Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004767.1 Hibiscus syriacus cultivar Beakdansim tig00010750_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 242172
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:877 original size:25 final size:26
Alignment explanation
Indices: 829--884 Score: 105
Period size: 25 Copynumber: 2.2 Consensus size: 26
819 CTATTTTATG
829 AATTTGCAACATTGTGTCTGTATTTT
1 AATTTGCAACATTGTGTCTGTATTTT
855 AATTTGCAACATT-TGTCTGTATTTT
1 AATTTGCAACATTGTGTCTGTATTTT
880 AATTT
1 AATTT
885 TCAATAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 17 0.57
26 13 0.43
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (26 bp):
AATTTGCAACATTGTGTCTGTATTTT
Found at i:6876 original size:15 final size:14
Alignment explanation
Indices: 6853--6886 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
6843 TCCCCTCTAC
6853 CCCTCCCTCTCCACA
1 CCCTCCCTCTCC-CA
*
6868 CCCTGCCTCTCCCA
1 CCCTCCCTCTCCCA
6882 CCCTC
1 CCCTC
6887 GTCTCCCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.09, C:0.68, G:0.03, T:0.21
Consensus pattern (14 bp):
CCCTCCCTCTCCCA
Found at i:6882 original size:16 final size:15
Alignment explanation
Indices: 6840--6886 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 15
6830 CCTACAATTT
*
6840 CCCTCCC-CTCTAC-
1 CCCTCCCTCTCCACA
6853 CCCTCCCTCTCCACA
1 CCCTCCCTCTCCACA
*
6868 CCCTGCCTCTCC-CA
1 CCCTCCCTCTCCACA
6882 CCCTC
1 CCCTC
6887 GTCTCCCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 7 0.24
14 11 0.38
15 11 0.38
ACGTcount: A:0.09, C:0.68, G:0.02, T:0.21
Consensus pattern (15 bp):
CCCTCCCTCTCCACA
Found at i:12236 original size:16 final size:17
Alignment explanation
Indices: 12215--12247 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
12205 TGTAGTTTAA
*
12215 AAAATTGAT-ATATTTT
1 AAAATTAATAATATTTT
12231 AAAATTAATAATATTTT
1 AAAATTAATAATATTTT
12248 TATGTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
AAAATTAATAATATTTT
Found at i:16337 original size:41 final size:44
Alignment explanation
Indices: 16292--16384 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 44
16282 CAGAATTCTT
16292 TTCATCCAAC-AT-C-CGAGAATGGTATATAAGAACTTGTCAAA
1 TTCATCCAACTATGCGCGAGAATGGTATATAAGAACTTGTCAAA
** * *
16333 TTCATCTTACTTTGCGGAGGAGAATGGTATATAAGAACTTGTCAAA
1 TTCATCCAACTATGC-G-CGAGAATGGTATATAAGAACTTGTCAAA
16379 TTCATC
1 TTCATC
16385 TTACTTTGCG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
41 8 0.19
42 1 0.02
43 1 0.02
46 33 0.77
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (44 bp):
TTCATCCAACTATGCGCGAGAATGGTATATAAGAACTTGTCAAA
Found at i:16359 original size:46 final size:46
Alignment explanation
Indices: 16306--16401 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
16296 TCCAACATCC
16306 GAGAATGGTATATAAGAACTTGTCAAATTCATCTTACTTTGCGGAG
1 GAGAATGGTATATAAGAACTTGTCAAATTCATCTTACTTTGCGGAG
16352 GAGAATGGTATATAAGAACTTGTCAAATTCATCTTACTTTGCGGAG
1 GAGAATGGTATATAAGAACTTGTCAAATTCATCTTACTTTGCGGAG
16398 GAGA
1 GAGA
16402 GGAATCATGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (46 bp):
GAGAATGGTATATAAGAACTTGTCAAATTCATCTTACTTTGCGGAG
Found at i:20736 original size:13 final size:13
Alignment explanation
Indices: 20718--20743 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20708 AAATTAAGCG
20718 GGCTATTGCGGGC
1 GGCTATTGCGGGC
20731 GGCTATTGCGGGC
1 GGCTATTGCGGGC
20744 TACCCGCGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.46, T:0.23
Consensus pattern (13 bp):
GGCTATTGCGGGC
Found at i:21149 original size:15 final size:16
Alignment explanation
Indices: 21129--21169 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
21119 GTTTACTTCA
*
21129 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
21144 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
21160 GAATGATTCA
1 GAATGATTCA
21170 GAGGCTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:22884 original size:21 final size:20
Alignment explanation
Indices: 22858--22941 Score: 116
Period size: 21 Copynumber: 4.1 Consensus size: 20
22848 GGCTAAAATT
22858 ACTGTAGCAGGATATCAGTAC
1 ACTGTAGCAGG-TATCAGTAC
*
22879 ACTGTAGCAGGGTATCTGTAC
1 ACTGTAGCA-GGTATCAGTAC
22900 ACTGTAGCATGGTATCAGTAC
1 ACTGTAGCA-GGTATCAGTAC
*
22921 ACTGTAGCA-GTATCAATAC
1 ACTGTAGCAGGTATCAGTAC
22940 AC
1 AC
22942 CTTTTACATT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.19
21 45 0.78
22 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (20 bp):
ACTGTAGCAGGTATCAGTAC
Found at i:26123 original size:29 final size:30
Alignment explanation
Indices: 26090--26158 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
26080 ACAATCAATT
* *
26090 TAAAATA-AATATATG-AGCCTAAATTGTAA
1 TAAAATATAAT-TATGTAGACTAAAATGTAA
*
26119 TAAAATATAATTATGTTGACTAAAATGTAA
1 TAAAATATAATTATGTAGACTAAAATGTAA
*
26149 TAAAACATAA
1 TAAAATATAA
26159 AATAATAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.32
30 23 0.68
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.32
Consensus pattern (30 bp):
TAAAATATAATTATGTAGACTAAAATGTAA
Found at i:27538 original size:83 final size:84
Alignment explanation
Indices: 27335--27804 Score: 587
Period size: 84 Copynumber: 5.7 Consensus size: 84
27325 ACCATGCAGT
* * * * * * *
27335 TGATATGCCTATGAGCTGAATGAAATCGAACTCGAAAGTC-TTTGATAACAGATAA-CCTTCTCG
1 TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAG
* *
27398 CCTTGAGCTATGCTGTAAA
66 CCTTGAGTTATGCTGCAAA
27417 TTTGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCT
1 --TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCT
*
27481 CGCCTTGAGTTATGCTGCAAA
64 AGCCTTGAGTTATGCTGCAAA
* * * * *
27502 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAG
1 TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAG
27567 CC-TGAGTTATGCTGCAAA
66 CCTTGAGTTATGCTGCAAA
* * * * *
27585 TGATATACATTGGAGCTGAGTATAATCGAACTCGAAGGTC-TTTG--G-CAGATAACCCTTCTTG
1 TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAG
*
27646 CCTTGAGCTATGCTGCAAA
66 CCTTGAGTTATGCTGCAAA
* * * * *
27665 TGATACGCCTTTGAGCTGAGTGTAATTGAACTCGAAGGTCTTTTGTTGGCATATAACTCTTCTAG
1 TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAG
* *
27730 CTTTGAGTTATACTGCAAA
66 CCTTGAGTTATGCTGCAAA
* *
27749 TGATGTGTCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTTGTTGACAGATA
1 TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTTGTTGACAGATA
27805 CTCTTTCTTT
Statistics
Matches: 338, Mismatches: 40, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
79 17 0.05
80 50 0.15
81 4 0.01
82 4 0.01
83 87 0.26
84 138 0.41
85 38 0.11
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (84 bp):
TGATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGACAGATAACCCTTCTAG
CCTTGAGTTATGCTGCAAA
Found at i:27662 original size:163 final size:164
Alignment explanation
Indices: 27358--27791 Score: 552
Period size: 163 Copynumber: 2.6 Consensus size: 164
27348 AGCTGAATGA
* * ** * * *
27358 AATCGAACTCGAAAGTC-TTTGATAACAGATAA-CCTTCTCGCCTTGAGCTATGCTGTAAATTTG
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCC-TGAGTTATGCTGCAAA--TG
*
27421 ATATGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGCCT
63 ATAT-ACTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG-TGACAGATAACCCTTCTCGCCT
* **
27486 TGAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGT
126 TGAGCTATGCTGCAAATGATACGCCTTGGAGCTGAGCGT
*
27525 AGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTGAGTTATGCTGCAAATGATA
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTGAGTTATGCTGCAAATGATA
* * *
27590 TACATTGGAGCTGAGTATAATCGAACTCGAAGGTCTTTG-G-CAGATAACCCTTCTTGCCTTGAG
66 TAC-TTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTGACAGATAACCCTTCTCGCCTTGAG
* *
27653 CTATGCTGCAAATGATACGCCTTTGAGCTGAGTGT
130 CTATGCTGCAAATGATACGCCTTGGAGCTGAGCGT
* * * * *
27688 AATTGAACTCGAAGGTCTTTTGTTGGCATATAACTCTTCTAGCTTTGAGTTATACTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC-CTGAGTTATGCTGCAAATGAT
* *
27753 GTGTCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
65 AT-ACTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTT
27792 TTGTTGACAG
Statistics
Matches: 235, Mismatches: 27, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
163 91 0.39
164 53 0.23
165 2 0.01
166 39 0.17
167 15 0.06
168 26 0.11
169 9 0.04
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (164 bp):
AATCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTGAGTTATGCTGCAAATGATA
TACTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTGACAGATAACCCTTCTCGCCTTGAGC
TATGCTGCAAATGATACGCCTTGGAGCTGAGCGT
Found at i:28074 original size:48 final size:48
Alignment explanation
Indices: 28003--28125 Score: 201
Period size: 48 Copynumber: 2.6 Consensus size: 48
27993 CTTTGAATTG
** *
28003 GATATCCTTCGCCGGGAAGTTGAAATCCAATCTTGTGTAGATGGGCAC
1 GATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAGATGGGCAC
28051 GATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAGATGGGCAC
1 GATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAGATGGGCAC
* *
28099 GATATTCTTCATTGTGAAGTTGAAATC
1 GATATCCTTCGTTGTGAAGTTGAAATC
28126 GTGGATTTGT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (48 bp):
GATATCCTTCGTTGTGAAGTTGAAATCCAATCTTGTGTAGATGGGCAC
