Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168305.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_530, 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: 23862
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.54
Found at i:491 original size:14 final size:12
Alignment explanation
Indices: 439--494 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
429 TTTCTTTTTG
439 TTTTTATTTATAT
1 TTTTTATTT-TAT
*
452 TTTTTA--TTAA
1 TTTTTATTTTAT
*
462 CTTTTATTTTAT
1 TTTTTATTTTAT
474 TTTTTATCTTTGAT
1 TTTTTAT-TTT-AT
488 TTTTTAT
1 TTTTTAT
495 ATCTTTTTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
10 7 0.20
11 1 0.03
12 9 0.26
13 9 0.26
14 9 0.26
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:1216 original size:23 final size:23
Alignment explanation
Indices: 1174--1292 Score: 71
Period size: 23 Copynumber: 4.9 Consensus size: 23
1164 ATTTTTGTCC
* *
1174 TTTTTTATTTTCTTACTTTTTATA
1 TTTTTTTTTTTCTT-TTTTTTATA
*
1198 TTTTTTTTTTTCTTTTTTTGTGCTTTA
1 TTTTTTTTTTTC-TTTTTT-T--TATA
* *
1225 TTTATCTTTTTTCTTTTGCTTTA-A
1 TTT-TTTTTTTTCTTTT-TTTTATA
* *
1249 TTTTTTTTCTTATTTTATTTT-TA
1 TTTTTTTTTTTCTTTT-TTTTATA
*
1272 TTTTTTTATTTCTTTCTTTTT
1 TTTTTTTTTTTCTTT-TTTTT
1293 TTATAGTTTC
Statistics
Matches: 73, Mismatches: 14, Indels: 17
0.70 0.13 0.16
Matches are distributed among these distances:
23 30 0.41
24 19 0.26
25 4 0.05
27 11 0.15
28 9 0.12
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (23 bp):
TTTTTTTTTTTCTTTTTTTTATA
Found at i:1269 original size:16 final size:15
Alignment explanation
Indices: 1173--1293 Score: 77
Period size: 16 Copynumber: 7.5 Consensus size: 15
1163 AATTTTTGTC
*
1173 CTTTTTTATTTTCTTA
1 CTTTTTTATTTT-TTT
1189 CTTTTTATATTTTTTT
1 CTTTTT-TATTTTTTT
*
1205 -TTTTCTT-TTTTTGTG
1 CTTTT-TTATTTTT-TT
1220 CTTTATTTATCTTTTTT
1 CTTT-TTTAT-TTTTTT
1237 CTTTTGCTTTAATTTTTTTT
1 C-TTT--TTT-A-TTTTTTT
*
1257 CTTATTTTATTTTTAT
1 CTT-TTTTATTTTTTT
*
1273 -TTTTTTATTTCTTT
1 CTTTTTTATTTTTTT
1287 CTTTTTT
1 CTTTTTT
1294 TATAGTTTCA
Statistics
Matches: 85, Mismatches: 7, Indels: 27
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.18
15 14 0.16
16 20 0.24
17 11 0.13
18 10 0.12
19 5 0.06
20 9 0.11
21 1 0.01
ACGTcount: A:0.10, C:0.09, G:0.02, T:0.79
Consensus pattern (15 bp):
CTTTTTTATTTTTTT
Found at i:1693 original size:19 final size:18
Alignment explanation
Indices: 1669--1704 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1659 AACTTTCATT
*
1669 TTTTTTTTTTTATGTTATA
1 TTTTTTATTTTAT-TTATA
1688 TTTTTTATTTTATTTAT
1 TTTTTTATTTTATTTAT
1705 TTTCATCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.81
Consensus pattern (18 bp):
TTTTTTATTTTATTTATA
Found at i:2022 original size:11 final size:11
Alignment explanation
Indices: 1990--2028 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1980 ATCTTCGGTA
1990 TTTTATTTATT
1 TTTTATTTATT
*
2001 TCTTAATTTATT
1 T-TTTATTTATT
*
2013 TTTTATTTATA
1 TTTTATTTATT
2024 TTTTA
1 TTTTA
2029 AAAATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTTATTTATT
Found at i:2091 original size:14 final size:13
Alignment explanation
Indices: 2074--2114 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
2064 CATTTTCCTA
2074 TTTTTTTGTCTATT
1 TTTTTTTG-CTATT
2088 TTTTTTTGCTATT
1 TTTTTTTGCTATT
*
2101 TTTTGTT-CTATT
1 TTTTTTTGCTATT
2113 TT
1 TT
2115 ATAAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 7 0.27
13 11 0.42
14 8 0.31
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGCTATT
Found at i:2092 original size:13 final size:12
Alignment explanation
Indices: 2066--2114 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
2056 TATTTTTTCA
*
2066 TTTTCCTATTTT
1 TTTTTCTATTTT
*
2078 TTTGTCTATTTT
1 TTTTTCTATTTT
2090 TTTTTGCTATTTT
1 TTTTT-CTATTTT
*
2103 TTGTTCTATTTT
1 TTTTTCTATTTT
2115 ATAAATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 21 0.66
13 11 0.34
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTTTCTATTTT
Found at i:2094 original size:25 final size:25
Alignment explanation
Indices: 2066--2114 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
2056 TATTTTTTCA
2066 TTTTCCTATTTTTT-TGTCTATTTTT
1 TTTTCCTATTTTTTGT-TCTATTTTT
*
2091 TTTTGCTATTTTTTGTTCTATTTT
1 TTTTCCTATTTTTTGTTCTATTTT
2115 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTTCCTATTTTTTGTTCTATTTTT
Found at i:2477 original size:18 final size:16
Alignment explanation
Indices: 2456--2520 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 16
2446 GTTTTTCAAT
2456 TTTTTGTATTTTTTGAAC
1 TTTTT-TATTTTTTG-AC
* *
2474 TTTTTTTTTTATTTTGTC
1 -TTTTTTATT-TTTTGAC
2492 TTTTTTATTTTCTT-AC
1 TTTTTTATTTT-TTGAC
2508 TTTTTATATTTTT
1 TTTTT-TATTTTT
2521 ATTGTAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 9 0.23
17 16 0.41
18 4 0.10
19 10 0.26
ACGTcount: A:0.12, C:0.06, G:0.05, T:0.77
Consensus pattern (16 bp):
TTTTTTATTTTTTGAC
Found at i:2551 original size:17 final size:17
Alignment explanation
Indices: 2529--2566 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
2519 TTATTGTAAT
2529 TTTTGTTCATCTTTTTA
1 TTTTGTTCATCTTTTTA
* *
2546 TTTTGTTTATTTTTTTA
1 TTTTGTTCATCTTTTTA
2563 TTTT
1 TTTT
2567 ATCATTGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.11, C:0.05, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTGTTCATCTTTTTA
Found at i:2855 original size:23 final size:24
Alignment explanation
Indices: 2812--2856 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
2802 TCCTTTGTTA
*
2812 ATTTTTTTGTCTTTGATTTTTTTT
1 ATTTTTTTGTCTTTGACTTTTTTT
2836 ATTTTTTT-TCTTAT-ACTTTTT
1 ATTTTTTTGTCTT-TGACTTTTT
2857 GCTTATGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (24 bp):
ATTTTTTTGTCTTTGACTTTTTTT
Found at i:2919 original size:18 final size:18
Alignment explanation
Indices: 2896--2931 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
2886 TTTTGTAATC
*
2896 CCTTTTTCATTTTTATCT
1 CCTTTTACATTTTTATCT
*
2914 CCTTTTACTTTTTTATCT
1 CCTTTTACATTTTTATCT
2932 TTCATTTTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (18 bp):
CCTTTTACATTTTTATCT
Found at i:3237 original size:15 final size:16
Alignment explanation
Indices: 3201--3243 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
3191 TCTTTTATAT
*
3201 TTTTTTGATTTGCTAAC
1 TTTTTT-ATTTTCTAAC
*
3218 -TTTTTATTTTCTTAC
1 TTTTTTATTTTCTAAC
3233 TTTTTTATTTT
1 TTTTTTATTTT
3244 TTTCCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTTTTATTTTCTAAC
Found at i:3282 original size:18 final size:17
Alignment explanation
Indices: 3256--3302 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
3246 TCCATTTTGG
3256 TATTT-TATTTTATTTT
1 TATTTATATTTTATTTT
* *
3272 TCTTTTATATTACTATTTT
1 T-ATTTATATT-TTATTTT
3291 TATTTATATTTT
1 TATTTATATTTT
3303 TAAAAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
16 1 0.04
17 4 0.17
18 12 0.50
19 7 0.29
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTATATTTTATTTT
Found at i:4358 original size:11 final size:11
Alignment explanation
Indices: 4344--4433 Score: 58
Period size: 12 Copynumber: 7.7 Consensus size: 11
4334 TGTATTTTTG
4344 TTTTTTTTCTT
1 TTTTTTTTCTT
* *
4355 TTTTTGTGC-T
1 TTTTTTTTCTT
* *
4365 TTATTTATCTT
1 TTTTTTTTCTT
4376 TTTTCTTTTGCTT
1 TTTT-TTTT-CTT
*
4389 ATTTTTTTCTT
1 TTTTTTTTCTT
4400 ATTTTATTTT-TAT
1 -TTTT-TTTTCT-T
4413 TTTTTATTTCTT
1 TTTTT-TTTCTT
4425 TCTTTTTTT
1 T-TTTTTTT
4434 ATAGTTTCAT
Statistics
Matches: 60, Mismatches: 10, Indels: 17
0.69 0.11 0.20
Matches are distributed among these distances:
10 6 0.10
11 15 0.25
12 23 0.38
13 16 0.27
ACGTcount: A:0.08, C:0.09, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:4406 original size:16 final size:15
Alignment explanation
Indices: 4293--4432 Score: 83
Period size: 15 Copynumber: 9.0 Consensus size: 15
4283 TGTTTTTTCA
*
4293 ATTTTTTCCTTTTTT
1 ATTTTTTTCTTTTTT
*
4308 ATTTTCTTAC-TTTTT
1 ATTTT-TTTCTTTTTT
* * *
4323 ATATTTTT-TGTTGT
1 ATTTTTTTCTTTTTT
4337 ATTTTTGTT-TTTTTT
1 ATTTTT-TTCTTTTTT
*
4352 CTTTTTTTGTGCTTTATTT
