Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006458.1 Hibiscus syriacus cultivar Beakdansim tig00015653_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: 70878
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Found at i:2960 original size:48 final size:48
Alignment explanation
Indices: 2868--2960 Score: 109
Period size: 48 Copynumber: 1.9 Consensus size: 48
2858 AAGTCAAACA
* * *
2868 AATTCAACAAAATAAAGTAAGTATTAAATGAGAAATAAAAAAAATTAC
1 AATTCAACAAAATAAAGTAAATATCAAATGAGAAAAAAAAAAAATTAC
* *
2916 AATTTAACAAAATAAAGTAAATA-CAAAT-ATAATAAAAAACAAAAT
1 AATTCAACAAAATAAAGTAAATATCAAATGAGAA-AAAAAA-AAAAT
2961 CTATCGATGC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
46 3 0.08
47 9 0.24
48 26 0.68
ACGTcount: A:0.66, C:0.06, G:0.05, T:0.23
Consensus pattern (48 bp):
AATTCAACAAAATAAAGTAAATATCAAATGAGAAAAAAAAAAAATTAC
Found at i:3080 original size:9 final size:9
Alignment explanation
Indices: 3068--3113 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
3058 TCATCATCAC
3068 CGTCATCGT
1 CGTCATCGT
3077 CGTCATCGT
1 CGTCATCGT
* *
3086 TGTCATCTT
1 CGTCATCGT
*
3095 CGTCGTCGT
1 CGTCATCGT
*
3104 CGTCGTCGT
1 CGTCATCGT
3113 C
1 C
3114 TTGCGCAGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.07, C:0.33, G:0.24, T:0.37
Consensus pattern (9 bp):
CGTCATCGT
Found at i:5248 original size:20 final size:19
Alignment explanation
Indices: 5220--5258 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
5210 CCTTAAAAAG
*
5220 AGAGTATTTGAGAGAAATTT
1 AGAGAATTTGAGA-AAATTT
5240 AGAGAATTTGAGAAAATTT
1 AGAGAATTTGAGAAAATTT
5259 GGTGTGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.44, C:0.00, G:0.23, T:0.33
Consensus pattern (19 bp):
AGAGAATTTGAGAAAATTT
Found at i:5474 original size:51 final size:50
Alignment explanation
Indices: 5370--5496 Score: 130
Period size: 51 Copynumber: 2.5 Consensus size: 50
5360 AGATATACAG
* * * **
5370 GTATAGCGCGCTGC-AGGGGCCGCGCTATACCCACGTGACGTCAGCTCACC
1 GTATAGCGCGGTGCAAGGGG-CGTGCTATACCCACGTGACGCCAAATCACC
** *
5420 GTATAGCGCGGTGCAAGGGGCGTGCTATACCCCACGTGGTGCCAAATCATC
1 GTATAGCGCGGTGCAAGGGGCGTGCTATA-CCCACGTGACGCCAAATCACC
* * *
5471 GTATAGCGTGGTGCAGGGGGCTTGCT
1 GTATAGCGCGGTGCAAGGGGCGTGCT
5497 TTACTGCTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
50 21 0.33
51 43 0.67
ACGTcount: A:0.18, C:0.28, G:0.34, T:0.20
Consensus pattern (50 bp):
GTATAGCGCGGTGCAAGGGGCGTGCTATACCCACGTGACGCCAAATCACC
Found at i:8083 original size:31 final size:31
Alignment explanation
Indices: 8020--8093 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 31
8010 GGGGCCTGCG
*
8020 AGCCTACCCAAGAAAATTCCCGGGGCCACAA
1 AGCCTACCCAAGAAAATTCCCAGGGCCACAA
* * *
8051 AGGCTTACCCAAGAAAA-TCTCAGGGCCGCAA
1 A-GCCTACCCAAGAAAATTCCCAGGGCCACAA
8082 AGCCTACCCAAG
1 AGCCTACCCAAG
8094 GCTCAACTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 10 0.27
31 13 0.35
32 14 0.38
ACGTcount: A:0.35, C:0.34, G:0.20, T:0.11
Consensus pattern (31 bp):
AGCCTACCCAAGAAAATTCCCAGGGCCACAA
Found at i:9148 original size:29 final size:29
Alignment explanation
Indices: 9116--9359 Score: 278
Period size: 29 Copynumber: 8.4 Consensus size: 29
9106 AATTAATTAT
*
9116 GAAACTAACACCCTTTTAAAAATATTTAC
1 GAAAATAACACCCTTTTAAAAATATTTAC
*
9145 GAAAATAACA-CCTATTAAAAATATTTAC
1 GAAAATAACACCCTTTTAAAAATATTTAC
* *
9173 GAAAATAACACCTTTTTTTAAAATATTTAC
1 GAAAATAACACC-CTTTTAAAAATATTTAC
* * *
9203 AAAAATAACACCCTTTTAGAAATATTAAC
1 GAAAATAACACCCTTTTAAAAATATTTAC
* *
9232 GAAAATTACACCCTTTTAGAAATATTTAC
1 GAAAATAACACCCTTTTAAAAATATTTAC
** *
9261 GAAAATAACACATTTTTAACAATATTTAC
1 GAAAATAACACCCTTTTAAAAATATTTAC
* * *
9290 GAAACTAACA-CCTTCTTAACAGTATTTAC
1 GAAAATAACACCCTT-TTAAAAATATTTAC
* *
9319 GGAACTAACACCCTTTCTAAAAATATTTAC
1 GAAAATAACACCCTTT-TAAAAATATTTAC
*
9349 -AAAATACCACC
1 GAAAATAACACC
9360 ATAACTGAAA
Statistics
Matches: 182, Mismatches: 28, Indels: 10
0.83 0.13 0.05
Matches are distributed among these distances:
28 29 0.16
29 113 0.62
30 40 0.22
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (29 bp):
GAAAATAACACCCTTTTAAAAATATTTAC
Found at i:9378 original size:59 final size:59
Alignment explanation
Indices: 9315--9464 Score: 137
Period size: 59 Copynumber: 2.5 Consensus size: 59
9305 TTAACAGTAT
9315 TTACGGAACTA-ACACCCTTTCTAAAAATATTTAC-AAAATACCACCATAAC-TGAAATTAA
1 TTAC-GAACTAGACACCCTTT-TAAAAATATTTACAAAAATACCACCATAACAT-AAATTAA
* * * ** * *
9374 TTACGTATTAGTCATTCTTTTAAAACTATTTACAAAAATAGCACCATAACATAAATTAA
1 TTACGAACTAGACACCCTTTTAAAAATATTTACAAAAATACCACCATAACATAAATTAA
* * * *
9433 TTAC-ATAATAGTCACTCTTTTAAAACTATTTA
1 TTACGA-ACTAGACACCCTTTTAAAAATATTTA
9465 TCAATAATCT
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
58 16 0.21
59 60 0.78
60 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (59 bp):
TTACGAACTAGACACCCTTTTAAAAATATTTACAAAAATACCACCATAACATAAATTAA
Found at i:9407 original size:58 final size:59
Alignment explanation
Indices: 9331--9464 Score: 191
Period size: 59 Copynumber: 2.3 Consensus size: 59
9321 AACTAACACC
* * * *
9331 CTTTCTAAAAATATTTAC-AAAATACCACCATAAC-TGAAATTAATTACGTATTAGTCATT
1 CTTT-TAAAACTATTTACAAAAATACCACCATAACAT-AAATTAATTACATAATAGTCACT
*
9390 CTTTTAAAACTATTTACAAAAATAGCACCATAACATAAATTAATTACATAATAGTCACT
1 CTTTTAAAACTATTTACAAAAATACCACCATAACATAAATTAATTACATAATAGTCACT
9449 CTTTTAAAACTATTTA
1 CTTTTAAAACTATTTA
9465 TCAATAATCT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
58 12 0.18
59 55 0.81
60 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (59 bp):
CTTTTAAAACTATTTACAAAAATACCACCATAACATAAATTAATTACATAATAGTCACT
