Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 158 of 172
Found at i:51757430 original size:66 final size:67
Alignment explanation
Indices: 51757346--51757470 Score: 191
Period size: 66 Copynumber: 1.9 Consensus size: 67
51757336 TTTTTTACGA
* * *
51757346 AAATAATATATATAATTTATTAAGAAACTACAAAC-TAGATTATAAATATATATGTGAAAGAATC
1 AAATAATATATACAATTTATCAAGAAACTA-AAACTTAGATTATAAATATATATGCGAAAGAATC
51757410 TTT
65 TTT
*
51757413 AAAT-ATATATACAATTTATCAGGAAACTAAAACTTAGATTATAAATATATATGCGAAA
1 AAATAATATATACAATTTATCAAGAAACTAAAACTTAGATTATAAATATATATGCGAAA
51757471 AATATTTTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
65 4 0.08
66 45 0.85
67 4 0.08
ACGTcount: A:0.51, C:0.07, G:0.08, T:0.34
Consensus pattern (67 bp):
AAATAATATATACAATTTATCAAGAAACTAAAACTTAGATTATAAATATATATGCGAAAGAATCT
TT
Found at i:51760755 original size:32 final size:31
Alignment explanation
Indices: 51760682--51760759 Score: 88
Period size: 32 Copynumber: 2.5 Consensus size: 31
51760672 TACGGTTTAG
* *
51760682 ATTAAGATTAAAATTTCAAATTTAAAAAAGC
1 ATTAAGATTAAAATTTCAAATTCAAAAAAAC
*
51760713 A-TAAGAATTAAAATTGATC-AATTCAAAAAAAT
1 ATTAAG-ATTAAAATT--TCAAATTCAAAAAAAC
51760745 ATTAAGATTAAAATT
1 ATTAAGATTAAAATT
51760760 AATTAAATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 4 0.10
31 10 0.25
32 20 0.50
33 6 0.15
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.32
Consensus pattern (31 bp):
ATTAAGATTAAAATTTCAAATTCAAAAAAAC
Found at i:51762546 original size:14 final size:13
Alignment explanation
Indices: 51762529--51762573 Score: 56
Period size: 12 Copynumber: 3.4 Consensus size: 13
51762519 TAGTCTATCC
51762529 TAAATTAATAAAA
1 TAAATTAATAAAA
51762542 TTAAATTAAATAAAA
1 -TAAATT-AATAAAA
*
51762557 TAAA-TAATAAAG
1 TAAATTAATAAAA
51762569 TAAAT
1 TAAAT
51762574 ATTATCTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 10 0.36
13 1 0.04
14 10 0.36
15 7 0.25
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (13 bp):
TAAATTAATAAAA
Found at i:51770335 original size:46 final size:46
Alignment explanation
Indices: 51770231--51770335 Score: 201
Period size: 46 Copynumber: 2.3 Consensus size: 46
51770221 TGGTCTTGTT
*
51770231 CATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1 CATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
51770277 CATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
1 CATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
51770323 CATTTCATATCAG
1 CATTTCATATCAG
51770336 AGAGCACACT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.37
Consensus pattern (46 bp):
CATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACA
Found at i:51774685 original size:5 final size:5
Alignment explanation
Indices: 51774668--51774709 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
51774658 ATCCTAAATT
* *
51774668 AATAA AATTA AATAA AATAA AATAA TAA-AT AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA -AATAA AATAA AATAA AA
51774710 AAATATTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 2 0.06
5 27 0.87
6 2 0.06
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:51774688 original size:15 final size:14
Alignment explanation
Indices: 51774668--51774714 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
51774658 ATCCTAAATT
51774668 AATAAAATTAAATAA
1 AATAAAA-TAAATAA
51774683 AATAAAAT-AATAAA
1 AATAAAATAAAT-AA
51774697 TAATAAAATAAA-AA
1 -AATAAAATAAATAA
51774711 AATA
1 AATA
51774715 TTATCTTCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 7 0.24
14 5 0.17
15 15 0.52
16 2 0.07
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:51779921 original size:17 final size:17
Alignment explanation
Indices: 51779882--51779921 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
51779872 TCAAATATAG
*
51779882 TATTATTATTTTTAAAA
1 TATTTTTATTTTTAAAA
51779899 TAATTTTTATTTTTAAAA
1 T-ATTTTTATTTTTAAAA
51779917 TATTT
1 TATTT
51779922 AAATATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTTTTATTTTTAAAA
Found at i:51779987 original size:33 final size:34
Alignment explanation
Indices: 51779950--51780040 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 34
51779940 AATGTTTAAT
*
51779950 ATTATTAAAAATAAATATTTAATAATATAA-TTA
1 ATTATTAATAATAAATATTTAATAATATAATTTA
** * *
51779983 ATTATTTTTAATAAATTATTTAAATATTATAATTTT
1 ATTATTAATAATAAA-TATTT-AATAATATAATTTA
51780019 ATT-TTAATAATAAAT-TTTAATA
1 ATTATTAATAATAAATATTTAATA
51780041 GTAATGATTT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
32 4 0.08
33 15 0.31
34 6 0.12
35 18 0.38
36 5 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
ATTATTAATAATAAATATTTAATAATATAATTTA
Found at i:51780005 original size:22 final size:22
Alignment explanation
Indices: 51779967--51780010 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
51779957 AAAATAAATA
*
51779967 TTTAATAATATAATTAATTATT
1 TTTAATAATATAATTAAATATT
*
51779989 TTTAATAA-ATTATTTAAATATT
1 TTTAATAATA-TAATTAAATATT
51780011 ATAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAATAATATAATTAAATATT
Found at i:51780022 original size:19 final size:18
Alignment explanation
Indices: 51779998--51780037 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
51779988 TTTTAATAAA
*
51779998 TTATTTAAATATTATAATT
1 TTATTTAAATAATA-AATT
*
51780017 TTATTTTAATAATAAATT
1 TTATTTAAATAATAAATT
51780035 TTA
1 TTA
51780038 ATAGTAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTATTTAAATAATAAATT
Found at i:51780113 original size:23 final size:24
Alignment explanation
Indices: 51780060--51780113 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
51780050 TTAAATTTCA
51780060 AATAATATTTTAAATTATATATTT
1 AATAATATTTTAAATTATATATTT
* *
51780084 AAGAATA-TTTATATTA-ATATTTT
1 AATAATATTTTAAATTATATA-TTT
51780107 AATAATA
1 AATAATA
51780114 AATATATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 3 0.12
23 17 0.65
24 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
AATAATATTTTAAATTATATATTT
Found at i:51783150 original size:19 final size:18
Alignment explanation
Indices: 51783122--51783158 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
51783112 TCCAAGATAA
51783122 AATTTTGAAATAATATTT
1 AATTTTGAAATAATATTT
*
51783140 AATTATTGAAATATTATTT
1 AATT-TTGAAATAATATTT
51783159 TACACAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
AATTTTGAAATAATATTT
Found at i:51785102 original size:18 final size:18
Alignment explanation
Indices: 51785081--51785182 Score: 98
Period size: 18 Copynumber: 5.7 Consensus size: 18
51785071 TTTAACAATC
51785081 AATTATTCAGTAAC-GATA
1 AATTATTCAGTAACAG-TA
*
51785099 AATTATTCAGTAACAGTC
1 AATTATTCAGTAACAGTA
* *
51785117 AATTATTCAGTAGCAGTC
1 AATTATTCAGTAACAGTA
* * *
51785135 AGTTATCCAGTAACAGTC
1 AATTATTCAGTAACAGTA
* * *
51785153 AGTTATTCAGTAGCAGTC
1 AATTATTCAGTAACAGTA
*
51785171 AGTTATTCAGTA
1 AATTATTCAGTA
51785183 CCTTTATTTA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
18 75 0.99
19 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
AATTATTCAGTAACAGTA
Found at i:51785170 original size:36 final size:36
Alignment explanation
Indices: 51785073--51785182 Score: 150
Period size: 36 Copynumber: 3.1 Consensus size: 36
51785063 TAGTACTCTT
* * * *
51785073 TAACAATCAATTATTCAGTAAC-GATAAATTATTCAG
1 TAACAGTCAATTATTCAGTAGCAG-TCAGTTATTCAG
*
51785109 TAACAGTCAATTATTCAGTAGCAGTCAGTTATCCAG
1 TAACAGTCAATTATTCAGTAGCAGTCAGTTATTCAG
*
51785145 TAACAGTCAGTTATTCAGTAGCAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAGTAGCAGTCAGTTATTCAG
51785181 TA
1 TA
51785183 CCTTTATTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
36 65 0.98
37 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (36 bp):
TAACAGTCAATTATTCAGTAGCAGTCAGTTATTCAG
Found at i:51786423 original size:8 final size:8
Alignment explanation
Indices: 51786407--51786443 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
51786397 CTTACCTATT
*
51786407 AAACTTTC
1 AAACCTTC
51786415 AAACCTTC
1 AAACCTTC
51786423 AAACCTTC
1 AAACCTTC
51786431 AAACCTTC
1 AAACCTTC
51786439 AAACC
1 AAACC
51786444 CGAATTCTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.24
Consensus pattern (8 bp):
AAACCTTC
Found at i:51789194 original size:11 final size:11
Alignment explanation
Indices: 51789163--51789197 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
51789153 GAGAATAAAC
51789163 ATAAAAAGAAA
1 ATAAAAAGAAA
*
51789174 ATTTAAAAGAAA
1 A-TAAAAAGAAA
51789186 ATAAAAAGAAA
1 ATAAAAAGAAA
51789197 A
1 A
51789198 AGAAATCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (11 bp):
ATAAAAAGAAA
Found at i:51801021 original size:9 final size:9
Alignment explanation
Indices: 51801007--51801052 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
51800997 AAAGGCTTAT
51801007 AATAAAATA
1 AATAAAATA
51801016 AATAAAATA
1 AATAAAATA
51801025 AAGT-AAATA
1 AA-TAAAATA
51801034 AAT-AAAT-
1 AATAAAATA
51801041 AATAATAATA
1 AATAA-AATA
51801051 AA
1 AA
51801053 AGAGTAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
7 3 0.09
8 6 0.18
9 21 0.64
10 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (9 bp):
AATAAAATA
Found at i:51801026 original size:14 final size:14
Alignment explanation
Indices: 51801007--51801053 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
51800997 AAAGGCTTAT
51801007 AATAAAATAAATAA
1 AATAAAATAAATAA
*
51801021 AATAAAGTAAAT-A
1 AATAAAATAAATAA
51801034 AAT-AAAT-AATAA
1 AATAAAATAAATAA
51801046 TAATAAAA
1 -AATAAAA
51801054 GAGTAATGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 3 0.11
12 4 0.14
13 7 0.25
14 14 0.50
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:51804792 original size:28 final size:27
Alignment explanation
Indices: 51804754--51804808 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 27
51804744 ATTGGAGAGT
51804754 AAAATTTTGGTAGGAAATGGAGTTTGGG
1 AAAATTTTGGTAGGAAAT-GAGTTTGGG
* *
51804782 AAAATTTTGGTGGGAAATGATTTTGGG
1 AAAATTTTGGTAGGAAATGAGTTTGGG
51804809 TAGATTGGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 8 0.32
28 17 0.68
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (27 bp):
AAAATTTTGGTAGGAAATGAGTTTGGG
Found at i:51806249 original size:29 final size:29
Alignment explanation
