Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008170.1 Hibiscus syriacus cultivar Beakdansim tig00110761_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: 686002
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:1093 original size:33 final size:33
Alignment explanation
Indices: 1054--1124 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1044 TTCACTTAGA
*
1054 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
1087 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
1120 TTTCA
1 TTTCA
1125 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:1248 original size:20 final size:19
Alignment explanation
Indices: 1204--1298 Score: 102
Period size: 20 Copynumber: 4.8 Consensus size: 19
1194 TGCAGAAGAG
*
1204 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATG-AAA
**
1225 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGA-AA
1245 TCGCAACGAGAGAAATGAAA
1 TCGCAACGAGAG-AATGAAA
*
1265 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATG-AAA
1284 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
1299 CGCAACGCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.06
19 14 0.22
20 29 0.46
21 16 0.25
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.13
Consensus pattern (19 bp):
TCGCAACGAGAGAATGAAA
Found at i:1261 original size:41 final size:39
Alignment explanation
Indices: 1202--1297 Score: 129
Period size: 39 Copynumber: 2.4 Consensus size: 39
1192 TTTGCAGAAG
* *
1202 AGTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGAC
1 AGTCGCAACGAGAGAAATG-AAATCGCAACGAGA-AATGAA
* *
1243 TGTCGCAACGAGAGAAATGAAATCGCAACGCGAAATGAA
1 AGTCGCAACGAGAGAAATGAAATCGCAACGAGAAATGAA
*
1282 AATCGCAACGAGAGAA
1 AGTCGCAACGAGAGAA
1298 TCGCAACGCG
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
39 19 0.39
40 13 0.27
41 17 0.35
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (39 bp):
AGTCGCAACGAGAGAAATGAAATCGCAACGAGAAATGAA
Found at i:1352 original size:18 final size:18
Alignment explanation
Indices: 1317--1399 Score: 102
Period size: 19 Copynumber: 4.7 Consensus size: 18
1307 GAAACCAAAA
*
1317 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATT
1336 TCGCGTTGCGATTTCATT
1 TCGCGTTGCGATTTCATT
1354 TCGCGTTGCGA-TT-A--
1 TCGCGTTGCGATTTCATT
*
1368 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATT-TCATT
1387 TCGCGTTGCGATT
1 TCGCGTTGCGATT
1400 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 3 0.05
18 18 0.32
19 22 0.39
ACGTcount: A:0.12, C:0.22, G:0.23, T:0.43
Consensus pattern (18 bp):
TCGCGTTGCGATTTCATT
Found at i:1376 original size:14 final size:14
Alignment explanation
Indices: 1357--1413 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
1347 TTTCATTTCG
1357 CGTTGCGATTATCT
1 CGTTGCGATTATCT
*
1371 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-T-A--TCT
*
1390 CGTTGCGATTCTCT
1 CGTTGCGATTATCT
1404 CGTTGCGATT
1 CGTTGCGATT
1414 TTCATTTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
15 1 0.03
16 1 0.03
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.11, C:0.23, G:0.25, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTATCT
Found at i:1391 original size:33 final size:32
Alignment explanation
Indices: 1339--1421 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 32
1329 TTTCATTTCG
1339 CGTTGCGATTTCATTTCGCGTTGCGATTATCT
1 CGTTGCGATTTCATTTCGCGTTGCGATTATCT
*
1371 CGTTGCGATTGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATT-TCATTTCGCGTTGCGATTATCT
1404 CGTTGCGATTTTCATTTC
1 CGTTGCGA-TTTCATTTC
1422 AACCAAAAGA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
32 10 0.21
33 36 0.75
34 2 0.04
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.45
Consensus pattern (32 bp):
CGTTGCGATTTCATTTCGCGTTGCGATTATCT
Found at i:3426 original size:184 final size:185
Alignment explanation
Indices: 3107--3572 Score: 857
Period size: 184 Copynumber: 2.5 Consensus size: 185
3097 TAGATTGCTT
*
3107 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
3172 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
3237 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTTTC-TTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTA-TTGTCTTTGTTTTGTCTTTTGGTTGAA
*
3292 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3356 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
*
3421 GTGTATTCTTTAACACTGTGAAATATTATTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTGTCTTTGTTTTGTCTTTTGGTTGAA
3476 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3541 TTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAA
3573 TGCAATCCAT
Statistics
Matches: 273, Mismatches: 6, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
183 15 0.05
184 169 0.62
185 89 0.33
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (185 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:3468 original size:92 final size:93
Alignment explanation
Indices: 3107--3572 Score: 859
Period size: 93 Copynumber: 5.1 Consensus size: 93
3097 TAGATTGCTT
*
3107 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3172 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
3200 AGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
3265 TTTGTCTTTGTTTTTTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
3292 AGT-AATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3356 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
3384 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3449 -TTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3476 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
3541 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
3568 AGTAA
1 AGTAA
3573 TGCAATCCAT
Statistics
Matches: 361, Mismatches: 9, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
91 75 0.21
92 123 0.34
93 163 0.45
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:3644 original size:19 final size:19
Alignment explanation
Indices: 3620--3747 Score: 98
Period size: 19 Copynumber: 7.3 Consensus size: 19
3610 TAGTTTACTT
* *
3620 TCGCAACACGAAACTTAAA
1 TCGCAACGCGAAACTAAAA
*
3639 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
3658 TCGCAACGCGAAA-TGAAAA
1 TCGCAACGCGAAACT-AAAA
**
3677 TCGCAA--CG--AC-GGAA
1 TCGCAACGCGAAACTAAAA
*
3691 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
*
3710 TCGCAA--CG--A-TAAGA
1 TCGCAACGCGAAACTAAAA
*
3724 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACTAAAA
3743 TCGCA
1 TCGCA
3748 TTGCGATTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 24
0.70 0.10 0.20
Matches are distributed among these distances:
14 17 0.20
15 2 0.02
16 4 0.05
17 4 0.05
18 3 0.04
19 55 0.65
ACGTcount: A:0.45, C:0.28, G:0.18, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACTAAAA
Found at i:3698 original size:33 final size:32
Alignment explanation
Indices: 3655--3747 Score: 132
Period size: 33 Copynumber: 2.8 Consensus size: 32
3645 CGCGAAACCA
**
3655 AAATCGCAACGCGAAATGAAAATCGCAACGACG
1 AAATCGCAACGCGAAACCAAAATCGCAACGA-G
* *
3688 GAATCGCAACGCGAAACCAAAATCGCAACGAT
1 AAATCGCAACGCGAAACCAAAATCGCAACGAG
3720 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
3748 TTGCGATTTT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
32 1 0.02
33 53 0.98
ACGTcount: A:0.45, C:0.27, G:0.19, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAG
Found at i:3745 original size:52 final size:51
Alignment explanation
Indices: 3620--3747 Score: 125
Period size: 52 Copynumber: 2.5 Consensus size: 51
3610 TAGTTTACTT
** *
3620 TCGCAACACGAAACTTAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGAGAAA
* * ** *
3671 T-G-AAAATCGCAACGACGGAATCGCAACGCGAAACCAAAATCGCAACGATAAGA
1 TCGCAACA-CGAAAC--CAAAATCGCAACGCGAAACCAAAATCGCAACGAGAA-A
*
3724 TCGCAACGCGAAACCAAAATCGCA
1 TCGCAACACGAAACCAAAATCGCA
3748 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
49 3 0.05
50 6 0.10
51 1 0.02
52 39 0.66
53 2 0.03
54 6 0.10
55 2 0.03
ACGTcount: A:0.45, C:0.28, G:0.18, T:0.09
Consensus pattern (51 bp):
TCGCAACACGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGAGAAA
Found at i:3765 original size:19 final size:19
Alignment explanation
Indices: 3743--3877 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
3733 GAAACCAAAA
*
3743 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
3762 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
3778 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
3795 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
3811 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
3828 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
3847 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
3867 TCGTGTTGCGA
1 TCGCGTTGCGA
3878 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:3784 original size:14 final size:14
Alignment explanation
Indices: 3765--3821 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
3755 TTTCATTTCG
3765 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
3779 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
3796 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
3812 CGTTGCGATT
1 CGTTGCGATT
3822 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:3790 original size:33 final size:33
Alignment explanation
Indices: 3748--3840 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
3738 CAAAATCGCA
*
3748 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
3781 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
3814 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
3841 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:5806 original size:13 final size:14
Alignment explanation
Indices: 5790--5824 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
5780 ATTGTTTAAT
5790 TGATTTGTA-AAGA
1 TGATTTGTATAAGA
*
5803 TGATTTGTATAAGT
1 TGATTTGTATAAGA
5817 TGATTTGT
1 TGATTTGT
5825 GTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.49
Consensus pattern (14 bp):
