Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 8 of 318
Found at i:2800176 original size:39 final size:40
Alignment explanation
Indices: 2799979--2800179 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
2799969 GGACTAAGAT
* * * *
2799979 CCGAAGGCATTTG-GC-AGATACTAATTCC-GGCT-AAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATC
* *
2800015 CCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATC
*
2800055 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATC
* **
2800095 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGT-
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAATC
** * *
2800134 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATT
1 CCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAATC
2800173 CCGAAGG
1 CCGAAGG
2800180 TACGTGATTT
Statistics
Matches: 142, Mismatches: 15, Indels: 13
0.84 0.09 0.08
Matches are distributed among these distances:
36 12 0.08
37 2 0.01
38 19 0.13
39 32 0.23
40 75 0.53
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAATC
Found at i:2801600 original size:4 final size:4
Alignment explanation
Indices: 2801591--2801630 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
2801581 AGCAAACGTG
2801591 AGAA AGAA AGAA AGAA AGAA AGAA AG-A AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
2801631 TAGAAAAGGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.09
4 32 0.91
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:2802346 original size:17 final size:17
Alignment explanation
Indices: 2802306--2802349 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
2802296 ATTATGAGCC
*
2802306 TAAAAAAAACTAAATAG
1 TAAAAAATACTAAATAG
* *
2802323 TATAAAAATACTTATTAG
1 TA-AAAAATACTAAATAG
2802341 TAAAAAATA
1 TAAAAAATA
2802350 ATAATATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (17 bp):
TAAAAAATACTAAATAG
Found at i:2807588 original size:46 final size:46
Alignment explanation
Indices: 2807538--2807713 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
2807528 TGGTTGAGCA
2807538 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
2807584 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
2807629 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
2807677 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
2807714 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.56
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:2807694 original size:93 final size:93
Alignment explanation
Indices: 2807535--2807706 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
2807525 GGATGGTTGA
* * *
2807535 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
2807600 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
2807628 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
2807693 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
2807707 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:2810484 original size:135 final size:135
Alignment explanation
Indices: 2810298--2810947 Score: 998
Period size: 135 Copynumber: 4.8 Consensus size: 135
2810288 TTTCAATCCA
* * * * * ** *
2810298 TGGAGATAAGATTCACCGAAATTTGGTCTGC-TCTGCTCCTACTCAGCGAAGATAAGACCTGGTA
1 TGGAGATAAGATTCTCCAAAATTTGATCTGCTTC-ACTCCTGCTCAATGAAGATAAGATCTGGTA
* * * * * **
2810362 TATTTATCCTGCTCCACTCCTACTCAGTGAAGATAAAGCTGATGATTGGAATCTGTTTAATCGCC
65 TATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGCC
2810427 GGTACG
130 GGTACG
*
2810433 TGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCTTGCTCAATGAAGATAAGATCTGGTAT
1 TGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTAT
* *
2810498 ATTTAGCCTACTCCACTCCTGCTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGCTG
66 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGCCG
2810563 GTACG
131 GTACG
* *
2810568 TGGAGATAAGATTCTCCAAAATTCGATCTACTTCACTCCTGCTCAATGAAGATAAGATCTGGTAT
1 TGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTAT
*
2810633 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGTCG
66 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGCCG
2810698 GTACG
131 GTACG
* * *
2810703 TGGAGACAAGATTCTCCAAAATTCGATCTGCTTCACTCTTGCTCAATGAAGATAAGATCTGGTAT
1 TGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTAT
*
2810768 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGCTG
66 ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGCCG
2810833 GTACG
131 GTACG
* *
2810838 TAGAGATAAGATTCTCCAAAACTTGATCTGCTTCACTCCTGCTCAATGAAGATAAGATC-GAGTA
1 TGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAATGAAGATAAGATCTG-GTA
* * *
2810902 TGTTTAACCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATGAT
65 TATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGTTGATGAT
2810948 ATCTGTCTTT
Statistics
Matches: 476, Mismatches: 37, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
134 1 0.00
135 473 0.99
136 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (135 bp):
TGGAGATAAGATTCTCCAAAATTTGATCTGCTTCACTCCTGCTCAATGAAGATAAGATCTGGTAT
ATTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGTTGATGATTGGAATCTGCTCCATCGCCG
GTACG
Found at i:2810521 original size:45 final size:44
Alignment explanation
Indices: 2810466--2810668 Score: 144
Period size: 45 Copynumber: 4.5 Consensus size: 44
2810456 TGATCTGCTT
* *
2810466 CACTCTTGCTCAATGAAGATAAGATCTGGTATATTTAGCCTACTC
1 CACTCCTGCTCAGTGAAGATAAGATCT-GTATATTTAGCCTACTC
* * ** *
2810511 CACTCCTGCTCAGTGAAGATAAGGT-TG-ATGATTGGAATCTGCTC
1 CACTCCTGCTCAGTGAAGATAAGATCTGTAT-ATT-TAGCCTACTC
* * ** * * * * *
2810555 CA-TCGCTGGT-ACGTGGAGATAAGATTCTCCAAAATTCGATCTACTT
1 CACTC-CTGCTCA-GTGAAGATAAGA-TCTGTATATTTAG-CCTACTC
* *
2810601 CACTCCTGCTCAATGAAGATAAGATCTGGTATATTTAGCCTGCTC
1 CACTCCTGCTCAGTGAAGATAAGATCT-GTATATTTAGCCTACTC
2810646 CACTCCTGCTCAGTGAAGATAAG
1 CACTCCTGCTCAGTGAAGATAAG
2810669 GTTGATGATT
Statistics
Matches: 117, Mismatches: 30, Indels: 22
0.69 0.18 0.13
Matches are distributed among these distances:
42 2 0.02
43 7 0.06
44 23 0.20
45 52 0.44
46 29 0.25
47 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
CACTCCTGCTCAGTGAAGATAAGATCTGTATATTTAGCCTACTC
Found at i:2818721 original size:21 final size:21
Alignment explanation
Indices: 2818697--2818741 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2818687 GCTGGCTCAT
*
2818697 CATGTTGTTCTGTGACTCCAG
1 CATGTTGTTCTGGGACTCCAG
* *
2818718 CATGTTTTTCTGGGACTCTAG
1 CATGTTGTTCTGGGACTCCAG
2818739 CAT
1 CAT
2818742 TTGATCATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (21 bp):
CATGTTGTTCTGGGACTCCAG
Found at i:2839348 original size:38 final size:37
Alignment explanation
Indices: 2839283--2839413 Score: 102
Period size: 38 Copynumber: 3.4 Consensus size: 37
2839273 ACCAGAATGG
*
2839283 CACCCAGTGCCTCATCGGATAGTTCGAAGCAAAGTTGA
1 CACCCAGTGCCTCATCGGATAGATCGAAGCAAAG-TGA
* * * *
2839321 CACCCAGTGCCTCATTGGCCTA-ATCGAAGTAAAGTGG
1 CACCCAGTGCCTCATCGG-ATAGATCGAAGCAAAGTGA
* * * **
2839358 TACCCAGTACCTCATCGAATCTATCCGAAGTACAATAGTGA
1 CACCCAGTGCCTCATCGGATAGAT-CGAAG--CAA-AGTGA
*
2839399 CACCCAGTGTCTCAT
1 CACCCAGTGCCTCAT
2839414 TGACTCGAGA
Statistics
Matches: 71, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
36 1 0.01
37 18 0.25
38 32 0.45
39 2 0.03
40 2 0.03
41 16 0.23
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGATAGATCGAAGCAAAGTGA
Found at i:2840865 original size:3 final size:3
Alignment explanation
Indices: 2840857--2840927 Score: 53
Period size: 3 Copynumber: 25.0 Consensus size: 3
2840847 TAATTTATTT
* * * *
2840857 TAA TAA TAA TAT TAA TAA TAA TAA TTA TAA T-T TAA TAA T-T TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
2840902 TAA -AA CT-A TAA TAA TAA TTA TAA TAA
1 TAA TAA -TAA TAA TAA TAA TAA TAA TAA
2840928 ATATCTATTT
Statistics
Matches: 52, Mismatches: 10, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
2 7 0.13
3 45 0.87
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:2846064 original size:8 final size:7
Alignment explanation
Indices: 2846037--2846062 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
2846027 TTTGCACATC
2846037 AAAAAGA
1 AAAAAGA
2846044 AAAAAGA
1 AAAAAGA
2846051 AAAAAGA
1 AAAAAGA
2846058 AAAAA
1 AAAAA
2846063 AGGGAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:2848228 original size:19 final size:20
Alignment explanation
Indices: 2848188--2848237 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
2848178 CTTTATGTAA
2848188 TTAAAATAAATTATATTATT
1 TTAAAATAAATTATATTATT
*
2848208 TTAAAATAATTTAATATT-TT
1 TTAAAATAAATT-ATATTATT