Indices: 51806217--51806294 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
51806207 ATGTTGATGA
51806217 TATTTTATAATTATTAATTAGATAAATAT
1 TATTTTATAATTATTAATTAGATAAATAT
* **
51806246 TATTTTATTAATATTTTAA--AGATATTTAT
1 TATTTTA-TAAT-TATTAATTAGATAAATAT
* *
51806275 TATTTTATTATTATTTATTA
1 TATTTTATAATTATTAATTA
51806295 AGTATAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
27 4 0.10
28 3 0.08
29 23 0.59
30 4 0.10
31 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (29 bp):
TATTTTATAATTATTAATTAGATAAATAT
Found at i:51806898 original size:302 final size:302
Alignment explanation
Indices: 51806352--51806956 Score: 1210
Period size: 302 Copynumber: 2.0 Consensus size: 302
51806342 CAAACCAACG
51806352 TAAGAAGAAGAGAGAAAGAAAAAAAGTTTTACTTTCTTTACAATTTGGTCCTTTCACCAAAAATC
1 TAAGAAGAAGAGAGAAAGAAAAAAAGTTTTACTTTCTTTACAATTTGGTCCTTTCACCAAAAATC
51806417 CACCATTTTCACCTGGAAATCCAAAGAATTTCCATAGCCATCAAGAGAGAAAGATCATAAGGAGA
66 CACCATTTTCACCTGGAAATCCAAAGAATTTCCATAGCCATCAAGAGAGAAAGATCATAAGGAGA
51806482 CTATGGGGAGCTAGAATATTAGGTTAGATTCAAGAAATAGAAGCTGGAAGAGAGAGAAAATCAAG
131 CTATGGGGAGCTAGAATATTAGGTTAGATTCAAGAAATAGAAGCTGGAAGAGAGAGAAAATCAAG
51806547 TTAAAGATTGAAATTAATGGAACAAGGTAAGAGCATCAAGATTTCAATATATTTTTAAGATTAAT
196 TTAAAGATTGAAATTAATGGAACAAGGTAAGAGCATCAAGATTTCAATATATTTTTAAGATTAAT
51806612 ATTATTGAAAAAGCATGGAATTGATGTTAATGTAAAGTTTTA
261 ATTATTGAAAAAGCATGGAATTGATGTTAATGTAAAGTTTTA
51806654 TAAGAAGAAGAGAGAAAGAAAAAAAGTTTTACTTTCTTTACAATTTGGTCCTTTCACCAAAAATC
1 TAAGAAGAAGAGAGAAAGAAAAAAAGTTTTACTTTCTTTACAATTTGGTCCTTTCACCAAAAATC
51806719 CACCATTTTCACCTGGAAATCCAAAGAATTTCCATAGCCATCAAGAGAGAAAGATCATAAGGAGA
66 CACCATTTTCACCTGGAAATCCAAAGAATTTCCATAGCCATCAAGAGAGAAAGATCATAAGGAGA
51806784 CTATGGGGAGCTAGAATATTAGGTTAGATTCAAGAAATAGAAGCTGGAAGAGAGAGAAAATCAAG
131 CTATGGGGAGCTAGAATATTAGGTTAGATTCAAGAAATAGAAGCTGGAAGAGAGAGAAAATCAAG
51806849 TTAAAGATTGAAATTAATGGAACAAGGTAAGAGCATCAAGATTTCAATATATTTTTAAGATTAAT
196 TTAAAGATTGAAATTAATGGAACAAGGTAAGAGCATCAAGATTTCAATATATTTTTAAGATTAAT
51806914 ATTATTGAAAAAGCATGGAATTGATGTTAATGTAAAGTTTTA
261 ATTATTGAAAAAGCATGGAATTGATGTTAATGTAAAGTTTTA
51806956 T
1 T
51806957 TATATATGGT
Statistics
Matches: 303, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
302 303 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.28
Consensus pattern (302 bp):
TAAGAAGAAGAGAGAAAGAAAAAAAGTTTTACTTTCTTTACAATTTGGTCCTTTCACCAAAAATC
CACCATTTTCACCTGGAAATCCAAAGAATTTCCATAGCCATCAAGAGAGAAAGATCATAAGGAGA
CTATGGGGAGCTAGAATATTAGGTTAGATTCAAGAAATAGAAGCTGGAAGAGAGAGAAAATCAAG
TTAAAGATTGAAATTAATGGAACAAGGTAAGAGCATCAAGATTTCAATATATTTTTAAGATTAAT
ATTATTGAAAAAGCATGGAATTGATGTTAATGTAAAGTTTTA
Found at i:51811141 original size:6 final size:6
Alignment explanation
Indices: 51811125--51811154 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
51811115 TAAATTAAAG
*
51811125 TAAAAA CAAAAA TAAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA
51811155 AATGGCTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.13
Consensus pattern (6 bp):
TAAAAA
Found at i:51826945 original size:13 final size:13
Alignment explanation
Indices: 51826927--51826953 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
51826917 AAGTAATAGT
51826927 AATAATCATAAAA
1 AATAATCATAAAA
51826940 AATAATCATAAAA
1 AATAATCATAAAA
51826953 A
1 A
51826954 TGCTAACATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAATCATAAAA
Found at i:51835659 original size:42 final size:41
Alignment explanation
Indices: 51835606--51835749 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 41
51835596 TGGTACACAT
*
51835606 AGTGCATCATTGGATAAACCGAAGCAATCATGCTGACACGTA
1 AGTGCATCATTGGATAAACCGAAGCAATCAT-CTGGCACGTA
** * *
51835648 AGTGCATCATTGGATGTACCAAAGAAAATACA-CTGGCACGTA
1 AGTGCATCATTGGATAAACCGAAG-CAAT-CATCTGGCACGTA
* ** * * * *
51835690 AGTGCACCATCAGATATACTGAAGCAATTATACTGGCACATA
1 AGTGCATCATTGGATAAACCGAAGCAATCAT-CTGGCACGTA
*
51835732 AGTGCATCATTGAATAAA
1 AGTGCATCATTGGATAAA
51835750 TCAAAGTACA
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
40 1 0.01
41 3 0.04
42 70 0.89
43 3 0.04
44 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (41 bp):
AGTGCATCATTGGATAAACCGAAGCAATCATCTGGCACGTA
Found at i:51836771 original size:29 final size:29
Alignment explanation
Indices: 51836732--51836791 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
51836722 CCGTAGTGTT
*
51836732 AGGTTATGTTTT-CTT-TTCTTTTCATTTTA
1 AGGTTAGGTTTTCCTTCTTCTTTT--TTTTA
51836761 AGGTTAGGTTTTCCTTCTTCTTTTTTTTA
1 AGGTTAGGTTTTCCTTCTTCTTTTTTTTA
51836790 AG
1 AG
51836792 TATATTTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 18 0.64
30 3 0.11
31 7 0.25
ACGTcount: A:0.13, C:0.12, G:0.13, T:0.62
Consensus pattern (29 bp):
AGGTTAGGTTTTCCTTCTTCTTTTTTTTA
Found at i:51838927 original size:11 final size:11
Alignment explanation
Indices: 51838913--51838939 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
51838903 ATTTATCATA
51838913 TATTATGATTT
1 TATTATGATTT
51838924 TATTATGATTT
1 TATTATGATTT
51838935 TATTA
1 TATTA
51838940 CGAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (11 bp):
TATTATGATTT
Found at i:51844101 original size:13 final size:14
Alignment explanation
Indices: 51844083--51844121 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
51844073 CTATTTTAAT
51844083 TTTTTTAAATA-AA
1 TTTTTTAAATATAA
*
51844096 TTTTTTAATTATAA
1 TTTTTTAAATATAA
*
51844110 TTTTTAAAATAT
1 TTTTTTAAATAT
51844122 TGTTTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTTTAAATATAA
Found at i:51844119 original size:27 final size:27
Alignment explanation
Indices: 51844083--51844137 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
51844073 CTATTTTAAT
*
51844083 TTTTTTAAATAAAT-TTTTTAATTATAA
1 TTTTTAAAAT-AATGTTTTTAATTATAA
* *
51844110 TTTTTAAAATATTGTTTTTTATTATAA
1 TTTTTAAAATAATGTTTTTAATTATAA
51844137 T
1 T
51844138 CCAAATTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 2 0.08
27 22 0.92
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (27 bp):
TTTTTAAAATAATGTTTTTAATTATAA
Found at i:51847037 original size:11 final size:11
Alignment explanation
Indices: 51847021--51847051 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
51847011 AAGTATGGGT
51847021 AGGTATGGGAA
1 AGGTATGGGAA
*
51847032 AGGTATGGGCA
1 AGGTATGGGAA
51847043 AGGTATGGG
1 AGGTATGGG
51847052 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:51849181 original size:11 final size:11
Alignment explanation
Indices: 51849165--51849195 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
51849155 AAGTATGGGT
51849165 AGGTATGGGAA
1 AGGTATGGGAA
*
51849176 AGGTATGGGCA
1 AGGTATGGGAA
51849187 AGGTATGGG
1 AGGTATGGG
51849196 GTATGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.48, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:51850193 original size:17 final size:17
Alignment explanation
Indices: 51850173--51850206 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51850163 CTTAAATTTA
*
51850173 ATAATTATATAAAATAT
1 ATAATGATATAAAATAT
*
51850190 ATAATGATATAATATAT
1 ATAATGATATAAAATAT
51850207 TGATGAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (17 bp):
ATAATGATATAAAATAT
Found at i:51852023 original size:14 final size:14
Alignment explanation
Indices: 51852004--51852049 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
51851994 ACTTCATTTC
*
51852004 GAGAAGAAAAGAAG
1 GAGAAGAAGAGAAG
51852018 GAGAAGAAGAGAAG
1 GAGAAGAAGAGAAG
*
51852032 AAGAAGAAGGAGAAG
1 GAGAAGAA-GAGAAG
51852047 GAG
1 GAG
51852050 GCGGCACTGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
GAGAAGAAGAGAAG
Found at i:51852025 original size:3 final size:3
Alignment explanation
Indices: 51852005--51852046 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
51851995 CTTCATTTCG
* *
51852005 AGA AGA A-A AGA AGG AGA AGA AG- AGA AGA AGA AGA AGG AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
51852047 GAGGCGGCAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:51852027 original size:17 final size:17
Alignment explanation
Indices: 51852005--51852045 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
51851995 CTTCATTTCG
*
51852005 AGAAGAAAAGAAGGAGA
1 AGAAGAAAAGAAGAAGA
*
51852022 AGAAGAGAAGAAGAAGA
1 AGAAGAAAAGAAGAAGA
*
51852039 AGGAGAA
1 AGAAGAA
51852046 GGAGGCGGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (17 bp):
AGAAGAAAAGAAGAAGA
Found at i:51852585 original size:17 final size:16
Alignment explanation
Indices: 51852562--51852601 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 16
51852552 TATCTTAATG
51852562 AAAAAATAAAATACGA
1 AAAAAATAAAATACGA
51852578 AAAGAAATAAAATACGA
1 AAA-AAATAAAATACGA
51852595 AAAAAAT
1 AAAAAAT
51852602 TTTGGGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAATACGA
Found at i:51852668 original size:17 final size:16
Alignment explanation
Indices: 51852645--51852684 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 16
51852635 AAAATAATAT
51852645 AAAAAATAAAATACGA
1 AAAAAATAAAATACGA
51852661 AAAGAAATAAAATACGA
1 AAA-AAATAAAATACGA
51852678 AAAAAAT
1 AAAAAAT
51852685 TTTGGGGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 7 0.30
17 16 0.70
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.12
Consensus pattern (16 bp):
AAAAAATAAAATACGA
Found at i:51852701 original size:83 final size:83
Alignment explanation
Indices: 51852562--51852746 Score: 370
Period size: 83 Copynumber: 2.2 Consensus size: 83
51852552 TATCTTAATG
51852562 AAAAAATAAAATACGAAAAGAAATAAAATACGAAAAAAATTTTGGGGAAAGTGGTGCTGGTGAGT
1 AAAAAATAAAATACGAAAAGAAATAAAATACGAAAAAAATTTTGGGGAAAGTGGTGCTGGTGAGT
51852627 TATTTACTAAAATAATAT
66 TATTTACTAAAATAATAT
51852645 AAAAAATAAAATACGAAAAGAAATAAAATACGAAAAAAATTTTGGGGAAAGTGGTGCTGGTGAGT
1 AAAAAATAAAATACGAAAAGAAATAAAATACGAAAAAAATTTTGGGGAAAGTGGTGCTGGTGAGT
51852710 TATTTACTAAAATAATAT
66 TATTTACTAAAATAATAT
51852728 AAAAAATAAAATACGAAAA
1 AAAAAATAAAATACGAAAA
51852747 TAGTATATTT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 102 1.00
ACGTcount: A:0.55, C:0.05, G:0.17, T:0.24
Consensus pattern (83 bp):
AAAAAATAAAATACGAAAAGAAATAAAATACGAAAAAAATTTTGGGGAAAGTGGTGCTGGTGAGT
TATTTACTAAAATAATAT