TGATTTGTATAAGA
Found at i:5822 original size:14 final size:13
Alignment explanation
Indices: 5777--5833 Score: 55
Period size: 13 Copynumber: 4.4 Consensus size: 13
5767 GCTTATTTTT
*
5777 TTGA-TTGTTTAA
1 TTGATTTGTATAA
5789 TTGATTTGTA-AA
1 TTGATTTGTATAA
*
5801 GATGATTTGTATAA
1 -TTGATTTGTATAA
*
5815 GTTGATTTGTGTAA
1 -TTGATTTGTATAA
5829 TTGAT
1 TTGAT
5834 GCGAACATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
12 6 0.16
13 18 0.47
14 14 0.37
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (13 bp):
TTGATTTGTATAA
Found at i:5982 original size:20 final size:19
Alignment explanation
Indices: 5930--5992 Score: 103
Period size: 20 Copynumber: 3.4 Consensus size: 19
5920 CAAAATGACT
5930 ATCGCAATGCG-AATG-AA
1 ATCGCAATGCGAAATGAAA
5947 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
5966 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
5986 ATCGCAA
1 ATCGCAA
5993 CGAGAGAATC
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 11 0.26
18 4 0.09
19 12 0.28
20 16 0.37
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:6063 original size:19 final size:19
Alignment explanation
Indices: 6039--6241 Score: 265
Period size: 19 Copynumber: 11.4 Consensus size: 19
6029 GATTCTCTCG
6039 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6058 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6077 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
6096 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
6110 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6129 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6148 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
6167 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
6181 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
6201 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
6215 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
6234 TTGCGATT
1 TTGCGATT
6242 CTCTCGTTGC
Statistics
Matches: 162, Mismatches: 6, Indels: 32
0.81 0.03 0.16
Matches are distributed among these distances:
14 23 0.14
16 16 0.10
17 13 0.08
18 3 0.02
19 95 0.59
20 12 0.07
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:6092 original size:71 final size:71
Alignment explanation
Indices: 6017--6255 Score: 425
Period size: 71 Copynumber: 3.4 Consensus size: 71
6007 TGCGTTTATA
6017 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
6082 ATTTTC
66 ATTTTC
6088 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
6153 ATTTTC
66 ATTTTC
*
6159 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCA--T-G--TTGG
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATTTCGCATTGC
6219 GATTTTC
65 GATTTTC
6226 ATTTCGCATTGCGATTCTCTCGTTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATT
6256 GTAATTTCCG
Statistics
Matches: 166, Mismatches: 1, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
67 40 0.24
69 1 0.01
70 1 0.01
71 108 0.65
72 16 0.10
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (71 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTTTC
Found at i:6263 original size:33 final size:33
Alignment explanation
Indices: 6017--6255 Score: 327
Period size: 33 Copynumber: 6.9 Consensus size: 33
6007 TGCGTTTATA
6017 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
6050 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
6088 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
6121 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTC
6159 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* *
6192 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
6226 ATTTCGCATTGCGATTCTCTCGTTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATT
6256 GTAATTTCCG
Statistics
Matches: 185, Mismatches: 8, Indels: 26
0.84 0.04 0.12
Matches are distributed among these distances:
32 1 0.01
33 76 0.41
34 29 0.16
35 15 0.08
36 14 0.08
38 50 0.27
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:8546 original size:12 final size:12
Alignment explanation
Indices: 8529--8553 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8519 TCTTCGGGGA
8529 CTTTTTCTTCTT
1 CTTTTTCTTCTT
8541 CTTTTTCTTCTT
1 CTTTTTCTTCTT
8553 C
1 C
8554 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:9480 original size:20 final size:20
Alignment explanation
Indices: 9452--9681 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
9442 AAATTTCAGT
* * *
9452 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
9472 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
9492 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
9512 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
9532 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
9552 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
9572 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
9592 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
9612 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
9632 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
9652 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
9672 GTTGCGATTT
1 GTTGCGATTT
9682 TGGAAAATCG
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:9698 original size:21 final size:21
Alignment explanation
Indices: 9668--9750 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
9658 ATTTTCATAT
*
9668 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
9689 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
9710 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
9731 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
9751 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:9741 original size:42 final size:43
Alignment explanation
Indices: 9648--9746 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
9638 ATTTATGTGT
* *
9648 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
9689 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
9731 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
9747 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:21461 original size:16 final size:16
Alignment explanation
Indices: 21434--21484 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
21424 AATAAAAAAA
21434 TAAATA-TTTAATTAT
1 TAAATACTTTAATTAT
*
21449 TAAATACTTTAATTAC
1 TAAATACTTTAATTAT
*
21465 TAAATAATCTTTAACTAT
1 TAAAT-A-CTTTAATTAT
21483 TA
1 TA
21485 GAATTACAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.20
16 13 0.43
17 1 0.03
18 10 0.33
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (16 bp):
TAAATACTTTAATTAT
Found at i:36768 original size:42 final size:42
Alignment explanation
Indices: 36713--36799 Score: 115
Period size: 42 Copynumber: 2.1 Consensus size: 42
36703 TGAATATAAG
* *
36713 AAAATATTTTTATTATTG-GTTTAGTTTTA-ATGTTGTGGTTAT
1 AAAATATTCTTATTA-TGAGCTTAGTTTTACA-GTTGTGGTTAT
*
36755 AAAATGTTCTTATTATGAGCTTAGTTTTACAGTTGTGGTTAT
1 AAAATATTCTTATTATGAGCTTAGTTTTACAGTTGTGGTTAT
36797 AAA
1 AAA
36800 TTTTCATTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
41 2 0.05
42 37 0.93
43 1 0.03
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (42 bp):
AAAATATTCTTATTATGAGCTTAGTTTTACAGTTGTGGTTAT
Found at i:37114 original size:23 final size:23
Alignment explanation
Indices: 37088--37135 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
37078 ATAAAGTACA
*
37088 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
37111 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
37134 AT
1 AT
37136 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:37381 original size:30 final size:29
Alignment explanation
Indices: 37340--37406 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
37330 TCATTTGCAC
* * *
37340 AAAAAATTATTT-GATTATTTTATATTTTAT
1 AAAATATTATTTAGAAT-TTTTA-ATTTAAT
37370 AAAATATTATTTAGAATTTTTAATTTAAT
1 AAAATATTATTTAGAATTTTTAATTTAAT
37399 AATAATAT
1 AA-AATAT
37407 ATATCGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 21 0.66
31 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
AAAATATTATTTAGAATTTTTAATTTAAT
Found at i:37771 original size:327 final size:327
Alignment explanation
Indices: 37177--37828 Score: 1243
Period size: 327 Copynumber: 2.0 Consensus size: 327
37167 ATACCGATAG
37177 CATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
1 CATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
*
37242 GATATTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCA
66 GATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCA
37307 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTTATATTTTATAA
131 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTTATATTTTATAA
* *
37372 AATATTATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGA
196 AATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAATAAATCATTAGA
37437 CGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTC
261 CGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTC
37502 CA
326 CA
*
37504 CATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATC
1 CATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
37569 GATACTTCTTTTAAAGTTATGTAATTTATGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCA
66 GATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCA
*
37633 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATA
131 CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTT-ATATTTTATA
37698 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAATAAATCATTAG
195 AAATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAATAAATCATTAG
37763 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
260 ACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT
37828 C
325 C
37829 TACAGTGAAA
Statistics
Matches: 319, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
326 81 0.25
327 238 0.75
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (327 bp):
CATTGCAAATTTACCTATTACATTATATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATC
GATACTTCTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCA
CCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTTATATTTTATAA
AATAATATTTAGAATTTTTAATTTAATAATAATATATATCGTAACGAAAAAAATAAATCATTAGA
CGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTC
CA
Found at i:37915 original size:23 final size:23
Alignment explanation
Indices: 37889--37952 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
37879 ATATAACCAC
37889 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
37912 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
37935 TACCTATTACATCATATA
1 TACCTATTACATTATATA
37953 TTTACCTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:38409 original size:39 final size:39
Alignment explanation
Indices: 38355--38441 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
38345 TCAAGTTGTA
*
38355 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
38394 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
38433 GATTTTGAT
1 GATTTTGAT
38442 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:38723 original size:18 final size:18
Alignment explanation
Indices: 38700--38736 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38690 CGAAATATAT
38700 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
38718 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
38736 A
1 A
38737 CTCCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:39159 original size:25 final size:25
Alignment explanation
Indices: 39125--39175 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
39115 TTTTTCCAAA
*
39125 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
39150 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
39175 T
1 T
39176 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:39469 original size:21 final size:22
Alignment explanation
Indices: 39444--39495 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
39434 ACACTTTACA
*
39444 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
39467 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
39490 ATATAA
1 ATATAA
39496 GTGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:39480 original size:23 final size:23
Alignment explanation
Indices: 39454--39516 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
39444 ATATAACCAC
39454 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
39477 TACCTATTACATTATATAAGTGC
1 TACCTATTACATTATATAAACGA
*
39500 TACCTATTACATCATAT
1 TACCTATTACATTATAT
39517 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:39525 original size:20 final size:22
Alignment explanation
Indices: 39453--39528 Score: 66
Period size: 23 Copynumber: 3.5 Consensus size: 22
39443 AATATAACCA
* **
39453 CTACCTATTACATTATATAAACG
1 CTACCTATTACATCATAT-AGTG
* *
39476 ATACCTATTACATTATATAAGTG
1 CTACCTATTACATCATAT-AGTG
39499 CTACCTATTACATCATAT-GT-
1 CTACCTATTACATCATATAGTG
*
39519 TTACCTATTA
1 CTACCTATTA
39529 TATTGAAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.19
21 2 0.04
23 36 0.77
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (22 bp):
CTACCTATTACATCATATAGTG
Found at i:40925 original size:183 final size:183
Alignment explanation
Indices: 40613--41321 Score: 1292
Period size: 183 Copynumber: 3.9 Consensus size: 183
40603 TTAAAATTAC
* *
40613 CGACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
40678 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* *
40743 ATATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
*
40796 CGATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
40861 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
40926 ATATTATAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
40979 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
*
41044 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACTGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
41109 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATAT
131 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
41162 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
41227 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * * **
41292 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTATCTATTACATTATAAT
41322 ATGTTGAAAG
Statistics
Matches: 509, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 509 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (183 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGT
Found at i:42753 original size:3 final size:3
Alignment explanation
Indices: 42745--42798 Score: 72
Period size: 3 Copynumber: 18.0 Consensus size: 3
42735 ACTTGTTTGG
* * *
42745 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
*
42793 TTC ATC
1 ATC ATC
42799 GTCAGCTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:42762 original size:12 final size:12
Alignment explanation
Indices: 42745--42802 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
42735 ACTTGTTTGG
* *
42745 ATCATCATCTTC
1 ATCATCGTCATC
*
42757 ATCATCATCATC
1 ATCATCGTCATC
42769 ATCATCGTCATC
1 ATCATCGTCATC
42781 ATCATCGTCATC
1 ATCATCGTCATC
*
42793 TTCATCGTCA
1 ATCATCGTCA
42803 GCTTCATCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.26, C:0.33, G:0.05, T:0.36
Consensus pattern (12 bp):
ATCATCGTCATC
Found at i:42768 original size:18 final size:18
Alignment explanation
Indices: 42745--42813 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
42735 ACTTGTTTGG
* *
42745 ATCATCATCTTCATCATC
1 ATCATCATCATCTTCATC
*
42763 ATCATCATCATCGTCATC
1 ATCATCATCATCTTCATC
*
42781 ATCATCGTCATCTTCATC
1 ATCATCATCATCTTCATC
* * *
42799 GTCAGCTTCATCTTC
1 ATCATCATCATCTTC
42814 TGCGACCGCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 44 1.00
ACGTcount: A:0.23, C:0.33, G:0.06, T:0.38
Consensus pattern (18 bp):
ATCATCATCATCTTCATC
Found at i:42807 original size:12 final size:12
Alignment explanation
Indices: 42758--42810 Score: 70
Period size: 12 Copynumber: 4.4 Consensus size: 12
42748 ATCATCTTCA
* *
42758 TCATCATCATCA
1 TCATCGTCATCT
*
42770 TCATCGTCATCA
1 TCATCGTCATCT
42782 TCATCGTCATCT
1 TCATCGTCATCT
*
42794 TCATCGTCAGCT
1 TCATCGTCATCT
42806 TCATC
1 TCATC
42811 TTCTGCGACC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 38 1.00
ACGTcount: A:0.23, C:0.34, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:45003 original size:395 final size:395
Alignment explanation
Indices: 44273--45239 Score: 1866
Period size: 395 Copynumber: 2.4 Consensus size: 395
44263 TTTAAATTAG
44273 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
44338 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
44403 CGACACTTTTATATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
131 CGACACTTTT-TATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
44468 AAAATATCGACACAAACTATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTA
195 AAAATATCGACACAAACTATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTA
44533 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
260 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
44598 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
325 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
44663 AAAA-A
390 AAAATA
44668 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
44733 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
44798 CGACACTTTTTATATATGGATCGACAC-TTATGGGTGCACTCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
44862 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGT
196 AAATATCGACACAAAC--TATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGT
*
44927 ATAATTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
259 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
44992 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
324 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
45057 AAAAATA
389 AAAAATA
*
45064 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
45129 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
45194 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
45240 GGCCATATTG
Statistics
Matches: 564, Mismatches: 4, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
393 52 0.09
394 17 0.03
395 321 0.57
396 157 0.28
397 17 0.03
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (395 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAATATCGACACAAACTATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTAT
AATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
AAATA
Found at i:45160 original size:199 final size:198
Alignment explanation
Indices: 44273--45239 Score: 1868
Period size: 197 Copynumber: 4.9 Consensus size: 198
44263 TTTAAATTAG
44273 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
44338 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
44403 CGACACTTTTATATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
131 CGACACTTTT-TATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAA
44468 AAAA
195 AAAA
44472 TATCGACACAAAC--TATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
44535 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
44600 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
44665 AAA
196 AAA
44668 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
44733 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
44798 CGACACTTTTTATATATGGATCGACAC-TTATGGGTGCACTCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
44862 AAA
196 AAA
44865 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
*
44930 ATTGTATCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
44995 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
45060 AATA
196 AA-A
*
45064 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
45129 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
45194 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
45240 GGCCATATTG
Statistics
Matches: 759, Mismatches: 5, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