1 -ATTTTTT-T-CTTT-TTT
4371 ATCTTTTTTCTTTTGCTT
1 AT-TTTTTTCTTTT--TT
4389 ATTTTTTTCTTATTTT
1 ATTTTTTTCTT-TTTT
*
4405 A--TTTTTATTTTTT
1 ATTTTTTTCTTTTTT
*
4418 ATTTCTTTCTTTTTT
1 ATTTTTTTCTTTTTT
4433 TATAGTTTCA
Statistics
Matches: 98, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
13 5 0.05
14 17 0.17
15 31 0.32
16 13 0.13
17 13 0.13
18 11 0.11
19 8 0.08
ACGTcount: A:0.09, C:0.09, G:0.04, T:0.78
Consensus pattern (15 bp):
ATTTTTTTCTTTTTT
Found at i:4603 original size:15 final size:16
Alignment explanation
Indices: 4585--4617 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4575 TTTATGTGCT
*
4585 TTCA-TTTTTTTTTTG
1 TTCACTTTTTTCTTTG
4600 TTCACTTTTTTCTTTG
1 TTCACTTTTTTCTTTG
4616 TT
1 TT
4618 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (16 bp):
TTCACTTTTTTCTTTG
Found at i:4745 original size:22 final size:21
Alignment explanation
Indices: 4714--4754 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
4704 TTTTTCTCAA
4714 ATTTTATTTTATATATTTTGT
1 ATTTTATTTTATATATTTTGT
* *
4735 ATTTTCATTTTTTATTTTTT
1 ATTTT-ATTTTATATATTTT
4755 TCTTGCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTATATATTTTGT
Found at i:4895 original size:19 final size:18
Alignment explanation
Indices: 4845--4896 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
4835 GTGCACATTC
*
4845 TTTTATTTTTAT-TTATA
1 TTTTATTTTTATCTTTTA
* *
4862 TTTT-TTATTAACTTTTA
1 TTTTATTTTTATCTTTTA
4879 TTTTATTTTTCATCTTTT
1 TTTTATTTTT-ATCTTTT
4897 TCCTCTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 4 0.15
19 6 0.22
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTATCTTTTA
Found at i:5202 original size:13 final size:13
Alignment explanation
Indices: 5184--5223 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
5174 CATTTTCCTA
5184 TTTTTTTGTCTAT
1 TTTTTTTGTCTAT
5197 TTTTTTTG-CTAT
1 TTTTTTTGTCTAT
*
5209 TTTTTGT-TCTAT
1 TTTTTTTGTCTAT
5221 TTT
1 TTT
5224 ATAAATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGTCTAT
Found at i:5203 original size:24 final size:24
Alignment explanation
Indices: 5176--5223 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
5166 TATTTTTTCA
5176 TTTTCCTATTTTTT-TGTCTATTTT
1 TTTTCCTATTTTTTGT-TCTATTTT
*
5200 TTTTGCTATTTTTTGTTCTATTTT
1 TTTTCCTATTTTTTGTTCTATTTT
5224 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.75
Consensus pattern (24 bp):
TTTTCCTATTTTTTGTTCTATTTT
Found at i:5586 original size:18 final size:16
Alignment explanation
Indices: 5565--5629 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 16
5555 GTTTTTCAAT
5565 TTTTTGTATTTTTTGAAC
1 TTTTT-TATTTTTTG-AC
* *
5583 TTTTTTTTTTATTTTGTC
1 -TTTTTTATT-TTTTGAC
5601 TTTTTTATTTTCTT-AC
1 TTTTTTATTTT-TTGAC
5617 TTTTTATATTTTT
1 TTTTT-TATTTTT
5630 ATTGTATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 9 0.23
17 16 0.41
18 4 0.10
19 10 0.26
ACGTcount: A:0.12, C:0.06, G:0.05, T:0.77
Consensus pattern (16 bp):
TTTTTTATTTTTTGAC
Found at i:5655 original size:18 final size:18
Alignment explanation
Indices: 5634--5675 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
5624 ATTTTTATTG
*
5634 TATTTTTGTTCATCTTTT
1 TATTTTGGTTCATCTTTT
* *
5652 TATTTTGGTTTATTTTTT
1 TATTTTGGTTCATCTTTT
5670 TATTTT
1 TATTTT
5676 ATCATTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (18 bp):
TATTTTGGTTCATCTTTT
Found at i:6228 original size:21 final size:21
Alignment explanation
Indices: 6204--6263 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
6194 TTAACTTTTA
6204 TTTTATTTTTTATCTTTG-ATT
1 TTTTATTTTTT-TCTTTGTATT
6225 TTTTATATCTTTTTC-TTGTATT
1 TTTTAT-T-TTTTTCTTTGTATT
*
6247 TGTTTTTTTTTTTCTTT
1 T-TTTATTTTTTTCTTT
6264 AAACTAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 15 0.45
22 10 0.30
23 8 0.24
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTTTCTTTGTATT
Found at i:6359 original size:15 final size:16
Alignment explanation
Indices: 6323--6365 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
6313 CTTTTTATAT
*
6323 TTTTTTGATTTGCTAAC
1 TTTTTT-ATTTTCTAAC
*
6340 -TTTTTATTTTCTTAC
1 TTTTTTATTTTCTAAC
6355 TTTTTTATTTT
1 TTTTTTATTTT
6366 TTTTCCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTTTTATTTTCTAAC
Found at i:6407 original size:19 final size:18
Alignment explanation
Indices: 6380--6428 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6370 CCATTTTTGG
6380 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
6397 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
6417 TATTTATATTTT
1 TATTTATATTTT
6429 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 1 0.04
18 4 0.16
19 12 0.48
20 8 0.32
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:6769 original size:593 final size:580
Alignment explanation
Indices: 6153--7328 Score: 1368
Period size: 593 Copynumber: 2.0 Consensus size: 580
6143 CCTCTAACTT
* *
6153 CTTTTTTTGTGCACTTCCTTTTGTTTTTATTCCTTTTTTTGTTAACTTTTA-TTTTAT-TTTTTA
1 CTTTTTTTGTGCACTTCCTTTTGTTTTTATT--TTATTTT-TTAACTTTGATTTTTATATTTTT-
* * * * *
6216 T-CTTTGATTTTTTATATCTTTTTCTTGTATTTGT-TTTTTTTTTTCTTTAAACTAAAAGTTTTT
62 TCCTAT-ATTTGTTATATCTTTTTCTTGT-TTT-TCTTTGTATATTC--TAAACTAAAAGTTTTT
* *
6279 TCTGTTTTATATTTCAAATTTCTATTCATTTTGTCTTTTTATATTTTTTTGATTTGCTAACTTTT
122 TCTATTTTATATTTCAAATTTCTATTCATTTT-TC-TTTTATATTTTTTT-ATTCGCTAACTTTT
* * * ** *
6344 TATTTTCTTACTTTTTTATTTTTTTTCCATTTTTGGTATTTTATTTTATTTTTTCTTTTATATTA
184 TAATATCTTACTTTTTTA--TGTTTTCCATTTTTGGTATTTTATTGAATTTTTTCTTCTATATTA
* *
6409 CTA-TTT-T-TT-ATTTATATTTT-TAAAAAATTTTA-TAAAATTTAAAATAATTATTT-T-TT-
247 ATATTTTATCTTAATTTAT-TTTTCCAAAAAATTTTATTAAAATTTAAAA-AATT-TTTATATTA
*
6465 GAATCTTTTTTCTT-TTTT-C-ATTTTCATT-T-TTTTTGTTCTA-TGTTGTAATTTTTAAATAA
309 AAAT-TTTTTTCTTATTTTCCTATTTTCATTCTATTTTTGTTCTACT-TTGTAATTTTTAAATAA
* * *
6524 CTTTTTCCCTTCAAAGTTTTCTTTCTTTTTGCTTTTTTTTTTTTTTTCATCTGCTTTCAGTGTTG
372 CTTTTTCCCTTCAAAGTTTTCCTTCTTTTTGC--------TTTTTTTCATATGCTTTCAGTGTTA
* * *
6589 CTTGTTTTAATTTTTTTGTTGTTTTAAAATTTTTTATATTTCTTTTTTCCTTTTTTATTCCAAAT
429 CTTGTTTTAATTTTTTCGTTATTTTAAAA-ATTTT-TA--T-TTTTTT-CTTTTTTATTCCAAAT
6654 CTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTA-TTTTTTTCACAAATTTCCTTTCAT
488 CTTTTGTCTTTTCATTTTTATTCTTTTCTTGCTTTTCTTATTTTTTTTCACAAATTTCCTTTCAT
6718 TTCTTATTTGCATCTTTAAATTATTAGA
553 TTCTTATTTGCATCTTTAAATTATTAGA
*
6746 CTTTTTTTGTGCAC-TCTCTTTTGTTTTTATTTTATTTTTTATCTTTGATTTTTATATTTTTTCC
1 CTTTTTTTGTGCACTTC-CTTTTGTTTTTATTTTATTTTTTAACTTTGATTTTTATATTTTTTCC
* * *
6810 TATATTTGTTATATTTTTTTTTTGTTTTTCTTTGTATATTCTGAACTAAAAGTTTTTTCTATTTT
65 TATATTTGTTATATCTTTTTCTTGTTTTTCTTTGTATATTCTAAACTAAAAGTTTTTTCTATTTT
* * * *
6875 GTATTTGAAATTTTTATTCATTTTTCTTTTATATTTTTTTATTCGCTAATTTTTTAATATCTTAC
130 ATATTTCAAATTTCTATTCATTTTTCTTTTATATTTTTTTATTCGCTAACTTTTTAATATCTTAC
* *
6940 TTTTTTATGTTTTGCTTTTTTGGTATTTTATTGAATTTTTTCTTCTATATTAATATTTTATCTTA
195 TTTTTTATGTTTTCCATTTTTGGTATTTTATTGAATTTTTTCTTCTATATTAATATTTTATCTTA
*** * * * *
7005 ATTTATTTTTCCATTTATTTTTATTTATATTTTAAAAAATTTTTATAAAGTTCAAAATTTTTTTT
260 ATTTATTTTTCCAAAAAATTTTA-TTAAAATTTAAAAAATTTTTAT--A-TT-AAAATTTTTTTC
* ** *
7070 TTATTTTCCCTTTTTTTTTTTGCTATTTTTGTTCTACTTTGTAATTTTTTAATAACTTTTTCCCT
320 TTATTTT-CC-TATTTTCATT-CTATTTTTGTTCTACTTTGTAATTTTTAAATAACTTTTTCCCT
* * *
7135 TCAAATTTTTCCTTCTTTTTGCTTTTTTTCATATGCTTTCATTTTTACTTGTTTTAATTTTTTCG
382 TCAAAGTTTTCCTTCTTTTTGCTTTTTTTCATATGCTTTCAGTGTTACTTGTTTTAATTTTTTCG
7200 TTATTTTAAAAATTTTTATTTTTTTCTTTTTTATTCCAAATCTTTTGTCTTTTCATTTTTATTCT
447 TTATTTTAAAAATTTTTATTTTTTTCTTTTTTATTCCAAATCTTTTGTCTTTTCATTTTTATTCT
* *
7265 TTTCTTGCTTTTCTTATTTTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCGTTTTTAAATT
512 TTTCTTGCTTTTCTTA-TTTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCATCTTTAAATT
7329 CTCGTACTTT
Statistics
Matches: 503, Mismatches: 50, Indels: 64
0.82 0.08 0.10
Matches are distributed among these distances:
583 41 0.08
584 3 0.01
585 29 0.06
586 20 0.04
587 74 0.15
588 54 0.11
589 56 0.11
590 19 0.04
591 34 0.07
592 16 0.03
593 84 0.17
594 7 0.01
596 1 0.00
