Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 48 of 211
Found at i:12850082 original size:6 final size:6
Alignment explanation
Indices: 12850071--12850097 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12850061 AATATAATTT
12850071 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
12850098 GTTTTATATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:12852116 original size:41 final size:41
Alignment explanation
Indices: 12852071--12852308 Score: 228
Period size: 41 Copynumber: 5.8 Consensus size: 41
12852061 GGCCTTGAGT
* *
12852071 CTAGCAGGCTTTGTGTCGGTGTGTTATATCAGGCTTTATGC
1 CTAGCAGGCTTCGTGTCGGTGTATTATATCAGGCTTTATGC
* * * * *
12852112 CTAGCAAGCTTCGTGTCAGTGTATTGTATCAAGCTTTATGT
1 CTAGCAGGCTTCGTGTCGGTGTATTATATCAGGCTTTATGC
* * * *
12852153 CTAGCAAGCATCGTGCCGGTGTATTATATCAGGCTTTGTGC
1 CTAGCAGGCTTCGTGTCGGTGTATTATATCAGGCTTTATGC
* * * * *
12852194 CTAGCATGCTTTGTG-CTGGTGTATTATATTAGGCATTGTGC
1 CTAGCAGGCTTCGTGTC-GGTGTATTATATCAGGCTTTATGC
* ** *
12852235 CTAGCAGGCTTTGTACCGGTGTGTTATATCAGGCTTTGA-GC
1 CTAGCAGGCTTCGTGTCGGTGTATTATATCAGGCTTT-ATGC
* ** *
12852276 CTAGTAGGCTTCGTGTCAATGTATTGTATCAGG
1 CTAGCAGGCTTCGTGTCGGTGTATTATATCAGG
12852309 TAAATTGTAC
Statistics
Matches: 161, Mismatches: 33, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
40 1 0.01
41 159 0.99
42 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (41 bp):
CTAGCAGGCTTCGTGTCGGTGTATTATATCAGGCTTTATGC
Found at i:12852195 original size:82 final size:82
Alignment explanation
Indices: 12852069--12852306 Score: 280
Period size: 82 Copynumber: 2.9 Consensus size: 82
12852059 TGGGCCTTGA
* *
12852069 GTCTAGCAGGCTTTGTGTCGGTGTGTTATATCAGGCTTTATGCCTAGCAAGCTTCGTGTCAGTGT
1 GTCTAGCAGGCTTTGTGCCGGTGTGTTATATCAGGCTTTGTGCCTAGCAAGCTTCGTGTCAGTGT
*
12852134 ATTGTATCAAGCTTTAT
66 ATTGTATCAAGCATTAT
* * * * * * *
12852151 GTCTAGCAAGCATCGTGCCGGTGTATTATATCAGGCTTTGTGCCTAGCATGCTTTGTG-CTGGTG
1 GTCTAGCAGGCTTTGTGCCGGTGTGTTATATCAGGCTTTGTGCCTAGCAAGCTTCGTGTC-AGTG
* * * *
12852215 TATTATATTAGGCATTGT
65 TATTGTATCAAGCATTAT
* * * * * *
12852233 GCCTAGCAGGCTTTGTACCGGTGTGTTATATCAGGCTTTGAGCCTAGTAGGCTTCGTGTCAATGT
1 GTCTAGCAGGCTTTGTGCCGGTGTGTTATATCAGGCTTTGTGCCTAGCAAGCTTCGTGTCAGTGT
12852298 ATTGTATCA
66 ATTGTATCA
12852307 GGTAAATTGT
Statistics
Matches: 126, Mismatches: 28, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
81 1 0.01
82 124 0.98
83 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (82 bp):
GTCTAGCAGGCTTTGTGCCGGTGTGTTATATCAGGCTTTGTGCCTAGCAAGCTTCGTGTCAGTGT
ATTGTATCAAGCATTAT
Found at i:12860283 original size:13 final size:13
Alignment explanation
Indices: 12860267--12860291 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12860257 CCATTGCCAG
12860267 AAATAATAATAAC
1 AAATAATAATAAC
12860280 AAATAATAATAA
1 AAATAATAATAA
12860292 ATATCTAAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAATAATAAC
Found at i:12860608 original size:2 final size:2
Alignment explanation
Indices: 12860601--12860644 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
12860591 TCTGCATGCA
12860601 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
12860643 CT
1 CT
12860645 ACTGGCAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:12884079 original size:25 final size:25
Alignment explanation
Indices: 12884051--12884100 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
12884041 CAGGTAAGGC
12884051 TCCTTCTCCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
* *
12884076 TCCTTTTTCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTTCTTCAT
12884101 CTTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.36, G:0.04, T:0.56
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTTCTTCAT
Found at i:12887003 original size:21 final size:22
Alignment explanation
Indices: 12886979--12887034 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
12886969 CACCGCTGTT
*
12886979 TCTAATCTCACTGCTACAGT-A
1 TCTAATCTCACCGCTACAGTAA
12887000 TCTAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGTAA
12887022 T-TAATCTCACCGC
1 TCTAATCTCACCGC
12887035 CACCGCTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.30
Consensus pattern (22 bp):
TCTAATCTCACCGCTACAGTAA
Found at i:12899644 original size:111 final size:111
Alignment explanation
Indices: 12899445--12899665 Score: 361
Period size: 111 Copynumber: 2.0 Consensus size: 111
12899435 CTTATTATTT
* * * * *
12899445 AAATCTTCATTTCGAAAAAACGACCCGTCACATCCAATACATTAGGACACGACGTATCGAATTCC
1 AAATATTCATTTCGAAAAAACAACACATCACATCCAATACATTAGGACACAACGTATCGAATTCC
*
12899510 CGAAAGTGAGTTCTTGGTTTATGCGTTTTGATTGTAGAAAATTTTA
66 CGAAAGTGAGTTCTTGGTTTATGCGCTTTGATTGTAGAAAATTTTA
*
12899556 AAATATTCATTTCGAGAAAACAACACATCACATCCAATACATTAGGACACAACGTATCGAATTCC
1 AAATATTCATTTCGAAAAAACAACACATCACATCCAATACATTAGGACACAACGTATCGAATTCC
* *
12899621 TGAAAGTGAGTTTTTGGTTTATGCGCTTTGATTGTAGAAAATTTT
66 CGAAAGTGAGTTCTTGGTTTATGCGCTTTGATTGTAGAAAATTTT
12899666 CGATTATTTA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 101 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (111 bp):
AAATATTCATTTCGAAAAAACAACACATCACATCCAATACATTAGGACACAACGTATCGAATTCC
CGAAAGTGAGTTCTTGGTTTATGCGCTTTGATTGTAGAAAATTTTA
Found at i:12901868 original size:44 final size:44
Alignment explanation
Indices: 12901820--12902035 Score: 299
Period size: 44 Copynumber: 4.9 Consensus size: 44
12901810 GACAGGATCC
* * *
12901820 ACAATCTTCAACCTATTCCACTGCTGTTCAGGGAGATAAGACAT
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTT
* *
12901864 ACAATCTTTC-ACCTATTCCACTACTGGTCAGGGAGTTAGGACTT
1 ACAATC-TTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTT
* * *
12901908 GCAATCTTCAACCTATTCCATTGCTGGTCAGGGAGTTAGGACTT
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTT
* * * *
12901952 GCAATCTTCTACCTATTCCTCTGCTGGTCAAGGAGATAGGACTT
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTT
*
12901996 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGTTAGG
1 ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGG
12902036 TTTTGTGATT
Statistics
Matches: 152, Mismatches: 18, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
43 3 0.02
44 146 0.96
45 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (44 bp):
ACAATCTTCAACCTATTCCACTGCTGGTCAGGGAGATAGGACTT
Found at i:12914064 original size:111 final size:111
Alignment explanation
Indices: 12913870--12914090 Score: 390
Period size: 111 Copynumber: 2.0 Consensus size: 111
12913860 CTTATTATTT
*
12913870 AAATCTTCATTTCGAGAAAACGACACGTCACATCCAATACATTAGGACACGACGTATCGAATTCC
1 AAATCTTCATTTCGAGAAAACGACACATCACATCCAATACATTAGGACACGACGTATCGAATTCC
12913935 CGAAAGTGAGTTTTTGGTTTATGCGT-TTTGATTGTAGAAAATTTTA
66 CGAAAGTGAGTTTTTGGTTTATGC-TCTTTGATTGTAGAAAATTTTA
* * *
12913981 AAATCTTCATTTCGAGAAAGCGACACATCACATCCAATACATTAGGACACGACGTATTGAATTCT
1 AAATCTTCATTTCGAGAAAACGACACATCACATCCAATACATTAGGACACGACGTATCGAATTCC
12914046 CGAAAGTGAGTTTTTGGTTTATGCTCTTTGATTGTAGAAAATTTT
66 CGAAAGTGAGTTTTTGGTTTATGCTCTTTGATTGTAGAAAATTTT
12914091 CGATTATTTA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
110 1 0.01
111 104 0.99
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (111 bp):
AAATCTTCATTTCGAGAAAACGACACATCACATCCAATACATTAGGACACGACGTATCGAATTCC
CGAAAGTGAGTTTTTGGTTTATGCTCTTTGATTGTAGAAAATTTTA
Found at i:12915957 original size:27 final size:26
Alignment explanation
Indices: 12915927--12915977 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
12915917 TTTTTGGAGT
12915927 TTTAATTGTTAATTTGGTTTTATTTTA
1 TTTAATTGTTAATTTGG-TTTATTTTA
* *
12915954 TTTATTTGTTTATTTGGTTTATTT
1 TTTAATTGTTAATTTGGTTTATTT
12915978 CACTAACGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.18, C:0.00, G:0.12, T:0.71
Consensus pattern (26 bp):
TTTAATTGTTAATTTGGTTTATTTTA
Found at i:12924056 original size:19 final size:18
Alignment explanation
Indices: 12924027--12924063 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
12924017 CAAAGATGCA
*
12924027 AAATGAATATGAGATGAT
1 AAATGAATATGAAATGAT
12924045 AAATGAAATATGAAATGAT
1 AAATG-AATATGAAATGAT
12924064 GAGATGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (18 bp):
AAATGAATATGAAATGAT
Found at i:12924069 original size:5 final size:5
Alignment explanation
Indices: 12924060--12924097 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
12924050 AAATATGAAA
*
12924060 TGATG AGATG TGATG TGATG TGATG TGATG TGATG TGA
1 TGATG TGATG TGATG TGATG TGATG TGATG TGATG TGA
12924098 AACTTGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (5 bp):
TGATG
Found at i:12931119 original size:43 final size:42
Alignment explanation
Indices: 12931009--12931127 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 42
12930999 AGCTCGTACA
* *
12931009 ATGCCATCGTCCCAGATGTGGTCTTACATGTAATCACATATCG
1 ATGCCA-CGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
* * ***
12931052 ATGCCACTGCCCCAAACAAAGTCTTACATGTAATCAAATATCG
1 ATGCCAC-GTCCCAGACGTGGTCTTACATGTAATCAAATATCG
12931095 ATGCCGACGTCCCAGACGTGGTCTTACACTGTA
1 ATGCC-ACGTCCCAGACGTGGTCTTACA-TGTA
12931128 GCGACCTAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
42 1 0.02
43 54 0.89
44 6 0.10
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (42 bp):
ATGCCACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:12931657 original size:17 final size:17
Alignment explanation
Indices: 12931598--12931684 Score: 61
Period size: 17 Copynumber: 5.1 Consensus size: 17
12931588 ATTTTTTAAA
*
12931598 AAAAAATTTGAAACACG
1 AAAAATTTTGAAACACG
*
12931615 -AAAA-TTTGCAAAACATG
1 AAAAATTTTG--AAACACG
* *
12931632 ACAATTTTTGAAACACG
1 AAAAATTTTGAAACACG
*
12931649 AAAAATTTTTAATACACG
1 AAAAATTTTGAA-ACACG
* * *
12931667 GAAACTTTTGAAATACG
1 AAAAATTTTGAAACACG
12931684 A
1 A
12931685 GAATTTTAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
15 4 0.08
16 4 0.08
17 25 0.47
18 16 0.30
19 4 0.08
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.26