Found at i:28163 original size:43 final size:43
Alignment explanation
Indices: 28092--28262 Score: 234
Period size: 43 Copynumber: 4.0 Consensus size: 43
28082 CTTGTGTAGA
* * * *
28092 TGGGCACGATATTCTTCATTGTGAAGTTGAAATCGTGGATTTG
1 TGGGCACGATATTCTCCATCGTGGAGTTGAAATCGTGGATGTG
28135 TGGGCACGATATTCTCCATCGTGGAGTTGAAATCGTGGATGTG
1 TGGGCACGATATTCTCCATCGTGGAGTTGAAATCGTGGATGTG
* * *
28178 TGGGTACGATATTCTCCGTCGTGGAGTTAAAATCGTGGATGTG
1 TGGGCACGATATTCTCCATCGTGGAGTTGAAATCGTGGATGTG
* * * * *
28221 TGGGTACGATATCCTCCGTCGTGGAGTTGAAATTGTAGATGT
1 TGGGCACGATATTCTCCATCGTGGAGTTGAAATCGTGGATGT
28263 TTCGAGTCCA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 117 1.00
ACGTcount: A:0.22, C:0.14, G:0.31, T:0.33
Consensus pattern (43 bp):
TGGGCACGATATTCTCCATCGTGGAGTTGAAATCGTGGATGTG
Found at i:29791 original size:21 final size:18
Alignment explanation
Indices: 29743--29791 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
29733 TTTTTGTTTA
* *
29743 TTTTCTCTTTGCTTCTTT
1 TTTTCTTTTTGATTCTTT
29761 TTTTCTTTTTGATTCTTGT
1 TTTTCTTTTTGATTCTT-T
29780 TCTTTGCTTTTT
1 T-TTT-CTTTTT
29792 TTCTAATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 15 0.58
19 2 0.08
20 3 0.12
21 6 0.23
ACGTcount: A:0.02, C:0.16, G:0.08, T:0.73
Consensus pattern (18 bp):
TTTTCTTTTTGATTCTTT
Found at i:29811 original size:28 final size:29
Alignment explanation
Indices: 29757--29814 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
29747 CTCTTTGCTT
* *
29757 CTTTTTTTCTTTTTGATTCTTGTTCTTTG
1 CTTTTTTTCTATTTGATTCTTGATCTTTG
29786 CTTTTTTTCTAATTTGA-T-TTGATCTTTG
1 CTTTTTTTCT-ATTTGATTCTTGATCTTTG
29814 C
1 C
29815 ACTTGGCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 10 0.38
29 11 0.42
30 5 0.19
ACGTcount: A:0.09, C:0.14, G:0.10, T:0.67
Consensus pattern (29 bp):
CTTTTTTTCTATTTGATTCTTGATCTTTG
Found at i:32382 original size:18 final size:18
Alignment explanation
Indices: 32359--32427 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 18
32349 ATATTCAAAG
32359 ATAAATAATTGAAATCGA
1 ATAAATAATTGAAATCGA
* *
32377 ATAAATAAATTAAAATTATTCAAA
1 ATAAAT-AATT-GAA--A-TC-GA
32401 GATAAATAATTGAAATCGA
1 -ATAAATAATTGAAATCGA
32420 ATAAATAA
1 ATAAATAA
32428 ATTAAAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 14
0.69 0.07 0.24
Matches are distributed among these distances:
18 14 0.35
19 5 0.12
20 4 0.10
21 1 0.03
22 1 0.03
23 4 0.10
24 5 0.12
25 6 0.15
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.29
Consensus pattern (18 bp):
ATAAATAATTGAAATCGA
Found at i:32393 original size:25 final size:25
Alignment explanation
Indices: 32365--32441 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 25
32355 AAAGATAAAT
32365 AATTGAAATCGAATAAATAAATTAA
1 AATTGAAATCGAATAAATAAATTAA
* *
32390 AATT--ATTC-AA-AGATAAA-T--
1 AATTGAAATCGAATAAATAAATTAA
32408 AATTGAAATCGAATAAATAAATTAA
1 AATTGAAATCGAATAAATAAATTAA
*
32433 AATTAAAAT
1 AATTGAAAT
32442 TTACCATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 14
0.68 0.08 0.24
Matches are distributed among these distances:
18 4 0.10
20 4 0.10
21 8 0.20
22 8 0.20
23 4 0.10
25 12 0.30
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (25 bp):
AATTGAAATCGAATAAATAAATTAA
Found at i:32406 original size:43 final size:43
Alignment explanation
Indices: 32345--32437 Score: 177
Period size: 43 Copynumber: 2.2 Consensus size: 43
32335 TATTTATTTG
*
32345 AAAAATATTCAAAGATAAATAATTGAAATCGAATAAATAAATT
1 AAAATTATTCAAAGATAAATAATTGAAATCGAATAAATAAATT
32388 AAAATTATTCAAAGATAAATAATTGAAATCGAATAAATAAATT
1 AAAATTATTCAAAGATAAATAATTGAAATCGAATAAATAAATT
32431 AAAATTA
1 AAAATTA
32438 AAATTTACCA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (43 bp):
AAAATTATTCAAAGATAAATAATTGAAATCGAATAAATAAATT
Found at i:34389 original size:21 final size:21
Alignment explanation
Indices: 34364--34412 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
34354 AAAGAGTATA
34364 AAATAATCCATAAGATAAAAT
1 AAATAATCCATAAGATAAAAT
*
34385 AAATAATCCATAATATAAAAT
1 AAATAATCCATAAGATAAAAT
34406 AAATAAT
1 AAATAAT
34413 TTTTTACCGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATAATCCATAAGATAAAAT
Found at i:34405 original size:17 final size:19
Alignment explanation
Indices: 34355--34407 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
34345 AAATGATAAA
34355 AAGAGTATAAAATAATCCAT
1 AAGA-TATAAAATAATCCAT
*
34375 AAGATAAAATAAATAATCCAT
1 AAGAT-ATA-AAATAATCCAT
34396 -A-ATATAAAATAA
1 AAGATATAAAATAA
34408 ATAATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 3 0.10
20 7 0.24
21 11 0.38
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (19 bp):
AAGATATAAAATAATCCAT
Found at i:35330 original size:31 final size:31
Alignment explanation
Indices: 35268--35333 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
35258 TTTATGAGTT
* *
35268 AAATTGATATTTTATTTAAAGTTCAATGGTC
1 AAATTGATATTTTATATAAAGTTCAAGGGTC
* * *
35299 AAATTGATATTTTGTATAAATTTTAAGGGTC
1 AAATTGATATTTTATATAAAGTTCAAGGGTC
35330 AAAT
1 AAAT
35334 CAGTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.44
Consensus pattern (31 bp):
AAATTGATATTTTATATAAAGTTCAAGGGTC
Found at i:38850 original size:19 final size:19
Alignment explanation
Indices: 38823--38859 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38813 CTAACGTTTC
*
38823 AAACTTTATATTTTTAGGG
1 AAACATTATATTTTTAGGG
38842 AAACATTATATTTTTAGG
1 AAACATTATATTTTTAGG
38860 TGCATGATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (19 bp):
AAACATTATATTTTTAGGG
Found at i:40171 original size:21 final size:21
Alignment explanation
Indices: 40145--40206 Score: 90
Period size: 21 Copynumber: 2.9 Consensus size: 21
40135 TCATGGCCCT
40145 GGATGAGAAATTAGGACTTAA
1 GGATGAGAAATTAGGACTTAA
40166 GGATGAGAAATTAGGA-TTAA
1 GGATGAGAAATTAGGACTTAA
*
40186 GAATCGAGAAATTAGGGACTT
1 GGAT-GAGAAATTA-GGACTT
40207 GGAAAATGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 7 0.19
21 25 0.68
22 3 0.08
23 2 0.05
ACGTcount: A:0.42, C:0.05, G:0.29, T:0.24
Consensus pattern (21 bp):
GGATGAGAAATTAGGACTTAA
Found at i:40887 original size:24 final size:24
Alignment explanation
Indices: 40858--40929 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
40848 TTGCAAGCAC
*
40858 CTGTGAATCAAACCAGGAATGAAG
1 CTGTGAATCAAATCAGGAATGAAG
*
40882 CTGTGAATCAAATCAGGAATAAAG
1 CTGTGAATCAAATCAGGAATGAAG
* * *
40906 TTGTGCATCAAATCAAGAATGAAG
1 CTGTGAATCAAATCAGGAATGAAG
40930 GTAAGCAACC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (24 bp):
CTGTGAATCAAATCAGGAATGAAG
Found at i:44249 original size:37 final size:37
Alignment explanation
Indices: 44208--44279 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
44198 GTTGGAGGAT
44208 GTGTATAGATTACAGACAACTAAATGCCCTGACTACA
1 GTGTATAGATTACAGACAACTAAATGCCCTGACTACA
44245 GTGTATAGATTACAGACAACTAAATGCCCTGACTA
1 GTGTATAGATTACAGACAACTAAATGCCCTGACTA
44280 TAAAAAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.25
Consensus pattern (37 bp):
GTGTATAGATTACAGACAACTAAATGCCCTGACTACA
Found at i:49315 original size:23 final size:19
Alignment explanation
Indices: 49289--49337 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
49279 GAGAATTCTG
49289 TTTTCTTCAGTCTATCTTCTCTA
1 TTTTCTT-AGT-TAT-TTCT-TA
49312 TTTTCTTAGTTATTTCTTA
1 TTTTCTTAGTTATTTCTTA
*
49331 ATTTCTT
1 TTTTCTT
49338 GAGTAGACCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 4 0.16
21 3 0.12
22 3 0.12
23 7 0.28
ACGTcount: A:0.14, C:0.18, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTCTTAGTTATTTCTTA
Found at i:50628 original size:20 final size:20
Alignment explanation
Indices: 50603--50640 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
50593 TACATGTTAA
50603 AGAATGCATCGATGCACTAT
1 AGAATGCATCGATGCACTAT
50623 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
50641 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTAT
Found at i:57494 original size:28 final size:28
Alignment explanation
Indices: 57462--57520 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
57452 TGTATATTTC
57462 CTTGCTAATATATATGTTTTATTGCTTA
1 CTTGCTAATATATATGTTTTATTGCTTA
* *
57490 CTTGCTACTATATTTGTTTTATTGCTTA
1 CTTGCTAATATATATGTTTTATTGCTTA
57518 CTT
1 CTT
57521 TTAAATATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.20, C:0.14, G:0.10, T:0.56
Consensus pattern (28 bp):
CTTGCTAATATATATGTTTTATTGCTTA
Found at i:57531 original size:24 final size:26
Alignment explanation
Indices: 57473--57531 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
57463 TTGCTAATAT
*
57473 ATATGTTTTATTGCTTACTTGCTACTAT
1 ATATGTTTTATTGCTTACTT-CTA-TAA
*
57501 ATTTGTTTTATTGCTTACTT-T-TAA
1 ATATGTTTTATTGCTTACTTCTATAA
57525 ATATGTT
1 ATATGTT
57532 ACCTCGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 8 0.29
26 1 0.04
28 19 0.68
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.58
Consensus pattern (26 bp):
ATATGTTTTATTGCTTACTTCTATAA
Found at i:57713 original size:42 final size:42
Alignment explanation
Indices: 57645--57769 Score: 207
Period size: 42 Copynumber: 3.0 Consensus size: 42
57635 CTTGTTAAAC
*
57645 CTTCTAATAATCCGATT-AAAATTTTCAATGATTCACCTAATA
1 CTTCTAATAATCCTATTGAAAA-TTTCAATGATTCACCTAATA
*
57687 CTTCTAATAATTCTATTGAAAATTTCAATGATTCACCTAATA
1 CTTCTAATAATCCTATTGAAAATTTCAATGATTCACCTAATA