Found at i:51853227 original size:150 final size:149
Alignment explanation
Indices: 51852709--51853480 Score: 1276
Period size: 149 Copynumber: 5.2 Consensus size: 149
51852699 TGCTGGTGAG
* *
51852709 TTATTTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAA
1 TTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGA
* * * *
51852774 AAAATTTAAAAATACAAACAAATGGCCAAAATGAGGGTTATTTACTAAATTATTAAAAAAAACTA
66 AAATTTTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAACACTA
*
51852839 AAATAATACATTTAAAACA
131 AAATAATACATTTGAAACA
* *
51852858 TTATGTACTAAAATAATGTAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGA
1 TTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGA
* *
51852923 AAATTTAAAAAATACAAACAAAGGGACAAAATCAGGGTTATTTACTAAATTATTAAAAAACACTA
66 AAATTTTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAACACTA
51852988 AAATAATACATTTGAAACA
131 AAATAATACATTTGAAACA
*
51853007 TTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCGA
1 TTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGA
*
51853072 AAATTTTAAAAATGCAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAACACTA
66 AAATTTTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAACACTA
51853137 AAATAATACATTTGAAACA
131 AAATAATACATTTGAAACA
51853156 TTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCG
1 TTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCG
* * *
51853221 AAAA-TTTAAAAATTACAAACAAAGGGCCAAAATCAGGATTATTTACTAAATTATTATAAGACAA
65 AAAATTTTAAAAA-TACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAAC-A
51853285 CTAAAATAATACATTTGAAACA
128 CTAAAATAATACATTTGAAACA
* ***
51853307 TTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAATTTTA
1 TTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCG
* * *
51853372 AAAATTTTAAAAATGCAAACAAATGGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAAAACT
65 AAAATTTTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAACACT
* *
51853437 AAAATAGTACATTTGAAATA
130 AAAATAATACATTTGAAACA
51853457 TTATGTACTAAAATAATATAAAAA
1 TTATGTACTAAAATAATATAAAAA
51853481 TTGTGATAGC
Statistics
Matches: 585, Mismatches: 34, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
149 313 0.54
150 133 0.23
151 131 0.22
152 8 0.01
ACGTcount: A:0.56, C:0.08, G:0.07, T:0.29
Consensus pattern (149 bp):
TTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGA
AAATTTTAAAAATACAAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTATTAAAAAACACTA
AAATAATACATTTGAAACA
Found at i:51855122 original size:38 final size:38
Alignment explanation
Indices: 51855074--51855196 Score: 183
Period size: 38 Copynumber: 3.2 Consensus size: 38
51855064 TCGAAATATG
*
51855074 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAAT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* *
51855112 ATATTCGGGTTAAATCCCGCAGGCTTCGTGTTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
* * *
51855150 ATATCCAGGTTAAATCCCGCAGGCCTAGTGCTGGTATT
1 ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
*
51855188 ATATTCGGG
1 ATATCCGGG
51855197 CCTTTGAGCC
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (38 bp):
ATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATT
Found at i:51855288 original size:45 final size:47
Alignment explanation
Indices: 51855187--51855289 Score: 144
Period size: 46 Copynumber: 2.3 Consensus size: 47
51855177 GTGCTGGTAT
*
51855187 TATATTCGGGCC-TTTGAGCCTAGCAGACTATTATGCCGGTGAGACA
1 TATATTCGGGCCTTTTGAGCCTAGCAGACTATAATGCCGGTGAGACA
*
51855233 T-TATTCGGGCCTTTTGAGCCTAGCAGGCTATAATGCCGGTGA-A-A
1 TATATTCGGGCCTTTTGAGCCTAGCAGACTATAATGCCGGTGAGACA
51855277 TGATATT-GGGCCT
1 T-ATATTCGGGCCT
51855290 CGGGCCTAGC
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
44 2 0.04
45 17 0.33
46 33 0.63
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.30
Consensus pattern (47 bp):
TATATTCGGGCCTTTTGAGCCTAGCAGACTATAATGCCGGTGAGACA
Found at i:51856395 original size:134 final size:133
Alignment explanation
Indices: 51856234--51856718 Score: 514
Period size: 142 Copynumber: 3.5 Consensus size: 133
51856224 ACAAAAATAA
* * *
51856234 AATACGAAAATAGTATATTTTAAAAAATAAAATCCTAAAGTAAAAAAATACCAACAAAGTGCCAA
1 AATATGAAAATAATATATTTTAAAAAATAAAATCCTAAAATAAAAAAATACCAACAAAGTGCCAA
* *
51856299 AATCAGGGTTATTTACTAAATTATTAAAAAATACTAAAATAATACATTTGAAACATTATGTACTA
66 AATCAGGGTTATTTATTAAATTATTAAAAAA-ACTTAAATAATACATTTGAAACATTATGTACTA
51856364 AAAT
130 AAAT
* *
51856368 AATATGAAAATAATATATTTTAAAAAATAAAATCCAAAAAT-AAAAAATACCAACAAAGTGTCAA
1 AATATGAAAATAATATATTTTAAAAAATAAAATCCTAAAATAAAAAAATACCAACAAAGTGCCAA
* *
51856432 AATCAAGGTTATTTATTAAATTAATATAATAAAACACTTTAATAATACATTTGAAACATTATGTA
66 AATCAGGGTTATTTATTAAATT-AT-TAA-AAAA-ACTTAAATAATACATTTGAAACATTATGTA
51856497 CTAAAAT
127 CTAAAAT
* *** ***
51856504 AATATAAAAATAA-A-ATACAAAAATAATATATTTTTAAAAATAAAATAAAAAAATACCAACAAA
1 AATATGAAAATAATATATTTTAAAA-AATA-A-----AATCCTAAAATAAAAAAATACCAACAAA
* * * **
51856567 GTGCTAAAATTAGGGTTATTTATTAAATTAATACAAAAAACTTAAATAATACATTACAAA-ATTA
59 GTGCCAAAATCAGGGTTATTTATTAAATTATTA-AAAAAACTTAAATAATACATTTGAAACATTA
*
51856631 TATACTAAAATAACAT
123 TGTACT---A-AA-AT
* *
51856647 AAAAAATATGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAAAAAT--CAACAAAGGG
1 ----AATATGAAAATAATATATTTTAAAAAATAAAATCCTAAAATAAAAAAATACCAACAAAGTG
51856710 CCAAAATCA
62 CCAAAATCA
51856719 CCGAACAAAA
Statistics
Matches: 290, Mismatches: 38, Indels: 40
0.79 0.10 0.11
Matches are distributed among these distances:
133 42 0.14
134 45 0.16
135 8 0.03
136 52 0.18
138 9 0.03
139 18 0.06
140 22 0.08
141 10 0.03
142 58 0.20
143 2 0.01
147 13 0.04
148 5 0.02
149 6 0.02
ACGTcount: A:0.57, C:0.09, G:0.06, T:0.28
Consensus pattern (133 bp):
AATATGAAAATAATATATTTTAAAAAATAAAATCCTAAAATAAAAAAATACCAACAAAGTGCCAA
AATCAGGGTTATTTATTAAATTATTAAAAAAACTTAAATAATACATTTGAAACATTATGTACTAA
AAT
Found at i:51856547 original size:136 final size:132
Alignment explanation
Indices: 51856276--51856682 Score: 445
Period size: 136 Copynumber: 3.0 Consensus size: 132
51856266 TCCTAAAGTA
* *
51856276 AAAAAATACCAACAAAGTGCCAAAATCAGGGTTATTTACTAAATT-AT-TAAAAAATACTAAAAT
1 AAAAAATACCAACAAAGTG-CAAAATCAGGGTTATTTATTAAATTAATATAAAAAA-ACTTAAAT
* * ** *
51856339 AATACATTTGAAACATTATGTACTAAAATAATATGAAAATAATATATTTTAAAA-AATA-AAATC
64 AATACATTTGAAACATTATGTACTAAAATAATAT-AAAATAA-A-ATATAAAAATAATATATTTT
*
51856402 CAAAAAT
126 AAAAAAT
* *
51856409 AAAAAATACCAACAAAGTGTCAAAATCAAGGTTATTTATTAAATTAATATAATAAAACACTTTAA
1 AAAAAATACCAACAAAGTG-CAAAATCAGGGTTATTTATTAAATTAATATAA-AAAA-ACTTAAA
*
51856474 TAATACATTTGAAACATTATGTACTAAAATAATATAAAAATAAAATACAAAAATAATATATTTTT
63 TAATACATTTGAAACATTATGTACTAAAATAATAT-AAAATAAAATATAAAAATAATATA-TTTT
51856539 AAAAATAAAAT
126 ---AA-AAAAT
* *
51856550 AAAAAAATACCAACAAAGTGCTAAAATTAGGGTTATTTATTAAATTAATA-CAAAAAACTTAAAT
1 -AAAAAATACCAACAAAGTGC-AAAATCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAAT
** * * *
51856614 AATACATTACAAA-ATTATATACTAAAATAACAT--AA-AAAATATGAAAATAATATATTTTAAA
64 AATACATTTGAAACATTATGTACTAAAATAATATAAAATAAAATATAAAAATAATATATTTTAAA
51856675 AAAT
129 AAAT
51856679 AAAA
1 AAAA
51856683 TCCGAAAATA
Statistics
Matches: 238, Mismatches: 24, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
128 4 0.02
129 5 0.02
130 2 0.01
133 46 0.19
134 25 0.11
135 10 0.04
136 52 0.22
137 1 0.00
138 18 0.08
139 18 0.08
140 5 0.02
141 7 0.03
142 45 0.19
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.29
Consensus pattern (132 bp):
AAAAAATACCAACAAAGTGCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAATAA
TACATTTGAAACATTATGTACTAAAATAATATAAAATAAAATATAAAAATAATATATTTTAAAAA
AT
Found at i:51860683 original size:18 final size:17
Alignment explanation
Indices: 51860654--51860701 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
51860644 ATTTAAATAC
*
51860654 ATTACAACATTAATCTA
1 ATTAAAACATTAATCTA
51860671 ATTAAATACATTAATCTA
1 ATTAAA-ACATTAATCTA
*
51860689 ATTAGAACATTAA
1 ATTAAAACATTAA
51860702 ATATATGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.35
Consensus pattern (17 bp):
ATTAAAACATTAATCTA
Found at i:51862737 original size:18 final size:18
Alignment explanation
Indices: 51862714--51862749 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
51862704 AGCCGGTGAG
51862714 TAAGAAGTATTTTAAGGT
1 TAAGAAGTATTTTAAGGT
51862732 TAAGAAGTATTTTAAGGT
1 TAAGAAGTATTTTAAGGT
51862750 ACTTTGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.39
Consensus pattern (18 bp):
TAAGAAGTATTTTAAGGT
Found at i:51864511 original size:26 final size:26
Alignment explanation
Indices: 51864482--51864536 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
51864472 CCAACAATCC
*
51864482 TAATAATAGTTTTTTACTAACAATAA
1 TAATAAGAGTTTTTTACTAACAATAA
51864508 TAATAAGAGTTTTTTACTAACAATAA
1 TAATAAGAGTTTTTTACTAACAATAA
51864534 TAA
1 TAA
51864537 CCAACAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.40
Consensus pattern (26 bp):
TAATAAGAGTTTTTTACTAACAATAA
Found at i:51864661 original size:17 final size:18
Alignment explanation
Indices: 51864630--51864672 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
51864620 AAATTATACA
*
51864630 TTCTCTT-TTCTTTTTTT
1 TTCTCTTCTCCTTTTTTT
51864647 TTC-CTTCTCCTTTTTTT
1 TTCTCTTCTCCTTTTTTT
51864664 TTCTCTTCT
1 TTCTCTTCT
51864673 TCTCCTTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 3 0.13
17 15 0.65
18 5 0.22
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTCTTCTCCTTTTTTT
Found at i:51864664 original size:21 final size:22
Alignment explanation
Indices: 51864630--51864679 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
51864620 AAATTATACA
*
51864630 TTCT-CTTTTCTTTTT-TTTTCC
1 TTCTCCTTTTCTTTTTCTCTT-C
51864651 TTCTCCTTTT-TTTTTCTCTTC
1 TTCTCCTTTTCTTTTTCTCTTC
51864672 TTCTCCTT
1 TTCTCCTT
51864680 GCTGCTGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (22 bp):
TTCTCCTTTTCTTTTTCTCTTC
Found at i:51886160 original size:16 final size:17
Alignment explanation
Indices: 51886129--51886161 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51886119 TTCATAAGTA
*
51886129 TATATTAATCATTTCAT
1 TATATCAATCATTTCAT
51886146 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