Consensus pattern (17 bp):
AAAAATTTTGAAACACG
Found at i:12931710 original size:34 final size:34
Alignment explanation
Indices: 12931604--12931713 Score: 114
Period size: 34 Copynumber: 3.2 Consensus size: 34
12931594 TAAAAAAAAA
** *
12931604 TTTGAAACACGAAAATTTGCAAAACATGACAATT
1 TTTGAAACACGAAAATTTTAAAAACACGACAATT
* * *
12931638 TTTGAAACACGAAAAATTTTTAATACACGGA-AACT
1 TTTGAAACACG-AAAATTTTAAAAACAC-GACAATT
* * *
12931673 TTTGAAATACGAGAATTTTAAAAACACGTCAATT
1 TTTGAAACACGAAAATTTTAAAAACACGACAATT
12931707 TTTGAAA
1 TTTGAAA
12931714 ACTTGAGAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
33 1 0.02
34 34 0.55
35 25 0.40
36 2 0.03
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.30
Consensus pattern (34 bp):
TTTGAAACACGAAAATTTTAAAAACACGACAATT
Found at i:12932363 original size:23 final size:23
Alignment explanation
Indices: 12932325--12932389 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 23
12932315 ACGAATTGAA
*
12932325 TCTTTTTTTTC-CTTTTCTCCTT
1 TCTTTTTTTTCTTTTTTCTCCTT
**
12932347 TCTTTTTTTTCTTTTTTCTTTTT
1 TCTTTTTTTTCTTTTTTCTCCTT
12932370 TCTTCTATTTTT-TTTTTTCT
1 TCTT-T-TTTTTCTTTTTTCT
12932390 TTTTCTCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
22 11 0.30
23 12 0.32
24 9 0.24
25 5 0.14
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (23 bp):
TCTTTTTTTTCTTTTTTCTCCTT
Found at i:12932371 original size:30 final size:30
Alignment explanation
Indices: 12932329--12932423 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 30
12932319 ATTGAATCTT
*
12932329 TTTTTTC-CTTTTCTCCTTTCTTTTTTTTC
1 TTTTTTCTTTTTTCTCCTTTCTTTTTTTTC
* *
12932358 TTTTTTCTTTTTTCTTCTATTTTTTTTTTTC
1 TTTTTTCTTTTTTCTCCT-TTCTTTTTTTTC
12932389 TTTTTCTCCTTTTTTCCTTCTTCTTTCTTTTTTTT
1 TTTTT-T-CTTTTTT-C-TC--CTTTCTTTTTTTT
12932424 TGGCCTGCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
29 7 0.13
30 8 0.15
31 16 0.30
32 1 0.02
33 7 0.13
34 1 0.02
35 1 0.02
36 10 0.19
37 2 0.04
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (30 bp):
TTTTTTCTTTTTTCTCCTTTCTTTTTTTTC
Found at i:12932375 original size:17 final size:17
Alignment explanation
Indices: 12932345--12932421 Score: 88
Period size: 16 Copynumber: 4.6 Consensus size: 17
12932335 CCTTTTCTCC
12932345 TTTCTTTTTT-TTCTTT
1 TTTCTTTTTTCTTCTTT
12932361 TTTCTTTTTTCTTCTATT
1 TTTCTTTTTTCTTCT-TT
12932379 TTT-TTTTTTCTT-TTT
1 TTTCTTTTTTCTTCTTT
* * *
12932394 CTCCTTTTTTCCTTCTTC
1 TTTCTTTTTT-CTTCTTT
12932412 TTTCTTTTTT
1 TTTCTTTTTT
12932422 TTTGGCCTGC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
15 3 0.06
16 17 0.33
17 16 0.31
18 15 0.29
ACGTcount: A:0.01, C:0.18, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTCTTTTTTCTTCTTT
Found at i:12932392 original size:23 final size:24
Alignment explanation
Indices: 12932345--12932414 Score: 83
Period size: 23 Copynumber: 3.0 Consensus size: 24
12932335 CCTTTTCTCC
12932345 TTTCTT-TTTTTTCTTTTTTCTTT
1 TTTCTTCTTTTTTCTTTTTTCTTT
12932368 TTTCTTCTATTTTT-TTTTTTC-TT
1 TTTCTTCT-TTTTTCTTTTTTCTTT
* * *
12932391 TTTCTCCTTTTTTCCTTCTTCTTT
1 TTTCTTCTTTTTTCTTTTTTCTTT
12932415 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 5 0.12
23 20 0.50
24 10 0.25
25 5 0.12
ACGTcount: A:0.01, C:0.19, G:0.00, T:0.80
Consensus pattern (24 bp):
TTTCTTCTTTTTTCTTTTTTCTTT
Found at i:12932392 original size:40 final size:39
Alignment explanation
Indices: 12932345--12932424 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
12932335 CCTTTTCTCC
* * * *
12932345 TTTCTTTTTTTTCTTTTTTCTTTTTTCTTCTATTTTTTTT
1 TTTCTTTTTCTCCTTTTTTCCTTCTTCTT-TATTTTTTTT
*
12932385 TTTCTTTTTCTCCTTTTTTCCTTCTTCTTTCTTTTTTTT
1 TTTCTTTTTCTCCTTTTTTCCTTCTTCTTTATTTTTTTT
12932424 T
1 T
12932425 GGCCTGCTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
39 10 0.29
40 25 0.71
ACGTcount: A:0.01, C:0.17, G:0.00, T:0.81
Consensus pattern (39 bp):
TTTCTTTTTCTCCTTTTTTCCTTCTTCTTTATTTTTTTT
Found at i:12932424 original size:23 final size:23
Alignment explanation
Indices: 12932325--12932424 Score: 66
Period size: 23 Copynumber: 4.4 Consensus size: 23
12932315 ACGAATTGAA
* *
12932325 TCTTTTTTTTCCTTTTCTCCTTTCT
1 TCTTTTTTTT--TCTTCTTCTTTCT
* *
12932350 T-TTTTTTCTTTTTTCTTTTTTCT
1 TCTTTTTT-TTTCTTCTTCTTTCT
*
12932373 TCTATTTTTTT-TT-TTCTTT-T
1 TCTTTTTTTTTCTTCTTCTTTCT
* *
12932393 TCTCCTTTTTTCCTTCTTCTTTCT
1 TCT-TTTTTTTTCTTCTTCTTTCT
12932417 T-TTTTTTT
1 TCTTTTTTT
12932425 GGCCTGCTGG
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
20 4 0.06
21 11 0.18
22 9 0.15
23 22 0.35
24 13 0.21
25 3 0.05
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (23 bp):
TCTTTTTTTTTCTTCTTCTTTCT
Found at i:12932651 original size:12 final size:12
Alignment explanation
Indices: 12932636--12932665 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
12932626 GTTTGGGTTT
*
12932636 GGGTTGCGGGTC
1 GGGTCGCGGGTC
12932648 GGGTCGCGGGTC
1 GGGTCGCGGGTC
12932660 GGGTCG
1 GGGTCG
12932666 GATCGGTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.60, T:0.20
Consensus pattern (12 bp):
GGGTCGCGGGTC
Found at i:12932710 original size:22 final size:22
Alignment explanation
Indices: 12932685--12932727 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12932675 GACCCGACTA
*
12932685 TTTTATTTTTTATTTTTCTTTT
1 TTTTATTTTTTATTCTTCTTTT
* *
12932707 TTTTCTTTTTTCTTCTTCTTT
1 TTTTATTTTTTATTCTTCTTT
12932728 CTTCTTTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTATTTTTTATTCTTCTTTT
Found at i:12932716 original size:10 final size:10
Alignment explanation
Indices: 12932700--12932754 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
12932690 TTTTTTATTT
12932700 TTCTTTTTT-
1 TTCTTTTTTC
12932709 TTCTTTTTTC
1 TTCTTTTTTC
*
12932719 TTCTTCTTTC
1 TTCTTTTTTC
*
12932729 TTCTTTCTTC
1 TTCTTTTTTC
12932739 TTCTTCTTCTTC
1 TTCTT-TT-TTC
12932751 TTCT
1 TTCT
12932755 ACACGAACCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
9 9 0.23
10 22 0.56
11 1 0.03
12 7 0.18
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (10 bp):
TTCTTTTTTC
Found at i:12932722 original size:3 final size:3
Alignment explanation
Indices: 12932716--12932754 Score: 60
Period size: 3 Copynumber: 12.3 Consensus size: 3
12932706 TTTTTCTTTT
12932716 TTC TTC TTC TTTC TTC TTTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC -TTC TTC -TTC TTC TTC TTC TTC TTC TTC T
12932755 ACACGAACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 28 0.82
4 6 0.18
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:12932729 original size:26 final size:29
Alignment explanation
Indices: 12932700--12932754 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 29
12932690 TTTTTTATTT
* *
12932700 TTCTT-TTTTTTCTTTTTTCTTCTTC-T-
1 TTCTTCTTTCTTCTTTCTTCTTCTTCTTC
12932726 TTCTTCTTTCTTC-TTCTTCTTCTTCTTC
1 TTCTTCTTTCTTCTTTCTTCTTCTTCTTC
12932754 T
1 T
12932755 ACACGAACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
26 16 0.67
27 7 0.29
28 1 0.04
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (29 bp):
TTCTTCTTTCTTCTTTCTTCTTCTTCTTC
Found at i:12932843 original size:23 final size:21
Alignment explanation
Indices: 12932817--12932875 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 21
12932807 CCGTTGGAGG
12932817 CTCTCCTCTTCTTCTCTTTTCTC
1 CTCT-CTCTTCTTCTCTTTT-TC
12932840 CTCTCT-TTC-TCTCCTTTTTC
1 CTCTCTCTTCTTCT-CTTTTTC
*
12932860 CTCT-TCTTTTTCTCTT
1 CTCTCTCTTCTTCTCTT
12932876 GTTTGCAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
19 1 0.03
20 14 0.44
21 11 0.34
22 2 0.06
23 4 0.12
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
CTCTCTCTTCTTCTCTTTTTC
Found at i:12932856 original size:21 final size:21
Alignment explanation
Indices: 12932820--12932873 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 21
12932810 TTGGAGGCTC
*
12932820 TCCTCTTC-TTCTCT--TTTC
1 TCCTCTTCTTTCTCTCCTTTT
12932838 TCCTC-TCTTTCTCTCCTTTT
1 TCCTCTTCTTTCTCTCCTTTT
*
12932858 TCCTCTTCTTTTTCTC
1 TCCTCTTCTTTCTCTC
12932874 TTGTTTGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.07
18 11 0.37
20 8 0.27
21 9 0.30
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (21 bp):
TCCTCTTCTTTCTCTCCTTTT
Found at i:12932870 original size:12 final size:11
Alignment explanation
Indices: 12932826--12932875 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
12932816 GCTCTCCTCT
12932826 TCTTCTCTTTTC
1 TCTTCT-TTTTC
* *
12932838 TCCTCTCTTTC
1 TCTTCTTTTTC
*
12932849 TCTCCTTTTTCC
1 TCTTCTTTTT-C
12932861 TCTTCTTTTTC
1 TCTTCTTTTTC
12932872 TCTT
1 TCTT
12932876 GTTTGCAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 16 0.52
12 15 0.48
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (11 bp):
TCTTCTTTTTC
Found at i:12933133 original size:29 final size:30
Alignment explanation
Indices: 12933078--12933252 Score: 196
Period size: 29 Copynumber: 6.0 Consensus size: 30
12933068 GAAAACATAG
* * **
12933078 GAAAAAATTT-GGGGCCAAAACATAATTTC
1 GAAAAAGTTTAGGGGTCAAAATGTAATTTC
** *
12933107 GAGGAAGTTTAGGGGTC-AAATGTAATTTT
1 GAAAAAGTTTAGGGGTCAAAATGTAATTTC
* *
12933136 GAGAAAGTTTAGGGATCAAAATGTAATTTC
1 GAAAAAGTTTAGGGGTCAAAATGTAATTTC
* * *
12933166 -AAAAAGTTCAGGGGTAAAAATGTAATTTT
1 GAAAAAGTTTAGGGGTCAAAATGTAATTTC
*
12933195 GAAAAATTTTAGGGGTCAAAATGTAATTTC
1 GAAAAAGTTTAGGGGTCAAAATGTAATTTC
*
12933225 -AAAAGGTTTAGGGGTCAAAATGTAATTT
1 GAAAAAGTTTAGGGGTCAAAATGTAATTT
12933253 TTATTTTTTT
Statistics
Matches: 122, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
29 81 0.66
30 41 0.34
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (30 bp):
GAAAAAGTTTAGGGGTCAAAATGTAATTTC
Found at i:12933187 original size:59 final size:58
Alignment explanation
Indices: 12933111--12933253 Score: 214
Period size: 59 Copynumber: 2.4 Consensus size: 58
12933101 AATTTCGAGG
* *
12933111 AAGTTTAGGGGTCAAATGTAATTTTGAGAAAGTTTAGGGATCAAAATGTAATTTCAAA
1 AAGTTTAGGGGTAAAATGTAATTTTGAAAAAGTTTAGGGATCAAAATGTAATTTCAAA
* * *