598 6 0.01
600 1 0.00
601 57 0.11
602 1 0.00
ACGTcount: A:0.18, C:0.11, G:0.05, T:0.66
Consensus pattern (580 bp):
CTTTTTTTGTGCACTTCCTTTTGTTTTTATTTTATTTTTTAACTTTGATTTTTATATTTTTTCCT
ATATTTGTTATATCTTTTTCTTGTTTTTCTTTGTATATTCTAAACTAAAAGTTTTTTCTATTTTA
TATTTCAAATTTCTATTCATTTTTCTTTTATATTTTTTTATTCGCTAACTTTTTAATATCTTACT
TTTTTATGTTTTCCATTTTTGGTATTTTATTGAATTTTTTCTTCTATATTAATATTTTATCTTAA
TTTATTTTTCCAAAAAATTTTATTAAAATTTAAAAAATTTTTATATTAAAATTTTTTTCTTATTT
TCCTATTTTCATTCTATTTTTGTTCTACTTTGTAATTTTTAAATAACTTTTTCCCTTCAAAGTTT
TCCTTCTTTTTGCTTTTTTTCATATGCTTTCAGTGTTACTTGTTTTAATTTTTTCGTTATTTTAA
AAATTTTTATTTTTTTCTTTTTTATTCCAAATCTTTTGTCTTTTCATTTTTATTCTTTTCTTGCT
TTTCTTATTTTTTTTCACAAATTTCCTTTCATTTCTTATTTGCATCTTTAAATTATTAGA
Found at i:7398 original size:21 final size:19
Alignment explanation
Indices: 7356--7398 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
7346 TTGCATTAAC
* *
7356 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
7375 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
7396 TTT
1 TTT
7399 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:7442 original size:16 final size:17
Alignment explanation
Indices: 7423--7462 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
7413 ATGTTTTTCA
*
7423 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
7439 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
7456 ATTTTTT
1 ATTTTTT
7463 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:7539 original size:18 final size:18
Alignment explanation
Indices: 7522--7555 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7512 TTTTGCTTTA
7522 ATTTTT-TTTCTTATTTT
1 ATTTTTATTTCTTATTTT
*
7539 ATTTTTATTTTTTATTT
1 ATTTTTATTTCTTATTT
7556 CTTTCTTTTT
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:0.03, G:0.00, T:0.82
Consensus pattern (18 bp):
ATTTTTATTTCTTATTTT
Found at i:7543 original size:16 final size:15
Alignment explanation
Indices: 7423--7566 Score: 64
Period size: 15 Copynumber: 9.0 Consensus size: 15
7413 ATGTTTTTCA
7423 ATTTTTTTCCTTTTTT
1 ATTTTTTT-CTTTTTT
*
7439 ATTTTCTTAC-TTTTT
1 ATTTT-TTTCTTTTTT
* * *
7454 ATATTTTT-TGTTGT
1 ATTTTTTTCTTTTTT
7468 ATTTTTGTT-TTTTTT
1 ATTTTT-TTCTTTTTT
*
7483 CTTTTTTTGTGCTTTATTT
1 -ATTTTTT-T-CTTT-TTT
7502 ATCTTTTTTCTTTTGCTTT
1 AT-TTTTTTC-TTT--TTT
7521 AATTTTTTTTCTTATTTT
1 -A-TTTTTTTCTT-TTTT
*
7539 A--TTTTTATTTTTT
1 ATTTTTTTCTTTTTT
*
7552 ATTTCTTTCTTTTTT
1 ATTTTTTTCTTTTTT
7567 TATAGTTTCA
Statistics
Matches: 98, Mismatches: 14, Indels: 33
0.68 0.10 0.23
Matches are distributed among these distances:
13 5 0.05
14 17 0.17
15 26 0.27
16 12 0.12
17 4 0.04
18 11 0.11
19 13 0.13
20 9 0.09
21 1 0.01
ACGTcount: A:0.10, C:0.08, G:0.04, T:0.78
Consensus pattern (15 bp):
ATTTTTTTCTTTTTT
Found at i:7548 original size:23 final size:23
Alignment explanation
Indices: 7467--7551 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
7457 TTTTTTGTTG
* *
7467 TATTTTTGTTTTTTTTCTTTTTT
1 TATTTTTATTTTTTTTCTTATTT
* * *
7490 TGTGCTTTATTTATCTTTT-TTCTTT
1 TAT-TTTTATTT-T-TTTTCTTATTT
** *
7515 TGCTTTAATTTTTTTTCTTATTT
1 TATTTTTATTTTTTTTCTTATTT
7538 TATTTTTATTTTTT
1 TATTTTTATTTTTT
7552 ATTTCTTTCT
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
22 4 0.09
23 19 0.40
24 12 0.26
25 8 0.17
26 4 0.09
ACGTcount: A:0.09, C:0.07, G:0.05, T:0.79
Consensus pattern (23 bp):
TATTTTTATTTTTTTTCTTATTT
Found at i:7738 original size:15 final size:16
Alignment explanation
Indices: 7720--7752 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7710 TTTATGTGCT
*
7720 TTCA-TTTTTTTTTTG
1 TTCACTTTTTTCTTTG
7735 TTCACTTTTTTCTTTG
1 TTCACTTTTTTCTTTG
7751 TT
1 TT
7753 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (16 bp):
TTCACTTTTTTCTTTG
Found at i:7880 original size:22 final size:21
Alignment explanation
Indices: 7849--7889 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
7839 TTTTTCTCAA
7849 ATTTTATTTTATATATTTTGT
1 ATTTTATTTTATATATTTTGT
* *
7870 ATTTTCATTTTTTATTTTTT
1 ATTTT-ATTTTATATATTTT
7890 TCTTGCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (21 bp):
ATTTTATTTTATATATTTTGT
Found at i:8031 original size:19 final size:18
Alignment explanation
Indices: 7981--8032 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
7971 GTGCACATTC
*
7981 TTTTATTTTTAT-TTATA
1 TTTTATTTTTATCTTTTA
* *
7998 TTTT-TTATTAACTTTTA
1 TTTTATTTTTATCTTTTA
8015 TTTTATTTTTCATCTTTT
1 TTTTATTTTT-ATCTTTT
8033 TCCTCTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 4 0.15
19 6 0.22
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTATCTTTTA
Found at i:8335 original size:14 final size:13
Alignment explanation
Indices: 8318--8358 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
8308 CATTTTCCTA
8318 TTTTTTTGTCTATT
1 TTTTTTTG-CTATT
8332 TTTTTTTGCTATT
1 TTTTTTTGCTATT
*
8345 TTTTGTT-CTATT
1 TTTTTTTGCTATT
8357 TT
1 TT
8359 ATAAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 7 0.27
13 11 0.42
14 8 0.31
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGCTATT
Found at i:8336 original size:13 final size:12
Alignment explanation
Indices: 8310--8358 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
8300 TATTTTTTCA
*
8310 TTTTCCTATTTT
1 TTTTTCTATTTT
*
8322 TTTGTCTATTTT
1 TTTTTCTATTTT
8334 TTTTTGCTATTTT
1 TTTTT-CTATTTT
*
8347 TTGTTCTATTTT
1 TTTTTCTATTTT
8359 ATAAATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 21 0.66
13 11 0.34
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTTTCTATTTT
Found at i:8338 original size:25 final size:25
Alignment explanation
Indices: 8310--8358 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
8300 TATTTTTTCA
8310 TTTTCCTATTTTTT-TGTCTATTTTT
1 TTTTCCTATTTTTTGT-TCTATTTTT
*
8335 TTTTGCTATTTTTTGTTCTATTTT
1 TTTTCCTATTTTTTGTTCTATTTT
8359 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTTCCTATTTTTTGTTCTATTTTT
Found at i:8798 original size:10 final size:8
Alignment explanation
Indices: 8697--8808 Score: 55
Period size: 9 Copynumber: 12.6 Consensus size: 8
8687 ATGTTTTTCA
8697 ATTTTTTGT
1 ATTTTTT-T
*
8706 ATTTTTTGA
1 ATTTTTT-T
8715 ACTTTTTTT
1 A-TTTTTTT
*
8724 -TTATTTT
1 ATTTTTTT
*
8731 GTCTTTTTT
1 AT-TTTTTT
*
8740 ATTTTCTT
1 ATTTTTTT
*
8748 ACTTTTTAT
1 A-TTTTTTT
8757 ATTTTTATTGT
1 A-TTTT-TT-T
8768 ATTTTTGTT
1 ATTTTT-TT
*
8777 CATCTTTTT
1 -ATTTTTTT
8786 ATTTTGGTTT
1 ATTTT--TTT
8796 ATTTTTTT
1 ATTTTTTT
8804 ATTTT
1 ATTTT
8809 ATCATTGTTG
Statistics
Matches: 81, Mismatches: 12, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
7 6 0.07
8 19 0.23
9 29 0.36
10 25 0.31
11 2 0.02
ACGTcount: A:0.13, C:0.05, G:0.06, T:0.75
Consensus pattern (8 bp):
ATTTTTTT
Found at i:8932 original size:23 final size:22
Alignment explanation
Indices: 8906--8963 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 22
8896 TTTTCACGTG
8906 CTTTCATATTTTTTTTGTTTTCA
1 CTTTCATATTTTTTTTGTTTT-A
**
8929 CTTTTTTATTCTTTTTTGTTTTA
1 CTTTCATATT-TTTTTTGTTTTA
*
8952 -TTTCATAATTTT
1 CTTTCATATTTTT
8964 GACTCTTCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
21 3 0.10
22 6 0.21
23 9 0.31
24 11 0.38
ACGTcount: A:0.14, C:0.10, G:0.03, T:0.72
Consensus pattern (22 bp):
CTTTCATATTTTTTTTGTTTTA
Found at i:9494 original size:15 final size:16
Alignment explanation
Indices: 9458--9500 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
9448 CTTTTTATAT
*
9458 TTTTTTGATTTGCTAAC
1 TTTTTT-ATTTTCTAAC
*
9475 -TTTTTATTTTCTTAC
1 TTTTTTATTTTCTAAC
9490 TTTTTTATTTT
1 TTTTTTATTTT
9501 TTTTCCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTTTTATTTTCTAAC
Found at i:9542 original size:19 final size:18
Alignment explanation
Indices: 9515--9563 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
9505 CCATTTTTGG
9515 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
9532 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
9552 TATTTATATTTT
1 TATTTATATTTT
9564 TAAAAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 1 0.04
18 4 0.16
19 12 0.48
20 8 0.32
