Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001244.1 Hibiscus syriacus cultivar Beakdansim tig00002445_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: 174449
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:692 original size:118 final size:118
Alignment explanation
Indices: 484--715 Score: 360
Period size: 118 Copynumber: 2.0 Consensus size: 118
474 AAATGGGTGT
*
484 TACACATCATGATTATGATATGATAGCACCATGTGTGCATATATGTTCTGATTCTGATATATTGT
1 TACACATCATGATTATGATATGATAGCACCATGTGTGCATATATGTTCTGATTCTGATATAATGT
* *
549 GGTGTACCGGTTGGTGCACTAGTATATATATTCTGATATGATTGTACTTCAAG
66 GGTGTACCGGTTCGTGCACTAGTATATATATTCTGATATGATTGCACTTCAAG
** *
602 TACACATCATGATTATGATATGATAGCACTGTGTGTGCTTATATGTT-TCGATTCTGATATAATG
1 TACACATCATGATTATGATATGATAGCACCATGTGTGCATATATGTTCT-GATTCTGATATAATG
* *
666 TGGTGTATC-GTTACGTGCACTAGTATATATATTCTGATCTGATTGCACTT
65 TGGTGTACCGGTT-CGTGCACTAGTATATATATTCTGATATGATTGCACTT
716 TGTGTGCATA
Statistics
Matches: 104, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
117 4 0.04
118 100 0.96
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (118 bp):
TACACATCATGATTATGATATGATAGCACCATGTGTGCATATATGTTCTGATTCTGATATAATGT
GGTGTACCGGTTCGTGCACTAGTATATATATTCTGATATGATTGCACTTCAAG
Found at i:739 original size:118 final size:118
Alignment explanation
Indices: 484--777 Score: 349
Period size: 118 Copynumber: 2.5 Consensus size: 118
474 AAATGGGTGT
* * * *
484 TACACATCATGATTATGATATGATAGCACCATGTGTGCATATATGTTCTGATTCTGATATATTGT
1 TACACATCACGATTATGATATGATAGCACTATGTGTGCTTATATGTTCTGATTCTGATATAATGT
* *
549 GGTGTACCGGTTGGTGCACTAGTATATATATTCTGATATGATTGTACTTCAAG
66 GGTGTACCGGTTCGTGCACTAGTATATATATTCTGATATGATTGCACTTCAAG
* *
602 TACACATCATGATTATGATATGATAGCACTGTGTGTGCTTATATGTT-TCGATTCTGATATAATG
1 TACACATCACGATTATGATATGATAGCACTATGTGTGCTTATATGTTCT-GATTCTGATATAATG
* * ***
666 TGGTGTATC-GTTACGTGCACTAGTATATATATTCTGATCTGATTGCACTTTGTG
65 TGGTGTACCGGTT-CGTGCACTAGTATATATATTCTGATATGATTGCACTTCAAG
* * * * * * * * * *
720 TGCATATTACGATTCTGATATGATAACATTATGTGTGTTTATATATTCTCATTATGAT
1 TACACATCACGATTATGATATGATAGCACTATGTGTGCTTATATGTTCTGATTCTGAT
778 GATAGTAGTG
Statistics
Matches: 150, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
117 4 0.03
118 145 0.97
119 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (118 bp):
TACACATCACGATTATGATATGATAGCACTATGTGTGCTTATATGTTCTGATTCTGATATAATGT
GGTGTACCGGTTCGTGCACTAGTATATATATTCTGATATGATTGCACTTCAAG
Found at i:4940 original size:15 final size:15
Alignment explanation
Indices: 4922--4969 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
4912 TACAAGTACG
4922 AATACTGTGAGTATC
1 AATACTGTGAGTATC
* * *
4937 AATATTGCGAGTGTC
1 AATACTGTGAGTATC
*
4952 AATACTATGAGTAT-
1 AATACTGTGAGTATC
4966 AATA
1 AATA
4970 GCAATGCTCT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 4 0.15
15 22 0.85
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (15 bp):
AATACTGTGAGTATC
Found at i:6846 original size:56 final size:56
Alignment explanation
Indices: 6757--7246 Score: 706
Period size: 56 Copynumber: 8.9 Consensus size: 56
6747 AATGGCATTG
* *
6757 TGTGTGCAGAAACTAAGTAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
* *
6813 TGGGTGCAAAAACTAAGAAATTCATAATGAGTTTATAAATTTTCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
*
6869 TGTGTGC-AAAACTAAGAAATTCAGAATGAGTTTATGAATTTTCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
*
6924 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
* *
6980 TATGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
* * * *
7036 TGTGTG-AAAAGCTAAGAAATTCATTATAAGTTTATGAA-TTTCTGTATGGGTACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTC-GTATGGGCACTT
* * * *
7091 TATGAGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
* * * *
7147 TGTGTGC-AAAGCTAAGAAATTCATAATAAGTTTATGAATTTCCTTAT-GGCACTT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
* * * *
7201 GGTGTGC-AAAATTAAG-AATTCATAATAAGTATATGAATTTTCGTAT
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT
7247 TGGTAGTGCA
Statistics
Matches: 395, Mismatches: 35, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
53 27 0.07
54 23 0.06
55 134 0.34
56 208 0.53
57 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (56 bp):
TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTT
Found at i:6891 original size:111 final size:111
Alignment explanation
Indices: 6757--7246 Score: 718
Period size: 111 Copynumber: 4.4 Consensus size: 111
6747 AATGGCATTG
* *
6757 TGTGTGCAGAAACTAAGTAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGGGTGCAA
1 TGTGTGCA-AAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAA
* * *
6822 AAACTAAGAAATTCATAATGAGTTTATAAATTTTCGTATGGGCACTT
65 AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
*
6869 TGTGTGCAAAACTAAGAAATTCAGAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAA
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAA
*
6934 AACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTT
66 AACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* *
6980 TATGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTG-AA
1 TGTGTGC-AAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAA
* * * *
7044 AAGCTAAGAAATTCATTATAAGTTTATGAATTTCTGTATGGGTACTT
65 AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* * * *
7091 TATGAGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGC-A
1 TGTGTG-CAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAA
* *
7155 AAGCTAAGAAATTCATAATAAGTTTATGAATTTCCTTAT-GGCACTT
65 AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
* * * *
7201 GGTGTGCAAAATTAAG-AATTCATAATAAGTATATGAATTTTCGTAT
1 TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTAT
7247 TGGTAGTGCA
Statistics
Matches: 348, Mismatches: 27, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
108 27 0.08
109 8 0.02
110 9 0.03
111 244 0.70
112 60 0.17
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (111 bp):
TGTGTGCAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAA
AACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTT
Found at i:7033 original size:167 final size:167
Alignment explanation
Indices: 6757--7246 Score: 747
Period size: 167 Copynumber: 3.0 Consensus size: 167
6747 AATGGCATTG
* * * *
6757 TGTGTGCAGAAACTAAGTAATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTTGGGTGCAA
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
* *
6822 AAACTAAGAAATTCATAATGAGTTTATAAATTTTCGTATGGGCACTTTGTGTGCAAAACTAAGAA
66 AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAA
* *
6887 ATTCAGAATGAGTTTATGAATTTTCGTATGGGCACTT
131 ATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
*
6924 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTATGTGCAA
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
6989 AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTG-AAAAGCTAAGA
66 AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA-CTAAGA
* *
7053 AATTCATTATAAGTTTATGAA-TTTCTGTATGGGTACTT
130 AATTCATAATAAGTTTATGAATTTTC-GTATGGGCACTT
* * *
7091 TATGAGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGC-A
1 TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
* * * * *
7155 AAGCTAAGAAATTCATAATAAGTTTATGAATTTCCTTAT-GGCACTTGGTGTGCAAAATTAAG-A
66 AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAA
*
7218 ATTCATAATAAGTATATGAATTTTCGTAT
131 ATTCATAATAAGTTTATGAATTTTCGTAT
7247 TGGTAGTGCA
Statistics
Matches: 297, Mismatches: 22, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
164 23 0.08
165 20 0.07
166 49 0.16
167 205 0.69
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (167 bp):
TGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
AAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAACTAAGAA
ATTCATAATAAGTTTATGAATTTTCGTATGGGCACTT
Found at i:12371 original size:23 final size:23
Alignment explanation
Indices: 12345--12395 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
12335 AAGTAAAGGG
12345 AAAAGGGGAAAAGAGGTCAACCA
1 AAAAGGGGAAAAGAGGTCAACCA
* *
12368 AAAAGGGGAAAGGAGGTTAACCA
1 AAAAGGGGAAAAGAGGTCAACCA
12391 AAAAG
1 AAAAG
12396 CTATCTCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.53, C:0.10, G:0.31, T:0.06
Consensus pattern (23 bp):
AAAAGGGGAAAAGAGGTCAACCA
Found at i:13653 original size:111 final size:110
Alignment explanation
Indices: 13527--13902 Score: 587
Period size: 111 Copynumber: 3.4 Consensus size: 110
13517 CCAAATGGCA
*
13527 TTGTGTGTTAAAAAACTAAGAAATTCATAATGAGTTTATCAACTTTCGTATGGGCAATTTGTGTG
1 TTGTGTG-T-AAAAACTAAGAAATTCATAATGAGTTTATGAA-TTTCGTATGGGCAATTTGTGTG
13592 CAAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
63 CAAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
* *
13640 TTGTGTGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATAGGCACTTTGTGTGCA
1 TTGTGTGTAAAAACTAAGAAATTCATAATGAGTTTATGAA-TTTCGTATGGGCAATTTGTGTGCA
13705 AAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
65 AAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
* * *
13751 TTGTGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGC-A-CTGTGTCCA
1 TTGTGTGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTT-CGTATGGGCAATTTGTGTGCA
*
13814 AAGCTAAGAAATTCATAATAAGTTAATGAATTTTCGTATGGGCACT
65 AAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
* * * *
13860 TTGTGTG-CAAAATTAAGAAATTCATAATAAGTATATGAATTTC
1 TTGTGTGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTC
13903 CATATTGGTA
Statistics
Matches: 248, Mismatches: 14, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
107 1 0.00
108 31 0.12
109 59 0.24
110 3 0.01
111 146 0.59
112 1 0.00
113 7 0.03
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (110 bp):
TTGTGTGTAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCGTATGGGCAATTTGTGTGCAA
AGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACT
Found at i:13920 original size:55 final size:55
Alignment explanation
Indices: 13538--13901 Score: 552
Period size: 55 Copynumber: 6.6 Consensus size: 55
13528 TGTGTGTTAA
* * * *
13538 AAAACTAAGAAATTCATAATGAGTTTATCAACTTTCGTATGGGCAATTTGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
* *
13593 AAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGTA
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTG-C
* *
13649 AAAACTAAGAAATTCATAATGAGTTTATGAATTTTCGTATAGGCACTTTGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
*
13704 AAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
* * *
13759 AAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCAC--TGTGTCC
1 -AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
* *
13813 AAAGCTAAGAAATTCATAATAAGTTAATGAATTTTCGTATGGGCACTTTGTGTGC
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
* *
13868 AAAATTAAGAAATTCATAATAAGTATATGAATTT
1 AAAACTAAGAAATTCATAATAAGTTTATGAATTT
13902 CCATATTGGT
Statistics
Matches: 279, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
53 42 0.15
54 6 0.02
55 137 0.49
56 94 0.34
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (55 bp):
AAAACTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGC
Found at i:17045 original size:19 final size:19
Alignment explanation
