Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1057
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: 84757
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Found at i:1741 original size:15 final size:15
Alignment explanation
Indices: 1723--1753 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1713 TTGATGGAAA
1723 AATCTAAAGCACTTG
1 AATCTAAAGCACTTG
*
1738 AATCTAAAGCATTTG
1 AATCTAAAGCACTTG
1753 A
1 A
1754 TTTTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (15 bp):
AATCTAAAGCACTTG
Found at i:2054 original size:110 final size:109
Alignment explanation
Indices: 1925--2164 Score: 313
Period size: 110 Copynumber: 2.2 Consensus size: 109
1915 AAAATGTTTG
*
1925 GTGGTATATCCAAAGCTTTTAATGGTGGTAA-TTGGAATAATTGTCAAAA-TATTTGGTGGTATA
1 GTGGTATATCCAAAACTTTTAATGGTGGTAACTT-GAATAATTGT-AAAATTATTTGGTGGTATA
* *
1988 TCCAAAACTTCTAGTGGTGGTAATCTAAAAAATTTTCAAAGTCTTTA
64 TCCAAAACTTCTAGTGGTAGTAA-CCAAAAAATTTTCAAAGTCTTTA
** * * *
2035 GTGGTATATCCAAAACTTTTGGTGTTGGTAACTTGAATAATTGTAAAATTCTTTGGTGGTGTATC
1 GTGGTATATCCAAAACTTTTAATGGTGGTAACTTGAATAATTGTAAAATTATTTGGTGGTATATC
* * * * *
2100 CAAAGCTTCTTGTGGTAGTAACCGAAAAATTTTCAAAGTTTTTG
66 CAAAACTTCTAGTGGTAGTAACCAAAAAATTTTCAAAGTCTTTA
*
2144 GTGGTATATCCAAATCTTTTA
1 GTGGTATATCCAAAACTTTTA
2165 GTAGTAGTAA
Statistics
Matches: 113, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
109 42 0.37
110 69 0.61
111 2 0.02
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (109 bp):
GTGGTATATCCAAAACTTTTAATGGTGGTAACTTGAATAATTGTAAAATTATTTGGTGGTATATC
CAAAACTTCTAGTGGTAGTAACCAAAAAATTTTCAAAGTCTTTA
Found at i:2154 original size:54 final size:54
Alignment explanation
Indices: 1921--2192 Score: 253
Period size: 55 Copynumber: 5.0 Consensus size: 54
1911 TAAAAAAATG
* * * * * * *
1921 TTTGGTGGTATATCCAAAGCTTTTAATGGTGGTAATTGGAATAATTGTCAAAATA
1 TTTGGTGGTATATCCAAAACTTTTAGTGGTGGTAACT-GAAAAATTTTCAAAGTT
* * *
1976 TTTGGTGGTATATCCAAAACTTCTAGTGGTGGTAATCTAAAAAATTTTCAAAGTC
1 TTTGGTGGTATATCCAAAACTTTTAGTGGTGGTAA-CTGAAAAATTTTCAAAGTT
* * * * * *
2031 TTTAGTGGTATATCCAAAACTTTTGGTGTTGGTAACTTGAATAATTGT-AAAATT
1 TTTGGTGGTATATCCAAAACTTTTAGTGGTGGTAAC-TGAAAAATTTTCAAAGTT
* * * *
2085 CTTTGGTGGTGTATCCAAAGCTTCTT-GTGGTAGTAACCGAAAAATTTTCAAAGTT
1 -TTTGGTGGTATATCCAAAACTT-TTAGTGGTGGTAACTGAAAAATTTTCAAAGTT
* * * *
2140 TTTGGTGGTATATCCAAATCTTTTAGTAGTAGTAA-TAAAAAAATTTTCAAAGT
1 TTTGGTGGTATATCCAAAACTTTTAGTGGTGGTAACT-GAAAAATTTTCAAAGT
2193 CTTCAATGTT
Statistics
Matches: 178, Mismatches: 32, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
53 2 0.01
54 57 0.32
55 116 0.65
56 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (54 bp):
TTTGGTGGTATATCCAAAACTTTTAGTGGTGGTAACTGAAAAATTTTCAAAGTT
Found at i:3194 original size:32 final size:33
Alignment explanation
Indices: 3153--3220 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
3143 GTAGCTAAAC
**
3153 TTGTATCGATACA-CATAGTATGTATCAATACA
1 TTGTATCGATACACCATAAAATGTATCAATACA
*
3185 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCAATACA
3218 TTG
1 TTG
3221 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCAATACA
Found at i:3499 original size:33 final size:31
Alignment explanation
Indices: 3462--3525 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
3452 TTTTCAAAGA
*
3462 TCAAAGTGTTTTATATTTTTCAAGAGCT-TTTGT
1 TCAAAGTGTTAT-TA-TTTTCAA-AGCTCTTTGT
*
3495 TCAAATTGTTATTATTTTCAAAGCTCTTTGT
1 TCAAAGTGTTATTATTTTCAAAGCTCTTTGT
3526 ATTTGATTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.14
31 12 0.43
32 2 0.07
33 10 0.36
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (31 bp):
TCAAAGTGTTATTATTTTCAAAGCTCTTTGT
Found at i:7478 original size:28 final size:28
Alignment explanation
Indices: 7438--7504 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
7428 AAAATCAGGA
** * *
7438 TTGGAGTATCCCCTCGGAAGTAACGGGG
1 TTGGAGTATCCCCGAGGAAATAACGAGG
*
7466 TTGGAGTATCCCCGATGAAATAACGAGG
1 TTGGAGTATCCCCGAGGAAATAACGAGG
7494 TTGGAGTATCC
1 TTGGAGTATCC
7505 TCGATTGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.24
Consensus pattern (28 bp):
TTGGAGTATCCCCGAGGAAATAACGAGG
Found at i:9851 original size:55 final size:54
Alignment explanation
Indices: 9767--10167 Score: 574
Period size: 55 Copynumber: 7.3 Consensus size: 54
9757 AAAGTGTATT
* * *
9767 CTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTC
1 CTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
9822 CTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
*
9877 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * * *
9932 CTGCTCTTTGAGGACTGGAAAATACCACCAACTTGTCTGGGCTTTGAGAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* *
9987 CTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* *
10042 CTGCTCTTTGGGGACTGAAGGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGAA-AGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
*
10097 CTGCTCTTTGAGGACCGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
10152 CTGCTCTTTGAGGACT
1 CTGCTCTTTGAGGACT
10168 AAAAAGCGGA
Statistics
Matches: 320, Mismatches: 19, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
54 10 0.03
55 304 0.95
56 6 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (54 bp):
CTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
Found at i:9952 original size:27 final size:27
Alignment explanation
Indices: 9812--9952 Score: 65
Period size: 28 Copynumber: 5.1 Consensus size: 27
9802 TGTGGGCTTT
*
9812 GAAAGGCGTCCTGCTCTTTGAGGACT-
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
** * * * *
9838 GAAAGGTG-CCACCAACTTGTGTGGGCTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
9866 TAAGAGGTGTCCTGCTCTTTGAGGACTG
1 GAA-AGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
9894 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