Found at i:10099 original size:21 final size:21
Alignment explanation
Indices: 10048--10100 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
10038 ATTCTGACTA
10048 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
10069 TCGCGTTGCGATTTTCCTAA-T
1 TCGCAATGCGATTTTCC-AATT
10090 TCGCAATGCGA
1 TCGCAATGCGA
10101 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:10115 original size:20 final size:21
Alignment explanation
Indices: 10090--10141 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
10080 TTTTCCTAAT
*
10090 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
10110 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
10131 TCGCAATGCGA
1 TCGCAATGCGA
10142 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:10155 original size:20 final size:20
Alignment explanation
Indices: 10130--10264 Score: 137
Period size: 20 Copynumber: 6.7 Consensus size: 20
10120 AATTTGGAAA
*
10130 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
10150 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
**
10171 ATCGCAACGAAATACTGACT
1 ATCGCAACGCGATACTGACT
* *
10191 TTCACAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
10211 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
*
10231 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
10251 TTCGCAACGAGATA
1 ATCGCAACGCGATA
10265 ATACATAATC
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
19 2 0.02
20 80 0.82
21 13 0.13
22 2 0.02
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:10487 original size:22 final size:22
Alignment explanation
Indices: 10451--10494 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10441 CACTCTCTCA
*
10451 CCCATCTCCAACGAAATCCGTC
1 CCCATCTCCAACGAAAGCCGTC
**
10473 CCCATCTCCGGCGAAAGCCGTC
1 CCCATCTCCAACGAAAGCCGTC
10495 TATCTCCATC
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:0.23, C:0.45, G:0.16, T:0.16
Consensus pattern (22 bp):
CCCATCTCCAACGAAAGCCGTC
Found at i:10811 original size:20 final size:20
Alignment explanation
Indices: 10758--10815 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
10748 TTATTCTCTC
* **
10758 GTTGCGATATTCAAATTCGT
1 GTTGCGATTTTCATTTTCGT
*
10778 GTTGCGATTGTCATTTTCGT
1 GTTGCGATTTTCATTTTCGT
10798 GTTGCGATTTTCATTTTC
1 GTTGCGATTTTCATTTTC
10816 AGAAACTATT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.16, C:0.16, G:0.21, T:0.48
Consensus pattern (20 bp):
GTTGCGATTTTCATTTTCGT
Found at i:12153 original size:18 final size:18
Alignment explanation
Indices: 12132--12179 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
12122 TCCACTTCGG
12132 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
12150 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
12168 GAGCCATCACCT
1 GAGCCATCACCT
12180 GATCAACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:12774 original size:19 final size:20
Alignment explanation
Indices: 12720--12786 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
12710 TAGTTTACTT
* *
12720 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
12740 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
12760 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
12779 TCGCAACG
1 TCGCAACG
12787 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:12853 original size:14 final size:14
Alignment explanation
Indices: 12834--12892 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
12824 TTGTGTTTCG
12834 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
12848 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
12865 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
12881 CGTTGTGATTTT
1 CGTTGCGATTTT
12893 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 17 0.46
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.10, C:0.15, G:0.24, T:0.51
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:12866 original size:33 final size:33
Alignment explanation
Indices: 12829--12908 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
12819 GCGATTTGTG
*
12829 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
*
12862 TTTCGCATTGCGATTTTGTCGTTGTGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
12895 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
12909 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.11, C:0.17, G:0.23, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:12874 original size:19 final size:19
Alignment explanation
Indices: 12850--12908 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
12840 GATTTTGTCG
12850 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
12869 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
*
12883 TTGTGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
12902 TTGCGAT
1 TTGCGAT
12909 AGCCATTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
15 3 0.10
16 4 0.13
17 4 0.13
18 3 0.10
19 12 0.39
ACGTcount: A:0.14, C:0.17, G:0.20, T:0.49
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:12927 original size:20 final size:19
Alignment explanation
Indices: 12893--12947 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
12883 TTGTGATTTT
*
12893 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
12912 CATTTCCGCGTTGCGATAGC
1 CATTT-CGCGTTGCGATAGC
*
12932 CATTTTTGCGTTGCGA
1 CA-TTTCGCGTTGCGA
12948 AAGTAAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:13367 original size:21 final size:20
Alignment explanation
Indices: 13315--13375 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
13305 GACTCACCTG
