Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007938.1 Hibiscus syriacus cultivar Beakdansim tig00110348_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2808856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 14
Found at i:6563 original size:16 final size:16
Alignment explanation
Indices: 6530--6595 Score: 84
Period size: 16 Copynumber: 4.2 Consensus size: 16
6520 GACCGGTCAC
**
6530 GACCCGACCCGATAGTT
1 GACCCGA-CCGACCGTT
6547 GACCCGACCGACCGTT
1 GACCCGACCGACCGTT
6563 GACCCGA-C--CCGTT
1 GACCCGACCGACCGTT
6576 GACCCGACCGACCGTT
1 GACCCGACCGACCGTT
6592 GACC
1 GACC
6596 GTTGACTGGT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
13 12 0.27
14 1 0.02
15 1 0.02
16 23 0.52
17 7 0.16
ACGTcount: A:0.20, C:0.42, G:0.24, T:0.14
Consensus pattern (16 bp):
GACCCGACCGACCGTT
Found at i:6576 original size:13 final size:13
Alignment explanation
Indices: 6544--6584 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 13
6534 CGACCCGATA
6544 GTTGACCCGACCGACC
1 GTTGACCCGA-C--CC
6560 GTTGACCCGACCC
1 GTTGACCCGACCC
6573 GTTGACCCGACC
1 GTTGACCCGACC
6585 GACCGTTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 14 0.56
15 1 0.04
16 10 0.40
ACGTcount: A:0.17, C:0.44, G:0.24, T:0.15
Consensus pattern (13 bp):
GTTGACCCGACCC
Found at i:6645 original size:29 final size:29
Alignment explanation
Indices: 6602--6684 Score: 139
Period size: 29 Copynumber: 2.9 Consensus size: 29
6592 GACCGTTGAC
*
6602 TGGTGCTATTTTGGTAAATAATTCGGTTT
1 TGGTGCTATTCTGGTAAATAATTCGGTTT
*
6631 TGGTGCTATTCTGGTAAATAATTCAGTTT
1 TGGTGCTATTCTGGTAAATAATTCGGTTT
*
6660 TGGTGATATTCTGGTAAATAATTCG
1 TGGTGCTATTCTGGTAAATAATTCG
6685 AAAAGGGTGC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (29 bp):
TGGTGCTATTCTGGTAAATAATTCGGTTT
Found at i:8877 original size:12 final size:12
Alignment explanation
Indices: 8860--8885 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8850 TAAAAAGTTT
8860 TTGGATAAATAC
1 TTGGATAAATAC
8872 TTGGATAAATAC
1 TTGGATAAATAC
8884 TT
1 TT
8886 AATTTATACT
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:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (12 bp):
TTGGATAAATAC
Found at i:18537 original size:34 final size:34
Alignment explanation
Indices: 18489--18565 Score: 120
Period size: 34 Copynumber: 2.3 Consensus size: 34
18479 AAGTTTAGGC
*
18489 AGAGTTTCAGCATAAAATGGGCGGAATTTTGGGT
1 AGAGTTTCAGCATAAAATGGGCAGAATTTTGGGT
*
18523 AGAGTTTC-GACATAAAATGGGCATAATTTTGGGT
1 AGAGTTTCAG-CATAAAATGGGCAGAATTTTGGGT
18557 AGAGTTTCA
1 AGAGTTTCA
18566 ACGAAAAACA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (34 bp):
AGAGTTTCAGCATAAAATGGGCAGAATTTTGGGT
Found at i:21069 original size:8 final size:9
Alignment explanation
Indices: 21058--21096 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
21048 CATTTTCTTG
21058 TTTTTATTT
1 TTTTTATTT
21067 TTTTTATTT
1 TTTTTATTT
21076 GTTGTTTA-TT
1 -TT-TTTATTT
21086 TTTTTATTT
1 TTTTTATTT
21095 TT
1 TT
21097 ATCTAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 4 0.15
9 15 0.56
10 4 0.15
11 4 0.15
ACGTcount: A:0.10, C:0.00, G:0.05, T:0.85
Consensus pattern (9 bp):
TTTTTATTT
Found at i:21087 original size:19 final size:19
Alignment explanation
Indices: 21055--21094 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
21045 AGTCATTTTC
21055 TTGTTTTTATTTTTTTTAT
1 TTGTTTTTATTTTTTTTAT
21074 TTGTTGTTTA-TTTTTTTAT
1 TTGTT-TTTATTTTTTTTAT
21093 TT
1 TT
21095 TTATCTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.82
Consensus pattern (19 bp):
TTGTTTTTATTTTTTTTAT
Found at i:21183 original size:3 final size:3
Alignment explanation
Indices: 21171--21202 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
21161 GTTTTCCTAA
21171 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21203 ATATATACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:21247 original size:31 final size:31
Alignment explanation
Indices: 21211--21276 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
21201 ATATATATAC
* *
21211 ATTTTTTT-TACTA-TTATTTTCTTTCTTTTT
1 ATTTTTTTATTCTATTTATTTT-TTTATTTTT
21241 ATTTTTTTATTCTATTTATTTTTTTATTTTT
1 ATTTTTTTATTCTATTTATTTTTTTATTTTT
21272 ATTTT
1 ATTTT
21277 CACTTTGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 8 0.25
31 17 0.53
32 7 0.22
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (31 bp):
ATTTTTTTATTCTATTTATTTTTTTATTTTT
Found at i:21250 original size:23 final size:23
Alignment explanation
Indices: 21224--21511 Score: 69
Period size: 23 Copynumber: 12.0 Consensus size: 23
21214 TTTTTTACTA
*
21224 TTATTTTCTTTCTTTTTATTTTT
1 TTATTTTCTTTATTTTTATTTTT
* *
21247 TTATTCTATTTATTTTT-TTATTT
1 TTATTTTCTTTATTTTTATT-TTT
*
21270 TTATTTTCACTTTGTTTTTATTTCCTT
1 TTATTTT--CTTTATTTTTATTT--TT
*
21297 TATATTAAT-TTTATTTCTTCATTTTT
1 T-TATT-TTCTTTATTT-TT-ATTTTT
* * *
21323 ATT-TTATTC-CTGTTTTTATTTAT
1 -TTATT-TTCTTTATTTTTATTTTT
* * *
21346 TTATTGTATATGTTGTTATTATTTTAT
1 TTATT-T-TCT-TTATTTTTATTTT-T
*
21373 TTA-TTT-TTTATCTTTATTTTT
1 TTATTTTCTTTATTTTTATTTTT
* * *
21394 AT-TTTTATTT-CTTTTATTTTCT
1 TTATTTTCTTTATTTTTATTTT-T
* * *
21416 TTA-TCTCATT-TTTTTATTTCAT
1 TTATTTTCTTTATTTTTATTT-TT
* *
21438 TTGTTTTCTTATCTTCTTTACTTTATT
1 TTATTTTCTT-TATT-TTTA-TTT-TT
*
21465 TTATTTGCTTTA-TTTTATTTATT
1 TTATTTTCTTTATTTTTATTT-TT
* *
21488 TTCATTATTTTTTATTCTT-TTTTT
1 TT-ATT-TTCTTTATTTTTATTTTT
21512 ATAACGCTTT
Statistics
Matches: 195, Mismatches: 40, Indels: 59
0.66 0.14 0.20
Matches are distributed among these distances:
21 13 0.07
22 34 0.17
23 44 0.23
24 14 0.07
25 29 0.15
26 30 0.15
27 22 0.11
28 8 0.04
29 1 0.01
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (23 bp):
TTATTTTCTTTATTTTTATTTTT
Found at i:21253 original size:17 final size:17
Alignment explanation
Indices: 21233--21268 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
21223 ATTATTTTCT
*
21233 TTCTTTTTATTTTTTTA
1 TTCTATTTATTTTTTTA
21250 TTCTATTTATTTTTTTA
1 TTCTATTTATTTTTTTA
21267 TT
1 TT
21269 TTTATTTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.06, G:0.00, T:0.81
Consensus pattern (17 bp):
TTCTATTTATTTTTTTA
Found at i:21272 original size:6 final size:6
Alignment explanation
Indices: 21236--21403 Score: 60
Period size: 6 Copynumber: 26.5 Consensus size: 6
21226 ATTTTCTTTC
* * *
21236 TTTTTA TTTTT- TTATTCTA TTTATT- TTTTTA TTTTTA TTTTCA -CTTTG
1 TTTTTA TTTTTA TT-TT-TA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA
* * ** *
21284 TTTTTA TTTCCTT- TATATTA ATTTTA TTTCTTCA TTTTTA -TTTTA TTCCTG
1 TTTTTA TTT--TTA T-TTTTA TTTTTA TTT-TT-A TTTTTA TTTTTA TTTTTA
* *
21335 TTTTTA TTTATTTA TTGTATA TGTTGTTA TTATTT- TATTTA TTTTTTA
1 TTTTTA -TT-TTTA TT-TTTA T-TT-TTA TT-TTTA TTTTTA -TTTTTA
*
21383 TCTTTA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTT
21404 CTTTTATTTT
Statistics
Matches: 119, Mismatches: 23, Indels: 40
0.65 0.13 0.22
Matches are distributed among these distances:
5 14 0.12
6 61 0.51
7 25 0.21
8 19 0.16
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:21376 original size:9 final size:9
Alignment explanation
Indices: 21238--21498 Score: 84
Period size: 9 Copynumber: 28.9 Consensus size: 9
21228 TTTCTTTCTT
21238 TTTATTTT-
1 TTTATTTTA
*
21246 TTTATTCTA
1 TTTATTTTA
21255 TTTATTTT-
1 TTTATTTTA
21263 TTTA--TT-
1 TTTATTTTA
21269 TTTATTTTCA
1 TTTATTTT-A
*
21279 CTTTGTTTTTA
1 -TTT-ATTTTA
*
21290 TTTCCTTTATA
1 TTT-ATTT-TA
*
21301 TTAATTTTA
1 TTTATTTTA
*
21310 TTTCTTCATT-
1 TTTATT--TTA
21320 TTTATTTTA
1 TTTATTTTA
** *
21329 TTCCTGTT-
1 TTTATTTTA
21337 TTTA-TTTA
1 TTTATTTTA
*
21345 TTTATTGTA
1 TTTATTTTA
* *
21354 TATGTTGTTA
1 TTTATT-TTA
21364 -TTATTTTA
1 TTTATTTTA
21372 TTTA-TTT-
1 TTTATTTTA
21379 TTTATCTTTA
1 TTTAT-TTTA
21389 TTTTTATTTTTA
1 --TTTA-TTTTA
*
21401 TTTCTTTTA
1 TTTATTTTA
21410 TTT-TCTTTA
1 TTTAT-TTTA
*
21419 TCTCATTTT-
1 T-TTATTTTA
*
21428 TTTATTTCA
1 TTTATTTTA
*
21437 TTTGTTTT-
1 TTTATTTTA
* * *
21445 CTTATCTTC
1 TTTATTTTA
*
21454 TTTACTTTA
1 TTTATTTTA
**
21463 TTTTATTTGC
1 -TTTATTTTA
21473 TTTATTTTA
1 TTTATTTTA
21482 TTTATTTTCA
1 TTTATTTT-A
21492 -TTATTTT
1 TTTATTTT
21499 TTATTCTTTT
Statistics
Matches: 185, Mismatches: 40, Indels: 55
0.66 0.14 0.20
Matches are distributed among these distances:
6 6 0.03
7 6 0.03
8 38 0.21
9 81 0.44
10 30 0.16
11 11 0.06
12 12 0.06
13 1 0.01
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.73
Consensus pattern (9 bp):
TTTATTTTA
Found at i:25105 original size:91 final size:89
Alignment explanation
Indices: 25010--25213 Score: 189
Period size: 91 Copynumber: 2.2 Consensus size: 89
25000 AAATTTAATA
* * * * *
25010 TTATTATTTTTAAAATATTAAAAATAAT-TTATTTA-TTATTAAAATATTATTTTTATATTTTTA
1 TTATTATTTTTAAAATATTAAAAATAATATTAATTATTTATTAAAATAATAGTGTTATA-TTATA
*
25073 TTAATAAAAATATTAATATTGGTATATT
65 TT-ATAAAAATATT-A-ATTAGTATATT
** * * * *
25101 TTATTGA-AATAAAAATATTATAAATTATATTAATTATTTATTAAAGTAATAGTGTTATATTATA
1 TTATT-ATTTTTAAAATATTAAAAATAATATTAATTATTTATTAAAATAATAGTGTTATATTATA
*
25165 TTTTAAAAATATTAATTAGTATATT
65 TTATAAAAATATTAATTAGTATATT
25190 TTAAATATATTTATTAAAATATTA
1 TT--AT-TATTT-TTAAAATATTA
25214 TTAGATTATT
Statistics
Matches: 89, Mismatches: 16, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
89 12 0.13
90 1 0.01
91 34 0.38
92 14 0.16
93 28 0.31
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.51