51886162 GCACCATCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:51886507 original size:46 final size:46
Alignment explanation
Indices: 51886442--51886529 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
51886432 TTATCTTTGA
* * *
51886442 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTGT
* *
51886488 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTT
1 CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTT
51886530 ATATCAGGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
CATGATGCCATAGTATCTTTCAACCATGGTCTTACACATTTTCTGT
Found at i:51886959 original size:13 final size:12
Alignment explanation
Indices: 51886930--51886960 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
51886920 AGCAAAATAG
51886930 GTTTTTAGCGGC
1 GTTTTTAGCGGC
51886942 GTTTTTAGCGGC
1 GTTTTTAGCGGC
*
51886954 GCTTTTA
1 GTTTTTA
51886961 AGAAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.16, G:0.29, T:0.45
Consensus pattern (12 bp):
GTTTTTAGCGGC
Found at i:51887709 original size:16 final size:16
Alignment explanation
Indices: 51887688--51887719 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
51887678 ATTATTTTAA
51887688 GGTTTAAGGATTATGG
1 GGTTTAAGGATTATGG
*
51887704 GGTTTAAGGGTTATGG
1 GGTTTAAGGATTATGG
51887720 TTTAAGTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (16 bp):
GGTTTAAGGATTATGG
Found at i:51888021 original size:21 final size:22
Alignment explanation
Indices: 51887975--51888027 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
51887965 GAGTTACAAC
* *
51887975 TTTAAGGGTTTGTGAATTATGG
1 TTTAAGGGTTGGTGAATTAAGG
*
51887997 TTTAAGGGTTGGT-ATTTAAGG
1 TTTAAGGGTTGGTGAATTAAGG
*
51888018 TTTAGGGGTT
1 TTTAAGGGTT
51888028 AAGGGTTACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (22 bp):
TTTAAGGGTTGGTGAATTAAGG
Found at i:51888395 original size:14 final size:14
Alignment explanation
Indices: 51888359--51888395 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
51888349 GAAAAAAATG
51888359 AAATTATTTAGATT
1 AAATTATTTAGATT
51888373 AAATT-TTTAGATT
1 AAATTATTTAGATT
51888386 AAATTATTTA
1 AAATTATTTA
51888396 AGAGATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
AAATTATTTAGATT
Found at i:51892631 original size:15 final size:13
Alignment explanation
Indices: 51892599--51892680 Score: 66
Period size: 13 Copynumber: 6.3 Consensus size: 13
51892589 TTACATAATA
51892599 CATAAATATATAT
1 CATAAATATATAT
51892612 CATAAATATATAT
1 CATAAATATATAT
51892625 CATATAATA-ACT-T
1 CATA-AATATA-TAT
*
51892638 ACATAAATTATATAC
1 -CATAAA-TATATAT
*
51892653 CTTACAA-A-ATA-
1 CATA-AATATATAT
51892664 CATAAATATATAT
1 CATAAATATATAT
51892677 CATA
1 CATA
51892681 TCATAACTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 20
0.71 0.04 0.25
Matches are distributed among these distances:
10 2 0.04
11 4 0.07
12 6 0.11
13 26 0.46
14 15 0.27
15 3 0.05
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:51892651 original size:43 final size:44
Alignment explanation
Indices: 51892604--51892737 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 44
51892594 TAATACATAA
*
51892604 ATATATAT-CATAAATATATATCATATAATAACTTACATAAATT
1 ATATATATACATAAATATATATCATATCATAACTTACATAAATT
* *
51892647 ATATACCTTACAAAATACATAAATATATATCATATCATAACTTACACAACTT
1 ATATA---T-----ATACATAAATATATATCATATCATAACTTACATAAATT
*
51892699 ACATA-ATACATAAATATATATCATATCATAACTTACATA
1 ATATATATACATAAATATATATCATATCATAACTTACATA
51892738 CCTTACATAA
Statistics
Matches: 77, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
43 38 0.49
46 1 0.01
51 2 0.03
52 36 0.47
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (44 bp):
ATATATATACATAAATATATATCATATCATAACTTACATAAATT
Found at i:51892703 original size:36 final size:36
Alignment explanation
Indices: 51892662--51892780 Score: 139
Period size: 36 Copynumber: 3.1 Consensus size: 36
51892652 CCTTACAAAA
*
51892662 TACATAAATATATATCATATCATAACTTACACAACTTACAT
1 TACATAAATATATATCATATCATAACTT--AC-A-TAAC-T
*
51892703 AATACATAAATATATATCATATCATAACTTACATACCT
1 --TACATAAATATATATCATATCATAACTTACATAACT
* *
51892741 TACATAAATGTATATCATAACATAACTTACATAACT
1 TACATAAATATATATCATATCATAACTTACATAACT
51892777 TACA
1 TACA
51892781 AAGCTTACTT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
36 37 0.52
38 1 0.01
39 2 0.03
40 1 0.01
41 2 0.03
43 28 0.39
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.34
Consensus pattern (36 bp):
TACATAAATATATATCATATCATAACTTACATAACT
Found at i:51892737 original size:9 final size:9
Alignment explanation
Indices: 51892725--51892797 Score: 60
Period size: 9 Copynumber: 8.1 Consensus size: 9
51892715 TATATCATAT
51892725 CATAACTTA
1 CATAACTTA
*
51892734 CATACCTTA
1 CATAACTTA
*
51892743 CATAAATGTA
1 CATAACT-TA
* * *
51892753 TATCA-TAA
1 CATAACTTA
51892761 CATAACTTA
1 CATAACTTA
51892770 CATAACTTA
1 CATAACTTA
51892779 CA-AAGCTTA
1 CATAA-CTTA
*
51892788 CTTAACTTA
1 CATAACTTA
51892797 C
1 C
51892798 GTAATACATA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
8 6 0.12
9 37 0.74
10 7 0.14
ACGTcount: A:0.42, C:0.22, G:0.03, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:51892743 original size:43 final size:43
Alignment explanation
Indices: 51892639--51892747 Score: 173
Period size: 43 Copynumber: 2.5 Consensus size: 43
51892629 TAATAACTTA
* * *
51892639 CATAAATTATATACCTTACAAAATACATAAATATATATCATAT
1 CATAACTTACATACCTTACATAATACATAAATATATATCATAT
* *
51892682 CATAACTTACACAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATACCTTACATAATACATAAATATATATCATAT
51892725 CATAACTTACATACCTTACATAA
1 CATAACTTACATACCTTACATAA
51892748 ATGTATATCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (43 bp):
CATAACTTACATACCTTACATAATACATAAATATATATCATAT
Found at i:51896826 original size:31 final size:31
Alignment explanation
Indices: 51896786--51896848 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
51896776 AGATTACGAG
51896786 ATTTAAGTATTGTCCAGAATACTCCAAATTC
1 ATTTAAGTATTGTCCAGAATACTCCAAATTC
* *
51896817 ATTTTAGTATTGTCTAGAATACTCCAAATTC
1 ATTTAAGTATTGTCCAGAATACTCCAAATTC
51896848 A
1 A
51896849 GAATAAGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (31 bp):
ATTTAAGTATTGTCCAGAATACTCCAAATTC
Found at i:51898490 original size:43 final size:43
Alignment explanation
Indices: 51898423--51898535 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
51898413 GTGGAAAAAG
*
51898423 CACCGCTAAAAAGACGTGACTTTTAGCGGCGCTTTTCTCACAAA
1 CACCGCT-AAAAGACGTGACTTTTAGCGGCGCTTTTCCCACAAA
** * *
51898467 TGCCGCTAAAAGTCATGACTTTTAGCGGCGCTTTTCCCACAAA
1 CACCGCTAAAAGACGTGACTTTTAGCGGCGCTTTTCCCACAAA
*
51898510 CACCGCTAAAAGCCGTGACTTTTAGC
1 CACCGCTAAAAGACGTGACTTTTAGC
51898536 AGTGTTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
43 55 0.92
44 5 0.08
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
CACCGCTAAAAGACGTGACTTTTAGCGGCGCTTTTCCCACAAA
Found at i:51903296 original size:18 final size:18
Alignment explanation
Indices: 51903275--51903334 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
51903265 TTTTGTTAAA
51903275 TTTTAATTTTTTAATATTT
1 TTTTAATTTTTTAATA-TT
*
51903294 TTTTAA-TTCTTAATAATT
1 TTTTAATTTTTTAAT-ATT
* * *
51903312 TCTAAATTTTTT-ATAAT
1 TTTTAATTTTTTAATATT
51903329 TTTTAA
1 TTTTAA
51903335 CTAGAATAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
17 6 0.19
18 15 0.47
19 11 0.34
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAATTTTTTAATATT
Found at i:51906002 original size:14 final size:15
Alignment explanation
Indices: 51905985--51906022 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
51905975 TAATTAAATT
51905985 TTTAAATAAA-TACA
1 TTTAAATAAATTACA
* *
51905999 TTTAAAAAAATTATA
1 TTTAAATAAATTACA
51906014 TTTAAATAA
1 TTTAAATAA
51906023 TTTATCAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (15 bp):
TTTAAATAAATTACA
Found at i:51907513 original size:10 final size:10
Alignment explanation
Indices: 51907500--51907532 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
51907490 ATTTTTATAT
51907500 AATATTTTAA
1 AATATTTTAA
51907510 AATATTTT-A
1 AATATTTTAA
51907519 AA-ATTTTAA
1 AATATTTTAA
51907528 AATAT
1 AATAT
51907533 GAATACACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
8 5 0.24
9 6 0.29
10 10 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AATATTTTAA
Found at i:51910895 original size:18 final size:18
Alignment explanation
Indices: 51910874--51910935 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
51910864 AAATCAAATA
51910874 ATTATTTCAAATATCATT
1 ATTATTTCAAATATCATT
** *
51910892 ATTATTT-TTATAT-ATAA
1 ATTATTTCAAATATCAT-T
*
51910909 AATATTTCAAATATCATT
1 ATTATTTCAAATATCATT
*
51910927 ATTTTTTCA
1 ATTATTTCA
51910936 TCTACATTGT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
16 2 0.06
17 10 0.31
18 18 0.56
19 2 0.06
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATTTCAAATATCATT
Found at i:51913183 original size:21 final size:21
Alignment explanation
Indices: 51913138--51913182 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
51913128 CATAAACAAG
*
51913138 AAAAGCCAGGAACTTTCTTTT
1 AAAACCCAGGAACTTTCTTTT
51913159 AAAACCCAGGAA-TATT-TTTT
1 AAAACCCAGGAACT-TTCTTTT
51913179 AAAA
1 AAAA
51913183 AAACCTCCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.31
Consensus pattern (21 bp):
AAAACCCAGGAACTTTCTTTT
Found at i:51918751 original size:21 final size:21
Alignment explanation
Indices: 51918725--51918765 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51918715 AGACGAGCAA
* *
51918725 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
51918746 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
51918766 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:51920704 original size:16 final size:16
Alignment explanation
Indices: 51920671--51920704 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51920661 GGAGATTGTT
* *
51920671 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
51920687 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
51920703 AA
1 AA
51920705 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:51936083 original size:47 final size:47
Alignment explanation
Indices: 51936005--51936419 Score: 704