9922 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
9949 GAAA
1 GAAA
9953 ATACCACCAA
Statistics
Matches: 77, Mismatches: 28, Indels: 19
0.62 0.23 0.15
Matches are distributed among these distances:
25 6 0.08
26 15 0.19
27 17 0.22
28 20 0.26
29 13 0.17
30 6 0.08
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:11155 original size:1 final size:1
Alignment explanation
Indices: 11151--11221 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
11141 CTTTTCTCTC
* * * * * * ** * *
11151 TTTTTCTTTGTTTTGTTTTTTTTGTTTTGTTTTTTTTCTTTTTTTTTGCTCTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
11216 TTTTTT
1 TTTTTT
11222 GAAGAGAAGG
Statistics
Matches: 51, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (1 bp):
T
Found at i:11169 original size:14 final size:14
Alignment explanation
Indices: 11151--11197 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
11141 CTTTTCTCTC
11151 TTTTTCTTTGTTTTG
1 TTTTT-TTTGTTTTG
11166 TTTTTTTTGTTTTG
1 TTTTTTTTGTTTTG
*
11180 TTTTTTTTCTTTT-
1 TTTTTTTTGTTTTG
11193 TTTTT
1 TTTTT
11198 GCTCTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 5 0.16
14 21 0.68
15 5 0.16
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:11192 original size:22 final size:21
Alignment explanation
Indices: 11137--11222 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 21
11127 AGCAGGTTCT
*
11137 TTTTCTTTTCTCTCTTTTTCTTTG
1 TTTT-TTTTCT-T-TTTTTTTTTG
* *
11161 -TTTTGTT-TTTTTTGTTTTG
1 TTTTTTTTCTTTTTTTTTTTG
* *
11180 TTTTTTTTCTTTTTTTTTGCTC
1 TTTTTTTTCTTTTTTTTT-TTG
11202 TTTTTTTTCTTTTTTTTTTTG
1 TTTTTTTTCTTTTTTTTTTTG
11223 AAGAGAAGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
19 8 0.16
20 7 0.14
21 10 0.20
22 22 0.44
23 3 0.06
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (21 bp):
TTTTTTTTCTTTTTTTTTTTG
Found at i:11196 original size:9 final size:9
Alignment explanation
Indices: 11137--11218 Score: 60
Period size: 9 Copynumber: 8.9 Consensus size: 9
11127 AGCAGGTTCT
11137 TTTTCTTTTC
1 TTTT-TTTTC
*
11147 TCTCTTTTTC
1 T-TTTTTTTC
* *
11157 TTTGTTTTG
1 TTTTTTTTC
*
11166 TTTTTTTTG
1 TTTTTTTTC
11175 TTTTGTTTT-
1 TTTT-TTTTC
11184 TTTTCTTTT-
1 TTTT-TTTTC
**
11193 TTTTTGCTC
1 TTTTTTTTC
11202 TTTTTTTTC
1 TTTTTTTTC
11211 TTTTTTTT
1 TTTTTTTT
11219 TTTGAAGAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
8 2 0.03
9 44 0.75
10 11 0.19
11 2 0.03
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:11206 original size:14 final size:13
Alignment explanation
Indices: 11134--11222 Score: 62
Period size: 12 Copynumber: 7.0 Consensus size: 13
11124 TTAAGCAGGT
* *
11134 TCTTTTTCTTTTC
1 TCTTTTTTTTTTG
*
11147 TCTCTTTTTCTTTG
1 TCT-TTTTTTTTTG
*
11161 TTTTGTTTTTTTTG
1 TCTT-TTTTTTTTG
11175 T-TTTGTTTTTTT-
1 TCTTT-TTTTTTTG
11187 TC-TTTTTTTTTG
1 TCTTTTTTTTTTG
* *
11199 -CTCTTTTTTTTC
1 TCTTTTTTTTTTG
11211 T-TTTTTTTTTTG
1 TCTTTTTTTTTTG
11223 AAGAGAAGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
11 8 0.13
12 21 0.35
13 13 0.22
14 18 0.30
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (13 bp):
TCTTTTTTTTTTG
Found at i:23747 original size:28 final size:28
Alignment explanation
Indices: 23696--23767 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
23686 AAAATCAGGA
*** * *
23696 TTGGAGTATCCCCTCGGAAGTAACGGGG
1 TTGGAGTATCCCCGATGAAATAACGAGG
23724 TTGGAGTATCCCCGATGAAATAACGAGG
1 TTGGAGTATCCCCGATGAAATAACGAGG
* *
23752 TTGGAATATCCTCGAT
1 TTGGAGTATCCCCGAT
23768 TGTGAAAAAT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (28 bp):
TTGGAGTATCCCCGATGAAATAACGAGG
Found at i:26194 original size:13 final size:13
Alignment explanation
Indices: 26176--26201 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
26166 ACAAAGATCC
26176 ATGTATCGATACA
1 ATGTATCGATACA
26189 ATGTATCGATACA
1 ATGTATCGATACA
26202 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:26197 original size:33 final size:33
Alignment explanation
Indices: 26155--26221 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
26145 AAAATTTCCA
***
26155 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
26188 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
26221 A
1 A
26222 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:26265 original size:19 final size:18
Alignment explanation
Indices: 26241--26308 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
26231 CAGTAGCTAA
26241 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
26260 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
26275 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
26292 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
26309 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:26281 original size:13 final size:13
Alignment explanation
Indices: 26263--26287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
26253 ACAATACTTA
26263 TGTATCGATACAT
1 TGTATCGATACAT
26276 TGTATCGATACA
1 TGTATCGATACA
26288 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:26285 original size:32 final size:32
Alignment explanation
Indices: 26244--26306 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
26234 TAGCTAATTA
*
26244 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
26276 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
26307 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:26388 original size:21 final size:21
Alignment explanation
Indices: 26364--26441 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
26354 CATTTGTAGG
*
26364 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCTACAA
26385 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCTACAA
26406 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCTACAA
26427 ATGTATCGATACATT
1 ATGTATCGATACATT