Indices: 17021--17064 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
17011 TGCCTCGGTA
*
17021 GCCCAAAGTGGAACTTTAG
1 GCCCAAAGTGAAACTTTAG
*
17040 GCCCAAAGTGAAACTTTGG
1 GCCCAAAGTGAAACTTTAG
17059 GCCCAA
1 GCCCAA
17065 TCAGGTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.18
Consensus pattern (19 bp):
GCCCAAAGTGAAACTTTAG
Found at i:17705 original size:20 final size:19
Alignment explanation
Indices: 17680--17726 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
17670 CAACAGTTTT
* *
17680 GATACTGACCTTTGGGTATC
1 GATACTGACC-CTGAGTATC
*
17700 GATACTCACCCTGAGTATC
1 GATACTGACCCTGAGTATC
17719 GATACTGA
1 GATACTGA
17727 AAATAAATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (19 bp):
GATACTGACCCTGAGTATC
Found at i:22376 original size:29 final size:31
Alignment explanation
Indices: 22328--22386 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
22318 GTATAAATGT
22328 CCCGAAGAACCTATCCAGAGGTCACAAAGAC
1 CCCGAAGAACCTATCCAGAGGTCACAAAGAC
* *
22359 CCCGAA-AA-CTATCTAGAGGTCATAAAGA
1 CCCGAAGAACCTATCCAGAGGTCACAAAGA
22387 ATCTCGGCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 18 0.69
30 2 0.08
31 6 0.23
ACGTcount: A:0.41, C:0.27, G:0.19, T:0.14
Consensus pattern (31 bp):
CCCGAAGAACCTATCCAGAGGTCACAAAGAC
Found at i:30757 original size:30 final size:31
Alignment explanation
Indices: 30723--30784 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
30713 GTCAAGTTAT
*
30723 TATAAAATGATCATT-AATTTTATTAAGTTG
1 TATAAAATAATCATTAAATTTTATTAAGTTG
*
30753 TATAAAATAATCATTAAATTTTATTAATTTG
1 TATAAAATAATCATTAAATTTTATTAAGTTG
30784 T
1 T
30785 TATTAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 14 0.48
31 15 0.52
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (31 bp):
TATAAAATAATCATTAAATTTTATTAAGTTG
Found at i:31643 original size:12 final size:12
Alignment explanation
Indices: 31626--31653 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
31616 ACCTTTAATA
31626 AATTAAATTTTT
1 AATTAAATTTTT
31638 AATTAAATTTTT
1 AATTAAATTTTT
31650 AATT
1 AATT
31654 TATTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
AATTAAATTTTT
Found at i:34243 original size:24 final size:24
Alignment explanation
Indices: 34216--34262 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
34206 TTTATATGAT
* *
34216 ATTTATGGTGTAATTCTACGAGGC
1 ATTTATAGTGCAATTCTACGAGGC
*
34240 ATTTTTAGTGCAATTCTACGAGG
1 ATTTATAGTGCAATTCTACGAGG
34263 TACTTTCGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.38
Consensus pattern (24 bp):
ATTTATAGTGCAATTCTACGAGGC
Found at i:34326 original size:29 final size:29
Alignment explanation
Indices: 34254--34319 Score: 132
Period size: 29 Copynumber: 2.3 Consensus size: 29
34244 TTAGTGCAAT
34254 TCTACGAGGTACTTTCGAGCGTAAATATA
1 TCTACGAGGTACTTTCGAGCGTAAATATA
34283 TCTACGAGGTACTTTCGAGCGTAAATATA
1 TCTACGAGGTACTTTCGAGCGTAAATATA
34312 TCTACGAG
1 TCTACGAG
34320 ACACTTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (29 bp):
TCTACGAGGTACTTTCGAGCGTAAATATA
Found at i:34909 original size:16 final size:16
Alignment explanation
Indices: 34889--34926 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
34879 TAATATTAAG
*
34889 TATTAATAGTAATATAA
1 TATTAATA-AAATATAA
34906 -ATTAATAAAATATAA
1 TATTAATAAAATATAA
34921 TATTAA
1 TATTAA
34927 ATTATGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
TATTAATAAAATATAA
Found at i:35465 original size:3 final size:3
Alignment explanation
Indices: 35453--35532 Score: 137
Period size: 3 Copynumber: 27.3 Consensus size: 3
35443 CGAAAAAACC
*
35453 ATT A-T ATT ATT ATT AAT -TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
35499 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
35533 CAAATATACA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 3 0.04
3 70 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:37132 original size:31 final size:31
Alignment explanation
Indices: 37072--37259 Score: 195
Period size: 31 Copynumber: 6.0 Consensus size: 31
37062 GATCCTCGGT
* * *
37072 AACTGTCTATAGGTTCCG-ATGAACCTAGGTA
1 AACTGTCCATATGTTCCGTA-GAACATAGGTA
*
37103 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGTAGAACATAGGTA
* *
37134 TACTGTCCATATG-TCTCG-AAAGACATAGGTA
1 AACTGTCCATATGTTC-CGTAGA-ACATAGGTA
*
37165 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGTAGAACATAGGTA
* * *
37197 TACTGTCCATATG-TCTCGAAAAACATAGGTA
1 AACTGTCCATATGTTC-CGTAGAACATAGGTA
*
37228 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGTAGAACATAGGTA
37260 TACCCTCGAC
Statistics
Matches: 130, Mismatches: 18, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
30 6 0.05
31 71 0.55
32 47 0.36
33 6 0.05
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGTAGAACATAGGTA
Found at i:37180 original size:63 final size:63
Alignment explanation
Indices: 37097--37262 Score: 298
Period size: 63 Copynumber: 2.7 Consensus size: 63
37087 CCGATGAACC
* * *
37097 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
37159 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
37222 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
37263 CCTCGACTCT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
62 7 0.07
63 93 0.93
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
Found at i:38388 original size:64 final size:64
Alignment explanation
Indices: 38236--38392 Score: 160
Period size: 64 Copynumber: 2.5 Consensus size: 64
38226 CAATGAAAGT
* * * ** *
38236 ATGCATCGATGCACTA-CTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATCACTGGG
1 ATGCATCGATGCACTACCTG-TGCATCGATGCATAAAATGCATTCGATGTTCTATTATAAAAGAG
* * * *
38300 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCACTACC-TGTGCATCGATGCA-TAAAATGCATTCGATG-TTCTATTATAAAAG
38363 AG
63 AG
38365 -TGCATCGATGCACTACCTGTGCATCGAT
1 ATGCATCGATGCACTACCTGTGCATCGAT
38393 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
63 1 0.01
64 60 0.79
65 15 0.20
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATGCATTCGATGTTCTATTATAAAAGAG
Found at i:42053 original size:31 final size:31
Alignment explanation
Indices: 41993--42149 Score: 149
Period size: 31 Copynumber: 5.0 Consensus size: 31
41983 GATCCTCGGT
* * *
41993 AACTGTCTATAGGTTCCGAT-GAACCTAGGTA
1 AACTGTCCATATGTTCC-ATAGAACATAGGTA
*
42024 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCATAGAACATAGGTA
* * *
42055 TACTGTCCATATGTCTCGAAAG-ACATAGGTA
1 AACTGTCCATATGT-TCCATAGAACATAGGTA
* *
42086 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCATAGAACATAGGTA
* * *
42118 TACTGTCCATATGTCTCGA-AAAACATAGGTA
1 AACTGTCCATATGT-TCCATAGAACATAGGTA
42149 A
1 A
42150 TTTTGTCCAT
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
30 1 0.01
31 74 0.73
32 27 0.26
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (31 bp):
AACTGTCCATATGTTCCATAGAACATAGGTA
Found at i:42101 original size:63 final size:63
Alignment explanation
Indices: 42018--42161 Score: 245
Period size: 63 Copynumber: 2.3 Consensus size: 63
42008 CCGATGAACC
* * *
42018 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
42080 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
1 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
*
42143 TAGGTAATTTTGTCCATAT
1 TAGGTAATTCTGTCCATAT
42162 TGTCGTAACC
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
62 7 0.09
63 70 0.91
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATACTGTCCATATGTCTCGAAAAACA
Found at i:42518 original size:15 final size:15
Alignment explanation
Indices: 42500--42529 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
42490 AAAACCATGT
42500 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
42515 TAGATAAAAAGGTAA
1 TAGATAAAAAGGTAA
42530 GAAATAAATA
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:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (15 bp):
TAGATAAAAAGGTAA
Found at i:42536 original size:15 final size:15
Alignment explanation
Indices: 42503--42537 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
42493 ACCATGTTAG
* *
42503 ATAAAAAGGTAATAG
1 ATAAAAAGGTAAGAA
42518 ATAAAAAGGTAAGAA
1 ATAAAAAGGTAAGAA
42533 ATAAA
1 ATAAA
42538 TAAATTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAAAAGGTAAGAA
Found at i:42665 original size:45 final size:46
Alignment explanation
Indices: 42616--42731 Score: 107
Period size: 47 Copynumber: 2.5 Consensus size: 46
42606 AAATAGTAAG
*
42616 TAAAATAAATATAAAAAATAAAGAAAAG-AAGAAA-AA-ATATA-GAAA
1 TAAAA-AAATATAAAAAATAAA-AAAAGTAA-AAATAATATATATAAAA
*
42661 TAAAACAAATAAATAAATAATAATAAAAAGTAAAAATAATATATATAAAA
1 TAAAA-AAAT--ATAAAAAATAA-AAAAAGTAAAAATAATATATATAAAA
42711 TAAAAAAATA-AAAAAAGTAAA
1 TAAAAAAATATAAAAAA-TAAA
42732 TATATATATA
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
45 9 0.15
46 6 0.10
47 22 0.37
48 5 0.08
49 9 0.15
50 8 0.14
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (46 bp):
TAAAAAAATATAAAAAATAAAAAAAGTAAAAATAATATATATAAAA
Found at i:42695 original size:30 final size:27
Alignment explanation
Indices: 42667--42735 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 27
42657 GAAATAAAAC
42667 AAATAAATA-AATAATAATAAAAAGTAAAA
1 AAATAAATATAA-AATAA-AAAAA-TAAAA
*
42696 ATAATATATATAAAATAAAAAAATAAAA
1 A-AATAAATATAAAATAAAAAAATAAAA
42724 AAAGTAAATATA
1 AAA-TAAATATA
42736 TATATATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
27 2 0.06
28 13 0.37
29 6 0.17
30 12 0.34
31 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (27 bp):
AAATAAATATAAAATAAAAAAATAAAA
Found at i:42736 original size:30 final size:29
Alignment explanation
Indices: 42649--42737 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 29
42639 AAAAGAAGAA
* * *
42649 AAAATATAGAAATAAAACAAATAAATAAAT
1 AAAATAAAAAAATAAAA-AAATAAATATAT
*
42679 AATAAT-AAAAAGT--AAAAATAATATATAT
1 AA-AATAAAAAAATAAAAAAATAA-ATATAT
42707 AAAATAAAAAAATAAAAAAAGTAAATATAT
1 AAAATAAAAAAATAAAAAAA-TAAATATAT
42737 A
1 A
42738 TATATATATA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
27 9 0.19
28 15 0.31
30 18 0.38
31 6 0.12
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.22
Consensus pattern (29 bp):
AAAATAAAAAAATAAAAAAATAAATATAT
Found at i:42810 original size:24 final size:24
Alignment explanation
Indices: 42783--42849 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
42773 TAATATATTT
*
42783 ATATATATAATCTAAAAAATAAAA
1 ATATATATAATGTAAAAAATAAAA
* *
42807 ATATATACTAAAGT-AAAAATGAAA
1 ATATATA-TAATGTAAAAAATAAAA
* *
42831 ATACATAAAATGTAAAAAA
1 ATATATATAATGTAAAAAA
42850 AATATTACAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 4 0.11
24 27 0.77
25 4 0.11
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.25
Consensus pattern (24 bp):
ATATATATAATGTAAAAAATAAAA
Found at i:43193 original size:35 final size:36
Alignment explanation
Indices: 43123--43218 Score: 131
Period size: 35 Copynumber: 2.6 Consensus size: 36
43113 GTGCTTGTGG
* *
43123 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCATAGCAAAATTCT
*
43160 ATCCTATTTTAGGAG-TTGAATCATAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCATAGCAAAATTCT
*
43195 ATCCTATTTTTGAGAGTTTGAATC
1 ATCCTATTTTAG-GAGTTTGAATC
43219 CTAGTAGGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
