Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 117 of 147
Found at i:21058674 original size:3 final size:3
Alignment explanation
Indices: 21058668--21058837 Score: 62
Period size: 3 Copynumber: 60.0 Consensus size: 3
21058658 AATATTATAG
* * * *
21058668 TAT TAT TAT TAT TAG TAT TAT TA- TAT AAT ATAG TA- CAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * *
21058711 TGAG TAT TAT TA- TAG TAT GTAT TA- TAT TA- TAC CA- TAG TAT -AT
1 T-AT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * ** * *
21058753 T-T TAT TAT TAG TAT TAT TAT TA- TAC CCT TAT TA- TAT TTT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
21058798 TA- TATT TAT TAT TAT TA- TAC T-T TAT TAT TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21058838 AATATTTCTT
Statistics
Matches: 125, Mismatches: 24, Indels: 36
0.68 0.13 0.19
Matches are distributed among these distances:
2 25 0.20
3 92 0.74
4 8 0.06
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:21058740 original size:20 final size:20
Alignment explanation
Indices: 21058622--21058740 Score: 65
Period size: 20 Copynumber: 6.0 Consensus size: 20
21058612 ATTAATATAG
*
21058622 TATAGTGTGTTATTATA-TAT
1 TATAGTATG-TATTATATTAT
* * *
21058642 TATAGTGTGTTATAATAATAT
1 TATAGTATG-TATTATATTAT
21058663 TATAGTAT-TA-T-TATTA-
1 TATAGTATGTATTATATTAT
*
21058679 T-TAGTAT-TATTATA-TAA
1 TATAGTATGTATTATATTAT
*
21058696 TATAGTACATTATATTGAGTATTAT
1 TATAGT--A-TGTATT-A-TATTAT
21058721 TATAGTATGTATTATATTAT
1 TATAGTATGTATTATATTAT
21058741 ACCATAGTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 24
0.73 0.05 0.22
Matches are distributed among these distances:
15 8 0.10
16 4 0.05
17 7 0.09
18 4 0.05
19 2 0.02
20 23 0.28
21 12 0.15
22 9 0.11
23 2 0.02
24 2 0.02
25 8 0.10
ACGTcount: A:0.36, C:0.01, G:0.11, T:0.52
Consensus pattern (20 bp):
TATAGTATGTATTATATTAT
Found at i:21058740 original size:32 final size:31
Alignment explanation
Indices: 21058637--21058741 Score: 88
Period size: 32 Copynumber: 3.3 Consensus size: 31
21058627 TGTGTTATTA
* * * *
21058637 TATATTATAGT-GTGTTATAATAATATTATAG
1 TATATTATATTAGTATTATTAT-ATAATATAG
21058668 TATTATTATTATTAGTATTATTATATAATATAG
1 TAT-ATTA-TATTAGTATTATTATATAATATAG
* * *
21058701 TACATTATATTGAGTATTATTATAGT-ATGTAT
1 TATATTATATT-AGTATTATTATA-TAATATAG
21058733 TATATTATA
1 TATATTATA
21058742 CCATAGTATA
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
31 7 0.11
32 32 0.52
33 14 0.23
34 8 0.13
ACGTcount: A:0.38, C:0.01, G:0.10, T:0.51
Consensus pattern (31 bp):
TATATTATATTAGTATTATTATATAATATAG
Found at i:21058769 original size:34 final size:36
Alignment explanation
Indices: 21058729--21058809 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 36
21058719 ATTATAGTAT
*
21058729 GTATTATATTATA-CCATAGTATA-TTTTATTATTA
1 GTATTATATTATACCCATAGTATATTTTTATTACTA
* *
21058763 GTATTATTATTATACCCTTATTATATTTTTATTACTA
1 GTATTA-TATTATACCCATAGTATATTTTTATTACTA
21058800 -TATT-TATTAT
1 GTATTATATTAT
21058810 TATTATACTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 12 0.29
35 7 0.17
36 12 0.29
37 10 0.24
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (36 bp):
GTATTATATTATACCCATAGTATATTTTTATTACTA
Found at i:21058771 original size:37 final size:37
Alignment explanation
Indices: 21058717--21058817 Score: 102
Period size: 37 Copynumber: 2.7 Consensus size: 37
21058707 ATATTGAGTA
21058717 TTATTATAGTATGTATTATATTATACCATAGTATA-TT
1 TTATTATAGTAT-TATTATATTATACCATAGTATATTT
* *
21058754 TTATTATTAGTATTA-T-TATTATACCCTTATTATATTT
1 TTATTA-TAGTATTATTATATTATA-CCATAGTATATTT
21058791 TTATTACTA-TATTTATTATTATTATAC
1 TTATTA-TAGTA-TTATTA-TATTATAC
21058818 TTTATTATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
35 7 0.13
36 11 0.20
37 21 0.39
38 7 0.13
39 1 0.02
40 7 0.13
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (37 bp):
TTATTATAGTATTATTATATTATACCATAGTATATTT
Found at i:21058808 original size:40 final size:38
Alignment explanation
Indices: 21058717--21058838 Score: 135
Period size: 40 Copynumber: 3.2 Consensus size: 38
21058707 ATATTGAGTA
* *
21058717 TTATTATAGTATGTATTA-TATTATACCATAGTATA-TT
1 TTATTATA-TATGTATTATTATTATACCTTATTATATTT
21058754 TTATTAT-TA-GTATTATTATTATACCCTTATTATATTT
1 TTATTATATATGTATTATTATTATA-CCTTATTATATTT
* * *
21058791 TTATTACTATATTTATTATTATTATACTTTATTATTATTA
1 TTATTA-TATATGTATTATTATTATACCTTATTA-TATTT
21058831 TTATTATA
1 TTATTATA
21058839 ATATTTCTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
34 6 0.08
35 9 0.12
36 8 0.11
37 15 0.21
38 1 0.01
39 11 0.15
40 23 0.32
ACGTcount: A:0.33, C:0.06, G:0.03, T:0.58
Consensus pattern (38 bp):
TTATTATATATGTATTATTATTATACCTTATTATATTT
Found at i:21058828 original size:16 final size:15
Alignment explanation
Indices: 21058780--21058831 Score: 79
Period size: 16 Copynumber: 3.5 Consensus size: 15
21058770 TATTATACCC
21058780 TTATTATATTT-TTA
1 TTATTATATTTATTA
*
21058794 TTACTATATTTATTA
1 TTATTATATTTATTA
21058809 TTATTATACTTTATTA
1 TTATTATA-TTTATTA
21058825 TTATTAT
1 TTATTAT
21058832 TATTATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.29
15 10 0.29
16 14 0.41
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTATATTTATTA
Found at i:21071002 original size:35 final size:35
Alignment explanation
Indices: 21070956--21071027 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
21070946 AAAGTTCACC
21070956 TGTCGAGGTATTATAATGCAAATCGACATGAGGTA
1 TGTCGAGGTATTATAATGCAAATCGACATGAGGTA
21070991 TGTCGAGGTATTATAATGCAAATCGACATGAGGTA
1 TGTCGAGGTATTATAATGCAAATCGACATGAGGTA
21071026 TG
1 TG
21071028 GATGGTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.11, G:0.26, T:0.29
Consensus pattern (35 bp):
TGTCGAGGTATTATAATGCAAATCGACATGAGGTA
Found at i:21071778 original size:20 final size:20
Alignment explanation
Indices: 21071750--21071788 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21071740 TAAATAATTG
* *
21071750 TTTATAATTTAATACTATTA
1 TTTAAAATTTAAAACTATTA
21071770 TTTAAAATTTAAAACTATT
1 TTTAAAATTTAAAACTATT
21071789 TGATTGTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTAAAATTTAAAACTATTA
Found at i:21072262 original size:19 final size:18
Alignment explanation
Indices: 21072208--21072263 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
21072198 TATTAATTTG
* *
21072208 TTAATTAAAATTTTTATT
1 TTAATTATAATTTATATT
* *
21072226 TTTATTATGATTTGATATT
1 TTAATTATAATTT-ATATT
21072245 TTAATTATAATATTATATT
1 TTAATTATAAT-TTATATT
21072264 ATATATATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 10 0.33
19 18 0.60
20 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (18 bp):
TTAATTATAATTTATATT
Found at i:21075957 original size:127 final size:126
Alignment explanation
Indices: 21075808--21076147 Score: 319
Period size: 127 Copynumber: 2.7 Consensus size: 126
21075798 GTGTTTTCTG
* * *
21075808 GGCAAAAAAACCTTCAATAATCCATTTAAAAAATTTTGGA-GATAGAA-TATTAAAAG-CCTTTT
1 GGCAAAAAAACCTTAAATAATCCACTCAAAAAATTTT-GATGA-AGAATTATTAAAAGTCCTTTT
* * * **
21075870 CGGTAAGAAAA-TGCCTTTAATAATCTATAAAAAAAAATTGGAACGGATTCTTGAAGGTTTTTTT
64 -GGTAA-AAAAGCGCCTTCAATAATCTATAAAAAAAAATTGGAACGAATTCTTGAAGGCATTTTT
* * * * * **
21075934 GGCAAAAAGAACCTTAAATAATCCACTCAATAAATTTTTATGAGGAATTATTGAATGTGGTTTTG
1 GGCAAAAA-AACCTTAAATAATCCACTCAAAAAATTTTGATGAAGAATTATTAAAAGTCCTTTTG
* *
21075999 GTAAAAAAGCGCCTTCAATAATCTATACAAAAAATTTGGAACGAATTCTTGAAGGCATTTTT
65 GTAAAAAAGCGCCTTCAATAATCTATAAAAAAAAATTGGAACGAATTCTTGAAGGCATTTTT
* * * * * * * * * * **
21076061 GGTCCAAAATACCTTCAATAATCTACTCAATAAATTTTTATGAGGGATTATTGAAGGTGGTTTTG
1 GG-CAAAAAAACCTTAAATAATCCACTCAAAAAATTTTGATGAAGAATTATTAAAAGTCCTTTTG
**
21076126 GTAAAAAAATGCCTTCAATAAT
65 GTAAAAAAGCGCCTTCAATAAT
21076148 ATTTTGTTAA
Statistics
Matches: 183, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
126 16 0.09
127 158 0.86
128 9 0.05
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (126 bp):
GGCAAAAAAACCTTAAATAATCCACTCAAAAAATTTTGATGAAGAATTATTAAAAGTCCTTTTGG
TAAAAAAGCGCCTTCAATAATCTATAAAAAAAAATTGGAACGAATTCTTGAAGGCATTTTT
Found at i:21076034 original size:65 final size:64
Alignment explanation
Indices: 21075945--21076147 Score: 205
Period size: 65 Copynumber: 3.2 Consensus size: 64
21075935 GCAAAAAGAA
* * * * *
21075945 CCTTAAATAATCCACTCAATAAATTTTTATGAGGAATTATTGAATGTGGTTTTGGTAAAAAAGCG
1 CCTTCAATAATCTACTCAAAAAATTTTTATGAGGAATTATTGAAGGTGGTTTTGGTAAAAAA-TG
** * * *** ** *
21076010 CCTTCAATAATCTA-TACAAAAAATTTGGA--ACGAATTCTTGAAGGCATTTTTGGTCCAAAATA
1 CCTTCAATAATCTACT-CAAAAAATTTTTATGAGGAATTATTGAAGGTGGTTTTGGTAAAAAATG
* *
21076072 CCTTCAATAATCTACTCAATAAATTTTTATGAGGGATTATTGAAGGTGGTTTTGGTAAAAAAATG
1 CCTTCAATAATCTACTCAAAAAATTTTTATGAGGAATTATTGAAGGTGGTTTTGGT-AAAAAATG
21076137 CCTTCAATAAT
1 CCTTCAATAAT
21076148 ATTTTGTTAA
Statistics
Matches: 106, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
62 24 0.23
63 24 0.23
64 20 0.19
65 38 0.36
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (64 bp):
CCTTCAATAATCTACTCAAAAAATTTTTATGAGGAATTATTGAAGGTGGTTTTGGTAAAAAATG
Found at i:21079489 original size:12 final size:12
Alignment explanation
Indices: 21079422--21079524 Score: 75
Period size: 12 Copynumber: 8.1 Consensus size: 12
21079412 GTTCAAAAAC
21079422 ACCATTCAAG-AA
1 ACCATTC-AGCAA
*
21079434 ACCATTCAGAAA
1 ACCATTCAGCAA
21079446 TACCATTCAAG-AA
1 -ACCATTC-AGCAA
* *
21079459 ACCATTTAGAAA
1 ACCATTCAGCAA
21079471 CACCATTCAGCAA
1 -ACCATTCAGCAA
*
21079484 ACCATTTAGCAA
1 ACCATTCAGCAA
*
21079496 ACCAATATCATACAA
1 ACC-AT-TCA-GCAA
21079511 TACCATTCAGCAA
1 -ACCATTCAGCAA
21079524 A
1 A
21079525 ACAATATCAT
Statistics
Matches: 75, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
11 4 0.05
12 32 0.43
13 24 0.32
14 7 0.09
15 5 0.07
16 3 0.04
ACGTcount: A:0.47, C:0.26, G:0.07, T:0.20
Consensus pattern (12 bp):
ACCATTCAGCAA
Found at i:21079490 original size:25 final size:25
Alignment explanation
Indices: 21079418--21079497 Score: 117
Period size: 25 Copynumber: 3.2 Consensus size: 25
21079408 ATGTGTTCAA
*
21079418 AAACACCATTCAAGAAACCATTCAG
1 AAACACCATTCAAGAAACCATTTAG
*
21079443 AAATACCATTCAAGAAACCATTTAG
1 AAACACCATTCAAGAAACCATTTAG
21079468 AAACACCATTC-AGCAAACCATTTAG
1 AAACACCATTCAAG-AAACCATTTAG
21079493 CAAAC
1 -AAAC
21079498 CAATATCATA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
24 2 0.04
25 44 0.88
26 4 0.08
ACGTcount: A:0.47, C:0.26, G:0.07, T:0.19
Consensus pattern (25 bp):
AAACACCATTCAAGAAACCATTTAG
Found at i:21079517 original size:28 final size:28
Alignment explanation
Indices: 21079484--21079555 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
21079474 CATTCAGCAA
21079484 ACCATTTAGCAAACCAATATCATACAAT
1 ACCATTTAGCAAACCAATATCATACAAT
* * *
21079512 ACCATTCAGCAAAACAATATCATATAAT
