Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007490.1 Hibiscus syriacus cultivar Beakdansim tig00020682_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 795028
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:3202 original size:20 final size:20
Alignment explanation
Indices: 3163--3202 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3153 TGAGTTTGTT
*
3163 TCATTTTTCAATTTTGAAAA
1 TCATTTTTCAATTTTAAAAA
3183 TCATTTTT-ATATTTTAAAAA
1 TCATTTTTCA-ATTTTAAAAA
3203 CAATTTCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
TCATTTTTCAATTTTAAAAA
Found at i:5445 original size:4 final size:4
Alignment explanation
Indices: 5436--7055 Score: 2923
Period size: 4 Copynumber: 410.5 Consensus size: 4
5426 TGTTTCAACA
5436 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
5484 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
5532 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
5580 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
5628 GGGTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT
1 --GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
5677 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- -TAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
5723 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
5770 GTAT GTAT GTAT GTAT GTATT GTAT GTAT GTAT GTAT GTAG GTAT GTAT
1 GTAT GTAT GTAT GTAT GTA-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT
5819 GTAT GTAT GTAT GTAT GTAT GTAT GTAT -TAT GTA- GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
5865 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTATT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-T GTAT GTAT
5914 GTAT GTAT GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
5961 -TAT GTAT GTAT GGAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6008 GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G--T GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * *
6053 GTAT GTAT GTAT GTGT ATGT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6101 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6149 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6197 GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6244 GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6291 GTAT GTAT G--T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6337 GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6384 GTAT GT-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6431 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6478 GTAT GTAT GTAT -TAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA-
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
6524 GTAT GTAT GTAT GTCT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6572 G-AT GTAT GTAT GTAT GT-T GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6618 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6666 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA- GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
6713 GTAT GTAT GTA- GTAT GTCT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6760 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
6808 GTAT GTAT GTAT GTAT GT-T GTCT GTAT GTAT GTAT ATGT ATAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6855 GTAT GTAT GTA- GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6902 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6950 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
6998 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
7046 GTAT GTAT GT
1 GTAT GTAT GT
7056 TTACAATATT
Statistics
Matches: 1569, Mismatches: 17, Indels: 60
0.95 0.01 0.04
Matches are distributed among these distances:
2 6 0.00
3 60 0.04
4 1491 0.95
5 8 0.01
6 4 0.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:7736 original size:21 final size:21
Alignment explanation
Indices: 7707--7765 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
7697 TGATTTATTA
*
7707 TTATAGATTTCAAGTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
*
7728 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
7749 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
7766 ATTAGATAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.22, C:0.07, G:0.20, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:8045 original size:44 final size:44
Alignment explanation
Indices: 7990--8086 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
7980 TTACATTCAT
* * *
7990 AAACGCCACTATATGACATAACATTTAGCGGCGTTTTTGGGA-A
1 AAACGCCACTATATGACAAAACATTTAGCAGCATTTTTGGGACA
*
8033 CAAACGCCACTATATGTCAAAACATTTAGCAGCATTTTTGGGACA
1 -AAACGCCACTATATGACAAAACATTTAGCAGCATTTTTGGGACA
8078 AAACGCCAC
1 AAACGCCAC
8087 AAAAGAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (44 bp):
AAACGCCACTATATGACAAAACATTTAGCAGCATTTTTGGGACA
Found at i:9843 original size:540 final size:540
Alignment explanation
Indices: 8787--9868 Score: 2137
Period size: 540 Copynumber: 2.0 Consensus size: 540
8777 GCCTTTATGC
8787 GCGAAGGAGATAATTTTAAGCTTTCGAAGCTAAAAAAGATTCAAAAAATGCTTATGAGATTGTTC
1 GCGAAGGAGATAATTTTAAGCTTTCGAAGCTAAAAAAGATTCAAAAAATGCTTATGAGATTGTTC
8852 GAACCTACAAGGACAAATTAAAGGAACTTTATGATTGTAGACTTACCCATAAAAAAAATCTTCAT
66 GAACCTACAAGGACAAATTAAAGGAACTTTATGATTGTAGACTTACCCATAAAAAAAATCTTCAT
8917 TGGAAAAAACATATGAAGTGGAGGAAGCATCTCTTTTTAAACATGAAGTCTAAATAAGGTCGCTG
131 TGGAAAAAACATATGAAGTGGAGGAAGCATCTCTTTTTAAACATGAAGTCTAAATAAGGTCGCTG
8982 GGCTAACGACATTAAAAATAACGCACATGGGAGTAGGGATGGCAACTCAACCCGAATCCGACGGG
196 GGCTAACGACATTAAAAATAACGCACATGGGAGTAGGGATGGCAACTCAACCCGAATCCGACGGG
9047 TTCCGACCCGACCCGACCCGATCGGGTCGGATTTTTTTTAAAAAAATTTCGGGTTCGGGTCGGGT
261 TTCCGACCCGACCCGACCCGATCGGGTCGGATTTTTTTTAAAAAAATTTCGGGTTCGGGTCGGGT
9112 CGGGTCGGGTTTTTTTAAATGTACTGTTCGGGTCGGGTCGGGTCGGGTTTAGGGTGAAAAAAATC
326 CGGGTCGGGTTTTTTTAAATGTACTGTTCGGGTCGGGTCGGGTCGGGTTTAGGGTGAAAAAAATC
9177 CGACCTGACCCGACCCGAAAAATATATATAATTTTATCCTATATATTTAGGGATAATTACAATAA
391 CGACCTGACCCGACCCGAAAAATATATATAATTTTATCCTATATATTTAGGGATAATTACAATAA
9242 TGTCCCTCCATATATAATTTTTTTCAATTAAGTCATTGTTTTCATTGAATAAAATTTTTTTTATT
456 TGTCCCTCCATATATAATTTTTTTCAATTAAGTCATTGTTTTCATTGAATAAAATTTTTTTTATT
9307 ATTATTTCTGGTCGGGTCGG
521 ATTATTTCTGGTCGGGTCGG
9327 GCGAAGGAGATAATTTTAAGCTTTCGAAGCTAAAAAAGATTCAAAAAATGCTTATGAGATTGTTC
1 GCGAAGGAGATAATTTTAAGCTTTCGAAGCTAAAAAAGATTCAAAAAATGCTTATGAGATTGTTC
9392 GAACCTACAAGGACAAATTAAAGGAACTTTATGATTGTAGACTTACCCATAAAAAAAATCTTCAT
66 GAACCTACAAGGACAAATTAAAGGAACTTTATGATTGTAGACTTACCCATAAAAAAAATCTTCAT
*
9457 TGGAAAAAACATATGAAGTGGAGGAAGCATCTCTTTTTAAACATGAAGTCTAAATCAGGTCGCTG
131 TGGAAAAAACATATGAAGTGGAGGAAGCATCTCTTTTTAAACATGAAGTCTAAATAAGGTCGCTG
9522 GGCTAACGACATTAAAAATAACGCACATGGGAGTAGGGATGGCAACTCAACCCGAATCCGACGGG
196 GGCTAACGACATTAAAAATAACGCACATGGGAGTAGGGATGGCAACTCAACCCGAATCCGACGGG
*
9587 TTCCGACCCGGCCCGACCCGATCGGGTCGGATTTTTTTTAAAAAAATTTCGGGTTCGGGTTCGGG
261 TTCCGACCCGACCCGACCCGATCGGGTCGGATTTTTTTTAAAAAAATTTCGGGTTCGGG-TCGGG
9652 TCGGGTCGGGTTTTTTTAAATGTACTGTTCGGGTCGGGTCGGGTCGGGTTTAGGGTGAAAAAAAT
325 TCGGGTCGGGTTTTTTTAAATGTACTGTTCGGGTCGGGTCGGGTCGGGTTTAGGGTGAAAAAAAT
9717 CCGACCTGACCCGACCCGAAAAATATATATAATTTTATCCTATATATTTAGGGATAATTACAATA
390 CCGACCTGACCCGACCCGAAAAATATATATAATTTTATCCTATATATTTAGGGATAATTACAATA
9782 ATGTCCCTCCATATATAATTTTTTTCAATTAAGTCATTGTTTTCATTGAATAAAATTTTTTTTAT
455 ATGTCCCTCCATATATAATTTTTTTCAATTAAGTCATTGTTTTCATTGAATAAAATTTTTTTTAT
9847 TATTATTTCTGGTCGGGTCGG
520 TATTATTTCTGGTCGGGTCGG
9868 G
1 G
9869 TTTCTAAGTC
Statistics
Matches: 539, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
540 317 0.59
541 222 0.41
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (540 bp):
GCGAAGGAGATAATTTTAAGCTTTCGAAGCTAAAAAAGATTCAAAAAATGCTTATGAGATTGTTC
GAACCTACAAGGACAAATTAAAGGAACTTTATGATTGTAGACTTACCCATAAAAAAAATCTTCAT
TGGAAAAAACATATGAAGTGGAGGAAGCATCTCTTTTTAAACATGAAGTCTAAATAAGGTCGCTG
GGCTAACGACATTAAAAATAACGCACATGGGAGTAGGGATGGCAACTCAACCCGAATCCGACGGG
TTCCGACCCGACCCGACCCGATCGGGTCGGATTTTTTTTAAAAAAATTTCGGGTTCGGGTCGGGT
CGGGTCGGGTTTTTTTAAATGTACTGTTCGGGTCGGGTCGGGTCGGGTTTAGGGTGAAAAAAATC
CGACCTGACCCGACCCGAAAAATATATATAATTTTATCCTATATATTTAGGGATAATTACAATAA
TGTCCCTCCATATATAATTTTTTTCAATTAAGTCATTGTTTTCATTGAATAAAATTTTTTTTATT
ATTATTTCTGGTCGGGTCGG
Found at i:10117 original size:7 final size:7
Alignment explanation
Indices: 10099--10131 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
10089 ATTTCTCCTT
10099 ATTTTTA
1 ATTTTTA
10106 A-TTTTA
1 ATTTTTA
10112 ATTTTTA
1 ATTTTTA
*
10119 ATTCTTA
1 ATTTTTA
10126 ATTTTT
1 ATTTTT
10132 GTAGGTACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTTA
Found at i:10117 original size:13 final size:14
Alignment explanation
Indices: 10099--10131 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
10089 ATTTCTCCTT
10099 ATTTTTAATT-TTA
1 ATTTTTAATTCTTA
10112 ATTTTTAATTCTTA
1 ATTTTTAATTCTTA
10126 ATTTTT
1 ATTTTT
10132 GTAGGTACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTTTAATTCTTA
Found at i:16210 original size:25 final size:26
Alignment explanation
Indices: 16182--16236 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
16172 TTAATAAAAC
16182 AATAT-TTATCTAATGACAA-ATATTT
1 AATATATT-TCTAATGACAATATATTT
* *
16207 AATATATTTCTAATGATAATATTTTT
1 AATATATTTCTAATGACAATATATTT
16233 AATA
1 AATA
16237 ACTAATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (26 bp):
AATATATTTCTAATGACAATATATTT
Found at i:16710 original size:14 final size:14
Alignment explanation
Indices: 16687--16719 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
16677 CATTACTAAA
*
16687 AAAATGAATAAATT
1 AAAATAAATAAATT
16701 AAAATAAATAAATT
1 AAAATAAATAAATT
16715 AAAAT
1 AAAAT
16720 GCATACTACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (14 bp):
AAAATAAATAAATT
Found at i:17697 original size:12 final size:12
Alignment explanation
Indices: 17680--17706 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17670 TTATGCCGAA
17680 GCAATATCAAGT
1 GCAATATCAAGT
17692 GCAATATCAAGT
1 GCAATATCAAGT
17704 GCA
1 GCA
17707 TGAGTGGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (12 bp):
GCAATATCAAGT
Found at i:21307 original size:3 final size:3
Alignment explanation
Indices: 21299--21340 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
21289 TTTGTCTGGG
21299 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21341 CATTTTGTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:21915 original size:35 final size:35
Alignment explanation
Indices: 21868--21944 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
21858 AAAACAGTCA
* *
21868 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* * * *