*
57729 CTTCTAATAATCCTATTGAAAATTCCAATGATTCACCTAAT
1 CTTCTAATAATCCTATTGAAAATTTCAATGATTCACCTAAT
57770 GATTCGGTTA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 74 0.95
43 4 0.05
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (42 bp):
CTTCTAATAATCCTATTGAAAATTTCAATGATTCACCTAATA
Found at i:60712 original size:12 final size:12
Alignment explanation
Indices: 60677--60715 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
60667 ATTTTCCTAC
*
60677 TATATACATATG
1 TATATATATATG
60689 TATATATATATG
1 TATATATATATG
* *
60701 TATGTATGTATG
1 TATATATATATG
60713 TAT
1 TAT
60716 TAGTTTACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.49
Consensus pattern (12 bp):
TATATATATATG
Found at i:61505 original size:13 final size:12
Alignment explanation
Indices: 61484--61522 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
61474 CACTAATGAT
61484 AAATAAAATAAATA
1 AAAT-AAATAAA-A
61498 AAATAAATAACAA
1 AAATAAATAA-AA
61511 AAATAAATAAAA
1 AAATAAATAAAA
61523 GTTAGTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.08
13 17 0.71
14 5 0.21
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATAAATAAAA
Found at i:61522 original size:9 final size:9
Alignment explanation
Indices: 61482--61521 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
61472 TACACTAATG
61482 ATAAATAAA
1 ATAAATAAA
61491 ATAAATAAA
1 ATAAATAAA
61500 ATAAATAACA
1 ATAAATAA-A
61510 A-AAAT-AA
1 ATAAATAAA
61517 ATAAA
1 ATAAA
61522 AGTTAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 2 0.07
8 4 0.14
9 21 0.72
10 2 0.07
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (9 bp):
ATAAATAAA
Found at i:63288 original size:106 final size:106
Alignment explanation
Indices: 63080--64462 Score: 2108
Period size: 106 Copynumber: 13.3 Consensus size: 106
63070 TGTTTCGAGG
* * *
63080 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACAATCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
* * * * *
63139 CTGCCCCTTCGTCGTGAAATTGAGCTTGTGTTGTCTTGG-GT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGT
* * * * *
63180 CCAAGATCCTTCGCTGAGAAGTCGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
63245 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
63286 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
63351 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
63392 ACAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
*
63457 CGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
63498 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATCGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
63563 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
63604 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
*
63669 CGGTCCCTTCCTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
63710 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
63775 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
63816 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
63881 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
63922 CCAATATCCTTCG-T-T---G-CG-AA---G-T-TGAAATTGGGAAGTTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
63975 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
64016 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
*
64081 CGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
64122 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
64187 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
64228 CCAATATCCTTCG-T-T---G-CG-AA---G-T-TGAAATTGGGAAGTTGTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
* *
64281 CGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
64322 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
64387 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
64428 TCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
64463 CGAGCAATAT
Statistics
Matches: 1186, Mismatches: 66, Indels: 56
0.91 0.05 0.04
Matches are distributed among these distances:
94 160 0.13
95 4 0.00
96 4 0.00
99 6 0.01
100 36 0.03
101 8 0.01
102 1 0.00
104 7 0.01
105 8 0.01
106 952 0.80
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
Found at i:64041 original size:306 final size:306
Alignment explanation
Indices: 63080--64462 Score: 2123
Period size: 306 Copynumber: 4.5 Consensus size: 306
63070 TGTTTCGAGG
* *
63080 CCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAAA-T-TTTGTTGACAATCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
* * * * * * * *
63139 CTGCCCCTTCGTCGTGAAATTGAGCTTGTGTTGTCTTGG-GTCCAAGATCCTTCGCTGAGAAGTC
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TGGAGTCCAATATCCTTCGCTGTGAAGTT
* * *
63203 GAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
130 GAAATTGGCTCTGAAATTAGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
*
63268 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
195 ACTTGCGTTGTCTGGAGTCCAATATCCTTCG-T-T---G-CG-AA---G-T-TGAAATTGGGAAG
63333 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
248 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
63392 ACAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
*
63457 CGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
* * *
63522 AAATTGGCTCTGAAATTGGGAAATTGTTTATCGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 AAATTGGCTCTGAAATTAGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* *
63587 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAAT
196 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGG----G--A--A-G---T
* * *
63652 TATTTGTTGACAACCAGCGGTCCCTTCCTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
249 TGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
63710 CCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
63775 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
*
63840 AAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 AAATTGGCTCTGAAATTAGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
63905 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGGAAGTTGTTTATTGACA
196 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGGAAGTTGTTTATTGACA
63970 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
261 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * *
64016 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
* *
64081 CGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
*
64146 AAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 AAATTGGCTCTGAAATTAGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
64211 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGGAAGTTGTTTATTGACA
196 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGGAAGTTGTTTATTGACA
* *
64276 ACCAGCGGTCCTTTCGTCGTGAAGTTGAACTTGCGTTGTCTAGAGT
261 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * *
64322 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAATTTTTTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
* *
64387 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTTCAATATCCTTCGTTGTGAAGTTG
66 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
64452 AAATTGGCTCT
131 AAATTGGCTCT
64463 CGAGCAATAT
Statistics
Matches: 1011, Mismatches: 41, Indels: 44
0.92 0.04 0.04
Matches are distributed among these distances:
306 501 0.50
307 1 0.00
308 1 0.00
309 1 0.00
310 2 0.00
311 2 0.00
312 38 0.04
313 3 0.00
314 3 0.00
315 1 0.00
316 5 0.00
317 4 0.00
318 449 0.44
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (306 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTATTTGTTGACAACCAG
CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTG
AAATTGGCTCTGAAATTAGGAAATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGCGAAGTTGAAATTGGGAAGTTGTTTATTGACA
ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
Found at i:68209 original size:13 final size:12
Alignment explanation
Indices: 68188--68226 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 12
68178 CACTAATGAT
68188 AAATAAAATAAATA
1 AAAT-AAATAAA-A
68202 AAATAAATAACAA
1 AAATAAATAA-AA
68215 AAATAAATAAAA
1 AAATAAATAAAA
68227 GTTAGTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.08
13 17 0.71
14 5 0.21
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATAAATAAAA
Found at i:68226 original size:9 final size:9
Alignment explanation
Indices: 68186--68225 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
68176 TACACTAATG
68186 ATAAATAAA
1 ATAAATAAA
68195 ATAAATAAA
1 ATAAATAAA
68204 ATAAATAACA
1 ATAAATAA-A
68214 A-AAAT-AA
1 ATAAATAAA
68221 ATAAA
1 ATAAA
68226 AGTTAGTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 2 0.07
8 4 0.14
9 21 0.72
10 2 0.07
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (9 bp):
ATAAATAAA
Found at i:70070 original size:15 final size:15
Alignment explanation
Indices: 70050--70080 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
70040 ATTATTGATG
70050 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
70065 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
70080 A
1 A
70081 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:74020 original size:44 final size:44
Alignment explanation
Indices: 73957--74049 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