1 ACCATTTAGCAAACCAATATCATACAAT
*
21079540 ACCATTTAACAAACCA
1 ACCATTTAGCAAACCA
21079556 CAATATTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.49, C:0.25, G:0.03, T:0.24
Consensus pattern (28 bp):
ACCATTTAGCAAACCAATATCATACAAT
Found at i:21087105 original size:161 final size:159
Alignment explanation
Indices: 21086895--21087319 Score: 418
Period size: 161 Copynumber: 2.6 Consensus size: 159
21086885 AAATGAATGA
* * *
21086895 ACTTTTTGTGCCGTTAAAGGGTAAAAATGC-AAATTAATAGTTATTGTTCTATTTTAATAGTTTT
1 ACTTTTT-TGCCATTAAA-GGTAAAAATACAAAATTAATAGTTATTGTTCTATTTTAACAG-TTT
21086959 G-ATA-ATTTCAATACATAATATTAAACTTATCCAAAGT-ATTGAACTTAGTTTCCTCA-GTTGA
63 GAATAGATTT-AATACATAATATTAAACTTATCCAAA-TAATTGAACTTAGTTT-CT-AGGTTGA
*
21087020 TATGTATGAAAAAGTTATTGTTTACATCAATTTAGG
124 TATGTATGAAAAAGTTATCGTTTACATCAATTTAGG
* * *
21087056 ACTTTTTATGCCATTAATAGGTAAAAATACAAAATT-GTTGTTCTTGTTCTATTTTAACAGTTTG
1 ACTTTTT-TGCCATTAA-AGGTAAAAATACAAAATTAATAGTTATTGTTCTATTTTAACAGTTTG
* * *
21087120 AATAGCTTTAATACATGATATTAAACTTATCCAAATAATTGAACTTGGTTTCTATGGTTGATATG
64 AATAGATTTAATACATAATATTAAACTTATCCAAATAATTGAACTTAGTTTCTA-GGTTGATATG
* * *
21087185 TGTGAAAAAGTTATCGTTTACATCTATTTGGG
128 TATGAAAAAGTTATCGTTTACATCAATTTAGG
* * * * * ***
21087217 ACTATATTTGCCTTTTAAAGGCAAAAATAC-AAATTAA-ACTT-TTGGATGGCTTTTAACAGTTT
1 ACT-TTTTTGCC-ATTAAAGGTAAAAATACAAAATTAATAGTTATT-GTTCTATTTTAACAGTTT
* * * * * * *
21087279 GGATGGCTTCAATCCATGATATTAAACTTGTCCAAATAATT
63 GAATAGATTTAATACATAATATTAAACTTATCCAAATAATT
21087320 AAATTTGGTT
Statistics
Matches: 224, Mismatches: 29, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
159 3 0.01
160 64 0.29
161 141 0.63
162 16 0.07
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (159 bp):
ACTTTTTTGCCATTAAAGGTAAAAATACAAAATTAATAGTTATTGTTCTATTTTAACAGTTTGAA
TAGATTTAATACATAATATTAAACTTATCCAAATAATTGAACTTAGTTTCTAGGTTGATATGTAT
GAAAAAGTTATCGTTTACATCAATTTAGG
Found at i:21090321 original size:22 final size:21
Alignment explanation
Indices: 21090295--21090341 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
21090285 GAATTGCAAG
**
21090295 TTTTTCTTTTTTCATTTTTATT
1 TTTTTCTAATTTCA-TTTTATT
21090317 TTTTTCTAATTTCATTTTATT
1 TTTTTCTAATTTCATTTTATT
21090338 TTTT
1 TTTT
21090342 AATTATTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTCTAATTTCATTTTATT
Found at i:21090349 original size:21 final size:19
Alignment explanation
Indices: 21090296--21090414 Score: 102
Period size: 20 Copynumber: 6.2 Consensus size: 19
21090286 AATTGCAAGT
* *
21090296 TTTTCTTTTTTCATTTTTA
1 TTTTATTTTTTAATTTTTA
* *
21090315 -TTT-TTTTCTAA-TTTCA
1 TTTTATTTTTTAATTTTTA
21090331 TTTTATTTTTTAATTATTTA
1 TTTTATTTTTTAATT-TTTA
*
21090351 TTTTATTATCTTAAGTTTTTA
1 TTTTATT-TTTTAA-TTTTTA
21090372 TTTTA-TTTTTAATTTTTTA
1 TTTTATTTTTTAA-TTTTTA
* *
21090391 TTTAATTTTATTGATTTTTA
1 TTTTATTTT-TTAATTTTTA
21090411 TTTT
1 TTTT
21090415 TAAAAAATCT
Statistics
Matches: 81, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
16 4 0.05
17 9 0.11
18 10 0.12
19 16 0.20
20 23 0.28
21 17 0.21
22 2 0.02
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTATTTTTTAATTTTTA
Found at i:21090386 original size:12 final size:12
Alignment explanation
Indices: 21090366--21090402 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
21090356 TTATCTTAAG
21090366 TTTTT-ATTTTA
1 TTTTTAATTTTA
21090377 TTTTTAATTTT-
1 TTTTTAATTTTA
21090388 TTATTTAATTTTA
1 TT-TTTAATTTTA
21090401 TT
1 TT
21090403 GATTTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.30
12 14 0.61
13 2 0.09
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTAATTTTA
Found at i:21090606 original size:15 final size:14
Alignment explanation
Indices: 21090586--21090636 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
21090576 AAATCAATTT
21090586 TAAAAAAGATAATAA
1 TAAAAAA-ATAATAA
21090601 TAAAAATAATAATAAA
1 TAAAAA-AATAAT-AA
21090617 TAAATAAAA-AATAA
1 TAAA-AAAATAATAA
21090631 -AAAAAA
1 TAAAAAA
21090637 CATTTTATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.09
13 3 0.09
14 2 0.06
15 14 0.42
16 9 0.27
17 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (14 bp):
TAAAAAAATAATAA
Found at i:21095216 original size:13 final size:14
Alignment explanation
Indices: 21095180--21095246 Score: 70
Period size: 13 Copynumber: 5.1 Consensus size: 14
21095170 CATTTGAGCC
21095180 TATTAAAAATTCTT
1 TATTAAAAATTCTT
* *
21095194 T-TGAAGAATT-TT
1 TATTAAAAATTCTT
21095206 TATTAAAAATTCTT
1 TATTAAAAATTCTT
* *
21095220 T-TGAAGAATT-TT
1 TATTAAAAATTCTT
21095232 TATTAAAAATTCTT
1 TATTAAAAATTCTT
21095246 T
1 T
21095247 TGAAGAACCC
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
12 6 0.15
13 28 0.68
14 7 0.17
ACGTcount: A:0.39, C:0.04, G:0.06, T:0.51
Consensus pattern (14 bp):
TATTAAAAATTCTT
Found at i:21095216 original size:26 final size:26
Alignment explanation
Indices: 21095180--21095253 Score: 148
Period size: 26 Copynumber: 2.8 Consensus size: 26
21095170 CATTTGAGCC
21095180 TATTAAAAATTCTTTTGAAGAATTTT
1 TATTAAAAATTCTTTTGAAGAATTTT
21095206 TATTAAAAATTCTTTTGAAGAATTTT
1 TATTAAAAATTCTTTTGAAGAATTTT
21095232 TATTAAAAATTCTTTTGAAGAA
1 TATTAAAAATTCTTTTGAAGAA
21095254 CCCTAACCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (26 bp):
TATTAAAAATTCTTTTGAAGAATTTT
Found at i:21095924 original size:38 final size:32
Alignment explanation
Indices: 21095848--21095913 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
21095838 TTAAAAGATG
21095848 ATTTTGAGTTTGAATACAAAATTTTCTAAACA
1 ATTTTGAGTTTGAATACAAAATTTTCTAAACA
21095880 ATTTTGAGTTTGAATACAAAATTTTCTAAACA
1 ATTTTGAGTTTGAATACAAAATTTTCTAAACA
21095912 AT
1 AT
21095914 CATTATTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (32 bp):
ATTTTGAGTTTGAATACAAAATTTTCTAAACA
Found at i:21097964 original size:18 final size:18
Alignment explanation
Indices: 21097941--21098040 Score: 76
Period size: 19 Copynumber: 5.2 Consensus size: 18
21097931 AGGTTTTTCT
*
21097941 TTTTTCATTTTTATTTTA
1 TTTTTAATTTTTATTTTA
* *
21097959 TTTTTCGA-TTTCATTTTA
1 TTTTT-AATTTTTATTTTA
*
21097977 TTTTTTAATTATTTATTTAA
1 -TTTTTAATT-TTTATTTTA
21097997 TTATCTTAAGTTTTTATTTTA
1 TT-T-TTAA-TTTTTATTTTA
* *
21098018 TTTTTAGTTTTTTATTTAA
1 TTTTTA-ATTTTTATTTTA
21098037 TTTT
1 TTTT
21098041 ACTGGTTTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
18 15 0.23
19 26 0.39
20 9 0.14
21 14 0.21
22 2 0.03
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTAATTTTTATTTTA
Found at i:21098273 original size:17 final size:16
Alignment explanation
Indices: 21098251--21098301 Score: 66
Period size: 17 Copynumber: 3.1 Consensus size: 16
21098241 CAATTTTTTT
21098251 AAAATAATAATAATAAA
1 AAAATAATAATAA-AAA
21098268 AAAATAATAATAAAAA
1 AAAATAATAATAAAAA
**
21098284 GTAATAATAAATAAAAA
1 AAAATAAT-AATAAAAA
21098301 A
1 A
21098302 CAAAATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 9 0.30
17 21 0.70
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (16 bp):
AAAATAATAATAAAAA
Found at i:21098275 original size:11 final size:11
Alignment explanation
Indices: 21098259--21098312 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
21098249 TTAAAATAAT
21098259 AATAATAAAAA
1 AATAATAAAAA
21098270 AATAATAATAAA
1 AATAATAA-AAA
*
21098282 AAGTAAT-AATA
1 AA-TAATAAAAA
*
21098293 AATAA-AAAAC
1 AATAATAAAAA
21098303 AA-AATAAAAA
1 AATAATAAAAA
21098313 TATTTTATCC
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
9 2 0.06
10 11 0.31
11 12 0.34
12 6 0.17
13 4 0.11
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (11 bp):
AATAATAAAAA
Found at i:21098288 original size:13 final size:13
Alignment explanation
Indices: 21098250--21098294 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
21098240 TCAATTTTTT
21098250 TAAAATAATAATAA
1 TAAAA-AATAATAA
21098264 TAAAAAAATAATAA
1 T-AAAAAATAATAA
*
21098278 TAAAAAGTAATAA
1 TAAAAAATAATAA
21098291 TAAA
1 TAAA
21098295 TAAAAAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 15 0.52
14 10 0.34
15 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (13 bp):
TAAAAAATAATAA
Found at i:21101391 original size:2 final size:2
Alignment explanation
Indices: 21101384--21101409 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21101374 AGGATTGGGG
21101384 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21101410 GTCTTGCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21103246 original size:110 final size:109
Alignment explanation
Indices: 21103053--21103257 Score: 286
Period size: 110 Copynumber: 1.9 Consensus size: 109
21103043 CTTAAAGTCA
* * * *
21103053 TTAGATTTTTTATATGAATTTATATTTGATATACTATTAATATAATATTTTAATTCTACAAGTAA
1 TTAGATTTTTTATATGAATTTACATTTAATACACTATTAATATAATATTTTAACTCTACAAG-AA
**
21103118 GATTAAGATATTATCATATATTTTATTTTTAATATATTTTAATGG
65 GATTAAGATATTATCATATACCTTATTTTTAATATATTTTAATGG
** * *
21103163 TTAGATTTTTTATATGGGTTTACATTTAATACACTATTAATATACTATTTTAACTCTATAA-ACA
1 TTAGATTTTTTATATGAATTTACATTTAATACACTATTAATATAATATTTTAACTCTACAAGA-A
21103227 GAATTAAGATATTATCATATACCTTATTTTT
65 G-ATTAAGATATTATCATATACCTTATTTTT
21103258 TATTTTTAAT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
108 1 0.01
109 2 0.02
110 80 0.96
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (109 bp):
TTAGATTTTTTATATGAATTTACATTTAATACACTATTAATATAATATTTTAACTCTACAAGAAG
ATTAAGATATTATCATATACCTTATTTTTAATATATTTTAATGG
Found at i:21104625 original size:13 final size:13
Alignment explanation
Indices: 21104607--21104644 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
21104597 TATATTATTT
21104607 TATTAAATTAATA
1 TATTAAATTAATA
* *
21104620 TCTTAAATTAAAA
1 TATTAAATTAATA
21104633 TATTAAA-TAATA
1 TATTAAATTAATA
21104645 ATTTTATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 4 0.19
13 17 0.81
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (13 bp):
TATTAAATTAATA
Found at i:21105604 original size:34 final size:34
Alignment explanation
Indices: 21105531--21105623 Score: 93
Period size: 34 Copynumber: 2.7 Consensus size: 34
21105521 ATGAATTTAA
* * *
21105531 GAAAAGTCATAAACTTTTTCAAAAACAGATTTCT
1 GAAAAATCATAAACTTTTTCAAAAAAAAATTTCT
*
21105565 AAAAAATCATATAACTTTTT-AGAAAAAAAATTT-T
1 GAAAAATCATA-AACTTTTTCA-AAAAAAAATTTCT
*
21105599 GAAAAATTATAAA-TCTTTTCAAAAA
1 GAAAAATCATAAACT-TTTTCAAAAA
21105624 TGAATTTTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
32 1 0.02
33 10 0.20
34 21 0.43
35 17 0.35
ACGTcount: A:0.52, C:0.10, G:0.05, T:0.33
Consensus pattern (34 bp):
GAAAAATCATAAACTTTTTCAAAAAAAAATTTCT
Found at i:21105702 original size:17 final size:18
Alignment explanation
Indices: 21105677--21105710 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21105667 TCGAAAATTC
21105677 AATTAC-AAAAAATTATA
1 AATTACAAAAAAATTATA
*
21105694 AATTTCAAAAAAATTAT