35 28 0.53
36 11 0.21
37 14 0.26
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCATAGCAAAATTCT
Found at i:43990 original size:106 final size:105
Alignment explanation
Indices: 43683--44455 Score: 799
Period size: 109 Copynumber: 7.4 Consensus size: 105
43673 AATATTGTTC
* * * * *
43683 CGAGTCCAATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAACTGAAAATTGTTTGTTGACA
** * * * *
43748 GTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
43789 CGAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AAC-G-AAA-T-CTTGTTGACAA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAAAATTGTTTGTTGACAA
*
43849 TCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
43889 CGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAA-CTGAAAATTGTTTGTTGACA
43954 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * ** *
43995 CGAGTGGCACGATATCCTCCG-TCGTGGAGTTGAAA-TCGCGGATGAAACTGAAAAGTTGTTCGT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGC-TCTGAAACTGAAAA-TTGTTTGT
44058 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
60 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * * * *
44104 CGGGTAGCACGATATCCTCCG-TCGTGGAGTTGAAATCGGCTCT-AGAATTGGGAAATTATTTGT
1 CGAGT--C-CAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGA-AACT-GAAAATTGTTTGT
* *
44167 TGACAACTAGCCGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCT
60 TGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * *
44213 CGAGTCCAATATCCTTCGCTGTGAAGTTGAGATTGGCTC-----C--AAAATTGCTTGTCGACAG
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAAAATTGTTTGTTGACAA
* * * * **
44271 TCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTCCTGTCT
66 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * * * * *
44311 TGGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAACTGGGAAATT-ATTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACT-GAAAATTGTTTGTTGACA
*
44375 TA-CAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
65 -ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
*
44416 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
44456 AGCTAAAACC
Statistics
Matches: 565, Mismatches: 77, Indels: 51
0.82 0.11 0.07
Matches are distributed among these distances:
98 81 0.14
100 83 0.15
101 3 0.01
102 3 0.01
103 3 0.01
104 5 0.01
105 78 0.14
106 121 0.21
107 2 0.00
108 12 0.02
109 168 0.30
110 6 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (105 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAACTGAAAATTGTTTGTTGACAA
CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:44475 original size:424 final size:422
Alignment explanation
Indices: 43691--44448 Score: 1032
Period size: 424 Copynumber: 1.8 Consensus size: 422
43681 TCCGAGTCCA
* * * * *
43691 ATATCCTCCGCTGTGAAGTTGAAATTGGTTCTGGAACCGGGAAATTGTTTGTTGACAGTCAGCCG
1 ATATCCTCCGCTGTGAAGTTGAAATCGGCTCTAGAACCGGGAAATTATTTGTTGACACTCAGCCG
* *
43756 CCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTCGAGTCTAATATCCTTCGCTGTGAAGTTGAAA
66 CCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
* * * * **
43821 TTGACTCTGAACGAAATCTTGTTGACAATCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
131 TTGACTCTCAAC-AAATCTTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTCCTG
* *
43886 TCTCGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCTCTGAAATTTGAAAAATGTTTGTTG
195 TCTCGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCCCTGAAATCTGAAAAATGTTTGTTG
* *
43951 ACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGGCACGATATCCTCCG
260 ACAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-GCACAATATCCTCCG
* * * *
44016 TCGTGGAGTTGAAATCGCGGATGAAACTGAAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTT
324 TCGTGAAGTTGAAATCGCAGATAAAACTAAAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTT
44081 GTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACG
389 GTGAAGTTGAACTTGTGTTGTCTCGGGTAGCACG
* **
44115 ATATCCTCCG-TCGTGGAGTTGAAATCGGCTCTAGAATTGGGAAATTATTTGTTGACAACT-AGC
1 ATATCCTCCGCT-GTGAAGTTGAAATCGGCTCTAGAACCGGGAAATTATTTGTTGAC-ACTCAGC
* *
44178 CGTCCCTTCGCTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGA
64 CGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGA
* * * * *
44243 GATTGGCTC-CAA-AATTGCTTGTCGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTCC
129 AATTGACTCTCAACAAAT-CTTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTCC
* * * * **
44306 TGTCTTGGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCCTGAAA-CTGGGAAAT-TATTG
193 TGTCTCGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCCCTGAAATCTGAAAAATGT-TTG
44369 TTGACATA-CAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-C-CAATATCCT
257 TTGACA-ACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCACAATATCCT
*
44431 TCG-CTGTGAAGTTGAAAT
321 CCGTC-GTGAAGTTGAAAT
44449 TGACTCTAGC
Statistics
Matches: 293, Mismatches: 35, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
417 1 0.00
418 22 0.08
419 1 0.00
420 1 0.00
421 61 0.21
422 84 0.29
423 3 0.01
424 118 0.40
425 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.33
Consensus pattern (422 bp):
ATATCCTCCGCTGTGAAGTTGAAATCGGCTCTAGAACCGGGAAATTATTTGTTGACACTCAGCCG
CCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAA
TTGACTCTCAACAAATCTTGTCGACAATCAGCCGCCCCTTCGCTGTGAAGTTGAACTTGTCCTGT
CTCGAGTCCAATATCCTTCGCTGCGAAGTTGAAATTGGCCCTGAAATCTGAAAAATGTTTGTTGA
CAACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCACAATATCCTCCGTC
GTGAAGTTGAAATCGCAGATAAAACTAAAAAGTTGTTCGTTGACAACCAGCCGTCCCTTCGTTGT
GAAGTTGAACTTGTGTTGTCTCGGGTAGCACG
Found at i:44890 original size:68 final size:65
Alignment explanation
Indices: 44800--44957 Score: 199
Period size: 68 Copynumber: 2.4 Consensus size: 65
44790 AAGATATCTG
* * **
44800 TTGTTTCATGAGAAACGGTCTCAAGGGAAAAAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAAAAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
44865 TT
64 TT
* * * * *
44867 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAAAAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
44932 T
65 T
*
44933 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
44958 ATAGACGAAA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
65 21 0.27
66 3 0.04
67 24 0.31
68 30 0.38
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAAAAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:44931 original size:67 final size:65
Alignment explanation
Indices: 44800--45193 Score: 240
Period size: 65 Copynumber: 5.8 Consensus size: 65
44790 AAGATATCTG
* * * * **
44800 TTGTTTCATGAGAAACGGTCTCAAGGGAAAAAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
44865 TT
64 TT
* * *
44867 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
44932 T
65 T
* ** * *
44933 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGGGAAA-----T--A-A-A
** *
44997 GACAAA-ACT
56 TTCAAAGATT
* * * * * * * * *
45006 TAG-TTCAAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATAT
1 TTGTTTC-AAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
45070 T
65 T
* * * *
45071 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGA-T-
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA-----T-AA-ATTC
* *
45134 AGACGAAAT
59 A-AAG-ATT
* *
45143 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
45194 CTGTCTCAAG
Statistics
Matches: 254, Mismatches: 49, Indels: 43
0.73 0.14 0.12
Matches are distributed among these distances:
64 5 0.02
65 78 0.31
66 11 0.04
67 24 0.09
68 30 0.12
70 2 0.01
71 3 0.01
72 59 0.23
73 37 0.15
74 5 0.02
ACGTcount: A:0.40, C:0.11, G:0.20, T:0.29
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:44984 original size:36 final size:35
Alignment explanation
Indices: 44933--45213 Score: 274
Period size: 36 Copynumber: 8.0 Consensus size: 35
44923 TTCAAAGATT
* *
44933 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
44969 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * *
45004 CTTAG-TTCAAAAAGAAACTGTCTCAAGGGAGACGAAAT
1 -TT-GTTTC-AAGAGAAACTGTCTCAAGAGAGAC-AAAA
* * **
45042 TTGTTTCAA-AGAAAACATAT-TC---A-A-A-TATT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
45071 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
45106 TTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAAT
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
45143 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
45178 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
45214 CTCTTCTAGT
Statistics
Matches: 205, Mismatches: 22, Indels: 36
0.78 0.08 0.14
Matches are distributed among these distances:
28 2 0.01
29 17 0.08
30 1 0.00
31 1 0.00
32 2 0.01
33 1 0.00
34 1 0.00
35 10 0.05
36 134 0.65
37 33 0.16
38 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.20, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:45042 original size:138 final size:137
Alignment explanation
Indices: 44870--45194 Score: 438
Period size: 138 Copynumber: 2.4 Consensus size: 137
44860 AAGATTTTGT
* * * * * *
44870 GTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTT
1 GTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTT
* *
44935 GTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAGA
66 GTTTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGA
44999 CAAAACTTA
130 CAAAA-TTA
* * * * *
45008 G-TTCAAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTT
1 GTTTC-AAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTT
* *
45072 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGATAGA
65 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGA
* *
45137 CGAAATTT
130 CAAAATTA
* *
45145 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC
1 GTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
45195 TGTCTCAAGA
Statistics
Matches: 162, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
137 50 0.31
138 112 0.69
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (137 bp):
GTTTCAAAAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTT
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGAC
AAAATTA
Found at i:45235 original size:35 final size:36
Alignment explanation
Indices: 45075--45247 Score: 172
Period size: 36 Copynumber: 4.8 Consensus size: 36
45065 AATATTTTGT
* * **
45075 TTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTAT
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
* * * * *
45111 TTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGT
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
* *
45147 TTCAA-GAGAAACTGTCTCAAGAGAGACAAAATTTGT
1 TTCAAGGA-AAACTGTCTCAAGAGAGACAAAATCTGC
*
45183 TTCAAGGGAAACTGTCTCAAGAGAGACAAAA-CT-C
1 TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
* * *
45217 TTCTAGTGAAAACGGTCTCAAGCGAGACAAA
1 TTCAAG-GAAAACTGTCTCAAGAGAGACAAA
45248 TCTTGTTTTA
Statistics
Matches: 121, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
34 5 0.04
35 23 0.19
36 92 0.76
37 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (36 bp):
TTCAAGGAAAACTGTCTCAAGAGAGACAAAATCTGC
Found at i:45715 original size:18 final size:18
Alignment explanation