73947 GCAATAAAGC
* *
73957 CAAGAGGCAAGAACCATCCCCAGTAGTTTCAGATGCTCTGGTCT
1 CAAGAGGCAAGAACCATCCCCAGTAGTTACAGAGGCTCTGGTCT
74001 CAAGAGGCAAGAACCATCCCCAGTAGTTACAGAGGCTCTGGTCT
1 CAAGAGGCAAGAACCATCCCCAGTAGTTACAGAGGCTCTGGTCT
74045 CAAGA
1 CAAGA
74050 TCCACTGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (44 bp):
CAAGAGGCAAGAACCATCCCCAGTAGTTACAGAGGCTCTGGTCT
Found at i:78744 original size:22 final size:22
Alignment explanation
Indices: 78719--78768 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
78709 TGTAGTATAC
* * *
78719 TCAATTTAGCATTCGAAGTTGT
1 TCAATTTAACATTCGAAATTAT
78741 TCAATTTAACATTCGAAATTAT
1 TCAATTTAACATTCGAAATTAT
78763 TCAATT
1 TCAATT
78769 ATATCATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (22 bp):
TCAATTTAACATTCGAAATTAT
Found at i:81654 original size:2 final size:2
Alignment explanation
Indices: 81647--81676 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
81637 ATAATTTTAA
81647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81677 TTGAAACACC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89376 original size:21 final size:21
Alignment explanation
Indices: 89324--89376 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
89314 GTTTCCAGAT
*
89324 TCGCAACACGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
* *
89345 TCGCAACGCGAACTTGGACTG
1 TCGCAACGCGAACTTCGACTA
*
89366 TCGCAATGCGA
1 TCGCAACGCGA
89377 TTTACATATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:89438 original size:40 final size:40
Alignment explanation
Indices: 89391--89601 Score: 359
Period size: 40 Copynumber: 5.2 Consensus size: 40
89381 CATATTCGCA
*
89391 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
89431 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
*
89471 TTGCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
89513 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
*
89553 TTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
89595 TTGCGAT
1 TTGCGAT
89602 TTATTCCAAA
Statistics
Matches: 163, Mismatches: 4, Indels: 6
0.94 0.02 0.03
Matches are distributed among these distances:
40 102 0.63
41 6 0.04
42 55 0.34
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCG
Found at i:89524 original size:82 final size:82
Alignment explanation
Indices: 89391--89601 Score: 381
Period size: 82 Copynumber: 2.6 Consensus size: 82
89381 CATATTCGCA
*
89391 TTGCGATAGTCCAAGTTCGCGTTGCGA-TT-TTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
89454 GCGATTTTCCAAATTCG
66 GCGATTTTCCAAATTCG
*
89471 TTGCGATAGTCGAAGTTTGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
89536 GCGATTTTCCAAATTCG
66 GCGATTTTCCAAATTCG
*
89553 TTGCGATAGTTGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGAT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGAT
89602 TTATTCCAAA
Statistics
Matches: 125, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
80 25 0.20
81 2 0.02
82 98 0.78
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.36
Consensus pattern (82 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTT
GCGATTTTCCAAATTCG
Found at i:89596 original size:21 final size:20
Alignment explanation
Indices: 89410--89635 Score: 164
Period size: 21 Copynumber: 11.2 Consensus size: 20
89400 TCCAAGTTCG
89410 CGTTGCGATT-TTCCAAATT
1 CGTTGCGATTATTCCAAATT
* * *
89429 CGTTGCGA-TAGTCGAAGTT
1 CGTTGCGATTATTCCAAATT
89448 CGCGTTGCGATT-TTCCAAATT
1 --CGTTGCGATTATTCCAAATT
* * *
89469 CGTTGCGA-TAGTCGAAGTTT
1 CGTTGCGATTATTCCAA-ATT
89489 GCGTTGCGATTTATTCCAAATT
1 -CGTTGCGA-TTATTCCAAATT
* * *
89511 CGTTGCGA-TAGTCGAAGTT
1 CGTTGCGATTATTCCAAATT
89530 CGCGTTGCGATT-TTCCAAATT
1 --CGTTGCGATTATTCCAAATT
* *
89551 CGTTGCGA-TAGTT-GAAGTT
1 CGTTGCGATTA-TTCCAAATT
89570 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGA-TTATTCCAAATT
89593 CGTTGCGATTTATTCCAAATT
1 CGTTGCGA-TTATTCCAAATT
* *
89614 CGTTGCGA-TAGTCCAAAAT
1 CGTTGCGATTATTCCAAATT
89633 CGT
1 CGT
89636 AACAACTGGT
Statistics
Matches: 164, Mismatches: 24, Indels: 38
0.73 0.11 0.17
Matches are distributed among these distances:
18 3 0.02
19 58 0.35
20 4 0.02
21 81 0.49
22 6 0.04
23 12 0.07
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTATTCCAAATT
Found at i:90246 original size:6 final size:6
Alignment explanation
Indices: 90235--90259 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
90225 CTGTCTCGTC
90235 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
90260 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:90389 original size:21 final size:20
Alignment explanation
Indices: 90332--90398 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 20
90322 AATGCAATAC
*
90332 AGCGAACTTCGACTATCGCA
1 AGCGAACTTAGACTATCGCA
* **
90352 A-CGAATTTAGAAAATCGCA
1 AGCGAACTTAGACTATCGCA
*
90371 ACGCGAACTTGGACTATCGCA
1 A-GCGAACTTAGACTATCGCA
90392 ATGCGAA
1 A-GCGAA
90399 TATGTAAATC
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
19 15 0.42
20 1 0.03
21 20 0.56
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (20 bp):
AGCGAACTTAGACTATCGCA
Found at i:100373 original size:146 final size:146
Alignment explanation
Indices: 100109--100409 Score: 530
Period size: 146 Copynumber: 2.1 Consensus size: 146
100099 AAATCCTCAT
* *
100109 TCCTTGTTCTGTTACAGTATTGAATGAAGAACTCCGCTTTTCAGTTGGTTTTCCTTCTATGGTTT
1 TCCTTGTTCTGTCACAGTATTGAATGAAGAACTCCGCTTTTCAGTTGGTTTTCCTTCTAGGGTTT
*
100174 AAGCATTTTGAAACTCTAGTAGGATTCATAAGCTATAAAACCAAAACAATTAACAGTGTTCAATT
66 AAGCATTTTGAAACTCTAGTAGGATTCATAAACTATAAAACCAAAACAATTAACAGTGTTCAATT
100239 GAACCTCATCAGTCGC
131 GAACCTCATCAGTCGC
* * *
100255 TCCTTGTTCTGTCACAGTATTGAATGAAGAACTCTGTTTTTCAGTTGGTTTTTCTTCTAGGGTTT
1 TCCTTGTTCTGTCACAGTATTGAATGAAGAACTCCGCTTTTCAGTTGGTTTTCCTTCTAGGGTTT
100320 AAGCATTTTGAAACTCTAGTAGGATTCATAAACTATAAAACCAAAACAATTAACAGTGTTCAATT
66 AAGCATTTTGAAACTCTAGTAGGATTCATAAACTATAAAACCAAAACAATTAACAGTGTTCAATT
*
100385 GAATCTCATCAGTCGC
131 GAACCTCATCAGTCGC
*
100401 TCCTCGTTC
1 TCCTTGTTC
100410 GCTGCTTTCG
Statistics
Matches: 147, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 147 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (146 bp):
TCCTTGTTCTGTCACAGTATTGAATGAAGAACTCCGCTTTTCAGTTGGTTTTCCTTCTAGGGTTT
AAGCATTTTGAAACTCTAGTAGGATTCATAAACTATAAAACCAAAACAATTAACAGTGTTCAATT
GAACCTCATCAGTCGC
Found at i:100690 original size:15 final size:16
Alignment explanation
Indices: 100653--100691 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
100643 CTTATTTCAT
*
100653 TTATTTTTTTAATTAA
1 TTATTGTTTTAATTAA
*
100669 GTATTGTTTTAATT-A
1 TTATTGTTTTAATTAA
100684 TTATTGTT
1 TTATTGTT
100692 AAACCCATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.67
Consensus pattern (16 bp):
TTATTGTTTTAATTAA
Found at i:100788 original size:22 final size:22
Alignment explanation
Indices: 100763--100809 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
100753 GGTACATGTG
100763 TAAGATATAAGGTCAGGATAAT
1 TAAGATATAAGGTCAGGATAAT
* *
100785 TAAGATATAGGGTCATGATAAT
1 TAAGATATAAGGTCAGGATAAT
100807 TAA
1 TAA
100810 ATTGTATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.30
Consensus pattern (22 bp):
TAAGATATAAGGTCAGGATAAT
Found at i:103641 original size:20 final size:21
Alignment explanation
Indices: 103605--103643 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
103595 AGTGTCGGGG
103605 TTGTGATTTAGGATTTAGGGA
1 TTGTGATTTAGGATTTAGGGA
103626 TTGTG-TTTAAGG-TTTAGG
1 TTGTGATTT-AGGATTTAGG
103644 TATTACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (21 bp):
TTGTGATTTAGGATTTAGGGA
Found at i:103997 original size:24 final size:24
Alignment explanation
Indices: 103970--104015 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
103960 TAAAAATTCA
103970 TAAAAATATAT-TATTTTATTATTT
1 TAAAAATATATATATTTT-TTATTT
**
103994 TAAATTTATATATATTTTTTAT
1 TAAAAATATATATATTTTTTAT
104016 AAAATTTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TAAAAATATATATATTTTTTATTT
Found at i:104051 original size:17 final size:17
Alignment explanation
Indices: 104009--104053 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
103999 TTATATATAT
104009 TTTTTATAAAATTTAGA
1 TTTTTATAAAATTTAGA
*
104026 --TTCATAAAATTT-GTA
1 TTTTTATAAAATTTAG-A
104041 TTTTTATAAAATT
1 TTTTTATAAAATT
104054 GAAAAGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
14 1 0.04
15 12 0.52
17 10 0.43
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTTTATAAAATTTAGA
Found at i:111893 original size:26 final size:28
Alignment explanation
Indices: 111833--111894 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
111823 GATTATTGCT
*
111833 GAGCTCGACTCGACTCGAAAACTCTGAAATG
1 GAGCTCGACTCGACTCGAAAACTCTG--A-C
111864 GAGCTCGACTCGACTCGAAAACTC-G-C
1 GAGCTCGACTCGACTCGAAAACTCTGAC
111890 GAGCT
1 GAGCT
111895 TAAAATTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 5 0.17
30 1 0.03
31 24 0.80
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (28 bp):
GAGCTCGACTCGACTCGAAAACTCTGAC
Found at i:127690 original size:41 final size:40
Alignment explanation
Indices: 127640--127724 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 40
127630 AATTACATTT
* * *
127640 AATTCACAACATTAAGGTTTAAATTTCTGATCTTACAAGGA
1 AATTAACAACATGAAGGTTTAAATTTCTGATCTTA-AAAGA
* * *
