Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 1 of 136
Found at i:7591 original size:28 final size:28
Alignment explanation
Indices: 7559--7616 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
7549 ACTCCATTTC
*
7559 TTCTATGAGACACTAGACTCAATAAGCT
1 TTCTATGAGAAACTAGACTCAATAAGCT
7587 TTCTATGAGAAACTAGACTCAATAAGCT
1 TTCTATGAGAAACTAGACTCAATAAGCT
7615 TT
1 TT
7617 AATTTCATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (28 bp):
TTCTATGAGAAACTAGACTCAATAAGCT
Found at i:10222 original size:19 final size:17
Alignment explanation
Indices: 10198--10242 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 17
10188 ATATATAATC
10198 ATTAAAAATCAATAAAAA
1 ATTAAAAATC-ATAAAAA
10216 TATTAAAAATCATAAAAA
1 -ATTAAAAATCATAAAAA
*
10234 ATAAAAAAT
1 ATTAAAAAT
10243 ATATATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 10 0.40
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (17 bp):
ATTAAAAATCATAAAAA
Found at i:10256 original size:16 final size:16
Alignment explanation
Indices: 10187--10276 Score: 51
Period size: 17 Copynumber: 5.4 Consensus size: 16
10177 CACACTCCAC
*
10187 AATATATAATCATTAAA
1 AATATATAAACA-TAAA
* *
10204 AATCAATAAAAATATTAAA
1 AAT--ATATAAACA-TAAA
*
10223 AATCATA-AAAAATAAAA
1 AAT-ATATAAACAT-AAA
*
10240 AATATATATACAT-AA
1 AATATATAAACATAAA
10255 AAT-TATAAACATATAA
1 AATATATAAACATA-AA
10271 AATATA
1 AATATA
10277 AAAGTATTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
14 8 0.14
15 5 0.09
16 9 0.16
17 19 0.33
18 3 0.05
19 14 0.24
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AATATATAAACATAAA
Found at i:11981 original size:22 final size:24
Alignment explanation
Indices: 11953--11996 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
11943 ATTTTTTTCA
11953 ACTTTAAATT-TTAT-TCAAAAAC
1 ACTTTAAATTGTTATATCAAAAAC
*
11975 ACTTTAATTTGTTATATCAAAA
1 ACTTTAAATTGTTATATCAAAA
11997 TATATTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.43
Consensus pattern (24 bp):
ACTTTAAATTGTTATATCAAAAAC
Found at i:13264 original size:20 final size:20
Alignment explanation
Indices: 13222--13264 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
13212 CCCAGTAAAC
**
13222 ATCGATATTTTTATATGAGT
1 ATCGATATTTTTATAAAAGT
*
13242 ATCGATATTTTTATAAAATT
1 ATCGATATTTTTATAAAAGT
13262 ATC
1 ATC
13265 AAAAATGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (20 bp):
ATCGATATTTTTATAAAAGT
Found at i:16202 original size:21 final size:21
Alignment explanation
Indices: 16178--16220 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
16168 AAAGGAAAGT
16178 CTTCTATGTTTACCCTTAACA
1 CTTCTATGTTTACCCTTAACA
16199 CTTCTATGTTTACCCTTAACA
1 CTTCTATGTTTACCCTTAACA
16220 C
1 C
16221 ATGCATCACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (21 bp):
CTTCTATGTTTACCCTTAACA
Found at i:16643 original size:206 final size:206
Alignment explanation
Indices: 16289--16677 Score: 679
Period size: 206 Copynumber: 1.9 Consensus size: 206
16279 ATTTTTAGCT
* *
16289 AATTTATACGAAATGCTCATGCTAGCACGTCTTAGTTTTCTATGTCACAACAAAAAGTTATTTTC
1 AATTTATACAAAATGCTCATGCTAGCACGTCCTAGTTTTCTATGTCACAACAAAAAGTTATTTTC
* * *
16354 ATTTTTAGCAACAAGGCATATGAATTAATCATATAAGTCATCTAAATGCACTATCTAAGTATTTC
66 ATTTTTAGCAACAAGGCATATGAATGAATCATACAAGTCATCTAAATGCACTATATAAGTATTTC
16419 CTATCCTATGTCCTACAAGCATAATCTTATTAAACACAATGTCAATTACTTTATCCTATGTCCTC
131 CTATCCTATGTCCTACAAGCATAATCTTATTAAACACAATGTCAATTACTTTATCCTATGTCCTC
16484 CAATTCCTCCA
196 CAATTCCTCCA
* * *
16495 AATTTATACAAAATGTTCATGCTAGCACGTCCTAGTTTTTTATGTCACAACAAAGAGTTATTTTC
1 AATTTATACAAAATGCTCATGCTAGCACGTCCTAGTTTTCTATGTCACAACAAAAAGTTATTTTC
* *
16560 ATTTTTAGCAACAAGGCATATGAATGAATCATGCAAGTCATCTAAATGCACTATATAAGTATTTT
66 ATTTTTAGCAACAAGGCATATGAATGAATCATACAAGTCATCTAAATGCACTATATAAGTATTTC
*
16625 CTATCCTATGTCCTACAAGCATAATTTTATTAAACACAATGTCAATTACTTTA
131 CTATCCTATGTCCTACAAGCATAATCTTATTAAACACAATGTCAATTACTTTA
16678 CATCCATTAG
Statistics
Matches: 172, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
206 172 1.00
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (206 bp):
AATTTATACAAAATGCTCATGCTAGCACGTCCTAGTTTTCTATGTCACAACAAAAAGTTATTTTC
ATTTTTAGCAACAAGGCATATGAATGAATCATACAAGTCATCTAAATGCACTATATAAGTATTTC
CTATCCTATGTCCTACAAGCATAATCTTATTAAACACAATGTCAATTACTTTATCCTATGTCCTC
CAATTCCTCCA
Found at i:23091 original size:16 final size:17
Alignment explanation
Indices: 23067--23108 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
23057 TTTTTAATTT
*
23067 ATATATTTT-ATTTCTA
1 ATATTTTTTAATTTCTA
*
23083 ATATTTTTTAATTTTTA
1 ATATTTTTTAATTTCTA
23100 ATTATTTTT
1 A-TATTTTT
23109 AAAATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (17 bp):
ATATTTTTTAATTTCTA
Found at i:23101 original size:17 final size:17
Alignment explanation
Indices: 23067--23224 Score: 51
Period size: 19 Copynumber: 8.9 Consensus size: 17
23057 TTTTTAATTT
* *
23067 ATATATTTT-ATTTCTA
1 ATATTTTTTAATTTTTA
23083 ATATTTTTTAATTTTTA
1 ATATTTTTTAATTTTTA
*
23100 ATTATTTTTAAAATTTATATA
1 A-TATTTTT-TAATTT-T-TA
*
23121 ACT-TTTTTT-CTTTTATA
1 A-TATTTTTTAATTTT-TA
* * *
23138 GTATTCTAT-ATTTTT-
1 ATATTTTTTAATTTTTA
*
23153 ATCATTTTTCAA--TTTA
1 AT-ATTTTTTAATTTTTA
*
23169 ATATTTTTATAATGTTTAAAA
1 ATATTTTT-TAAT-TTT--TA
*
23190 ATATTTTTATAATATTTA
1 ATATTTTT-TAATTTTTA
23208 TATATTTTTATAATTTT
1 -ATATTTTT-TAATTTT
23225 CTATAACCTT
Statistics
Matches: 107, Mismatches: 19, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
15 10 0.09
16 18 0.17
17 20 0.19
18 11 0.10
19 22 0.21
20 8 0.07
21 18 0.17
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (17 bp):
ATATTTTTTAATTTTTA
Found at i:23107 original size:18 final size:19
Alignment explanation
Indices: 23018--23108 Score: 73
Period size: 18 Copynumber: 4.8 Consensus size: 19
23008 AAAAAAGTAG
*
23018 TTTTTTATTATTTTTCATATA
1 TTTTTAATTATTTTT--TATA
* *
23039 TTTTAAATT-TATTTTATA
1 TTTTTAATTATTTTTTATA
*
23057 TTTTTAATTTATATATTT-TA
1 TTTTTAA-TTAT-TTTTTATA
*
23077 TTTCTAA-TATTTTTTA-A
1 TTTTTAATTATTTTTTATA
23094 TTTTTAATTATTTTT
1 TTTTTAATTATTTTT
23109 AAAATTTATA
Statistics
Matches: 56, Mismatches: 9, Indels: 13
0.72 0.12 0.17
Matches are distributed among these distances:
17 11 0.20
18 20 0.36
19 2 0.04
20 13 0.23
21 10 0.18
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTAATTATTTTTTATA
Found at i:23194 original size:21 final size:19
Alignment explanation
Indices: 23164--23221 Score: 73
Period size: 21 Copynumber: 3.0 Consensus size: 19
23154 TCATTTTTCA
23164 ATTT-AATATTTTTATAAT
1 ATTTAAATATTTTTATAAT
*
23182 GTTTAAAAATATTTTTATAAT
1 ATTT--AAATATTTTTATAAT
*
23203 ATTTATATATTTTTATAAT
1 ATTTAAATATTTTTATAAT
23222 TTTCTATAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 3 0.09
19 14 0.41
21 17 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (19 bp):
ATTTAAATATTTTTATAAT
Found at i:23223 original size:9 final size:9
Alignment explanation
Indices: 23085--23264 Score: 79
Period size: 10 Copynumber: 19.6 Consensus size: 9
23075 TATTTCTAAT
23085 ATTTTT-TA
1 ATTTTTATA
*
23093 ATTTTTAATT
1 ATTTTT-ATA
*
23103 ATTTTTAAA
1 ATTTTTATA
*
23112 ATTTATATA
1 ATTTTTATA
23121 ACTTTTT-T-
1 A-TTTTTATA
23129 -TCTTTTATA
1 AT-TTTTATA
* *
23138 GTATTCTAT-
1 AT-TTTTATA
*
23147 ATTTTTATC
1 ATTTTTATA
*
23156 ATTTTT-CA
1 ATTTTTATA
*
23164 A-TTTAAT-
1 ATTTTTATA
23171 ATTTTTATA
1 ATTTTTATA
* *
23180 ATGTTTAAAAA
1 AT-TTT-TATA
23191 TATTTTTATA
1 -ATTTTTATA
*
23201 ATATTTATA
1 ATTTTTATA
23210 TATTTTTATA
1 -ATTTTTATA
23220 ATTTTCTATA
1 ATTTT-TATA
* *
23230 ACCTTTTATG
1 A-TTTTTATA
23240 ATTTTTAATA
1 ATTTTT-ATA
23250 ATTTTTATCA
1 ATTTTTAT-A
23260 ATTTT
1 ATTTT
23265 AACGCATTTT
Statistics
Matches: 128, Mismatches: 25, Indels: 36
0.68 0.13 0.19
Matches are distributed among these distances:
6 1 0.01
7 8 0.06
8 18 0.14
9 38 0.30
10 53 0.41
11 8 0.06
12 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
ATTTTTATA
Found at i:23257 original size:19 final size:19
Alignment explanation
Indices: 23165--23264 Score: 80
Period size: 19 Copynumber: 5.1 Consensus size: 19
23155 CATTTTTCAA
23165 TTTAAT-ATTTTTATAATGT
1 TTTAATAATTTTTATAAT-T
* * *
23184 TTAAAAATATTTTTATAATA
1 TTTAATA-ATTTTTATAATT
23204 TTT-ATATATTTTTATAATT
1 TTTAATA-ATTTTTATAATT
* *
23223 TTCT-ATAACCTTTTATGATT
1 TT-TAATAA-TTTTTATAATT
23243 TTTAATAATTTTTATCAATT
1 TTTAATAATTTTTAT-AATT
23263 TT
1 TT
23265 AACGCATTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
19 28 0.43
20 26 0.40
21 11 0.17
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTAATAATTTTTATAATT
Found at i:27871 original size:4 final size:4
Alignment explanation
Indices: 27862--27886 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
27852 ATGGGAAACG
27862 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
27887 AATAAAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:33043 original size:3 final size:3
Alignment explanation
Indices: 33037--33066 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
33027 GATAAAAAAA
33037 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
33067 GAGAGGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:35036 original size:16 final size:15
Alignment explanation
Indices: 35017--35046 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
35007 TTCATTTCAT
35017 TTGCATTTAGGTTAAC
1 TTGCATTTA-GTTAAC
35033 TTGCATTTAGTTAA
1 TTGCATTTAGTTAA
35047 TTAACTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.47
Consensus pattern (15 bp):
TTGCATTTAGTTAAC
Found at i:35449 original size:35 final size:35
Alignment explanation
Indices: 35410--35500 Score: 110
Period size: 35 Copynumber: 2.6 Consensus size: 35
35400 TAACATAGTG
* *
35410 GCATGCTTAACATGGGATTTAGAATCAAAATAATA
1 GCATGCTTAACATGGGAATCAGAATCAAAATAATA
* * * *
35445 GCATGCTCAACATGTGAATCATAATCAGAATAATA
1 GCATGCTTAACATGGGAATCAGAATCAAAATAATA
* *
35480 ACATGCTTAACATGTGAATCA
1 GCATGCTTAACATGGGAATCA
35501 AAGTATTAGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (35 bp):
GCATGCTTAACATGGGAATCAGAATCAAAATAATA
Found at i:35464 original size:29 final size:29
Alignment explanation
Indices: 35431--35511 Score: 72
Period size: 35 Copynumber: 2.6 Consensus size: 29
35421 ATGGGATTTA
35431 GAATCAAAATAATAGCATGCTCAACATGT
1 GAATCAAAATAATAGCATGCTCAACATGT
* *
35460 GAATCATAATCAGAATAATAACATGCTTAACATGT
1 GAATC---A--A-AATAATAGCATGCTCAACATGT
* *
35495 GAATCAAAGTATTAGCA
1 GAATCAAAATAATAGCA
35512 AATCAACGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
29 12 0.29
30 1 0.02
32 2 0.05
34 1 0.02
35 25 0.61
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.26
Consensus pattern (29 bp):
GAATCAAAATAATAGCATGCTCAACATGT
Found at i:42674 original size:31 final size:31
Alignment explanation
Indices: 42627--43170 Score: 731
Period size: 31 Copynumber: 17.7 Consensus size: 31
42617 ATCTAATGCT
*
42627 CAAATC-AATTCGGCAATATATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
42657 CGAATCAAATTTGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
42688 TAAATC-AATTTGGCAATGAATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