13315 TCATCCCTCAAGAGTCCCCT
1 TCATCCCTCAAGAGTCCCCT
* ** *
13335 CCAATCGTTCAAGAGGCCCCT
1 TC-ATCCCTCAAGAGTCCCCT
13356 ATCATCCCTCAAGAGTCCCC
1 -TCATCCCTCAAGAGTCCCC
13376 CCCACCGTTC
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.23, C:0.43, G:0.13, T:0.21
Consensus pattern (20 bp):
TCATCCCTCAAGAGTCCCCT
Found at i:13402 original size:41 final size:42
Alignment explanation
Indices: 13312--13402 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
13302 CCCGACTCAC
* *
13312 CTGTCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* * *
13354 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCGAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
13395 CTGTCATC
1 CTGTCATC
13403 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 22 0.51
42 21 0.49
ACGTcount: A:0.21, C:0.42, G:0.16, T:0.21
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:14843 original size:14 final size:14
Alignment explanation
Indices: 14809--14847 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14799 TTGATTATTT
14809 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
14823 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
14837 TGTTGATTTGT
1 AATTGATTTGT
14848 TTAATTGATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:15011 original size:19 final size:19
Alignment explanation
Indices: 14987--15089 Score: 144
Period size: 19 Copynumber: 5.7 Consensus size: 19
14977 GCAACGAGAG
*
14987 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
15006 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
15025 AATCACAATGCAAAATGAA
1 AATCGCAATGCGAAATGAA
15044 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
15063 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
15077 AATCGCAATGCGA
1 AATCGCAATGCGA
15090 TTTTCATTTC
Statistics
Matches: 76, Mismatches: 5, Indels: 8
0.85 0.06 0.09
Matches are distributed among these distances:
14 11 0.14
15 1 0.01
16 2 0.03
17 2 0.03
19 60 0.79
ACGTcount: A:0.49, C:0.18, G:0.19, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:15133 original size:20 final size:20
Alignment explanation
Indices: 15108--15203 Score: 174
Period size: 20 Copynumber: 4.8 Consensus size: 20
15098 TCGCATTGCG
*
15108 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
15128 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
15148 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
15168 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
15188 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
15204 TTCCCCGTTG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 74 1.00
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:15775 original size:20 final size:20
Alignment explanation
Indices: 15754--15858 Score: 147
Period size: 20 Copynumber: 5.2 Consensus size: 20
15744 TGTATTATCT
* *
15754 CGTTGCGATAGTCAGAATCT
1 CGTTGCGAAAGTCAGAATCG
*
15774 CGTTACGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
*
15794 TGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
* *
15814 CGTTGCGAAAGTTAGTATCG
1 CGTTGCGAAAGTCAGAATCG
*
15834 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGAATCG
15854 CGTTG
1 CGTTG
15859 TGATTTTGTA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:15888 original size:41 final size:41
Alignment explanation
Indices: 15729--15906 Score: 128
Period size: 40 Copynumber: 4.4 Consensus size: 41
15719 AACTTTGAAA
* * * *
15729 ATCGCATTGCGATTCTGTATTATCTCGTTGCGATAGTCAGA
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* * * ** ** * *
15770 ATCTCGTTACGA--AAGTCAGAATCGTGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTGT-ATTATCGCGTTGCGAAAGTCAGT
* *** *
15810 ATCGCGTTGCGAAAGT-TAGTATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
* * * *
15850 ATCGCGTTGTGATTTTGTATTATCGCTTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
15891 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
15907 CCAAATTCGC
Statistics
Matches: 107, Mismatches: 26, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
39 2 0.02
40 60 0.56
41 45 0.42
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATCGCGTTGCGAAAGTCAGT
Found at i:15922 original size:41 final size:41
Alignment explanation
Indices: 15829--15924 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
15819 CGAAAGTTAG
* * * * ** *
15829 TATCGCGTTGCGAAAGTCAGTATCGCGTTGTGATTTTGTAT
1 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCAAA
*
15870 TATCGCTTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAA
1 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT-CAAA
15912 T-TCGCATTGCGAT
1 TATCGCATTGCGAT
15925 TTACTTATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.38
Consensus pattern (41 bp):
TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCAAA
Found at i:15936 original size:20 final size:21
Alignment explanation
Indices: 15892--15943 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
15882 ATAGTCAGTA
*
15892 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
15913 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
15933 TCGCATTGCGA
1 TCGCATTGCGA
15944 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:15985 original size:21 final size:22
Alignment explanation
Indices: 15933--15985 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
15923 ATTTACTTAT
15933 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
15954 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
15975 TCGCATTGCGA
1 TCGCATTGCGA