*
2848228 TAAAAATAAA
1 TTAAAATAAA
2848238 ATTTGAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTAAAATAAATTATATTATT
Found at i:2849138 original size:29 final size:29
Alignment explanation
Indices: 2849102--2849175 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
2849092 CTTTTCACAA
2849102 ATTT-AAAATTTAATATTTGTACTTTTAT
1 ATTTAAAAATTTAATATTTGTACTTTTAT
* *
2849130 -TTATAAAAATTTAATATTTTTATTTTTAT
1 ATT-TAAAAATTTAATATTTGTACTTTTAT
*
2849159 ATTTCAAAATTT-ATATT
1 ATTTAAAAATTTAATATT
2849176 CAATTGTTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 2 0.05
28 6 0.15
29 30 0.75
30 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (29 bp):
ATTTAAAAATTTAATATTTGTACTTTTAT
Found at i:2850850 original size:193 final size:193
Alignment explanation
Indices: 2850600--2850988 Score: 611
Period size: 193 Copynumber: 2.0 Consensus size: 193
2850590 CCAAATAAAA
* * * *
2850600 AAAGAGAAAACTACATCGTTTTGATAAATTTTTACTTTTTCTAAAGTTAAAAGTCAAAATCATTA
1 AAAGACAAAACTACATCATTTTGATAAATTTTAACTTTTTCTAAAGTTAAAAGTCAAAACCATTA
* * * *
2850665 AGTTAAAAGAGAAAATTATATTGTTTTGATAAATATTTACTCATTAAATTAAAAAATAAAATAAT
66 AGTTAAAAGACAAAATTACATCGTTTTAATAAATATTTACTCATTAAATTAAAAAATAAAATAAT
*
2850730 TATATTATTTATATAGTTAAATAATCTTATACTTTGTTTACTAATTAAATAATC-GATCCATGT
131 TATATTATTTATATAGTTAAATAATCTTATACTTCGTTTACTAATTAAATAATCAG-TCCATGT
* * *
2850793 AAAGACAAAAGTACGTCATTTTGATAAATATTTAAC-TTTTCTAATGTTAAAAGTCAAAACCATT
1 AAAGACAAAACTACATCATTTTGATAAAT-TTTAACTTTTTCTAAAGTTAAAAGTCAAAACCATT
*
2850857 AAGTTAAAAGACAAAATTACATCGTTTTAATAAATATTTACTCATTAAATTAAAAGATAAAATAA
65 AAGTTAAAAGACAAAATTACATCGTTTTAATAAATATTTACTCATTAAATTAAAAAATAAAATAA
* *
2850922 TTATATTATTTATGTAGTTAAATAATCTTGTACTTCGTTTACTAATTAAATAATCAGTCCATGT
130 TTATATTATTTATATAGTTAAATAATCTTATACTTCGTTTACTAATTAAATAATCAGTCCATGT
2850986 AAA
1 AAA
2850989 CTCAATATTG
Statistics
Matches: 179, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
193 173 0.97
194 6 0.03
ACGTcount: A:0.44, C:0.09, G:0.08, T:0.39
Consensus pattern (193 bp):
AAAGACAAAACTACATCATTTTGATAAATTTTAACTTTTTCTAAAGTTAAAAGTCAAAACCATTA
AGTTAAAAGACAAAATTACATCGTTTTAATAAATATTTACTCATTAAATTAAAAAATAAAATAAT
TATATTATTTATATAGTTAAATAATCTTATACTTCGTTTACTAATTAAATAATCAGTCCATGT
Found at i:2855928 original size:21 final size:22
Alignment explanation
Indices: 2855885--2855930 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
2855875 AATAAAATAC
2855885 ATTTAATGTTGGTTATGAATTT
1 ATTTAATGTTGGTTATGAATTT
*
2855907 ATTTAATTTTGTGTT-T-AATTT
1 ATTTAATGTTG-GTTATGAATTT
2855928 ATT
1 ATT
2855931 AAATATAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 11 0.50
23 3 0.14
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (22 bp):
ATTTAATGTTGGTTATGAATTT
Found at i:2857859 original size:17 final size:18
Alignment explanation
Indices: 2857837--2857874 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
2857827 TTTTTATACC
2857837 AAATTTAAAT-TAT-AAAT
1 AAATTT-AATCTATAAAAT
2857854 AAATTTAATCTATAAAAT
1 AAATTTAATCTATAAAAT
2857872 AAA
1 AAA
2857875 AGATATTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 9 0.47
18 7 0.37
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAATTTAATCTATAAAAT
Found at i:2864398 original size:29 final size:30
Alignment explanation
Indices: 2864327--2864408 Score: 71
Period size: 29 Copynumber: 2.7 Consensus size: 30
2864317 TAAATCTTAA
* *
2864327 AATTATAC-ATGAATTTTGATTTAATATGC
1 AATTATACAATGAACTTTAATTTAATATGC
* *
2864356 AATTGTATATATGAACTTTAATTT-A-ATGC
1 AATTATACA-ATGAACTTTAATTTAATATGC
*
2864385 AATTATACAGATGAAACTCTAATT
1 AATTATACA-ATG-AACTTTAATT
2864409 GCGGTTCAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
29 20 0.48
30 10 0.24
31 12 0.29
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (30 bp):
AATTATACAATGAACTTTAATTTAATATGC
Found at i:2867261 original size:39 final size:37
Alignment explanation
Indices: 2867194--2867286 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
2867184 ACCAGAATGG
* *
2867194 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
2867233 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
2867270 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
2867287 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:2867649 original size:3 final size:3
Alignment explanation
Indices: 2867641--2867681 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
2867631 ATTCCCACTC
* *
2867641 ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A TTA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2867682 TTATACTTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 32 0.97
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2868413 original size:17 final size:16
Alignment explanation
Indices: 2868381--2868414 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
2868371 TTGGCTATTC
*
2868381 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
2868397 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
2868414 T
1 T
2868415 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:2868462 original size:14 final size:14
Alignment explanation
Indices: 2868403--2868453 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2868393 CTTTTGTTTC
*
2868403 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
2868416 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
2868431 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
2868445 TTTTATTTC
1 TTTTATTTC
2868454 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:2868622 original size:14 final size:17
Alignment explanation
Indices: 2868603--2868639 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
2868593 ATTTATTTCT
2868603 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
2868617 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
2868634 TAATAT
1 TAATAT
2868640 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:2871493 original size:25 final size:25
Alignment explanation
Indices: 2871465--2871517 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
2871455 TCATTTTTCA
2871465 ATCAATACGCTTTTCAAATAATTAC
1 ATCAATACGCTTTTCAAATAATTAC
2871490 ATCAATACGCTTTTCAAATAATTAC
1 ATCAATACGCTTTTCAAATAATTAC
2871515 ATC
1 ATC
2871518 TTCCATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.36
Consensus pattern (25 bp):
ATCAATACGCTTTTCAAATAATTAC
Found at i:2872381 original size:14 final size:14
Alignment explanation
Indices: 2872322--2872372 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
2872312 TTTTGTTTTC
*
2872322 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
2872335 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
2872350 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
2872364 TTTTATTTC
1 TTTTATTTC
2872373 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:2872541 original size:14 final size:17
Alignment explanation
Indices: 2872522--2872558 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
2872512 ATTTATTTCT
2872522 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
2872536 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
2872553 TAATAT
1 TAATAT
2872559 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:2873987 original size:11 final size:11
Alignment explanation
Indices: 2873971--2874013 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
2873961 CTATTTTCTA
2873971 AATAAAATATT
1 AATAAAATATT
2873982 AAT-AAATATCT
1 AATAAAATAT-T
2873993 AAGTAAAATATT
1 AA-TAAAATATT
2874005 AATAAAATA
1 AATAAAATA
2874014 ATATTTAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
10 6 0.21
11 13 0.45
12 4 0.14
13 6 0.21
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
AATAAAATATT
Found at i:2873994 original size:23 final size:23
Alignment explanation
Indices: 2873967--2874010 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
2873957 AATACTATTT
2873967 TCTAAATAAAATATTAATAAATA
1 TCTAAATAAAATATTAATAAATA
*
2873990 TCTAAGTAAAATATTAATAAA
1 TCTAAATAAAATATTAATAAA
2874011 ATAATATTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (23 bp):
TCTAAATAAAATATTAATAAATA
Found at i:2881582 original size:26 final size:26
Alignment explanation
Indices: 2881545--2881604 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 26
2881535 TTTTGTAGTG
2881545 TAATAAATAATTTTTCTAT-TTAA-ATT
1 TAAT-AATAATTTTT-TATATTAATATT
2881571 TAATAATGAATTTTTTATATTAATATT
1 TAATAAT-AATTTTTTATATTAATATT
2881598 TATATAA
1 TA-ATAA
2881605 CTTTTGAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.20
26 15 0.50