26442 TGGATAAATT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCTACAA
Found at i:27245 original size:28 final size:28
Alignment explanation
Indices: 27214--27300 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
27204 TGAGGACTAA
27214 AAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
** * *
27242 AAAG-G-CATCCTGCTC-TTTGAGGAC-TGG
1 AAAGTGCCA-CCAACTCGTGTG-GG-CTTTG
* *
27269 AAAATGCCACCAACTTGTGTGGGCTTTG
1 AAAGTGCCACCAACTCGTGTGGGCTTTG
27297 AAAG
1 AAAG
27301 GTGTCCTGCT
Statistics
Matches: 41, Mismatches: 11, Indels: 14
0.62 0.17 0.21
Matches are distributed among these distances:
26 5 0.12
27 14 0.34
28 17 0.41
29 5 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (28 bp):
AAAGTGCCACCAACTCGTGTGGGCTTTG
Found at i:27280 original size:55 final size:55
Alignment explanation
Indices: 27196--27651 Score: 715
Period size: 55 Copynumber: 8.3 Consensus size: 55
27186 AAAGTGTATT
* * **
27196 CTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCATC
1 CTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
27251 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * *
27306 CTGCTCTTTGAGGACTGGAAAATGCTACCAACTTGTTTGGGCTTTGAGAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
27361 CTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
27416 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
27471 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* **
27526 CTGCTCTTTGGGGACT-GAAGGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGGAA-AATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
* *
27581 CTGCTCTTTGAGGAC-CGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
27636 CTGCTCTTTGAGGACT
1 CTGCTCTTTGAGGACT
27652 AAAAAGCGGA
Statistics
Matches: 378, Mismatches: 17, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
54 5 0.01
55 369 0.98
56 4 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.29
Consensus pattern (55 bp):
CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
Found at i:27436 original size:27 final size:27
Alignment explanation
Indices: 27406--27491 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
27396 TGTGGGCTTT
27406 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
27433 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
27461 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
27488 GAAA
1 GAAA
27492 ATGCCACCAA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:28639 original size:1 final size:1
Alignment explanation
Indices: 28635--28704 Score: 50
Period size: 1 Copynumber: 70.0 Consensus size: 1
28625 CTTTTCTCTC
* * * * * * ** * *
28635 TTTTTCTTTGTTTTGTTTTTTTGTTTTGTTTTTTTTCTTTTTTTTTGCTCTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
28700 TTTTT
1 TTTTT
28705 GAAGAGAAGG
Statistics
Matches: 50, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (1 bp):
T
Found at i:28659 original size:13 final size:12
Alignment explanation
Indices: 28635--28705 Score: 72
Period size: 12 Copynumber: 5.8 Consensus size: 12
28625 CTTTTCTCTC
*
28635 TTTTTCTTTGTT
1 TTTTTTTTTGTT
28647 TTGTTTTTTTGTT
1 TT-TTTTTTTGTT
*
28660 TTGTTTTTTT-TC
1 TT-TTTTTTTGTT
*
28672 TTTTTTTTTGCT
1 TTTTTTTTTGTT
* *
28684 CTTTTTTTTCTT
1 TTTTTTTTTGTT
28696 TTTTTTTTTG
1 TTTTTTTTTG
28706 AAGAGAAGGT
Statistics
Matches: 48, Mismatches: 9, Indels: 4
0.79 0.15 0.07
Matches are distributed among these distances:
11 7 0.15
12 22 0.46
13 19 0.40
ACGTcount: A:0.00, C:0.07, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:28670 original size:22 final size:21
Alignment explanation
Indices: 28620--28704 Score: 89
Period size: 22 Copynumber: 3.8 Consensus size: 21
28610 AAGCAGGTTC
28620 TTTTTCTTTTCTCTCTTTTTCTTT
1 TTTTTCTTTT-T-T-TTTTTCTTT
* * *
28644 GTTTTGTTTTTTTGTTTTGTTT
1 TTTTTCTTTTTTT-TTTTCTTT
*
28666 TTTTTCTTTTTTTTTGCTCTTT
1 TTTTTCTTTTTTTTT-TTCTTT
28688 TTTTTCTTTTTTTTTTT
1 TTTTTCTTTTTTTTTTT
28705 GAAGAGAAGG
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
21 4 0.08
22 38 0.75
23 1 0.02
24 8 0.16
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.84
Consensus pattern (21 bp):
TTTTTCTTTTTTTTTTTCTTT
Found at i:28679 original size:9 final size:9
Alignment explanation
Indices: 28620--28701 Score: 58
Period size: 9 Copynumber: 8.6 Consensus size: 9
28610 AAGCAGGTTC
28620 TTTTTCTTT
1 TTTTTCTTT
* *
28629 TCTCTCTTT
1 TTTTTCTTT
*
28638 TTCTTTGTTT
1 TT-TTTCTTT
28648 TGTTTT-TTT
1 T-TTTTCTTT
* *
28657 GTTTTGTTT
1 TTTTTCTTT
28666 TTTTTCTTTTT
1 TTTTTC--TTT
28677 TTTTGCTCTTT
1 TTTT--TCTTT
28688 TTTTTCTTT
1 TTTTTCTTT
28697 TTTTT
1 TTTTT
28702 TTTGAAGAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
8 4 0.07
9 28 0.48
10 9 0.16
11 15 0.26
13 2 0.03
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:31886 original size:8 final size:8
Alignment explanation
Indices: 31869--31900 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
31859 ATTTGATTAA
31869 ATTTTGTG
1 ATTTTGTG
*
31877 ATTTTATG
1 ATTTTGTG
31885 ATTTTGTG
1 ATTTTGTG
31893 ATTTTGTG
1 ATTTTGTG
31901 TTGAATGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:32128 original size:12 final size:13
Alignment explanation
Indices: 32104--32141 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
32094 ACATAATTCT
32104 TTGTATCGATACA
1 TTGTATCGATACA
32117 TTGTAT-GATACA
1 TTGTATCGATACA
* *
32129 CTGTATCAATACA
1 TTGTATCGATACA
32142 GGGGGATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:34694 original size:13 final size:13
Alignment explanation
Indices: 34676--34700 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34666 ACACATAGTA
34676 TGTATCGATACAT
1 TGTATCGATACAT
34689 TGTATCGATACA
1 TGTATCGATACA
34701 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:34697 original size:32 final size:33