1 AATTACAAAAAAATTAT
21105711 GAAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTACAAAAAAATTATA
Found at i:21108447 original size:2 final size:2
Alignment explanation
Indices: 21108440--21108476 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
21108430 ACACTTTTGA
*
21108440 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21108477 CATGGACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:21112383 original size:16 final size:16
Alignment explanation
Indices: 21112350--21112401 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
21112340 GGATCTTATA
*
21112350 GTTTT-AAAATTTAAG
1 GTTTTGAAAATTTAGG
*
21112365 GTTTTGAAATTTTAGG
1 GTTTTGAAAATTTAGG
***
21112381 GTTTTGAGGGTTTAGG
1 GTTTTGAAAATTTAGG
21112397 GTTTT
1 GTTTT
21112402 AGGGTTTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
15 5 0.16
16 26 0.84
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (16 bp):
GTTTTGAAAATTTAGG
Found at i:21112399 original size:7 final size:8
Alignment explanation
Indices: 21112374--21112439 Score: 57
Period size: 8 Copynumber: 8.5 Consensus size: 8
21112364 GGTTTTGAAA
21112374 TTTTAGGG
1 TTTTAGGG
21112382 TTTTGAGGG
1 TTTT-AGGG
21112391 -TTTAGGG
1 TTTTAGGG
21112398 TTTTAGGG
1 TTTTAGGG
* *
21112406 TTTCA-AG
1 TTTTAGGG
21112413 TTTTA-GG
1 TTTTAGGG
* *
21112420 ATTTAGGA
1 TTTTAGGG
*
21112428 TTTTAGAG
1 TTTTAGGG
21112436 TTTT
1 TTTT
21112440 GAAGTTTAGG
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
7 14 0.30
8 28 0.61
9 4 0.09
ACGTcount: A:0.18, C:0.02, G:0.30, T:0.50
Consensus pattern (8 bp):
TTTTAGGG
Found at i:21112407 original size:15 final size:15
Alignment explanation
Indices: 21112375--21112438 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
21112365 GTTTTGAAAT
21112375 TTTAGGGTTTTGAGGG
1 TTTAGGGTTTT-AGGG
21112391 TTTAGGGTTTTAGGG
1 TTTAGGGTTTTAGGG
* *
21112406 TTTCA-AGTTTTAGGA
1 TTT-AGGGTTTTAGGG
* *
21112421 TTTAGGATTTTAGAG
1 TTTAGGGTTTTAGGG
21112436 TTT
1 TTT
21112439 TGAAGTTTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
14 1 0.03
15 27 0.68
16 12 0.30
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (15 bp):
TTTAGGGTTTTAGGG
Found at i:21112484 original size:45 final size:45
Alignment explanation
Indices: 21112399--21112485 Score: 113
Period size: 45 Copynumber: 1.9 Consensus size: 45
21112389 GGTTTAGGGT
* **
21112399 TTTAGGGTTTCAAGTTTTAGGATTTAGGATTTTAGAGTTTTGAAG
1 TTTAGGGTTTCAAGTTTTAGGATTTAGAAACTTAGAGTTTTGAAG
* *
21112444 TTTAGGGTTTCAATTTTTAAGG-TTTAGAAACTTAGGGTTTTG
1 TTTAGGGTTTCAAGTTTT-AGGATTTAGAAACTTAGAGTTTTG
21112486 GGTTTTGGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
45 33 0.92
46 3 0.08
ACGTcount: A:0.24, C:0.03, G:0.25, T:0.47
Consensus pattern (45 bp):
TTTAGGGTTTCAAGTTTTAGGATTTAGAAACTTAGAGTTTTGAAG
Found at i:21112531 original size:15 final size:16
Alignment explanation
Indices: 21112502--21112531 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21112492 GGAGTTTTGA
21112502 GTTTTGAGTATTTAAG
1 GTTTTGAGTATTTAAG
21112518 GTTTTGAG-ATTTAA
1 GTTTTGAGTATTTAA
21112532 AAATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (16 bp):
GTTTTGAGTATTTAAG
Found at i:21113614 original size:20 final size:20
Alignment explanation
Indices: 21113583--21113644 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
21113573 CAATAGACCT
*
21113583 TTCCTCCTTTTTTTTTTCTTC
1 TTCCT-CTTTTTTCTTTCTTC
*
21113604 TTCCTCTTTTTTCTTTCCTC
1 TTCCTCTTTTTTCTTTCTTC
21113624 TT-CTCTTTCTTTCTTT-TTC
1 TTCCTCTTT-TTTCTTTCTTC
21113643 TT
1 TT
21113645 TATTTTTCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
19 10 0.27
20 22 0.59
21 5 0.14
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTCCTCTTTTTTCTTTCTTC
Found at i:21113632 original size:16 final size:14
Alignment explanation
Indices: 21113594--21113636 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 14
21113584 TCCTCCTTTT
21113594 TTTTTTCTTCTTCCTC
1 TTTTTTC-T-TTCCTC
21113610 TTTTTTCTTTCCTC
1 TTTTTTCTTTCCTC
21113624 TTCTCTTTCTTTC
1 TT-T-TTTCTTTC
21113637 TTTTTCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.32
15 2 0.08
16 15 0.60
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTTCTTTCCTC
Found at i:21113711 original size:14 final size:14
Alignment explanation
Indices: 21113675--21113716 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
21113665 AATTTGACTT
* *
21113675 TTTCTCTTTTTTTA
1 TTTCTCTTTCTTCA
21113689 TTTCTTCTTTCTTCA
1 TTTC-TCTTTCTTCA
21113704 TTTCTCTTTCTTC
1 TTTCTCTTTCTTC
21113717 TATTCCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.05, C:0.24, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTCTCTTTCTTCA
Found at i:21116638 original size:13 final size:13
Alignment explanation
Indices: 21116620--21116645 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21116610 ATTTAGGGTT
21116620 TGGCTTAAATTTA
1 TGGCTTAAATTTA
21116633 TGGCTTAAATTTA
1 TGGCTTAAATTTA
21116646 AGGTCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
TGGCTTAAATTTA
Found at i:21116701 original size:16 final size:15
Alignment explanation
Indices: 21116680--21116745 Score: 64
Period size: 16 Copynumber: 4.3 Consensus size: 15
21116670 TTAGATCTTA
21116680 TTTTAAGATTTCAGGG
1 TTTTAAGATTTCA-GG
* *
21116696 TTTTAAGATTTTAGT
1 TTTTAAGATTTCAGG
*
21116711 TTTTAAGGATGT--GG
1 TTTTAA-GATTTCAGG
21116725 TTTTAAGATTTCAAGG
1 TTTTAAGATTTC-AGG
21116741 TTTTA
1 TTTTA
21116746 GGGTTTATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
13 4 0.10
14 7 0.17
15 7 0.17
16 23 0.56
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.50
Consensus pattern (15 bp):
TTTTAAGATTTCAGG
Found at i:21116760 original size:45 final size:44
Alignment explanation
Indices: 21116680--21116764 Score: 109
Period size: 45 Copynumber: 1.9 Consensus size: 44
21116670 TTAGATCTTA
* *
21116680 TTTTAAGATTTCAGGGTTTTAAGATTTTAGTTTTTAAGGATGTGG
1 TTTTAAGATTTCAAGGTTTTAAGATTTTAGATTTT-AGGATGTGG
**
21116725 TTTTAAGATTTCAAGGTTTT-AGGGTTTATGATTTTAGGAT
1 TTTTAAGATTTCAAGGTTTTAAGATTTTA-GATTTTAGGAT
21116765 TTCGGATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
44 11 0.31
45 24 0.69
ACGTcount: A:0.25, C:0.02, G:0.24, T:0.49
Consensus pattern (44 bp):
TTTTAAGATTTCAAGGTTTTAAGATTTTAGATTTTAGGATGTGG
Found at i:21116796 original size:30 final size:30
Alignment explanation
Indices: 21116756--21116821 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
21116746 GGGTTTATGA
*
21116756 TTTTAGGATTTCGGA-TTTTGAAAACTTAGGG
1 TTTT-GGATTTCAGAGTTTT-AAAACTTAGGG
* *
21116787 TTTTGGATTTTAGAGTTTTAAAATTTAGGG
1 TTTTGGATTTCAGAGTTTTAAAACTTAGGG
21116817 TTTTG
1 TTTTG
21116822 AAATTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.24, C:0.03, G:0.24, T:0.48
Consensus pattern (30 bp):
TTTTGGATTTCAGAGTTTTAAAACTTAGGG
Found at i:21118133 original size:16 final size:16
Alignment explanation
Indices: 21118085--21118134 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 16
21118075 AACTGACCCT
21118085 TTTCTCTCTT-TTTTC
1 TTTCTCTCTTCTTTTC
21118100 TTTCCTTCTCTTTCCTTTTC
1 TTT-C-TCTC-TT-CTTTTC
21118120 TTTCTCTCTTCTTTT
1 TTTCTCTCTTCTTTT
21118135 TTCTCCTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 3 0.10
16 6 0.20
17 6 0.20
18 6 0.20
19 1 0.03
20 8 0.27
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTCTCTCTTCTTTTC
Found at i:21118507 original size:16 final size:15
Alignment explanation
Indices: 21118475--21118513 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
21118465 TTGTTGTTGC
*
21118475 TTTTTTGGTTCTTTT
1 TTTTTTGTTTCTTTT
*
21118490 TTTTTTGTTTTTTGTT
1 TTTTTTGTTTCTT-TT
21118506 TTTTTTGT
1 TTTTTTGT
21118514 GTTTGGATGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.85
Consensus pattern (15 bp):
TTTTTTGTTTCTTTT
Found at i:21119001 original size:27 final size:27
Alignment explanation
Indices: 21118970--21119024 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
21118960 ATGGCTGGGT
21118970 AGATAGGGCAAGTGAGTGGTGCCATGC
1 AGATAGGGCAAGTGAGTGGTGCCATGC
*
21118997 AGATAGGGCAGGTGAGTGGTGCCATGC
1 AGATAGGGCAAGTGAGTGGTGCCATGC
21119024 A
1 A
21119025 TGGCACCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.42, T:0.18
Consensus pattern (27 bp):
AGATAGGGCAAGTGAGTGGTGCCATGC
Found at i:21119091 original size:15 final size:16
Alignment explanation
Indices: 21119071--21119100 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21119061 ATTAATTAAA
21119071 TATTTTA-TTTAATAT
1 TATTTTATTTTAATAT
21119086 TATTTTATTTTAATA
1 TATTTTATTTTAATA
21119101 AAATTAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTATTTTAATAT
Found at i:21122380 original size:52 final size:52
Alignment explanation
Indices: 21122294--21122398 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
21122284 TATAACCATA
*
21122294 CAAACTTGCCCATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTGCCCATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * *
21122346 CAAACTTGCCTATTAAGAAT-CACTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTGCCCATTAAGAATCCA-TCTCCTCTTAGAATTCTTCTCCTGCAAGT
21122398 C
1 C
21122399 TTCTTGTCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 2 0.04
52 45 0.96
ACGTcount: A:0.27, C:0.27, G:0.10, T:0.37
Consensus pattern (52 bp):
CAAACTTGCCCATTAAGAATCCATCTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:21122433 original size:21 final size:22
Alignment explanation
Indices: 21122415--21122461 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21122405 TCCATCAAGC
*
21122415 AATATCTGACAAATCTCAAACA
1 AATATCTAACAAATCTCAAACA
* * *
21122437 AATCTCTAACAAATCCCAAATA
1 AATATCTAACAAATCTCAAACA
21122459 AAT
1 AAT
21122462 CTCTTATGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.23
Consensus pattern (22 bp):
AATATCTAACAAATCTCAAACA
Found at i:21122439 original size:11 final size:11
Alignment explanation
Indices: 21122423--21122464 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
21122413 GCAATATCTG
21122423 ACAAATCTCAA
1 ACAAATCTCAA
*
21122434 ACAAATCTCTA
1 ACAAATCTCAA
*
21122445 ACAAATCCCAA
1 ACAAATCTCAA
*
21122456 ATAAATCTC
1 ACAAATCTC
21122465 TTATGGGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:21122448 original size:22 final size:22
Alignment explanation
Indices: 21122423--21122465 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21122413 GCAATATCTG
*
21122423 ACAAATCTCAAACAAATCTCTA
1 ACAAATCCCAAACAAATCTCTA
*
21122445 ACAAATCCCAAATAAATCTCT
1 ACAAATCCCAAACAAATCTCT
21122466 TATGGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (22 bp):
ACAAATCCCAAACAAATCTCTA
Found at i:21122890 original size:31 final size:31
Alignment explanation
Indices: 21122807--21122890 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 31
21122797 TTCGAATCTT