Consensus pattern (89 bp):
TTATTATTTTTAAAATATTAAAAATAATATTAATTATTTATTAAAATAATAGTGTTATATTATAT
TATAAAAATATTAATTAGTATATT
Found at i:25130 original size:31 final size:29
Alignment explanation
Indices: 25021--25192 Score: 75
Period size: 28 Copynumber: 5.8 Consensus size: 29
25011 TATTATTTTT
* * * *
25021 AAAATATTAAAAATAATTTATTTATT-ATT
1 AAAATATTAATAATTATAT-TTTATTAATA
**
25050 AAAATATT-ATTTTTATATTTTTATTAATA
1 AAAATATTAATAATTATA-TTTTATTAATA
*
25079 AAAATATTAATATTGGTATATTTTATTGAAATA
1 AAAATATTAATAAT--TATATTTTATT--AATA
* *
25112 AAAATATT-ATAAATTATATTAATTATTTATT
1 AAAATATTAAT-AATTATATT--TTATTAATA
* * * * * *
25143 AAAGTAATAGT-GTTATATTATATT-TTA
1 AAAATATTAATAATTATATTTTATTAATA
* *
25170 AAAATATTAATTAGTATATTTTA
1 AAAATATTAATAATTATATTTTA
25193 AATATATTTA
Statistics
Matches: 108, Mismatches: 23, Indels: 25
0.69 0.15 0.16
Matches are distributed among these distances:
27 9 0.08
28 22 0.20
29 19 0.18
30 11 0.10
31 21 0.19
32 7 0.06
33 19 0.18
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (29 bp):
AAAATATTAATAATTATATTTTATTAATA
Found at i:25190 original size:23 final size:23
Alignment explanation
Indices: 25161--25205 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
25151 AGTGTTATAT
25161 TATATTTTAAAAATATTAATTAG
1 TATATTTTAAAAATATTAATTAG
* *
25184 TATATTTTAAATATATTTATTA
1 TATATTTTAAAAATATTAATTA
25206 AAATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATTTTAAAAATATTAATTAG
Found at i:25211 original size:23 final size:23
Alignment explanation
Indices: 25162--25230 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
25152 GTGTTATATT
* * **
25162 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAATATATTTATTAAA
25185 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTTATTAAA
*
25208 ATATTATTAGAT-TATTATATTAA
1 ATATT-TTAAATATATT-TATTAA
25231 TATTAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 28 0.72
24 11 0.28
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (23 bp):
ATATTTTAAATATATTTATTAAA
Found at i:31054 original size:16 final size:16
Alignment explanation
Indices: 31024--31085 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
31014 AAATGATCCA
* *
31024 ACTTGTTATTGACCTG
1 ACTTGATATTTACCTG
31040 A-TCTGATATTTACCTG
1 ACT-TGATATTTACCTG
* *
31056 ACTTGACATTTACCTA
1 ACTTGATATTTACCTG
31072 ACTT-ATATATTACC
1 ACTTGATAT-TTACC
31086 ATGGACGAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
15 4 0.11
16 33 0.87
17 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.42
Consensus pattern (16 bp):
ACTTGATATTTACCTG
Found at i:31231 original size:13 final size:13
Alignment explanation
Indices: 31215--31241 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31205 TACCTATTAT
31215 ATAAAATTATTTA
1 ATAAAATTATTTA
31228 ATAAAATTATTTA
1 ATAAAATTATTTA
31241 A
1 A
31242 ATGTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
ATAAAATTATTTA
Found at i:31251 original size:15 final size:14
Alignment explanation
Indices: 31215--31257 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
31205 TACCTATTAT
31215 ATAAAATTATTT-A
1 ATAAAATTATTTAA
31228 ATAAAATTATTTAA
1 ATAAAATTATTTAA
* *
31242 ATGTAAATTATATAA
1 AT-AAAATTATTTAA
31257 A
1 A
31258 ACATGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
ATAAAATTATTTAA
Found at i:31340 original size:23 final size:24
Alignment explanation
Indices: 31297--31350 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 24
31287 CAATGATTAA
*
31297 ATGTAAATTAATATAGTTTAATTT
1 ATGTAAATTAATATAGCTTAATTT
31321 ATGTAAATT-ATATAGCTTAATTT
1 ATGTAAATTAATATAGCTTAATTT
31344 ATGTAAA
1 ATGTAAA
31351 GAAAAATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (24 bp):
ATGTAAATTAATATAGCTTAATTT
Found at i:31625 original size:12 final size:11
Alignment explanation
Indices: 31599--31640 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
31589 GATAATGATA
*
31599 ATTTAAATAAC
1 ATTTGAATAAC
*
31610 ATTTGATATAAA
1 ATTTGA-ATAAC
31622 ATTTGAATAAC
1 ATTTGAATAAC
31633 ATTTGAAT
1 ATTTGAAT
31641 TAATTCAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (11 bp):
ATTTGAATAAC
Found at i:32240 original size:13 final size:14
Alignment explanation
Indices: 32191--32266 Score: 67
Period size: 13 Copynumber: 5.9 Consensus size: 14
32181 TATTAAATAA
32191 TAATTGCATGTTAT
1 TAATTGCATGTTAT
**
32205 TAATT-CATG-TGG
1 TAATTGCATGTTAT
32217 T-ATTGCATGTTAT
1 TAATTGCATGTTAT
32230 TAATT-CATG-T-T
1 TAATTGCATGTTAT
**
32241 GCATTGCATGTTAT
1 TAATTGCATGTTAT
32255 TAATTG-ATGTTA
1 TAATTGCATGTTA
32267 CATTAGGTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
11 7 0.15
12 11 0.23
13 17 0.35
14 13 0.27
ACGTcount: A:0.26, C:0.08, G:0.17, T:0.49
Consensus pattern (14 bp):
TAATTGCATGTTAT
Found at i:32265 original size:25 final size:25
Alignment explanation
Indices: 32193--32270 Score: 120
Period size: 25 Copynumber: 3.1 Consensus size: 25
32183 TTAAATAATA
* *
32193 ATTGCATGTTATTAATTCATGTGGT
1 ATTGCATGTTATTAATTCATGTTGC
32218 ATTGCATGTTATTAATTCATGTTGC
1 ATTGCATGTTATTAATTCATGTTGC
* *
32243 ATTGCATGTTATTAATTGATGTTAC
1 ATTGCATGTTATTAATTCATGTTGC
32268 ATT
1 ATT
32271 AGGTGTTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.49
Consensus pattern (25 bp):
ATTGCATGTTATTAATTCATGTTGC
Found at i:32987 original size:24 final size:24
Alignment explanation
Indices: 32934--32987 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
32924 ATTTCATCCC
* *
32934 TATATAATTTATATTAATAAACTAT
1 TATATAATTAATAATAATAAAC-AT
32959 T-TATAATTAATAATAATATAA-AT
1 TATATAATTAATAATAATA-AACAT
32982 TATATA
1 TATATA
32988 TTAGAATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 3 0.12
24 19 0.76
25 3 0.12
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TATATAATTAATAATAATAAACAT
Found at i:32996 original size:29 final size:27
Alignment explanation
Indices: 32963--33017 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
32953 AACTATTTAT
32963 AATTAATAATAATATAAATTATATATTAG
1 AATTAATAATAATAT-AATTA-ATATTAG
*
32992 AATTAATATTAATATAATTAATATTA
1 AATTAATAATAATATAATTAATATTA
33018 ATATTAACTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 6 0.24
28 5 0.20
29 14 0.56
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTAATAATAATATAATTAATATTAG
Found at i:33002 original size:6 final size:6
Alignment explanation
Indices: 32964--33036 Score: 54
Period size: 6 Copynumber: 13.2 Consensus size: 6
32954 ACTATTTATA
*
32964 ATTAAT AATAAT A-TAA- ATTATAT ATTAGA- ATTAAT ATTAAT A-T-A-
1 ATTAAT ATTAAT ATTAAT ATTA-AT ATTA-AT ATTAAT ATTAAT ATTAAT
*
33008 ATTAAT ATTAAT ATTAA- CTT-AT ATTAAT A
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT A
33037 GAATATAGTT
Statistics
Matches: 54, Mismatches: 4, Indels: 18
0.71 0.05 0.24
Matches are distributed among these distances:
3 1 0.02
4 4 0.07
5 12 0.22
6 32 0.59
7 5 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (6 bp):
ATTAAT
Found at i:33033 original size:16 final size:15
Alignment explanation
Indices: 32960--33036 Score: 79
Period size: 15 Copynumber: 5.1 Consensus size: 15
32950 ATAAACTATT
*
32960 TATAATTAATAATAA
1 TATAATTAATATTAA
*
32975 TATAAATT-ATA-TAT
1 TAT-AATTAATATTAA
*
32989 TAGAATTAATATTAA
1 TATAATTAATATTAA
33004 TATAATTAATATTAA
1 TATAATTAATATTAA
33019 TATTAACTT-ATATTAA
1 TA-TAA-TTAATATTAA
33035 TA
1 TA
33037 GAATATAGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
13 4 0.08
14 7 0.13
15 24 0.45
16 16 0.30
17 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (15 bp):
TATAATTAATATTAA
Found at i:33041 original size:21 final size:21
Alignment explanation
Indices: 32960--33042 Score: 57
Period size: 21 Copynumber: 3.9 Consensus size: 21
32950 ATAAACTATT
*
32960 TATAATTAATAAT-AATATAAA
1 TATAATTAAT-ATGAATATTAA
*
32981 TTATATATTAGA-ATTAATATTAA
1 -TATA-ATTA-ATATGAATATTAA
*
33004 TATAATTAATATTAATATTAA
1 TATAATTAATATGAATATTAA
33025 CT-TATATTAATA-GAATAT
1 -TATA-ATTAATATGAATAT
33043 AGTTTATAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.02
21 22 0.42
22 18 0.34
23 11 0.21
24 1 0.02
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (21 bp):
TATAATTAATATGAATATTAA
Found at i:33079 original size:29 final size:30
Alignment explanation
Indices: 33047--33110 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
33037 GAATATAGTT
*
33047 TATAATTTGT-AATTAATATCAATATAAAA
1 TATAATCTGTAAATTAATATCAATATAAAA
* * *
33076 TATAGTCTGTAAAATTAATATTAATATAAAC
1 TATAATCTGT-AAATTAATATCAATATAAAA
33107 TATA
1 TATA
33111 TTTTATAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 8 0.28
31 21 0.72
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (30 bp):
TATAATCTGTAAATTAATATCAATATAAAA
Found at i:33146 original size:66 final size:64
Alignment explanation
Indices: 33068--33241 Score: 165
Period size: 64 Copynumber: 2.7 Consensus size: 64
33058 ATTAATATCA
* *
33068 ATATAAAATATAGTCTGTAAAATTAATATTAATATAAACTATATTTTATAAATTATATAGTATAA
1 ATATAAAATATAGT-T-TAAAATTAATATTAATATAAACTATATTTTATAAACTATATACTAT-A
33133 TT
63 TT
* * * * *
33135 -TATAAACTATAGTTAATATAATTAATATT-A-ATAGAGTATAGTTTATAAACTATATACTATAT
1 ATATAAAATATAGTT--TAAAATTAATATTAATATAAACTATATTTTATAAACTATATACTATAT
33197 T
64 T
* * * *
33198 AATATAAATTATAGTTAAGAAATTAACATTAATGTAAACTATAT
1 -ATATAAAATATAGTTTA-AAATTAATATTAATATAAACTATAT
33242 AGTCATTAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
