Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 36 of 290
Found at i:11539860 original size:11 final size:11
Alignment explanation
Indices: 11539829--11539871 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
11539819 CATGTAGTGC
11539829 TTGTATTTTTCT
1 TTGT-TTTTTCT
**
11539841 TTGCATTTTCT
1 TTGTTTTTTCT
*
11539852 TTGTTTTTTTT
1 TTGTTTTTTCT
11539863 TTGTTTTTT
1 TTGTTTTTT
11539872 TTTTTGCATA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 23 0.88
12 3 0.12
ACGTcount: A:0.05, C:0.07, G:0.09, T:0.79
Consensus pattern (11 bp):
TTGTTTTTTCT
Found at i:11539877 original size:12 final size:11
Alignment explanation
Indices: 11539846--11539875 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11539836 TTTCTTTGCA
*
11539846 TTTTCTTTGTT
1 TTTTTTTTGTT
11539857 TTTTTTTTGTT
1 TTTTTTTTGTT
11539868 TTTTTTTT
1 TTTTTTTT
11539876 TGCATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.07, T:0.90
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:11539995 original size:22 final size:21
Alignment explanation
Indices: 11539935--11539996 Score: 52
Period size: 26 Copynumber: 2.7 Consensus size: 21
11539925 CTTTAATTCT
*
11539935 TTATTTTTATAATATTATTAA
1 TTATTTTAATAATATTATTAA
*
11539956 TTAATTTAAATAGTTAATATTATTAA
1 TT-ATTT---TA-ATAATATTATTAA
11539982 TTATTTTAACTAATA
1 TTATTTTAA-TAATA
11539997 ATTTGATGTC
Statistics
Matches: 32, Mismatches: 3, Indels: 11
0.70 0.07 0.24
Matches are distributed among these distances:
21 2 0.06
22 11 0.34
25 5 0.16
26 14 0.44
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
TTATTTTAATAATATTATTAA
Found at i:11541006 original size:19 final size:20
Alignment explanation
Indices: 11540982--11541024 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
11540972 TTTCAATTTA
* *
11540982 AAAATA-AATAAAAAGTTAC
1 AAAATACAAAAAAAAATTAC
11541001 AAAATACAAAAAAAAATTAC
1 AAAATACAAAAAAAAATTAC
11541021 AAAA
1 AAAA
11541025 GAGAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (20 bp):
AAAATACAAAAAAAAATTAC
Found at i:11551579 original size:71 final size:72
Alignment explanation
Indices: 11551491--11551624 Score: 225
Period size: 72 Copynumber: 1.9 Consensus size: 72
11551481 TAAGGACTTT
*
11551491 TGGACTTTTGACCTGACTTATATATTTTTG-GACTCATTTATTATGTGTTTTACAACCCAATTAC
1 TGGACTTTTGACCTGACTTATATATTTTTGAAACTCATTTATTATGTGTTTTACAACCCAATTAC
11551555 TTAAGTG
66 TTAAGTG
* * *
11551562 TGGACTTTTGACTTGACTTATTTATTTTTGAAACTCATTTATTATGTTTTTTACAACCCAATT
1 TGGACTTTTGACCTGACTTATATATTTTTGAAACTCATTTATTATGTGTTTTACAACCCAATT
11551625 GAGTAATTAA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
71 28 0.48
72 30 0.52
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (72 bp):
TGGACTTTTGACCTGACTTATATATTTTTGAAACTCATTTATTATGTGTTTTACAACCCAATTAC
TTAAGTG
Found at i:11552193 original size:68 final size:67
Alignment explanation
Indices: 11552098--11552225 Score: 202
Period size: 68 Copynumber: 1.9 Consensus size: 67
11552088 AGACTTAAGT
* *
11552098 GTGGACTTTTGACCTGATTTATATATTTTTGGACTCATTTATTATGTGTTTTACAACCCAAGCTG
1 GTGGACTTTTGACCTGACTTATATATTTTTGAACTCATTTATTATGT-TTTTACAACCCAAGCTG
11552163 AGA
65 AGA
* * *
11552166 GTGGAGTTTTGACCTGACTTATTTATTTTTGAACTCATTTATTATGTTTTTACGACCCAA
1 GTGGACTTTTGACCTGACTTATATATTTTTGAACTCATTTATTATGTTTTTACAACCCAA
11552226 TTGAATAATT
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
67 12 0.22
68 43 0.78
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (67 bp):
GTGGACTTTTGACCTGACTTATATATTTTTGAACTCATTTATTATGTTTTTACAACCCAAGCTGA
GA
Found at i:11558853 original size:36 final size:36
Alignment explanation
Indices: 11558806--11558951 Score: 127
Period size: 35 Copynumber: 4.1 Consensus size: 36
11558796 TACTTACATG
* * * *
11558806 TATGGCTGAATACACAAGGTTGATTATATCATCACA
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
* * *
11558842 TATGGCCGAATATAC-ATGTTCAATATGTCATCATA
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
* * * * *
11558877 TATGACCGAATATACAA-GTTAAATAGAACATCACT
1 TATGGCCGAATATACAAGGTTCAATATATCATCACA
* * *
11558912 TATAGCCAAATTTACAA-GTTCAATATATCATTCACA
1 TATGGCCGAATATACAAGGTTCAATATATCA-TCACA
11558948 TATG
1 TATG
11558952 TACTTACCTA
Statistics
Matches: 85, Mismatches: 23, Indels: 4
0.76 0.21 0.04
Matches are distributed among these distances:
35 64 0.75
36 21 0.25
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (36 bp):
TATGGCCGAATATACAAGGTTCAATATATCATCACA
Found at i:11559835 original size:15 final size:15
Alignment explanation
Indices: 11559812--11559841 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11559802 TTAAAAACTC
11559812 TAATACAAAACATAT
1 TAATACAAAACATAT
*
11559827 TAATCCAAAACATAT
1 TAATACAAAACATAT
11559842 CTGTCATAAT
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:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (15 bp):
TAATACAAAACATAT
Found at i:11574024 original size:40 final size:39
Alignment explanation
Indices: 11573941--11574038 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 39
11573931 ATCATCTCCG
* * ** *
11573941 TCCAACCCAACACACCACG-TCGGGATAAAATTGACCTA
1 TCCAACCCTACACACCAAGTTCGGGATAAAATCAACCCA
* *
11573979 CCCAACCCTACACACCAAGTATGGGGATAAAATCAACCCA
1 TCCAACCCTACACACCAAGT-TCGGGATAAAATCAACCCA
11574019 TCCAACCCTACACACCAAGT
1 TCCAACCCTACACACCAAGT
11574039 GGTACCGTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
38 16 0.32
40 34 0.68
ACGTcount: A:0.38, C:0.37, G:0.11, T:0.14
Consensus pattern (39 bp):
TCCAACCCTACACACCAAGTTCGGGATAAAATCAACCCA
Found at i:11576455 original size:11 final size:11
Alignment explanation
Indices: 11576439--11576480 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
11576429 TAGCTATTTA
11576439 TAATAAAATAT
1 TAATAAAATAT
11576450 TAATAAAATAT
1 TAATAAAATAT
*
11576461 CTCATTAAAATAT
1 -T-AATAAAATAT
11576474 TAATAAA
1 TAATAAA
11576481 GTAATATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 16 0.59
12 2 0.07
13 9 0.33
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:11579007 original size:40 final size:40
Alignment explanation
Indices: 11578922--11579000 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
11578912 GTACAAATTG
* * *
11578922 TTACACTGGCACGAAGCCTAATACGCACTAAGCTCGATAA
1 TTACACTAGCACGAAACCTAATACGCACTAAGCCCGATAA
** * *
11578962 TTACACTAGCACGAAACCTGCTAGGCATTAAGCCCGATA
1 TTACACTAGCACGAAACCTAATACGCACTAAGCCCGATA
11579001 GATACACCGA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (40 bp):
TTACACTAGCACGAAACCTAATACGCACTAAGCCCGATAA
Found at i:11584548 original size:3 final size:3
Alignment explanation
Indices: 11584519--11584577 Score: 73
Period size: 3 Copynumber: 19.3 Consensus size: 3
11584509 AGATATTTAC
* * *
11584519 TTA TTA TTTA TAA TTA TTG TCA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
11584565 TCA TTA TTA TTA T
1 TTA TTA TTA TTA T
11584578 AATTTACAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:11592194 original size:3 final size:3
Alignment explanation
Indices: 11592166--11592220 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
11592156 GATATTTACC
* * * *
11592166 TAT TATT TAT AAT TAT TGT CAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11592212 TAT TAT TAT
1 TAT TAT TAT
11592221 AATTTACAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:11596716 original size:11 final size:11
Alignment explanation
Indices: 11596690--11596719 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
11596680 TATATATATT
11596690 TAAAAATAATA
1 TAAAAATAATA
11596701 T-AAAATAATA
1 TAAAAATAATA
11596711 TAAAAATAA
1 TAAAAATAA
11596720 ATACGGGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:11600189 original size:10 final size:10
Alignment explanation
Indices: 11600167--11600218 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
11600157 AAATCTGTCG
*
11600167 AAAA-TAATA
1 AAAATTAATT
*
11600176 AAAATTAATC
1 AAAATTAATT
11600186 AAAATTAATTAT
1 AAAATTAA-T-T
11600198 AAAATTAATT
1 AAAATTAATT
*
11600208 AAAATTCATT
1 AAAATTAATT
11600218 A
1 A
11600219 TGTTAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 4 0.11
10 23 0.62
11 2 0.05
12 8 0.22
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTAATT
Found at i:11600203 original size:22 final size:22
Alignment explanation
Indices: 11600176--11600219 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11600166 GAAAATAATA
11600176 AAAATTAATCAAAATTAATTAT
1 AAAATTAATCAAAATTAATTAT
* *
11600198 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTAATTAT
11600220 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAATTAATCAAAATTAATTAT
Found at i:11604654 original size:17 final size:17
Alignment explanation
Indices: 11604632--11604683 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
11604622 TTTTGCTTTG
11604632 TTCTTTTTCTTTGTTTT
1 TTCTTTTTCTTTGTTTT
11604649 TTC--TTTCTTTCGTTTT
1 TTCTTTTTCTTT-GTTTT
* *
11604665 TTGTTTATCTTTGTTTT
1 TTCTTTTTCTTTGTTTT
11604682 TT
1 TT
11604684 TTATGTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 7 0.23
16 7 0.23
17 10 0.33
18 6 0.20
ACGTcount: A:0.02, C:0.12, G:0.08, T:0.79
Consensus pattern (17 bp):
TTCTTTTTCTTTGTTTT
Found at i:11604658 original size:21 final size:21
Alignment explanation
Indices: 11604632--11604705 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
11604622 TTTTGCTTTG
11604632 TTCTTTTTCTTTGTTTTTTCT
1 TTCTTTTTCTTTGTTTTTTCT
* *
11604653 TTCTTTCGTTTTTTG-TTTATCT
1 TTCTTT--TTCTTTGTTTTTTCT
* * * *
11604675 TTGTTTTTTTTATGTTTATTCA
1 TTCTTTTTCTT-TGTTTTTTCT
11604697 TTCTTTTTC
1 TTCTTTTTC
11604706 CTTTTTTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
20 5 0.12
21 8 0.20
22 22 0.54
23 6 0.15
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.76
Consensus pattern (21 bp):
TTCTTTTTCTTTGTTTTTTCT
Found at i:11604687 original size:15 final size:14
Alignment explanation
Indices: 11604622--11604685 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 14
11604612 TTTTAAAAGG
* *
11604622 TTTTGCTTTG-TTC
1 TTTTTCTTTGTTTT
11604635 TTTTTCTTTGTTTT
1 TTTTTCTTTGTTTT
11604649 TTCTTTCTTTCGTTTTT
1 TT-TTTCTTT-G-TTTT
11604666 TGTTTATCTTTGTTTT
1 T-TTT-TCTTTGTTTT
11604682 TTTT
1 TTTT
11604686 ATGTTTATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
13 9 0.21
14 4 0.09
15 10 0.23
16 6 0.14
17 8 0.19
18 6 0.14
ACGTcount: A:0.02, C:0.11, G:0.09, T:0.78
Consensus pattern (14 bp):
TTTTTCTTTGTTTT
Found at i:11605550 original size:49 final size:49
Alignment explanation
Indices: 11605413--11605560 Score: 162
Period size: 49 Copynumber: 3.0 Consensus size: 49
11605403 TTTTCTCAGA
**
11605413 TTAAACTTACTTATTTTATTTATTTTTAAATC-TCTCATATATTATTTATT
1 TTAAACTTACTTATTTTATTTAGCTTTAAATCTTC-CATAT-TTATTTATT
** * *
11605463 TTAAACTTGTTTATTTTA--TAGCTTTAAGTCCTTTCATATGTTATTTATT
1 TTAAACTTACTTATTTTATTTAGCTTTAAAT-CTTCCATAT-TTATTTATT
*