Period size: 47 Copynumber: 8.7 Consensus size: 47
51935995 CCCTTCGGGA
* * * * * *
51936005 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51936052 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51936099 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51936146 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51936193 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51936240 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51936287 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51936336 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51936385 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
51936420 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 12, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 259 0.73
49 95 0.27
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51937581 original size:18 final size:18
Alignment explanation
Indices: 51937558--51937599 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
51937548 CATATGCATT
51937558 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
51937576 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
51937594 TTTAAT
1 TTTAAT
51937600 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:51946466 original size:22 final size:22
Alignment explanation
Indices: 51946436--51946480 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
51946426 TTTTAGCCAT
51946436 TTTTATTTTTATTGCAATTTAC
1 TTTTATTTTTATTGCAATTTAC
* **
51946458 TTTTGTTTTTATTTTAATTTAC
1 TTTTATTTTTATTGCAATTTAC
51946480 T
1 T
51946481 AACTTTTTCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.69
Consensus pattern (22 bp):
TTTTATTTTTATTGCAATTTAC
Found at i:51948849 original size:19 final size:20
Alignment explanation
Indices: 51948825--51948862 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
51948815 CAAAAACAGA
*
51948825 ACAAATC-ATGAAGTAGATT
1 ACAAATCGATGAACTAGATT
51948844 ACAAATCGATGAACTAGAT
1 ACAAATCGATGAACTAGAT
51948863 GAATGGCGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.47, C:0.13, G:0.16, T:0.24
Consensus pattern (20 bp):
ACAAATCGATGAACTAGATT
Found at i:51949679 original size:5 final size:5
Alignment explanation
Indices: 51949669--51949731 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
51949659 AATCACCCCA
*
51949669 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT -TTATT AATTATT ATATT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT -ATT-TT ATTTT
51949716 A-TTT ATTTTT ATTTT A
1 ATTTT A-TTTT ATTTT A
51949732 CTAATTAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
4 5 0.10
5 35 0.69
6 6 0.12
7 5 0.10
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:51949780 original size:16 final size:16
Alignment explanation
Indices: 51949753--51949816 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 16
51949743 ATTCTTATAC
*
51949753 TTATAGTTTTAAATTTT
1 TTATA-TTTTAATTTTT
51949770 TTATATTTTAATTTTT
1 TTATATTTTAATTTTT
51949786 TATATATTTTAATTATTT
1 T-TATATTTTAATT-TTT
51949804 TTA-ATTTT-ATTTT
1 TTATATTTTAATTTT
51949817 GCTATTTCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
14 2 0.05
15 3 0.07
16 16 0.36
17 19 0.43
18 4 0.09
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (16 bp):
TTATATTTTAATTTTT
Found at i:51949789 original size:32 final size:32
Alignment explanation
Indices: 51949754--51949816 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
51949744 TTCTTATACT
51949754 TATAGTTTTAAAT-TTTTTATATTTTAATTTTTTA
1 TATA-TTTTAAATATTTTTA-ATTTT-ATTTTTTA
*
51949788 TATATTTTAATTATTTTTAATTTTATTTT
1 TATATTTTAAATATTTTTAATTTTATTTT
51949817 GCTATTTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 5 0.19
33 12 0.44
34 10 0.37
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (32 bp):
TATATTTTAAATATTTTTAATTTTATTTTTTA
Found at i:51960883 original size:21 final size:21
Alignment explanation
Indices: 51960857--51960910 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
51960847 ACAGTGGTGG
*
51960857 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
51960878 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTAGATACTGTAGC
51960899 GGTGAGATTAGA
1 GGTGAGATTAGA
51960911 AACAGCGGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.07, G:0.37, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:51962474 original size:24 final size:24
Alignment explanation
Indices: 51962429--51962474 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
51962419 TTTATTATCG
*
51962429 TAATTTATTAAATTATATTTATTT
1 TAATTTATTAAATTAAATTTATTT
*
51962453 TAATTTA-TAACTTAAATATTAT
1 TAATTTATTAAATTAAAT-TTAT
51962475 ATTGATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TAATTTATTAAATTAAATTTATTT
Found at i:51980675 original size:23 final size:24
Alignment explanation
Indices: 51980629--51980679 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
51980619 GTAACTCCAC
51980629 TTATCTTTGACAAAAGTAGAAAAA
1 TTATCTTTGACAAAAGTAGAAAAA
* *
51980653 TTATCTTTGACAAAGGTGGAAAAA
1 TTATCTTTGACAAAAGTAGAAAAA
51980677 TTA
1 TTA
51980680 GGATGCTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (24 bp):
TTATCTTTGACAAAAGTAGAAAAA
Found at i:51985839 original size:106 final size:106
Alignment explanation
Indices: 51985688--51985902 Score: 412
Period size: 106 Copynumber: 2.0 Consensus size: 106
51985678 GCCCACAAAG
51985688 GCACCTGTAACAAGTTCTCTTTGAATTTTTGAGAATGCTTTTTTATTGTATAGCTGTGTTATAGT
1 GCACCTGTAACAAGTTCTCTTTGAATTTTTGAGAATGCTTTTTTATTGTATAGCTGTGTTATAGT
*
51985753 TTCAATCTTGGTTTGCAGATCATGTAGGTAACTGTACAAGT
66 TTCAAGCTTGGTTTGCAGATCATGTAGGTAACTGTACAAGT
51985794 GCACCTGTAACAAGTTCTCTTTGAATTTTTGAGAATGCTTTTTTATTGTATAGCTGTGTTATAGT
1 GCACCTGTAACAAGTTCTCTTTGAATTTTTGAGAATGCTTTTTTATTGTATAGCTGTGTTATAGT
*
51985859 TTCAAGCTTGGTTTGTAGATCATGTAGGTAACTGTACAAGT
66 TTCAAGCTTGGTTTGCAGATCATGTAGGTAACTGTACAAGT
51985900 GCA
1 GCA
51985903 TAGCTTCTGA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (106 bp):
GCACCTGTAACAAGTTCTCTTTGAATTTTTGAGAATGCTTTTTTATTGTATAGCTGTGTTATAGT
TTCAAGCTTGGTTTGCAGATCATGTAGGTAACTGTACAAGT
Found at i:51990424 original size:20 final size:19
Alignment explanation
Indices: 51990387--51990433 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
51990377 ATTTGTCAAA
**
51990387 TTTAAACATTTCTTTTTAGT
1 TTTAAACATTTCACTTTA-T
51990407 TTTAAACATTTCACTTTAT
1 TTTAAACATTTCACTTTAT
*
51990426 TCTAAACA
1 TTTAAACA
51990434 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.32, C:0.15, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTAAACATTTCACTTTAT
Found at i:51993795 original size:12 final size:12
Alignment explanation
Indices: 51993765--51993797 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
51993755 AGGAGAAGTT
*
51993765 TGAAGACGAGGA
1 TGAAGATGAGGA
51993777 TGAAGATGAGGA
1 TGAAGATGAGGA
51993789 TGAAGATGA
1 TGAAGATGA
51993798 ATCTGGCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.39, T:0.15
Consensus pattern (12 bp):
TGAAGATGAGGA
Found at i:52001843 original size:75 final size:75
Alignment explanation
Indices: 52001732--52001879 Score: 190
Period size: 75 Copynumber: 2.0 Consensus size: 75
52001722 CGATTAACAC
* * * * * * *
52001732 TGGGTGCAAACACTGTTGGTTCATTCAACTAAAGCTGGGTTCACATTTATTATTGTCGG-TATAT
1 TGGGAGCAAACACTGTCGGTTCATCCAACTAAAGCTGGGCTCACATTCAATACTGTCGGTTA-AT
*
52001796 CCGACTAGCGT
65 CCCACTAGCGT
* *
52001807 TGGGAGCAAACATTGTCGGTTCATCCAACTAGAGCTGGGCTCACATTCAATACTGTCGGTTAATC
1 TGGGAGCAAACACTGTCGGTTCATCCAACTAAAGCTGGGCTCACATTCAATACTGTCGGTTAATC
52001872 CCACTAGC
66 CCACTAGC
52001880 TCTGAGCGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
75 60 0.97
76 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (75 bp):
TGGGAGCAAACACTGTCGGTTCATCCAACTAAAGCTGGGCTCACATTCAATACTGTCGGTTAATC
CCACTAGCGT
Found at i:52007723 original size:12 final size:12
Alignment explanation
Indices: 52007708--52007738 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
52007698 TTCTCTTTTA
52007708 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
52007720 TTTTTCTTTCTC
1 TTTTTCTTTCCC
52007732 TTTTTCT
1 TTTTTCT
52007739 CCCCTGCTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:52007839 original size:16 final size:16
Alignment explanation
Indices: 52007818--52007848 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52007808 TTTATTATTT
52007818 TATTAACATAATATAA
1 TATTAACATAATATAA
*
52007834 TATTAATATAATATA
1 TATTAACATAATATA
52007849 TTAAAATATC
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Found at i:52009078 original size:40 final size:39
Alignment explanation
Indices: 52009034--52009120 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
52009024 CATACAACCA
*
52009034 AAGCTATACCATTTTGCACACTTAGTGCTATTTATAGCCG
1 AAGCTATACCA-ATTGCACACTTAGTGCTATTTATAGCCG
*** *
52009074 AAGCTATTTTGAATTGCACACTTAGTGCTGTTTATAGCCG
1 AAGCTA-TACCAATTGCACACTTAGTGCTATTTATAGCCG
52009114 AAGCTAT
1 AAGCTAT
52009121 TTTGAATCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 1 0.02
40 38 0.93
41 2 0.05
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.36
Consensus pattern (39 bp):
AAGCTATACCAATTGCACACTTAGTGCTATTTATAGCCG
Found at i:52009121 original size:40 final size:40
Alignment explanation
Indices: 52009047--52009141 Score: 172
Period size: 40 Copynumber: 2.4 Consensus size: 40
52009037 CTATACCATT
52009047 TTGCACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAA
1 TTGCACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAA
*
52009087 TTGCACACTTAGTGCTGTTTATAGCCGAAGCTATTTTGAA
1 TTGCACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAA
*
52009127 TCGCACACTTAGTGC
1 TTGCACACTTAGTGC
52009142 CAAATGCAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (40 bp):
TTGCACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAA
Found at i:52012781 original size:27 final size:27
Alignment explanation
Indices: 52012751--52013447 Score: 699
Period size: 27 Copynumber: 25.8 Consensus size: 27
52012741 TTAGTTTACC
*
52012751 AATTACAGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTATAG
* * * *
52012778 AATTACCGTTTTACCTTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTATAG
* *