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:10531 original size:21 final size:19
Alignment explanation
Indices: 10489--10531 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10479 TTGCATTAAC
* *
10489 TTTTCTCTTTTTTAATTTT
1 TTTTCTCCTTTTTAATTGT
10508 TTTTCTCACTTTTTATATTGT
1 TTTTCTC-CTTTTTA-ATTGT
10529 TTT
1 TTT
10532 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.35
20 6 0.30
21 7 0.35
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTCTCCTTTTTAATTGT
Found at i:10575 original size:16 final size:17
Alignment explanation
Indices: 10556--10595 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
10546 ATGTTTTTCA
*
10556 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
10572 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
10589 ATTTTTT
1 ATTTTTT
10596 GTTGTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.12, C:0.10, G:0.00, T:0.78
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:10668 original size:22 final size:21
Alignment explanation
Indices: 10608--10668 Score: 52
Period size: 22 Copynumber: 2.7 Consensus size: 21
10598 TGTATTTTGT
*
10608 TTTTTTTCTTTTTTTGTGCTTTA
1 TTTTTTTC-TTATTT-TGCTTTA
*
10631 TTTATCTTT-TTCTTTTGCTTTAA
1 TTT-T-TTTCTTATTTTGCTTT-A
10654 TTTTTTTCTTATTTT
1 TTTTTTTCTTATTTT
10669 ATTTTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
21 3 0.09
22 13 0.41
23 12 0.38
24 1 0.03
25 3 0.09
ACGTcount: A:0.08, C:0.10, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTTTTTCTTATTTTGCTTTA
Found at i:11090 original size:19 final size:18
Alignment explanation
Indices: 11040--11091 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
11030 GTGCACATTC
*
11040 TTTTATTTTTAT-TTATA
1 TTTTATTTTTATCTTTTA
* *
11057 TTTT-TTATTAACTTTTA
1 TTTTATTTTTATCTTTTA
11074 TTTTATTTTTCATCTTTT
1 TTTTATTTTT-ATCTTTT
11092 CCTCTATTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 5 0.19
17 12 0.44
18 4 0.15
19 6 0.22
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATTTTTATCTTTTA
Found at i:11297 original size:18 final size:18
Alignment explanation
Indices: 11270--11329 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 18
11260 TTTTTTGGTA
11270 TTTTAT-TTAATTTTTTC
1 TTTTATATTAATTTTTTC
*
11287 TTTTATATTAATATTTTC
1 TTTTATATTAATTTTTTC
* *
11305 TCTTA-ATTTATTTTTT-
1 TTTTATATTAATTTTTTC
*
11321 ATTTATATT
1 TTTTATATT
11330 TTAAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 3 0.09
17 18 0.51
18 14 0.40
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATATTAATTTTTTC
Found at i:11328 original size:28 final size:30
Alignment explanation
Indices: 11268--11332 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
11258 CCTTTTTTGG
*
11268 TATTTTATTTAATTTTTTCTTTTATATTAA
1 TATTTTATTTAATTTATTCTTTTATATTAA
*
11298 TATTTTCTCTTAATTTATT-TTTTAT-TT-A
1 TATTTTAT-TTAATTTATTCTTTTATATTAA
11326 TATTTTA
1 TATTTTA
11333 AAAAATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 7 0.23
29 2 0.06
30 13 0.42
31 9 0.29
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.71
Consensus pattern (30 bp):
TATTTTATTTAATTTATTCTTTTATATTAA
Found at i:11396 original size:14 final size:13
Alignment explanation
Indices: 11379--11419 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
11369 CATTTTCCTA
11379 TTTTTTTGTCTATT
1 TTTTTTTG-CTATT
11393 TTTTTTTGCTATT
1 TTTTTTTGCTATT
*
11406 TTTTGTT-CTATT
1 TTTTTTTGCTATT
11418 TT
1 TT
11420 ATAAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 7 0.27
13 11 0.42
14 8 0.31
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGCTATT
Found at i:11397 original size:13 final size:12
Alignment explanation
Indices: 11371--11419 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
11361 TATTTTTTCA
*
11371 TTTTCCTATTTT
1 TTTTTCTATTTT
*
11383 TTTGTCTATTTT
1 TTTTTCTATTTT
11395 TTTTTGCTATTTT
1 TTTTT-CTATTTT
*
11408 TTGTTCTATTTT
1 TTTTTCTATTTT
11420 ATAAATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 21 0.66
13 11 0.34
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTTTCTATTTT
Found at i:11399 original size:25 final size:25
Alignment explanation
Indices: 11371--11419 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11361 TATTTTTTCA
11371 TTTTCCTATTTTTT-TGTCTATTTTT
1 TTTTCCTATTTTTTGT-TCTATTTTT
*
11396 TTTTGCTATTTTTTGTTCTATTTT
1 TTTTCCTATTTTTTGTTCTATTTT
11420 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTTCCTATTTTTTGTTCTATTTTT
Found at i:11859 original size:10 final size:8
Alignment explanation
Indices: 11758--11869 Score: 55
Period size: 9 Copynumber: 12.6 Consensus size: 8
11748 ATGTTTTTCA
11758 ATTTTTTGT
1 ATTTTTT-T
*
11767 ATTTTTTGA
1 ATTTTTT-T
11776 ACTTTTTTT
1 A-TTTTTTT
*
11785 -TTATTTT
1 ATTTTTTT
*
11792 GTCTTTTTT
1 AT-TTTTTT
*
11801 ATTTTCTT
1 ATTTTTTT
*
11809 ACTTTTTAT
1 A-TTTTTTT
11818 ATTTTTATTGT
1 A-TTTT-TT-T
11829 ATTTTTGTT
1 ATTTTT-TT
*
11838 CATCTTTTT
1 -ATTTTTTT
11847 ATTTTGGTTT
1 ATTTT--TTT
11857 ATTTTTTT
1 ATTTTTTT
11865 ATTTT
1 ATTTT
11870 ATCATTGTTG
Statistics
Matches: 81, Mismatches: 12, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
7 6 0.07
8 19 0.23
9 29 0.36
10 25 0.31
11 2 0.02
ACGTcount: A:0.13, C:0.05, G:0.06, T:0.75
Consensus pattern (8 bp):
ATTTTTTT
Found at i:11993 original size:23 final size:22
Alignment explanation
Indices: 11967--12023 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
11957 TTTTCACGTG
11967 CTTTCATATTTTTTTTGTTTTCA
1 CTTTCATATTTTTTTTGTTTT-A
*
11990 CTTT-TTATTCTTTTTTGTTTTA
1 CTTTCATATT-TTTTTTGTTTTA
*
12012 -TTTCATAATTTT
1 CTTTCATATTTTT
12024 GACTCTTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 6 0.21
22 8 0.28
23 15 0.52
ACGTcount: A:0.14, C:0.11, G:0.04, T:0.72
Consensus pattern (22 bp):
CTTTCATATTTTTTTTGTTTTA
Found at i:12250 original size:15 final size:16
Alignment explanation
Indices: 12213--12255 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
12203 TGTAATCCCT
*
12213 TTTCATTTTTT-TATC
1 TTTCATTTTTTATACC
12228 TTTCATTTTTTATACC
1 TTTCATTTTTTATACC
*
12244 TTT-ATTTCTTAT
1 TTTCATTTTTTAT
12256 TGTTTGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 19 0.76
16 6 0.24
ACGTcount: A:0.16, C:0.14, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTCATTTTTTATACC
Found at i:12408 original size:21 final size:21
Alignment explanation
Indices: 12384--12443 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
12374 TCAACTTTTA
12384 TTTTATTTTTTATCTTTG-ATT
1 TTTTATTTTTT-TCTTTGTATT
12405 TTTTATATCTTTTTC-TTGTATT
1 TTTTAT-T-TTTTTCTTTGTATT
*
12427 TGTTTTTTTTTTTCTTT
1 T-TTTATTTTTTTCTTT
12444 AAACTAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 15 0.45
22 10 0.30
23 8 0.24
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTTTCTTTGTATT
Found at i:12539 original size:15 final size:16
Alignment explanation
Indices: 12503--12545 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
12493 CTTTTTATAT
*
12503 TTTTTTGATTTGCTAAC
1 TTTTTT-ATTTTCTAAC
*
12520 -TTTTTATTTTCTTAC
1 TTTTTTATTTTCTAAC
12535 TTTTTTATTTT
1 TTTTTTATTTT
12546 TTTTCCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTTTTATTTTCTAAC
Found at i:12587 original size:19 final size:18
Alignment explanation
Indices: 12560--12608 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
12550 CCATTTTTGG
12560 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
12577 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
12597 TATTTATATTTT
1 TATTTATATTTT
12609 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 1 0.04
18 4 0.16
19 12 0.48
20 8 0.32
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:13577 original size:22 final size:20
Alignment explanation
Indices: 13534--13577 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
13524 TTGCATTAAC
* *
13534 TTTTCTCTTTTTTAATTTTT
1 TTTTCTCCTTTTTAATTGTT
13554 TTTTCTCACTTTTTATATTGTT
1 TTTTCTC-CTTTTTA-ATTGTT
13576 TT
1 TT
13578 ATTATTAGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 6 0.30
22 7 0.35