21903 TCAATTTTATTCTAAACCCTAAATTCTAAAATACT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
21938 TCAATTT
1 TCAATTT
21945 AAGGTAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.22, G:0.01, T:0.39
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:22098 original size:16 final size:18
Alignment explanation
Indices: 22066--22099 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
22056 TATTAATGTA
22066 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
22084 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
22100 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:22763 original size:130 final size:130
Alignment explanation
Indices: 22560--22804 Score: 418
Period size: 130 Copynumber: 1.9 Consensus size: 130
22550 AATTTTCTTC
* * *
22560 TAATTAGGAGGTGACATGTGTCACCAATAACACATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
*
22625 CCTGATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTAATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTAATAGCATATATAAA
* * * *
22690 TAATTAGGTGGTAACACGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
22755 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATT
66 CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATT
22805 GATTATATAA
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 107 1.00
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
Consensus pattern (130 bp):
TAATTAGGAGGTAACACGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTAATAGCATATATAAA
Found at i:24721 original size:18 final size:18
Alignment explanation
Indices: 24700--24734 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
24690 CAGTAATATT
24700 ATTCCCAC-TGGTAATCTC
1 ATTCCCACAT-GTAATCTC
24718 ATTCCCACATGTAATCT
1 ATTCCCACATGTAATCT
24735 TATATTCCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.94
19 1 0.06
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
ATTCCCACATGTAATCTC
Found at i:31600 original size:36 final size:36
Alignment explanation
Indices: 31560--31636 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
31550 GTTTAACTTG
** *
31560 AAACAAA-TTTGATCTCACTTGAGATTGTTTTCCTCA
1 AAACAAACTTTG-TCTCACTTGAGACAGTCTTCCTCA
31596 AAACAAACTTTGTCTCACTTGAGACAGTCTTCCTCA
1 AAACAAACTTTGTCTCACTTGAGACAGTCTTCCTCA
31632 AAACA
1 AAACA
31637 CGAACATTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 33 0.89
37 4 0.11
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.32
Consensus pattern (36 bp):
AAACAAACTTTGTCTCACTTGAGACAGTCTTCCTCA
Found at i:31690 original size:67 final size:66
Alignment explanation
Indices: 31578--31703 Score: 164
Period size: 67 Copynumber: 1.9 Consensus size: 66
31568 TTGATCTCAC
*
31578 TTGAGATTGTTTTCCTCAAAACAAACTTTGTCTCACTTGAGACAGTCTTC-CTCAAAACACGAAC
1 TTGAGATTGTTTTACTCAAAACAAACTTTGTCTCACTTGAGACAGT-TTCTCTCAAAACACGAAC
31642 AT
65 AT
* * ** * *
31644 TTGATATTGTTTTTACTCAAAGCAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTAAAACA
1 TTGAGATTG-TTTTACTCAAAACAAACTTTGTCTCACTTGAGACAGTTTCTCTCAAAACA
31704 TAAACCGTTG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
66 11 0.22
67 40 0.78
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (66 bp):
TTGAGATTGTTTTACTCAAAACAAACTTTGTCTCACTTGAGACAGTTTCTCTCAAAACACGAACA
T
Found at i:31720 original size:67 final size:67
Alignment explanation
Indices: 31578--31722 Score: 159
Period size: 67 Copynumber: 2.2 Consensus size: 67
31568 TTGATCTCAC
* * *
31578 TTGAGATTG-TTTTCCTCAAAACAAACTTTGTCTCACTTGAGACAGTCTTCCTCAAAACACGAAC
1 TTGAAATTGTTTTTACTCAAAACAAACTTTGTCTCACTTGAGACAGTCTTCCTCAAAACACAAAC
*
31642 AT
66 AG
* * ** * * *
31644 TTGATATTGTTTTTACTCAAAGCAAGTTTTGTCTCTCTTGAGACAGT-TTCTCTTAAAACATAAA
1 TTGAAATTGTTTTTACTCAAAACAAACTTTGTCTCACTTGAGACAGTCTTC-CTCAAAACACAAA
*
31708 CCG
65 CAG
31711 TTGAAATTGTTT
1 TTGAAATTGTTT
31723 CTCTTGAGAC
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
66 11 0.17
67 54 0.83
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (67 bp):
TTGAAATTGTTTTTACTCAAAACAAACTTTGTCTCACTTGAGACAGTCTTCCTCAAAACACAAAC
AG
Found at i:31765 original size:45 final size:45
Alignment explanation
Indices: 31672--31774 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 45
31662 AAAGCAAGTT
* * *** *
31672 TTGTCTCTCTTGAGACAGTTTCTCTTAAAACATAAACCGTTGAAA
1 TTGTTTCTCTTGAGACAGTTTCTCTTAAAACAAAAAAAATAGAAA
* * *
31717 TTGTTTCTCTTGAGACAGTTTCTCTTGAAATAAAAAAAATAGAGA
1 TTGTTTCTCTTGAGACAGTTTCTCTTAAAACAAAAAAAATAGAAA
*
31762 TTGTTTCACTTGA
1 TTGTTTCTCTTGA
31775 AACAAAATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (45 bp):
TTGTTTCTCTTGAGACAGTTTCTCTTAAAACAAAAAAAATAGAAA
Found at i:31864 original size:66 final size:67
Alignment explanation
Indices: 31717--31883 Score: 237
Period size: 67 Copynumber: 2.5 Consensus size: 67
31707 ACCGTTGAAA
*
31717 TTGTTTCTCTTGAGACAGTTTCTCTTGAAATAAAAAAAATAGAGATTGTTTCACTTGAAACAAAA
1 TTGTTTCTCTTGAGACAGTTTCTCTTGAAACAAAAAAAATAGAGATTGTTTCACTTGAAACAAAA
31782 TT
66 TT
* ** * * *
31784 TTGTCTCTCTTGAGACAACTTCTCTTGAAACAAAAAACATTGAGATTGTTTCCCTTGAAAC-AAA
1 TTGTTTCTCTTGAGACAGTTTCTCTTGAAACAAAAAAAATAGAGATTGTTTCACTTGAAACAAAA
31848 TT
66 TT
* * *
31850 TTGTTTCACTTGAGACCGTTTTTCTTGAAACAAA
1 TTGTTTCTCTTGAGACAGTTTCTCTTGAAACAAA
31884 TTATCCCTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
66 33 0.38
67 54 0.62
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (67 bp):
TTGTTTCTCTTGAGACAGTTTCTCTTGAAACAAAAAAAATAGAGATTGTTTCACTTGAAACAAAA
TT
Found at i:32132 original size:137 final size:137
Alignment explanation
Indices: 31882--32429 Score: 557
Period size: 137 Copynumber: 4.0 Consensus size: 137
31872 TCTTGAAACA
* * * * *
31882 AATTATCCCTAAATATGGCTAGCAACCTTCATCACGTAGGAACCGTGTCATCCACTGACCAGATC
1 AATTATCCCTAAAGATGGCAACCATCCTT-ATCACGTAGGAACCGTGTCATCCACCGACCAGATC
* ** * * * *
31947 TCCTTATCACGTAGGAGTTGCGTCAAACTTAGATAA-TCAGCCATCCTCATAACATAGAAACCGT
65 TCCTCATCACGTAGGAGACGCGTCAACCTTAGATAACT-AGCCATCCTCATCACGTAGGAACCGT
32011 GTTATCTAC
129 GTTATCTAC
*
32020 -ATCATCCCTAAAGATGGTCAACCATCCTTATCACGTAGGAACCGTGTCATCCACCGACCAGATC
1 AATTATCCCTAAAGATGG-CAACCATCCTTATCACGTAGGAACCGTGTCATCCACCGACCAGATC
* * * * * *
32084 TCCTCATCAAGTAGGAGACGCATCAACCATACATAACTAGTCATCCTCATCTCGTAGGAACCGTG
65 TCCTCATCACGTAGGAGACGCGTCAACCTTAGATAACTAGCCATCCTCATCACGTAGGAACCGTG
32149 TTATC-AC
130 TTATCTAC
* * * * * * ** *
32156 TATTTATCCATAAAGATGGCCATCAGTCCTCATCACGTAGAAATTGTGTCATCCACCAACCAGAT
1 -AATTATCCCTAAAGATGGCAACCA-TCCTTATCACGTAGGAACCGTGTCATCCACCGACCAGAT
* * * * * *
32221 CTCCTCATCACGTAGGAGCCGCGTCAACCTTAGATAACCAGCCGTTCTCA-CACGTAGGAGCCAT
64 CTCCTCATCACGTAGGAGACGCGTCAACCTTAGATAACTAGCCATCCTCATCACGTAGGAACCGT
*
32285 GTTATCTCC
129 GTTATCTAC
* * * *
32294 AATTATCCCTAAAGATGGCCAACCTTCCTTATCACGTAGGAACCGTATCATTCACCGACCATATC
1 AATTATCCCTAAAGATGG-CAACCATCCTTATCACGTAGGAACCGTGTCATCCACCGACCAGATC
* * * * * * * * **
32359 TCCTCATCATGTAGGAGCCGTGTC-ACTCTTAGATAGCCAGTCTTCCTCATTATATAGGAACCGT
65 TCCTCATCACGTAGGAGACGCGTCAAC-CTTAGATAACTAGCCATCCTCATCACGTAGGAACCGT
32423 GTTATCT
129 GTTATCT
32430 CAAAATTTAC
Statistics
Matches: 335, Mismatches: 66, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
136 4 0.01
137 213 0.64
138 118 0.35
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (137 bp):
AATTATCCCTAAAGATGGCAACCATCCTTATCACGTAGGAACCGTGTCATCCACCGACCAGATCT
CCTCATCACGTAGGAGACGCGTCAACCTTAGATAACTAGCCATCCTCATCACGTAGGAACCGTGT
TATCTAC
Found at i:32408 original size:275 final size:275
Alignment explanation
Indices: 31910--32428 Score: 675
Period size: 275 Copynumber: 1.9 Consensus size: 275
31900 CTAGCAACCT
* ** * **
31910 TCATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCTTATCACGTAGGAGTTGCGTCAAAC
1 TCATCACGTAGAAACCGTGTCATCCACCAACCAGATCTCCTCATCACGTAGGAGCCGCGTCAAAC
* * *
31975 TTAGATAATCAGCCATCCTCATAACATAGAAACCGTGTTATCTACATCATCCCTAAAGATGGTCA
66 TTAGATAACCAGCCATCCTCATAACATAGAAACCATGTTATCTACATCATCCCTAAAGATGGCCA
*
32040 ACCATCCTTATCACGTAGGAACCGTGTCATCCACCGACCAGATCTCCTCATCAAGTAGGAGACGC
131 ACCATCCTTATCACGTAGGAACCGTATCATCCACCGACCAGATCTCCTCATCAAGTAGGAGACGC
* *
32105 ATCAACCATACATAACTAGTCATCCTCATCT-CGTAGGAACCGTGTTATCACTATTTATCCATAA
196 ATCAACCATACATAACCAGTCATCCTCAT-TACATAGGAACCGTGTTATCACTATTTATCCATAA
32169 AGATGGCCATCAGTCC
260 AGATGGCCATCAGTCC
** *
32185 TCATCACGTAGAAATTGTGTCATCCACCAACCAGATCTCCTCATCACGTAGGAGCCGCGTCAACC
1 TCATCACGTAGAAACCGTGTCATCCACCAACCAGATCTCCTCATCACGTAGGAGCCGCGTCAAAC
* * * * * * * *
32250 TTAGATAACCAGCCGTTCTCA-CACGTAGGAGCCATGTTATCTCCAATTATCCCTAAAGATGGCC
66 TTAGATAACCAGCCATCCTCATAACATAGAAACCATGTTATCTAC-ATCATCCCTAAAGATGGCC
* * * * *
32314 AACCTTCCTTATCACGTAGGAACCGTATCATTCACCGACCATATCTCCTCATCATGTAGGAGCCG
130 AACCATCCTTATCACGTAGGAACCGTATCATCCACCGACCAGATCTCCTCATCAAGTAGGAGACG
** * * * * *
32379 TGTC-ACTCTTAGATAGCCAGTCTTCCTCATTATATAGGAACCGTGTTATC
195 CATCAAC-CATACATAACCAGTCATCCTCATTACATAGGAACCGTGTTATC
32429 TCAAAATTTA
Statistics
Matches: 206, Mismatches: 35, Indels: 6
0.83 0.14 0.02
Matches are distributed among these distances:
274 20 0.10
275 186 0.90
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (275 bp):
TCATCACGTAGAAACCGTGTCATCCACCAACCAGATCTCCTCATCACGTAGGAGCCGCGTCAAAC
TTAGATAACCAGCCATCCTCATAACATAGAAACCATGTTATCTACATCATCCCTAAAGATGGCCA
ACCATCCTTATCACGTAGGAACCGTATCATCCACCGACCAGATCTCCTCATCAAGTAGGAGACGC
ATCAACCATACATAACCAGTCATCCTCATTACATAGGAACCGTGTTATCACTATTTATCCATAAA
GATGGCCATCAGTCC
Found at i:35510 original size:22 final size:21
Alignment explanation
Indices: 35482--35595 Score: 113
Period size: 22 Copynumber: 5.3 Consensus size: 21
35472 CCATTTCGCA
35482 TTGCGATAGTCTACAGTTGTCG
1 TTGCGATAGTCTACAGTT-TCG
** * **
35504 TTGCGATTTTCCA-AAATTCG
1 TTGCGATAGTCTACAGTTTCG
*
35524 TTGCGATAGTCTACAGTTGTTG
1 TTGCGATAGTCTACAGTT-TCG
* **
35546 TTGCGATAGTTTACAAATTCG
1 TTGCGATAGTCTACAGTTTCG
35567 TTGCGATAGTCTACAGTTATCG
1 TTGCGATAGTCTACAGTT-TCG
35589 TTGCGAT
1 TTGCGAT
35596 TTTCCAAATT
Statistics
Matches: 71, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
20 13 0.18
21 21 0.30
22 37 0.52
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.39
Consensus pattern (21 bp):
TTGCGATAGTCTACAGTTTCG
Found at i:35578 original size:43 final size:41
Alignment explanation
Indices: 35460--35614 Score: 213
Period size: 42 Copynumber: 3.7 Consensus size: 41
35450 TTGAAAATCG
* *
35460 CGTTGCGACTTTCC-ATTTCGCATTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCG--TTGCGATAGTCTACAGTTGT
35502 CGTTGCGATTTTCCAAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCC-AAATTCGTTGCGATAGTCTACAGTTGT
* * *
35544 TGTTGCGATAGTTTACAAATTCGTTGCGATAGTCTACAGTTAT
1 CGTTGCGAT--TTTCCAAATTCGTTGCGATAGTCTACAGTTGT
35587 CGTTGCGATTTTCCAAATTCGTTGCGAT