27 5 0.17
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (26 bp):
TAATAATAATTTTTTATATTAATATT
Found at i:2889400 original size:17 final size:18
Alignment explanation
Indices: 2889380--2889414 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
2889370 ATCATAAATC
2889380 AATCATAATTA-TCTTTT
1 AATCATAATTACTCTTTT
2889397 AATCATAATTACTCTTTT
1 AATCATAATTACTCTTTT
2889415 GTAACTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.51
Consensus pattern (18 bp):
AATCATAATTACTCTTTT
Found at i:2893090 original size:5 final size:5
Alignment explanation
Indices: 2893080--2893107 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2893070 TTTATACTGT
2893080 ACCAA ACCAA ACCAA ACCAA ACCAA ACC
1 ACCAA ACCAA ACCAA ACCAA ACCAA ACC
2893108 GAAGGGGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.43, G:0.00, T:0.00
Consensus pattern (5 bp):
ACCAA
Found at i:2898535 original size:15 final size:16
Alignment explanation
Indices: 2898515--2898555 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
2898505 CGTGACATAA
2898515 TTTAAAAATGAAA-AT
1 TTTAAAAATGAAATAT
2898530 TTTAAAAAAT-AAATAT
1 TTT-AAAAATGAAATAT
*
2898546 TGTAAAAATG
1 TTTAAAAATG
2898556 GATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (16 bp):
TTTAAAAATGAAATAT
Found at i:2901445 original size:15 final size:15
Alignment explanation
Indices: 2901397--2901450 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
2901387 AAAGTAAAAC
2901397 AAAAGAAAAAGAAATG
1 AAAAGAAAAAG-AATG
*
2901413 AAAAAAAAAAG-ATAG
1 AAAAGAAAAAGAAT-G
*
2901428 AAAAGAAACAGAATG
1 AAAAGAAAAAGAATG
*
2901443 AAACGAAA
1 AAAAGAAA
2901451 CAGAGAGCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
14 2 0.06
15 18 0.56
16 12 0.38
ACGTcount: A:0.74, C:0.04, G:0.17, T:0.06
Consensus pattern (15 bp):
AAAAGAAAAAGAATG
Found at i:2903369 original size:54 final size:54
Alignment explanation
Indices: 2903241--2903536 Score: 224
Period size: 54 Copynumber: 5.4 Consensus size: 54
2903231 AAAGGTATAA
* *
2903241 AATAACTGATTATTACTGAATAATT-AACTGTTACCGAATAATTGATTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGAA-TGTTACTGAATAATTGATTGTTACTG
* * * * * **
2903295 GAT-ATTAGACTGTTATTGAATAATTGAATATTACTGAATAATTGATCATTACTG
1 AATAACT-GATTGTTACTGAATAATTGAATGTTACTGAATAATTGATTGTTACTG
* * *
2903349 AATAACTGATTGTCACTGAATGAA-TGACTGTTACTGAATAACTTAATTGTTACTG
1 AATAACTGATTGTTACTGAAT-AATTGAATGTTACTGAATAA-TTGATTGTTACTG
* * * *
2903404 AATACCTGATT-TTACTGAATAATTGACTGTTACTGGATAACCGATCAATTGATCGATACTG
1 AATAACTGATTGTTACTGAATAATTGAATGTTACT-G---A---AT-AATTGATTGTTACTG
* * * * * * *
2903465 AATAACTGGTTATTATTGAATAATTGATTGTTACCGAATAACTGACTGTTACTG
1 AATAACTGATTGTTACTGAATAATTGAATGTTACTGAATAATTGATTGTTACTG
* *
2903519 AATAAATAATTGTT-CTGA
1 AATAACTGATTGTTACTGA
2903537 TTGTTAATGA
Statistics
Matches: 189, Mismatches: 38, Indels: 31
0.73 0.15 0.12
Matches are distributed among these distances:
53 7 0.04
54 107 0.57
55 29 0.15
58 2 0.01
61 22 0.12
62 22 0.12
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (54 bp):
AATAACTGATTGTTACTGAATAATTGAATGTTACTGAATAATTGATTGTTACTG
Found at i:2903532 original size:18 final size:18
Alignment explanation
Indices: 2903241--2903536 Score: 195
Period size: 18 Copynumber: 16.1 Consensus size: 18
2903231 AAAGGTATAA
* *
2903241 AATAACTGATTATTACTG
1 AATAATTGATTGTTACTG
* * *
2903259 AATAATTAACTGTTACCG
1 AATAATTGATTGTTACTG
2903277 AATAATTGATTGTTACTG
1 AATAATTGATTGTTACTG
* * *
2903295 GAT-ATTAGACTGTTATTG
1 AATAATT-GATTGTTACTG
* *
2903313 AATAATTGAATATTACTG
1 AATAATTGATTGTTACTG
**
2903331 AATAATTGATCATTACTG
1 AATAATTGATTGTTACTG
* *
2903349 AATAACTGATTGTCACTG
1 AATAATTGATTGTTACTG
*
2903367 AATGAA-TGACTGTTACTG
1 AAT-AATTGATTGTTACTG
*
2903385 AATAACTTAATTGTTACTG
1 AATAA-TTGATTGTTACTG
**
2903404 AATACCTGATT-TTACTG
1 AATAATTGATTGTTACTG
*
2903421 AATAATTGACTGTTACTGG
1 AATAATTGATTGTTACT-G
* *
2903440 ATAACCGATCAATTGATCGATACTG
1 ---A---AT-AATTGATTGTTACTG
* * * *
2903465 AATAACTGGTTATTATTG
1 AATAATTGATTGTTACTG
*
2903483 AATAATTGATTGTTACCG
1 AATAATTGATTGTTACTG
* *
2903501 AATAACTGACTGTTACTG
1 AATAATTGATTGTTACTG
* *
2903519 AATAAATAATTGTT-CTG
1 AATAATTGATTGTTACTG
2903536 A
1 A
2903537 TTGTTAATGA
Statistics
Matches: 213, Mismatches: 51, Indels: 29
0.73 0.17 0.10
Matches are distributed among these distances:
17 23 0.11
18 152 0.71
19 22 0.10
22 2 0.01
25 3 0.01
26 11 0.05
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (18 bp):
AATAATTGATTGTTACTG
Found at i:2905408 original size:21 final size:21
Alignment explanation
Indices: 2905362--2905408 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
2905352 ATTTAATATT
* *
2905362 TATAATATATTATTATAATAA
1 TATAATATAATATTAAAATAA
2905383 TATAATATAATATTTAAAATAA
1 TATAATATAATA-TTAAAATAA
2905405 -ATAA
1 TATAA
2905409 AAGAAACAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATAATATAATATTAAAATAA
Found at i:2905419 original size:18 final size:17
Alignment explanation
Indices: 2905398--2905431 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2905388 TATAATATTT
2905398 AAAATAAATAAAAGAAAC
1 AAAATAAA-AAAAGAAAC
*
2905416 AAAATAGAAAAAGAAA
1 AAAATAAAAAAAGAAA
2905432 GAACAGAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.79, C:0.03, G:0.09, T:0.09
Consensus pattern (17 bp):
AAAATAAAAAAAGAAAC
Found at i:2905446 original size:21 final size:19
Alignment explanation
Indices: 2905421--2905474 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
2905411 GAAACAAAAT
2905421 AGAAAAAGAAAGAACAGAGAA
1 AGAAAAAGAAAGAA-AG-GAA
* *
2905442 TGAAAACGAAATAGAAAGGAA
1 AGAAAAAG-AA-AGAAAGGAA
2905463 AGAAAAAGAAAG
1 AGAAAAAGAAAG
2905475 GAAAAATAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
19 2 0.07
20 2 0.07
21 15 0.56
22 4 0.15
23 4 0.15
ACGTcount: A:0.69, C:0.04, G:0.24, T:0.04
Consensus pattern (19 bp):
AGAAAAAGAAAGAAAGGAA
Found at i:2905472 original size:15 final size:15
Alignment explanation
Indices: 2905449--2905478 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2905439 GAATGAAAAC
*
2905449 GAAATAGAAAGGAAA
1 GAAAAAGAAAGGAAA
2905464 GAAAAAGAAAGGAAA
1 GAAAAAGAAAGGAAA
2905479 AATAGGGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.27, T:0.03
Consensus pattern (15 bp):
GAAAAAGAAAGGAAA
Found at i:2906645 original size:61 final size:61
Alignment explanation
Indices: 2906571--2906685 Score: 187
Period size: 61 Copynumber: 1.9 Consensus size: 61
2906561 TTTTTATCAT
*
2906571 CCCAATTAGCTTTTCAAATAAATTCACTACCATTTAAATAATAAT-TTTTATCATCTATTAA
1 CCCAATTAGCTTTTCAAATAAATTCACAACCATTTAAATAATAATATTTT-TCATCTATTAA
* *
2906632 CCCAATTAGCTTTTCAAATAAATTTACAATCATTTAAATAATAATATTTTTCAT
1 CCCAATTAGCTTTTCAAATAAATTCACAACCATTTAAATAATAATATTTTTCAT
2906686 TCATATGTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
61 46 0.92
62 4 0.08
ACGTcount: A:0.40, C:0.17, G:0.02, T:0.42
Consensus pattern (61 bp):
CCCAATTAGCTTTTCAAATAAATTCACAACCATTTAAATAATAATATTTTTCATCTATTAA
Found at i:2906845 original size:18 final size:18
Alignment explanation
Indices: 2906824--2906951 Score: 98
Period size: 18 Copynumber: 7.1 Consensus size: 18
2906814 AGTCACTATT
*
2906824 TAACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
*
2906842 TAAC-GATAAATTATTCAG
1 TAACAG-TCAATTATTCAG
*
2906860 TAACAATCAATTATTCAG
1 TAACAGTCAATTATTCAG
* ** **
2906878 TAACAATCTTTTACACAG
1 TAACAGTCAATTATTCAG
* *
2906896 TAGCAGTCAGTTA-TCTAG
1 TAACAGTCAATTATTC-AG
* *
2906914 TTACAGTCAGTTATTCAG
1 TAACAGTCAATTATTCAG
**
2906932 TAGTAGTCAATTATTCAG
1 TAACAGTCAATTATTCAG
2906950 TA
1 TA
2906952 CATTTATTTA
Statistics
Matches: 87, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
17 2 0.02
18 83 0.95
19 2 0.02
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (18 bp):
TAACAGTCAATTATTCAG
Found at i:2907148 original size:45 final size:47
Alignment explanation
Indices: 2907066--2907171 Score: 153
Period size: 45 Copynumber: 2.3 Consensus size: 47
2907056 CCGTAACGGT
*
2907066 AACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAGTAGAGGTA-ACAGAGTACCTCATCGGAACAAATCCGG
* *
2907114 AACAGTAACAGTA-AGGT-ACAGAGTACCTCTTCGGAACGAATCCGG
1 AACAGTAACAGTAGAGGTAACAGAGTACCTCATCGGAACAAATCCGG
*
2907159 AATAGTAACAGTA
1 AACAGTAACAGTA
2907172 CGACGACACT
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
45 38 0.70
47 3 0.06
48 13 0.24
ACGTcount: A:0.39, C:0.22, G:0.23, T:0.17
Consensus pattern (47 bp):
AACAGTAACAGTAGAGGTAACAGAGTACCTCATCGGAACAAATCCGG
Found at i:2907976 original size:20 final size:20
Alignment explanation