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTCTCCTTTTTAATTGTT
Found at i:13713 original size:22 final size:21
Alignment explanation
Indices: 13654--13713 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 21
13644 GTATTTTTGT
*
13654 TTTTTTTCTTTTTTGTGCTTTA
1 TTTTTTTCTTATTT-TGCTTTA
*
13676 TTTATCTTT-TTCTTTTGCTTTAA
1 TTT-T-TTTCTTATTTTGCTTT-A
13699 TTTTTTTCTTATTTT
1 TTTTTTTCTTATTTT
13714 ATTTTTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
21 3 0.09
22 16 0.50
23 10 0.31
24 3 0.09
ACGTcount: A:0.08, C:0.10, G:0.05, T:0.77
Consensus pattern (21 bp):
TTTTTTTCTTATTTTGCTTTA
Found at i:13717 original size:16 final size:15
Alignment explanation
Indices: 13602--13741 Score: 67
Period size: 15 Copynumber: 9.0 Consensus size: 15
13592 ATGTTTTTCA
13602 ATTTTTTTCCTTTTTT
1 ATTTTTTT-CTTTTTT
*
13618 ATTTTCTTAC-TTTTT
1 ATTTT-TTTCTTTTTT
* * *
13633 A-TATTTT-TGTTGT
1 ATTTTTTTCTTTTTT
13646 ATTTTTGTT-TTTTTT
1 ATTTTT-TTCTTTTTT
*
13661 CTTTTTTGTGCTTTATTT
1 ATTTTTT-T-CTTT-TTT
*
13679 ATCTTTTTCTTTTGCTTT
1 ATTTTTTTC-TTT--TTT
13697 AATTTTTTTCTTATTTT
1 -ATTTTTTTCTT-TTTT
*
13714 A--TTTTTATTTTTT
1 ATTTTTTTCTTTTTT
*
13727 ATTTCTTTCTTTTTT
1 ATTTTTTTCTTTTTT
13742 TATAGTTTCA
Statistics
Matches: 94, Mismatches: 16, Indels: 29
0.68 0.12 0.21
Matches are distributed among these distances:
13 11 0.12
14 13 0.14
15 28 0.30
16 8 0.09
17 12 0.13
18 13 0.14
19 9 0.10
ACGTcount: A:0.10, C:0.09, G:0.04, T:0.77
Consensus pattern (15 bp):
ATTTTTTTCTTTTTT
Found at i:13758 original size:19 final size:18
Alignment explanation
Indices: 13736--13779 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
13726 TATTTCTTTC
13736 TTTTTTTATAG-TTTCATAA
1 TTTTTTTA-AGTTTTCA-AA
13755 TTTTTGTTAAGTTTTCAAA
1 TTTTT-TTAAGTTTTCAAA
13774 TTTTTT
1 TTTTTT
13780 ATTTTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 1 0.04
19 14 0.61
20 8 0.35
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.66
Consensus pattern (18 bp):
TTTTTTTAAGTTTTCAAA
Found at i:13909 original size:14 final size:16
Alignment explanation
Indices: 13892--13923 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13882 TTTATGTGCT
13892 TTCA-TTTTTT-TTTG
1 TTCACTTTTTTCTTTG
13906 TTCACTTTTTTCTTTG
1 TTCACTTTTTTCTTTG
13922 TT
1 TT
13924 TTAAAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 6 0.38
16 6 0.38
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.75
Consensus pattern (16 bp):
TTCACTTTTTTCTTTG
Found at i:14011 original size:20 final size:19
Alignment explanation
Indices: 13976--14030 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
13966 TATTTTTGCC
13976 TCTTCATTTTTTATTTTTT
1 TCTTCATTTTTTATTTTTT
13995 TCTTC-TTTTTCTCATTTTTT
1 TCTTCATTTTT-T-ATTTTTT
**
14015 TC-TCAAATTTTATTTT
1 TCTTCATTTTTTATTTT
14031 ATATATTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 10 0.32
19 9 0.29
20 12 0.39
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTCATTTTTTATTTTTT
Found at i:14400 original size:16 final size:16
Alignment explanation
Indices: 14381--14428 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
14371 TTTTTTCGTA
14381 TTTTATTTTATTTTTC
1 TTTTATTTTATTTTTC
*
14397 TTTTATATTAATATTTTC
1 TTTTAT-TTTAT-TTTTC
*
14415 TCTTA-TTTATTTTT
1 TTTTATTTTATTTTT
14429 TATTTATATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 4 0.15
16 10 0.37
17 4 0.15
18 9 0.33
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTTATTTTATTTTTC
Found at i:14411 original size:29 final size:27
Alignment explanation
Indices: 14379--14439 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
14369 CCTTTTTTCG
*
14379 TATTTTATTTTATTT-TTCTTTTATATTAA
1 TATTTTATCTTATTTATT-TTTTAT-TT-A
*
14408 TATTTTCTCTTATTTATTTTTTATTTA
1 TATTTTATCTTATTTATTTTTTATTTA
14435 TATTT
1 TATTT
14440 AAAAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.21
28 2 0.07
29 19 0.66
30 2 0.07
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (27 bp):
TATTTTATCTTATTTATTTTTTATTTA
Found at i:14503 original size:14 final size:13
Alignment explanation
Indices: 14486--14526 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
14476 CATTTTCCTA
14486 TTTTTTTGTCTATT
1 TTTTTTTG-CTATT
14500 TTTTTTTGCTATT
1 TTTTTTTGCTATT
*
14513 TTTTGTT-CTATT
1 TTTTTTTGCTATT
14525 TT
1 TT
14527 ATAAATTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 7 0.27
13 11 0.42
14 8 0.31
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGCTATT
Found at i:14504 original size:13 final size:12
Alignment explanation
Indices: 14478--14526 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
14468 TATTTTTTCA
*
14478 TTTTCCTATTTT
1 TTTTTCTATTTT
*
14490 TTTGTCTATTTT
1 TTTTTCTATTTT
14502 TTTTTGCTATTTT
1 TTTTT-CTATTTT
*
14515 TTGTTCTATTTT
1 TTTTTCTATTTT
14527 ATAAATTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 21 0.66
13 11 0.34
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (12 bp):
TTTTTCTATTTT
Found at i:14506 original size:25 final size:25
Alignment explanation
Indices: 14478--14526 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
14468 TATTTTTTCA
14478 TTTTCCTATTTTTT-TGTCTATTTTT
1 TTTTCCTATTTTTTGT-TCTATTTTT
*
14503 TTTTGCTATTTTTTGTTCTATTTT
1 TTTTCCTATTTTTTGTTCTATTTT
14527 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.76
Consensus pattern (25 bp):
TTTTCCTATTTTTTGTTCTATTTTT
Found at i:14889 original size:18 final size:16
Alignment explanation
Indices: 14868--14932 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 16
14858 GTTTTTCAAT
14868 TTTTTGTATTTTTTGAAC
1 TTTTT-TATTTTTTG-AC
* *
14886 TTTTTTTTTTATTTTGTC
1 -TTTTTTATT-TTTTGAC
14904 TTTTTTATTTTCTT-AC
1 TTTTTTATTTT-TTGAC
14920 TTTTTATATTTTT
1 TTTTT-TATTTTT
14933 ATTGTATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 9 0.23
17 16 0.41
18 4 0.10
19 10 0.26
ACGTcount: A:0.12, C:0.06, G:0.05, T:0.77
Consensus pattern (16 bp):
TTTTTTATTTTTTGAC
Found at i:14958 original size:18 final size:18
Alignment explanation
Indices: 14937--14978 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14927 ATTTTTATTG
*
14937 TATTTTTGTTCATCTTTT
1 TATTTTGGTTCATCTTTT
* *
14955 TATTTTGGTTTATTTTTT
1 TATTTTGGTTCATCTTTT
14973 TATTTT
1 TATTTT
14979 ATCATTGTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.76
Consensus pattern (18 bp):
TATTTTGGTTCATCTTTT
Found at i:15385 original size:15 final size:14
Alignment explanation
Indices: 15349--15375 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15339 TGTAATCCCT
15349 TTTCATTTTTTATC
1 TTTCATTTTTTATC
15363 TTTCATTTTTTAT
1 TTTCATTTTTTAT
15376 ACCTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCATTTTTTATC
Found at i:15543 original size:21 final size:21
Alignment explanation
Indices: 15519--15578 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
15509 TTAACTTTTA
15519 TTTTATTTTTTATCTTTG-ATT
1 TTTTATTTTTT-TCTTTGTATT
15540 TTTTATATCTTTTTC-TTGTATT
1 TTTTAT-T-TTTTTCTTTGTATT
*
15562 TGTTTTTTTTTTTCTTT
1 T-TTTATTTTTTTCTTT
15579 AAACTAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
21 15 0.45
22 10 0.30
23 8 0.24
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (21 bp):
TTTTATTTTTTTCTTTGTATT
Found at i:15674 original size:15 final size:16
Alignment explanation
Indices: 15638--15680 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
15628 CTTTTTATAT
*
15638 TTTTTTGATTTGCTAAC
1 TTTTTT-ATTTTCTAAC
*
15655 -TTTTTATTTTCTTAC
1 TTTTTTATTTTCTAAC
15670 TTTTTTATTTT
1 TTTTTTATTTT
15681 TTTCCATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTTTTATTTTCTAAC
Found at i:15721 original size:19 final size:18
Alignment explanation
Indices: 15694--15743 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
15684 CCATTTTTGG
15694 TATTT-TATTTTATTTTT
1 TATTTATATTTTATTTTT
* *
15711 TCTTTTATATTACTATTTTT
1 T-ATTTATATT-TTATTTTT
15731 TATTTATATTTTA
1 TATTTATATTTTA
15744 AAATTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 12 0.46
20 8 0.31
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (18 bp):
TATTTATATTTTATTTTT
