Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 124 of 135
Found at i:37507056 original size:6 final size:6
Alignment explanation
Indices: 37507022--37507077 Score: 53
Period size: 6 Copynumber: 9.5 Consensus size: 6
37507012 TAATAGGGAT
* * * *
37507022 TTTCAA TTTACAA -TTC-A TATCAC TTTCAA TTTCAA TTTCAC TTTCAC
1 TTTCAA TTT-CAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA
37507069 TTTCAA TTT
1 TTTCAA TTT
37507078 TGATCACAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
4 1 0.02
5 3 0.07
6 34 0.83
7 3 0.07
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTCAA
Found at i:37507064 original size:18 final size:18
Alignment explanation
Indices: 37507041--37507077 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
37507031 ACAATTCATA
37507041 TCACTTTCAATTTCAATT
1 TCACTTTCAATTTCAATT
*
37507059 TCACTTTCACTTTCAATT
1 TCACTTTCAATTTCAATT
37507077 T
1 T
37507078 TGATCACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.51
Consensus pattern (18 bp):
TCACTTTCAATTTCAATT
Found at i:37510875 original size:17 final size:17
Alignment explanation
Indices: 37510853--37510891 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
37510843 TAATGAAATT
*
37510853 TTATAAATTAAAAATAA
1 TTATAAAATAAAAATAA
*
37510870 TTATAAAATAAGAATAA
1 TTATAAAATAAAAATAA
37510887 TTATA
1 TTATA
37510892 TTTAAAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TTATAAAATAAAAATAA
Found at i:37518096 original size:11 final size:12
Alignment explanation
Indices: 37518065--37518090 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37518055 TTGACCTTCA
37518065 TGAGATATTTTT
1 TGAGATATTTTT
37518077 TGAGATATTTTT
1 TGAGATATTTTT
37518089 TG
1 TG
37518091 TGTATTAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (12 bp):
TGAGATATTTTT
Found at i:37521857 original size:3 final size:3
Alignment explanation
Indices: 37521851--37521894 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
37521841 AAATGGTGGA
37521851 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37521895 AGACAATGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37522759 original size:28 final size:30
Alignment explanation
Indices: 37522719--37522774 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
37522709 TTATAATAAT
37522719 AAAAATATAATT-A-TTTTTATTATTTTTA
1 AAAAATATAATTAATTTTTTATTATTTTTA
37522747 AAAAAT-TAAATTAATTTTTTATTATTTT
1 AAAAATAT-AATTAATTTTTTATTATTTT
37522775 GAGTGTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 1 0.04
28 10 0.40
29 1 0.04
30 13 0.52
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (30 bp):
AAAAATATAATTAATTTTTTATTATTTTTA
Found at i:37533846 original size:18 final size:18
Alignment explanation
Indices: 37533811--37533865 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
37533801 GTAATTAGTG
* * *
37533811 TAAAAATAATTATGATAA
1 TAAAATTAAATATTATAA
37533829 TAAAATTAAATATTATAA
1 TAAAATTAAATATTATAA
* *
37533847 TAAAATAAAAAATTA-AA
1 TAAAATTAAATATTATAA
37533864 TA
1 TA
37533866 TAGCATTGAA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 4 0.12
18 28 0.88
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
TAAAATTAAATATTATAA
Found at i:37539616 original size:13 final size:15
Alignment explanation
Indices: 37539588--37539624 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
37539578 ATTGCATTTA
37539588 AAATTAATAGTTATT
1 AAATTAATAGTTATT
37539603 AAATTAA-A-TTATT
1 AAATTAATAGTTATT
37539616 AAATCTAAT
1 AAAT-TAAT
37539625 TAATAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 9 0.45
14 4 0.20
15 7 0.35
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (15 bp):
AAATTAATAGTTATT
Found at i:37542396 original size:17 final size:18
Alignment explanation
Indices: 37542361--37542401 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
37542351 GATTTGTATA
37542361 AAAAAAATTAAGTTTATTTT
1 AAAAAAATTAAG--TATTTT
37542381 AAAAAAATTAAG-ATTTT
1 AAAAAAATTAAGTATTTT
37542398 AAAA
1 AAAA
37542402 TGTTGCTCGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
20 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (18 bp):
AAAAAAATTAAGTATTTT
Found at i:37545384 original size:29 final size:30
Alignment explanation
Indices: 37545341--37545420 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
37545331 GAATTGAATC
*
37545341 AAATCAAAATTTCATGTATACAATTGCACA-
1 AAATC-AAAGTTCATGTATACAATTGCACAT
*
37545371 AAATCAAAGTTCATATATACAATTGCACATT
1 AAATCAAAGTTCATGTATACAATTGCACA-T
**
37545402 AAATCTTAGTTCATGTATA
1 AAATCAAAGTTCATGTATA
37545421 GTTTTGGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 22 0.51
30 5 0.12
31 16 0.37
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.34
Consensus pattern (30 bp):
AAATCAAAGTTCATGTATACAATTGCACAT
Found at i:37553694 original size:2 final size:2
Alignment explanation
Indices: 37553687--37553719 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37553677 ATGGTGATTA
37553687 AT AT AT AT 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 AT AT AT AT A
37553720 AATTATGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37561243 original size:16 final size:17
Alignment explanation
Indices: 37561222--37561254 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37561212 AACTCAGGTA
*
37561222 TCAATTTGAA-AAAAAC
1 TCAATTGGAACAAAAAC
37561238 TCAATTGGAACAAAAAC
1 TCAATTGGAACAAAAAC
37561255 GCTTAGGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.15, G:0.09, T:0.21
Consensus pattern (17 bp):
TCAATTGGAACAAAAAC
Found at i:37562476 original size:3 final size:3
Alignment explanation
Indices: 37562468--37562500 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
37562458 CTTGAATTGG
37562468 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
37562501 AGTTGAGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:37571549 original size:2 final size:2
Alignment explanation
Indices: 37571542--37571568 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37571532 GTTGTTCCCT
37571542 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
37571569 TATTTATTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:37582602 original size:3 final size:3
Alignment explanation
Indices: 37582557--37582586 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
37582547 GAAGATGGCA
37582557 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
37582587 CAGAGGATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:37583116 original size:15 final size:15
Alignment explanation
Indices: 37583084--37583135 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
37583074 AGTTATTAAT
** *
37583084 TTTTTAATTTTTATA
1 TTTTTAATTTGAAAA
37583099 TTTTTAATTTGAAAA
1 TTTTTAATTTGAAAA
37583114 -TTTTAATTATGAAAA
1 TTTTTAATT-TGAAAA
*
37583129 TTGTTAA
1 TTTTTAA
37583136 ATTAATTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 8 0.26
15 18 0.58
16 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
TTTTTAATTTGAAAA
Found at i:37583117 original size:14 final size:15
Alignment explanation
Indices: 37583100--37583135 Score: 56
Period size: 14 Copynumber: 2.4 Consensus size: 15
37583090 ATTTTTATAT
37583100 TTTTAATT-TGAAAA
1 TTTTAATTATGAAAA
37583114 TTTTAATTATGAAAA
1 TTTTAATTATGAAAA
37583129 TTGTTAA
1 TT-TTAA
37583136 ATTAATTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.40
15 8 0.40
16 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (15 bp):
TTTTAATTATGAAAA
Found at i:37587110 original size:19 final size:19
Alignment explanation
Indices: 37587060--37587112 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
37587050 ACCCCTTTCA
*
37587060 ATAATATTATTTTCAAAAAT
1 ATAATA-TATTTTAAAAAAT
*
37587080 -TAAATTAAATTTTAAAAAAT
1 AT-AA-TATATTTTAAAAAAT
37587100 ATAATATATTTTA
1 ATAATATATTTTA
37587113 CAATTATACC
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
19 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATAATATATTTTAAAAAAT
Found at i:37592142 original size:3 final size:3
Alignment explanation
Indices: 37592134--37592164 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
37592124 AGTACAAATG
37592134 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
37592165 TATGAGACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:37595528 original size:58 final size:58
Alignment explanation
Indices: 37595437--37595556 Score: 161
Period size: 58 Copynumber: 2.1 Consensus size: 58
37595427 AAAAAGAGTT
*
37595437 GTTTATGAGTGTTATTTAGGAATAAAATTATATTTAAG-TTAAAAATATTTAGGTTTA
1 GTTTATGAGTGTTATTTAAGAATAAAATTATATTTAAGTTTAAAAATATTTAGGTTTA
* * * ** *
37595494 GTTTATGAGTATTTTTTTAAGAATGAAATTATATTTGGGTTTAAAAATATTTGGGTTTA
1 GTTTATGAGT-GTTATTTAAGAATAAAATTATATTTAAGTTTAAAAATATTTAGGTTTA
37595553 GTTT
1 GTTT
37595557 GTTGATGGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 10 0.19
58 22 0.41
59 22 0.41
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.48
Consensus pattern (58 bp):
GTTTATGAGTGTTATTTAAGAATAAAATTATATTTAAGTTTAAAAATATTTAGGTTTA
Found at i:37596208 original size:50 final size:51
Alignment explanation
Indices: 37596129--37596225 Score: 137