1 CGTTGCGATTTTCCAAATTCGTTGCGAT
35615 TGTGATAGTT
Statistics
Matches: 102, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
41 18 0.18
42 41 0.40
43 34 0.33
44 9 0.09
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
Found at i:35712 original size:6 final size:6
Alignment explanation
Indices: 35701--35733 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
35691 GACACGTATT
35701 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACC
35734 CGAGAAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:36637 original size:6 final size:6
Alignment explanation
Indices: 36626--36700 Score: 150
Period size: 6 Copynumber: 12.5 Consensus size: 6
36616 TCTCGTCTCG
36626 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
36674 GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGT
36701 AATACGTGTC
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.00, C:0.16, G:0.51, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:36808 original size:19 final size:19
Alignment explanation
Indices: 36784--36849 Score: 69
Period size: 19 Copynumber: 3.3 Consensus size: 19
36774 TTAACTATCA
36784 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * **
36803 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTGGAAAATCG
36825 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
36844 CAACGA
1 CAACGA
36850 CAACTGTAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 19 0.53
20 2 0.06
21 2 0.06
22 13 0.36
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:36826 original size:22 final size:22
Alignment explanation
Indices: 36795--36870 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
36785 AACGAATTTG
36795 GAAAATCGCAACGACAACTGTA
1 GAAAATCGCAACGACAACTGTA
** * *
36817 GACTATCGCAACG--AA-TTTG
1 GAAAATCGCAACGACAACTGTA
36836 GAAAATCGCAACGACAACTGTA
1 GAAAATCGCAACGACAACTGTA
36858 GAAAATCGCAACG
1 GAAAATCGCAACG
36871 CGAAATGGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 13 0.30
20 2 0.05
21 2 0.05
22 26 0.60
ACGTcount: A:0.42, C:0.22, G:0.20, T:0.16
Consensus pattern (22 bp):
GAAAATCGCAACGACAACTGTA
Found at i:36834 original size:41 final size:41
Alignment explanation
Indices: 36777--36888 Score: 163
Period size: 41 Copynumber: 2.7 Consensus size: 41
36767 CTTTTTTTTA
*
36777 ACTATCACAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
36818 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
** *
36859 AAAATCGCAACGCGAA-ATGGAAAATCGCAA
1 ACTATCGCAA--CGAATTTGGAAAATCGCAA
36889 TGCGATTTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 48 0.74
42 13 0.20
43 4 0.06
ACGTcount: A:0.43, C:0.21, G:0.19, T:0.17
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:36883 original size:20 final size:20
Alignment explanation
Indices: 36834--36893 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 20
36824 GCAACGAATT
*
36834 TGGAAAATCGCAACGAC-AAC
1 TGGAAAATCGCAACG-CGAAA
36854 TGTAGAAAATCGCAACGCGAAA
1 TG--GAAAATCGCAACGCGAAA
*
36876 TGGAAAATCGCAATGCGA
1 TGGAAAATCGCAACGCGA
36894 TTTTCAACTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 17 0.49
21 1 0.03
22 17 0.49
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAA
Found at i:36922 original size:21 final size:21
Alignment explanation
Indices: 36861--36922 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
36851 AACTGTAGAA
*
36861 AATCGCAACGCGAAATGGAA-
1 AATCGCAACGCGAAATGCAAC
* ** *
36881 AATCGCAATGCGATTTTCAAC
1 AATCGCAACGCGAAATGCAAC
*
36902 TATCGCAACGCGAAATGCAAC
1 AATCGCAACGCGAAATGCAAC
36923 GCGAATTTGC
Statistics
Matches: 31, Mismatches: 10, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (21 bp):
AATCGCAACGCGAAATGCAAC
Found at i:37580 original size:26 final size:24
Alignment explanation
Indices: 37551--37603 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
37541 CTATTTTTTC
*
37551 AAATAAAATTCATAATTGTTTTTAAA
1 AAATAAAATT--TAATTATTTTTAAA
*
37577 AAATAATATTTAATTATTTTTAAA
1 AAATAAAATTTAATTATTTTTAAA
37601 AAA
1 AAA
37604 ATGGTTATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.64
26 9 0.36
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATAAAATTTAATTATTTTTAAA
Found at i:39994 original size:26 final size:26
Alignment explanation
Indices: 39964--40013 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
39954 AAAGGAGGAC
39964 AAGGTACTTTGGGATAAATTGTTGAG
1 AAGGTACTTTGGGATAAATTGTTGAG
39990 AAGGTACTTTGGGATAAATTGTTG
1 AAGGTACTTTGGGATAAATTGTTG
40014 TGGCATATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (26 bp):
AAGGTACTTTGGGATAAATTGTTGAG
Found at i:41879 original size:12 final size:11
Alignment explanation
Indices: 41856--41945 Score: 66
Period size: 12 Copynumber: 8.3 Consensus size: 11
41846 TTTATCCGTT
41856 TATAT-TATTA
1 TATATATATTA
41866 TATATATA-TA
1 TATATATATTA
41876 TATATATAATTA
1 TATATAT-ATTA
41888 TATATATTATTA
1 TATATA-TATTA
41900 -AT-TATA-TA
1 TATATATATTA
* *
41908 TGGT-TTTATTA
1 T-ATATATATTA
*
41919 TATACATTATTA
1 TATATA-TATTA
41931 TTATATATATTA
1 -TATATATATTA
41943 TAT
1 TAT
41946 TAATAATATT
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
8 2 0.03
9 2 0.03
10 21 0.33
11 11 0.17
12 22 0.34
13 6 0.09
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (11 bp):
TATATATATTA
Found at i:41895 original size:34 final size:33
Alignment explanation
Indices: 41856--41973 Score: 109
Period size: 31 Copynumber: 3.6 Consensus size: 33
41846 TTTATCCGTT
41856 TATATTATTATATATATATATATATATAATTATA
1 TATATTATTATATATATATAT-TATATAATTATA
** * *
41890 TATATTATTA-AT-TATATATGGTTTTATTATA
1 TATATTATTATATATATATATTATATAATTATA
* *
41921 TACATTATTAT-TATATATATTATATTAATAATA
1 TATATTATTATATATATATATTATA-TAATTATA
*
41954 TTAGTATTATTAAATA-ATAT
1 -TA-TATTATTATATATATAT
41974 TACATATGAC
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
31 18 0.27
32 15 0.23
33 8 0.12
34 12 0.18
35 11 0.17
36 2 0.03
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (33 bp):
TATATTATTATATATATATATTATATAATTATA
Found at i:41905 original size:24 final size:23
Alignment explanation
Indices: 41855--41980 Score: 74
Period size: 22 Copynumber: 5.7 Consensus size: 23
41845 TTTTATCCGT
41855 TTATATTATTATATATA-TA-T-A
1 TTATA-TATTATATATATTATTAA
41876 TATATATAATTATATATATTATTAA
1 T-TATAT-ATTATATATATTATTAA
** *
41901 TTATATATGGT-TTTATTATATACA
1 TTATATATTATATATATTAT-TA-A
41925 TTAT-TATTATATATATTA-T-A
1 TTATATATTATATATATTATTAA
*
41945 TTA-ATAATAT-TAGTATTATTAA
1 TTATATATTATATA-TATTATTAA
* *
41967 ATA-ATATTACATAT
1 TTATATATTATATAT
41981 GACTCGGATG
Statistics
Matches: 82, Mismatches: 10, Indels: 25
0.70 0.09 0.21
Matches are distributed among these distances:
19 2 0.02
20 14 0.17
21 3 0.04
22 31 0.38
23 13 0.16
24 17 0.21
25 2 0.02
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (23 bp):
TTATATATTATATATATTATTAA
Found at i:41908 original size:2 final size:2
Alignment explanation
Indices: 41856--41894 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
41846 TTTATCCGTT
41856 TA TA T- TA T- TA TA TA TA TA TA TA TA TA TA -A T- TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
41894 T
1 T
41895 TATTAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
1 4 0.12
2 29 0.88
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:43313 original size:33 final size:33
Alignment explanation
Indices: 43240--43313 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 33
43230 TTTAATATAT
*
43240 ATAAT-TTTGATATTAAATATTATTGTAGGATTA
1 ATAATATTT-ATATTAAATATTATTGTAAGATTA
* *
43273 GTAATATTTATATTAAATATTATT-TAATATTTA
1 ATAATATTTATATTAAATATTATTGTAAGA-TTA
*
43306 ATTATATT
1 ATAATATT
43314 AAGCTATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
32 3 0.09
33 28 0.82
34 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.53
Consensus pattern (33 bp):
ATAATATTTATATTAAATATTATTGTAAGATTA
Found at i:50011 original size:65 final size:64
Alignment explanation
Indices: 49919--50049 Score: 199
Period size: 65 Copynumber: 2.0 Consensus size: 64
49909 GATCTGATTG
* * * *
49919 GATGTGGAGACATGAAAGGAATTAGGATAAAACCTTCTTGTGATGTATTTCAAGAGATCTAATCA
1 GATGTGGAGACATGAAAGGAATTAGGATAAAACATTCTTATGAAGTATTTCAAGAG-TCAAATCA
* *
49984 GATGTGGAGACATGAAAGGAATTAGGATAAATCATTCTTATGAAGTGTTTCAAGAGTCAAATCA
1 GATGTGGAGACATGAAAGGAATTAGGATAAAACATTCTTATGAAGTATTTCAAGAGTCAAATCA
50048 GA
1 GA
50050 ACGGACGTGG
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
64 9 0.15
65 51 0.85
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (64 bp):
GATGTGGAGACATGAAAGGAATTAGGATAAAACATTCTTATGAAGTATTTCAAGAGTCAAATCA
Found at i:50978 original size:42 final size:42
Alignment explanation
Indices: 50902--51030 Score: 143
Period size: 42 Copynumber: 3.1 Consensus size: 42
50892 CACGAATTTG
* * *
50902 TAAATCCTTCAGGTTATCTGTAAGCCCTTCGAGCATGATGTT
1 TAAATCCTTCAGGTTATCTGTCAGACCTTTGAGCATGATGTT
* * * * *
50944 TAAATCCTTCGGGTTATCTGTCAGTCTTTTGAGCAAGATG-A
1 TAAATCCTTCAGGTTATCTGTCAGACCTTTGAGCATGATGTT
* * * *
50985 TAAGTCCTTAAGGTTATCCGTCAGACCTTTGGGCATGATGTT
1 TAAATCCTTCAGGTTATCTGTCAGACCTTTGAGCATGATGTT
51027 TAAA
1 TAAA
51031 CTTTTTAATT
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
41 32 0.46
42 37 0.54
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (42 bp):
TAAATCCTTCAGGTTATCTGTCAGACCTTTGAGCATGATGTT
Found at i:51232 original size:30 final size:29
Alignment explanation
Indices: 51194--51267 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 29
51184 TCTTTTTATG
*
51194 TTATTATATATATTTAATTATATATATTA
1 TTATTATATATATTTAATTATATACATTA
* *
51223 TTAATTATATATGTTTTTATTATATACATTA
1 TT-ATTATATAT-ATTTAATTATATACATTA
51254 TTATTATATATATT
1 TTATTATATATATT
51268 ATATTAATAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 4 0.10
30 18 0.46
31 17 0.44
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (29 bp):
TTATTATATATATTTAATTATATACATTA
Found at i:60492 original size:23 final size:22
Alignment explanation
Indices: 60451--60493 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
60441 ATTTTGTAAT
* *
60451 AGATAAAAACATTATATTAAGA
1 AGATAAAAACATAAAATTAAGA
60473 AGATAAAAACAATAAAATTAA
1 AGATAAAAAC-ATAAAATTAA
60494 CACATACGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (22 bp):
AGATAAAAACATAAAATTAAGA
Found at i:63161 original size:3 final size:3
Alignment explanation
Indices: 63153--63209 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
63143 AAATGTACCC
* * * *
63153 CTT CTT CTT CTT CTCT CGTGT CTT CTT ATT TTT CTT TTT TTT CTT CTT
1 CTT CTT CTT CTT CT-T C-T-T CTT CTT CTT CTT CTT CTT CTT CTT CTT
63201 CTT CTT CTT
1 CTT CTT CTT
63210 TCAAACTTCA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
3 40 0.87
4 3 0.07