11605512 TTAAACTTACTTATTTTATTTA-CTATAAATCTTCCATA-TTATTTATT
1 TTAAACTTACTTATTTTATTTAGCTTTAAATCTTCCATATTTATTTATT
11605559 TT
1 TT
11605561 GAACAGTTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 11
0.78 0.11 0.10
Matches are distributed among these distances:
47 11 0.13
48 8 0.10
49 38 0.46
50 23 0.28
51 2 0.02
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58
Consensus pattern (49 bp):
TTAAACTTACTTATTTTATTTAGCTTTAAATCTTCCATATTTATTTATT
Found at i:11605576 original size:99 final size:99
Alignment explanation
Indices: 11605413--11605615 Score: 238
Period size: 99 Copynumber: 2.1 Consensus size: 99
11605403 TTTTCTCAGA
* * *
11605413 TTAAACTTACTTATTTTATTTATTTTTAAATCTCTCATATATTATTTATTTTAAACTTGTTTATT
1 TTAAACTTACTTATTTTATTTATCTATAAATCTCTCACATATTATTTATTTTAAACTTGTTTATT
11605478 -TTATAGCTTTAAG-TCCTTTCATAT-GTTATTTATT
66 ATT-TA-CTTTAAGTTCCTTTCATATAG-TATTTATT
* *
11605512 TTAAACTTACTTATTTTATTTA-CTATAAATCT-TC-CATATTATTTATTTTGAACAGTTTTATT
1 TTAAACTTACTTATTTTATTTATCTATAAATCTCTCACATATTATTTATTTT-AA-ACTTGT-TT
* **
11605574 ATTATTTATTTTAAGTTTTTTTCATATAGTATTTATT
63 ATTATTTACTTTAAGTTCCTTTCATATAGTATTTATT
11605611 TTAAA
1 TTAAA
11605616 TTGTTTTATC
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
96 14 0.16
97 4 0.04
98 18 0.20
99 51 0.57
100 3 0.03
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.58
Consensus pattern (99 bp):
TTAAACTTACTTATTTTATTTATCTATAAATCTCTCACATATTATTTATTTTAAACTTGTTTATT
ATTTACTTTAAGTTCCTTTCATATAGTATTTATT
Found at i:11605667 original size:24 final size:24
Alignment explanation
Indices: 11605428--11605909 Score: 241
Period size: 26 Copynumber: 19.0 Consensus size: 24
11605418 CTTACTTATT
* *
11605428 TTATTTATTTTTAAATCTCTCATATA
1 TTATTTA-TTTTAAAT-TTTTATATA
11605454 TTATTTATTTTAAACTTGTTTAT-T-
1 TTATTTATTTTAAA-TT-TTTATATA
* * * *
11605478 TTA--TAGCTTTAAGTCCTTTCATATG
1 TTATTTA-TTTTAAAT--TTTTATATA
*
11605503 TTATTTATTTTAAACTTACTTAT-T-
1 TTATTTATTTTAAA-TT-TTTATATA
* * * **
11605527 TTATTTACTATAAA-TCTTCCATA
1 TTATTTATTTTAAATTTTTATATA
*
11605550 TTATTTATTTTGAACAGTTTTAT-TA
1 TTATTTATTTT-AA-ATTTTTATATA
*
11605575 TTATTTATTTTAAGTTTTTTTCATATA
1 TTATTTATTTTAA--ATTTTT-ATATA
*
11605602 GTATTTATTTTAAATTGTTTTATCATA
1 TTATTTATTTTAAA-T-TTTTAT-ATA
* *
11605629 TTATTTATTTT-AATTTATTTTGTA
1 TTATTTATTTTAAATTT-TTATATA
11605653 TTA-TTATTTTAAATTGTTTATATA
1 TTATTTATTTTAAATT-TTTATATA
* *
11605677 TTATTTACTTTAAATTTCTTTATAAA
1 TTATTTATTTTAAA-TT-TTTATATA
* * *
11605703 CTATTTATTTCAAATTGTTTTATATT
1 TTATTTATTTTAAA-T-TTTTATATA
*
11605729 TTATTTATGTTAAAATTTATGTATATA
1 TTATTTAT-TTTAAATTT-T-TATATA
* * *
11605756 TTGTCTATTCTGAACCA-TTTTATATA
1 TTATTTATT-TTAA--ATTTTTATATA
* *
11605782 TTACTTATTTTAATTTTTTTTCATATA
1 TTATTTATTTTAA--ATTTTT-ATATA
*
11605809 TTTTTTATTTTAAACTTTTTATATA
1 TTATTTATTTTAAA-TTTTTATATA
* * *
11605834 TTTTTTACTTTAAATTGTTTCATTTA
1 TTATTTATTTTAAATT-TTT-ATATA
11605860 TTATTTATTTTAAAACTTTTT-TATA
1 TTATTTATTTT-AAA-TTTTTATATA
* *
11605885 TTATTTATTTTTAATTTTTTTATA
1 TTATTTATTTTAAATTTTTATATA
11605909 T
1 T
11605910 ATAGTATTTT
Statistics
Matches: 356, Mismatches: 58, Indels: 86
0.71 0.12 0.17
Matches are distributed among these distances:
21 3 0.01
22 5 0.01
23 30 0.08
24 49 0.14
25 86 0.24
26 101 0.28
27 77 0.22
28 4 0.01
29 1 0.00
ACGTcount: A:0.29, C:0.06, G:0.04, T:0.61
Consensus pattern (24 bp):
TTATTTATTTTAAATTTTTATATA
Found at i:11605676 original size:75 final size:76
Alignment explanation
Indices: 11605567--11605734 Score: 182
Period size: 74 Copynumber: 2.2 Consensus size: 76
11605557 TTTTGAACAG
* * * * *
11605567 TTTTATTATTATTTATTTTAAGTTTTTTTCATATAGTATTTATTTTAAATTGT-TTTATCATATT
1 TTTTA-TATTA-TTATTTTAAGATTGTTTCATATAGTATTTACTTTAAATT-TCTTTAT-AAACT
* *
11605631 ATTTATTTTAATTTA
62 ATTTATTTCAAATTA
* *
11605646 TTTTGTATTATTATTTTAA-ATTGTTT-ATATATTATTTACTTTAAATTTCTTTATAAACTATTT
1 TTTTATATTATTATTTTAAGATTGTTTCATATAGTATTTACTTTAAATTTCTTTATAAACTATTT
*
11605709 ATTTCAAATTG
66 ATTTCAAATTA
11605720 TTTTATATT-TTATTT
1 TTTTATATTATTATTT
11605735 ATGTTAAAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
73 6 0.08
74 24 0.31
75 24 0.31
76 5 0.06
77 9 0.12
78 5 0.06
79 4 0.05
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (76 bp):
TTTTATATTATTATTTTAAGATTGTTTCATATAGTATTTACTTTAAATTTCTTTATAAACTATTT
ATTTCAAATTA
Found at i:11605733 original size:26 final size:26
Alignment explanation
Indices: 11605547--11605911 Score: 284
Period size: 26 Copynumber: 14.2 Consensus size: 26
11605537 TAAATCTTCC
* **
11605547 ATATTATTTATTTTGAACAGTTTTAT
1 ATATTATTTATTTTAAATTGTTTTAT
* *
11605573 -TATTATTTATTTTAAGTTTTTTTCAT
1 ATATTATTTATTTTAAATTGTTTT-AT
*
11605599 ATAGTATTTATTTTAAATTGTTTTAT
1 ATATTATTTATTTTAAATTGTTTTAT
11605625 CATATTATTTATTTT-AATT-TATTT-T
1 -ATATTATTTATTTTAAATTGT-TTTAT
*
11605650 GTATTA-TTATTTTAAATTG-TTTAT
1 ATATTATTTATTTTAAATTGTTTTAT
*
11605674 ATATTATTTACTTTAAATT-TCTTTAT
1 ATATTATTTATTTTAAATTGT-TTTAT
* * *
11605700 AAACTATTTATTTCAAATTGTTTTAT
1 ATATTATTTATTTTAAATTGTTTTAT
* * *
11605726 ATTTTATTTATGTTAAAATT-TATGTAT
1 ATATTATTTAT-TTTAAATTGT-TTTAT
* * * * ***
11605753 ATATTGTCTATTCTGAACCATTTTAT
1 ATATTATTTATTTTAAATTGTTTTAT
* * *
11605779 ATATTACTTATTTTAATTTTTTTTCAT
1 ATATTATTTATTTTAAATTGTTTT-AT
* *
11605806 ATATTTTTTATTTTAAACT-TTTTAT
1 ATATTATTTATTTTAAATTGTTTTAT
* * *
11605831 ATATTTTTTACTTTAAATTGTTTCAT
1 ATATTATTTATTTTAAATTGTTTTAT
* *
11605857 TTATTATTTATTTTAAAACT-TTTT-T
1 ATATTATTTATTTT-AAATTGTTTTAT
* *
11605882 ATATTATTTATTTTTAATTTTTTTAT
1 ATATTATTTATTTTAAATTGTTTTAT
11605908 ATAT
1 ATAT
11605912 AGTATTTTAA
Statistics
Matches: 266, Mismatches: 54, Indels: 38
0.74 0.15 0.11
Matches are distributed among these distances:
23 10 0.04
24 18 0.07
25 68 0.26
26 95 0.36
27 75 0.28
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.63
Consensus pattern (26 bp):
ATATTATTTATTTTAAATTGTTTTAT
Found at i:11605922 original size:23 final size:24
Alignment explanation
Indices: 11605858--11605923 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
11605848 TTGTTTCATT
* * *
11605858 TATTATTTATTTTAAAACTTTTTTA
1 TATTATGTATTTT-TAATTTTTTTA
*
11605883 TATTATTTATTTTTAATTTTTTTA
1 TATTATGTATTTTTAATTTTTTTA
11605907 TA-TATAGTA-TTTTAATT
1 TATTAT-GTATTTTTAATT
11605924 CATTTGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 11 0.30
24 13 0.35
25 13 0.35
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTATGTATTTTTAATTTTTTTA
Found at i:11610547 original size:12 final size:12
Alignment explanation
Indices: 11610527--11610561 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
11610517 CGGCATTCAC
11610527 AAAAAAGAAAGA
1 AAAAAAGAAAGA
*
11610539 AAGAAAGAAAGA
1 AAAAAAGAAAGA
11610551 AAAACAAGAAA
1 AAAA-AAGAAA
11610562 AATAAGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:11610561 original size:9 final size:8
Alignment explanation
Indices: 11610527--11610578 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
11610517 CGGCATTCAC
11610527 AAAAAAGA
1 AAAAAAGA
*
11610535 AAGAAAGA
1 AAAAAAGA
*
11610543 AAGAAAGA
1 AAAAAAGA
11610551 AAAACAAGA
1 AAAA-AAGA
11610560 AAAATAAGA
1 AAAA-AAGA
11610569 AAAAAA-A
1 AAAAAAGA
11610576 AAA
1 AAA
11610579 GATTATATGT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
7 4 0.10
8 20 0.50
9 16 0.40
ACGTcount: A:0.83, C:0.02, G:0.13, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:11612129 original size:46 final size:46
Alignment explanation
Indices: 11612057--11612149 Score: 143
Period size: 46 Copynumber: 2.0 Consensus size: 46
11612047 TAATAGATCA
* *
11612057 ATGATACAAATCCTATACCCCTGAGTTGCAGTGGGCTGGATTGAAG
1 ATGATACAAATCCTATACCCCTGAGTTGCAGTGGGATGGATGGAAG
*
11612103 ATGATACAAATCCTATAGCCCC-GAGTTTCAGTGGGATGGATGGAAG
1 ATGATACAAATCCTATA-CCCCTGAGTTGCAGTGGGATGGATGGAAG
11612149 A
1 A
11612150 AATCACAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
46 39 0.91
47 4 0.09
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
ATGATACAAATCCTATACCCCTGAGTTGCAGTGGGATGGATGGAAG
Found at i:11612220 original size:50 final size:50
Alignment explanation
Indices: 11612156--11612287 Score: 183
Period size: 50 Copynumber: 2.6 Consensus size: 50
11612146 AAGAAATCAC
* * * * *
11612156 AAATTTTATCTCCCTAAAGTTGTAGTGGAGTATATAGAAGTTACCATGGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATAGAAGTTACCATGGA
* * * *
11612206 GAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATCGAAGTTATCGTGGA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATAGAAGTTACCATGGA
11612256 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCA
11612288 GATTAAAGCG
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (50 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATAGAAGTTACCATGGA
Found at i:11612338 original size:44 final size:44
Alignment explanation
Indices: 11612260--11612605 Score: 228
Period size: 44 Copynumber: 7.8 Consensus size: 44
11612250 CGTGGAAAAT
*
11612260 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACGAA-C
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGAC-AAGC
* * * ** *
11612304 CTTATCTCCCTGAAGTTGTAGTAGAGTAGGTTAAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGACAAGC
* * * * * * ** *
11612348 CTTATCTCCCAGAAGTTGCAATGGGGTAGATTGAAGATAACAAAC
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAG-CGACAAGC
* * * * ** *
11612393 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGACAAGC
* * * * ** **
11612437 CTTATCTCGCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGA-CAAGC
* * * * * *
11612482 CTCATCTCCCTAAAGTTGCAGTGGAGTAGATTAAACCTAC-AGAC
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGACAAG-C
* * ** * *
11612526 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATGGAAGCCACAAGT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGACAAGC
* * *
11612570 CTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAG
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAG
11612606 ATAGTGAATC
Statistics
Matches: 241, Mismatches: 56, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
43 3 0.01
44 166 0.69
45 72 0.30
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCGACAAGC
Found at i:11612424 original size:89 final size:88
Alignment explanation
Indices: 11612259--11612868 Score: 404
Period size: 89 Copynumber: 6.8 Consensus size: 88
11612249 TCGTGGAAAA
* * * * *
11612259 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACGAACCTTATCTCCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCAACAAACCTTATCTCCCTAAAGTTGCA
* *
11612324 GTAGAGTAGGTTAAAGTTACAAG
66 GTGGAGCAGGTTAAAGTTACAAG
* * * * *
11612347 TCTTATCTCCCAGAAGTTGCAATGGGGTAGATTGAAGATAACAAACCTTATCTCCCTAAAGTTGC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-CAACAAACCTTATCTCCCTAAAGTTGC
*
11612412 AGTGGAGCAGGTTGAAGTTACAAG
65 AGTGGAGCAGGTTAAAGTTACAAG
* * * *
