Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009292.1 Hibiscus syriacus cultivar Beakdansim tig00113000_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: 249638
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:92 original size:11 final size:12
Alignment explanation
Indices: 74--100 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
64 GCTGAAAAAC
74 CTTTTTTTCGGT
1 CTTTTTTTCGGT
86 CTTTTTTTCGGT
1 CTTTTTTTCGGT
98 CTT
1 CTT
101 GGCACCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.19, G:0.15, T:0.67
Consensus pattern (12 bp):
CTTTTTTTCGGT
Found at i:5630 original size:14 final size:14
Alignment explanation
Indices: 5584--5630 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
5574 CTTTTCATCG
5584 ATATTGAAAAATAA
1 ATATTGAAAAATAA
*
5598 ATGTT-AAAAATAA
1 ATATTGAAAAATAA
*
5611 TTTATTGAAAAATAA
1 -ATATTGAAAAATAA
5626 ATATT
1 ATATT
5631 TATTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 8 0.30
14 11 0.41
15 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (14 bp):
ATATTGAAAAATAA
Found at i:6560 original size:15 final size:15
Alignment explanation
Indices: 6523--6563 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
6513 TTTGGTAAGC
*
6523 TTCTCTTCTTTCTTT
1 TTCTTTTCTTTCTTT
6538 TTCTTTTCTTTC-TT
1 TTCTTTTCTTTCTTT
6552 TTCTGTTTCTTT
1 TTCT-TTTCTTT
6564 GCTGCATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTTTTCTTTCTTT
Found at i:7046 original size:3 final size:3
Alignment explanation
Indices: 7032--7108 Score: 82
Period size: 3 Copynumber: 25.3 Consensus size: 3
7022 TGTAATATTA
* * * * * *
7032 AAT AAT ATAT AAT AAT AAT AAT AAT TAT TAT TAT TAT TAT AAT TAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
7078 AAT AAT AAT AAT TAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7109 TAAATAACAT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
3 64 0.96
4 3 0.04
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (3 bp):
AAT
Found at i:7554 original size:113 final size:113
Alignment explanation
Indices: 7338--8006 Score: 983
Period size: 113 Copynumber: 6.0 Consensus size: 113
7328 TAGAGTCATT
* ** *
7338 CAAAAGGTTGAATAAGCTCTTCTCATTATGAACTT-TT-TT--TT-TTCTGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
7398 TTATGAACTT-CTCTGGAAAAACTGACCCATCAAGTCATGGATTTGAG
66 TTATGAACTTGATCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
* *
7445 CAAAAAGCTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * * * * *
7510 TTATGAACTTTCTCTAGAAAAGTTGATTCATCAAATGATGGATTTGAG
66 TTATGAACTTGATCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
*
7558 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
7623 TTATGAACTCGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTGATCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
7671 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
7736 TTATGAACTCGAACTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTGATCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
* * *
7784 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTTAAATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
** * *
7849 TTATGAACTCAAAT-TGGAAAAACTAATCCATCAAGTGATGGATTTAAG
66 TTATGAACT-TGATCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
*
7897 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**
7962 TTATGAACTTCCTCTGGAAAAGCTAATCCATCAAGTGATGGATTT
66 TTATGAACTTGATCTGGAAAAGCTAATCCATCAAGTGATGGATTT
8007 AAATCTTTGC
Statistics
Matches: 514, Mismatches: 40, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
107 30 0.06
108 2 0.00
109 2 0.00
111 2 0.00
112 29 0.06
113 448 0.87
114 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.36
Consensus pattern (113 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTGATCTGGAAAAGCTAATCCATCAAGTGATGGATTTGAG
Found at i:8827 original size:92 final size:92
Alignment explanation
Indices: 8726--9695 Score: 1798
Period size: 92 Copynumber: 10.5 Consensus size: 92
8716 GGTTTTATAT
* * *
8726 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGGCACATTCTTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
8791 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
*
8818 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGGTGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
8883 TTCAATAACTGGGTT-TGTGGTTCATAC
66 TTCAATAACT-GGTTCTGTGGTTCATAC
*
8910 CAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
*
8975 TTCAATAACTGGTTATGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
9002 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
9067 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
9094 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
9159 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
* *
9186 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGGTGCTATGAGCATATTCATCATCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
*
9251 TTCAATAACTGGTTTTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
*
9278 CAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
*
9343 TTCAATAACTGGTTATGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
9370 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
9435 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
*
9462 CAAACCAGATCAGATAACTCAAAGAACACTTCTAGAAGATGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
9527 TTCAATAACTGGTTCTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
*
9554 CAAACCAGATCAGATAACTCAAAGAACACTTTCAGAAGATGCTATGAGCATATTCATCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
*
9619 TTCAATAACTGGTTTTGTGGTTCATAC
66 TTCAATAACTGGTTCTGTGGTTCATAC
9646 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
9696 CATGGCATTT
Statistics
Matches: 854, Mismatches: 22, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
91 4 0.00
92 846 0.99
93 4 0.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (92 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCAAA
TTCAATAACTGGTTCTGTGGTTCATAC
Found at i:10849 original size:1 final size:1
Alignment explanation
Indices: 10845--10919 Score: 69
Period size: 1 Copynumber: 75.0 Consensus size: 1
10835 TTGACCCCCC
* * * * * * * *
10845 TTTTTCTTTTTTCTTTTTTTTTTTTTTTTTTTTTTCTTTTTTCTTTCTTTTCTTTCTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
10910 CTTTTTTTTT
1 TTTTTTTTTT
10920 ATTATTAAGC
Statistics
Matches: 56, Mismatches: 18, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:10865 original size:9 final size:9
Alignment explanation
Indices: 10851--10918 Score: 79
Period size: 9 Copynumber: 7.7 Consensus size: 9
10841 CCCCTTTTTC
10851 TTTTTTCTT
1 TTTTTTCTT
10860 TTTTTT-TT
1 TTTTTTCTT
10868 TTTTTT-TT
1 TTTTTTCTT
10876 TTTTCTT-TT
1 TTTT-TTCTT
*
10885 TTCTTTCTT
1 TTTTTTCTT
*
10894 TTCTTTCTT
1 TTTTTTCTT
10903 TTCTTTTCTT
1 TT-TTTTCTT
10913 TTTTTT
1 TTTTTT
10919 TATTATTAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
8 16 0.30
9 30 0.56
10 8 0.15
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:10879 original size:30 final size:30
Alignment explanation
Indices: 10845--10916 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
10835 TTGACCCCCC
* * *
10845 TTTTTCTTTTTTCTTTTTTTTTTTTTTTTT
1 TTTTTCTTTTTTCTTTCTTTTCTTTCTTTT
10875 TTTTTCTTTTTTCTTTCTTTTCTTTCTTTT
1 TTTTTCTTTTTTCTTTCTTTTCTTTCTTTT
*
10905 CTTTTCTTTTTT
1 TTTTTCTTTTTT
10917 TTTATTATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (30 bp):
TTTTTCTTTTTTCTTTCTTTTCTTTCTTTT
Found at i:22306 original size:14 final size:14
Alignment explanation
Indices: 22260--22306 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
22250 CTTTTCTTCG
22260 ATATTGAAAAATAA
1 ATATTGAAAAATAA
*
22274 ATGTT-AAAAATAA
1 ATATTGAAAAATAA
*
22287 TTTATTGAAAAATAA
1 -ATATTGAAAAATAA
22302 ATATT
1 ATATT
22307 TATTTATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 8 0.30
14 11 0.41
15 8 0.30
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (14 bp):
ATATTGAAAAATAA
Found at i:23239 original size:15 final size:15
Alignment explanation
Indices: 23202--23242 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
23192 TTTGGTAAGC
*
23202 TTCTCTTCTTTCTTT
1 TTCTTTTCTTTCTTT
23217 TTCTTTTCTTTC-TT
1 TTCTTTTCTTTCTTT
23231 TTCTGTTTCTTT
1 TTCT-TTTCTTT
23243 GCTGCGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (15 bp):
TTCTTTTCTTTCTTT
Found at i:23729 original size:3 final size:3
Alignment explanation
Indices: 23711--23787 Score: 91
Period size: 3 Copynumber: 25.3 Consensus size: 3
23701 TGTAATATTA
* * * *
23711 AAT AAT ATAT ATT AAT AAT AAT AAT AAT AAT AAT TAT TAT TAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
23757 TAT AAT AAT AAT AAT TAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23788 TAAATAACAT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
3 62 0.95
4 3 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (3 bp):
AAT
Found at i:25135 original size:6 final size:6
Alignment explanation
Indices: 25124--25149 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25114 AAAACACAAA
25124 TAAAAT TAAAAT TAAAAT TAAAAT TA
1 TAAAAT TAAAAT TAAAAT TAAAAT TA
25150 TAAAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TAAAAT
Found at i:25401 original size:2 final size:2
Alignment explanation
Indices: 25394--25420 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25384 TATAATAGTG
25394 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
25421 AATTAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32167 original size:23 final size:23
Alignment explanation
Indices: 32139--32257 Score: 150
Period size: 23 Copynumber: 5.2 Consensus size: 23
32129 GCTCACATAA
32139 TTTGCATCGAAGTGCCACATAGG
1 TTTGCATCGAAGTGCCACATAGG
* * *
32162 TTTGCATCAAAGTGCCATATAGA
1 TTTGCATCGAAGTGCCACATAGG
*
32185 TTTGCATCGAAGTTCCACATAGAG
1 TTTGCATCGAAGTGCCACATAG-G
* *
32209 -TTGCATGGAAGTGCCACATAGA
1 TTTGCATCGAAGTGCCACATAGG
* *
32231 TTTGCACCGAAGTGCCACGTAGG
1 TTTGCATCGAAGTGCCACATAGG
32254 TTTG
1 TTTG
32258 TCCAAAAGGA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
23 80 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (23 bp):
TTTGCATCGAAGTGCCACATAGG
Found at i:32191 original size:46 final size:46
Alignment explanation