12933169 AAGTTCAGGGGTAAAAATGTAATTTTGAAAAATTTTAGGGGTCAAAATGTAATTTCAAA
1 AAGTTTAGGGGT-AAAATGTAATTTTGAAAAAGTTTAGGGATCAAAATGTAATTTCAAA
*
12933228 AGGTTTAGGGGTCAAAATGTAATTTT
1 AAGTTTAGGGGT-AAAATGTAATTTT
12933254 TATTTTTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
58 11 0.14
59 65 0.86
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (58 bp):
AAGTTTAGGGGTAAAATGTAATTTTGAAAAAGTTTAGGGATCAAAATGTAATTTCAAA
Found at i:12933271 original size:18 final size:19
Alignment explanation
Indices: 12933245--12933282 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
12933235 GGGGTCAAAA
12933245 TGTAATTTTT-ATTTTTTT
1 TGTAATTTTTGATTTTTTT
*
12933263 TGTATTTTTTGATTTTTTT
1 TGTAATTTTTGATTTTTTT
12933282 T
1 T
12933283 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (19 bp):
TGTAATTTTTGATTTTTTT
Found at i:12934264 original size:28 final size:28
Alignment explanation
Indices: 12934224--12934280 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
12934214 TATGTTTGTT
12934224 TTTATTATAATAA-CTTTATAATATATTA
1 TTTATTATAATAACCTTTATAAT-TATTA
*
12934252 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATAATAACCTTTATAATTATTA
12934280 T
1 T
12934281 AAAAACTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTATTATAATAACCTTTATAATTATTA
Found at i:12936047 original size:45 final size:46
Alignment explanation
Indices: 12935990--12936078 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 46
12935980 GTAAGGCCAA
* *
12935990 AGAGATTCAGATCCTGTA-TCCTTGAATTACAGTAGGAG-AGGATTG
1 AGAGATTCAGATCCTATACTCC-TAAATTACAGTAGGAGAAGGATTG
* *
12936035 AGAGAGTT-AGATCTTATACTCCTAAATTACAGTGGGAGAAGGAT
1 AGAGA-TTCAGATCCTATACTCCTAAATTACAGTAGGAGAAGGAT
12936079 GGTTCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
45 27 0.73
46 10 0.27
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (46 bp):
AGAGATTCAGATCCTATACTCCTAAATTACAGTAGGAGAAGGATTG
Found at i:12936133 original size:24 final size:24
Alignment explanation
Indices: 12936101--12936158 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
12936091 ATGTCCCAAA
12936101 ATTACAGTGGATTGAACCTTAAAG
1 ATTACAGTGGATTGAACCTTAAAG
*
12936125 ATTACAGTGAATTGAACCTTAAAG
1 ATTACAGTGGATTGAACCTTAAAG
* *
12936149 GTTATAGTGG
1 ATTACAGTGG
12936159 GGGCAATTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.36, C:0.10, G:0.22, T:0.31
Consensus pattern (24 bp):
ATTACAGTGGATTGAACCTTAAAG
Found at i:12936826 original size:44 final size:44
Alignment explanation
Indices: 12936699--12937091 Score: 262
Period size: 44 Copynumber: 8.6 Consensus size: 44
12936689 CTATAACAAG
* *
12936699 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGACTGAAGATAACCACAAA
1 TCTTATCTCCCTGAA-GTTGCAGTGGAGAAGATTGAAGAT-A-C-C-AA
*
12936747 CCTTATCTCCCTGAAGTTGCAGTGGAGCAAG-TTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-AAGATTGAAGATACCAA
* * * *
12936791 TCTTATCTCCCTGAAGTTGTAGCGGAGAAGATTGAAGCTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATACCAA
* * ** * *
12936835 TCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACGAT--GAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATT-GAA-GATACCAA
* * * *
12936879 TCCTATAC-CTCTGAAGTTGCAGTAGGTTG--GATT-AAGTCTACCATAACAA
1 TCTTAT-CTCCCTGAAGTTGCAGT-GG-AGAAGATTGAAG------ATACCAA
* * * *
12936928 GTCTTATCTCCCTCAGGTTGCAGTGGAGAAGACTGAAGATAATTACAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGAT-A--CCAA
* * * *
12936976 ACTTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAA
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATACCAA
* * * *
12937021 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGTTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATACCAA
*
12937065 TCCTATCTCCCTGAAGTTGCAGTGGAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAG
12937092 CGGATTAAAG
Statistics
Matches: 279, Mismatches: 41, Indels: 54
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.00
42 2 0.01
43 3 0.01
44 153 0.55
45 12 0.04
46 5 0.02
47 5 0.02
48 66 0.24
49 9 0.03
50 20 0.07
51 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGAAGATTGAAGATACCAA
Found at i:12936871 original size:230 final size:230
Alignment explanation
Indices: 12936608--12937198 Score: 950
Period size: 230 Copynumber: 2.6 Consensus size: 230
12936598 TATCAAACTT
*
12936608 TATCT-CTCTGAAGTTGCAGTGGAGTGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGT
1 TATCTCCT-TGAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGT
* *
12936672 AGGTCGGATTAAGTCTACTATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGCAGACTGAAGA
65 AGGTCGGATTAAGTCTACCATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGAAGACTGAAGA
*
12936737 TAACCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACCAATCTTATCTCCC
130 TAACCACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGATACCAATCTTATCTCCC
**
12936802 TGAAGTTGTAGCGGAGAAGATTGAAGCTACTAATCC
195 TGAAGTTACAGCGGAGAAGATTGAAGCTACTAATCC
*
12936838 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGCAGTA
1 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGTA
* *
12936903 GGTTGGATTAAGTCTACCATAACAAGTCTTATCTCCCTCAGGTTGCAGTGGAGAAGACTGAAGAT
66 GGTCGGATTAAGTCTACCATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGAAGACTGAAGAT
** * *
12936968 AATTACAAACTTTATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCT
131 AACCACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGATACCAATCTTATCTCCCT
* * *
12937033 GAAGTTACAGTGGAGCAGATTGAAGTTACTAATCC
196 GAAGTTACAGCGGAGAAGATTGAAGCTACTAATCC
* *
12937068 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGCGATGAATCCTATACCTCTGAAGTTGTAGTA
1 TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGTA
* * * * * *
12937133 GGTCGGATTAAATCTACCATAACGAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGACTGTAGAT
66 GGTCGGATTAAGTCTACCATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGAAGACTGAAGAT
12937198 A
131 A
12937199 GCGGATCTTA
Statistics
Matches: 333, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
230 331 0.99
231 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (230 bp):
TATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACGATGAATCCTATACCTCTGAAGTTGTAGTA
GGTCGGATTAAGTCTACCATAACAAGTCTTATCTCCCTAAGGTTGCAGTGGAGAAGACTGAAGAT
AACCACAAACCTTATCTCCCTGAAGTTACAGTGGAGCAAGTTGAAGATACCAATCTTATCTCCCT
GAAGTTACAGCGGAGAAGATTGAAGCTACTAATCC
Found at i:12937069 original size:186 final size:182
Alignment explanation
Indices: 12936748--12937087 Score: 407
Period size: 186 Copynumber: 1.8 Consensus size: 182
12936738 AACCACAAAC
* * * * **
12936748 CTTATCTCCCTGAAGTTGCAGTGGAGCAAGTTGAAGATACCAATCTTATCTCCCTGAAGTTGTAG
1 CTTATCTCCCTCAAGTTGCAGTGGAGCAAGCTGAAGATAACAAACTTATCTCCCTGAAGTTACAG
* * * * *
12936813 CGGAGAAGATTGAAGCTACTAATCCTATCTCCTTGAAGTTGCAGTGGAGCGGATTAAAACGATGA
66 CGGAGAAGATTGAAGATACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACGATGA
*
12936878 ATCCTATAC-CTCTGAAGTTGCAGTAGGTTGGATTAAGTCTACCATAACAAGT
131 ATCCTAT-CTCCCTGAAGTTGCAGTAGGTTGGATTAAGTCTACCATAACAAGT
*
12936930 CTTATCTCCCTCAGGTTGCAGTGGAG-AAGACTGAAGATAATTACAAACTTTATCTCCCTGAAGT
1 CTTATCTCCCTCAAGTTGCAGTGGAGCAAG-CTGAAGAT-A--ACAAAC-TTATCTCCCTGAAGT
* * * * * **
12936994 TACAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGT
61 TACAGCGGAGAAGATTGAAGATACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAC
*
12937059 TACT-AATCCTATCTCCCTGAAGTTGCAGT
126 GA-TGAATCCTATCTCCCTGAAGTTGCAGT
12937088 GGAGCGGATT
Statistics
Matches: 130, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
181 3 0.02
182 31 0.24
183 1 0.01
185 5 0.04
186 89 0.68
187 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (182 bp):
CTTATCTCCCTCAAGTTGCAGTGGAGCAAGCTGAAGATAACAAACTTATCTCCCTGAAGTTACAG
CGGAGAAGATTGAAGATACCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACGATGA
ATCCTATCTCCCTGAAGTTGCAGTAGGTTGGATTAAGTCTACCATAACAAGT
Found at i:12937662 original size:32 final size:32
Alignment explanation
Indices: 12937593--12937663 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
12937583 ACATGCATAC
* *
12937593 ATTTTTATAATATATATATGCGTAGATATTTTA
1 ATTTTTATAATATATATATACG-ACATATTTTA
12937626 ATTTTTATAA-ATATATATAC-ACATAATTTTA
1 ATTTTTATAATATATATATACGACAT-ATTTTA
12937657 TATTTTT
1 -ATTTTT
12937664 TTTTATATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 3 0.09
31 6 0.18
32 15 0.44
33 10 0.29
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (32 bp):
ATTTTTATAATATATATATACGACATATTTTA
Found at i:12938287 original size:71 final size:71
Alignment explanation
Indices: 12938171--12938305 Score: 227
Period size: 71 Copynumber: 1.9 Consensus size: 71
12938161 TCTTTTCAAA
* * *
12938171 CTCAAGTTTTAAATGATCTCGGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGTATGATCCA
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATAGTGTCCTAACTTACTGGGCATGATCCA
12938236 TTTTTT
66 TTTTTT
12938242 CTCAAGTTTTAAACGATCTCGGGAATTAAGAA-ACGATAGTGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGA-GATAGTGTCCTAACTTACTGGGCATGATCC
12938306 CCTTTTTAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
70 1 0.02
71 59 0.98
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (71 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATAGTGTCCTAACTTACTGGGCATGATCCA
TTTTTT
Found at i:12942708 original size:25 final size:25
Alignment explanation
Indices: 12942678--12942793 Score: 151
Period size: 25 Copynumber: 4.6 Consensus size: 25
12942668 GGACACACCA
* * *
12942678 CAGCTTGCATGAGCGTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCATTATT
*
12942703 CAGCTTGCATGAGCTTCCCATTATT
1 CAGCTCGCATGAGCTTCCCATTATT
* * *
12942728 CAGCTCGTATGAGCTTCTCGTTATT
1 CAGCTCGCATGAGCTTCCCATTATT
12942753 CAGCTCGCATGAGCTTCCCATTATT
1 CAGCTCGCATGAGCTTCCCATTATT
* *
12942778 CAGCTCGGAAGAGCTT
1 CAGCTCGCATGAGCTT
12942794 ACTGCTTACA
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 80 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.33