5 3 0.07
ACGTcount: A:0.02, C:0.26, G:0.04, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:63161 original size:92 final size:91
Alignment explanation
Indices: 62980--63166 Score: 198
Period size: 92 Copynumber: 2.0 Consensus size: 91
62970 AATCTTCATG
* * * *
62980 TCTTCTTCTTCTTTGATCCCTTATGTTATTGTTACATTCGATTTTAGTCCCTCGATCGTTAACTT
1 TCTTCTTCTTCTTTGATCCCTTACGTTATCGTTACATTCAATTTTAATCCCTCGATCGTTAACTT
* ** * *
63045 CACTAAACCCCTTCTTCTTTTTCTTTT
66 CACTAAA-CCCTACCCCTTCTTCTTCT
* *
63072 TCTTTTTCTTCTTTGATCCCTTACGTTATCGTTCCATTCAATTTTAATCCCTCGA-CTGTTAACT
1 TCTTCTTCTTCTTTGATCCCTTACGTTATCGTTACATTCAATTTTAATCCCTCGATC-GTTAACT
* **
63136 TCTATTTAAA-TGTACCCCTTCTTCTTCT
65 TC-A-CTAAACCCTACCCCTTCTTCTTCT
63164 TCT
1 TCT
63167 CTCGTGTCTT
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
91 1 0.01
92 72 0.92
93 1 0.01
94 4 0.05
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.50
Consensus pattern (91 bp):
TCTTCTTCTTCTTTGATCCCTTACGTTATCGTTACATTCAATTTTAATCCCTCGATCGTTAACTT
CACTAAACCCTACCCCTTCTTCTTCT
Found at i:63209 original size:21 final size:21
Alignment explanation
Indices: 63153--63211 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
63143 AAATGTACCC
*
63153 CTTCTTCTTCTTCTCTCGTGT
1 CTTCTTCTTCTTCTTTCGTGT
* * ** *
63174 CTTCTTATTTTTCTTTTTTTT
1 CTTCTTCTTCTTCTTTCGTGT
63195 CTTCTTCTTCTTCTTTC
1 CTTCTTCTTCTTCTTTC
63212 AAACTTCAAT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.02, C:0.27, G:0.03, T:0.68
Consensus pattern (21 bp):
CTTCTTCTTCTTCTTTCGTGT
Found at i:65636 original size:21 final size:21
Alignment explanation
Indices: 65612--65660 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
65602 ATTGAAATGA
* *
65612 CAATCCACAACGCTGACATTG
1 CAATCCACAACGCTAACATGG
* *
65633 CAATCCACGATGCTAACATGG
1 CAATCCACAACGCTAACATGG
65654 CAATCCA
1 CAATCCA
65661 TGGTGGCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.35, C:0.33, G:0.14, T:0.18
Consensus pattern (21 bp):
CAATCCACAACGCTAACATGG
Found at i:65641 original size:42 final size:42
Alignment explanation
Indices: 65564--65643 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
65554 CACAGTGCTT
* * *
65564 AAATGACAGTCCACAATGCTGAAATAGCAGCCCACGATATTG
1 AAATGACAATCCACAACGCTGAAATAGCAACCCACGATATTG
* * *
65606 AAATGACAATCCACAACGCTGACATTGCAATCCACGAT
1 AAATGACAATCCACAACGCTGAAATAGCAACCCACGAT
65644 GCTAACATGG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.39, C:0.26, G:0.16, T:0.19
Consensus pattern (42 bp):
AAATGACAATCCACAACGCTGAAATAGCAACCCACGATATTG
Found at i:69854 original size:22 final size:23
Alignment explanation
Indices: 69826--69887 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 23
69816 TTAAATAATC
69826 GAAAATGTATCATAAAAGTA-GA
1 GAAAATGTATCATAAAAGTAGGA
* *
69848 -AACAATGTGTTATAAAAGTAGGA
1 GAA-AATGTATCATAAAAGTAGGA
*
69871 GAAAACGTATCATAAAA
1 GAAAATGTATCATAAAA
69888 ATATACTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.06
22 15 0.47
23 13 0.41
24 2 0.06
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.23
Consensus pattern (23 bp):
GAAAATGTATCATAAAAGTAGGA
Found at i:70224 original size:36 final size:36
Alignment explanation
Indices: 70172--70273 Score: 116
Period size: 42 Copynumber: 2.7 Consensus size: 36
70162 CATATTCGCA
*
70172 TTGCGATAGTCCAAGTTCGCGTTGATTCCAAGTTCG
1 TTGCGATAGTCCAAGTTCGCGTTGATTCCAAATTCG
*
70208 TTGCGATAG-CCGAAGTTCGCATTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCC-AAGTT--C---GCG-TTGATTCCAAATTCG
70250 TTGCGATAGTCCAAGTTCGCGTTG
1 TTGCGATAGTCCAAGTTCGCGTTG
70274 CGATTTATTC
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
35 2 0.04
36 16 0.29
37 3 0.05
38 1 0.02
40 1 0.02
41 3 0.05
42 27 0.49
43 2 0.04
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.33
Consensus pattern (36 bp):
TTGCGATAGTCCAAGTTCGCGTTGATTCCAAATTCG
Found at i:70234 original size:21 final size:20
Alignment explanation
Indices: 70166--70277 Score: 76
Period size: 21 Copynumber: 5.7 Consensus size: 20
70156 GATTTACATA
70166 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAG-CCAAG
* *
70187 TTCGCGTT--GAT-TCCAAG
1 TTCGCATTGCGATAGCCAAG
70204 TTCG--TTGCGATAGCCGAAG
1 TTCGCATTGCGATAGCC-AAG
* *
70223 TTCGCATTGCGATTTATTCCAAA
1 TTCGCATTGCGA--TA-GCCAAG
70246 TTCG--TTGCGATAGTCCAAG
1 TTCGCATTGCGATAG-CCAAG
*
70265 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
70278 TTATTCCAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
15 2 0.03
17 12 0.17
18 2 0.03
19 20 0.28
21 26 0.36
23 8 0.11
24 2 0.03
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (20 bp):
TTCGCATTGCGATAGCCAAG
Found at i:70255 original size:42 final size:42
Alignment explanation
Indices: 70196--70305 Score: 177
Period size: 42 Copynumber: 2.6 Consensus size: 42
70186 GTTCGCGTTG
70196 ATTCCAAGTTCGTTGCGATAG-CCGAAGTTCGCATTGCGATTT
1 ATTCCAAGTTCGTTGCGATAGTCC-AAGTTCGCATTGCGATTT
* *
70238 ATTCCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGCGATTT
1 ATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCATTGCGATTT
*
70280 ATTCCAAGTTCATTGCGATAGTCCAA
1 ATTCCAAGTTCGTTGCGATAGTCCAA
70306 AATCGCAACG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
42 61 0.97
43 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (42 bp):
ATTCCAAGTTCGTTGCGATAGTCCAAGTTCGCATTGCGATTT
Found at i:70289 original size:23 final size:23
Alignment explanation
Indices: 70220--70290 Score: 87
Period size: 21 Copynumber: 3.3 Consensus size: 23
70210 GCGATAGCCG
*
70220 AAGTTCGCATTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
* *
70243 AAATT--CGTTGCGA--TAGTCC
1 AAGTTCGCGTTGCGATTTATTCC
70262 AAGTTCGCGTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCC
70285 AAGTTC
1 AAGTTC
70291 ATTGCGATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
19 9 0.23
21 15 0.38
23 15 0.38
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (23 bp):
AAGTTCGCGTTGCGATTTATTCC
Found at i:70295 original size:21 final size:21
Alignment explanation
Indices: 70227--70298 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 21
70217 CCGAAGTTCG
*
70227 CATTGCGATTTATTCCAAATT
1 CATTGCGATTTATTCCAAGTT
* *
70248 CGTTGCGA--TAGTCCAAGTT
1 CATTGCGATTTATTCCAAGTT
*
70267 CGCGTTGCGATTTATTCCAAGTT
1 --CATTGCGATTTATTCCAAGTT
70290 CATTGCGAT
1 CATTGCGAT
70299 AGTCCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
19 9 0.21
21 23 0.55
23 10 0.24
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (21 bp):
CATTGCGATTTATTCCAAGTT
Found at i:70312 original size:84 final size:76
Alignment explanation
Indices: 70146--70312 Score: 185
Period size: 84 Copynumber: 2.1 Consensus size: 76
70136 AACTTCGACT
* *
70146 ATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCGTTGATTCCAAGTTCGTTG
1 ATCGCATTGCGATTTACAAATTCG-ATTGCGATAGTCCAAGTTCGCGTTGATTCCAAGTTCATTG
*
70211 CGATAGCCGAAG
65 CGATAGCCGAAA
*
70223 TTCGCATTGCGATTTATTCCAAATTCG-TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAA
1 ATCGCATTGCGATTTA---CAAATTCGATTGCGATAGTCCAAGTTCGCGTT--G----ATTCCAA
70287 GTTCATTGCGATAGTCC-AAA
57 GTTCATTGCGATAG-CCGAAA
70307 ATCGCA
1 ATCGCA
70313 ACGACGGTAT
Statistics
Matches: 75, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
77 15 0.20
78 23 0.31
80 8 0.11
84 27 0.36
85 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (76 bp):
ATCGCATTGCGATTTACAAATTCGATTGCGATAGTCCAAGTTCGCGTTGATTCCAAGTTCATTGC
GATAGCCGAAA
Found at i:70399 original size:6 final size:6
Alignment explanation
Indices: 70388--70416 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
70378 GAAGACATAT
70388 ACGACC ACGACC ACGACC ACGACC -CGACC
1 ACGACC ACGACC ACGACC ACGACC ACGACC
70417 CGAGACGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.31, C:0.52, G:0.17, T:0.00
Consensus pattern (6 bp):
ACGACC
Found at i:71107 original size:21 final size:21
Alignment explanation
Indices: 71055--71099 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
71045 AATATGTAAA
*
71055 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAAT
*
71076 TCGCATTGCGATAGTCGAAAT
1 TCGCATTGCGATAGTCCAAAT
71097 TCG
1 TCG
71100 TGTTGCGAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.29
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAAT
Found at i:73123 original size:23 final size:23
Alignment explanation
Indices: 73093--73145 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
73083 CCGAATATGA
73093 AGGAGATCTACCAGATAATTCAG
1 AGGAGATCTACCAGATAATTCAG
73116 AGGAGATCTACCAGATAATTCAG
1 AGGAGATCTACCAGATAATTCAG
73139 AGGAGAT
1 AGGAGAT
73146 TATATCAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (23 bp):
AGGAGATCTACCAGATAATTCAG
Found at i:75272 original size:11 final size:11
Alignment explanation
Indices: 75256--75318 Score: 69
Period size: 11 Copynumber: 5.9 Consensus size: 11
75246 AAAATTACAT
75256 TATTAAAAATA
1 TATTAAAAATA
75267 TATTAAAAATA
1 TATTAAAAATA
***
75278 TATTATTGATA
1 TATTAAAAATA
75289 -ATTATAAAAT-
1 TATTA-AAAATA
75299 T-TTAAAAATA
1 TATTAAAAATA
75309 TATTAAAAAT
1 TATTAAAAAT
75319 TTTATAATAC
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
9 5 0.12
10 8 0.19
11 29 0.69
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (11 bp):
TATTAAAAATA
Found at i:75781 original size:21 final size:21
Alignment explanation
Indices: 75738--75781 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
75728 ATTTGTAATG
* * *
75738 AACCCTAAATCTTAAATCCTA
1 AACCCTAAACCATAAATCATA
*
75759 AACCCTAAACCATATATCATA
1 AACCCTAAACCATAAATCATA
75780 AA
1 AA
75782 GTATAACCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (21 bp):
AACCCTAAACCATAAATCATA
Found at i:81480 original size:35 final size:35
Alignment explanation
Indices: 81422--81496 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
81412 TTCATGTTCA
* *
81422 AAATTCCAAAACACTTCATTTACATTCTAAACCCC
1 AAATTCCAAAACACTTCAATTACATTATAAACCCC
* * * *
81457 AAATTCTAAAATATTTCAATTACATTATAAACCCT
1 AAATTCCAAAACACTTCAATTACATTATAAACCCC
81492 AAATT
1 AAATT
81497 AAAGTATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (35 bp):
AAATTCCAAAACACTTCAATTACATTATAAACCCC
Found at i:81553 original size:34 final size:35
Alignment explanation
Indices: 81492--81567 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 35
81482 TATAAACCCT
* * *
81492 AAATTAAAGTATTTTAGAATTTAGGG-TTAGAATG
1 AAATTGAATTATTTTAGAATCTAGGGTTTAGAATG
* * *
81526 TAATTGAATTATTTTGGAATCTGGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATCTAGGGTTTAGAATG
81561 AAATTGA
1 AAATTGA
81568 GGATTGTGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
34 20 0.59
35 14 0.41
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.39
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATCTAGGGTTTAGAATG
Found at i:88774 original size:14 final size:14
Alignment explanation
Indices: 88755--88785 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
88745 GGTTTATATA
88755 TTTACTGATAAAAT
1 TTTACTGATAAAAT
88769 TTTACTGATAAAAT
1 TTTACTGATAAAAT
88783 TTT
1 TTT
88786 TAACCATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (14 bp):
TTTACTGATAAAAT
Found at i:91615 original size:11 final size:11
Alignment explanation
Indices: 91586--91627 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
91576 ATAAAATTTA
91586 TTTTCTTT-TC
1 TTTTCTTTATC
91596 TTTTACTTTATC
1 TTTT-CTTTATC
*
91608 TTTTCTTTATA
1 TTTTCTTTATC
*
91619 TTTTATTTA
1 TTTTCTTTA
91628 AAAGTTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 4 0.14
11 18 0.64
12 6 0.21
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTCTTTATC
Found at i:91627 original size:22 final size:22
Alignment explanation
Indices: 91586--91627 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
91576 ATAAAATTTA
*
91586 TTTTCTTTTCTTTTACTTTATC
1 TTTTCTTTTATTTTACTTTATC
91608 TTTTCTTTATATTTTA-TTTA
1 TTTTCTTT-TATTTTACTTTA
91628 AAAGTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTTCTTTTATTTTACTTTATC
Found at i:95852 original size:150 final size:150
Alignment explanation
Indices: 95581--95881 Score: 602
Period size: 150 Copynumber: 2.0 Consensus size: 150
95571 TACCTAGAAT
95581 TCAACCTCATTTTAAATTATGAAAAATATCATTTTATAGTTGACAAGTGGTTGATTCCAGGACAT
1 TCAACCTCATTTTAAATTATGAAAAATATCATTTTATAGTTGACAAGTGGTTGATTCCAGGACAT
95646 ATTGTTTCTTCCCATAGAATAACGGTTGATAAAGCCAAGATAGATATTATACACTCACTCCCTTA
66 ATTGTTTCTTCCCATAGAATAACGGTTGATAAAGCCAAGATAGATATTATACACTCACTCCCTTA
95711 CCCCAAAATGGTAAGGAAAG
131 CCCCAAAATGGTAAGGAAAG
95731 TCAACCTCATTTTAAATTATGAAAAATATCATTTTATAGTTGACAAGTGGTTGATTCCAGGACAT
1 TCAACCTCATTTTAAATTATGAAAAATATCATTTTATAGTTGACAAGTGGTTGATTCCAGGACAT
95796 ATTGTTTCTTCCCATAGAATAACGGTTGATAAAGCCAAGATAGATATTATACACTCACTCCCTTA
66 ATTGTTTCTTCCCATAGAATAACGGTTGATAAAGCCAAGATAGATATTATACACTCACTCCCTTA
95861 CCCCAAAATGGTAAGGAAAG
131 CCCCAAAATGGTAAGGAAAG
95881 T
1 T
95882 ACGTTCTTTT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
150 151 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.32
Consensus pattern (150 bp):
TCAACCTCATTTTAAATTATGAAAAATATCATTTTATAGTTGACAAGTGGTTGATTCCAGGACAT
ATTGTTTCTTCCCATAGAATAACGGTTGATAAAGCCAAGATAGATATTATACACTCACTCCCTTA
CCCCAAAATGGTAAGGAAAG
Found at i:97303 original size:6 final size:6
Alignment explanation
Indices: 97273--97331 Score: 82
Period size: 6 Copynumber: 9.5 Consensus size: 6
97263 AGCATGTTTA
* *
97273 AAAATA AAACATG AAAATAG AAAATG AAAATG AAAATG AAAATG AAAACG
1 AAAATG AAA-ATG AAAAT-G AAAATG AAAATG AAAATG AAAATG AAAATG
97323 AAAATG AAA
1 AAAATG AAA
97332 GAAGAAAAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
6 37 0.77
7 11 0.23
ACGTcount: A:0.69, C:0.03, G:0.14, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:99164 original size:19 final size:20
Alignment explanation
Indices: 99123--99165 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
99113 AAAAACAAGC
**
99123 TAAAACATCTTAATCCTAAT
1 TAAAACATCTTAAAACTAAT
*
99143 TAAAACA-CTTAAAACTATT
1 TAAAACATCTTAAAACTAAT
99162 TAAA
1 TAAA
99166 CTAAAATACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAACATCTTAAAACTAAT
Found at i:101108 original size:21 final size:21
Alignment explanation
Indices: 101082--101134 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
101072 TAAAGTTCGC
101082 TGAAAATAAAACGAAATAAAA
1 TGAAAATAAAACGAAATAAAA
*
101103 TGAAAATAAAATGAAATAAAA
1 TGAAAATAAAACGAAATAAAA
101124 TGAAAATAAAA
1 TGAAAATAAAA
101135 ACAAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (21 bp):
TGAAAATAAAACGAAATAAAA
Found at i:101109 original size:11 final size:11
Alignment explanation
Indices: 101082--101134 Score: 83
Period size: 10 Copynumber: 5.0 Consensus size: 11
101072 TAAAGTTCGC
101082 TGAAAATAAAA
1 TGAAAATAAAA
*
101093 CG-AAATAAAA
1 TGAAAATAAAA
101103 TGAAAATAAAA
1 TGAAAATAAAA
101114 TG-AAATAAAA
1 TGAAAATAAAA
101124 TGAAAATAAAA
1 TGAAAATAAAA
101135 ACAAAAATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
10 19 0.50
11 19 0.50
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (11 bp):
TGAAAATAAAA
Found at i:104096 original size:18 final size:19
Alignment explanation
Indices: 104059--104099 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
104049 AATATTTAAT
*
104059 TAAATAAAATAGATAATAA
1 TAAATAAAAGAGATAATAA
*
104078 TAAATAAAAGGGA-AATAA
1 TAAATAAAAGAGATAATAA
104096 TAAA
1 TAAA
104100 ATAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (19 bp):
TAAATAAAAGAGATAATAA
Found at i:104191 original size:16 final size:16
Alignment explanation
Indices: 104170--104200 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
104160 AATGAGATAA
*
104170 AAATTAATTAAAAAAT
1 AAATTAAATAAAAAAT
104186 AAATTAAATAAAAAA
1 AAATTAAATAAAAAA
104201 ATTGGGATAA
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:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATTAAATAAAAAAT
Found at i:105919 original size:64 final size:64
Alignment explanation
Indices: 105851--106014 Score: 215
Period size: 64 Copynumber: 2.6 Consensus size: 64
105841 TTGTTTGAAT
* * * * *
105851 GTGCATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAGAATAATAACATCGAATGTAATTC
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCGTTAAGAATAA-AACATCGAATGCAATTC
* * * *
105915 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGAAACATCGAATGCAATTG
1 GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCGTTAAGAATAAAACATCGAATGCAATTC
105979 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCC
1 GTGCATCGATGCAT-AGGTAGTGCATCGATGCATCCC
106015 AACAATAATA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
64 77 0.88
65 11 0.12
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATGCATCCCGTTAAGAATAAAACATCGAATGCAATTC
Found at i:106022 original size:64 final size:63
Alignment explanation
Indices: 105851--106075 Score: 211
Period size: 64 Copynumber: 3.5 Consensus size: 63
105841 TTGTTTGAAT
* *** * *
105851 GTGCATCGATGCAT-TGGTAGTGCATCGATGCACTCTTTTAGAATAAT-AACATCGAATGTAATT
1 GTGCATCGATGCATAAGG-AGTGCATCGATGCA-TC-CCAACAATAATAAACATCGAATGCAATT
*
105914 C
63 G
* ***
105915 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGAAACATCGAATGCAATTG
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAAT-AAACATCGAATGCAATTG
* * **
105979 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATACTACATCGAATACCTTTG
1 GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATA-AACATCGAATGCAATTG
* * * * *
106043 ATGCACCAATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGGAGTGCATCGATGCAT
106076 ACCTTCATTA
Statistics
Matches: 135, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
62 6 0.04
63 3 0.02
64 125 0.93
65 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (63 bp):
GTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATAAACATCGAATGCAATTG
Found at i:106546 original size:15 final size:15
Alignment explanation
Indices: 106528--106574 Score: 94
Period size: 15 Copynumber: 3.1 Consensus size: 15
106518 GAGGGTATAA
106528 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
106543 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
106558 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
106573 TA
1 TA
106575 ATGGTCCTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.15, C:0.19, G:0.32, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:112855 original size:64 final size:64
Alignment explanation
Indices: 112778--112941 Score: 197
Period size: 64 Copynumber: 2.6 Consensus size: 64
112768 TTGTTTGAAT
* * * * *
112778 GTGCATCGATGCATTGGTAGTGCATCGATACA-CTCTTTTAGAATAATAACATCGAATGTAATTC
1 GTGCATCGATGCATAGGTAGTGCATCGATACATCCCGTTAAGAATAA-AACATCGAATGCAATTC
* * * * *
112842 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGAAACATCGAATGCAATTG
1 GTGCATCGATGCATAGGTAGTGCATCGATACATCCCGTTAAGAATAAAACATCGAATGCAATTC
*
112906 GTGCATCGATGCATAAGG-AGTGCATCGATGCATCCC
1 GTGCATCGATGCAT-AGGTAGTGCATCGATACATCCC
112942 AACAATAATA
Statistics
Matches: 87, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 76 0.87
65 11 0.13
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAGGTAGTGCATCGATACATCCCGTTAAGAATAAAACATCGAATGCAATTC
Found at i:112949 original size:64 final size:64
Alignment explanation
Indices: 112825--113002 Score: 225
Period size: 64 Copynumber: 2.8 Consensus size: 64
112815 TTAGAATAAT
* * ***
112825 AACATCGAATGTAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCGTTAATAATGA-
1 AACATCGAATGCAATTGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAAT-AC
*
112889 AACATCGAATGCAATTGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAACAATAATAC
1 AACATCGAATGCAATTGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATAC
* * * * *
112953 TACATCGAATAGC-TTTGATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 AACATCGAAT-GCAATTGGTGCATCGATGCATAAGTAGTGCATCGATGCAT
113003 ACCTTCATTA
Statistics
Matches: 100, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
63 1 0.01
64 97 0.97
65 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (64 bp):
AACATCGAATGCAATTGGTGCATCGATGCATAAGTAGTGCATCGATGCATCCCAACAATAATAC
Found at i:113473 original size:15 final size:15
Alignment explanation
Indices: 113455--113486 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
113445 GAGGGTATAA
113455 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
113470 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
113485 TA
1 TA
113487 ATGGTCCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:116367 original size:48 final size:49
Alignment explanation
Indices: 116296--116403 Score: 191
Period size: 48 Copynumber: 2.2 Consensus size: 49
116286 TCAAGTCGTA
116296 AATCATTACTATCAAATCATTAAATATTAATAATAA-ATTATTATTACT
1 AATCATTACTATCAAATCATTAAATATTAATAATAATATTATTATTACT
* *
116344 AATCATTAGTATCAAATCATTAAATATTAATAATAATTTTATTATTACT
1 AATCATTACTATCAAATCATTAAATATTAATAATAATATTATTATTACT
116393 AATCATTACTA
1 AATCATTACTA
116404 AATCATTAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
48 35 0.62
49 21 0.38
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (49 bp):
AATCATTACTATCAAATCATTAAATATTAATAATAATATTATTATTACT
Found at i:116417 original size:60 final size:60
Alignment explanation
Indices: 116338--116523 Score: 322
Period size: 60 Copynumber: 3.1 Consensus size: 60
116328 ATAAATTATT
*
116338 ATTACT-AATCATTAGTATCAAATCATTAAATATTAATAATAATTTTATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTTATTATTACTAATC
*