42718 CAAATCAAATTCGGCAATGTATAGCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
42749 CAAATCAAATTCGGCAATATATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
42780 CAAATC-AATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
42810 CAAATCAAATTCGACAATGTATAACCACATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
42841 CAAATCAAATTCGACAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
42872 CAAATC-AATTCGACAATGTATATCCATTTA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
42902 CAAATCAAATTCGGCAATATATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
42933 CAAATCAAATTCGGCAATGTATATCTATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
42964 CAAATC-AATTCAGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
42994 CAAACCAAATTCGGCAATGTATATCCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * * *
43025 CTAATCAAATTCGACAATATATAACCATATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* *
43056 CAAATCAAATTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* * *
43087 CAAATCAATTTCGGCAATGTATATCTATAAA
1 CAAATCAAATTCGGCAATGTATATCCATATA
* **
43118 CAAATCAAATTCAGCAATGTATATCTTTATA
1 CAAATCAAATTCGGCAATGTATATCCATATA
*
43149 CAAAT-TAATTCGGCAATGTATA
1 CAAATCAAATTCGGCAATGTATA
43171 AAACATATAC
Statistics
Matches: 455, Mismatches: 54, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
30 130 0.29
31 325 0.71
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (31 bp):
CAAATCAAATTCGGCAATGTATATCCATATA
Found at i:42755 original size:92 final size:92
Alignment explanation
Indices: 42627--43170 Score: 793
Period size: 92 Copynumber: 5.9 Consensus size: 92
42617 ATCTAATGCT
* * * *
42627 CAAATC-AATTCGGCAATATATATCCATATACGAATCAAATTTGGCAATGTATATCTATATATAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* *
42691 ATCAATTTGGCAATGAATATCCATATA
66 ATCAATTCGGCAATGTATATCCATATA
* *
42718 CAAATCAAATTCGGCAATGTATAGCCATATACAAATCAAATTCGGCAATATATATCTATATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
42783 ATCAATTCGGCAATGTATATCCATATA
66 ATCAATTCGGCAATGTATATCCATATA
* * * *
42810 CAAATCAAATTCGACAATGTATAACCACATACAAATCAAATTCGACAATGTATATCTATATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* *
42875 ATCAATTCGACAATGTATATCCATTTA
66 ATCAATTCGGCAATGTATATCCATATA
* *
42902 CAAATCAAATTCGGCAATATATAACCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
*
42967 ATCAATTCAGCAATGTATATCCATATA
66 ATCAATTCGGCAATGTATATCCATATA
* * * * * *
42994 CAAACCAAATTCGGCAATGTATATCCATATACTAATCAAATTCGACAATATATAACCATATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
* *
43059 ATCAAATTCGGCAATGTATATCTATAAA
66 ATC-AATTCGGCAATGTATATCCATATA
* * * * *
43087 CAAATCAATTTCGGCAATGTATATCTATAAACAAATCAAATTCAGCAATGTATATCTTTATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
*
43152 ATTAATTCGGCAATGTATA
66 ATCAATTCGGCAATGTATA
43171 AAACATATAC
Statistics
Matches: 406, Mismatches: 45, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
91 6 0.01
92 323 0.80
93 77 0.19
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.30
Consensus pattern (92 bp):
CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCTATATACAA
ATCAATTCGGCAATGTATATCCATATA
Found at i:42769 original size:123 final size:124
Alignment explanation
Indices: 42627--43181 Score: 735
Period size: 123 Copynumber: 4.5 Consensus size: 124
42617 ATCTAATGCT
* * * * * *
42627 CAAATC-AATTCGGCAATATATATCCATATACGAATCAAATTTGGCAATGTATATCTATATATAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
* * *
42691 ATC-AATTTGGCAATGAATATCCATATACAAATCAAATTCGGCAATGTATAGCCATATA
66 ATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* * *
42749 CAAATCAAATTCGGCAATATATATCTATATACAAATC-AATTCGGCAATGTATATCCATATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
* * * * *
42813 ATCAAATTCGACAATGTATAACCACATACAAATCAAATTCGACAATGTATATCTATATA
66 ATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* * *
42872 CAAATC-AATTCGACAATGTATATCCATTTACAAATCAAATTCGGCAATATATAACCATATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
* *
42936 ATCAAATTCGGCAATGTATATCTATATACAAATC-AATTCAGCAATGTATATCCATATA
66 ATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* * * *
42994 CAAACCAAATTCGGCAATGTATATCCATATACTAATCAAATTCGACAATATATAACCATATACAA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
* * * * *
43059 ATCAAATTCGGCAATGTATATCTATAAACAAATCAATTTCGGCAATGTATATCTATAAA
66 ATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
* ** * *
43118 CAAATCAAATTCAGCAATGTATATCTTTATACAAAT-TAATTCGGCAATGTATAAAACATATACA
1 CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTAT-AACCATATACA
43182 TTTAAATTCA
Statistics
Matches: 382, Mismatches: 45, Indels: 10
0.87 0.10 0.02
Matches are distributed among these distances:
122 85 0.22
123 236 0.62
124 61 0.16
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (124 bp):
CAAATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATAACCATATACAA
ATCAAATTCGGCAATGTATATCCATATACAAATCAAATTCGGCAATGTATATCCATATA
Found at i:57252 original size:43 final size:43
Alignment explanation
Indices: 57196--57278 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
57186 TCATATTTCA
*
57196 TTTCTTATATCATAATCATTGT-TCATCTTTGCAATTTCAACAT
1 TTTCTCATATCATAATCATT-TCTCATCTTTGCAATTTCAACAT
* * * *
57239 TTTCTCATCTCATATTCATTTCTCATCTTTTCCATTTCAA
1 TTTCTCATATCATAATCATTTCTCATCTTTGCAATTTCAA
57279 TATCAATCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 33 0.97
ACGTcount: A:0.24, C:0.23, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTCATATCATAATCATTTCTCATCTTTGCAATTTCAACAT
Found at i:63422 original size:25 final size:24
Alignment explanation
Indices: 63394--63498 Score: 95
Period size: 25 Copynumber: 4.2 Consensus size: 24
63384 AGCTCTTTCA
*
63394 AGCTGAATAATGAGAAGCTCATGAG
1 AGCTGAAT-ATGAGAAGCTCATGCG
* *
63419 AGCT-AAGTATCAGGAAGCTCTTGCG
1 AGCTGAA-TATGA-GAAGCTCATGCG
* *
63444 AGCTAAATATCGAGAAGCTCTTGCG
1 AGCTGAATAT-GAGAAGCTCATGCG
* *
63469 AGTTGAATATTGGGAAGCTCATGCG
1 AGCTGAATA-TGAGAAGCTCATGCG
63494 AGCTG
1 AGCTG
63499 TGGTGTGTCC
Statistics
Matches: 66, Mismatches: 9, Indels: 10
0.78 0.11 0.12
Matches are distributed among these distances:
24 5 0.08
25 57 0.86
26 4 0.06
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (24 bp):
AGCTGAATATGAGAAGCTCATGCG
Found at i:63485 original size:50 final size:50
Alignment explanation
Indices: 63379--63497 Score: 125
Period size: 50 Copynumber: 2.4 Consensus size: 50
63369 AAGCAGTAAA
* * *
63379 TGGGAAGCTCTTTCAAGCTGAATAATGAGAAGCTCATGAGAGCTAAGTAT
1 TGGGAAGCTCTTGCGAGCTAAATAATGAGAAGCTCATGAGAGCTAAGTAT
** * * *
63429 CAGGAAGCTCTTGCGAGCTAAAT-ATCGAGAAGCTCTTGCGAGTTGAA-TAT
1 TGGGAAGCTCTTGCGAGCTAAATAAT-GAGAAGCTCATGAGAGCT-AAGTAT
*
63479 TGGGAAGCTCATGCGAGCT
1 TGGGAAGCTCTTGCGAGCT
63498 GTGGTGTGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 2 0.04
50 52 0.93
51 2 0.04
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (50 bp):
TGGGAAGCTCTTGCGAGCTAAATAATGAGAAGCTCATGAGAGCTAAGTAT
Found at i:65191 original size:39 final size:40
Alignment explanation
Indices: 65121--65203 Score: 123
Period size: 39 Copynumber: 2.1 Consensus size: 40
65111 GTTAACCCAA
* * *
65121 AAAAATCATCAATTTAACAATTTATATGCAATGAATTAGT
1 AAAAATCAACAATTCAACAATTTATATGCAATAAATTAGT
*
65161 AAAAATCAACAATTCAA-AATTTTTATGCAATAAATTAGT
1 AAAAATCAACAATTCAACAATTTATATGCAATAAATTAGT
65200 AAAA
1 AAAA
65204 TTGAGTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 24 0.62
40 15 0.38
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (40 bp):
AAAAATCAACAATTCAACAATTTATATGCAATAAATTAGT
Found at i:69562 original size:44 final size:43
Alignment explanation
Indices: 69515--69876 Score: 289
Period size: 45 Copynumber: 8.3 Consensus size: 43
69505 TTCCAAATCT
*
69515 TTTTTAAGTTAAGAGTTAGGGTTTTTAAGTTAAGGGTTTAGTG
1 TTTTTAAGTTAAGAGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* *
69558 TTTTTAAATTAA-AGGTTAGTGTTTTTAAGTTAAGGG-TTAGGG
1 TTTTTAAGTTAAGA-GTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* *
69600 TTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGGGTTTAGGG
1 TTTTTAAGTTAA--GAGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* * * *
69645 TTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTTAGGGTTTAGTG
1 TTTTTAAGTTAA-GA-GTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* * * * *
69690 -TTTTAA-TTAAATTAGGTCAGGGTTTTAAAATTTAGGGTTTAGGG
1 TTTTTAAGTT-AA-GA-GTTAGGGTTTTTAAGTTAAGGGTTTAGGG
* * * *
69734 TTCTTAA-TTAAATTAGGTTAGGGTTTTTAATTTAATTAGG-TTAGGG
1 TTTTTAAGTT-AA-GA-GTTAGGGTTTTTAAGTTAA--GGGTTTAGGG
* *
69780 TTTTTAAGTTAATTAAGTTAGGGTTTTTAAGTTAAGGGAGTTAGGG
1 TTTTTAAGTTAA--GAGTTAGGGTTTTTAAGTTAAGGG-TTTAGGG
* *
69826 TTTTTAAGTTTAGGGTTTA-GGTTTTTAA-TT-A-GG-TTAGGG
1 TTTTTAAGTTAAGAG-TTAGGGTTTTTAAGTTAAGGGTTTAGGG
69865 TTTTT-AGTTAAG
1 TTTTTAAGTTAAG
69877 GGTATTAATG
Statistics
Matches: 274, Mismatches: 30, Indels: 35
0.81 0.09 0.10
Matches are distributed among these distances:
38 6 0.02
39 11 0.04
41 2 0.01
42 18 0.07
43 36 0.13
44 69 0.25
45 77 0.28
46 49 0.18
47 6 0.02
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.47
Consensus pattern (43 bp):
TTTTTAAGTTAAGAGTTAGGGTTTTTAAGTTAAGGGTTTAGGG
Found at i:69664 original size:45 final size:45
Alignment explanation
Indices: 69529--69837 Score: 342
Period size: 45 Copynumber: 6.9 Consensus size: 45
69519 TAAGTTAAGA
* * *
69529 GTTAGGGTTTTTAAGTTAAGGGTTTAGTGTTTTTAAATTAA--AG
1 GTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTTAATTAG
* * * ***
69572 GTTAGTGTTTTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGG
1 GTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTTAATTAG
69616 GTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTTAATTAG
1 GTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTTAATTAG
* *
69661 GTTAGGGTTTTTAAGTTTAGGGTTTAGTG-TTTTAATTAAATTAG
1 GTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTTAATTAG
* * * * *
69705 GTCAGGGTTTTAAAATTTAGGGTTTAGGGTTCTTAATTAAATTAG
1 GTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTTAATTAG
* * *
69750 GTTAGGGTTTTTAA-TTTAATTAGG-TTAGGGTTTTTAAGTTAATTAA
1 GTTAGGGTTTTTAAGTTT-A--GGGTTTAGGGTTTTTAATTTAATTAG
* *
69796 GTTAGGGTTTTTAAGTTAAGGGAGTTAGGGTTTTTAAGTTTA
1 GTTAGGGTTTTTAAGTTTAGGG-TTTAGGGTTTTTAA-TTTA
69838 GGGTTTAGGT
Statistics
Matches: 228, Mismatches: 27, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
42 16 0.07
43 21 0.09
44 65 0.29
45 73 0.32
46 46 0.20
47 7 0.03
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.47
Consensus pattern (45 bp):
GTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTTAATTAG
Found at i:69712 original size:89 final size:89
Alignment explanation
Indices: 69515--69875 Score: 365
Period size: 89 Copynumber: 4.1 Consensus size: 89
69505 TTCCAAATCT
* * *
69515 TTTTTAAGTTAA-GA-GTTAGGGTTTTTAAGTTAAGGGTTTAGTGTTTTTAAATTAA--AGGTTA
1 TTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAATTAGGTTA
* *
69576 GTGTTTTTAAGTTAAGGGTTAGGG
66 GGGTTTTTAAGTTTAGGGTTAGGG
*** *
69600 TTTTTAAGTTAAGGGGGTTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTTAATTAGGTTA
1 TTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAATTAGGTTA
*
69665 GGGTTTTTAAGTTTAGGGTTTAGTG
66 GGGTTTTTAAGTTTAGGG-TTAGGG
* * * * * *
69690 -TTTTAA-TTAAATTAGGTCAGGGTTTTAAAATTTAGGGTTTAGGGTTCTTAATTAAATTAGGTT
1 TTTTTAAGTT-AATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAATTAGGTT
*
69753 AGGGTTTTTAA-TTTAATTAGGTTAGGG
65 AGGGTTTTTAAGTTT-A--GGGTTAGGG
* * *
69780 TTTTTAAGTTAATTAAGTTAGGGTTTTTAAGTTAAGGGAGTTAGGGTTTTTAAGTTT-A--GGGT
1 TTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGG-TTTAGGGTTTTTAA-TTTAATTAGG-
69842 TTA-GGTTTTTAA--TTA-GGTTAGGG
63 TTAGGGTTTTTAAGTTTAGGGTTAGGG
69865 TTTTT-AGTTAA
1 TTTTTAAGTTAA
69876 GGGTATTAAT
Statistics
Matches: 236, Mismatches: 26, Indels: 29
0.81 0.09 0.10
Matches are distributed among these distances:
84 6 0.03
85 25 0.11
86 1 0.00
87 38 0.16
88 6 0.03
89 88 0.37
90 21 0.09
91 34 0.14
92 15 0.06
93 2 0.01
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.47
Consensus pattern (89 bp):
TTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTTAATTAGGTTA
GGGTTTTTAAGTTTAGGGTTAGGG
Found at i:69833 original size:23 final size:22
Alignment explanation
Indices: 69515--69878 Score: 275
Period size: 23 Copynumber: 16.7 Consensus size: 22
69505 TTCCAAATCT
*
69515 TTTTTAAGTTAA-GAGTTAGGG
1 TTTTTAAGTTAAGGGGTTAGGG
* *
69536 TTTTTAAGTTAAGGGTTTAGTG
1 TTTTTAAGTTAAGGGGTTAGGG
* * *
69558 TTTTTAAATTAA-AGGTTAGTG
1 TTTTTAAGTTAAGGGGTTAGGG
69579 TTTTTAAGTTAA-GGGTTAGGG
1 TTTTTAAGTTAAGGGGTTAGGG
69600 TTTTTAAGTTAAGGGGGTTAGGG
1 TTTTTAAGTTAA-GGGGTTAGGG
* *
69623 TTTTTAAGTTTAGGGTTTAGGG
1 TTTTTAAGTTAAGGGGTTAGGG
* **
69645 TTTTTAATTTAATTAGGTTAGGG
1 TTTTTAAGTTAA-GGGGTTAGGG
* * *
69668 TTTTTAAGTTTAGGGTTTAGTG
1 TTTTTAAGTTAAGGGGTTAGGG
** *
69690 -TTTTAA-TTAAATTAGGTCAGGG
1 TTTTTAAGTT-AA-GGGGTTAGGG
* * * *
69712 TTTTAAAATTTAGGGTTTAGGG
1 TTTTTAAGTTAAGGGGTTAGGG
* **
69734 TTCTTAA-TTAAATTAGGTTAGGG
1 TTTTTAAGTT-AA-GGGGTTAGGG
* **
69757 TTTTTAATTTAATTAGGTTAGGG
1 TTTTTAAGTTAA-GGGGTTAGGG
***
69780 TTTTTAAGTTAATTAAGTTAGGG
1 TTTTTAAGTTAA-GGGGTTAGGG
69803 TTTTTAAGTTAAGGGAGTTAGGG
1 TTTTTAAGTTAAGGG-GTTAGGG
* *
69826 TTTTTAAGTTTAGGGTTTA-GG
1 TTTTTAAGTTAAGGGGTTAGGG
69847 TTTTTAA-TT-A--GGTTAGGG
1 TTTTTAAGTTAAGGGGTTAGGG
69865 TTTTT-AGTTAAGGG
1 TTTTTAAGTTAAGGG
69879 TATTAATGGT
Statistics
Matches: 277, Mismatches: 49, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
17 5 0.02
18 9 0.03
19 2 0.01
20 4 0.01
21 68 0.25
22 62 0.22
23 123 0.44
24 4 0.01
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.47
Consensus pattern (22 bp):
TTTTTAAGTTAAGGGGTTAGGG
Found at i:69947 original size:25 final size:25
Alignment explanation
Indices: 69918--69965 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
69908 TATAAAAAAT
69918 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
69943 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
69966 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:69967 original size:28 final size:26
Alignment explanation
Indices: 69909--69965 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
69899 CTCAAATAAT
* *
69909 ATAAAAAATTTCTATTTTATTACATC
1 ATAATAAACTTCTATTTTATTACATC
69935 A-AATAAACTTCTATTTTATTACATC
1 ATAATAAACTTCTATTTTATTACATC
69960 A-AATAA
1 ATAATAA
69966 TATCAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAATAAACTTCTATTTTATTACATC
Found at i:70416 original size:18 final size:18
Alignment explanation
Indices: 70393--70432 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
70383 GGACTTGGAA
*
70393 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGCT
*
70411 AGGATACATATAGGGGCT
1 AGGATACATATAAGGGCT
70429 AGGA
1 AGGA
70433 AACGCACCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:71093 original size:7 final size:7
Alignment explanation
Indices: 71083--71107 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
71073 TTATATACAT
71083 AATACTA
1 AATACTA
71090 AATACTA
1 AATACTA
71097 AATACTA
1 AATACTA
71104 AATA
1 AATA
71108 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:72653 original size:9 final size:9
Alignment explanation
Indices: 72639--72704 Score: 53
Period size: 9 Copynumber: 7.3 Consensus size: 9
72629 ATTACTATAA
72639 ATTTTTAAT
1 ATTTTTAAT
*
72648 ATTTTTTAT
1 ATTTTTAAT
*
72657 ATTTTAAAT
1 ATTTTTAAT
*
72666 GTTTTTATAT
1 ATTTTTA-AT
*
72676 TTTTTTAAT
1 ATTTTTAAT
*
72685 -TTTTAAAT
1 ATTTTTAAT
* *
72693 TTTTTTATT
1 ATTTTTAAT
72702 ATT
1 ATT
72705 GGGATTTTGG
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
8 7 0.16
9 30 0.67
10 8 0.18
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:72663 original size:17 final size:17
Alignment explanation
Indices: 72641--72678 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
72631 TACTATAAAT
72641 TTTTAATAT-TTTTTATA
1 TTTTAA-ATGTTTTTATA
72658 TTTTAAATGTTTTTATA
1 TTTTAAATGTTTTTATA
72675 TTTT
1 TTTT
72679 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTAAATGTTTTTATA
Found at i:72679 original size:27 final size:25
Alignment explanation
Indices: 72636--72701 Score: 82
Period size: 27 Copynumber: 2.6 Consensus size: 25
72626 ATGATTACTA
*
72636 TAAATTTTTAATATTTTTT-ATATTT
1 TAAATTTTTTATATTTTTTAAT-TTT
72661 TAAATGTTTTTATATTTTTTTAATTTT
1 TAAAT-TTTTTATA-TTTTTTAATTTT
72688 TAAATTTTTT-TATT
1 TAAATTTTTTATATT
72702 ATTGGGATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 2 0.05
25 7 0.19
26 12 0.32
27 14 0.38
28 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (25 bp):
TAAATTTTTTATATTTTTTAATTTT
Found at i:72687 original size:17 final size:17
Alignment explanation
Indices: 72667--72699 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
72657 ATTTTAAATG
*
72667 TTTTTATATTTTTTTAA
1 TTTTTAAATTTTTTTAA
72684 TTTTTAAATTTTTTTA
1 TTTTTAAATTTTTTTA
72700 TTATTGGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTAAATTTTTTTAA
Found at i:72885 original size:244 final size:245
Alignment explanation
Indices: 72452--72945 Score: 974
Period size: 244 Copynumber: 2.0 Consensus size: 245
72442 GAGGAGACCA
72452 TTTT-TTATTGGGATTTTGGTTTGTACTTTATTTTTCCTTGTGACGATTGGTCGATATATTCATT
1 TTTTATTATTGGGATTTTGGTTTGTACTTTATTTTTCCTTGTGACGATTGGTCGATATATTCATT
72516 GTTTTGATTTTTATGTATATTTAACGTGATTTGTTCATTGGTGACCTATTTTTCTTTTGTTGCTT
66 GTTTTGATTTTTATGTATATTTAACGTGATTTGTTCATTGGTGACCTATTTTTCTTTTGTTGCTT
72581 ATAACTTATAATTTTATGATTTTTTTTATAAATTTCTTGTTTTTAATGATTACTATAAATTTTTA
131 ATAACTTATAATTTTATGATTTTTTTTATAAATTTCTTGTTTTTAATGATTACTATAAATTTTTA
72646 ATATTTTTTATATTTTAAATGTTTTTATATTTTTTTAATTTTT-AAATTT
196 ATATTTTTTATATTTTAAATGTTTTTATATTTTTTTAATTTTTAAAATTT
72695 TTTTATTATTGGGATTTTGGTTTGTACTTTATTTTTCCTTGTGACGATTGGTCGATATATTCATT
1 TTTTATTATTGGGATTTTGGTTTGTACTTTATTTTTCCTTGTGACGATTGGTCGATATATTCATT
72760 GTTTTGATTTTTATGTATATTTAACGTGATTTGTTCATTGGTGACCTATTTTTCTTTTGTTGCTT
66 GTTTTGATTTTTATGTATATTTAACGTGATTTGTTCATTGGTGACCTATTTTTCTTTTGTTGCTT
72825 ATAACTTATAATTTTATGATTTTTTTTATAAATTTCTTGTTTTTAATGATTACTATAAATTTTTA
131 ATAACTTATAATTTTATGATTTTTTTTATAAATTTCTTGTTTTTAATGATTACTATAAATTTTTA
72890 ATATTTTTTATATTTTAAATGTTTTTATATTTTTTTAATTTTTAAAATTT
196 ATATTTTTTATATTTTAAATGTTTTTATATTTTTTTAATTTTTAAAATTT
72940 TTTTAT
1 TTTTAT
72946 CATTTTTATA
Statistics
Matches: 249, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
243 4 0.02
244 233 0.94
245 12 0.05
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (245 bp):
TTTTATTATTGGGATTTTGGTTTGTACTTTATTTTTCCTTGTGACGATTGGTCGATATATTCATT
GTTTTGATTTTTATGTATATTTAACGTGATTTGTTCATTGGTGACCTATTTTTCTTTTGTTGCTT
ATAACTTATAATTTTATGATTTTTTTTATAAATTTCTTGTTTTTAATGATTACTATAAATTTTTA
ATATTTTTTATATTTTAAATGTTTTTATATTTTTTTAATTTTTAAAATTT
Found at i:72897 original size:9 final size:9
Alignment explanation
Indices: 72883--72941 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
72873 ATTACTATAA
72883 ATTTTTAAT
1 ATTTTTAAT
*
72892 ATTTTTTAT
1 ATTTTTAAT
*
72901 ATTTTAAAT
1 ATTTTTAAT
*
72910 GTTTTT-AT
1 ATTTTTAAT
*
72918 ATTTTT-TT
1 ATTTTTAAT
*
72926 AATTTTTAAA
1 -ATTTTTAAT
72936 ATTTTT
1 ATTTTT
72942 TTATCATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
8 8 0.21
9 31 0.79
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:72907 original size:17 final size:17
Alignment explanation
Indices: 72885--72922 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
72875 TACTATAAAT
72885 TTTTAATAT-TTTTTATA
1 TTTTAA-ATGTTTTTATA
72902 TTTTAAATGTTTTTATA
1 TTTTAAATGTTTTTATA
72919 TTTT
1 TTTT
72923 TTTAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 2 0.10
17 18 0.90
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTTTAAATGTTTTTATA
Found at i:72923 original size:27 final size:26
Alignment explanation
Indices: 72880--72952 Score: 78
Period size: 28 Copynumber: 2.7 Consensus size: 26
72870 ATGATTACTA
*
72880 TAAATTTTTAATA-TTTTTT-ATATTT
1 TAAATTTTTTATATTTTTTTAAT-TTT
72905 TAAATGTTTTTATATTTTTTTAATTTT
1 TAAAT-TTTTTATATTTTTTTAATTTT
72932 TAAAATTTTTTTATCATTTTT
1 T-AAA-TTTTTTAT-ATTTTT
72953 ATAAGCTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
25 5 0.12
26 7 0.17
27 10 0.24
28 12 0.29
29 7 0.17
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (26 bp):
TAAATTTTTTATATTTTTTTAATTTT
Found at i:72962 original size:29 final size:28
Alignment explanation
Indices: 72906--72965 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
72896 TTTATATTTT
* **
72906 AAATGTTTTTATATTTTTTTAATTTTTA
1 AAATGTTTTTATATTTTTATAAGCTTTA
*
72934 AAATTTTTTTATCATTTTTATAAGCTTTA
1 AAATGTTTTTAT-ATTTTTATAAGCTTTA
72963 AAA
1 AAA
72966 ACTATAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (28 bp):
AAATGTTTTTATATTTTTATAAGCTTTA
Found at i:75874 original size:22 final size:22
Alignment explanation
Indices: 75848--75908 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
75838 ATTGCCTCCG
*
75848 GTACTAACATTATCTATCCCTA
1 GTACTAACATTCTCTATCCCTA
*
75870 GTACTAACATTCTATATCCCTA
1 GTACTAACATTCTCTATCCCTA
* *
75892 GTATTGACATTCTCTAT
1 GTACTAACATTCTCTAT
75909 GAATTCCAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (22 bp):
GTACTAACATTCTCTATCCCTA
Found at i:78065 original size:15 final size:15
Alignment explanation
Indices: 78045--78083 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
78035 GTAATTCTCT
**
78045 TCCTCTTAGTATTTC
1 TCCTCTTAGTATGCC
*
78060 TCCTCTTAGTGTGCC
1 TCCTCTTAGTATGCC
78075 TCCTCTTAG
1 TCCTCTTAG
78084 AGCTACCCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.10, C:0.31, G:0.13, T:0.46
Consensus pattern (15 bp):
TCCTCTTAGTATGCC
Found at i:79730 original size:207 final size:207
Alignment explanation
Indices: 79441--79947 Score: 566
Period size: 207 Copynumber: 2.4 Consensus size: 207
79431 TGCGCCCCTA
* * ** * *
79441 CACCTGCGAACCTTAATATAACAGCTGGGAGCTTTGTTCTCACTAACTGTGTTGGAGGCTGCAGC
1 CACCTGCGAACCTTAATATGACAACTAAGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGC
* * *
79506 TCCTCGCCTATGAGCCTTAATATGACACCTGGGAGCTTTGTTCTTGCTAACTATGCTGGGGGCTA
66 TCTTCGCCTACGAGCCTTAATATGACACATGGGAGCTTTGTTCTTGCTAACTATGCTGGGGGCTA
* ** * * * * *
79571 TAGCTCTTCGCCTGCAAGCCTTAATATGATAGCTAAGAGCTTTACTTTCGCTAACTGTGTTGGAG