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCCATTATT
Found at i:12942740 original size:50 final size:50
Alignment explanation
Indices: 12942686--12942784 Score: 171
Period size: 50 Copynumber: 2.0 Consensus size: 50
12942676 CACAGCTTGC
*
12942686 ATGAGCGTCCCGTTATTCAGCTTGCATGAGCTTCCCATTATTCAGCTCGT
1 ATGAGCGTCCCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCGT
* *
12942736 ATGAGCTTCTCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCG
1 ATGAGCGTCCCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCG
12942785 GAAGAGCTTA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.34
Consensus pattern (50 bp):
ATGAGCGTCCCGTTATTCAGCTCGCATGAGCTTCCCATTATTCAGCTCGT
Found at i:12947490 original size:22 final size:23
Alignment explanation
Indices: 12947463--12947505 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
12947453 ACTTAGGAAA
12947463 TTTTGCTTATT-TTTTT-TTATGT
1 TTTTGCTT-TTATTTTTCTTATGT
12947485 TTTTGCTTTTATTTTTCTTAT
1 TTTTGCTTTTATTTTTCTTAT
12947506 CAAAGTGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 2 0.11
22 13 0.68
23 4 0.21
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.77
Consensus pattern (23 bp):
TTTTGCTTTTATTTTTCTTATGT
Found at i:12950900 original size:43 final size:43
Alignment explanation
Indices: 12950839--12951210 Score: 477
Period size: 43 Copynumber: 8.7 Consensus size: 43
12950829 GATATGATTT
*
12950839 CGTGTAAGACCACGTCTGGGATGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
12950882 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* *
12950925 CGTGTAAGACCACGTCTGGGACGTTGGCATTGAATTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* *
12950968 CATGTAAGACCACGTCTGGGACGTTGGCATTGACTTGTGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* *
12951011 CGTGTAAGACCACGTCTGAGACGTTGGCATCGACTTGGGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* * *
12951054 TGTGTAAGACCACGTCTGAGACGTTGGCATCGACTTATGTTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
* * *
12951097 CGTGTAAGACCACGTTTGAGACGTTGGCATCGTA-TT-TGATT-
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCG-ACTTGTGTTTA
* ** * ** *
12951138 CGTGTAAGACC-CTGTCTGAGACAG-TGAAATTGA-TATAAGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGTTTA
*
12951181 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
12951211 TGTACGATAT
Statistics
Matches: 297, Mismatches: 24, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
40 3 0.01
41 25 0.08
42 10 0.03
43 257 0.87
44 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTA
Found at i:12954298 original size:16 final size:15
Alignment explanation
Indices: 12954275--12954304 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
12954265 TTAATATGTT
12954275 TATTTATTCATATCA
1 TATTTATTCATATCA
12954290 TATTGTATTCATATC
1 TATT-TATTCATATC
12954305 GCATTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.53
Consensus pattern (15 bp):
TATTTATTCATATCA
Found at i:12956600 original size:69 final size:68
Alignment explanation
Indices: 12956489--12956630 Score: 185
Period size: 69 Copynumber: 2.1 Consensus size: 68
12956479 TATTATAATT
* * * *
12956489 TTTTTAATGAAATTAGTAAAGAATTGAGCTATAAGAGTATTCTCTGGTCAATGAAGGATTAAAAT
1 TTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTCTAGTCAATG-AGGATTAAAAT
12956554 TAAA
65 TAAA
** * * *
12956558 TTTTTAATGAAAATAGTAAAGAAGTGAACTATGTGAGTATTCTTTAGTCCATGTGGATTAAAATT
1 TTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTCTAGTCAATGAGGATTAAAATT
*
12956623 AAC
66 AAA
12956626 TTTTT
1 TTTTT
12956631 TTTATGAAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
68 18 0.29
69 45 0.71
ACGTcount: A:0.39, C:0.06, G:0.17, T:0.38
Consensus pattern (68 bp):
TTTTTAATGAAAATAGTAAAGAAGTGAACTATAAGAGTATTCTCTAGTCAATGAGGATTAAAATT
AAA
Found at i:12958414 original size:22 final size:22
Alignment explanation
Indices: 12958388--12958452 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
12958378 AACTTAATCC
12958388 TTTCTCTCAAATTCTCTCT-AA
1 TTTCTCTCAAATTCTCTCTCAA
12958409 TATTCTCTCAAATTCT-TCTCAA
1 T-TTCTCTCAAATTCTCTCTCAA
12958431 TTTCCTCTCAAATTC-CTCTCAA
1 TTT-CTCTCAAATTCTCTCTCAA
12958453 ATTATTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
21 6 0.15
22 34 0.85
ACGTcount: A:0.25, C:0.31, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTCTCTCAAATTCTCTCTCAA
Found at i:12958430 original size:11 final size:10
Alignment explanation
Indices: 12958389--12958455 Score: 80
Period size: 11 Copynumber: 6.2 Consensus size: 10
12958379 ACTTAATCCT
12958389 TTCTCTCAAA
1 TTCTCTCAAA
12958399 TTCTCTCTAATA
1 TTCTCTC-AA-A
12958411 TTCTCTCAAA
1 TTCTCTCAAA
*
12958421 TTCTTCTCAAT
1 TTC-TCTCAAA
12958432 TTCCTCTCAAA
1 TT-CTCTCAAA
12958443 TTCCTCTCAAA
1 TT-CTCTCAAA
12958454 TT
1 TT
12958456 ATTTTCAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
10 11 0.22
11 31 0.61
12 9 0.18
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:12958450 original size:33 final size:33
Alignment explanation
Indices: 12958392--12958464 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
12958382 TAATCCTTTC
12958392 TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
1 TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
* *
12958425 TCTCAATTTC-CTCTCAA-ATTCCTCTCAAATTAT
1 TCTCAAATTCTCTCT-AATATT-CTCTCAAATTCT
*
12958458 TTTCAAA
1 TCTCAAA
12958465 AAAGCTTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 7 0.21
33 27 0.79
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (33 bp):
TCTCAAATTCTCTCTAATATTCTCTCAAATTCT
Found at i:12958463 original size:22 final size:22
Alignment explanation
Indices: 12958394--12958464 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
12958384 ATCCTTTCTC
*
12958394 TCAAATT-CTCTCTAA-TATTCT
1 TCAAATTCCTCTCAAATTATT-T
* * ** *
12958415 CTCAAATTCTTCTCAATTTCCTC
1 -TCAAATTCCTCTCAAATTATTT
12958438 TCAAATTCCTCTCAAATTATTT
1 TCAAATTCCTCTCAAATTATTT
12958460 TCAAA
1 TCAAA
12958465 AAAGCTTTAA
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
22 29 0.81
23 5 0.14
24 2 0.06
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.44
Consensus pattern (22 bp):
TCAAATTCCTCTCAAATTATTT
Found at i:12958501 original size:28 final size:28
Alignment explanation
Indices: 12958452--12958515 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
12958442 ATTCCTCTCA
* * *
12958452 AATTATTTTCAAAAAAGCTTTAATTTTT
1 AATTATTTTTAAAAAAACTTTAAATTTT
*
12958480 AATTATTTTTAAAAAAATTTTAAATTTT
1 AATTATTTTTAAAAAAACTTTAAATTTT
12958508 -ATT-TTTTT
1 AATTATTTTT
12958516 GAAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 5 0.16
27 3 0.09
28 24 0.75
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (28 bp):
AATTATTTTTAAAAAAACTTTAAATTTT
Found at i:12959642 original size:7 final size:7
Alignment explanation
Indices: 12959630--12959668 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
12959620 TAGTCGATTG
12959630 GTATTTA
1 GTATTTA
12959637 GTATTTA
1 GTATTTA
12959644 GTATTTA
1 GTATTTA
12959651 GTATTTA
1 GTATTTA
12959658 GTATTTA
1 GTATTTA
12959665 GTAT
1 GTAT
12959669 ATATAACTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (7 bp):
GTATTTA
Found at i:12960635 original size:21 final size:21
Alignment explanation
Indices: 12960588--12960636 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
12960578 CCCAACTCCG
12960588 ACAACCAGATCCCCTACCGGA
1 ACAACCAGATCCCCTACCGGA
** *
12960609 GGAACCAGAATCCCC-GCCGGA
1 ACAACCAG-ATCCCCTACCGGA
12960630 ACAACCA
1 ACAACCA
12960637 CAACCCTCAC
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.35, C:0.41, G:0.18, T:0.06
Consensus pattern (21 bp):
ACAACCAGATCCCCTACCGGA
Found at i:12960999 original size:61 final size:61
Alignment explanation
Indices: 12960884--12961002 Score: 157
Period size: 61 Copynumber: 2.0 Consensus size: 61
12960874 TAGATTAGAT
* * * *
12960884 TTTCTATGTACTAGTTGGAATTTACTTTTACATTTTTAATATAATAGAAATTCTTTTACAG
1 TTTCTATGTACCAATTGGAATTTACTTTCACATTTTTAATAGAATAGAAATTCTTTTACAG
* * * **
12960945 TTTCTATGTACCAATTGTAATTTACTTTCATATTTTTAATAGATTAGATTTTCTTTTA
1 TTTCTATGTACCAATTGGAATTTACTTTCACATTTTTAATAGAATAGAAATTCTTTTA
12961003 AATAAGTCAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.29, C:0.10, G:0.08, T:0.52
Consensus pattern (61 bp):
TTTCTATGTACCAATTGGAATTTACTTTCACATTTTTAATAGAATAGAAATTCTTTTACAG
Found at i:12964282 original size:126 final size:126
Alignment explanation
Indices: 12964056--12964474 Score: 658
Period size: 126 Copynumber: 3.3 Consensus size: 126
12964046 GGCCTAAAAG
* *
12964056 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTATTTTAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * * *
12964121 CTGCTTAAAGTGTTTTTGACACTATTTGCTTAGAAACGTCAACTCAAAATTATTTTTTCAA
66 CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* * * *
12964182 GAGCTACTGTAGCAAAAGCGTGTCCATGTGGGAGCTTCTTTCAATACTTTTGCTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* *
12964247 CTGCCTAAAGCGTTTTTGATACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAG
66 CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* *
12964308 GAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGACAAAGCATC
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
* * *
12964373 CTGTCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTTAA
66 CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
* * *
12964434 GAGCAACTGTAGCAAAAACGCATCCACGTGGGAGTTTCTTT
1 GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTT
12964475 AAATTAACAA
Statistics
Matches: 268, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 268 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (126 bp):
GAGCTACTGTAGCAAAAACGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
CTGCCTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAA
Found at i:12964618 original size:97 final size:95
Alignment explanation
Indices: 12964513--12964691 Score: 252