Found at i:16105 original size:15 final size:14
Alignment explanation
Indices: 16071--16108 Score: 53
Period size: 12 Copynumber: 2.8 Consensus size: 14
16061 CTTTCTTTTG
16071 TTTTTAT-TTT-AT
1 TTTTTATCTTTGAT
16083 TTTTTATCTTTGAT
1 TTTTTATCTTTGAT
16097 TTTTATATCTTT
1 TTTT-TATCTTT
16109 TTCCTATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 3 0.13
14 6 0.26
15 7 0.30
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTTATCTTTGAT
Found at i:16213 original size:24 final size:24
Alignment explanation
Indices: 16164--16217 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
16154 GAACTAAAAG
16164 TTTTTTCTATTTTGTATTTGAAAT
1 TTTTTTCTATTTTGTATTTGAAAT
* * *
16188 TTTTATTC-ATTTTGTCTTTTATAT
1 TTTT-TTCTATTTTGTATTTGAAAT
16212 TTTTTT
1 TTTTTT
16218 ATTCGCTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 2 0.08
24 21 0.81
25 3 0.12
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.72
Consensus pattern (24 bp):
TTTTTTCTATTTTGTATTTGAAAT
Found at i:16700 original size:23 final size:21
Alignment explanation
Indices: 16656--16700 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
16646 TTGCATTAAC
* *
16656 TTTTCTCTTTTTTAATTTTTT
1 TTTTCTCCTTTTTAATTGTTT
16677 TTTTCTCACTTTTTATATTGTTT
1 TTTTCTC-CTTTTTA-ATTGTTT
16700 T
1 T
16701 ATTTGGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 6 0.30
23 7 0.35
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (21 bp):
TTTTCTCCTTTTTAATTGTTT
Found at i:16741 original size:16 final size:17
Alignment explanation
Indices: 16722--16760 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
16712 TGTTTTTTCA
*
16722 ATTTTTTTCCTTTTT-T
1 ATTTTTTTACTTTTTAT
*
16738 ATTTTCTTACTTTTTAT
1 ATTTTTTTACTTTTTAT
16755 ATTTTT
1 ATTTTT
16761 GTTGTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTTTACTTTTTAT
Found at i:16867 original size:39 final size:37
Alignment explanation
Indices: 16765--16867 Score: 102
Period size: 39 Copynumber: 2.7 Consensus size: 37
16755 ATTTTTGTTG
* *
16765 TATTTTTGTTTTTTT-TTTCTTTTTTTGTTCTTTATT
1 TATTTTTTTTTTTTTCTTTCTTTTTTTGTTCTTAATT
* **
16801 TATCTTTTTTTCTTTTGCTTTAATTTTTT-TTCTTAATTT
1 TAT-TTTTTTT-TTTTTCTTTCTTTTTTTGTTCTTAA-TT
16840 TATTTTATTTTTTATTTCTTTCTTTTTT
1 TATTTT-TTTTTT-TTTCTTTCTTTTTT
16868 ATAGTTTCAT
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
36 3 0.06
37 6 0.11
38 15 0.28
39 29 0.55
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.80
Consensus pattern (37 bp):
TATTTTTTTTTTTTTCTTTCTTTTTTTGTTCTTAATT
Found at i:17505 original size:18 final size:18
Alignment explanation
Indices: 17478--17527 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 18
17468 TTTTTTGGTA
17478 TTTTAT-TTAATTTTTTC
1 TTTTATATTAATTTTTTC
*
17495 TTTTATATTAATATTTTC
1 TTTTATATTAATTTTTTC
* *
17513 TCTTA-ATTTATTTTT
1 TTTTATATTAATTTTT
17528 ATTTATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTTATATTAATTTTTTC
Found at i:17603 original size:13 final size:13
Alignment explanation
Indices: 17585--17624 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 13
17575 CATTTTCCTA
17585 TTTTTTTGTCTAT
1 TTTTTTTGTCTAT
17598 TTTTTTTG-CTAT
1 TTTTTTTGTCTAT
*
17610 TTTTTGT-TCTAT
1 TTTTTTTGTCTAT
17622 TTT
1 TTT
17625 ATAAATTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.78
Consensus pattern (13 bp):
TTTTTTTGTCTAT
Found at i:17604 original size:24 final size:24
Alignment explanation
Indices: 17577--17624 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
17567 TTATTTTTCA
17577 TTTTCCTATTTTTT-TGTCTATTTT
1 TTTTCCTATTTTTTGT-TCTATTTT
*
17601 TTTTGCTATTTTTTGTTCTATTTT
1 TTTTCCTATTTTTTGTTCTATTTT
17625 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.08, C:0.10, G:0.06, T:0.75
Consensus pattern (24 bp):
TTTTCCTATTTTTTGTTCTATTTT
Found at i:17815 original size:21 final size:23
Alignment explanation
Indices: 17780--17824 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
17770 GAAAATTTAT
17780 AAAATAGAACAAAAAATAGCAAA
1 AAAATAGAACAAAAAATAGCAAA
*
17803 AAAATAG-AC-AAAAATAGGAAA
1 AAAATAGAACAAAAAATAGCAAA
17824 A
1 A
17825 TGAAAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
22 2 0.10
23 7 0.33
ACGTcount: A:0.73, C:0.07, G:0.11, T:0.09
Consensus pattern (23 bp):
AAAATAGAACAAAAAATAGCAAA
Found at i:17907 original size:15 final size:16
Alignment explanation
Indices: 17868--17920 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
17858 TTTTTAAAAT
*
17868 ATAAATGAAAAA-TAA
1 ATAAAAGAAAAATTAA
* *
17883 AT-TAAGAGAAAATTTA
1 ATAAAAGA-AAAATTAA
17899 ATAAAAGAAAAATTAA
1 ATAAAAGAAAAATTAA
17915 ATAAAA
1 ATAAAA
17921 TACAAAAAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
14 3 0.10
15 6 0.20
16 17 0.57
17 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.23
Consensus pattern (16 bp):
ATAAAAGAAAAATTAA
Found at i:18287 original size:20 final size:23
Alignment explanation
Indices: 18237--18317 Score: 78
Period size: 23 Copynumber: 3.4 Consensus size: 23
18227 AGCAAGAAAA
18237 AAAAAAAAAAGAAGAAAAATATG
1 AAAAAAAAAAGAAGAAAAATATG
18260 AAAAAAAAAAGAA-AAAAATTATAG
1 AAAAAAAAAAGAAGAAAAA-TAT-G
* *
18284 AAAATTTAAACA-AAGAAAAA-ATG
1 AAAA--AAAAAAGAAGAAAAATATG
18307 AACAAAAAAAA
1 AA-AAAAAAAA
18318 TGAAAGCACA
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
22 9 0.19
23 19 0.40
24 9 0.19
25 2 0.04
26 9 0.19
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (23 bp):
AAAAAAAAAAGAAGAAAAATATG
Found at i:18453 original size:19 final size:20
Alignment explanation
Indices: 18431--18474 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
18421 ATAGAAAAAT
18431 AAAAAATT-TGAAAACT-TAA
1 AAAAAATTATG-AAACTATAA
*
18450 AAAAATTTATGAAACTATAA
1 AAAAAATTATGAAACTATAA
18470 AAAAA
1 AAAAA
18475 GAAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAAAATTATGAAACTATAA
Found at i:18462 original size:20 final size:18
Alignment explanation
Indices: 18431--18474 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
18421 ATAGAAAAAT
18431 AAAAAATTTGAAAACT-TA
1 AAAAAATTTG-AAACTATA
18449 AAAAAATTTATGAAACTATA
1 AAAAAA-TT-TGAAACTATA
18469 AAAAAA
1 AAAAAA
18475 GAAATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 7 0.30
20 10 0.43
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (18 bp):
AAAAAATTTGAAACTATA
Found at i:18491 original size:19 final size:18
Alignment explanation
Indices: 18476--18565 Score: 58
Period size: 19 Copynumber: 4.8 Consensus size: 18
18466 ATAAAAAAAG
18476 AAATAAAAAAATAAAAATA
1 AAATAAAAAAA-AAAAATA
*
18495 AAATAAGAAAAAAAAATTA
1 AAATAA-AAAAAAAAAATA
** *
18514 AAGCAAAAGAAAAAAGAT-
1 AAATAAAA-AAAAAAAATA
* *
18532 AAATAAAGCACAAAAAAAGA
1 AAATAAA--AAAAAAAAATA
18552 AAA-AAAAACAAAAA
1 AAATAAAAA-AAAAA
18566 TACAACAAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
17 1 0.02
18 12 0.22
19 32 0.59
20 9 0.17
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (18 bp):
AAATAAAAAAAAAAAATA
Found at i:18493 original size:14 final size:14
Alignment explanation
Indices: 18466--18608 Score: 66
Period size: 14 Copynumber: 10.1 Consensus size: 14
18456 TTATGAAACT
18466 ATAAAAAAAG--AA
1 ATAAAAAAAGAAAA
*
18478 ATAAAAAAATAAAA
1 ATAAAAAAAGAAAA
*
18492 ATAAAATAAGAAAA
1 ATAAAAAAAGAAAA
*
18506 A-AAAATTAAAGCAAA
1 ATAAAA--AAAGAAAA
* *
18521 A-GAAAAAAGATAA
1 ATAAAAAAAGAAAA
18534 ATAAAGCACAAA-AAAA
1 ATAAA--A-AAAGAAAA
* *
18550 GAAAAAAAAACAAAA
1 -ATAAAAAAAGAAAA
* *
18565 ATACAACAAA-AAAT
1 ATA-AAAAAAGAAAA
18579 ATAAAAAGTAAG-AAA
1 ATAAAAA--AAGAAAA
*
18594 ATAAAAAAGGAAAA
1 ATAAAAAAAGAAAA
18608 A
1 A
18609 AATTGAAAAA
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
12 9 0.09
13 16 0.16
14 32 0.32
15 31 0.31
16 4 0.04
17 7 0.07
ACGTcount: A:0.78, C:0.04, G:0.08, T:0.10
Consensus pattern (14 bp):
ATAAAAAAAGAAAA
Found at i:18502 original size:26 final size:25
Alignment explanation
Indices: 18466--18610 Score: 82
Period size: 24 Copynumber: 5.7 Consensus size: 25
18456 TTATGAAACT
18466 ATAAAAAAAGAAATAAAAAAATAAAA
1 ATAAAAAAAGAAA-AAAAAAATAAAA
* *
