108628 TTTTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (6 bp):
TTAAGT
Found at i:116163 original size:10 final size:10
Alignment explanation
Indices: 116129--116156 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
116119 CGGACCGGCT
116129 AAAAATCGGG
1 AAAAATCGGG
116139 AAAAATCGGG
1 AAAAATCGGG
116149 AAAAATCG
1 AAAAATCG
116157 AAAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.25, T:0.11
Consensus pattern (10 bp):
AAAAATCGGG
Found at i:122146 original size:16 final size:16
Alignment explanation
Indices: 122116--122146 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
122106 TGAAACTCGA
*
122116 CTCGAACTCGAAAAAG
1 CTCGAACTCAAAAAAG
122132 CTCGAACTCAAAAAA
1 CTCGAACTCAAAAAA
122147 AATTCAAGAG
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:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (16 bp):
CTCGAACTCAAAAAAG
Found at i:122677 original size:22 final size:21
Alignment explanation
Indices: 122632--122673 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
122622 TTTTTTTATT
*
122632 TTTCCCATCTAAATATATTAA
1 TTTCACATCTAAATATATTAA
122653 TTTCACAT-TAAATATATTAA
1 TTTCACATCTAAATATATTAA
122673 T
1 T
122674 ATTTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTCACATCTAAATATATTAA
Found at i:123334 original size:20 final size:21
Alignment explanation
Indices: 123309--123360 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
123299 TTTTCCCAAT
*
123309 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
123329 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
123350 TCGCAATGCGA
1 TCGCAATGCGA
123361 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:123374 original size:20 final size:20
Alignment explanation
Indices: 123349--123462 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
123339 AATTGGGAAA
*
123349 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
123369 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
123389 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
123410 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
*
123430 TTCGCAACGCGATTA-TGACT
1 ATCGCAACGCGA-TACTGACT
*
123450 TTCGCAACGCGAT
1 ATCGCAACGCGAT
123463 TTACATAGCG
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
19 3 0.04
20 61 0.75
21 15 0.19
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:123393 original size:61 final size:61
Alignment explanation
Indices: 123346--123462 Score: 155
Period size: 61 Copynumber: 1.9 Consensus size: 61
123336 GCGAATTGGG
* * * * *
123346 AAAATCGCAATGCGATACTGACTATCGCAATGCGA-TACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATTA-TGACTATCGCAACGCGATAATAC
* *
123407 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTATGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATTATGACTATCGCAACGCGAT
123463 TTACATAGCG
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
61 46 0.96
62 2 0.04
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATTATGACTATCGCAACGCGATAATAC
Found at i:124064 original size:19 final size:19
Alignment explanation
Indices: 124016--124057 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
124006 ACGAGATAAT
*
124016 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
*
124035 CGCAACGCGAAACAAAAAT
1 CGCAACGCGAAACAAAAAA
124054 CGCA
1 CGCA
124058 TTGCGAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.52, C:0.26, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:124130 original size:39 final size:38
Alignment explanation
Indices: 124053--124142 Score: 144
Period size: 39 Copynumber: 2.3 Consensus size: 38
124043 GAAACAAAAA
* * *
124053 TCGCATTGCGAATTTTATTTCGCGTTGCGGTTTTCATT
1 TCGCGTTGCGATTTTTATTTCGCGTTGCGATTTTCATT
124091 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTTATTTCGC-GTTGCGATTTTCATT
124130 TCGCGTTGCGATT
1 TCGCGTTGCGATT
124143 GTCTGGTCGC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 21 0.44
39 27 0.56
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (38 bp):
TCGCGTTGCGATTTTTATTTCGCGTTGCGATTTTCATT
Found at i:124141 original size:19 final size:19
Alignment explanation
Indices: 124053--124237 Score: 140
Period size: 19 Copynumber: 10.1 Consensus size: 19
124043 GAAACAAAAA
*