Indices: 45692--45728 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45682 ATGTTGAATC
* *
45692 TCCAAAGATGCCTCAATA
1 TCCAAAAATGCCCCAATA
45710 TCCAAAAATGCCCCAATA
1 TCCAAAAATGCCCCAATA
45728 T
1 T
45729 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.08, T:0.22
Consensus pattern (18 bp):
TCCAAAAATGCCCCAATA
Found at i:46167 original size:22 final size:22
Alignment explanation
Indices: 46141--46189 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
46131 TTGTGTTTGG
* *
46141 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTGGATGC
46163 TCAAAGGTTTGACATTGGATGC
1 TCAAAGGTTTGACATTGGATGC
46185 TCAAA
1 TCAAA
46190 AGATTGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (22 bp):
TCAAAGGTTTGACATTGGATGC
Found at i:46196 original size:22 final size:22
Alignment explanation
Indices: 46153--46196 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
46143 AAAGGTTTGG
* * *
46153 CATTTGATGCTCAAAGGTTTGA
1 CATTGGATGCTCAAAAGATTGA
46175 CATTGGATGCTCAAAAGATTGA
1 CATTGGATGCTCAAAAGATTGA
46197 TGGGGTAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (22 bp):
CATTGGATGCTCAAAAGATTGA
Found at i:46877 original size:8 final size:7
Alignment explanation
Indices: 46825--46915 Score: 65
Period size: 8 Copynumber: 11.7 Consensus size: 7
46815 TTTTTGTCCC
46825 TTTTTCT
1 TTTTTCT
**
46832 TTTTGAT
1 TTTTTCT
46839 TTTTGCTCTT
1 TTTT--TC-T
46849 TTTTTCT
1 TTTTTCT
46856 TTTGTTCT
1 TTT-TTCT
*
46864 TGTTTCT
1 TTTTTCT
46871 CTTTTTCT
1 -TTTTTCT
*
46879 TTGTTTTT
1 TT-TTTCT
46887 TTTTTGCT
1 TTTTT-CT
46895 TTTTTGCTT
1 TTTTT-C-T
46904 TTTTTCT
1 TTTTTCT
46911 TTTTT
1 TTTTT
46916 GTTCTTGATT
Statistics
Matches: 68, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
7 28 0.41
8 29 0.43
9 6 0.09
10 5 0.07
ACGTcount: A:0.01, C:0.12, G:0.08, T:0.79
Consensus pattern (7 bp):
TTTTTCT
Found at i:50095 original size:48 final size:49
Alignment explanation
Indices: 50009--50126 Score: 132
Period size: 48 Copynumber: 2.4 Consensus size: 49
49999 ATAGTAAGTA
50009 AAATAAATATAAAAAATAAAGAAAAAGAAGAAAAAATATAGAAATAAAAC
1 AAATAAATA-AAAAAATAAAGAAAAAGAAGAAAAAATATAGAAATAAAAC
* * * * * *
50059 AAATAAATAAAATAAT-AATAAAAAGTAA-AAATAATATATATATAAAAT
1 AAATAAATAAAAAAATAAAGAAAAAG-AAGAAAAAATATAGAAATAAAAC
*
50107 AAAAAAATAAAAAAAGTAAA
1 AAATAAATAAAAAAA-TAAA
50127 TATATATATA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
48 37 0.65
49 9 0.16
50 11 0.19
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (49 bp):
AAATAAATAAAAAAATAAAGAAAAAGAAGAAAAAATATAGAAATAAAAC
Found at i:50111 original size:6 final size:6
Alignment explanation
Indices: 50008--50166 Score: 51
Period size: 6 Copynumber: 25.7 Consensus size: 6
49998 AATAGTAAGT
* * * * * *
50008 AAAATA AATATA AAAA-A TAAAGA AAAAGA AGAAA-A AATATA GAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA A-AAATA AAAATA AAAATA
*
50055 AAACA-A ATAAAT- AAAATA ATAATA AAAAGTA AAAATA ATATATATA
1 AAA-ATA A-AAATA AAAATA AAAATA AAAA-TA AAAATA A-A-A-ATA
* * * * * *
50101 TAAAATA AAAA-A ATAAA-A AAAGTA AATATA TATATA TATATA AATTAATA
1 -AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA AA--AATA
*
50151 AAAATG AAAATA AAAA
1 AAAATA AAAATA AAAA
50167 ATAATATATT
Statistics
Matches: 119, Mismatches: 18, Indels: 32
0.70 0.11 0.19
Matches are distributed among these distances:
5 14 0.12
6 77 0.65
7 16 0.13
8 7 0.06
9 4 0.03
10 1 0.01
ACGTcount: A:0.73, C:0.01, G:0.04, T:0.22
Consensus pattern (6 bp):
AAAATA
Found at i:50116 original size:40 final size:41
Alignment explanation
Indices: 50061--50187 Score: 147
Period size: 39 Copynumber: 3.2 Consensus size: 41
50051 AATAAAACAA
*
50061 ATAAATAAAATAATAATAAAAAGTAAAAATAATATATATAT
1 ATAAATAAAAAAATAATAAAAAGTAAAAATAATATATATAT
*
50102 A-AAATAAAAAAATAA-AAAAAGTAAATAT-ATATATATAT
1 ATAAATAAAAAAATAATAAAAAGTAAAAATAATATATATAT
* * * *
50140 ATAAATTAATAAA-AATGAAAA-TAAAAAATAATATATTTAT
1 ATAAATAAAAAAATAATAAAAAGT-AAAAATAATATATATAT
*
50180 ATATATAA
1 ATAAATAA
50188 TCTAAAAAAT
Statistics
Matches: 73, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
38 14 0.19
39 30 0.41
40 28 0.38
41 1 0.01
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (41 bp):
ATAAATAAAAAAATAATAAAAAGTAAAAATAATATATATAT
Found at i:50118 original size:30 final size:32
Alignment explanation
Indices: 50041--50132 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 32
50031 AAAAGAAGAA
*
50041 AAAAT-ATAGAAA-TAAAACAAA-TAAATA-A-
1 AAAATAATAAAAAGTAAAA-AAAGTAAATATAT
*
50069 AATAATAATAAAAAGTAAAAATAA-TATATATAT
1 AA-AATAATAAAAAGTAAAAA-AAGTAAATATAT
50102 AAAATAA-AAAAA-TAAAAAAAGTAAATATAT
1 AAAATAATAAAAAGTAAAAAAAGTAAATATAT
50132 A
1 A
50133 TATATATATA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
28 2 0.04
29 5 0.09
30 22 0.41
31 17 0.31
32 6 0.11
33 2 0.04
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.23
Consensus pattern (32 bp):
AAAATAATAAAAAGTAAAAAAAGTAAATATAT
Found at i:50121 original size:9 final size:9
Alignment explanation
Indices: 50007--50126 Score: 55
Period size: 9 Copynumber: 12.4 Consensus size: 9
49997 AAATAGTAAG
*
50007 TAAAATAAA
1 TAAAAAAAA
*
50016 TATAAAAAA
1 TAAAAAAAA
50025 TAAAGAAAAA
1 TAAA-AAAAA
*
50035 GAAGAAAAAA
1 TAA-AAAAAA
* *
50045 T-ATAGAAA
1 TAAAAAAAA
*
50053 TAAAACAAA
1 TAAAAAAAA
50062 TAAATAAAATAA
1 T-AA-AAAA-AA
*
50074 TAATAAAAAG
1 TAA-AAAAAA
50084 TAAAAATAATA
1 TAAAAA-AA-A
*
50095 TATATATAAAA
1 TA-A-AAAAAA
50106 T-AAAAAAA
1 TAAAAAAAA
*
50114 TAAAAAAAG
1 TAAAAAAAA
50123 TAAA
1 TAAA
50127 TATATATATA
Statistics
Matches: 85, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
8 11 0.13
9 31 0.36
10 20 0.24
11 15 0.18
12 6 0.07
13 2 0.02
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:50152 original size:48 final size:45
Alignment explanation
Indices: 50100--50202 Score: 122
Period size: 44 Copynumber: 2.3 Consensus size: 45
50090 TAATATATAT
50100 ATAAAATAAAAAAATAAAAAAAGTAAATATATATATATATATAAAT-TA
1 ATAAAATAAAAAAAT-AAAAAA-T-AATATATATATATATAT-AATCTA
** *
50148 ATAAAA-ATGAAAATAAAAAATAATATATTTATATATATAATCTA
1 ATAAAATAAAAAAATAAAAAATAATATATATATATATATAATCTA
50192 A-AAAATAAAAA
1 ATAAAATAAAAA
50203 TATATACTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
43 7 0.15
44 22 0.46
45 1 0.02
46 6 0.12
47 6 0.12
48 6 0.12
ACGTcount: A:0.68, C:0.01, G:0.02, T:0.29
Consensus pattern (45 bp):
ATAAAATAAAAAAATAAAAAATAATATATATATATATATAATCTA
Found at i:50205 original size:24 final size:23
Alignment explanation
Indices: 50178--50246 Score: 75
Period size: 24 Copynumber: 2.9 Consensus size: 23
50168 TAATATATTT
*
50178 ATATATATAATCTAAAAAATAAAA
1 ATATATATAATGTAAAAAA-AAAA
* *
50202 ATATATACTAAAGTAAAAAAGAAA
1 ATATATA-TAATGTAAAAAAAAAA
* *
50226 ATACATAAAATGTAAAAAAAA
1 ATATATATAATGTAAAAAAAA
50247 TATTACATGA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 11 0.30
24 16 0.43
25 10 0.27
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (23 bp):
ATATATATAATGTAAAAAAAAAA
Found at i:50253 original size:23 final size:22
Alignment explanation
Indices: 50198--50259 Score: 58
Period size: 23 Copynumber: 2.8 Consensus size: 22
50188 TCTAAAAAAT
50198 AAAAATATATAC-T-AAAGTAAA
1 AAAAATAT-TACATAAAAGTAAA
*
50219 AAAGAA-AATACATAAAATGTAAA
1 AAA-AATATTACATAAAA-GTAAA
50242 AAAAATATTACATGAAAA
1 AAAAATATTACAT-AAAA
50260 AAAAAAGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
20 3 0.09
21 5 0.15
22 7 0.21
23 14 0.42
24 4 0.12
ACGTcount: A:0.68, C:0.05, G:0.06, T:0.21
Consensus pattern (22 bp):
AAAAATATTACATAAAAGTAAA
Found at i:50595 original size:35 final size:36
Alignment explanation
Indices: 50525--50620 Score: 122
Period size: 35 Copynumber: 2.6 Consensus size: 36
50515 GTGCTTGTGG
* *
50525 ATCCTATCTTTAGGAGTTTAAAACATAGCAAAATTCT
1 ATCCTAT-TTTAGGAGTTTGAATCATAGCAAAATTCT
* *
50562 ATCTTATTTTAGGAG-TTGAATCATAGCAGAATTCT
1 ATCCTATTTTAGGAGTTTGAATCATAGCAAAATTCT
*
50597 ATCCTATTTTTGAGAGTTTGAATC
1 ATCCTATTTTAG-GAGTTTGAATC
50621 CTAGTAGGAC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
35 27 0.53
36 11 0.22
37 13 0.25
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.40
Consensus pattern (36 bp):
ATCCTATTTTAGGAGTTTGAATCATAGCAAAATTCT
Found at i:50993 original size:48 final size:48
Alignment explanation
Indices: 50933--51030 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
50923 GCATATAAAA
50933 TAACATATAAACTTATATATGTATTCATGTGTATACTTTCATTTAGCC
1 TAACATATAAACTTATATATGTATTCATGTGTATACTTTCATTTAGCC
50981 TAACATATAAACTTATATATGTATTCATGTGTATACTTTCATTTAGCC
1 TAACATATAAACTTATATATGTATTCATGTGTATACTTTCATTTAGCC
51029 TA
1 TA
51031 TTTATCAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (48 bp):
TAACATATAAACTTATATATGTATTCATGTGTATACTTTCATTTAGCC
Found at i:53313 original size:30 final size:30
Alignment explanation
Indices: 53279--53423 Score: 166
Period size: 30 Copynumber: 4.8 Consensus size: 30
53269 TTAGTACCAG
* *
53279 TTTAGTCCTTTAAATTTCTATTTTTGCTAT
1 TTTAATCCTTTAAGTTTCTATTTTTGCTAT
* *
53309 TTTAGTCCTTTAAGTTT-TCATTTTTTCTAT
1 TTTAATCCTTTAAGTTTCT-ATTTTTGCTAT
* * **
53339 TTCAATCCTTTGAGTTTCTGCTTTTGCTAT
1 TTTAATCCTTTAAGTTTCTATTTTTGCTAT
* * *
53369 TTTTATCCTTTAACTTTCTATTTTTGATAT
1 TTTAATCCTTTAAGTTTCTATTTTTGCTAT
*
53399 TTTAATCTTTTAAGTTTCTATTTTT
1 TTTAATCCTTTAAGTTTCTATTTTT
53424 TGGTCCTTCA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
29 1 0.01
30 93 0.98
31 1 0.01
ACGTcount: A:0.18, C:0.14, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTAATCCTTTAAGTTTCTATTTTTGCTAT
Found at i:57113 original size:34 final size:31
Alignment explanation
Indices: 57069--57187 Score: 86
Period size: 32 Copynumber: 3.8 Consensus size: 31
57059 ATAATCAAAA
*
57069 CAAAG-AGAAAAGAAGCAAAGAGAAAACATATAG
1 CAAAGAAGAAAAAAAGCAAAGA-AAAA-A-ATAG
*
57102 CAAAGAAGAAAAAAATCAAAGAAAAAAATAG
1 CAAAGAAGAAAAAAAGCAAAGAAAAAAATAG
* * * *
57133 -AAAGAAAAAAATAAAGAAAAAGAAACAAAGA-
1 CAAAGAAGAAAA-AAAG-CAAAGAAAAAAATAG
* *
57164 CAAAG-A-CAAAAAATCAAAGAAAAA
1 CAAAGAAGAAAAAAAGCAAAGAAAAA
57188 CAAAGAAAAA
Statistics
Matches: 71, Mismatches: 11, Indels: 13
0.75 0.12 0.14
Matches are distributed among these distances:
28 8 0.11
29 3 0.04
30 13 0.18
31 8 0.11
32 16 0.23
33 9 0.13
34 14 0.20
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.05
Consensus pattern (31 bp):
CAAAGAAGAAAAAAAGCAAAGAAAAAAATAG
Found at i:57176 original size:24 final size:23
Alignment explanation
Indices: 57112--57198 Score: 61
Period size: 24 Copynumber: 3.7 Consensus size: 23
57102 CAAAGAAGAA
* *
57112 AAAAATCAAAGAAAAAAATAGAAAG
1 AAAAA-CAAAGAAAAAAA-ACAAAC
* *
57137 AAAAA-AATA-AAGAAAAAGAAAC
1 AAAAACAA-AGAAAAAAAACAAAC
* * *
57159 AAAGACAAAGACAAAAAATCAAAG
1 AAAAACAAAGA-AAAAAAACAAAC
57183 AAAAACAAAGAAAAAA
1 AAAAACAAAGAAAAAA
57199 GGGAAAGAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
22 10 0.20
23 16 0.32
24 19 0.38
25 5 0.10
ACGTcount: A:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (23 bp):
AAAAACAAAGAAAAAAAACAAAC
Found at i:57181 original size:20 final size:20
Alignment explanation
Indices: 57133--57199 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
57123 AAAAAAATAG
57133 AAAGAAA-AAA-ATAAAGA-A
1 AAAGAAACAAAGA-AAAGACA