Period size: 50 Copynumber: 1.9 Consensus size: 51
37596119 AATCCAACCA
* *
37596129 ATGAAATTTAATGTGATTATTTCGGTTATCCTTT-AAAATATTTTTATAGC
1 ATGAAATTTAATGTAATTATTTCGATTATCCTTTAAAAATATTTTTATAGC
37596179 ATGAAATTTAAT-TAAGTTATTAT-GATTATCCTTTAAAAATATTTTTA
1 ATGAAATTTAATGTAA-TTATT-TCGATTATCCTTTAAAAATATTTTTA
37596226 AAAATGTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
49 2 0.05
50 27 0.64
51 13 0.31
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (51 bp):
ATGAAATTTAATGTAATTATTTCGATTATCCTTTAAAAATATTTTTATAGC
Found at i:37597291 original size:21 final size:21
Alignment explanation
Indices: 37597237--37597294 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
37597227 TGAAAAATAA
* *
37597237 TAAAATAAATAAATAATACAT
1 TAAATTAAAAAAATAATACAT
*
37597258 TAAATTAAAAAAATAATTC-T
1 TAAATTAAAAAAATAATACAT
*
37597278 TAATTTAAAGAAAATAA
1 TAAATTAAA-AAAATAA
37597295 ATGTAATATC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.28
21 23 0.72
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (21 bp):
TAAATTAAAAAAATAATACAT
Found at i:37606073 original size:59 final size:59
Alignment explanation
Indices: 37606010--37606204 Score: 234
Period size: 59 Copynumber: 3.3 Consensus size: 59
37606000 GGACTTTCGA
* * * * *
37606010 GGGTAAAAATTTAATTTTTGGTGAAAGT-AGGGTCAAAAATGGAATCTTGGAAAGTTTAC
1 GGGTAAAAATGTAATTTTTGGTGAAA-TCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
** *
37606069 GGGTAAAACGGTAATTTTTGGTGAAATCGGGGTTAAAAAT-GAGATTTTAGAAAGTTTGAG
1 GGGTAAAAATGTAATTTTTGGTGAAATCGGGGTTAAAAATGGA-ATTTTGGAAAGTTT-AG
* *
37606129 GGGT-AAAATGGAGATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGG
1 GGGTAAAAATGTA-ATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
*
37606188 GGGTAAAAATATAATTT
1 GGGTAAAAATGTAATTT
37606205 ATGAACAGTT
Statistics
Matches: 115, Mismatches: 15, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
58 3 0.03
59 59 0.51
60 51 0.44
61 2 0.02
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (59 bp):
GGGTAAAAATGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTAG
Found at i:37606116 original size:30 final size:30
Alignment explanation
Indices: 37606082--37606178 Score: 87
Period size: 29 Copynumber: 3.3 Consensus size: 30
37606072 TAAAACGGTA
37606082 ATTTTTGGTGAAATCGGGGTTAAAAATGAG
1 ATTTTTGGTGAAATCGGGGTTAAAAATGAG
* * *
37606112 A-TTTT--AGAAAGTTTGAGGGGT-AAAATGGAG
1 ATTTTTGGTGAAA--TCG-GGGTTAAAAAT-GAG
37606142 ATTTTTGGTGAAATCGGGGTTAAAAATG-G
1 ATTTTTGGTGAAATCGGGGTTAAAAATGAG
*
37606171 AATTTTGG
1 ATTTTTGG
37606179 AAAGTTTGGG
Statistics
Matches: 52, Mismatches: 7, Indels: 17
0.68 0.09 0.22
Matches are distributed among these distances:
27 4 0.08
29 19 0.37
30 14 0.27
31 11 0.21
33 4 0.08
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.34
Consensus pattern (30 bp):
ATTTTTGGTGAAATCGGGGTTAAAAATGAG
Found at i:37606153 original size:60 final size:60
Alignment explanation
Indices: 37606021--37606195 Score: 234
Period size: 60 Copynumber: 3.0 Consensus size: 60
37606011 GGTAAAAATT
* * * *
37606021 TAATTTTTGGTGAAAGT-AGGGTCAAAAATGGAATCTTGGAAAGTTT-ACGGGTAAAACGG
1 TAATTTTTGGTGAAA-TCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGGTAAAACGG
* *
37606080 TAATTTTTGGTGAAATCGGGGTTAAAAAT-GAGATTTTAGAAAGTTTGAGGGGTAAAATGG
1 TAATTTTTGGTGAAATCGGGGTTAAAAATGGA-ATTTTGGAAAGTTTGAGGGGTAAAACGG
37606140 -AGATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTG-GGGGTAAAA
1 TA-ATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGGTAAAA
37606196 ATATAATTTA
Statistics
Matches: 104, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
58 3 0.03
59 47 0.45
60 52 0.50
61 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.31
Consensus pattern (60 bp):
TAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGGTAAAACGG
Found at i:37606191 original size:30 final size:30
Alignment explanation
Indices: 37606097--37606197 Score: 95
Period size: 29 Copynumber: 3.4 Consensus size: 30
37606087 TGGTGAAATC
* *
37606097 GGGGTTAAAAAT-GAGATTTTAGAAAGTTT
1 GGGGGTAAAAATGGAGATTTTGGAAAGTTT
*
37606126 GAGGGGT-AAAATGGAGATTTTTGGTGAAA--TC
1 G-GGGGTAAAAATGGAGA-TTTT-G-GAAAGTTT
*
37606157 GGGGTTAAAAATGGA-ATTTTGGAAAGTTT
1 GGGGGTAAAAATGGAGATTTTGGAAAGTTT
37606186 GGGGGTAAAAAT
1 GGGGGTAAAAAT
37606198 ATAATTTATG
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
27 4 0.07
28 1 0.02
29 22 0.38
30 13 0.22
31 14 0.24
33 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.33, T:0.31
Consensus pattern (30 bp):
GGGGGTAAAAATGGAGATTTTGGAAAGTTT
Found at i:37607311 original size:23 final size:21
Alignment explanation
Indices: 37607265--37607312 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
37607255 TTCTTTTTTA
*
37607265 ATTA-TTATTAAATTAATAAT
1 ATTATTTATTAAATTAATAAC
*
37607285 ATTATTTATTAATATTTAATACC
1 ATTATTTATTAA-A-TTAATAAC
37607308 ATTAT
1 ATTAT
37607313 CACTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 7 0.30
22 1 0.04
23 11 0.48
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTATTTATTAAATTAATAAC
Found at i:37608175 original size:17 final size:17
Alignment explanation
Indices: 37608155--37608199 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
37608145 TTTCAAATGT
37608155 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
37608172 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
*
37608188 ATTTAAAATTAA
1 ATTTAAATTTAA
37608200 TTTCAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:37608196 original size:23 final size:24
Alignment explanation
Indices: 37608170--37608219 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
37608160 AATTTAAAAC
37608170 AAATTTAAATTT-AAA-TAAATTTA
1 AAATTT-AATTTCAAACTAAATTTA
*
37608193 AAA-TTAATTTCAAACTTAATTTA
1 AAATTTAATTTCAAACTAAATTTA
37608216 AAAT
1 AAAT
37608220 CCAAGTTGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 5 0.22
22 5 0.22
23 13 0.57
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTTAATTTCAAACTAAATTTA
Found at i:37608201 original size:27 final size:28
Alignment explanation
Indices: 37608158--37608211 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
37608148 CAAATGTATT
*
37608158 TAAATTTAAAACAAATTT-AAATTTAAA
1 TAAATTTAAAACAAATTTCAAACTTAAA
**
37608185 TAAATTTAAAATTAATTTCAAACTTAA
1 TAAATTTAAAACAAATTTCAAACTTAA
37608212 TTTAAAATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.39
Consensus pattern (28 bp):
TAAATTTAAAACAAATTTCAAACTTAAA
Found at i:37608213 original size:12 final size:11
Alignment explanation
Indices: 37608177--37608219 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
37608167 AACAAATTTA
*
37608177 AATTT-AAATA
1 AATTTAAAATT
37608187 AATTTAAAATT
1 AATTTAAAATT
*
37608198 AATTTCAAACTT
1 AATTT-AAAATT
37608210 AATTTAAAAT
1 AATTTAAAAT
37608220 CCAAGTTGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 5 0.18
11 13 0.46
12 10 0.36
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (11 bp):
AATTTAAAATT
Found at i:37610239 original size:16 final size:16
Alignment explanation
Indices: 37610218--37610249 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37610208 TACATGTGGA
37610218 AAATAATAAAATAAAT
1 AAATAATAAAATAAAT
*
37610234 AAATAATAAATTAAAT
1 AAATAATAAAATAAAT
37610250 TGAAAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAATAAAATAAAT
Found at i:37612321 original size:32 final size:32
Alignment explanation
Indices: 37612285--37612347 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
37612275 TCATTAACTT
37612285 ATAAATCAATTACG-TGAATTTAATAACTCATG
1 ATAAATCAATTA-GTTGAATTTAATAACTCATG
* * *
37612317 ATAAATTAATTAGTTTAATTTGATAACTCAT
1 ATAAATCAATTAGTTGAATTTAATAACTCAT
37612348 ATTAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.43, C:0.10, G:0.08, T:0.40
Consensus pattern (32 bp):
ATAAATCAATTAGTTGAATTTAATAACTCATG
Found at i:37616707 original size:25 final size:23
Alignment explanation
Indices: 37616671--37616716 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
37616661 TCCCCCGATT
37616671 TTTCTTTTTCTTTTCCTTCTTTA
1 TTTCTTTTTCTTTTCCTTCTTTA
*
37616694 TTTCATTTTCTCTTTTCTTTCTT
1 TTTC-TTTT-TCTTTTCCTTCTT
37616717 CCCTCTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 4 0.20
25 12 0.60
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (23 bp):
TTTCTTTTTCTTTTCCTTCTTTA
Found at i:37618147 original size:22 final size:23
Alignment explanation
Indices: 37618119--37618162 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
37618109 TCAAATTAAA
37618119 CATTGTATCT-AAAAAAACCATC
1 CATTGTATCTCAAAAAAACCATC
*
37618141 CATTGTATCTCAATAAAACCAT
1 CATTGTATCTCAAAAAAACCAT
37618163 TCATCTATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.43, C:0.23, G:0.05, T:0.30
Consensus pattern (23 bp):
CATTGTATCTCAAAAAAACCATC
Found at i:37618171 original size:22 final size:23
Alignment explanation
Indices: 37618119--37618173 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
37618109 TCAAATTAAA
*
37618119 CATTGTATCT-AAAAAAACCATC
1 CATTCTATCTCAAAAAAACCATC
* * *
37618141 CATTGTATCTCAATAAAACCATT
1 CATTCTATCTCAAAAAAACCATC