196 71 0.09
197 320 0.42
198 180 0.24
199 188 0.25
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTATACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
AAA
Found at i:45404 original size:19 final size:19
Alignment explanation
Indices: 45357--45406 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
45347 ATTATATTCA
*
45357 TATACAAAAATATAAATCG
1 TATACAAAATTATAAATCG
*
45376 TATACAAAATTATAAATCT
1 TATACAAAATTATAAATCG
45395 TATACAAAATTA
1 TATACAAAATTA
45407 ACCCTACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (19 bp):
TATACAAAATTATAAATCG
Found at i:47238 original size:33 final size:33
Alignment explanation
Indices: 47201--47266 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
47191 CATCTTAATA
*
47201 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
47234 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
47267 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:49643 original size:19 final size:19
Alignment explanation
Indices: 49588--49634 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
49578 ATCCGGTATC
49588 ATTTTACCGGTTTTATCAT
1 ATTTTACCGGTTTTATCAT
49607 -TTTGATACCGGTTTTATCAT
1 ATTT--TACCGGTTTTATCAT
49627 ATTTTACC
1 ATTTTACC
49635 TGTTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 3 0.12
19 4 0.16
20 15 0.60
21 3 0.12
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (19 bp):
ATTTTACCGGTTTTATCAT
Found at i:49794 original size:19 final size:20
Alignment explanation
Indices: 49752--49795 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
49742 CACTTTTAAA
49752 TTACCGGTTTTATCATTTTG
1 TTACCGGTTTTATCATTTTG
49772 TTACCGGTTTT-TCATATTT-
1 TTACCGGTTTTATCAT-TTTG
49791 TTACC
1 TTACC
49796 TGGTATATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.16, C:0.18, G:0.11, T:0.55
Consensus pattern (20 bp):
TTACCGGTTTTATCATTTTG
Found at i:56245 original size:25 final size:24
Alignment explanation
Indices: 56203--56253 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
56193 CTGTCTATAG
*
56203 AAAATTTTAATTTAATTATTTTTAA
1 AAAATTTTAATTTAATTA-ATTTAA
56228 AAAATTGTTAATTT-ATTAATTTAA
1 AAAATT-TTAATTTAATTAATTTAA
56252 AA
1 AA
56254 TTAACTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 10 0.42
26 7 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AAAATTTTAATTTAATTAATTTAA
Found at i:63073 original size:2 final size:2
Alignment explanation
Indices: 63068--63094 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
63058 TTAATCATTA
63068 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
63095 ATGATATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:63829 original size:25 final size:26
Alignment explanation
Indices: 63801--63851 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
63791 TTTATTTTCT
*
63801 TTTTCTATAAAATTTT-TTAATTTTA
1 TTTTCTATAAAATTTTATGAATTTTA
*
63826 TTTTCTCTAAAATTTTATGAATTTTA
1 TTTTCTATAAAATTTTATGAATTTTA
63852 AATTAAGCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTTCTATAAAATTTTATGAATTTTA
Found at i:73741 original size:27 final size:27
Alignment explanation
Indices: 73711--73785 Score: 93
Period size: 27 Copynumber: 2.8 Consensus size: 27
73701 AAACCCCCTT
73711 TATTTGATTG-GAAAGCTCTGATGATTA
1 TATTTGATTGAGAAA-CTCTGATGATTA
*
73738 TATTTGATTGAGAAACTCTGATGGTTA
1 TATTTGATTGAGAAACTCTGATGATTA
*
73765 -AGTTTGATTGAAAAACT-TGAT
1 TA-TTTGATTGAGAAACTCTGAT
73786 TGTCAATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
26 5 0.11
27 35 0.80
28 4 0.09
ACGTcount: A:0.32, C:0.07, G:0.21, T:0.40
Consensus pattern (27 bp):
TATTTGATTGAGAAACTCTGATGATTA
Found at i:76893 original size:18 final size:18
Alignment explanation
Indices: 76870--76907 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
76860 TCTCTCTCCG
76870 CGTGTTCCAACACTACCT
1 CGTGTTCCAACACTACCT
* *
76888 CGTGTTCCACCACTTCCT
1 CGTGTTCCAACACTACCT
76906 CG
1 CG
76908 ATTTGCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.42, G:0.13, T:0.29
Consensus pattern (18 bp):
CGTGTTCCAACACTACCT
Found at i:78926 original size:32 final size:32
Alignment explanation
Indices: 78885--78951 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
78875 TATTATGGTA
78885 TTAATCTGTTGACATT-GCAAATATAAATGTTC
1 TTAATCTGTTGACATTAG-AAATATAAATGTTC
78917 TTAATCTGTTGACATTAGAAATATAAATGTTC
1 TTAATCTGTTGACATTAGAAATATAAATGTTC
78949 TTA
1 TTA
78952 GTGAAACCCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.42
Consensus pattern (32 bp):
TTAATCTGTTGACATTAGAAATATAAATGTTC
Found at i:90182 original size:23 final size:23
Alignment explanation
Indices: 90110--90183 Score: 62
Period size: 26 Copynumber: 3.1 Consensus size: 23
90100 CTACTAAGTT
* *
90110 AATTTATTATGTTA-TTTATAAA
1 AATTAATTATATTATTTTATAAA
* *
90132 TAA-TATTTAAATTATTTTATGATCAA
1 -AATTAATTATATTATTTTAT-A--AA
90158 AATTAATTATATTATTTTATAAA
1 AATTAATTATATTATTTTATAAA
90181 AAT
1 AAT
90184 AATAGATTAT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
22 7 0.17
23 12 0.30
24 1 0.03
25 3 0.08
26 17 0.43
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
AATTAATTATATTATTTTATAAA
Found at i:91526 original size:3 final size:3
Alignment explanation
Indices: 91511--91563 Score: 81
Period size: 3 Copynumber: 17.7 Consensus size: 3
91501 AGTTAAAAAA
*
91511 TAT TAT TA- AAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
91556 TAT TAT TA
1 TAT TAT TA
91564 AATGTGTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 1 0.02
3 42 0.91
4 3 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:92440 original size:44 final size:44
Alignment explanation
Indices: 92385--92478 Score: 181
Period size: 44 Copynumber: 2.2 Consensus size: 44
92375 GAGGTGCAGC
92385 TGAAGG-GGTTATGAAGGAAGGTTGAAGGAAAAGAGAGAAAGAG
1 TGAAGGAGGTTATGAAGGAAGGTTGAAGGAAAAGAGAGAAAGAG
92428 TGAAGGAGGTTATGAAGGAAGGTTGAAGGAAAAGAGAGAAAGAG
1 TGAAGGAGGTTATGAAGGAAGGTTGAAGGAAAAGAGAGAAAGAG
92472 TGAAGGA
1 TGAAGGA
92479 AGAGAAGTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 6 0.12
44 44 0.88
ACGTcount: A:0.45, C:0.00, G:0.41, T:0.14
Consensus pattern (44 bp):
TGAAGGAGGTTATGAAGGAAGGTTGAAGGAAAAGAGAGAAAGAG
Found at i:105602 original size:15 final size:15
Alignment explanation
Indices: 105568--105666 Score: 80
Period size: 15 Copynumber: 6.4 Consensus size: 15
105558 TATGCTTGAA
105568 GAAAAA-AAAAAG--
1 GAAAAATAAAAAGAT
105580 GAACAAATAAAAAGAT
1 GAA-AAATAAAAAGAT
*
105596 GAAAAATGAAAAAAAT
1 GAAAAAT-AAAAAGAT
* *
105612 GAAAAAGAAAAAAAT
1 GAAAAATAAAAAGAT
105627 GAAAAATGAAAAAAGAAAT
1 GAAAAAT--AAAAAG--AT
105646 GAAAAAATAAAAAGA-
1 G-AAAAATAAAAAGAT
105661 GAAAAA
1 GAAAAA
105667 GGAGGGTTTG
Statistics
Matches: 73, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
12 3 0.04
13 3 0.04
14 11 0.15
15 19 0.26
16 17 0.23
17 5 0.07
18 6 0.08
19 3 0.04
20 6 0.08
ACGTcount: A:0.77, C:0.01, G:0.14, T:0.08
Consensus pattern (15 bp):
GAAAAATAAAAAGAT
Found at i:105606 original size:7 final size:7
Alignment explanation
Indices: 105574--105644 Score: 54
Period size: 7 Copynumber: 9.4 Consensus size: 7
105564 TGAAGAAAAA
*
105574 AAAAAGG
1 AAAAATG
*
105581 AACAAATA
1 AA-AAATG
105589 AAAAGATG
1 AAAA-ATG
105597 AAAAATG
1 AAAAATG
105604 AAAAAAATG
1 --AAAAATG
105613 AAAAA-G
1 AAAAATG
105619 AAAAAAATG
1 --AAAAATG
105628 AAAAATG
1 AAAAATG
*
105635 AAAAAAG
1 AAAAATG
105642 AAA
1 AAA
105645 TGAAAAAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
6 1 0.02
7 28 0.53
8 16 0.30
9 8 0.15
ACGTcount: A:0.76, C:0.01, G:0.14, T:0.08
Consensus pattern (7 bp):
AAAAATG
Found at i:106835 original size:87 final size:89
Alignment explanation
Indices: 106672--106835 Score: 257
Period size: 87 Copynumber: 1.9 Consensus size: 89
106662 TGAGGGATTG
*
106672 ACATTTTCATGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGAAGAAGAAGTTCATAATGAG
1 ACATTTTCATGAGAGTTCATAATGAGAAGAACTCATCCAACAAGGAAGAAGAAGTTCATAATGAG
106737 AAGAACTTGTTCAATTTCGCATCA
66 AAGAACTTGTTCAATTTCGCATCA
106761 ACATTTTCAATGAAGAGTTCATAATGAGAAGAACTCAT-CATA-AAGG-AG-A-AAGTTCATAAT
1 ACATTTTC-ATG-AGAGTTCATAATGAGAAGAACTCATCCA-ACAAGGAAGAAGAAGTTCATAAT
106821 GAGAAGAACTTGTTC
63 GAGAAGAACTTGTTC
106836 CTTTCAAATT
Statistics
Matches: 71, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
87 26 0.37
88 1 0.01
89 10 0.14
90 8 0.11
91 26 0.37
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (89 bp):
ACATTTTCATGAGAGTTCATAATGAGAAGAACTCATCCAACAAGGAAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAATTTCGCATCA
Found at i:106916 original size:35 final size:36
Alignment explanation
Indices: 106877--106969 Score: 118
Period size: 39 Copynumber: 2.5 Consensus size: 36
106867 AACATTTCTT
106877 GAAGAGTTCATAATGAGAAGAACTCATCC-AACGAGGAA
1 GAAGAGTTCATAATGAGAAGAACTCATCCTAA--AGG-A
* *
106915 GAAGAAGTTCATAATGAGAAGAATTCGTCCTAAAGGA
1 GAAG-AGTTCATAATGAGAAGAACTCATCCTAAAGGA
106952 GAA-AGTTCATAATGAGAA
1 GAAGAGTTCATAATGAGAA
106970 AAACATGTTA
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
35 15 0.29
37 4 0.08
38 7 0.14
39 23 0.45
40 2 0.04
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (36 bp):
GAAGAGTTCATAATGAGAAGAACTCATCCTAAAGGA
Found at i:107036 original size:144 final size:143
Alignment explanation
Indices: 106772--107082 Score: 410
Period size: 144 Copynumber: 2.2 Consensus size: 143
106762 CATTTTCAAT
* *
106772 GAAG-AGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTC
1 GAAGAAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
* * * * ***
106836 CTTTCAAATTCACCACAGATGGAGGTGAACCAACATTTCTTGAAGAGTTCATAATGAGAAGAACT
66 ATTTCAAATCCACCACAAAAGGAGGTGAACCAACATTTCCAAAAGAGTTCATAATGAGAAGAACT
*
106901 CATCCAACGAGGAA
131 CATCC-ACGAGAAA
* * *
106915 GAAGAAGTTCATAATGAGAAGAATTCGTCCTAAAGGAGAAAGTTCATAATGAGAAAAACATGTT-
1 GAAGAAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
* * ** * *
106979 ATTTCTAAGTCCACCGCAAAAGGATTTGGATCAACATTTCCAAAAGAGTTCATAATGAGAAGAAC
66 ATTTC-AAATCCACCACAAAAGGAGGTGAACCAACATTTCCAAAAGAGTTCATAATGAGAAGAAC