63 4 0.05
64 34 0.40
65 16 0.19
66 31 0.36
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (64 bp):
ATATAAAATATAGTTTAAAATTAATATTAATATAAACTATATTTTATAAACTATATACTATATT
Found at i:33263 original size:19 final size:20
Alignment explanation
Indices: 33224--33263 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
33214 AAGAAATTAA
*
33224 CATTAATGTAAACTATATAGT
1 CATTAATATAAAC-ATATAGT
33245 CATTAATATAAAC-TATAGT
1 CATTAATATAAACATATAGT
33264 TTATAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (20 bp):
CATTAATATAAACATATAGT
Found at i:33275 original size:21 final size:21
Alignment explanation
Indices: 33251--33365 Score: 105
Period size: 21 Copynumber: 5.5 Consensus size: 21
33241 TAGTCATTAA
*
33251 TATAAACTATAGTTTATAAAT
1 TATAAACTATAGTTTATAAAG
**
33272 TATATTCTATAGTTTATAAAG
1 TATAAACTATAGTTTATAAAG
* *
33293 TAT-AACTATA-TAGTACACTAA-
1 TATAAACTATAGT-TTATA--AAG
33314 TATAAACTATAGTTTATAAA-
1 TATAAACTATAGTTTATAAAG
*
33334 TGATATACTATAGTTTATAAAG
1 T-ATAAACTATAGTTTATAAAG
33356 TAT-AACTATA
1 TATAAACTATA
33366 TAGTACACTA
Statistics
Matches: 76, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
19 1 0.01
20 17 0.22
21 44 0.58
22 13 0.17
23 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (21 bp):
TATAAACTATAGTTTATAAAG
Found at i:33317 original size:28 final size:28
Alignment explanation
Indices: 33286--33382 Score: 86
Period size: 28 Copynumber: 3.2 Consensus size: 28
33276 TTCTATAGTT
33286 TATAAAGTATAACTATATAGTACACTAA
1 TATAAAGTATAACTATATAGTACACTAA
* ** * *
33314 TATAAACTATAGTTTATAAATGATATACTATA
1 TATAAAGTATA-ACTATATA-G-TACACTA-A
33346 GTTTATAAAGTATAACTATATAGTACACTAA
1 ---TATAAAGTATAACTATATAGTACACTAA
33377 TATAAA
1 TATAAA
33383 CTATTTTTTA
Statistics
Matches: 52, Mismatches: 10, Indels: 14
0.68 0.13 0.18
Matches are distributed among these distances:
28 16 0.31
29 5 0.10
30 1 0.02
31 7 0.13
32 7 0.13
33 1 0.02
34 5 0.10
35 10 0.19
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.36
Consensus pattern (28 bp):
TATAAAGTATAACTATATAGTACACTAA
Found at i:33321 original size:63 final size:63
Alignment explanation
Indices: 33234--33401 Score: 275
Period size: 63 Copynumber: 2.7 Consensus size: 63
33224 CATTAATGTA
* *
33234 AACTATATAGT-CATTAATATAAACTATAGTTTATAAATTATATTCTATAGTTTATAAAGTAT
1 AACTATATAGTACACTAATATAAACTATAGTTTATAAATTATATACTATAGTTTATAAAGTAT
*
33296 AACTATATAGTACACTAATATAAACTATAGTTTATAAATGATATACTATAGTTTATAAAGTAT
1 AACTATATAGTACACTAATATAAACTATAGTTTATAAATTATATACTATAGTTTATAAAGTAT
** *
33359 AACTATATAGTACACTAATATAAACTATTTTTTATAAACTATA
1 AACTATATAGTACACTAATATAAACTATAGTTTATAAATTATA
33402 GGTTACATAT
Statistics
Matches: 98, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
62 11 0.11
63 87 0.89
ACGTcount: A:0.45, C:0.08, G:0.06, T:0.40
Consensus pattern (63 bp):
AACTATATAGTACACTAATATAAACTATAGTTTATAAATTATATACTATAGTTTATAAAGTAT
Found at i:33467 original size:20 final size:20
Alignment explanation
Indices: 33442--33524 Score: 61
Period size: 20 Copynumber: 4.3 Consensus size: 20
33432 ATAGATTGTA
33442 TATATACATATACTATAAGT
1 TATATACATATACTATAAGT
* * *
33462 TATATATATATAGT-TTA--
1 TATATACATATACTATAAGT
33479 TATATAC-TATAC-AT-AGTT
1 TATATACATATACTATAAG-T
*
33497 TATACATACATGTACTATAAGT
1 TAT--ATACATATACTATAAGT
33519 TATATA
1 TATATA
33525 TATAGTTTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
15 1 0.02
16 5 0.10
17 6 0.12
18 3 0.06
19 2 0.04
20 19 0.40
21 4 0.08
22 6 0.12
23 2 0.04
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.43
Consensus pattern (20 bp):
TATATACATATACTATAAGT
Found at i:33542 original size:57 final size:59
Alignment explanation
Indices: 33396--33553 Score: 170
Period size: 57 Copynumber: 2.7 Consensus size: 59
33386 TTTTTTATAA
* * * *
33396 ACTATAGGTTACATATATA-A-TTTATATA-ACATATA-AATAGATTGTATATATACATAT
1 ACTATAAGTTATATATATATAGTTTATATATACATATACTATAG-TT-TATACATACATAT
*
33453 ACTATAAGTTATATATATATAGTTTATATATAC-TATAC-ATAGTTTATACATACATGT
1 ACTATAAGTTATATATATATAGTTTATATATACATATACTATAGTTTATACATACATAT
*
33510 ACTATAAG-T-TATATATATAGTTTACATGTATACATATACTATAG
1 ACTATAAGTTATATATATATAGTTT--ATATATACATATACTATAG
33554 GTTACATATA
Statistics
Matches: 88, Mismatches: 5, Indels: 14
0.82 0.05 0.13
Matches are distributed among these distances:
55 14 0.16
56 1 0.01
57 43 0.49
58 8 0.09
59 20 0.23
60 2 0.02
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (59 bp):
ACTATAAGTTATATATATATAGTTTATATATACATATACTATAGTTTATACATACATAT
Found at i:33844 original size:7 final size:7
Alignment explanation
Indices: 33830--33867 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
33820 TACATATATA
33830 GTTTAGG
1 GTTTAGG
*
33837 GGTTAGG
1 GTTTAGG
33844 GTTTAGG
1 GTTTAGG
*
33851 ATTTAGG
1 GTTTAGG
33858 GTTTAGG
1 GTTTAGG
33865 GTT
1 GTT
33868 AAGGATTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.16, C:0.00, G:0.42, T:0.42
Consensus pattern (7 bp):
GTTTAGG
Found at i:33857 original size:21 final size:21
Alignment explanation
Indices: 33831--33876 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
33821 ACATATATAG
*
33831 TTTAGGGGTTAGGGTTTAGGA
1 TTTAGGGGTTAGGGTTAAGGA
*
33852 TTTAGGGTTTAGGGTTAAGGA
1 TTTAGGGGTTAGGGTTAAGGA
33873 TTTA
1 TTTA
33877 ATGTTCATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (21 bp):
TTTAGGGGTTAGGGTTAAGGA
Found at i:33967 original size:2 final size:2
Alignment explanation
Indices: 33960--34112 Score: 85
Period size: 2 Copynumber: 80.5 Consensus size: 2
33950 TTCTATAAAC
33960 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
34001 TA TA GA TT TC T- TA TA T- TA -A T- TA TA CA TA CA TA CA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
34039 TA TA TA CTA TA T- TA -A TA TA AA T- TA TA -A TT TA TA AA CTA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * *
34079 TA T- TT TA TA TA GTT TA TA CA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA T
34113 TAATATAAAT
Statistics
Matches: 114, Mismatches: 23, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
1 11 0.10
2 99 0.87
3 4 0.04
ACGTcount: A:0.46, C:0.05, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Found at i:34105 original size:62 final size:62
Alignment explanation
Indices: 34030--34166 Score: 231
Period size: 62 Copynumber: 2.2 Consensus size: 62
34020 TTATACATAC
*
34030 ATACATACATATATACTATATTAATATAAATTATAATTTATAAACTATATA-TTTTATATAGTTT
1 ATACATATATATATA--ATATTAATATAAATTATAATTTATAAACTATATACTTTT-TATAGTTT
34094 ATACATATATATATAATATTAATATAAATTATAATTTATAAACTATATACTTTTTATAGTTT
1 ATACATATATATATAATATTAATATAAATTATAATTTATAAACTATATACTTTTTATAGTTT
34156 ATACATATATA
1 ATACATATATA
34167 GTTTACGTAC
Statistics
Matches: 71, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
62 53 0.75
63 4 0.06
64 14 0.20
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (62 bp):
ATACATATATATATAATATTAATATAAATTATAATTTATAAACTATATACTTTTTATAGTTT
Found at i:34193 original size:13 final size:13
Alignment explanation
Indices: 34148--34227 Score: 61
Period size: 13 Copynumber: 5.8 Consensus size: 13
34138 ATATACTTTT
34148 TATAGTTTATACATA
1 TATAGTTTAT--ATA
**
34163 TATAGTTTACGTA
1 TATAGTTTATATA
*
34176 CATAGTTTATATA
1 TATAGTTTATATA
*
34189 TATAGTTCATATAAA
1 TATAGTT--TATATA
* *
34204 CATAATTTATATA
1 TATAGTTTATATA
*
34217 TATAGCTTATA
1 TATAGTTTATA
34228 ATAATTATAT
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
13 31 0.62
15 19 0.38
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:34255 original size:18 final size:17
Alignment explanation
Indices: 34211--34269 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
34201 AAACATAATT
* *
34211 TATATATATAGCTTATA
1 TATAAATATAGTTTATA
*
34228 -ATAATTATATAGTTTGTAA
1 TATAA--ATATAGTTTAT-A
34247 TATAAATATAGTTTATA
1 TATAAATATAGTTTATA
34264 TATAAA
1 TATAAA
34270 CTTATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 3 0.09
17 7 0.21
18 19 0.56
19 1 0.03
20 4 0.12
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (17 bp):
TATAAATATAGTTTATA
Found at i:36773 original size:27 final size:22
Alignment explanation
Indices: 36708--36764 Score: 114
Period size: 22 Copynumber: 2.6 Consensus size: 22
36698 TGTTTAAGGT
36708 TGTTTTAAAAATATTAATTTAA
1 TGTTTTAAAAATATTAATTTAA
36730 TGTTTTAAAAATATTAATTTAA
1 TGTTTTAAAAATATTAATTTAA
36752 TGTTTTAAAAATA
1 TGTTTTAAAAATA
36765 AATTATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
TGTTTTAAAAATATTAATTTAA
Found at i:37988 original size:20 final size:18
Alignment explanation
Indices: 37944--37989 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
37934 TTAGCAAAAG
* *
37944 AATCGATCCCTTTGACCA
1 AATCGATCCCCTTGAACA
37962 AATCGATCCCCTTGAAACA
1 AATCGATCCCCTTG-AACA
37981 AGATCGATC
1 A-ATCGATC
37990 TCAGTCCCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 13 0.54
19 4 0.17
20 7 0.29
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (18 bp):
AATCGATCCCCTTGAACA
Found at i:40903 original size:18 final size:17
Alignment explanation
Indices: 40871--40904 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
40861 AATTTTTAAA
40871 TTTTAATATTTTTATTC
1 TTTTAATATTTTTATTC
*
40888 TTTTTATATTTATTATT
1 TTTTAATATTT-TTATT
40905 AATTAAATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTAATATTTTTATTC
Found at i:43983 original size:56 final size:57