15986 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:17788 original size:165 final size:164
Alignment explanation
Indices: 17476--18222 Score: 699
Period size: 165 Copynumber: 4.5 Consensus size: 164
17466 ACTCAACAAA
* * * *
17476 TTTATTGACAGATAACCCTTCTTGCCTTGAGCTATGCTGTAAATCTGAT-T-CGCCTCTG-AGCA
1 TTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA--TGATGTGC-CCTC-GAAGCT
* * * * *
17538 GAGTGTAATCGAACTCGAAGGTCTTTGGTTAGCAGAAAGCCCTTATCGACTTAAGCTATACTGCA
62 GAGTGTAATCAAACTCGAGGGTC-TT--TT-CCAGATAGCCCTTTTCGACTTAAGCTATACTGCA
* * ** *
17603 AATGATGTGCCTTTGAGCTGAGCGTAGTCGTACTAAAAGGTC
123 AATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTC
*
17645 TTTTAGTGACAGATAACCATTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC-ATAGCTGA
1 -TTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGA-AGCTGA
* *
17709 GTGTAATCAAACTCGAGGGTCTTTTCCAGATAGCCCTTTTCGACTTAAGCTATGCTGTAAATGAT
64 GTGTAATCAAACTCGAGGGTCTTTTCCAGATAGCCCTTTTCGACTTAAGCTATACTGCAAATGAT
* *
17774 ATGCCTTGGAGCTGAGCGTAGTTAAACTCGAAGGTC
129 ATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTC
* * * * * * ** *
17810 TTTGGTTGGCAGATAACTCTTCTCGACTTAAGTTATGCTACAAATGATGTGCCCTCGAAGCTTAG
1 TTTAG-TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAG
* * ** * * *
17875 TGTAAT-ATAACTTGAGGGTATTTGGCAGATAACCCTTTTCGACTTAAACTATGCTGCAAATGAT
65 TGTAATCA-AACTCGAGGGTCTTTTCCAGATAGCCCTTTTCGACTTAAGCTATACTGCAAATGAT
* *
17939 GTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC
129 ATGCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTC
* *
17975 TTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT
1 TTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT
** * * * * * * **
18040 GTAATTTAACTTGAGGGT-TTTTCGCATATATCCCTTCTAG-CATTGAGCTATACCACAAATGAT
66 GTAATCAAACTCGAGGGTCTTTTC-CAGATAGCCCTTTTCGAC-TTAAGCTATACTGCAAATGAT
* * *
18103 ATGCCATT-GAGCTGAGTGTAATCGAACTCAAAGGTC
129 ATGCC-TTGGAGCTGAGCGTAGTCAAACTCAAAGGTC
* * * * * * * * * *
18139 TTT-G-GA-AGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGTTGTGCCTTGGAA-CTGAGC
1 TTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT
* *
18200 GTAGTCAAACTCGAAGGTCTTTT
66 GTAATCAAACTCGAGGGTCTTTT
18223 GGTGATAGAT
Statistics
Matches: 485, Mismatches: 80, Indels: 33
0.81 0.13 0.06
Matches are distributed among these distances:
160 18 0.04
161 43 0.09
162 2 0.00
163 5 0.01
164 131 0.27
165 208 0.43
166 3 0.01
168 6 0.01
169 29 0.06
170 40 0.08
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (164 bp):
TTTAGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGT
GTAATCAAACTCGAGGGTCTTTTCCAGATAGCCCTTTTCGACTTAAGCTATACTGCAAATGATAT
GCCTTGGAGCTGAGCGTAGTCAAACTCAAAGGTC
Found at i:18100 original size:245 final size:245
Alignment explanation
Indices: 17849--18321 Score: 696
Period size: 245 Copynumber: 1.9 Consensus size: 245
17839 AAGTTATGCT
* * * * ** * * *
17849 ACAAATGATGTGCCCTCGAAGCTTAGTGTAATATAACTTGAGGGTATTTGGCAGATAACCCTTTT
1 ACAAATGATATGCCATCG-AGCTGAGTGTAATAGAACTCAAAGGTATTTGGAAGATAACCCTTCT
*
17914 CGACTTAAACTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTC-TTT
65 CGACTTAAACTATGCTGCAAATGATGTGCCTTGGAACTGAGCGTAGTCAAACTCGAAGGTCTTTT
17978 GGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTA
130 GGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTA
** * * * *
18043 ATTTAACTTGAGGGTTTTTCGCATATATCCCTTCTAGCATTGAGCTATACC
195 ATCGAACTCGAGGGTATTTCGCAGATAGCCCTTCTAGCATTGAGCTATACC
* * * *
18094 ACAAATGATATGCCATTGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGGAAGATAGCCCTTCTC
1 ACAAATGATATGCCATCGAGCTGAGTGTAATAGAACTCAAAGGTATTTGGAAGATAACCCTTCTC
* *
18159 GACTTAAGCTATGCTGCAAATGTTGTGCCTTGGAACTGAGCGTAGTCAAACTCGAAGGTCTTTTG
66 GACTTAAACTATGCTGCAAATGATGTGCCTTGGAACTGAGCGTAGTCAAACTCGAAGGTCTTTTG
* * *
18224 GTGATAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
131 GTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
*
18289 TCGAACTCGAGGGTATTTGGCAGATAGCCCTTC
196 TCGAACTCGAGGGTATTTCGCAGATAGCCCTTC
18322 CCGACTTAAG
Statistics
Matches: 201, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
244 94 0.47
245 107 0.53
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (245 bp):
ACAAATGATATGCCATCGAGCTGAGTGTAATAGAACTCAAAGGTATTTGGAAGATAACCCTTCTC
GACTTAAACTATGCTGCAAATGATGTGCCTTGGAACTGAGCGTAGTCAAACTCGAAGGTCTTTTG
GTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAA
TCGAACTCGAGGGTATTTCGCAGATAGCCCTTCTAGCATTGAGCTATACC
Found at i:18283 original size:329 final size:327
Alignment explanation
Indices: 17585--18308 Score: 764
Period size: 329 Copynumber: 2.2 Consensus size: 327
17575 AGCCCTTATC
* * * * ** *
17585 GACTTAAGCTATACTGCAAATGATGTGCCTTTGAGCTGAGCGTAGTCGTACTAAAAGGTCTTTTA
1 GACTTAAACTATGCTGCAAATGATGTGCCCTTGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTG
*
17650 GTGACAGATAACCATTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCATAGCTGAGTGTAA
65 GTGACAGATAACCATTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCATAGCTGAGTGTAA
* * * ***
17715 TCAAACTCGAGGGTCTTTTCCAGATAGCCCTTTTCGACTTAAGCTATGCTGTAAATGATATGCCT
130 TCAAACTCGAGGGTCTTTTCCAGATAGCCCTTCTAGACTTAAGCTATACCACAAATGATATGCCT
* * * * * *
17780 TGGAGCTGAGCGTAGTTAAACTCGAAGGTCTTTGGTTGGCAGATAACTCTTCTCGACTTAAGTTA
195 TGGAGCTGAGCGTAATCAAACTCAAAGGTC-TT-GTTGGAAGATAACCCTTCTCGACTTAAGCTA
* * * *
17845 TGCTACAAATGATGTGCCCTCGAAGCTTAGTGTAATATAACTTGAGGGTATTTGGCAGATAACCC
258 TGCTACAAATGATGTGCCCTCGAAGCTGAGCGTAATATAACTCGAAGGTATTTGGCAGATAACCC
* *
17910 TTTTC
323 TTCTA
*
17915 GACTTAAACTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTG
1 GACTTAAACTATGCTGCAAATGATGTGCCCTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
*
17979 GTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGA-AGCTGAGTGTA
65 GTGACAGATAACCATTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTC-ATAGCTGAGTGTA
** * * * *
18043 ATTTAACTTGAGGGT-TTTTCGCATATATCCCTTCTAG-CATTGAGCTATACCACAAATGATATG
129 ATCAAACTCGAGGGTCTTTTC-CAGATAGCCCTTCTAGAC-TTAAGCTATACCACAAATGATATG
* * *
18106 CCATT-GAGCTGAGTGTAATCGAACTCAAAGGTC-T-TTGGAAGATAGCCCTTCTCGACTTAAGC
192 CC-TTGGAGCTGAGCGTAATCAAACTCAAAGGTCTTGTTGGAAGATAACCCTTCTCGACTTAAGC
* * * * * * *
18168 TATGCTGCAAATGTTGTGCCTTGGAA-CTGAGCGTAGTCA-AACTCGAAGGTCTTTTGGTGATAG
256 TATGCTACAAATGATGTGCCCTCGAAGCTGAGCGTAAT-ATAACTCGAAGGT-ATTT-G-G-CAG
18231 ATAACCCTTCTA
316 ATAACCCTTCTA
* * ** * * * * * * *
18243 GCCTTGAGTTATGTTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTATTTG
1 GACTTAAACTATGCTGCAAATGATGTGCCCTTG-AGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
18308 G
65 G
18309 CAGATAGCCC
Statistics
Matches: 326, Mismatches: 56, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
324 17 0.05
325 50 0.15
326 1 0.00
327 2 0.01
328 40 0.12
329 164 0.50
330 52 0.16
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (327 bp):
GACTTAAACTATGCTGCAAATGATGTGCCCTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
TGACAGATAACCATTATAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCATAGCTGAGTGTAAT
CAAACTCGAGGGTCTTTTCCAGATAGCCCTTCTAGACTTAAGCTATACCACAAATGATATGCCTT
GGAGCTGAGCGTAATCAAACTCAAAGGTCTTGTTGGAAGATAACCCTTCTCGACTTAAGCTATGC
TACAAATGATGTGCCCTCGAAGCTGAGCGTAATATAACTCGAAGGTATTTGGCAGATAACCCTTC
TA
Found at i:19251 original size:19 final size:19
Alignment explanation
Indices: 19227--19278 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
19217 AAAATCCTCA
19227 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
19246 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
19265 GTGCATCGATGCAT
1 GTGCATCGATGCAT
19279 AAAATGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:19252 original size:57 final size:56
Alignment explanation
Indices: 19134--19242 Score: 139
Period size: 57 Copynumber: 1.9 Consensus size: 56
19124 AGTGCATCGA
* *
19134 TGCATCAAGTGCATTCAATGTTTCAAAATAGCCAGAGTGCATCGATGAATGGCTGG
1 TGCATCAAATGCATTCAATGTTTCAAAATAGCCACAGTGCATCGATGAATGGCTGG
* * * *
19190 TGCATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGATGCATGG
1 TGCATCAAATGCATTCAATG-TTTCA-AAATAGCCACAGTGCATCGATGAATGG
19243 TATGTGCATC
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 18 0.40
57 24 0.53
58 3 0.07
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.29
Consensus pattern (56 bp):
TGCATCAAATGCATTCAATGTTTCAAAATAGCCACAGTGCATCGATGAATGGCTGG
Found at i:19816 original size:2 final size:2
Alignment explanation
Indices: 19809--19873 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
19799 AATTGATTAA
19809 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19851 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
19874 GCTTAAGCCG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22063 original size:23 final size:22
Alignment explanation
Indices: 22036--22115 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
22026 GCATGACCCT
22036 GTGCATCAATGCACATTCAAGG
1 GTGCATCAATGCACATTCAAGG
* * *
22058 CGTGCATCAGTGCACCTTC-ATG
1 -GTGCATCAATGCACATTCAAGG
* *
22080 GTGTATCGATGCACATTCAAGG
1 GTGCATCAATGCACATTCAAGG
* *
22102 ATGCATCGATGCAC
1 GTGCATCAATGCAC
22116 TGTTAGGTGT
Statistics
Matches: 46, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 14 0.30
22 16 0.35
23 16 0.35
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (22 bp):
GTGCATCAATGCACATTCAAGG
Found at i:22093 original size:44 final size:42
Alignment explanation
Indices: 22012--22134 Score: 117
Period size: 43 Copynumber: 2.9 Consensus size: 42
22002 CCAAAACCCA
* ** * *
22012 AAGGATGCATCGATGCA-TGACCCTGTGCATCAATGCACATTC
1 AAGGATGCATCGATGCACTG-TCAGGTGTATCGATGCACATTC
*
22054 AAGGCGTGCATC-AGTGCACCT-TCATGGTGTATCGATGCACATTC
1 AAGG-ATGCATCGA-TGCA-CTGTCA-GGTGTATCGATGCACATTC
*
22098 AAGGATGCATCGATGCACTGTTAGGTGTATCGATGCA
1 AAGGATGCATCGATGCACTGTCAGGTGTATCGATGCA
22135 TGAAGCACAA
Statistics
Matches: 66, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
42 21 0.32
43 23 0.35
44 21 0.32
45 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (42 bp):
AAGGATGCATCGATGCACTGTCAGGTGTATCGATGCACATTC
Found at i:22098 original size:21 final size:19
Alignment explanation
Indices: 22068--22134 Score: 62
Period size: 22 Copynumber: 3.2 Consensus size: 19
22058 CGTGCATCAG
22068 TGCACCTTCATGGTGTATCGA
1 TGCA-CTTCA-GGTGTATCGA
*
22089 TGCACATTCAAGGATGCATCGA
1 TGCAC-TTC-AGG-TGTATCGA
*
22111 TGCACTGTTAGGTGTATCGA
1 TGCACT-TCAGGTGTATCGA
22131 TGCA
1 TGCA
22135 TGAAGCACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 12 0.31
21 13 0.33
22 14 0.36
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (19 bp):
TGCACTTCAGGTGTATCGA
Found at i:22131 original size:20 final size:21
Alignment explanation
Indices: 22044--22134 Score: 71
Period size: 21 Copynumber: 4.2 Consensus size: 21
22034 CTGTGCATCA
*
22044 ATGCACATTCAAGGCGTGCATC-
1 ATGCACATTCAA-G-GTGTATCG
* *
22066 AGTGCACCTTCATGGTGTATCG
1 A-TGCACATTCAAGGTGTATCG
*
22088 ATGCACATTCAAGGATGCATCG
1 ATGCACATTCAAGG-TGTATCG
*
22110 ATGCAC-TGT-TAGGTGTATCG
1 ATGCACAT-TCAAGGTGTATCG
22130 ATGCA
1 ATGCA
22135 TGAAGCACAA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
20 11 0.19
21 21 0.37
22 16 0.28
23 9 0.16