107044 TCATCCACGAGAAA
130 TCATCCACGAGAAA
*
107058 AAAGAAGTTCATAATGAGAAGAACT
1 GAAGAAGTTCATAATGAGAAGAACT
107083 TGTTCAATCT
Statistics
Matches: 145, Mismatches: 21, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
143 38 0.26
144 107 0.74
ACGTcount: A:0.42, C:0.15, G:0.20, T:0.23
Consensus pattern (143 bp):
GAAGAAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAAGTTCATAATGAGAAAAACATGTTC
ATTTCAAATCCACCACAAAAGGAGGTGAACCAACATTTCCAAAAGAGTTCATAATGAGAAGAACT
CATCCACGAGAAA
Found at i:107230 original size:3 final size:3
Alignment explanation
Indices: 107215--107266 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
107205 AGTTAAAAAA
*
107215 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
107262 TAT TA
1 TAT TA
107267 AATGTGTTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 1 0.02
3 45 0.98
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:108140 original size:43 final size:44
Alignment explanation
Indices: 108093--108179 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 44
108083 GCAGCCGAAG
108093 GGTTATGAAGGAAGGTTGAAGG-AAAGAGAGAAAGAGTGAAGGA
1 GGTTATGAAGGAAGGTTGAAGGAAAAGAGAGAAAGAGTGAAGGA
108136 GGTTATGAAGGAAGGTTGAAGGAAAAGAGAGAAAGAGTGAAGGA
1 GGTTATGAAGGAAGGTTGAAGGAAAAGAGAGAAAGAGTGAAGGA
108180 AGAGAAGTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 22 0.51
44 21 0.49
ACGTcount: A:0.45, C:0.00, G:0.41, T:0.14
Consensus pattern (44 bp):
GGTTATGAAGGAAGGTTGAAGGAAAAGAGAGAAAGAGTGAAGGA
Found at i:113950 original size:12 final size:12
Alignment explanation
Indices: 113933--113966 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
113923 GTAAGTTTAC
113933 TCTTGATGAACA
1 TCTTGATGAACA
113945 TCTTGATGAACA
1 TCTTGATGAACA
113957 TCTTGATGAA
1 TCTTGATGAA
113967 ATGTAATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (12 bp):
TCTTGATGAACA
Found at i:122183 original size:18 final size:18
Alignment explanation
Indices: 122162--122197 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
122152 CTTTCATCCG
*
122162 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
122180 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
122198 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:123515 original size:7 final size:7
Alignment explanation
Indices: 123503--123534 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
123493 TGGTCAACTC
123503 CGGTCAA
1 CGGTCAA
123510 CGGTCAA
1 CGGTCAA
123517 CGGGTCAA
1 C-GGTCAA
123525 CGGTCAA
1 CGGTCAA
123532 CGG
1 CGG
123535 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (7 bp):
CGGTCAA
Found at i:123524 original size:15 final size:15
Alignment explanation
Indices: 123504--123550 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
123494 GGTCAACTCC
123504 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
123519 GGTCAACGGTCAACG
1 GGTCAACGGTCAACG
*
123534 GGTC--GGGTCAACG
1 GGTCAACGGTCAACG
123547 GGTC
1 GGTC
123551 GGGTCGGGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (15 bp):
GGTCAACGGTCAACG
Found at i:123555 original size:18 final size:18
Alignment explanation
Indices: 123532--123608 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
123522 CAACGGTCAA
123532 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
123550 CGGGTCGGGTCAA-----
1 CGGGTCGGGTCAACGGGT
*
123563 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
123581 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
123599 CGGGTCGGGT
1 CGGGTCGGGT
123609 TGTGACTGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.12, C:0.21, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:123564 original size:31 final size:31
Alignment explanation
Indices: 123526--123604 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
123516 ACGGGTCAAC
123526 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
*
123557 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
123588 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
123605 GGGTTGTGAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.14, C:0.22, G:0.48, T:0.16
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
Found at i:123568 original size:8 final size:8
Alignment explanation
Indices: 123504--123550 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
123494 GGTCAACTCC
123504 GGTCAAC-
1 GGTCAACG
123511 GGTCAACG
1 GGTCAACG
123519 GGTCAAC-
1 GGTCAACG
123526 GGTCAACG
1 GGTCAACG
123534 GGT---CG
1 GGTCAACG
123539 GGTCAACG
1 GGTCAACG
123547 GGTC
1 GGTC
123551 GGGTCGGGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
5 5 0.14
7 14 0.40
8 16 0.46
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (8 bp):
GGTCAACG
Found at i:123604 original size:13 final size:13
Alignment explanation
Indices: 123511--123586 Score: 71
Period size: 13 Copynumber: 5.3 Consensus size: 13
123501 TCCGGTCAAC
*
123511 GGTCAACGGGTCAAC
1 GGTCAACGGGTC--G
123526 GGTCAACGGGTCG
1 GGTCAACGGGTCG
123539 GGTCAACGGGTCGGGTCG
1 GGTCAA-----CGGGTCG
123557 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
123570 GGTAAACGGGTCG
1 GGTCAACGGGTCG
123583 GGTC
1 GGTC
123587 GGGTCAACGG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
13 28 0.53
15 12 0.23
18 13 0.25
ACGTcount: A:0.17, C:0.22, G:0.45, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:125726 original size:24 final size:24
Alignment explanation
Indices: 125692--125798 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
125682 AAACGGAGAT
* *
125692 ATCAGAAATCAAAATATAATTCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * *
125716 ATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAAAACAGAATTCAG
* * * * *
125740 GTTAGGAATCAGAACAGATTTCAG
1 ATCAGAAATCAAAACAGAATTCAG
** * *
125764 ATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAAAACAGAATTCAG
125788 ATCAGAAATCA
1 ATCAGAAATCA
125799 GATAAAATAT
Statistics
Matches: 60, Mismatches: 23, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
24 60 1.00
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (24 bp):
ATCAGAAATCAAAACAGAATTCAG
Found at i:125798 original size:48 final size:48
Alignment explanation
Indices: 125692--125800 Score: 110
Period size: 48 Copynumber: 2.3 Consensus size: 48
125682 AAACGGAGAT
* * * * *
125692 ATCAGAAATCAAAATATAATTCAGATCAGATATCATAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
* * * * * * *
125740 GTTAGGAATCAGAACAGATTTCAGATCAGATGTCAAAACATAATTCAA
1 ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
125788 ATCAGAAATCAGA
1 ATCAGAAATCAGA
125801 TAAAATATTC
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.23
Consensus pattern (48 bp):
ATCAGAAATCAGAACAGAATTCAGATCAGATATCAAAACAGAATCCAA
Found at i:128269 original size:7 final size:7
Alignment explanation
Indices: 128257--128287 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
128247 TGGTCAACTC
128257 CGGTCAA
1 CGGTCAA
128264 CGGTCAA
1 CGGTCAA
128271 CGGTCAA
1 CGGTCAA
128278 CGGTCAA
1 CGGTCAA
128285 CGG
1 CGG
128288 GTCGGGTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.26, C:0.29, G:0.32, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:128308 original size:18 final size:18
Alignment explanation
Indices: 128285--128361 Score: 110
Period size: 18 Copynumber: 4.6 Consensus size: 18
128275 CAACGGTCAA
128285 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
128303 CGGGTCGGGTCAA-----
1 CGGGTCGGGTCAACGGGT
*
128316 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGT
128334 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGGT
128352 CGGGTCGGGT
1 CGGGTCGGGT
128362 GTGACTGGTC
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.12, C:0.21, G:0.51, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGGT
Found at i:128314 original size:31 final size:31
Alignment explanation
Indices: 128279--128357 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
128269 AACGGTCAAC
128279 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
*
128310 GGTCAACGGGTCGGGTAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
128341 GGTCAACGGGTCGGGTC
1 GGTCAACGGGTCGGGTC
128358 GGGTGTGACT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.14, C:0.22, G:0.48, T:0.16
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGGGTCGGGTCG
Found at i:128357 original size:13 final size:13
Alignment explanation
Indices: 128279--128339 Score: 68
Period size: 13 Copynumber: 4.3 Consensus size: 13
128269 AACGGTCAAC
128279 GGTCAACGGGTCG
1 GGTCAACGGGTCG
128292 GGTCAACGGGTCGGGTCG
1 GGTCAA-----CGGGTCG
128310 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
128323 GGTAAACGGGTCG
1 GGTCAACGGGTCG
128336 GGTC
1 GGTC
128340 GGGTCAACGG
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 28 0.68
18 13 0.32
ACGTcount: A:0.15, C:0.21, G:0.48, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:130322 original size:29 final size:30
Alignment explanation
Indices: 130290--130346 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
130280 TATACCTATT
*
130290 TTTTAGTTTATTATCTAATG-TTTATTTTG
1 TTTTAGTTTAGTATCTAATGTTTTATTTTG
* *
130319 TTTTAGTTTAGTGTTTAATGTTTTATTT
1 TTTTAGTTTAGTATCTAATGTTTTATTT
130347 GTTATTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.19, C:0.02, G:0.12, T:0.67
Consensus pattern (30 bp):
TTTTAGTTTAGTATCTAATGTTTTATTTTG
Found at i:130438 original size:12 final size:12
Alignment explanation
Indices: 130421--130460 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
130411 TAATCTCGTA
130421 ATTTTTAAATTT
1 ATTTTTAAATTT
130433 ATTTTT-AATTT
1 ATTTTTAAATTT
*
130444 TTTTTTAAATATT
1 ATTTTTAAAT-TT
130457 ATTT
1 ATTT
130461 CTTTTAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 9 0.38
13 5 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTTAAATTT
Found at i:144496 original size:20 final size:20
Alignment explanation
Indices: 144471--144510 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
144461 GGTCAAAGTT
144471 TCGGTCAACTGTGGTCAACG