Indices: 2907923--2907962 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2907913 ATTTAAGTAT
*
2907923 TAAAAGATATTTATTAATTA
1 TAAAATATATTTATTAATTA
2907943 TAAAATATATTTATTAATTA
1 TAAAATATATTTATTAATTA
2907963 AATAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAAAATATATTTATTAATTA
Found at i:2908202 original size:20 final size:18
Alignment explanation
Indices: 2908173--2908217 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
2908163 AACGAAAAGC
2908173 AGGG-AAAGAAAGAAAGAA
1 AGGGAAAAGAAAG-AAGAA
2908191 AGGAGAAAAGAAAGAAGAA
1 AGG-GAAAAGAAAGAAGAA
2908210 AGGGAAAA
1 AGGGAAAA
2908218 TTTGAAGGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGGGAAAAGAAAGAAGAA
Found at i:2910682 original size:19 final size:19
Alignment explanation
Indices: 2910650--2910688 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2910640 AATACTTATT
* * *
2910650 TATTATTTATACATGTGTA
1 TATTATTAACACATATGTA
2910669 TATTATTAACACATATGTA
1 TATTATTAACACATATGTA
2910688 T
1 T
2910689 CCATTTATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.49
Consensus pattern (19 bp):
TATTATTAACACATATGTA
Found at i:2910768 original size:31 final size:32
Alignment explanation
Indices: 2910712--2910774 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
2910702 TACATTTGTC
*
2910712 ATAATTTAATTTATTTATTACATAAAAATCTT
1 ATAATATAATTTATTTATTACATAAAAATCTT
*
2910744 ATAATATAA-TTATTTAATTA-ATAAATATCTT
1 ATAATATAATTTATTT-ATTACATAAAAATCTT
2910775 TTACTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
ATAATATAATTTATTTATTACATAAAAATCTT
Found at i:2910782 original size:18 final size:19
Alignment explanation
Indices: 2910754--2910807 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
2910744 ATAATATAAT
2910754 TATTTAATTAATAAATATC
1 TATTTAATTAATAAATATC
* *
2910773 T-TTTACTTAATAATTATC
1 TATTTAATTAATAAATATC
2910791 TATTTAA-TAATTAAATA
1 TATTTAATTAA-TAAATA
2910808 CAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTAATTAATAAATATC
Found at i:2911715 original size:29 final size:30
Alignment explanation
Indices: 2911656--2911713 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2911646 TCCGAGCCTT
*
2911656 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
2911686 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
2911714 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:2911943 original size:13 final size:13
Alignment explanation
Indices: 2911925--2911956 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2911915 TTTCCAGCAA
2911925 TTATGAATTTATT
1 TTATGAATTTATT
2911938 TTATGAATTTATT
1 TTATGAATTTATT
*
2911951 TGATGA
1 TTATGA
2911957 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:2912164 original size:50 final size:50
Alignment explanation
Indices: 2912051--2912292 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
2912041 ATTTGGGTAA
* * *
2912051 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
2912107 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2912157 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
2912207 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
2912257 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
2912293 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:2912240 original size:100 final size:103
Alignment explanation
Indices: 2912051--2912300 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
2912041 ATTTGGGTAA
2912051 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
2912116 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
2912157 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
2912219 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
2912257 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
2912301 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:2914444 original size:6 final size:6
Alignment explanation
Indices: 2914424--2914473 Score: 55
Period size: 6 Copynumber: 8.2 Consensus size: 6
2914414 ATGAGGTACT
* * **
2914424 CTGTGTA CTGATA CTGTTA CTGTTA TTGTTA CTGCAA CTGTTA CTGTTA
1 CTGT-TA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA CTGTTA
2914473 C
1 C
2914474 GGTGTATTCC
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
6 32 0.91
7 3 0.09
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (6 bp):
CTGTTA
Found at i:2916716 original size:18 final size:17
Alignment explanation
Indices: 2916673--2916717 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
2916663 GGGCGGTGGC
2916673 CGGCG-CCGACGACGGA
1 CGGCGACCGACGACGGA
*
2916689 CGGCGACCGACGATCGGC
1 CGGCGACCGACGA-CGGA
*
2916707 CGGTGACCGAC
1 CGGCGACCGAC
2916718 CCCCTTGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 5 0.20
17 7 0.28
18 13 0.52
ACGTcount: A:0.18, C:0.38, G:0.40, T:0.04
Consensus pattern (17 bp):
CGGCGACCGACGACGGA
Found at i:2917174 original size:3 final size:3
Alignment explanation
Indices: 2917166--2917195 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2917156 CTACTTTAAT
2917166 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2917196 CTTCTAATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:2921671 original size:20 final size:20
Alignment explanation
Indices: 2921646--2921685 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2921636 TTGCCAAAAG
2921646 GTAAATGAAAGCTTCTATTT
1 GTAAATGAAAGCTTCTATTT
2921666 GTAAATGAAAGCTTCTATTT
1 GTAAATGAAAGCTTCTATTT
2921686 TCGCTCTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
GTAAATGAAAGCTTCTATTT
Found at i:2924134 original size:15 final size:15
Alignment explanation
Indices: 2924114--2924142 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2924104 TCGTCCTCAG
2924114 CCTCTCCTTCATCTC
1 CCTCTCCTTCATCTC
2924129 CCTCTCCTTCATCT
1 CCTCTCCTTCATCT
2924143 TCTTTGTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.52, G:0.00, T:0.41
Consensus pattern (15 bp):
CCTCTCCTTCATCTC
Found at i:2930688 original size:16 final size:17
Alignment explanation
Indices: 2930649--2930689 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
2930639 AATAGTAAAA
2930649 TATAATTTTATTATTTT
1 TATAATTTTATTATTTT
*
2930666 AAT-ATTTTA-TATTTT
1 TATAATTTTATTATTTT
2930681 TATAATTTT
1 TATAATTTT
2930690 TAAAAGATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.38
16 11 0.52
17 2 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATAATTTTATTATTTT
Found at i:2930688 original size:24 final size:23
Alignment explanation
Indices: 2930620--2930689 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 23
2930610 GAAGCTAAAA
*
2930620 TTAAATTTTATATTTTTATAATA
1 TTAAATTTTATATTTTTATAATT
* * * *
2930643 GTAAA--ATATAATTTTATTATT
1 TTAAATTTTATATTTTTATAATT
2930664 TTAATATTTTATATTTTTATAATT
1 TTAA-ATTTTATATTTTTATAATT
2930688 TT
1 TT
2930690 TAAAAGATTA
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
21 15 0.43
22 1 0.03
23 4 0.11
24 15 0.43
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (23 bp):
TTAAATTTTATATTTTTATAATT
Found at i:2930719 original size:30 final size:28
Alignment explanation
Indices: 2930678--2930741 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 28
2930668 TATTTTATAT
* *
2930678 TTTTATAATTTTTAAAAGATTAAATTAAAA
1 TTTTATAATTTTCAAAA-A-TAAAATAAAA
* *
2930708 TTTTATTATTTTCAAAAATAAAATATAA
1 TTTTATAATTTTCAAAAATAAAATAAAA
2930736 TTTTAT
1 TTTTAT
2930742 CGTTACTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 14 0.47
29 1 0.03
30 15 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (28 bp):
TTTTATAATTTTCAAAAATAAAATAAAA
Found at i:2932271 original size:16 final size:16
Alignment explanation
Indices: 2932243--2932282 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
2932233 CAGAGAGCAG
*
2932243 GGGAAAGAAAGAAGGAA
1 GGGAAA-AAAGAAAGAA
2932260 GGGAAAAAAGAAAGAA
1 GGGAAAAAAGAAAGAA
2932276 -GGAAAAA
1 GGGAAAAA
2932283 GGGAAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.32
16 9 0.41
17 6 0.27
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (16 bp):
GGGAAAAAAGAAAGAA
Found at i:2933971 original size:45 final size:45
Alignment explanation
Indices: 2933905--2934030 Score: 182
Period size: 45 Copynumber: 2.8 Consensus size: 45
2933895 TTACTGATCA
* **
2933905 GGCAC-TTATGTGTCGGCTACTGTTACTGTTACTGTTACCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
* *
2933949 GGCACTTTGTGTGTCGAATACTGTTACTGTTACCGTTATCGATTC
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
* *
2933994 AGCACTTTGTGTGTTGAATACTGTTACTGTTACTGTT
1 GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTT
2934031 CTGAATTTGT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
44 5 0.07
45 68 0.93
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.41
Consensus pattern (45 bp):
GGCACTTTGTGTGTCGAATACTGTTACTGTTACTGTTACCGATTC
Found at i:2934304 original size:36 final size:36
Alignment explanation
Indices: 2934194--2934332 Score: 113
Period size: 36 Copynumber: 3.9 Consensus size: 36
2934184 AAAAGTATAA
* *
2934194 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGGTTATTACTGAATAATTGATTGTTACCG
* * * * * *
2934230 AATATACTAG--ATAACCG-ATCAATTGATCGATACTG
1 AATA-ACTGGTTATTACTGAAT-AATTGATTGTTACCG
*
2934265 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGGTTATTACTGAATAATTGATTGTTACCG
* * * * *
2934301 AATAAGTGGCTGTTACTGAATAAATAATTGTT
1 AATAACTGGTTATTACTGAATAATTGATTGTT
2934333 CTGATTGTTA
Statistics
Matches: 77, Mismatches: 21, Indels: 10
0.71 0.19 0.09
Matches are distributed among these distances:
34 6 0.08
35 20 0.26
36 46 0.60
37 5 0.06
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.36
Consensus pattern (36 bp):
AATAACTGGTTATTACTGAATAATTGATTGTTACCG
Found at i:2936308 original size:114 final size:114
Alignment explanation
Indices: 2936108--2936336 Score: 449
Period size: 114 Copynumber: 2.0 Consensus size: 114
2936098 AAATTCATCC
2936108 TGCCTCACCTCACCTTATCTTATCCCACCCAACATCCACTTTTCAAAAAGAAAAAAACTCAATCT
1 TGCCTCACCTCACCTTATCTTATCCCACCCAACATCCACTTTTCAAAAAGAAAAAAACTCAATCT
2936173 ATCAAGTAAGGATTAATTCGAAATAAATTGGATCATTCGAGTTTTGTTA
66 ATCAAGTAAGGATTAATTCGAAATAAATTGGATCATTCGAGTTTTGTTA
*
2936222 TGCCTCACCTCACCTTATCTTATCTCACCCAACATCCACTTTTCAAAAAGAAAAAAACTCAATCT
1 TGCCTCACCTCACCTTATCTTATCCCACCCAACATCCACTTTTCAAAAAGAAAAAAACTCAATCT
2936287 ATCAAGTAAGGATTAATTCGAAATAAATTGGATCATTCGAGTTTTGTTA
66 ATCAAGTAAGGATTAATTCGAAATAAATTGGATCATTCGAGTTTTGTTA
2936336 T
1 T
2936337 TCCTATTTTC
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
114 114 1.00
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.31
Consensus pattern (114 bp):
TGCCTCACCTCACCTTATCTTATCCCACCCAACATCCACTTTTCAAAAAGAAAAAAACTCAATCT
ATCAAGTAAGGATTAATTCGAAATAAATTGGATCATTCGAGTTTTGTTA
Found at i:2939515 original size:2 final size:2
Alignment explanation
Indices: 2939508--2939532 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2939498 TGTCTGACAA
2939508 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2939533 CTTTCCCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2946708 original size:21 final size:20
Alignment explanation
Indices: 2946675--2946719 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
2946665 CAACGTGGCA
*
2946675 AGTTGACTGGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
*
2946695 TAGTTAACTTGCCACATCAGC
1 -AGTTAACTGGCCACATCAGC
2946716 AGTT
1 AGTT
2946720 CTGTTAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAGC
Found at i:2948569 original size:3 final size:3
Alignment explanation
Indices: 2948561--2948597 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2948551 TGTTCTCTGC
2948561 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
2948598 TAAAAGAGGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2954772 original size:39 final size:39
Alignment explanation
Indices: 2954711--2954831 Score: 197
Period size: 39 Copynumber: 3.1 Consensus size: 39
2954701 AATTATATTA
*
2954711 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * *
2954750 CCTGCACGAAGCCTACGAGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
2954789 TCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
2954828 CCAG
1 CCAG
2954832 TATCTTGCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.25, C:0.31, G:0.23, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:2957461 original size:53 final size:54
Alignment explanation
Indices: 2957387--2957539 Score: 204
Period size: 55 Copynumber: 2.8 Consensus size: 54
2957377 TTTGAACTTT
* *
2957387 CCAATGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G-AACTC
1 CCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGTAACTC
* * *
2957439 ACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTCGCCTTATAGTAACTC
1 -CCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT-GCCTTATAGTAACTC
*
2957494 CTCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTA
1 C-CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTA
2957540 GTGCCAATGC
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
52 4 0.05
53 36 0.42
54 2 0.02
55 40 0.47
56 4 0.05
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (54 bp):
CCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGTAACTC
Found at i:2957516 original size:55 final size:53
Alignment explanation
Indices: 2957387--2957673 Score: 195
Period size: 55 Copynumber: 5.7 Consensus size: 53
2957377 TTTGAACTTT
* * *
2957387 CCAATGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCA
1 CCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCA
* *
2957440 CCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTCGCCTTATAGTAACTC-
1 CCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT-GCCTTAT-G-AACTCA
* * *
2957494 CTCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTA-G---T-G
1 C-CAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCA
** ** * * *
2957543 CCAATGCCACATCTTGATGTGGTCTTACAT-GGAGTCC-T---TAATCAA-T-G
1 CCAATGCCATGTCTTGACATGGTCTTACATGGGA-TCCTTGCCTTATGAACTCA
** *
2957590 CTGATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCC---T----T-A
1 CCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCA
* *
2957635 CCAATGCCATGTCTTGACATGGTCTTATATGGTATCCTT
1 CCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTT
2957674 AACCGTCAAT
Statistics
Matches: 190, Mismatches: 29, Indels: 38
0.74 0.11 0.15
Matches are distributed among these distances:
44 2 0.01
45 35 0.18
47 31 0.16
48 33 0.17
49 2 0.01
52 4 0.02
53 37 0.19
54 2 0.01
55 40 0.21
56 4 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (53 bp):
CCAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCA
Found at i:2957614 original size:47 final size:47
Alignment explanation
Indices: 2957387--2957674 Score: 179
Period size: 45 Copynumber: 5.9 Consensus size: 47
2957377 TTTGAACTTT
* * * * *
2957387 CCAATGTCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCA
1 CCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT---ATCT-AA-T-G
* * * * *
2957440 CCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTCGCCTTATAGTAACTC
1 CCAATGCCATGTCTTGACATGGTCTTACATGGTA---T--CCTTAT-CTAA-TG
* *
2957494 CTCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTAGTG
1 C-CAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTATC-TAATG
** **
2957543 CCAATGCCACATCTTGATGTGGTCTTACATGG-AGTCCTTAATC-AATG
1 CCAATGCCATGTCTTGACATGGTCTTACATGGTA-TCCTT-ATCTAATG
** * * ** *
2957590 CTGATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCT--TA
1 CCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTATCTAATG
*
2957635 CCAATGCCATGTCTTGACATGGTCTTATATGGTATCCTTA
1 CCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTA
2957675 ACCGTCAATT
Statistics
Matches: 186, Mismatches: 37, Indels: 32
0.73 0.15 0.13
Matches are distributed among these distances:
45 35 0.19
46 1 0.01
47 34 0.18
48 33 0.18
49 4 0.02
50 7 0.04
52 1 0.01
53 29 0.16
54 1 0.01
55 35 0.19
56 2 0.01
58 4 0.02
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.34
Consensus pattern (47 bp):
CCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTATCTAATG
Found at i:2957683 original size:95 final size:93
Alignment explanation
Indices: 2957498--2957675 Score: 243
Period size: 95 Copynumber: 1.9 Consensus size: 93
2957488 TAACTCCTCA
* * * **
2957498 ATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGTCTTAGTGCCAATGCCACATCTTGATGT
1 ATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCTTA--GCCAATGCCACATCTTGACAT
2957563 GGTCTTACATGGAGTCCTTAATCAATGCTG
64 GGTCTTACATGGAGTCCTTAATCAATGCTG
**
2957593 ATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCTTA-CCAATGCCATGTCTTGACATGG
1 ATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCTTAGCCAATGCCACATCTTGACATGG
*
2957657 TCTTATATGGTA-TCCTTAA
66 TCTTACATGG-AGTCCTTAA
2957676 CCGTCAATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
92 34 0.46
93 1 0.01
95 39 0.53
ACGTcount: A:0.21, C:0.23, G:0.20, T:0.35
Consensus pattern (93 bp):
ATGCCATGTCTTGACATGGTCTTACACGGGATCCTTGCCTTAGCCAATGCCACATCTTGACATGG
TCTTACATGGAGTCCTTAATCAATGCTG
Found at i:2957743 original size:44 final size:44