11612436 TCTTATCTCGCTGAAGTTGCAGTGGAGCAGACTGAAG-ATAGCAAATCTCATCTCCCTAAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCA-A-CAAACCTTATCTCCCTAAAGTTG
* * **
11612500 CAGTGGAGTAGATTAAACCTAC-AG
64 CAGTGGAGCAGGTTAAAGTTACAAG
* * * * ** * *
11612524 ACCTTATCTCCCTGAAGTAGCAGTGGAGCAGATGGAAGCCACAAGTCTTATCTCCCTGAAGTTGT
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCAACAAACCTTATCTCCCTAAAGTTGC
** * *
11612589 AGTGGAGCAGACTAAAGATAGTGAA-
65 AGTGGAGCAGGTTAAAGTTA--CAAG
* * * * * *
11612614 TCTTATTTCCCCGAAGTTGCAGTGGAACAGATTAAAGCTACAAACCATAAATCTTATCTTCCTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG---C-AA-C--AAACCTTATCTCCCTAA
* ** * * **
11612679 AGTTG-A-TGAAAATAAGATTGAAA-ATATGAG
59 AGTTGCAGTG--GAGCAGGTT-AAAGTTACAAG
* * ** * * * *
11612709 TCTTATCTTCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACAGATCTTATCTTCCTAGAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCAACAAACCTTATCTCCCTAAAGTTGCA
* ** * * *
11612774 GTGGAGTAAATTGAAGATAACGAG
66 GTGGAGCAGGTTAAAG-TTACAAG
* * * ** * ** *
11612798 TCTTATCCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACGAGTCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCAACAAACCTTATCTCCCTAAAGTTGCA
11612863 GTGGAG
66 GTGGAG
11612869 TGGATCAAAG
Statistics
Matches: 412, Mismatches: 87, Indels: 45
0.76 0.16 0.08
Matches are distributed among these distances:
87 3 0.01
88 96 0.23
89 240 0.58
90 3 0.01
91 2 0.00
92 1 0.00
93 1 0.00
94 4 0.01
95 32 0.08
96 27 0.07
97 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (88 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCAACAAACCTTATCTCCCTAAAGTTGCA
GTGGAGCAGGTTAAAGTTACAAG
Found at i:11612452 original size:133 final size:134
Alignment explanation
Indices: 11612260--11612869 Score: 511
Period size: 133 Copynumber: 4.5 Consensus size: 134
11612250 CGTGGAAAAT
* * * *
11612260 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCGACGAA-CCTTATCTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTAC-AAGTCTTATCTCCCTGAAGTTGCA
* ** * * * *
11612324 GTAGAGTAGGTTAAAGTTA-CAAGTCTTATCTCCCAGAAGTTGCAATGGGGTAGATTGAAGATAA
65 GTGGAGTAGACTAAAGATAGCAAGTCTTATCTCCCAGAAGTTGCAGTGGAGTAGATTAAAGATAA
11612388 CAAAC
130 CAAAC
* * * *
11612393 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCGCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAG
* * * * **
11612458 TGGAGCAGACTGAAGATAGCAAATCTCATCTCCCTA-AAGTTGCAGTGGAGTAGATTAAACCT-A
66 TGGAGTAGACTAAAGATAGCAAGTCTTATCTCCC-AGAAGTTGCAGTGGAGTAGATTAAAGATAA
*
11612521 CAGAC
130 CAAAC
* * * *
11612526 CTTATCTCCCTGAAGTAGCAGTGGAGCAGATGGAAGCCACAAGTCTTATCTCCCTGAAGTTGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAG
* * * * **
11612591 TGGAGCAGACTAAAGATAGTGAA-TCTTATTTCCCCGAAGTTGCAGTGGAACAGATTAAAGCTAC
66 TGGAGTAGACTAAAGATAG-CAAGTCTTATCTCCCAGAAGTTGCAGTGGAGTAGATTAAAG--A-
* *
11612655 AAACCATAAAT
127 TAA-C--AAAC
* * * ** ** ** *
11612666 CTTATCTTCCTAAAGTTG-A-TGAAAATAAGATTGAAAATATGAGTCTTATCTTCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTG--GAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGC
* * * * * *
11612729 AGTGGAGTAGATTGAAGTTA-C-AGATCTTATCTTCCTAG-AGTTGCAGTGGAGTAAATTGAAGA
64 AGTGGAGTAGACTAAAGATAGCAAG-TCTTATC-TCCCAGAAGTTGCAGTGGAGTAGATTAAAGA
* **
11612791 TAACGAGT
127 TAACAAAC
* * * * *
11612799 CTTATCCCCCTGAAGTTGCAGTGGGGCAGGTTGAAGTTACGAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAG
11612864 TGGAGT
66 TGGAGT
11612870 GGATCAAAGC
Statistics
Matches: 375, Mismatches: 83, Indels: 38
0.76 0.17 0.08
Matches are distributed among these distances:
132 2 0.01
133 232 0.62
134 37 0.10
135 4 0.01
136 2 0.01
137 3 0.01
138 3 0.01
139 26 0.07
140 66 0.18
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (134 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGTTGCAG
TGGAGTAGACTAAAGATAGCAAGTCTTATCTCCCAGAAGTTGCAGTGGAGTAGATTAAAGATAAC
AAAC
Found at i:11612741 original size:44 final size:44
Alignment explanation
Indices: 11612693--11612869 Score: 214
Period size: 44 Copynumber: 4.0 Consensus size: 44
11612683 GATGAAAATA
* * *
11612693 AGATTGAAAATATGAGTCTTATCTTCCTGAAGTTGCAGTGGAGT
1 AGATTGAAGATACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGT
* *
11612737 AGATTGAAGTTAC-AGATCTTATCTTCCT-AGAGTTGCAGTGGAGT
1 AGATTGAAGATACGAG-TCTTATCTCCCTGA-AGTTGCAGTGGAGT
* * * *
11612781 AAATTGAAGATAACGAGTCTTATCCCCCTGAAGTTGCAGTGGGGC
1 AGATTGAAGAT-ACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGT
* *
11612826 AGGTTGAAGTTACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGT
1 AGATTGAAGATACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGT
11612870 GGATCAAAGC
Statistics
Matches: 113, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
43 3 0.03
44 75 0.66
45 32 0.28
46 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (44 bp):
AGATTGAAGATACGAGTCTTATCTCCCTGAAGTTGCAGTGGAGT
Found at i:11614268 original size:50 final size:49
Alignment explanation
Indices: 11614214--11614366 Score: 182
Period size: 49 Copynumber: 3.1 Consensus size: 49
11614204 TCAGATACTG
*
11614214 TTTATATTAAACTTACTTATTTTATTTATTTTTAAATCTCTCATATATTA
1 TTTATATTAAACTTACTTATTTTATTTA-TTTTAAATCTTTCATATATTA
** ** * *
11614264 TTTATATTAAACTTGTTTATTTTA-TTGCTTTAAGTCCTTTCATATGTTA
1 TTTATATTAAACTTACTTATTTTATTTATTTTAAAT-CTTTCATATATTA
* *
11614313 TTTATTTTAAACTTACTTATTTTATTTATTATAAATCTTTCATATTATTTA
1 TTTATATTAAACTTACTTATTTTATTTATTTTAAATCTTTCATA-TA-TTA
11614364 TTT
1 TTT
11614367 TGAACAGTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
48 6 0.07
49 42 0.50
50 30 0.36
51 6 0.07
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.59
Consensus pattern (49 bp):
TTTATATTAAACTTACTTATTTTATTTATTTTAAATCTTTCATATATTA
Found at i:11614700 original size:102 final size:99
Alignment explanation
Indices: 11614301--11614725 Score: 309
Period size: 103 Copynumber: 4.2 Consensus size: 99
11614291 CTTTAAGTCC
*
11614301 TTTCATAT-GTTATTTATTTTAAAC-TTACTTAT-TTTATTTATTATAAATCTTTCA--TATTAT
1 TTTCATATAG-TATTTATTTTAAACGTT--TTATATTTATTTATT-TAAATATTT-ATGTATTAT
* * * *
11614361 TTATTTTGAACAGTTTTATTATTATTTATTT-TTTCAGTTTTT
61 TTATTTT-AAAACTTTT-TTA-TA-TTATTTATTTTAATTTTT
* *
11614403 TTTCATATAGTATTTATTTTAAATTGTTTTATCATATTATTTATTTTAATTTATTT-TGTATTA-
1 TTTCATATAGTATTTATTTTAAA-CGTTTTAT-AT-TTATTTA-TTTAA-ATATTTATGTATTAT
* * * **
11614466 TAATTTT-AAA-TTGTTTATATATTATTTACTTTAAATTGC
61 TTATTTTAAAACTT-TTT-TATATTATTTATTTTAATTTTT
* * *
11614505 TTT-ATAAACTATTTATTTCAAACTGTTTTATATTTTATTTATGTTAAA-ATTTATGTATATATT
1 TTTCATATAGTATTTATTTTAAAC-GTTTTATA-TTTATTTAT-TTAAATATTTATGTAT-TATT
* * * * *
11614568 GTATTCTGAACCATTTTATATATTACTTATTTTAATTTTT
62 -TATTTTAAAAC-TTTTTTATATTATTTATTTTAATTTTT
* * *
11614608 TTTCATATATTATTTATTTTAAACGTTTTATATTTTTTTACTTTAAATAGTTTCATTTATTATTT
1 TTTCATATAGTATTTATTTTAAACGTTTTATATTTATTTA-TTTAAATA-TTT-ATGTATTATTT
11614673 ATTTTAAAACTTTTTTATATTATTTATTTTTAATTTTT
63 ATTTTAAAACTTTTTTATATTATTTA-TTTTAATTTTT
11614711 TTAT-ATATAGTATTT
1 TT-TCATATAGTATTT
11614726 TAATTCATTT
Statistics
Matches: 257, Mismatches: 36, Indels: 59
0.73 0.10 0.17
Matches are distributed among these distances:
98 4 0.02
99 6 0.02
100 14 0.05
101 31 0.12
102 68 0.26
103 70 0.27
104 30 0.12
105 23 0.09
106 11 0.04
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.61
Consensus pattern (99 bp):
TTTCATATAGTATTTATTTTAAACGTTTTATATTTATTTATTTAAATATTTATGTATTATTTATT
TTAAAACTTTTTTATATTATTTATTTTAATTTTT
Found at i:11614712 original size:26 final size:25
Alignment explanation
Indices: 11614374--11614730 Score: 98
Period size: 26 Copynumber: 13.9 Consensus size: 25
11614364 TTTTGAACAG
*
11614374 TTTTATTATTATTTATTTTTTCAGTTTTT
1 TTTTA-TATTATTTA--TTTT-AATTTTT
*
11614403 TTTCATATAGTATTTATTTTAAATTGTTT
1 TTT--TATATTATTTATTTT-AATT-TTT
* * *
11614432 TATCATATTATTTATTTTAA-TTTA
1 TTTTATATTATTTATTTTAATTTTT
* * * *
11614456 TTTTGTATTA-TAATTTTAAATTGT
1 TTTTATATTATTTATTTTAATTTTT
* * **
11614480 TTATATATTATTTACTTTAAATTGCT
1 TTTTATATTATTTA-TTTTAATTTTT
* * * * * *
11614506 TTATAAACTATTTATTTCAAACTGTT
1 TTTTATATTATTTATTT-TAATTTTT
* * * **
11614532 TTATATTTTATTTATGTTAAAATTT
1 TTTTATATTATTTATTTTAATTTTT
* * * ***
11614557 ATGTATA-TATTGTATTCTGAACCATT
1 TTTTATATTATT-TATT-TTAATTTTT
* *
11614583 TTATATATTACTTATTTTAATTTTT
1 TTTTATATTATTTATTTTAATTTTT
***
11614608 TTTCATATATTATTTATTTTAAACGTT
1 TTT--TATATTATTTATTTTAATTTTT
* * * *
11614635 TTATAT-TTTTTTACTTTAAATAGTTT
1 TTTTATATTATTTA-TTTTAAT-TTTT
** ***
11614661 CATT-TATTATTTATTTTAAAACTT
1 TTTTATATTATTTATTTTAATTTTT
11614685 TTTTATATTATTTATTTTTAATTTTT
1 TTTTATATTATTTA-TTTTAATTTTT
* *
11614711 TTATATA-TA-GTATTTTAATT
1 TTTTATATTATTTATTTTAATT
11614731 CATTTGTTTT
Statistics
Matches: 238, Mismatches: 73, Indels: 40
0.68 0.21 0.11
Matches are distributed among these distances:
23 16 0.07
24 35 0.15
25 49 0.21
26 77 0.32
27 36 0.15
28 7 0.03
29 8 0.03
30 8 0.03
31 2 0.01
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTTATATTATTTATTTTAATTTTT
Found at i:11614726 original size:23 final size:24
Alignment explanation
Indices: 11614665--11614730 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
11614655 TAGTTTCATT
* * *
11614665 TATTATTTATTTTAAAACTTTTTTA
1 TATTATGTATTTT-TAATTTTTTTA
*
11614690 TATTATTTATTTTTAATTTTTTTA
1 TATTATGTATTTTTAATTTTTTTA
11614714 TA-TATAGTA-TTTTAATT
1 TATTAT-GTATTTTTAATT
11614731 CATTTGTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 11 0.30
24 13 0.35
25 13 0.35
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (24 bp):
TATTATGTATTTTTAATTTTTTTA
Found at i:11622857 original size:10 final size:10
Alignment explanation
Indices: 11622844--11622874 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
11622834 TTACGAGTAA
11622844 TTATACTTCC
1 TTATACTTCC
*
11622854 TTATGCTTCC
1 TTATACTTCC
11622864 TTATACTTCC
1 TTATACTTCC
11622874 T
1 T
11622875 AAAAAGTTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.16, C:0.29, G:0.03, T:0.52
Consensus pattern (10 bp):
TTATACTTCC
Found at i:11629388 original size:55 final size:55
Alignment explanation
Indices: 11629325--11629431 Score: 189
Period size: 55 Copynumber: 1.9 Consensus size: 55
11629315 TTTCAAACGA
*
11629325 TATCATACCCCACAATATAGTGCAAGAAAACCTTTTCTATTTG-ATTAATTGGTGG
1 TATCATACCCCACAATATAGTGCAAGAAAAACTTTTCTATTTGCA-TAATTGGTGG
11629380 TATCATACCCCACAATATAGTGCAAGAAAAACTTTTCTATTTGCATAATTGG
1 TATCATACCCCACAATATAGTGCAAGAAAAACTTTTCTATTTGCATAATTGG
11629432 CATTGACCTT
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
55 49 0.98
56 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.34
Consensus pattern (55 bp):
TATCATACCCCACAATATAGTGCAAGAAAAACTTTTCTATTTGCATAATTGGTGG
Found at i:11630306 original size:15 final size:15
Alignment explanation
Indices: 11630278--11630311 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11630268 CATAAGGAGG
*
11630278 AAAAGATAAGGGGAA