116397 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTCATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTTATTATTACTAATC
* *
116457 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAA-ATTATTATTACTAATC
1 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTTATTATTACTAATC
116516 ATTACTAA
1 ATTACTAA
116524 CAAATCATTA
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
59 28 0.23
60 93 0.77
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.42
Consensus pattern (60 bp):
ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTTATTATTACTAATC
Found at i:116519 original size:48 final size:48
Alignment explanation
Indices: 116457--116629 Score: 211
Period size: 58 Copynumber: 3.4 Consensus size: 48
116447 ATTACTAATC
116457 ATTACTAAATCATTACTATCAAATCATTAAATATTAATAATAAATTATT
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAAATTATT
*
116506 ATTACTAATCATTACTAACAAATCATTAAATATTAATAATAAATTATTATTACTAAT
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAAT--A--A--ATTA-T--T
* *
116563 CATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATT
1 -ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAAATT-ATT
116613 ATTACTAATCATTACTA
1 ATTACTAATCATTACTA
116630 AATCATTAAT
Statistics
Matches: 109, Mismatches: 4, Indels: 22
0.81 0.03 0.16
Matches are distributed among these distances:
48 33 0.30
49 23 0.21
50 2 0.02
52 4 0.04
53 1 0.01
54 5 0.05
55 1 0.01
56 1 0.01
57 1 0.01
58 38 0.35
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (48 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAAATTATT
Found at i:116569 original size:10 final size:10
Alignment explanation
Indices: 116554--116580 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
116544 ATAAATTATT
116554 ATTACTAATC
1 ATTACTAATC
116564 ATTACTAATC
1 ATTACTAATC
116574 ATTACTA
1 ATTACTA
116581 TCAAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.19, G:0.00, T:0.41
Consensus pattern (10 bp):
ATTACTAATC
Found at i:116616 original size:226 final size:228
Alignment explanation
Indices: 116118--116711 Score: 780
Period size: 226 Copynumber: 2.6 Consensus size: 228
116108 AATCATTACT
116118 AAATCATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTAATATCAAATC
1 AAATCATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTAATATCAAATC
* * * ** *
116183 ATTAAATATTAATAATAATTTTATTATTATTAATCATTATTATAATTTCATTACTAGTTATGTAA
66 ATTAAATATTAATAATAATTTTATTATTACTAATCATTACTA-AA--TCATTACTA-TCAAATCA
** * *
116248 CGAAAATATGGTGAATTGAACCAAACATTGTTCATTGTTCAAGTCGTAAATCATTACTATCAAAT
127 -TTAAATAT-GTGAATTGAA-CAAACA-T-TTCATTATT-AAG-CGTAAATCATTACTAACAAAT
*
116313 CATTAAATATTAATAATAAATTATTATTACTAATCATTAGTATC
185 CATTAAATATTAATAATAAATTATTATTACTAATCATTACTATC
116357 AAATCATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTAATATCAAATC
1 AAATCATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTAATATCAAATC
*
116422 ATTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAA
66 ATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAA
*
116487 ATAT-T-AA-T-AA-TAA-A-TT-ATTATT-A-C-T-AATCATTACTAACAAATCATTAAATATT
131 ATATGTGAATTGAACAAACATTTCATTATTAAGCGTAAATCATTACTAACAAATCATTAAATATT
116540 AATAATAAATTATTATTACTAATCATTACTAATCATTACTATC
196 AATAAT--A--A--ATTA-T--T-ATTACTAATCATTACTATC
* *
116583 AAATCATTAAAAATTAATAATAATTTCATTATTACTAATCATTACTAAATCATTAATATCAAATC
1 AAATCATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTAATATCAAATC
116648 ATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTACTATCAAATCATTA
66 ATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTACTATCAAATCATTA
116712 TTATTAAATC
Statistics
Matches: 329, Mismatches: 16, Indels: 33
0.87 0.04 0.09
Matches are distributed among these distances:
216 33 0.10
217 1 0.00
218 2 0.01
220 2 0.01
222 9 0.03
223 3 0.01
225 1 0.00
226 145 0.44
227 2 0.01
229 2 0.01
230 1 0.00
231 2 0.01
232 1 0.00
234 6 0.02
235 4 0.01
236 9 0.03
238 2 0.01
239 104 0.32
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (228 bp):
AAATCATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTAATATCAAATC
ATTAAATATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTACTATCAAATCATTAA
ATATGTGAATTGAACAAACATTTCATTATTAAGCGTAAATCATTACTAACAAATCATTAAATATT
AATAATAAATTATTATTACTAATCATTACTATC
Found at i:116637 original size:21 final size:21
Alignment explanation
Indices: 116613--116700 Score: 60
Period size: 21 Copynumber: 4.3 Consensus size: 21
116603 TAATTTCATT
116613 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
* * *
116634 ATTAAT-ATCAAATCATTAAAT-
1 ATTACTAATC--ATTACTAAATC
* * * *
116655 ATTAATAATAATT--T-TATT
1 ATTACTAATCATTACTAAATC
116673 ATTACTAATCATTACTAAATC
1 ATTACTAATCATTACTAAATC
116694 ATTACTA
1 ATTACTA
116701 TCAAATCATT
Statistics
Matches: 50, Mismatches: 10, Indels: 14
0.68 0.14 0.19
Matches are distributed among these distances:
17 2 0.04
18 12 0.24
20 6 0.12
21 20 0.40
22 10 0.20
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTACTAATCATTACTAAATC
Found at i:116651 original size:60 final size:58
Alignment explanation
Indices: 116506--116711 Score: 340
Period size: 60 Copynumber: 3.5 Consensus size: 58
116496 ATAAATTATT
* *
116506 ATTACTAATCATTACTAACAAATCATTAAATATTAATAATAAATTATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTATTATTACTAATC
*
116564 ATTACTAATCATTACTATCAAATCATTAAAAATTAATAATAATTTCATTATTACTAATC
1 ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTT-ATTATTACTAATC
*
116623 ATTACTAAATCATTAATATCAAATCATTAAATATTAATAATAATTTTATTATTACTAATC
1 ATTACT-AATCATTACTATCAAATCATTAAATATTAATAATAA-TTTATTATTACTAATC
116683 ATTACTAAATCATTACTATCAAATCATTA
1 ATTACT-AATCATTACTATCAAATCATTA
116712 TTATTAAATC
Statistics
Matches: 139, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
58 42 0.30
59 19 0.14
60 75 0.54
61 3 0.02
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.41
Consensus pattern (58 bp):
ATTACTAATCATTACTATCAAATCATTAAATATTAATAATAATTTATTATTACTAATC
Found at i:116708 original size:14 final size:13
Alignment explanation
Indices: 116683--116922 Score: 166
Period size: 12 Copynumber: 18.9 Consensus size: 13
116673 ATTACTAATC
116683 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
116697 ACTATCAAATCATT
1 ATTAT-AAATCATT
116711 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
116725 ATTAT-AATGATT
1 ATTATAAATCATT
*
116737 ATTAT-AATGATT
1 ATTATAAATCATT
116749 ATTATTAAATCATT
1 ATTA-TAAATCATT
*
116763 ATTAT-AATAATT
1 ATTATAAATCATT
116775 ATTATTAAATCATT
1 ATTA-TAAATCATT
* *
116789 A--CTAAATCATC
1 ATTATAAATCATT
* * * *
116800 A-TATCATTAAAT
1 ATTATAAATCATT
*
116812 ATT-TAAATAATT
1 ATTATAAATCATT
*
116824 A-T-TAAATCTTT
1 ATTATAAATCATT
*
116835 ATTAT-AATGATT
1 ATTATAAATCATT
116847 ATTACTAAATCATT
1 ATTA-TAAATCATT
*
116861 ATTAT-AATGATT
1 ATTATAAATCATT
116873 ATTATCAAATCATT
1 ATTAT-AAATCATT
*
116887 ATTAT-AATGATT
1 ATTATAAATCATT
*
116899 ATTAT-CAT-ATT
1 ATTATAAATCATT
116910 ATTACTAAATCAT
1 ATTA-TAAATCAT
116923 CAAATCATTA
Statistics
Matches: 182, Mismatches: 27, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
11 25 0.14
12 79 0.43
13 11 0.06
14 66 0.36
15 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTATAAATCATT
Found at i:116712 original size:38 final size:39
Alignment explanation
Indices: 116668--116903 Score: 183
Period size: 38 Copynumber: 6.2 Consensus size: 39
116658 AATAATAATT
* * *
116668 TTATTATTACTAATCATTACTA-AATCATTACTATCAAATCA
1 TTATTATTA--AATCATTATTATAATAATTATTAT-AAATCA
* *
116709 TTATTATTAAATCATTATTATAATGATTATTAT-AATGA
1 TTATTATTAAATCATTATTATAATAATTATTATAAATCA
116747 TTATTATTAAATCATTATTATAATAATTATTATTAAATC-
1 TTATTATTAAATCATTATTATAATAATTATTA-TAAATCA
* * * *
116786 --ATTACTAAATCATCA-TATCATTAAATATT-TAAAT-A
1 TTATTATTAAATCATTATTAT-AATAATTATTATAAATCA
* *
116821 --ATTATTAAATCTTTATTATAATGATTATTACTAAATCA
1 TTATTATTAAATCATTATTATAATAATTATTA-TAAATCA
* * *
116859 TTATTA-T-AATGATTATTATCAAATCATTATTAT-AATGA
1 TTATTATTAAATCATTATTAT--AATAATTATTATAAATCA
116897 TTATTAT
1 TTATTAT
116904 CATATTATTA
Statistics
Matches: 161, Mismatches: 20, Indels: 30
0.76 0.09 0.14
Matches are distributed among these distances:
35 24 0.15
36 6 0.04
37 26 0.16
38 56 0.35
39 13 0.08
40 27 0.17
41 9 0.06
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (39 bp):
TTATTATTAAATCATTATTATAATAATTATTATAAATCA
Found at i:116763 original size:26 final size:26
Alignment explanation
Indices: 116668--116903 Score: 224
Period size: 26 Copynumber: 9.3 Consensus size: 26
116658 AATAATAATT
* *
116668 TTATTATTACTAATCATTACTA-AATCA
1 TTATTATTA--AATCATTATTATAATGA
* *
116695 TTACTATCAAATCATTATTATTAA--A
1 TTATTATTAAATCATTATTA-TAATGA
* *
116720 TCATTATTATAATGATTATTATAATGA
1 TTATTATTA-AATCATTATTATAATGA
*
116747 TTATTATTAAATCATTATTATAATAA
1 TTATTATTAAATCATTATTATAATGA
* *
116773 TTATTATTAAATCATTACTA-AATCA
1 TTATTATTAAATCATTATTATAATGA
*
116798 TCATATCATTAAAT-A-T-TTA-AAT-A
1 T--TATTATTAAATCATTATTATAATGA
*
116821 --ATTATTAAATCTTTATTATAATGA
1 TTATTATTAAATCATTATTATAATGA
*
116845 TTATTACTAAATCATTATTATAATGA
1 TTATTATTAAATCATTATTATAATGA
*
116871 TTATTATCAAATCATTATTATAATGA
1 TTATTATTAAATCATTATTATAATGA
116897 TTATTAT
1 TTATTAT
116904 CATATTATTA
Statistics
Matches: 175, Mismatches: 20, Indels: 29
0.78 0.09 0.13
Matches are distributed among these distances:
19 9 0.05
21 1 0.01
22 3 0.02
23 4 0.02
24 6 0.03
25 26 0.15
26 98 0.56
27 28 0.16
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (26 bp):
TTATTATTAAATCATTATTATAATGA
Found at i:116847 original size:20 final size:19
Alignment explanation
Indices: 116805--116847 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
116795 TCATCATATC
*
116805 ATTAAATATTTAAATAATT
1 ATTAAATATTTAAATAATG
* *
116824 ATTAAATCTTTATTATAATG
1 ATTAAATATTTA-AATAATG
116844 ATTA
1 ATTA
116848 TTACTAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTAAATATTTAAATAATG
Found at i:116850 original size:98 final size:103
Alignment explanation
Indices: 116654--116887 Score: 298
Period size: 98 Copynumber: 2.3 Consensus size: 103
116644 AATCATTAAA
* * *
116654 TATTAATAATAATTTTATTATTACTAATCATTACTAAATCATTACTATCAAATCATTATTATTAA
1 TATT-ATAATAA--TTATTATTA--AATCATTACTAAATCATCACTATCAAATAAATATTATTAA
* * *
116719 ATCATTATTATAATGATTATTATAATGATTATTATTAAATCAT
61 ATAATTATTATAATCATTATTATAATGATTATTACTAAATCAT
*
116762 TATTATAATAATTATTATTAAATCATTACTAAATCATCA-TATC-ATTAAATA-T-TTAAATAAT
1 TATTATAATAATTATTATTAAATCATTACTAAATCATCACTATCAAATAAATATTATTAAATAAT
*
116823 TATTA-AATCTTTATTATAATGATTATTACTAAATCAT
66 TATTATAATCATTATTATAATGATTATTACTAAATCAT
* *
116860 TATTATAATGATTATTATCAAATCATTA
1 TATTATAATAATTATTATTAAATCATTA
116888 TTATAATGAT
Statistics