* * **
21122807 CAGCTCTGATGCCACTTATTGAGAAATGCCA
1 CAGCTCTGATACCACTTATTGGGAAACACCA
* *
21122838 TAGCTCTGATACTACTTATTGGGAAACACCA
1 CAGCTCTGATACCACTTATTGGGAAACACCA
*
21122869 CAGCTCTGATACCATTTATTGG
1 CAGCTCTGATACCACTTATTGG
21122891 ACTAAAAGCC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (31 bp):
CAGCTCTGATACCACTTATTGGGAAACACCA
Found at i:21123532 original size:52 final size:52
Alignment explanation
Indices: 21123387--21123520 Score: 198
Period size: 52 Copynumber: 2.6 Consensus size: 52
21123377 AAACTTGTCC
* * * * *
21123387 ATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGTCAAACTTGCTT
1 ATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGTAAGTCAAACTTACCT
*
21123439 ATTAAGAATCTCTTTCCTTTTAGAATTCTTCTCTTGTAAGTCAAACTTACCT
1 ATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGTAAGTCAAACTTACCT
21123491 ATTAAGAATCTTCTTT-CTCTTAGAATTCTT
1 ATTAAGAATC-TCTTTCCTCTTAGAATTCTT
21123521 TTTTTGCAAG
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
52 69 0.93
53 5 0.07
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.43
Consensus pattern (52 bp):
ATTAAGAATCTCTTTCCTCTTAGAATTCTTCTCTTGTAAGTCAAACTTACCT
Found at i:21123573 original size:11 final size:11
Alignment explanation
Indices: 21123557--21123595 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
21123547 GCAATATCTC
21123557 ACAAATCTCAA
1 ACAAATCTCAA
*
21123568 ACAAATCTAAA
1 ACAAATCTCAA
*
21123579 ACAAATCCCAA
1 ACAAATCTCAA
21123590 ACAAAT
1 ACAAAT
21123596 TTCTTATGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.59, C:0.26, G:0.00, T:0.15
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:21124473 original size:39 final size:39
Alignment explanation
Indices: 21124428--21124509 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
21124418 CATAATCTAA
*
21124428 TATTGCATTAGAATTTAAGAAAGATTAATATCATATTGT
1 TATTGCATTAGAATTTAAGAAAGATTAAAATCATATTGT
21124467 TATTGCATTAGAATTTAAGAAAGATTAAAATCATATTGT
1 TATTGCATTAGAATTTAAGAAAGATTAAAATCATATTGT
21124506 TATT
1 TATT
21124510 CTATATTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (39 bp):
TATTGCATTAGAATTTAAGAAAGATTAAAATCATATTGT
Found at i:21124525 original size:9 final size:9
Alignment explanation
Indices: 21124511--21124550 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
21124501 ATTGTTATTC
21124511 TATATTTAT
1 TATATTTAT
21124520 TATATTTATT
1 TATATTTA-T
21124530 CTAATATTTAT
1 -T-ATATTTAT
21124541 TATATTTAT
1 TATATTTAT
21124550 T
1 T
21124551 TTTTTAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 17 0.61
10 2 0.07
11 2 0.07
12 7 0.25
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
TATATTTAT
Found at i:21124538 original size:21 final size:20
Alignment explanation
Indices: 21124505--21124550 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 20
21124495 AATCATATTG
21124505 TTATTCTATATTTATTATAT
1 TTATTCTATATTTATTATAT
21124525 TTATTCTAATATTTATTATAT
1 TTATTCT-ATATTTATTATAT
21124546 TTATT
1 TTATT
21124551 TTTTTAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTCTATATTTATTATAT
Found at i:21127476 original size:58 final size:58
Alignment explanation
Indices: 21127369--21127837 Score: 509
Period size: 58 Copynumber: 7.9 Consensus size: 58
21127359 TTATACAAGA
* * *
21127369 AAAATTGATACTTTCAACTTTTCTTCAAAAATCCCTTTTTTAAAAATTTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTCCTTCAAAAAT--ATTTTTTAAAATTTTTATTTTCAAAG
* * *
21127429 AAAATTGATACTTTCAACTTTCCCTCAAAAGTGATTTTTTGAAATTTTTA-TTTCAAAG
1 AAAATTGATACTTTCAACTTTCCTTCAAAAAT-ATTTTTTAAAATTTTTATTTTCAAAG
* * *
21127487 GAAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTCAAATTTTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTTATTTTCAAAG
* * * *
21127545 AAATTTGATACTTTTAACTTTTCC-TCAAAACTGTTTTTTTGAAAATTTTTATTTTC-AAG
1 AAAATTGATACTTTCAAC-TTTCCTTCAAAAAT-ATTTTTT-AAAATTTTTATTTTCAAAG
** *
21127604 AGAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTCAAATTTTTATTTTC-AAG
1 A-AAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTTATTTTCAAAG
* * * *
21127662 AAAAATTGATACTTTTAACTTTTCC-TCAAAAATGTTTTTTTGAAAATTTTTACTTTCAATG
1 -AAAATTGATACTTTCAAC-TTTCCTTCAAAAAT-ATTTTTT-AAAATTTTTATTTTCAAAG
* * * *
21127723 -GAGTTGATATTTTCAACTTTCCTTCAAAAATATTTTTTTAAAAAAATTTTTATGTTCAAAG
1 AAAATTGATACTTTCAACTTTCCTTCAAAAATA-TTTTTT---AAAATTTTTATTTTCAAAG
* * *
21127784 GATATTGATATTTTCAACTTTCCTTCAAAAATATTTTTTTAAAATTTTTATTTT
1 AAAATTGATACTTTCAACTTTCCTTCAAAAATA-TTTTTTAAAATTTTTATTTT
21127838 GAAAAGATCA
Statistics
Matches: 347, Mismatches: 46, Indels: 33
0.81 0.11 0.08
Matches are distributed among these distances:
57 16 0.05
58 112 0.32
59 87 0.25
60 78 0.22
61 18 0.05
62 36 0.10
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTTATTTTCAAAG
Found at i:21127616 original size:118 final size:118
Alignment explanation
Indices: 21127364--21127837 Score: 588
Period size: 118 Copynumber: 4.0 Consensus size: 118
21127354 GCTTTTTATA
* * * * *
21127364 CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAATCCCTTTTTTAAAAATTTTATTTTCAAAG
1 CAAGAGAAATTGATACTTTCAACTTTCCTTCAAAAAT--ATTTTTTAAAATTTTTATTTTCAAGG
* * * *
21127429 AAAATTGATACTTTCAACTTTCCCTCAAAAGTGATTTTTTG-AAATTTTTA-TTT
64 AAAATTGATACTTTTAACTTTTCCTCAAAAATGTTTTTTTGAAAATTTTTATTTT
*
21127482 CAA-AGGAAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTCAAATTTTTATTTTCAAGGA
1 CAAGA-GAAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTTATTTTCAAGGA
* *
21127546 AATTTGATACTTTTAACTTTTCCTCAAAACTGTTTTTTTGAAAATTTTTATTTT
65 AAATTGATACTTTTAACTTTTCCTCAAAAATGTTTTTTTGAAAATTTTTATTTT
** * *
21127600 CAAGAGAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTCAAATTTTTATTTTCAAGAAA
1 CAAGAGAAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTTATTTTCAAGGAA
*
21127665 AATTGATACTTTTAACTTTTCCTCAAAAATGTTTTTTTGAAAATTTTTACTTT
66 AATTGATACTTTTAACTTTTCCTCAAAAATGTTTTTTTGAAAATTTTTATTTT
* * *
21127718 CAATG-G-AGTTGATATTTTCAACTTTCCTTCAAAAATATTTTTTTAAAAAAATTTTTATGTTCA
1 CAA-GAGAAATTGATACTTTCAACTTTCCTTCAAAAATA-TTTTTT---AAAATTTTTATTTTC-
* *
21127781 AAGG-ATATTGATA-TTTTCAAC-TTTCCTTCAAAAATATTTTTTT-AAAATTTTTATTTT
60 AAGGAAAATTGATACTTTT-AACTTTTCC-TCAAAAATGTTTTTTTGAAAATTTTTATTTT
21127838 GAAAAGATCA
Statistics
Matches: 317, Mismatches: 27, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
116 58 0.18
117 37 0.12
118 156 0.49
119 2 0.01
120 22 0.07
121 39 0.12
122 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (118 bp):
CAAGAGAAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTTATTTTCAAGGAA
AATTGATACTTTTAACTTTTCCTCAAAAATGTTTTTTTGAAAATTTTTATTTT
Found at i:21127670 original size:176 final size:176
Alignment explanation
Indices: 21127364--21127837 Score: 534
Period size: 176 Copynumber: 2.7 Consensus size: 176
21127354 GCTTTTTATA
* * * ** *
21127364 CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAATCCCTTTTTTAAAAATTTTATTTTCAAAG
1 CAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAAT-ATTTTTTTAAAATTTTTATTTTCAAAG
* * * *
21127429 AAAATTGATACTTTCAACTTTCCCTCAAAAGTGATTTTTTGAAATTTTTA-TTTCAAAGGAAATT
65 -AAATTGATACTTTCAACTTTCCTTCAAAAAT-ATTTTTTAAAATTTTTATTTTCAAAGAAAATT
* *
21127493 GATACTTTCAAC-TTTCCTTCAAAAAT-ATTTTTT-CAAATTTTTATTTT
128 GATACTTTCAACTTTTCC-TCAAAAATGATTTTTTGAAAATTTTTACTTT
* * *
21127540 CAAGGAAATTTGATACTTTTAACTTTTCCTCAAAACTGTTTTTTTGAAAATTTTTATTTTCAAGA
1 CAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTT-AAAATTTTTATTTTCAA-A
** *
21127605 GAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTTCAAATTTTTATTTTC-AAGAAAAATT
64 GAAATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTTATTTTCAAAG-AAAATT
* *
21127669 GATACTTTTAACTTTTCCTCAAAAATGTTTTTTTGAAAATTTTTACTTT
128 GATACTTTCAACTTTTCCTCAAAAATGATTTTTTGAAAATTTTTACTTT
* *
21127718 CAATGG--AGTTGATA-TTTTCAAC-TTTCCTTCAAAAATATTTTTTTAAAAAAATTTTTATGTT
1 CAA-GGAAAATTGATACTTTT-AACTTTTCC-TCAAAAATATTTTTTT---AAAATTTTTATTTT
* *
21127779 CAAAGGATATTGATATTTTCAACTTTCCTTCAAAAATATTTTTTTAAAATTTTTATTTT
60 CAAA-GAAATTGATACTTTCAACTTTCCTTCAAAAATA-TTTTTTAAAATTTTTATTTT
21127838 GAAAAGATCA
Statistics
Matches: 256, Mismatches: 28, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
175 25 0.10
176 112 0.44
177 37 0.14
178 16 0.06
179 47 0.18
180 19 0.07
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.47
Consensus pattern (176 bp):
CAAGGAAAATTGATACTTTTAACTTTTCCTCAAAAATATTTTTTTAAAATTTTTATTTTCAAAGA
AATTGATACTTTCAACTTTCCTTCAAAAATATTTTTTAAAATTTTTATTTTCAAAGAAAATTGAT
ACTTTCAACTTTTCCTCAAAAATGATTTTTTGAAAATTTTTACTTT
Found at i:21127918 original size:14 final size:15
Alignment explanation
Indices: 21127894--21127929 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
21127884 TATTTCAATT
*
21127894 TAATCAATAAATAAA
1 TAATAAATAAATAAA
21127909 -AATAAATAAATAAA
1 TAATAAATAAATAAA
21127923 TAATAAA
1 TAATAAA
21127930 ACTAAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (15 bp):
TAATAAATAAATAAA
Found at i:21127929 original size:21 final size:21
Alignment explanation
Indices: 21127903--21127943 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21127893 TTAATCAATA
21127903 AATAAAAATAAATAAATAAAT
1 AATAAAAATAAATAAATAAAT
* *
21127924 AATAAAACTAAATGAATAAA
1 AATAAAAATAAATAAATAAA
21127944 AAACCTTTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (21 bp):
AATAAAAATAAATAAATAAAT
Found at i:21127941 original size:17 final size:16
Alignment explanation
Indices: 21127899--21127947 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
21127889 CAATTTAATC
*
21127899 AATAAATAAAAATAAATA
1 AATAAAT-AAAA-AACTA
21127917 AATAAATAATAAAACTA
1 AATAAATAA-AAAACTA
*
21127934 AATGAATAAAAAAC
1 AATAAATAAAAAAC
21127948 CTTTGGGCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 5 0.18
17 14 0.50
18 9 0.32
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (16 bp):
AATAAATAAAAAACTA
Found at i:21129933 original size:67 final size:68
Alignment explanation
Indices: 21129793--21129917 Score: 209
Period size: 66 Copynumber: 1.9 Consensus size: 68
21129783 TTTTCTTAAT
*
21129793 AAAAACAAAAAAAAGGCTCAAATTGAAAACCTGTAAAGGGCAGTTTAAGTTAAAAAAAACTAAAA
1 AAAAACAAAAAAAAGGCTCAAATTGAAAACCTATAAAGGGCAGTTTAAGTTAAAAAAAACTAAAA
21129858 ATA
66 ATA
* *
21129861 AAAAACAAAAAAAA-GCTCAAATTGAAAACC-ATAAAGGGCGGTTTGAGTTAAAAAAAA
1 AAAAACAAAAAAAAGGCTCAAATTGAAAACCTATAAAGGGCAGTTTAAGTTAAAAAAAA
21129918 TGCTCAAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 24 0.44
67 16 0.30
68 14 0.26
ACGTcount: A:0.58, C:0.10, G:0.14, T:0.17
Consensus pattern (68 bp):
AAAAACAAAAAAAAGGCTCAAATTGAAAACCTATAAAGGGCAGTTTAAGTTAAAAAAAACTAAAA
ATA
Found at i:21129961 original size:45 final size:44
Alignment explanation
Indices: 21129867--21129954 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