52012805 AATTACTGTTTTACCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTATAG
* * *
52012832 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTATAG
*
52012859 AATTACCGTTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTATAG
*
52012886 AATTA-TCGTTTTACCCTTGATTTATAG
1 AATTACT-GTTTTACCCTCGATTTATAG
* *
52012913 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTATAG
*
52012940 AATTACCGTTTTACCCTC-AGTTTATAG
1 AATTACTGTTTTACCCTCGA-TTTATAG
*
52012967 AATTACTATTTTACCCTCGATTTATAG
1 AATTACTGTTTTACCCTCGATTTATAG
* * *
52012994 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTATAG
** * *
52013021 AATTACCATTTTACCTTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTATAG
* *
52013048 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACTGTTTTACCCTCGA-TTTATAG
** * **
52013075 AATTACCATTTTAACCTC-AGTTTACGG
1 AATTACTGTTTTACCCTCGA-TTTATAG
** *
52013102 AATTACCATTTTACCCTCGATTTACAG
1 AATTACTGTTTTACCCTCGATTTATAG
** *
52013129 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACTGTTTTACCCTCGA-TTTATAG
* *
52013156 AATTACTGTTTTACCCTCGATTTGTAA
1 AATTACTGTTTTACCCTCGATTTATAG
* *
52013183 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACTGTTTTACCCTCGATTTATAG
* * * *
52013210 AATTACTGCTTTACCCTCGGTTTACAA
1 AATTACTGTTTTACCCTCGATTTATAG
* *
52013237 AATTA-TCGTTTTACCCTCGATTTGTAA
1 AATTACT-GTTTTACCCTCGATTTATAG
* *
52013264 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACTGTTTTACCCTCGATTTATAG
* * * *
52013291 AATTACTGCTTTACCCTCGGTTTACAA
1 AATTACTGTTTTACCCTCGATTTATAG
* *
52013318 AATTA-TCGTTTTACCCTCGATTTGTAA
1 AATTACT-GTTTTACCCTCGATTTATAG
* *
52013345 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACTGTTTTACCCTCGATTTATAG
* * * *
52013372 AATTACTGCTTTACCCTCGGTTTACAA
1 AATTACTGTTTTACCCTCGATTTATAG
* *
52013399 AATTA-TCGTTTTACCCTCGATTTGTAA
1 AATTACT-GTTTTACCCTCGATTTATAG
*
52013426 AATTACTGTTTTACCCTTGATT
1 AATTACTGTTTTACCCTCGATT
52013448 GTGAAATTAC
Statistics
Matches: 581, Mismatches: 75, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.01
27 569 0.98
28 6 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (27 bp):
AATTACTGTTTTACCCTCGATTTATAG
Found at i:52013441 original size:81 final size:81
Alignment explanation
Indices: 52012751--52013447 Score: 857
Period size: 81 Copynumber: 8.6 Consensus size: 81
52012741 TTAGTTTACC
* * * ** *
52012751 AATTACAGTTTTACCCTCGATTTATAGAATTACCGTTTTA-CCTTCGATTTGTAAAATTACTGTT
1 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTT-GATTTACAGAATTACTGTT
* **
52012815 TTACCCTCGATTTGTAA
65 TTACCCTCGGTTTACAA
* *
52012832 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTATAGAATTA-TCGTT
1 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACT-GTT
* * * *
52012896 TTACCCTTGATTTATAG
65 TTACCCTCGGTTTACAA
** * * * *
52012913 AATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCC-TCAGTTTATAGAATTACTATT
1 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGA-TTTACAGAATTACTGTT
* * *
52012977 TTACCCTCGATTTATAG
65 TTACCCTCGGTTTACAA
* *
52012994 AATTACCGTTTTACCCTCGATTTGTAAAATTACCATTTTA-CCTTCGATTTACAGAATTACCGTT
1 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTT-GATTTACAGAATTACTGTT
* *
52013058 TTACCCTCAGTTTACAG
65 TTACCCTCGGTTTACAA
* * * * * * **
52013075 AATTACCATTTTAACCTC-AGTT-TACGGAATTACCATTTTACCCTCGATTTACAGAATTACCAT
1 AATTACCGTTTTACCCTCGATTTGTA--AAATTACCGTTTTACCCTTGATTTACAGAATTACTGT
* *
52013138 TTTACCCTCAGTTTACAG
64 TTTACCCTCGGTTTACAA
* * *
52013156 AATTACTGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATTTACAGAATTACTGCTT
1 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
52013221 TACCCTCGGTTTACAA
66 TACCCTCGGTTTACAA
* * *
52013237 AATTATCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATTTACAGAATTACTGCTT
1 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
52013302 TACCCTCGGTTTACAA
66 TACCCTCGGTTTACAA
* * *
52013318 AATTATCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATTTACAGAATTACTGCTT
1 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
52013383 TACCCTCGGTTTACAA
66 TACCCTCGGTTTACAA
* *
52013399 AATTATCGTTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATT
1 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATT
52013448 GTGAAATTAC
Statistics
Matches: 557, Mismatches: 48, Indels: 22
0.89 0.08 0.04
Matches are distributed among these distances:
79 2 0.00
80 7 0.01
81 535 0.96
82 11 0.02
83 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (81 bp):
AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
TACCCTCGGTTTACAA
Found at i:52013558 original size:81 final size:81
Alignment explanation
Indices: 52013464--52013620 Score: 192
Period size: 81 Copynumber: 1.9 Consensus size: 81
52013454 TTACTGAAAT
* * * *
52013464 ACCCCTGTAGGGTAG-AGCT-TCTGAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTATA
1 ACCCCTGTAGGGTAGCA-TTATC-GAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTATA
52013527 GGATAGAATTACCAAAAC
64 GGATAGAATTACCAAAAC
* * * * *
52013545 ACCCCTGTCGGGTAGCATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGG
1 ACCCCTGTAGGGTAGCATTATCGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTATAGG
*
52013610 GTAGAATTACC
66 ATAGAATTACC
52013621 GAGATACCCT
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
81 61 0.95
82 3 0.05
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (81 bp):
ACCCCTGTAGGGTAGCATTATCGAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTATAGG
ATAGAATTACCAAAAC
Found at i:52013645 original size:27 final size:27
Alignment explanation
Indices: 52013451--52013647 Score: 146
Period size: 27 Copynumber: 7.3 Consensus size: 27
52013441 CTTGATTGTG
* *
52013451 AAATTACTGAAATACCCCTGTAGGGTA
1 AAATTACCGAAATACCCTTGTAGGGTA
** * * *
52013478 GAGCTT-CTGAAATACCCCTATAGGGTA
1 -AAATTACCGAAATACCCTTGTAGGGTA
* ** * *
52013505 GAATTACTAAAATACCCTTATAGGATA
1 AAATTACCGAAATACCCTTGTAGGGTA
* * * * *
52013532 GAATTACCAAAACACCCCTGTCGGGTA
1 AAATTACCGAAATACCCTTGTAGGGTA
** *
52013559 GCATTATCGAAATACCCTTGTAGGGTA
1 AAATTACCGAAATACCCTTGTAGGGTA
*
52013586 GAAA-TACCGAAATACCCCTGTAGGGTA
1 -AAATTACCGAAATACCCTTGTAGGGTA
* * *
52013613 GAATTACCGAGATACCCTTGTGGGGTA
1 AAATTACCGAAATACCCTTGTAGGGTA
52013640 AAATTACC
1 AAATTACC
52013648 ATTTTGCCCC
Statistics
Matches: 136, Mismatches: 30, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
26 4 0.03
27 128 0.94
28 4 0.03
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (27 bp):
AAATTACCGAAATACCCTTGTAGGGTA
Found at i:52013658 original size:54 final size:54
Alignment explanation
Indices: 52013452--52013643 Score: 206
Period size: 54 Copynumber: 3.6 Consensus size: 54
52013442 TTGATTGTGA
* * ** * * *
52013452 AATTACTGAAATACCCCTGTAGGGTAGAGCTTCTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
** * * * * * *
52013506 AATTACTAAAATACCCTTATAGGATAGAATTACCAAAACACCCCTGTCGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* *
52013560 CATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
* *
52013614 AATTACCGAGATACCCTTGTGGGGTA-AAAT
1 AATTACCGAAATACCCTTGTAGGGTAGAAAT
52013644 TACCATTTTG
Statistics
Matches: 112, Mismatches: 26, Indels: 1
0.81 0.19 0.01
Matches are distributed among these distances:
53 4 0.04
54 108 0.96
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
Found at i:52013884 original size:27 final size:26
Alignment explanation
Indices: 52013846--52013928 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
52013836 CGGAGGAAGC
*
52013846 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
52013873 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
52013899 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
52013926 GTT
1 GTT
52013929 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:52014048 original size:22 final size:22
Alignment explanation
Indices: 52014016--52014074 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52014006 CCCGTTATTA
*
52014016 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
52014038 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
52014060 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
52014075 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:52014261 original size:27 final size:27
Alignment explanation
Indices: 52014239--52014312 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
52014229 TAGGTGGGTT
*
52014239 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
52014266 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
52014293 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
52014313 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:52014439 original size:6 final size:6
Alignment explanation
Indices: 52014430--52014616 Score: 181
Period size: 6 Copynumber: 30.8 Consensus size: 6
52014420 TTGCATTCAC
* *
52014430 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
52014479 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
52014527 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
52014576 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
52014617 CATTTTGGTT
Statistics
Matches: 151, Mismatches: 14, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
5 11 0.07
6 127 0.84
7 10 0.07
8 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:52014570 original size:85 final size:85
Alignment explanation
Indices: 52014430--52014616 Score: 356
Period size: 85 Copynumber: 2.2 Consensus size: 85
52014420 TTGCATTCAC
*
52014430 ATTCTGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
52014495 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
*
52014515 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
52014580 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
52014600 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
52014617 CATTTTGGTT
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:52014637 original size:30 final size:30
Alignment explanation
Indices: 52014430--52014616 Score: 262
Period size: 30 Copynumber: 6.4 Consensus size: 30
52014420 TTGCATTCAC
*
52014430 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
52014461 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