Indices: 32132--32257 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 46
32122 CACCACAGCT
32132 CACATA-ATTTGCATCGAAGTGCCACATAGGTTTGCATCAAAGTGC
1 CACATAGATTTGCATCGAAGTGCCACATAGGTTTGCATCAAAGTGC
* * **
32177 CATATAGATTTGCATCGAAGTTCCACATAGAG-TTGCATGGAAGTGC
1 CACATAGATTTGCATCGAAGTGCCACATAG-GTTTGCATCAAAGTGC
* *
32223 CACATAGATTTGCACCGAAGTGCCACGTAGGTTTG
1 CACATAGATTTGCATCGAAGTGCCACATAGGTTTG
32258 TCCAAAAGGA
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
45 6 0.09
46 63 0.90
47 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (46 bp):
CACATAGATTTGCATCGAAGTGCCACATAGGTTTGCATCAAAGTGC
Found at i:35753 original size:21 final size:21
Alignment explanation
Indices: 35727--35767 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
35717 GTTTAGACAT
*
35727 GATTTAAGGGTTATGGTTTAA
1 GATTTAAGGGTTAGGGTTTAA
35748 GATTTAAGGGTTAGGGTTTA
1 GATTTAAGGGTTAGGGTTTA
35768 GGTATTAGGA
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:0.27, C:0.00, G:0.32, T:0.41
Consensus pattern (21 bp):
GATTTAAGGGTTAGGGTTTAA
Found at i:38560 original size:19 final size:21
Alignment explanation
Indices: 38536--38587 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
38526 CGGTCAAGAG
*
38536 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
38555 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
38576 CATGTATTTTCA
1 CATGTATTTTCA
38588 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:39272 original size:10 final size:11
Alignment explanation
Indices: 39248--39272 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
39238 ATTGGCGTGC
39248 AAAACAGAAGA
1 AAAACAGAAGA
39259 AAAACAGAAGA
1 AAAACAGAAGA
39270 AAA
1 AAA
39273 GACTCCTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAACAGAAGA
Found at i:39335 original size:8 final size:8
Alignment explanation
Indices: 39324--39348 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
39314 ACAAAAGAGG
39324 AGAAAAGA
1 AGAAAAGA
39332 AGAAAAGA
1 AGAAAAGA
39340 AGAAAAGA
1 AGAAAAGA
39348 A
1 A
39349 AAGAAAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (8 bp):
AGAAAAGA
Found at i:39340 original size:13 final size:12
Alignment explanation
Indices: 39304--39362 Score: 55
Period size: 13 Copynumber: 4.6 Consensus size: 12
39294 ATGCAAAAAG
*
39304 AAAGAAAAAGACA
1 AAAG-AAAAGAAA
**
39317 AAAGAGGAGAAA
1 AAAGAAAAGAAA
39329 AGAAGAAAAGAAGA
1 A-AAGAAAAGAA-A
39343 AAAGAAAAGAAA
1 AAAGAAAAGAAA
39355 AAGAGAAA
1 AA-AGAAA
39363 GCAAGCCAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
12 9 0.24
13 27 0.71
14 2 0.05
ACGTcount: A:0.75, C:0.02, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAGAAAAGAAA
Found at i:42794 original size:19 final size:21
Alignment explanation
Indices: 42770--42821 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
42760 CGGCCAAGAG
*
42770 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
42789 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
42810 CATGTATTTTCA
1 CATGTATTTTCA
42822 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:43506 original size:10 final size:11
Alignment explanation
Indices: 43482--43506 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43472 ATTGGCGTGC
43482 AAAACAGAAGA
1 AAAACAGAAGA
43493 AAAACAGAAGA
1 AAAACAGAAGA
43504 AAA
1 AAA
43507 GACTCCTACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAACAGAAGA
Found at i:43561 original size:18 final size:18
Alignment explanation
Indices: 43533--43596 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 18
43523 TTGGAATGCA
43533 AAAAGAA-AGAAAA-AGAC
1 AAAAGAAGAGAAAAGA-AC
*
43550 AAAAGAAGAGAAAAGAAG
1 AAAAGAAGAGAAAAGAAC
*
43568 AAAAGAAGA-AAAGGAA-
1 AAAAGAAGAGAAAAGAAC
43584 AGAAA-AAGAGAAA
1 A-AAAGAAGAGAAA
43597 GCAAGCCAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.12
17 19 0.46
18 16 0.39
19 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAGAAGAGAAAAGAAC
Found at i:43579 original size:26 final size:27
Alignment explanation
Indices: 43533--43589 Score: 66
Period size: 26 Copynumber: 2.1 Consensus size: 27
43523 TTGGAATGCA
43533 AAAAGAAAGAAAAAGACAAAA-GAAGAG
1 AAAAGAAAGAAAAAGACAAAAGGAA-AG
*
43560 AAAAG-AAG-AAAAGAAGAAAAGGAAAG
1 AAAAGAAAGAAAAAG-ACAAAAGGAAAG
43586 AAAA
1 AAAA
43590 AGAGAAAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 5 0.19
26 14 0.52
27 8 0.30
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (27 bp):
AAAAGAAAGAAAAAGACAAAAGGAAAG
Found at i:43585 original size:21 final size:21
Alignment explanation
Indices: 43533--43595 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
43523 TTGGAATGCA
*
43533 AAAAG-AAAGAAAAAGACAAAAG
1 AAAAGAAAAGAAAAAG--AGAAG
*
43555 AAGAGAAAAGAAGAAA-AGAAG
1 AAAAGAAAAGAA-AAAGAGAAG
*
43576 AAAAGGAAAGAAAAAGAGAA
1 AAAAGAAAAGAAAAAGAGAA
43596 AGCAAGCCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
20 3 0.09
21 18 0.53
22 4 0.12
23 6 0.18
24 3 0.09
ACGTcount: A:0.75, C:0.02, G:0.24, T:0.00
Consensus pattern (21 bp):
AAAAGAAAAGAAAAAGAGAAG
Found at i:47017 original size:19 final size:21
Alignment explanation
Indices: 46993--47044 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
46983 CGGCCAAGAG
*
46993 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
47012 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
47033 CATGTATTTTCA
1 CATGTATTTTCA
47045 AGGGGTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:51258 original size:28 final size:28
Alignment explanation
Indices: 51218--51274 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
51208 AAGCATGATG
* * *
51218 AATGACTTGTTATGGCCTCTTTAATCTT
1 AATGACTTATTATGACCCCTTTAATCTT
51246 AATGACTTATTATGACCCCTTTAATCTT
1 AATGACTTATTATGACCCCTTTAATCTT
51274 A
1 A
51275 TATAAGCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (28 bp):
AATGACTTATTATGACCCCTTTAATCTT
Found at i:54262 original size:25 final size:25
Alignment explanation
Indices: 54233--54280 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
54223 TGTTTAAATA
54233 TTTTGGACAT-TGGATATAAATTTTG
1 TTTTGGA-ATATGGATATAAATTTTG
*
54258 TTTTGGAATATGGATTTAAATTT
1 TTTTGGAATATGGATATAAATTT
54281 GGGAAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (25 bp):
TTTTGGAATATGGATATAAATTTTG
Found at i:55388 original size:30 final size:31
Alignment explanation
Indices: 55339--55434 Score: 158
Period size: 31 Copynumber: 3.1 Consensus size: 31
55329 AGGTACTGTT
55339 GAGTTCTTACTACAATAATAGGCATCATGAA
1 GAGTTCTTACTACAATAATAGGCATCATGAA
*
55370 GAGTTATTACTA-AATAATAGGCATCATGAA
1 GAGTTCTTACTACAATAATAGGCATCATGAA
* *
55400 GAGTTCTAACTACAATAATAGGCATCATTAA
1 GAGTTCTTACTACAATAATAGGCATCATGAA
55431 GAGT
1 GAGT
55435 ATTTGCAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
30 28 0.47
31 32 0.53
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.29
Consensus pattern (31 bp):
GAGTTCTTACTACAATAATAGGCATCATGAA
Found at i:64496 original size:29 final size:29
Alignment explanation
Indices: 64454--64517 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
64444 CTTATCGTAA
64454 AGTTCATATGCCCTAGATACTTTTCTTCT
1 AGTTCATATGCCCTAGATACTTTTCTTCT
*
64483 AGTTTATATGCCCTAGATACTTTTCTTCT
1 AGTTCATATGCCCTAGATACTTTTCTTCT
64512 AGTTCA
1 AGTTCA
64518 AAGCGTTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (29 bp):
AGTTCATATGCCCTAGATACTTTTCTTCT
Found at i:72267 original size:14 final size:13
Alignment explanation
Indices: 72147--72268 Score: 53
Period size: 14 Copynumber: 9.5 Consensus size: 13
72137 GCACAAAAAT
*
72147 AAATATAAAATAT
1 AAATATAAAATAA
*
72160 ATATAT-AAATAA
1 AAATATAAAATAA
*
72172 AATACATAAAATAA
1 AA-ATATAAAATAA
*
72186 AGAAGAT--AATAA
1 A-AATATAAAATAA
* *
72198 CAATA-ACAATACA
1 AAATATAAAATA-A
*
72211 AAA-ATAAAAATAG
1 AAATAT-AAAATAA
72224 AAA-A-AAAAT-A
1 AAATATAAAATAA
*
72234 AAAGATAAAATGAA
1 AAATATAAAAT-AA
*
72248 ATATATAAAATAA
1 AAATATAAAATAA
72261 TAAATATA
1 -AAATATA
72269 TATAACATAT
Statistics
Matches: 82, Mismatches: 14, Indels: 25
0.68 0.12 0.21
Matches are distributed among these distances:
10 3 0.04
11 9 0.11
12 21 0.26
13 17 0.21
14 31 0.38
15 1 0.01
ACGTcount: A:0.70, C:0.03, G:0.04, T:0.22
Consensus pattern (13 bp):
AAATATAAAATAA
Found at i:72405 original size:2 final size:2
Alignment explanation
Indices: 72398--72458 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
72388 AATGAAGGTA
72398 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
72440 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
72459 ATAAGAATAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:85690 original size:16 final size:16
Alignment explanation
Indices: 85669--85734 Score: 59
Period size: 16 Copynumber: 4.1 Consensus size: 16
85659 AGATAAAATG
85669 AAATATATAAAATAAT
1 AAATATATAAAATAAT
85685 AAATATATATAACAT-AT
1 AAATATATA-AA-ATAAT
*
85702 AATTATAGTAATAA-AA-
1 AAATATA-TAA-AATAAT
85718 AAATATAT-AAATAAT
1 AAATATATAAAATAAT
85733 AA
1 AA
85735 TGATATATGA
Statistics
Matches: 41, Mismatches: 2, Indels: 15
0.71 0.03 0.26
Matches are distributed among these distances:
13 2 0.05
14 3 0.07
15 3 0.07
16 15 0.37
17 13 0.32
18 5 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (16 bp):
AAATATATAAAATAAT
Found at i:85842 original size:2 final size:2
Alignment explanation
Indices: 85835--85873 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
85825 AAGATAATTA
85835 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
85874 ATAAGAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:90041 original size:82 final size:82
Alignment explanation
Indices: 89804--90875 Score: 1125
Period size: 82 Copynumber: 13.1 Consensus size: 82
89794 CAGGGAGATA
* * * * * * * * * *
89804 AGACTTGATATGTGTCTCTTCTTCGGATATACAAATCAAAGTTGGAAGATGTATCTTC-TCTATC
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTC-ATC
89868 ATGCATTT-AGGGGAAATC
65 ATGC-TTTCAGGGGAAATC
* * * * *
89886 AAACTTGATTTGTGCCTC-TTTTTAGGTAGACAAATCAATATTGGAAGACGTGTCT-TTTCCAGC
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTT-CATC
89949 ATG-TATTCAGGGGAAATC
65 ATGCT-TTCAGGGGAAATC
* * *
89967 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTAGAAGATGTATCTGCTTCATCA
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTCATCA
90032 TGCTTTCAGGGGAAATC
66 TGCTTTCAGGGGAAATC