37618164 CA-TCTATCTC
1 CATTCTATCTC
37618174 CATAGCTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 17 0.59
23 12 0.41
ACGTcount: A:0.38, C:0.25, G:0.04, T:0.33
Consensus pattern (23 bp):
CATTCTATCTCAAAAAAACCATC
Found at i:37623786 original size:23 final size:23
Alignment explanation
Indices: 37623756--37623838 Score: 100
Period size: 23 Copynumber: 3.7 Consensus size: 23
37623746 AGTCATACAA
37623756 ACATAACATACATAATTATATAT
1 ACATAACATACATAATTATATAT
* *
37623779 ACATAACATACAGAATTATACAT
1 ACATAACATACATAATTATATAT
* *
37623802 ACAT-A-ATACATAA-AATAGTAA
1 ACATAACATACATAATTATA-TAT
37623823 ACATAACATACATAAT
1 ACATAACATACATAAT
37623839 ATACGTGATA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
20 3 0.06
21 12 0.24
22 2 0.04
23 33 0.66
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.28
Consensus pattern (23 bp):
ACATAACATACATAATTATATAT
Found at i:37623885 original size:46 final size:50
Alignment explanation
Indices: 37623822--37624118 Score: 289
Period size: 55 Copynumber: 5.6 Consensus size: 50
37623812 TAAAATAGTA
*
37623822 AACATAACATACATAATATACGTGATACACATACAAATATACAAACATAAC
1 AACATAACATA-ATAATATACATGATACACATACAAATATACAAACATAAC
* *
37623873 -A-ATAA-AT-ATAATAAACATGATATACATACAAATATACAAACATAAC
1 AACATAACATAATAATATACATGATACACATACAAATATACAAACATAAC
* *
37623919 AATAAACATAACATACATAATATACATGATATACATACAAATACACAAACATAAC
1 ----AACATAACATA-ATAATATACATGATACACATACAAATATACAAACATAAC
*
37623974 AGTAAACATAACATACATAATATACATGATACACATGCAAATATACAAACATAACAC
1 ----AACATAACATA-ATAATATACATGATACACATACAAATATACAAACAT-A-AC
*
37624031 TAAACATAACATACATAATATACAT-ATCATACATACAAATATACAAACATAAC
1 --AACATAACATA-ATAATATACATGAT-ACACATACAAATATACAAACATAAC
*
37624084 AGTACATAACATACATAATCATACATACATACACA
1 A--ACATAACATA-ATAAT-ATACAT-GATACACA
37624119 AACAGTAAAG
Statistics
Matches: 217, Mismatches: 12, Indels: 30
0.84 0.05 0.12
Matches are distributed among these distances:
46 36 0.17
48 2 0.01
49 4 0.02
50 1 0.00
51 2 0.01
52 4 0.02
53 20 0.09
54 9 0.04
55 134 0.62
56 3 0.01
57 2 0.01
ACGTcount: A:0.56, C:0.19, G:0.03, T:0.23
Consensus pattern (50 bp):
AACATAACATAATAATATACATGATACACATACAAATATACAAACATAAC
Found at i:37623888 original size:64 final size:67
Alignment explanation
Indices: 37623754--37623919 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 67
37623744 ACAGTCATAC
* * *
37623754 AAACATAACATACATAATTATATATACATAACATACAGAATTATACATACATAATACATAAAATA
1 AAACATAACATACATAATTATACATACATAACATACAGAATTATACAAACATAACACATAAAATA
*
37623819 GT
66 AT
* *
37623821 AAACATAACATACATAA-TATACGT-GATACACATACA-AA-TATACAAACATAACA-ATAAATA
1 AAACATAACATACATAATTATACATACATA-ACATACAGAATTATACAAACATAACACATAAA-A
37623881 TAAT
64 TAAT
* * * *
37623885 AAACATGATATACATACAAATATACAAACATAACA
1 AAACATAACATACAT--AATTATACATACATAACA
37623920 ATAAACATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
63 5 0.06
64 30 0.37
65 5 0.06
66 14 0.17
67 25 0.30
68 3 0.04
ACGTcount: A:0.57, C:0.15, G:0.03, T:0.25
Consensus pattern (67 bp):
AAACATAACATACATAATTATACATACATAACATACAGAATTATACAAACATAACACATAAAATA
AT
Found at i:37623930 original size:101 final size:104
Alignment explanation
Indices: 37623820--37624102 Score: 376
Period size: 110 Copynumber: 2.7 Consensus size: 104
37623810 CATAAAATAG
* *
37623820 TAAACATAACATACATAATATACGTGATACACATACAAATATACAAACATAACA-ATAA-AT-AT
1 TAAACATAACATACATAATATACATGATATACATACAAATATACAAACATAACACATAACATAAT
*
37623882 AATAAACATGATATACATACAAATATACAAACATAACAA
66 AATAAACATGATACACATACAAATATACAAACATAACAA
*
37623921 TAAACATAACATACATAATATACATGATATACATACAAATACACAAACATAACAGTAAACATAAC
1 TAAACATAACATACATAATATACATGATATACATACAAATATACAAACATAAC-----ACATAAC
* * *
37623986 ATACATAATATACATGATACACATGCAAATATACAAACATAACAC
61 ATA-ATAATAAACATGATACACATACAAATATACAAACATAACAA
37624031 TAAACATAACATACATAATATACAT-ATCATACATACAAATATACAAACATAACAGTACATAACA
1 TAAACATAACATACATAATATACATGAT-ATACATACAAATATACAAACATAAC---ACATAACA
37624095 TACATAAT
62 TA-ATAAT
37624103 CATACATACA
Statistics
Matches: 161, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
101 50 0.31
106 1 0.01
107 4 0.02
108 18 0.11
109 2 0.01
110 86 0.53
ACGTcount: A:0.57, C:0.18, G:0.03, T:0.23
Consensus pattern (104 bp):
TAAACATAACATACATAATATACATGATATACATACAAATATACAAACATAACACATAACATAAT
AATAAACATGATACACATACAAATATACAAACATAACAA
Found at i:37623939 original size:55 final size:55
Alignment explanation
Indices: 37623880--37624109 Score: 367
Period size: 55 Copynumber: 4.2 Consensus size: 55
37623870 AACAATAAAT
* *
37623880 ATAATAAACATGATATACATACAAATATACAAACATAACAATAAACATAACATAC
1 ATAATATACATGATATACATACAAATATACAAACATAACAGTAAACATAACATAC
*
37623935 ATAATATACATGATATACATACAAATACACAAACATAACAGTAAACATAACATAC
1 ATAATATACATGATATACATACAAATATACAAACATAACAGTAAACATAACATAC
* * *
37623990 ATAATATACATGATACACATGCAAATATACAAACATAACACTAAACATAACATAC
1 ATAATATACATGATATACATACAAATATACAAACATAACAGTAAACATAACATAC
37624045 ATAATATACAT-ATCATACATACAAATATACAAACATAACAGT--ACATAACATAC
1 ATAATATACATGAT-ATACATACAAATATACAAACATAACAGTAAACATAACATAC
37624098 ATAATCATACAT
1 ATAAT-ATACAT
37624110 ACATACACAA
Statistics
Matches: 163, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
53 16 0.10
54 8 0.05
55 139 0.85
ACGTcount: A:0.56, C:0.18, G:0.03, T:0.23
Consensus pattern (55 bp):
ATAATATACATGATATACATACAAATATACAAACATAACAGTAAACATAACATAC
Found at i:37624063 original size:43 final size:44
Alignment explanation
Indices: 37624016--37624122 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 44
37624006 ACATGCAAAT
* *
37624016 ATACAAACATAACACTAAACATAACA-TACATAATATACAT-ATC
1 ATACATACATAACAC-AAACATAACAGTACATAACATACATAATC
* *
37624059 ATACATACAAATATACAAACATAACAGTACATAACATACATAATC
1 ATACATACATA-ACACAAACATAACAGTACATAACATACATAATC
37624104 ATACATACAT-ACACAAACA
1 ATACATACATAACACAAACA
37624123 GTAAAGAAAC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 27 0.49
44 16 0.29
45 12 0.22
ACGTcount: A:0.56, C:0.21, G:0.01, T:0.21
Consensus pattern (44 bp):
ATACATACATAACACAAACATAACAGTACATAACATACATAATC
Found at i:37624065 original size:4 final size:4
Alignment explanation
Indices: 37624034--37624116 Score: 62
Period size: 4 Copynumber: 19.8 Consensus size: 4
37624024 ATAACACTAA
* * * *
37624034 ACAT AACAT ACAT AATAT ACAT ATCAT ACAT ACAA ATAT ACAA ACAT AACAGT
1 ACAT -ACAT ACAT -ACAT ACAT A-CAT ACAT ACAT ACAT ACAT ACAT -ACA-T
37624087 ACAT AACAT ACAT A-AT -CAT ACAT ACAT ACA
1 ACAT -ACAT ACAT ACAT ACAT ACAT ACAT ACA
37624117 CAAACAGTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
3 4 0.06
4 37 0.59
5 21 0.33
6 1 0.02
ACGTcount: A:0.54, C:0.20, G:0.01, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:37624092 original size:10 final size:9
Alignment explanation
Indices: 37623924--37624116 Score: 100
Period size: 9 Copynumber: 21.3 Consensus size: 9
37623914 ATAACAATAA
37623924 ACATAACAT
1 ACATAACAT
*
37623933 ACATAATAT
1 ACATAACAT
* *
37623942 ACATGATAT
1 ACATAACAT
37623951 ACAT-ACA-
1 ACATAACAT
*
37623958 A-ATACACAA
1 ACATA-ACAT
37623967 ACATAACAGT
1 ACATAACA-T
37623977 AAACATAACAT
1 --ACATAACAT
*
37623988 ACATAATAT
1 ACATAACAT
* * *
37623997 ACATGATAC
1 ACATAACAT
*
37624006 ACAT-GCA-
1 ACATAACAT
*
37624013 A-ATATACAA
1 ACATA-ACAT
37624022 ACATAACACT
1 ACATAACA-T
37624032 AAACATAACAT
1 --ACATAACAT
*
37624043 ACATAATAT
1 ACATAACAT
*
37624052 ACATATCAT
1 ACATAACAT
37624061 ACAT-ACA-
1 ACATAACAT
*
37624068 A-ATATACAA
1 ACATA-ACAT
37624077 ACATAACAGT
1 ACATAACA-T
37624087 ACATAACAT
1 ACATAACAT
37624096 ACATAATCAT
1 ACATAA-CAT
37624106 ACAT-ACAT
1 ACATAACAT
37624114 ACA
1 ACA
37624117 CAAACAGTAA
Statistics
Matches: 148, Mismatches: 16, Indels: 41
0.72 0.08 0.20
Matches are distributed among these distances:
6 6 0.04
7 3 0.02
8 19 0.13
9 78 0.53
10 24 0.16
11 2 0.01
12 16 0.11
ACGTcount: A:0.55, C:0.20, G:0.03, T:0.23
Consensus pattern (9 bp):
ACATAACAT
Found at i:37624273 original size:37 final size:37
Alignment explanation
Indices: 37624232--37624302 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
37624222 AACAAAAACA
*
37624232 AAAAAATAAAAGTTA-GATATAATACCAATTAAAAATT
1 AAAAAATAAAAGTTATG-TATAATACCAAATAAAAATT
* *
37624269 AAAAATTAAAAGTTATGTATAATACGAAATAAAA
1 AAAAAATAAAAGTTATGTATAATACCAAATAAAA
37624303 CAAAGTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 29 0.97
38 1 0.03
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (37 bp):
AAAAAATAAAAGTTATGTATAATACCAAATAAAAATT
Found at i:37624356 original size:32 final size:33
Alignment explanation
Indices: 37624295--37624387 Score: 134
Period size: 32 Copynumber: 2.8 Consensus size: 33
37624285 GTATAATACG
*
37624295 AAATAAAACAAAGTCAAAATCCAGAAAATAACA
1 AAATAAAACAGAGTCAAAATCCAGAAAATAACA
*
37624328 AAATAAAATAGAGTCAAAA-CCAGAAAATAACA
1 AAATAAAACAGAGTCAAAATCCAGAAAATAACA
* * *
37624360 AAACAAAACAGAGTGAAAATCCAAAAAA
1 AAATAAAACAGAGTCAAAATCCAGAAAA
37624388 AAAAAAACCT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
32 29 0.55
33 24 0.45
ACGTcount: A:0.67, C:0.14, G:0.09, T:0.11
Consensus pattern (33 bp):