1 AAAAGATAAAGGGAA
*
11630293 AAAAGTTAAAGGGAA
1 AAAAGATAAAGGGAA
11630308 AAAA
1 AAAA
11630312 TATGAGAGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (15 bp):
AAAAGATAAAGGGAA
Found at i:11631103 original size:78 final size:78
Alignment explanation
Indices: 11630970--11631113 Score: 245
Period size: 78 Copynumber: 1.8 Consensus size: 78
11630960 ATGATGTGAA
* *
11630970 AGGAAGGAAACTTCTTGTTTCTAGATTTTGTGCTATAGATTCTTGTGTACGTGTTAAGATTTGAT
1 AGGAAGGAAACTTCTTGTTTCTAGATTTTGTGCTATAGATTCTTGCGTACATGTTAAGATTTGAT
11631035 AAAATGGTGTAAG
66 AAAATGGTGTAAG
*
11631048 AGGAAGGAAACTTCTTGTTTCTAGATTTTGTGCTATCA-ATTCTTGCGTTCATGTTAAGATTTGA
1 AGGAAGGAAACTTCTTGTTTCTAGATTTTGTGCTAT-AGATTCTTGCGTACATGTTAAGATTTGA
11631112 TA
65 TA
11631114 GATTAATGAT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
78 61 0.98
79 1 0.02
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (78 bp):
AGGAAGGAAACTTCTTGTTTCTAGATTTTGTGCTATAGATTCTTGCGTACATGTTAAGATTTGAT
AAAATGGTGTAAG
Found at i:11631866 original size:27 final size:27
Alignment explanation
Indices: 11631828--11631881 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
11631818 ACACACTGAG
11631828 TTCGTATGAACTTACTCTATTATCTTT
1 TTCGTATGAACTTACTCTATTATCTTT
11631855 TTCGTATGAACTTACTCTATTATCTTT
1 TTCGTATGAACTTACTCTATTATCTTT
11631882 ACCTTCTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (27 bp):
TTCGTATGAACTTACTCTATTATCTTT
Found at i:11633668 original size:19 final size:18
Alignment explanation
Indices: 11633640--11633682 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
11633630 CTAAAATGTA
* *
11633640 AAATTATTTTTAAGTCTTT
1 AAATTATTTTAAAAT-TTT
*
11633659 AAATTTTTTTAAAATTTT
1 AAATTATTTTAAAATTTT
11633677 AAATTA
1 AAATTA
11633683 GTGAAGGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (18 bp):
AAATTATTTTAAAATTTT
Found at i:11634034 original size:36 final size:36
Alignment explanation
Indices: 11633987--11634055 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
11633977 AAGTAAATAC
* *
11633987 TAAACTTACATGAATAAAAACGTCATTTTCTCCTAT
1 TAAACTTACATGAATAAAAACCTAATTTTCTCCTAT
11634023 TAAACTTACATGAATAAAAACCTAATTTTCTCC
1 TAAACTTACATGAATAAAAACCTAATTTTCTCC
11634056 ATTTAAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.41, C:0.20, G:0.04, T:0.35
Consensus pattern (36 bp):
TAAACTTACATGAATAAAAACCTAATTTTCTCCTAT
Found at i:11635572 original size:23 final size:23
Alignment explanation
Indices: 11635534--11635579 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
11635524 GTCAATCTTT
*
11635534 AAGACTACGAGGATATTTAAGTA
1 AAGACTACGAGAATATTTAAGTA
*
11635557 AAGACTATGAGAATATTTAAGTA
1 AAGACTACGAGAATATTTAAGTA
11635580 CTATATAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.07, G:0.20, T:0.28
Consensus pattern (23 bp):
AAGACTACGAGAATATTTAAGTA
Found at i:11637890 original size:9 final size:8
Alignment explanation
Indices: 11637819--11637899 Score: 58
Period size: 9 Copynumber: 9.5 Consensus size: 8
11637809 ATTACTTTTA
*
11637819 ATTATTGT
1 ATTATTAT
11637827 ATT-TTAAT
1 ATTATT-AT
11637835 ATTATTAT
1 ATTATTAT
11637843 ATTATATAT
1 ATTAT-TAT
* *
11637852 ACTTCTTGT
1 A-TTATTAT
11637861 ATT-TTATT
1 ATTATTA-T
11637869 ATTATTAGT
1 ATTATTA-T
11637878 ATTATTAT
1 ATTATTAT
11637886 CATTATTCAT
1 -ATTATT-AT
11637896 ATTA
1 ATTA
11637900 GCATATTTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
7 4 0.07
8 21 0.35
9 30 0.50
10 5 0.08
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.59
Consensus pattern (8 bp):
ATTATTAT
Found at i:11637993 original size:21 final size:21
Alignment explanation
Indices: 11637969--11638008 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
11637959 TATATTTATT
11637969 ATTA-TATTATTTATTTTCACC
1 ATTATTATTA-TTATTTTCACC
11637990 ATTATTATTATTATTTTCA
1 ATTATTATTATTATTTTCA
11638009 TCATATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTATTATTATTATTTTCACC
Found at i:11661698 original size:27 final size:28
Alignment explanation
Indices: 11661650--11661703 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
11661640 TAAAATAGGA
* *
11661650 AAAATAATATATTTGGTAATAATAATAT
1 AAAATAATATATATGGTAATAAAAATAT
11661678 AAAATAATA-ATAT-GTACATAAAAATA
1 AAAATAATATATATGGTA-ATAAAAATA
11661704 CATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 3 0.13
27 11 0.48
28 9 0.39
ACGTcount: A:0.59, C:0.02, G:0.06, T:0.33
Consensus pattern (28 bp):
AAAATAATATATATGGTAATAAAAATAT
Found at i:11662492 original size:30 final size:30
Alignment explanation
Indices: 11662456--11662570 Score: 194
Period size: 30 Copynumber: 3.8 Consensus size: 30
11662446 TAGGTATAAG
* *
11662456 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
11662486 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
11662516 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
11662546 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
11662571 TGAGAAAAGT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 79 1.00
ACGTcount: A:0.22, C:0.03, G:0.50, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:11673375 original size:11 final size:11
Alignment explanation
Indices: 11673348--11673390 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
11673338 ATGGCATAAA
*
11673348 AAAATATATAC
1 AAAATATATAT
*
11673359 ATAATATATAT
1 AAAATATATAT
*
11673370 AAAATACATAT
1 AAAATATATAT
*
11673381 AATATATATA
1 AAAATATATA
11673391 CGTATTAGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATATATAT
Found at i:11674075 original size:12 final size:13
Alignment explanation
Indices: 11674040--11674085 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 13
11674030 TTTTTTCTTT
*
11674040 TTATATTTGTTTTG
1 TTATATTT-TTTTA
11674054 TATATATATTTTTTA
1 T-TATAT-TTTTTTA
11674069 TTATATTTTTTTA
1 TTATATTTTTTTA
11674082 TTAT
1 TTAT
11674086 GATGTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.38
14 6 0.21
15 10 0.34
16 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATATTTTTTTA
Found at i:11674150 original size:17 final size:17
Alignment explanation
Indices: 11674129--11674169 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
11674119 AGGAAAAAAA
*
11674129 ATAAAATAA-AAATAAG
1 ATAAAATAATAAAGAAG
11674145 AGTAAAATAATAAAGAAG
1 A-TAAAATAATAAAGAAG
11674163 ATAAAAT
1 ATAAAAT
11674170 CACCTTTAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 14 0.64
18 7 0.32
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.20
Consensus pattern (17 bp):
ATAAAATAATAAAGAAG
Found at i:11676990 original size:17 final size:16
Alignment explanation
Indices: 11676968--11677003 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
11676958 AATAATAATA
11676968 TTAAAATTTTGAAAATT
1 TTAAAATTTT-AAAATT
11676985 TTAAAATTTTAAAATT
1 TTAAAATTTTAAAATT
11677001 TTA
1 TTA
11677004 TGTTCGAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTAAAATTTTAAAATT
Found at i:11676992 original size:8 final size:8
Alignment explanation
Indices: 11676968--11677003 Score: 63
Period size: 8 Copynumber: 4.4 Consensus size: 8
11676958 AATAATAATA
11676968 TTAAAATT
1 TTAAAATT
11676976 TTGAAAATT
1 TT-AAAATT
11676985 TTAAAATT
1 TTAAAATT
11676993 TTAAAATT
1 TTAAAATT
11677001 TTA
1 TTA
11677004 TGTTCGAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 19 0.70
9 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (8 bp):
TTAAAATT
Found at i:11679366 original size:62 final size:62
Alignment explanation
Indices: 11679269--11679393 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
11679259 AAAATAATTG
*
11679269 CACATAATCAAATTTAAACTTAAAACATTATTATTAATATGATCTCTAATTCATTAATTTTA
1 CACATAATCAAATTTAAACTCAAAACATTATTATTAATATGATCTCTAATTCATTAATTTTA
* *
11679331 CACATAATTAAATTTAAACTCAAAATATTATTATTAATATGATCTCTAATTCATTAATTTTA
1 CACATAATCAAATTTAAACTCAAAACATTATTATTAATATGATCTCTAATTCATTAATTTTA
11679393 C
1 C
11679394 CATTTCAACC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.42
Consensus pattern (62 bp):
CACATAATCAAATTTAAACTCAAAACATTATTATTAATATGATCTCTAATTCATTAATTTTA
Found at i:11681979 original size:28 final size:28
Alignment explanation
Indices: 11681945--11681998 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
11681935 ATGAAGTTAT
11681945 TTGTGTAGTTAATTAGGTTTTGGTTAAG
1 TTGTGTAGTTAATTAGGTTTTGGTTAAG
11681973 TTGTGTAGTTAATTAGGTTTTGGTTA
1 TTGTGTAGTTAATTAGGTTTTGGTTA
11681999 GGTGAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.52
Consensus pattern (28 bp):
TTGTGTAGTTAATTAGGTTTTGGTTAAG
Found at i:11682885 original size:238 final size:238
Alignment explanation
Indices: 11682467--11682947 Score: 899
Period size: 238 Copynumber: 2.0 Consensus size: 238
11682457 TATTGAGTTT
11682467 TTAAGTGTTGTTTATGTTGAATAATTTTAATATTAGGAATTAAATTGATAGATTTTTAAGTTATA
1 TTAAGTGTTGTTTATGTTGAATAATTTTAATATTAGGAATTAAATTGATAGATTTTTAAGTTATA
*
11682532 AATGAAAAAGGATTGAATTGTAGAAGAAATTGTAAATTTTGAGTAATAGGGACTAAATTGTGAAA
66 AATGAAAAAGGATTGAATTGTAGAAGAAATTGTAAATTTTAAGTAATAGGGACTAAATTGTGAAA
11682597 AATTCAAAATTTAGAAATTGATATGAAAATAAGGAGTTGAATTTAGTCTAAAGTGAATTTTGCAT
131 AATTCAAAATTTAGAAATTGATATGAAAATAAGGAGTTGAATTTAGTCTAAAGTGAATTTTGCAT
* *
11682662 GAAAATAAAGAATTAAATTTGAATAATAAAAGTTAGTCTCGGG
196 GAAAACAAAGAATTAAATGTGAATAATAAAAGTTAGTCTCGGG
*
11682705 TTAAGTGTTGTTTATGTTGAATAATTTTAATATTAGGGATTAAATTGATAGATTTTTAAGTTATA
1 TTAAGTGTTGTTTATGTTGAATAATTTTAATATTAGGAATTAAATTGATAGATTTTTAAGTTATA
11682770 AATGAAAAAGGATTGAATTGTAGAAGAAATTGTAAATTTTAAGTAATAGGGACTAAATTGTGAAA
66 AATGAAAAAGGATTGAATTGTAGAAGAAATTGTAAATTTTAAGTAATAGGGACTAAATTGTGAAA
* *
11682835 AATTCAAAATTTAGAAATTTATATGAAAATAGGGAGTTGAATTTAGTCTAAAGTGAATTTTGCAT
131 AATTCAAAATTTAGAAATTGATATGAAAATAAGGAGTTGAATTTAGTCTAAAGTGAATTTTGCAT
*
11682900 GAAAACAAAGAATTAAATGTGAATAATAAAAGTTAGTCTCGGT
196 GAAAACAAAGAATTAAATGTGAATAATAAAAGTTAGTCTCGGG
11682943 TTAAG
1 TTAAG
11682948 GCCTAAATTG
Statistics
Matches: 236, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
238 236 1.00
ACGTcount: A:0.43, C:0.03, G:0.19, T:0.36
Consensus pattern (238 bp):
TTAAGTGTTGTTTATGTTGAATAATTTTAATATTAGGAATTAAATTGATAGATTTTTAAGTTATA
AATGAAAAAGGATTGAATTGTAGAAGAAATTGTAAATTTTAAGTAATAGGGACTAAATTGTGAAA
AATTCAAAATTTAGAAATTGATATGAAAATAAGGAGTTGAATTTAGTCTAAAGTGAATTTTGCAT
GAAAACAAAGAATTAAATGTGAATAATAAAAGTTAGTCTCGGG
Found at i:11683509 original size:41 final size:39
Alignment explanation
Indices: 11683450--11683561 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 39
11683440 TTCGACTTCG
*
11683450 AGTCGATGAGACAGTGGGTGTCAATTTATTACTTCAGATTA
1 AGTCGATGAGACACTGGGTGTCAA-TTATTACTTCAG-TTA
* * * * *
11683491 ATTCGATGAGGCACTGGGTGCCAA-T-TTACTTCTGTTT
1 AGTCGATGAGACACTGGGTGTCAATTATTACTTCAGTTA
*
11683528 AGCCGATGAGACACTGGGTGTCAAATTATTACTT
1 AGTCGATGAGACACTGGGTGTC-AATTATTACTT
11683562 TGAATTATCC
Statistics
Matches: 58, Mismatches: 10, Indels: 7
0.77 0.13 0.09
Matches are distributed among these distances:
37 20 0.34
38 10 0.17
39 2 0.03
40 6 0.10
41 20 0.34
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (39 bp):
AGTCGATGAGACACTGGGTGTCAATTATTACTTCAGTTA
Found at i:11685599 original size:45 final size:45
Alignment explanation
Indices: 11685531--11685795 Score: 358
Period size: 45 Copynumber: 6.0 Consensus size: 45
11685521 CCATAAGATT
* *
11685531 GATATATGTGTTTTCGTGTAAGACCACGTCTGGTACATTGGCATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
11685576 GATATAAGTGTTTTCGTGGAAGACCACGTCTGGGACGTTAGCATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
11685621 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
*
11685666 GATATATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
* * ** * * * *
11685711 GATCTATGTGGTTAAGTGTAAGACCATGTCTGGGACATCGACATC
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
* *
11685756 G-TAT-T-TG-ATTCGAGTAAGACCACGTCTGGGACGTTGGCAT
1 GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
11685796 TGTATGATAT
Statistics
Matches: 194, Mismatches: 26, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
41 25 0.13
42 2 0.01
43 1 0.01
44 2 0.01
45 164 0.85
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (45 bp):
GATATATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:11691096 original size:47 final size:48
Alignment explanation
Indices: 11691035--11691165 Score: 178
Period size: 47 Copynumber: 2.7 Consensus size: 48
11691025 ATTATTTCTT
*
11691035 TTTTTTCTCTTTCTTTTTCCAGGTGATGTTTCTTTTTCCCTATTTCC-C
1 TTTTTT-TCTTTCTTTTTCCAGGTGATGTTTCTTCTTCCCTATTTCCAC
* *
11691083 TTTTTTTCTTTCTTTTTCCGGGTGATGTTTCTTCTTCCCTATTTCCAT
1 TTTTTTTCTTTCTTTTTCCAGGTGATGTTTCTTCTTCCCTATTTCCAC
*
11691131 TTTTCTTTCTTT-TTTGTCCTA-GTGATGTTTCTTCT
1 TTTT-TTTCTTTCTTTTTCC-AGGTGATGTTTCTTCT
11691166 CCACAATTTC
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
47 38 0.51
48 30 0.40
49 7 0.09
ACGTcount: A:0.06, C:0.22, G:0.10, T:0.62
Consensus pattern (48 bp):
TTTTTTTCTTTCTTTTTCCAGGTGATGTTTCTTCTTCCCTATTTCCAC
Found at i:11691175 original size:48 final size:45
Alignment explanation
Indices: 11691057--11691191 Score: 146
Period size: 47 Copynumber: 2.8 Consensus size: 45
11691047 CTTTTTCCAG
* * *
11691057 GTGATGTTTCTTTTTCCCTATTTCCCTTTT-TTTCTTTCTTTTTCCGG
1 GTGATGTTTC-TTCTCCCTATTT-CCTTTTCTTTCTTT-TTTGTCCGA
*
11691104 GTGATGTTTCTTCTTCCCTATTTCCATTTTTCTTTCTTTTTTGTCCTA
1 GTGATGTTTCTTC-TCCCTATTTCC--TTTTCTTTCTTTTTTGTCCGA
*
11691152 GTGATGTTTCTTCTCCACAATTTCCTTTTCTCTTCTTTTT
1 GTGATGTTTCTTCTCC-CTATTTCCTTTTCT-TTCTTTTT
11691192 CCCTGTGACC
Statistics
Matches: 77, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
46 10 0.13
47 30 0.39
48 30 0.39
49 7 0.09
ACGTcount: A:0.07, C:0.24, G:0.09, T:0.60
Consensus pattern (45 bp):
GTGATGTTTCTTCTCCCTATTTCCTTTTCTTTCTTTTTTGTCCGA
Found at i:11697350 original size:24 final size:24
Alignment explanation
Indices: 11697322--11697372 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
11697312 AGCTTGTAAA
11697322 AACCATCACTGGAGCATCAAATTG
1 AACCATCACTGGAGCATCAAATTG
* *
11697346 AACCATCACTGTAGTATCAAATTG
1 AACCATCACTGGAGCATCAAATTG
11697370 AAC
1 AAC
11697373 ATATCCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.24, G:0.14, T:0.24
Consensus pattern (24 bp):
AACCATCACTGGAGCATCAAATTG
Found at i:11701763 original size:58 final size:59
Alignment explanation
Indices: 11701688--11701805 Score: 175
Period size: 58 Copynumber: 2.0 Consensus size: 59
11701678 TTAGGCCCTA
* *
11701688 AACTTGGCAATTGTTTTCACATTGGGGCCTGAACTCTT-TTTGCCCAAGTTAGACCTTG
1 AACTTGACAATTATTTTCACATTGGGGCCTGAACTCTTATTTGCCCAAGTTAGACCTTG
* * * *
11701746 AACTTGACAATTATTTTCACATTGGGGCTTGAACTTTTATTTGTCCAAGTTAGTCCTTG
1 AACTTGACAATTATTTTCACATTGGGGCCTGAACTCTTATTTGCCCAAGTTAGACCTTG
11701805 A
1 A
11701806 TGTTTCCTTG
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
58 34 0.64
59 19 0.36
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (59 bp):
AACTTGACAATTATTTTCACATTGGGGCCTGAACTCTTATTTGCCCAAGTTAGACCTTG
Found at i:11707792 original size:90 final size:90
Alignment explanation
Indices: 11707634--11707879 Score: 384
Period size: 90 Copynumber: 2.7 Consensus size: 90
11707624 GATCCAAAAA
* * *
11707634 CAAATGAACAAGAAGTTGTACATACAATGGATGTGTGCAATGCTTCAACGGTTGAAGGTTGTCAT
1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAACGGTTGAAGATTGTCAT
*
11707699 AGAGATGCCATAGAAAATTCTCAAG
66 AGAGAAGCCATAGAAAATTCTCAAG
*
11707724 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAATGGTTGAAGATTGTCAT
1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAACGGTTGAAGATTGTCAT
11707789 AGAGAAGCCATAGAAAATTCTCAAG
66 AGAGAAGCCATAGAAAATTCTCAAG
**** * * *
11707814 CAAAGGAACAAGAAGTTGTACATTCAATGGATGCACACAATGCTTCACCGGGTGATGATTGTCAT
1 CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAACGGTTGAAGATTGTCAT
11707879 A
66 A
11707880 AAGATACTCT
Statistics
Matches: 143, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 143 1.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (90 bp):
CAAAGGAACAAGAAGTTGTACATTCAATGGATGTGTGCAATGCTTCAACGGTTGAAGATTGTCAT
AGAGAAGCCATAGAAAATTCTCAAG
Found at i:11711943 original size:20 final size:20
Alignment explanation
Indices: 11711918--11711960 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
11711908 AAATTTCATC
11711918 AATTTTTACTATTAAAAATT
1 AATTTTTACTATTAAAAATT
11711938 AATTTTTACTATTAAAAATT
1 AATTTTTACTATTAAAAATT
11711958 AAT
1 AAT
11711961 CTCATGTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTTTACTATTAAAAATT
Found at i:11712404 original size:3 final size:3
Alignment explanation
Indices: 11712398--11712435 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
11712388 TTAAACACTA
11712398 ATC ATC A-C ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
11712436 CTCAATAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (3 bp):
ATC
Found at i:11716243 original size:12 final size:12
Alignment explanation
Indices: 11716226--11716251 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11716216 AAAAATTGAA
11716226 TAGTGGAGTGAC
1 TAGTGGAGTGAC
11716238 TAGTGGAGTGAC
1 TAGTGGAGTGAC
11716250 TA
1 TA
11716252 ACTTTTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.08, G:0.38, T:0.27
Consensus pattern (12 bp):
TAGTGGAGTGAC
Found at i:11720190 original size:18 final size:18
Alignment explanation
Indices: 11720163--11720197 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11720153 TACATTATAT
*
11720163 AATTTAATTTTTTTTTAC
1 AATTTAATTTTTATTTAC
*
11720181 AATTTTATTTTTATTTA
1 AATTTAATTTTTATTTA
11720198 TAACATTAAA
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:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
AATTTAATTTTTATTTAC
Found at i:11727141 original size:32 final size:31
Alignment explanation
Indices: 11727082--11727158 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 31
11727072 AAAATTTTAA
*
11727082 TAAATGAAAAATATATAAATTTATTAAATAT
1 TAAATAAAAAATATATAAATTTATTAAATAT
*
11727113 TAAATAAAAACATATA-AATATTTTTTAAA-A-
1 TAAATAAAAA-ATATATAA-ATTTATTAAATAT
*
11727143 AAAATTAAAAAATATA
1 TAAA-TAAAAAATATA
11727159 AGCAAACTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 8 0.20
31 18 0.45
32 14 0.35
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (31 bp):
TAAATAAAAAATATATAAATTTATTAAATAT
Found at i:11739116 original size:21 final size:21
Alignment explanation
Indices: 11739090--11739146 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
11739080 GGTGTTTTAC
11739090 TTTCTGTTCAACTCTT-ATGAG
1 TTTCTGTTCAACT-TTAATGAG
*
11739111 TTTCTGTTCAGCTTTAATGAG
1 TTTCTGTTCAACTTTAATGAG
* *
11739132 CTTCTGTTCAGCTTT
1 TTTCTGTTCAACTTT
11739147 CGAGGTTCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.49
Consensus pattern (21 bp):
TTTCTGTTCAACTTTAATGAG
Found at i:11739674 original size:23 final size:27
Alignment explanation
Indices: 11739647--11739699 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 27
11739637 TACATATTGG
11739647 TATGAGAATGAG-G-TATAT-TATG-A
1 TATGAGAATGAGTGTTATATGTATGTA
*
11739670 TATGAGCATGAGTGTTATATGTATGTA
1 TATGAGAATGAGTGTTATATGTATGTA
11739697 TAT
1 TAT
11739700 AATTGAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 11 0.44
24 1 0.04
25 5 0.20
26 4 0.16
27 4 0.16
ACGTcount: A:0.34, C:0.02, G:0.25, T:0.40
Consensus pattern (27 bp):
TATGAGAATGAGTGTTATATGTATGTA
Found at i:11743480 original size:19 final size:18
Alignment explanation
Indices: 11743458--11743506 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
11743448 TTAAGTTGAT
11743458 TTAATAAACTTAAGCATAA
1 TTAATAAACTTAAGC-TAA
* **
11743477 TTAATTAACAAAAGCTAA
1 TTAATAAACTTAAGCTAA
*
11743495 TTATTAAACTTA
1 TTAATAAACTTA
11743507 TTTTGCAGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.51, C:0.10, G:0.04, T:0.35
Consensus pattern (18 bp):
TTAATAAACTTAAGCTAA
Found at i:11745233 original size:25 final size:25
Alignment explanation
Indices: 11745196--11745257 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 25
11745186 GGATACACAC
* * * *
11745196 AGCTCTTATGAGCATCCTAATATTT
1 AGCTCTCACGAGCATCCCAATACTT
* *
11745221 AGCTCTCACGAGCTTCCCGATACTT
1 AGCTCTCACGAGCATCCCAATACTT
*
11745246 GGCTCTCACGAG
1 AGCTCTCACGAG
11745258 TTTCCTGATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.31
Consensus pattern (25 bp):
AGCTCTCACGAGCATCCCAATACTT
Found at i:11745273 original size:25 final size:25
Alignment explanation
Indices: 11745222--11745277 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
11745212 CTAATATTTA
*
11745222 GCTCTCACGAGCTTCCCGATACTTG
1 GCTCTCACGAGCTTCCCGATACATG
* *
11745247 GCTCTCACGAGTTTCCTGATTA-ATG
1 GCTCTCACGAGCTTCCCGA-TACATG
11745272 GCTCTC
1 GCTCTC
11745278 TTCATCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 25 0.93
26 2 0.07
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (25 bp):
GCTCTCACGAGCTTCCCGATACATG
Found at i:11745333 original size:25 final size:25
Alignment explanation
Indices: 11745297--11745363 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
11745287 TCGATTTTTG
11745297 GCTCACAAGAGCTTCCCGTTATACA
1 GCTCACAAGAGCTTCCCGTTATACA
* **
11745322 GCTCACATGAGCTTCCCGTTATATG
1 GCTCACAAGAGCTTCCCGTTATACA
**
11745347 GCTCGGAAGAGCTTCCC
1 GCTCACAAGAGCTTCCC
11745364 ATTTACATGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.25
Consensus pattern (25 bp):
GCTCACAAGAGCTTCCCGTTATACA
Found at i:11745413 original size:17 final size:17
Alignment explanation
Indices: 11745391--11745428 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
11745381 AACATACATG
11745391 TACATGAATTGATGGAT
1 TACATGAATTGATGGAT
11745408 TACATGAATTGATGGAT
1 TACATGAATTGATGGAT
11745425 TACA
1 TACA
11745429 ATTTTGTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.37, C:0.08, G:0.21, T:0.34
Consensus pattern (17 bp):
TACATGAATTGATGGAT