Alignment explanation
Indices: 2957677--2957762 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
2957667 TATCCTTAAC
* *
2957677 CGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGACTTTTT
1 CGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGACTTTTT
* *
2957721 CGTCAATTCTTCCTTAATTGCCATGGTACAACCATGGACTTT
1 CGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTT
2957763 GAGATATCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (44 bp):
CGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGACTTTTT
Found at i:2958203 original size:7 final size:7
Alignment explanation
Indices: 2958186--2958218 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
2958176 TTTTACCAAC
2958186 TTTTCCGA
1 TTTT-CGA
2958194 TTTTCGA
1 TTTTCGA
2958201 TTTTCGA
1 TTTTCGA
2958208 TTTTCGA
1 TTTTCGA
2958215 TTTT
1 TTTT
2958219 TCTCTCGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.61
Consensus pattern (7 bp):
TTTTCGA
Found at i:2961926 original size:3 final size:3
Alignment explanation
Indices: 2961918--2961951 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2961908 AGAAGGCGAC
* *
2961918 GAA GAA GAA GAT GAT GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
2961952 GTTGAGATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.35, T:0.06
Consensus pattern (3 bp):
GAA
Found at i:2965496 original size:96 final size:98
Alignment explanation
Indices: 2965381--2965573 Score: 372
Period size: 96 Copynumber: 2.0 Consensus size: 98
2965371 TTTTATATTA
2965381 AAATATAATAATATATTTATAATTAAAATTAATTAAATTAAAATACTTAACTCAATCATAATATA
1 AAATATAATAATATATTTATAATTAAAATTAATTAAATTAAAATACTTAACTCAATCATAATATA
2965446 ATAAGAAGCCTGTAATAAAGGCATTTATTAGTT
66 ATAAGAAGCCTGTAATAAAGGCATTTATTAGTT
2965479 AAAT-TAA-AATATATTTATAATTAAAATTAATTAAATTAAAATACTTAACTCAATCATAATATA
1 AAATATAATAATATATTTATAATTAAAATTAATTAAATTAAAATACTTAACTCAATCATAATATA
2965542 ATAAGAAGCCTGTAATAAAGGCATTTATTAGT
66 ATAAGAAGCCTGTAATAAAGGCATTTATTAGT
2965574 CTCTCTCGTG
Statistics
Matches: 95, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
96 88 0.93
97 3 0.03
98 4 0.04
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.36
Consensus pattern (98 bp):
AAATATAATAATATATTTATAATTAAAATTAATTAAATTAAAATACTTAACTCAATCATAATATA
ATAAGAAGCCTGTAATAAAGGCATTTATTAGTT
Found at i:2965500 original size:17 final size:16
Alignment explanation
Indices: 2965477--2965521 Score: 65
Period size: 15 Copynumber: 2.8 Consensus size: 16
2965467 CATTTATTAG
*
2965477 TTAAATTAAAATATAT
1 TTAAATTAAAATATAA
2965493 TTATAATTAAAAT-TAA
1 TTA-AATTAAAATATAA
2965509 TTAAATTAAAATA
1 TTAAATTAAAATA
2965522 CTTAACTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 9 0.35
16 8 0.31
17 9 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAATTAAAATATAA
Found at i:2970648 original size:19 final size:20
Alignment explanation
Indices: 2970605--2970646 Score: 70
Period size: 18 Copynumber: 2.2 Consensus size: 20
2970595 ACATCAGTCA
2970605 TTTTATCTTAAATTTTAATT
1 TTTTATCTTAAATTTTAATT
2970625 TTTTAT-TTAAA-TTTAATT
1 TTTTATCTTAAATTTTAATT
2970643 TTTT
1 TTTT
2970647 TAAATAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 11 0.50
19 5 0.23
20 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTATCTTAAATTTTAATT
Found at i:2970654 original size:19 final size:19
Alignment explanation
Indices: 2970613--2970654 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2970603 CATTTTATCT
**
2970613 TAAATTTTAATTTTTTATT
1 TAAATTTTAATTTTTTAAA
2970632 TAAA-TTTAATTTTTTTAAA
1 TAAATTTTAA-TTTTTTAAA
2970651 TAAA
1 TAAA
2970655 AAAATTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TAAATTTTAATTTTTTAAA
Found at i:2975923 original size:18 final size:18
Alignment explanation
Indices: 2975900--2975934 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2975890 TAATTACCAT
2975900 TTTAATTACATTATAAGG
1 TTTAATTACATTATAAGG
**
2975918 TTTAATTGTATTATAAG
1 TTTAATTACATTATAAG
2975935 CTAGCTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (18 bp):
TTTAATTACATTATAAGG
Found at i:2978713 original size:13 final size:13
Alignment explanation
Indices: 2978695--2978719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2978685 CATTCAATTT
2978695 TCAACCATCACCA
1 TCAACCATCACCA
2978708 TCAACCATCACC
1 TCAACCATCACC
2978720 TTTTTTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (13 bp):
TCAACCATCACCA
Found at i:2982008 original size:8 final size:7
Alignment explanation
Indices: 2981987--2982011 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
2981977 GCATCACTAT
2981987 ATTAAAA
1 ATTAAAA
2981994 ATTAAAA
1 ATTAAAA
2982001 ATTAAAA
1 ATTAAAA
2982008 ATTA
1 ATTA
2982012 CAAACAAGAC
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
ATTAAAA
Found at i:2990774 original size:14 final size:15
Alignment explanation
Indices: 2990755--2990783 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2990745 TTACAATCTC
2990755 CTTTTTT-TTTTTTT
1 CTTTTTTGTTTTTTT
2990769 CTTTTTTGTTTTTTT
1 CTTTTTTGTTTTTTT
2990784 TAAGGTCCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (15 bp):
CTTTTTTGTTTTTTT
Found at i:2993661 original size:18 final size:18
Alignment explanation
Indices: 2993638--2993672 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2993628 TCATACCTTA
*
2993638 TAATTTTTTATTGAATAC
1 TAATTTCTTATTGAATAC
*
2993656 TAATTTCTTATTTAATA
1 TAATTTCTTATTGAATA
2993673 AATTGTTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (18 bp):
TAATTTCTTATTGAATAC
Found at i:2994017 original size:22 final size:23
Alignment explanation
Indices: 2993978--2994027 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
2993968 ATTATAATGA
*
2993978 AATAAAACTGAAAATAAATATT-T
1 AATAAAAATGAAAATAAA-ATTAT
2994001 AATAAAAATG-AAATAAAATTAT
1 AATAAAAATGAAAATAAAATTAT
2994023 AATAA
1 AATAA
2994028 TATAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 3 0.12
22 13 0.52
23 9 0.36
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (23 bp):
AATAAAAATGAAAATAAAATTAT
Found at i:2997955 original size:29 final size:30
Alignment explanation
Indices: 2997898--2997965 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 30
2997888 CACCCTTAAA
* * * *
2997898 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCCTCAAATTTTC
*
2997928 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCCCTCAAATTTTC
2997957 AGTATTTAC
1 A-TATTTAC
2997966 TTTTACAATT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.28, C:0.21, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCCTCAAATTTTC
Found at i:2998520 original size:3 final size:3
Alignment explanation
Indices: 2998514--2998573 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
2998504 ATCTAAGATT
* **
2998514 TTA TTA TTA TTA TTAA TTA TTA GTA TGG TT- TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
2998558 TTA TTA TT- TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA
2998574 AGTTAAAGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
2 8 0.17
3 36 0.77
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:2998557 original size:22 final size:22
Alignment explanation
Indices: 2998524--2998573 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
2998514 TTATTATTAT
*
2998524 TATTAATTATTAGTATGGTTTTA
1 TATT-ATTATTAGTATGATTTTA
* *
2998547 TATTATTATTATTATTATTTTA
1 TATTATTATTAGTATGATTTTA
2998569 TATTA
1 TATTA
2998574 AGTTAAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (22 bp):
TATTATTATTAGTATGATTTTA
Found at i:2998692 original size:25 final size:23
Alignment explanation
Indices: 2998647--2998705 Score: 84
Period size: 25 Copynumber: 2.5 Consensus size: 23
2998637 ATAATGAAAA
2998647 TTGTAATAAAAATATTGGTACAT
1 TTGTAATAAAAATATTGGTACAT
2998670 TTGTAATAAATAGATATAT-GTACAT
1 TTGTAATAAA-A-ATAT-TGGTACAT
2998695 TTGTAATAAAA
1 TTGTAATAAAA
2998706 TAATTAAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
23 10 0.30
24 2 0.06
25 20 0.61
26 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.12, T:0.39
Consensus pattern (23 bp):
TTGTAATAAAAATATTGGTACAT
Found at i:3001692 original size:14 final size:15
Alignment explanation
Indices: 3001675--3001703 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3001665 GAGTATGGTA
3001675 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
3001689 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
3001704 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:3003329 original size:22 final size:21
Alignment explanation