57151 AAAGAAACAAAGACAAAGACA
1 AAAGAAACAAAGA-AAAGACA
*
57172 AAA-AATCAAAGAAAA-AC-
1 AAAGAAACAAAGAAAAGACA
57189 AAAGAAA-AAAG
1 AAAGAAACAAAG
57200 GGAAAGAAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
17 7 0.17
18 11 0.26
19 6 0.14
20 14 0.33
21 4 0.10
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (20 bp):
AAAGAAACAAAGAAAAGACA
Found at i:57183 original size:14 final size:13
Alignment explanation
Indices: 57107--57163 Score: 71
Period size: 14 Copynumber: 4.3 Consensus size: 13
57097 TATAGCAAAG
57107 AAGAAAAAAATCA
1 AAGAAAAAAATCA
*
57120 AAGAAAAAAATAGA
1 AAGAAAAAAAT-CA
57134 AAGAAAAAAAT-A
1 AAGAAAAAAATCA
*
57146 AAGAAAAAGAAACA
1 AAGAAAAA-AATCA
57160 AAGA
1 AAGA
57164 CAAAGACAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
12 9 0.23
13 13 0.33
14 17 0.44
ACGTcount: A:0.79, C:0.04, G:0.12, T:0.05
Consensus pattern (13 bp):
AAGAAAAAAATCA
Found at i:58449 original size:37 final size:38
Alignment explanation
Indices: 58378--58450 Score: 105
Period size: 37 Copynumber: 1.9 Consensus size: 38
58368 TTTGATGTTA
* *
58378 TTTCTCTCGAAACAAAATGTTGTCTCGCTTGAGACAGT
1 TTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACAGT
58416 TTTCTCTCAAAAC-AAAT-TTCGTCTCACTTGAGACA
1 TTTCTCTCAAAACAAAATGTT-GTCTCACTTGAGACA
58451 TAACCCATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 2 0.06
37 18 0.56
38 12 0.38
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (38 bp):
TTTCTCTCAAAACAAAATGTTGTCTCACTTGAGACAGT
Found at i:58587 original size:66 final size:64
Alignment explanation
Indices: 58464--58608 Score: 184
Period size: 66 Copynumber: 2.2 Consensus size: 64
58454 CCCATCTTTG
* * * *
58464 TCTTTGGAAACAAAATTTTGTCTTTGGAGACAGTTTCTTTTGAAGAAAAATCTTTGAGTCTGTT
1 TCTTTGGAAACAAAATTTTGTCTTTGAAGACAATATCTTTTGAAGAAAAATCTTTGAGTCTATT
* * * *
58528 TCTTTGGAGACAAAATTTTGTCTCTCTTAAGATAATATCTTTTGAAGGAAAATCTTTGAGTCTAT
1 TCTTTGGAAACAAAATTTTGTCT-T-TGAAGACAATATCTTTTGAAGAAAAATCTTTGAGTCTAT
58593 T
64 T
58594 TCTCTT-GAAACAAAA
1 TCT-TTGGAAACAAAA
58609 GTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
64 22 0.32
65 1 0.01
66 44 0.64
67 2 0.03
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (64 bp):
TCTTTGGAAACAAAATTTTGTCTTTGAAGACAATATCTTTTGAAGAAAAATCTTTGAGTCTATT
Found at i:58602 original size:29 final size:30
Alignment explanation
Indices: 58576--58697 Score: 187
Period size: 30 Copynumber: 4.1 Consensus size: 30
58566 CTTTTGAAGG
*
58576 AAAA-TCTTTGAGTCTATTTCTCTTGAAAC
1 AAAAGTCTTTGAGTCTGTTTCTCTTGAAAC
58605 AAAAGTCTTTGAGTCTGTTTCTCTTGAAAC
1 AAAAGTCTTTGAGTCTGTTTCTCTTGAAAC
58635 AAAAGTCTTTGAGTCTGTTTCTCTTGAAAC
1 AAAAGTCTTTGAGTCTGTTTCTCTTGAAAC
*
58665 AAACA-TCTTTGAGAT-TGTTTCCCTTGAAAC
1 AAA-AGTCTTTGAG-TCTGTTTCTCTTGAAAC
58695 AAA
1 AAA
58698 TTTTGTCTAT
Statistics
Matches: 88, Mismatches: 2, Indels: 5
0.93 0.02 0.05
Matches are distributed among these distances:
29 4 0.05
30 82 0.93
31 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (30 bp):
AAAAGTCTTTGAGTCTGTTTCTCTTGAAAC
Found at i:59207 original size:3 final size:3
Alignment explanation
Indices: 59194--59248 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
59184 CTCGAAAAAA
* *
59194 TAT TA- TAT TAT TAT TAA T-T TAT TAT TAT TAT TGT GT-T TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T-AT
59238 TAT TAT TAT TA
1 TAT TAT TAT TA
59249 ATATAAATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
2 4 0.09
3 36 0.82
4 4 0.09
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:60918 original size:30 final size:30
Alignment explanation
Indices: 60810--60924 Score: 106
Period size: 30 Copynumber: 3.8 Consensus size: 30
60800 TATTTTTTAC
* * *
60810 TATTTT-AGTCCTTTTAGTTTTTGTTTTTGC
1 TATTTTGA-TCCTTTAAGTTTCTGTTTTTGA
*
60840 TATTTTGATCCTTTAACTTTCTGTTTTTGA
1 TATTTTGATCCTTTAAGTTTCTGTTTTTGA
* * * * *
60870 TAATTTAATCTTTTAAGTTTTTGTTTTTGT
1 TATTTTGATCCTTTAAGTTTCTGTTTTTGA
* * *
60900 TTTTTTGGTCCTTCAAGTTTCTGTT
1 TATTTTGATCCTTTAAGTTTCTGTT
60925 AATTATATTT
Statistics
Matches: 67, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
30 66 0.99
31 1 0.01
ACGTcount: A:0.14, C:0.10, G:0.12, T:0.63
Consensus pattern (30 bp):
TATTTTGATCCTTTAAGTTTCTGTTTTTGA
Found at i:66747 original size:31 final size:31
Alignment explanation
Indices: 66680--66786 Score: 119
Period size: 31 Copynumber: 3.5 Consensus size: 31
66670 TCGATTCTTC
* * * **
66680 CGATTTAAGTTCCTAACGTTATCG-GTCCGT
1 CGATTTCAGTCCCTAACATTATCGAGTCATT
*
66710 CTGATTTCAGTCCCTAACATTATCGATTCATT
1 C-GATTTCAGTCCCTAACATTATCGAGTCATT
66742 CGATTTCAGTCCCTAACATTATC-AGTCTATT
1 CGATTTCAGTCCCTAACATTATCGAGTC-ATT
*
66773 CGATTTTAGTCCCT
1 CGATTTCAGTCCCT
66787 CAGCCATGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.06
31 58 0.88
32 4 0.06
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (31 bp):
CGATTTCAGTCCCTAACATTATCGAGTCATT
Found at i:66778 original size:62 final size:62
Alignment explanation
Indices: 66669--66786 Score: 141
Period size: 62 Copynumber: 1.9 Consensus size: 62
66659 CACTAACGCC
* * * *
66669 ATCGATTCTTCCGATTTAAGTTCCTAACGTTATCGGTCCGTCTGATTTCAGTCCCTAACATT
1 ATCGATTCTTCCGATTTAAGTCCCTAACATTATCAGTCAGTCTGATTTCAGTCCCTAACATT
* * *
66731 ATCGATTCATT-CGATTTCAGTCCCTAACATTATCAGTCTATTC-GATTTTAGTCCCT
1 ATCGATTC-TTCCGATTTAAGTCCCTAACATTATCAGTC-AGTCTGATTTCAGTCCCT
66787 CAGCCATGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
62 43 0.91
63 4 0.09
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (62 bp):
ATCGATTCTTCCGATTTAAGTCCCTAACATTATCAGTCAGTCTGATTTCAGTCCCTAACATT
Found at i:67208 original size:3 final size:3
Alignment explanation
Indices: 67200--67265 Score: 98
Period size: 3 Copynumber: 22.0 Consensus size: 3
67190 TAAATAGAAT
**
67200 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
67248 TTA TTA -TA TTA TTTA TTA
1 TTA TTA TTA TTA -TTA TTA
67266 AATATTACGA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.91
4 3 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:69134 original size:17 final size:18
Alignment explanation
Indices: 69112--69146 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
69102 TAAATAAAAA
69112 ATAAATAT-TTTTAATAT
1 ATAAATATGTTTTAATAT
*
69129 ATAAATATGTTTTTATAT
1 ATAAATATGTTTTAATAT
69147 TTTTATTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
ATAAATATGTTTTAATAT
Found at i:69158 original size:106 final size:106
Alignment explanation
Indices: 69036--69233 Score: 258
Period size: 106 Copynumber: 1.9 Consensus size: 106
69026 CATATTCTAA
* * *
69036 TATATATTTATCAATATTAAGAAAAGACA-GTCTTAAAGCAACTGGATGTTCATTTTCTGATATT
1 TATATATTTATCAATATTAAGAAAAGACATGTCTTAAAGCAACTAGAAG-CCATTTTCTGATATT
*
69100 TTTAAATAAA-AAATAAATATT-TTTAATATATAAATATGTTTT
65 TCTAAATAAATAAAT--ATATTGTTTAATATATAAATATGTTTT
* * * * * *
69142 TATATTTTTATTAATATTAAGAAAGGAGATGTCTTAAAGCACCTAGAAGCCCTTTTCTGATATTT
1 TATATATTTATCAATATTAAGAAAAGACATGTCTTAAAGCAACTAGAAGCCATTTTCTGATATTT
69207 CTAAATAAATAAATATATTGTTTAATA
66 CTAAATAAATAAATATATTGTTTAATA
69234 AAATATATAT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
105 5 0.06
106 54 0.68
107 20 0.25
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (106 bp):
TATATATTTATCAATATTAAGAAAAGACATGTCTTAAAGCAACTAGAAGCCATTTTCTGATATTT
CTAAATAAATAAATATATTGTTTAATATATAAATATGTTTT
Found at i:69773 original size:28 final size:27
Alignment explanation
Indices: 69737--69800 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
69727 TTAATTTTTA
*
69737 ATTTTTTATTTTTAAAAAAATTATATAT
1 ATTTATTATTTTTAAAAAAATTATAT-T
* * *
69765 ATTTATTATTTTTATAATATTTATATT
1 ATTTATTATTTTTAAAAAAATTATATT
69792 ATTTTATTA
1 A-TTTATTA
69801 ATGTTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 2 0.06
28 29 0.94
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTATTATTTTTAAAAAAATTATATT
Found at i:69791 original size:20 final size:22
Alignment explanation
Indices: 69768--69818 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
69758 TATATATATT
69768 TATTATTTTTA-TAAT-ATTTA
1 TATTATTTTTATTAATGATTTA
*
69788 TATTA-TTTTATTAATGTTTTA
1 TATTATTTTTATTAATGATTTA
*
69809 TTTTATTTTT
1 TATTATTTTT
69819 CAAGTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
20 9 0.35
21 8 0.31
22 4 0.15
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTATTTTTATTAATGATTTA
Found at i:75191 original size:20 final size:21
Alignment explanation
Indices: 75139--75199 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
75129 TCCCCTGTGG
75139 GGGGGGATCGGTTCCCCTTCAAA
1 GGGGGGATCGGTT-CCC-TCAAA
* *
75162 GGGGGAATCGGTTCCCTC-AT
1 GGGGGGATCGGTTCCCTCAAA
*
75182 GGGGGGATCGATTCCCTC
1 GGGGGGATCGGTTCCCTC
75200 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 12 0.35
ACGTcount: A:0.15, C:0.26, G:0.36, T:0.23
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCTCAAA
Found at i:84453 original size:7 final size:8
Alignment explanation
Indices: 84434--84498 Score: 71
Period size: 8 Copynumber: 8.2 Consensus size: 8
84424 ATAATTGAAA
*
84434 AAAAAAGG
1 AAAAAATG
*
84442 AAAAAAAG
1 AAAAAATG
84450 AAAAAAATG
1 -AAAAAATG
84459 -AAAAATG
1 AAAAAATG
84466 AAAAAATG
1 AAAAAATG
*
84474 AAAAAAGG
1 AAAAAATG
84482 AAAAAA-G
1 AAAAAATG
*
84489 AAAAATTG
1 AAAAAATG
84497 AA
1 AA
84499 TCAAGATAGG
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
7 13 0.26
8 30 0.60
9 7 0.14
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (8 bp):
AAAAAATG
Found at i:84462 original size:6 final size:7
Alignment explanation
Indices: 84452--84494 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
84442 AAAAAAAGAA
84452 AAAAATG
1 AAAAATG
84459 AAAAATG
1 AAAAATG
84466 AAAAAATG
1 -AAAAATG
*
84474 AAAAAAGG
1 -AAAAATG
*
84482 AAAAAAG
1 AAAAATG
84489 AAAAAT
1 AAAAAT
84495 TGAATCAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
7 18 0.56
8 14 0.44
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (7 bp):
AAAAATG
Found at i:84462 original size:15 final size:14
Alignment explanation
Indices: 84444--84493 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
84434 AAAAAAGGAA
84444 AAAAAGAAAAAAATG
1 AAAAAG-AAAAAATG
84459 AAAAATGAAAAAATG
1 AAAAA-GAAAAAATG
84474 AAAAAAGGAAAAAA-G
1 -AAAAA-GAAAAAATG
84489 AAAAA
1 AAAAA
84494 TTGAATCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 5 0.16
15 14 0.44
16 13 0.41
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (14 bp):
AAAAAGAAAAAATG
Found at i:88712 original size:22 final size:22
Alignment explanation
Indices: 88687--88763 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
88677 ATCTACACTT
88687 TTCAAAGATGATAGACTATTTC
1 TTCAAAGATGATAGACTATTTC
* * *
88709 TTCAAAGATTATAGCCTATCTC
1 TTCAAAGATGATAGACTATTTC
* * *
88731 TTTAAAGATGATAGATTCTCTT-
1 TTCAAAGATGATAGACTAT-TTC
88753 TTCAAAGATGA
1 TTCAAAGATGA
88764 AAGTTTTAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
22 43 0.98
23 1 0.02
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAGACTATTTC
Found at i:89490 original size:45 final size:45
Alignment explanation
Indices: 89426--89561 Score: 166
Period size: 45 Copynumber: 3.0 Consensus size: 45
89416 CGATTTCCCA
*
89426 CATCTGTAAGTCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