52014491 ATTCTGATTCTGATTCTG-T--T-A--CTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
52014515 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
52014546 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
52014576 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
52014606 ATTCTGATTCT
1 ATTCTGATTCT
52014617 CATTTTGGTT
Statistics
Matches: 142, Mismatches: 5, Indels: 19
0.86 0.03 0.11
Matches are distributed among these distances:
24 21 0.15
26 1 0.01
27 1 0.01
28 1 0.01
29 3 0.02
30 70 0.49
31 45 0.32
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:52016627 original size:27 final size:27
Alignment explanation
Indices: 52016589--52017204 Score: 553
Period size: 27 Copynumber: 22.8 Consensus size: 27
52016579 TTAGTTTAAC
*
52016589 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTATAA
* *
52016616 AATTACCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAA
*
52016643 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTATAA
*
52016670 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTATAA
** *
52016697 AATTACCGTTTTACCCTTAATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAA
* * *
52016724 AATTATCGTTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTATAA
* *
52016751 AATTACCGTTTTACTCTC-AGTTTATAG
1 AATTACCGTTTTACCCTCGA-TTTATAA
* *
52016778 AATTACTGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAA
* *
52016805 AATTACAGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTATAA
* * ***
52016832 AATTACCATTTTACCTTCGATTTACCG
1 AATTACCGTTTTACCCTCGATTTATAA
* *
52016859 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTATAA
* * *
52016886 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTATAA
* * *
52016913 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAA
* * * *
52016940 AATTACCATTTTACCATC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTATAA
* * *
52016967 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAA
*
52016994 AATTACCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTATAA
*** ** * *
52017021 AATTAATATTTTACCCTTAATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAA
* * *
52017048 AATTACTGGTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGA-TTTATAA
* * *
52017075 AATTATCATTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTATAA
* * *
52017102 AATTACTGTTTTACCCTTGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAA
** * *
52017129 AATTATTGGTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGA-TTTATAA
* * *
52017156 AATTATCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAA
* *
52017183 AATTACCATTTTACCCTTGATT
1 AATTACCGTTTTACCCTCGATT
52017205 GTGAAATTAC
Statistics
Matches: 503, Mismatches: 76, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.01
27 493 0.98
28 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTATAA
Found at i:52016671 original size:54 final size:54
Alignment explanation
Indices: 52016589--52017204 Score: 625
Period size: 54 Copynumber: 11.4 Consensus size: 54
52016579 TTAGTTTAAC
*
52016589 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAG
* ** *
52016643 AATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAG
** * *
52016697 AATTACCGTTTTACCCTTAATTTATAGAATTATCGTTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGA-TTTACAG
* * * *
52016751 AATTACCGTTTTACTCTC-AGTTTATAGAATTACTGTTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCCTCGA-TTTATAAAATTACCGTTTTACCCTCGATTTACAG
* * * * *
52016805 AATTACAGTTTTACCCTCGATTTGTAAAATTACCATTTTACCTTCGATTTACCG
1 AATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAG
* * *
52016859 AATTACCGTTTTACCCTC-AGTTTACAGAATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCGTTTTACCCTCGA-TTTATAAAATTACCGTTTTACCCTCGA-TTTACAG
* * * * *
52016913 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCATC-AGTTTACAG
1 AATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGA-TTTACAG
* * * ** *
52016967 AATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTGTAA
1 AATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAG
*** ** * * * * *
52017021 AATTAATATTTTACCCTTAATTTACAGAATTACTGGTTTACCCTC-AGTTTACAA
1 AATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGA-TTTACAG
* * * * * *
52017075 AATTATCATTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATTTATAG
1 AATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAG
** * * *
52017129 AATTATTGGTTTACCCTC-AGTTTACAAAATTATCGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGA-TTTATAAAATTACCGTTTTACCCTCGATTTACAG
* *
52017183 AATTACCATTTTACCCTTGATT
1 AATTACCGTTTTACCCTCGATT
52017205 GTGAAATTAC
Statistics
Matches: 477, Mismatches: 73, Indels: 24
0.83 0.13 0.04
Matches are distributed among these distances:
53 6 0.01
54 465 0.97
55 6 0.01
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (54 bp):
AATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTCGATTTACAG
Found at i:52017200 original size:81 final size:81
Alignment explanation
Indices: 52016581--52017204 Score: 668
Period size: 81 Copynumber: 7.7 Consensus size: 81
52016571 AGAATACTTT
* * *
52016581 AGTTTA-ACAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAA
1 AGTTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAA
52016645 TTACCGTTTTACCCTC
66 TTACCGTTTTACCCTC
** * * *
52016661 -GATTTGTAAAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTTAATTTATAGA
1 AG-TTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGA
*
52016725 ATTATCGTTTTACCCTC
65 ATTACCGTTTTACCCTC
* * * * * *
52016742 AGTTTACAGAATTACCGTTTTACTCTC-AGTTTATAGAATTACTGTTTTACCCTCGATTTATAGA
1 AGTTTACAAAATTACCGTTTTACCCTCGA-TTTATAAAATTACCGTTTTACCCTTGATTTACAGA
*
52016806 ATTACAGTTTTACCCTC
65 ATTACCGTTTTACCCTC
** * * *** *
52016823 -GATTTGTAAAATTACCATTTTACCTTCGATTTACCGAATTACCGTTTTACCC-TCAGTTTACAG
1 AG-TTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGA-TTTACAG
*
52016886 AATTACCATTTTACCCTC
64 AATTACCGTTTTACCCTC
* * * * * * *
52016904 AGTTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTA-CCATCAGTTTACAGA
1 AGTTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGA-TTTACAGA
*
52016968 ATTACTGTTTTACCCTC
65 ATTACCGTTTTACCCTC
* * *** *
52016985 -GATTTACAGAATTACCGTTTTACCCTCGATTTGTAAAATTAATATTTTACCCTTAATTTACAGA
1 AG-TTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGA
* *
52017049 ATTACTGGTTTACCCTC
65 ATTACCGTTTTACCCTC
* * * * *
52017066 AGTTTACAAAATTATCATTTTACCCTCGATTTGTAAAATTACTGTTTTACCCTTGATTTATAGAA
1 AGTTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAA
** *
52017131 TTATTGGTTTACCCTC
66 TTACCGTTTTACCCTC
* * * *
52017147 AGTTTACAAAATTATCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCTTGATT
1 AGTTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
52017205 GTGAAATTAC
Statistics
Matches: 470, Mismatches: 62, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
79 1 0.00
80 9 0.02
81 452 0.96
82 8 0.02
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (81 bp):
AGTTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAA
TTACCGTTTTACCCTC
Found at i:52017246 original size:27 final size:27
Alignment explanation
Indices: 52017209--52017430 Score: 255
Period size: 27 Copynumber: 8.2 Consensus size: 27
52017199 TTGATTGTGA
* *
52017209 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
52017236 AGTTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
52017263 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
**
52017290 AATTACTAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
52017317 AATTATCAAAATACCCTTGTTGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
52017344 AATTATCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
52017371 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
52017398 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
52017425 AATTAC
1 AATTAC
52017431 TATTTTGCCC
Statistics
Matches: 170, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 170 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:52017668 original size:27 final size:26
Alignment explanation
Indices: 52017630--52017712 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
52017620 CGGAGGAAGC
*
52017630 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
52017657 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
52017683 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
52017710 GTT
1 GTT
52017713 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:52017832 original size:22 final size:22
Alignment explanation
Indices: 52017800--52017858 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
52017790 CCCGTTATTA
*
52017800 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
52017822 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
52017844 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
52017859 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:52018045 original size:27 final size:27
Alignment explanation
Indices: 52018023--52018096 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
52018013 TAGGTGGGTT
*
52018023 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
52018050 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
52018077 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
52018097 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:52018223 original size:6 final size:6
Alignment explanation
Indices: 52018214--52018315 Score: 111
Period size: 6 Copynumber: 16.8 Consensus size: 6
52018204 TTGCATTCAC
* *
52018214 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
52018263 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
52018311 ATTCT
1 ATTCT
52018316 CATTTTGGTT
Statistics
Matches: 81, Mismatches: 8, Indels: 14
0.79 0.08 0.14
Matches are distributed among these distances:
5 5 0.06
6 70 0.86
7 5 0.06
8 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:52018336 original size:30 final size:30
Alignment explanation
Indices: 52018214--52018315 Score: 168
Period size: 30 Copynumber: 3.4 Consensus size: 30
52018204 TTGCATTCAC
*
52018214 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
52018245 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