127681 AATTAACAACATGAATGTTTAAATTTTTTATCTTAAAAGA
1 AATTAACAACATGAAGGTTTAAATTTCTGATCTTAAAAGA
127721 AATT
1 AATT
127725 TAGTACCTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (40 bp):
AATTAACAACATGAAGGTTTAAATTTCTGATCTTAAAAGA
Found at i:132122 original size:36 final size:35
Alignment explanation
Indices: 132075--132145 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 35
132065 AAAGTACACA
*
132075 AGACATAACACCCCTAAACTATGTTCGAATGATCAT
1 AGACATAACACCCCTAAACTA-GTTCAAATGATCAT
132111 AGACATAACACCCCTAAACTAGTTCAAATGATCAT
1 AGACATAACACCCCTAAACTAGTTCAAATGATCAT
132146 TTTGATCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (35 bp):
AGACATAACACCCCTAAACTAGTTCAAATGATCAT
Found at i:136110 original size:12 final size:14
Alignment explanation
Indices: 136080--136111 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
136070 CTTTCCATGC
136080 CCATTCTACAAATA
1 CCATTCTACAAATA
136094 CCATTCT-CAAA-A
1 CCATTCTACAAATA
136106 CCATTC
1 CCATTC
136112 GAAACAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 4 0.22
14 7 0.39
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (14 bp):
CCATTCTACAAATA
Found at i:137397 original size:3 final size:3
Alignment explanation
Indices: 137389--137430 Score: 59
Period size: 3 Copynumber: 13.7 Consensus size: 3
137379 TACAAAAATG
137389 TAA TAA TAAA TAA TAA TTAA TAA TAA TAA TAA TAA T-A TAA TA
1 TAA TAA T-AA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TA
137431 TTTTTTCGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.78
4 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:137428 original size:17 final size:20
Alignment explanation
Indices: 137389--137430 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
137379 TACAAAAATG
137389 TAATAATAAATAATAATTAA
1 TAATAATAAATAATAATTAA
137409 TAATAAT-AATAATAATATAA
1 TAATAATAAATAATAAT-TAA
137429 TA
1 TA
137431 TTTTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAATAAATAATAATTAA
Found at i:138634 original size:3 final size:3
Alignment explanation
Indices: 138626--138657 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
138616 TTAGCACTAT
138626 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
138658 GAAGAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:140117 original size:36 final size:36
Alignment explanation
Indices: 140043--140117 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
140033 TTTTTATATT
*
140043 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
*
140079 TTTAATTTT-TAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
140115 TTT
1 TTT
140118 GTAATATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 17 0.49
36 18 0.51
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:140586 original size:31 final size:31
Alignment explanation
Indices: 140551--140643 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 31
140541 TAATTTAAAA
*
140551 ATATTTTATTTTTATTTTAATTTAAAAATAT
1 ATATTTTATTCTTATTTTAATTTAAAAATAT
* ** *
140582 ATATTTTATTCTTATCTT-AGCT-CAAATAT
1 ATATTTTATTCTTATTTTAATTTAAAAATAT
**
140611 ATATTTTATGGTTATTTTAAATTTTAAAAATAT
1 ATATTTTATTCTTATTTT-AA-TTTAAAAATAT
140644 TTCTATAACA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
29 21 0.45
30 2 0.04
31 17 0.36
32 1 0.02
33 6 0.13
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (31 bp):
ATATTTTATTCTTATTTTAATTTAAAAATAT
Found at i:140903 original size:27 final size:27
Alignment explanation
Indices: 140873--140926 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
140863 AATAAACTAA
140873 AATAAAATAAATT-TCAAAAAATAAGAT
1 AATAAAATAAATTCT-AAAAAATAAGAT
*
140900 AATAAATTAAATTCTAAAAAATAAGAT
1 AATAAAATAAATTCTAAAAAATAAGAT
140927 GACATGTGAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.28
Consensus pattern (27 bp):
AATAAAATAAATTCTAAAAAATAAGAT
Found at i:144719 original size:31 final size:31
Alignment explanation
Indices: 144663--144722 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
144653 ATAAACCTTA
*
144663 AAATGAGAAAGGAATCTGGACTTGAGTTCAT
1 AAATGAGAAAGGAATCAGGACTTGAGTTCAT
*
144694 AAATGAGAAAGGAAT-AGGTCATTGAGTTC
1 AAATGAGAAAGGAATCAGGAC-TTGAGTTC
144723 TGCTCGAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.40, C:0.08, G:0.27, T:0.25
Consensus pattern (31 bp):
AAATGAGAAAGGAATCAGGACTTGAGTTCAT
Found at i:145847 original size:20 final size:20
Alignment explanation
Indices: 145819--145856 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
145809 TAAAAGCTGG
*
145819 TTTCGCTGGAATACTTATTA
1 TTTCGCTGGAACACTTATTA
*
145839 TTTCTCTGGAACACTTAT
1 TTTCGCTGGAACACTTAT
145857 ACTTAATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.45
Consensus pattern (20 bp):
TTTCGCTGGAACACTTATTA
Found at i:146670 original size:2 final size:2
Alignment explanation
Indices: 146663--146693 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
146653 CTGCAAATGA
146663 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
146694 GTATGTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:147509 original size:20 final size:20
Alignment explanation
Indices: 147484--147550 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
147474 TTTTCCCAAT
147484 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
147504 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
147525 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
147545 TCGCAA
1 TCGCAA
147551 CGCAAATTGG
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:147527 original size:21 final size:21
Alignment explanation
Indices: 147501--147576 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
147491 GCGAATAAGT
147501 AAATCGCAACGCGAATTGGGA
1 AAATCGCAACGCGAATTGGGA
* ** *
147522 AAATCGCAATGCGAA-TAAGT
1 AAATCGCAACGCGAATTGGGA
*
147542 AAATCGCAACGCAAATTGGGA
1 AAATCGCAACGCGAATTGGGA
*
147563 AAATCGCAATGCGA
1 AAATCGCAACGCGA
147577 TACTTACTAT
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 15 0.35
21 28 0.65
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.16
Consensus pattern (21 bp):
AAATCGCAACGCGAATTGGGA
Found at i:147541 original size:41 final size:41
Alignment explanation
Indices: 147484--147576 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
147474 TTTTCCCAAT
*
147484 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCAAATTGGGAAAA
147525 TCGCAATGCGAATAAGTAAATCGCAACGCAAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCAAATTGGGAAAA
147566 TCGCAATGCGA
1 TCGCAATGCGA
147577 TACTTACTAT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCAAATTGGGAAAA
Found at i:147589 original size:41 final size:41
Alignment explanation
Indices: 147503--147635 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 41
147493 GAATAAGTAA
* ** *
147503 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCAAATTGGGAAAATCGCAATGCG-ATACTTACT
147544 ATCGCAACGCAAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCAAATTGGGAAAATCGCAATGCGATACTTACT
* ** * *
147585 ATCGCAATGCGATAA-T-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGC-A-AATTGGGAAAATCGCAATGCGATACTTACT
*
147626 TTCGCAACGC
1 ATCGCAACGC
147636 GATACTGACT
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 5 0.06
41 69 0.88
42 2 0.03
43 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCAAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:147590 original size:20 final size:20
Alignment explanation
Indices: 147565--147679 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
147555 AATTGGGAAA
*
147565 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * * **
147585 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-TACT
*
147606 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
147626 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
147646 TTCGCAACGCGATAC-TACAT
1 ATCGCAACGCGATACTTAC-T
*
147666 AATCGCAATGCGAT
1 -ATCGCAACGCGAT
147680 TTTCAAAGCG
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 49 0.64
21 25 0.33
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:147875 original size:22 final size:22
Alignment explanation
Indices: 147847--147890 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
147837 CACTCTCTCA
147847 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
147869 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
147891 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:149533 original size:18 final size:18
Alignment explanation
Indices: 149512--149556 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
149502 TCCACTTCGG
*
149512 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
149530 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
149548 GAGCCATCA
1 GAGCCATCA
149557 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:150079 original size:19 final size:20
Alignment explanation
Indices: 150025--150091 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
150015 TAGTTTACTT
* *
150025 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
150045 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
150065 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
150084 TCGCAACG
1 TCGCAACG
150092 ACAAAATTGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:150122 original size:32 final size:33