124053 TCGCATTGCGAATTTT-ATT
1 TCGCGTTGCG-ATTTTCATT
*
124072 TCGCGTTGCGGTTTTCATT
1 TCGCGTTGCGATTTTCATT
*
124091 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
124110 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
124130 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
124146 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
124163 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* ***
124177 TCTCGTTGCGATAGCCATT
1 TCGCGTTGCGATTTTCATT
*
124196 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
124216 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
124236 TC
1 TC
124238 AACCAAAAGA
Statistics
Matches: 133, Mismatches: 19, Indels: 28
0.74 0.11 0.16
Matches are distributed among these distances:
14 20 0.15
15 1 0.01
16 2 0.02
17 3 0.02
18 5 0.04
19 53 0.40
20 48 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:124153 original size:39 final size:39
Alignment explanation
Indices: 124072--124153 Score: 105
Period size: 39 Copynumber: 2.1 Consensus size: 39
124062 GAATTTTATT
* * **
124072 TCGC-GTTGCGGTTTTCATTTCGCGTTGCGATTTTTATT
1 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTTCTAGG
124110 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTGTCT-GG
1 TCGCGGTTGCGATTTTCATTTCGCGTTGCGATT-TCTAGG
124149 TCGCG
1 TCGCG
124154 ATAGTCATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 4 0.11
39 32 0.84
40 2 0.05
ACGTcount: A:0.07, C:0.21, G:0.28, T:0.44
Consensus pattern (39 bp):
TCGCGGTTGCGATTTTCATTTCGCGTTGCGATTTCTAGG
Found at i:124162 original size:33 final size:33
Alignment explanation
Indices: 124125--124212 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
124115 GTTGCGATTT
* *
124125 TCATTTCGCGTTGCGATTGTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
124158 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
124191 CCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
124213 ATTATCTCGT
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 35 0.70
34 15 0.30
ACGTcount: A:0.11, C:0.26, G:0.25, T:0.38
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:124215 original size:20 final size:20
Alignment explanation
Indices: 124192--124237 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
124182 TTGCGATAGC
124192 CATTTCCGCGTTGCGATTCT
1 CATTTCCGCGTTGCGATTCT
* *
124212 CATTAT-CTCGTTGCGATTTT
1 CATT-TCCGCGTTGCGATTCT
124232 CATTTC
1 CATTTC
124238 AACCAAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.05
20 20 0.91
21 1 0.05
ACGTcount: A:0.13, C:0.26, G:0.15, T:0.46
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATTCT
Found at i:126298 original size:42 final size:42
Alignment explanation
Indices: 126238--126360 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
126228 GCCCGACTCG
* * *
126238 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
126280 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
126322 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
126361 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:126318 original size:21 final size:21
Alignment explanation
Indices: 126294--126360 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
126284 TCATTCCTCG
126294 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
126315 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
126336 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
126357 AGAG
1 AGAG
126361 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:127939 original size:19 final size:19
Alignment explanation
Indices: 127917--128015 Score: 74
Period size: 19 Copynumber: 5.7 Consensus size: 19
127907 CGAAATTAAA
*
127917 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
127936 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
127952 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
127969 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
127983 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
128002 TTCGCATTGCGATT
1 TTCGCATTGCGATT
128016 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 11, Indels: 20
0.66 0.12 0.22
Matches are distributed among these distances:
14 17 0.29
16 6 0.10
17 6 0.10
19 30 0.51
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:128037 original size:33 final size:33