** *
90049 AGACTTGATTTGTGCCTCTTTTTCAGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTCCATCA
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTCATCA
*
90114 TGCGTTT-AGGGCAAATC
66 TGC-TTTCAGGGGAAATC
* * * * * *
90131 AAACTTGATTTGTGCCTCTTTTTCGGGTAGACAAATTAATGTTGGAAGATGTGTCTTCTCCATCA
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTCATCA
* *
90196 TGCATTCAGGAGAAATC
66 TGCTTTCAGGGGAAATC
* * * * * * * *
90213 AAAATTGATCTGTGCCTCTTTTTTGAGTAGACAAATCAATGTTGGAAGACGTATTTTCTCCATCA
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTCATCA
*
90278 TGCATTCA-GGGAAATC
66 TGCTTTCAGGGGAAATC
* * * **
90294 GGACTTGATATGTGCCTCTTTTTTGGGTAGAAACAATCAATGTTGGAAGACGTGTCTTTTTCATC
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACA-AATCAATGTTGGAAGACGTGTCTGCTTCATC
90359 ATGCATTT-AGGGGAAATC
65 ATGC-TTTCAGGGGAAATC
* *
90377 AGACTTGATTTGTGACTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTTC-TCTATC
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTC-ATC
*
90441 ATG-TATTGAGGGGAAATC
65 ATGCT-TTCAGGGGAAATC
** * * * *
90459 AGACTTGATCAGTG-C-CTTTTTTGGGTAGACAAATCTATTTTGGAAGACGTGTTTGCTCCATCA
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTCATCA
* ** *
90522 AGCAATCAGAGGAAATC
66 TGCTTTCAGGGGAAATC
* * * * *
90539 AAACTTGATATGTGCCTC-ATTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCT-ATTCCATA
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTT-CATC
*
90602 ATGCATTT-AAGGGAAATC
65 ATGC-TTTCAGGGGAAATC
* * * * *
90620 AGACTTGATTTATGCCTCTTTTTCGAGTAGACAAATCAATGTTGGAAGATGTGTCTGCTCCATCA
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTCATCA
*
90685 TGCATTCAGGGGAAATC
66 TGCTTTCAGGGGAAATC
* * * * *
90702 AGACTTGATGTGTGCCTCTTTTTCGGGTAGACATAT-ATATTTTGGAAGACGTGTCTGCTTCATT
1 AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCA-ATGTTGGAAGACGTGTCTGCTTCATC
*
90766 ATGCATTCAGGGGAAATC
65 ATGCTTTCAGGGGAAATC
* * ** * * * * *
90784 AGACTTGATCTGTGCCTCTTTTTTTAGGTAGACATGTCTATTTTGGAAGACGTGTCTACTCCATA
1 AGACTTGATTTGTGCCTC-TTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTCATC
* *
90849 ACGCATTT-AGGGAAAATC
65 ATGC-TTTCAGGGGAAATC
90867 AGACTTGAT
1 AGACTTGAT
90876 ATGTTCTTTT
Statistics
Matches: 842, Mismatches: 120, Indels: 55
0.83 0.12 0.05
Matches are distributed among these distances:
79 1 0.00
80 67 0.08
81 169 0.20
82 498 0.59
83 105 0.12
84 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (82 bp):
AGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTCATCA
TGCTTTCAGGGGAAATC
Found at i:90162 original size:164 final size:163
Alignment explanation
Indices: 89633--90875 Score: 1286
Period size: 164 Copynumber: 7.6 Consensus size: 163
89623 CTTTCACTCA
* * * * * * *
89633 AGGGGAAACCAAACTTGATATGTGCCTCTTTTTCAGGTAGACAGATCAATTTTAGACGATGTG-C
1 AGGGGAAATCAGACTTGATATGTGCCTCTTTTTCGGGTAGACAAATCAATGTTGGAAGATGTGTC
* * * * * * * * * *
89697 TTGCTTTATAATTCATTCA-GGGAGATAAGACTCGATCTGTGCCACTTCTTCGGGTAGACAGAT-
66 -TGCTTCATCATGCATTCAGGGGAAATCAGACTTGATTTGTGCCTCTT-TTTGGGTAGACAAATC
** * * * **
89760 AACT-TTGGAAGATATATCTACTCCATTATTTATTC
129 AA-TGTTGGAAGACGTGTCTTCTCCATCATGCATTC
* * * * * * * *
89795 A-GGGAGATAAGACTTGATATGTGTCTCTTCTTCGGATATACAAATCAAAGTTGGAAGATGTATC
1 AGGGGAAATCAGACTTGATATGTGCCTCTTTTTCGGGTAGACAAATCAATGTTGGAAGATGTGTC
* * * *
89859 TTC-TCTATCATGCATTTAGGGGAAATCAAACTTGATTTGTGCCTCTTTTTAGGTAGACAAATCA
66 TGCTTC-ATCATGCATTCAGGGGAAATCAGACTTGATTTGTGCCTCTTTTTGGGTAGACAAATCA
* * * *
89923 ATATTGGAAGACGTGTCTTTTCCAGCATGTATTC
130 ATGTTGGAAGACGTGTCTTCTCCATCATGCATTC
* * * *
89957 AGGGGAAATCAGACTTGATTTGTGCCTCTTTTTTGGGTAGACAAATCAATGTTAGAAGATGTATC
1 AGGGGAAATCAGACTTGATATGTGCCTCTTTTTCGGGTAGACAAATCAATGTTGGAAGATGTGTC
* *
90022 TGCTTCATCATGCTTTCAGGGGAAATCAGACTTGATTTGTGCCTCTTTTTCAGGTAGACAAATCA
66 TGCTTCATCATGCATTCAGGGGAAATCAGACTTGATTTGTGCCTCTTTTT-GGGTAGACAAATCA
* * *
90087 ATGTTGGAAGACGTGTCTGCTCCATCATGCGTTT
130 ATGTTGGAAGACGTGTCTTCTCCATCATGCATTC
* * * *
90121 AGGGCAAATCAAACTTGATTTGTGCCTCTTTTTCGGGTAGACAAATTAATGTTGGAAGATGTGTC
1 AGGGGAAATCAGACTTGATATGTGCCTCTTTTTCGGGTAGACAAATCAATGTTGGAAGATGTGTC
* * * * * * *
90186 TTCTCCATCATGCATTCAGGAGAAATCAAAATTGATCTGTGCCTCTTTTTTGAGTAGACAAATCA
66 TGCTTCATCATGCATTCAGGGGAAATCAGACTTGATTTGTGCCTC-TTTTTGGGTAGACAAATCA
* *
90251 ATGTTGGAAGACGTATTTTCTCCATCATGCATTC
130 ATGTTGGAAGACGTGTCTTCTCCATCATGCATTC
* * * *
90285 A-GGGAAATCGGACTTGATATGTGCCTCTTTTTTGGGTAGAAACAATCAATGTTGGAAGACGTGT
1 AGGGGAAATCAGACTTGATATGTGCCTCTTTTTCGGGTAGACA-AATCAATGTTGGAAGATGTGT
** * *
90349 CTTTTTCATCATGCATTTAGGGGAAATCAGACTTGATTTGTGACTCTTTTTTGGGTAGACAAATC
65 CTGCTTCATCATGCATTCAGGGGAAATCAGACTTGATTTGTGCCTC-TTTTTGGGTAGACAAATC
* * *
90414 AATGTTGGAAGACGTGTCTTCTCTATCATGTATTG
129 AATGTTGGAAGACGTGTCTTCTCCATCATGCATTC
* * *
90449 AGGGGAAATCAGACTTGATCA-GTGCCT-TTTTT-GGGTAGACAAATCTATTTTGGAAGACGTGT
1 AGGGGAAATCAGACTTGAT-ATGTGCCTCTTTTTCGGGTAGACAAATCAATGTTGGAAGATGTGT
* * * * * * * *
90511 TTGCTCCATCAAGCAATCAGAGGAAATCAAACTTGATATGTGCCTCATTTTGGGTAGACAAATCA
65 CTGCTTCATCATGCATTCAGGGGAAATCAGACTTGATTTGTGCCTCTTTTTGGGTAGACAAATCA
* *
90576 ATGTTGGAAGACGTGTCTAT-TCCATAATGCATTT
130 ATGTTGGAAGACGTGTCT-TCTCCATCATGCATTC
* * * *
90610 AAGGGAAATCAGACTTGATTTATGCCTCTTTTTCGAGTAGACAAATCAATGTTGGAAGATGTGTC
1 AGGGGAAATCAGACTTGATATGTGCCTCTTTTTCGGGTAGACAAATCAATGTTGGAAGATGTGTC
* * *
90675 TGCTCCATCATGCATTCAGGGGAAATCAGACTTGATGTGTGCCTCTTTTTCGGGTAGACATAT-A
66 TGCTTCATCATGCATTCAGGGGAAATCAGACTTGATTTGTGCCTCTTTTT-GGGTAGACAAATCA
* * * *
90739 TATTTTGGAAGACGTGTCTGCTTCATTATGCATTC
130 -ATGTTGGAAGACGTGTCTTCTCCATCATGCATTC
* ** ** * * *
90774 AGGGGAAATCAGACTTGATCTGTGCCTCTTTTTTTAGGTAGACATGTCTATTTTGGAAGACGTGT
1 AGGGGAAATCAGACTTGATATGTGCCTC-TTTTTCGGGTAGACAAATCAATGTTGGAAGATGTGT
* * * * * *
90839 CTACTCCATAACGCATTTAGGGAAAATCAGACTTGAT
65 CTGCTTCATCATGCATTCAGGGGAAATCAGACTTGAT
90876 ATGTTCTTTT
Statistics
Matches: 905, Mismatches: 156, Indels: 37
0.82 0.14 0.03
Matches are distributed among these distances:
160 1 0.00
161 139 0.15
162 110 0.12
163 210 0.23
164 357 0.39
165 87 0.10
166 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (163 bp):
AGGGGAAATCAGACTTGATATGTGCCTCTTTTTCGGGTAGACAAATCAATGTTGGAAGATGTGTC
TGCTTCATCATGCATTCAGGGGAAATCAGACTTGATTTGTGCCTCTTTTTGGGTAGACAAATCAA
TGTTGGAAGACGTGTCTTCTCCATCATGCATTC
Found at i:90970 original size:81 final size:81
Alignment explanation
Indices: 90611--91107 Score: 206
Period size: 82 Copynumber: 6.1 Consensus size: 81
90601 AATGCATTTA
* * * * * * * * * *
90611 AGGG-AAATCAGACTTGATTTATGCCTCTTTTTCGAGTAGACAAATCAATGTTGGAAGATGTGTC
1 AGGGAAAATCAGACTTGATCTGTTCCTCTTTTTC-AGAAGACAGATCAATTTTAGAAGAAGGGGC
* * *
90675 TGCTCCA-TCATGCATTC
65 TGCTCCACT-TTTCTTTC
* * * * * * * * * *
90692 AGGGGAAATCAGACTTGATGTGTGCCTCTTTTTCGGGTAGACATAT-ATATTTTGGAAGACGTGT
1 AGGGAAAATCAGACTTGATCTGTTCCTCTTTTTC-AGAAGACAGATCA-ATTTTAGAAGAAGGGG
* * *
90756 CTGCTTCA-TTATGCATTC
64 CTGCTCCACTT-TTCTTTC
* * * * * * * *
90774 AGGGGAAATCAGACTTGATCTGTGCCTCTTTTTTTAGGTAGACATG-TCTATTTTGGAAGACGTG
1 AGGGAAAATCAGACTTGATCTGTTCCTC-TTTTTCA-GAAGACA-GATCAATTTTAGAAGAAGGG
* * ***
90838 TCTACTCCA-TAACGCATTT-
63 GCTGCTCCACT-TTTC-TTTC
* * * * * * **
90857 AGGGAAAATCAGACTTGATATGTT-CTTTTTTTTAGAAGACAGATCTATTTTTGAAGATGTGGTT
1 AGGGAAAATCAGACTTGATCTGTTCCTCTTTTTCAGAAGACAGATCAATTTTAGAAGAAG-GGGC
90921 TGCTCCACTTTTCTTTC
65 TGCTCCACTTTTCTTTC
* * * * * * *
90938 AGGGTAAATCAAACTTGATCTTTTCCTCTTTTTCGGGTAGTCATATCAATTTTAGAAGAAGGGGC
1 AGGGAAAATCAGACTTGATCTGTTCCTCTTTTTC-AGAAGACAGATCAATTTTAGAAGAAGGGGC
*
91003 TGCTCCGCTTTTCTTTC
65 TGCTCCACTTTTCTTTC
* * * * * *
91020 AGGGGAGATCAGACTTGACCTGTTCCTCTTTTTCAGGTAA-TCAGATCAATTTCA-AAGGACA-T
1 AGGGAAAATCAGACTTGATCTGTTCCTCTTTTTCA-G-AAGACAGATCAATTTTAGAA-GA-AGG
*
91082 GTCTGCTCCACTTTTCTTTC
62 GGCTGCTCCACTTTTCTTTC
91102 AAGGGA
1 -AGGGA
91108 GATAAGACCA
Statistics
Matches: 336, Mismatches: 60, Indels: 38
0.77 0.14 0.09
Matches are distributed among these distances:
79 1 0.00
80 23 0.07
81 43 0.13
82 183 0.54
83 84 0.25
84 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.37
Consensus pattern (81 bp):
AGGGAAAATCAGACTTGATCTGTTCCTCTTTTTCAGAAGACAGATCAATTTTAGAAGAAGGGGCT
GCTCCACTTTTCTTTC
Found at i:91024 original size:328 final size:323
Alignment explanation
Indices: 89870--91058 Score: 1200
Period size: 328 Copynumber: 3.6 Consensus size: 323
89860 TCTCTATCAT
* * * * *
89870 GCATTTAGGGGAAATCAAACTTGATTTGTGCCTCTTTTT-AGGTAGACAAATCAATATTGGAAGA
1 GCATTCAGGGAAAATCAAACTTGATATGTGCCTTTTTTTGA-GTAGACAAATCAATGTTGGAAGA
* ** *
89934 CGTGTCTT-TTCCAGCATG-TATTCAGGGGAAATCAGACTTGATTTGTGCCTCTTTTTTGGGTAG
65 CGTGT-TTACTCCATAATGCT-TTCA-GGGAAATCAGACTTGATTT-TGCCTCTTTTTCGGGTAG
* * * *
89997 ACAAATCAATGTTAGAAGATGTATCTGCTTCATCATGCTTTCAGGGGAAATCAGACTTGATTTGT
126 AC-AATCAATGTTGGAAGAAGTGTCTGCTCCATCATGCTTTCAGGGGAAATCAGACTTGATTTGT
* * * *
90062 GCCTCTTTTTCAGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTCCATCATGCGTTTAGGGCA
190 GCCTCTTTTTCAGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTCATCATGCATTCAGGGGA
* * * * * *
90127 AATCAAACTTGATTTGTGCCTCTTTTTCGGGTAGACAAAT-TAATGTTGGAAGATGTGTCTTCTC
255 AATCAGACTTGATCTGTGCCTCTTTTTTGGGTAGACAAATCT-ATTTTGGAAGACGTGTCTACTC
*
90191 CATCAT
319 CAT-AA
* *
90197 GCATTCA-GGAGAAATCAAAATTGATCTGTGCCTCTTTTTTGAGTAGACAAATCAATGTTGGAAG
1 GCATTCAGGGA-AAATCAAACTTGATATGTGCCT-TTTTTTGAGTAGACAAATCAATGTTGGAAG
* * * * * * *
90261 ACGTATTTTCTCCATCATGCATTCAGGGAAATCGGACTTGATATGTGCCTCTTTTTTGGGTAGAA
64 ACGTGTTTACTCCATAATGCTTTCAGGGAAATCAGACTTGAT-TTTGCCTCTTTTTCGGGTAG--
* ** *
90326 ACAATCAATGTTGGAAGACGTGTCTTTTTCATCATGCATTT-AGGGGAAATCAGACTTGATTTGT
126 ACAATCAATGTTGGAAGAAGTGTCTGCTCCATCATGC-TTTCAGGGGAAATCAGACTTGATTTGT
* ** * * *
90390 GACTCTTTTTTGGGTAGACAAATCAATGTTGGAAGACGTGTCTTC-TCTATCATGTATTGAGGGG
190 GCCTCTTTTTCAGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTC-ATCATGCATTCAGGGG
* * *
90454 AAATCAGACTTGATCAGTG-C-CTTTTTTGGGTAGACAAATCTATTTTGGAAGACGTGTTTGCTC
254 AAATCAGACTTGATCTGTGCCTCTTTTTTGGGTAGACAAATCTATTTTGGAAGACGTGTCTACTC
90517 CATCAA
319 CAT-AA
* ** *
90523 GCAATCAGAGG-AAATCAAACTTGATATGTGCCTCATTTTGGGTAGACAAATCAATGTTGGAAGA
1 GCATTCAG-GGAAAATCAAACTTGATATGTGCCTTTTTTTGAGTAGACAAATCAATGTTGGAAGA
* * * *
90587 CGTGTCTATTCCATAATGCATTTAAGGGAAATCAGACTTGATTTATGCCTCTTTTTCGAGTAGAC
65 CGTGTTTACTCCATAATGC-TTTCAGGGAAATCAGACTTGATTT-TGCCTCTTTTTCGGGTAGAC