52018275 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
52018305 ATTCTGATTCT
1 ATTCTGATTCT
52018316 CATTTTGGTT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 46 0.69
31 21 0.31
ACGTcount: A:0.20, C:0.18, G:0.15, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:52021361 original size:11 final size:11
Alignment explanation
Indices: 52021347--52021372 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
52021337 AAAAGTATGA
52021347 AAAATAATATT
1 AAAATAATATT
52021358 AAAATAATATT
1 AAAATAATATT
52021369 AAAA
1 AAAA
52021373 GACACCATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATAATATT
Found at i:52023654 original size:40 final size:40
Alignment explanation
Indices: 52023596--52023686 Score: 128
Period size: 40 Copynumber: 2.3 Consensus size: 40
52023586 TGGGTGTTAC
* **
52023596 AAGGTTGAAAAGGGTATATCTGAAATAGATATCAAATGAA
1 AAGGTTGAAAAGGATATATCCAAAATAGATATCAAATGAA
* * *
52023636 ATGGTTGAAAAGGATATATCCAAAATGGATATCCAATGAA
1 AAGGTTGAAAAGGATATATCCAAAATAGATATCAAATGAA
52023676 AAGGTTGAAAA
1 AAGGTTGAAAA
52023687 AGGTTGTCAC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.47, C:0.07, G:0.22, T:0.24
Consensus pattern (40 bp):
AAGGTTGAAAAGGATATATCCAAAATAGATATCAAATGAA
Found at i:52024259 original size:17 final size:17
Alignment explanation
Indices: 52024237--52024293 Score: 96
Period size: 17 Copynumber: 3.4 Consensus size: 17
52024227 ACACGATCTG
52024237 CCACACGGCTGTGTGTC
1 CCACACGGCTGTGTGTC
52024254 CCACACGGCTGTGTGTC
1 CCACACGGCTGTGTGTC
* *
52024271 CCACACGGTTGTATGTC
1 CCACACGGCTGTGTGTC
52024288 CCACAC
1 CCACAC
52024294 AGTTGCATGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 38 1.00
ACGTcount: A:0.16, C:0.37, G:0.25, T:0.23
Consensus pattern (17 bp):
CCACACGGCTGTGTGTC
Found at i:52025090 original size:8 final size:8
Alignment explanation
Indices: 52025074--52025112 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
52025064 ATTTAAGTAA
52025074 ATATTATT
1 ATATTATT
*
52025082 ATATCATT
1 ATATTATT
*
52025090 ACATTATT
1 ATATTATT
52025098 ATATTATT
1 ATATTATT
52025106 ATGATTA
1 AT-ATTA
52025113 AAATATAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (8 bp):
ATATTATT
Found at i:52025200 original size:27 final size:27
Alignment explanation
Indices: 52025126--52025201 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
52025116 TATAAAGTAA
*
52025126 AAAAAAAGAATAGAAAAAGAAAC--AAAG
1 AAAAAGAGAA-AG-AAAAGAAACAGAAAG
* * *
52025153 AAACAGAGCAAGAAACGAAACAGAAAG
1 AAAAAGAGAAAGAAAAGAAACAGAAAG
*
52025180 AAAAAGAGAAAGAAAATAAACA
1 AAAAAGAGAAAGAAAAGAAACA
52025202 AAAAAATTAG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 8 0.21
26 2 0.05
27 29 0.74
ACGTcount: A:0.72, C:0.08, G:0.17, T:0.03
Consensus pattern (27 bp):
AAAAAGAGAAAGAAAAGAAACAGAAAG
Found at i:52027204 original size:21 final size:21
Alignment explanation
Indices: 52027180--52027224 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
52027170 GGCACAGGCA
*
52027180 TGTCTAATGGCCACACGGGCG
1 TGTCCAATGGCCACACGGGCG
** *
52027201 TGTCCCTTGGCCTCACGGGCG
1 TGTCCAATGGCCACACGGGCG
52027222 TGT
1 TGT
52027225 GTCCCCTGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.11, C:0.31, G:0.33, T:0.24
Consensus pattern (21 bp):
TGTCCAATGGCCACACGGGCG
Found at i:52031194 original size:46 final size:46
Alignment explanation
Indices: 52031142--52031369 Score: 350
Period size: 46 Copynumber: 5.0 Consensus size: 46
52031132 AGTGTGCTCT
52031142 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
52031188 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
52031234 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ***
52031280 GTGACATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
52031326 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
52031370 TCATGTCAAA
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:52032465 original size:17 final size:17
Alignment explanation
Indices: 52032445--52032478 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
52032435 TTGATTAAAA
52032445 TCAAATAATCGATTAAT
1 TCAAATAATCGATTAAT
52032462 TCAAATAATCGATTAAT
1 TCAAATAATCGATTAAT
52032479 AAACCTAGTT
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:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (17 bp):
TCAAATAATCGATTAAT
Found at i:52032547 original size:95 final size:95
Alignment explanation
Indices: 52032384--52032570 Score: 365
Period size: 95 Copynumber: 2.0 Consensus size: 95
52032374 AACATAAAAA
52032384 AAACCTAGTTGACGGTTGAGAATTCACGCCTTAAATAGGAGTGTTCAAATTTTGATTAAAATCAA
1 AAACCTAGTTGACGGTTGAGAATTCACGCCTTAAATAGGAGTGTTCAAATTTTGATTAAAATCAA
52032449 ATAATCGATTAATTCAAATAATCGATTAAT
66 ATAATCGATTAATTCAAATAATCGATTAAT
52032479 AAACCTAGTTGACGGTTGAGAATTCACGCCTTAAATAGGAGTGTTCAAATTTTGATTAAAATCAA
1 AAACCTAGTTGACGGTTGAGAATTCACGCCTTAAATAGGAGTGTTCAAATTTTGATTAAAATCAA
*
52032544 ATAATCGATTAATTCAATTAATCGATT
66 ATAATCGATTAATTCAAATAATCGATT
52032571 GGTTATTCGA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (95 bp):
AAACCTAGTTGACGGTTGAGAATTCACGCCTTAAATAGGAGTGTTCAAATTTTGATTAAAATCAA
ATAATCGATTAATTCAAATAATCGATTAAT
Found at i:52034349 original size:12 final size:12
Alignment explanation
Indices: 52034332--52034363 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
52034322 GGAGAAGTTT
52034332 GAAGATGAGGAC
1 GAAGATGAGGAC
*
52034344 GAAGATGAGGAT
1 GAAGATGAGGAC
52034356 GAAGATGA
1 GAAGATGA
52034364 ATCTGGCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.41, T:0.12
Consensus pattern (12 bp):
GAAGATGAGGAC
Found at i:52043679 original size:3 final size:3
Alignment explanation
Indices: 52043673--52043704 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
52043663 CGGTTGGTGT
52043673 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
52043705 GTTTAAGGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:52046153 original size:183 final size:183
Alignment explanation
Indices: 52045845--52046395 Score: 940
Period size: 183 Copynumber: 3.0 Consensus size: 183
52045835 ATTAGAAACA
* *
52045845 AGTCGGGACTAAATCGAAAACTCAAAAAAATTTTCTGAAAAAGTAGAAAAATTTCAAAGCTGCAG
1 AGTCGGGACTAAATCGAAAACTCAAAGAATTTTTCTGAAAAAGTAGAAAAATTTCAAAGCTGCAG
* * * *
52045910 GGGTCACACGGTCGTGTGGGTATTCGAAATAGGGACACACAGCCATGTCTAAGCCCGTGTCCGTA
66 AGGTCACACGGTCATGTGGGTATTCGAAATAGGGACACACGGCCATGTCTCAGCCCGTGTCCGTA
**
52045975 CCCGTGTAACTCTCTGATTTGGGTTACACGCCTATGTGCTAGGCTGTGTGAGC
131 CCCGTGTAACTCTCTGATTTGGGTTACACGCCCGTGTGCTAGGCTGTGTGAGC
52046028 AGTCGGGACTAAATCGAAAACTCAAAGAATTTTTCTGAAAAAGTAGAAAAATTTCAAAGCTGCAG
1 AGTCGGGACTAAATCGAAAACTCAAAGAATTTTTCTGAAAAAGTAGAAAAATTTCAAAGCTGCAG
52046093 AGGTCACACGGTCATGTGGGTATTCGAAATAGGGACACACGGCCATGTCTCAGCCCGTGTCCGTA
66 AGGTCACACGGTCATGTGGGTATTCGAAATAGGGACACACGGCCATGTCTCAGCCCGTGTCCGTA
* *
52046158 CCCGTGTAACTCTCTGATTTGGGTTACACGCCCGTATGCTAGGTTGTGTGAGC
131 CCCGTGTAACTCTCTGATTTGGGTTACACGCCCGTGTGCTAGGCTGTGTGAGC
* * * * *
52046211 AGTCAGGACTAAATTGGAAACTCAAAGAATTTTTCTGAAAAAGTAGAAAATTTTTAAAGCTGCAG
1 AGTCGGGACTAAATCGAAAACTCAAAGAATTTTTCTGAAAAAGTAGAAAAATTTCAAAGCTGCAG
52046276 AGGTCACACGGTCATGTGGGTATTCGAAAATAGGGACACACGGCCATGTCTCAGCCCGTGTCCGT
66 AGGTCACACGGTCATGTGGGTATTCG-AAATAGGGACACACGGCCATGTCTCAGCCCGTGTCCGT
* *
52046341 ACCCGTGTAACTCTCTGATTTGGGTTACACGCCCGTGTGCTAGGCTATGTAAGC
130 ACCCGTGTAACTCTCTGATTTGGGTTACACGCCCGTGTGCTAGGCTGTGTGAGC
52046395 A
1 A
52046396 TACTAACTTG
Statistics
Matches: 348, Mismatches: 19, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
183 259 0.74
184 89 0.26
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (183 bp):
AGTCGGGACTAAATCGAAAACTCAAAGAATTTTTCTGAAAAAGTAGAAAAATTTCAAAGCTGCAG
AGGTCACACGGTCATGTGGGTATTCGAAATAGGGACACACGGCCATGTCTCAGCCCGTGTCCGTA
CCCGTGTAACTCTCTGATTTGGGTTACACGCCCGTGTGCTAGGCTGTGTGAGC
Found at i:52051508 original size:6 final size:6
Alignment explanation
Indices: 52051478--52051658 Score: 104
Period size: 6 Copynumber: 29.3 Consensus size: 6
52051468 AAGAAACATT
* * *
52051478 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGGTG AT-AGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * * * *
52051527 ATCAAA ATCAAA ATCAGA ATTAGA ATTAGGTA A-CAGA ATCAAA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
52051576 ATCAGGTA A-CAGA ATCAGA ACCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* *
52051626 ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
52051659 GTGAATGCAA
Statistics
Matches: 136, Mismatches: 22, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
5 11 0.08
6 104 0.76
7 13 0.10
8 8 0.06
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:52051532 original size:37 final size:37
Alignment explanation
Indices: 52051486--52051593 Score: 128
Period size: 37 Copynumber: 2.9 Consensus size: 37
52051476 TTATCAGAAC
* *
52051486 TAGAATCAAAATGAGAATCAGAATCAGAATCAGGTGA
1 TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTAA
* * *
52051523 TAGAATCAAAATCAAAATCAGAATTAGAATTAGGTAA
1 TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTAA
* *
52051560 CAGAATCAAAATCAGTATCAGGTAA-CAGAATCAG
1 TAGAATCAAAATCAGAATCA-G-AATCAGAATCAG
52051594 AACCAGAATC
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
37 49 0.83
38 8 0.14
39 2 0.03
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (37 bp):
TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:52051542 original size:31 final size:31
Alignment explanation
Indices: 52051499--52051629 Score: 124
Period size: 31 Copynumber: 4.2 Consensus size: 31
52051489 AATCAAAATG
* * *
52051499 AGAATCAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAAAATCAGAATCAGGTAACAGAATC
* * *
52051530 AAAATCAAAATCAGAATTA-G-AATTAGGTAA-C
1 AGAATCAAAATCAGAATCAGGTAA-CA-G-AATC
*
52051561 AGAATCAAAATCAGTATCAGGTAACAGAATC
1 AGAATCAAAATCAGAATCAGGTAACAGAATC
* * *
52051592 AGAACCAGAATCAGAATTAGGTAACAGAATC
1 AGAATCAAAATCAGAATCAGGTAACAGAATC
52051623 AGAATCA
1 AGAATCA
52051630 GTATCAGGTA
Statistics
Matches: 81, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
29 1 0.01
30 5 0.06
31 69 0.85
32 4 0.05
33 2 0.02
ACGTcount: A:0.50, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGGTAACAGAATC
Done.