Alignment explanation
Indices: 43910--44019 Score: 213
Period size: 56 Copynumber: 1.9 Consensus size: 57
43900 GCACAATTGC
43910 CATCCAAATAGATTTTACACTTTTCTCAA-AGAAAGAGAAGCCTAGGCATTCTTTGT
1 CATCCAAATAGATTTTACACTTTTCTCAATAGAAAGAGAAGCCTAGGCATTCTTTGT
43966 CATCCAAATAGATTTTACACTTTTCTCAATAGAAAGAGAAGCCTAGGCATTCTT
1 CATCCAAATAGATTTTACACTTTTCTCAATAGAAAGAGAAGCCTAGGCATTCTT
44020 CGTCGCATCC
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 29 0.55
57 24 0.45
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.32
Consensus pattern (57 bp):
CATCCAAATAGATTTTACACTTTTCTCAATAGAAAGAGAAGCCTAGGCATTCTTTGT
Found at i:47510 original size:2 final size:2
Alignment explanation
Indices: 47448--47491 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
47438 TCTTTTGGCT
47448 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
47490 TA
1 TA
47492 AAATACTTGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:47706 original size:29 final size:25
Alignment explanation
Indices: 47658--47715 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 25
47648 ATATATTTTA
*
47658 AAAAATTTATTTTTTAAAAAAATTT
1 AAAAATTTATTTTTTAAAAAAATCT
47683 AAAAATATTATTATCTTTAAAAAAAATCT
1 AAAAAT-TTATT-T-TTT-AAAAAAATCT
47712 AAAA
1 AAAA
47716 TTACAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 6 0.21
26 5 0.18
27 1 0.04
28 3 0.11
29 13 0.46
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (25 bp):
AAAAATTTATTTTTTAAAAAAATCT
Found at i:52575 original size:18 final size:18
Alignment explanation
Indices: 52552--52596 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
52542 AACATTTCCA
52552 GTAATCTTATTCCCGCCG
1 GTAATCTTATTCCCGCCG
* *
52570 GTAATCCTATTCCCGTCG
1 GTAATCTTATTCCCGCCG
52588 GTAATCTTA
1 GTAATCTTA
52597 CATTTCGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.36
Consensus pattern (18 bp):
GTAATCTTATTCCCGCCG
Found at i:53252 original size:18 final size:18
Alignment explanation
Indices: 53229--53327 Score: 153
Period size: 18 Copynumber: 5.5 Consensus size: 18
53219 AACATTCCCA
*
53229 GTAATCTTATTCCCGCCG
1 GTAATCTTATTCCCGTCG
*
53247 GTAATCCTATTCCCGTCG
1 GTAATCTTATTCCCGTCG
53265 GTAATCTTATTCCCGTCG
1 GTAATCTTATTCCCGTCG
*
53283 GTAATCCTATTCCCGTCG
1 GTAATCTTATTCCCGTCG
* *
53301 GTAATCTTATTTCCATCG
1 GTAATCTTATTCCCGTCG
53319 GTAATCTTA
1 GTAATCTTA
53328 CATTCCGTGA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 74 1.00
ACGTcount: A:0.19, C:0.28, G:0.15, T:0.37
Consensus pattern (18 bp):
GTAATCTTATTCCCGTCG
Found at i:54074 original size:732 final size:729
Alignment explanation
Indices: 52589--54003 Score: 2128
Period size: 732 Copynumber: 1.9 Consensus size: 729
52579 TTCCCGTCGG
** * *
52589 TAATCTTACATTTCGTGAACCAAACGCACCTAGGGGCGTTTGATTTAAGTCATATTGGATTACCG
1 TAATCTTACATCCCCTGAACCAAACGCACCTAGGGGCGTTTGATTCAAGTCATATTGGATTACCG
* **
52654 GGAGGAATGGAATGTCATTCCCCCGTTTGGTTGGCAAACATTCCCAACCCCCGATAATAAGTTAT
66 AGAGGAATGGAATGTCATTCCCCCGTTTGGTTGGCAAACATTCCCAACCCCCGATAATAACCTAT
* * * * *
52719 TCCCAACAATAGTATTTTGGGGGTATATTATCGGGAATGTGATTACTCCTTTCTCTTATGTATTG
131 TCCCAACAATAGTATTTTAGGAGTATATTATCGGGAATGTGATTACTCCATTCCCTTAGGTATTG
* * * *
52784 TTACATTCCCGGTGTTTTGGACTAAAATACCTTTAATTTTTTTTTTAAAAAATATCCTTATTCTA
196 TTACATTCCCGGCGTTTTGGACTAAAATACCTTTAAATTTGTTTTTAAAAAATATCATTATTCTA
* *
52849 TCGTTGAATAAAAAAAATTCTACGAATATTAAATTACAAATTTATCCTTAAACTATTTTAGTTTT
261 TCGTTGAATAAAAAAAATTATACGAATATTAAATTACAAATTTATCCTTAAACTATTTTAGATTT
*
52914 ACAAAAAAAATCCATAATTAGAATTTTATATGAAGTTCAGGGGTTAAAATAAAATTTTACCCTTT
326 ACAAAAAAAATCCATAATTAGAATTTTATATGAAGTTCAGGGGTTAAAATAAAATTTTACCCTTC
* *
52979 CATTAAACCTATTTATCTTTTAAATTTTGTAAAAAAATTATATAAATTTTATGAATTTAATTTTT
391 CATTAAACCTA-TTAACTTTTAAATTTTGTAAAAAAATTATATAAATTTTATGAATTTAATATTT
* *
53044 TTTAAAGAAAATATGTAAATTAAGTATAGTAAAATTATAGTAGAATTTAACTTGTTAAAAAAACA
455 TTTAAAGAAAATATATAAATTAAGTATAGTAAAATTATAGTAGAATTTAAATTGTTAAAAAAACA
* * * *
53109 AATATATAATAAGGATAATTTGGTAAAATATACATTCTAATAACCTTTTATTTCTTTAACCAAAC
520 AATATATAATAAGGACAATTTGATAAAATATACATTCTAATAACATTTTATTCCTTTAACCAAAC
* * *
53174 ACTGTAATATTACATTCTTGCTAAATGAACCAAACACAATAATACAACATTCCCAGTAATCTTAT
585 ACTGTAATATTACATTCATGCTAAACGAACCAAACACAACAATACAACATTCCCAGTAATCTTAT
* * ** *
53239 TCCCGCCGGTAATCCTATTCCCGTCGGTAATCTTATTCCCGTCGGTAATCCTATTCCCGTCGGTA
650 TCCCGCCAGTAATCCTATTCCCATCGGTAATCTTATTCCCGTC-GTAATCCTAAACCCATCGGTA
* ** *
53304 ATCTTATTTCCATCGG
714 ATCTGAAATCCATCGC
* *
53320 TAATCTTACATTCCGTGAACCAAACGCACCTAGAGGGCGTTTGATTCAAGTCATATTGGATTACC
1 TAATCTTACATCCCCTGAACCAAACGCACCTAG-GGGCGTTTGATTCAAGTCATATTGGATTACC
* *
53385 -AGAGGGAATTGAATGTCATTCCCCCGTTTGGTTGGCAAACATTCCCAACCTCCGATAATAACCT
65 GAGA-GGAATGGAATGTCATTCCCCCGTTTGGTTGGCAAACATTCCCAACCCCCGATAATAACCT
* *
53449 ATTCCCAACAGTGGTATTTTAGGAGTATATTA-CTGGGAATGTGATTAC-CTCATTCCCTTAGGT
129 ATTCCCAACAATAGTATTTTAGGAGTATATTATC-GGGAATGTGATTACTC-CATTCCCTTAGGT
* * *
53512 ATTGTTACATTCTCGGCGTTTTGGACTAAAATACCTTTAAATTTGTTTTTCAAAAATATCATTCT
192 ATTGTTACATTCCCGGCGTTTTGGACTAAAATACCTTTAAATTTGTTTTTAAAAAATATCATTAT
* *
53577 TCTGTCGTTGAATAGAAAAAATTATACGAATATTAAATTACAAATTTATCCTTAAACTATTTTAG
257 TCTATCGTTGAATAAAAAAAATTATACGAATATTAAATTACAAATTTATCCTTAAACTATTTTAG
*
53642 ATTTACAAAAAAAAATCCATAATTAGAATTTTATATGAAGTTTAGGGGTTAAAATAAAATTTTAC
322 ATTTAC-AAAAAAAATCCATAATTAGAATTTTATATGAAGTTCAGGGGTTAAAATAAAATTTTAC
53707 CCTTCCATTAAA-CTA-TAACTTTTCAAA-TTTGTAAAAAAATATTATATAAATTTTATGAATTT
386 CCTTCCATTAAACCTATTAACTTTT-AAATTTTGT-AAAAAA-ATTATATAAATTTTATGAATTT
*
53769 AA-ATTTTTTAAAGAAAATATATAAATTAAGTATAGTAAAATTATAGTAGAATTTAAATTGTT-G
448 AATATTTTTTAAAGAAAATATATAAATTAAGTATAGTAAAATTATAGTAGAATTTAAATTGTTAA
* *
53832 AAAAACAAATATATAATAAGGACAATTTGATAAAATATATATTCTAATAATATTTTATTCCTTTA
513 AAAAACAAATATATAATAAGGACAATTTGATAAAATATACATTCTAATAACATTTTATTCCTTTA
* * * **
53897 ACCAAACACTGTAATCTTACATTCATGTTAAACGAACCAAACACAACAATGCAACATATCTGA-T
578 ACCAAACACTGTAATATTACATTCATGCTAAACGAACCAAACACAACAATACAACAT-TCCCAGT
*
53961 AATCTTATTCCCGCCAGTAATCCTATTCCTATCGGTAATCTTA
642 AATCTTATTCCCGCCAGTAATCCTATTCCCATCGGTAATCTTA
54004 CATTCCGTGA
Statistics
Matches: 626, Mismatches: 49, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
730 163 0.26
731 105 0.17
732 290 0.46
733 68 0.11
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (729 bp):
TAATCTTACATCCCCTGAACCAAACGCACCTAGGGGCGTTTGATTCAAGTCATATTGGATTACCG
AGAGGAATGGAATGTCATTCCCCCGTTTGGTTGGCAAACATTCCCAACCCCCGATAATAACCTAT
TCCCAACAATAGTATTTTAGGAGTATATTATCGGGAATGTGATTACTCCATTCCCTTAGGTATTG
TTACATTCCCGGCGTTTTGGACTAAAATACCTTTAAATTTGTTTTTAAAAAATATCATTATTCTA
TCGTTGAATAAAAAAAATTATACGAATATTAAATTACAAATTTATCCTTAAACTATTTTAGATTT
ACAAAAAAAATCCATAATTAGAATTTTATATGAAGTTCAGGGGTTAAAATAAAATTTTACCCTTC
CATTAAACCTATTAACTTTTAAATTTTGTAAAAAAATTATATAAATTTTATGAATTTAATATTTT
TTAAAGAAAATATATAAATTAAGTATAGTAAAATTATAGTAGAATTTAAATTGTTAAAAAAACAA
ATATATAATAAGGACAATTTGATAAAATATACATTCTAATAACATTTTATTCCTTTAACCAAACA
CTGTAATATTACATTCATGCTAAACGAACCAAACACAACAATACAACATTCCCAGTAATCTTATT
CCCGCCAGTAATCCTATTCCCATCGGTAATCTTATTCCCGTCGTAATCCTAAACCCATCGGTAAT
CTGAAATCCATCGC
Found at i:56566 original size:36 final size:36
Alignment explanation
Indices: 56525--56632 Score: 189
Period size: 36 Copynumber: 3.0 Consensus size: 36
56515 ATATGTTGAT
56525 AATGCTCAAATTAGGTTATCCCACTAGTATTGGAAA
1 AATGCTCAAATTAGGTTATCCCACTAGTATTGGAAA
* *
56561 AATGCTCAAATTAGGTTATCCCACTAGCATTAGAAA
1 AATGCTCAAATTAGGTTATCCCACTAGTATTGGAAA
*
56597 AATGCTCAAATTAGGTTATTCCACTAGTATTGGAAA
1 AATGCTCAAATTAGGTTATCCCACTAGTATTGGAAA
56633 TGACAATTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 67 1.00
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.31
Consensus pattern (36 bp):
AATGCTCAAATTAGGTTATCCCACTAGTATTGGAAA
Found at i:57170 original size:15 final size:15
Alignment explanation
Indices: 57150--57181 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
57140 ATGTGCTGCT
57150 CAAGTCACCACCTAC
1 CAAGTCACCACCTAC
*
57165 CAAGTCATCACCTAC
1 CAAGTCACCACCTAC
57180 CA
1 CA
57182 TGCCACCAAC
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:0.34, C:0.44, G:0.06, T:0.16
Consensus pattern (15 bp):
CAAGTCACCACCTAC
Found at i:57835 original size:90 final size:89
Alignment explanation
Indices: 57683--57855 Score: 301
Period size: 90 Copynumber: 1.9 Consensus size: 89
57673 ACACACCATT
57683 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
* *
57748 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
* *
57772 TTATATCCAAGTTACCCTAATCATATTGGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTT
57837 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
57856 TTTGGGATTA
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 29 0.37
90 50 0.63
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.44
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:64235 original size:90 final size:89
Alignment explanation
Indices: 64094--64266 Score: 274
Period size: 90 Copynumber: 1.9 Consensus size: 89
64084 ATAAACCCTT
*
64094 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTTAAATTAATTAAATATATATTTA
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTA
* *
64159 ATTAATTGGAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
* * * *
64183 TTATATCCAAGTTACTCTAATCATATTGGGGATTTTATTATTTCAAATTAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATTAAATATATATTT
64248 AATTAATTGAAATTAAATA
65 AATTAATTGAAATTAAATA
64267 TTCGGGATTA
Statistics
Matches: 76, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
89 28 0.37
90 48 0.63
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATATATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:67822 original size:21 final size:21
Alignment explanation
Indices: 67798--67852 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
67788 CCCATGCAAT
67798 GGTACCGATACCCCCTCAGGA
1 GGTACCGATACCCCCTCAGGA
67819 GGTACCGATACCCCCTCAGGA
1 GGTACCGATACCCCCTCAGGA
*
67840 GGTACTGATACCC
1 GGTACCGATACCC
67853 TCATGCATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (21 bp):
GGTACCGATACCCCCTCAGGA
Found at i:73640 original size:21 final size:20
Alignment explanation
Indices: 73614--73733 Score: 97
Period size: 21 Copynumber: 5.7 Consensus size: 20
73604 TGTGCATAGA
73614 GTATCGATACCCCTTATACAG
1 GTATCGATACCCCTTATA-AG
73635 GTATCGATACCCCCTT-TGAATAG
1 GTATCGATA-CCCCTTAT--A-AG
73658 GTATCGATACCCCTTGA-ATAG
1 GTATCGATACCCCTT-ATA-AG
73679 GTATCGATACCCTCTT-TGAATG
1 GTATCGATACCC-CTTAT-AA-G
73701 AGTATCGATACCCCCTTAT--G
1 -GTATCGATA-CCCCTTATAAG
73721 GTATCGATACCCC
1 GTATCGATACCCC
73734 CTGTCGGGTT
Statistics
Matches: 86, Mismatches: 1, Indels: 27
0.75 0.01 0.24
Matches are distributed among these distances:
18 4 0.05
19 9 0.10
20 1 0.01
21 27 0.31
22 17 0.20
23 24 0.28
24 4 0.05
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.30
Consensus pattern (20 bp):
GTATCGATACCCCTTATAAG
Found at i:73663 original size:23 final size:22
Alignment explanation
Indices: 73609--73735 Score: 142
Period size: 23 Copynumber: 5.9 Consensus size: 22
73599 ATTTTTGTGC
73609 ATAGAGTATCGATA-CCCCTT-A
1 ATAG-GTATCGATACCCCCTTGA
*
73630 TACAGGTATCGATACCCCCTTTGA
1 -ATAGGTATCGATACCCCC-TTGA
73654 ATAGGTATCGATA-CCCCTTGA
1 ATAGGTATCGATACCCCCTTGA
*
73675 ATAGGTATCGATACCCTCTTTGA
1 ATAGGTATCGATACCC-CCTTGA
73698 AT-GAGTATCGATACCCCCTT--
1 ATAG-GTATCGATACCCCCTTGA
73718 AT-GGTATCGATACCCCCT
1 ATAGGTATCGATACCCCCT
73736 GTCGGGTTTA
Statistics
Matches: 95, Mismatches: 4, Indels: 15
0.83 0.04 0.13
Matches are distributed among these distances:
19 15 0.16
20 3 0.03
21 26 0.27
22 17 0.18
23 33 0.35
24 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (22 bp):
ATAGGTATCGATACCCCCTTGA
Found at i:73664 original size:44 final size:44
Alignment explanation
Indices: 73609--73735 Score: 174
Period size: 44 Copynumber: 2.9 Consensus size: 44
73599 ATTTTTGTGC
73609 ATAGAGTATCGATACCCCTTATACAGGTATCGATACCCCCTTTGA
1 ATAGAGTATCGATACCCCTTATA-AGGTATCGATACCCCCTTTGA
*
73654 ATAG-GTATCGATACCCCTTGA-ATAGGTATCGATACCCTCTTTGA
1 ATAGAGTATCGATACCCCTT-ATA-AGGTATCGATACCCCCTTTGA
73698 AT-GAGTATCGATACCCCCTTAT--GGTATCGATACCCCCT
1 ATAGAGTATCGATA-CCCCTTATAAGGTATCGATACCCCCT
73736 GTCGGGTTTA
Statistics
Matches: 75, Mismatches: 3, Indels: 11
0.84 0.03 0.12
Matches are distributed among these distances:
42 15 0.20
43 1 0.01
44 48 0.64
45 11 0.15
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (44 bp):
ATAGAGTATCGATACCCCTTATAAGGTATCGATACCCCCTTTGA
Found at i:79517 original size:36 final size:36
Alignment explanation
Indices: 79410--79517 Score: 162
Period size: 36 Copynumber: 3.0 Consensus size: 36
79400 AATGTTGATA
* *
79410 ATGCTCAAATTAGGTTATCCCACTAGTATTAAAAAA
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
*
79446 ATGCTCAAATTAGGTTATCCCACTAGCATTAGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
* * *
79482 ATGCTTAAATTAGGTTATTCCACTAGTATTGGAAAT
1 ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
79518 GACAATTTTG
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 65 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (36 bp):
ATGCTCAAATTAGGTTATCCCACTAGTATTAGAAAT
Found at i:81180 original size:29 final size:29
Alignment explanation
Indices: 81138--81196 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
81128 ATTTTCACCT
81138 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
81167 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
81196 A
1 A
81197 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:85863 original size:29 final size:29
Alignment explanation
Indices: 85821--85879 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
85811 ATTTTCACCT
85821 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
85850 AACTAAATTGATGTAAGCAATGACATCAA
1 AACTAAATTGATGTAAGCAATGACATCAA
85879 A
1 A
85880 TTAATTTAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.14, G:0.14, T:0.24
Consensus pattern (29 bp):
AACTAAATTGATGTAAGCAATGACATCAA
Found at i:87785 original size:18 final size:18
Alignment explanation
Indices: 87762--87819 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
87752 TAAATCAGAG
87762 CAACAATATGAACTAAGA
1 CAACAATATGAACTAAGA
* * *
87780 CAACAACA--AA-TCAGTG
1 CAACAATATGAACTAAG-A
87796 CAACAATATGAACTAAGA
1 CAACAATATGAACTAAGA
87814 CAACAA
1 CAACAA
87820 CTAACCAATG
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
15 3 0.10
16 9 0.30
18 15 0.50
19 3 0.10
ACGTcount: A:0.55, C:0.21, G:0.10, T:0.14
Consensus pattern (18 bp):
CAACAATATGAACTAAGA
Found at i:87799 original size:34 final size:34
Alignment explanation
Indices: 87753--87835 Score: 130
Period size: 34 Copynumber: 2.4 Consensus size: 34
87743 TAGATTACAT
*
87753 AAATCAGAGCAACAATATGAACTAAGACAACAAC
1 AAATCAGTGCAACAATATGAACTAAGACAACAAC
87787 AAATCAGTGCAACAATATGAACTAAGACAACAAC
1 AAATCAGTGCAACAATATGAACTAAGACAACAAC
* * *
87821 TAACCAATGCAACAA
1 AAATCAGTGCAACAA
87836 ATGCAAATAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.54, C:0.22, G:0.11, T:0.13
Consensus pattern (34 bp):
AAATCAGTGCAACAATATGAACTAAGACAACAAC
Found at i:88828 original size:20 final size:20
Alignment explanation
Indices: 88784--88829 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
88774 CTCAATATAA
88784 ATACTAACCTCTAGGTATCG
1 ATACTAACCTCTAGGTATCG
* * *
88804 GTACTAACCTCTTGGTATTG
1 ATACTAACCTCTAGGTATCG
88824 ATACTA
1 ATACTA
88830 TTGACTTATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (20 bp):
ATACTAACCTCTAGGTATCG
Found at i:88910 original size:22 final size:21
Alignment explanation
Indices: 88863--88915 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 21
88853 AAAGGGCTAC
88863 TATCGATAC-TCTAGTTTGAG
1 TATCGATACTTCTAGTTTGAG
88883 TATCGATACTTCTAGTCTGTG-G
1 TATCGATACTTCTAGT-T-TGAG
88905 TATCGATACTT
1 TATCGATACTT
88916 TCCTGGGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 9 0.30
21 6 0.20
22 13 0.43
23 2 0.07
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.42
Consensus pattern (21 bp):
TATCGATACTTCTAGTTTGAG
Found at i:90323 original size:26 final size:26
Alignment explanation
Indices: 90255--90326 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
90245 CCAAAGTCAT
* * *
90255 AAAA-ATTCAAATAACAAAAAAAAAA
1 AAAACATTCAAATACCAAATACAAAA
*
90280 AAAACATTCAAGTACCAAATACAAAA
1 AAAACATTCAAATACCAAATACAAAA
*
90306 TAAACA-TCAAATATCCAAATA
1 AAAACATTCAAATA-CCAAATA
90327 ACATAAATGT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
25 10 0.26
26 29 0.74
ACGTcount: A:0.67, C:0.15, G:0.01, T:0.17
Consensus pattern (26 bp):
AAAACATTCAAATACCAAATACAAAA
Found at i:92609 original size:17 final size:18
Alignment explanation
Indices: 92577--92611 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
92567 TTAACCATGC
*
92577 ATATAAAGATATAAAATT
1 ATATAAAGACATAAAATT
92595 ATATAAAG-CATAAAATT
1 ATATAAAGACATAAAATT
92612 GCATGAAATT
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:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (18 bp):
ATATAAAGACATAAAATT
Found at i:97019 original size:18 final size:18
Alignment explanation
Indices: 96996--97038 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
96986 GCATCGAAGG
96996 CTCTTCTATTTCATTTCC
1 CTCTTCTATTTCATTTCC
97014 CTCTTCTATTTCATTTCC
1 CTCTTCTATTTCATTTCC
97032 CTCTTCT
1 CTCTTCT
97039 TCAATGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.09, C:0.35, G:0.00, T:0.56
Consensus pattern (18 bp):
CTCTTCTATTTCATTTCC
Found at i:107378 original size:22 final size:22
Alignment explanation
Indices: 107347--107401 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
107337 CAAGATTGTT
*
107347 TTATCTCTTT-TCCATTTTCTTC
1 TTATCTCTTTGT-CATTTTCTCC
* *
107369 TTTTCTCTTTGTCATTTTGTCC
1 TTATCTCTTTGTCATTTTCTCC
107391 TTATCTCTTTG
1 TTATCTCTTTG
107402 GTGTTGCTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.07, C:0.24, G:0.05, T:0.64
Consensus pattern (22 bp):
TTATCTCTTTGTCATTTTCTCC
Found at i:108326 original size:12 final size:12
Alignment explanation
Indices: 108311--108335 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
108301 GCATAGTGGT
108311 TTTAAAAGTGTA
1 TTTAAAAGTGTA
108323 TTTAAAAGTGTA
1 TTTAAAAGTGTA
108335 T
1 T
108336 ATAGATGAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (12 bp):
TTTAAAAGTGTA
Found at i:114785 original size:22 final size:22
Alignment explanation
Indices: 114760--114809 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
114750 TTAATTTTTT
*
114760 AAAAAAATCTTTTTTCT-TTTAG
1 AAAAAAATATTTTTT-TATTTAG
* *
114782 AAAATAATATTTTTTTATTTAT
1 AAAAAAATATTTTTTTATTTAG
114804 AAAAAA
1 AAAAAA
114810 TTAAAAAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAAAAATATTTTTTTATTTAG
Found at i:116245 original size:16 final size:16
Alignment explanation
Indices: 116208--116245 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
116198 ACTTTTATGC
*
116208 TATATAAAATATAATA
1 TATATAAAATATAACA
116224 TATATAAAA-ATAACA
1 TATATAAAATATAACA
116239 TACTATA
1 TA-TATA
116246 GAGATAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
TATATAAAATATAACA
Found at i:120877 original size:57 final size:57
Alignment explanation
Indices: 120813--120977 Score: 199
Period size: 57 Copynumber: 2.9 Consensus size: 57
120803 TACTGTGGTA
* * *
120813 AATGCACAGAGGTGCCAATTTAAAGATTGATGAATAGAGGTGCTCAATCATTTCTTT
1 AATGCACAGAGGTGCCAATTCAAAGATTGATGAACAAAGGTGCTCAATCATTTCTTT
* *
120870 AATGCACAGAGGTGCCAATTCAAAGATTGATGCACAAAGGTGCTTAATCATTTCTTT
1 AATGCACAGAGGTGCCAATTCAAAGATTGATGAACAAAGGTGCTCAATCATTTCTTT
* * * * * *
120927 AATACACAGATGTGCTAAATT-ATAGATCGA-AACACAAAGGTGCTCAATCAT
1 AATGCACAGAGGTGC-CAATTCAAAGATTGATGA-ACAAAGGTGCTCAATCAT
120978 CCTAAAAGCA
Statistics
Matches: 93, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
57 89 0.96
58 4 0.04
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.28
Consensus pattern (57 bp):
AATGCACAGAGGTGCCAATTCAAAGATTGATGAACAAAGGTGCTCAATCATTTCTTT
Found at i:120880 original size:29 final size:29
Alignment explanation
Indices: 120848--120942 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
120838 ATTGATGAAT
120848 AGAGGTGCTCAATCATTTCTTTAATGCAC
1 AGAGGTGCTCAATCATTTCTTTAATGCAC
**** *
120877 AGAGGTGC-CAATTCA-AAGATTGATGCAC
1 AGAGGTGCTCAA-TCATTTCTTTAATGCAC
* * *
120905 AAAGGTGCTTAATCATTTCTTTAATACAC
1 AGAGGTGCTCAATCATTTCTTTAATGCAC
*
120934 AGATGTGCT
1 AGAGGTGCT
120943 AAATTATAGA
Statistics
Matches: 48, Mismatches: 15, Indels: 6
0.70 0.22 0.09
Matches are distributed among these distances:
28 21 0.44
29 27 0.56
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (29 bp):
AGAGGTGCTCAATCATTTCTTTAATGCAC
Found at i:120902 original size:28 final size:28
Alignment explanation
Indices: 120814--120912 Score: 92
Period size: 28 Copynumber: 3.5 Consensus size: 28
120804 ACTGTGGTAA
*
120814 ATGCACAGAGGTGCCAATTTAAAGATTG
1 ATGCACAGAGGTGCCAATTCAAAGATTG
* * **** *
120842 ATGAATAGAGGTGCTCAA-TCATTTCTTTA
1 ATGCACAGAGGTGC-CAATTCA-AAGATTG
120871 ATGCACAGAGGTGCCAATTCAAAGATTG
1 ATGCACAGAGGTGCCAATTCAAAGATTG
*
120899 ATGCACAAAGGTGC
1 ATGCACAGAGGTGC
120913 TTAATCATTT
Statistics
Matches: 52, Mismatches: 16, Indels: 6
0.70 0.22 0.08
Matches are distributed among these distances:
28 32 0.62
29 20 0.38
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.26
Consensus pattern (28 bp):
ATGCACAGAGGTGCCAATTCAAAGATTG
Found at i:121077 original size:54 final size:55
Alignment explanation
Indices: 120848--121058 Score: 144
Period size: 57 Copynumber: 3.8 Consensus size: 55
120838 ATTGATGAAT
* * * * * *
120848 AGAGGTGCTCAATCATTTCTTTAATGCACAGAGGTGCCA-ATTCAAAGATTGATGCAC
1 AGAGGTGCTCAATCA--TCCTAAAAGCACAGAGGTGCCAGA-TCATAGATTAAAGCAC
* * * * * * * * *
120905 AAAGGTGCTTAATCATTTCTTTAATA-CACAGATGTGCTAAATTATAGATCGAAA-CAC
1 AGAGGTGCTCAATCA--TC-CTAAAAGCACAGAGGTGCCAGATCATAGAT-TAAAGCAC
* * *
120962 AAAGGTGCTCAATCATCCTAAAAGCACAGATGTGCCAGATCGTAGATTAAAGCAC
1 AGAGGTGCTCAATCATCCTAAAAGCACAGAGGTGCCAGATCATAGATTAAAGCAC
*
121017 AGAGGTGCTCAATCATCC-CAAAGCACAGAGGTGCTCAG-TCAT
1 AGAGGTGCTCAATCATCCTAAAAGCACAGAGGTGC-CAGATCAT
121059 TTTTAACTGC
Statistics
Matches: 124, Mismatches: 24, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
54 24 0.19
55 44 0.35
57 51 0.41
58 5 0.04
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (55 bp):
AGAGGTGCTCAATCATCCTAAAAGCACAGAGGTGCCAGATCATAGATTAAAGCAC
Found at i:130143 original size:18 final size:18
Alignment explanation
Indices: 130098--130144 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
130088 CCAAGAATAC
130098 TTGTGGCTTTGGGATTATA
1 TTGTGGC-TTGGGATTATA
* *
130117 TTATAGCTTGGGATTA-A
1 TTGTGGCTTGGGATTATA
130134 TGTGTGGCTTG
1 T-TGTGGCTTG
130145 TCTATTTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 2 0.09
18 16 0.70
19 5 0.22
ACGTcount: A:0.17, C:0.06, G:0.32, T:0.45
Consensus pattern (18 bp):
TTGTGGCTTGGGATTATA
Found at i:134785 original size:17 final size:18
Alignment explanation
Indices: 134763--134796 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
134753 TCAGCCGGTC
134763 CGGTTC-GAACGGTTCAG
1 CGGTTCTGAACGGTTCAG
*
134780 CGGTTCTGACCGGTTCA
1 CGGTTCTGAACGGTTCA
134797 CTAATAGCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.26
Consensus pattern (18 bp):
CGGTTCTGAACGGTTCAG
Found at i:137470 original size:50 final size:50
Alignment explanation
Indices: 137401--137503 Score: 197
Period size: 50 Copynumber: 2.1 Consensus size: 50
137391 AAAGTGAGAT
*
137401 TCAAAGCATTTTCATGCCTTAGTTGTGGCTTTTAAATGCCCTTAAAAGTG
1 TCAAAGCATTTTCAAGCCTTAGTTGTGGCTTTTAAATGCCCTTAAAAGTG
137451 TCAAAGCATTTTCAAGCCTTAGTTGTGGCTTTTAAATGCCCTTAAAAGTG
1 TCAAAGCATTTTCAAGCCTTAGTTGTGGCTTTTAAATGCCCTTAAAAGTG
137501 TCA
1 TCA
137504 TTGATTTTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 52 1.00
ACGTcount: A:0.27, C:0.18, G:0.17, T:0.37
Consensus pattern (50 bp):
TCAAAGCATTTTCAAGCCTTAGTTGTGGCTTTTAAATGCCCTTAAAAGTG
Found at i:142054 original size:8 final size:8
Alignment explanation
Indices: 142041--142068 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
142031 AATACAATAC
142041 AAATATAT
1 AAATATAT
142049 AAATATAT
1 AAATATAT
142057 AAATATAT
1 AAATATAT
142065 AAAT
1 AAAT
142069 TTACTTTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AAATATAT
Found at i:144074 original size:30 final size:27
Alignment explanation
Indices: 144051--144126 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
144041 AAAACTTAAT
*
144051 ATTA-TTATTTTTAAAATATTAAAATA
1 ATTATTTATTATTAAAATATTAAAATA
*** *
144077 ATTATTTATTATTAAAATATTATTTTT
1 ATTATTTATTATTAAAATATTAAAATA
* *
144104 ATAATTTATTAATAAAATATTAA
1 ATTATTTATTATTAAAATATTAA
144127 TATTGGTATA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 4 0.10
27 37 0.90
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATTATTTATTATTAAAATATTAAAATA
Found at i:144100 original size:18 final size:18
Alignment explanation
Indices: 144067--144105 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
144057 ATTTTTAAAA
144067 TATTAAAATAATTATTTAT
1 TATTAAAATAATTATTT-T
144086 TATTAAAAT-ATTATTTT
1 TATTAAAATAATTATTTT
144103 TAT
1 TAT
144106 AATTTATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 7 0.35
19 9 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTAAAATAATTATTTT
Found at i:144269 original size:16 final size:17
Alignment explanation
Indices: 144239--144271 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
144229 ATCTTTATTA
*
144239 AAATATTATATTAATAT
1 AAATATTATAATAATAT
144256 AAATA-TATAATAATAT
1 AAATATTATAATAATAT
144272 TATTTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTATAATAATAT
Found at i:144342 original size:10 final size:11
Alignment explanation
Indices: 144329--144459 Score: 54
Period size: 10 Copynumber: 12.9 Consensus size: 11
144319 ATATAAATTT
144329 TTATTAATA-A
1 TTATTAATATA
144339 TTATT-ATATA
1 TTATTAATATA
144349 TTATTAA-A-A
1 TTATTAATATA
**
144358 -TAAAAATATA
1 TTATTAATATA
*
144368 ATATT-ATATA
1 TTATTAATATA
144378 TTATT-ATATA
1 TTATTAATATA
* *
144388 TAATTGAT-TA
1 TTATTAATATA
*
144398 TT-TTATTATA
1 TTATTAATATA
*
144408 ATATTAA-ACTA
1 TTATTAATA-TA
*
144419 -TAAT-ATATA
1 TTATTAATATA
*
144428 TTATTATAAATA
1 TTATTA-ATATA
* *
144440 TTATAAATGTA
1 TTATTAATATA
144451 TT-TTAATAT
1 TTATTAATAT
144460 TTAATAATTA
Statistics
Matches: 89, Mismatches: 19, Indels: 26
0.66 0.14 0.19
Matches are distributed among these distances:
8 4 0.04
9 11 0.12
10 50 0.56
11 15 0.17
12 9 0.10
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (11 bp):
TTATTAATATA
Found at i:144397 original size:14 final size:12
Alignment explanation
Indices: 144372--144443 Score: 56
Period size: 12 Copynumber: 5.8 Consensus size: 12
144362 AATATAATAT
144372 TATATATTATTA
1 TATATATTATTA
144384 TATATAATTGATTA
1 TATAT-ATT-ATTA
* *
144398 T-TTTATTATAA
1 TATATATTATTA
* * *
144409 TATTAAACTATAA
1 TA-TATATTATTA
144422 TATATATTATTA
1 TATATATTATTA
*
144434 TAAATATTAT
1 TATATATTAT
144444 AAATGTATTT
Statistics
Matches: 47, Mismatches: 9, Indels: 8
0.73 0.14 0.12
Matches are distributed among these distances:
11 4 0.09
12 24 0.51
13 14 0.30
14 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (12 bp):
TATATATTATTA
Found at i:144422 original size:53 final size:52
Alignment explanation
Indices: 144335--144434 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 52
144325 ATTTTTATTA
144335 ATAATTATTATATATTATTAAAATAAAAATATAATAT-TATATATTATTATAT
1 ATAATTATTATATATTATTAAAATAAAAATATAATATATAT-TATTATTATAT
* *
144387 ATAATTGATTAT-T-TTATTATAATATTAAACTATAATATATATTATTAT
1 ATAATT-ATTATATATTATTA-AA-ATAAAAATATAATATATATTATTAT
144435 AAATATTATA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
51 6 0.14
52 9 0.21
53 24 0.57
54 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (52 bp):
ATAATTATTATATATTATTAAAATAAAAATATAATATATATTATTATTATAT
Found at i:166176 original size:20 final size:21
Alignment explanation
Indices: 166151--166190 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
166141 ATTTATGTTA
166151 AAATATAATT-AATTTAATTG
1 AAATATAATTAAATTTAATTG
*