* * *
90652 AAATCAATGTTGGAAGATGTGTCTGCTCCATCATGCATTCAGGGGAAATCAGACTTGATGTGTGC
128 -AATCAATGTTGGAAGAAGTGTCTGCTCCATCATGCTTTCAGGGGAAATCAGACTTGATTTGTGC
* * * *
90717 CTCTTTTTCGGGTAGACATAT-ATATTTTGGAAGACGTGTCTGCTTCATTATGCATTCAGGGGAA
192 CTCTTTTTCAGGTAGACAAATCA-ATGTTGGAAGACGTGTCTGCTTCATCATGCATTCAGGGGAA
* **
90781 ATCAGACTTGATCTGTGCCTCTTTTTTTAGGTAGACATGTCTATTTTGGAAGACGTGTCTACTCC
256 ATCAGACTTGATCTGTGCCTC-TTTTTTGGGTAGACAAATCTATTTTGGAAGACGTGTCTACTCC
90846 ATAA
320 ATAA
* * * * * * * * *
90850 CGCATTTAGGGAAAATCAGACTTGATATGT-TCTTTTTTTTAGAAGACAGATCTATTTTTGAAGA
1 -GCATTCAGGGAAAATCAAACTTGATATGTGCCTTTTTTTGAGTAGACAAATCAATGTTGGAAGA
* * * * * *
90914 TGTGGTTTGCTCCACT-TTTCTTTCAGGGTAAATCAAACTTGATCTTTTCCTCTTTTTCGGGTAG
65 CGT-GTTTACTCCA-TAATGCTTTCAGGG-AAATCAGACTTGAT-TTTGCCTCTTTTTCGGGTAG
* * * * * * * * * **
90978 TCATATCAATTTTAGAAGAAGGGGCTGCTCC-GCTTTTCTTTCAGGGGAGATCAGACTTGACCTG
126 ACA-ATCAATGTTGGAAGAAGTGTCTGCTCCATC-ATGCTTTCAGGGGAAATCAGACTTGATTTG
*
91042 TTCCTCTTTTTCAGGTA
189 TGCCTCTTTTTCAGGTA
91059 ATCAGATCAA
Statistics
Matches: 722, Mismatches: 110, Indels: 59
0.81 0.12 0.07
Matches are distributed among these distances:
324 5 0.01
325 165 0.23
326 107 0.15
327 105 0.15
328 331 0.46
329 9 0.01
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.36
Consensus pattern (323 bp):
GCATTCAGGGAAAATCAAACTTGATATGTGCCTTTTTTTGAGTAGACAAATCAATGTTGGAAGAC
GTGTTTACTCCATAATGCTTTCAGGGAAATCAGACTTGATTTTGCCTCTTTTTCGGGTAGACAAT
CAATGTTGGAAGAAGTGTCTGCTCCATCATGCTTTCAGGGGAAATCAGACTTGATTTGTGCCTCT
TTTTCAGGTAGACAAATCAATGTTGGAAGACGTGTCTGCTTCATCATGCATTCAGGGGAAATCAG
ACTTGATCTGTGCCTCTTTTTTGGGTAGACAAATCTATTTTGGAAGACGTGTCTACTCCATAA
Found at i:91108 original size:82 final size:82
Alignment explanation
Indices: 90921--91115 Score: 225
Period size: 82 Copynumber: 2.4 Consensus size: 82
90911 AGATGTGGTT
* * * * * * *
90921 TGCTCCACTTTTCTTTC-AGGGTAAATCAAACTTGATCTTTTCCTCTTTTTCGGGTAGTCATATC
1 TGCTCCACTTTTCTTTCAAGGG-AGATCAGACTTGACCTGTTCCTCTTTTTCAGGTAATCAGATC
*
90985 AATTTTAGAAGAAGGGGC
65 AATTTCAGAAGAAGGGGC
* *
91003 TGCTCCGCTTTTCTTTCAGGGGAGATCAGACTTGACCTGTTCCTCTTTTTCAGGTAATCAGATCA
1 TGCTCCACTTTTCTTTCAAGGGAGATCAGACTTGACCTGTTCCTCTTTTTCAGGTAATCAGATCA
* *
91068 ATTTCA-AAGGACA-TGTC
66 ATTTCAGAA-GA-AGGGGC
*
91085 TGCTCCACTTTTCTTTCAAGGGAGATAAGAC
1 TGCTCCACTTTTCTTTCAAGGGAGATCAGAC
91116 CACAAAATCT
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
81 2 0.02
82 89 0.94
83 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (82 bp):
TGCTCCACTTTTCTTTCAAGGGAGATCAGACTTGACCTGTTCCTCTTTTTCAGGTAATCAGATCA
ATTTCAGAAGAAGGGGC
Found at i:91871 original size:51 final size:51
Alignment explanation
Indices: 91795--91909 Score: 160
Period size: 51 Copynumber: 2.3 Consensus size: 51
91785 TTTACACTAT
* * * * *
91795 AAAGTTAAGTTGAGAAATGATACTACTAAAAAGTTGACTTCTCTCCACGAG
1 AAAGTTGAGTTGAAAAAGGATACTACTAAAAAGTTGACTACACTCCACGAG
*
91846 TAAGTTGAGTTGAAAAAGGATACTACTAAAAAGTTGACTACACTCCACGAG
1 AAAGTTGAGTTGAAAAAGGATACTACTAAAAAGTTGACTACACTCCACGAG
91897 AAAG-TGAAGTTGA
1 AAAGTTG-AGTTGA
91910 GAATGACATC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 2 0.04
51 54 0.96
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.25
Consensus pattern (51 bp):
AAAGTTGAGTTGAAAAAGGATACTACTAAAAAGTTGACTACACTCCACGAG
Found at i:92075 original size:92 final size:90
Alignment explanation
Indices: 91947--92165 Score: 219
Period size: 92 Copynumber: 2.4 Consensus size: 90
91937 CCTTTATGAT
* * * * * * **
91947 AAAGTCAAGAATCACAACACTGAAATATTTACTTCTCTTTACGAGAAAATGAAGAATGG-CAACA
1 AAAGTCAAGAATAACAACACTAAAAGATTGACTTCTCTTCACAAGAAAACCAAGAA-GGACAACA
*
92011 ATAAAAGATCGACTCTTCTTTCCACGAG
65 ATAAAAGATCGACTCTTC--TACACGAG
* * * * * * *
92039 AAAGTCAAGAATAACACCACTAAAAGGTTGATTTCTCTTCACAAGAGAGCCAAGTAGGACAACAC
1 AAAGTCAAGAATAACAACACTAAAAGATTGACTTCTCTTCACAAGAAAACCAAGAAGGACAACAA
*
92104 TAAAAGATCGACTCTTCTACTCGAG
66 TAAAAGATCGACTCTTCTACACGAG
*
92129 AAAGTCAAGGAA-AACAACACT-AAAGATTGACTCCTCT
1 AAAGTCAA-GAATAACAACACTAAAAGATTGACTTCTCT
92166 ATCAATCTAT
Statistics
Matches: 104, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
89 13 0.12
90 22 0.21
91 5 0.05
92 64 0.62
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (90 bp):
AAAGTCAAGAATAACAACACTAAAAGATTGACTTCTCTTCACAAGAAAACCAAGAAGGACAACAA
TAAAAGATCGACTCTTCTACACGAG
Found at i:94838 original size:99 final size:100
Alignment explanation
Indices: 94666--94868 Score: 293
Period size: 99 Copynumber: 2.0 Consensus size: 100
94656 AATTTTATTG
* *
94666 TAATCACATTTATTAGGCTAGCTAAATCTTATCAATAAAGCCAGGGCATTTAACCAATTGCTCTA
1 TAATCACATTTATCAGGCTAGCTAAATCTTATCAATAAAGCCAAGGCATTTAACCAATTGCTCTA
*
94731 AATGGACATTTCAAGCTTTATTGTATAT-ATAATA
66 AATGGACATCTCAAGCTTTATTGTATATAATAATA
* * * * *
94765 TAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCAAGGCATTTAACCAATTGTTTTA
1 TAATCACATTTATCAGGCTAGCTAAATCTTATCAATAAAGCCAAGGCATTTAACCAATTGCTCTA
* *
94830 GACT-GACATCTCAAGCTTTATTGTATATAATATTA
66 -AATGGACATCTCAAGCTTTATTGTATATAATAATA
94865 TAAT
1 TAAT
94869 ATGGGTATAC
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
99 81 0.88
100 11 0.12
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (100 bp):
TAATCACATTTATCAGGCTAGCTAAATCTTATCAATAAAGCCAAGGCATTTAACCAATTGCTCTA
AATGGACATCTCAAGCTTTATTGTATATAATAATA
Found at i:98860 original size:24 final size:24
Alignment explanation
Indices: 98833--98954 Score: 60
Period size: 24 Copynumber: 5.3 Consensus size: 24
98823 GCTCGTAAGC
98833 TTATTCTACCAATATACTTACCAT
1 TTATTCTACCAATATACTTACCAT
* * ** * *
98857 TTATTCCA-TAAGCT-CGTAAGC-T
1 TTATTCTACCAATATAC-TTACCAT
98879 -TATTCTACCAATATACTTACCAT
1 TTATTCTACCAATATACTTACCAT
* * ** * *
98902 TTATTCCA-TAAGCT-CGTA-CAC
1 TTATTCTACCAATATACTTACCAT
* *
98923 TTATTTTACCAATATACTTACCGT
1 TTATTCTACCAATATACTTACCAT
98947 TTATTCTA
1 TTATTCTA
98955 TAAGCTCATA
Statistics
Matches: 63, Mismatches: 27, Indels: 16
0.59 0.25 0.15
Matches are distributed among these distances:
21 14 0.22
22 14 0.22
23 14 0.22
24 21 0.33
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (24 bp):
TTATTCTACCAATATACTTACCAT
Found at i:98860 original size:45 final size:45
Alignment explanation
Indices: 98804--99016 Score: 288
Period size: 45 Copynumber: 4.8 Consensus size: 45
98794 TATAAAATTT
*
98804 CTTATCATTTA-TCCTATAAGCTCGTAAGCTTATTCTACCAATATA
1 CTTACCATTTATTCC-ATAAGCTCGTAAGCTTATTCTACCAATATA
98849 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTCTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTCTACCAATATA
*
98894 CTTACCATTTATTCCATAAGCTCGTACA-CTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTA-AGCTTATTCTACCAATATA
* * * *
98939 CTTACCGTTTATTCTATAAGCTCATAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTCTACCAATATA
* * * * *
98984 TTTGCCA-CTATTCCATAAGTTTGTAAGCTTATT
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATT
99017 TGCATACTAA
Statistics
Matches: 152, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
44 22 0.14
45 126 0.83
46 4 0.03
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTCTACCAATATA
Found at i:101138 original size:17 final size:17
Alignment explanation
Indices: 101116--101159 Score: 79
Period size: 18 Copynumber: 2.5 Consensus size: 17
101106 TCCCTAAACT
101116 TTTTCCCAATTTTCTAC
1 TTTTCCCAATTTTCTAC
101133 TTTTCCCCAATTTTCTAC
1 TTTT-CCCAATTTTCTAC
101151 TTTTCCCAA
1 TTTTCCCAA
101160 CAAACTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 9 0.35
18 17 0.65
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTCCCAATTTTCTAC
Found at i:102178 original size:2 final size:2
Alignment explanation
Indices: 102173--102207 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
102163 AAAGGAAAAA
102173 AT AT AT AT AT AT A- 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
102208 CAAAGTATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:102268 original size:35 final size:37
Alignment explanation
Indices: 102195--102268 Score: 91
Period size: 37 Copynumber: 2.1 Consensus size: 37
102185 AATATATATA
* * *
102195 TATATATATATATCAAAGTATTAATAAATTAAATAGC
1 TATATATATACACCAAAGTATTAATAAATTAAAAAGC
102232 TATATATATACACCAAA-TACTTAA-AAA-TAAAAAGC
1 TATATATATACACCAAAGTA-TTAATAAATTAAAAAGC
102267 TA
1 TA
102269 CCCTCCCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 9 0.27
36 5 0.15
37 19 0.58
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.32
Consensus pattern (37 bp):
TATATATATACACCAAAGTATTAATAAATTAAAAAGC
Found at i:102444 original size:24 final size:24
Alignment explanation
Indices: 102396--102455 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
102386 TTTTTTTTAA
*
102396 AAAAATAATATAATAATAATGAAT
1 AAAAATAATATAATAAAAATGAAT
102420 AAAAATGAA-ATAATAAAAAAT-AAT
1 AAAAAT-AATATAAT-AAAAATGAAT
*
102444 ATAAAT-ATATAA
1 AAAAATAATATAA
102456 AGTTATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
22 1 0.03
23 4 0.13
24 19 0.61
25 7 0.23
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (24 bp):
AAAAATAATATAATAAAAATGAAT
Found at i:102487 original size:24 final size:21
Alignment explanation
Indices: 102393--102488 Score: 58
Period size: 21 Copynumber: 4.6 Consensus size: 21
102383 AGGTTTTTTT
*
102393 TAAAAAAATAATAT-AAT-AA
1 TAAAGAAATAATATAAATAAA
* *
102412 TAATG-AATAAAAATGAAAT-AA
1 TAAAGAAAT-AATAT-AAATAAA
*
102433 TAAA-AAATAATATAAATATA
1 TAAAGAAATAATATAAATAAA
**
102453 TAAAGTTATAATATATTACATAAA
1 TAAAGAAATAATATA--A-ATAAA
102477 TAAAGAAATAAT
1 TAAAGAAATAAT
102489 CAAAAATATT
Statistics
Matches: 57, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
18 3 0.05
19 11 0.19
20 9 0.16
21 19 0.33
23 1 0.02
24 14 0.25
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (21 bp):
TAAAGAAATAATATAAATAAA
Found at i:102509 original size:55 final size:54
Alignment explanation
Indices: 102418--102534 Score: 125
Period size: 55 Copynumber: 2.2 Consensus size: 54
102408 ATAATAATGA
* *
102418 ATAAA-AATGAAATAATAAAAAATAATATAAATATATAAAGTTATAATATA-TTAC
1 ATAAATAAAGAAATAATAAAAAATAATATAAATATATAAA--TATAATATAGGTAC
* * *
102472 ATAAATAAAGAAATAATCAAAAAT-AT-TAAATGAATATATATATAATATAGGTAT
1 ATAAATAAAGAAATAATAAAAAATAATATAAAT--ATATAAATATAATATAGGTAC
102526 ATAAATAAA
1 ATAAATAAA
102535 AAGATATTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