Period size: 97 Copynumber: 1.9 Consensus size: 95
12964503 CCTAAACCCC
* * * *
12964513 AAACCCTAATTTAATTAAATTTTTAC-TTAAAAACCCTAAACACTAAACCCTAATCCAATTTTTA
1 AAACCCTAATTTAATT-AATTTTTACTTTAAAAACCATAAACACGAAA-CCTAATACAATTTTGA
* *
12964577 AACAATTTTTAATTAATTTACTCAAGAAACTGT
64 AA-AAATTATAATTAATTTACTCAAGAAACTGT
* *
12964610 AAACCCTAATTTAATTTATTTTTTCTTTAAAAACCATAAACACGAAACCTAATACAATTTTGAAA
1 AAACCCTAATTTAATTAATTTTTACTTTAAAAACCATAAACACGAAACCTAATACAATTTTGAAA
12964675 AAATTATAATTAATTTA
66 AAATTATAATTAATTTA
12964692 ATTGACAAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 15 0.21
96 23 0.32
97 35 0.48
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.37
Consensus pattern (95 bp):
AAACCCTAATTTAATTAATTTTTACTTTAAAAACCATAAACACGAAACCTAATACAATTTTGAAA
AAATTATAATTAATTTACTCAAGAAACTGT
Found at i:12964727 original size:97 final size:96
Alignment explanation
Indices: 12964506--12964714 Score: 233
Period size: 97 Copynumber: 2.2 Consensus size: 96
12964496 AAGTAACCCT
* * * * * *
12964506 AAACCCCAAACCCTAATTTAATTAAATTTTTACTTAAAAACCCTAAACACTAAACCCTAATCCAA
1 AAACCCTAAACACTAATTTAATT-TATTTTTACTTAAAAACCATAAACACGAAACCCTAATACAA
* * * * *
12964571 TTTTTAAACAATTTTTAATTAATTTACTCAAG
65 TTTTGAAACAAATTATAATTAATTTAATCAAC
** * *
12964603 AAACTGTAAACCCTAATTTAATTTATTTTTTCTTTAAAAACCATAAACACGAAA-CCTAATACAA
1 AAACCCTAAACACTAATTTAATTTATTTTTAC-TTAAAAACCATAAACACGAAACCCTAATACAA
**
12964667 TTTTGAAA-AAATTATAATTAATTTAATTGAC
65 TTTTGAAACAAATTATAATTAATTTAATCAAC
12964698 AAACCCTAAACACTAAT
1 AAACCCTAAACACTAAT
12964715 CCCTTATTTA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
95 31 0.33
96 23 0.25
97 39 0.42
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.34
Consensus pattern (96 bp):
AAACCCTAAACACTAATTTAATTTATTTTTACTTAAAAACCATAAACACGAAACCCTAATACAAT
TTTGAAACAAATTATAATTAATTTAATCAAC
Found at i:12977775 original size:7 final size:7
Alignment explanation
Indices: 12977763--12977795 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
12977753 TATTCATGTC
*
12977763 CCTTCCG
1 CCTTCCA
12977770 CCTTCCA
1 CCTTCCA
12977777 CCTTCCA
1 CCTTCCA
12977784 CCTTCCA
1 CCTTCCA
12977791 CCTTC
1 CCTTC
12977796 TGGCCGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.09, C:0.58, G:0.03, T:0.30
Consensus pattern (7 bp):
CCTTCCA
Found at i:12987165 original size:45 final size:45
Alignment explanation
Indices: 12987091--12987221 Score: 172
Period size: 45 Copynumber: 2.9 Consensus size: 45
12987081 TGTGACATAG
* * *
12987091 TTCGCATGTATGAGTCTGCCATATCTATGAATCTTCTTTTATGAA
1 TTCGCATGTATGAGTCCGCTATATCTATGAATCTTCTTCTATGAA
* * *
12987136 TTCGTATGTATGAGTCCACTATATTTATGAATCTTCTTCTATGAA
1 TTCGCATGTATGAGTCCGCTATATCTATGAATCTTCTTCTATGAA
* * * *
12987181 TCCGCATGTATGAGCCCGTTATATCTATGAATATTCTTCTA
1 TTCGCATGTATGAGTCCGCTATATCTATGAATCTTCTTCTA
12987222 CAAATTTGCA
Statistics
Matches: 73, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 73 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.42
Consensus pattern (45 bp):
TTCGCATGTATGAGTCCGCTATATCTATGAATCTTCTTCTATGAA
Found at i:12988605 original size:22 final size:22
Alignment explanation
Indices: 12988566--12988607 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
12988556 CCAAATGAAA
*
12988566 ACATTTTTTTTATAATTTTTTC
1 ACATTTTTTTGATAATTTTTTC
12988588 ACATTTTTTGTGAT-ATTTTT
1 ACATTTTTT-TGATAATTTTT
12988608 AAACCTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (22 bp):
ACATTTTTTTGATAATTTTTTC
Found at i:12995327 original size:16 final size:17
Alignment explanation
Indices: 12995296--12995329 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
12995286 TTTATCTAAT
12995296 TATATTTAATAATTTTA
1 TATATTTAATAATTTTA
12995313 TATATTTAA-AATTTTA
1 TATATTTAATAATTTTA
12995329 T
1 T
12995330 TAGTTAATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATATTTAATAATTTTA
Found at i:12999220 original size:17 final size:17
Alignment explanation
Indices: 12999193--12999225 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
12999183 AAAGTTTAGG
12999193 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
12999211 GGGG-AATAAAAGTTT
1 GGGGAAATAAAAGTTT
12999226 GAGAGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.53
17 3 0.20
18 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.27
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:12999375 original size:32 final size:32
Alignment explanation
Indices: 12999317--12999377 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
12999307 AGAGGTGGGA
*
12999317 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAAG
* * *
12999349 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
12999378 TAAAATGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.43, C:0.00, G:0.38, T:0.20
Consensus pattern (32 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAAG
Found at i:12999485 original size:5 final size:5
Alignment explanation
Indices: 12999477--12999506 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
12999467 TTAGAGGGTT
12999477 GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG
1 GGGAG GGGAG GGGAG GGGAG GGGAG GGGAG
12999507 TAAAATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
GGGAG
Found at i:13000747 original size:18 final size:19
Alignment explanation
Indices: 13000706--13000747 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
13000696 TTATTAAAAC
* *
13000706 ATAATATTTAAAATATGAT
1 ATAATATTAAAAATATGAA
*
13000725 GTAATATTAAAAATA-GAA
1 ATAATATTAAAAATATGAA
13000743 ATAAT
1 ATAAT
13000748 GGTATAAATG
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.36
Consensus pattern (19 bp):
ATAATATTAAAAATATGAA
Found at i:13001370 original size:27 final size:27
Alignment explanation
Indices: 13001332--13001383 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
13001322 TTAAGAGTTT
13001332 ATGCAAATGAGTTTTCTAAAAAAAAAC
1 ATGCAAATGAGTTTTCTAAAAAAAAAC
13001359 ATGCAAATGAGTTTTCTAAAAAAAA
1 ATGCAAATGAGTTTTCTAAAAAAAA
13001384 CGTGTATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.27
Consensus pattern (27 bp):
ATGCAAATGAGTTTTCTAAAAAAAAAC
Found at i:13013744 original size:9 final size:9
Alignment explanation
Indices: 13013730--13013925 Score: 67
Period size: 10 Copynumber: 20.6 Consensus size: 9
13013720 TTTTATTTTT
13013730 ATTTTTATA
1 ATTTTTATA
13013739 ATTTTTATA
1 ATTTTTATA
*
13013748 AGTTTATATCA
1 A-TTTTTAT-A
*
13013759 ATTTTAATA
1 ATTTTTATA
*
13013768 CTTTTTATTA
1 ATTTTTA-TA
* *
13013778 TTTTTTGTA
1 ATTTTTATA
*
13013787 GACTTTTAATA
1 -A-TTTTTATA
*
13013798 TGTTTTTATAA
1 -ATTTTTAT-A
*
13013809 AATTTTA-A
1 ATTTTTATA
* *
13013817 ACATTTTAAA
1 A-TTTTTATA
*
13013827 CATTTTTATT
1 -ATTTTTATA
* *
13013837 AGTTTTGTA
1 ATTTTTATA
*
13013846 ATTCTTAATA
1 ATT-TTTATA
13013856 ATTTTTAATA
1 ATTTTT-ATA
13013866 ATTTATTAT-
1 ATTT-TTATA
*
13013875 TTTTTTATA
1 ATTTTTATA
*
13013884 TTTTTTAT-
1 ATTTTTATA
13013892 A-TTTTATAA
1 ATTTTTAT-A
*
13013901 ATTTATATCA
1 ATTTTTAT-A
*
13013911 ATTTTCATA
1 ATTTTTATA
13013920 TATTTT
1 -ATTTT
13013926 AATATTTAAT
Statistics
Matches: 139, Mismatches: 31, Indels: 33
0.68 0.15 0.16
Matches are distributed among these distances:
7 6 0.04
8 6 0.04
9 47 0.34
10 68 0.49
11 12 0.09
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:13014639 original size:17 final size:17
Alignment explanation
Indices: 13014619--13014674 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
13014609 TGAAAAATAC
*
13014619 AAAAATGTAAAAATTTT
1 AAAAATATAAAAATTTT
* ***
13014636 AAAAATCTGTTAATTTT
1 AAAAATATAAAAATTTT
13014653 AAAAA-ATAAAAATATTT
1 AAAAATATAAAAAT-TTT
13014670 AAAAA
1 AAAAA
13014675 AACATTTCAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
16 4 0.13
17 26 0.87
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.34
Consensus pattern (17 bp):
AAAAATATAAAAATTTT
Found at i:13015826 original size:31 final size:31
Alignment explanation
Indices: 13015791--13015849 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
13015781 TTTCTTTTCT
*
13015791 TTTCTGTCGATTTGC-TCCCTCTGTTTCTCAG
1 TTTCTGCCGATTTGCGT-CCTCTGTTTCTCAG
*
13015822 TTTCTGCCGATTTGCGTCTTCTGTTTCT
1 TTTCTGCCGATTTGCGTCCTCTGTTTCT
13015850 TTTCTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.05, C:0.27, G:0.17, T:0.51
Consensus pattern (31 bp):
TTTCTGCCGATTTGCGTCCTCTGTTTCTCAG
Found at i:13017622 original size:23 final size:22
Alignment explanation
Indices: 13017579--13017637 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
13017569 TTGTTTTGAT
13017579 ATTGTTCTTGATTTGTTCTGGAA
1 ATTGTTCTTGA-TTGTTCTGGAA
13017602 ATTGTT-TTGATTGTCTGCTGGAA
1 ATTGTTCTTGATTGT-T-CTGGAA
13017625 ATTGTTCTTGATT
1 ATTGTTCTTGATT
13017638 TGTTAGTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
23 18 0.55
24 6 0.18
ACGTcount: A:0.17, C:0.08, G:0.22, T:0.53
Consensus pattern (22 bp):
ATTGTTCTTGATTGTTCTGGAA
Found at i:13018485 original size:31 final size:31
Alignment explanation
Indices: 13018447--13018510 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
13018437 CCATCATTCT
*
13018447 TTATTAAACCAAATCCTCATTCTTTATTTTA
1 TTATTAAACCAAATCCTCATTATTTATTTTA
13018478 TTATTAAACCAAATCCTCATTATTTATTTTA
1 TTATTAAACCAAATCCTCATTATTTATTTTA
13018509 TT
1 TT
13018511 TGTTTTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (31 bp):
TTATTAAACCAAATCCTCATTATTTATTTTA
Found at i:13018584 original size:37 final size:37
Alignment explanation
Indices: 13018534--13018622 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
13018524 GAAAACCTTA
* *
13018534 ATTAAATTAATCAATGTTCAAACTTTGAACATGCTTT
1 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
13018571 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
1 ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
*
13018608 AATAAACTAATCAAT
1 ATTAAACTAATCAAT
13018623 ATATTTATAC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (37 bp):
ATTAAACTAATCAATGTTAAAACTTTGAACATGCTTT