166171 AAATATATTTAAATTTAATT
1 AAATATAATTAAATTTAATT
166191 TAAAAACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (21 bp):
AAATATAATTAAATTTAATTG
Found at i:167037 original size:2 final size:2
Alignment explanation
Indices: 167032--167057 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
167022 CACACACGTG
167032 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
167058 CCAACTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:171272 original size:21 final size:20
Alignment explanation
Indices: 171244--171282 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
171234 TATTAAAAAA
171244 TATTAAAAAATTATTATTTT
1 TATTAAAAAATTATTATTTT
171264 TATTAAAAATATTATTATT
1 TATTAAAAA-ATTATTATT
171283 GGACGTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TATTAAAAAATTATTATTTT
Found at i:171415 original size:20 final size:22
Alignment explanation
Indices: 171382--171421 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
171372 ATCAAAATAT
171382 TAAAAAATATTAATATTTTAGG
1 TAAAAAATATTAATATTTTAGG
171404 TAAAAAA-A-TAATATTTTA
1 TAAAAAATATTAATATTTTA
171422 TATAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAAAAATATTAATATTTTAGG
Found at i:176333 original size:29 final size:29
Alignment explanation
Indices: 176291--176354 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
176281 TCCGTAGAGG
**
176291 ATCCCATGTAAAATCAGGACGATGATATA
1 ATCCCATACAAAATCAGGACGATGATATA
**
176320 ATCCCATACAAAATCATTACGATGATATA
1 ATCCCATACAAAATCAGGACGATGATATA
176349 ATCCCA
1 ATCCCA
176355 AGTAGAATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (29 bp):
ATCCCATACAAAATCAGGACGATGATATA
Found at i:176363 original size:29 final size:29
Alignment explanation
Indices: 176291--176365 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
176281 TCCGTAGAGG
*
176291 ATCCCATGTAAAATCAGGACGATGATATA
1 ATCCCAAGTAAAATCAGGACGATGATATA
* **
176320 ATCCCATA-CAAAATCATTACGATGATATA
1 ATCCCA-AGTAAAATCAGGACGATGATATA
*
176349 ATCCCAAGTAGAATCAG
1 ATCCCAAGTAAAATCAG
176366 AAATGCATCA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 1 0.03
29 36 0.97
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (29 bp):
ATCCCAAGTAAAATCAGGACGATGATATA
Found at i:176988 original size:14 final size:14
Alignment explanation
Indices: 176948--176988 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
176938 TTTTAGAAAA
176948 AGTCAATGGGTCAA-
1 AGTCAAT-GGTCAAT
*
176962 AGTCAA-AGTCAAT
1 AGTCAATGGTCAAT
176975 AGTCAATGGTCAAT
1 AGTCAATGGTCAAT
176989 GGACAAGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 5 0.22
13 6 0.26
14 12 0.52
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (14 bp):
AGTCAATGGTCAAT
Found at i:181089 original size:64 final size:64
Alignment explanation
Indices: 181005--181124 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
180995 AACCGATTAG
* * * *
181005 ACTTACTATAGACTCGAATAAAACCAAAACCCGAAATTACCCAACCCGACCCAAACTTGACCAT
1 ACTTACTATAGACCCAAATAAAACCAAAACCCGAAATGACCAAACCCGACCCAAACTTGACCAT
* * * *
181069 ACTTACTATAGACCCAAATAAAATCGAAACCCGAAATGACTAAACCCGACCTAAAC
1 ACTTACTATAGACCCAAATAAAACCAAAACCCGAAATGACCAAACCCGACCCAAAC
181125 CTCACCAGAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.44, C:0.31, G:0.08, T:0.17
Consensus pattern (64 bp):
ACTTACTATAGACCCAAATAAAACCAAAACCCGAAATGACCAAACCCGACCCAAACTTGACCAT
Found at i:186261 original size:85 final size:85
Alignment explanation
Indices: 186101--186261 Score: 277
Period size: 85 Copynumber: 1.9 Consensus size: 85
186091 GTCCAAAAGA
* *
186101 GGGCACCGAATTCGGTGGATTTAATTTTGTTGAATTTTTTGGCATGGGATAATTGTAACTTTAGT
1 GGGCACCGAATTCGGTGCATTTAATTTTGTTGAATTTTTTGGCATGGGATAATTATAACTTTAGT
*
186166 CCCTGCACTTTCAGTAGATT
66 CCCTACACTTTCAGTAGATT
186186 GGGCACCGAATTCGGTGCATTTAATTTTGTTGAATTTTTTGGCATGGGATAATTATAACTTTAGT
1 GGGCACCGAATTCGGTGCATTTAATTTTGTTGAATTTTTTGGCATGGGATAATTATAACTTTAGT
* *
186251 TCCTATACTTT
66 CCCTACACTTT
186262 AGGGTATTTA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 71 1.00
ACGTcount: A:0.23, C:0.14, G:0.22, T:0.42
Consensus pattern (85 bp):
GGGCACCGAATTCGGTGCATTTAATTTTGTTGAATTTTTTGGCATGGGATAATTATAACTTTAGT
CCCTACACTTTCAGTAGATT
Found at i:187409 original size:190 final size:192
Alignment explanation
Indices: 187007--187412 Score: 545
Period size: 190 Copynumber: 2.1 Consensus size: 192
186997 AATTCATAGT
* * * * * *
187007 CCTTTGGACCATTGTAAATTAAAAATAATTTTTAATTTAAATATTAGTAGAATAATTACTCTTTT
1 CCTTTTGATCATTGCAAATTAAAAATAATTATTAATTTAAATATTAATAGAATAATTACTCTTTG
* * * * *
187072 AATAAGTCAATTTAAAAAATGTATTTGTTATCTTTTTAATTTTGAATATTAAAATATAATTATAT
66 AATAAGTCAACTTAAAAAATGTATTTGTTACCTTTTTAACTTTAAATATTAAAAGATAATTATAT
* *
187137 ACTTTTGTATATTTTAAAATTAAAATAATATATGTTTAAGTTTGAATAGTAAAAGAAGTTTA
131 ACTTTTGTATATTTTAAAATTAAAATAATATATATTTAAGTTCGAATAGTAAAAGAAGTTTA
* * *
187199 CCTTTTGATCATTGCAAATTAAATAT-ATTATTAATTTGAATATTAATAGGATAATTACTCTTTG
1 CCTTTTGATCATTGCAAATTAAAAATAATTATTAATTTAAATATTAATAGAATAATTACTCTTTG
*
187263 AATATGTCAACTT-AAAAATGTATTTGTTACCTTTTTTAACTTTAAATATT-AAAGATAATTATA
66 AATAAGTCAACTTAAAAAATGTATTTGTTACC-TTTTTAACTTTAAATATTAAAAGATAATTATA
* *
187326 TACTTTTGTATA-TTTCAAATTAAAATAATATATATTTAAGTTCGAAT-GATAAAAGGAGGTTTA
130 TACTTTTGTATATTTTAAAATTAAAATAATATATATTTAAGTTCGAATAG-TAAAA-GAAGTTTA
* *
187389 TCTTTTGAAT-ATTTCAAATTAAAA
1 CCTTTTG-ATCATTGCAAATTAAAA
187413 GATATTGTTA
Statistics
Matches: 188, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
188 1 0.01
189 37 0.20
190 66 0.35
191 62 0.33
192 22 0.12
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.45
Consensus pattern (192 bp):
CCTTTTGATCATTGCAAATTAAAAATAATTATTAATTTAAATATTAATAGAATAATTACTCTTTG
AATAAGTCAACTTAAAAAATGTATTTGTTACCTTTTTAACTTTAAATATTAAAAGATAATTATAT
ACTTTTGTATATTTTAAAATTAAAATAATATATATTTAAGTTCGAATAGTAAAAGAAGTTTA
Found at i:194116 original size:48 final size:48
Alignment explanation
Indices: 194064--194158 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
194054 GTCAACTTAA
* * *
194064 AAAGGTATTTGTTACCTTTTTAACTTT-AATTATTAAATATAATTATAT
1 AAAGGTATTTGTTACATTTTTAACTTTGAA-TATTAAAGATAAATATAT
194112 AAAGGTATTTGTTACATTTTTAACTTTGAATATTAAAGATAAATATA
1 AAAGGTATTTGTTACATTTTTAACTTTGAATATTAAAGATAAATATA
194159 CACTTTTGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 41 0.95
49 2 0.05
ACGTcount: A:0.40, C:0.05, G:0.08, T:0.46
Consensus pattern (48 bp):
AAAGGTATTTGTTACATTTTTAACTTTGAATATTAAAGATAAATATAT
Found at i:196597 original size:43 final size:43
Alignment explanation
Indices: 196522--196690 Score: 180
Period size: 43 Copynumber: 4.0 Consensus size: 43
196512 AATACCAGCT
* * * * *
196522 CCGCTAAAGGTCGATATTTATTA-CGGCATTTTTGGAACAAACA
1 CCGCAAAAGGTTGATATCTA-TAGCGGCGTTTTTGGAACAAACG
* *
196565 CCGCAAAAGGTTGATATTTATAGCGGCGTTTTTGGAACAAATG
1 CCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACG
* * *
196608 CTGCAAAAGGTTGATATCTATAGCGGCCTTTTCGGAACAAACG
1 CCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACG
* * * * *
196651 TCACAAAAGG-TCAGATCTATAGCGACGTTTTTGGAACAAA
1 CCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAA
196691 TTGTAATGCC
Statistics
Matches: 107, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
42 27 0.25
43 80 0.75
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (43 bp):
CCGCAAAAGGTTGATATCTATAGCGGCGTTTTTGGAACAAACG
Found at i:197488 original size:17 final size:18
Alignment explanation
Indices: 197461--197508 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
197451 TTAAATAAAC
197461 ATCGAATGCACTG-AGTGT
1 ATCG-ATGCACTGTAGTGT
*
197479 ATCGATGCACAAGTAGTGT
1 ATCGATGCAC-TGTAGTGT
197498 ATCGATGCACT
1 ATCGATGCACT
197509 CCCTTAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 6 0.23
18 5 0.19
19 15 0.58
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (18 bp):
ATCGATGCACTGTAGTGT
Found at i:198012 original size:58 final size:59
Alignment explanation
Indices: 197912--198299 Score: 275
Period size: 58 Copynumber: 6.6 Consensus size: 59
197902 ATGGCACTTT
* * * * * * *
197912 GTGTGCTAAAATGTTAAGGAAATCATACTGAGTGAATAGATTTTCATATGGAGCAATGA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATGGAGCAATAA
* *
197971 GTGTGCT-AAATGATAAGGAAATCATATTGAAAT-TATGGATTTCCAGATAGG-GCATATTA
1 GTGTGCTAAAATGATAAGGAAATCATACTG-AATGTATGGATTTCCAGAT-GGAGCA-ATAA
* * * * * *
198030 -TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGGTTTCCAGAT-AAGGCACTAA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATGGA-GCAATAA
* * * *
198088 GGGTGCT-AAATGATAAGGAAATCATATTGAAAT-TATGGATTTCCAGATAGG-GCGCATTA
1 GTGTGCTAAAATGATAAGGAAATCATACTG-AATGTATGGATTTCCAGAT-GGAGC-AATAA
* * * * * *
198147 -TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGGTTTCCAGAT-AAGGCACTAA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATGGA-GCAATAA
* * * * *
198205 GGGTGCT-AAATGATAAGGAAATCATAGTGAA-ATATGGATTTTCAGATAGG-GCATATTA
1 GTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGAT-GGAGCA-ATAA
* **
198263 -TGTGCTAAAATGGTAACAAAATCATACT-AATAGTATG
1 GTGTGCTAAAATGATAAGGAAATCATACTGAAT-GTATG
198300 AATTGTCGAA
Statistics
Matches: 253, Mismatches: 53, Indels: 46
0.72 0.15 0.13
Matches are distributed among these distances:
57 23 0.09
58 127 0.50
59 103 0.41
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.29
Consensus pattern (59 bp):
GTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATGGAGCAATAA
Found at i:198334 original size:117 final size:117
Alignment explanation
Indices: 197913--198278 Score: 574
Period size: 117 Copynumber: 3.1 Consensus size: 117
197903 TGGCACTTTG
* * * * * * * * * * *
197913 TGTGCTAAAATGTTAAGGAAATCATACTGAGTGAATAGATTTTCATAT-GGAGCAATGAGTGTGC
1 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGGTTTCCAGATAAG-GCACTAAGGGTGC
197977 TAAATGATAAGGAAATCATATTGAAATTATGGATTTCCAGATAGGGCATATTA
65 TAAATGATAAGGAAATCATATTGAAATTATGGATTTCCAGATAGGGCATATTA
198030 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGGTTTCCAGATAAGGCACTAAGGGTGCT
1 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGGTTTCCAGATAAGGCACTAAGGGTGCT
**
198095 AAATGATAAGGAAATCATATTGAAATTATGGATTTCCAGATAGGGCGCATTA
66 AAATGATAAGGAAATCATATTGAAATTATGGATTTCCAGATAGGGCATATTA
198147 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGGTTTCCAGATAAGGCACTAAGGGTGCT
1 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGGTTTCCAGATAAGGCACTAAGGGTGCT
* *
198212 AAATGATAAGGAAATCATAGTGAAA-TATGGATTTTCAGATAGGGCATATTA
66 AAATGATAAGGAAATCATATTGAAATTATGGATTTCCAGATAGGGCATATTA
198263 TGTGCTAAAATGGTAA
1 TGTGCTAAAATGGTAA
198279 CAAAATCATA
Statistics
Matches: 231, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
116 39 0.17
117 191 0.83
118 1 0.00
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.30
Consensus pattern (117 bp):
TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGGTTTCCAGATAAGGCACTAAGGGTGCT
AAATGATAAGGAAATCATATTGAAATTATGGATTTCCAGATAGGGCATATTA
Found at i:198875 original size:22 final size:23
Alignment explanation
Indices: 198834--198887 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
198824 CATATCGATG
198834 CACTGTTCACGGGTAATGTTCAT
1 CACTGTTCACGGGTAATGTTCAT
*
198857 CACTGTTCAC-GGTATTGTTCAT
1 CACTGTTCACGGGTAATGTTCAT
*
198879 CACTATTCA
1 CACTGTTCA
198888 TAAAAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 19 0.66
23 10 0.34
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.37
Consensus pattern (23 bp):
CACTGTTCACGGGTAATGTTCAT
Found at i:199101 original size:42 final size:44
Alignment explanation
Indices: 199019--199110 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
199009 TGGGTGTTAC
*
199019 ACAAACGCCGCAAAAGATCATATATATAGCGGTGATTTTTTGAA-
1 ACAAAAGCCGCAAAAGATCATATATATAGCGGTGA-TTTTTGAAT
* *
199063 ACAAAAGCCGCAAAAGGTCATATATATTGCGGTG-TTTTTGAAT
1 ACAAAAGCCGCAAAAGATCATATATATAGCGGTGATTTTTGAAT
199106 ACAAA
1 ACAAA
199111 CGCCACTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 8 0.18
43 5 0.11
44 31 0.70
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (44 bp):
ACAAAAGCCGCAAAAGATCATATATATAGCGGTGATTTTTGAAT
Found at i:203977 original size:18 final size:18
Alignment explanation
Indices: 203954--203992 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
203944 CGTAGGAGAA
203954 GACTAATGTGGAATCTTG
1 GACTAATGTGGAATCTTG
203972 GACTAATGTGGAATCTTG
1 GACTAATGTGGAATCTTG
203990 GAC
1 GAC
203993 CAATCTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (18 bp):
GACTAATGTGGAATCTTG
Found at i:211088 original size:17 final size:18
Alignment explanation
Indices: 211066--211099 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
211056 GATTAGTATT
211066 TTTA-GGATTTTTAGGAA
1 TTTAGGGATTTTTAGGAA
*
211083 TTTAGGGTTTTTTAGGA
1 TTTAGGGATTTTTAGGA
211100 TTTTCTGGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (18 bp):
TTTAGGGATTTTTAGGAA
Found at i:211101 original size:27 final size:29
Alignment explanation
Indices: 211064--211133 Score: 94
Period size: 27 Copynumber: 2.5 Consensus size: 29
211054 GAGATTAGTA
211064 TTTTTAGGATTTTTAGGAATTTAG-GG-T
1 TTTTTAGGATTTTTAGGAATTTAGAGGCT
211091 TTTTTAGGATTTTCT-GGAATTTAGAGGCT
1 TTTTTAGGATTTT-TAGGAATTTAGAGGCT
*
211120 TTTTT-GGAATTTTA
1 TTTTTAGGATTTTTA
211134 CCAAAATTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
27 23 0.61
28 9 0.24
29 6 0.16
ACGTcount: A:0.21, C:0.03, G:0.23, T:0.53
Consensus pattern (29 bp):
TTTTTAGGATTTTTAGGAATTTAGAGGCT
Found at i:212476 original size:20 final size:20
Alignment explanation
Indices: 212451--212505 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
212441 AGAACGTTGT
212451 TCTCCATACCAAAGGATT-AG
1 TCTCCATACCAAA-GATTGAG
*
212471 TCTCCATATCGAAA-ATTGAG
1 TCTCCATA-CCAAAGATTGAG
*
212491 TATCCATACCAAAGA
1 TCTCCATACCAAAGA
212506 CTTAATATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 7 0.24
20 18 0.62
21 4 0.14
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (20 bp):
TCTCCATACCAAAGATTGAG
Found at i:223269 original size:9 final size:9
Alignment explanation
Indices: 223257--223290 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
223247 TAATATTTTG
223257 TATTTAATT
1 TATTTAATT
*
223266 TATTTAA-G
1 TATTTAATT
223274 TATTTAATT
1 TATTTAATT
223283 TATTTAAT
1 TATTTAAT
223291 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:223296 original size:17 final size:17
Alignment explanation
Indices: 223256--223294 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
223246 TTAATATTTT
223256 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
223273 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
223290 -TATTT
1 GTATTT
223295 TACTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:223301 original size:16 final size:17
Alignment explanation
Indices: 223256--223301 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
223246 TTAATATTTT
*
223256 GTATTTAATTTATTTAA
1 GTATTTAACTTATTTAA
*
223273 GTATTTAATTTATTTAA
1 GTATTTAACTTATTTAA
*
223290 -TATTTTACTTAT
1 GTATTTAACTTAT
223302 ATATTTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 10 0.37
17 17 0.63
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (17 bp):
GTATTTAACTTATTTAA
Found at i:226305 original size:72 final size:72
Alignment explanation
Indices: 226195--226329 Score: 252
Period size: 72 Copynumber: 1.9 Consensus size: 72
226185 TATAACATGC
*
226195 TAGCTGAATATTATCCATAAAGTCGGGGCGATTAACCAATTGCTTTAGGGGGATAACTCAAGCAA
1 TAGCTGAATATTATCCATAAAGTCGGGGCGATTAACCAATTGCTTTAGGAGGATAACTCAAGCAA
226260 AACATAT
66 AACATAT
*
226267 TAGCTGAATATTATCCATAAAGTCGGGGCTATTAACCAATTGCTTTAGGAGGATAACTCAAGC
1 TAGCTGAATATTATCCATAAAGTCGGGGCGATTAACCAATTGCTTTAGGAGGATAACTCAAGC
226330 TTTATTGTAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (72 bp):
TAGCTGAATATTATCCATAAAGTCGGGGCGATTAACCAATTGCTTTAGGAGGATAACTCAAGCAA
AACATAT
Found at i:228511 original size:42 final size:42
Alignment explanation
Indices: 228452--228535 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
228442 TTAGTTTTTT
* * * *
228452 CATTTGCTCTTTTGAATCATCTTGGAATTTTTTTGCTTGATC
1 CATTTGCTCATTTGAATCACCTTGGAACTTTTTTACTTGATC
*
228494 CATTTGTTCATTTGAATCACCTTGGAACTTTTTTACTTGATC
1 CATTTGCTCATTTGAATCACCTTGGAACTTTTTTACTTGATC
228536 AATCATATCT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (42 bp):
CATTTGCTCATTTGAATCACCTTGGAACTTTTTTACTTGATC
Found at i:228789 original size:20 final size:20
Alignment explanation
Indices: 228757--228823 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
228747 TTATGCAAAG
*
228757 ATGCAAATGCAAAAATAAAA
1 ATGCAAATACAAAAATAAAA
* **
228777 ATGTAAATACAAACGTAAAA
1 ATGCAAATACAAAAATAAAA
** *
228797 ATGCAAATATGAAAATACAA
1 ATGCAAATACAAAAATAAAA
228817 ATGCAAA
1 ATGCAAA
228824 GATGTGAATG
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.18
Consensus pattern (20 bp):
ATGCAAATACAAAAATAAAA
Found at i:245788 original size:2 final size:2
Alignment explanation
Indices: 245783--245843 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
245773 ATATACTTTG
245783 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
245825 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
245844 CTTACACATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:246565 original size:22 final size:22
Alignment explanation
Indices: 246540--246594 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
246530 TCAGGAGTTA
* *
246540 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
246562 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
246584 CGGGAGTTATA
1 CAGGAGTTATA
246595 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:249966 original size:22 final size:22
Alignment explanation
Indices: 249941--249995 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
249931 TCAGGAGTTA
* *
249941 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
249963 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
249985 CGGGAGTTATA
1 CAGGAGTTATA
249996 ACAACTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:252662 original size:13 final size:14
Alignment explanation
Indices: 252644--252677 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
252634 AAATAATTCA
252644 TTTATTATTA-AAT
1 TTTATTATTATAAT
*
252657 TTTATTTTTATAAT
1 TTTATTATTATAAT
252671 TTTATTA
1 TTTATTA
252678 ATACAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTATTATTATAAT
Found at i:252794 original size:23 final size:23
Alignment explanation
Indices: 252762--252806 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
252752 AGTGTTATAC
252762 TATATATTAAAAATATTAATTAG
1 TATATATTAAAAATATTAATTAG
* * *
252785 TATATTTTAAATATATTTATTA
1 TATATATTAAAAATATTAATTA
252807 AAATGTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TATATATTAAAAATATTAATTAG
Done.