53 14 0.26
54 18 0.33
55 22 0.41
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (54 bp):
ATAAATAAAGAAATAATAAAAAATAATATAAATATATAAATATAATATAGGTAC
Found at i:102639 original size:11 final size:11
Alignment explanation
Indices: 102625--102688 Score: 62
Period size: 11 Copynumber: 5.8 Consensus size: 11
102615 TATTAAAGAA
102625 ATAATAATAAT
1 ATAATAATAAT
*
102636 ATAATAATAGT
1 ATAATAATAAT
*
102647 A-AAAAATAAT
1 ATAATAATAAT
102657 A-AATAATTAAT
1 ATAATAA-TAAT
102668 AT-ATATATACAT
1 ATAATA-ATA-AT
102680 ATAATAATA
1 ATAATAATA
102689 TAACATGAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
10 12 0.27
11 21 0.48
12 8 0.18
13 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (11 bp):
ATAATAATAAT
Found at i:102641 original size:8 final size:8
Alignment explanation
Indices: 102628--102691 Score: 52
Period size: 8 Copynumber: 8.5 Consensus size: 8
102618 TAAAGAAATA
102628 ATAATAAT
1 ATAATAAT
102636 ATAATAAT
1 ATAATAAT
102644 AGT-A-AA-
1 A-TAATAAT
102650 A-AATAAT
1 ATAATAAT
102657 A-AATAAT
1 ATAATAAT
102664 -TAAT-AT
1 ATAATAAT
102670 ATATATACAT
1 ATA-ATA-AT
102680 ATAATAAT
1 ATAATAAT
102688 ATAA
1 ATAA
102692 CATGAATATA
Statistics
Matches: 47, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
5 1 0.02
6 5 0.11
7 14 0.30
8 18 0.38
9 4 0.09
10 5 0.11
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (8 bp):
ATAATAAT
Found at i:103097 original size:37 final size:37
Alignment explanation
Indices: 103047--103148 Score: 105
Period size: 37 Copynumber: 2.8 Consensus size: 37
103037 GTGCTTGTGG
* * * *
103047 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAATTTAAATCCTAGCAAAACTCT
* * * *
103084 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAATTTAAATCCTAGCAAAACTCT
** *
103121 ATCCTATTTTTAGGGGTTTGAATCCTAG
1 ATCCTATTTTTAGGAATTTAAATCCTAG
103149 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAATTTAAATCCTAGCAAAACTCT
Found at i:103993 original size:105 final size:105
Alignment explanation
Indices: 103689--104319 Score: 898
Period size: 105 Copynumber: 6.0 Consensus size: 105
103679 GCATTGTTCC
* * * ** *
103689 GAGTCTAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * *
103753 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
64 AGCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
103795 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
103855 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
103895 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* * *
103960 AAGCGGTTCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
104000 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTATTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
104065 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCCTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
104105 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
104170 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
104210 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* ** * * *
104275 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
104316 GAGT
1 GAGT
104320 GTCACTATAT
Statistics
Matches: 480, Mismatches: 37, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
99 1 0.00
100 83 0.17
101 1 0.00
102 7 0.01
104 5 0.01
105 299 0.62
106 84 0.17
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:104573 original size:36 final size:36
Alignment explanation
Indices: 104517--104587 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
104507 TGGAGAGAAA
*
104517 CTGTCTCAAGGGAGACAAAATTCATTTCAAGGGAAG
1 CTGTCTCAAGCGAGACAAAATTCATTTCAAGGGAAG
*
104553 CTGTCTCAAGCGAGATAAAATTCATTTCAAGGGAA
1 CTGTCTCAAGCGAGACAAAATTCATTTCAAGGGAA
104588 ATGTTTTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (36 bp):
CTGTCTCAAGCGAGACAAAATTCATTTCAAGGGAAG
Found at i:104692 original size:104 final size:104
Alignment explanation
Indices: 104510--104805 Score: 454
Period size: 104 Copynumber: 2.9 Consensus size: 104
104500 AAGTTTATGG
* * * * * *
104510 AGAGAAACTGTCTCAAGGGAGACAAAA--TTC-ATTTCAAGGGAAGCTGTCTCAAGCGAGATAAA
1 AGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGAGAGAAAAA
*
104572 ATTCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCA
66 AATCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCA
* *
104611 AGAGAAACTGTCTCACGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGAGAAAAAAA
1 AGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGAGAGAAAAA
104676 AATCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCA
66 AATCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCA
* * *
104715 AGAGAAACTGTCTCAATGGAGATAAAATTTTCTGTTTCGAGGGAAACTATCTCAGGAGAGAAAAA
1 AGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGAGAGAAAAA
*
104780 AATAATTTCAAGGGAAATGTTTTCAA
66 AATCATTTCAAGGGAAATGTTTTCAA
104806 GAGAAACTGT
Statistics
Matches: 177, Mismatches: 15, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
101 26 0.15
103 3 0.02
104 148 0.84
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (104 bp):
AGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGGAAACTATCTCAAGAGAGAAAAA
AATCATTTCAAGGGAAATGTTTTCAATGTTTATGTTTCA
Found at i:104962 original size:36 final size:36
Alignment explanation
Indices: 104922--105032 Score: 107
Period size: 36 Copynumber: 3.1 Consensus size: 36
104912 CTTTCGAGTG
* *
104922 AAAACGGTCTCAAGCGAGACAAATCTTGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
* ** * * * **
104958 AAAACAATCTTGAGTGAAATAAATCTTCTTTCGAGA
1 AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
*
104994 AAAACAGTCTCAAGTGAGACAAAGT-ATGTTTTAAGA
1 AAAACAGTCTCAAGTGAGACAAA-TCTTGTTTTAAGA
105030 AAA
1 AAA
105033 CAAATTTGAG
Statistics
Matches: 55, Mismatches: 19, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
36 54 0.98
37 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (36 bp):
AAAACAGTCTCAAGTGAGACAAATCTTGTTTTAAGA
Found at i:105014 original size:72 final size:74
Alignment explanation
Indices: 104854--105050 Score: 210
Period size: 72 Copynumber: 2.7 Consensus size: 74
104844 AGGGAAACTA
* * * **
104854 TCTCAAGCAAGATAAAATAT-TCTTTAA-AAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTC
1 TCTCAAGCGAGACAAAGTATGT-TTTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CCTTCTTTC
* *
104917 GAGTGAAAACGG
63 GAGTAAAAACAG
*
104929 TCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAACAATCTTGAGTGAAATAAAT-CTTCTTTCGA
1 TCTCAAGCGAGACAAAGT-ATGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGA
104992 G-AAAAACAG
65 GTAAAAACAG
* *
105001 TCTCAAGTGAGACAAAGTATGTTTTAAG-AAAACAAAT-TTGAGTGAGATAA
1 TCTCAAGCGAGACAAAGTATGTTTTAAGAAAAAC-AATCTTGAGTGAAATAA
105051 TCATCTGCAT
Statistics
Matches: 107, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
71 17 0.16
72 33 0.31
73 12 0.11
74 1 0.01
75 24 0.22
76 20 0.19
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (74 bp):
TCTCAAGCGAGACAAAGTATGTTTTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAG
TAAAAACAG
Found at i:106499 original size:183 final size:183
Alignment explanation
Indices: 106191--106727 Score: 986
Period size: 183 Copynumber: 2.9 Consensus size: 183
106181 ATCAGGTTTA
* *
106191 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAATGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* **
106256 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
106320 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
106374 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
106439 GCCAAGTGTCCAAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
106504 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
106557 ACTGAAGGGTTCATCTCATCACAAAGTTTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
106622 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
106687 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
106728 CGGATTTAAT
Statistics
Matches: 343, Mismatches: 10, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
183 342 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:112129 original size:2 final size:2
Alignment explanation
Indices: 112124--112163 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
112114 AAAAAGGAAA
112124 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
112164 CAAAGTATTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112661 original size:18 final size:18
Alignment explanation
Indices: 112638--112686 Score: 73
Period size: 18 Copynumber: 2.7 Consensus size: 18
112628 ATATACATAC
112638 ATATAATAATAACATGAAT
1 ATATAATAATAA-ATGAAT
*
112657 A-ATAAAAATAAATGAAT
1 ATATAATAATAAATGAAT
112674 ATATAATAATAAA
1 ATATAATAATAAA
112687 GGGACTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 19 0.70
19 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (18 bp):
ATATAATAATAAATGAAT
Found at i:113109 original size:37 final size:37
Alignment explanation
Indices: 113027--113128 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 37
113017 GTGCTTGTGG
* * * * * *
113027 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
* * *
113064 ATCATATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
113101 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAG
113129 TAGGACGAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAACTCT
Found at i:150718 original size:33 final size:33
Alignment explanation
Indices: 150676--150742 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
150666 CCTAGTACAG
150676 ATGGTGGACACAACCTTATGTGTCATACGGATT
1 ATGGTGGACACAACCTTATGTGTCATACGGATT
*
150709 ATGGTGGACACAACCTTATGTGTCATATGGATT
1 ATGGTGGACACAACCTTATGTGTCATACGGATT
150742 A
1 A
150743 GCACTACGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (33 bp):
ATGGTGGACACAACCTTATGTGTCATACGGATT
Found at i:150839 original size:20 final size:20
Alignment explanation
Indices: 150802--150840 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
150792 TATTTTGGGT
* * *
150802 TATTGTCTATTGTTTATGGC
1 TATTATCTATGGTATATGGC
150822 TATTATCTATGGTATATGG
1 TATTATCTATGGTATATGG
150841 TTATGGAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.08, G:0.21, T:0.51
Consensus pattern (20 bp):
TATTATCTATGGTATATGGC