* * *
89471 CATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
* * * *
89516 CATCCGTAAACCCTGCAGTG-TAGGATGTTTTCAAAAAGCCTTCGGG
1 CATCTGTAAGCCCTTCAGTGCT-TGATGTTTTC-AAAA-CCTTCGGG
89562 AGCTTTTTGA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
45 66 0.86
46 4 0.05
47 7 0.09
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCTTGATGTTTTCAAAACCTTCGGGT
Found at i:89623 original size:45 final size:45
Alignment explanation
Indices: 89569--89666 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
89559 GGGAGCTTTT
* * *
89569 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
*
89614 TGATGTTTTCAAAACCTTTGGGTCATCCGTAAGCCCTGCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
*
89659 GGATGTTT
1 TGATGTTT
89667 ATAAAAAGCC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCA
Found at i:89662 original size:121 final size:121
Alignment explanation
Indices: 89447--89923 Score: 787
Period size: 121 Copynumber: 4.0 Consensus size: 121
89437 CCTTCAGTGC
* *
89447 TTGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTT
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
* *
89512 GGGTCATCCGTAAACCCTGCAGTGTAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
66 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
* *
89568 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTT
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
*
89633 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTAT-AAAAAGCCTTCAGGAGCTTT
66 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTT-TCAAAAAGCCTTCGGGAGCTTT
*
89689 TTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
*
89754 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCTTTCGGGAGCTTT
66 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
* *
89810 TTGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCCTTCAAAACCTTC
1 TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
* * * * *
89875 GGGTCATCTGTAAGTCCTTCAATGCATGATGTTTTCAAAAA-CCTTCGGG
66 GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGG
89924 TCATCTGTAA
Statistics
Matches: 337, Mismatches: 17, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
120 8 0.02
121 328 0.97
122 1 0.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (121 bp):
TTGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGCTTTCAAAACCTTC
GGGTCATCCGTAAGCCCTGCAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTT
Found at i:89747 original size:45 final size:45
Alignment explanation
Indices: 89696--89793 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
89686 TTTTTGATAT
* * * *
89696 TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGC
1 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
*
89741 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGT
1 TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
89786 TTTCAAAA
1 TTTCAAAA
89794 AGCTTTCGGG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (45 bp):
TTTCAAAACCTTCGGGTCATCCGTAAGCCCTGCAGTGCAGGATGC
Found at i:89933 original size:46 final size:45
Alignment explanation
Indices: 89811--89958 Score: 224
Period size: 45 Copynumber: 3.3 Consensus size: 45
89801 GGGAGCTTTT
*
89811 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*** * *
89856 TGATGCCTTCAAAACCTTCGGGTCATCTGTAAGTCCTTCAATGCA
1 TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
89901 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATATTTTC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
89947 TGATATTTTCAA
1 TGATATTTTCAA
89959 CATTTCCATC
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 49 0.54
46 42 0.46
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (45 bp):
TGATATTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:90113 original size:18 final size:18
Alignment explanation
Indices: 90086--90124 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
90076 CATTTTAAAT
* *
90086 TTAAATTTATTGTTATTA
1 TTAAAATTATTATTATTA
90104 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
90122 TTA
1 TTA
90125 TTATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:92937 original size:24 final size:24
Alignment explanation
Indices: 92905--92959 Score: 110
Period size: 24 Copynumber: 2.3 Consensus size: 24
92895 TCAGAATCGG
92905 ACCGGTTAGCGAACCGGTCATGTT
1 ACCGGTTAGCGAACCGGTCATGTT
92929 ACCGGTTAGCGAACCGGTCATGTT
1 ACCGGTTAGCGAACCGGTCATGTT
92953 ACCGGTT
1 ACCGGTT
92960 CAACCGGTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.20, C:0.25, G:0.29, T:0.25
Consensus pattern (24 bp):
ACCGGTTAGCGAACCGGTCATGTT
Found at i:94290 original size:387 final size:386
Alignment explanation
Indices: 93528--94300 Score: 1537
Period size: 387 Copynumber: 2.0 Consensus size: 386
93518 TTTTTGAGTT
93528 TAAGCCTTTTTGAGTTCAAGTTTCAATATTATATTTTGAGTTTGAGTTGAACTTGATAATTTTTA
1 TAAGCCTTTTTGAGTTCAAGTTTCAATATTATATTTTGAGTTTGAGTTGAACTTGATAATTTTTA
93593 GCTTGTGAGTTTGAGTTGAGTTGAGCTTACTTTTAAAGTTTTCAAGTTCGAGTCGAGCTCAGCAA
66 GCTTGTGAGTTTGAGTTGAGTTGAGCTTACTTTTAAAGTTTTCAAGTTCGAGTCGAGCTCAGCAA
93658 TACTCGAGTTCGACTTGGCTCGTTTAACAAACGACGTTGTTTGGTTTAATTTTTTTTTAAAAAAA
131 TACTCGAGTTCGACTTGGCTCGTTTAACAAACGACGTTGTTTGGTTTAATTTTTTTTTAAAAAAA
93723 ACAAAAATCTCGATTTTTTCTGGTTTTCAGCCGGTCCGGTTCGAACGGTTCAACGGTTCTGACCG
196 ACAAAAATCTCGATTTTTTCTGGTTTTCAGCCGGTCCGGTTCGAACGGTTCAACGGTTCTGACCG
93788 ATTCACTAATAACAATTCAACCGGTTTAGATTGAATCGGACTAAATAACGATTTTCGATTAAACC
261 ATTCACTAATAACAATTCAACCGGTTTAGATTGAATCGGACTAAATAACGATTTTCGATTAAACC
93853 GGTTGAACCGGCCAATCCGGTCCGATTTTCAAAATTAAATCATTGGATTGCATGTGCAGTA
326 GGTTGAACCGGCCAATCCGGTCCGATTTTCAAAATTAAATCATTGGATTGCATGTGCAGTA
93914 TAAGCCTTTTTGAGTTCAAGTTTCAATATTATATTTTGAGTTTGAGTTGAACTTGATAATTTTTA
1 TAAGCCTTTTTGAGTTCAAGTTTCAATATTATATTTTGAGTTTGAGTTGAACTTGATAATTTTTA
93979 GCTTGTGAGTTTGAGTTGAGTTGAGCTTACTTTTAAAGTTTTCAAGTTCGAGTCGAGCTCAGCAA
66 GCTTGTGAGTTTGAGTTGAGTTGAGCTTACTTTTAAAGTTTTCAAGTTCGAGTCGAGCTCAGCAA
94044 TACTCGAGTTCGACTTGGCTCGTTTAACAAACGACGTTGTTTGGTTTAATTTTTTTTTAAAAAAA
131 TACTCGAGTTCGACTTGGCTCGTTTAACAAACGACGTTGTTTGGTTTAATTTTTTTTT-AAAAAA
94109 AACAAAAATCTCGATTTTTTCTGGTTTTCAGCCGGTCCGGTTCGAACGGTTCAACGGTTCTGACC
195 AACAAAAATCTCGATTTTTTCTGGTTTTCAGCCGGTCCGGTTCGAACGGTTCAACGGTTCTGACC
94174 GATTCACTAATAACAATTCAACCGGTTTAGATTGAATCGGACTAAATAACGATTTTCGATTAAAC
260 GATTCACTAATAACAATTCAACCGGTTTAGATTGAATCGGACTAAATAACGATTTTCGATTAAAC
94239 CGGTTGAACCGGCCAATCCGGTCCGATTTTCAAAATTAAATCATTGGATTGCATGTGCAGTA
325 CGGTTGAACCGGCCAATCCGGTCCGATTTTCAAAATTAAATCATTGGATTGCATGTGCAGTA
94301 GAACCTGATC
Statistics
Matches: 386, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
386 188 0.49
387 198 0.51
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (386 bp):
TAAGCCTTTTTGAGTTCAAGTTTCAATATTATATTTTGAGTTTGAGTTGAACTTGATAATTTTTA
GCTTGTGAGTTTGAGTTGAGTTGAGCTTACTTTTAAAGTTTTCAAGTTCGAGTCGAGCTCAGCAA
TACTCGAGTTCGACTTGGCTCGTTTAACAAACGACGTTGTTTGGTTTAATTTTTTTTTAAAAAAA
ACAAAAATCTCGATTTTTTCTGGTTTTCAGCCGGTCCGGTTCGAACGGTTCAACGGTTCTGACCG
ATTCACTAATAACAATTCAACCGGTTTAGATTGAATCGGACTAAATAACGATTTTCGATTAAACC
GGTTGAACCGGCCAATCCGGTCCGATTTTCAAAATTAAATCATTGGATTGCATGTGCAGTA
Found at i:100683 original size:21 final size:21
Alignment explanation
Indices: 100659--100700 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
100649 ATTGTAGATG
100659 ATCCAATGCAACTAGAACCTA
1 ATCCAATGCAACTAGAACCTA
100680 ATCCAATGCAACTAGAACCTA
1 ATCCAATGCAACTAGAACCTA
100701 TGTTTGGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.19
Consensus pattern (21 bp):
ATCCAATGCAACTAGAACCTA
Found at i:107707 original size:82 final size:82
Alignment explanation
Indices: 107569--107732 Score: 301
Period size: 82 Copynumber: 2.0 Consensus size: 82
107559 TAGATTCACT
*
107569 GTTTCGAGCATCATATGATCAATTCTGAGAACACCATCAATTCGGACCATGTTGAGATAACTATC
1 GTTTCGAGCATCATATGATCAATTCTGAGAACACCATCAATTCGGACCATGCTGAGATAACTATC
*
107634 TTTCTTGAGGGTAAGGA
66 TTTCTTGAGGGCAAGGA
*
107651 GTTTCGAGCATCATATGATCAATTCTGAGAACACCATCAATTTGGACCATGCTGAGATAACTATC
1 GTTTCGAGCATCATATGATCAATTCTGAGAACACCATCAATTCGGACCATGCTGAGATAACTATC
107716 TTTCTTGAGGGCAAGGA
66 TTTCTTGAGGGCAAGGA
107733 TAATCGAAAT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (82 bp):
GTTTCGAGCATCATATGATCAATTCTGAGAACACCATCAATTCGGACCATGCTGAGATAACTATC
TTTCTTGAGGGCAAGGA
Found at i:117402 original size:21 final size:21
Alignment explanation
Indices: 117378--117457 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
117368 TTTTATATAC
*
117378 GGTATCGATACATTTGTCATT
1 GGTATCGATACATGTGTCATT
**
117399 GGTATCGATACATGTGTCAAAA
1 GGTATCGATACATGTGTC-ATT
** *
117421 AATATCGATACATGTGTCAAAAT
1 GGTATCGATACATGTGTC--ATT
117444 -GTATCGATACATGT
1 GGTATCGATACATGT
117458 ACAAAAAGTT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
21 17 0.34
22 30 0.60
23 3 0.06
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (21 bp):
GGTATCGATACATGTGTCATT
Found at i:117464 original size:22 final size:22
Alignment explanation
Indices: 117400--117466 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 22
117390 TTTGTCATTG
117400 GTATCGATACATGTGTCAAAAA
1 GTATCGATACATGTGTCAAAAA
* *
117422 ATATCGATACATGTGTCAAAAT
1 GTATCGATACATGTGTCAAAAA
*
117444 GTATCGATACATGT-ACAAAAA
1 GTATCGATACATGTGTCAAAAA
117465 GT
1 GT
117467 TGTGATACTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 7 0.17
22 33 0.82
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (22 bp):
GTATCGATACATGTGTCAAAAA
Found at i:120520 original size:9 final size:9
Alignment explanation
Indices: 120506--120543 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
120496 ACTTGTTTGG
*
120506 ATCATCATC
1 ATCATCTTC
120515 ATCATCTTC
1 ATCATCTTC
*
120524 ATCTTCTTC
1 ATCATCTTC
120533 ATCATCTTC
1 ATCATCTTC
120542 AT
1 AT
120544 TGAGTGCTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.45
Consensus pattern (9 bp):
ATCATCTTC
Found at i:121755 original size:66 final size:66
Alignment explanation
Indices: 121665--121795 Score: 172
Period size: 66 Copynumber: 2.0 Consensus size: 66
121655 AACCACTCCT
* * *
121665 TCACCTTCGTAAGTTCACATCTCAATTCCACAACTTCCTTCACCACTCCATCAATTTTTTCACCC
1 TCACCATCGTAAGTTCACACCTCAACTCCACAACTTCCTTCACCACTCCATCAATTTTTTCACCC
121730 G
66 G
* * * ** * *
121731 TCACCATCTTAAGTTCACCCCTCAACTCCTCAACTTTTTTCACCACTCTATCTATTTTTTCACCC
1 TCACCATCGTAAGTTCACACCTCAACTCCACAACTTCCTTCACCACTCCATCAATTTTTTCACCC
121796 ACTTCCCCCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.23, C:0.38, G:0.03, T:0.36
Consensus pattern (66 bp):
TCACCATCGTAAGTTCACACCTCAACTCCACAACTTCCTTCACCACTCCATCAATTTTTTCACCC
G
Found at i:124515 original size:183 final size:182
Alignment explanation
Indices: 124262--124909 Score: 872
Period size: 183 Copynumber: 3.5 Consensus size: 182
124252 TTATCAAAGT
* ** * * * * * * *
124262 ATCGATACATTCAACATATATGGTAGTGCTTTACCGATTTTGTCATAATGAAACTGATTTTGTTA
1 ATCGATACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTATGAAACCGATTTTATCA
* *
124327 TATTTTTACTTTCTATATTGTTATGTATCGATACATTTTTATAAAGTATCGTTACTTTATAGGCG
66 TATTTTTACTGT-TATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCG
* * * *
124392 CTATTACTGCTATTCTTTTCAATTCCCAAAGTGTCGATACTTATTTAAATAGA