Alignment explanation
Indices: 127921--128028 Score: 164
Period size: 33 Copynumber: 3.3 Consensus size: 33
127911 ATTAAATTCG
*
127921 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
* **
127954 CGTTGCGATTTTCATTTCGCATTGCGAAAT-TAG
1 CGTTGCGATTTTCATTTCGCATTGCG-ATTCTCT
127987 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
128020 CGTTGCGAT
1 CGTTGCGAT
128029 AGTAATTTCC
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
32 2 0.03
33 62 0.94
34 2 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:128037 original size:66 final size:67
Alignment explanation
Indices: 127914--128047 Score: 207
Period size: 66 Copynumber: 2.0 Consensus size: 67
127904 ACGCGAAATT
* ** *
127914 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTT-CGCATTG
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATAGTAATTTCCGCATTG
127978 CG
66 CG
* *
127980 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATAGTAATTTCCGCGTTG
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATAGTAATTTCCGCATTG
128045 CG
66 CG
128047 A
1 A
128048 TAGACATTAA
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
66 52 0.85
67 9 0.15
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (67 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATAGTAATTTCCGCATTG
CG
Found at i:130336 original size:12 final size:12
Alignment explanation
Indices: 130319--130343 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
130309 TCTTCGGGGA
130319 CTTTTTCTTCTT
1 CTTTTTCTTCTT
130331 CTTTTTCTTCTT
1 CTTTTTCTTCTT
130343 C
1 C
130344 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:131821 original size:14 final size:14
Alignment explanation
Indices: 131802--131838 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
131792 CATCAATTAA
131802 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
131816 ACAAATCATCTTTT
1 ACAAATCAACATTT
131830 ACAAATCAA
1 ACAAATCAA
131839 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:133735 original size:20 final size:19
Alignment explanation
Indices: 133700--133755 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 19
133690 GAAACTTAAA
133700 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
*
133719 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
*
133739 ATCGCAATGCGAAATGA
1 ATCGCAACGCGAAATGA
133756 AAATCTCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:133774 original size:14 final size:14
Alignment explanation
Indices: 133755--133812 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
133745 ATGCGAAATG
*
133755 AAAATCTCAACGAC
1 AAAATCGCAACGAC
*
133769 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
133785 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
133801 AAAATCCCAACG
1 AAAATCGCAACG
133813 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.48, C:0.28, G:0.14, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:133798 original size:32 final size:33
Alignment explanation
Indices: 133739--133817 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
133729 GGAAATGGCT
* *
133739 ATCGCAATGCGAAATGAAAATCTCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
133772 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
133804 ATCCCAACGCGAAA
1 ATCGCAACGCGAAA
133818 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 28 0.65
33 15 0.35
ACGTcount: A:0.47, C:0.25, G:0.16, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:133865 original size:14 final size:14
Alignment explanation
Indices: 133846--133903 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
133836 TTTCATTTCG
133846 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
133860 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
133876 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
133892 CGTTGCGATTTT
1 CGTTGCGATTTT
133904 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:133910 original size:33 final size:33
Alignment explanation
Indices: 133829--133919 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
133819 ACAAATCGCA
*
133829 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
133862 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