Found at i:150917 original size:45 final size:45
Alignment explanation
Indices: 150842--150946 Score: 133
Period size: 45 Copynumber: 2.3 Consensus size: 45
150832 GGTATATGGT
* * *
150842 TATGGAATAAATGGCAGATGTATTGTTAAAATAAGCTTACGAGCG
1 TATGGAATAAATGGTAGATGTATTGGTAAAATAAGCTTACAAGCG
*
150887 TATGGAATAAATGGTA-A-GTATAATGGTAAAATAAGCTTACAAGCT
1 TATGGAATAAATGGTAGATGTAT--TGGTAAAATAAGCTTACAAGCG
*
150932 TATGGGATAAATGGT
1 TATGGAATAAATGGT
150947 GAGAAATTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
43 4 0.08
44 1 0.02
45 48 0.91
ACGTcount: A:0.40, C:0.07, G:0.24, T:0.30
Consensus pattern (45 bp):
TATGGAATAAATGGTAGATGTATTGGTAAAATAAGCTTACAAGCG
Found at i:165431 original size:25 final size:26
Alignment explanation
Indices: 165377--165431 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 26
165367 AAATATTATT
* * *
165377 TTAATTATGTTGAAATTTAATCTTCT
1 TTAATTATGTTGAAATTAAATATTCA
165403 TTAATTACT-TTG-AATTAAATATTCA
1 TTAATTA-TGTTGAAATTAAATATTCA
165428 TTAA
1 TTAA
165432 AATAGCAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 14 0.56
26 10 0.40
27 1 0.04
ACGTcount: A:0.36, C:0.07, G:0.05, T:0.51
Consensus pattern (26 bp):
TTAATTATGTTGAAATTAAATATTCA
Found at i:172423 original size:54 final size:54
Alignment explanation
Indices: 172338--172555 Score: 364
Period size: 54 Copynumber: 4.0 Consensus size: 54
172328 CACCTAACTA
* * *
172338 CCAAAATGGTAATTCAGAAACTCATTATGAATTCAATAGGTTGCACACATAGTG
1 CCAAAATGGTAATTCACAAACTCATTATGAATTCTATGGGTTGCACACATAGTG
*
172392 CCGAAATGGTAATTCACAAACTCATTATGAATTCTATGGGTTGCACACATAGTG
1 CCAAAATGGTAATTCACAAACTCATTATGAATTCTATGGGTTGCACACATAGTG
*
172446 CCAAAATGGTAATTCACAAACTCATTATGAATTCCATGGGTTGCACACATAGTG
1 CCAAAATGGTAATTCACAAACTCATTATGAATTCTATGGGTTGCACACATAGTG
* * *
172500 CTAAAATGGTAATTCTCAAACTCATTATGAATTCTGTGGGTTGCACACATAGTG
1 CCAAAATGGTAATTCACAAACTCATTATGAATTCTATGGGTTGCACACATAGTG
172554 CC
1 CC
172556 GAAAGTACAC
Statistics
Matches: 153, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 153 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (54 bp):
CCAAAATGGTAATTCACAAACTCATTATGAATTCTATGGGTTGCACACATAGTG
Found at i:173558 original size:20 final size:21
Alignment explanation
Indices: 173515--173558 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
173505 AAGCTAACTT
** *
173515 ACATCCATAAATCTCCTTATA
1 ACATCCATAAATCTCCAAAGA
173536 ACATCCA-AAATCTCCAAAGA
1 ACATCCATAAATCTCCAAAGA
173556 ACA
1 ACA
173559 CTTAAAACTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.45, C:0.30, G:0.02, T:0.23
Consensus pattern (21 bp):
ACATCCATAAATCTCCAAAGA
Found at i:177355 original size:23 final size:24
Alignment explanation
Indices: 177319--177366 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
177309 TGAACAAACG
177319 TTTTGAAAATGGAGAAAATTCAAA
1 TTTTGAAAATGGAGAAAATTCAAA
177343 TTTTG-AAATGGAGAAAATTCAAA
1 TTTTGAAAATGGAGAAAATTCAAA
177366 T
1 T
177367 CCAACTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (24 bp):
TTTTGAAAATGGAGAAAATTCAAA
Found at i:181970 original size:20 final size:20
Alignment explanation
Indices: 181945--181982 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
181935 TTTTGGTGCA
181945 GAGGGAATCGATACCCCCAT
1 GAGGGAATCGATACCCCCAT
*
181965 GAGGGAATCGATTCCCCC
1 GAGGGAATCGATACCCCC
181983 TTTGAAGGGG
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:0.26, C:0.32, G:0.26, T:0.16
Consensus pattern (20 bp):
GAGGGAATCGATACCCCCAT
Found at i:182014 original size:21 final size:21
Alignment explanation
Indices: 181988--182027 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
181978 CCCCCTTTGA
*
181988 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
182009 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
182028 TGGGGTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:184968 original size:13 final size:13
Alignment explanation
Indices: 184950--184974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
184940 AAACTAACGA
184950 AAATAAATAAATC
1 AAATAAATAAATC
184963 AAATAAATAAAT
1 AAATAAATAAAT
184975 AAACAAACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAATAAATC
Found at i:184972 original size:17 final size:16
Alignment explanation
Indices: 184950--184981 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
184940 AAACTAACGA
184950 AAATAAATAAATCAAAT
1 AAATAAATAAA-CAAAT
184967 AAATAAATAAACAAA
1 AAATAAATAAACAAA
184982 CACTGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATAAATAAACAAAT
Found at i:185623 original size:13 final size:13
Alignment explanation
Indices: 185605--185637 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
185595 AGCATTGTGA
*
185605 AAAGAAAATAATG
1 AAAGAAAATAAAG
185618 AAAGAAAATAAAG
1 AAAGAAAATAAAG
185631 AAAGAAA
1 AAAGAAA
185638 CATGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (13 bp):
AAAGAAAATAAAG
Found at i:193656 original size:38 final size:37
Alignment explanation
Indices: 193573--193878 Score: 208
Period size: 38 Copynumber: 8.2 Consensus size: 37
193563 TCCGGAGCTT
**
193573 ATATGATAATATAGTATAGTTTTTGAAAATATTTTTGAAA
1 ATAT-ATAATATA-TATA-TTTTTGAAAACGTTTTTGAAA
193613 A-ATATAATATATA-ATTTTTAGAAAACGGTTTTTGAAA
1 ATATATAATATATATATTTTT-GAAAAC-GTTTTTGAAA
* ** **
193650 ACATATAATATATACCTTTTAAAAAAATCGGTTTTTGAAA
1 ATATATAATATATATATTTT-TGAAAA-C-GTTTTTGAAA
*
193690 ATATAT-AT-TATAT-TGTTTTGAAAACAATTTTTG--A
1 ATATATAATATATATAT-TTTTGAAAAC-GTTTTTGAAA
* *
193724 A-A-AT-GTATATATA-TTTTGAAAAC-ATTTTGAAA
1 ATATATAATATATATATTTTTGAAAACGTTTTTGAAA
* *
193756 ATATATATATAATATATTATTTTTGAAAGCATTTTTGAAA
1 ATATATA-AT-ATATA-TATTTTTGAAAACGTTTTTGAAA
* * *
193796 AAATATATATAATATATAATTTTGAAAAC-ATTTTGAAA
1 ATATATA-AT-ATATATATTTTTGAAAACGTTTTTGAAA
* *
193834 AAATATATATAATATATAATTTT-AAAACGTTTTTGAAA
1 ATATATA-AT-ATATATATTTTTGAAAACGTTTTTGAAA
193872 ATATATA
1 ATATATA
193879 TAGTTTGATG
Statistics
Matches: 224, Mismatches: 22, Indels: 42
0.78 0.08 0.15
Matches are distributed among these distances:
30 5 0.02
32 15 0.07
33 7 0.03
34 4 0.02
35 5 0.02
36 14 0.06
37 27 0.12
38 74 0.33
39 32 0.14
40 41 0.18
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (37 bp):
ATATATAATATATATATTTTTGAAAACGTTTTTGAAA
Found at i:193746 original size:32 final size:32
Alignment explanation
Indices: 193581--193766 Score: 133
Period size: 36 Copynumber: 5.3 Consensus size: 32
193571 TTATATGATA
*
193581 ATATAGTATAGTTTTTGAAAATATTTTTGAAAAAT
1 ATATA-TATA-TTTTTGAAAACATTTTTG-AAAAT
*
193616 ATAATATATAATTTTTAGAAAACGGTTTTTGAAAACAT
1 AT-ATATAT-ATTTTT-GAAAAC-ATTTTTG-AAA-AT
** *
193654 ATAATATATACCTTTTAAAAAAATCGGTTTTTGAAAAT
1 AT-ATATATA--TTTT-TGAAAA-C-ATTTTTGAAAAT
193692 ATATATTATATTGTTTTGAAAACAATTTTTGAAAAT
1 ATATA-TATA-T-TTTTGAAAAC-ATTTTTGAAAAT
*
193728 GTATATATA-TTTTGAAAACA-TTTTGAAAAT
1 ATATATATATTTTTGAAAACATTTTTGAAAAT
193758 ATATATATA
1 ATATATATA
193767 ATATATTATT
Statistics
Matches: 129, Mismatches: 11, Indels: 27
0.77 0.07 0.16
Matches are distributed among these distances:
30 18 0.14
31 1 0.01
32 10 0.08
35 14 0.11
36 25 0.19
37 19 0.15
38 22 0.17
39 11 0.09
40 9 0.07
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (32 bp):
ATATATATATTTTTGAAAACATTTTTGAAAAT
Found at i:193880 original size:40 final size:38
Alignment explanation
Indices: 193729--193880 Score: 216
Period size: 38 Copynumber: 3.9 Consensus size: 38
193719 TTTGAAAATG
*
193729 TATATATATTTTGAAAACATTTTGAAAATATATATATAA
1 TATATA-ATTTTGAAAACATTTTGAAAAAATATATATAA
* *
193768 TATATTATTTTTGAAAGCATTTTTGAAAAAATATATATAA
1 TATA-TAATTTTGAAAACA-TTTTGAAAAAATATATATAA
193808 TATATAATTTTGAAAACATTTTGAAAAAATATATATAA
1 TATATAATTTTGAAAACATTTTGAAAAAATATATATAA
* *
193846 TATATAATTTT-AAAACGTTTTTGAAAATATATATA
1 TATATAATTTTGAAAAC-ATTTTGAAAAAATATATA
193881 GTTTGATGTA
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
37 5 0.05
38 47 0.46
39 26 0.25
40 25 0.24
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (38 bp):
TATATAATTTTGAAAACATTTTGAAAAAATATATATAA
Found at i:195325 original size:26 final size:26
Alignment explanation
Indices: 195294--195350 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
195284 TCCTATTTAT
*
195294 TTTTTTAGAAATTAACATTTTCTTCA
1 TTTTTTACAAATTAACATTTTCTTCA
* **
195320 TTTTTTCCATTTTAACATTTTCTTCA
1 TTTTTTACAAATTAACATTTTCTTCA
195346 TTTTT
1 TTTTT
195351 ATTTATTTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.14, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTTTTACAAATTAACATTTTCTTCA
Found at i:195389 original size:16 final size:17
Alignment explanation
Indices: 195353--195391 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
195343 TCATTTTTAT
*
195353 TTATTTCTCTTATAATA
1 TTATTTCACTTATAATA
*
195370 TTATTTCACTT-TATTA
1 TTATTTCACTTATAATA
195386 TTATTT
1 TTATTT
195392 TTTATCTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTTCACTTATAATA
Found at i:201108 original size:20 final size:22
Alignment explanation
Indices: 201083--201122 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
201073 AGTCGTATCT
201083 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
201103 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
201123 TCTACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:204664 original size:81 final size:81
Alignment explanation
Indices: 204520--205179 Score: 708
Period size: 81 Copynumber: 8.2 Consensus size: 81
204510 ATTGTTTTAA
* * * * *
204520 AGTAAAAGAATTAAAT-GTCTAGTTGTACATTTGACAGAAGGGTGTCAATCA-TGTCAATTAGAT
1 AGTAAAAG-ATT-AATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAAT-ATTGCCAGTTAGAT
*
204583 GAAAGGTTAAATACCTTTG
63 GAAAGGCTAAATACCTTTG
* * *
204602 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAG-AAGATTGTCAATCA-TGCTATTTAGATG
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAG-GTGTCAAT-ATTGCCAGTTAGATG
* *
204665 AAAGGTTAACTACCTTTG
64 AAAGGCTAAATACCTTTG
* * *
204683 AGTAAAAGATTAATGGTCTAGCTGTGCATTTGGA-AGAAATGTGTCAATATTGCCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTT-GACAGAAAGGTGTCAATATTGCCAGTTAGATGA
*
204747 AAGGCTAAATGCCTTTG
65 AAGGCTAAATACCTTTG
** * *
204764 AGTAAAAGATTAA-GATCTAGTTGTGTATTTGACAAAAAGGTGTCAATCA-TGCCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAAT-ATTGCCAGTTAGATGA
**
204827 AAGATTAAATACCTTTG
65 AAGGCTAAATACCTTTG
* * * * * * * * *