Matches: 116, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
98 55 0.47
99 13 0.11
100 1 0.01
101 5 0.04
102 4 0.03
103 18 0.16
105 9 0.08
107 7 0.06
108 4 0.03
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (103 bp):
TATTATAATAATTATTATTAAATCATTACTAAATCATCACTATCAAATAAATATTATTAAATAAT
TATTATAATCATTATTATAATGATTATTACTAAATCAT
Found at i:116862 original size:124 final size:122
Alignment explanation
Indices: 116712--116986 Score: 389
Period size: 124 Copynumber: 2.3 Consensus size: 122
116702 CAAATCATTA
* * *
116712 TTATTA-AATCATTATTAT-AATGATTATTATAATGATTATTATTAAATCATTATTATAATAATT
1 TTATTATAATGATTATTATAAATCATTATTATAATGATTATTATCAAATCATTATTATAATAATT
* *
116775 ATTATTAAATCATTACTAAATCATCATATCATTAAATATTTAAA-TAATTATTAAATC
66 ATTATCAAATCATTACTAAATCATCAAATCATTAAATA-TTAAATTAATTATTAAATC
*
116832 TTTATTATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTATTATAATGA
1 -TTATTATAATGATTATTA-TAAATCATTATTATAATGATTATTATCAAATCATTATTATAATAA
* * *
116897 TTATTATCATATTATTACTAAATCATCAAATCATTAAATATTAAATTCATTATTAAATC
64 TTATTATCAAATCATTACTAAATCATCAAATCATTAAATATTAAATTAATTATTAAATC
*
116956 --ATTATAATGATTATTATCAAATCATTTTTAT
1 TTATTATAATGATTATTAT-AAATCATTATTAT
116987 GGTTAATTGA
Statistics
Matches: 139, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
120 1 0.01
121 34 0.24
122 10 0.07
123 6 0.04
124 88 0.63
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (122 bp):
TTATTATAATGATTATTATAAATCATTATTATAATGATTATTATCAAATCATTATTATAATAATT
ATTATCAAATCATTACTAAATCATCAAATCATTAAATATTAAATTAATTATTAAATC
Found at i:117176 original size:17 final size:18
Alignment explanation
Indices: 117156--117190 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
117146 TATTAGTAAA
117156 TCATTATTATT-ATAATT
1 TCATTATTATTAATAATT
117173 TCATTATTATTAATAATT
1 TCATTATTATTAATAATT
117191 ACTAATCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TCATTATTATTAATAATT
Found at i:121035 original size:8 final size:8
Alignment explanation
Indices: 121024--121048 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
121014 TTTAATAATT
121024 TAAACTAA
1 TAAACTAA
121032 TAAACTAA
1 TAAACTAA
121040 TAAACTAA
1 TAAACTAA
121048 T
1 T
121049 TTTTTATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
TAAACTAA
Found at i:121101 original size:21 final size:21
Alignment explanation
Indices: 121068--121116 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
121058 AATATTATAT
121068 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
121089 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
121110 ATTAACT
1 A-TAACT
121117 AGATTTTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:121504 original size:21 final size:21
Alignment explanation
Indices: 121479--121549 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
121469 ACGCTGCAAT
121479 CATGCAGCTATGGATGCAACG
1 CATGCAGCTATGGATGCAACG
* *
121500 CATGCAGCTACGGATGC-AGG
1 CATGCAGCTATGGATGCAACG
* *
121520 AATCTCCCAGCTATGGATGCAACG
1 CA--T-GCAGCTATGGATGCAACG
121544 CATGCA
1 CATGCA
121550 TGAGTGATAG
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
20 3 0.08
21 18 0.47
22 2 0.05
23 12 0.32
24 3 0.08
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (21 bp):
CATGCAGCTATGGATGCAACG
Found at i:121746 original size:20 final size:20
Alignment explanation
Indices: 121721--121799 Score: 79
Period size: 20 Copynumber: 3.7 Consensus size: 20
121711 CTCCCATGCA
121721 CGATCTCCCCATGCATGAAC
1 CGATCTCCCCATGCATGAAC
*
121741 CGATCTCCCCGA-GCATGCACTGC
1 CGATCTCCCC-ATGCATG-A--AC
*
121764 ACGATCTCCCCATGCATGCAC
1 -CGATCTCCCCATGCATGAAC
121785 CGATCTCCCCCATGC
1 CGATCT-CCCCATGC
121800 GTGCATGCAC
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
20 21 0.43
21 11 0.22
23 2 0.04
24 15 0.31
ACGTcount: A:0.20, C:0.44, G:0.16, T:0.19
Consensus pattern (20 bp):
CGATCTCCCCATGCATGAAC
Found at i:121780 original size:44 final size:44
Alignment explanation
Indices: 121715--121819 Score: 158
Period size: 44 Copynumber: 2.4 Consensus size: 44
121705 TACACACTCC
*
121715 CATGCACGATCTCCCCATGCATGAACCGATCTCCCCGA-GCATG
1 CATGCACGATCTCCCCATGCATGAACCGATCTCCCCCATGCATG
* *
121758 CACTGCACGATCTCCCCATGCATGCACCGATCTCCCCCATGCGTG
1 CA-TGCACGATCTCCCCATGCATGAACCGATCTCCCCCATGCATG
121803 CATGCACCGATCTCCCC
1 CATGCA-CGATCTCCCC
121820 CCCCCCATGC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
43 2 0.04
44 38 0.68
45 16 0.29
ACGTcount: A:0.20, C:0.44, G:0.17, T:0.19
Consensus pattern (44 bp):
CATGCACGATCTCCCCATGCATGAACCGATCTCCCCCATGCATG
Found at i:121810 original size:25 final size:23
Alignment explanation
Indices: 121715--121820 Score: 102
Period size: 25 Copynumber: 4.8 Consensus size: 23
121705 TACACACTCC
121715 CATGCA-CGATCT-CCCCA--TG
1 CATGCACCGATCTCCCCCAGCTG
* *
121734 CATGAACCGATCTCCCCGAGCATG
1 CATGCACCGATCTCCCCCAGC-TG
121758 CACTGCA-CGATCT-CCCCA--TG
1 CA-TGCACCGATCTCCCCCAGCTG
121778 CATGCACCGATCTCCCCCATGCGTG
1 CATGCACCGATCTCCCCCA-GC-TG
121803 CATGCACCGATCTCCCCC
1 CATGCACCGATCTCCCCC
121821 CCCCCATGCA
Statistics
Matches: 71, Mismatches: 4, Indels: 18
0.76 0.04 0.19
Matches are distributed among these distances:
19 9 0.13
20 16 0.23
21 9 0.13
23 4 0.06
24 10 0.14
25 23 0.32
ACGTcount: A:0.20, C:0.44, G:0.17, T:0.19
Consensus pattern (23 bp):
CATGCACCGATCTCCCCCAGCTG
Found at i:125148 original size:30 final size:30
Alignment explanation
Indices: 125114--125188 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
125104 TGTTCGGTTA
125114 GTGTTTGTTTAATTT-TTTATT-ATCATGTTC
1 GTGTTTGTTT-ATTTATTTATTGAT-ATGTTC
* * *
125144 GTGTTCGTTTATTTATTTTTTGATTTGTTC
1 GTGTTTGTTTATTTATTTATTGATATGTTC
*
125174 GTGTTTGTTCATTTA
1 GTGTTTGTTTATTTA
125189 AAGTTCGCGA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
29 4 0.11
30 32 0.84
31 2 0.05
ACGTcount: A:0.13, C:0.07, G:0.16, T:0.64
Consensus pattern (30 bp):
GTGTTTGTTTATTTATTTATTGATATGTTC
Found at i:125240 original size:23 final size:23
Alignment explanation
Indices: 125214--125265 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
125204 TTCGTTTAAT
125214 GTTCGTGAACATG-TTCATCTAGC
1 GTTCGTGAACATGTTTC-TCTAGC
*
125237 GTTCGTGAACATGTTTCTTTAGC
1 GTTCGTGAACATGTTTCTCTAGC
125260 GTTCGT
1 GTTCGT
125266 TTAACGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 24 0.89
24 3 0.11
ACGTcount: A:0.17, C:0.19, G:0.23, T:0.40
Consensus pattern (23 bp):
GTTCGTGAACATGTTTCTCTAGC
Found at i:125274 original size:34 final size:34
Alignment explanation
Indices: 125236--125331 Score: 115
Period size: 34 Copynumber: 2.8 Consensus size: 34
125226 GTTCATCTAG
*
125236 CGTTCGTGAACATGTTTC-TTTAGCGTTCGTTTAA
1 CGTTCGTGAACATG-TTCGTTTAGCGTTCGTATAA
* *
125270 CGTTCACT-AACATGTTCGTTTAGCATTCGTATAA
1 CGTTC-GTGAACATGTTCGTTTAGCGTTCGTATAA
**
125304 TATTCGTGAACATGTTCGTTTAGCGTTC
1 CGTTCGTGAACATGTTCGTTTAGCGTTC
125332 ACGAACATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
33 4 0.08
34 47 0.90
35 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.42
Consensus pattern (34 bp):
CGTTCGTGAACATGTTCGTTTAGCGTTCGTATAA
Found at i:126206 original size:20 final size:20
Alignment explanation
Indices: 126144--126374 Score: 225
Period size: 20 Copynumber: 11.5 Consensus size: 20
126134 CGATTTTCCA
* ** *
126144 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
126164 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
126184 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
126204 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
126224 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
126244 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
126264 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
126284 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
*
126304 AAAATCGCAACGCGTATTCGT
1 -AAATCGCAACGCGTATCCGT
*
126325 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* * *
126345 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGTATCCGT
*
126365 AAATCACAAC
1 AAATCGCAAC
126375 ACTGAAATTT
Statistics
Matches: 175, Mismatches: 29, Indels: 14
0.80 0.13 0.06
Matches are distributed among these distances:
19 3 0.02
20 154 0.88
21 17 0.10
22 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:126228 original size:60 final size:60
Alignment explanation
Indices: 126164--126360 Score: 252
Period size: 60 Copynumber: 3.3 Consensus size: 60
126154 GCGAATATGA
*
126164 AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
* *** * * *
126224 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
** * *
126284 AAATCGCAACGATAATACATAAAATCGCAACGCGTATTCGTAAATCGCAACGAT-AATCCGT
1 AAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTAAATCGCAACG-TGTATCCGT
*
126345 AAATCGCAACGAGAAT
1 AAATCGCAACGCGAAT
126361 CTGTAAATCA
Statistics
Matches: 115, Mismatches: 20, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
60 66 0.57
61 49 0.43
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
Found at i:127096 original size:24 final size:24
Alignment explanation
Indices: 127057--127103 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
127047 AAATTTGGTC
127057 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
127081 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
127104 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:127295 original size:12 final size:12
Alignment explanation
Indices: 127278--127302 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
127268 ATATAATCCT
127278 GAAGAAGAAAAA
1 GAAGAAGAAAAA
127290 GAAGAAGAAAAA
1 GAAGAAGAAAAA
127302 G
1 G
127303 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:129636 original size:33 final size:34
Alignment explanation
Indices: 129599--129782 Score: 135
Period size: 33 Copynumber: 5.2 Consensus size: 34
129589 GCAACGAGAG
129599 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
** * *
129632 AATCGCAATGCGGAAATGAAAATTGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCCCAACAATGAA
*
129666 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
* * * * *
129704 AATCGCAACGAGAGAATCG-CAAT-GCGA-AATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAATGAA
*
129737 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
129775 AATCGCAA
1 AATCGCAA
129783 CGAGAGAATC
Statistics
Matches: 121, Mismatches: 14, Indels: 27
0.75 0.09 0.17
Matches are distributed among these distances:
31 1 0.01
32 6 0.05
33 46 0.38
34 28 0.23
35 2 0.02
37 1 0.01
38 30 0.25
39 6 0.05
40 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCCCAACAATGAA
Found at i:129653 original size:34 final size:33
Alignment explanation
Indices: 129585--129688 Score: 138
Period size: 33 Copynumber: 3.1 Consensus size: 33