1 TCGGTCAACTGTGGTCAACG
*
144491 TCGGTCAACTGTTGTCAACG
1 TCGGTCAACTGTGGTCAACG
144511 GTCGACAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.28, T:0.28
Consensus pattern (20 bp):
TCGGTCAACTGTGGTCAACG
Found at i:145987 original size:248 final size:248
Alignment explanation
Indices: 145494--145990 Score: 697
Period size: 248 Copynumber: 2.0 Consensus size: 248
145484 ATTATTTCAG
*
145494 GTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGTTTAGGGTGAAAAATACCCGAC
1 GTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGTTTAGGGTGAAAAAGACCCGAC
* * * *
145559 TCGAAAATATATAATTTTACCTTATATATTTAGGAATAATTAATAATACCCCTCTTTATATTTTT
66 TCAAAAATATATAATTTTACCTTATATATTTAGGAATAATTAACAATACCCCTC-TTATATATAT
*
145624 TTTCAATTAAGTCACTGTTTTTATTGAATAAAAATAATTTTTTTTATTATTTCGGGTCGGGTCGG
130 TTTCAATTAAATCACTGTTTTTATTGAATAAAAATAATTTTTTTTATTATTTCGGGT---GTCGG
* * *
145689 ATTTCTAATTCATATATTCGGGTCGGGTCGGGTGAAATTTTATTTTGGTCGGGTTGA
192 ATTTCTAATTCACATATTCGGGTCGGGTCGGGTAAAACTTTATTTTGGTCGGGTTGA
* * **
145746 GTCGG-TTTTTTAAGTGTGATATTCGGGTTGGGTCGGGTTCGAGTTTAGGGTGAATACCGACCCG
1 GTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCG-GTTTAGGGTGAA-AAAGACCCG
145810 ACCTGACCCAAAAAATATATAATTTTA-CTTATATATTTAGGAATAATT-ACAATACCCCTC-TA
64 A-CT----C-AAAAATATATAATTTTACCTTATATATTTAGGAATAATTAACAATACCCCTCTTA
145872 TATATATTTTCAATTAAATCACTGTTTTTATTGAATAAAAATAA-TTTTTTTATTATTTC-GGT-
123 TATATATTTTCAATTAAATCACTGTTTTTATTGAATAAAAATAATTTTTTTTATTATTTCGGGTG
145934 T--GAGTTTCTAATTCACATATTCGGGTCGGGTCGGGTAAAACTTTATTTTGGTCGGGT
188 TCGGA-TTTCTAATTCACATATTCGGGTCGGGTCGGGTAAAACTTTATTTTGGTCGGGT
145991 CGGATCTCGG
Statistics
Matches: 223, Mismatches: 13, Indels: 22
0.86 0.05 0.09
Matches are distributed among these distances:
247 2 0.01
248 50 0.22
249 1 0.00
251 34 0.15
252 17 0.08
253 10 0.04
254 17 0.08
255 43 0.19
257 11 0.05
258 22 0.10
259 16 0.07
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (248 bp):
GTCGGTTTTTTTAAGTGTGATATTCGGGTCGGGTCGAGTTCGGTTTAGGGTGAAAAAGACCCGAC
TCAAAAATATATAATTTTACCTTATATATTTAGGAATAATTAACAATACCCCTCTTATATATATT
TTCAATTAAATCACTGTTTTTATTGAATAAAAATAATTTTTTTTATTATTTCGGGTGTCGGATTT
CTAATTCACATATTCGGGTCGGGTCGGGTAAAACTTTATTTTGGTCGGGTTGA
Found at i:174603 original size:183 final size:180
Alignment explanation
Indices: 174207--174851 Score: 769
Period size: 180 Copynumber: 3.6 Consensus size: 180
174197 CACTATTGTC
* * * * * * *
174207 GTTTATCTGTCCACCTTCAGTATCCAACTGCTTCTCATCCTTCTTAGACTCGTCCAATTTACTCT
1 GTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCCTTCTTGGACTCATCCAACTTACTCT
* * * *
174272 CTTCAGTGAT---CTTGTTTTCTTGTGTATTTAAGTTGCCAGTGCCATCATCTTTAGCTAGACTC
66 CTTCAGTGTTCCCCTTGTTTTCTTGTGTGTTTAAGTTGCCAGTGCCACCATCTTTAGC-ACACTC
* *
174334 ACATTTGAGTCCCCTTTCCTGTCTTCCTTGGATAAA-T-TC-TCGCCACTGTT
130 ACATTTGAGTCCCCTATCCTG-C-TCCTTGGATAAATTCTCATCACCACTGTT
* * *
174384 GTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCTTTCTTGGACTCATCCGACTTACTCC
1 GTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCCTTCTTGGACTCATCCAACTTACTCT
* *
174449 CTTCAGTGTTCCCCTTGTTTTCTTGTGTGTTTGAGTTGTCAGTGCCACCATCTTTAGTCACACTC
66 CTTCAGTGTTCCCCTTGTTTTCTTGTGTGTTTAAGTTGCCAGTGCCACCATCTTTAG-CACACTC
* * * *
174514 ACGTTCGAATCCCCTATCCTTGCATCCTT-GAGTAAATTCTCATCACCATTGTT
130 ACATTTGAGTCCCCTATCC-TGC-TCCTTGGA-TAAATTCTCATCACCACTGTT
* *
174567 GTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCTTTCTTGGACTCATCCGACTTACTCT
1 GTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCCTTCTTGGACTCATCCAACTTACTCT
* * *
174632 CTTCAGTGTTTCCCTTGTTTTCTTGTGTG---AAGTTGCCAGTGCCACCATCTTTAGCCCTATTC
66 CTTCAGTGTTCCCCTTGTTTTCTTGTGTGTTTAAGTTGCCAGTGCCACCATCTTTAGCAC-ACTC
* * *
174694 ACATTTGAGTCCCCTATCCT-CT-C--GGCTAAATTCTCACCATCACTGTT
130 ACATTTGAGTCCCCTATCCTGCTCCTTGGATAAATTCTCATCACCACTGTT
* * * *
174741 GTTTGTCTGTCCAGCTTCAGAATCCAATTGCTTCTTATCCTTCTTGGACTCAACCAACTGACTGT
1 GTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCCTTCTTGGACTCATCCAACTTACTCT
* * * **
174806 CTTCAGTATTCCCCCTGTTTTCTTGCGTACTTAAGTTGCCAGTGCC
66 CTTCAGTGTTCCCCTTGTTTTCTTGTGTGTTTAAGTTGCCAGTGCC
174852 CTTGCCATCA
Statistics
Matches: 407, Mismatches: 47, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
174 101 0.25
175 1 0.00
176 1 0.00
177 79 0.19
178 1 0.00
179 5 0.01
180 112 0.28
181 4 0.01
182 2 0.00
183 101 0.25
ACGTcount: A:0.17, C:0.29, G:0.14, T:0.40
Consensus pattern (180 bp):
GTTTGTCTGTCCACCTTCAGAATCCAATTGCTTCTTATCCTTCTTGGACTCATCCAACTTACTCT
CTTCAGTGTTCCCCTTGTTTTCTTGTGTGTTTAAGTTGCCAGTGCCACCATCTTTAGCACACTCA
CATTTGAGTCCCCTATCCTGCTCCTTGGATAAATTCTCATCACCACTGTT
Found at i:175048 original size:66 final size:66
Alignment explanation
Indices: 174942--175075 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
174932 ATTGAACGTT
* *
174942 GTTGCTCTTGTCATTGCTATTATCGATTACCGGTGTAACCTGATCATCGAGTTGGTTTTTCTTTT
1 GTTGCTCCTGTCATTGCTATTATCAATTACCGGTGTAACCTGATCATCGAGTTGGTTTTTCTTTT
175007 C
66 C
175008 GTTGCTCCTGTCATTGCTATTATCAATTACCGGTGTAACCTGATCATCGAGTTGGTTTTTCTTTT
1 GTTGCTCCTGTCATTGCTATTATCAATTACCGGTGTAACCTGATCATCGAGTTGGTTTTTCTTTT
175073 C
66 C
175074 GT
1 GT
175076 GAGCCACATC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.16, C:0.20, G:0.19, T:0.45
Consensus pattern (66 bp):
GTTGCTCCTGTCATTGCTATTATCAATTACCGGTGTAACCTGATCATCGAGTTGGTTTTTCTTTT
C
Found at i:176352 original size:59 final size:59
Alignment explanation
Indices: 176289--176409 Score: 152
Period size: 59 Copynumber: 2.1 Consensus size: 59
176279 ATCCTCCGAT
* * * *
176289 TATAGAGTATTACTTTGTTGAGTCACCTATTATTAAAAGTTACAAGATGGCCCTTCAAC
1 TATAGAGTATTACTTTGTGGAGTCACCAACTATTAAAAGCTACAAGATGGCCCTTCAAC
* * * * * *
176348 TATAGGGTGTTACTTTGTGGGGTCATCAACTATTAAAAGCTACAAGATGGTCCTTCGAC
1 TATAGAGTATTACTTTGTGGAGTCACCAACTATTAAAAGCTACAAGATGGCCCTTCAAC
176407 TAT
1 TAT
176410 TAAGTGTTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (59 bp):
TATAGAGTATTACTTTGTGGAGTCACCAACTATTAAAAGCTACAAGATGGCCCTTCAAC
Found at i:182996 original size:50 final size:50
Alignment explanation
Indices: 182871--182996 Score: 137
Period size: 50 Copynumber: 2.5 Consensus size: 50
182861 TTAGCAAGAA
* * * *
182871 AGCGCGCCCCCTGAACCGCGCTATATGCTGATTTGGCTCCACGTGGATAT
1 AGCGCGCCCCCTGAACCGCGCTATACGCTGATCTGACGCCACGTGGATAT
* * * * *
182921 AGCGTGCCCCCTG-CCTCGCGATATACGGTGATCTGACGCCACGTGGGTAT
1 AGCGCGCCCCCTGAAC-CGCGCTATACGCTGATCTGACGCCACGTGGATAT
* *
182971 AGCGCACCCCCTGATCCGCGCTATAC
1 AGCGCGCCCCCTGAACCGCGCTATAC
182997 CTGGATATCT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
49 1 0.02
50 59 0.97
51 1 0.02
ACGTcount: A:0.17, C:0.35, G:0.26, T:0.21
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGCTATACGCTGATCTGACGCCACGTGGATAT
Found at i:183158 original size:12 final size:10
Alignment explanation
Indices: 183117--183157 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
183107 TTTATCACAC
183117 CAAATTCTCT
1 CAAATTCTCT
183127 CAAATTCTCT
1 CAAATTCTCT
183137 -AAATTTCTCT
1 CAAA-TTCTCT
*
183147 CAAATACTCT
1 CAAATTCTCT
183157 C
1 C
183158 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:183415 original size:111 final size:111
Alignment explanation
Indices: 183281--183502 Score: 408
Period size: 111 Copynumber: 2.0 Consensus size: 111
183271 TGGAAATCAT
* *
183281 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* *
183346 TATTTAGTTGATTGATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
183392 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
183457 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
183503 TTTTTATAAT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 107 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (111 bp):
ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:185391 original size:12 final size:12
Alignment explanation
Indices: 185355--185411 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
185345 ACCTGCTCAG
185355 GATGACGACGAT
1 GATGACGACGAT
*
185367 GACGACGATGACGAT
1 GATGAC---GACGAT
* *
185382 GGTGACGACGAC
1 GATGACGACGAT
*
185394 GATGACGATGAT
1 GATGACGACGAT
185406 GATGAC
1 GATGAC
185412 AGCGAGGAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
12 25 0.71
15 10 0.29
ACGTcount: A:0.32, C:0.18, G:0.35, T:0.16
Consensus pattern (12 bp):
GATGACGACGAT
Found at i:185407 original size:9 final size:9
Alignment explanation
Indices: 185355--185404 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
185345 ACCTGCTCAG
185355 GATGACGAC
1 GATGACGAC
185364 GATGACGAC
1 GATGACGAC
*
185373 GATGACGAT
1 GATGACGAC
*
185382 GGTGACGAC
1 GATGACGAC
* *
185391 GACGATGAC
1 GATGACGAC
185400 GATGA
1 GATGA
185405 TGATGACAGC
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.32, C:0.18, G:0.36, T:0.14
Consensus pattern (9 bp):
GATGACGAC
Found at i:187669 original size:38 final size:39
Alignment explanation
Indices: 187590--187670 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
187580 CCCCTGATTC
*
187590 GCGCTATACCCCTACGTGGCGTATAACGCGTATCAGAGG
1 GCGCTATACCCCTACGTGGCATATAACGCGTATCAGAGG
* *
187629 GCGCTATACCCC-ACGTGGCATATAGCGCGGT-TCAGGGG
1 GCGCTATACCCCTACGTGGCATATAACGC-GTATCAGAGG
187667 GCGC
1 GCGC
187671 GCTTTCCTCC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
38 24 0.63
39 14 0.37
ACGTcount: A:0.20, C:0.30, G:0.32, T:0.19
Consensus pattern (39 bp):
GCGCTATACCCCTACGTGGCATATAACGCGTATCAGAGG
Found at i:188955 original size:21 final size:21
Alignment explanation
Indices: 188929--188985 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
188919 GATTCTTGAC
188929 AATCGCAATGCGATAGTACA-
1 AATCGCAATGCGATAGTACAG
* **
188949 AATTCGCATTGCGATTTTACAG
1 AA-TCGCAATGCGATAGTACAG
*
188971 AATCGCAACGCGATA
1 AATCGCAATGCGATA
188986 TGAAAATCGC
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 2 0.07
21 25 0.86
22 2 0.07
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (21 bp):
AATCGCAATGCGATAGTACAG
Found at i:189012 original size:17 final size:19
Alignment explanation