131 CAGCTCTTCGCCTGCAAGCCTTAATACAACAGCTAAGAGCCTTACTATCGCCAACTGTGTTAGAG
*
79636 GCTGCGGCTCTT
196 GCTGCGACTCTT
* ** * * * *
79648 CACCTGC-AAGCCTTAATATGATAGTTAAGAGTTTTGCTCTCACTAATTATGTTGGAGGCTACGG
1 CACCTGCGAA-CCTTAATATGACAACTAAGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGG
* * * *
79712 CTCTTCGCCTGCGAGCCTTTATATAACACATGGGAGCTTTGTTCTTGCTAACTATGGTGGGGGCT
65 CTCTTCGCCTACGAGCCTTAATATGACACATGGGAGCTTTGTTCTTGCTAACTATGCTGGGGGCT
* * * * ** * ** * *
79777 GCGGCTCTTTGCTTGTGAGCCTTAATACAACAGTTGGGAGCCTTGCTATCGCCATCTGTGTTAGA
130 ACAGCTCTTCGCCTGCAAGCCTTAATACAACAGCTAAGAGCCTTACTATCGCCAACTGTGTTAGA
* *
79842 GGCTGTGATTCTT
195 GGCTGCGACTCTT
**
79855 CACCTGCGAACCTTAATATGACAACTGGGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGC
1 CACCTGCGAACCTTAATATGACAACTAAGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGC
* * * *
79920 TATTCGCTTACGAGTCTTAATTTGACAC
66 TCTTCGCCTACGAGCCTTAATATGACAC
79948 GAATGTTGTT
Statistics
Matches: 242, Mismatches: 56, Indels: 4
0.80 0.19 0.01
Matches are distributed among these distances:
206 2 0.01
207 238 0.98
208 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (207 bp):
CACCTGCGAACCTTAATATGACAACTAAGAGCTTTGCTCTCACTAACTGTGTTGGAGGCTGCGGC
TCTTCGCCTACGAGCCTTAATATGACACATGGGAGCTTTGTTCTTGCTAACTATGCTGGGGGCTA
CAGCTCTTCGCCTGCAAGCCTTAATACAACAGCTAAGAGCCTTACTATCGCCAACTGTGTTAGAG
GCTGCGACTCTT
Found at i:79946 original size:69 final size:69
Alignment explanation
Indices: 79340--79946 Score: 426
Period size: 69 Copynumber: 8.8 Consensus size: 69
79330 AGTTCTCAAT
* * * ** ** * *
79340 TCTCACTAACTGTGATGGGGGCTATGGCTCTTCG-CTCGCGAGTATTAATATGACAGTTGAGAGC
1 TCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCGCCT-GCGAGCCTTAATATGACAGCTGGGAGC
79404 TTTGC
65 TTTGC
* ** * * * * * * * * * *
79409 TTTTACTAATTGTGCTGGGGGTTGCGCCCCTACACCTGCGAACCTTAATATAACAGCTGGGAGCT
1 TCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACAGCTGGGAGCT
*
79474 TTGT
66 TTGC
* * * ** *
79478 TCTCACTAACTGTGTTGGAGGCTGCAGCTCCTCGCCTATGAGCCTTAATATGACACCTGGGAGCT
1 TCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACAGCTGGGAGCT
*
79543 TTGT
66 TTGC
* * * * *** * * **
79547 TCTTGCTAACTATGCTGGGGGCTATAGCTCTTCGCCTGCAAGCCTTAATATGATAGCTAAGAGCT
1 TCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACAGCTGGGAGCT
*
79612 TTAC
66 TTGC
* * * * * ** *
79616 TTTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCACCTGCAAGCCTTAATATGATAGTTAAGAGTT
1 TCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACAGCTGGGAGCT
79681 TTGC
66 TTGC
* * * * * *
79685 TCTCACTAATTATGTTGGAGGCTACGGCTCTTCGCCTGCGAGCCTTTATATAACA-CATGGGAGC
1 TCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACAGC-TGGGAGC
*
79749 TTTGT
65 TTTGC
* * * * * * * ** * *
79754 TCTTGCTAACTATGGTGGGGGCTGCGGCTCTTTGCTTGTGAGCCTTAATACAACAGTTGGGAGCC
1 TCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACAGCTGGGAGCT
79819 TTGC
66 TTGC
* * * * * ** * * *
79823 TATCGCCATCTGTGTTAGAGGCTGTGATTCTTCACCTGCGAACCTTAATATGACAACTGGGAGCT
1 TCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACAGCTGGGAGCT
79888 TTGC
66 TTGC
* * * * * *
79892 TCTCACTAACTGTGTTGGAGGCTGCGGCTATTCGCTTACGAGTCTTAATTTGACA
1 TCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACA
79947 CGAATGTTGT
Statistics
Matches: 406, Mismatches: 129, Indels: 6
0.75 0.24 0.01
Matches are distributed among these distances:
69 404 1.00
70 2 0.00
ACGTcount: A:0.20, C:0.23, G:0.25, T:0.32
Consensus pattern (69 bp):
TCTCGCTAACTGTGTTGGAGGCTGCGGCTCTTCGCCTGCGAGCCTTAATATGACAGCTGGGAGCT
TTGC
Found at i:81511 original size:66 final size:66
Alignment explanation
Indices: 81405--81537 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 66
81395 AGCCTTAACC
81405 TTTTTCTTGCCCTTGGGGTCACCACGTGTGCTCTAACTCTGTTGCGAACAATTCTGATTCACGTA
1 TTTTTCTTGCCCTTGGGGTCACCACGTGTGCTCTAACTCTGTTGCGAACAATTCTGATTCACGTA
81470 T
66 T
*
81471 TTTTTCTTGCCCTTGGGGTCACCACGTGTGGTCTAACTCTGTTGCGAACAATTCTGATTCACGTA
1 TTTTTCTTGCCCTTGGGGTCACCACGTGTGCTCTAACTCTGTTGCGAACAATTCTGATTCACGTA
81536 T
66 T
81537 T
1 T
81538 CTATGAGCTC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (66 bp):
TTTTTCTTGCCCTTGGGGTCACCACGTGTGCTCTAACTCTGTTGCGAACAATTCTGATTCACGTA
T
Found at i:98186 original size:132 final size:132
Alignment explanation
Indices: 98026--99102 Score: 1739
Period size: 132 Copynumber: 8.2 Consensus size: 132
98016 AGATCAAAGA
*
98026 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTGGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * ** * **
98091 GTAGTAGTGGAGTAGATTGAAGACGGCAAATATTATCTTTCCAAGATAGTGGGACTCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
98156 GC
131 GC
98158 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* *
98223 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
98288 GC
131 GC
* * * *
98290 CACCAAGCCTTGTCTCCCTGAACAGTAGCGGAGTAGGTTAAAAATTGTAGATCATATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
*
98355 GCAGTAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
98420 GC
131 GC
98422 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * *
98487 GCAGTAGTGGAGCAGATCGAAA-ACGGAAAATCTTATCTTTCAAAGATAGTGGGAAGTAGATTTA
66 GCAGTAGTGGAGCAGATC-AAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
98551 AGC
130 AGC
* *
98554 GACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAAGTTGAAAATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
* * * *
98619 GCAATAGTGGAGCAGATCAAAGACGGCGAATCTTATCTTTCCAAGACAGTGGGAAACAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
98684 GC
131 GC
*
98686 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTA-AGTCTTATTTCCCTA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGA-TCTTATCTCCCTA
* *
98750 AGCAGTAGTAGAGCAGATCAAAGAC-GAAAAGTCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
65 AGCAGTAGTGGAGCAGATCAAAGACGGCAAA-TCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
98814 AAGC
129 AAGC
98818 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTT-AAAGATTGTAGATCTTATCTCCCTA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAA-ATTGTAGATCTTATCTCCCTA
* ** * *
98882 AGCAGTAATGGAGCAGATCAAAGACTACAAATCTTATCTTTCCAAGATTGTGGAAAGCAGATTTA
65 AGCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
98947 AGC
130 AGC
** * *
98950 CACCAAGCCTTGTCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTGTAAATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
*
99015 GCAGTAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
99080 GC
131 GC
* *
99082 CACTAGGCCTTGTCTCCCTGA
1 CACCAAGCCTTGTCTCCCTGA
99103 AGTTACAGTG
Statistics
Matches: 879, Mismatches: 58, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
131 10 0.01
132 860 0.98
133 9 0.01
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCAAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:98256 original size:44 final size:44
Alignment explanation
Indices: 98076--99052 Score: 175
Period size: 44 Copynumber: 22.2 Consensus size: 44
98066 AAAATTGTAG
* *
98076 ATCTTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * * * **
98120 ATATTATCTTTCC-AAG-A-TAGTGGGACTCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GGA-GCAGATTGAAGACGGCAA
** * * * * * * * ** * *
98164 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
*
98208 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * * **
98252 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGTAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** * * * * * * ** * *
98296 GCCTTGTCTCCCTGAA-CAGTAGCGGAGTAGGTTAAAAATTGTAG
1 ATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* ** *
98340 ATCATATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
98384 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** * * * * * * * ** * *
98428 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * *
98472 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAACGGAAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
** * * * *
98516 ATCTTATCTTTCAAAG-A-TAGTGGGAAGTAGATTTAAG-CGACCAA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACG-GCAA
** * * * * * * ** * *
98560 GCCTTGTCTCCCTGAGCAGCAGCGGAGTA-AGTTGAAAATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-TTGAAGACGGCAA
* ** *
98604 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * * **
98648 ATCTTATCTTTCC-AAGACAGT-G-GGAAACAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAG-CAGTAGTGG-AGCAGATTGAAGACGGCAA
** * * * * * * * ** *
98692 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAAATTGTAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * ** *
98736 GTCTTATTTCCCTAAGCAGTAGTAGAGCAGATCAAAGAC-GAAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
98779 AGTCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 A-TCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** * * * * * * * ** * *
98824 GCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTAAAGATTGTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* ** **
98868 ATCTTATCTCCCTAAGCAGTAATGGAGCAGATCAAAGACTACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * * **
98912 ATCTTATCTTTCC-AAG-A-TTGTGGAAAGCAGATTTAAGCCACCAA
1 ATCTTATC-TCCCTAAGCAGTAGTGG--AGCAGATTGAAGACGGCAA
** * * * * * * ** *
98956 GCCTTGTCTCCCTGAGCAGCAGTAGAGTAGGTTGAAGATTGTAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
** *
99000 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
99044 ATCTTATCT
1 ATCTTATCT
99053 TTCCAAGATA
Statistics
Matches: 614, Mismatches: 271, Indels: 96
0.63 0.28 0.10
Matches are distributed among these distances:
42 24 0.04
43 47 0.08
44 484 0.79
45 45 0.07
46 14 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
Found at i:99168 original size:44 final size:43
Alignment explanation
Indices: 99094--99203 Score: 116
Period size: 44 Copynumber: 2.5 Consensus size: 43
99084 CTAGGCCTTG
* * * *
99094 TCTCCCTGAAGTTACAGTGGAGTAGGTTAAAGCCGATA-ATCCTA
1 TCTCCCTGAAGTTGCAGTAGAG-CGGTTAAAACC-ATAGATCCTA
* *
99138 TCTCCCTGAAGTTGCAGTAGAGCGGATTAAAACCTTAGATCTTA
1 TCTCCCTGAAGTTGCAGTAGAGCGG-TTAAAACCATAGATCCTA
*
99182 TCTCTCTGAAGTTGCAG-AGAGC
1 TCTCCCTGAAGTTGCAGTAGAGC
99204 AGATCGCAAC
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
43 9 0.16
44 48 0.84
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
TCTCCCTGAAGTTGCAGTAGAGCGGTTAAAACCATAGATCCTA
Found at i:99906 original size:14 final size:13
Alignment explanation
Indices: 99884--99913 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
99874 TTTTAGATTT
99884 TGTTTTTTTTTTG
1 TGTTTTTTTTTTG
99897 TGTTTGTTTTTTTG
1 TGTTT-TTTTTTTG
99911 TGT
1 TGT
99914 ACCATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (13 bp):
TGTTTTTTTTTTG
Found at i:100821 original size:3 final size:3
Alignment explanation
Indices: 100813--100864 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
100803 AAATATTTAC
100813 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
100861 ATT A
1 ATT A
100865 NNNNNNNNNN
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:110793 original size:27 final size:27
Alignment explanation