AAATAAAACAGAGTCAAAATCCAGAAAATAACA
Found at i:37624626 original size:54 final size:54
Alignment explanation
Indices: 37624563--37624673 Score: 170
Period size: 54 Copynumber: 2.1 Consensus size: 54
37624553 TTTCAGACAA
*
37624563 AAAGGGTGAGTAATAGAAACAATCGAAA-GAGTTTTCTGAGGGGAAGAACAATCG
1 AAAGGGTGAGTAATAGAAACAATCGAAATG-GTTTTCTGAGAGGAAGAACAATCG
* * *
37624617 AAAGGGTGAGTAATCGAAATAATCGAAATGGTTTTCTGAGAGGAAGAATAATCG
1 AAAGGGTGAGTAATAGAAACAATCGAAATGGTTTTCTGAGAGGAAGAACAATCG
37624671 AAA
1 AAA
37624674 AGGCTTGTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 51 0.98
55 1 0.02
ACGTcount: A:0.43, C:0.08, G:0.28, T:0.21
Consensus pattern (54 bp):
AAAGGGTGAGTAATAGAAACAATCGAAATGGTTTTCTGAGAGGAAGAACAATCG
Found at i:37625002 original size:28 final size:28
Alignment explanation
Indices: 37624959--37625013 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
37624949 CACTGGACGG
* * *
37624959 AAAAAAAGTTTGGGTACCAATCTGGGAC
1 AAAAAAACTTTAGGTACCAATATGGGAC
*
37624987 AAAAAAACTTTAGGTATCAATATGGGA
1 AAAAAAACTTTAGGTACCAATATGGGA
37625014 AAAGTGGACC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.24
Consensus pattern (28 bp):
AAAAAAACTTTAGGTACCAATATGGGAC
Found at i:37626059 original size:16 final size:16
Alignment explanation
Indices: 37626040--37626071 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
37626030 ATACCAGAAG
37626040 TCAAAGATAATATCTT
1 TCAAAGATAATATCTT
37626056 TCAAAGATAATATCTT
1 TCAAAGATAATATCTT
37626072 GATATCAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
TCAAAGATAATATCTT
Found at i:37630018 original size:24 final size:22
Alignment explanation
Indices: 37629985--37630036 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
37629975 TACCATATTT
*
37629985 AAAATAAAATCATATTTATATATA
1 AAAATTAAAT-ATATTT-TATATA
* *
37630009 AAAATTAAATTTATTTTATGTA
1 AAAATTAAATATATTTTATATA
37630031 AAAATT
1 AAAATT
37630037 TTGGATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 11 0.44
23 5 0.20
24 9 0.36
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAATTAAATATATTTTATATA
Found at i:37636853 original size:4 final size:4
Alignment explanation
Indices: 37636844--37636883 Score: 57
Period size: 4 Copynumber: 10.5 Consensus size: 4
37636834 CTTTACCTTA
*
37636844 TTAT TTAT TTAT CT-T TTA- TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
37636884 TCCAATACGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 5 0.16
4 27 0.84
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (4 bp):
TTAT
Found at i:37636905 original size:3 final size:3
Alignment explanation
Indices: 37636897--37636932 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
37636887 AATACGTTAC
37636897 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
37636933 CATCATCATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:37638187 original size:29 final size:29
Alignment explanation
Indices: 37638084--37638249 Score: 144
Period size: 29 Copynumber: 5.7 Consensus size: 29
37638074 CTTCAAGGTC
* * *
37638084 AAAAATGGAATCTTTGGAAGTTTGGGGGT
1 AAAAATGGAATTTTTGGAAGTTCGAGGGT
*
37638113 -AAAATGGTAATTTTTAAGAAGTTC-AGGGT
1 AAAAATGG-AATTTTT-GGAAGTTCGAGGGT
*
37638142 CAAAAATGGAATTTTTGGAAGTTCGAGAGT
1 -AAAAATGGAATTTTTGGAAGTTCGAGGGT
** *
37638172 -AAAATGGTAATTTTTGGAAAAATC-AAGGT
1 AAAAATGG-AATTTTTGG-AAGTTCGAGGGT
*
37638201 CAAAAATGGAATTTTTGGAAG-TCTAGGGGT
1 -AAAAATGGAATTTTTGGAAGTTCGA-GGGT
*
37638231 AAAAATGTAATTTTTGGAA
1 AAAAATGGAATTTTTGGAA
37638250 AGTTTAGGGG
Statistics
Matches: 113, Mismatches: 13, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
28 16 0.14
29 50 0.44
30 33 0.29
31 14 0.12
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (29 bp):
AAAAATGGAATTTTTGGAAGTTCGAGGGT
Found at i:37638266 original size:59 final size:59
Alignment explanation
Indices: 37638080--37638379 Score: 249
Period size: 59 Copynumber: 5.0 Consensus size: 59
37638070 GACACTTCAA
* * * *
37638080 GGTCAAAAATGGAATCTTTGGAAGTTTGGGGGTAAAATGGTAATTTTT-AAGAAGTTCA-G
1 GGTCAAAAATGGAATTTTTGGAAGTCTAGGGGTAAAAT-GTAATTTTTGAA-AAGTTTAGG
* * * * *
37638139 GGTCAAAAATGGAATTTTTGGAAGT-TCGAGAGTAAAATGGTAATTTTTGGAAAA-ATCA-A
1 GGTCAAAAATGGAATTTTTGGAAGTCTAG-GGGTAAAAT-GTAATTTTT-GAAAAGTTTAGG
*
37638198 GGTCAAAAATGGAATTTTTGGAAGTCTAGGGGTAAAAATGTAATTTTTGGAAAGTTTAGG
1 GGTCAAAAATGGAATTTTTGGAAGTCTAGGGGT-AAAATGTAATTTTTGAAAAGTTTAGG
* * * *
37638258 GGTC-AAAATGTAATTTTAGGAAAG-CTTAAGGGTTGAAATGTAATTTTTGAAAAGTTTATGG
1 GGTCAAAAATGGAATTTTTGG-AAGTC-T-AGGGGTAAAATGTAATTTTTGAAAAGTTTA-GG
* * * * *
37638319 GGTC-AAAATGTAATTTTAAGAAAGTTTAAGGGTAAAAATGTAATTTTT-AAATAGTTTAGG
1 GGTCAAAAATGGAATTTT-TGGAAGTCTAGGGGT-AAAATGTAATTTTTGAAA-AGTTTAGG
37638379 G
1 G
37638380 ACCTTTTGGG
Statistics
Matches: 205, Mismatches: 21, Indels: 29
0.80 0.08 0.11
Matches are distributed among these distances:
58 6 0.03
59 99 0.48
60 49 0.24
61 49 0.24
62 2 0.01
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (59 bp):
GGTCAAAAATGGAATTTTTGGAAGTCTAGGGGTAAAATGTAATTTTTGAAAAGTTTAGG
Found at i:37638342 original size:61 final size:60
Alignment explanation
Indices: 37638227--37638379 Score: 236
Period size: 61 Copynumber: 2.5 Consensus size: 60
37638217 GGAAGTCTAG
* *
37638227 GGGTAAAAATGTAATTTTTGGAAAGTTTAGGGGTCAAAATGTAATTTTAGGAAAGCTTAA
1 GGGTAAAAATGTAATTTTTGAAAAGTTTAGGGGTCAAAATGTAATTTTAAGAAAGCTTAA
** *
37638287 GGGTTGAAATGTAATTTTTGAAAAGTTTATGGGGTCAAAATGTAATTTTAAGAAAGTTTAA
1 GGGTAAAAATGTAATTTTTGAAAAGTTTA-GGGGTCAAAATGTAATTTTAAGAAAGCTTAA
37638348 GGGTAAAAATGTAATTTTT-AAATAGTTTAGGG
1 GGGTAAAAATGTAATTTTTGAAA-AGTTTAGGG
37638380 ACCTTTTGGG
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
60 32 0.38
61 52 0.62
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (60 bp):
GGGTAAAAATGTAATTTTTGAAAAGTTTAGGGGTCAAAATGTAATTTTAAGAAAGCTTAA
Found at i:37638375 original size:30 final size:29
Alignment explanation
Indices: 37638109--37638376 Score: 161
Period size: 30 Copynumber: 9.0 Consensus size: 29
37638099 GGAAGTTTGG
*
37638109 GGGT-AAAATGGTAATTTTTAAGAAG-TTCA
1 GGGTAAAAAT-GTAATTTTTAA-AAGTTTAA
* ** **
37638138 GGGTCAAAAATGGAATTTTTGGAAGTTCGA
1 GGGT-AAAAATGTAATTTTTAAAAGTTTAA
* * *
37638168 GAGT-AAAATGGTAATTTTTGGAAAA-ATCAA
1 GGGTAAAAAT-GTAATTTTT--AAAAGTTTAA
* ** * *
37638198 -GGTCAAAAATGGAATTTTTGGAAGTCTAG
1 GGGT-AAAAATGTAATTTTTAAAAGTTTAA
* *
37638227 GGGTAAAAATGTAATTTTTGGAAAGTTTAG
1 GGGTAAAAATGTAATTTTT-AAAAGTTTAA
* *
37638257 GGGTCAAAATGTAA-TTTTAGGAAAGCTTAA
1 GGGTAAAAATGTAATTTTTA--AAAGTTTAA
** *
37638287 GGGTTGAAATGTAATTTTTGAAAAGTTTATG
1 GGGTAAAAATGTAATTTTT-AAAAGTTTA-A
* *
37638318 GGGTCAAAATGTAATTTTAAGAAAGTTTAA
1 GGGTAAAAATGTAATTTTTA-AAAGTTTAA
37638348 GGGTAAAAATGTAATTTTTAAATAGTTTA
1 GGGTAAAAATGTAATTTTTAAA-AGTTTA
37638377 GGGACCTTTT
Statistics
Matches: 185, Mismatches: 36, Indels: 35
0.72 0.14 0.14
Matches are distributed among these distances:
28 7 0.04
29 38 0.21
30 99 0.54
31 40 0.22
32 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.34
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTAAAAGTTTAA
Found at i:37639493 original size:19 final size:19
Alignment explanation
Indices: 37639471--37639540 Score: 54
Period size: 19 Copynumber: 3.5 Consensus size: 19
37639461 TTAATATTAA
37639471 TTATTAATTTTATTAATAT
1 TTATTAATTTTATTAATAT
**
37639490 TTATTAACGTTATT--TAT
1 TTATTAATTTTATTAATAT
*
37639507 TACTATTATTTATTATTAATATT
1 T--TATTAATT-TTATTAATA-T
37639530 ATTATTAATTT
1 -TTATTAATTT
37639541 ATGACTTTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
17 4 0.11
19 17 0.45
20 5 0.13
21 1 0.03
22 9 0.24
23 1 0.03
24 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (19 bp):
TTATTAATTTTATTAATAT
Found at i:37639524 original size:16 final size:15
Alignment explanation
Indices: 37639459--37639536 Score: 56
Period size: 16 Copynumber: 5.1 Consensus size: 15
37639449 TTTTATTTAA
37639459 TATTAATATTA--AT
1 TATTAATATTATTAT
* *
37639472 TATTAATTTTATTAA
1 TATTAATATTATTAT
37639487 TATT--TATTAACGTTATT
1 TATTAATATT-A--TTA-T
*
37639504 TATTACTATTATTTAT
1 TATTAATATTA-TTAT
37639520 TATTAATATTATTAT
1 TATTAATATTATTAT
37639535 TA
1 TA
37639537 ATTTATGACT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
13 13 0.25
14 1 0.02
15 11 0.22
16 14 0.27
17 7 0.14
18 1 0.02
19 4 0.08
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.59
Consensus pattern (15 bp):
TATTAATATTATTAT
Found at i:37639524 original size:48 final size:48
Alignment explanation
Indices: 37639451--37639568 Score: 130
Period size: 48 Copynumber: 2.4 Consensus size: 48
37639441 CTCTCCTTTT
* * * * *
37639451 TTATTTAATATTAATATTAATTATTAATTTTATTAAT-ATTTATTAACG
1 TTATTTATTACTATTATTTATTATTAATATTATTAATAATTTA-TAACG
* * *
37639499 TTATTTATTACTATTATTTATTATTAATATTATTATTAATTTATGACT
1 TTATTTATTACTATTATTTATTATTAATATTATTAATAATTTATAACG
37639547 TTATTTATTACTTATTACTTTA
1 TTATTTATTAC-TATTA-TTTA
37639569 ATATCAAACA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 45 0.76
49 10 0.17
50 4 0.07
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (48 bp):
TTATTTATTACTATTATTTATTATTAATATTATTAATAATTTATAACG