204844 AGTAAAAGATTAATGGCCTAGCTATGTATTTGGCATAAAGCTATCAATATTTCCAGTTGGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATATTGCCAGTTAGATGAA
*
204909 AGGCTAAATGCCTTTG
66 AGGCTAAATACCTTTG
* * * * * *
204925 GGTAAAAGATTAATAGCCTAGATGTGCATTTGGCACAAATGTGTCAATATTGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATATTGCCAGTTAGATGAA
*
204990 AGGCTAAATGCCTTTG
66 AGGCTAAATACCTTTG
* * * * *
205006 AGTAAAAGATTAATGGCCTAGTTGTGAATTTGGCAGAAAGGTGTCAATATTGTCGGTTATATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATATTGCCAGTTAGATGAA
*
205071 AGGCTAAATGA-C-TTA
66 AGGCTAAAT-ACCTTTG
* * * * * * *
205086 AATAAAAGATTAATGGCCTAGTTATGTATTTGGCTGAAAGGTGTCAATATTGTCAGTTAAATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATATTGCCAGTTAGATGAA
**
205151 AGGCTAAATGTCTTTG
66 AGGCTAAATACCTTTG
205167 AGTAAAAGATTAA
1 AGTAAAAGATTAA
205180 ATGCTTAATA
Statistics
Matches: 497, Mismatches: 69, Indels: 25
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.00
80 145 0.29
81 338 0.68
82 12 0.02
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATATTGCCAGTTAGATGAA
AGGCTAAATACCTTTG
Found at i:204967 original size:242 final size:242
Alignment explanation
Indices: 204520--205179 Score: 825
Period size: 242 Copynumber: 2.7 Consensus size: 242
204510 ATTGTTTTAA
* *
204520 AGTAAAAGAATTAA-ATGTCTAGTTGT-ACATTTGACAGAAGGGTGTCAATCATGTCAATTAGAT
1 AGTAAAAG-ATTAAGA--TCTAGTTGTGA-ATTTGACAGAAAGGTGTCAATCATGTCAGTTAGAT
* * * * *
204583 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGTTGTGCATTTGACA-GAAGATTGTC
62 GAAAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGTTATGTATTTGGCATAAAG-CTGTC
* * * * * * * * *
204647 AATCA-TGCTATTTAGATGAAAGGTTAACTACCTTTGAGTAAAAGATTAATGGTCTAGCTGTGCA
126 AAT-ATTTCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATAGCCTAGATGTGCA
*
204711 TTTGGAAGAAATGTGTCAATATTGCCAGTTAGATGAAAGGCTAAATGCCTTTG
190 TTTGGAACAAATGTGTCAATATTGCCAGTTAGATGAAAGGCTAAATGCCTTTG
* * *
204764 AGTAAAAGATTAAGATCTAGTTGTGTATTTGACAAAAAGGTGTCAATCATGCCAGTTAGATGAAA
1 AGTAAAAGATTAAGATCTAGTTGTGAATTTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAAA
* * *
204829 GATTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTATGTATTTGGCATAAAGCTATCAATAT
66 GGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGTTATGTATTTGGCATAAAGCTGTCAATAT
* * *
204894 TTCCAGTTGGATGAAAGGCTAAATGCCTTTGGGTAAAAGATTAATAGCCTAGATGTGCATTTGGC
131 TTCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGGA
204959 ACAAATGTGTCAATATTGCCAGTTAGATGAAAGGCTAAATGCCTTTG
196 ACAAATGTGTCAATATTGCCAGTTAGATGAAAGGCTAAATGCCTTTG
** * * *
205006 AGTAAAAGATTAATGGCCTAGTTGTGAATTTGGCAGAAAGGTGTCAAT-ATTGTCGGTTATATGA
1 AGTAAAAGATTAA-GATCTAGTTGTGAATTTGACAGAAAGGTGTCAATCA-TGTCAGTTAGATGA
* * * *
205070 AAGGCTAAATGA-C-TTAAATAAAAGATTAATGGCCTAGTTATGTATTTGGC-TGAAAGGTGTCA
64 AAGGTTAAAT-ACCTTTGAGTAAAAGATTAATGGCCTAGTTATGTATTTGGCAT-AAAGCTGTCA
* *
205132 ATATTGT-CAGTTAAATGAAAGGCTAAATGTCTTTGAGTAAAAGATTAA
127 ATATT-TCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAA
205180 ATGCTTAATA
Statistics
Matches: 362, Mismatches: 45, Indels: 20
0.85 0.11 0.05
Matches are distributed among these distances:
241 2 0.01
242 292 0.81
243 58 0.16
244 10 0.03
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.32
Consensus pattern (242 bp):
AGTAAAAGATTAAGATCTAGTTGTGAATTTGACAGAAAGGTGTCAATCATGTCAGTTAGATGAAA
GGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGTTATGTATTTGGCATAAAGCTGTCAATAT
TTCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAAGATTAATAGCCTAGATGTGCATTTGGA
ACAAATGTGTCAATATTGCCAGTTAGATGAAAGGCTAAATGCCTTTG
Found at i:205542 original size:26 final size:24
Alignment explanation
Indices: 205505--205561 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
205495 AACTTCAGAA
*
205505 AATATTTTGTAATATATTTAAAGT
1 AATATTTTGTAAGATATTTAAAGT
*
205529 AATAGTTTTAGTAAGATGTTTAAA-T
1 AATA-TTTT-GTAAGATATTTAAAGT
205554 GAATATTT
1 -AATATTT
205562 AATTATTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 4 0.14
25 8 0.29
26 16 0.57
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (24 bp):
AATATTTTGTAAGATATTTAAAGT
Found at i:208083 original size:38 final size:35
Alignment explanation
Indices: 208017--208096 Score: 115
Period size: 38 Copynumber: 2.2 Consensus size: 35
208007 AATATAGTAT
208017 AGTTTTTGAAAATATTTTTAAAAAATATAATATAC
1 AGTTTTTGAAAATATTTTTAAAAAATATAATATAC
* *
208052 AGTTTTTAGAAAATGATTTTTGAAAACATATAATATAT
1 AGTTTTT-GAAAAT-ATTTTT-AAAAAATATAATATAC
208090 AGTTTTT
1 AGTTTTT
208097 TTAAAAAAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
35 7 0.17
36 6 0.15
37 6 0.15
38 21 0.52
ACGTcount: A:0.44, C:0.03, G:0.09, T:0.45
Consensus pattern (35 bp):
AGTTTTTGAAAATATTTTTAAAAAATATAATATAC
Found at i:208229 original size:40 final size:39
Alignment explanation
Indices: 208155--208374 Score: 242
Period size: 42 Copynumber: 5.7 Consensus size: 39
208145 AATATATAAA
* *
208155 TTTGAAAATATTTTCAAAA-ATATATATAATATATAGTT
1 TTTGAAAACATTTTGAAAATATATATATAATATATAGTT
208193 TTTGAAAACATTTTGAAATATATATATATAATATATAGTT
1 TTTGAAAACATTTTGAAA-ATATATATATAATATATAGTT
*
208233 TTTGAAAGCATTTTTGAAAAAATATATATATAATATATAGTT
1 TTTGAAAACA-TTTTG--AAAATATATATATAATATATAGTT
*
208275 TTTGAAAGCATTTTTG--AA-A-ATATAT-ATATATA-TT
1 TTTGAAAACA-TTTTGAAAATATATATATAATATATAGTT
* * *
208309 TTTGAAAATATTTTAAAAATATATATATATATATATA-AT
1 TTTGAAAACATTTTGAAAATATATATATA-ATATATAGTT
*
208348 TTT-AAAACGTTTTTGAAAATATATATA
1 TTTGAAAAC-ATTTTGAAAATATATATA
208375 GTTTGATGTA
Statistics
Matches: 160, Mismatches: 10, Indels: 23
0.83 0.05 0.12
Matches are distributed among these distances:
33 4 0.03
34 10 0.06
35 9 0.06
36 7 0.04
37 7 0.04
38 22 0.14
39 28 0.17
40 28 0.17
41 5 0.03
42 37 0.23
43 3 0.02
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (39 bp):
TTTGAAAACATTTTGAAAATATATATATAATATATAGTT
Found at i:208328 original size:33 final size:33
Alignment explanation
Indices: 208258--208340 Score: 114
Period size: 33 Copynumber: 2.4 Consensus size: 33
208248 GAAAAAATAT
*
208258 ATATATAATATATAGTTTTTGAAAGCATTTTTGAAA
1 ATATAT-ATATATA-TTTTTGAAA-CATTTTTAAAA
208294 ATATATATATATATTTTTGAAA-ATATTTTAAAA
1 ATATATATATATATTTTTGAAACAT-TTTTAAAA
208327 ATATATATATATAT
1 ATATATATATATAT
208341 ATATAATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
32 2 0.04
33 21 0.47
34 9 0.20
35 7 0.16
36 6 0.13
ACGTcount: A:0.46, C:0.01, G:0.06, T:0.47
Consensus pattern (33 bp):
ATATATATATATATTTTTGAAACATTTTTAAAA
Found at i:209237 original size:24 final size:24
Alignment explanation
Indices: 209210--209261 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
209200 TTTTTTATTT
*
209210 TTTTAGAAATTAACATTTTCTTCA
1 TTTTAGAAATTAACATTTTCCTCA
** **
209234 TTTTTTATTTTAACATTTTCCTCA
1 TTTTAGAAATTAACATTTTCCTCA
209258 TTTT
1 TTTT
209262 TATTTATTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.13, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTAGAAATTAACATTTTCCTCA
Found at i:209265 original size:23 final size:24
Alignment explanation
Indices: 209219--209266 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
209209 TTTTTAGAAA
*
209219 TTAACATTTTCTTCATTTTTTATT
1 TTAACATTTTCCTCATTTTTTATT
209243 TTAACATTTTCCTCA-TTTTTATT
1 TTAACATTTTCCTCATTTTTTATT
209266 T
1 T
209267 ATTTCTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.65
Consensus pattern (24 bp):
TTAACATTTTCCTCATTTTTTATT
Found at i:210793 original size:17 final size:17
Alignment explanation
Indices: 210771--210805 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
210761 TGAGAGGATA
210771 TATATATATATGTCCTC
1 TATATATATATGTCCTC
210788 TATATATATATGTCCTC
1 TATATATATATGTCCTC
210805 T
1 T
210806 CACCAGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.49
Consensus pattern (17 bp):
TATATATATATGTCCTC
Found at i:219914 original size:18 final size:18
Alignment explanation
Indices: 219880--219921 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
219870 ATAATTTTAA
**
219880 AAATAA-TAATTTTATTT
1 AAATAATTAATTAAATTT
219897 AAATAATTAATTAAATTT
1 AAATAATTAATTAAATTT
219915 AAA-AATT
1 AAATAATT
219922 TAAGAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATAATTAATTAAATTT
Found at i:220246 original size:14 final size:15
Alignment explanation
Indices: 220223--220255 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
220213 TTTATTACTT
220223 TTAATAATTTATAAA
1 TTAATAATTTATAAA
*
220238 TTAAT-ATTTATATA
1 TTAATAATTTATAAA
220252 TTAA
1 TTAA
220256 AATATTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTAATAATTTATAAA
Found at i:220262 original size:22 final size:23
Alignment explanation
Indices: 220237--220283 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
220227 TAATTTATAA
* *
220237 ATTAATATTTATATAT-TAAAAT
1 ATTAATAGTGATATATATAAAAT
*
220259 ATTAATAGTGATCTATATAAAAT
1 ATTAATAGTGATATATATAAAAT
220282 AT
1 AT
220284 ATTTTATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (23 bp):
ATTAATAGTGATATATATAAAAT
Found at i:220552 original size:12 final size:12
Alignment explanation
Indices: 220535--220559 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
220525 CATACGATAC
220535 TTTTAAAAGTTA
1 TTTTAAAAGTTA
220547 TTTTAAAAGTTA
1 TTTTAAAAGTTA
220559 T
1 T
220560 ATCAAACTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTTAAAAGTTA
Found at i:226749 original size:16 final size:16
Alignment explanation
Indices: 226728--226761 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
226718 ATCCTGGTGT
* *
226728 TATTTGGTCGACTTTC
1 TATTTGATCAACTTTC
226744 TATTTGATCAACTTTC
1 TATTTGATCAACTTTC
226760 TA
1 TA
226762 ATAAAATCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.50
Consensus pattern (16 bp):
TATTTGATCAACTTTC
Found at i:229596 original size:74 final size:74
Alignment explanation
Indices: 229517--229659 Score: 214
Period size: 74 Copynumber: 1.9 Consensus size: 74
229507 TTAAATGACT
** * * ** *
229517 AGGGGTATTGGTACCCATTAGGCATTCTGTTTTTCTCGGAGCCAAAATTGGTTTAGGGGTATTGG
1 AGGGGTATCAGTACCCATTAGGCATTCTATTTCTCTCGGAGCCAAAATTGGCATAGGGGTATCGG
229582 TACCCTATG
66 TACCCTATG
*
229591 AGGGGTATCAGTACCCATTTGGCATTCTATTTCTCTCGGAGCCAAAATTGGCATAGGGGTATCGG
1 AGGGGTATCAGTACCCATTAGGCATTCTATTTCTCTCGGAGCCAAAATTGGCATAGGGGTATCGG
229656 TACC
66 TACC