21129857 AATAAAAAAC
*
21129867 AAAAAAAAGCTCAAATTGAAAACCATAAAGGGCGGTTTGAGTTA
1 AAAAAAAAGCTCAAATTGAAAACCATAAAGGGCAGTTTGAGTTA
* *
21129911 AAAAAAATGCTCAAATTGAAAACTCGTAAAGGGCAGTTTGAGTT
1 AAAAAAAAGCTCAAATTGAAAAC-CATAAAGGGCAGTTTGAGTT
21129955 TTAAAAATGG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 22 0.55
45 18 0.45
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (44 bp):
AAAAAAAAGCTCAAATTGAAAACCATAAAGGGCAGTTTGAGTTA
Found at i:21129963 original size:44 final size:44
Alignment explanation
Indices: 21129867--21129954 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 44
21129857 AATAAAAAAC
*
21129867 AAAAAAAA-GCTCAAATTGAAAACCATAAAGGGCGGTTTGAGTT
1 AAAAAAAATGCTCAAATTGAAAACCATAAAGGGCAGTTTGAGTT
*
21129910 AAAAAAAATGCTCAAATTGAAAACTCGTAAAGGGCAGTTTGAGTT
1 AAAAAAAATGCTCAAATTGAAAAC-CATAAAGGGCAGTTTGAGTT
21129955 TTAAAAATGG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 8 0.20
44 15 0.37
45 18 0.44
ACGTcount: A:0.45, C:0.11, G:0.20, T:0.23
Consensus pattern (44 bp):
AAAAAAAATGCTCAAATTGAAAACCATAAAGGGCAGTTTGAGTT
Found at i:21130901 original size:86 final size:86
Alignment explanation
Indices: 21130761--21131632 Score: 663
Period size: 86 Copynumber: 10.2 Consensus size: 86
21130751 AGTCTAGATT
* * * * * **
21130761 ATTCATTTCAGACTTTGGTTCAATCTAGGTCAGTCTATTTTGGAATTTT-AGCATATGCCAGATC
1 ATTCATTTCAGACTTCGATTCAATCCAAGTCATTCTATTTTTAAATTTTGA-CATATGCCAGATC
* * *
21130825 CTTCTTCGACTTAGTCTAAGGC
65 TTTCTTCGACTTAGTCCAAGTC
* *** * *
21130847 ATTCATTTCAGACTTCGATTCAAGCCAAGTCATTCTATTTTTGGGTTTTGGCATATGCCAGATCC
1 ATTCATTTCAGACTTCGATTCAATCCAAGTCATTCTATTTTTAAATTTTGACATATGCCAGATCT
* * * *
21130912 TTCTTTGTCTTAGTCTAATTC
66 TTCTTCGACTTAGTCCAAGTC
* * * * *
21130933 ATTCGTTTCAGACTTC-AGTTCAATCCAGGTCATTCTATTTTTGAATTTTGACATATGTCAAATC
1 ATTCATTTCAGACTTCGA-TTCAATCCAAGTCATTCTATTTTTAAATTTTGACATATGCCAGATC
* * *
21130997 TTTTTTTAGA-TTAGTCCAAGGC
65 -TTTCTTCGACTTAGTCCAAGTC
* * *
21131019 ATTCATTTTAAACTTCGATTCAAT-CTAGTTCATTCTATTTTTAAATTTTGACATATGCCAGATC
1 ATTCATTTCAGACTTCGATTCAATCCAAG-TCATTCTATTTTTAAATTTTGACATATGCCAGATC
** * *
21131083 CATCTTCGGCTTAGTCTAAGTC
65 TTTCTTCGACTTAGTCCAAGTC
* * * * * * * * **
21131105 ATTCGTTTTAAACTT-AAGTTCAATCCAAATCATTTTGTTTTCAAATTTCAACATATGCCAGATC
1 ATTCATTTCAGACTTCGA-TTCAATCCAAGTCATTCTATTTTTAAATTTTGACATATGCCAGATC
* * **
21131169 TTTTTTTGGTTTAGTCCAAGTC
65 TTTCTTCGACTTAGTCCAAGTC
* * * * * **
21131191 ATTCATTTCAGACTTTGGTTCAATCCAGGTCATTTTATTTTTAAATTTTGGCATATGTTAGATCT
1 ATTCATTTCAGACTTCGATTCAATCCAAGTCATTCTATTTTTAAATTTTGACATATGCCAGATCT
*
21131256 TTCTTCGGCTTAGTCCAAGTC
66 TTCTTCGACTTAGTCCAAGTC
* * ** * *
21131277 ATTCATTTCAGACTTCGGTTCAATGCAAGTTGTTCTATTTTTAAATCTTGACATATGCCAAATCT
1 ATTCATTTCAGACTTCGATTCAATCCAAGTCATTCTATTTTTAAATTTTGACATATGCCAGATCT
21131342 TTCTTC-AGCTTAGTCCAAG--
66 TTCTTCGA-CTTAGTCCAAGTC
* * * * * * *
21131361 --TCATTTCAGACTTCGATTCAATTCAGGTCATTCTGTTTTCAGATTTTGGCATATGCCATATCT
1 ATTCATTTCAGACTTCGATTCAATCCAAGTCATTCTATTTTTAAATTTTGACATATGCCAGATCT
* * *
21131424 TTTTTCAACTTAGTCC-AGATT
66 TTCTTCGACTTAGTCCAAG-TC
* * * * * ** ** *
21131445 ATTCATTTTAGGCTTCGGTTCAGTCC-AGATCATTTTATTTTTGGATTTTGATC-TATGTTAAAT
1 ATTCATTTCAGACTTCGATTCAATCCAAG-TCATTCTATTTTTAAATTTTGA-CATATGCCAGAT
* * *
21131508 CTTTCTTCAACTTAGTCCAAATT
64 CTTTCTTCGACTTAGTCCAAGTC
* * * * * * * ** * * * *
21131531 ATTCATTTCAGACTTTGGTTCCATCTAGGTCATTTTGTTTTTGGATTTCGACTTATGTCAAATCT
1 ATTCATTTCAGACTTCGATTCAATCCAAGTCATTCTATTTTTAAATTTTGACATATGCCAGATCT
* *
21131596 TTCTTCGGCTTAGTCCAAGTT
66 TTCTTCGACTTAGTCCAAGTC
21131617 ATTCATTTCAGACTTC
1 ATTCATTTCAGACTTC
21131633 AGTTTTATTC
Statistics
Matches: 635, Mismatches: 130, Indels: 42
0.79 0.16 0.05
Matches are distributed among these distances:
81 2 0.00
82 65 0.10
83 1 0.00
85 10 0.02
86 546 0.86
87 11 0.02
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.44
Consensus pattern (86 bp):
ATTCATTTCAGACTTCGATTCAATCCAAGTCATTCTATTTTTAAATTTTGACATATGCCAGATCT
TTCTTCGACTTAGTCCAAGTC
Found at i:21131218 original size:258 final size:258
Alignment explanation
Indices: 21130761--21131631 Score: 749
Period size: 258 Copynumber: 3.4 Consensus size: 258
21130751 AGTCTAGATT
* * * **
21130761 ATTCATTTCAGACTTTGGTTCAATCTAGGTCAGTCTATTTTGGAATTTT-AGCATATGCCAGATC
1 ATTCATTTCAGACTTCGGTTCAATCTAGTTCATTCTATTTTTAAATTTTGA-CATATGCCAGATC
* * * * * **
21130825 CTTCTTCGACTTAGTCTAAGGCATTCATTTCAGACTTCGATTCAAGCCAAGTCATTCTATTTTTG
65 CTTCTTCGGCTTAGTCTAAGTCATTCATTTCAAACTTAGATTCAAGCCAAATCATTCTATTTTCA
** *** * * *
21130890 GGTTTTGGCATATGCCAGATCCTTCTTTGTCTTAGTCTAATTCATTCGTTTCAGACTTCAGTTCA
130 AATTTCAACATATGCCAGATCCTTCTTTGTCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCA
* * *
21130955 ATCCAGGTCATTCTATTTTTGAATTTTGACATATGTCAAATCTTTTTTTAGATTAGTCCAAGGC
195 ATCCAGGTCATTCTATTTTTAAATTTTGACATATGTCAAATCTTTCTTCAGATTAGTCCAAGGC
* * *
21131019 ATTCATTTTAAACTTCGATTCAATCTAGTTCATTCTATTTTTAAATTTTGACATATGCCAGATCC
1 ATTCATTTCAGACTTCGGTTCAATCTAGTTCATTCTATTTTTAAATTTTGACATATGCCAGATCC
* * * * * *
21131084 ATCTTCGGCTTAGTCTAAGTCATTCGTTTTAAACTTA-AGTTCAATCCAAATCATTTTGTTTTCA
66 TTCTTCGGCTTAGTCTAAGTCATTCATTTCAAACTTAGA-TTCAAGCCAAATCATTCTATTTTCA
* * **
21131148 AATTTCAACATATGCCAGATCTTTTTTTGGT-TTAGTCCAAGTCATTCATTTCAGACTTTGGTTC
130 AATTTCAACATATGCCAGATCCTTCTTT-GTCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTC
* * * * * * *
21131212 AATCCAGGTCATTTTATTTTTAAATTTTGGCATATGTTAGATCTTTCTTCGGCTTAGTCCAAGTC
194 AATCCAGGTCATTCTATTTTTAAATTTTGACATATGTCAAATCTTTCTTCAGATTAGTCCAAGGC
* * * *
21131277 ATTCATTTCAGACTTCGGTTCAATGCAAGTT-GTTCTATTTTTAAATCTTGACATATGCCAAATC
1 ATTCATTTCAGACTTCGGTTCAAT-CTAGTTCATTCTATTTTTAAATTTTGACATATGCCAGATC
* * * * * ** ** *
21131341 TTTCTTCAGCTTAGTCCAAG----TCATTTCAGACTTCGATTCAATTCAGGTCATTCTGTTTTCA
65 CTTCTTCGGCTTAGTCTAAGTCATTCATTTCAAACTTAGATTCAAGCCAAATCATTCTATTTTCA
* *** * * ** * * * *
21131402 GATTTTGGCATATGCCATAT-CTTTTTTCAACTTAGTCC-AGATTATTCATTTTAGGCTTCGGTT
130 AATTTCAACATATGCCAGATCCTTCTTT-GTCTTAGTCCAAG-TCATTCATTTCAGACTTCAGTT
* * * ** *
21131465 CAGTCCAGATCATTTTATTTTTGGATTTTGATC-TATGTTAAATCTTTCTTCA-ACTTAGTCCAA
193 CAATCCAGGTCATTCTATTTTTAAATTTTGA-CATATGTCAAATCTTTCTTCAGA-TTAGTCCAA
***
21131528 ATT
256 GGC
* * * * * ** * * * * *
21131531 ATTCATTTCAGACTTTGGTTCCATCTAGGTCATTTTGTTTTTGGATTTCGACTTATGTCAAATCT
1 ATTCATTTCAGACTTCGGTTCAATCTAGTTCATTCTATTTTTAAATTTTGACATATGCCAGATCC
* * *
21131596 TTCTTCGGCTTAGTCCAAGTTATTCATTTCAGACTT
66 TTCTTCGGCTTAGTCTAAGTCATTCATTTCAAACTT
21131632 CAGTTTTATT
Statistics
Matches: 500, Mismatches: 99, Indels: 28
0.80 0.16 0.04
Matches are distributed among these distances:
253 12 0.02
254 189 0.38
255 2 0.00
257 1 0.00
258 288 0.58
259 8 0.02
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.44
Consensus pattern (258 bp):
ATTCATTTCAGACTTCGGTTCAATCTAGTTCATTCTATTTTTAAATTTTGACATATGCCAGATCC
TTCTTCGGCTTAGTCTAAGTCATTCATTTCAAACTTAGATTCAAGCCAAATCATTCTATTTTCAA
ATTTCAACATATGCCAGATCCTTCTTTGTCTTAGTCCAAGTCATTCATTTCAGACTTCAGTTCAA
TCCAGGTCATTCTATTTTTAAATTTTGACATATGTCAAATCTTTCTTCAGATTAGTCCAAGGC
Found at i:21131652 original size:86 final size:86
Alignment explanation
Indices: 21130759--21131802 Score: 584
Period size: 86 Copynumber: 12.2 Consensus size: 86
21130749 TTAGTCTAGA
* * * * * *
21130759 TTATTCATTTCAGACTTTGGTTCAA-TCTAGGTCAGTCTA-TTTTGGAATTTT-AGCATATGCCA
1 TTATTCATTTCAGACTTCGGTTCAATTC-AAGTCATTTTATTTTTAG-ATTTTGA-CATATGTCA
* * *
21130821 GATCCTTCTTC-GACTTAGTCTAAG
63 AATCTTTCTTCAG-CTTAGTCCAAG
** * ** * * * * * *
21130845 GCATTCATTTCAGACTTCGATTCAAGCCAAGTCATTCTATTTTTGGGTTTTGGCATATGCCAGAT
1 TTATTCATTTCAGACTTCGGTTCAATTCAAGTCATTTTATTTTTAGATTTTGACATATGTCAAAT
* * *
21130910 CCTTCTT-TGTCTTAGTCTAA-
66 CTTTCTTCAG-CTTAGTCCAAG
* * * * *
21130930 TTCATTCGTTTCAGACTTCAGTTCAATCCAGGTCATTCTATTTTT-GAATTTTGACATATGTCAA
1 TT-ATTCATTTCAGACTTCGGTTCAATTCAAGTCATTTTATTTTTAG-ATTTTGACATATGTCAA
* * *
21130994 ATCTTTTTTTAGATTAGTCCAAG
64 ATCTTTCTTCAGCTTAGTCCAAG
** * * * * * * * *
21131017 GCATTCATTTTAAACTTCGATTCAA-TCTAGTTCATTCTATTTTTAAATTTTGACATATGCCAGA
1 TTATTCATTTCAGACTTCGGTTCAATTCAAG-TCATTTTATTTTTAGATTTTGACATATGTCAAA
** * *
21131081 TCCATCTTCGGCTTAGTCTAAG
65 TCTTTCTTCAGCTTAGTCCAAG
* * * * ** * * * * * ** * *
21131103 TCATTCGTTTTAAACTTAAGTTCAATCCAAATCATTTTGTTTTCAAATTTCAACATATGCCAGAT
1 TTATTCATTTCAGACTTCGGTTCAATTCAAGTCATTTTATTTTTAGATTTTGACATATGTCAAAT
* ** *
21131168 CTTTTTTTGGTTTAGTCCAAG
66 CTTTCTTCAGCTTAGTCCAAG
* * * * * * * *
21131189 TCATTCATTTCAGACTTTGGTTCAATCCAGGTCATTTTATTTTTAAATTTTGGCATATGTTAGAT
1 TTATTCATTTCAGACTTCGGTTCAATTCAAGTCATTTTATTTTTAGATTTTGACATATGTCAAAT
*
21131254 CTTTCTTCGGCTTAGTCCAAG
66 CTTTCTTCAGCTTAGTCCAAG
* * ** * * * *
21131275 TCATTCATTTCAGACTTCGGTTCAATGCAAGTTGTTCTATTTTTAAATCTTGACATATGCCAAAT
1 TTATTCATTTCAGACTTCGGTTCAATTCAAGTCATTTTATTTTTAGATTTTGACATATGTCAAAT
21131340 CTTTCTTCAGCTTAGTCCAAG
66 CTTTCTTCAGCTTAGTCCAAG
* * * * * * * *
21131361 ----TCATTTCAGACTTCGATTCAATTCAGGTCATTCTGTTTTCAGATTTTGGCATATGCCATAT
1 TTATTCATTTCAGACTTCGGTTCAATTCAAGTCATTTTATTTTTAGATTTTGACATATGTCAAAT
* *
21131422 CTTTTTTCAACTTAGTCC-AG
66 CTTTCTTCAGCTTAGTCCAAG
* * * * * *
21131442 ATTATTCATTTTAGGCTTCGGTTC-AGTCCAGATCATTTTATTTTTGGATTTTGATC-TATGTTA
1 -TTATTCATTTCAGACTTCGGTTCAATTCAAG-TCATTTTATTTTTAGATTTTGA-CATATGTCA
* *
21131505 AATCTTTCTTCAACTTAGTCCAAA
63 AATCTTTCTTCAGCTTAGTCCAAG
* * * * * * *
21131529 TTATTCATTTCAGACTTTGGTTCCA-TCTAGGTCATTTTGTTTTTGGATTTCGACTTATGTCAAA
1 TTATTCATTTCAGACTTCGGTTCAATTC-AAGTCATTTTATTTTTAGATTTTGACATATGTCAAA
*
21131593 TCTTTCTTCGGCTTAGTCCAAG
65 TCTTTCTTCAGCTTAGTCCAAG
* ** * *** * *
21131615 TTATTCATTTCAGACTTCAGTTTTATTCAAGTTATTTTA--TTTA-ATTTTGGGTTATGCCAGAT
1 TTATTCATTTCAGACTTCGGTTCAATTCAAGTCATTTTATTTTTAGATTTTGACATATGTCAAAT
* * * * *
21131677 TTTTTTTC-GATTCAATCTAAG
66 CTTTCTTCAGCTT-AGTCCAAG
* * * * * * * * *
21131698 TTATTCATTTCAGACTTTGGCTCAGACT-AAATCATTTTACTTTTGGATTGTGACCTATG-CTAG
1 TTATTCATTTCAGACTTCGGTTCA-ATTCAAGTCATTTTATTTTTAGATTTTGACATATGTC-AA
* *
21131761 ATCTTTTTTTAGCTTAGTCCAAG
64 ATCTTTCTTCAGCTTAGTCCAAG
* * *
21131784 TTGTTTATTTTAGACTTCG
1 TTATTCATTTCAGACTTCG
21131803 ATTCGATACA
Statistics
Matches: 754, Mismatches: 174, Indels: 60
0.76 0.18 0.06
Matches are distributed among these distances:
81 2 0.00
82 69 0.09
83 54 0.07
84 5 0.01
85 12 0.02
86 593 0.79
87 19 0.03
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.45
Consensus pattern (86 bp):
TTATTCATTTCAGACTTCGGTTCAATTCAAGTCATTTTATTTTTAGATTTTGACATATGTCAAAT
CTTTCTTCAGCTTAGTCCAAG
Found at i:21133083 original size:59 final size:56
Alignment explanation
Indices: 21132990--21133283 Score: 302
Period size: 58 Copynumber: 5.0 Consensus size: 56
21132980 TGATCTATTC
* * * *
21132990 AAAATAAAAATTTGAAAACAATATTTTTTAAGGAAAGTTGAAAGTATTAATTTCCCTTG