Alignment explanation
Indices: 34656--34723 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
34646 GTAGCTAAAC
**
34656 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
34688 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
34721 TTG
1 TTG
34724 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:36929 original size:13 final size:13
Alignment explanation
Indices: 36911--36936 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
36901 AATTTTTTGG
36911 TGTATCGATACAT
1 TGTATCGATACAT
36924 TGTATCGATACAT
1 TGTATCGATACAT
36937 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:38468 original size:21 final size:20
Alignment explanation
Indices: 38439--38478 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38429 GGCTAGTGTA
*
38439 GGGACTGCCCGGTTGCGACCC
1 GGGACTG-CCGGTCGCGACCC
*
38460 GGGAGTGCCGGTCGCGACC
1 GGGACTGCCGGTCGCGACC
38479 TAGTGGGTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.10, C:0.35, G:0.42, T:0.12
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCC
Found at i:45894 original size:18 final size:18
Alignment explanation
Indices: 45850--45901 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
45840 TTCTTTAATC
45850 ATTTTCTTTA-ATATA-G
1 ATTTTCTTTATATATATG
* *
45866 TTTCTTTTTTATATATATG
1 ATT-TTCTTTATATATATG
45885 ATTTTCTTTATATATAT
1 ATTTTCTTTATATATAT
45902 TTAATTAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 2 0.07
17 6 0.21
18 18 0.62
19 3 0.10
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (18 bp):
ATTTTCTTTATATATATG
Found at i:46427 original size:13 final size:13
Alignment explanation
Indices: 46409--46434 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
46399 TTTTACAATT
46409 TGTATCGATACAA
1 TGTATCGATACAA
46422 TGTATCGATACAA
1 TGTATCGATACAA
46435 AACTACTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:48858 original size:27 final size:27
Alignment explanation
Indices: 48828--48893 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
48818 TATCATCATC
48828 GGGGGCACTCCAACCTCATTCCTCCGA
1 GGGGGCACTCCAACCTCATTCCTCCGA
*
48855 GGGGGCACTCCAACCTCATTTCTCCGA
1 GGGGGCACTCCAACCTCATTCCTCCGA
*
48882 GGGGACACTCCA
1 GGGGGCACTCCA
48894 TCCCCGTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.20, C:0.38, G:0.24, T:0.18
Consensus pattern (27 bp):
GGGGGCACTCCAACCTCATTCCTCCGA
Found at i:60995 original size:52 final size:52
Alignment explanation
Indices: 60917--61034 Score: 209
Period size: 52 Copynumber: 2.3 Consensus size: 52
60907 AAGTTGCTTG
*
60917 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
* *
60969 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
61021 CATGTATCGATACA
1 CATGTATCGATACA
61035 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:61047 original size:52 final size:51
Alignment explanation
Indices: 60910--61054 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
60900 ATATGAAAAG
*
60910 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* * *
60962 TTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
61014 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
61055 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:61061 original size:13 final size:13
Alignment explanation
Indices: 61043--61067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61033 CAAAGATCAG
61043 TGTATCGATACAA
1 TGTATCGATACAA
61056 TGTATCGATACA
1 TGTATCGATACA
61068 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:62316 original size:49 final size:49
Alignment explanation
Indices: 62107--62395 Score: 421
Period size: 49 Copynumber: 6.0 Consensus size: 49
62097 AAAAGGATGT
*
62107 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
62159 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
62202 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
62250 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
62299 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
62348 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTG
62396 AGAAAAGTGA
Statistics
Matches: 214, Mismatches: 16, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
43 39 0.18
47 1 0.00
48 48 0.22
49 94 0.44
52 32 0.15
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:62386 original size:146 final size:143
Alignment explanation
Indices: 62107--63224 Score: 803
Period size: 141 Copynumber: 7.6 Consensus size: 143
62097 AAAAGGATGT
62107 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGG-AAAGGTGCCAATATGCTGATT
* *
62172 CAAGGCCAGCTATATTGGACTTAAAGGTGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
65 CAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
62237 AAAGATG-AGGTGC
130 AAAGATGAAGGTGC
*
62250 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAGGTGCCAATATGCTGATTC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
62313 AAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTG
66 AAGGCCAGCTATATTGGACTT-A-----AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTG
*
62378 GACTTAAAGATGAAGGTGA
125 GACTTAAAGATGAAGGTGC
* ** * * ** ** * *
62397 GAA-AAG-TGA-TAAAGATGCCA-ATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 CAATGTGCTGATTCAAG--GCCAGCTACATTGA---AC--TTAA--AGA-T-GG---AAAGGTG-
** * * * * *
62458 GAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCC
51 CCAATATGCTG---A--------TTCAAGGCCAGCTATATTGGAC-T-----T---AAAGGTGCC
* * * *
62523 AATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGT
96 AATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
62565 CAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGA--AAAAGGTGCCAATATGCTGATTC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
* * * *
62628 AAGGCCAGCGATATCGGGCTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
66 AAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