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (21 bp):
ATGCACATTCAAGGTGTATCG
Found at i:22134 original size:42 final size:44
Alignment explanation
Indices: 22044--22134 Score: 118
Period size: 42 Copynumber: 2.1 Consensus size: 44
22034 CTGTGCATCA
*
22044 ATGCACATTCAAGGCGTGCATCAGTGCACCTTCATGGTGTATCG
1 ATGCACATTCAAGGCATGCATCAGTGCACCTTCATGGTGTATCG
*
22088 ATGCACATTCAAGG-ATGCATC-GATGCA-CTGTTA-GGTGTATCG
1 ATGCACATTCAAGGCATGCATCAG-TGCACCT-TCATGGTGTATCG
22130 ATGCA
1 ATGCA
22135 TGAAGCACAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
42 17 0.40
43 12 0.28
44 14 0.33
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (44 bp):
ATGCACATTCAAGGCATGCATCAGTGCACCTTCATGGTGTATCG
Found at i:26372 original size:21 final size:21
Alignment explanation
Indices: 26348--26388 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
26338 GTCATTGCAG
*
26348 CCTTCATGCATGGATGCACAA
1 CCTTCATGCATCGATGCACAA
*
26369 CCTTGATGCATCGATGCACA
1 CCTTCATGCATCGATGCACA
26389 GAAGGATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
CCTTCATGCATCGATGCACAA
Found at i:26398 original size:20 final size:20
Alignment explanation
Indices: 26373--26427 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
26363 GCACAACCTT
*
26373 GATGCATCGATGCACAGAAG
1 GATGCATCGATGCACAAAAG
*
26393 GATGCATCGATGCACAAAAT
1 GATGCATCGATGCACAAAAG
*
26413 GATACATCGATGCAC
1 GATGCATCGATGCAC
26428 TAATTGCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (20 bp):
GATGCATCGATGCACAAAAG
Found at i:26626 original size:29 final size:29
Alignment explanation
Indices: 26605--26662 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
26595 AAACTTTGAA
26605 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
*
26634 TAAATTCAATTCAAGTTCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
26663 TTCCTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 13 0.50
31 2 0.08
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:26657 original size:30 final size:30
Alignment explanation
Indices: 26605--26663 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
26595 AAACTTTGAA
26605 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
*
26634 TAAATTCAATTCAAGTTCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
26664 TCCTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 11 0.41
30 10 0.37
31 6 0.22
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:26847 original size:84 final size:84
Alignment explanation
Indices: 26697--26899 Score: 271
Period size: 84 Copynumber: 2.4 Consensus size: 84
26687 ATAGTTCAAC
* * *
26697 ACCCTTCTTGACTTAAGTTATACTGCAAATGATATGCCTTGGAGATGAGCGTAGTCAAACTTGAA
1 ACCCTTCTTGACTTAAGTTATACTGCAAATGTTGTGCCTTGGAGATGAGCGTAGTCAAACTCGAA
* *
26762 GGTCTTTGGATGGCAGATA
66 GGTCTTTAGATGGCAAATA
* * * * *
26781 GCCCTTCTTGATTTAAGCTATACTGCAAATGTTGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAA
1 ACCCTTCTTGACTTAAGTTATACTGCAAATGTTGTGCCTTGGAGATGAGCGTAGTCAAACTCGAA
*
26846 GGTCTTTAGTTGGCAAATA
66 GGTCTTTAGATGGCAAATA
* * * *
26865 ACCCTTCTAGCCTTGAGTTATGCTGCAAATGTTGT
1 ACCCTTCTTGACTTAAGTTATACTGCAAATGTTGT
26900 CTTTAAAATA
Statistics
Matches: 101, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 101 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (84 bp):
ACCCTTCTTGACTTAAGTTATACTGCAAATGTTGTGCCTTGGAGATGAGCGTAGTCAAACTCGAA
GGTCTTTAGATGGCAAATA
Found at i:28242 original size:95 final size:94
Alignment explanation
Indices: 28075--28272 Score: 292
Period size: 95 Copynumber: 2.1 Consensus size: 94
28065 GGACAACTTA
** * *
28075 ATATATAAACACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGTCAGGGAGTTTAACCAATTG
1 ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGTCAGGGAGTTTAACCAATTG
*
28140 CCTTAGAGGGACAGCTCAAGCTTTATTGT
66 CCTTAGAGGGACAACTCAAGCTTTATTGT
* *
28169 ATAGTATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAG-CTGAGGCGTTTAACCAAT
1 ATA-TATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGTCAG-GGAGTTTAACCAAT
28233 TG-CTCTAGAGGGACAACTCAAGCTTTATTGT
64 TGCCT-TAGAGGGACAACTCAAGCTTTATTGT
28264 ATATATAAT
1 ATATATAAT
28273 ATTATAATAT
Statistics
Matches: 94, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
94 13 0.14
95 81 0.86
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (94 bp):
ATATATAATTACCTTTATCAGGCTAGCTGAATATTATCCATAAAGTCAGGGAGTTTAACCAATTG
CCTTAGAGGGACAACTCAAGCTTTATTGT
Found at i:30690 original size:24 final size:24
Alignment explanation
Indices: 30658--30711 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
30648 GACGAAAATT
30658 AGTGTCCACAGGGGTATTATTTTA
1 AGTGTCCACAGGGGTATTATTTTA
*
30682 AGTGTCCACAGGGGTGTTATTTTA
1 AGTGTCCACAGGGGTATTATTTTA
30706 AGTGTC
1 AGTGTC
30712 AGCCACCATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.22, C:0.13, G:0.28, T:0.37
Consensus pattern (24 bp):
AGTGTCCACAGGGGTATTATTTTA
Found at i:31214 original size:64 final size:64
Alignment explanation
Indices: 31141--31275 Score: 261
Period size: 64 Copynumber: 2.1 Consensus size: 64
31131 TTAACCCCTG
*
31141 ATGATTTGCTTATGATTTTATTTAGTTCTTATTTTAATTCATTGATTCTTTTAATTTGGTCCCC
1 ATGATTTGCTTATGATTTTATTTAGTTATTATTTTAATTCATTGATTCTTTTAATTTGGTCCCC
31205 ATGATTTGCTTATGATTTTATTTAGTTATTATTTTAATTCATTGATTCTTTTAATTTGGTCCCC
1 ATGATTTGCTTATGATTTTATTTAGTTATTATTTTAATTCATTGATTCTTTTAATTTGGTCCCC
31269 ATGATTT
1 ATGATTT
31276 ATGATATTCT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
64 70 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.56
Consensus pattern (64 bp):
ATGATTTGCTTATGATTTTATTTAGTTATTATTTTAATTCATTGATTCTTTTAATTTGGTCCCC