133894 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
133920 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:133938 original size:20 final size:19
Alignment explanation
Indices: 133904--133958 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
133894 TTGCGATTTT
*
133904 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
133923 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
133943 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
133959 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:134464 original size:18 final size:18
Alignment explanation
Indices: 134438--134482 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
134428 GTCGATCAGA
*
134438 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
134456 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
134474 TGATGGCTC
1 TGATGGCTC
134483 CCGAAGTGGA
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:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:135822 original size:20 final size:20
Alignment explanation
Indices: 135797--135839 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
135787 AATAGTTTCT
135797 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
*
135817 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAATCGCAACAC
135837 GAA
1 GAA
135840 TTCGACTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.19, T:0.09
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:136374 original size:20 final size:20
Alignment explanation
Indices: 136348--136461 Score: 111
Period size: 20 Copynumber: 5.7 Consensus size: 20
136338 GATTATGTAT
136348 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
136368 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
* *
136388 TATCGTGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
136408 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
136429 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
136449 TATCGCATTGCGA
1 TATCGCGTTGCGA
136462 TTTTCCCAAT
Statistics
Matches: 76, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
20 63 0.83
21 13 0.17
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:136439 original size:21 final size:21
Alignment explanation
Indices: 136406--136506 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 21
136396 TGCGAAAGTA
* * *
136406 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
136427 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
*
136447 AGTATCGCATTGCGATTTTCCC
1 AGTATCGCATTGCGATTTT-TC
* *
136469 AAT-TCGCGTTGCGATTTACTT-
1 AGTATCGCATTGCGATTT--TTC
136490 A-T-TCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
136507 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.02
20 30 0.48
21 27 0.44
22 3 0.05
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:136481 original size:41 final size:41
Alignment explanation
Indices: 136451--136541 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
136441 ATAGTCAGTA
* *
136451 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
* *
136492 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
136533 TCGCATTGC
1 TCGCATTGC
136542 AAATTGGGAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:136495 original size:20 final size:20
Alignment explanation
Indices: 136451--136541 Score: 92
Period size: 20 Copynumber: 4.5 Consensus size: 20
136441 ATAGTCAGTA
* **
136451 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
136472 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
136492 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
136513 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
136533 TCGCATTGC
1 TCGCATTGC
136542 AAATTGGGAA
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 30 0.54
21 26 0.46
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:136516 original size:21 final size:21
Alignment explanation
Indices: 136451--136526 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
136441 ATAGTCAGTA
136451 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
136472 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
136492 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
136513 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