*
62693 AAGATGAAGATGC
131 AAGATGAAGGTGC
* * * * ** * * * *
62706 CAATATGCTGATTCAAGGCCAGCGATATCGGGCTTAAAGGT-G-AAGGGGCCAATGTGCTGAGTC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
* * * * *
62769 AAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
66 AAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTG
62834 GACTT-AA-A-G-A--TGC
125 GACTTAAAGATGAAGGTGC
* * * *
62847 CAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-AAGGTGCCAATGTGCTGATTC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
*
62910 AAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTG
66 AAGGCCAGCTATATTGGAC-T-----TAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTG
*
62975 GACTTAAAGATAAAGGTGC
125 GACTTAAAGATGAAGGTGC
* * * * *
62994 CAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T--AAAGGTGCCAATGTGCTGAGTC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
* * * * * *
63051 AAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCG
66 AAGGCCAGCTATATTGGACTT------AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTG
*
63116 GGCTTAAAGATGAAGGTGC
125 GACTTAAAGATGAAGGTGC
* **
63135 CAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGAT--AAAGGTGCCAATATGCTGATTC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
*
63198 AAGGCCAGCTATATTGGGCTTAGAAGG
66 AAGGCCAGCTATATTGGACTTA-AAGG
63225 GTTGCCACTG
Statistics
Matches: 789, Mismatches: 106, Indels: 161
0.75 0.10 0.15
Matches are distributed among these distances:
135 42 0.05
138 1 0.00
139 1 0.00
140 43 0.05
141 314 0.40
142 9 0.01
143 43 0.05
144 22 0.03
145 10 0.01
146 55 0.07
147 121 0.15
148 2 0.00
150 2 0.00
152 3 0.00
153 1 0.00
155 7 0.01
156 6 0.01
159 5 0.01
160 6 0.01
163 3 0.00
165 2 0.00
167 2 0.00
168 8 0.01
169 5 0.01
170 9 0.01
171 24 0.03
172 1 0.00
174 39 0.05
177 1 0.00
179 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (143 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAGGTGCCAATATGCTGATTC
AAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
AAGATGAAGGTGC
Found at i:62632 original size:49 final size:49
Alignment explanation
Indices: 62461--63219 Score: 909
Period size: 49 Copynumber: 15.9 Consensus size: 49
62451 AAGATGAGAA
* *
62461 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
62511 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * *
62557 AAAGGTGTCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGAA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * * *
62606 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGC-T-----T
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
62649 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * * * * * *
62698 GAAGATGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTTAAAGGT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * *
62747 GAAGGGGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
62796 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG--
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
62843 --A--TGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
*
62888 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
*
62937 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
62986 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
63029 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * * *
63078 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * *
63127 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
* * *
63176 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
63220 GAAGGGTTGC
Statistics
Matches: 603, Mismatches: 79, Indels: 52
0.82 0.11 0.07
Matches are distributed among these distances:
43 150 0.25
44 3 0.00
45 1 0.00
46 1 0.00
47 1 0.00
48 2 0.00
49 407 0.67
51 1 0.00
52 32 0.05
53 5 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
Found at i:62654 original size:92 final size:92
Alignment explanation
Indices: 62461--63224 Score: 1069
Period size: 92 Copynumber: 8.1 Consensus size: 92
62451 AAGATGAGAA
* * *
62461 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTGCCAAT
62526 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
62557 AAAGGTGTCAATGTGCTGATTTAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
62622 TGATTCAAGGCCAGCGATATCGGGCTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * *
62649 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
62714 TGATTCAAGGCCAGCGATATCGGGCTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
62741 AAAGGTGAAGGGGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCA
1 AAAGGT------GCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
62806 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
62839 AAAGATGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
*
62904 TGATTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCTATATTGGAC-T-----T
62937 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
63002 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
63029 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * *
63094 TGATTCAAGGCCAGCGATATCGGGCTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
63121 AAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGTCTTAAAGATAAAGGTGCCA
1 ----A--AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
*
63186 ATATGCTGATTCAAGGCCAGCTATATTGGGCTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
63219 AGAAGG
1 A-AAGG
63225 GTTGCCACTG
Statistics
Matches: 613, Mismatches: 37, Indels: 39
0.89 0.05 0.06
Matches are distributed among these distances:
92 301 0.49
93 6 0.01
94 1 0.00
95 41 0.07
96 6 0.01
97 1 0.00
98 257 0.42
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:62802 original size:190 final size:190
Alignment explanation