Found at i:13018874 original size:33 final size:33
Alignment explanation
Indices: 13018837--13018902 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
13018827 AATCTAACAA
13018837 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTAGGTCAATTATACAT
13018870 ATACCAACAATTAATTTTAGGTCAATTATACAT
1 ATACCAACAATTAATTTTAGGTCAATTATACAT
13018903 GCTTTATAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.36
Consensus pattern (33 bp):
ATACCAACAATTAATTTTAGGTCAATTATACAT
Found at i:13020512 original size:11 final size:12
Alignment explanation
Indices: 13020485--13020510 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13020475 TAGAAATTAG
13020485 TTTGTGAAACTT
1 TTTGTGAAACTT
13020497 TTTGTGAAACTT
1 TTTGTGAAACTT
13020509 TT
1 TT
13020511 GTATTGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (12 bp):
TTTGTGAAACTT
Found at i:13022066 original size:91 final size:91
Alignment explanation
Indices: 13021919--13022126 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
13021909 TTGATTTTAG
* *
13021919 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
13021984 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
13022011 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
13022076 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
13022102 CAAATTCATATATGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
13022127 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:13022095 original size:26 final size:28
Alignment explanation
Indices: 13022041--13022101 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
13022031 TATTATCAAG
* *
13022041 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
13022069 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
13022095 AATTATA
1 AATTATA
13022102 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:13022101 original size:44 final size:43
Alignment explanation
Indices: 13021959--13022145 Score: 121
Period size: 47 Copynumber: 4.1 Consensus size: 43
13021949 GAATTTTATG
* *
13021959 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
13022003 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
13022050 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
* * * *
13022094 AAATTATACAAATTCATATATGAAAATT-TATTAGTTATAATTATTTT
1 AAATTAT--ATATT-AT-TAT-TAAATTATATTAATAATAATTATTTT
13022141 AAATT
1 AAATT
13022146 TTATTAAATC
Statistics
Matches: 111, Mismatches: 16, Indels: 29
0.71 0.10 0.19
Matches are distributed among these distances:
42 6 0.05
43 4 0.04
44 20 0.18
45 12 0.11
46 15 0.14
47 34 0.31
48 9 0.08
49 11 0.10
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:13022134 original size:47 final size:45
Alignment explanation
Indices: 13021993--13022145 Score: 136
Period size: 47 Copynumber: 3.3 Consensus size: 45
13021983 TATTTAATAT
* *
13021993 TAATTATTTTAAATTGTATAAATTCATATAAGAAAATTTATTATCAA
1 TAATTATTTTAAATTATA-AAATTCATATATGAAAATTTATTAT-AA
* * * *
13022040 GAATT-TTATGAAATTAT-ATATT-AT-TAT-TAAATTATATGTAATAA
1 TAATTATT-TTAAATTATAAAATTCATATATGAAAATT-TAT-T-ATAA
*
13022084 TAATTATTTTAAATTATACAAATTCATATATGAAAATTTATTAGTTA
1 TAATTATTTTAAATTATA-AAATTCATATATGAAAATTTATTA-TAA
13022131 TAATTATTTTAAATT
1 TAATTATTTTAAATT
13022146 TTATTAAATC
Statistics
Matches: 84, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
42 5 0.06
43 5 0.06
44 17 0.20
45 8 0.10
46 7 0.08
47 31 0.37
48 6 0.07
49 5 0.06
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.48
Consensus pattern (45 bp):
TAATTATTTTAAATTATAAAATTCATATATGAAAATTTATTATAA
Found at i:13022250 original size:66 final size:64
Alignment explanation
Indices: 13022180--13022498 Score: 250
Period size: 66 Copynumber: 5.2 Consensus size: 64
13022170 AAATATATTT
13022180 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
13022245 G
64 G
* * * * * **
13022246 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTATTT-AG--AA-T-ATGT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
13022300 AATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
13022365 G
64 G
* * * * * **
13022366 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
13022420 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
13022485 G
64 G
*
13022486 AATATTGATTATT
1 AATATTAATTATT
13022499 AAGAGTTTTA
Statistics
Matches: 191, Mismatches: 34, Indels: 57
0.68 0.12 0.20
Matches are distributed among these distances:
54 29 0.15
55 13 0.07
56 10 0.05
57 6 0.03
58 1 0.01
59 21 0.11
60 18 0.09
61 21 0.11
62 1 0.01
63 6 0.03
64 10 0.05
65 13 0.07
66 42 0.22
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:13022266 original size:120 final size:120
Alignment explanation
Indices: 13022142--13022559 Score: 721
Period size: 120 Copynumber: 3.5 Consensus size: 120
13022132 AATTATTTTA
* * *
13022142 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATCTTT
13022206 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
13022262 AATTTTATTAAATTATATATTTTATTTAGAATATGTTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
13022327 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
13022382 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
13022447 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
13022502 AGTTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
13022560 ATGATTAAAT
Statistics
Matches: 283, Mismatches: 13, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 276 0.98
121 7 0.02
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:13022282 original size:61 final size:61
Alignment explanation
Indices: 13022215--13022522 Score: 241
Period size: 61 Copynumber: 5.1 Consensus size: 61
13022205 TTATAGTATC
13022215 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * ** * * *
13022276 ATATATT-TTATTT-AG--AA-T-ATGT-TTAATAATAATTATGTTA-AATTATCTTTTATAGTA
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTAT-TAAGAATT-T-TATTA-A--A
*
13022333 TC
60 TT
13022335 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
13022396 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
13022454 C
61 T
* *
13022455 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAGTTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
13022516 ATATATT
1 ATATATT
13022523 TTAATTATAA
Statistics
Matches: 185, Mismatches: 36, Indels: 52
0.68 0.13 0.19
Matches are distributed among these distances:
54 15 0.08
55 6 0.03
56 5 0.03
57 14 0.08
58 8 0.04
59 29 0.16
60 26 0.14
61 35 0.19
62 7 0.04
63 14 0.08
64 5 0.03
65 6 0.03
66 15 0.08
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:13022422 original size:15 final size:15
Alignment explanation
Indices: 13022387--13022438 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
13022377 TTAAGAATTT
*
13022387 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13022401 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13022415 TATTTAATAATAAT-
1 TATTTAATTATAATA
13022429 TATGTTAATT
1 TAT-TTAATT
13022439 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13022519 original size:59 final size:59
Alignment explanation
Indices: 13022216--13022519 Score: 202
Period size: 59 Copynumber: 5.1 Consensus size: 59
13022206 TATAGTATCA
13022216 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* * * ** * * *
13022275 TATATATTTTATTT-AG--AA-T-ATGT-TTAATAATAATTATGTTA-AATTATCTTTTATAGTA
1 TATAT-TATGATTTGAGTAAATTCATATAAGAATATTAATTAT-TAAGAATT-T-TATTA-A--A
13022333 T
59 T
13022334 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* * * * * * * *
13022395 TATA-TAT--TTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 TATATTATGATTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
* *
13022454 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAGTTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
13022515 TATAT
1 TATAT
13022520 ATTTTAATTA
Statistics
Matches: 181, Mismatches: 34, Indels: 60
0.66 0.12 0.22
Matches are distributed among these distances:
54 15 0.08
55 6 0.03
56 11 0.06
57 14 0.08
58 10 0.06
59 28 0.15
60 20 0.11
61 22 0.12
62 9 0.05
63 14 0.08
64 11 0.06
65 6 0.03
66 15 0.08
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:13022537 original size:16 final size:16
Alignment explanation
Indices: 13022516--13022557 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
13022506 TTATTAAATT
*
13022516 ATATATTTTAATTATA
1 ATATATTTTAATAATA
13022532 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
13022547 AT-TATGTTTAA
1 ATATAT-TTTAA
13022558 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:13022542 original size:15 final size:15
Alignment explanation
Indices: 13022507--13022548 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
13022497 TTAAGAGTTT
*
13022507 TATTAAATTAT-ATA
1 TATTTAATTATAATA
13022521 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
13022535 TATTTAATAATAAT
1 TATTTAATTATAAT
13022549 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:13024722 original size:10 final size:10
Alignment explanation
Indices: 13024703--13024736 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
13024693 TAAACTAATT
13024703 AAAATTATAA
1 AAAATTATAA
*
13024713 AAAATCATAA
1 AAAATTATAA
*
13024723 AAACTTATAA
1 AAAATTATAA
13024733 AAAA
1 AAAA
13024737 ATTACTAGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAATTATAA
Found at i:13024771 original size:29 final size:28
Alignment explanation
Indices: 13024722--13024796 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 28
13024712 AAAAATCATA
13024722 AAAACTTATAAAAAAATTACTAGTAATTAT
1 AAAACTTAT--AAAAATTACTAGTAATTAT
*
13024752 AACAAGTTATAAAAATTACTAGTAATTAT
1 AA-AACTTATAAAAATTACTAGTAATTAT
*
13024781 AAAACTTGTAAAAATT
1 AAAACTTATAAAAATT
13024797 TCAAAACAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 12 0.29
29 21 0.51
30 2 0.05
31 6 0.15
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (28 bp):