18492 ATAAAATAAG-AAAAAAAAATTAAA
1 ATAAAAAAAGAAAAAAAAAATAAAA
** * * * *
18516 GCAAAAGAA-AAAAGATAAATAAAGC
1 ATAAAAAAAGAAAAAAAAAATAAA-A
* *
18541 ACAAAAAAAG-AAAAAAAAACAAAA
1 ATAAAAAAAGAAAAAAAAAATAAAA
* *
18565 ATACAACAAAA-AATATAAAAAGTAAGAAA
1 ATA-AA-AAAAGAA-AAAAAAAAT-A-AAA
*
18594 ATAAAAAAGGAAAAAAA
1 ATAAAAAAAGAAAAAAA
18611 TTGAAAAAAC
Statistics
Matches: 88, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
24 29 0.33
25 21 0.24
26 14 0.16
27 13 0.15
28 5 0.06
29 6 0.07
ACGTcount: A:0.79, C:0.04, G:0.08, T:0.10
Consensus pattern (25 bp):
ATAAAAAAAGAAAAAAAAAATAAAA
Found at i:18523 original size:21 final size:22
Alignment explanation
Indices: 18499--18557 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
18489 AAAATAAAAT
*
18499 AAGAAAAAAAAATTAAAGCA-A
1 AAGAAAAAAAAAATAAAGCACA
18520 AAGAAAAAAGATAAATAAAGCACA
1 AAGAAAAAA-A-AAATAAAGCACA
*
18544 AAAAAAGAAAAAAA
1 AAGAAA-AAAAAAA
18558 AACAAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 9 0.28
22 1 0.03
23 12 0.38
24 7 0.22
25 3 0.09
ACGTcount: A:0.78, C:0.05, G:0.10, T:0.07
Consensus pattern (22 bp):
AAGAAAAAAAAAATAAAGCACA
Found at i:18565 original size:38 final size:35
Alignment explanation
Indices: 18468--18565 Score: 81
Period size: 38 Copynumber: 2.7 Consensus size: 35
18458 ATGAAACTAT
*
18468 AAAAAAAGAAATAAAAAAATAAAAATAAAATAAGAA
1 AAAAAAAGAAA-AAAAAAAAAAAAATAAAATAAGAA
* * * *
18504 AAAAAAATTAAAGCAAAAGAAAAAAGAT-AAATAAAGCAC
1 AAAAAAA-GAAA--AAAAAAAAAAAAATAAAAT-AAG-AA
*
18543 AAAAAAAGAAAAAAAAACAAAAA
1 AAAAAAAGAAAAAAAAAAAAAAA
18566 TACAACAAAA
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
36 16 0.33
37 7 0.15
38 17 0.35
39 8 0.17
ACGTcount: A:0.81, C:0.04, G:0.07, T:0.08
Consensus pattern (35 bp):
AAAAAAAGAAAAAAAAAAAAAAAATAAAATAAGAA
Found at i:18610 original size:16 final size:17
Alignment explanation
Indices: 18572--18611 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
18562 AAAATACAAC
*
18572 AAAAAATATAAAAAGTA
1 AAAAAATATAAAAAGGA
*
18589 AGAAAATA-AAAAAGGA
1 AAAAAATATAAAAAGGA
18605 AAAAAAT
1 AAAAAAT
18612 TGAAAAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.78, C:0.00, G:0.10, T:0.12
Consensus pattern (17 bp):
AAAAAATATAAAAAGGA
Found at i:19022 original size:22 final size:23
Alignment explanation
Indices: 18992--19034 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
18982 AAAAATTTTT
18992 AAAATATAAATAAAAATAAATGG
1 AAAATATAAATAAAAATAAATGG
* *
19015 AAAA-ATAAATTAAGATAAAT
1 AAAATATAAATAAAAATAAAT
19035 ATTAATATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (23 bp):
AAAATATAAATAAAAATAAATGG
Found at i:19625 original size:17 final size:16
Alignment explanation
Indices: 19594--19643 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
19584 TAAAATTTTT
*
19594 TAAAAA-AATATAAAA
1 TAAAAATAAAATAAAA
*
19609 TAAAAATAGTAATAAAA
1 TAAAAATA-AAATAAAA
*
19626 GAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
19642 TA
1 TA
19644 CCAAAAATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 13 0.46
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:19639 original size:28 final size:28
Alignment explanation
Indices: 19594--19678 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 28
19584 TAAAATTTTT
*
19594 TAAAA-AAATATAAAATAAAAATAGTAA
1 TAAAAGAAAAATAAAATAAAAATAGTAA
**
19621 TAAAAGAAAAATAAAAT-AAAATACCAA
1 TAAAAGAAAAATAAAATAAAAATAGTAA
*
19648 -AAATGGAAAAA-AAAATAAAAA-AGTAA
1 TAAA-AGAAAAATAAAATAAAAATAGTAA
*
19674 GAAAA
1 TAAAA
19679 ATAAAAAGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
26 11 0.23
27 26 0.55
28 10 0.21
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.15
Consensus pattern (28 bp):
TAAAAGAAAAATAAAATAAAAATAGTAA
Found at i:19843 original size:18 final size:18
Alignment explanation
Indices: 19802--19843 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
19792 AAAAAGATAT
19802 AAAAATCAAAAGATAAAA
1 AAAAATCAAAAGATAAAA
*
19820 ATAAAAT-AAAAGTTAACAA
1 A-AAAATCAAAAGATAA-AA
19839 AAAAA
1 AAAAA
19844 GGAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAAATCAAAAGATAAAA
Found at i:20390 original size:17 final size:17
Alignment explanation
Indices: 20368--20407 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
20358 AACAATGAAT
20368 AAAATAAAAA-ATTAAAC
1 AAAATAAAAAGA-TAAAC
*
20385 AAAATAAAAAGATGAAC
1 AAAATAAAAAGATAAAC
20402 AAAATA
1 AAAATA
20408 CAATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAGATAAAC
Found at i:20835 original size:10 final size:11
Alignment explanation
Indices: 20813--20849 Score: 58
Period size: 10 Copynumber: 3.4 Consensus size: 11
20803 GAAAATTTAT
20813 AAAATAGAACAA
1 AAAATAG-ACAA
20825 AAAATAG-CAA
1 AAAATAGACAA
20835 AAAATAGACAA
1 AAAATAGACAA
20846 AAAA
1 AAAA
20850 ATAGGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.42
11 7 0.29
12 7 0.29
ACGTcount: A:0.76, C:0.08, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAATAGACAA
Found at i:20841 original size:22 final size:22
Alignment explanation
Indices: 20813--20858 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
20803 GAAAATTTAT
20813 AAAATAGA-ACAAAAAATAGCAA
1 AAAATAGACA-AAAAAATAGCAA
*
20835 AAAATAGACAAAAAAATAGGAA
1 AAAATAGACAAAAAAATAGCAA
20857 AA
1 AA
20859 TGAAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.74, C:0.07, G:0.11, T:0.09
Consensus pattern (22 bp):
AAAATAGACAAAAAAATAGCAA
Found at i:20850 original size:12 final size:12
Alignment explanation
Indices: 20813--20853 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
20803 GAAAATTTAT
20813 AAAATAGA-ACAA
1 AAAATAGACA-AA
20825 AAAATAG-C-AA
1 AAAATAGACAAA
20835 AAAATAGACAAA
1 AAAATAGACAAA
20847 AAAATAG
1 AAAATAG
20854 GAAAATGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.35
11 1 0.04
12 16 0.62
ACGTcount: A:0.73, C:0.07, G:0.10, T:0.10
Consensus pattern (12 bp):
AAAATAGACAAA
Found at i:20928 original size:17 final size:18
Alignment explanation
Indices: 20898--20967 Score: 56
Period size: 17 Copynumber: 3.9 Consensus size: 18
20888 AAATTTTTTA
*
20898 AAATAT-AAATAAAAAAT
1 AAATATAAAAGAAAAAAT
* *
20915 AAAT-TAAGAGAAAATAT
1 AAATATAAAAGAAAAAAT
* *
20932 TAATATAAAAGAAAAATT
1 AAATATAAAAGAAAAAAT
20950 AAATA-AAATACGAAAAAA
1 AAATATAAA-A-GAAAAAA
20968 GGAAAAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
16 1 0.03
17 18 0.45
18 15 0.38
19 6 0.15
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.21
Consensus pattern (18 bp):
AAATATAAAAGAAAAAAT
Found at i:20928 original size:28 final size:29
Alignment explanation
Indices: 20897--20959 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
20887 AAAATTTTTT
20897 AAAATA-TAA-ATAAAA-AATAAATTAAGAG
1 AAAATATTAATATAAAAGAA-AAATTAA-AG
*
20925 AAAATATTAATATAAAAGAAAAATTAAAT
1 AAAATATTAATATAAAAGAAAAATTAAAG
20954 AAAATA
1 AAAATA
20960 CGAAAAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 6 0.19
29 10 0.32
30 13 0.42
31 2 0.06
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (29 bp):
AAAATATTAATATAAAAGAAAAATTAAAG
Found at i:20946 original size:18 final size:16
Alignment explanation
Indices: 20898--20957 Score: 57
Period size: 18 Copynumber: 3.5 Consensus size: 16
20888 AAATTTTTTA
* *
20898 AAATATAAATAAAAAAT
1 AAATA-AAAGAAAAATT
*
20915 AAATTAAGAGAAAATATT
1 AAA-TAAAAGAAAA-ATT
20933 AATATAAAAGAAAAATT
1 AA-ATAAAAGAAAAATT
20950 AAATAAAA
1 AAATAAAA
20958 TACGAAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 6 0.17
17 14 0.39
18 15 0.42
19 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (16 bp):
AAATAAAAGAAAAATT
Found at i:21309 original size:12 final size:12
Alignment explanation
Indices: 21277--21335 Score: 50
Period size: 12 Copynumber: 5.0 Consensus size: 12
21267 AAGCAAGAAA
21277 AAAATAAAAAAT
1 AAAATAAAAAAT
* * *
21289 GAAACAAAATAT
1 AAAATAAAAAAT
21301 AAAATAAAAAA-
1 AAAATAAAAAAT
21312 AAAGA-AAAAAAT
1 AAA-ATAAAAAAT
* *
21324 ATAAGAAAAAAT
1 AAAATAAAAAAT
21336 TTTAAAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
11 10 0.27
12 27 0.73