136527 ACTTATTCGC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:137247 original size:14 final size:14
Alignment explanation
Indices: 137228--137273 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
137218 CACATAATCG
137228 GGTTTAGGGTTTAA
1 GGTTTAGGGTTTAA
* **
137242 GGTTTAGAGACTAA
1 GGTTTAGGGTTTAA
*
137256 GGTTTAGGGTTTAG
1 GGTTTAGGGTTTAA
137270 GGTT
1 GGTT
137274 CATTACAAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.22, C:0.02, G:0.37, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:144541 original size:26 final size:27
Alignment explanation
Indices: 144495--144545 Score: 95
Period size: 26 Copynumber: 1.9 Consensus size: 27
144485 ATGTAGAGAC
144495 GAATAGTTCATACATAAGTTTGTCTAG
1 GAATAGTTCATACATAAGTTTGTCTAG
144522 GAATAGTTCA-ACATAAGTTTGTCT
1 GAATAGTTCATACATAAGTTTGTCT
144546 CTAGGATGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (27 bp):
GAATAGTTCATACATAAGTTTGTCTAG
Found at i:163907 original size:30 final size:30
Alignment explanation
Indices: 163872--163929 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
163862 TTATATGAGA
*
163872 ATATGAGAATATA-ATATAAGTTATGTGATT
1 ATATGAGAATA-AGATATAAGTCATGTGATT
**
163902 ATATGATCATAAGATATAAGTCATGTGA
1 ATATGAGAATAAGATATAAGTCATGTGA
163930 CAAGATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.36
Consensus pattern (30 bp):
ATATGAGAATAAGATATAAGTCATGTGATT
Found at i:163979 original size:7 final size:7
Alignment explanation
Indices: 163967--164000 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
163957 GATATAAACC
163967 ATGTGAT
1 ATGTGAT
163974 ATGTGAT
1 ATGTGAT
163981 ATGTGAT
1 ATGTGAT
163988 ATGTGAT
1 ATGTGAT
163995 ATGTGA
1 ATGTGA
164001 ATATATGTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.41
Consensus pattern (7 bp):
ATGTGAT
Found at i:164381 original size:21 final size:21
Alignment explanation
Indices: 164325--164382 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
164315 ATATGTAATC
164325 CTTTGGAATATATATGCGGTT
1 CTTTGGAATATATATGCGGTT
* * * * **
164346 CTTCGGGACACATATTTGGTT
1 CTTTGGAATATATATGCGGTT
164367 CTTTGGAATATATATG
1 CTTTGGAATATATATG
164383 TGATCCTTAA
Statistics
Matches: 26, Mismatches: 11, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.41
Consensus pattern (21 bp):
CTTTGGAATATATATGCGGTT
Found at i:164422 original size:21 final size:21
Alignment explanation
Indices: 164396--164516 Score: 179
Period size: 21 Copynumber: 5.8 Consensus size: 21
164386 TCCTTAAGAA
164396 GTGGTCCTTCGGGACATATAT
1 GTGGTCCTTCGGGACATATAT
*
164417 GTGGTCCTTTGGGACATATAT
1 GTGGTCCTTCGGGACATATAT
164438 GTGGTCCTTCGGGACATATAT
1 GTGGTCCTTCGGGACATATAT
*
164459 GTGGTCATTCGGGACATATAT
1 GTGGTCCTTCGGGACATATAT
* *
164480 GTGGTCCTTCGAGACATCTAT
1 GTGGTCCTTCGGGACATATAT
* * *
164501 ATGGTTCTTTGGGACA
1 GTGGTCCTTCGGGACA
164517 AATTTTACAT
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 90 1.00
ACGTcount: A:0.20, C:0.17, G:0.28, T:0.35
Consensus pattern (21 bp):
GTGGTCCTTCGGGACATATAT
Found at i:164478 original size:98 final size:98
Alignment explanation
Indices: 164298--164488 Score: 240
Period size: 98 Copynumber: 1.9 Consensus size: 98
164288 AGGGTTCTAT
* * * * *
164298 GTGGTCTTTCGGGATATATATGTAATCCTTTGGAATATATATGCGGTTCTTCGGGACACATATTT
1 GTGGTCCTTCGGGACATATATGTAATCCTTTGGAACATATATGCGGTCCTTCGGGACACATATGT
* *
164363 GGTTCTTTGGAATATATATGTGATCCTTAAGAA
66 GGTTCTTCGGAACATATATGTGATCCTTAAGAA
** * * *
164396 GTGGTCCTTCGGGACATATATGTGGTCCTTTGGGACATATATGTGGTCCTTCGGGACATATATGT
1 GTGGTCCTTCGGGACATATATGTAATCCTTTGGAACATATATGCGGTCCTTCGGGACACATATGT
* *
164461 GG-TCATTCGGGACATATATGTGGTCCTT
66 GGTTC-TTCGGAACATATATGTGATCCTT
164489 CGAGACATCT
Statistics
Matches: 78, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
97 2 0.03
98 76 0.97
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.38
Consensus pattern (98 bp):
GTGGTCCTTCGGGACATATATGTAATCCTTTGGAACATATATGCGGTCCTTCGGGACACATATGT
GGTTCTTCGGAACATATATGTGATCCTTAAGAA
Found at i:166097 original size:75 final size:76
Alignment explanation
Indices: 165990--166186 Score: 290
Period size: 75 Copynumber: 2.6 Consensus size: 76
165980 GTTGTACAAG
* * * *
165990 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG-C