Indices: 110762--110814 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
110752 AAAATTATAC
* *
110762 TTTGACTTTCTAAAAAATGAATGAAAG
1 TTTGACCTTCTAAAAAATGAAGGAAAG
* *
110789 TTTGACCTTCTTAGAAATGAAGGAAA
1 TTTGACCTTCTAAAAAATGAAGGAAA
110815 ATTCTATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.09, G:0.17, T:0.32
Consensus pattern (27 bp):
TTTGACCTTCTAAAAAATGAAGGAAAG
Found at i:129138 original size:114 final size:113
Alignment explanation
Indices: 128904--129194 Score: 332
Period size: 114 Copynumber: 2.6 Consensus size: 113
128894 TTTGTAAGCG
* * * * *
128904 CCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAAAATTAGTGGCGTTTT
1 CCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGCTTT
* ** *
128969 CAAGAAAACGCCGCTAAAGAACAGTATTAGCGGCGTTTGACAACAAGCG
66 CAAGAAAACGCCGCTAAAGAACAGTATTAGCGGAGCCTGACAAC-AGCA
* * *
129018 CCGCAAAAGATCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAGTTAGTGGCGCTTT
1 CCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGCTTT
** * * *
129083 GGAGAACACGCCGCTAAAGCACAGTATTAGCGGAGCCTGTCTGAAC-GCA
66 CAAGAAAACGCCGCTAAAGAACAGTATTAGCGGAGCCTGAC--AACAGCA
* * * * * * *
129132 CTGCAAAATATCTTATCTAAAGCGCAGCTTTTAGTCTTGAGGTAGATTAGAATTAGTGACGCT
1 CCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGCT
129195 AGGAAAAACG
Statistics
Matches: 148, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
114 145 0.98
116 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (113 bp):
CCGCAAAATATCTTAACCAAAACGCAGCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGCTTT
CAAGAAAACGCCGCTAAAGAACAGTATTAGCGGAGCCTGACAACAGCA
Found at i:129230 original size:72 final size:73
Alignment explanation
Indices: 129132--129266 Score: 175
Period size: 72 Copynumber: 1.9 Consensus size: 73
129122 TCTGAACGCA
* * * * * *
129132 CTGCAAAATATCTTATCTAAAGCGCAGCTTTTAGTCTTGAGGTAG-ATTAGAATTAGTGACGCTA
1 CTGCAAAATATCTTAACCAAAACGCAGCGTTCAGTCTTGAGGT-GTATAAGAATTAGTGACGCTA
129196 GGAAAAACG
65 GGAAAAACG
* *
129205 CTGCAAAA-ATCTTAACCAAAACGCAGCGTTCGGTCTTGAGGTGTATAAGAATTAGTGGCGCT
1 CTGCAAAATATCTTAACCAAAACGCAGCGTTCAGTCTTGAGGTGTATAAGAATTAGTGACGCT
129267 TGACAATAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
71 1 0.02
72 44 0.83
73 8 0.15
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (73 bp):
CTGCAAAATATCTTAACCAAAACGCAGCGTTCAGTCTTGAGGTGTATAAGAATTAGTGACGCTAG
GAAAAACG
Found at i:130419 original size:21 final size:21
Alignment explanation
Indices: 130395--130435 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
130385 GTTTTGACTT
130395 TTAGGGTTTGAGATTTGGGGC
1 TTAGGGTTTGAGATTTGGGGC
*
130416 TTAGGGTTTGAGGTTTGGGG
1 TTAGGGTTTGAGATTTGGGG
130436 TTTGGTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.12, C:0.02, G:0.46, T:0.39
Consensus pattern (21 bp):
TTAGGGTTTGAGATTTGGGGC
Found at i:132259 original size:28 final size:29
Alignment explanation
Indices: 132201--132260 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
132191 TACCAATTTA
*
132201 TTTTGTTTAGGGTATTAAGCAGTAAATAT
1 TTTTGTTTAGGGTATTAAGCAGTAAACAT
132230 TTTTGTTTAGGGTATTAAGCAGT-AACAT
1 TTTTGTTTAGGGTATTAAGCAGTAAACAT
132258 TTT
1 TTT
132261 GACAAGTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (29 bp):
TTTTGTTTAGGGTATTAAGCAGTAAACAT
Found at i:132876 original size:13 final size:13
Alignment explanation
Indices: 132858--132895 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
132848 GGAAGTTTGC
132858 TTAATGTTGTTGG
1 TTAATGTTGTTGG
*
132871 TTAATGTTAG-GGG
1 TTAATGTT-GTTGG
132884 TTAATGTTGTTG
1 TTAATGTTGTTG
132896 CAAGTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
12 1 0.05
13 19 0.90
14 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (13 bp):
TTAATGTTGTTGG
Found at i:133959 original size:18 final size:18
Alignment explanation
Indices: 133915--133952 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
133905 AAACAATTTT
133915 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
133933 TAAATTATATAACTTACA
1 TAAATTATATAACTTACA
133951 TA
1 TA
133953 TCTTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
TAAATTATATAACTTACA
Found at i:134044 original size:25 final size:25
Alignment explanation
Indices: 134011--134061 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
134001 AATTTTTTCA
134011 AAATCTATCAATAATATCATAACTT
1 AAATCTATCAATAATATCATAACTT
* *
134036 AAATTTATCAATCATATCATAACTT
1 AAATCTATCAATAATATCATAACTT
134061 A
1 A
134062 TATATAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (25 bp):
AAATCTATCAATAATATCATAACTT
Found at i:140117 original size:3 final size:3
Alignment explanation
Indices: 140103--140217 Score: 90
Period size: 3 Copynumber: 38.7 Consensus size: 3
140093 ATAATACACT
* * * *
140103 ATA ATG ATA ATA ATA ATA ATA A-A ACA A-A TTTA ATA ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * ** * * * *
140147 ATA ATT ATA ATA GTT ACC ATC ATA TTA TTA ACA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
140195 ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
140218 GTGTAATACG
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
2 3 0.03
3 86 0.96
4 1 0.01
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:140152 original size:20 final size:21
Alignment explanation
Indices: 140112--140158 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
140102 TATAATGATA
140112 ATAATAATAATAAAACAAATT
1 ATAATAATAATAAAACAAATT
140133 -TAATAATAATAAAA-ATAATT
1 ATAATAATAATAAAACA-AATT
140153 ATAATA
1 ATAATA
140159 GTTACCATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.04
20 18 0.75
21 5 0.21
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
ATAATAATAATAAAACAAATT
Found at i:140928 original size:44 final size:44
Alignment explanation
Indices: 140878--140966 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
140868 CCAAAACGAC
*
140878 GTCGTTTTGGGGCATTTTGGAACACCTCTAAACGGTTCCATTTT
1 GTCGTTTTGGGGCATTTTGGAACACCTCTAAACGGTGCCATTTT
*
140922 GTCGTTTTGGGGCATTTTGGAGCACCTCTAAACGGTGCCATTTT
1 GTCGTTTTGGGGCATTTTGGAACACCTCTAAACGGTGCCATTTT
140966 G
1 G
140967 GCACCCTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.17, C:0.20, G:0.26, T:0.37
Consensus pattern (44 bp):
GTCGTTTTGGGGCATTTTGGAACACCTCTAAACGGTGCCATTTT
Found at i:141616 original size:14 final size:15
Alignment explanation
Indices: 141579--141610 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
141569 TGTAATGGAC
141579 TGGACTTTTAA-TAT
1 TGGACTTTTAATTAT
141593 TGGACTTTTAATTAT
1 TGGACTTTTAATTAT
141608 TGG
1 TGG
141611 GTTTTATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (15 bp):
TGGACTTTTAATTAT
Found at i:141985 original size:44 final size:44
Alignment explanation
Indices: 141937--142074 Score: 129
Period size: 45 Copynumber: 3.1 Consensus size: 44
141927 GACCCACTAT
* * *
141937 AACTTCAAAAGGAAAAAAATTGTATCTTTAATCTGCTCTACTGC
1 AACTTCAAAAGGATAAGATTTGTATCTTTAATCTGCTCTACTGC
* * *
141981 AACTT-TAGAGAGATAAGATTTGCTAT-TTTCAATCTGCTCCACTGC
1 AACTTCAAAAG-GATAAGATTTG-TATCTTT-AATCTGCTCTACTGC
* ** *
142026 AACTTCAGGAA-GATAAGATTTGTGGCTTTAATATGCTCTACTGC
1 AACTTCA-AAAGGATAAGATTTGTATCTTTAATCTGCTCTACTGC
142070 AACTT
1 AACTT
142075 TAGAGAGATA
Statistics
Matches: 75, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
43 3 0.04
44 35 0.47
45 36 0.48
47 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (44 bp):
AACTTCAAAAGGATAAGATTTGTATCTTTAATCTGCTCTACTGC
Found at i:142017 original size:45 final size:45
Alignment explanation
Indices: 141966--142136 Score: 163
Period size: 45 Copynumber: 3.8 Consensus size: 45
141956 TTGTATCTTT
141966 AATCTGCTCTACTGCAACTTTA-GAGAGATAAGATTTGCTATTTTC
1 AATCTGCTCTACTGCAACTTTAGGA-AGATAAGATTTGCTATTTTC
* * **
142011 AATCTGCTCCACTGCAACTTCAGGAAGATAAGATTTG-TGGCTTT-
1 AATCTGCTCTACTGCAACTTTAGGAAGATAAGATTTGCT-ATTTTC
* ** *
142055 AATATGCTCTACTGCAACTTTA-GAGAGATAAGATTCACTATCTTC
1 AATCTGCTCTACTGCAACTTTAGGA-AGATAAGATTTGCTATTTTC
* * * *
142100 AATCTACT-TCACTGTAACTTTTGGCAGATAAGATTTG
1 AATCTGCTCT-ACTGCAACTTTAGGAAGATAAGATTTG
142137 TGGCTTGAAG
Statistics
Matches: 100, Mismatches: 19, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 2 0.02
44 33 0.33
45 62 0.62
46 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (45 bp):
AATCTGCTCTACTGCAACTTTAGGAAGATAAGATTTGCTATTTTC
Found at i:142063 original size:89 final size:89
Alignment explanation
Indices: 141962--142142 Score: 272
Period size: 89 Copynumber: 2.0 Consensus size: 89
141952 AAAATTGTAT
* ** * *
141962 CTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATTTTCAATCTGCTCCACTGCA
1 CTTTAATATGCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCA
142027 ACTTCAGGAAGATAAGATTTGTGG
66 ACTTCAGGAAGATAAGATTTGTGG
* *
142051 CTTTAATATGCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAATCTACTTCACTGTA
1 CTTTAATATGCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCA
** *
142116 ACTTTTGGCAGATAAGATTTGTGG
66 ACTTCAGGAAGATAAGATTTGTGG
142140 CTT
1 CTT
142143 GAAGCCGCTT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (89 bp):
CTTTAATATGCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCA
ACTTCAGGAAGATAAGATTTGTGG
Found at i:142084 original size:44 final size:44
Alignment explanation
Indices: 141962--142089 Score: 170
Period size: 45 Copynumber: 2.9 Consensus size: 44
141952 AAAATTGTAT
141962 CTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTA
1 CTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTA
* * * *
142006 TTTTCAATCTGCTCCACTGCAACTTCAG-GAAGATAAGATTTG-TGG
1 CTTT-AATCTGCTCTACTGCAACTTTAGAG-AGATAAGATTTGCT-A
*
142051 CTTTAATATGCTCTACTGCAACTTTAGAGAGATAAGATT
1 CTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATT
142090 CACTATCTTC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
44 35 0.49
45 37 0.51
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (44 bp):
CTTTAATCTGCTCTACTGCAACTTTAGAGAGATAAGATTTGCTA
Found at i:142160 original size:89 final size:89
Alignment explanation
Indices: 141971--142174 Score: 248
Period size: 89 Copynumber: 2.3 Consensus size: 89
141961 TCTTTAATCT
** * *
141971 GCTCTACTGCAACTTTAGAGAGATAAGATTTGCTATTTTCAATCTGCTCCACTGCAACTTCAGGA
1 GCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCAACTTCAGGA
* * *
142036 AGATAAGATTTGTGGCTTTAATAT
66 AGATAAGATTTGTGGCTTGAAGAC
* * ** *
142060 GCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAATCTACTTCACTGTAACTTTTGGC
1 GCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCAACTTCAGGA
*
142125 AGATAAGATTTGTGGCTTGAAGCC
66 AGATAAGATTTGTGGCTTGAAGAC
* * *
142149 GCT-TCATTGCAACTTCAGGGAGATAA
1 GCTCT-ACTGCAACTTTAGAGAGATAA
142175 AATTTGCCAC
Statistics
Matches: 98, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
88 1 0.01
89 97 0.99
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (89 bp):
GCTCTACTGCAACTTTAGAGAGATAAGATTCACTATCTTCAATCTACTCCACTGCAACTTCAGGA
AGATAAGATTTGTGGCTTGAAGAC
Found at i:143654 original size:7 final size:7
Alignment explanation
Indices: 143644--143673 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
143634 GAGATGAGAA
143644 ATGAAAT
1 ATGAAAT