Indices: 62461--63224 Score: 1171
Period size: 190 Copynumber: 4.0 Consensus size: 190
62451 AAGATGAGAA
* * *
62461 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* * * * *
62526 ATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGTCAATGTGCTGATTTAAGGCC
62 ATGCTGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCC
* * * *
62585 AGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTT
127 AGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
62649 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
62714 TGATTCAAGGCCAGCGATATCGGGCTTAAAGGTGAAGGGGCCAATGTGCTGAGTCAAGGCCAGCT
66 TGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
*
62779 ACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
131 ACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
62839 AAAGATGCCAATGTGTTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * * *
62904 TGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
66 TGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
62969 ACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
131 ACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
**
63029 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
63094 TGATTCAAGGCCAGCGATATCGGGCTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
66 TGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
* *
63159 ACATTGGTCTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
131 ACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
63219 AGAAGG
1 A-AAGG
63225 GTTGCCACTG
Statistics
Matches: 528, Mismatches: 41, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
184 38 0.07
186 1 0.00
187 42 0.08
188 5 0.01
190 438 0.83
191 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (190 bp):
AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATCGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCT
ACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:63260 original size:32 final size:32
Alignment explanation
Indices: 63212--63388 Score: 220
Period size: 31 Copynumber: 5.5 Consensus size: 32
63202 CCAGCTATAT
63212 TGGGC-TTAGA-AGGGTTGCCACTGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACTGACTTGTG
63242 TGGGCTTTAGAGAGGGTTGCCA-TCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACT-GACTTGTG
* **
63274 TGGGCTTT-GAGGGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACTGACTTGTG
*
63305 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTTAGAG-AGGG-TTGCCACTGACTTGTG
*
63339 TGGGCTTTAGAGAAGGTTTGCCA-TCGACTTGTG
1 TGGGCTTTAGAG-AGGGTTGCCACT-GACTTGTG
*
63372 TGGGCTTTAGAAAGGGT
1 TGGGCTTTAGAGAGGGT
63389 GAAAGATGCC
Statistics
Matches: 130, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.04
31 33 0.25
32 33 0.25
33 28 0.22
34 31 0.24
ACGTcount: A:0.17, C:0.16, G:0.37, T:0.31
Consensus pattern (32 bp):
TGGGCTTTAGAGAGGGTTGCCACTGACTTGTG
Found at i:63336 original size:34 final size:34
Alignment explanation
Indices: 63219--63388 Score: 239
Period size: 33 Copynumber: 5.2 Consensus size: 34
63209 TATTGGGCTT
*
63219 AGAAGGG-TTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
*
63252 AG-AGGG-TTGCCATCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* *
63283 AG--GGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
63315 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
*
63349 AGAA-GGTTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
63382 A-AAGGGT
1 AGAAGGGT
63389 GAAAGATGCC
Statistics
Matches: 125, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
30 3 0.02
31 25 0.20
32 31 0.25
33 34 0.27
34 32 0.26
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:63367 original size:33 final size:33
Alignment explanation
Indices: 63219--63388 Score: 249
Period size: 32 Copynumber: 5.2 Consensus size: 33
63209 TATTGGGCTT
*
63219 AGAAGGGTTGCCACTGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
63252 AG-AGGGTTGCCATCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
63283 AG-GGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
63315 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
* *
63349 AGAAGGTTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
63382 A-AAGGGT
1 AGAAGGGT
63389 GAAAGATGCC
Statistics
Matches: 124, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
31 28 0.23
32 34 0.27
33 31 0.25
34 31 0.25
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:63501 original size:34 final size:35
Alignment explanation
Indices: 63370--64236 Score: 971
Period size: 34 Copynumber: 25.3 Consensus size: 35
63360 CATCGACTTG
** *
63370 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGT
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGT
* * * *
63406 TGTGGAC-TTAAAAAGAACAAG-GTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
63439 TGTGGGCTTTAAAAAGGAAAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGG--AAAAAGAGTGCCACGGAGT
*
63477 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
63511 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
63545 TGTGGGC-TTAGAAGG-AAAAGAGTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
63578 TGTGGGCTTT-AAAGG-AAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
63611 CGTGGAC-TTAAAA-G-----G-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
63638 TGTGGGC-TTAGAAGG-AAAAGAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAG-A-GTGCCACGGAGT
63673 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
*
63710 TGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
63744 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
* * *
63781 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
63816 TGTGGGCTTTAAAA-GAAAAAG-GTGCCACGTAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