229660 TCCTTATTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (74 bp):
AGGGGTATCAGTACCCATTAGGCATTCTATTTCTCTCGGAGCCAAAATTGGCATAGGGGTATCGG
TACCCTATG
Found at i:229984 original size:26 final size:26
Alignment explanation
Indices: 229955--230016 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
229945 TAAGCTTTTC
*
229955 TTTGAAAAATCATTTTTGAAATCAAT
1 TTTGAAAAATCAATTTTGAAATCAAT
*
229981 TTTGAAAAATCAATTTTGAAATTAAT
1 TTTGAAAAATCAATTTTGAAATCAAT
230007 TTTGAAAAAT
1 TTTGAAAAAT
230017 TACAAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (26 bp):
TTTGAAAAATCAATTTTGAAATCAAT
Found at i:230018 original size:14 final size:14
Alignment explanation
Indices: 229955--230016 Score: 78
Period size: 12 Copynumber: 4.7 Consensus size: 14
229945 TAAGCTTTTC
*
229955 TTTGAAAAATCATT
1 TTTGAAAAATCAAT
229969 TTTG--AAATCAAT
1 TTTGAAAAATCAAT
229981 TTTGAAAAATCAAT
1 TTTGAAAAATCAAT
*
229995 TTTG--AAATTAAT
1 TTTGAAAAATCAAT
230007 TTTGAAAAAT
1 TTTGAAAAAT
230017 TACAAAAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
12 22 0.52
14 20 0.48
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (14 bp):
TTTGAAAAATCAAT
Found at i:231784 original size:13 final size:13
Alignment explanation
Indices: 231762--231806 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
231752 TCCTAATGGG
231762 CAAT-TTTGAAAA
1 CAATATTTGAAAA
*
231774 CTATATTTGAAAA
1 CAATATTTGAAAA
*
231787 CAATGTTTGAAAA
1 CAATATTTGAAAA
231800 TCAATAT
1 -CAATAT
231807 GTAGTTTTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 3 0.11
13 19 0.70
14 5 0.19
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (13 bp):
CAATATTTGAAAA
Found at i:232276 original size:23 final size:21
Alignment explanation
Indices: 232245--232367 Score: 133
Period size: 21 Copynumber: 5.7 Consensus size: 21
232235 TAAACCCAAT
232245 AGGGGTATCGATACACATTCAA
1 AGGGGTATCGATACACATT-AA
* *
232267 AGAGGGTATCGATACACGTTGA
1 AG-GGGTATCGATACACATTAA
232289 AGGGGTATCGATACACATTCAA
1 AGGGGTATCGATACACATT-AA
* *
232311 AGAGGGTATCGATACACGTTGA
1 AG-GGGTATCGATACACATTAA
232333 AGGGGTATCGATAC-C-TATAA
1 AGGGGTATCGATACACAT-TAA
*
232353 AGGGGGTATCAATAC
1 A-GGGGTATCGATAC
232368 CTGGTGCACA
Statistics
Matches: 88, Mismatches: 8, Indels: 11
0.82 0.07 0.10
Matches are distributed among these distances:
19 1 0.01
20 4 0.05
21 40 0.45
22 11 0.12
23 32 0.36
ACGTcount: A:0.34, C:0.15, G:0.28, T:0.23
Consensus pattern (21 bp):
AGGGGTATCGATACACATTAA
Found at i:232296 original size:21 final size:22
Alignment explanation
Indices: 232245--232346 Score: 136
Period size: 23 Copynumber: 4.6 Consensus size: 22
232235 TAAACCCAAT
232245 AGGGGTATCGATACACATTCAA
1 AGGGGTATCGATACACATTCAA
* *
232267 AGAGGGTATCGATACACGTT-GA
1 AG-GGGTATCGATACACATTCAA
232289 AGGGGTATCGATACACATTCAA
1 AGGGGTATCGATACACATTCAA
* *
232311 AGAGGGTATCGATACACGTT-GA
1 AG-GGGTATCGATACACATTCAA
232333 AGGGGTATCGATAC
1 AGGGGTATCGATAC
232347 CTATAAAGGG
Statistics
Matches: 71, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
21 28 0.39
22 11 0.15
23 32 0.45
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (22 bp):
AGGGGTATCGATACACATTCAA
Found at i:232308 original size:44 final size:44
Alignment explanation
Indices: 232245--232346 Score: 204
Period size: 44 Copynumber: 2.3 Consensus size: 44
232235 TAAACCCAAT
232245 AGGGGTATCGATACACATTCAAAGAGGGTATCGATACACGTTGA
1 AGGGGTATCGATACACATTCAAAGAGGGTATCGATACACGTTGA
232289 AGGGGTATCGATACACATTCAAAGAGGGTATCGATACACGTTGA
1 AGGGGTATCGATACACATTCAAAGAGGGTATCGATACACGTTGA
232333 AGGGGTATCGATAC
1 AGGGGTATCGATAC
232347 CTATAAAGGG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (44 bp):
AGGGGTATCGATACACATTCAAAGAGGGTATCGATACACGTTGA
Found at i:239393 original size:20 final size:22
Alignment explanation
Indices: 239364--239403 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
239354 AGGAGAGCTT
239364 TGGACCAAA-GT-GCTGAAAAG
1 TGGACCAAAGGTAGCTGAAAAG
*
239384 TGGACTAAAGGTAGCTGAAA
1 TGGACCAAAGGTAGCTGAAA
239404 GTAGCTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 2 0.12
22 7 0.41
ACGTcount: A:0.40, C:0.12, G:0.30, T:0.17
Consensus pattern (22 bp):
TGGACCAAAGGTAGCTGAAAAG
Found at i:240478 original size:24 final size:24
Alignment explanation
Indices: 240451--240503 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
240441 AGGTACAAAT
*
240451 GCCTTACATCAAGTGGT-ATCAGAA
1 GCCTTACATCAAGCGGTAATCAG-A
240475 GCCTTACATCAAGCGGTAATCAGA
1 GCCTTACATCAAGCGGTAATCAGA
240499 GCCTT
1 GCCTT
240504 GGTGGAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
GCCTTACATCAAGCGGTAATCAGA
Found at i:240647 original size:15 final size:15
Alignment explanation
Indices: 240636--240664 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
240626 ACTCAAAAAG
240636 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
240651 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
240665 GTTGAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:243427 original size:20 final size:22
Alignment explanation
Indices: 243398--243437 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
243388 AGGAGAGCTT
243398 TGGACCAAA-GT-GCTGAAAAG
1 TGGACCAAAGGTGGCTGAAAAG
*
243418 TGGACTAAAGGTGGCTGAAA
1 TGGACCAAAGGTGGCTGAAA
243438 GTAGCTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 2 0.12
22 7 0.41
ACGTcount: A:0.38, C:0.12, G:0.33, T:0.17
Consensus pattern (22 bp):
TGGACCAAAGGTGGCTGAAAAG
Found at i:245008 original size:20 final size:20
Alignment explanation
Indices: 244983--245020 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
244973 TGATTCAATC
244983 AGTATCGATATCGAAGGGGG
1 AGTATCGATATCGAAGGGGG
*
245003 AGTATCGATATTGAAGGG
1 AGTATCGATATCGAAGGG
245021 AAGGTATCGA
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:0.32, C:0.08, G:0.37, T:0.24
Consensus pattern (20 bp):
AGTATCGATATCGAAGGGGG
Found at i:245027 original size:20 final size:20
Alignment explanation
Indices: 244983--245032 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
244973 TGATTCAATC
*
244983 AGTATCGATATCGAAGGGGG
1 AGTATCGATATCGAAGGGAG
*
245003 AGTATCGATATTGAAGGGA-
1 AGTATCGATATCGAAGGGAG
245022 AGGTATCGATA
1 A-GTATCGATA
245033 CCATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.34, C:0.08, G:0.34, T:0.24
Consensus pattern (20 bp):
AGTATCGATATCGAAGGGAG
Found at i:246327 original size:28 final size:28
Alignment explanation
Indices: 246231--246327 Score: 68
Period size: 28 Copynumber: 3.3 Consensus size: 28
246221 AGAAAGTCAT
246231 ACTAAGTGTATGAATTTCCGTATTGGGC
1 ACTAAGTGTATGAATTTCCGTATTGGGC
* * * ** ****
246259 ACTATGTGTGCTAAAATGTTAAGATATTCATT
1 ACTAAGTGT-AT-GAAT-TTCCG-TATTGGGC
246291 ACTAAGTGTATGAATTTCCGTATTGGGC
1 ACTAAGTGTATGAATTTCCGTATTGGGC
*
246319 ACTATGTGT
1 ACTAAGTGT
246328 GCTAAAATGT
Statistics
Matches: 46, Mismatches: 19, Indels: 8
0.63 0.26 0.11
Matches are distributed among these distances:
28 20 0.43
29 4 0.09
30 6 0.13
31 4 0.09
32 12 0.26
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (28 bp):
ACTAAGTGTATGAATTTCCGTATTGGGC
Found at i:246382 original size:59 final size:59
Alignment explanation
Indices: 246196--246489 Score: 448
Period size: 59 Copynumber: 5.0 Consensus size: 59
246186 ATTACCAAAA
* *
246196 GGCACTAAGTGTGCTAAAAGTGTTAAGAAAGTCATACTAAGTGTATGAATTTCCGTATTG
1 GGCACTATGTGTGCTAAAA-TGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
*
246256 GGCACTATGTGTGCTAAAATGTTAAGATATTCATTACTAAGTGTATGAATTTCCGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCA-TACTAAGTGTATGAATTTCCGTATTG
**
246316 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCACATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
*
246375 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATG-ATTTCTGTATTG
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
* * * * *
246433 GGCACTTTGTGTGC-AAACATATAAAGAAATTCATACCAGGTGTATGAATTTCCGTAT
1 GGCACTATGTGTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
246490 GAGAAATATA
Statistics
Matches: 216, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
57 3 0.01
58 46 0.21
59 91 0.42
60 76 0.35
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (59 bp):
GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCGTATTG
Found at i:246389 original size:119 final size:117
Alignment explanation
Indices: 246196--246485 Score: 438
Period size: 119 Copynumber: 2.5 Consensus size: 117
246186 ATTACCAAAA
* * **
246196 GGCACTAAGTGTGCTAAAAGTGTTAAGAAAGTCATACTAAGTGTATGAATTTCCGTATTGGGCAC
1 GGCACTATGTGTGCTAAAA-TGTTAAGAAATTCATACTAAGTGTATGAATTTCCACATTGGGCAC
*
246261 TATGTGTGCTAAAATGTTAAGATATTCATTACTAAGTGTATGAATTTCCGTATTG
65 TATGTGTGCTAAAATGTTAAGAAATTCA-TACTAAGTGTATG-ATTTCCGTATTG
246316 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCACATTGGGCACT
1 GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCACATTGGGCACT
*
246381 ATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGATTTCTGTATTG
66 ATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGATTTCCGTATTG
* * * * *
246433 GGCACTTTGTGTGC-AAACATATAAAGAAATTCATACCAGGTGTATGAATTTCC
1 GGCACTATGTGTGCTAAA-ATGTTAAGAAATTCATACTAAGTGTATGAATTTCC
246486 GTATGAGAAA
Statistics
Matches: 158, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
116 3 0.02
117 55 0.35
118 13 0.08
119 69 0.44
120 18 0.11
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.34
Consensus pattern (117 bp):
GGCACTATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGAATTTCCACATTGGGCACT
ATGTGTGCTAAAATGTTAAGAAATTCATACTAAGTGTATGATTTCCGTATTG
Found at i:248142 original size:22 final size:22
Alignment explanation
Indices: 248117--248158 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
248107 CCATGGTATC
248117 GATACTTTTATACTATAGTACT
1 GATACTTTTATACTATAGTACT
248139 GATACTTTTATACTATAGTA
1 GATACTTTTATACTATAGTA
248159 TCGAGACTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (22 bp):
GATACTTTTATACTATAGTACT
Found at i:248754 original size:15 final size:15
Alignment explanation
Indices: 248734--248763 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
248724 AGAGTAGATG
248734 ACTTAGTTTAGTTTT
1 ACTTAGTTTAGTTTT
248749 ACTTAGTTTAGTTTT
1 ACTTAGTTTAGTTTT
248764 CAGATTTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
ACTTAGTTTAGTTTT
Done.