Found at i:37640282 original size:17 final size:17
Alignment explanation
Indices: 37640257--37640298 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
37640247 GTTTAAAACC
*
37640257 ATTTCAAATTTAAACTAA
1 ATTT-AAATTTAAAATAA
37640275 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
37640292 ATTTAAA
1 ATTTAAA
37640299 GCCAATCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:37644679 original size:29 final size:30
Alignment explanation
Indices: 37644647--37644703 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
37644637 TAGTTTAATG
37644647 TGTAATTATATACATG-AATTTTGATTTTA
1 TGTAATTATATACATGAAATTTTGATTTTA
*
37644676 TGTAATTTTATACATGAAATTTTGATTT
1 TGTAATTATATACATGAAATTTTGATTT
37644704 GATCCAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.53
Consensus pattern (30 bp):
TGTAATTATATACATGAAATTTTGATTTTA
Found at i:37645830 original size:30 final size:30
Alignment explanation
Indices: 37645796--37645886 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 30
37645786 TATTTAATTT
37645796 TTAATATTTATATATTTTATCAATTTGATC
1 TTAATATTTATATATTTTATCAATTTGATC
* * * *
37645826 TTAAT-TCTAAATAATTTAATAAATTTGATCC
1 TTAATATTTATAT-ATTTTATCAATTTGAT-C
* * * *
37645857 TTTACATTTATAAATTCTATCAATTTGATC
1 TTAATATTTATATATTTTATCAATTTGATC
37645887 ATCAAATTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
29 5 0.11
30 20 0.43
31 17 0.37
32 4 0.09
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (30 bp):
TTAATATTTATATATTTTATCAATTTGATC
Found at i:37645885 original size:31 final size:28
Alignment explanation
Indices: 37645801--37645886 Score: 75
Period size: 31 Copynumber: 2.9 Consensus size: 28
37645791 AATTTTTAAT
*
37645801 ATTTATATATTTTATCAATTTGAT-CTTA
1 ATTTATA-AATTTATCAATTTGATCCTTA
* *
37645829 ATTCTAAATAATTTAATAAATTTGATCCTTTA
1 ATT-TATA-AATTT-ATCAATTTGATCC-TTA
37645861 CATTTATAAATTCTATCAATTTGATC
1 -ATTTATAAATT-TATCAATTTGATC
37645887 ATCAAATTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
28 3 0.06
29 8 0.17
30 10 0.21
31 16 0.34
32 7 0.15
33 3 0.06
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.50
Consensus pattern (28 bp):
ATTTATAAATTTATCAATTTGATCCTTA
Found at i:37647005 original size:21 final size:20
Alignment explanation
Indices: 37646978--37647054 Score: 77
Period size: 21 Copynumber: 3.9 Consensus size: 20
37646968 TAACAATCGT
*
37646978 AAAAAAATTATAAAATTTTGT
1 AAAAAAATTATAAAATTTT-A
* * *
37646999 AAGAAAATTATAAAAATAT-
1 AAAAAAATTATAAAATTTTA
*
37647018 AAAGAAA-TATAAAATTTATA
1 AAAAAAATTATAAAATTT-TA
37647038 AAAAAAATTATAAAATT
1 AAAAAAATTATAAAATT
37647055 ATCATATCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 8 0.18
19 6 0.13
20 6 0.13
21 25 0.56
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAAAAATTATAAAATTTTA
Found at i:37647032 original size:39 final size:41
Alignment explanation
Indices: 37646963--37647052 Score: 105
Period size: 39 Copynumber: 2.2 Consensus size: 41
37646953 TGAATTTCCT
* * * *
37646963 AATTATAACAATCGTAAAAAAATTATAAAATTT-TGTAAGAA
1 AATTATAAAAATCATAAAAAAATTATAAAATTTAT-AAAAAA
*
37647004 AATTATAAAAAT-ATAAAGAAA-TATAAAATTTATAAAAAA
1 AATTATAAAAATCATAAAAAAATTATAAAATTTATAAAAAA
37647043 AATTATAAAA
1 AATTATAAAA
37647053 TTATCATATC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
39 24 0.56
40 8 0.19
41 11 0.26
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (41 bp):
AATTATAAAAATCATAAAAAAATTATAAAATTTATAAAAAA
Found at i:37647090 original size:18 final size:18
Alignment explanation
Indices: 37647072--37647110 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37647062 CAAAAGAAAT
37647072 ATTTTATAATTTTTTAATA
1 ATTTT-TAATTTTTTAATA
*
37647091 ATTTTTTATTTTTTAA-A
1 ATTTTTAATTTTTTAATA
37647108 ATT
1 ATT
37647111 AAAATTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTAATTTTTTAATA
Found at i:37650008 original size:13 final size:13
Alignment explanation
Indices: 37649992--37650020 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
37649982 TTGTTTTAAC
37649992 TTTTTTTCCTTTT
1 TTTTTTTCCTTTT
37650005 TTTTTTTCCTTTT
1 TTTTTTTCCTTTT
37650018 TTT
1 TTT
37650021 GATAATTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTCCTTTT
Found at i:37650010 original size:22 final size:23
Alignment explanation
Indices: 37649978--37650020 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
37649968 AGAGGCTTTT
37649978 TTTTTTGTTTTAACTTTTTTTCC
1 TTTTTTGTTTTAACTTTTTTTCC
**
37650001 TTTTTT-TTTTTCCTTTTTTT
1 TTTTTTGTTTTAACTTTTTTT
37650021 GATAATTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTTTGTTTTAACTTTTTTTCC
Found at i:37653018 original size:28 final size:28
Alignment explanation
Indices: 37652978--37653036 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
37652968 CAAAGTGAAT
37652978 ATTTATTTAAGGCATCTAATTTTTCATA
1 ATTTATTTAAGGCATCTAATTTTTCATA
37653006 ATTTATTTAAGGCATCTAATTTTTCATA
1 ATTTATTTAAGGCATCTAATTTTTCATA
37653034 ATT
1 ATT
37653037 CAATCACCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.07, T:0.51
Consensus pattern (28 bp):
ATTTATTTAAGGCATCTAATTTTTCATA
Found at i:37656740 original size:17 final size:18
Alignment explanation
Indices: 37656706--37656743 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
37656696 TTTTTTTGCC
* *
37656706 TTTTTTTCTTTCACTTTA
1 TTTTTTTATTTCAATTTA
37656724 TTTTTTTATTT-AATTTA
1 TTTTTTTATTTCAATTTA
37656741 TTT
1 TTT
37656744 ATCGATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTTTTTATTTCAATTTA
Found at i:37658544 original size:24 final size:24
Alignment explanation
Indices: 37658516--37658571 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
37658506 CATACTAATA
37658516 AGAGTTTGACTT-AAACAAATAAAC
1 AGAGTTT-ACTTGAAACAAATAAAC
* *
37658540 AGAGTTTATTTGAAACAATTAAAC
1 AGAGTTTACTTGAAACAAATAAAC
37658564 AGAGTTTA
1 AGAGTTTA
37658572 ACTAAAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.30
Consensus pattern (24 bp):
AGAGTTTACTTGAAACAAATAAAC
Found at i:37660559 original size:24 final size:24
Alignment explanation
Indices: 37660498--37660560 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
37660488 TAAACTAATA
* *
37660498 AGAGTTTGACTCAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
** *
37660522 AGAGTTTATTTGAAACAATTAAAC
1 AGAGTTTAACTGAAACAAATAAAC
37660546 AGAGTTTAACTGAAA
1 AGAGTTTAACTGAAA
37660561 GATCATTTCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:37661739 original size:5 final size:5
Alignment explanation
Indices: 37661729--37661756 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
37661719 ATATCCCAAC
37661729 AGTTG AGTTG AGTTG AGTTG AGTTG AGT
1 AGTTG AGTTG AGTTG AGTTG AGTTG AGT
37661757 GAATGAAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.39
Consensus pattern (5 bp):
AGTTG
Found at i:37667638 original size:21 final size:22
Alignment explanation
Indices: 37667597--37667643 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
37667587 TAAAATATAG
*
37667597 TTTATATAATCTAATTAAATT-
1 TTTAAATAATCTAATTAAATTA
*
37667618 TTTAAATAAT-TAATTTTAATTA
1 TTTAAATAATCTAA-TTAAATTA
37667640 TTTA
1 TTTA
37667644 GAAATATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 15 0.68
22 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTAAATAATCTAATTAAATTA
Found at i:37669854 original size:4 final size:4
Alignment explanation
Indices: 37669847--37669875 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
37669837 TATATATATA
37669847 TATT TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT TATT T
37669876 TCCAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:37670674 original size:2 final size:2
Alignment explanation
Indices: 37670667--37670693 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37670657 ATAAAAATTA
37670667 AT 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 AT A
37670694 AGCAAAACCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:37678058 original size:122 final size:122
Alignment explanation
Indices: 37677883--37678217 Score: 433
Period size: 122 Copynumber: 2.7 Consensus size: 122
37677873 AGATTTTGAA
* * *
37677883 CAAATTTTTTTTTGTTGTTGGCCATTGCAATGGCTGACACCACCTT-TTTATCTGAGAAAAAAAT
1 CAAA-TTTTTTTTG-TGTTGGCCA-TGCATTGGCCGACACCA-CTTATTTATCTGATAAAAAAA-
37677947 TCAATTTTTTTTATGTTGACCATTGCATAGCCGACACCACCTTTTTATCTGATAAAAAAATT
61 TCAATTTTTTTTATGTTGACCATTGCATAGCCGACACCACCTTTTTATCTGATAAAAAAATT
* *
37678009 TAAA-TTTTTTTGTGTTGGCCATACATTGGCCGACACCACTTATTTATCTGATAAAAAAATCAAT
1 CAAATTTTTTTTGTGTTGGCCATGCATTGGCCGACACCACTTATTTATCTGATAAAAAAATCAAT
** * * * * *
37678073 TTTTTTGGTGTTGACAATTGTATGGCTGACACCACTTTTTTATCTGATAAAAAAATT
66 TTTTTTTATGTTGACCATTGCATAGCCGACACCACCTTTTTATCTGATAAAAAAATT
* * * * *
37678130 CAAATTTTTTTTGTGTTGGCTATGCATTGGCCGATACCACTGATTTATTTGATAAAAAAATCAAA
1 CAAATTTTTTTTGTGTTGGCCATGCATTGGCCGACACCACTTATTTATCTGATAAAAAAATCAAT
*
37678195 TTTTTTTAGTGTTGGCCA-TGCAT
66 TTTTTTTA-TGTTGACCATTGCAT
37678218 TGGTCGAGGC
Statistics
Matches: 182, Mismatches: 24, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
121 61 0.34
122 94 0.52
123 16 0.09
124 8 0.04
126 3 0.02
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.41