Found at i:31676 original size:18 final size:18
Alignment explanation
Indices: 31655--31715 Score: 122
Period size: 18 Copynumber: 3.4 Consensus size: 18
31645 ATATCTCATG
31655 ATATATTAAGTCAATTAA
1 ATATATTAAGTCAATTAA
31673 ATATATTAAGTCAATTAA
1 ATATATTAAGTCAATTAA
31691 ATATATTAAGTCAATTAA
1 ATATATTAAGTCAATTAA
31709 ATATATT
1 ATATATT
31716 TATTCCACTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 43 1.00
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (18 bp):
ATATATTAAGTCAATTAA
Found at i:42597 original size:20 final size:20
Alignment explanation
Indices: 42572--42614 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
42562 TTTTAAGGCA
42572 CATTTAGGACCATATAGATG
1 CATTTAGGACCATATAGATG
* * *
42592 CATTTAGGATCATGTAGTTG
1 CATTTAGGACCATATAGATG
42612 CAT
1 CAT
42615 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:52686 original size:27 final size:27
Alignment explanation
Indices: 52648--52701 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
52638 AGTTAGTCCC
52648 TAGTTTTCTTAGGGTTTTCAAAATAGG
1 TAGTTTTCTTAGGGTTTTCAAAATAGG
52675 TAGTTTTCTTAGGGTTTTCAAAATAGG
1 TAGTTTTCTTAGGGTTTTCAAAATAGG
52702 CTCTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.22, T:0.44
Consensus pattern (27 bp):
TAGTTTTCTTAGGGTTTTCAAAATAGG
Found at i:53823 original size:21 final size:21
Alignment explanation
Indices: 53799--53852 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
53789 CATTTGGAGT
*
53799 AAGGGACCAATCCTTCGTATG
1 AAGGGATCAATCCTTCGTATG
53820 AAGGGATCAATCCTTCGTATG
1 AAGGGATCAATCCTTCGTATG
53841 AAGGGATCAATC
1 AAGGGATCAATC
53853 TTTTCCCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (21 bp):
AAGGGATCAATCCTTCGTATG
Found at i:57221 original size:221 final size:221
Alignment explanation
Indices: 56783--60757 Score: 7450
Period size: 221 Copynumber: 18.0 Consensus size: 221
56773 TTTCGAACCT
* *
56783 TCGAATACCTGGAAAGCTTAGGCAAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
*
56848 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAAACCAATTTTAGTGT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATC-AAAAACCAATTTTAGGGT
*
56913 TGAACCAAAATAAAACGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCG
130 TGAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCG
56978 TTAGCAGAATACTCATTTCCTACCTCG
195 TTAGCAGAATACTCATTTCCTACCTCG
*
57005 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTAATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
* *
57070 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTAATTAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
57135 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
57200 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
*
57226 TCGAATACCAGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
57291 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
57356 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
57421 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
57447 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
*
57512 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATTAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
57577 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
57642 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
57668 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
57733 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
57798 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
57863 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
*
57889 TCGAATACCTGAAAAGCTTAGACGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
*
57954 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAACCCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
**
58019 GAACCAAAATAAAACAACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
58084 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
58110 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
58175 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
*
58240 GAACCAAAATAAAATGACCTAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
58305 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
58331 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
*
58396 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGTCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
58461 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
*
58526 TAGCAGAATACCCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
* *
58552 TCGAATACCTAAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAATTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
* * *
58617 ACCCGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACTAGTTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
58682 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
*
58747 TAGCAGAATACTCATTTTCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
*
58773 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAATTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
58838 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
** *
58903 GAACCAAAATAAAACAACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTGCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
58968 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
58994 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
59059 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
*
59124 GAACCAAAATAAAATGACCTAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