Indices: 3003304--3003347 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
3003294 ATTAATATTT
3003304 TAATTAACATTTTCATTTAAAA
1 TAATTAAC-TTTTCATTTAAAA
* **
3003326 TAATTTACTTTTTTTTTAAAA
1 TAATTAACTTTTCATTTAAAA
3003347 T
1 T
3003348 TTAACTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATTAACTTTTCATTTAAAA
Found at i:3007855 original size:16 final size:16
Alignment explanation
Indices: 3007834--3007890 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
3007824 TTTGGTTCGC
*
3007834 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
3007850 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
3007866 TATAATGGAATAGAGG
1 TGTAATGGATTAGAGG
3007882 TGTAATGGA
1 TGTAATGGA
3007891 AAAGCTGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:3008161 original size:18 final size:17
Alignment explanation
Indices: 3008140--3008174 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
3008130 TTATTATTAA
*
3008140 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
3008158 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
3008175 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:3008233 original size:157 final size:155
Alignment explanation
Indices: 3008023--3008338 Score: 530
Period size: 154 Copynumber: 2.0 Consensus size: 155
3008013 TAGAATACCC
3008023 TTAGCAGAAATTTGTTTTGGTAAATGATTATTTATTGTTATTGTTATTTAAATTTTAATAAGATT
1 TTAGCAGAAATTTGTTTTGGTAAA-GATTATTTATTGTTATTGTTATTTAAATTTTAATAAGATT
*
3008088 ATTATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATT
65 A--A-TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATT
*
3008153 AAAATATATAATTTAATAAAATTCTTAATAA
127 -AAATATATAATTTAAT-AAATTCTTAAAAA
*
3008184 TTAGCATAAATTTGTTTTGGT-AA-ATTA-TTATTGTTATTGTTATTTAAATTTTAATAAGATTA
1 TTAGCAGAAATTTGTTTTGGTAAAGATTATTTATTGTTATTGTTATTTAAATTTTAATAAGATTA
3008246 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAT
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAT
3008311 ATATAATTTAATAAATTCTTAAAAA
131 ATATAATTTAATAAATTCTTAAAAA
3008336 TTA
1 TTA
3008339 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 3, Indels: 9
0.93 0.02 0.05
Matches are distributed among these distances:
152 15 0.10
153 16 0.11
154 59 0.39
155 1 0.01
157 35 0.23
158 4 0.03
160 2 0.01
161 20 0.13
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (155 bp):
TTAGCAGAAATTTGTTTTGGTAAAGATTATTTATTGTTATTGTTATTTAAATTTTAATAAGATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAT
ATATAATTTAATAAATTCTTAAAAA
Found at i:3008307 original size:15 final size:15
Alignment explanation
Indices: 3008283--3008314 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3008273 TTTAAACATA
*
3008283 ATTATTATTAAATAT
1 ATTATAATTAAATAT
3008298 ATTATAATTAAATAT
1 ATTATAATTAAATAT
3008313 AT
1 AT
3008315 AATTTAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:3008440 original size:14 final size:15
Alignment explanation
Indices: 3008391--3008442 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
3008381 GTAAAATATA
3008391 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
3008406 TATTAAATATATTAT
1 AATTAAATATATTAT
3008421 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
3008434 AATTTAATA
1 AATTAAATA
3008443 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:3008457 original size:44 final size:43
Alignment explanation
Indices: 3008368--3008458 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
3008358 CTCAAATCAT
* * *
3008368 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
3008411 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
3008455 AATA
1 AATA
3008459 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:3008484 original size:120 final size:120
Alignment explanation
Indices: 3008272--3008566 Score: 449
Period size: 120 Copynumber: 2.5 Consensus size: 120
3008262 ATTTAATCAT
*
3008272 ATTTAAACATAATTATTATTAAATATATTATAATTAAATATATAATTTAAT-AAATTCTTAAAAA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAATATATAATTTAATAAAATTCTTAAAAA
* * *
3008336 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 TTAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
3008392 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATT-AAATATATAATTTAATAAAATTCTTAA-A
*
3008455 AA-TAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
64 AATTAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
3008511 ATTTCAA-ATAATTAATATTAAATATGATT-TAATTAAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAATATATAATTTAATAAAATT
3008567 TAAAATTATT
Statistics
Matches: 163, Mismatches: 6, Indels: 13
0.90 0.03 0.07
Matches are distributed among these distances:
118 30 0.18
119 42 0.26
120 83 0.51
121 8 0.05
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAATATATAATTTAATAAAATTCTTAAAAA
TTAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:3008547 original size:15 final size:15
Alignment explanation
Indices: 3008527--3008565 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
3008517 AATAATTAAT
3008527 ATTAAATATGATTTA
1 ATTAAATATGATTTA
3008542 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
3008559 ATAAAAT
1 ATTAAAT
3008566 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:3008552 original size:17 final size:17
Alignment explanation
Indices: 3008532--3008565 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3008522 TTAATATTAA
*
3008532 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
3008549 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
3008566 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:3008708 original size:93 final size:92
Alignment explanation
Indices: 3008598--3008792 Score: 277
Period size: 93 Copynumber: 2.1 Consensus size: 92
3008588 GATTATAGTT
* * *
3008598 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* **
3008661 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGCTCTTA
* *
3008691 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
3008756 AAAATTCTTAATAATAAAATGCTCTTA
66 AAAATTCTTAATAATAAAATGCTCTTA
3008783 TATGAATTTA
1 TATGAATTTA
3008793 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
92 20 0.22
93 68 0.74
94 4 0.04
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGCTCTTA
Found at i:3020776 original size:12 final size:12
Alignment explanation
Indices: 3020761--3020819 Score: 55
Period size: 12 Copynumber: 4.9 Consensus size: 12
3020751 TTCTTCTTCT
*
3020761 TCATCGTCATCG
1 TCATCCTCATCG
* *
3020773 TCATCATCGTCG
1 TCATCCTCATCG
* * *
3020785 TCCTCCTCCTCC
1 TCATCCTCATCG
*
3020797 TCATCTTCATCG
1 TCATCCTCATCG
3020809 TCATCCTCATC
1 TCATCCTCATC
3020820 ATCTTCATCA
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.14, C:0.42, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCCTCATCG
Found at i:3020851 original size:15 final size:15
Alignment explanation
Indices: 3020803--3020852 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
3020793 CTCCTCATCT
*
3020803 TCATCGTCATCCTCA
1 TCATCTTCATCCTCA
* *
3020818 TCATCTTCATCAAT-T
1 TCATCTTCATC-CTCA
3020833 TCATCTTCATCCTCA
1 TCATCTTCATCCTCA
3020848 TCATC
1 TCATC
3020853 CAACTCAAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.22, C:0.36, G:0.02, T:0.40
Consensus pattern (15 bp):
TCATCTTCATCCTCA
Found at i:3020867 original size:30 final size:29
Alignment explanation
Indices: 3020803--3020868 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 29
3020793 CTCCTCATCT
* **
3020803 TCATCGTCATCCTCATCATCTTCATCAATT
1 TCATCTTCATCCTCATCATC-TCATCAAGC
3020833 TCATCTTCATCCTCATCATC-CAACTCAAGC
1 TCATCTTCATCCTCATCATCTC-A-TCAAGC
3020863 TCATCT
1 TCATCT
3020869 CCCTGAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 1 0.03
29 1 0.03
30 29 0.94
ACGTcount: A:0.24, C:0.36, G:0.03, T:0.36
Consensus pattern (29 bp):
TCATCTTCATCCTCATCATCTCATCAAGC
Found at i:3028424 original size:30 final size:30
Alignment explanation
Indices: 3028388--3028448 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
3028378 GATATACTCT
3028388 TAGATGATGCAGTAGTATCAGAAAAAAAGG
1 TAGATGATGCAGTAGTATCAGAAAAAAAGG
* * *
3028418 TAGATGATGCTGTGGTATCAGGAAAAAAGG
1 TAGATGATGCAGTAGTATCAGAAAAAAAGG
3028448 T
1 T
3028449 GGAAGAGACG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.23
Consensus pattern (30 bp):
TAGATGATGCAGTAGTATCAGAAAAAAAGG
Found at i:3036729 original size:2 final size:2
Alignment explanation
Indices: 3036722--3036758 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3036712 TTATTTTATA
*
3036722 TG TG TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