Alignment explanation
Indices: 150064--150154 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
150054 GGAAATGGCT
150064 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
150097 ATTGCAATGCAAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
150129 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
150155 TGCGATTTGT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
32 29 0.56
33 23 0.44
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:150132 original size:14 final size:14
Alignment explanation
Indices: 150080--150137 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
150070 ATGCGAAATG
150080 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* * *
150094 AAAATTGCAATGCAAA
1 AAAATCGCAA--CGAC
150110 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
150126 AAAATCGCAACG
1 AAAATCGCAACG
150138 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
14 20 0.59
16 6 0.18
18 8 0.24
ACGTcount: A:0.50, C:0.22, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:150190 original size:14 final size:14
Alignment explanation
Indices: 150171--150228 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
150161 TTGTGTTTCG
150171 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
150185 CGTTGCGATTTCATTTT
1 CGTTGCGA-TT--TTGT
150202 GCGTTGCGATTTTGT
1 -CGTTGCGATTTTGT
*
150217 CATTGCGATTTT
1 CGTTGCGATTTT
150229 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 19 0.51
15 5 0.14
17 5 0.14
18 8 0.22
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:150208 original size:18 final size:19
Alignment explanation
Indices: 150178--150213 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
150168 TCGCGTTGCG
150178 ATTTTGTCGTTGCGATTTC
1 ATTTTGTCGTTGCGATTTC
150197 ATTTTG-CGTTGCGATTT
1 ATTTTGTCGTTGCGATTT
150214 TGTCATTGCG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.11, C:0.14, G:0.22, T:0.53
Consensus pattern (19 bp):
ATTTTGTCGTTGCGATTTC
Found at i:150209 original size:32 final size:33
Alignment explanation
Indices: 150166--150244 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
150156 GCGATTTGTG
*
150166 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCATTGCGATTTTCA
*
150198 TTTTGCGTTGCGATTTTGTCATTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCATTGCGATTTTCA
*
150231 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
150245 AACCATTTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 25 0.60
33 17 0.40
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCATTGCGATTTTCA
Found at i:150239 original size:19 final size:19
Alignment explanation
Indices: 150217--150283 Score: 64
Period size: 19 Copynumber: 3.5 Consensus size: 19
150207 GCGATTTTGT
*
150217 CATTGCGATTTTCATTTCG
1 CATTGCGATATTCATTTCG
**
150236 CATTGCGATAACCATTTC-
1 CATTGCGATATTCATTTCG
*
150254 CACGTTGCGATAGTCATTTCG
1 CA--TTGCGATATTCATTTCG
*
150275 CGTTGCGAT
1 CATTGCGAT
150284 TTTAAGTTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 2 0.05
19 22 0.56
20 14 0.36
21 1 0.03
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.37
Consensus pattern (19 bp):
CATTGCGATATTCATTTCG
Found at i:150263 original size:20 final size:19
Alignment explanation
Indices: 150238--150283 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
150228 TCATTTCGCA
150238 TTGCGATAACCATTTCCACG
1 TTGCGATAACCATTT-CACG
** *
150258 TTGCGATAGTCATTTCGCG
1 TTGCGATAACCATTTCACG
150277 TTGCGAT
1 TTGCGAT
150284 TTTAAGTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (19 bp):
TTGCGATAACCATTTCACG
Found at i:152326 original size:19 final size:19
Alignment explanation
Indices: 152304--152350 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
152294 ATCGCAACGA
*
152304 GAAAATCGCATTGCGAAAT
1 GAAAATCGCAATGCGAAAT
152323 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
152342 GAAAATCGC
1 GAAAATCGC
152351 GACGAGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:152359 original size:19 final size:19
Alignment explanation
Indices: 152304--152359 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
152294 ATCGCAACGA
** *
152304 GAAAATCGCATTGCGAAAT
1 GAAAATCGCAACGAGAAAT
* *
152323 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAACGAGAAAT
*
152342 GAAAATCGCGACGAGAAA
1 GAAAATCGCAACGAGAAA
152360 ATCGCAATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.46, C:0.16, G:0.23, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAACGAGAAAT
Found at i:152447 original size:20 final size:20
Alignment explanation
Indices: 152390--152447 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
152380 TCGCATTACG
* *
152390 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
152410 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
152430 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
152448 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:153534 original size:24 final size:24
Alignment explanation
Indices: 153507--153560 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
153497 GTATTCGAAA
* *
153507 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
153531 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
153555 TTTGAT
1 TTTGAT
153561 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:154999 original size:16 final size:15
Alignment explanation
Indices: 154978--155015 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 15
154968 CAAACACTAG
154978 AAGATGTCGGGTTTGA
1 AAGATGT-GGGTTTGA
154994 AAGATGGTGGGTTTGA
1 AAGAT-GTGGGTTTGA
155010 AAGATG
1 AAGATG
155016 GTCAAGAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.29, C:0.03, G:0.39, T:0.29
Consensus pattern (15 bp):
AAGATGTGGGTTTGA
Found at i:155016 original size:16 final size:16
Alignment explanation
Indices: 154986--155017 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
154976 AGAAGATGTC
154986 GGGTTTGAAAGATGGT
1 GGGTTTGAAAGATGGT
155002 GGGTTTGAAAGATGGT
1 GGGTTTGAAAGATGGT
155018 CAAGAGTACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.44, T:0.31
Consensus pattern (16 bp):
GGGTTTGAAAGATGGT
Found at i:155488 original size:14 final size:14
Alignment explanation
Indices: 155469--155505 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
155459 CATCAATTAA
155469 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
155483 ACAAATCACCTTTT
1 ACAAATCAACTTTT
155497 ACAAATCAA
1 ACAAATCAA
155506 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:156929 original size:21 final size:21
Alignment explanation
Indices: 156863--156929 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
156853 GTGAATCGGG
*
156863 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
156883 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
156905 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
156926 CTCT
1 CTCT
156930 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:156948 original size:42 final size:41
Alignment explanation
Indices: 156863--156985 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
156853 GTGAATCGGG
* * * * *
156863 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
156905 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
156947 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
156986 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:159018 original size:20 final size:19
Alignment explanation
Indices: 158987--159165 Score: 119
Period size: 20 Copynumber: 9.8 Consensus size: 19
158977 TCTTTTGGTT
158987 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
159006 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
159027 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
159046 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
**
159060 GAAATGACTATCG---CGA
1 GAAATGAAAATCGCAACGA
** * *
159076 -CCA-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
159093 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGA
* *
159113 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
159132 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
159151 GAAATG-AAATCGCAA
1 GAAATGAAAATCGCAA
159166 TGCGATTTTG
Statistics
Matches: 129, Mismatches: 18, Indels: 27
0.74 0.10 0.16
Matches are distributed among these distances:
14 17 0.13
15 1 0.01
16 4 0.03
17 4 0.03
18 10 0.08
19 44 0.34
20 47 0.36
21 2 0.02
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:159104 original size:19 final size:19
Alignment explanation
Indices: 158987--159170 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
158977 TCTTTTGGTT
*
158987 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
159006 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
159026 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
159044 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
159060 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
159078 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
159093 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
159113 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
159132 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
159151 GAAATG-AAATCGCAATGC
1 GAAATGAAAATCGCAACGC
159169 GA
1 GA
159171 TTTTGGTTTC
Statistics
Matches: 137, Mismatches: 15, Indels: 27