143651 ATGAAAT
1 ATGAAAT
143658 ATGAAAT
1 ATGAAAT
143665 GATGAAAT
1 -ATGAAAT
143673 A
1 A
143674 AGATGTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.27
Consensus pattern (7 bp):
ATGAAAT
Found at i:143663 original size:19 final size:19
Alignment explanation
Indices: 143620--143666 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
143610 ATGACAAAGT
*
143620 TGAGAAATG-AATATGAGA
1 TGAGAAATGAAATATGAAA
143638 TGAGAAATGAAATATGAAA
1 TGAGAAATGAAATATGAAA
143657 T-ATGAAATGA
1 TGA-GAAATGA
143667 TGAAATAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.23
Consensus pattern (19 bp):
TGAGAAATGAAATATGAAA
Found at i:143671 original size:15 final size:14
Alignment explanation
Indices: 143644--143673 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
143634 GAGATGAGAA
143644 ATGAAATATGAAAT
1 ATGAAATATGAAAT
143658 ATGAAATGATGAAAT
1 ATGAAAT-ATGAAAT
143673 A
1 A
143674 AGATGTGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.27
Consensus pattern (14 bp):
ATGAAATATGAAAT
Found at i:144692 original size:41 final size:41
Alignment explanation
Indices: 144646--144728 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
144636 GGCTGTATGA
144646 CTCAAGTCAGTGAGTTACACGGGCTGAGACACGA-CATGTGT
1 CTCAAGTCAGTGAGTTACA-GGGCTGAGACACGACCATGTGT
*
144687 CTCAAGTCAGTGAGTTACAGGGCTGGGACACGACCATGTGT
1 CTCAAGTCAGTGAGTTACAGGGCTGAGACACGACCATGTGT
144728 C
1 C
144729 CTATCTTCGA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
40 13 0.32
41 27 0.68
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (41 bp):
CTCAAGTCAGTGAGTTACAGGGCTGAGACACGACCATGTGT
Found at i:155488 original size:3 final size:3
Alignment explanation
Indices: 155480--155504 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
155470 GAAGAGAGCC
155480 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
155505 GCAAAGCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:162671 original size:44 final size:44
Alignment explanation
Indices: 162589--162676 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 44
162579 ATTATTGCAA
*
162589 TATTTGGTTATACAAAATTAGTTGAAAGCTCCAAAAGAGTTAAT
1 TATTTGGTTATACAAAATTAGTTGAAAGCTCCAAAAGAGCTAAT
* * *
162633 TATTTGG-TAGTACAAAATTTGTTGAAAGCTCTAGAAGAGCTAAT
1 TATTTGGTTA-TACAAAATTAGTTGAAAGCTCCAAAAGAGCTAAT
162677 ATATCAATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 2 0.05
44 37 0.95
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (44 bp):
TATTTGGTTATACAAAATTAGTTGAAAGCTCCAAAAGAGCTAAT
Found at i:164416 original size:41 final size:41
Alignment explanation
Indices: 164359--164598 Score: 392
Period size: 41 Copynumber: 5.9 Consensus size: 41
164349 GATCGACCTT
*
164359 TCGGGGCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
164400 TCGGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
*
164441 TCAGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* *
164482 TTAGGG-CTTTAGCTGCGTTTTTGGAGAAGCGCCGCTAATGC
1 -TCGGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* *
164523 TCAGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
* *
164564 TCTGGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 TCGGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGC
164599 AAAAACATTT
Statistics
Matches: 187, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 3 0.02
41 181 0.97
42 3 0.02
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.30
Consensus pattern (41 bp):
TCGGGTCTTTAGCGGCGTTTTTGGAGAAGCGCCGCTAATGC
Found at i:164938 original size:14 final size:14
Alignment explanation
Indices: 164919--164976 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
164909 TATAGTTTAG
*
164919 GGTTTAATATATAT
1 GGTTTAAGATATAT
*
164933 GGTTTAGGATATAT
1 GGTTTAAGATATAT
* * *
164947 GGTATATGGTATAT
1 GGTTTAAGATATAT
164961 GGTTTATAGAT-TAT
1 GGTTTA-AGATATAT
164975 GG
1 GG
164977 AATTAGGGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
14 33 0.94
15 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (14 bp):
GGTTTAAGATATAT
Found at i:165127 original size:14 final size:14
Alignment explanation
Indices: 165110--165148 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
165100 GGAGTTAGTA
*
165110 GTTAGGGGTTTGGG
1 GTTAGGGGTTAGGG
*
165124 GTTAAGGGTTAGGG
1 GTTAGGGGTTAGGG
165138 GTTAGGGGTTA
1 GTTAGGGGTTA
165149 AGAGTTAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.51, T:0.33
Consensus pattern (14 bp):
GTTAGGGGTTAGGG
Found at i:165134 original size:21 final size:21
Alignment explanation
Indices: 165109--165156 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
165099 AGGAGTTAGT
*
165109 AGTTAGGGGTTTGGGGTTAAG
1 AGTTAGGGGTTAGGGGTTAAG
*
165130 GGTTAGGGGTTAGGGGTTAAG
1 AGTTAGGGGTTAGGGGTTAAG
165151 AGTTAG
1 AGTTAG
165157 TGATTTAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.48, T:0.31
Consensus pattern (21 bp):
AGTTAGGGGTTAGGGGTTAAG
Found at i:165155 original size:14 final size:14
Alignment explanation
Indices: 165097--165156 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
165087 TAAATAAGGT
* *
165097 TTAGGAGTTAGTAG
1 TTAGGGGTTAGGAG
* *
165111 TTAGGGGTTTGGGG
1 TTAGGGGTTAGGAG
* *
165125 TTAAGGGTTAGGGG
1 TTAGGGGTTAGGAG
*
165139 TTAGGGGTTAAGAG
1 TTAGGGGTTAGGAG
165153 TTAG
1 TTAG
165157 TGATTTAAGG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:170870 original size:24 final size:23
Alignment explanation
Indices: 170842--170889 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 23
170832 AATTTAAAAA
170842 ATAAAACATAATATAATATTT-ATT
1 ATAAAA-ATAA-ATAATATTTGATT
*
170866 ATAAAAATAAATATTATTTGATT
1 ATAAAAATAAATAATATTTGATT
170889 A
1 A
170890 AAATAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 8 0.36
24 6 0.27
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
ATAAAAATAAATAATATTTGATT
Found at i:171011 original size:43 final size:43
Alignment explanation
Indices: 170939--171244 Score: 390
Period size: 43 Copynumber: 7.2 Consensus size: 43
170929 TGCTAGAATC
* * **
170939 GCCGCTAAAGGT-TTGTTCTTTAGCGGCGTTTGTGAAAAAAGT
1 GCCGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGGGAAAAGT
**
170981 GCCGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGAAAAAAGT
1 GCCGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGGGAAAAGT
171024 GCCGCTAAAGGTA---GTCTTTAGCGGCGTTTGTGGGAAAAGT
1 GCCGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGGGAAAAGT
* * *
171064 GCCGCTAAAGGTTGTGGTCTTTAGCGGCGTTTTTGGAAAAAGT
1 GCCGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGGGAAAAGT
* * *
171107 GCCGCTAAAGGTAGTGGTCTTTAGCGGCGCTTGTGGGGAAAGC
1 GCCGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGGGAAAAGT
* * *
171150 GCCGCTGAAGGTCGTGGTCTTTAGCGGCGTTTGTGGGAAAAGC
1 GCCGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGGGAAAAGT
* * * *
171193 ACCGCTAAAGGTCA-TGCTCTTTAGCGGCGTTT-TTGGAAAAGC
1 GCCGCTAAAGGT-AGTGGTCTTTAGCGGCGTTTGTGGGAAAAGT
171235 GCCGCTAAAG
1 GCCGCTAAAG
171245 ACCACGATCT
Statistics
Matches: 236, Mismatches: 23, Indels: 10
0.88 0.09 0.04
Matches are distributed among these distances:
40 37 0.16
42 30 0.13
43 169 0.72
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (43 bp):
GCCGCTAAAGGTAGTGGTCTTTAGCGGCGTTTGTGGGAAAAGT
Found at i:172780 original size:13 final size:12
Alignment explanation
Indices: 172750--172783 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
172740 AGCCTAGATT
172750 ACAAACAAATTAA
1 ACAAA-AAATTAA
172763 ACAAAAAATTAA
1 ACAAAAAATTAA
172775 ACCAAAAAA
1 A-CAAAAAA
172784 ATAATAAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.74, C:0.15, G:0.00, T:0.12
Consensus pattern (12 bp):
ACAAAAAATTAA
Found at i:174047 original size:28 final size:28
Alignment explanation
Indices: 174016--174087 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
174006 TAAAGAGATT
* *
174016 AGCACTAAATGTGCGAGTTTAATTGTGA
1 AGCACTAAGTGTGCGAGTTTAATTATGA
* *
174044 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTATGA
174072 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
174088 ACTTATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATTATGA
Found at i:174983 original size:93 final size:88
Alignment explanation
Indices: 174812--175126 Score: 395
Period size: 93 Copynumber: 3.4 Consensus size: 88
174802 TTATGCTTAA
* ** *
174812 ATGCTGTCCAATTTTGCATATACA-TGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTAGT
1 ATGCTGTCAAATTTTGTGTATA-AGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGT
174876 GAATAAATGCTGTCCAATTTTGCATATAC
65 G-AT-AA---TGTCCAATTTTGCATATAC
174905 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGTCATGCTGTCAAA
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTG-C---C---C-AA
174970 TTTT-GTG-T-ATGTCCAATTTTGCATATAC
58 TTTTGGTGATAATGTCCAATTTTGCATATAC
174998 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTG
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTG
175063 AATAAATGCCGTCCAATTTTGCATATAC
66 -AT-AAT---GTCCAATTTTGCATATAC
175091 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAAT
1 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAAT
175127 ATTTTGCATA
Statistics
Matches: 202, Mismatches: 3, Indels: 34
0.85 0.01 0.14
Matches are distributed among these distances:
85 6 0.03
86 4 0.02
88 1 0.00
89 1 0.00
90 2 0.01
92 2 0.01
93 172 0.85
94 1 0.00
96 1 0.00
97 1 0.00
98 1 0.00
100 4 0.02
101 6 0.03
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (88 bp):
ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTG
ATAATGTCCAATTTTGCATATAC
Found at i:175138 original size:26 final size:23
Alignment explanation
Indices: 174812--175557 Score: 284
Period size: 23 Copynumber: 32.0 Consensus size: 23
174802 TTATGCTTAA
* **
174812 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
* * **
174835 ATGCTGTCCAAA-TTGGTATATGT
1 ATGCTGT-CAAATTTTGTGTATAC
* * * *
174858 ATGCTGCCCAATTTTAGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
174882 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
174905 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
174927 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
** ** **
174951 ATGCTGTC--ATGCTGTCAAATTTT
1 ATGCTGTCAAATTTTGT-GTA-TAC
* * * **
174974 GTGTATGTCCAATTTTGCATATAC
1 ATG-CTGTCAAATTTTGTGTATAC
174998 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
175020 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
175044 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* * **
175068 ATGCCGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
175091 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
175113 AGTGCTGTCCAAATATTT-TGCATATAC
1 A-TGCTGT-CAAAT-TTTGTG--TATAC
175140 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * * **
175162 AGTGTTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
175186 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
175210 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
*
175233 ATGCTGTCAAATTTTGTATATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
175255 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