AAAACTTATAAAAATTACTAGTAATTAT
Found at i:13025065 original size:18 final size:19
Alignment explanation
Indices: 13025042--13025080 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
13025032 ACTGGAAGTT
*
13025042 AAAATTTTTTA-AAATAAA
1 AAAATTATTTATAAATAAA
*
13025060 AAAATTATTTATCAATAAA
1 AAAATTATTTATAAATAAA
13025079 AA
1 AA
13025081 GGAGAGAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
AAAATTATTTATAAATAAA
Found at i:13025273 original size:19 final size:19
Alignment explanation
Indices: 13025251--13025485 Score: 69
Period size: 19 Copynumber: 11.9 Consensus size: 19
13025241 TATGATTTCT
13025251 ATTTTTATATATTTTTATA
1 ATTTTTATATATTTTTATA
* *
13025270 ATTTATTAGA-GTTTTTAT-
1 ATTT-TTATATATTTTTATA
*
13025288 ATTATTTGTA-AGTTTTTATGA
1 ATT-TTTATATA-TTTTTAT-A
*
13025309 ATTTTT-TCA-AGCTTTTATA
1 ATTTTTAT-ATA-TTTTTATA
* * *
13025328 AATTTTATATA-CTTTAAA
1 ATTTTTATATATTTTTATA
13025346 CATGTTTT-TATATGTTTTACTA
1 -AT-TTTTATATAT-TTTTA-TA
* *
13025368 GTTTTTATTTTTATTTTTATA
1 ATTTTTA--TATATTTTTATA
* *
13025389 TATTTTTA-A-GTTTTTATGG
1 -ATTTTTATATATTTTTAT-A
* *
13025408 ATTCTTTAAATATTTTTTTATC
1 ATT-TTT--ATATATTTTTATA
*
13025430 ATTTTTCTATATTTTTTATA
1 ATTTTTATATA-TTTTTATA
* * *
13025450 A-GTTTATTTATTTAT-TA
1 ATTTTTATATATTTTTATA
13025467 ATATTTTATATATTTTTAT
1 AT-TTTTATATATTTTTAT
13025486 GATTATATGA
Statistics
Matches: 159, Mismatches: 30, Indels: 53
0.66 0.12 0.22
Matches are distributed among these distances:
17 3 0.02
18 25 0.16
19 55 0.35
20 35 0.22
21 14 0.09
22 16 0.10
23 11 0.07
ACGTcount: A:0.28, C:0.03, G:0.06, T:0.63
Consensus pattern (19 bp):
ATTTTTATATATTTTTATA
Found at i:13025313 original size:29 final size:29
Alignment explanation
Indices: 13025251--13025314 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
13025241 TATGATTTCT
*
13025251 ATTTTTATATATTTTTATAATTTATTAGA
1 ATTTTTATATATTTGTATAATTTATTAGA
* *
13025280 GTTTTTATATTATTTGTA-AGTTT-TTATGA
1 ATTTTTATA-TATTTGTATAATTTATTA-GA
13025309 ATTTTT
1 ATTTTT
13025315 TCAAGCTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 3 0.10
29 19 0.66
30 7 0.24
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (29 bp):
ATTTTTATATATTTGTATAATTTATTAGA
Found at i:13025483 original size:10 final size:10
Alignment explanation
Indices: 13025379--13025485 Score: 71
Period size: 10 Copynumber: 10.9 Consensus size: 10
13025369 TTTTTATTTT
13025379 TATTTTTATA
1 TATTTTTATA
13025389 TATTTTTA-A
1 TATTTTTATA
* *
13025398 -GTTTTTATG
1 TATTTTTATA
* *
13025407 GATTCTTTAAA
1 TATT-TTTATA
*
13025418 TATTTTTTTA
1 TATTTTTATA
*
13025428 TCATTTTTCTA
1 T-ATTTTTATA
13025439 TATTTTT-TA
1 TATTTTTATA
** *
13025448 TAAGTTTATT
1 TATTTTTATA
13025458 TATTTATTA-A
1 TATTT-TTATA
13025468 TA-TTTTATA
1 TATTTTTATA
13025477 TATTTTTAT
1 TATTTTTAT
13025486 GATTATATGA
Statistics
Matches: 74, Mismatches: 15, Indels: 16
0.70 0.14 0.15
Matches are distributed among these distances:
8 9 0.12
9 13 0.18
10 33 0.45
11 19 0.26
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (10 bp):
TATTTTTATA
Found at i:13030900 original size:17 final size:18
Alignment explanation
Indices: 13030869--13030902 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13030859 CCTCTAATTT
*
13030869 CATTATAATTTAGTAAAC
1 CATTATAATTAAGTAAAC
13030887 CATTA-AATTAAGTAAA
1 CATTATAATTAAGTAAA
13030903 TAGTTAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (18 bp):
CATTATAATTAAGTAAAC
Found at i:13031963 original size:24 final size:24
Alignment explanation
Indices: 13031931--13031999 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 24
13031921 GGGTAGGCTT
*
13031931 TGTGACTGCATCTGTATCTGAATC
1 TGTGTCTGCATCTGTATCTGAATC
*** *
13031955 TGTGTCTGCATCCACATTTGAATC
1 TGTGTCTGCATCTGTATCTGAATC
* * *
13031979 TGCGTCTACATTTGTATCTGA
1 TGTGTCTGCATCTGTATCTGA
13032000 TTCTAAATAT
Statistics
Matches: 33, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (24 bp):
TGTGTCTGCATCTGTATCTGAATC
Found at i:13031980 original size:18 final size:18
Alignment explanation
Indices: 13031959--13031998 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13031949 TGAATCTGTG
13031959 TCTGCATCCACATTTGAA
1 TCTGCATCCACATTTGAA
* * *
13031977 TCTGCGTCTACATTTGTA
1 TCTGCATCCACATTTGAA
13031995 TCTG
1 TCTG
13031999 ATTCTAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (18 bp):
TCTGCATCCACATTTGAA
Found at i:13032053 original size:24 final size:24
Alignment explanation
Indices: 13032025--13032080 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
13032015 CGTATCTAAT
*
13032025 TATGAAAATACATTTGACTCTGTA
1 TATGAAAATACATTTGAATCTGTA
* **
13032049 TATGAGAATATGTTTGAATCTGTA
1 TATGAAAATACATTTGAATCTGTA
*
13032073 TCTGAAAA
1 TATGAAAA
13032081 CATATATGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (24 bp):
TATGAAAATACATTTGAATCTGTA
Found at i:13034558 original size:12 final size:12
Alignment explanation
Indices: 13034541--13034565 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
13034531 CTCACATCGG
13034541 TTTTCTTTCTTT
1 TTTTCTTTCTTT
13034553 TTTTCTTTCTTT
1 TTTTCTTTCTTT
13034565 T
1 T
13034566 CCTCTTTTGA
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:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTCTTT
Found at i:13035172 original size:41 final size:41
Alignment explanation
Indices: 13035114--13035191 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
13035104 GTGTAGTAGG
* *
13035114 TCGTGTGGTTCACATGAGCTTGTGTTAGGCCATGTGGAAGC
1 TCGTGTGGGTCACATGAGCTTATGTTAGGCCATGTGGAAGC
*
13035155 TCGTGTGGGTCATATGAGCTTATGTTAGGCCATGTGG
1 TCGTGTGGGTCACATGAGCTTATGTTAGGCCATGTGG
13035192 GCCACACGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.17, C:0.15, G:0.35, T:0.33
Consensus pattern (41 bp):
TCGTGTGGGTCACATGAGCTTATGTTAGGCCATGTGGAAGC
Found at i:13035204 original size:29 final size:29
Alignment explanation
Indices: 13035172--13035227 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
13035162 GGTCATATGA
13035172 GCTTATGTTAGGCCATGTGGGCCACACGG
1 GCTTATGTTAGGCCATGTGGGCCACACGG
* ***
13035201 GCTTGTGTTAGGTTGTGTGGGCCACAC
1 GCTTATGTTAGGCCATGTGGGCCACAC
13035228 AGACTGGGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.14, C:0.21, G:0.36, T:0.29
Consensus pattern (29 bp):
GCTTATGTTAGGCCATGTGGGCCACACGG
Found at i:13053535 original size:40 final size:40
Alignment explanation
Indices: 13053458--13053535 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
13053448 ACAAATTCAG
*
13053458 AATAAATAATCAAAATTTAAATTTAAAATATTTTTTTACA
1 AATAAATAATCAAAATTTAAATTTAAAATATTATTTTACA
* *
13053498 AATAAATAATTAATAA-TTAATATTTTAAATA-TATTTTA
1 AATAAATAATCAA-AATTTAA-ATTTAAAATATTATTTTA
13053536 AATTTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 22 0.67
41 11 0.33
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (40 bp):
AATAAATAATCAAAATTTAAATTTAAAATATTATTTTACA
Found at i:13057842 original size:25 final size:25
Alignment explanation
Indices: 13057814--13057867 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
13057804 ATGTTTTAAT
13057814 TTTTGAAT-TTGATGATGATTTTGTG-
1 TTTT-AATATTGATGAT-ATTTTGTGA
**
13057839 TTTTTCTATTGATGATATTTTGTGA
1 TTTTAATATTGATGATATTTTGTGA
13057864 TTTT
1 TTTT
13057868 TTTTATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.19, C:0.02, G:0.19, T:0.61
Consensus pattern (25 bp):
TTTTAATATTGATGATATTTTGTGA
Found at i:13057869 original size:27 final size:24
Alignment explanation
Indices: 13057820--13057883 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 24
13057810 TAATTTTTGA
13057820 ATTTGATGATGATTTTGTGTTTTTCT
1 ATTTGATGAT-ATTTTGTGTTTTT-T
13057846 A-TTGATGATATTTTGTGATTTTTTTT
1 ATTTGATGATATTTTGTG---TTTTTT
*
13057872 ATTTGTTGATAT
1 ATTTGATGATAT
13057884 AAAATAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
24 8 0.24
25 8 0.24
26 3 0.09
27 14 0.42
ACGTcount: A:0.19, C:0.02, G:0.17, T:0.62
Consensus pattern (24 bp):
ATTTGATGATATTTTGTGTTTTTT
Found at i:13058621 original size:43 final size:44
Alignment explanation
Indices: 13058517--13058631 Score: 139
Period size: 44 Copynumber: 2.6 Consensus size: 44
13058507 TGTGTTGTCG
* * * *
13058517 TGTAAGACCACATCTGCGACGTTGGCATCGACTTGTGATTTACG
1 TGTAAGACCACGTCTGGGACGATGGCATCGACTTGTGATTTACA
13058561 TGTAAGACC-CTGTCTGGGAC-AGTGGCATCGA-TATGTGA-TTACA
1 TGTAAGACCAC-GTCTGGGACGA-TGGCATCGACT-TGTGATTTACA
13058604 TGTAAGACCACGTCTGGGACGATGGCAT
1 TGTAAGACCACGTCTGGGACGATGGCAT
13058632 TGTACGAAAC
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
43 30 0.48
44 32 0.52
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGATGGCATCGACTTGTGATTTACA
Found at i:13060209 original size:23 final size:23
Alignment explanation
Indices: 13060141--13060285 Score: 132
Period size: 23 Copynumber: 6.2 Consensus size: 23
13060131 TGGTGCATAA
* * *
13060141 ATGCTGTTCAATTTTGTATATAT
1 ATGCTGTCCAAATTGGTATATAT
* *
13060164 ATGCTGT-CAAATCTTGGTGTATAA
1 ATGCTGTCCAAA--TTGGTATATAT
13060188 ATGCTGTCCAAATTGGTATATAT
1 ATGCTGTCCAAATTGGTATATAT
** * * *
13060211 ATGCTACCCAATTTGGTGTATAA
1 ATGCTGTCCAAATTGGTATATAT
* *
13060234 ATGCTGTCCAATTTTGTATATAT
1 ATGCTGTCCAAATTGGTATATAT
13060257 ATGCTGT-CAAATTTTGGTATATAT
1 ATGCTGTCCAAA--TTGGTATATAT
13060281 ATGCT
1 ATGCT
13060286 CGCAACTCAA
Statistics
Matches: 99, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
22 6 0.06
23 59 0.60
24 30 0.30
25 4 0.04
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (23 bp):
ATGCTGTCCAAATTGGTATATAT
Found at i:13060241 original size:46 final size:46
Alignment explanation
Indices: 13060124--13060261 Score: 195
Period size: 47 Copynumber: 3.0 Consensus size: 46
13060114 ATAGAGTTAT
* * **
13060124 CCAATTTTGGTGCATAAATGCTGTTCAATTTTGTATATATATGCTGT
1 CCAA-TTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTAC
* * *
13060171 CAAATCTTGGTGTATAAATGCTGTCCAAATTGGTATATATATGCTAC
1 CCAAT-TTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTAC
13060218 CCAATTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCT
1 CCAATTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCT
13060262 GTCAAATTTT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
46 38 0.47
47 42 0.52
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (46 bp):
CCAATTTGGTGTATAAATGCTGTCCAATTTTGTATATATATGCTAC
Found at i:13061383 original size:24 final size:25
Alignment explanation
Indices: 13061350--13061398 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
13061340 TGATAATTAT
*
13061350 TTTAGGATTTAATA-TTAAGATTTA
1 TTTAGAATTTAATATTTAAGATTTA
*
13061374 TTTAGAATTTAATATTTACGATTTA
1 TTTAGAATTTAATATTTAAGATTTA
13061399 AAATTCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.51
Consensus pattern (25 bp):
TTTAGAATTTAATATTTAAGATTTA
Found at i:13065591 original size:27 final size:27
Alignment explanation
Indices: 13065552--13065609 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
13065542 AAAGGTTGTT
13065552 AAATGACCGAAATACCCTCGAAG-GGTA
1 AAATGACCGAAATACCCT-GAAGAGGTA
* *
13065579 AAATGA-CGAAAATATCCTTAAGAGGTA
1 AAATGACCG-AAATACCCTGAAGAGGTA
13065606 AAAT
1 AAAT
13065610 TACCATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATGACCGAAATACCCTGAAGAGGTA
Found at i:13076430 original size:12 final size:15
Alignment explanation
Indices: 13076390--13076456 Score: 66
Period size: 15 Copynumber: 4.5 Consensus size: 15
13076380 AAAATTTAGA
*
13076390 TTATTATTATTATTG
1 TTATTATCATTATTG
13076405 TTATTATCATTATTG
1 TTATTATCATTATTG
*
13076420 TTATTTAT-ATTATCG
1 TTA-TTATCATTATTG
* *
13076435 TT-TTCATCATCATTA
1 TTATT-ATCATTATTG
13076450 TTATTAT
1 TTATTAT
13076457 TGTTTATGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.05
14 2 0.05
15 33 0.77
16 6 0.14
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.61
Consensus pattern (15 bp):
TTATTATCATTATTG
Found at i:13077729 original size:30 final size:31
Alignment explanation
Indices: 13077684--13077752 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
13077674 CCAAATCGGG
* *
13077684 ATAACTCCACAATCTCATATTTTCTTCCTAAA
1 ATAACT-CACAATCTCACATTTTCCTCCTAAA
13077716 ATAACTC-CAATCTCACATTTTCCTCCTAAA
1 ATAACTCACAATCTCACATTTTCCTCCTAAA
*
13077746 ATCACTC
1 ATAACTC
13077753 GAGCACTCCC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 27 0.79
31 1 0.03
32 6 0.18
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (31 bp):
ATAACTCACAATCTCACATTTTCCTCCTAAA
Found at i:13102913 original size:42 final size:42
Alignment explanation
Indices: 13102866--13102951 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
13102856 AAGTAAATTT
13102866 AAATAAAATAATAATATTATTAATATGAATCAAACTACTTTC
1 AAATAAAATAATAATATTATTAATATGAATCAAACTACTTTC
13102908 AAATAAAATAATAATATTATTAATATGAATCAAACTACTTTC
1 AAATAAAATAATAATATTATTAATATGAATCAAACTACTTTC
13102950 AA
1 AA
13102952 TTATAAGCTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.35
Consensus pattern (42 bp):
AAATAAAATAATAATATTATTAATATGAATCAAACTACTTTC
Found at i:13104909 original size:26 final size:27
Alignment explanation
Indices: 13104871--13104927 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
13104861 AAAAAAATCG
*
13104871 TTTTATATTTTTATAAT-TTTTATTA-A
1 TTTTATATTTTTAAAATATTTT-TTATA
13104897 TTTTAT-TATTTTAAAATATTTTTTATA
1 TTTTATAT-TTTTAAAATATTTTTTATA
13104924 TTTT
1 TTTT
13104928 TAACAAATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 1 0.04
26 17 0.63
27 9 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (27 bp):
TTTTATATTTTTAAAATATTTTTTATA
Found at i:13104924 original size:46 final size:50
Alignment explanation
Indices: 13104827--13104929 Score: 126
Period size: 50 Copynumber: 2.1 Consensus size: 50
13104817 TTTTATGTAA
* *
13104827 ATTTATATAATTATTTATTATTTTCTATATTTTTAAAAAAATCGTTTTAT
1 ATTTTTATAATTATTTATTATTTTATATATTTTTAAAAAAATCGTTTTAT
* *
13104877 ATTTTTATAATT-TTTATTAATTTTAT-TA-TTTT-AAAATAT-TTTTTAT
1 ATTTTTATAATTATTTATT-ATTTTATATATTTTTAAAAAAATCGTTTTAT
13104923 ATTTTTA
1 ATTTTTA
13104930 ACAAATTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 13 0.27
47 6 0.12
48 4 0.08
49 8 0.17
50 17 0.35
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (50 bp):
ATTTTTATAATTATTTATTATTTTATATATTTTTAAAAAAATCGTTTTAT
Found at i:13109612 original size:22 final size:22
Alignment explanation
Indices: 13109585--13109641 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
13109575 TATCGTATCT
13109585 TATCATATCATATTTCATATAA
1 TATCATATCATATTTCATATAA
* * **
13109607 TGTCATATCACATTTCATATCT
1 TATCATATCATATTTCATATAA
13109629 TATCATATCATAT
1 TATCATATCATAT
13109642 CTTAACATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.46
Consensus pattern (22 bp):
TATCATATCATATTTCATATAA
Found at i:13109641 original size:15 final size:15
Alignment explanation
Indices: 13109575--13109656 Score: 62
Period size: 15 Copynumber: 5.5 Consensus size: 15
13109565 GCATATCTTT
*
13109575 TATCGTATCTTATCA
1 TATCATATCTTATCA
13109590 TATCATA--TT-TCA
1 TATCATATCTTATCA
* * *
13109602 TATAATGTCATATCACA
1 TATCATATCTTAT--CA
*
13109619 TTTCATATCTTATCA
1 TATCATATCTTATCA
*
13109634 TATCATATCTTAACA
1 TATCATATCTTATCA
*
13109649 TATTATAT
1 TATCATAT
13109657 TCTACCCCCA
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
12 8 0.16
13 2 0.04
14 1 0.02
15 29 0.57
17 11 0.22
ACGTcount: A:0.34, C:0.17, G:0.02, T:0.46
Consensus pattern (15 bp):
TATCATATCTTATCA
Found at i:13113511 original size:244 final size:248
Alignment explanation
Indices: 13113071--13113522 Score: 575
Period size: 244 Copynumber: 1.8 Consensus size: 248
13113061 TACAACAACA
* *
13113071 TAAATATGATATGAAGTTATATAAATTGCAATTATAAACTATGAGTTAATTGACATGTTTATAAT
1 TAAATATGATATGAAGTTATATAAATTGCAATTATAAACTATGAGTTAATCGACATGTTTATAAA
* * *
13113136 TTATAGCTTTTATTAGTTTTATATTAATTGTAATTTTTTAATTTTTTATTTACAATATTTTTATA
66 TTATA--TTATATTAATTTTATATT-ATTGTAATTTTTAAATTTTTTATTTACAATATTTTTATA
* * *
13113201 ATATTTTTATAGTTTTTTATTTTTTAATAATTTTCCTACTTTCATATCATACGCCCCTTCTTTTA
128 ATATTTTTATAGTTTTTTATTTTTCAATAATTTTCCTACTCTCATATCATACGCCCCATCTTTTA
13113266 CCTAGTTAACACAGTTAATATCAGTAACTAATTGATTTTAGTTTCAATCAGTAACT
193 CCTAGTTAACACAGTTAATATCAGTAACTAATTGATTTTAGTTTCAATCAGTAACT
* * * * * *
13113322 TAAATATGATTTGTAGTTATATGAATTGCAATTATAAATTTTGAGTTAATCGATATGTTT-TAAA
1 TAAATATGATATGAAGTTATATAAATTGCAATTATAAACTATGAGTTAATCGACATGTTTAT-AA
13113386 ATT-T-TTATATTAATTTTA-ATT-TT-TAAATTTTTAAATTTTTTATTTACAATATTTTTAT-A
65 ATTATATTATATTAATTTTATATTATTGT-AATTTTTAAATTTTTTATTTACAATATTTTTATAA
* * *
13113445 -GTTTTTATAGTTTTTTTTTATTTTTCAAT-ATTTT-CTAAC-CTCATATCATGTCGCCTCATCT
129 TATTTTTATAG---TTTTTTATTTTTCAATAATTTTCCT-ACTCTCATATCAT-ACGCCCCATCT
*
13113506 TTTACCTAGTTAGCACA
189 TTTACCTAGTTAACACA
13113523 AAGTTAATTT
Statistics
Matches: 176, Mismatches: 18, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
242 9 0.05
243 13 0.07
244 65 0.37
245 15 0.09
246 3 0.02
247 12 0.07
250 2 0.01
251 57 0.32
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.51
Consensus pattern (248 bp):
TAAATATGATATGAAGTTATATAAATTGCAATTATAAACTATGAGTTAATCGACATGTTTATAAA
TTATATTATATTAATTTTATATTATTGTAATTTTTAAATTTTTTATTTACAATATTTTTATAATA
TTTTTATAGTTTTTTATTTTTCAATAATTTTCCTACTCTCATATCATACGCCCCATCTTTTACCT
AGTTAACACAGTTAATATCAGTAACTAATTGATTTTAGTTTCAATCAGTAACT
Found at i:13119275 original size:4 final size:4
Alignment explanation
Indices: 13119266--13119314 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
13119256 ATTTGAATCT
13119266 TTTA TTTA TTTA TTTA TGTT- TTT- TTTA -TTA TTTA TGTTA TTT- TTTA
1 TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA
13119312 TTT
1 TTT
13119315 GATGTTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
3 11 0.28
4 23 0.57
5 6 0.15
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:13119290 original size:22 final size:22
Alignment explanation
Indices: 13119265--13119310 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 22
13119255 GATTTGAATC
13119265 TTTTATTTATTTAT-TTATGTTTT
1 TTTTA-TTATTTATGTTAT-TTTT
13119288 TTTTATTATTTATGTTATTTTT
1 TTTTATTATTTATGTTATTTTT
13119310 T
1 T
13119311 ATTTGATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTTATTATTTATGTTATTTTT
Found at i:13119292 original size:19 final size:19
Alignment explanation
Indices: 13119265--13119314 Score: 75
Period size: 19 Copynumber: 2.6 Consensus size: 19
13119255 GATTTGAATC
*
13119265 TTTTATTTATTTATTTATG
1 TTTTTTTTATTTATTTATG
13119284 TTTTTTTTA-TTATTTATG
1 TTTTTTTTATTTATTTATG
13119302 TTATTTTTTATTT
1 TT-TTTTTTATTT
13119315 GATGTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 11 0.39
19 15 0.54
20 2 0.07
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (19 bp):
TTTTTTTTATTTATTTATG
Found at i:13119306 original size:35 final size:36
Alignment explanation
Indices: 13119267--13119339 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 36
13119257 TTTGAATCTT
13119267 TTATTTATTTATTT-ATGTTTTTT-TTATTATT-TATG
1 TTATTT-TTTATTTGATGTTTTTTCTTA-TATTCTATG
13119302 TTATTTTTTATTTGATGTTTTTTCTTATATTCTATG
1 TTATTTTTTATTTGATGTTTTTTCTTATATTCTATG
13119338 TT
1 TT
13119340 GTATTAACGG
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
34 7 0.20
35 19 0.54
36 9 0.26
ACGTcount: A:0.18, C:0.03, G:0.07, T:0.73
Consensus pattern (36 bp):
TTATTTTTTATTTGATGTTTTTTCTTATATTCTATG
Found at i:13119338 original size:19 final size:17
Alignment explanation
Indices: 13119276--13119339 Score: 76
Period size: 18 Copynumber: 3.6 Consensus size: 17
13119266 TTTATTTATT
13119276 TATTTATGTTTTTTTTA
1 TATTTATGTTTTTTTTA
13119293 TTATTTATGTTATTTTTTA
1 -TATTTATGTT-TTTTTTA
*
13119312 T-TTGATGTTTTTTCTTA
1 TATTTATGTTTTTT-TTA
13119329 TATTCTATGTT
1 TATT-TATGTT
13119340 GTATTAACGG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.10
17 11 0.28
18 13 0.32
19 12 0.30
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.72
Consensus pattern (17 bp):
TATTTATGTTTTTTTTA
Done.