130 CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGA
* * * *
124445 ATCGATACTTTCAACATATCCGATAGCACTTTACTGGTTTTATCATTATGAAACCGGTTTTATCA
1 ATCGATACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTATGAAACCGATTTTATCA
* *
124510 TATTTTCACATGTTATATTGTTATGTATCGATACCTTTTTATAAAGTATCGATACTTTATAGGCG
66 TATTTTTAC-TGTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCG
*
124575 CTATTACTACTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGA
130 CTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGA
* * * *
124628 ATCGATACTTTTAACATAACCTATAG-GTCTTTACCGG--TTGTCATTATGAAACCGGTTTTATC
1 ATCGATACTTTCAACATATCCGATAGCG-CTTTACCGGTTTTGTCATTATGAAACCGATTTTATC
* *
124690 ATATTTTTACCTGTTATATTGTTATGTATCGATACATGTTTATAAAGTATCAATACTTTATAGGC
65 ATATTTTTA-CTGTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGC
* *
124755 TCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTCAATGGA
129 GCTATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGA
* * * *
124809 ATCGATACTTTCAACATATCCGGTAGCGCTTTACCGGTTTTGTCA-TATTAAACCCCATTTTCTC
1 ATCGATACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTATGAAA-CCGATTTTATC
* * *
124873 ATTTTTTTACCTGATATATTATTATGTATCGATACAT
65 ATATTTTTA-CTGTTATATTGTTATGTATCGATACAT
124910 ATCTTAATAA
Statistics
Matches: 411, Mismatches: 47, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
181 165 0.40
182 8 0.02
183 236 0.57
184 2 0.00
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (182 bp):
ATCGATACTTTCAACATATCCGATAGCGCTTTACCGGTTTTGTCATTATGAAACCGATTTTATCA
TATTTTTACTGTTATATTGTTATGTATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGC
TATTACTGCTTTTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGGA
Found at i:127951 original size:2 final size:2
Alignment explanation
Indices: 127944--127976 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
127934 AGGTAAATGA
127944 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
127977 GGTCAGATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:129392 original size:2 final size:2
Alignment explanation
Indices: 129385--129439 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
129375 ACACCGTATG
129385 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129427 T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
129440 AGAAAATAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:129609 original size:21 final size:21
Alignment explanation
Indices: 129583--129630 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
129573 GTTTCCAGAT
129583 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
* ** *
129604 TCGCAATGCGAATTTGGACTA
1 TCGCAACGCGAACATCGACTA
129625 TCGCAA
1 TCGCAA
129631 AGAATTTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:129637 original size:19 final size:20
Alignment explanation
Indices: 129599--129640 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
129589 CGCGAACATC
*
129599 GACTATCGCAATGCGAATTTG
1 GACTATCGCAA-GAGAATTTG
129620 GACTATCGCAA-AGAATTTG
1 GACTATCGCAAGAGAATTTG
129639 GA
1 GA
129641 AATTGATTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (20 bp):
GACTATCGCAAGAGAATTTG
Found at i:134233 original size:7 final size:6
Alignment explanation
Indices: 134223--134291 Score: 54
Period size: 6 Copynumber: 11.3 Consensus size: 6
134213 TAAAGTATAA
* *
134223 TATATTT TATATT TATA-A TATATTT TATATT TATA-A TATATTT TATATT
1 TATA-TT TATATT TATATT TATA-TT TATATT TATATT TATA-TT TATATT
*
134272 TATA-A TATATTT TATATT TA
1 TATATT TATA-TT TATATT TA
134292 AATATTTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
5 12 0.24
6 22 0.44
7 16 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (6 bp):
TATATT
Found at i:134239 original size:18 final size:18
Alignment explanation
Indices: 134218--134296 Score: 151
Period size: 18 Copynumber: 4.4 Consensus size: 18
134208 ATACATAAAG
134218 TATAATATATTTTATATT
1 TATAATATATTTTATATT
134236 TATAATATATTTTATATT
1 TATAATATATTTTATATT
134254 TATAATATATTTTATATT
1 TATAATATATTTTATATT
134272 TATAATATATTTTATATT
1 TATAATATATTTTATATT
134290 TA-AATAT
1 TATAATAT
134297 TTAAAATATT
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 5 0.08
18 56 0.92
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TATAATATATTTTATATT
Found at i:134246 original size:11 final size:11
Alignment explanation
Indices: 134230--134283 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
134220 TAATATATTT
134230 TATATTTATAA
1 TATATTTATAA
134241 TATA-TT-T--
1 TATATTTATAA
134248 TATATTTATAA
1 TATATTTATAA
134259 TATA-TT-T--
1 TATATTTATAA
134266 TATATTTATAA
1 TATATTTATAA
134277 TATATTT
1 TATATTT
134284 TATATTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 16
0.69 0.00 0.31
Matches are distributed among these distances:
7 8 0.23
8 4 0.11
9 4 0.11
10 4 0.11
11 15 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATATTTATAA
Found at i:134319 original size:26 final size:26
Alignment explanation
Indices: 134221--134310 Score: 74
Period size: 25 Copynumber: 3.4 Consensus size: 26
134211 CATAAAGTAT
*
134221 AATATATTTTATATTTATAATATATTTTA
1 AATATATTTTATA-TT-TAA-ATATTTAA
* * ** * *
134250 TATTTATAATATATTT-TATATTTAT
1 AATATATTTTATATTTAAATATTTAA
134275 AATATATTTTATATTTAAATATTTAA
1 AATATATTTTATATTTAAATATTTAA
*
134301 AATATTTTTT
1 AATATATTTT
134311 TTTATTAAAA
Statistics
Matches: 46, Mismatches: 14, Indels: 5
0.71 0.22 0.08
Matches are distributed among these distances:
25 18 0.39
26 16 0.35
27 1 0.02
28 2 0.04
29 9 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
AATATATTTTATATTTAAATATTTAA
Found at i:138254 original size:64 final size:64
Alignment explanation
Indices: 138186--138363 Score: 205
Period size: 64 Copynumber: 2.8 Consensus size: 64
138176 GAACACTTGA
* * * *
138186 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-G
1 TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAG
* ** * **
138250 TGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAG
1 TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAG
* * * *
138315 TGCATCGATGCATTGAGAGTGCATCGGTGCATGAAATGCATTTGATGTT
1 TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
138364 CAATTAATTC
Statistics
Matches: 95, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
64 50 0.53
65 45 0.47
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGCATCGATGCATCGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAG
Found at i:138337 original size:65 final size:65
Alignment explanation
Indices: 138204--138363 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
138194 TGCACCAAGT
* ***
138204 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGAGA
* ** *
138268 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATTGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATGGAG
138332 A
65 A
* *
138333 GTGCATCGGTGCATGAAATGCATTTGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
138364 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGGAGA
Found at i:138403 original size:65 final size:65
Alignment explanation
Indices: 138205--138412 Score: 198
Period size: 65 Copynumber: 3.2 Consensus size: 65
138195 GCACCAAGTG
* * ** *
138205 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
138268 G-
64 GA
* * * *
138269 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATTGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
138332 A
65 A
* *
138333 GTGCATCGGTGCATGAAATGCATTTGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
138395 CTGA
62 CTGA
138399 TGCATCGGTGCATG
1 TGCATCGGTGCATG
138413 CCTTTGAATA
Statistics
Matches: 122, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 50 0.41
65 59 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:145356 original size:64 final size:66
Alignment explanation
Indices: 145251--145414 Score: 199
Period size: 64 Copynumber: 2.5 Consensus size: 66
145241 TGGTGCACCA
* *
145251 AGTGTGCATCGATGCATGAAATGCATTCAATG-TTTGAAAAATAGCCTG-GTGCATCAATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGAGTGCATCAATGCATG
145314 G
66 G
** * ** * *
145315 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGAGTGCATCAATGCATG
145379 G
66 G
* *
145380 AGAGTGCATCGATGCATGGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCAT-GAAATGCATTCGATGTT
145415 CAATTAATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 36 0.43
65 32 0.39
66 15 0.18
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (66 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGAGTGCATCAATGCATG
G
Found at i:145410 original size:19 final size:19
Alignment explanation
Indices: 145365--145412 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
145355 ATATTCAGAG
*
145365 TGCATCGATGCATTGAGAG
1 TGCATCGATGCATTGAGAA
*
145384 TGCATCGATGCA-TGGGAA
1 TGCATCGATGCATTGAGAA
145402 TGCATTCGATG
1 TGCA-TCGATG
145413 TTCAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.27
Consensus pattern (19 bp):
TGCATCGATGCATTGAGAA
Found at i:148909 original size:35 final size:35
Alignment explanation
Indices: 148842--148909 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
148832 TACTCGAACC
* * *
148842 AAATATCTTTTAATATATAAATTTATATAGATAAT
1 AAATATATTTTAATATATAAATTTAAACAGATAAT
*
148877 AAATATATTTTAATTTA-AAATATTAAACAGATA
1 AAATATATTTTAATATATAAAT-TTAAACAGATA
148910 TACACTCCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 4 0.14
35 24 0.86
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (35 bp):
AAATATATTTTAATATATAAATTTAAACAGATAAT
Found at i:150217 original size:17 final size:17
Alignment explanation
Indices: 150191--150223 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
150181 CCGCCATGCA
*
150191 TGTTTTGAATGAACTGG
1 TGTTTGGAATGAACTGG
150208 TGTTTGGAATGAACTG
1 TGTTTGGAATGAACTG
150224 ATTAAATCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.30, T:0.39
Consensus pattern (17 bp):
TGTTTGGAATGAACTGG
Found at i:151242 original size:31 final size:30
Alignment explanation
Indices: 151195--151269 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
151185 AGAAGTAATC
*
151195 TTTTTGGTCAAGATAGATACATAAAGTGTT
1 TTTTTGGTCAAAATAGATACATAAAGTGTT
* **
151225 TTTTTGGGTCAAAATAGATACCTACTGTGTTT
1 TTTTT-GGTCAAAATAGATACATAAAGTG-TT
*
151257 TTTTTTGTCAAAA
1 TTTTTGGTCAAAA
151270 CAAATTCCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
30 5 0.13
31 26 0.68
32 7 0.18
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.44
Consensus pattern (30 bp):
TTTTTGGTCAAAATAGATACATAAAGTGTT
Found at i:152643 original size:21 final size:21
Alignment explanation
Indices: 152617--152661 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
152607 GATTTCTGGG
* *
152617 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
152638 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
152659 CAA
1 CAA
152662 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:153502 original size:31 final size:31
Alignment explanation
Indices: 153464--153588 Score: 198
Period size: 31 Copynumber: 4.0 Consensus size: 31
153454 AGGGTCGAGG
153464 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
153495 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