63849 TGTGGACTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
* * * *
63886 TGTGGGGTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
63921 TGTGGGCTTTAAAA-GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
63954 TGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
** * * *
63991 TGTGGGCTTTAAAAACAAAAAGTGTGCCGCAGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
64026 TGTGGGCTTTAAACA-GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
* *
64060 TGTGGGC-TTAGAAGGAAAAAG-GTGCCATGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
* *
64093 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
*
64127 TGTGGGCTTTGAAAA-GAACAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
*
64161 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
64195 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
64227 TGTGGGCTTT
1 TGTGGGCTTT
64237 GAAGAAAAAA
Statistics
Matches: 737, Mismatches: 55, Indels: 82
0.84 0.06 0.09
Matches are distributed among these distances:
27 22 0.03
28 2 0.00
32 34 0.05
33 145 0.20
34 220 0.30
35 141 0.19
36 54 0.07
37 93 0.13
38 21 0.03
39 5 0.01
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:63504 original size:105 final size:104
Alignment explanation
Indices: 63370--64269 Score: 1037
Period size: 105 Copynumber: 8.8 Consensus size: 104
63360 CATCGACTTG
** * * *
63370 TGTGGGCTTTAGAAAGGGTGAAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAACAAGGTGCCAC
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCAC
* *
63434 AGAGTTGTGGGCTTTAAAAAGGAAAAAAAGAGTGCCACGGAGT
64 GGAGTTGTGGGCTTTGAAAAGG--AAAAAGAGTGCCACGGAGT
* * *
63477 TGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAG-GTGCCACG
* *
63541 GAGTTGTGGGC-TT-AGAAGG-AAAAGAGTGCCACGTAGT
65 GAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
* *
63578 TGTGGGCTTT-AAAGG-AAAAGAGTGCCACGGAGTCGTGGACTT-AAAAG-----GGTGCCACGG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGG
*
63635 AGTTGTGGGC-TT-AGAAGG-AAAAGAAGGTGCCACGGAGT
66 AGTTGTGGGCTTTGAAAAGGAAAAAG-A-GTGCCACGGAGT
63673 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCA
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCA
*
63738 CGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
63 CGGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGT
* * * * *
63781 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGG
*
63846 AGTTGTGGACTTTGAAAAGGGAAAAAGAGTGCCACGGAGT
66 AGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGT
* * * * *
63886 TGTGGGGTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGG
*
63951 AGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGT
66 AGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGT
** * * * *
63991 TGTGGGCTTTAAAAACAAAAAGTGTGCCGCAGAGTTGTGGGCTTTAAACAGAAAAAGGTGCCACG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCACG
* *
64056 GAGTTGTGGGC-TT-AGAAGGAAAAAG-GTGCCATGGAGT
65 GAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
* * * *
64093 TGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAGAACAAGGTGCCAC
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAAAAAGGTGCCAC
*
64156 GGAGTTGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
64 GGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
** * *
64195 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACGGAGTTGTGGGCTT-TGAAGAAAAA-ATGCCACTG
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGG
* *
64255 AGTCGTGGACTTTGA
66 AGTTGTGGGCTTTGA
64270 GACAAAATGC
Statistics
Matches: 706, Mismatches: 61, Indels: 62
0.85 0.07 0.07
Matches are distributed among these distances:
93 32 0.05
94 2 0.00
95 21 0.03
97 23 0.03
98 9 0.01
99 28 0.04
100 50 0.07
101 88 0.12
102 51 0.07
103 13 0.02
104 15 0.02
105 232 0.33
106 97 0.14
107 13 0.02
108 24 0.03
109 3 0.00
110 5 0.01
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (104 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAAAAAGGTGCCACGG
AGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:63631 original size:27 final size:27
Alignment explanation
Indices: 63593--63652 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
63583 GCTTTAAAGG
*
63593 AAAAGAGTGCCACGGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
* *
63620 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTCGTGGACTT
*
63647 AGAAGG
1 AAAAGG
63653 AAAAGAAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.38, T:0.18
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTCGTGGACTT
Found at i:65246 original size:16 final size:16
Alignment explanation
Indices: 65227--65258 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
65217 TTCCTCTCTT
*
65227 TTTTTTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
65243 TTTTGTTTCTTTTTTG
1 TTTTGTTTCTTTTTTG
65259 GAAAAGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.84
Consensus pattern (16 bp):
TTTTGTTTCTTTTTTG
Found at i:65512 original size:7 final size:7
Alignment explanation
Indices: 65498--65537 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
65488 CTTTGCACTT
65498 TTTTTTG
1 TTTTTTG
*
65505 TTTGTTG
1 TTTTTTG
65512 TTTTTTG
1 TTTTTTG
65519 TTTTTT-
1 TTTTTTG
65525 TTTTTTG
1 TTTTTTG
65532 TTTTTT
1 TTTTTT
65538 TGTGTTTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:65522 original size:23 final size:23
Alignment explanation
Indices: 65496--65544 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
65486 GCCTTTGCAC
65496 TTTTTTTTGTTTGTTGTTTTT-TG
1 TTTTTTTTGTTTGTT-TTTTTGTG
*
65519 TTTTTTTTTTTTGTTTTTTTGTG
1 TTTTTTTTGTTTGTTTTTTTGTG
65542 TTT
1 TTT
65545 ACTTTTGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (23 bp):
TTTTTTTTGTTTGTTTTTTTGTG
Found at i:65528 original size:13 final size:13
Alignment explanation
Indices: 65496--65538 Score: 68