Found at i:11749045 original size:17 final size:18
Alignment explanation
Indices: 11749013--11749047 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11749003 CCATGTGGCC
11749013 TGCCCGTGTGGGCCCACA
1 TGCCCGTGTGGGCCCACA
*
11749031 TGCCCTTGT-GGCCCACA
1 TGCCCGTGTGGGCCCACA
11749048 CGGCCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.40, G:0.29, T:0.20
Consensus pattern (18 bp):
TGCCCGTGTGGGCCCACA
Found at i:11758724 original size:36 final size:33
Alignment explanation
Indices: 11758678--11758775 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
11758668 ATTTCAAACC
*
11758678 TTCTTCTTTCTTT-TTCTCGATCAGCCTCAAATC
1 TTCTTC-TTCTTTCTTCTCGATCAGCCTCAAATA
* *
11758711 TTCTTCTTCTTTCTTCTCGGTTAGCCTCAAATA
1 TTCTTCTTCTTTCTTCTCGATCAGCCTCAAATA
* *
11758744 TTCTTC-TCTTTGCTTCTTGATCAACCTCAAAT
1 TTCTTCTTCTTT-CTTCTCGATCAGCCTCAAAT
11758776 TTGTCCATCT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
32 11 0.20
33 45 0.80
ACGTcount: A:0.16, C:0.29, G:0.07, T:0.48
Consensus pattern (33 bp):
TTCTTCTTCTTTCTTCTCGATCAGCCTCAAATA
Found at i:11763367 original size:46 final size:46
Alignment explanation
Indices: 11763309--11763629 Score: 448
Period size: 46 Copynumber: 7.0 Consensus size: 46
11763299 AGTGTGCTCT
11763309 CTGATA-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11763355 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
11763401 TTGATATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
11763447 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
11763493 GTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
11763539 GTGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAAC
1 CTGA-TATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
11763586 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
11763630 TCATGTCGAA
Statistics
Matches: 252, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.00
46 211 0.84
47 40 0.16
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:11763951 original size:17 final size:16
Alignment explanation
Indices: 11763919--11763952 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11763909 AAAGATGGTG
*
11763919 AATGAAATGTTGATAT
1 AATGAAATGATGATAT
11763935 AATGAAATGAATGATAT
1 AATGAAATG-ATGATAT
11763952 A
1 A
11763953 TGTTATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (16 bp):
AATGAAATGATGATAT
Found at i:11763966 original size:25 final size:25
Alignment explanation
Indices: 11763917--11763966 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
11763907 GAAAAGATGG
*
11763917 TGAATGAAATGTTGATATAATGAAA
1 TGAATGAAATGTTGATATAAAGAAA
11763942 TGAATGATATATGTT-AT-TAAAGAAA
1 TGAATGA-A-ATGTTGATATAAAGAAA
11763967 CGGTAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 14 0.64
26 3 0.14
27 5 0.23
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.34
Consensus pattern (25 bp):
TGAATGAAATGTTGATATAAAGAAA
Found at i:11768246 original size:5 final size:5
Alignment explanation
Indices: 11768236--11768260 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11768226 AACATAAATT
11768236 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
11768261 TATCTTCCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:11770838 original size:16 final size:15
Alignment explanation
Indices: 11770808--11770839 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
11770798 GTTCTCCATG
11770808 TAAAAATACAGTTTT
1 TAAAAATACAGTTTT
*
11770823 TAAAAATACAATTTT
1 TAAAAATACAGTTTT
11770838 TA
1 TA
11770840 CATCTAACTG
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:0.06, G:0.03, T:0.41
Consensus pattern (15 bp):
TAAAAATACAGTTTT
Found at i:11778392 original size:53 final size:53
Alignment explanation
Indices: 11778320--11778425 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 53
11778310 AAACTTCTAG
* *
11778320 GTGAAAATTGTGGATTTTTGGTAAAAGGACCAAAATGTAATGACAACAAAGTT
1 GTGAAAATGGTGGATTTTTGGTAAAAGGACCAAAATGCAATGACAACAAAGTT
*
11778373 GTGAAAATGGTGGATTTTTGGTAAAAGGACCAAAATGCAATTACAACAAAGTT
1 GTGAAAATGGTGGATTTTTGGTAAAAGGACCAAAATGCAATGACAACAAAGTT
11778426 TTCTTCTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 50 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (53 bp):
GTGAAAATGGTGGATTTTTGGTAAAAGGACCAAAATGCAATGACAACAAAGTT
Found at i:11778908 original size:3 final size:3
Alignment explanation
Indices: 11778900--11778944 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
11778890 CTACTTCTTA
11778900 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11778945 CCTCAATATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11779187 original size:13 final size:13
Alignment explanation
Indices: 11779155--11779180 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11779145 GTATCATATT
11779155 ATATAAAATTAAA
1 ATATAAAATTAAA
11779168 ATATAAAATTAAA
1 ATATAAAATTAAA
11779181 TAATAAAGTG
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATAAAATTAAA
Found at i:11784872 original size:46 final size:46
Alignment explanation
Indices: 11784783--11784891 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 46
11784773 TATGTGTGCT
*
11784783 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCACGAGAGCC
* * * *
11784829 AGTGTAAGACATGTTTGGGACATGCATC-GGCATTGAG-ACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCA--CAGCACGAGAGCC
*
11784875 GGTGTAAGACATGTCTG
1 AGTGTAAGACATGTCTG
11784892 ACCTGCATCG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 3 0.06
46 49 0.91
47 2 0.04
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACAGCACGAGAGCC
Found at i:11787134 original size:51 final size:51
Alignment explanation
Indices: 11787079--11787231 Score: 189
Period size: 51 Copynumber: 3.0 Consensus size: 51
11787069 AGAGGCTGAC
* * * * *
11787079 ATAGGCGAACCCCTAATTAACTCAAATGGAGTAGAGGACGTATGACCAGAA
1 ATAGGAGAACCCCTAATTAACCCAGATGGAGTAGAAGATGTATGACCAGAA
* * *
11787130 ATAGGAGAATCCCTAATTAACCCGGATGGAGTAAAAGATGTATGACCAGAA
1 ATAGGAGAACCCCTAATTAACCCAGATGGAGTAGAAGATGTATGACCAGAA
** * * *
11787181 GGAGAAGAACCCCTAATTAACCCAGATAGAGTAGATGATGTATGACCAGAA
1 ATAGGAGAACCCCTAATTAACCCAGATGGAGTAGAAGATGTATGACCAGAA
11787232 GAAGGAGTAC
Statistics
Matches: 86, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 86 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (51 bp):
ATAGGAGAACCCCTAATTAACCCAGATGGAGTAGAAGATGTATGACCAGAA
Found at i:11790816 original size:48 final size:48
Alignment explanation
Indices: 11790760--11790880 Score: 188
Period size: 48 Copynumber: 2.5 Consensus size: 48
11790750 ATCGGTGCCG
* * * *
11790760 ATGCCATGTCCCAAACATGGTCTTACACTAGCACACATGTCATCATCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCA
* *
11790808 ATGCCATGTCCCAGACATGGTCTTACACTGGCACACATATCAACACCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCA
11790856 ATGCCATGTCCCAGACATGGTCTTA
1 ATGCCATGTCCCAGACATGGTCTTA
11790881 TACGGGATCT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACACCA
Found at i:11800014 original size:10 final size:10
Alignment explanation
Indices: 11799999--11800023 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11799989 AGTAGTTATT
11799999 TTTCTGTTAC
1 TTTCTGTTAC
11800009 TTTCTGTTAC
1 TTTCTGTTAC
11800019 TTTCT
1 TTTCT
11800024 TTCCTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTCTGTTAC
Found at i:11801643 original size:22 final size:23
Alignment explanation
Indices: 11801618--11801666 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
11801608 ATTTAATTAA
*
11801618 TTTAAGGTTAGGGTTTTT-AGGG
1 TTTAAGGTTAGGATTTTTAAGGG
*
11801640 TTTAGGGTTAGGATTTTTAAGGG
1 TTTAAGGTTAGGATTTTTAAGGG
11801663 TTTA
1 TTTA
11801667 TTTTTTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.67
23 8 0.33
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (23 bp):
TTTAAGGTTAGGATTTTTAAGGG
Found at i:11802388 original size:126 final size:126
Alignment explanation
Indices: 11802155--11802537 Score: 606
Period size: 126 Copynumber: 3.0 Consensus size: 126
11802145 TTTCTGCAAG
* * * *
11802155 AATAATTCTGAGCAGACGTTTCTGGACAAATAATGTCAGAAAACGCTTCAAGCATGATGCACTGT
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTC-GAAAACGCTTCAAGCAGGATGCACTGT
* *
11802220 CAGTAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTATTTCGTAGAAA
65 CAGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
*
11802282 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * *
11802347 AGCAAAATTTCTAGAAAAAGCTCCTACGTGGATGCTTTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * *
11802408 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTTAAGCAGGATGCACTATC
1 AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
* * *
11802473 AGCAAAA-TTCTGGAAAAAGCTCCCACGCGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
11802533 AATAA
1 AATAA
11802538 GGGTATAAAT
Statistics
Matches: 236, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 52 0.22
126 150 0.64
127 34 0.14
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (126 bp):
AATAATTCTGAGTAGACGTTTCTGAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:11805309 original size:41 final size:41
Alignment explanation
Indices: 11805253--11805475 Score: 344
Period size: 41 Copynumber: 5.5 Consensus size: 41
11805243 CGTTTTACCA
** * *
11805253 AAAACGCCGCTAAAA-ATAGAGCAATAGCGGC-CTTTTTTGTT
1 AAAACGCCGCTAAAAGCCAGAGCACTAGCGGCGC--TTTTGGT
* *
11805294 AAAACGCCGCTAAAA-ACAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCACTAGCGGCGCTTTTGGT
11805334 AAAACGCCGCTAAAAGCCAGAGCACTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCACTAGCGGCGCTTTTGGT
11805375 AAAACGCCGCTAAAAGCCAGAGCACTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCACTAGCGGCGCTTTTGGT
*
11805416 AAAACGCCGCTAAAAGCCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAGCCAGAGCACTAGCGGCGCTTTTGGT
11805457 AAAACGCCGCTAAAAGCCA
1 AAAACGCCGCTAAAAGCCA
11805476 TATAACCCCT
Statistics
Matches: 174, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
40 21 0.12
41 152 0.87
42 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.24, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAGCCAGAGCACTAGCGGCGCTTTTGGT
Found at i:11806078 original size:22 final size:22
Alignment explanation
Indices: 11806027--11806080 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
11806017 ATGATTAAGG
11806027 GTTTAAGGTTTATGAGTTACTA
1 GTTTAAGGTTTATGAGTTACTA
*
11806049 TTTTAAGGTTTATGTA-TTA-TA
1 GTTTAAGGTTTATG-AGTTACTA
11806070 GTTTAAAGGTT
1 GTTT-AAGGTT
11806081 AGGGGTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 5 0.18
22 22 0.79
23 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.20, T:0.50
Consensus pattern (22 bp):
GTTTAAGGTTTATGAGTTACTA
Found at i:11806167 original size:22 final size:22
Alignment explanation
Indices: 11806106--11806170 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
11806096 TGGGTTATGG