3036759 TTTCATGGTT
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:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:3038972 original size:78 final size:78
Alignment explanation
Indices: 3038843--3038994 Score: 250
Period size: 78 Copynumber: 1.9 Consensus size: 78
3038833 GAGTCACATC
* *
3038843 TCATGTAACTGTAGTGAATCAGGATTACATTTTCAAGTCAAATCCTATCCACCTTAGGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACATTTTCAAGTCAAATCCTATCCACCTTAAGTTACCAT
3038908 AATGAATCATATA
66 AATGAATCATATA
* * *
3038921 TCATGTAACTGTAGCGAATTAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACATTTTCAAGTCAAATCCTATCCACCTTAAGTTACCAT
*
3038986 AGTGAATCA
66 AATGAATCA
3038995 GGAATAAATC
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 68 1.00
ACGTcount: A:0.33, C:0.20, G:0.14, T:0.33
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACATTTTCAAGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:3039007 original size:40 final size:40
Alignment explanation
Indices: 3038959--3039096 Score: 186
Period size: 40 Copynumber: 3.5 Consensus size: 40
3038949 CTTTTCAGGT
*
3038959 CAAATCCTATCCACCTTAAGTTACCATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * * *
3038999 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGAAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
* * **
3039039 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
*
3039079 CGAATCCTATCCACTTTA
1 CAAATCCTATCCACTTTA
3039097 TATTCTCGAG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.30
Consensus pattern (40 bp):
CAAATCCTATCCACTTTAAGTTACCATAGTGAATCAGGAA
Found at i:3058773 original size:19 final size:19
Alignment explanation
Indices: 3058739--3058781 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
3058729 CCAAATATCG
*
3058739 TTAAAAAATTATATTTTTAT
1 TTAAAAAAGTATATTTTT-T
3058759 TTAAAAAAGTA-ATTTTTT
1 TTAAAAAAGTATATTTTTT
3058777 TTAAA
1 TTAAA
3058782 TATTAAGATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.27
19 6 0.27
20 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TTAAAAAAGTATATTTTTT
Found at i:3060034 original size:22 final size:22
Alignment explanation
Indices: 3060008--3060058 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
3059998 ATATCTAAAC
3060008 AATAACAACAAAATAGTAACAA
1 AATAACAACAAAATAGTAACAA
* * * *
3060030 TATAATAGCAAAATGGTAACAA
1 AATAACAACAAAATAGTAACAA
3060052 AATAACA
1 AATAACA
3060059 TAAAAAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.63, C:0.12, G:0.08, T:0.18
Consensus pattern (22 bp):
AATAACAACAAAATAGTAACAA
Found at i:3060064 original size:22 final size:21
Alignment explanation
Indices: 3060008--3060064 Score: 51
Period size: 22 Copynumber: 2.6 Consensus size: 21
3059998 ATATCTAAAC
3060008 AATAACAACAAAATAGTAACAA
1 AATAACAA-AAAATAGTAACAA
* * * *
3060030 TATAATAGCAAAATGGTAACAA
1 AATAACA-AAAAATAGTAACAA
3060052 AATAACATAAAAA
1 AATAACA-AAAAA
3060065 AAAAGAGAGG
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.65, C:0.11, G:0.07, T:0.18
Consensus pattern (21 bp):
AATAACAAAAAATAGTAACAA
Found at i:3067306 original size:13 final size:13
Alignment explanation
Indices: 3067288--3067325 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
3067278 CAGTAATTCT
3067288 ATATTTTTTAAAA
1 ATATTTTTTAAAA
*
3067301 ATATTTTGTTCAAA
1 ATATTTT-TTAAAA
3067315 AT-TTTTTTAAA
1 ATATTTTTTAAA
3067326 TATTAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 4 0.18
13 11 0.50
14 7 0.32
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (13 bp):
ATATTTTTTAAAA
Found at i:3067353 original size:20 final size:21
Alignment explanation
Indices: 3067328--3067379 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
3067318 TTTTTAAATA
3067328 TTAAAAATAAAT-ATAAA-TTG
1 TTAAAAATAAATGA-AAATTTG
* *
3067348 TTAAAAATATATGAAAATTTT
1 TTAAAAATAAATGAAAATTTG
3067369 TTAAAAATAAA
1 TTAAAAATAAA
3067380 AAAATCTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (21 bp):
TTAAAAATAAATGAAAATTTG
Found at i:3069022 original size:29 final size:28
Alignment explanation
Indices: 3068950--3069032 Score: 80
Period size: 29 Copynumber: 2.9 Consensus size: 28
3068940 ATACATTTAA
* * *
3068950 AAATATATATCATTT-TTTTATATTATAT
1 AAATATAAAT-ATTTATTATATAATATAT
*
3068978 AAATATAATTATTTATGTATATAATATAT
1 AAATATAAATATTTAT-TATATAATATAT
3069007 AAATATAAA-ATATTATTATATTAATA
1 AAATATAAATAT-TTATTATA-TAATA
3069033 ATTATGTTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
27 4 0.09
28 15 0.33
29 27 0.59
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (28 bp):
AAATATAAATATTTATTATATAATATAT
Found at i:3069042 original size:12 final size:13
Alignment explanation
Indices: 3069021--3069079 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 13
3069011 ATAAAATATT
3069021 ATTATATTAAT-A
1 ATTATATTAATAA
*
3069033 ATTATGTTAATAA
1 ATTATATTAATAA
**
3069046 ATTATAAAAATTAA
1 ATTATATTAA-TAA
*
3069060 ATTAAATTAA-AA
1 ATTATATTAATAA
3069072 ATTTATAT
1 A-TTATAT
3069080 ATATAATTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
12 13 0.36
13 13 0.36
14 10 0.28
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (13 bp):
ATTATATTAATAA
Found at i:3081327 original size:30 final size:30
Alignment explanation
Indices: 3081268--3081328 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
3081258 AATAAGCCTC
**
3081268 AATTACTTGCAGAACACCAAATGGCGATTA
1 AATTACTTGCAGAACACCAAATGAAGATTA
3081298 AATTACTTGCAGAACACCAAATGAAGATTA
1 AATTACTTGCAGAACACCAAATGAAGATTA
3081328 A
1 A
3081329 TGTTAAGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (30 bp):
AATTACTTGCAGAACACCAAATGAAGATTA
Found at i:3084366 original size:15 final size:16
Alignment explanation
Indices: 3084338--3084368 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
3084328 TATATCTGAT
3084338 ATTTGTACTTTGATGC
1 ATTTGTACTTTGATGC
3084354 ATTTGTA-TTTGATGC
1 ATTTGTACTTTGATGC
3084369 CTATTTGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (16 bp):
ATTTGTACTTTGATGC
Found at i:3090706 original size:43 final size:43
Alignment explanation
Indices: 3090645--3090734 Score: 180
Period size: 43 Copynumber: 2.1 Consensus size: 43
3090635 GCATGCTTGC
3090645 ATTCCATGATTGAAAGAAATTAGTAGAATATACATTGGAAGAT
1 ATTCCATGATTGAAAGAAATTAGTAGAATATACATTGGAAGAT
3090688 ATTCCATGATTGAAAGAAATTAGTAGAATATACATTGGAAGAT
1 ATTCCATGATTGAAAGAAATTAGTAGAATATACATTGGAAGAT
3090731 ATTC
1 ATTC
3090735 AGGATTTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (43 bp):
ATTCCATGATTGAAAGAAATTAGTAGAATATACATTGGAAGAT
Found at i:3094633 original size:20 final size:18
Alignment explanation
Indices: 3094590--3094634 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3094580 TTTAATTGTG
* *
3094590 AATATTTTTAAATTTTTT
1 AATATTTTTAAAATTTTA
3094608 AATATTTTTATAAATTTTA
1 AATATTTTTA-AAATTTTA
3094627 AATTATTT
1 AA-TATTT
3094635 GTTGATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 8 0.35
20 5 0.22
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATATTTTTAAAATTTTA
Found at i:3099540 original size:16 final size:18
Alignment explanation
Indices: 3099508--3099542 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
3099498 TAATTAACCC
3099508 CTCAATTAAACTAATTTT
1 CTCAATTAAACTAATTTT
3099526 CTCAATT-AA-TAATTTT
1 CTCAATTAAACTAATTTT
3099542 C
1 C
3099543 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 2 0.12
18 7 0.41
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.46
Consensus pattern (18 bp):
CTCAATTAAACTAATTTT
Found at i:3101574 original size:23 final size:23
Alignment explanation
Indices: 3101526--3101576 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
3101516 TCATGCATGT
* *
3101526 AAGTGATAGCGGCATTATGGTAC
1 AAGTGATAGCGGCACTACGGTAC
* *
3101549 AAGTGATAGCGGTACTACGGTGC
1 AAGTGATAGCGGCACTACGGTAC
3101572 AAGTG
1 AAGTG
3101577 TTGTGGCACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (23 bp):
AAGTGATAGCGGCACTACGGTAC
Found at i:3104273 original size:16 final size:15
Alignment explanation
Indices: 3104227--3104293 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
3104217 ATAGTAAAAA
3104227 TATAATTTCATAATTTT
1 TATAATTT-AT-ATTTT
* *
3104244 AATAGTTTATATTTT
1 TATAATTTATATTTT
3104259 TATAATTTATCA-TTT
1 TATAATTTAT-ATTTT
* *
3104274 TATTAGTTTCTATTTT
1 TA-TAATTTATATTTT
3104290 TATA
1 TATA
3104294 TTTTTTAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
15 21 0.51
16 14 0.34
17 6 0.15
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.61
Consensus pattern (15 bp):
TATAATTTATATTTT
Done.