Indices: 188990--189037 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
188980 GCGATATGAA
*
188990 AATCGCAACGTG-A-ACAT
1 AATCGCAACGCGAACACAT
189007 AATCGCAACGCGAACACAT
1 AATCGCAACGCGAACACAT
189026 AATCGCAACGCG
1 AATCGCAACGCG
189038 TATCCGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 11 0.39
18 1 0.04
19 16 0.57
ACGTcount: A:0.40, C:0.29, G:0.19, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAACACAT
Found at i:189027 original size:19 final size:17
Alignment explanation
Indices: 188971--189037 Score: 71
Period size: 19 Copynumber: 3.7 Consensus size: 17
188961 GATTTTACAG
* *
188971 AATCGCAACGCGATATGAA
1 AATCGCAACGCGA-A-CAT
*
188990 AATCGCAACGTGAACAT
1 AATCGCAACGCGAACAT
189007 AATCGCAACGCGAACACAT
1 AATCGCAACGCG-A-ACAT
189026 AATCGCAACGCG
1 AATCGCAACGCG
189038 TATCCGTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.29
18 2 0.05
19 28 0.67
ACGTcount: A:0.40, C:0.27, G:0.19, T:0.13
Consensus pattern (17 bp):
AATCGCAACGCGAACAT
Found at i:189051 original size:20 final size:20
Alignment explanation
Indices: 189026--189214 Score: 229
Period size: 20 Copynumber: 9.4 Consensus size: 20
189016 GCGAACACAT
189026 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
189046 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
189066 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
189086 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
189106 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
189126 AATCGCAACG-ATAATCAGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
189146 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
189166 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
189186 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
189206 AATCACAAC
1 AATCGCAAC
189215 ACTGAAATTT
Statistics
Matches: 147, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
19 1 0.01
20 146 0.99
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.21
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:189598 original size:19 final size:19
Alignment explanation
Indices: 189574--189629 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
189564 AATAAATTGA
189574 ATTTAGAGCCCCTAAGTGG
1 ATTTAGAGCCCCTAAGTGG
*
189593 ATTTAG-G---CT-A-T-A
1 ATTTAGAGCCCCTAAGTGG
189605 ATTTAGAGCCCCTAAGTGG
1 ATTTAGAGCCCCTAAGTGG
189624 ATTTAG
1 ATTTAG
189630 GCTATCTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 14
0.64 0.05 0.32
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 1 0.04
15 2 0.07
16 2 0.07
17 1 0.04
18 2 0.07
19 12 0.43
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (19 bp):
ATTTAGAGCCCCTAAGTGG
Found at i:189611 original size:31 final size:31
Alignment explanation
Indices: 189573--189634 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
189563 AAATAAATTG
189573 AATTTAGAGCCCCTAAGTGGATTTAGGCTAT
1 AATTTAGAGCCCCTAAGTGGATTTAGGCTAT
189604 AATTTAGAGCCCCTAAGTGGATTTAGGCTAT
1 AATTTAGAGCCCCTAAGTGGATTTAGGCTAT
189635 CTTATCAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (31 bp):
AATTTAGAGCCCCTAAGTGGATTTAGGCTAT
Found at i:190160 original size:12 final size:12
Alignment explanation
Indices: 190143--190167 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
190133 ATATAATCCT
190143 GAAGAAGAAAAA
1 GAAGAAGAAAAA
190155 GAAGAAGAAAAA
1 GAAGAAGAAAAA
190167 G
1 G
190168 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:190735 original size:71 final size:70
Alignment explanation
Indices: 190610--190751 Score: 259
Period size: 71 Copynumber: 2.0 Consensus size: 70
190600 TTGAGGGGGT
190610 CGCCAGAAGCATCGTTTGCCCACTGCCGGCTTATGTCACAATTTAAAGCTGAAAAATCCT-GGTC
1 CGCCAGAAGCATCGTTTGCCCACTGCCGGCTTATGTCACAATTTAAAGCTGAAAAATCCTGGGTC
190674 GGTAA
66 GGTAA
190679 CGCCAGAAGCATCGTTTGCCCAACTGCCGGCTTATTGTCACAATTTAAAGCTGAAAAATCCTGGG
1 CGCCAGAAGCATCGTTTGCCC-ACTGCCGGCTTA-TGTCACAATTTAAAGCTGAAAAATCCTGGG
190744 TCGGTAA
64 TCGGTAA
190751 C
1 C
190752 TCATATCAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
69 21 0.30
70 12 0.17
71 27 0.39
72 10 0.14
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (70 bp):
CGCCAGAAGCATCGTTTGCCCACTGCCGGCTTATGTCACAATTTAAAGCTGAAAAATCCTGGGTC
GGTAA
Found at i:192464 original size:33 final size:33
Alignment explanation
Indices: 192413--192592 Score: 175
Period size: 33 Copynumber: 5.2 Consensus size: 33
192403 CGGAAATTAC
* *
192413 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
*
192446 AATCCCAACAAGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGC-GAAATGAA
* * *
192480 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCG-C
1 AATCGCAA--C--AA-GAAAATCGCAATGCGA-AAT-GAA
* *
192519 AATGCGGAA-ATGAAAATCGCAATGCGAAATGAA
1 AAT-CGCAACAAGAAAATCGCAATGCGAAATGAA
* *
192552 AATCGCAACGAGAGAATCGCAATGCGAAATGAA
1 AATCGCAACAAGAAAATCGCAATGCGAAATGAA
192585 AATCGCAA
1 AATCGCAA
192593 TGCGAAATGA
Statistics
Matches: 120, Mismatches: 16, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
32 5 0.04
33 57 0.47
34 29 0.24
35 1 0.01
36 1 0.01
38 4 0.03
39 18 0.15
40 5 0.04
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAACAAGAAAATCGCAATGCGAAATGAA
Found at i:192496 original size:19 final size:19
Alignment explanation
Indices: 192427--192668 Score: 256
Period size: 19 Copynumber: 13.7 Consensus size: 19
192417 GCAACGAGAG
192427 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
192446 AATCCCAA--C--AA-GAA
1 AATCGCAATGCGAAATGAA
192460 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
192480 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
192499 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
192513 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
192533 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
192552 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
192566 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
192585 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
192604 AATCACAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
192618 AATCGCAATGCGGAAATG-A
1 AATCGCAATGC-GAAATGAA
192637 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
192656 AATCGCATTGCGA
1 AATCGCAATGCGA
192669 TTCTCTCGTT
Statistics
Matches: 188, Mismatches: 11, Indels: 48
0.76 0.04 0.19
Matches are distributed among these distances:
14 39 0.21
15 5 0.03
16 5 0.03
17 9 0.05
18 7 0.04
19 95 0.51
20 28 0.15
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:192570 original size:86 final size:84
Alignment explanation
Indices: 192413--192592 Score: 242
Period size: 86 Copynumber: 2.1 Consensus size: 84
192403 CGGAAATTAC
192413 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATG
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAA-GCGG-AATG
192478 AAAATCGCAATGCGAAATGAA
64 AAAATCGCAATGCGAAATGAA
*
192499 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA-C-G
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCCCAA--C--AA-GAAAATCGCAAGCGG
*
192562 -A-GAGAATCGCAATGCGAAATGAA
60 AATGAAAATCGCAATGCGAAATGAA
192585 AATCGCAA
1 AATCGCAA
192593 TGCGAAATGA
Statistics
Matches: 86, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
86 54 0.63
87 16 0.19
89 2 0.02
90 1 0.01
91 2 0.02
92 11 0.13
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (84 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAAGCGGAATGAA
AATCGCAATGCGAAATGAA
Found at i:192603 original size:52 final size:53
Alignment explanation
Indices: 192427--192662 Score: 422
Period size: 53 Copynumber: 4.5 Consensus size: 53
192417 GCAACGAGAG
* * *
192427 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
192480 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
192533 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGC-GAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
*
192585 AATCGCAATGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGGAAATG-A
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
192637 AATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCA
192663 TTGCGATTCT
Statistics
Matches: 177, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
52 77 0.44
53 100 0.56
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (53 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAA
Found at i:192622 original size:33 final size:33
Alignment explanation
Indices: 192480--192638 Score: 128
Period size: 33 Copynumber: 4.6 Consensus size: 33
192470 CGGAAATGAA
*
192480 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCACAACGAGAG
* *
192513 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGC-GAAATGAAAATCACAA--CG--A-GAG
* * * *
192552 AATCGCAACGAGAGAATCG-CAATGCGA-AATGA-A-
1 AATCGCAATGCGA-AAT-GAAAAT-C-ACAACGAGAG
192585 AATCGCAATGCGAAATGAAAATCACAACGAGAG
1 AATCGCAATGCGAAATGAAAATCACAACGAGAG
192618 AATCGCAATGCGGAAATGAAA
1 AATCGCAATGC-GAAATGAAA
192639 TCGCAATGCG
Statistics
Matches: 101, Mismatches: 10, Indels: 29
0.72 0.07 0.21
Matches are distributed among these distances:
30 1 0.01
31 6 0.06
32 7 0.07
33 33 0.33
34 26 0.26
36 3 0.03
38 4 0.04
39 17 0.17
40 4 0.04
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.13
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCACAACGAGAG
Found at i:192701 original size:19 final size:18
Alignment explanation
Indices: 192658--192762 Score: 109
Period size: 19 Copynumber: 6.1 Consensus size: 18
192648 GAAATGAAAA
*
192658 TCGCATTGCGA-TTC-TC
1 TCGCATTGCGATTTCATT
192674 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTTCATT
192690 TCCGCATTGCGATTTCATT
1 T-CGCATTGCGATTTCATT
*
192709 TCGCATTGCGA-TTC-TC
1 TCGCATTGCGATTTCATT
192725 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
192742 TCGCATTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
192761 TC
1 TC
192763 AACATAATGC
Statistics
Matches: 76, Mismatches: 3, Indels: 17
0.79 0.03 0.18
Matches are distributed among these distances:
14 12 0.16
15 3 0.04
16 12 0.16
17 9 0.12
18 10 0.13
19 30 0.39