0.77 0.08 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 17 0.12
19 48 0.35
20 45 0.33
21 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:159125 original size:39 final size:37
Alignment explanation
Indices: 158987--159170 Score: 150
Period size: 33 Copynumber: 5.1 Consensus size: 37
158977 TCTTTTGGTT
* *
158987 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AAT-AAAATCGCAACGC
** * *
159026 GGAAATGACTATCGCAA--CG--AGAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATAAAATCGCAACGC
** * * *
159060 GAAATGACTATCGCGAC-C---AGACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATAAAATCGCAACGC
159093 GAAATGAAAATCGCAACCGCGAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAAT-AAAATCGCAACGC
* *
159132 GAAATGAAAATCGCAACGCGAAATGAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATAAAATCGCAACGC
159169 GA
1 GA
159171 TTTTGGTTTC
Statistics
Matches: 124, Mismatches: 13, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
33 42 0.34
34 15 0.12
35 2 0.02
37 13 0.10
38 10 0.08
39 28 0.23
40 14 0.11
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (37 bp):
GAAATGAAAATCGCAACGCGAAATAAAATCGCAACGC
Found at i:159188 original size:19 final size:19
Alignment explanation
Indices: 159166--159210 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
159156 GAAATCGCAA
*
159166 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
159185 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
159204 TGCGATT
1 TGCGATT
159211 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:159834 original size:41 final size:41
Alignment explanation
Indices: 159782--159859 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
159772 CGAAAGTCAG
* * *
159782 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
*
159823 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
159860 CCCAATTCGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.23, C:0.15, G:0.22, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTAT
Found at i:159856 original size:20 final size:20
Alignment explanation
Indices: 159763--159856 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
159753 CGCTATGTAA
* *
159763 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTAAGT
*
159783 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
* ** * *
159803 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTAAGT
*
159824 ATCGCATTGCGATAGTAAGT
1 ATCGCGTTGCGATAGTAAGT
*
159844 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
159857 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTAAGT
Found at i:159875 original size:41 final size:41
Alignment explanation
Indices: 159782--159877 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
159772 CGAAAGTCAG
* * * ** *
159782 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
*
159823 TATCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-CCAA
159865 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
159878 TTACTTATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCAA
Found at i:162685 original size:31 final size:31
Alignment explanation
Indices: 162647--162709 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
162637 ATTTATCACT
* *
162647 AATTATCAATTTGGACCAA-AAGGTGAAGTTC
1 AATTATCAATTTGAACCAACAA-GTCAAGTTC
*
162678 AATTATCAGTTTGAACCAACAAGTCAAGTTC
1 AATTATCAATTTGAACCAACAAGTCAAGTTC
162709 A
1 A
162710 TTTTCTTTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (31 bp):
AATTATCAATTTGAACCAACAAGTCAAGTTC
Found at i:163299 original size:31 final size:32
Alignment explanation
Indices: 163237--163303 Score: 84
Period size: 31 Copynumber: 2.1 Consensus size: 32
163227 ATTTTAAACC
* *
163237 CCATTTTTTAATTATTAGATCCGTCACTGAAA
1 CCATTTTTAAATTATTAGATCAGTCACTGAAA
*
163269 CCATTTTTAAATT-TCTAG-TCAGTCATTGAAA
1 CCATTTTTAAATTAT-TAGATCAGTCACTGAAA
163300 CCAT
1 CCAT
163304 GGCTGTCCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 16 0.52
32 15 0.48
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.40
Consensus pattern (32 bp):
CCATTTTTAAATTATTAGATCAGTCACTGAAA
Found at i:167001 original size:2 final size:2
Alignment explanation
Indices: 166994--167065 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
166984 AATAAAATTG
166994 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
167036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
167066 TACTAATTCT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:170833 original size:43 final size:43
Alignment explanation
Indices: 170767--171109 Score: 299
Period size: 43 Copynumber: 8.0 Consensus size: 43
170757 GCGGCATTTA
* *
170767 TATCAAAAAACGCCGCTATAGATCTGACCTTTTGCAGCGTTTG
1 TATCCAAAAACACCGCTATAGATCTGACCTTTTGCAGCGTTTG
* * * *
170810 TGTCCAAAACCACCGCTACAGATCTGACCTTTTGCGGCGTTTG
1 TATCCAAAAACACCGCTATAGATCTGACCTTTTGCAGCGTTTG
* * *
170853 TAT-CAAAAAAAGCCGCTATATATCTAACCTTTTGC-GACGTTT-
1 TATCCAAAAACA-CCGCTATAGATCTGACCTTTTGCAG-CGTTTG
*
170895 TTTCCAAAAAC-CCGCTATAGATCTTGACCTTTTGC-GACGTTTG
1 TATCCAAAAACACCGCTATAGATC-TGACCTTTTGCAG-CGTTTG
* * * * *
170938 TATCCAATAACGCAGCTATATAT-TTACCCTTTTGCAGCGTTT-
1 TATCCAAAAACACCGCTATAGATCTGA-CCTTTTGCAGCGTTTG
* * * * * *
170980 T-TGGCAAAAACGCCGCTAGAGAACTTGACATTTTGCGGCGTTTG
1 TAT-CCAAAAACACCGCTATAGATC-TGACCTTTTGCAGCGTTTG
* *
171024 TATCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTG
1 TATCCAAAAACACCGCTATAGATCT-GACCTTTTGCAGCGTTTG
* * * *
171068 T-TCCTAAAACGCCGCTATAGATCTTGACTTTTTGTAGCGTTT
1 TATCCAAAAACACCGCTATAGATC-TGACCTTTTGCAGCGTTT
171110 TTATATCACA
Statistics
Matches: 247, Mismatches: 38, Indels: 30
0.78 0.12 0.10
Matches are distributed among these distances:
41 12 0.05
42 43 0.17
43 141 0.57
44 50 0.20
45 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (43 bp):
TATCCAAAAACACCGCTATAGATCTGACCTTTTGCAGCGTTTG
Found at i:170905 original size:86 final size:86
Alignment explanation
Indices: 170757--171101 Score: 399
Period size: 86 Copynumber: 4.0 Consensus size: 86
170747 ATGGTAATTA
* * * * * *
170757 GCGGCATTTATATCAAAAAACGCCGCTATAGATCTGACCTTTTGCAGCGTTTGTGTCCAAAACCA
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTAACCTTTTGCAGCGTTT-TTTCCAAAAACG
*
170822 CCGCTACAGATC-TGACCTTTT
65 CCGCTATAGATCTTGACCTTTT
* *
170843 GCGGCGTTTGTATCAAAAAAAGCCGCTATATATCTAACCTTTTGC-GACGTTTTTTCCAAAAAC-
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTAACCTTTTGCAG-CGTTTTTTCCAAAAACG
170906 CCGCTATAGATCTTGACCTTTT
65 CCGCTATAGATCTTGACCTTTT
* * * * * * * **
170928 GCGACGTTTGTATCCAATAACGCAGCTATATATTTACCCTTTTGCAGCGTTTTTGGCAAAAACGC
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTAACCTTTTGCAGCGTTTTTTCCAAAAACGC
* * *
170993 CGCTAGAGAACTTGACATTTT
66 CGCTATAGATCTTGACCTTTT
* * * * *
171014 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCCTAAAACG
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCT-AACCTTTTGCAGCGTTTTTTCCAAAAACG
*
171079 CCGCTATAGATCTTGACTTTTT
65 CCGCTATAGATCTTGACCTTTT
171101 G
1 G
171102 TAGCGTTTTT
Statistics
Matches: 219, Mismatches: 35, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
84 11 0.05
85 71 0.32
86 95 0.43
87 42 0.19
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (86 bp):
GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTAACCTTTTGCAGCGTTTTTTCCAAAAACGC
CGCTATAGATCTTGACCTTTT
Found at i:174669 original size:2 final size:2
Alignment explanation
Indices: 174664--174707 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
174654 GCGCGCGTAC
* * *
174664 GT GT GT GT GT GT GT GC GT GT GC GT GT GT GT GT CT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
174706 GT
1 GT
174708 ACGTGTATGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.07, G:0.48, T:0.45
Consensus pattern (2 bp):
GT
Found at i:175116 original size:38 final size:38
Alignment explanation
Indices: 175074--175150 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
175064 TTTTGATCAC
175074 CAAAAATGGAGCAATCCCAATTCCCACGATTAGTTCAT
1 CAAAAATGGAGCAATCCCAATTCCCACGATTAGTTCAT
175112 CAAAAATGGAGCAATCCCAATTCCCACGATTAGTTCAT
1 CAAAAATGGAGCAATCCCAATTCCCACGATTAGTTCAT
175150 C
1 C
175151 TGTTGTCCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.23
Consensus pattern (38 bp):
CAAAAATGGAGCAATCCCAATTCCCACGATTAGTTCAT
Found at i:177291 original size:24 final size:25
Alignment explanation
Indices: 177235--177298 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
177225 TTTACCAAAA
177235 ATATTAAAAAAA-TAATAATATTTT
1 ATATTAAAAAAATTAATAATATTTT
* *
177259 AGATAAAAAAAATTAGATAAT-TTTT
1 ATATTAAAAAAATTA-ATAATATTTT
*
177284 -TATTAAAAATATTAA
1 ATATTAAAAAAATTAA
177299 AAAATAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 21 0.64
25 6 0.18
26 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (25 bp):
ATATTAAAAAAATTAATAATATTTT
Found at i:178329 original size:27 final size:28
Alignment explanation
Indices: 178281--178340 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
178271 TAATATGATT
* * *
178281 TAAATATGATAATTGATTGATATTAAAA
1 TAAATATGATAATTAATGGATAATAAAA
178309 -AAATATGATAATTAATGGATAATAAAA
1 TAAATATGATAATTAATGGATAATAAAA
178336 TAAAT
1 TAAAT
178341 TTCAATGCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (28 bp):