Consensus pattern (122 bp):
CAAATTTTTTTTGTGTTGGCCATGCATTGGCCGACACCACTTATTTATCTGATAAAAAAATCAAT
TTTTTTTATGTTGACCATTGCATAGCCGACACCACCTTTTTATCTGATAAAAAAATT
Found at i:37678218 original size:61 final size:62
Alignment explanation
Indices: 37677883--37678220 Score: 372
Period size: 61 Copynumber: 5.5 Consensus size: 62
37677873 AGATTTTGAA
* * * *
37677883 CAAATTTTTTTTTGTTGTTGGCCATTGCAATGGCTGACACCACCTTTTTATCTGAGAAAAAAATT
1 CAAA-TTTTTTTAG-TGTTGGCCATTGCATTGGCCGACACCA-CTTTTTATCTGATAAAAAAATT
* * *
37677948 CAATTTTTTTTA-TGTTGACCATTGCA-TAGCCGACACCACCTTTTTATCTGATAAAAAAATT
1 CAAATTTTTTTAGTGTTGGCCATTGCATTGGCCGACACCA-CTTTTTATCTGATAAAAAAATT
* *
37678009 TAAATTTTTTT-GTGTTGGCCA-TACATTGGCCGACACCACTTATTTATCTGATAAAAAAA-T
1 CAAATTTTTTTAGTGTTGGCCATTGCATTGGCCGACACCACTT-TTTATCTGATAAAAAAATT
* * * * *
37678069 C-AATTTTTTTGGTGTTGACAATTGTA-TGGCTGACACCACTTTTTTATCTGATAAAAAAATT
1 CAAATTTTTTTAGTGTTGGCCATTGCATTGGCCGACACCAC-TTTTTATCTGATAAAAAAATT
* * * * *
37678130 CAAATTTTTTTTGTGTTGGCTA-TGCATTGGCCGATACCACTGATTTATTTGATAAAAAAA-T
1 CAAATTTTTTTAGTGTTGGCCATTGCATTGGCCGACACCACT-TTTTATCTGATAAAAAAATT
37678191 CAAATTTTTTTAGTGTTGGCCA-TGCATTGG
1 CAAATTTTTTTAGTGTTGGCCATTGCATTGG
37678221 TCGAGGCCGG
Statistics
Matches: 236, Mismatches: 27, Indels: 24
0.82 0.09 0.08
Matches are distributed among these distances:
59 9 0.04
60 44 0.19
61 116 0.49
62 57 0.24
64 7 0.03
65 3 0.01
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.41
Consensus pattern (62 bp):
CAAATTTTTTTAGTGTTGGCCATTGCATTGGCCGACACCACTTTTTATCTGATAAAAAAATT
Found at i:37682710 original size:18 final size:18
Alignment explanation
Indices: 37682687--37682733 Score: 78
Period size: 17 Copynumber: 2.6 Consensus size: 18
37682677 AGAAATATAT
37682687 AAAAATAAATATTTTTAC
1 AAAAATAAATATTTTTAC
37682705 AAAAAT-AATATTTTTAC
1 AAAAATAAATATTTTTAC
37682722 AAAAATATAATA
1 AAAAATA-AATA
37682734 AATATATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.63
18 6 0.22
19 4 0.15
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATAAATATTTTTAC
Found at i:37692880 original size:6 final size:6
Alignment explanation
Indices: 37692869--37692895 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37692859 TTGATATATA
37692869 AAGTAG AAGTAG AAGTAG AAGTAG AAG
1 AAGTAG AAGTAG AAGTAG AAGTAG AAG
37692896 GGAGAATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (6 bp):
AAGTAG
Found at i:37694435 original size:20 final size:21
Alignment explanation
Indices: 37694399--37694437 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
37694389 AATAATGGGG
37694399 TCAAGTCCATAAACAATAAAA
1 TCAAGTCCATAAACAATAAAA
*
37694420 TCAAGT-CATGAACAATAA
1 TCAAGTCCATAAACAATAA
37694438 TAATATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.54, C:0.18, G:0.08, T:0.21
Consensus pattern (21 bp):
TCAAGTCCATAAACAATAAAA
Found at i:37697779 original size:20 final size:19
Alignment explanation
Indices: 37697753--37697803 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
37697743 ATAATTAATT
37697753 ATTTTTTAAAATATTAAAAA
1 ATTTTTTAAAATA-TAAAAA
37697773 ATATTTTTAAAA-ATAAAAA
1 AT-TTTTTAAAATATAAAAA
*
37697792 A-TTATTAAAATA
1 ATTTTTTAAAATA
37697804 AACTAGATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 8 0.29
18 1 0.04
19 7 0.25
20 3 0.11
21 9 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTTTTAAAATATAAAAA
Found at i:37699057 original size:24 final size:22
Alignment explanation
Indices: 37699030--37699080 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
37699020 AAAAACCACT
37699030 TACATAGTAAAACAAAACTAGTTC
1 TACATAGTAAAA-AAAA-TAGTTC
* *
37699054 TACAT-TTAAAAAAAATAGTTT
1 TACATAGTAAAAAAAATAGTTC
37699075 TACATA
1 TACATA
37699081 TTTTGTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 10 0.42
22 4 0.17
23 5 0.21
24 5 0.21
ACGTcount: A:0.51, C:0.12, G:0.06, T:0.31
Consensus pattern (22 bp):
TACATAGTAAAAAAAATAGTTC
Found at i:37699072 original size:21 final size:23
Alignment explanation
Indices: 37699037--37699079 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
37699027 ACTTACATAG
37699037 TAAAACAAAACTAGTTCTACATT
1 TAAAACAAAACTAGTTCTACATT
*
37699060 TAAAA-AAAA-TAGTTTTACAT
1 TAAAACAAAACTAGTTCTACAT
37699080 ATTTTGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 4 0.21
23 5 0.26
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.33
Consensus pattern (23 bp):
TAAAACAAAACTAGTTCTACATT
Found at i:37699080 original size:45 final size:45
Alignment explanation
Indices: 37698981--37699068 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 45
37698971 CTAAAATAAT
* *
37698981 CACTTACATAGTAAAACTAAACTAGTTTACGTTTCTAAAAAAAAC
1 CACTTACATAGTAAAACAAAACTAGTTTACGATTCTAAAAAAAAC
37699026 CACTTACATAGTAAAACAAAACTAGTTCTAC-ATT-TAAAAAAAA
1 CACTTACATAGTAAAACAAAACTAGTT-TACGATTCTAAAAAAAA
37699069 TAGTTTTACA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 9 0.22
45 28 0.70
46 3 0.08
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.27
Consensus pattern (45 bp):
CACTTACATAGTAAAACAAAACTAGTTTACGATTCTAAAAAAAAC
Found at i:37704431 original size:27 final size:27
Alignment explanation
Indices: 37704395--37704453 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
37704385 GATGGAGCCC
* *
37704395 CCTCCACCACCTCCTCCTCCACCCCCG
1 CCTCCACCACCTCCGCCCCCACCCCCG
* * *
37704422 CCTCCCCCACCTCCGCCCCCTCCCCCT
1 CCTCCACCACCTCCGCCCCCACCCCCG
37704449 CCTCC
1 CCTCC
37704454 GACACTTGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.07, C:0.75, G:0.03, T:0.15
Consensus pattern (27 bp):
CCTCCACCACCTCCGCCCCCACCCCCG
Found at i:37704449 original size:15 final size:15
Alignment explanation
Indices: 37704391--37704450 Score: 59
Period size: 15 Copynumber: 4.0 Consensus size: 15
37704381 TGTTGATGGA
*
37704391 GCCCCCTCCACCACC
1 GCCCCCTCCACCTCC
* * *
37704406 TCCTCCTCCACCCCC
1 GCCCCCTCCACCTCC
37704421 GCCTCCC-CCACCTCC
1 GCC-CCCTCCACCTCC
*
37704436 GCCCCCTCCCCCTCC
1 GCCCCCTCCACCTCC
37704451 TCCGACACTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
14 3 0.08
15 31 0.86
16 2 0.06
ACGTcount: A:0.07, C:0.75, G:0.05, T:0.13
Consensus pattern (15 bp):
GCCCCCTCCACCTCC
Found at i:37725600 original size:2 final size:2
Alignment explanation
Indices: 37725595--37725623 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
37725585 GTGTGTGTGT
37725595 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
37725624 CGCTGAGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:37725912 original size:6 final size:6
Alignment explanation
Indices: 37725901--37725943 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
37725891 TCACCCTTAT
37725901 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA T
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA T
37725944 GGTTAATAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.33, G:0.00, T:0.51
Consensus pattern (6 bp):
TTTCCA
Found at i:37727881 original size:14 final size:14
Alignment explanation
Indices: 37727822--37727881 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
37727812 TTTTTACTTT
* * *
37727822 GAATCTTGAACTTA
1 GAATCTTAAACCTC
*
37727836 GAATCTAAAACCTC
1 GAATCTTAAACCTC
37727850 GAA-CTTTAAACCT-
1 GAATC-TTAAACCTC
*
37727863 AAATCTTAAACCTC
1 GAATCTTAAACCTC
37727877 GAATC
1 GAATC
37727882 CCGAACCCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
13 11 0.31
14 25 0.69
ACGTcount: A:0.40, C:0.23, G:0.08, T:0.28
Consensus pattern (14 bp):
GAATCTTAAACCTC
Found at i:37728641 original size:18 final size:18
Alignment explanation
Indices: 37728618--37728657 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37728608 AAATAAATAT
* *
37728618 AAAAAATACATAAAACAC
1 AAAAAAGACAGAAAACAC
*
37728636 AAAAAAGAGAGAAAACAC
1 AAAAAAGACAGAAAACAC
37728654 AAAA
1 AAAA
37728658 GAAATGTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.75, C:0.12, G:0.07, T:0.05
Consensus pattern (18 bp):
AAAAAAGACAGAAAACAC
Found at i:37730795 original size:30 final size:30
Alignment explanation
Indices: 37730759--37730853 Score: 154
Period size: 30 Copynumber: 3.2 Consensus size: 30
37730749 CAACTTAACA
* *
37730759 AACAAATGCCTTTAAAATAGTAAAAAAATT
1 AACAAATGCCTCTAAAATAGTAACAAAATT
37730789 AACAAATGCCTCTAAAATAGTAACAAAATT
1 AACAAATGCCTCTAAAATAGTAACAAAATT
* *
37730819 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAGTAACAAAATT
37730849 AACAA
1 AACAA
37730854 TAAAATAAGT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.58, C:0.15, G:0.04, T:0.23
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAGTAACAAAATT
Found at i:37730949 original size:22 final size:21
Alignment explanation
Indices: 37730924--37730972 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
37730914 AAATTGTAGC
*
37730924 AAAATAAGAAGAAAACAACAAA
1 AAAATAACAAGAAAA-AACAAA
**
37730946 AAAATAACATTAAAAAACAAA
1 AAAATAACAAGAAAAAACAAA
37730967 AAAATA
1 AAAATA
37730973 GCAGATTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.78, C:0.08, G:0.04, T:0.10
Consensus pattern (21 bp):
AAAATAACAAGAAAAAACAAA
Found at i:37731216 original size:23 final size:23