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:192722 original size:51 final size:52
Alignment explanation
Indices: 192658--192762 Score: 187
Period size: 51 Copynumber: 2.0 Consensus size: 52
192648 GAAATGAAAA
192658 TCGCATTGCGATTCTCTCGTTGCGA-TTTCATTTCCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
192709 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
192761 TC
1 TC
192763 AACATAATGC
Statistics
Matches: 52, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
51 35 0.67
52 17 0.33
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:193811 original size:19 final size:19
Alignment explanation
Indices: 193787--193856 Score: 104
Period size: 19 Copynumber: 3.7 Consensus size: 19
193777 GCAACGAGAG
193787 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
**
193806 AATCGCAACGCGAAAACAA
1 AATCGCAACGCGAAATGAA
*
193825 AATCGTAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
193844 AATCGCAATGCGA
1 AATCGCAACGCGA
193857 TTTTGGTTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.47, C:0.21, G:0.20, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:193887 original size:14 final size:14
Alignment explanation
Indices: 193868--193895 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
193858 TTTGGTTTCG
193868 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
193882 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
193896 TTTCGCGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.29, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:193894 original size:33 final size:33
Alignment explanation
Indices: 193852--193975 Score: 167
Period size: 33 Copynumber: 3.7 Consensus size: 33
193842 AAAATCGCAA
*
193852 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
*
193885 TGCGATTTTGTTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* ** *
193918 TACGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
193951 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
193976 AAGTAAACTA
Statistics
Matches: 80, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 68 0.85
34 12 0.15
ACGTcount: A:0.10, C:0.18, G:0.26, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:193942 original size:19 final size:18
Alignment explanation
Indices: 193852--193943 Score: 56
Period size: 19 Copynumber: 5.4 Consensus size: 18
193842 AAAATCGCAA
*
193852 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
193871 TGCGA-TTT-TGT--CGT
1 TGCGATTTTCTTTCGCGT
*
193885 TGCGATTTTGTTTTCGCGT
1 TGCGATTTT-CTTTCGCGT
*
193904 TGCGA--TTCTGT--CGT
1 TGCGATTTTCTTTCGCGT
*
193918 TACGATTTTCATTTCGCGT
1 TGCGATTTTC-TTTCGCGT
193937 TGCGATT
1 TGCGATT
193944 CTCTCGTTGC
Statistics
Matches: 56, Mismatches: 7, Indels: 20
0.67 0.08 0.24
Matches are distributed among these distances:
14 15 0.27
15 3 0.05
16 7 0.12
17 6 0.11
18 3 0.05
19 22 0.39
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (18 bp):
TGCGATTTTCTTTCGCGT
Found at i:194311 original size:92 final size:93
Alignment explanation
Indices: 194073--194387 Score: 596
Period size: 93 Copynumber: 3.4 Consensus size: 93
194063 TCAGGGTATT
194073 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
194138 TACTATTTCACAGTGTTAAAGAATACAT
66 TACTATTTCACAGTGTTAAAGAATACAC
194166 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
194231 TACTATTTCACAGTG-TAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
194258 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
194323 GACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
194351 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
194388 AAGCAATCTA
Statistics
Matches: 218, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
92 90 0.41
93 128 0.59
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:196123 original size:21 final size:21
Alignment explanation
Indices: 196069--196168 Score: 117
Period size: 21 Copynumber: 5.1 Consensus size: 21
196059 TCTTTTGGTT
196069 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
196090 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
196110 GAAATGAAAATCGCAAC--GA
1 GAAATGAAAATCGCAACGAGA
196129 G--A-G--AATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
196145 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
196166 GAA
1 GAA
196169 TCGCAACGCG
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
14 9 0.14
16 4 0.06
17 1 0.02
18 1 0.02
19 4 0.06
20 17 0.26
21 29 0.45
ACGTcount: A:0.48, C:0.16, G:0.26, T:0.10
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:196145 original size:35 final size:35
Alignment explanation
Indices: 196069--196176 Score: 162
Period size: 35 Copynumber: 2.9 Consensus size: 35
196059 TCTTTTGGTT
196069 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAACGAGA
196110 GAAATGAAAATCGCAACGAGAGAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGAGA
196145 GAAATGAAAATCGCAACGAGAGAATCGCAACG
1 GAAATGAAAATCGCAACGAGAGAATCGCAACG
196177 CGAAACCAAA
Statistics
Matches: 67, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
35 43 0.64
38 1 0.01
40 1 0.01
41 22 0.33
ACGTcount: A:0.46, C:0.18, G:0.26, T:0.10
Consensus pattern (35 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGAGA
Found at i:196176 original size:14 final size:14
Alignment explanation
Indices: 196118--196147 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
196108 GAGAAATGAA
196118 AATCGCAACGAGAG
1 AATCGCAACGAGAG
196132 AATCGCAACGAGAG
1 AATCGCAACGAGAG
196146 AA
1 AA
196148 ATGAAAATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.20, G:0.27, T:0.07
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:196274 original size:41 final size:41
Alignment explanation
Indices: 196217--196294 Score: 147
Period size: 41 Copynumber: 1.9 Consensus size: 41
196207 TCGCGTTGCG
*
196217 ATTCTCTCGTTGCGATTTTCATTTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
196258 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
1 ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGAC
196295 TCTTCTGCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.45
Consensus pattern (41 bp):
ATTCTCTCGTTGCGATTTTCATTTATCTCGTTGCGACAGTC
Found at i:196279 original size:20 final size:21
Alignment explanation
Indices: 196218--196293 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
196208 CGCGTTGCGA
196218 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
***
196239 TTCTCTCGTTGCGACAGTCA-
1 TTCTCTCGTTGCGATTTTCAT
196259 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
196280 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
196294 CTCTTCTGCA
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:196415 original size:33 final size:33
Alignment explanation
Indices: 196373--196443 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
196363 AATACTAACT
196373 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
196406 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
196439 TGAAA
1 TGAAA
196444 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:196848 original size:20 final size:20
Alignment explanation
Indices: 196823--196995 Score: 242
Period size: 20 Copynumber: 8.7 Consensus size: 20
196813 CTTTAAAAAT
196823 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
196843 CGCGTTGCGATTTACTGATTA
1 CGCGTTGCGATTTACGGA-TA
*
196864 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
196883 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* *
196903 CGCATTGCGATTTATGGATA
1 CGCGTTGCGATTTACGGATA
196923 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
196943 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
196963 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
196983 CGCGTTGCGATTT
1 CGCGTTGCGATTT
196996 TAATATTCGC
Statistics
Matches: 136, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
19 2 0.01
20 131 0.96
21 3 0.02
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:197004 original size:20 final size:21
Alignment explanation
Indices: 196963--197016 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
196953 TTTACGGATA
* *
196963 CGCGTTGCGA-TTTATGTGTT
1 CGCGTTGCGATTTTATATATT
196983 CGCGTTGCGATTTTA-ATATT
1 CGCGTTGCGATTTTATATATT
197003 CGCGTTGCGATTTT
1 CGCGTTGCGATTTT
197017 GGAAACTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.44
Consensus pattern (21 bp):
CGCGTTGCGATTTTATATATT
Found at i:197009 original size:60 final size:59
Alignment explanation
Indices: 196822--197015 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 59
196812 GCTTTAAAAA
* ** *
196822 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTACTGATTATCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTA-TGGTTCGCGTTGCGATTTACAGAT
* * * * *
196882 ACGCGTTGCGATATACGGATACGCATTGCGATTTATGGATACGCGTTGCGATTTACGGAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGG-TTCGCGTTGCGATTTACAGAT
* * *
196942 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTA-ATAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATG-GTTCGCGTTGCGA-TTTACAGAT
197002 TCGCGTTGCGATTT
1 TCGCGTTGCGATTT
197016 TGGAAACTGA
Statistics
Matches: 116, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
59 2 0.02
60 109 0.94
61 5 0.04
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.36
Consensus pattern (59 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGGTTCGCGTTGCGATTTACAGAT
Found at i:202563 original size:40 final size:39
Alignment explanation
Indices: 202508--202587 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 39
202498 ACGAAATAAA
*
202508 ACCGATACTTTAGGTACTAAATGTGTAGTTTACCCTTCTT
1 ACCGATACTTTAGGTACTAAATGT-TAGTCTACCCTTCTT
*
202548 ACCGATATTTTAGGTACTAAATGTTAGTCTACCCTTCTT
1 ACCGATACTTTAGGTACTAAATGTTAGTCTACCCTTCTT
202587 A
1 A
202588 TATTTAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 15 0.39
40 23 0.61
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (39 bp):
ACCGATACTTTAGGTACTAAATGTTAGTCTACCCTTCTT
Done.