59189 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
*
59215 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAAAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
*
59280 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGTCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
59345 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
*
59410 TAGCAGAATACCCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
* *
59436 TCGAATACCTAAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAATTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
* * *
59501 ACCCGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACTAGTTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
59566 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
59631 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
59657 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
59722 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
* * *
59787 GAACCAAAATAAAACGACCTAAACCCTAATTTAAAGATTAATCCAAGATAGTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
59852 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
59878 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
*
59943 ACATGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
60008 GAACC-AAAT-AAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
*
60071 TAACAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
60097 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
60162 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
*
60227 GAACCAAAATAAAACGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
60292 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
60318 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
60383 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
*
60448 GAACCAAAATAAAATAACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
60513 TAGCAGAATACTCATTTCCTACCTCG
196 TAGCAGAATACTCATTTCCTACCTCG
60539 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
1 TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
* * *
60604 ACCTGGATTGTGAAAGAAATATCTCACCAAGTGTTAGCCACTCATTAAAAACCAATTTTAGGGTT
66 ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
* * * * * *
60669 GAACCAAAAGAAAACGACCCATACCCTAATTTAAAGATTAATCCAAGGTATTTCCATTTCATCGT
131 GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
* *
60734 TACCAGAATACTCGTTTCCTACCT
196 TAGCAGAATACTCATTTCCTACCT
60758 ATTTTTTTGA
Statistics
Matches: 3660, Mismatches: 91, Indels: 5
0.97 0.02 0.00
Matches are distributed among these distances:
219 210 0.06
220 8 0.00
221 3336 0.91
222 106 0.03
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.27
Consensus pattern (221 bp):
TCGAATACCTGAAAAGCTTAGGCGAAAAAAGTTCGAACATACTCATGTAGAAGTTCTTAGAACTA
ACCTGGATTGTAAAAGAAAGATCTCACCAAGTGTTAGCCACTCATCAAAAACCAATTTTAGGGTT
GAACCAAAATAAAATGACCCAAACCCTAATTTAAAGATTAATCCAAGATATTTTCATTCCATCGT
TAGCAGAATACTCATTTCCTACCTCG
Found at i:61478 original size:18 final size:18
Alignment explanation
Indices: 61457--61543 Score: 77
Period size: 19 Copynumber: 4.7 Consensus size: 18
61447 TAGTTCGTTT
61457 AAGCATGTTAGA-TCATTA
1 AAGCATGTTA-ATTCATTA
*
61475 AAGCATGTTTAATTCATTT
1 AAGCATG-TTAATTCATTA
*
61494 AAGCATGTTAATTCATTTC
1 AAGCATGTTAATTCA-TTA
* * *
61513 AAGCATATTAGTTCATTT
1 AAGCATGTTAATTCATTA
* *
61531 AGGCATATTAATT
1 AAGCATGTTAATT
61544 TTAAATTTTG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
18 29 0.49
19 30 0.51
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (18 bp):
AAGCATGTTAATTCATTA
Found at i:61497 original size:19 final size:18
Alignment explanation
Indices: 61454--61543 Score: 101
Period size: 18 Copynumber: 4.9 Consensus size: 18
61444 TGCTAGTTCG
61454 TTTAAGCATGTTAGA-TCA
1 TTTAAGCATGTTA-ATTCA
*
61472 TTAAAGCATGTTTAATTCA
1 TTTAAGCATG-TTAATTCA
61491 TTTAAGCATGTTAATTCA
1 TTTAAGCATGTTAATTCA
* *
61509 TTTCAAGCATATTAGTTCA
1 TTT-AAGCATGTTAATTCA
* *
61528 TTTAGGCATATTAATT
1 TTTAAGCATGTTAATT
61544 TTAAATTTTG
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
18 32 0.51
19 31 0.49
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.43
Consensus pattern (18 bp):
TTTAAGCATGTTAATTCA
Found at i:61510 original size:37 final size:37
Alignment explanation
Indices: 61454--61543 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
61444 TGCTAGTTCG
*
61454 TTTAAGCATGTTAGA-TCA-TTAAAGCATGTTTAATTCA
1 TTTAAGCATGTTA-ATTCATTTAAAGCAT-ATTAATTCA
* *
61491 TTTAAGCATGTTAATTCATTTCAAGCATATTAGTTCA
1 TTTAAGCATGTTAATTCATTTAAAGCATATTAATTCA
* *
61528 TTTAGGCATATTAATT
1 TTTAAGCATGTTAATT
61544 TTAAATTTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
36 1 0.02
37 37 0.80
38 8 0.17
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.43
Consensus pattern (37 bp):
TTTAAGCATGTTAATTCATTTAAAGCATATTAATTCA
Found at i:61599 original size:18 final size:18
Alignment explanation
Indices: 61576--61618 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
61566 AGTATGTCAA
* * *
61576 TTCATTTGATTAAATTGG
1 TTCATTTAATTAAACTAG
61594 TTCATTTAATTAAACTAG
1 TTCATTTAATTAAACTAG
61612 TTCATTT
1 TTCATTT
61619 CAAATTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
TTCATTTAATTAAACTAG
Found at i:63961 original size:2 final size:2
Alignment explanation
Indices: 63954--63998 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
63944 GCACACTGCA
63954 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
63996 AT A
1 AT A
63999 GCACATGATA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.