1 AAAAT-AAAATTTCAAAA-AACA-TTTTTGAGGAAAGTTGAAAGTATCAATTTCCCTTG
* * **
21133049 AAAATAAAAATTTTCAAAAAAGCATTTTTGAGGAAAAATTGAAGGTATCAATTTTTCTTG
1 AAAAT-AAAA-TTTCAAAAAA-CATTTTTGAGG-AAAGTTGAAAGTATCAATTTCCCTTG
* * ** * *
21133109 AAAATAAAAATTTGAAAAAATATTTTTGAATTAAAGTTGAGAGTATCAATTTCCTTTG
1 AAAAT-AAAATTTCAAAAAACATTTTTG-AGGAAAGTTGAAAGTATCAATTTCCCTTG
*
21133167 AAAATAAAATTTCAAAAAATCATTTTTGAGGGAAAGTTGAAAGTATCAATTTCCCTTA
1 AAAATAAAATTTCAAAAAA-CATTTTTGA-GGAAAGTTGAAAGTATCAATTTCCCTTG
*
21133225 AAAATAAAATTTTCAAAAAA-ATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAA-TTTCAAAAAACAT-TTTT-GAGG-AAAGTTGAAAGTATCAATTTCCCTTG
21133284 TATAAAAGCA
Statistics
Matches: 198, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
57 16 0.08
58 77 0.39
59 66 0.33
60 39 0.20
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (56 bp):
AAAATAAAATTTCAAAAAACATTTTTGAGGAAAGTTGAAAGTATCAATTTCCCTTG
Found at i:21133155 original size:58 final size:58
Alignment explanation
Indices: 21132990--21133283 Score: 342
Period size: 59 Copynumber: 5.0 Consensus size: 58
21132980 TGATCTATTC
* * * *
21132990 AAAATAAAAATTTGAAAACAATATTTTTTAAGG-AAAGTTGAAAGTATTAATTTCCCTTG
1 AAAATAAAAATTTCAAAA-AATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* * * *
21133049 AAAATAAAAATTTTCAAAAAAGCATTTTTGAGGAAAAATTGAAGGTATCAATTTTTCTTG
1 AAAATAAAAA-TTTCAAAAAA-TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *** *
21133109 AAAATAAAAATTTGAAAAAATATTTTTGAATTAAAGTTGAGAGTATCAA-TTTCCTTTG
1 AAAATAAAAATTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC-TTG
* * *
21133167 AAAAT-AAAATTTCAAAAAATCATTTTTGAGGGAAAGTTGAAAGTATCAATTTCCCTTA
1 AAAATAAAAATTTCAAAAAAT-ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
* *
21133225 AAAATAAAATTTTCAAAAAAATATTTTGGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAAATTTC-AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
21133284 TATAAAAGCA
Statistics
Matches: 198, Mismatches: 29, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
57 18 0.09
58 61 0.31
59 73 0.37
60 46 0.23
ACGTcount: A:0.45, C:0.07, G:0.13, T:0.35
Consensus pattern (58 bp):
AAAATAAAAATTTCAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
Found at i:21133867 original size:14 final size:14
Alignment explanation
Indices: 21133850--21133877 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21133840 GATGTATCTC
21133850 GAAATAAAATCTTA
1 GAAATAAAATCTTA
21133864 GAAATAAAATCTTA
1 GAAATAAAATCTTA
21133878 CCAAACTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
GAAATAAAATCTTA
Found at i:21134694 original size:3 final size:3
Alignment explanation
Indices: 21134688--21134748 Score: 86
Period size: 3 Copynumber: 20.3 Consensus size: 3
21134678 TACTATAGTA
* * *
21134688 TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT CAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
21134736 TAT TAT TAG TAT T
1 TAT TAT TAT TAT T
21134749 GTTTTATTCT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:21135585 original size:30 final size:32
Alignment explanation
Indices: 21135551--21135624 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 32
21135541 TTCTTTTTCC
*
21135551 ATTTTCATTTTATTTTC-TAA-ATTTTATTTT
1 ATTTTCATTTTATTTTCTTAAGATTTTATATT
*
21135581 ATTTT-ATTTTTATTTTCTTAAGTTTTTATATT
1 ATTTTCA-TTTTATTTTCTTAAGATTTTATATT
21135613 ATTTTCAATTTT
1 ATTTTC-ATTTT
21135625 TTTAATTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
29 1 0.03
30 15 0.41
31 3 0.08
32 13 0.35
33 4 0.11
34 1 0.03
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.70
Consensus pattern (32 bp):
ATTTTCATTTTATTTTCTTAAGATTTTATATT
Found at i:21135606 original size:16 final size:15
Alignment explanation
Indices: 21135558--21135609 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
21135548 TCCATTTTCA
*
21135558 TTTTATTTTC-TAAA
1 TTTTATTTTCTTAAT
* *
21135572 TTTTATTTTATTTTAT
1 TTTTATTTT-CTTAAT
21135588 TTTTATTTTCTTAAGT
1 TTTTATTTTCTTAA-T
21135604 TTTTAT
1 TTTTAT
21135610 ATTATTTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
14 9 0.30
15 3 0.10
16 18 0.60
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTATTTTCTTAAT
Found at i:21135615 original size:27 final size:28
Alignment explanation
Indices: 21135577--21135636 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
21135567 CTAAATTTTA
* *
21135577 TTTTATTTTATTTT-TATTTTCTTAAGT
1 TTTTATATTATTTTCAATTTTCTTAAGT
* *
21135604 TTTTATATTATTTTCAATTTTTTTAATT
1 TTTTATATTATTTTCAATTTTCTTAAGT
21135632 TTTTA
1 TTTTA
21135637 AATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 13 0.46
28 15 0.54
ACGTcount: A:0.22, C:0.03, G:0.02, T:0.73
Consensus pattern (28 bp):
TTTTATATTATTTTCAATTTTCTTAAGT
Found at i:21135635 original size:18 final size:20
Alignment explanation
Indices: 21135603--21135642 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
21135593 TTTTCTTAAG
*
21135603 TTTTTATATTATTTTCAATT
1 TTTTTATATTATTTTAAATT
21135623 TTTTTA-ATT-TTTTAAATT
1 TTTTTATATTATTTTAAATT
21135641 TT
1 TT
21135643 ACTGGTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTATATTATTTTAAATT
Found at i:21146470 original size:174 final size:173
Alignment explanation
Indices: 21146033--21146471 Score: 474
Period size: 174 Copynumber: 2.5 Consensus size: 173
21146023 CTCGACTCAG
* * *
21146033 TCTTGGTCATTTTCAGACTTGCAGCATCGTCTCGATCATTAATCTATGACCTTGACTC-GATCAT
1 TCTTGGTCATTTTCAAACTTGCAGCATC-TCCCGATCATTAATCTATGACCTTGACTCAG-TCTT
* * * * * *
21146097 GTTGCCTTCAGACTCGTAACATCAT-CTCAGTCATTAGATATCAGCCTAGGTCAGATCATTTCCA
64 GGTACCTTCAGACTAGCAACATCATCCTCAGTCATTAGAGATCAGCCTAGGTCAAATCATTTCCA
*
21146161 AACTCGTGGCATCATCTCAGTCATTCATTTACGGCCTTAACTCGA
129 AACTCGTGGCATCATCTCAGTCATTCATTTACGACCTTAACTCGA
* ** * * *
21146206 TCTTGGCCATTTTCAAACTCACAGCATCGCCCTGGTCATTAATCTATGACCTTGACTCATTCTTG
1 TCTTGGTCATTTTCAAACTTGCAGCATCTCCC-GATCATTAATCTATGACCTTGACTCAGTCTTG
* ** * * *
21146271 GTCACTTTCAGACTTA-CGGCATCATCCT-AGTCATTTGAGCTC-GACCTAGGTCAAATCATTTT
65 GT-ACCTTCAGAC-TAGCAACATCATCCTCAGTCATTAGAGATCAG-CCTAGGTCAAATCATTTC
* * * * ** * *
21146333 CAGACTCGTGGCATCGTTTCAGTCATTTATTTGTGATCTTGACTCGA
127 CAAACTCGTGGCATCATCTCAGTCATTCATTTACGACCTTAACTCGA
* *
21146380 TCTTAGTCATTTTCAAACTTGCAGCATCATCCCGATCATTAATCTATGATCTTGACTCAGTCTTG
1 TCTTGGTCATTTTCAAACTTGCAGCATC-TCCCGATCATTAATCTATGACCTTGACTCAGTCTTG
*
21146445 GCTACCTTCAAACTAGCAACATCATCC
65 G-TACCTTCAGACTAGCAACATCATCC
21146472 AAGCCATCCG
Statistics
Matches: 215, Mismatches: 42, Indels: 17
0.78 0.15 0.06
Matches are distributed among these distances:
172 2 0.01
173 56 0.26
174 150 0.70
175 7 0.03
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.34
Consensus pattern (173 bp):
TCTTGGTCATTTTCAAACTTGCAGCATCTCCCGATCATTAATCTATGACCTTGACTCAGTCTTGG
TACCTTCAGACTAGCAACATCATCCTCAGTCATTAGAGATCAGCCTAGGTCAAATCATTTCCAAA
CTCGTGGCATCATCTCAGTCATTCATTTACGACCTTAACTCGA
Found at i:21146636 original size:112 final size:112
Alignment explanation
Indices: 21146477--21146692 Score: 281
Period size: 112 Copynumber: 1.9 Consensus size: 112
21146467 CATCCAAGCC
* * * * * * *
21146477 ATCCGATCTTAGCTTAGGTTAGATCATTTTTAGACTAAAGACATCATCCAAATCATTTGATCTTG
1 ATCCAATCTCAGCTTAGGTCAGATCATTTTCAAACTAAAGACATCATCCAAATCATTCGATCTTA
* * *
21146542 GCTCAGTTCAGATCATTTTCAAACTAACGACATCATCCCAGTCAGTT
66 ACTCAGGTCAAATCATTTTCAAACTAACGACATCATCCCAGTCAGTT
* * *
21146589 ATCCAATCTCAGCTTAGGTCAGATCATTTTCAAACTAACA-ACATCATCCCAGTCATTCGATTTT
1 ATCCAATCTCAGCTTAGGTCAGATCATTTTCAAACTAA-AGACATCATCCAAATCATTCGATCTT
* *
21146653 AACTCAGGTCAAATCATTTTCAAACTCATGACATCATCCC
65 AACTCAGGTCAAATCATTTTCAAACTAACGACATCATCCC
21146693 GATCATTCAT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
112 87 0.99
113 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (112 bp):
ATCCAATCTCAGCTTAGGTCAGATCATTTTCAAACTAAAGACATCATCCAAATCATTCGATCTTA
ACTCAGGTCAAATCATTTTCAAACTAACGACATCATCCCAGTCAGTT
Found at i:21146692 original size:54 final size:54
Alignment explanation
Indices: 21146451--21146709 Score: 234
Period size: 54 Copynumber: 4.7 Consensus size: 54
21146441 CTTGGCTACC
* * * * * * *
21146451 TTCAAACTAGCAACATCATCCAAGCCATCCGATCTTAGCTTAGGTTAGATCATT
1 TTCAAACTAACGACATCATCCCAGTCATTCGATCTTAGCTCAGGTCAGATCATT
* * * * * * * *
21146505 TTTAGACTAAAGACATCATCCAAATCATTTGATCTTGGCTCAGTTCAGATCATT
1 TTCAAACTAACGACATCATCCCAGTCATTCGATCTTAGCTCAGGTCAGATCATT
* * *
21146559 TTCAAACTAACGACATCATCCCAGTCAGTTATCCAATCTCAGCTTAGGTCAGATCATT
1 TTCAAACTAACGACATCATCCCAGTCA--T-T-CGATCTTAGCTCAGGTCAGATCATT
* * * *
21146617 TTCAAACTAACAACATCATCCCAGTCATTCGATTTTAACTCAGGTCAAATCATT
1 TTCAAACTAACGACATCATCCCAGTCATTCGATCTTAGCTCAGGTCAGATCATT
* *
21146671 TTCAAACTCATGACATCATCCC-GATCATTC-ATCTATAGC
1 TTCAAACTAACGACATCATCCCAG-TCATTCGATCT-TAGC
21146710 CTCAACTCAG
Statistics
Matches: 163, Mismatches: 36, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
53 4 0.02
54 110 0.67
55 1 0.01
56 2 0.01
57 1 0.01
58 45 0.28
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.31
Consensus pattern (54 bp):
TTCAAACTAACGACATCATCCCAGTCATTCGATCTTAGCTCAGGTCAGATCATT
Found at i:21147144 original size:6 final size:6
Alignment explanation
Indices: 21147064--21147140 Score: 127
Period size: 6 Copynumber: 12.8 Consensus size: 6
21147054 ACTGTAGTAT
* *
21147064 ATTATT ATTATT ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC
1 ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC ATTATC
*
21147112 ATTATC ATTATC ATTATC ATTATT ATTAT
1 ATTATC ATTATC ATTATC ATTATC ATTAT
21147141 TATTGTTATC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 69 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.55
Consensus pattern (6 bp):
ATTATC
Found at i:21147608 original size:30 final size:29
Alignment explanation
Indices: 21147571--21147637 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 29
21147561 GTTCGGGTGA
* * *
21147571 GTTTTTTGGAGCTTTATGGGAAATTTTAG
1 GTTTTTTGGAGATTTATGGGAAAATCTAG
21147600 GATTTTTTGGAGATTTATGGGAAAATCTAG
1 G-TTTTTTGGAGATTTATGGGAAAATCTAG
21147630 GTTTTTTG
1 GTTTTTTG
21147638 AAGAACATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 8 0.24
30 26 0.76
ACGTcount: A:0.22, C:0.03, G:0.27, T:0.48
Consensus pattern (29 bp):
GTTTTTTGGAGATTTATGGGAAAATCTAG
Found at i:21147999 original size:36 final size:34
Alignment explanation
Indices: 21147965--21148032 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 34
21147955 TTCATTTTAT
*
21147965 TTTTTGAATTTATTTTCTTTATTTTTATTTTTTTAAG
1 TTTTT-AATTTA-TTTCTAT-TTTTTATTTTTTTAAG
*
21148002 TTTTTATTTTATTTCTATTTTTTATTTTTTT
1 TTTTTAATTTATTTCTATTTTTTATTTTTTT
21148033 TAATTTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 13 0.45
35 6 0.21
36 5 0.17
37 5 0.17
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (34 bp):