153526 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
153557 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
153588 G
1 G
153589 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
31 87 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:156767 original size:21 final size:21
Alignment explanation
Indices: 156741--156785 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
156731 GATTTCTGGG
* *
156741 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
156762 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
156783 CAA
1 CAA
156786 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:157671 original size:30 final size:31
Alignment explanation
Indices: 157586--157709 Score: 189
Period size: 31 Copynumber: 4.0 Consensus size: 31
157576 AGGGTCGAGG
157586 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
157617 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
157648 GTTTACCTATGTCCTTC-GGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
157678 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
157709 G
1 G
157710 GTCCTTCGGG
Statistics
Matches: 86, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
30 27 0.31
31 58 0.67
32 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:157684 original size:61 final size:62
Alignment explanation
Indices: 157586--157709 Score: 189
Period size: 61 Copynumber: 2.0 Consensus size: 62
157576 AGGGTCGAGG
* * * *
157586 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATGTTCTTCGGGA-CATATGGACT
1 GTTTACCTATGTCCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATC-TATGGACT
157648 GTTTACCTATGTCCTTC-GGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACT
1 GTTTACCTATGTCCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACT
157709 G
1 G
157710 GTCCTTCGGG
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
61 40 0.70
62 17 0.30
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (62 bp):
GTTTACCTATGTCCTTCGGGACATATGGACTGATTACCTAGGTTCTTCGGAATCTATGGACT
Found at i:159281 original size:34 final size:34
Alignment explanation
Indices: 159233--159301 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
159223 ATGAAAGAGT
*
159233 TAGATTCAACCCCTTAAAAAGGTCGTGGCATTTC
1 TAGATTCAACCCCTTAAAAAGGTCGTGACATTTC
* * *
159267 TAGATTCAATCCCTTACAGAGGTCGTGACATTTC
1 TAGATTCAACCCCTTAAAAAGGTCGTGACATTTC
159301 T
1 T
159302 GTGACCTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (34 bp):
TAGATTCAACCCCTTAAAAAGGTCGTGACATTTC
Found at i:162718 original size:18 final size:18
Alignment explanation
Indices: 162695--162746 Score: 104
Period size: 18 Copynumber: 2.9 Consensus size: 18
162685 GGGTCTACGC
162695 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
162713 GGTCCTTCGGGACATAGT
1 GGTCCTTCGGGACATAGT
162731 GGTCCTTCGGGACATA
1 GGTCCTTCGGGACATA
162747 TGTGTTATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.17, C:0.23, G:0.33, T:0.27
Consensus pattern (18 bp):
GGTCCTTCGGGACATAGT
Found at i:165002 original size:331 final size:332
Alignment explanation
Indices: 164393--165079 Score: 857
Period size: 331 Copynumber: 2.1 Consensus size: 332
164383 TTTCGGATAA
* ** * * * *
164393 GATAGAACACTATGAAATGACAAAGATTCTCTGAATAATAATGGAAAATGCTTGCCCTGGAACGC
1 GATAGAACACTATGACATGGTAGATATTCTCTGAATAATAATAGAAAATGCTTCCCCTGGAACGC
* * *
164458 ACCTTTCATTTCGGATAAGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAA
66 ACATTTCATTTCGGATAAGATAGAACACTATGACATGGCAGAGATTCTCTAAATAATAATAGAAA
* * * * *
164523 ATGTTTCCCCTAGGACGCGCATTTCATTTTATATGAGATGAAACACTATGATATGGAAAAGATTC
131 ACGTTTCCCCTAGAACGCGCATTTCATTTCAAATGAGATGAAACACTATGACATGGAAAAGATTC
* * * * *
164588 TTTGAATAATAACGGAAAATGCTTCCCCTAGGACGCGCATTTCATTTTAGATGAGATAAAAAACT
196 TCTGAATAATAACAGAAAACGCTTCCCCTAGAACGCGCATTTCATTTCAGATGAGATAAAAAACT
* * *
164653 ATGATATGGAAAAGATTCTTTGAATAATAACAGAAAAC-GCTTCCCCTGGAACGTACCTTTCATT
261 ATGACATGGAAAAGATTCTTTAAATAATAACAGAAAACAG-TTCCCCTGGAACGCACCTTTCATT
*
164717 TTAGATGG
325 TCAGATGG
164725 GAT-GAAACACTATGACATGGTAGATATTCTCTGAATAATAATAGAAAATGCTTCCCCTGGAACG
1 GATAG-AACACTATGACATGGTAGATATTCTCTGAATAATAATAGAAAATGCTTCCCCTGGAACG
* * ** * * *
164789 TACATTTCATTTTGGATGGGATATAACAC-ATGACATGGCAGATATTCTCTAAATAATAATATAA
65 CACATTTCATTTCGGATAAGATAGAACACTATGACATGGCAGAGATTCTCTAAATAATAATAGAA
* * * *
164853 AACGTTTCTCCTAGAATGCGTC-TTTCATTTCAAAT-AGGATGAAACACTATGACATGGCAGAGA
130 AACGTTTCCCCTAGAACGCG-CATTTCATTTCAAATGA-GATGAAACACTATGACATGGAAAAGA
* * * * *
164916 TTCTCTGAATAATAATAGAAAACGCTTCCCCTAGAACGCGCCTCTT-ATTTCGGATGGGATGAAA
193 TTCTCTGAATAATAACAGAAAACGCTTCCCCTAGAACGCGCAT-TTCATTTCAGATGAGATAAAA
* * ** *
164980 CACTATGACAT-GACAGAGATTCTTTAAATAATAATGGAAAACAGTTCCCCTGGAATGCACCTTT
257 AACTATGACATGGA-AAAGATTCTTTAAATAATAACAGAAAACAGTTCCCCTGGAACGCACCTTT
*
165044 CATTTCGGATGG
321 CATTTCAGATGG
165056 GATAGAACACTATGACATGGTAGA
1 GATAGAACACTATGACATGGTAGA
165080 GATTTTTTTA
Statistics
Matches: 302, Mismatches: 46, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
330 3 0.01
331 216 0.72
332 83 0.27
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (332 bp):
GATAGAACACTATGACATGGTAGATATTCTCTGAATAATAATAGAAAATGCTTCCCCTGGAACGC
ACATTTCATTTCGGATAAGATAGAACACTATGACATGGCAGAGATTCTCTAAATAATAATAGAAA
ACGTTTCCCCTAGAACGCGCATTTCATTTCAAATGAGATGAAACACTATGACATGGAAAAGATTC
TCTGAATAATAACAGAAAACGCTTCCCCTAGAACGCGCATTTCATTTCAGATGAGATAAAAAACT
ATGACATGGAAAAGATTCTTTAAATAATAACAGAAAACAGTTCCCCTGGAACGCACCTTTCATTT
CAGATGG
Found at i:165094 original size:83 final size:83
Alignment explanation
Indices: 164382--165083 Score: 657
Period size: 83 Copynumber: 8.5 Consensus size: 83
164372 TGTGCCTCTT
** * * * * *
164382 ATTTCGGATAAGATAGAACACTATGAAATGACAAAGATTCTCTGAATAATAATGGAAAATGCTTG
1 ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAATGCTTC
164447 CCCTGGAACGCACCTTTC
66 CCCTGGAACGCACCTTTC
** * *
164465 ATTTCGGATAAGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGGAAAATGTTTC
1 ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAATGCTTC
* *
164530 CCCTAGG-ACGCGCATTTC
66 CCCT-GGAACGCACCTTTC
*** * * * * * **
164548 ATTTTATATGAGAT-GAAACACTATGATATGGAAAAGATTCTTTGAATAATAACGGAAAATGCTT
1 ATTTCGGATGGGATAG-AACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAATGCTT
* *
164612 CCCCTAGG-ACGCGCATTTC
65 CCCCT-GGAACGCACCTTTC
** * * * * * * * * *
164631 ATTTTAGATGAGATAAAAAACTATGATATGGAAAAGATTCTTTGAATAATAACAGAAAACGCTTC
1 ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAATGCTTC
*
164696 CCCTGGAACGTACCTTTC
66 CCCTGGAACGCACCTTTC
** * *
164714 ATTTTAGATGGGAT-GAAACACTATGACATGGTAGATATTCTCTGAATAATAATAGAAAATGCTT
1 ATTTCGGATGGGATAG-AACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAATGCTT
* *
164778 CCCCTGGAACGTACATTTC
65 CCCCTGGAACGCACCTTTC
* * * * * * *
164797 ATTTTGGATGGGATATAACAC-ATGACATGGCAGATATTCTCTAAATAATAATATAAAACGTTTC
1 ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAATGCTTC
* * * **
164861 TCCTAGAATGCGTCTTTC
66 CCCTGGAACGCACCTTTC
** * *
164879 ATTTCAAATAGGAT-GAAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAACGCTT
1 ATTTCGGATGGGATAG-AACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAATGCTT
* *
164943 CCCCTAGAACGCGCCTCTT-
65 CCCCTGGAACGCACCT-TTC
* * * * *
164962 ATTTCGGATGGGAT-GAAACACTATGACATGACAGAGATTCTTTAAATAATAATGGAAAACAG-T
1 ATTTCGGATGGGATAG-AACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAA-TGCT
*
165025 TCCCCTGGAATGCACCTTTC
64 TCCCCTGGAACGCACCTTTC
*
165045 ATTTCGGATGGGATAGAACACTATGACATGGTAGAGATT
1 ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATT
165084 TTTTTAATAA
Statistics
Matches: 532, Mismatches: 75, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
82 69 0.13
83 457 0.86
84 6 0.01
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (83 bp):
ATTTCGGATGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATAGAAAATGCTTC
CCCTGGAACGCACCTTTC
Found at i:166123 original size:32 final size:32
Alignment explanation
Indices: 166077--166148 Score: 99
Period size: 32 Copynumber: 2.2 Consensus size: 32
166067 TCTTTCACAG
* * *
166077 ACCTTAAACAGTAAATAAAATCATACACATAC
1 ACCTAAAATAGTAAATAAAAGCATACACATAC
* *
166109 ACTTAAAATAGTAAATAAAAGCATATACATAC
1 ACCTAAAATAGTAAATAAAAGCATACACATAC
166141 ACCTAAAA
1 ACCTAAAA
166149 CAGACTTTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.56, C:0.18, G:0.04, T:0.22
Consensus pattern (32 bp):
ACCTAAAATAGTAAATAAAAGCATACACATAC
Found at i:169275 original size:15 final size:16
Alignment explanation
Indices: 169255--169284 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
169245 AATTAATTAC
169255 TTTAAT-AATAAAAAT
1 TTTAATGAATAAAAAT
169270 TTTAATGAATAAAAA
1 TTTAATGAATAAAAA
169285 ATAAATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
TTTAATGAATAAAAAT
Found at i:171806 original size:12 final size:13
Alignment explanation
Indices: 171768--171817 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
171758 ATAAAAGGAA
171768 AAAAATAAAGAAGAT
1 AAAAATAAA-AA-AT
*
171783 AAGAAT--AAAAT
1 AAAAATAAAAAAT
171794 -AAAATAAAAAAT
1 AAAAATAAAAAAT
171806 AAAAATAAAAAA
1 AAAAATAAAAAA
171818 GGAATATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
10 4 0.13
11 2 0.07
12 7 0.23
13 12 0.40
15 5 0.17
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:171961 original size:23 final size:22
Alignment explanation
Indices: 171900--171961 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
171890 TTAGGAGGAT
171900 TTTAAAATAT-AAATAAAAATA
1 TTTAAAATATAAAATAAAAATA
* * *
171921 TTAAATAAAAGAAAATAAAAATA
1 TTTAA-AATATAAAATAAAAATA
171944 TTTAAAATATAAATATAA
1 TTTAAAATATAAA-ATAA
171962 TGGACTTAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 4 0.12
22 9 0.28
23 19 0.59
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
TTTAAAATATAAAATAAAAATA
Found at i:173055 original size:4 final size:4
Alignment explanation
Indices: 173042--173070 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
173032 AATAAAACCC
173042 AAAT -AAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
173071 TATATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:173077 original size:2 final size:2
Alignment explanation
Indices: 173070--173123 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
173060 TAAATAAATA
173070 AT AT AT AT A- 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
173111 AT AT -T AT A- AT AT A
1 AT AT AT AT AT AT AT A
173124 GTTTGTAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.06
2 46 0.94
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:173081 original size:12 final size:12
Alignment explanation
Indices: 173043--173123 Score: 71
Period size: 12 Copynumber: 6.8 Consensus size: 12
173033 ATAAAACCCA
*
173043 AATAATAAATA-
1 AATAATATATAT
*
173054 AATAA-ATAAAT
1 AATAATATATAT
173065 AAATAATATATAT
1 -AATAATATATAT
173078 AAT-ATATATAT
1 AATAATATATAT
173089 -ATATATATATAT
1 AATA-ATATATAT
173101 ATATATATATATAT
1 A-ATA-ATATATAT
*
173115 TATAATATA
1 AATAATATA
173124 GTTTGTAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
10 5 0.08
11 13 0.22
12 21 0.36
13 8 0.14
14 12 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAATATATAT
Done.