175279 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
175303 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
* **
175326 ATGCTGTTAAATTTTGTACATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
175348 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
175372 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
175396 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
*
175419 ATGCTGTCAAATTTTGTATATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
175441 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
175465 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* * *
175489 ATGTTGTCCAATTTTGTATATAC
1 ATGCTGTCAAATTTTGTGTATAC
*
175512 ATGCTGTCAAATTTTGATGTATAA
1 ATGCTGTCAAATTTTG-TGTATAC
*
175536 ATGCTGTCCAATTTTGTGTATA
1 ATGCTGTCAAATTTTGTGTATA
175558 TATATATATA
Statistics
Matches: 543, Mismatches: 135, Indels: 90
0.71 0.18 0.12
Matches are distributed among these distances:
20 1 0.00
21 2 0.00
22 28 0.05
23 310 0.57
24 175 0.32
25 12 0.02
26 14 0.03
27 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (23 bp):
ATGCTGTCAAATTTTGTGTATAC
Found at i:175241 original size:93 final size:93
Alignment explanation
Indices: 175091--175546 Score: 761
Period size: 93 Copynumber: 4.9 Consensus size: 93
175081 TTGCATATAC
* * * *
175091 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATATTTTGCATATACATGCTGTCAAATTTT
1 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCC--A-ATTTTGCATATACATGCTGTCAAATTTT
* *
175155 GTGTATAAGTGTTGTCCAAATTGGTATATGT
63 GTATATAAGTGCTGTCCAAATTGGTATATGT
175186 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTA
1 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTA
175251 TATAAGTGCTGTCCAAATTGGTATATGT
66 TATAAGTGCTGTCCAAATTGGTATATGT
*
175279 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTTAAATTTTGTA
1 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTA
*
175344 CATAAGTGCTGTCCAAATTGGTATATGT
66 TATAAGTGCTGTCCAAATTGGTATATGT
175372 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTA
1 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTA
175437 TATAAGTGCTGTCCAAATTGGTATATGT
66 TATAAGTGCTGTCCAAATTGGTATATGT
* *
175465 ATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTTTGAT
1 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTG-T
* *
175530 GTATAAATGCTGTCCAA
65 ATATAAGTGCTGTCCAA
175547 TTTTGTGTAT
Statistics
Matches: 345, Mismatches: 14, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
93 300 0.87
94 17 0.05
95 13 0.04
96 15 0.04
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (93 bp):
ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTA
TATAAGTGCTGTCCAAATTGGTATATGT
Found at i:175303 original size:235 final size:235
Alignment explanation
Indices: 174858--175361 Score: 770
Period size: 235 Copynumber: 2.2 Consensus size: 235
174848 TGGTATATGT
* * *
174858 ATGCTGCCCAATTTTAGTGAATAAATGCTGTCC--A-ATTTTGCATATACATGCTGTCAAATTTT
1 ATGCTGTCAAATTTT-GTGAATAAGTGCTGTCCAAATATTTTGCATATACATGCTGTCAAATTTT
* ***
174920 GTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGTCATGCTGTCAAATTTTGTGTATGTCCA
65 GTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCATGCTGTCAAATTAAATGTATGTCCA
*
174985 ATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTG
130 ATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATTGGTATATGTATGCTG
175050 CCCAATTTTGGTGAATAAATGCCGTCCAATTTTGCATATAC
195 CCCAATTTTGGTGAATAAATGCCGTCCAATTTTGCATATAC
*
175091 ATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATATTTTGCATATACATGCTGTCAAATTTTG
1 ATGCTGTCAAATTTTGTGAATAAGTGCTGTCCAAATATTTTGCATATACATGCTGTCAAATTTTG
* ** * *
175156 TGTATAAGTGTTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGT-GAA-TAAATG-CTGTC
66 TGTATAAGTGCTGTCCAAATTGGTATATGTATGCTG-CC-ATGCT-GTCAAATTAAATGTATGTC
175218 CAATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATTGGTATATGTATGC
128 CAATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATTGGTATATGTATGC
*
175283 TGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATAC
193 TGCCCAATTTTGGTGAATAAATGCCGTCCAATTTTGCATATAC
*
175326 ATGCTGTTAAATTTTGT-ACATAAGTGCTGTCCAAAT
1 ATGCTGTCAAATTTTGTGA-ATAAGTGCTGTCCAAAT
175362 TGGTATATGT
Statistics
Matches: 247, Mismatches: 17, Indels: 12
0.89 0.06 0.04
Matches are distributed among these distances:
232 15 0.06
233 13 0.05
234 1 0.00
235 207 0.84
236 4 0.02
237 5 0.02
238 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (235 bp):
ATGCTGTCAAATTTTGTGAATAAGTGCTGTCCAAATATTTTGCATATACATGCTGTCAAATTTTG
TGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCATGCTGTCAAATTAAATGTATGTCCAA
TTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATTGGTATATGTATGCTGC
CCAATTTTGGTGAATAAATGCCGTCCAATTTTGCATATAC
Found at i:175409 original size:328 final size:324
Alignment explanation
Indices: 174812--175551 Score: 1072
Period size: 328 Copynumber: 2.3 Consensus size: 324
174802 TTATGCTTAA
** * *
174812 ATGCTGTCCAATTTTGCATATACATGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTAGTG
1 ATGCTGTCCAATTTTGTGTATA-ATGTTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTG
*
174877 AATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATT
65 AATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATT
* ***
174942 GGTATATGTATGCTGTCATGCTGTCAAATTTTGTGTATGTCCAATTTTGCATATACATGCTGTCA
130 GGTATATGTATGCTGCCATGCTGTCAAATTAAATGTATGTCCAATTTTGCATATACATGCTGTCA
**
175007 AATTTTGTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGC
195 AATTTTGTACATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGC
* *
175072 CGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATATTTTGCATA
260 CGTCCAATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCC-AA-A-TTGGCATA
175137 TAC
322 TAC
*
175140 ATGCTGTCAAATTTTGTGTATAAGTGTTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTG
1 ATGCTGTCCAATTTTGTGTATAA-TGTTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTG
175205 AATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATT
65 AATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATT
** * *
175270 GGTATATGTATGCTGCCCAATTTTGGT-GAA-TAAATG-CTGTCCAATTTTGCATATACATGCTG
130 GGTATATGTATGCTG-CC-ATGCT-GTCAAATTAAATGTATGTCCAATTTTGCATATACATGCTG
*
175332 TTAAATTTTGTACATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAA
192 TCAAATTTTGTACATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAA
* *
175397 TGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATTGGTATA
257 TGCCGTCCAATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATTGGCATA
**
175462 TGT
322 TAC
* * * * ** * * *
175465 ATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTTTGAT
1 ATGCTGTCCAATTTT-GTGTAT-AATGTTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGT
*
175530 GTATAAATGCTGTCCAATTTTG
64 GAATAAATGCTGTCCAATTTTG
175552 TGTATATATA
Statistics
Matches: 372, Mismatches: 34, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
325 20 0.05
326 60 0.16
327 5 0.01
328 276 0.74
329 4 0.01
330 5 0.01
331 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (324 bp):
ATGCTGTCCAATTTTGTGTATAATGTTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGA
ATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATTG
GTATATGTATGCTGCCATGCTGTCAAATTAAATGTATGTCCAATTTTGCATATACATGCTGTCAA
ATTTTGTACATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCC
GTCCAATTTTGCATATACATGCTGTCAAATTTTGTATATAAGTGCTGTCCAAATTGGCATATAC
Found at i:177164 original size:4 final size:4
Alignment explanation
Indices: 177149--177204 Score: 64
Period size: 4 Copynumber: 14.5 Consensus size: 4
177139 TTATATTTGT
* *
177149 TTTA TCTA TTTA TTTA -TTA TTCT- TTTA CTT- TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA TTTA TTTA TTTA TTTA TTTA TTTA
177195 TTTA TTTA TT
1 TTTA TTTA TT
177205 ATTCTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
3 6 0.14
4 37 0.84
5 1 0.02
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:177167 original size:30 final size:29
Alignment explanation
Indices: 177133--177204 Score: 76
Period size: 30 Copynumber: 2.4 Consensus size: 29
177123 TCAAATTTGA
177133 TATTATTTATATT-TGTTTTATCTATTTATT
1 TATTATTTAT-TTAT-TTTTATCTATTTATT
*
177163 TATTATTCT-TTTACTTTTTATTTATTTATT
1 TATTATT-TATTTA-TTTTTATCTATTTATT
177193 TATTTATTTATT
1 TA-TTATTTATT
177205 ATTCTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
29 2 0.06
30 25 0.69
31 9 0.25
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (29 bp):
TATTATTTATTTATTTTTATCTATTTATT
Found at i:177191 original size:23 final size:24
Alignment explanation
Indices: 177135--177192 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
177125 AAATTTGATA
* *
177135 TTATTTATAT-TTGTTTTATCTAT
1 TTATTTATTTATTCTTTTATCTAT
*
177158 TTATTTA-TTATTCTTTTA-CTTT
1 TTATTTATTTATTCTTTTATCTAT
177180 TTATTTATTTATT
1 TTATTTATTTATT
177193 TATTTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 11 0.37
23 19 0.63
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (24 bp):
TTATTTATTTATTCTTTTATCTAT
Found at i:177213 original size:15 final size:15
Alignment explanation
Indices: 177133--177204 Score: 62
Period size: 15 Copynumber: 4.7 Consensus size: 15
177123 TCAAATTTGA
177133 TATTATTTATATT-TGT
1 TATTATTTAT-TTAT-T
*
177149 T-TTATCTATTTATT
1 TATTATTTATTTATT
177163 TATTATTCT-TTTACTT
1 TATTATT-TATTTA-TT
177179 T-TTATTTATTTATT
1 TATTATTTATTTATT
177193 TATTTATTTATT
1 TA-TTATTTATT
177205 ATTCTTTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
14 8 0.17
15 25 0.53
16 14 0.30
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.72
Consensus pattern (15 bp):
TATTATTTATTTATT
Found at i:180759 original size:21 final size:21
Alignment explanation
Indices: 180733--180774 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
180723 AGAATATATA
180733 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
180754 TATGTTCTATAAGCTGAATTT
1 TATGTTCTATAAGCTGAATTT
180775 GATTTTATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (21 bp):
TATGTTCTATAAGCTGAATTT
Found at i:181107 original size:2 final size:2
Alignment explanation
Indices: 181100--181144 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
181090 ATGATATGAA
* *
181100 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
181142 AT A
1 AT A
181145 AAAGAGGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:181465 original size:41 final size:41
Alignment explanation
Indices: 181420--181552 Score: 214
Period size: 41 Copynumber: 3.2 Consensus size: 41
181410 GGCTATGTTC
181420 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
181461 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
* * * *
181502 CTAGCAGGCTTAATGCCGGTGATATATTTCGGA-CTATAGGT
1 CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCT-TACGT
181543 CTAGCAGGCT
1 CTAGCAGGCT
181553 AAGAGCTGGT
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
40 2 0.02
41 85 0.98
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAAATAATTCAGACCTTACGT
Found at i:182254 original size:21 final size:21
Alignment explanation