Alignment explanation
Indices: 37731189--37731254 Score: 89
Period size: 23 Copynumber: 2.8 Consensus size: 23
37731179 GTATTGCATC
*
37731189 GAAGTGCCACTTTGATTTGCACCT
1 GAAGTGCCACTTTCATTTGCA-CT
*
37731213 -AAGTGCCACATTTCAATTGCACT
1 GAAGTGCCAC-TTTCATTTGCACT
37731236 GAAGTGCCACTTTCATTTG
1 GAAGTGCCACTTTCATTTG
37731255 TGCGCATAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (23 bp):
GAAGTGCCACTTTCATTTGCACT
Found at i:37731240 original size:24 final size:23
Alignment explanation
Indices: 37731181--37731250 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
37731171 CAGTCATAGT
*
37731181 ATTGCA-TCGAAGTGCCACTTTGA
1 ATTGCACT-GAAGTGCCACTTTCA
*
37731204 TTTGCACCT-AAGTGCCACATTTCA
1 ATTGCA-CTGAAGTGCCAC-TTTCA
37731228 ATTGCACTGAAGTGCCACTTTCA
1 ATTGCACTGAAGTGCCACTTTCA
37731251 TTTGTGCGCA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
23 21 0.52
24 18 0.45
25 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (23 bp):
ATTGCACTGAAGTGCCACTTTCA
Found at i:37743268 original size:30 final size:28
Alignment explanation
Indices: 37743234--37743302 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
37743224 TTTGAGATGT
37743234 TAAATATAA-ATTTTATCAATCTTGAAGAGA
1 TAAATATAATATTTT-TC-AT-TTGAAGAGA
*
37743264 TAAATAGAATATTTTTCATTTGAAGAGA
1 TAAATATAATATTTTTCATTTGAAGAGA
*
37743292 CAAATCATAAT
1 TAAAT-ATAAT
37743303 TTCTCATCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 13 0.38
29 6 0.18
30 10 0.29
31 5 0.15
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.36
Consensus pattern (28 bp):
TAAATATAATATTTTTCATTTGAAGAGA
Found at i:37743780 original size:20 final size:19
Alignment explanation
Indices: 37743746--37743785 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
37743736 ATTATTTATA
*
37743746 TTTAATAACATAATAAAAT
1 TTTAATAAAATAATAAAAT
*
37743765 TTTAATATAAATAATATAAT
1 TTTAATA-AAATAATAAAAT
37743785 T
1 T
37743786 ACTTTTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
TTTAATAAAATAATAAAAT
Found at i:37743812 original size:19 final size:19
Alignment explanation
Indices: 37743742--37743814 Score: 60
Period size: 19 Copynumber: 3.9 Consensus size: 19
37743732 ATTAATTATT
**
37743742 TATATTTAATAACATAATAA
1 TATATTTAATATTA-AATAA
*
37743762 AAT-TTTAATA-TAAATAA
1 TATATTTAATATTAAATAA
* * *
37743779 TATAATTACTTTTAAATAA
1 TATATTTAATATTAAATAA
*
37743798 TTTATTTAATATTAAAT
1 TATATTTAATATTAAAT
37743815 TTTATTTTAA
Statistics
Matches: 41, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
17 7 0.17
18 5 0.12
19 27 0.66
20 2 0.05
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TATATTTAATATTAAATAA
Found at i:37743820 original size:17 final size:18
Alignment explanation
Indices: 37743798--37743835 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
37743788 TTTTAAATAA
37743798 TTTA-TTTAAT-ATTAAAT
1 TTTATTTTAATCA-TAAAT
37743815 TTTATTTTAATCATAAAT
1 TTTATTTTAATCATAAAT
37743833 TTT
1 TTT
37743836 GACAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 14 0.74
19 1 0.05
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATTTTAATCATAAAT
Found at i:37762265 original size:21 final size:21
Alignment explanation
Indices: 37762232--37762272 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
37762222 CATATTATTA
* *
37762232 TTTATGAACTTGATTTCATTG
1 TTTATAAACTTGACTTCATTG
*
37762253 TTTATAAATTTGACTTCATT
1 TTTATAAACTTGACTTCATT
37762273 ATTCTTGTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.54
Consensus pattern (21 bp):
TTTATAAACTTGACTTCATTG
Found at i:37764942 original size:50 final size:50
Alignment explanation
Indices: 37764866--37764965 Score: 175
Period size: 50 Copynumber: 2.0 Consensus size: 50
37764856 ATATGCTCGT
37764866 GGTTTTCTTTTCTCTGGGCGGCTGGGGTTGGATGCACTTGAAGACAACAA
1 GGTTTTCTTTTCTCTGGGCGGCTGGGGTTGGATGCACTTGAAGACAACAA
*
37764916 GGTTTTCTTTTCTCTGGGCAGG-TGGGGTTGGATGCACTTGACGACAACAA
1 GGTTTTCTTTTCTCTGGGC-GGCTGGGGTTGGATGCACTTGAAGACAACAA
37764966 ATAGATATAG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
50 46 0.96
51 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (50 bp):
GGTTTTCTTTTCTCTGGGCGGCTGGGGTTGGATGCACTTGAAGACAACAA
Found at i:37768449 original size:25 final size:23
Alignment explanation
Indices: 37768421--37768466 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
37768411 GTTGGATCCA
37768421 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
37768446 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
37768467 TCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:37785169 original size:28 final size:29
Alignment explanation
Indices: 37785119--37785173 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
37785109 TTAAAATGAT
* * *
37785119 ATATTTAATTTTTTATTTATATGTTTTTA
1 ATATTTAATATTTTAATAATATGTTTTTA
37785148 ATATTT-ATATTTTAATAATATGTTTT
1 ATATTTAATATTTTAATAATATGTTTT
37785174 AAAAAAGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (29 bp):
ATATTTAATATTTTAATAATATGTTTTTA
Found at i:37791496 original size:24 final size:24
Alignment explanation
Indices: 37791475--37791560 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 24
37791465 GCTATTTTCG
37791475 TGTTATTTTTGCTGTTATTTTTAT
1 TGTTATTTTTGCTGTTATTTTTAT
* * * *
37791499 TGCTGTTTTT-ATGTTA-TTTTAC
1 TGTTATTTTTGCTGTTATTTTTAT
*
37791521 TGTTATTTTTGCTGTTGTTTTTAT
1 TGTTATTTTTGCTGTTATTTTTAT
*
37791545 TGTTATTTTTGTTGTT
1 TGTTATTTTTGCTGTT
37791561 TGGATGTTAC
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
22 13 0.26
23 9 0.18
24 28 0.56
ACGTcount: A:0.10, C:0.05, G:0.15, T:0.70
Consensus pattern (24 bp):
TGTTATTTTTGCTGTTATTTTTAT
Found at i:37791514 original size:35 final size:35
Alignment explanation
Indices: 37791457--37791560 Score: 111
Period size: 34 Copynumber: 3.0 Consensus size: 35
37791447 TTTTTTATTG
* * **
37791457 TTTTGATTGCTATTTTCGTGTTATTTTTGCTGTTA
1 TTTTTATTGCTGTTTTTATGTTATTTTTGCTGTTA
*
37791492 TTTTTATTGCTGTTTTTATGTTA-TTTTACTGTTA
1 TTTTTATTGCTGTTTTTATGTTATTTTTGCTGTTA
** * *
37791526 TTTTTGCTGTTGTTTTTATTGTTATTTTTGTTGTT
1 TTTTTATTGCTGTTTTTA-TGTTATTTTTGCTGTT
37791561 TGGATGTTAC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
34 25 0.44
35 24 0.42
36 8 0.14
ACGTcount: A:0.11, C:0.06, G:0.15, T:0.68
Consensus pattern (35 bp):
TTTTTATTGCTGTTTTTATGTTATTTTTGCTGTTA
Found at i:37791554 original size:46 final size:44
Alignment explanation
Indices: 37791434--37791555 Score: 131
Period size: 46 Copynumber: 2.7 Consensus size: 44
37791424 GTTTTTTTAC
* **
37791434 TATTTTTG-AGTTGTTTTTTATTGTTTTGATTGCTATTTTCGTGT
1 TATTTTTGCTGTTG-TTTTTATTGTTTTTTTTGCTATTTTCGTGT
* * *
37791478 TATTTTTGCTGTTATTTTTATTGCTGTTTTTATGTTATTTTAC-TGT
1 TATTTTTGCTGTTGTTTTTATTG-T-TTTTTTTGCTATTTT-CGTGT
*
37791524 TATTTTTGCTGTTGTTTTTATTGTTATTTTTG
1 TATTTTTGCTGTTGTTTTTATTGTTTTTTTTG
37791556 TTGTTTGGAT
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
44 23 0.35
45 5 0.08
46 36 0.55
47 1 0.02
ACGTcount: A:0.11, C:0.05, G:0.16, T:0.68
Consensus pattern (44 bp):
TATTTTTGCTGTTGTTTTTATTGTTTTTTTTGCTATTTTCGTGT
Found at i:37791559 original size:12 final size:12
Alignment explanation
Indices: 37791457--37791560 Score: 70
Period size: 12 Copynumber: 8.8 Consensus size: 12
37791447 TTTTTTATTG
*
37791457 TTTTGATTGCTAT
1 TTTTG-TTGTTAT
*
37791470 TTTCG-TGTTAT
1 TTTTGTTGTTAT
*
37791481 TTTTGCTGTTAT
1 TTTTGTTGTTAT
* * *
37791493 TTTTATTGCTGT
1 TTTTGTTGTTAT
*
37791505 TTTT-ATGTTA-
1 TTTTGTTGTTAT
**
37791515 TTTTACTGTTAT
1 TTTTGTTGTTAT
* *
37791527 TTTTGCTGTTGT
1 TTTTGTTGTTAT
*
37791539 TTTTATTGTTAT
1 TTTTGTTGTTAT
37791551 TTTTGTTGTT
1 TTTTGTTGTT
37791561 TGGATGTTAC
Statistics
Matches: 71, Mismatches: 17, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
10 4 0.06
11 17 0.24
12 46 0.65
13 4 0.06
ACGTcount: A:0.11, C:0.06, G:0.15, T:0.68
Consensus pattern (12 bp):
TTTTGTTGTTAT
Found at i:37791741 original size:49 final size:48
Alignment explanation
Indices: 37791688--37791779 Score: 116
Period size: 49 Copynumber: 1.9 Consensus size: 48
37791678 TTAATATAAT
* * *
37791688 TTTTTTAA-TGTATTTTAAAT-TTATTTATTTTTTAATATTTGTTTTAA
1 TTTTTTAAGTGTATTTGAAATATTATATATTTTGTAA-ATTTGTTTTAA
*
37791735 TGTTTTTAAGTGTATTTGATATATTATATATTTTGTAAATTTGTT
1 T-TTTTTAAGTGTATTTGAAATATTATATATTTTGTAAATTTGTT
37791780 GTATGTAATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 1 0.03
48 7 0.18
49 17 0.45
50 13 0.34
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (48 bp):
TTTTTTAAGTGTATTTGAAATATTATATATTTTGTAAATTTGTTTTAA
Found at i:37801259 original size:40 final size:40
Alignment explanation
Indices: 37801214--37801296 Score: 166
Period size: 40 Copynumber: 2.1 Consensus size: 40
37801204 AAGGGTAAAA
37801214 TTGTAATTATCTCAAAAAGGATCAAATTTTGTTAAATGTT
1 TTGTAATTATCTCAAAAAGGATCAAATTTTGTTAAATGTT
37801254 TTGTAATTATCTCAAAAAGGATCAAATTTTGTTAAATGTT
1 TTGTAATTATCTCAAAAAGGATCAAATTTTGTTAAATGTT
37801294 TTG
1 TTG
37801297 ATTATGTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.43
Consensus pattern (40 bp):
TTGTAATTATCTCAAAAAGGATCAAATTTTGTTAAATGTT
Found at i:37816802 original size:29 final size:30