129575 CGGAAATTAC
* *
129585 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCCCAACGAGAAAATCGCAATGCGAAATGAA
129618 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCCCAACGA-GAAAATCGCAATGC-GAAATGAA
** *
129652 AATTGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCCCAACGAGAAAATCGCAATGCGAAATGAA
129685 AATC
1 AATC
129689 GCAATGCGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
32 1 0.02
33 32 0.52
34 28 0.45
35 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (33 bp):
AATCCCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:129690 original size:19 final size:19
Alignment explanation
Indices: 129599--129820 Score: 232
Period size: 19 Copynumber: 12.7 Consensus size: 19
129589 GCAACGAGAG
129599 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
129618 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
129632 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
* *
129652 AATTGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
129666 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
129685 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
129704 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
129718 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
129737 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
129756 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
129775 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
129789 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
129808 AATCGCATTGCGA
1 AATCGCAATGCGA
129821 TTCTCTCGTT
Statistics
Matches: 170, Mismatches: 12, Indels: 42
0.76 0.05 0.19
Matches are distributed among these distances:
14 41 0.24
15 3 0.02
16 7 0.04
17 6 0.04
18 4 0.02
19 97 0.57
20 12 0.07
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:129713 original size:52 final size:52
Alignment explanation
Indices: 129627--129814 Score: 256
Period size: 52 Copynumber: 3.6 Consensus size: 52
129617 AAATCCCAAC
*
129627 ATGAAAATCGCAATGCGGAAATGAAAATTGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
129680 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* * * *
129732 ATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGA-AAT-GAAAAT-CGCA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-CAATGCGAA
* *
129782 ACGAGAGAATCGCAATGCGAAATTAAAATCGCA
1 ATGA-A-AATCGCAATGCGAAATGAAAATCGCA
129815 TTGCGATTCT
Statistics
Matches: 125, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
50 7 0.06
51 7 0.06
52 95 0.76
53 16 0.13
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:129755 original size:71 final size:71
Alignment explanation
Indices: 129666--129820 Score: 292
Period size: 71 Copynumber: 2.2 Consensus size: 71
129656 GCAACGAGAG
129666 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
129731 AATGAA
66 AATGAA
129737 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
*
129802 AATTAA
66 AATGAA
*
129808 AATCGCATTGCGA
1 AATCGCAATGCGA
129821 TTCTCTCGTT
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.15
Consensus pattern (71 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGA
AATGAA
Found at i:129798 original size:33 final size:33
Alignment explanation
Indices: 129685--129814 Score: 197
Period size: 33 Copynumber: 3.8 Consensus size: 33
129675 GCGAAATGAA
129685 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
129718 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAG
129756 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
129789 AATCGCAATGCGAAATTAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
129815 TTGCGATTCT
Statistics
Matches: 89, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
33 54 0.61
34 1 0.01
35 2 0.02
36 2 0.02
37 1 0.01
38 29 0.33
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:129911 original size:33 final size:33
Alignment explanation
Indices: 129810--129928 Score: 166
Period size: 33 Copynumber: 3.4 Consensus size: 33
129800 GAAATTAAAA
129810 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
129843 TCCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 T-CGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATT
129883 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
129916 TCGCATTGCGATT
1 TCGCATTGCGATT
129929 TTCATTTCGC
Statistics
Matches: 77, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
33 28 0.36
34 10 0.13
35 2 0.03
36 5 0.06
37 5 0.06
38 2 0.03
39 10 0.13
40 15 0.19
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:129916 original size:73 final size:71
Alignment explanation
Indices: 129810--129946 Score: 256
Period size: 73 Copynumber: 1.9 Consensus size: 71
129800 GAAATTAAAA
129810 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCCGCATTGCGA
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTT-CGCATTGCGA
129875 TTTTCATT
64 TTTTCATT
129883 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGAT
129947 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 11 0.17
72 19 0.30
73 34 0.53
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.45
Consensus pattern (71 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATT
TTCATT
Found at i:129954 original size:19 final size:19
Alignment explanation
Indices: 129829--129946 Score: 174
Period size: 19 Copynumber: 6.4 Consensus size: 19
129819 GATTCTCTCG
129829 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
129849 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
129869 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
129888 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
129902 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
129921 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
129940 TTGCGAT
1 TTGCGAT
129947 AGTCATTTTT
Statistics
Matches: 91, Mismatches: 2, Indels: 11
0.88 0.02 0.11
Matches are distributed among these distances:
14 6 0.07
16 7 0.08
17 7 0.08
19 36 0.40
20 35 0.38
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:130072 original size:14 final size:14
Alignment explanation
Indices: 130053--130089 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
130043 CATCAATTAC
130053 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
130067 ACAAATCATCTTTT
1 ACAAATCAACTTTT
130081 ACAAATCAA
1 ACAAATCAA
130090 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:132052 original size:19 final size:19
Alignment explanation
Indices: 132010--132163 Score: 148
Period size: 19 Copynumber: 8.6 Consensus size: 19
132000 TAGTTTACTT
* *
132010 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
132030 TCGCAACGCGAAATGATAA
1 TCGCAACGCGAAATGAAAA
* **
132049 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
132068 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
132087 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
132101 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
132120 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
132134 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
132153 TCGCAATGCGA
1 TCGCAACGCGA
132164 TTTTGGTTTC
Statistics
Matches: 111, Mismatches: 13, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
14 16 0.14
16 11 0.10
17 11 0.10
19 61 0.55
20 12 0.11
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:132104 original size:14 final size:14
Alignment explanation
Indices: 132085--132141 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
132075 GCGAAATGAA
*
132085 AATCGCAACGACAG
1 AATCGCAACGAAAG
132099 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
132116 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
132132 AATCGCAACG
1 AATCGCAACG
132142 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:132112 original size:33 final size:33
Alignment explanation
Indices: 132028--132158 Score: 181
Period size: 33 Copynumber: 3.8 Consensus size: 33
132018 CGAAACTTAA
* *
132028 AATCGCAACGCGAAATGATAATCGCAACGAGAAACCAA
1 AATCGCAACGCGAAATGAAAATCGCAAC--G--A-CAG
132066 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
* *
132099 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGACAG
132132 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
132159 TGCGATTTTG
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
33 59 0.67
34 1 0.01
36 1 0.01
38 27 0.31
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGACAG
Found at i:132181 original size:19 final size:19
Alignment explanation
Indices: 132159--132287 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
132149 AAAATCGCAA
132159 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
132178 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
132192 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
132211 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
132225 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
132244 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
132263 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
132283 TGCGA
1 TGCGA
132288 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:132201 original size:33 final size:33
Alignment explanation
Indices: 132159--132250 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
132149 AAAATCGCAA
132159 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
132192 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
132225 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
132251 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:132451 original size:93 final size:93
Alignment explanation
Indices: 132335--132896 Score: 1108
Period size: 93 Copynumber: 6.1 Consensus size: 93
132325 ATGGATTGCA
132335 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
132399 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
132427 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
132492 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
132520 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
132585 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
132613 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
132678 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
132706 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
132771 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
132799 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
132864 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
132892 TTACT
1 TTACT
132897 AAGCAATCTA
Statistics
Matches: 468, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
92 4 0.01
93 464 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Done.