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
**
166053 AAAACTGTTTA
66 AAAACCATTTA
* *
166064 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
166129 AAAACCATTTA
66 AAAACCATTTA
*
166140 GGGGGAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA
1 GGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCA
166187 ATCTGTAATT
Statistics
Matches: 111, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
74 17 0.15
75 39 0.35
76 31 0.28
77 24 0.22
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAAATCTCGGAGCC
AAAACCATTTA
Found at i:168823 original size:19 final size:20
Alignment explanation
Indices: 168777--168836 Score: 68
Period size: 19 Copynumber: 2.9 Consensus size: 20
168767 TTCCCCTGTG
168777 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TC-AA
168800 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
168819 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
168837 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 17 0.49
21 2 0.06
22 3 0.09
23 13 0.37
ACGTcount: A:0.17, C:0.27, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:174375 original size:76 final size:77
Alignment explanation
Indices: 174246--174454 Score: 298
Period size: 76 Copynumber: 2.8 Consensus size: 77
174236 CCGTTGTACA
* * * *
174246 AGGGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
**
174310 -CAAAACTGTTT
66 CCAAAACCATTT
* *
174321 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGGG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
174386 CCAAAACCATTT
66 CCAAAACCATTT
* * *
174398 A-GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCAATCTGTAATT
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATT
174455 TTTGGCTTTG
Statistics
Matches: 120, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
75 19 0.16
76 91 0.76
77 10 0.08
ACGTcount: A:0.20, C:0.23, G:0.32, T:0.24
Consensus pattern (77 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATTCTGGAATTCTCGGAG
CCAAAACCATTT
Found at i:178131 original size:6 final size:6
Alignment explanation
Indices: 178120--178146 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
178110 GACACATATT
178120 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
178147 CGAGACGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:178679 original size:6 final size:6
Alignment explanation
Indices: 178653--178694 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
178643 TCTCGTCTCG
178653 GGTC-T GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
178695 AATACGTGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 14 0.40
6 21 0.60
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:178808 original size:21 final size:21
Alignment explanation
Indices: 178784--178823 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
178774 CGTTGCGATT
178784 TTGGACTATCACAATGCGAGC
1 TTGGACTATCACAATGCGAGC
* *
178805 TTGGACTATCGCATTGCGA
1 TTGGACTATCACAATGCGA
178824 TAGTCCAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (21 bp):
TTGGACTATCACAATGCGAGC
Found at i:178837 original size:21 final size:20
Alignment explanation
Indices: 178813--179029 Score: 140
Period size: 21 Copynumber: 10.6 Consensus size: 20
178803 GCTTGGACTA
178813 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAA-T
* * *
178834 TCGCATTGCGATTGTCGACT
1 TCGCATTGCGATAGTCCAAT
* * *
178854 ATCGTATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTCCA-AT
*
178875 TCGCATTGCGATA-TCCGACT
1 TCGCATTGCGATAGTCC-AAT
* *
178895 ATCGCATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTCCA-AT
*
178916 TCGCATTGCGATAG-CCGACT
1 TCGCATTGCGATAGTCC-AAT
* *
178936 ATCGCATTGCGAT-TTACATAT
1 -TCGCATTGCGATAGTCCA-AT
* *
178957 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTCCA-AT
178977 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAA-T
*
178998 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAA-T
*
179019 TCGCGTTGCGA
1 TCGCATTGCGA
179030 ATCTGGAAAC
Statistics
Matches: 159, Mismatches: 23, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
20 66 0.42
21 93 0.58
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (20 bp):
TCGCATTGCGATAGTCCAAT
Found at i:178884 original size:20 final size:20