Alignment explanation
Indices: 37816734--37816804 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 30
37816724 TATATTTTAT
*
37816734 TATGGTATATGTACTTTGATAAAATGTTCAA
1 TATGGTACATGTACTTTGA-AAAATGTTCAA
* * *
37816765 TGTGATACATGTACTTTG-AAAGTGTTCAA
1 TATGGTACATGTACTTTGAAAAATGTTCAA
37816794 TATGGTACATG
1 TATGGTACATG
37816805 AACTATCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 19 0.56
31 15 0.44
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.39
Consensus pattern (30 bp):
TATGGTACATGTACTTTGAAAAATGTTCAA
Found at i:37818286 original size:61 final size:58
Alignment explanation
Indices: 37818220--37818626 Score: 373
Period size: 61 Copynumber: 6.8 Consensus size: 58
37818210 ACGAGAATTT
**
37818220 GAAAAAAAATTCAAAATTTTTTTGTGTAAGCCATCAAATGGCCGACACCCTCTTTTCTC
1 GAAAAAAAATTCAAAATTTTTTTGTGTTGGCCATCAAATGGCCGACACCC-CTTTTCTC
* ** *
37818279 GAAAAAAAATT-ACAA-TTTTGGGTGTTGGCTATCAAATGGCCGACACCCCTTATTCTC
1 GAAAAAAAATTCAAAATTTTTTTGTGTTGGCCATCAAATGGCCGACACCCCTT-TTCTC
* * *
37818336 GGGAAAAAAAATT-TAAATTTTTTTGGTGTTAGCCAGCAAATGGCCGACACCCCCCTTTTCTC
1 --GAAAAAAAATTCAAAATTTTTTT-GTGTTGGCCATCAAATGGCCGACA--CCCCTTTTCTC
* * * *
37818398 GAGAAAAAAATTTAAAATTTTTTTGTGTTGGTCATCAAATGGCCGACACTCTCTTTTCTT
1 GA-AAAAAAATTCAAAATTTTTTTGTGTTGGCCATCAAATGGCCGACAC-CCCTTTTCTC
* *
37818458 G-AAAAAAATTGC---A-TTTTTGGATGTTGGCCATCAAATGGCCGACACCGCCTATTCTC
1 GAAAAAAAATT-CAAAATTTTTTTG-TGTTGGCCATCAAATGGCCGACACC-CCTTTTCTC
* * *
37818514 GAGAAAAAATTTTC-AAATTTTTTTCATGTTGGCCATCAAATGGTCGACACCCCCTTTTCTC
1 GA-AAAAAA-ATTCAAAATTTTTTT-GTGTTGGCCATCAAATGGCCGACA-CCCCTTTTCTC
* * * * *
37818575 GAATAAAAAAAATCCAAATTTTTTTTATGTTGGCTATCAAATGGCTGACACC
1 G---AAAAAAAATTCAAAATTTTTTTGTGTTGGCCATCAAATGGCCGACACC
37818627 AACTTCTCCT
Statistics
Matches: 287, Mismatches: 36, Indels: 48
0.77 0.10 0.13
Matches are distributed among these distances:
55 7 0.02
56 34 0.12
57 33 0.11
58 19 0.07
59 27 0.09
60 16 0.06
61 89 0.31
62 40 0.14
63 21 0.07
64 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (58 bp):
GAAAAAAAATTCAAAATTTTTTTGTGTTGGCCATCAAATGGCCGACACCCCTTTTCTC
Found at i:37818536 original size:117 final size:114
Alignment explanation
Indices: 37818222--37818583 Score: 365
Period size: 117 Copynumber: 3.1 Consensus size: 114
37818212 GAGAATTTGA
* * *
37818222 AAAAAAATTCAAAATTTTTTTGTGTAAGCCATCAAATGGCCGACACCCTCTTTTCTCGA-AAAAA
1 AAAAAAATT-TAAATTTTTTGGTGTTAGCCATCAAATGGCCGACACCC-CTTTTCTCGAGAAAAA
* **
37818286 AATTAC-AA-TTTTGGGTGTTGGCTATCAAATGGCCGACACCCCTTATTCTCGGG
64 AATTTCAAATTTTTTCGTGTTGGC-ATCAAATGGCCGACACCCCTT-TTCTC--G
*
37818339 AAAAAAAATTTAAATTTTTTTGGTGTTAGCCAGCAAATGGCCGACACCCCCCTTTTCTCGAGAAA
1 -AAAAAAATTTAAA-TTTTTTGGTGTTAGCCATCAAATGGCCGACA--CCCCTTTTCTCGAGAAA
* * * *
37818404 AAAATTTAAAATTTTTTTGTGTTGGTCATCAAATGGCCGACACTCTCTTTTCTTG
62 AAAATTTCAAATTTTTTCGTGTTGG-CATCAAATGGCCGACAC-CCCTTTTCTCG
** * *
37818459 AAAAAAA-TTGCA-TTTTTGGATGTTGGCCATCAAATGGCCGACACCGCCTATTCTCGAGAAAAA
1 AAAAAAATTTAAATTTTTTGG-TGTTAGCCATCAAATGGCCGACACC-CCTTTTCTCGAGAAAAA
* * *
37818522 ATTTTCAAATTTTTTTCATGTTGGCCATCAAATGGTCGACACCCCCTTTTCTCG
64 AATTTCAAA-TTTTTTCGTGTTGG-CATCAAATGGCCGACA-CCCCTTTTCTCG
37818576 AATAAAAA
1 AA-AAAAA
37818584 AAATCCAAAT
Statistics
Matches: 208, Mismatches: 23, Indels: 26
0.81 0.09 0.10
Matches are distributed among these distances:
115 2 0.01
116 30 0.14
117 62 0.30
118 46 0.22
119 17 0.08
120 13 0.06
121 2 0.01
122 31 0.15
123 5 0.02
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (114 bp):
AAAAAAATTTAAATTTTTTGGTGTTAGCCATCAAATGGCCGACACCCCTTTTCTCGAGAAAAAAA
TTTCAAATTTTTTCGTGTTGGCATCAAATGGCCGACACCCCTTTTCTCG
Found at i:37818537 original size:178 final size:179
Alignment explanation
Indices: 37818221--37818626 Score: 534
Period size: 179 Copynumber: 2.3 Consensus size: 179
37818211 CGAGAATTTG
* *
37818221 AAAAAAAATTCAAAATTTTTTTGTGTAAGCCATCAAATGGCCGACACCCTCTTTTCTCGAAAAAA
1 AAAAAAAATTCAAAATTTTTTTGTGT-TGGCATCAAATGGCCGACACCCTCTTTTCTCGAAAAAA
* * *
37818286 AATTACAATTTTGGGTGTTGGCTATCAAATGGCCGACACCCCTTATTCTCGGGAAAAAAAATTTA
65 AATTACAATTTTGGATGTTGGCCATCAAATGGCCGACACCCCTTATTCTCGAGAAAAAAAATTTA
**
37818351 AATTTTTTTGGTGTTAGCCAGCAAATGGCCGACACCCCCCTTTTCTCG-A-
130 AATTTTTTTCATGTTAGCCAGCAAATGGCCGACA-CCCCCTTTTCTCGAAT
* * * *
37818400 GAAAAAAATTTAAAATTTTTTTGTGTTGGTCATCAAATGGCCGACACTCTCTTTTCTTG-AAAAA
1 AAAAAAAATTCAAAATTTTTTTGTGTTGG-CATCAAATGGCCGACACCCTCTTTTCTCGAAAAAA
* * *
37818464 AATTGCATTTTTGGATGTTGGCCATCAAATGGCCGACACCGCC-TATTCTCGAG-AAAAAATTTT
65 AATTACAATTTTGGATGTTGGCCATCAAATGGCCGACACC-CCTTATTCTCGAGAAAAAAAATTT
* * *
37818527 CAAATTTTTTTCATGTTGGCCATCAAATGGTCGACACCCCCTTTTCTCGAAT
129 -AAATTTTTTTCATGTTAGCCAGCAAATGGCCGACACCCCCTTTTCTCGAAT
* * * *
37818579 AAAAAAAATCCAAATTTTTTTTATGTTGGCTATCAAATGGCTGACACC
1 AAAAAAAATTCAAAATTTTTTTGTGTTGGC-ATCAAATGGCCGACACC
37818627 AACTTCTCCT
Statistics
Matches: 197, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
177 22 0.11
178 83 0.42
179 92 0.47
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.33
Consensus pattern (179 bp):
AAAAAAAATTCAAAATTTTTTTGTGTTGGCATCAAATGGCCGACACCCTCTTTTCTCGAAAAAAA
ATTACAATTTTGGATGTTGGCCATCAAATGGCCGACACCCCTTATTCTCGAGAAAAAAAATTTAA
ATTTTTTTCATGTTAGCCAGCAAATGGCCGACACCCCCTTTTCTCGAAT
Found at i:37819317 original size:59 final size:61
Alignment explanation
Indices: 37819250--37819402 Score: 201
Period size: 57 Copynumber: 2.6 Consensus size: 61
37819240 TCAGCATAAG
* *
37819250 GAATTTTTTTTATTCGAGAAAAGGGGGTGTCGGCCATTTGATGGCCAATA-CAAAAAA-ATT
1 GAATTTTTTTT-TTCGAGAAAAGGAGGTGTCGGCCATTTGATGGCCAACACCAAAAAATATT
* *
37819310 -AA-TTTTTTTCTCGAGAAAAGGAGGTGTCGGCCATTTGATGGCCAACACCAAAAAATTTT
1 GAATTTTTTTTTTCGAGAAAAGGAGGTGTCGGCCATTTGATGGCCAACACCAAAAAATATT
* *
37819369 GAATTTTTTTTTT-GA-AACAGGTGGTGTCGGCCAT
1 GAATTTTTTTTTTCGAGAAAAGGAGGTGTCGGCCAT
37819403 GCAATGACCA
Statistics
Matches: 82, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
57 35 0.43
58 14 0.17
59 21 0.26
60 4 0.05
61 8 0.10
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (61 bp):
GAATTTTTTTTTTCGAGAAAAGGAGGTGTCGGCCATTTGATGGCCAACACCAAAAAATATT
Found at i:37821009 original size:14 final size:15
Alignment explanation
Indices: 37820990--37821019 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
37820980 GAAGGGATAC
37820990 TTTGTTT-TTTCTTT
1 TTTGTTTGTTTCTTT
37821004 TTTGTTTGTTTCTTT
1 TTTGTTTGTTTCTTT
37821019 T
1 T
37821020 ATTAGATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTGTTTGTTTCTTT
Found at i:37825047 original size:41 final size:40
Alignment explanation
Indices: 37824970--37825047 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 40
37824960 TTTAATTGAG
* *
37824970 TAAAATGGTATTAGTAAAAAGAGTATTAAAACTTAAATTT
1 TAAAATGATATTAGTAAAAAGAGAATTAAAACTTAAATTT
* *
37825010 TAAAGATGATATTATTAAAAATGAGAATTATAA-TTAAA
1 TAAA-ATGATATTAGTAAAAA-GAGAATTAAAACTTAAA
37825048 AAAATTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 4 0.12
41 19 0.59
42 9 0.28
ACGTcount: A:0.53, C:0.01, G:0.12, T:0.35
Consensus pattern (40 bp):
TAAAATGATATTAGTAAAAAGAGAATTAAAACTTAAATTT
Found at i:37828110 original size:31 final size:32
Alignment explanation
Indices: 37828024--37828112 Score: 112
Period size: 31 Copynumber: 2.9 Consensus size: 32
37828014 TAGTACAATG
* *
37828024 TACAAGGTATGAAAATGCAAATGTG-ATCGAT
1 TACAAGGTATGATAATGCAAATATGAATCGAT
* * *
37828055 TACATGGTATGAT-AGGTAAATATGAAT-GAT
1 TACAAGGTATGATAATGCAAATATGAATCGAT
37828085 TACAAGGTATGATAATGCAAATATGAAT
1 TACAAGGTATGATAATGCAAATATGAAT
37828113 ATTTGATTCC
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
30 23 0.48
31 25 0.52
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (32 bp):
TACAAGGTATGATAATGCAAATATGAATCGAT
Found at i:37832765 original size:25 final size:24
Alignment explanation
Indices: 37832729--37832775 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
37832719 TTTCAACTAA
*
37832729 TTTTAAAATATTATTTTATTTTAC
1 TTTTAAAATATTATATTATTTTAC
37832753 TTTTAAAAATATTATATTATTTT
1 TTTT-AAAATATTATATTATTTT
37832776 TTATTTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTAAAATATTATATTATTTTAC
Found at i:37832782 original size:25 final size:26
Alignment explanation
Indices: 37832728--37832783 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
37832718 CTTTCAACTA
* *
37832728 ATTTTAAAATATTATTTTATTTTACT
1 ATTTAAAAATATTATATTATTTTACT
*
37832754 -TTTAAAAATATTATATTATTTT-TT
1 ATTTAAAAATATTATATTATTTTACT
37832778 ATTTAA
1 ATTTAA
37832784 TAAACAATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTAAAAATATTATATTATTTTACT
Found at i:37834493 original size:19 final size:19
Alignment explanation
Indices: 37834460--37834506 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
37834450 TGAGGACTCA
* *
37834460 AATTTAAACTTTAAA-GACC
1 AATTTAAAATATAAACGA-C
*
37834479 AATTTAAAATATAAACGAT
1 AATTTAAAATATAAACGAC
37834498 AATTTAAAA
1 AATTTAAAA
37834507 ATATTTAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 22 0.92
20 2 0.08
ACGTcount: A:0.55, C:0.09, G:0.04, T:0.32
Consensus pattern (19 bp):
AATTTAAAATATAAACGAC
Done.