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:21314 original size:17 final size:17
Alignment explanation
Indices: 21274--21335 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
21264 AGAAAGCAAG
*
21274 AAAAAAATAAAAAATGA
1 AAAAAAATAAAAAATAA
* *
21291 AACAAAATATAAAATAA
1 AAAAAAATAAAAAATAA
*
21308 AAAAAAAGAAAAAAATATA
1 AAAAAAA-TAAAAAATA-A
21327 AGAAAAAAT
1 A-AAAAAAT
21336 TTTAAAACAA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
17 20 0.57
18 7 0.20
19 2 0.06
20 6 0.17
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAAAATAAAAAATAA
Found at i:21334 original size:25 final size:26
Alignment explanation
Indices: 21274--21334 Score: 81
Period size: 25 Copynumber: 2.3 Consensus size: 26
21264 AGAAAGCAAG
21274 AAAAAAATAAAAAATGAAACAAAATAT
1 AAAAAAA-AAAAAATGAAACAAAATAT
21301 AAAATAAAAAAAAA-GAAA-AAAATAT
1 AAAA-AAAAAAAAATGAAACAAAATAT
*
21326 AAGAAAAAA
1 AAAAAAAAA
21335 TTTTAAAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.16
25 10 0.31
26 4 0.12
27 10 0.31
28 3 0.09
ACGTcount: A:0.82, C:0.02, G:0.05, T:0.11
Consensus pattern (26 bp):
AAAAAAAAAAAAATGAAACAAAATAT
Found at i:21576 original size:22 final size:22
Alignment explanation
Indices: 21528--21611 Score: 64
Period size: 22 Copynumber: 3.7 Consensus size: 22
21518 AAACTATAAA
* **
21528 AAAAGAAAGAAAAAAATAAAAAT
1 AAAA-AAAGAAAAAAATTAAAGC
*
21551 AAAATAAGAAAAAAATTAAAGC
1 AAAAAAAGAAAAAAATTAAAGC
*
21573 AAAAGAAA-AAGATAAA-TAAAGCAC
1 AAAA-AAAGAA-AAAAATTAAAG--C
21597 AAAAAAAGAAAAAAA
1 AAAAAAAGAAAAAAA
21612 ACAAATACAA
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
22 25 0.51
23 17 0.35
24 7 0.14
ACGTcount: A:0.79, C:0.04, G:0.10, T:0.08
Consensus pattern (22 bp):
AAAAAAAGAAAAAAATTAAAGC
Found at i:21611 original size:11 final size:11
Alignment explanation
Indices: 21525--21612 Score: 54
Period size: 11 Copynumber: 7.7 Consensus size: 11
21515 ATGAAACTAT
21525 AAAAAAAGAAAG
1 AAAAAAA-AAAG
21537 AAAAAAATAAA-
1 AAAAAAA-AAAG
* *
21548 AATAAAATAAG
1 AAAAAAAAAAG
21559 AAAAAAATTAAAG
1 AAAAAAA--AAAG
*
21572 CAAAAGAAAAAG
1 -AAAAAAAAAAG
* *
21584 -ATAAATAAAG
1 AAAAAAAAAAG
* *
21594 CACAAAAAAAG
1 AAAAAAAAAAG
21605 AAAAAAAA
1 AAAAAAAA
21613 CAAATACAAC
Statistics
Matches: 58, Mismatches: 13, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
10 9 0.16
11 26 0.45
12 14 0.24
13 3 0.05
14 6 0.10
ACGTcount: A:0.80, C:0.03, G:0.09, T:0.08
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:21871 original size:28 final size:28
Alignment explanation
Indices: 21817--21871 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
21807 AGCAAGAAAA
* * *
21817 GAATAAAAATGAAAAGACAAAAGATTTG
1 GAATAAAAAAGAAAAGAAAAAAAATTTG
21845 GAATAAAAAAGAAAA-AAATAAAAATTT
1 GAATAAAAAAGAAAAGAAA-AAAAATTT
21872 TTAAAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.67, C:0.02, G:0.13, T:0.18
Consensus pattern (28 bp):
GAATAAAAAAGAAAAGAAAAAAAATTTG
Found at i:22738 original size:16 final size:15
Alignment explanation
Indices: 22699--22739 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
22689 AAATGGAAAA
22699 AAAATAAAAAGTAAG
1 AAAATAAAAAGTAAG
*
22714 AAAATAAAAAGTTAG
1 AAAATAAAAAGTAAG
*
22729 CAAATCAAAAA
1 AAAAT-AAAAA
22740 AATATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (15 bp):
AAAATAAAAAGTAAG
Found at i:22881 original size:582 final size:572
Alignment explanation
Indices: 21753--22907 Score: 1355
Period size: 581 Copynumber: 2.0 Consensus size: 572
21743 AAAGTATGAG
21753 AATTTAAAAACGCAAATAAGAAATGAAAGGAAATTTGTGAAAAAAAATAAGAAAAGCAAGAAAAG
1 AATTTAAAAACGCAAATAAGAAATGAAAGGAAATTTGTGAAAAAAAATAAGAAAAGCAAGAAAAG
* * *
21818 AATAAAAATGAAAAGACAAAAGATTTGGAATAAAAAAGAAAAAAATAAAAATTTTTAAAATAACG
66 AATAAAAATGAAAAGACAAAAGATTTGGAATAAAAAAGAAAAAAATAAAAAATTTTAAAACAACA
* * *
21883 AAAAAATTAAAACAAGTAAAAATGAAAGCATATGAAAAAAAGCAAAAAGAAGGAAAATTTGAAGG
131 AAAAAATTAAAACAAGCAAAAATGAAAGCAGATGAAAAAAAGCAAAAAGAAAGAAAATTTGAAGG
21948 GAAAAAGTTATTAAAAAATTACAAAGTAGAACAAAAATAGCAAAAAAAAAAAAGAAAATAAAAAA
196 GAAAAAGTTATTAAAAAATTACAAAGTAGAACAAAAATAGCAAAAAAAAAAAAGAAAATAAAAAA
22013 AAATTTTGAACTTTATAAAAATTTTTTAAAATATAAATAAAATAAATGGAAAAATAAATTAAGAT
261 AAA---T-AA---TATAAAAA-TTTTTAAAATATAAATAAAATAAATGGAAAAATAAATT-A-AT
* * ** *
22078 AAAATATTAATATAGAAGAAAAAATTCAATAAAATACCAAAAAAGCAAAAAATAAAAAAGTAAGA
316 AAAATAGTAATATAAAAGAAAAAATAAAATAAAATACCAAAAAAGCAAAAAAAAAAAAAGTAAGA
* * * *
22143 TATTAAAAAATTAGCGAATAAAAAAATATAAAAGAAAAATGAATAAAAATTTCAAATACAAAATA
381 AAATAAAAAATTAGCAAATAAAAAAATATAAAAGAAAAATGAATAAAAATTTCAAATACAAAACA
* * * * *
22208 GAAAAAACTTTTAGTTCAGAATATACAAAGAAAAACAAAAAAAAAAAAACAAATATAGGAAAAAA
446 GAAAAAACTTTTAGTTAAGAATAAAAAAACAAAAACAAAAAAAAAAAAACAAATAAAGGAAAAAA
* *
22273 TATAAAAATCAAAGATAAAAAATAAAATAAAAACAAAAGAAAGTGCACAAAAAAAGTCTAAT
511 TAAAAAAATCAAAGAAAAAAAATAAAATAAAAACAAAAGAAAGTGCACAAAAAAAGTCTAAT
* *
22335 AATTTAAAGATGCAAATAAGAAATGAAAGGAAATTTGTG-AAAAAAATAAGAAAAGCAAGAAAAG
1 AATTTAAAAACGCAAATAAGAAATGAAAGGAAATTTGTGAAAAAAAATAAGAAAAGCAAGAAAAG
22399 AATAAAAATGAAAAGACAAAAGATTTGGAATAAAAAAGGAAAAGAAATATAAAAAATTTTAAAAC
66 AATAAAAATGAAAAGACAAAAGATTTGGAATAAAAAA-G-AAA-AAA-ATAAAAAATTTTAAAAC
* *
22464 AACAAAAAAATTAAAACAAGCAACACTGAAAGCAGATGAAAAAAAAAAAAAGCAAAAAGAAAGAA
127 AACAAAAAAATTAAAACAAGCAAAAATGAAAGCAGATG------AAAAAAAGCAAAAAGAAAGAA
* **
22529 AATTTTGAAGGG-AAAAGTTATTGAAAAATTACAACA-TAGAACAAAAA-ATG-AAAATGAAAAA
186 AA-TTTGAAGGGAAAAAGTTATTAAAAAATTACAA-AGTAGAACAAAAATA-GCAAAAAAAAAAA
*** ** ** **
22590 AGAAAA-AAGATTCAAA-AA-AT-AAAA-TTTT-AAAT-TTTATAAAAT-TTTTTAAAATATAAA
248 AGAAAATAA-AAAAAAATAATATAAAAATTTTTAAAATATAAATAAAATAAATGGAAAA-ATAAA
* *
22647 -T-A-AAAATAGTAATATAAAAGAAAAAATAAAATAAAATACCAAAAATGGAAAAAAAATAAAAA
311 TTAATAAAATAGTAATATAAAAGAAAAAATAAAATAAAATACCAAAAAAGCAAAAAAAA-AAAAA
* * *
22709 GTAAGAAAATAAAAAGTTAGCAAATCAAAAAAATATAAAAAGACAAAATGAATAGAAATTTGAAA
375 GTAAGAAAATAAAAAATTAGCAAAT-AAAAAAATAT-AAAAGA-AAAATGAATAAAAATTTCAAA
* * * *
22774 TATAAAACAGAAAAAACTTTTAGTTTAAAGAA-AAAAAAACAAATACAAGAAAAAGATATAA-AA
437 TACAAAACAGAAAAAACTTTTAG-TT-AAGAATAAAAAAACAAAAACAA-AAAAA-AAAAAACAA
* * * *
22837 ATCAAA-GATAAAA-AATAAAAT-AAAGTTAACAAAAAA-AGAATAAAAACAAAAGGAAGTGCAC
498 AT-AAAGGAAAAAATAAAAAAATCAAAG--AA-AAAAAATAAAATAAAAACAAAAGAAAGTGCAC
22898 AAAAAGAAGT
559 AAAAA-AAGT
22908 TAGAGGTTTT
Statistics
Matches: 494, Mismatches: 51, Indels: 60
0.82 0.08 0.10
Matches are distributed among these distances:
571 47 0.10
572 27 0.05
573 10 0.02
574 6 0.01
575 50 0.10
576 33 0.07
577 52 0.11
578 20 0.04
580 4 0.01
581 64 0.13
582 38 0.08
583 3 0.01
584 3 0.01
585 50 0.10
589 2 0.00
590 20 0.04
591 55 0.11
592 10 0.02
ACGTcount: A:0.66, C:0.05, G:0.11, T:0.18
Consensus pattern (572 bp):
AATTTAAAAACGCAAATAAGAAATGAAAGGAAATTTGTGAAAAAAAATAAGAAAAGCAAGAAAAG
AATAAAAATGAAAAGACAAAAGATTTGGAATAAAAAAGAAAAAAATAAAAAATTTTAAAACAACA
AAAAAATTAAAACAAGCAAAAATGAAAGCAGATGAAAAAAAGCAAAAAGAAAGAAAATTTGAAGG
GAAAAAGTTATTAAAAAATTACAAAGTAGAACAAAAATAGCAAAAAAAAAAAAGAAAATAAAAAA
AAATAATATAAAAATTTTTAAAATATAAATAAAATAAATGGAAAAATAAATTAATAAAATAGTAA
TATAAAAGAAAAAATAAAATAAAATACCAAAAAAGCAAAAAAAAAAAAAGTAAGAAAATAAAAAA
TTAGCAAATAAAAAAATATAAAAGAAAAATGAATAAAAATTTCAAATACAAAACAGAAAAAACTT
TTAGTTAAGAATAAAAAAACAAAAACAAAAAAAAAAAAACAAATAAAGGAAAAAATAAAAAAATC
AAAGAAAAAAAATAAAATAAAAACAAAAGAAAGTGCACAAAAAAAGTCTAAT
Found at i:23408 original size:17 final size:17
Alignment explanation
Indices: 23386--23472 Score: 57
Period size: 15 Copynumber: 5.6 Consensus size: 17
23376 CAACAATGAT
23386 AAAATAAAAA-ATAAACC
1 AAAATAAAAAGATAAA-C
*
23403 AAAATAAAAAGATGAAC
1 AAAATAAAAAGATAAAC
*
23420 AAAAT--ACA-ATAAA-
1 AAAATAAAAAGATAAAC
* *
23433 AATATAAAAAG-T-AAG
1 AAAATAAAAAGATAAAC
*
23448 AAAATAAAAA-A-AGAC
1 AAAATAAAAAGATAAAC
23463 AAAATAAAAA
1 AAAATAAAAA
23473 AAAGTTCAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
13 4 0.07
14 6 0.11
15 25 0.45
17 16 0.29
18 4 0.07
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.13
Consensus pattern (17 bp):
AAAATAAAAAGATAAAC
Done.