TTTTTAATTTATTTCTATTTTTTATTTTTTTAAG
Found at i:21148020 original size:27 final size:25
Alignment explanation
Indices: 21147946--21148042 Score: 83
Period size: 28 Copynumber: 3.7 Consensus size: 25
21147936 TAGGTTTTTC
21147946 TTTTTCATTTTCATTTTATTTTTTGAA
1 TTTTT-ATTTT-ATTTTATTTTTTGAA
* *
21147973 TTTATTTTCTTTATTTTTATTTTTTTAA
1 TTT-TTAT-TTTA-TTTTATTTTTTGAA
21148001 GTTTTTATTTTATTTCTATTTTTT--A
1 -TTTTTATTTTATTT-TATTTTTTGAA
*
21148026 TTTTT-TTTAATTTTATT
1 TTTTTATTTTATTTTATT
21148043 GGTTTTTATA
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
22 4 0.07
23 7 0.11
24 5 0.08
25 1 0.02
26 3 0.05
27 17 0.28
28 21 0.34
29 3 0.05
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (25 bp):
TTTTTATTTTATTTTATTTTTTGAA
Found at i:21148354 original size:15 final size:16
Alignment explanation
Indices: 21148328--21148358 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21148318 TATTTTTTTA
21148328 AAATATAAAAAATAAT
1 AAATATAAAAAATAAT
21148344 AAATA-AAAAAATAAT
1 AAATATAAAAAATAAT
21148359 TTTTATCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATATAAAAAATAAT
Found at i:21149173 original size:6 final size:6
Alignment explanation
Indices: 21149162--21149227 Score: 66
Period size: 6 Copynumber: 11.3 Consensus size: 6
21149152 TGTTTTTTTA
** *
21149162 TTTATT TTTATT TTTA-T TTTATT TTGGTT TTTATT TTGATT TTT-TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
21149208 ATTATT ATTTA-T TTTATT TT
1 TTTATT -TTTATT TTTATT TT
21149228 AAGATAATAG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
5 13 0.27
6 32 0.67
7 3 0.06
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:21149208 original size:14 final size:13
Alignment explanation
Indices: 21149157--21149228 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 13
21149147 CTGTTTGTTT
21149157 TTTTATTTATTTT-
1 TTTT-TTTATTTTA
*
21149170 TATTTTTATTTTA
1 TTTTTTTATTTTA
21149183 TTTTGGTTTTTATTTTGA
1 --TT--TTTTTATTTT-A
21149201 TTTTTTTATTATTA
1 TTTTTTTATT-TTA
21149215 TTTATTTTATTTTA
1 TTT-TTTTATTTTA
21149229 AGATAATAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 15
0.74 0.03 0.23
Matches are distributed among these distances:
12 8 0.16
13 3 0.06
14 15 0.31
15 10 0.20
16 2 0.04
17 10 0.20
18 1 0.02
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:21149222 original size:29 final size:28
Alignment explanation
Indices: 21149156--21149227 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 28
21149146 ACTGTTTGTT
*
21149156 TTTTTA-TTTATTTTTATTTTTATTTTA
1 TTTTTATTTTATTTTGATTTTTATTTTA
21149183 TTTTGGT-TTTTATTTTGATTTTT-TTATTA
1 TTTT--TATTTTATTTTGATTTTTATT-TTA
21149212 TTATTTATTTTATTTT
1 TT-TTTATTTTATTTT
21149228 AAGATAATAG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
27 4 0.11
28 3 0.08
29 29 0.76
30 2 0.05
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.79
Consensus pattern (28 bp):
TTTTTATTTTATTTTGATTTTTATTTTA
Found at i:21150862 original size:12 final size:12
Alignment explanation
Indices: 21150834--21150862 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21150824 TTATCTTTCT
21150834 GAAAATCAAAAA
1 GAAAATCAAAAA
21150846 G-AAATCAAAAA
1 GAAAATCAAAAA
21150857 GAAAAT
1 GAAAAT
21150863 TTCTAGGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.72, C:0.07, G:0.10, T:0.10
Consensus pattern (12 bp):
GAAAATCAAAAA
Found at i:21154614 original size:23 final size:23
Alignment explanation
Indices: 21154588--21154631 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
21154578 GAAGCTTCTG
* *
21154588 AATGGTGATCAAATGATGAAAAT
1 AATGATGATCAAATAATGAAAAT
*
21154611 AATGATGATCAATTAATGAAA
1 AATGATGATCAAATAATGAAA
21154632 CTTGTTCCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.18, T:0.27
Consensus pattern (23 bp):
AATGATGATCAAATAATGAAAAT
Found at i:21155099 original size:64 final size:66
Alignment explanation
Indices: 21154980--21155132 Score: 204
Period size: 64 Copynumber: 2.3 Consensus size: 66
21154970 TTTTTTTTAT
* * * *
21154980 TTTCAAATGAGAATCTTTGAATTTTTGATGTGTGAAACCTAAAATTTGTCAAATGTGAATCTTTA
1 TTTCAAATGAGAATCTTTGAATCTTTGA-GTGTGAAACCCAAAATTTGTCAAATGTAAATCTTCA
21155045 AA
65 AA
* *
21155047 TTTCAAATGAGAATCTTTGAATCTTT-A-TGTGAAACCCAAAATTTGTCGAATGTAAATCTTCGA
1 TTTCAAATGAGAATCTTTGAATCTTTGAGTGTGAAACCCAAAATTTGTCAAATGTAAATCTTCAA
21155110 A
66 A
*
21155111 TTTCAAATGCA-AATCTTCGAAT
1 TTTCAAATG-AGAATCTTTGAAT
21155133 TTCAAATGAG
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
64 51 0.65
65 1 0.01
66 1 0.01
67 25 0.32
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (66 bp):
TTTCAAATGAGAATCTTTGAATCTTTGAGTGTGAAACCCAAAATTTGTCAAATGTAAATCTTCAA
A
Found at i:21155124 original size:21 final size:20
Alignment explanation
Indices: 21155095--21155152 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 20
21155085 AAATTTGTCG
21155095 AATGTAAATCTTCGAATTTCA
1 AATG-AAATCTTCGAATTTCA
21155116 AATGCAAATCTTCGAATTTCA
1 AATG-AAATCTTCGAATTTCA
21155137 AATGAGAATCTT-GAAT
1 AATGA-AATCTTCGAAT
21155153 CTTTGAATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 5 0.14
21 30 0.86
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (20 bp):
AATGAAATCTTCGAATTTCA
Found at i:21155242 original size:94 final size:92
Alignment explanation
Indices: 21155057--21155242 Score: 241
Period size: 95 Copynumber: 2.0 Consensus size: 92
21155047 TTTCAAATGA
* *
21155057 GAATCTTTGAATCTTTATGTGAAACCCAAAATTTGTCGAATGTAAATCTTCGAATTTCAAATGCA
1 GAATCTTTGAATCTTTATGTGAAACCCAAAATTTGTCGAAAGTAAATCTTCGAATCTCAAATGCA
21155122 AATCTTCGAATTTCAAATGAGAATCTT
66 AATCTTCGAATTTCAAATGAGAATCTT
* * * *
21155149 GAATCTTTGAATCTTTGAGGTGTGAAACCTAACATTTGTTGAAAGTGAATCTTCGAA-CTCAAAT
1 GAATCTTTGAATCTTT-A--TGTGAAACCCAAAATTTGTCGAAAGTAAATCTTCGAATCTCAAAT
* * *
21155213 G-ATAATCTTTGAGTTTCGAATGAGAATCTT
63 GCA-AATCTTCGAATTTCAAATGAGAATCTT
21155243 TAAGGTGTGA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
92 16 0.20
93 2 0.02
94 31 0.38
95 32 0.40
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (92 bp):
GAATCTTTGAATCTTTATGTGAAACCCAAAATTTGTCGAAAGTAAATCTTCGAATCTCAAATGCA
AATCTTCGAATTTCAAATGAGAATCTT
Found at i:21155340 original size:43 final size:43
Alignment explanation
Indices: 21155290--21155378 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
21155280 TTCGAACTAG
* *
21155290 AATGAAAAGTTTTGAATTTTTGGATAAGAATCTTCAAAATTCA
1 AATGAAAAGCTTTGAACTTTTGGATAAGAATCTTCAAAATTCA
** *
21155333 AATGAAAAGCTTTGAACTTTTGGATGTGAATCTTCAAAGTTCA
1 AATGAAAAGCTTTGAACTTTTGGATAAGAATCTTCAAAATTCA
21155376 AAT
1 AAT
21155379 AAGAATCTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (43 bp):
AATGAAAAGCTTTGAACTTTTGGATAAGAATCTTCAAAATTCA
Found at i:21155679 original size:41 final size:42
Alignment explanation
Indices: 21155622--21155892 Score: 312
Period size: 42 Copynumber: 6.4 Consensus size: 42
21155612 GTCAAAAGCC
*
21155622 TTTTATTTTTCAAAGTTGTGATTGCCTCTATTTAGA-GAGCA
1 TTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAGGAGCA
*
21155663 TTTTATTTTTCAAAGTTCTGGTTGCCTCTATTTAGAGGAGCA
1 TTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAGGAGCA
* ** *
21155705 TTTTATTTTTCCTAAAGTTGTGGTTGCCTCTGTTTAGAAAAGTA
1 TTTTATTTTT-C-AAAGTTGTGGTTGCCTCTATTTAGAGGAGCA
* * * * * * *
21155749 ATTTGTTTTTCAAAGTTGTGGCTGCTTTTATTTACAAGAGCA
1 TTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAGGAGCA
* *
21155791 TTTTATTTTTCCTAATGTTGTGGTTGCCTCTATTTAGATGAGCA
1 TTTTATTTTT-C-AAAGTTGTGGTTGCCTCTATTTAGAGGAGCA
* *
21155835 ATTTATATTTTCAAAGTTGTGG-TGCCTCTATTTAAAGGAGCA
1 TTTTAT-TTTTCAAAGTTGTGGTTGCCTCTATTTAGAGGAGCA
* *
21155877 ATGTATTTTTCAAAGT
1 TTTTATTTTTCAAAGT
21155893 CGTTGAGCCT
Statistics
Matches: 195, Mismatches: 29, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
41 44 0.23
42 70 0.36
43 12 0.06
44 65 0.33
45 4 0.02
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (42 bp):
TTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAGGAGCA
Found at i:21155790 original size:86 final size:84
Alignment explanation
Indices: 21155622--21155916 Score: 332
Period size: 86 Copynumber: 3.5 Consensus size: 84
21155612 GTCAAAAGCC
* * *
21155622 TTTTATTTTT-C-AAAGTTGTGATTGCCTCTATTTAG-AGAGCATTTTATTTTTCAAAGTTCTGG
1 TTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAAGAGCAATTTATTTTTCAAAGTTGTGG
*
21155684 TTGCCTCTATTTAGAGGAGCA
66 -TGCCTCTATTTA-AAGAGCA
* * * *
21155705 TTTTATTTTTCCTAAAGTTGTGGTTGCCTCTGTTTAGAAAAGTAATTTGTTTTTCAAAGTTGTGG
1 TTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAAGAGCAATTTATTTTTCAAAGTTGTGG
* *
21155770 CTGCTTTTATTTACAAGAGCA
66 -TGCCTCTATTTA-AAGAGCA
* *
21155791 TTTTATTTTTCCTAATGTTGTGGTTGCCTCTATTTAGATGAGCAATTTATATTTTCAAAGTTGTG
1 TTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAAGAGCAATTTAT-TTTTCAAAGTTGTG
21155856 GTGCCTCTATTTAAAGGAGCA
65 GTGCCTCTATTTAAA-GAGCA
* * * * * *
21155877 ATGTATTTTT-C-AAAGTCGTTG-AGCCTTTATTTAGAAGAGC
1 TTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAAGAGC
21155917 TTTGTTTACT
Statistics
Matches: 179, Mismatches: 28, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
83 26 0.15
84 8 0.04
85 25 0.14
86 105 0.59
87 15 0.08
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.45
Consensus pattern (84 bp):
TTTTATTTTTCCTAAAGTTGTGGTTGCCTCTATTTAGAAGAGCAATTTATTTTTCAAAGTTGTGG
TGCCTCTATTTAAAGAGCA
Found at i:21155800 original size:42 final size:42
Alignment explanation
Indices: 21155622--21155934 Score: 319
Period size: 44 Copynumber: 7.3 Consensus size: 42
21155612 GTCAAAAGCC
*
21155622 TTTTATTTTTCAAAGTTGTGATTGCCTCTATTTAG-AGAGCA
1 TTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCA
* *
21155663 TTTTATTTTTCAAAGTTCTGGTTGCCTCTATTTAGAGGAGCA
1 TTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCA
* * *
21155705 TTTTATTTTTCCTAAAGTTGTGGTTGCCTCTGTTTAGAAAAGTA
1 TTTTATTTTT-C-AAAGTTGTGGTTGCCTCTATTTAGAAGAGCA
* * * * * *
21155749 ATTTGTTTTTCAAAGTTGTGGCTGCTTTTATTTACAAGAGCA
1 TTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCA
* *
21155791 TTTTATTTTTCCTAATGTTGTGGTTGCCTCTATTTAGATGAGCA
1 TTTTATTTTT-C-AAAGTTGTGGTTGCCTCTATTTAGAAGAGCA
*
21155835 ATTTATATTTTCAAAGTTGTGG-TGCCTCTATTTA-AAGGAGCA
1 TTTTAT-TTTTCAAAGTTGTGGTTGCCTCTATTTAGAA-GAGCA
* * * * * * *
21155877 ATGTATTTTTCAAAGTCGTTG-AGCCTTTATTTAGAAGAGCTT
1 TTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGC-A
21155919 TGTTTACTTTTTCAAA
1 T-TTTA-TTTTTCAAA
21155935 AAAAAAAAAC
Statistics
Matches: 225, Mismatches: 36, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
41 61 0.27
42 71 0.32
43 15 0.07
44 74 0.33
45 4 0.02
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.46
Consensus pattern (42 bp):
TTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAGAAGAGCA
Found at i:21155908 original size:41 final size:42