Alignment explanation
Indices: 178833--178988 Score: 167
Period size: 20 Copynumber: 7.7 Consensus size: 20
178823 ATAGTCCAAG
178833 TTCGCATTGCGATTGT-CGACTA
1 TTCGCATTGCGATT-TAC-A-TA
*
178855 -TCGTATTGCGATTTACATA
1 TTCGCATTGCGATTTACATA
* *
178874 TTCGCATTGCGATATCCGACTA
1 TTCGCATTGCGATTTAC-A-TA
178896 -TCGCATTGCGATTTACATA
1 TTCGCATTGCGATTTACATA
***
178915 TTCGCATTGCGATAGCCGACTA
1 TTCGCATTGCGATTTAC-A-TA
178937 -TCGCATTGCGATTTACATA
1 TTCGCATTGCGATTTACATA
178956 TTCGCATTGCGATTTACATA
1 TTCGCATTGCGATTTACATA
178976 TTCGCATTGCGAT
1 TTCGCATTGCGAT
178989 AGTCCAAGTT
Statistics
Matches: 114, Mismatches: 12, Indels: 18
0.79 0.08 0.12
Matches are distributed among these distances:
19 6 0.05
20 62 0.54
21 42 0.37
22 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (20 bp):
TTCGCATTGCGATTTACATA
Found at i:178894 original size:41 final size:41
Alignment explanation
Indices: 178808--179010 Score: 236
Period size: 41 Copynumber: 4.9 Consensus size: 41
178798 TGCGAGCTTG
* * *
178808 GACTATCGCATTGCGATAGTCCA-AGTTCGCATTGCGAT-TGTC
1 GACTATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAT-CC
*
178850 GACTATCGTATTGCGATTTACATATTCGCATTGCGATATCC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATATCC
*
178891 GACTATCGCATTGCGATTTACATATTCGCATTGCGATAGCC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATATCC
* *
178932 GACTATCGCATTGCGATTTACATATTCGCATTGCGATTTAC
1 GACTATCGCATTGCGATTTACATATTCGCATTGCGATATCC
* *
178973 -A-TATTCGCATTGCGATAGTCCA-AGTTCGCATTGCGATA
1 GACTA-TCGCATTGCGAT-TTACATA-TTCGCATTGCGATA
179011 GTCGAAGTTC
Statistics
Matches: 144, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
39 2 0.01
40 14 0.10
41 110 0.76
42 18 0.12
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (41 bp):
GACTATCGCATTGCGATTTACATATTCGCATTGCGATATCC
Found at i:179029 original size:82 final size:83
Alignment explanation
Indices: 178808--179015 Score: 307
Period size: 82 Copynumber: 2.5 Consensus size: 83
178798 TGCGAGCTTG
* *
178808 GACTATCGCATTGCGATAGTCCAAGTTCGCATTGCGATTGTCGACTATCGTATTGCGATTTACAT
1 GACTATCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACAT
*
178873 ATTCGCATTGCGATATCC
66 ATTCGCATTGCGATATAC
* * *
178891 GACTATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGCCGACTATCGCATTGCGATTTACA
1 GACTATCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACA
*
178954 TATTCGCATTGCGATTTAC
65 TATTCGCATTGCGATATAC
178973 -A-TATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGA
1 GACTA-TCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGA
179016 AGTTCGCGTT
Statistics
Matches: 111, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
80 2 0.02
81 14 0.13
82 77 0.69
83 18 0.16
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (83 bp):
GACTATCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACAT
ATTCGCATTGCGATATAC
Found at i:190743 original size:34 final size:34
Alignment explanation
Indices: 190698--190769 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
190688 TTCACACTGT
* **
190698 TATTTTTTGCAATAGTGGTTTCAGCCCCTGCTGC
1 TATTTTCTGCAATAGCAGTTTCAGCCCCTGCTGC
*
190732 TATTTTCTGCAATAGCAGTTTCAGCCGCTGCTGC
1 TATTTTCTGCAATAGCAGTTTCAGCCCCTGCTGC
190766 TATT
1 TATT
190770 CTATTACCCG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (34 bp):
TATTTTCTGCAATAGCAGTTTCAGCCCCTGCTGC
Found at i:197025 original size:60 final size:60
Alignment explanation
Indices: 196926--197046 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
196916 TCGAGTACAT
* * *
196926 AACTTTGTTGAGAAATGAAAACTTCCTTCTTGGATTGAGCAGCCTCAATCCCAAGGAAGA
1 AACTTTGTTGAGAAATGAAAACTTCCTTCTTAGAGTGAGCAACCTCAATCCCAAGGAAGA
*
196986 AACTTTGTTGAGAACTGAAAACTTCCTTCTTAGAGTGAGCAACCTCAATCCCAAGGAAGA
1 AACTTTGTTGAGAAATGAAAACTTCCTTCTTAGAGTGAGCAACCTCAATCCCAAGGAAGA
197046 A
1 A
197047 TTTTAGTCTC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.26
Consensus pattern (60 bp):
AACTTTGTTGAGAAATGAAAACTTCCTTCTTAGAGTGAGCAACCTCAATCCCAAGGAAGA
Found at i:202373 original size:20 final size:20
Alignment explanation
Indices: 202314--202375 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
202304 AAGTGTATGG
* *
202314 ATACACCCTACAGTGTATCC
1 ATACACCATGCAGTGTATCC
*
202334 ATACA--TTG--GTGTA-CC