Indices: 182228--182290 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
182218 ATTTTAAGCA
182228 TATAATGATTATACATATGTT
1 TATAATGATTATACATATGTT
182249 TATAATGATTATACATATGTT
1 TATAATGATTATACATATGTT
182270 TATAATGATTATACATTATGT
1 TATAATGATTATACA-TATGT
182291 ATGTAACTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
21 36 0.88
22 5 0.12
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (21 bp):
TATAATGATTATACATATGTT
Found at i:182859 original size:16 final size:17
Alignment explanation
Indices: 182828--182864 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
182818 TTTTTTCTCC
182828 AAAACCCTAAAAACCTTA
1 AAAACCCT-AAAACCTTA
182846 AAAACCCT-AAACCTTA
1 AAAACCCTAAAACCTTA
182862 AAA
1 AAA
182865 TCCAAAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
18 8 0.42
ACGTcount: A:0.57, C:0.27, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAACCCTAAAACCTTA
Found at i:182873 original size:16 final size:16
Alignment explanation
Indices: 182836--182875 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
182826 CCAAAACCCT
182836 AAAAACCTTAAAAACC
1 AAAAACCTTAAAAACC
** *
182852 CTAAACCTTAAAATCC
1 AAAAACCTTAAAAACC
182868 AAAAACCT
1 AAAAACCT
182876 AACGTGGGAA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.55, C:0.28, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAACCTTAAAAACC
Found at i:183508 original size:31 final size:29
Alignment explanation
Indices: 183473--183554 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
183463 AATTTTAAAA
* * *
183473 TTATACATGAATTTTTATTTTATGTGTAAT
1 TTATACATGAAATTTTAATTT-GGTGTAAT
**
183503 CTTATACACAAAATTTTAATTTGGTGTAAT
1 -TTATACATGAAATTTTAATTTGGTGTAAT
*
183533 TATATACATGAAACTTTAATTT
1 T-TATACATGAAATTTTAATTT
183555 TGATTCAATC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 1 0.02
30 24 0.57
31 17 0.40
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (29 bp):
TTATACATGAAATTTTAATTTGGTGTAAT
Found at i:194884 original size:36 final size:36
Alignment explanation
Indices: 194844--194924 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
194834 TGACTCATTT
* *
194844 GTTGGTAATATGAAACGCAAGAAATGCATACTATCC
1 GTTGGTAATATAAAACGCAAGAAATACATACTATCC
** * **
194880 GTTGGCGATATAAAACGTAAGAAATATGTACTATCC
1 GTTGGTAATATAAAACGCAAGAAATACATACTATCC
194916 GTTGCGTAA
1 GTTG-GTAA
194925 GAAATACAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
36 33 0.94
37 2 0.06
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (36 bp):
GTTGGTAATATAAAACGCAAGAAATACATACTATCC
Found at i:196089 original size:2 final size:2
Alignment explanation
Indices: 196082--196115 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
196072 TGAAAAACAC
196082 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
196116 CACCTATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:196248 original size:83 final size:85
Alignment explanation
Indices: 196109--196284 Score: 338
Period size: 83 Copynumber: 2.1 Consensus size: 85
196099 ATATATATAT
196109 ATATATACACCTATGTGAAATCATTTTCATGGGAACCCTCCGTGGGTCTTCCTTCATTCACCACT
1 ATATATACACCTATGTGAAATCATTTTCATGGGAACCCTCCGTGGGTCTTCCTTCATTCACCACT
196174 ATCTTTTTTTTATT-A-ACA
66 ATCTTTTTTTTATTAATACA
196192 ATATATACACCTATGTGAAATCATTTTCATGGGAACCCTCCGTGGGTCTTCCTTCATTCACCACT
1 ATATATACACCTATGTGAAATCATTTTCATGGGAACCCTCCGTGGGTCTTCCTTCATTCACCACT
196257 ATCTTTTTTTTATTAATACA
66 ATCTTTTTTTTATTAATACA
196277 ATATATAC
1 ATATATAC
196285 GTATATGCAT
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
83 79 0.87
84 1 0.01
85 11 0.12
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (85 bp):
ATATATACACCTATGTGAAATCATTTTCATGGGAACCCTCCGTGGGTCTTCCTTCATTCACCACT
ATCTTTTTTTTATTAATACA
Found at i:200723 original size:20 final size:20
Alignment explanation
Indices: 200700--200737 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
200690 ATATATTCTT
*
200700 TAAATTTTTTAAAATTTATG
1 TAAATATTTTAAAATTTATG
200720 TAAATATTTTAAAATTTA
1 TAAATATTTTAAAATTTA
200738 AAAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TAAATATTTTAAAATTTATG
Found at i:200744 original size:20 final size:20
Alignment explanation
Indices: 200701--200749 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
200691 TATATTCTTT
* ***
200701 AAATTTTTTAAAATTTATGT
1 AAATATTTTAAAATTTAAAA
200721 AAATATTTTAAAATTTAAAA
1 AAATATTTTAAAATTTAAAA
200741 AAATATTTT
1 AAATATTTT
200750 TTTTGTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
AAATATTTTAAAATTTAAAA
Found at i:214365 original size:13 final size:13
Alignment explanation
Indices: 214347--214375 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
214337 TAGTAAGTAA
214347 ATAAGCAGGAGAC
1 ATAAGCAGGAGAC
214360 ATAAGCAGGAGAC
1 ATAAGCAGGAGAC
214373 ATA
1 ATA
214376 CTATTGAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.14, G:0.28, T:0.10
Consensus pattern (13 bp):
ATAAGCAGGAGAC
Found at i:217261 original size:25 final size:25
Alignment explanation
Indices: 217227--217279 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
217217 AATGAAATAA
217227 AAAATATTTATTTTATTAATTTTAT
1 AAAATATTTATTTTATTAATTTTAT
217252 AAAATATTTATTTTATTAATTTTAT
1 AAAATATTTATTTTATTAATTTTAT
217277 AAA
1 AAA
217280 TAAATATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
AAAATATTTATTTTATTAATTTTAT
Found at i:217295 original size:24 final size:25
Alignment explanation
Indices: 217223--217291 Score: 93
Period size: 25 Copynumber: 2.6 Consensus size: 25
217213 CTCTAATGAA
217223 ATAAAAAATATTTATTTTATTAATTTT
1 ATAAAAAATA--TATTTTATTAATTTT
* *
217250 ATAAAATATTTATTTTATTAATTTT
1 ATAAAAAATATATTTTATTAATTTT
217275 ATAAATAAATATATTTT
1 ATAAA-AAATATATTTT
217292 TAATATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 20 0.54
26 9 0.24
27 8 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATAAAAAATATATTTTATTAATTTT
Found at i:220681 original size:45 final size:46
Alignment explanation
Indices: 220610--220696 Score: 115
Period size: 45 Copynumber: 1.9 Consensus size: 46
220600 TTTTTATATA
* *
220610 TTTTTTATAACTTTATACGTATATATATGTT-TACATATATACTCAT
1 TTTTTTATAACTTTATACATACATATAT-TTATACATATATACTCAT
* *
220656 TTTTTTATAA-TTTATATATACATATATTTATACCTATATAC
1 TTTTTTATAACTTTATACATACATATATTTATACATATATAC
220697 ATGTTTGCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 2 0.06
45 24 0.67
46 10 0.28
ACGTcount: A:0.34, C:0.10, G:0.02, T:0.53
Consensus pattern (46 bp):
TTTTTTATAACTTTATACATACATATATTTATACATATATACTCAT
Found at i:228362 original size:49 final size:49
Alignment explanation
Indices: 228290--228389 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
228280 CCCATGATAA
*
228290 TTATAATTCTTTTTGGAAAGAATATAACATTTTTAATACTTTCCATATG
1 TTATAATTCTTTTTGGAAAGAATATAACATGTTTAATACTTTCCATATG
*
228339 TTATAATTCTTTTTGGAAAGAATATAACATGTTTAATGCTTTCCATATG
1 TTATAATTCTTTTTGGAAAGAATATAACATGTTTAATACTTTCCATATG
228388 TT
1 TT
228390 CTCTATAAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (49 bp):
TTATAATTCTTTTTGGAAAGAATATAACATGTTTAATACTTTCCATATG
Found at i:229860 original size:12 final size:13
Alignment explanation
Indices: 229838--229866 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
229828 ATTTCTCTAC
229838 AAAAACAAAAAAT
1 AAAAACAAAAAAT
229851 AAAAAC-AAAAAT
1 AAAAACAAAAAAT
229863 AAAA
1 AAAA
229867 TCTAAAACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAAACAAAAAAT
Found at i:241542 original size:26 final size:26
Alignment explanation
Indices: 241513--241571 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
241503 TATTTTCTCG
* * *
241513 AAATTTTACCAGGGGCAATATCGTCA
1 AAATTTTACCAAGGGCAAAATCATCA
*
241539 AAATTTTACCAAGGGTAAAATCATCA
1 AAATTTTACCAAGGGCAAAATCATCA
241565 AAATTTT
1 AAATTTT
241572 GCTGTTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.31
Consensus pattern (26 bp):
AAATTTTACCAAGGGCAAAATCATCA
Found at i:248114 original size:5 final size:5
Alignment explanation
Indices: 248104--248129 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
248094 AATGCATTCG
248104 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
248130 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:249008 original size:9 final size:9
Alignment explanation
Indices: 248991--249021 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
248981 TCGAGTTGAT
248991 TCGAATAAC
1 TCGAATAAC
*
249000 TCGATTAAC
1 TCGAATAAC
249009 TCGAATAAC
1 TCGAATAAC
249018 TCGA
1 TCGA
249022 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:249518 original size:22 final size:22
Alignment explanation
Indices: 249493--249544 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
249483 TCTCAATATT
249493 GCAATACCCATGGTCAGGTATC
1 GCAATACCCATGGTCAGGTATC
249515 GCAATACCCATGGTCAGGTATC
1 GCAATACCCATGGTCAGGTATC
249537 GCAATACC
1 GCAATACC
249545 ACTGTAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (22 bp):
GCAATACCCATGGTCAGGTATC
Found at i:250995 original size:9 final size:9
Alignment explanation
Indices: 250978--251008 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
250968 TCGAGTTGAT
250978 TCGAATAAC
1 TCGAATAAC
*
250987 TCGATTAAC
1 TCGAATAAC
250996 TCGAATAAC
1 TCGAATAAC
251005 TCGA
1 TCGA
251009 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:251506 original size:22 final size:22
Alignment explanation
Indices: 251481--251598 Score: 236
Period size: 22 Copynumber: 5.4 Consensus size: 22
251471 TCTCAATATT
251481 GCAATACCCATGGTCAGGTATC
1 GCAATACCCATGGTCAGGTATC
251503 GCAATACCCATGGTCAGGTATC
1 GCAATACCCATGGTCAGGTATC
251525 GCAATACCCATGGTCAGGTATC
1 GCAATACCCATGGTCAGGTATC
251547 GCAATACCCATGGTCAGGTATC
1 GCAATACCCATGGTCAGGTATC
251569 GCAATACCCATGGTCAGGTATC
1 GCAATACCCATGGTCAGGTATC
251591 GCAATACC
1 GCAATACC
251599 ACTGTAGATG
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 96 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (22 bp):
GCAATACCCATGGTCAGGTATC
Found at i:256586 original size:25 final size:25
Alignment explanation
Indices: 256540--256587 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
256530 GGGCCGGGCC
*
256540 GGGCTCGGGCTTAGCAATTTTTTTG
1 GGGCTCGGGCTTAGCAAATTTTTTG
*
256565 GGGC-CGGGCTTGGACAAATTTTT
1 GGGCTCGGGCTTAG-CAAATTTTT
256588 AGGCCTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.15, C:0.17, G:0.33, T:0.35
Consensus pattern (25 bp):
GGGCTCGGGCTTAGCAAATTTTTTG
Found at i:265370 original size:13 final size:13
Alignment explanation
Indices: 265354--265380 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
265344 AGAATTCTCG
265354 ATAAAAATTTTCC
1 ATAAAAATTTTCC
265367 ATAAAAATTTTCC
1 ATAAAAATTTTCC
265380 A
1 A
265381 AGGCACTGAA
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:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAAAAATTTTCC
Found at i:266407 original size:14 final size:15
Alignment explanation
Indices: 266388--266418 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
266378 TTTTAGTTCT
266388 TTTATATAT-TTTTA
1 TTTATATATATTTTA
266402 TTTATATATATTTTA
1 TTTATATATATTTTA
266417 TT
1 TT
266419 GTACATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATATATATTTTA
Done.