Alignment explanation
Indices: 21155816--21155909 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 42
21155806 TGTTGTGGTT
* * * * *
21155816 GCCTCTATTTAGATGAGCAATTTATATTTTCAAAGTTGTGGT
1 GCCTCTATTTAAAGGAGCAATGTATATTTTCAAAGTCGTGGA
*
21155858 GCCTCTATTTAAAGGAGCAATGTAT-TTTTCAAAGTCGTTGA
1 GCCTCTATTTAAAGGAGCAATGTATATTTTCAAAGTCGTGGA
*
21155899 GCCTTTATTTA
1 GCCTCTATTTA
21155910 GAAGAGCTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 23 0.51
42 22 0.49
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (42 bp):
GCCTCTATTTAAAGGAGCAATGTATATTTTCAAAGTCGTGGA
Found at i:21155952 original size:14 final size:14
Alignment explanation
Indices: 21155931--21155967 Score: 58
Period size: 14 Copynumber: 2.6 Consensus size: 14
21155921 TTTACTTTTT
21155931 CAAAAAAAA-AAAA
1 CAAAAAAAATAAAA
21155944 CATAAAAAAATAAAA
1 CA-AAAAAAATAAAA
21155959 CAAAAAAAA
1 CAAAAAAAA
21155968 GATGAATGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 14 0.64
15 6 0.27
ACGTcount: A:0.86, C:0.08, G:0.00, T:0.05
Consensus pattern (14 bp):
CAAAAAAAATAAAA
Found at i:21155952 original size:15 final size:14
Alignment explanation
Indices: 21155932--21155967 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
21155922 TTACTTTTTC
21155932 AAAAAAAAAAAACA
1 AAAAAAAAAAAACA
*
21155946 TAAAAAAATAAAACA
1 -AAAAAAAAAAAACA
21155961 AAAAAAA
1 AAAAAAA
21155968 GATGAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.89, C:0.06, G:0.00, T:0.06
Consensus pattern (14 bp):
AAAAAAAAAAAACA
Found at i:21156188 original size:6 final size:6
Alignment explanation
Indices: 21156165--21156232 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
21156155 AGCCCAACTG
* **
21156165 TTTATT TTT-TT ATTTATT TTTATT TTTATT TTTGTT TTGGTT TTTATT
1 TTTATT TTTATT -TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* *
21156213 TTGATTT TTTATT ATTATT T
1 TTTA-TT TTTATT TTTATT T
21156233 ATTTTATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
5 2 0.04
6 42 0.82
7 7 0.14
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (6 bp):
TTTATT
Found at i:21156197 original size:24 final size:24
Alignment explanation
Indices: 21156165--21156242 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
21156155 AGCCCAACTG
21156165 TTTATTTTTTTATTTATTTTTATT
1 TTTATTTTTTTATTTATTTTTATT
**
21156189 TTTATTTTTGTT-TTGGTTTTTATT
1 TTTATTTTT-TTATTTATTTTTATT
*
21156213 TTGA-TTTTTTA-TTATTATTTA-T
1 TTTATTTTTTTATTTATT-TTTATT
21156235 TTTATTTT
1 TTTATTTT
21156243 AAAATAATAG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
22 9 0.20
23 11 0.25
24 22 0.50
25 2 0.05
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (24 bp):
TTTATTTTTTTATTTATTTTTATT
Found at i:21156239 original size:12 final size:11
Alignment explanation
Indices: 21156165--21156242 Score: 68
Period size: 12 Copynumber: 6.7 Consensus size: 11
21156155 AGCCCAACTG
*
21156165 TTTATTTTTTT
1 TTTATTTTTAT
21156176 ATTTATTTTTATT
1 -TTTATTTTTA-T
*
21156189 TTTATTTTTGT
1 TTTATTTTTAT
*
21156200 TTTGGTTTTTAT
1 TTT-ATTTTTAT
21156212 TTTGATTTTT-T
1 TTT-ATTTTTAT
*
21156223 ATTATTATTTAT
1 TTTATT-TTTAT
21156235 TTTATTTT
1 TTTATTTT
21156243 AAAATAATAG
Statistics
Matches: 55, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
10 3 0.05
11 12 0.22
12 39 0.71
13 1 0.02
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:21156289 original size:11 final size:10
Alignment explanation
Indices: 21156263--21156288 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
21156253 GATATTAATT
21156263 AAAAAATGAA
1 AAAAAATGAA
21156273 AAAAAATGAA
1 AAAAAATGAA
21156283 AAAAAA
1 AAAAAA
21156289 AGTGGTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAATGAA
Found at i:21159597 original size:7 final size:7
Alignment explanation
Indices: 21159585--21159609 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21159575 TTGCATGATT
21159585 TTTTGAA
1 TTTTGAA
21159592 TTTTGAA
1 TTTTGAA
21159599 TTTTGAA
1 TTTTGAA
21159606 TTTT
1 TTTT
21159610 CAATCTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (7 bp):
TTTTGAA
Found at i:21162696 original size:28 final size:30
Alignment explanation
Indices: 21162662--21162722 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
21162652 ATATAATGTC
21162662 AAATA-TTTTT-AAAAATATAAAATAATAA
1 AAATATTTTTTAAAAAATATAAAATAATAA
* *
21162690 AAATATTTTTTAAAAAATATAAAGTATTAA
1 AAATATTTTTTAAAAAATATAAAATAATAA
21162720 AAA
1 AAA
21162723 ATATCACTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 5 0.17
29 5 0.17
30 19 0.66
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (30 bp):
AAATATTTTTTAAAAAATATAAAATAATAA
Found at i:21166125 original size:23 final size:22
Alignment explanation
Indices: 21166089--21166160 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 22
21166079 ACCCATTAGC
*
21166089 ATTTTTTTATAATTTTTTATTT
1 ATTTTTTTAAAATTTTTTATTT
*
21166111 ATTTTATTTAAAATTTATTTATTC
1 ATTTT-TTTAAAATTT-TTTATTT
*
21166135 ATTTTGTTTAAATTAATTTTTATTT
1 ATTTT-TTTAAA--ATTTTTTATTT
21166160 A
1 A
21166161 AAATAATTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.12
23 9 0.22
24 17 0.41
25 7 0.17
26 3 0.07
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (22 bp):
ATTTTTTTAAAATTTTTTATTT
Found at i:21166138 original size:24 final size:22
Alignment explanation
Indices: 21166088--21166146 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 22
21166078 GACCCATTAG
*
21166088 CATTTTTTTATAATTTTTTATT
1 CATTTTTTTAAAATTTTTTATT
*
21166110 TATTTTATTTAAAATTTATTTATT
1 CATTTT-TTTAAAATTT-TTTATT
21166134 CATTTTGTTTAAA
1 CATTTT-TTTAAA
21166147 TTAATTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 5 0.16
23 9 0.29
24 17 0.55
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (22 bp):
CATTTTTTTAAAATTTTTTATT
Found at i:21166160 original size:16 final size:16
Alignment explanation
Indices: 21166136--21166169 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21166126 TATTTATTCA
* *
21166136 TTTTGTTTAAATTAAT
1 TTTTATTTAAAATAAT
21166152 TTTTATTTAAAATAAT
1 TTTTATTTAAAATAAT
21166168 TT
1 TT
21166170 AAATAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTTTATTTAAAATAAT
Found at i:21166356 original size:13 final size:13
Alignment explanation
Indices: 21166340--21166365 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21166330 ATCTCAAAGT
21166340 TAAATCTTACCAA
1 TAAATCTTACCAA
21166353 TAAATCTTACCAA
1 TAAATCTTACCAA
21166366 ATTATTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAATCTTACCAA
Found at i:21169070 original size:24 final size:23
Alignment explanation
Indices: 21169042--21169120 Score: 81
Period size: 22 Copynumber: 3.4 Consensus size: 23
21169032 TCTTTTTCCA
21169042 ATATTTCAATTTTTTAAGAAAATT
1 ATATTTCAATTTTTTAA-AAAATT
**
21169066 ATATTTTTTTATTTTTT-AAAAATT
1 ATA--TTTCAATTTTTTAAAAAATT
* *
21169090 AGATTTCAATTTTTTAAAAAAAT
1 ATATTTCAATTTTTTAAAAAATT
21169113 A-ATTTCAA
1 ATATTTCAA
21169121 CTTTCATACT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 17 0.37
23 7 0.15
24 11 0.24
25 1 0.02
26 10 0.22
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.52
Consensus pattern (23 bp):
ATATTTCAATTTTTTAAAAAATT
Found at i:21170712 original size:13 final size:13
Alignment explanation
Indices: 21170691--21170720 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21170681 AGAGAATGTT
*
21170691 AAAACTAAAAAAA
1 AAAAATAAAAAAA
21170704 AAAAATAAAAAAA
1 AAAAATAAAAAAA
21170717 AAAA
1 AAAA
21170721 CAAGCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.90, C:0.03, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAAATAAAAAAA
Found at i:21171057 original size:25 final size:28
Alignment explanation
Indices: 21170996--21171059 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
21170986 ATAATATTTT
*
21170996 TAAATAAATATATTAAATAATAACTTTAT
1 TAAAT-AATATATTAAATAATAACTTTAA
*
21171025 TAATATAATATA-TGAATAA-AA-TTTAA
1 TAA-ATAATATATTAAATAATAACTTTAA
21171051 TAAATAATA
1 TAAATAATA
21171060 AAATATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 6 0.19
26 7 0.22
27 2 0.06
28 6 0.19
29 9 0.28
30 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
TAAATAATATATTAAATAATAACTTTAA
Found at i:21171064 original size:22 final size:24
Alignment explanation
Indices: 21170980--21171064 Score: 57
Period size: 26 Copynumber: 3.3 Consensus size: 24
21170970 CAAATTATAT
**
21170980 ATAAATATAATATTTTTAAATAAATA
1 ATAAA-ATAATAACTTT-AATAAATA
* *
21171006 TATTAAATAATAACTTTATTAATATA
1 -ATAAAATAATAACTTTAATAA-ATA
21171032 ATATATGAATAA-AA-TTTAATAAATA
1 ATA-A--AATAATAACTTTAATAAATA
21171057 ATAAAATA
1 ATAAAATA
21171065 TATATTCTTA
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
22 4 0.08
24 1 0.02
25 12 0.25
26 20 0.42
27 6 0.12
28 5 0.10
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (24 bp):
ATAAAATAATAACTTTAATAAATA
Found at i:21172191 original size:17 final size:18
Alignment explanation
Indices: 21172168--21172218 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
21172158 TTTTATTAAT
21172168 ATAATAAAATATATATTA
1 ATAATAAAATATATATTA
*
21172186 AT-ATAAAAT-TAAATTA
1 ATAATAAAATATATATTA
21172202 ATAATAAAATTATATAT
1 ATAATAAAA-TATATAT
21172219 ATATATCTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 8 0.29
17 13 0.46
18 3 0.11
19 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAATAAAATATATATTA
Found at i:21174945 original size:36 final size:36
Alignment explanation
Indices: 21174905--21174999 Score: 111
Period size: 36 Copynumber: 2.6 Consensus size: 36
21174895 GTATATGCTG
* *
21174905 AACCAAAGATTTGTTATATATGTTTGAGAAAA-AAAA
1 AACCAAAGATTTATTATATATGTGTGA-AAAAGAAAA
* * *
21174941 AACCAAAAATTTACTATATATGTGTGAAAAAGAAAC
1 AACCAAAGATTTATTATATATGTGTGAAAAAGAAAA
* *
21174977 AATCAAAGATTTATTATGTATGT
1 AACCAAAGATTTATTATATATGT
21175000 ATAAACTTTG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
35 4 0.08
36 45 0.92
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.32
Consensus pattern (36 bp):
AACCAAAGATTTATTATATATGTGTGAAAAAGAAAA
Found at i:21177847 original size:2 final size:2
Alignment explanation
Indices: 21177840--21177865 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21177830 TTAGCCCATA
21177840 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21177866 TATTGGCCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21178902 original size:14 final size:15
Alignment explanation
Indices: 21178883--21178915 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21178873 ATTTTTGCAC
21178883 TTGATTT-GAATAAT
1 TTGATTTGGAATAAT
*
21178897 TTGATTTGGATTAAT
1 TTGATTTGGAATAAT
21178912 TTGA
1 TTGA
21178916 GCATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (15 bp):
TTGATTTGGAATAAT
Done.