* *
11806106 GTTTAGGG-TTAATGGTTCATA
1 GTTTAGGGATTAATGGTTTAGA
* * *
11806127 TTTTA-GGATTTTATAGTTTAGA
1 GTTTAGGGA-TTAATGGTTTAGA
11806149 GTTTAGGGATTAATGGTTTAGA
1 GTTTAGGGATTAATGGTTTAGA
11806171 TTAATTTGTG
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
20 2 0.06
21 4 0.12
22 24 0.73
23 3 0.09
ACGTcount: A:0.26, C:0.02, G:0.26, T:0.46
Consensus pattern (22 bp):
GTTTAGGGATTAATGGTTTAGA
Found at i:11806488 original size:7 final size:6
Alignment explanation
Indices: 11806463--11806507 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
11806453 AACAACATTG
*
11806463 ATAACAA ATAAAA ATAAAA TACAAAA ATAAAA ATAAAA TATAAAA
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA ATAAAA -ATAAAA
11806508 TAGAGGTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 19 0.56
7 15 0.44
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:11806488 original size:13 final size:12
Alignment explanation
Indices: 11806468--11806509 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
11806458 CATTGATAAC
11806468 AAAT-AAAAATA
1 AAATAAAAAATA
11806479 AAATACAAAAATAA
1 AAATA-AAAAAT-A
*
11806493 AAATAAAATATA
1 AAATAAAAAATA
11806505 AAATA
1 AAATA
11806510 GAGGTTAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 4 0.15
12 6 0.22
13 11 0.41
14 6 0.22
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:11806490 original size:19 final size:19
Alignment explanation
Indices: 11806468--11806507 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
11806458 CATTGATAAC
11806468 AAATAAAAATAAAATACAA
1 AAATAAAAATAAAATACAA
*
11806487 AAATAAAAATAAAATATAA
1 AAATAAAAATAAAATACAA
11806506 AA
1 AA
11806508 TAGAGGTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (19 bp):
AAATAAAAATAAAATACAA
Found at i:11811273 original size:43 final size:43
Alignment explanation
Indices: 11811208--11811382 Score: 226
Period size: 43 Copynumber: 4.1 Consensus size: 43
11811198 TTTCATGACT
* * * *
11811208 TTTAGCGGCATTT-TTGAGAAAAGTGTCGCTAAAGACCATGATC
1 TTTAGCGGCGTTTGTGGA-AAAAGCGTCGCTAAAGGCCATGATC
* *
11811251 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGCCGTGATC
1 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGCCATGATC
* * * * *
11811294 TTTAGCAGCGTTTGTGGAAAAAGCGTCGTTAAATGTCATAATC
1 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGCCATGATC
*
11811337 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGTCATGATC
1 TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGCCATGATC
11811380 TTT
1 TTT
11811383 TGTAACAGCC
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
43 111 0.97
44 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGTCGCTAAAGGCCATGATC
Found at i:11814482 original size:18 final size:18
Alignment explanation
Indices: 11814459--11814496 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
11814449 GGAAAAGGAA
*
11814459 ACATATAAGGGTTAGAAT
1 ACATATAAGGGCTAGAAT
11814477 ACATATAAGGGCTAGAAT
1 ACATATAAGGGCTAGAAT
11814495 AC
1 AC
11814497 GCACCTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGAAT
Found at i:11816158 original size:48 final size:48
Alignment explanation
Indices: 11816090--11816224 Score: 121
Period size: 48 Copynumber: 2.8 Consensus size: 48
11816080 ATGCAAACAT
* *
11816090 CATAAATGAAAAAAAAATCAAACAGTATTG-ATATTGTAATTACAA-TTG
1 CATAAATGAAAAAAAAATCAAACAGTATTGCAAATT-TAACTA-AATTTG
** * *
11816138 CATAAATGAATGAAATATCAAATAGTATTGCAAATTTAACTAAATTTG
1 CATAAATGAAAAAAAAATCAAACAGTATTGCAAATTTAACTAAATTTG
* * * * * **
11816186 CATAAATTAAAATAATATCGAATAGTATTAAAAATTTAA
1 CATAAATGAAAAAAAAATCAAACAGTATTGCAAATTTAA
11816225 AATTATCACT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 2 0.03
48 66 0.92
49 4 0.06
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.32
Consensus pattern (48 bp):
CATAAATGAAAAAAAAATCAAACAGTATTGCAAATTTAACTAAATTTG
Found at i:11816396 original size:11 final size:11
Alignment explanation
Indices: 11816357--11816388 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
11816347 TTTTAAACAA
11816357 AGAATTTTGAT
1 AGAATTTTGAT
11816368 AGAATTTTGAT
1 AGAATTTTGAT
11816379 AGAATTTTGA
1 AGAATTTTGA
11816389 GAAAATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.44
Consensus pattern (11 bp):
AGAATTTTGAT
Found at i:11819767 original size:44 final size:44
Alignment explanation
Indices: 11819691--11819785 Score: 138
Period size: 44 Copynumber: 2.2 Consensus size: 44
11819681 ATCCCCAAAG
* * * *
11819691 GATTAGTGGCTTCAATCTGCTCCATTGTAACTTC-AGGAAGATAA
1 GATTTGTGGCTTCAATCTACTCCACTGCAACTTCAAGG-AGATAA
11819735 GATTTGTGGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAA
1 GATTTGTGGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAA
11819779 GATTTGT
1 GATTTGT
11819786 CATAATAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 43 0.93
45 3 0.07
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (44 bp):
GATTTGTGGCTTCAATCTACTCCACTGCAACTTCAAGGAGATAA
Found at i:11824857 original size:27 final size:23
Alignment explanation
Indices: 11824835--11824883 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
11824825 TCCAAAAAGT
11824835 AACAAGAAGAACACAAGAAC-AAAA
1 AACAAGAAGAA-AC-AGAACAAAAA
*
11824859 ACCAAGAAGAAACAGAACAAAAA
1 AACAAGAAGAAACAGAACAAAAA
11824882 AA
1 AA
11824884 ATAACGTGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 7 0.32
24 10 0.45
ACGTcount: A:0.71, C:0.16, G:0.12, T:0.00
Consensus pattern (23 bp):
AACAAGAAGAAACAGAACAAAAA
Found at i:11824883 original size:24 final size:24
Alignment explanation
Indices: 11824837--11824881 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
11824827 CAAAAAGTAA
11824837 CAAGAAGAACACAAGAACAAAAAC
1 CAAGAAGAACACAAGAACAAAAAC
11824861 CAAGAAGAA-AC-AGAACAAAAA
1 CAAGAAGAACACAAGAACAAAAA
11824882 AAATAACGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.48
23 2 0.10
24 9 0.43
ACGTcount: A:0.69, C:0.18, G:0.13, T:0.00
Consensus pattern (24 bp):
CAAGAAGAACACAAGAACAAAAAC
Found at i:11830420 original size:24 final size:24
Alignment explanation
Indices: 11830393--11830438 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
11830383 TGCAGCTACG
*
11830393 TTTACAGCTGGTCTTGCATTTCCT
1 TTTACAGCTGGTCTAGCATTTCCT
* * *
11830417 TTTAGATCTGTTCTAGCATTTC
1 TTTACAGCTGGTCTAGCATTTC
11830439 TTACCTTTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.15, C:0.22, G:0.15, T:0.48
Consensus pattern (24 bp):
TTTACAGCTGGTCTAGCATTTCCT
Found at i:11834392 original size:52 final size:54
Alignment explanation
Indices: 11834317--11834419 Score: 124
Period size: 52 Copynumber: 1.9 Consensus size: 54
11834307 AAATGAAAGG
*
11834317 AAAACATAAGTAATATCGAATTTAAATATATATAAAAA-T-AATAAATAAATAGGC
1 AAAACATAAGTAATATCAAATTTAAATAT-T-TAAAAAGTAAATAAATAAATAGGC
* * *
11834371 AAAACA-AA-TAATATTAAATTTAAGTATTTAAAAAGTAAATGAATAAATA
1 AAAACATAAGTAATATCAAATTTAAATATTTAAAAAGTAAATAAATAAATA
11834420 AAATAAGTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
50 6 0.14
51 2 0.05
52 27 0.63
53 2 0.05
54 6 0.14
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (54 bp):
AAAACATAAGTAATATCAAATTTAAATATTTAAAAAGTAAATAAATAAATAGGC
Found at i:11834553 original size:11 final size:11
Alignment explanation
Indices: 11834533--11834562 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11834523 TTAACATATG
*
11834533 AGAAAGAATAA
1 AGAAATAATAA
11834544 AGAAATAATAA
1 AGAAATAATAA
11834555 AGAAATAA
1 AGAAATAA
11834563 ATAAGTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (11 bp):
AGAAATAATAA
Found at i:11838927 original size:21 final size:22
Alignment explanation
Indices: 11838898--11838944 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
11838888 CAGAAGGAGT
*
11838898 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
11838920 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
11838941 GAGT
1 GAGT
11838945 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:11848242 original size:177 final size:177
Alignment explanation
Indices: 11847944--11848297 Score: 555
Period size: 177 Copynumber: 2.0 Consensus size: 177
11847934 TCCAAGTTTC
* * *
11847944 ATGGTAGGTTGACTCTTTTTCGTTACCTCCTTTTTAAATTGGTAACTCTAGATATTCTAATATCT
1 ATGGTAGGTTGACTCTTTTTCGTTACCTCCTCTTTAAATTGGTAACTCTAAATACTCTAATATCT
* * *
11848009 ACTTAAAGTTAAGACTTTTATGGGATGACATTCGTTCTTTGATACAATAGGTACATATCAAAACT
66 ACTGAAAGTTAAGACTTTTATAGGATGACATTCGTTCTTTGATACAACAGGTACATATCAAAACT
* * *
11848074 CAACATAGACACCATTAGATGGACCACTTCATTTGTAGAGCGGCGTT
131 CAACATAGACACCATCAAATGGACCACTTCATTTGGAGAGCGGCGTT
* *
11848121 ATGGTAGGTTGACTCTTTTTCGTTGCCTCCTCTTTAAATTGGTAACTCTAAATACTCTAATATTT
1 ATGGTAGGTTGACTCTTTTTCGTTACCTCCTCTTTAAATTGGTAACTCTAAATACTCTAATATCT
* * * **
11848186 ACTGAAAGTTAAGACTTTTATAGGATGACATTTGTTCTTTGTTACAACATGTACATATCAGTACT
66 ACTGAAAGTTAAGACTTTTATAGGATGACATTCGTTCTTTGATACAACAGGTACATATCAAAACT
*
11848251 CAACATGGACACCATCAAATGGACCACTTCATTTGGAGAGCGGCGTT
131 CAACATAGACACCATCAAATGGACCACTTCATTTGGAGAGCGGCGTT
11848298 GTTCATGTTT
Statistics
Matches: 160, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
177 160 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (177 bp):
ATGGTAGGTTGACTCTTTTTCGTTACCTCCTCTTTAAATTGGTAACTCTAAATACTCTAATATCT
ACTGAAAGTTAAGACTTTTATAGGATGACATTCGTTCTTTGATACAACAGGTACATATCAAAACT
CAACATAGACACCATCAAATGGACCACTTCATTTGGAGAGCGGCGTT
Found at i:11849897 original size:22 final size:22
Alignment explanation
Indices: 11849864--11849906 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11849854 GCATCGCTCA
*
11849864 CTCCTCTGCACCGACGAGACTC
1 CTCCTCTGCACCAACGAGACTC
*
11849886 CTCC-CTGCCACCAACGGGACT
1 CTCCTCTG-CACCAACGAGACT
11849907 GCTCTGAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.19, C:0.47, G:0.19, T:0.16
Consensus pattern (22 bp):
CTCCTCTGCACCAACGAGACTC
Found at i:11850564 original size:14 final size:14
Alignment explanation
Indices: 11850545--11850573 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11850535 AGCTTAATAG
11850545 TATATTTTAAAAAA
1 TATATTTTAAAAAA
11850559 TATATTTTAAAAAA
1 TATATTTTAAAAAA
11850573 T
1 T
11850574 CCGAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATTTTAAAAAA
Found at i:11850733 original size:12 final size:13
Alignment explanation
Indices: 11850705--11850738 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
11850695 GTATATTTTG
*
11850705 AAAAATAAAATCC
1 AAAAATAAAATCA
11850718 AAAAATAAAAT-A
1 AAAAATAAAATCA
11850730 AAAAATAAA
1 AAAAATAAA
11850739 CGGCCAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAATCA
Found at i:11851099 original size:144 final size:144
Alignment explanation
Indices: 11850569--11851886 Score: 1668
Period size: 146 Copynumber: 9.2 Consensus size: 144
11850559 TATATTTTAA
* * *
11850569 AAAATCCGAAAAT-AAAATAAAAAAAGGCCAAAATCAGAG-TTTTTTACTAAATTAATATAAATA
1 AAAATCCGAAAATAAAAATAAAAAACGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAA
*
11850632 TACTAAAATAATACATATGAAACATTATGTACTAAAAT-A-ATAAAAAAATAAAATACGAAAATA
66 AACTAAAATAATAC--ATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATA
*
11850695 GTATATTTTGAAAAAT
129 GTATATTTTAAAAAAT
* * * *** *
11850711 AAAATCCAAAAATAAAATAAAAAATAAACGGCCAAAAT-AAAAAATTTTTACTAAATTAATATAA
1 AAAATCCGAAAAT-AAA-AATAAA-AAACGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAA
*
11850775 AAAAACTAAAATAACACATTTGAAACATTATGTACTAAAATAATATAAAAATAAATAAAATACGA
63 AAAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATAT-AAAA-AAATAAAATACGA
11850840 AAATAGTATATTTTAAAAAAT
124 AAATAGTATATTTTAAAAAAT
* * ** * * *
11850861 AAAATCCGAAAACAAAATTAAAAAAAAGCCAAAATCACAG-ATTTTTACTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAAATAAAAAACGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAA
* * *
11850925 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAACAAAATACAAAAATAAT
66 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGT
**
11850990 ATATCCTAAAAAAT
131 ATATTTTAAAAAAT
* * *
11851004 AAAATCCGAAAATAAAAATAAAAAAGGGTCAAAGTCAGAGTTTTTTTTTCTAAATTAATAT-AAA
1 AAAATCCGAAAATAAAAATAAAAAACGGCCAAAATCAGAG-TTTTTTTTCTAAATTAATATAAAA
*
11851068 AAACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAA-ACAAATACAAAAATA
65 AAACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAATA-AAATACGAAAATA
* *
11851132 ATAAATTTTAAAAAAT
129 GTATATTTTAAAAAAT
* *
11851148 AAATTTCGAAAATAAAAATAAAAAA-GGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAAATAAAAAACGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAA
* *
11851212 AACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAAAAGA
66 AACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATA
11851277 GTATATTTTAAAAAAT
129 GTATATTTTAAAAAAT
* * * *
11851293 AAAAT-CTAAAA-ACAAAATAAATAAAACGGCCAAAATCACAG-ATTTTTACTAAATTAATATAA
1 AAAATCCGAAAATA-AAAAT-AA-AAAACGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAA
*
11851355 AAAAACTAAAATAATACATGAAACATTATGTACTAAAGTAATAT--AAAAATAAAATACGAAAAT
63 AAAAACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAAT
11851418 AGTATATTTTAAAAAAT
128 AGTATATTTTAAAAAAT
* * *
11851435 AAAATCCTAAAATAAAAA-ATAAAAAGGGCC-AAATTAGAGTTTTTTTTCTAAATTAATATAAAA
1 AAAATCCGAAAATAAAAATA-AAAAACGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAA
11851498 AAACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAAT---AT--GAAAATAG
65 AAACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAG
*
11851558 TATATTTTAGAAAAT
130 TATATTTTAAAAAAT
* * *
11851573 AAAATTCGAAAATAAAATAAAAAATAAATGGCCAAAATCAGAGTTTTTTTAT-TAAATTAATAT-
1 AAAATCCGAAAAT-AAA-AATAAA-AAACGGCCAAAATCAGAGTTTTTTT-TCTAAATTAATATA
11851636 AAAAAACTAAAATAATACATTTCG-AACATTATGTACTAAAATAATAT-AAAAAATAAAATACGA
62 AAAAAACTAAAATAATACA--T-GAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGA
*
11851699 AAATAGTATATTTTAAAAAGT
124 AAATAGTATATTTTAAAAAAT
* ** *
11851720 AAAATCCGAAAATAAAAAAAAAATAAACGATCAAAATCAGAGTTTTTTAT-TAAATTAATATAAA
1 AAAATCCGAAAAT-AAAAATAAA-AAACGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAA
** *
11851784 AAATAAAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT--AAAAATAAAAAACGAAA
64 AAA-ACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAA
*
11851847 ATAATATATTTTAAAAAAT
126 ATAGTATATTTTAAAAAAT
11851866 AAAATCCGAAAAT-AAAATAAA
1 AAAATCCGAAAATAAAAATAAA
11851887 TACCAAAATA
Statistics
Matches: 1053, Mismatches: 77, Indels: 90
0.86 0.06 0.07
Matches are distributed among these distances:
138 33 0.03
139 3 0.00
140 13 0.01
141 98 0.09
142 105 0.10
143 136 0.13
144 152 0.14
145 127 0.12
146 189 0.18
147 138 0.13
148 8 0.01
149 7 0.01
150 44 0.04
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (144 bp):
AAAATCCGAAAATAAAAATAAAAAACGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAA
AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGT
ATATTTTAAAAAAT
Found at i:11851148 original size:14 final size:15
Alignment explanation
Indices: 11851126--11851166 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
11851116 AACAAATACA
11851126 AAAATAATAAATTTT
1 AAAATAATAAATTTT
*
11851141 AAAA-AATAAATTTCG
1 AAAATAATAAATTT-T
11851156 AAAATAA-AAAT
1 AAAATAATAAAT
11851167 AAAAAAGGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 9 0.39
15 12 0.52
16 2 0.09
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
AAAATAATAAATTTT
Found at i:11851216 original size:287 final size:288
Alignment explanation
Indices: 11850569--11851888 Score: 1702
Period size: 287 Copynumber: 4.6 Consensus size: 288
11850559 TATATTTTAA
* *
11850569 AAAATCCGAAAAT-AAAATAAAAAAAGGCCAAAATCAGAG-TTTTTTACTAAATTAATATAAATA
1 AAAATCCGAAAATAAAAAT-AAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAA
* *
11850632 TACTAAAATAATACATATGAAACATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAG
65 AACTAAAATAATAC--ATGAAACATTATGTACTAAAATAATATAAAAAAAAAAATACGAAAATAG
* * * ***
11850696 TATATTTTGAAAAATAAAATCCAAAAATAAAATAAAAAATAAACGGCCAAAAT-A-AAAAATTTT
128 TATATTTTAAAAAATAAAATCCGAAAAT-AAA-AATAAATAAACGGCCAAAATCAGAGTTATTTT
*
11850759 TACTAAATTAATATAAAAAAACTAAAATAACACATTTGAAACATTATGTACTAAAATAATATAAA
191 TACTAAATTAATATAAAAAAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATAT-AA
11850824 AATAAATAAAATACGAAAATAGTATATTTTAAAAAAT
254 AA-AAA-AAAATACGAAAATAGTATATTTTAAAAAAT
* * * * * *
11850861 AAAATCCGAAAACAAAATTAAAAAAAAGCCAAAATCACAG-ATTTTTACTAAATTAATATAAAAA
1 AAAATCCGAAAATAAAAAT-AAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAA
* *
11850925 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAACAAAATACAAAAATAAT
65 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAA-AAAATACGAAAATAGT
** * * * * *
11850990 ATATCCTAAAAAATAAAATCCGAAAATAAAAATAAA-AAAGGGTCAAAGTCAGAGTTTTTTTTTC
129 ATATTTTAAAAAATAAAATCCGAAAATAAAAATAAATAAACGGCCAAAATCAGAGTTATTTTTAC
11851054 TAAATTAATAT-AAAAAACTAAAATAATACA-TGAAACATTATGTACTAAAATAATATAAAAAAA
194 TAAATTAATATAAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAAA
* * *
11851117 ACAAATACAAAAATAATAAATTTTAAAAAAT
259 A-AAATACGAAAATAGTATATTTTAAAAAAT
* *
11851148 AAATTTCGAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAA
1 AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAA
* *
11851213 ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAAAAGAG
66 ACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAA-AAAAAAATACGAAAATAG
* *
11851278 TATATTTTAAAAAATAAAAT-CTAAAA-ACAAAATAAATAAAACGGCCAAAATCACAG--ATTTT
128 TATATTTTAAAAAATAAAATCCGAAAATA-AAAATAAAT-AAACGGCCAAAATCAGAGTTATTTT
*
11851339 TACTAAATTAATATAAAAAAACTAAAATAATACA-TGAAACATTATGTACTAAAGTAATAT-AAA
191 TACTAAATTAATATAAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAA
*
11851402 AATAAAATACGAAAATAGTATATTTTAAAAAAT
256 AAAAAAATACGAAAATAGTATATTTTAAAAAAT
* * *
11851435 AAAATCCTAAAATAAAAAATAAAAAGGGCC-AAATTAGAGTTTTTTTTCTAAATTAATATAAAAA
1 AAAATCCGAAAAT-AAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAA
*
11851499 AACTAAAATAATACATGAAACATTATGTACTAAAATAATAT----AAAAAAATATGAAAATAGTA
65 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAAAAAATACGAAAATAGTA
* * * *
11851560 TATTTTAGAAAATAAAATTCGAAAATAAAATAAAAAATAAATGGCCAAAATCAGAGTT-TTTTTA
130 TATTTTAAAAAATAAAATCCGAAAAT-AAA-AATAAATAAACGGCCAAAATCAGAGTTATTTTTA
*
11851624 TTAAATTAATAT-AAAAAACTAAAATAATACATTTCG-AACATTATGTACTAAAATAATATAAAA
193 CTAAATTAATATAAAAAAACTAAAATAATACA-TT-GAAACATTATGTACTAAAATAATATAAAA
* *
11851687 AATAAAATACGAAAATAGTATATTTTAAAAAGT
256 AAAAAAATACGAAAATAGTATATTTTAAAAAAT
* ** *
11851720 AAAATCCGAAAATAAAAAAAAAATAAACGATCAAAATCAGAGTTTTTTAT-TAAATTAATATAAA
1 AAAATCCGAAAAT-AAAAATAAA-AAA-GGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAA
** *
11851784 AAATAAAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATAAAAA-ACGAAAA
63 AAA-ACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAAAAAAATACGAAAA
*
11851848 TAATATATTTTAAAAAATAAAATCCGAAAAT-AAAATAAATA
125 TAGTATATTTTAAAAAATAAAATCCGAAAATAAAAATAAATA
11851889 CCAAAATATA
Statistics
Matches: 909, Mismatches: 84, Indels: 72
0.85 0.08 0.07
Matches are distributed among these distances:
280 34 0.04
281 5 0.01
282 37 0.04
283 24 0.03
284 23 0.03
285 83 0.09
286 21 0.02
287 185 0.20
288 82 0.09
289 130 0.14
290 59 0.06
291 52 0.06
292 39 0.04
293 129 0.14
294 6 0.01
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (288 bp):
AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAA
ACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAAAAAAATACGAAAATAGTAT
ATTTTAAAAAATAAAATCCGAAAATAAAAATAAATAAACGGCCAAAATCAGAGTTATTTTTACTA
AATTAATATAAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATATAAAAAAAAA
AATACGAAAATAGTATATTTTAAAAAAT
Found at i:11858283 original size:78 final size:77
Alignment explanation
Indices: 11858187--11858342 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 77
11858177 TAACACTAAA
11858187 CAAACTATATAATACTAACAAAATAATTTTTTCTTATCATAATCTATTTTATTTAAAAAATAACA
1 CAAACTATATAATACTAACAAAATAATTTTTTCTTATCATAATCTATTTTATTTAAAAAATAACA
11858252 ACAAAAAAATTAC
66 AC-AAAAAATTAC
11858265 CAAACTATATAATACTAACAAAATAATTTTTTCTTATCATAATCTATTTTATTTAAAAAATAACA
1 CAAACTATATAATACTAACAAAATAATTTTTTCTTATCATAATCTATTTTATTTAAAAAATAACA
11858330 ACAAAAAATTAC
66 ACAAAAAATTAC
11858342 C
1 C
11858343 TTTTCTTTTA
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
77 11 0.14
78 67 0.86
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (77 bp):
CAAACTATATAATACTAACAAAATAATTTTTTCTTATCATAATCTATTTTATTTAAAAAATAACA
ACAAAAAATTAC
Found at i:11858507 original size:27 final size:27
Alignment explanation
Indices: 11858477--11858534 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
11858467 GAGAAAGGCA
11858477 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACTGGTGCCGCCTGTGGGGTACCCT
*
11858504 CCACTGGTGCCGCTTGTGGGGTACCCT
1 CCACTGGTGCCGCCTGTGGGGTACCCT
11858531 CCAC
1 CCAC
11858535 CCTTATTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.09, C:0.38, G:0.31, T:0.22
Consensus pattern (27 bp):
CCACTGGTGCCGCCTGTGGGGTACCCT
Found at i:11859341 original size:2 final size:2
Alignment explanation
Indices: 11859334--11859358 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11859324 CACGTTTAAA
11859334 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
11859359 ATTGTAAACT
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:11859494 original size:30 final size:31
Alignment explanation
Indices: 11859437--11859504 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
11859427 GTTACAAATG
* *
11859437 GTCATTGAATTATTTGAGAGTTTTTATTTAA
1 GTCATTGAACTATTTGAAAGTTTTTATTTAA
11859468 GTCATTGAACTATTTGAAAG-TTTTATTTAA
1 GTCATTGAACTATTTGAAAGTTTTTATTTAA
*
11859498 GTAATTG
1 GTCATTG
11859505 GTTGCTAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (31 bp):
GTCATTGAACTATTTGAAAGTTTTTATTTAA
Done.