1 ATACACCATGCAGTGTATCC
202349 AATACACCATGCAGTGTATCC
1 -ATACACCATGCAGTGTATCC
202370 ATACAC
1 ATACAC
202376 ATATGACTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 12
0.69 0.06 0.25
Matches are distributed among these distances:
15 2 0.06
16 10 0.30
18 3 0.09
20 16 0.48
21 2 0.06
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (20 bp):
ATACACCATGCAGTGTATCC
Found at i:202430 original size:20 final size:20
Alignment explanation
Indices: 202405--202498 Score: 83
Period size: 20 Copynumber: 4.9 Consensus size: 20
202395 GAATGTAATT
202405 AGTGTA-CCGATACACCCTGC
1 AGTGTATCC-ATACACCCTGC
202425 AGTGTATCCATACA--CTG-
1 AGTGTATCCATACACCCTGC
*
202442 -GTGTA-CCGATACACTCTGC
1 AGTGTATCC-ATACACCCTGC
* * *
202461 AGTATATACATACACCCTGT
1 AGTGTATCCATACACCCTGC
*
202481 AATGTATCCATACACCCT
1 AGTGTATCCATACACCCT
202499 AGGTGCAACG
Statistics
Matches: 60, Mismatches: 7, Indels: 14
0.74 0.09 0.17
Matches are distributed among these distances:
15 2 0.03
16 10 0.17
18 6 0.10
20 39 0.65
21 3 0.05
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.27
Consensus pattern (20 bp):
AGTGTATCCATACACCCTGC
Found at i:202453 original size:16 final size:17
Alignment explanation
Indices: 202405--202456 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 17
202395 GAATGTAATT
202405 AGTGTACCGATACACCCTG
1 AGTGTACCGATACA--CTG
202424 CAGTGTATCC-ATACACTG
1 -AGTGTA-CCGATACACTG
202442 -GTGTACCGATACACT
1 AGTGTACCGATACACT
202457 CTGCAGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 12 0.40
18 3 0.10
20 11 0.37
21 2 0.07
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (17 bp):
AGTGTACCGATACACTG
Found at i:202453 original size:36 final size:36
Alignment explanation
Indices: 202406--202475 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
202396 AATGTAATTA
* *
202406 GTGTACCGATACACCCTGCAGTGTATCCATACACTG
1 GTGTACCGATACACCCTGCAGTATATACATACACTG
*
202442 GTGTACCGATACACTCTGCAGTATATACATACAC
1 GTGTACCGATACACCCTGCAGTATATACATACAC
202476 CCTGTAATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (36 bp):
GTGTACCGATACACCCTGCAGTATATACATACACTG
Found at i:205599 original size:21 final size:21
Alignment explanation
Indices: 205557--205619 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
205547 TATATTTTCC
205557 AACAATTGGTAT-C--TTCTT
1 AACAATTGGTATCCTTTTCTT
*
205575 AACAATTGGTATCCTTTTGTT
1 AACAATTGGTATCCTTTTCTT
*
205596 AACAATTGGTATCTTTTTCATT
1 AACAATTGGTATCCTTTTC-TT
205618 AA
1 AA
205620 ACATTTTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 12 0.32
19 1 0.03
21 21 0.55
22 4 0.11
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (21 bp):
AACAATTGGTATCCTTTTCTT
Found at i:205950 original size:20 final size:18
Alignment explanation
Indices: 205925--205975 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
205915 GAATGTAATT
205925 AGTGTACCGATACACCCTG
1 AGTGTACCGATACA-CCTG
205944 CAGTGTATCC-ATACA-CTG
1 -AGTGTA-CCGATACACCTG
205962 A-TGTACCGATACAC
1 AGTGTACCGATACAC
205976 TCTGTAGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.07
16 9 0.32
17 1 0.04
18 3 0.11
20 11 0.39
21 2 0.07
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (18 bp):
AGTGTACCGATACACCTG
Found at i:205973 original size:16 final size:18
Alignment explanation
Indices: 205925--205976 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 18
205915 GAATGTAATT
205925 AGTGTACCGATACACCCTGC
1 AGTGTACCGATACA--CTGC
205945 AGTGTATCC-ATACACTG-
1 AGTGTA-CCGATACACTGC
205962 A-TGTACCGATACACT
1 AGTGTACCGATACACT
205977 CTGTAGTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.07
16 11 0.37
17 1 0.03
18 3 0.10
20 11 0.37
21 2 0.07
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (18 bp):
AGTGTACCGATACACTGC
Found at i:205974 original size:36 final size:36
Alignment explanation
Indices: 205927--205995 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 36
205917 ATGTAATTAG
*
205927 TGTACCGATACACCCTGCAGTGTATCCATACACTGA
1 TGTACCGATACACCCTGCAGTATATCCATACACTGA
* * *
205963 TGTACCGATACACTCTGTAGTATATCTATACAC
1 TGTACCGATACACCCTGCAGTATATCCATACAC
205996 CTTGGCTGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (36 bp):
TGTACCGATACACCCTGCAGTATATCCATACACTGA
Done.