TAAATATGATAATTAATGGATAATAAAA
Found at i:181385 original size:199 final size:201
Alignment explanation
Indices: 181030--181421 Score: 617
Period size: 199 Copynumber: 2.0 Consensus size: 201
181020 TTCAAGGTTC
* * * *
181030 CCTCGAGCTTATAATTCAAAATGTTCTAATTGAACCTTTAAGTGCAATGTTTCCTACTCTGTATA
1 CCTCGAACTTATAATTCAAAATATTCTAATTGAACCTTTAAGTGCAATCTTTCCTACTCAGTATA
* *
181095 GTCTCCTTGGTAAAATTTAGCTGCAAGCTTACATATATCATCAATGGAAAATGATTTAAAACTAT
66 G-CT-CTGGGTAAAATTTAGCTGCAAGCTTACATATATCATCAATGGAAAATGATTTAAAACCAT
*
181160 CCCTTGGATCCAAAGCAGAACTAAGCTTAAGTAACTCAACCATGTCATCTTTGAATTTAATGTTC
129 CCCTTGGATCCAAAGCAGAACTAAGCTTAAGTAACTCAACCATGTCATCTTTGAATCTAATGTTC
181225 TTCCCAGT
194 TTCCCAGT
* * * *
181233 CCTCGAACTTCTAATTCAAAATATTCTAATTGAACTTTTAAGTGCAATCTTTCTTGCTCAGTATA
1 CCTCGAACTTATAATTCAAAATATTCTAATTGAACCTTTAAGTGCAATCTTTCCTACTCAGTATA
* * * *
181298 G-T-TGGGTAAATTTTATCTGCAAGCTTGCATATATCATCAATGTAAAATGATTTAAAACCATCC
66 GCTCTGGGTAAAATTTAGCTGCAAGCTTACATATATCATCAATGGAAAATGATTTAAAACCATCC
181361 CTTGGATCCAAAGCAGAACTAAGCTTAAGTAACTCAACCATGTCATCTTTGAATCTAATGT
131 CTTGGATCCAAAGCAGAACTAAGCTTAAGTAACTCAACCATGTCATCTTTGAATCTAATGT
181422 CCATCTCATT
Statistics
Matches: 174, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
199 115 0.66
201 1 0.01
203 58 0.33
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (201 bp):
CCTCGAACTTATAATTCAAAATATTCTAATTGAACCTTTAAGTGCAATCTTTCCTACTCAGTATA
GCTCTGGGTAAAATTTAGCTGCAAGCTTACATATATCATCAATGGAAAATGATTTAAAACCATCC
CTTGGATCCAAAGCAGAACTAAGCTTAAGTAACTCAACCATGTCATCTTTGAATCTAATGTTCTT
CCCAGT
Found at i:193811 original size:64 final size:63
Alignment explanation
Indices: 193729--193885 Score: 181
Period size: 64 Copynumber: 2.5 Consensus size: 63
193719 TTCAGTGTGT
* * *
193729 ATCGATGCA-CAGGAAGTGCATCGATGCACCCATTCAAAATGGAAACATCGAATGCCCTTAGTGC
1 ATCGATGCATAAGG-AGTGCATCGATGCACCCATT-AAAATGAAAACATCGAATGCCATTAGTGC
* ** * *
193793 ATCGATGCATAAGGAGTGCATCGATGCACCCCCTTAAAATGAAAACATCGAATGTGATTGGTGT
1 ATCGATGCATAAGGAGTGCATCGATGCA-CCCATTAAAATGAAAACATCGAATGCCATTAGTGC
* * *
193857 ACCGATGCATGAGTAGTGCATCGATGCAC
1 ATCGATGCATAAGGAGTGCATCGATGCAC
193886 ATGTTAAGGG
Statistics
Matches: 80, Mismatches: 11, Indels: 5
0.83 0.11 0.05
Matches are distributed among these distances:
63 1 0.01
64 71 0.89
65 8 0.10
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (63 bp):
ATCGATGCATAAGGAGTGCATCGATGCACCCATTAAAATGAAAACATCGAATGCCATTAGTGC
Found at i:209673 original size:17 final size:17
Alignment explanation
Indices: 209648--209681 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
209638 TAAGATGAAG
* *
209648 AGAATAGAGGGGATTAA
1 AGAAAAGAGAGGATTAA
209665 AGAAAAGAGAGGATTAA
1 AGAAAAGAGAGGATTAA
209682 GTGAAATCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.32, T:0.15
Consensus pattern (17 bp):
AGAAAAGAGAGGATTAA
Found at i:210091 original size:64 final size:63
Alignment explanation
Indices: 209997--210134 Score: 154
Period size: 64 Copynumber: 2.2 Consensus size: 63
209987 ATTGAATGTG
* *
209997 CATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAAATGGTGCATCGATGCATAAGG-AGTA
1 CATCGATGCACCCTTTAAAGAAGAAACATCGAAAGCAAATGGTGCATCGATGCAT-AGGTAGTA
* * * * * * *
210060 CATCGATGCATCCCTTTAAA-ATGAAAACATCGAAAGTAATTTGTGTATCGATGCATGGGTAGTG
1 CATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAAGCAAATGGTGCATCGATGCATAGGTAGTA
210124 CATCGATGCAC
1 CATCGATGCAC
210135 ATGTTAAAGA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
63 15 0.24
64 48 0.76
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (63 bp):
CATCGATGCACCCTTTAAAGAAGAAACATCGAAAGCAAATGGTGCATCGATGCATAGGTAGTA
Found at i:210591 original size:18 final size:19
Alignment explanation
Indices: 210550--210592 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
210540 GTAAACTATG
* *
210550 TGATAAGTGATAAGTGACA
1 TGATATGTGATAAATGACA
210569 T-ATATGTGATAAATGA-A
1 TGATATGTGATAAATGACA
210586 TGATATG
1 TGATATG
210593 AAAAGTGAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.86
19 1 0.05
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.33
Consensus pattern (19 bp):
TGATATGTGATAAATGACA
Found at i:211164 original size:29 final size:30
Alignment explanation
Indices: 211100--211171 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
211090 GGTTCGTCGG
* * *
211100 GACCTATGGATAGTTGCCGAGGTTCTTTAT
1 GACCTCTGGATAGTTACCGAGGGTCTTTAT
*
211130 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGGTCTTTAT
211159 GACCTCTGGATAG
1 GACCTCTGGATAG
211172 GTCTTTCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGGTCTTTAT
Found at i:220526 original size:40 final size:40
Alignment explanation
Indices: 220481--220568 Score: 176
Period size: 40 Copynumber: 2.2 Consensus size: 40
220471 TGAACCATTT
220481 TGAGCCTAATCATTTTCCTTGTTCACTATATTTTTATACC
1 TGAGCCTAATCATTTTCCTTGTTCACTATATTTTTATACC
220521 TGAGCCTAATCATTTTCCTTGTTCACTATATTTTTATACC
1 TGAGCCTAATCATTTTCCTTGTTCACTATATTTTTATACC
220561 TGAGCCTA
1 TGAGCCTA
220569 TTTTGATTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (40 bp):
TGAGCCTAATCATTTTCCTTGTTCACTATATTTTTATACC
Found at i:225885 original size:24 final size:24
Alignment explanation
Indices: 225855--225962 Score: 76
Period size: 24 Copynumber: 4.3 Consensus size: 24
225845 TTTTATCTTT
225855 GTATTTTAGTTTAAATAGGTTTTA
1 GTATTTTAGTTTAAATAGGTTTTA
* * *
225879 GTATTTTA-ATTAAGTTTTAGGATATTA
1 GTATTTTAGTTTAA---ATAGG-TTTTA
* * * **
225906 -TTTTTATATTTTATATTTGTTTTA
1 GTATTT-TAGTTTAAATAGGTTTTA
225930 GGTATTTTAGTTTAAATAGGTTTTA
1 -GTATTTTAGTTTAAATAGGTTTTA
225955 GTATTTTA
1 GTATTTTA
225963 ATTAGGATTT
Statistics
Matches: 61, Mismatches: 15, Indels: 16
0.66 0.16 0.17
Matches are distributed among these distances:
23 4 0.07
24 20 0.33
25 16 0.26
26 12 0.20
27 6 0.10
28 3 0.05
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (24 bp):
GTATTTTAGTTTAAATAGGTTTTA
Found at i:225908 original size:75 final size:75
Alignment explanation
Indices: 225819--225982 Score: 215
Period size: 76 Copynumber: 2.2 Consensus size: 75
225809 TAAACTCAAG
* *
225819 TTTAGGATAATATTTTAAACATTATATTT-TATCTT-TGTATTTTAGTTTAAATAGGTTTTAGTA
1 TTTAGGATATTATTTTAAACATTATATTTGT-T-TTAGGTATTTTAGTTTAAATAGGTTTTAGTA
*
225882 TTTTAATTAAGT
64 TTTTAATTAAGA
* **
225894 TTTAGGATATTATTTTTATATTTTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
1 TTTAGGATATTA-TTTTAAACATTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTAT
*
225959 TTTAATTAGGA
65 TTTAATTAAGA
*
225970 TTTAGAATATTAT
1 TTTAGGATATTAT
225983 ATTATTTTTC
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
75 14 0.18
76 63 0.81
77 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.12, T:0.56
Consensus pattern (75 bp):
TTTAGGATATTATTTTAAACATTATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGTATT
TTAATTAAGA
Found at i:225917 original size:32 final size:32
Alignment explanation
Indices: 225874--225935 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
225864 TTTAAATAGG
225874 TTTTAGTATTTTA-ATTAAGTTTTAGGATATTAT
1 TTTTAGTATTTTATATT-AGTTTTAGG-TATTAT
*
225907 TTTTA-TATTTTATATTTGTTTTAGGTATT
1 TTTTAGTATTTTATATTAGTTTTAGGTATT
225936 TTAGTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 4 0.15
32 15 0.56
33 8 0.30
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (32 bp):
TTTTAGTATTTTATATTAGTTTTAGGTATTAT
Found at i:225968 original size:19 final size:19
Alignment explanation
Indices: 225864--225974 Score: 61
Period size: 19 Copynumber: 5.8 Consensus size: 19
225854 TGTATTTTAG
*
225864 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
*
225883 TTTAATTAAGTTTTAGGATAT
1 TTTAATTAGGTTTTA-G-TAT
* **
225904 TATT-TTTATATTTTA-TAT
1 T-TTAATTAGGTTTTAGTAT
* *
225922 TTGT-TTTAGGTATTT--TAG
1 TT-TAATTAGGT-TTTAGTAT
*
225940 TTTAAATAGGTTTTAGTAT
1 TTTAATTAGGTTTTAGTAT
*
225959 TTTAATTAGGATTTAG
1 TTTAATTAGGTTTTAG
225975 AATATTATAT
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
17 5 0.07
18 19 0.27
19 32 0.45
20 1 0.01
21 12 0.17
22 2 0.03
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (19 bp):
TTTAATTAGGTTTTAGTAT
Found at i:226005 original size:76 final size:76
Alignment explanation
Indices: 225855--226005 Score: 205
Period size: 76 Copynumber: 2.0 Consensus size: 76
225845 TTTTATCTTT
* * *
225855 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGTTTTAGGATATTATTTTTATATTTTAT
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATATTATTATTATATTTTAT
** *
225920 ATTTGTTTTAG
66 AGGTATTTTAG
* * *
225931 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAGGATTTAGAATATTA-TATTATTTTTCTC
1 GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATATTATTATTATATTT-TA
225995 TAGGTATTTTA
65 TAGGTATTTTA
226006 TTTTAAATAG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
75 8 0.12
76 57 0.88
ACGTcount: A:0.28, C:0.01, G:0.13, T:0.57
Consensus pattern (76 bp):
GTATTTTAGTTTAAATAGGTTTTAGTATTTTAATTAAGATTTAGAATATTATTATTATATTTTAT
AGGTATTTTAG
Found at i:227683 original size:2 final size:2
Alignment explanation
Indices: 227676--227704 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
227666 ATTTAAACTA
227676 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
227705 AACTATCGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.