Period size: 13 Copynumber: 3.2 Consensus size: 13
65486 GCCTTTGCAC
65496 TTTTTTTTGTTTGT
1 TTTTTTTTGTTT-T
*
65510 TGTTTTTTGTTTT
1 TTTTTTTTGTTTT
65523 TTTTTTTTGTTTT
1 TTTTTTTTGTTTT
65536 TTT
1 TTT
65539 GTGTTTACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTTGTTTT
Found at i:65550 original size:23 final size:24
Alignment explanation
Indices: 65500--65551 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
65490 TTGCACTTTT
*
65500 TTTTGTTTGTTGTTTTTTGTTT-T
1 TTTTGTTTGTTGTTTTTTGTTTAC
*
65523 TTTTTTTTGTT-TTTTTGTGTTTAC
1 TTTTGTTTGTTGTTTTT-TGTTTAC
65547 TTTTG
1 TTTTG
65552 ACTGTTCCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.21
23 15 0.62
24 4 0.17
ACGTcount: A:0.02, C:0.02, G:0.15, T:0.81
Consensus pattern (24 bp):
TTTTGTTTGTTGTTTTTTGTTTAC
Found at i:72541 original size:52 final size:52
Alignment explanation
Indices: 72463--72580 Score: 209
Period size: 52 Copynumber: 2.3 Consensus size: 52
72453 AAGTTGCTTG
*
72463 CATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
* *
72515 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
72567 CATGTATCGATACA
1 CATGTATCGATACA
72581 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.35
Consensus pattern (52 bp):
CATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:72593 original size:52 final size:51
Alignment explanation
Indices: 72456--72600 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
72446 ATATGAAAAG
*
72456 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* * *
72508 TTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
72560 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
72601 ATGTATCGAT
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.98
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:72607 original size:13 final size:13
Alignment explanation
Indices: 72589--72613 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72579 CAAAGATCAG
72589 TGTATCGATACAA
1 TGTATCGATACAA
72602 TGTATCGATACA
1 TGTATCGATACA
72614 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:75708 original size:39 final size:40
Alignment explanation
Indices: 75579--75727 Score: 128
Period size: 39 Copynumber: 3.8 Consensus size: 40
75569 AAAATAGAGT
* * * *
75579 CTTTTAAGTTTAGTTTTGTACCTTCGATTGAGAT-TGAGC
1 CTTTTTAGTTTAGTTTTATACCTTCTATCGAGATCTGAGC
* * * * * *
75618 CTTTTAAAGTTTAGTTTCATACTTTTTGTCGA-AGCTGAG-
1 CTTTT-TAGTTTAGTTTTATACCTTCTATCGAGATCTGAGC
*
75657 -TTTATTAGGTTTAGTTTTATACCTTCTATTGAGATCT-AGC
1 CTTT-TTA-GTTTAGTTTTATACCTTCTATCGAGATCTGAGC
*
75697 CTTTTTAGTTTAGTTTCATACCTTCTATCGA
1 CTTTTTAGTTTAGTTTTATACCTTCTATCGA
75728 AACCAAGCCT
Statistics
Matches: 86, Mismatches: 17, Indels: 14
0.74 0.15 0.12
Matches are distributed among these distances:
38 4 0.05
39 50 0.58
40 29 0.34
41 3 0.03
ACGTcount: A:0.21, C:0.14, G:0.16, T:0.48
Consensus pattern (40 bp):
CTTTTTAGTTTAGTTTTATACCTTCTATCGAGATCTGAGC
Found at i:75760 original size:79 final size:78
Alignment explanation
Indices: 75576--76064 Score: 323
Period size: 79 Copynumber: 6.3 Consensus size: 78
75566 ACCAAAATAG
* * ** *
75576 AGTCTTTTAAGTTTAGTTTTGTACCTTCGATTGAGAT-TGAGCCTTTTAAAGTTTAGTTTCATAC
1 AGTCTATTAGGTTTAGTTTCATACCTTCTATTGAGATCT-AGCCTTTT-AAGTTTAGTTTCATAC
* * * * **
75640 TTTTTGTCGAAGCTG
64 CTTCTATCGAAACCA
* * *
75655 AGTTTATTAGGTTTAGTTTTATACCTTCTATTGAGATCTAGCCTTTTTAGTTTAGTTTCATACCT
1 AGTCTATTAGGTTTAGTTTCATACCTTCTATTGAGATCTAGCCTTTTAAGTTTAGTTTCATACCT
75720 TCTATCGAAACCA
66 TCTATCGAAACCA
* * ** * ** *
75733 AGCCTATTAGGTTTAGTTTTCAGACCTTCTATCCAGA-C-CG-AATCTAAGTTTAGTTTCATACC
1 AGTCTATTAGGTTTAG-TTTCATACCTTCTATTGAGATCTAGCCTTTTAAGTTTAGTTTCATACC
* *
75795 TGCCT-TCAAAACCA
65 T-TCTATCGAAACCA
* * * * * * *
75809 AGTAC-AATAGG-TTAGTTTCATACCTTTTGTTGAGAGT-AATCCTTTTTACGTTTAGTTTTATA
1 AGT-CTATTAGGTTTAGTTTCATACCTTCTATTGAGA-TCTAGCC-TTTTAAGTTTAGTTTCATA
* *
75871 CCTTCCATCAAAACCA
63 CCTTCTATCGAAACCA
* * * * * * *
75887 AGTTTGTTAGGTTTAGTTTCATACTTTTTGTTAAGA-CTGAGTCTTTTTAAGTTTAGTTTCATAC
1 AGTCTATTAGGTTTAGTTTCATACCTTCTATTGAGATCT-AG-CCTTTTAAGTTTAGTTTCATAC
* * *
75951 CTTTTGTTGAAACCA
64 CTTCTATCGAAACCA
** * * * *
75966 AGTCTATTAGGTTTAGTTTCATACCTTCTATCAAAAACGAGCCTATTAAGTTTAGTTTCATA-CT
1 AGTCTATTAGGTTTAGTTTCATACCTTCTATTGAGATCTAGCCTTTTAAGTTTAGTTTCATACCT
* * *
76030 ATCTGTCAAAACGA
66 -TCTATCGAAACCA
* * *
76044 AATCCATTAGTTTTAGTTTCA
1 AGTCTATTAGGTTTAGTTTCA
76065 CAGCTTTTGT
Statistics
Matches: 320, Mismatches: 73, Indels: 35
0.75 0.17 0.08
Matches are distributed among these distances:
74 15 0.05
75 4 0.01
76 34 0.11
77 7 0.02
78 119 0.37
79 138 0.43
80 3 0.01
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (78 bp):
AGTCTATTAGGTTTAGTTTCATACCTTCTATTGAGATCTAGCCTTTTAAGTTTAGTTTCATACCT
TCTATCGAAACCA
Found at i:75764 original size:40 final size:41
Alignment explanation
Indices: 75658--76028 Score: 151
Period size: 39 Copynumber: 9.5 Consensus size: 41
75648 GAAGCTGAGT
* * * *
75658 TTATTAGGTTTAGTTTT-ATACCTTCTATTGAGATCTAGCC
1 TTATTAGGTTTAGTTTTCATACCTTCTATCGAAACCAAGCC
*
75698 TTTTTA-GTTTAG-TTTCATACCTTCTATCGAAACCAAGCC
1 TTATTAGGTTTAGTTTTCATACCTTCTATCGAAACCAAGCC
* * * *
75737 -TATTAGGTTTAGTTTTCAGACCTTCTATCCAGACCGAA-TC
1 TTATTAGGTTTAGTTTTCATACCTTCTATCGAAACC-AAGCC
* *
75777 -TA--A-GTTTAG-TTTCATACCTGCCT-TCAAAACCAAG--
1 TTATTAGGTTTAGTTTTCATACCT-TCTATCGAAACCAAGCC
* * * * * * ** *
75811 TACAATAGG-TTAG-TTTCATACCTTTTGTTGAGAGTAATCC
1 T-TATTAGGTTTAGTTTTCATACCTTCTATCGAAACCAAGCC
* * * * *
75851 TTTTTACGTTTAGTTTT-ATACCTTCCATCAAAACCAAG-T
1 TTATTAGGTTTAGTTTTCATACCTTCTATCGAAACCAAGCC
* * * * * ** *
75890 TTGTTAGGTTTAG-TTTCATACTTTTTGT-TAAGACTGAGTC
1 TTATTAGGTTTAGTTTTCATACCTTCTATCGAA-ACCAAGCC
* * * * * *
75930 TTTTTAAGTTTAG-TTTCATACCTTTTGTTGAAACCAAGTC
1 TTATTAGGTTTAGTTTTCATACCTTCTATCGAAACCAAGCC
* * *
75970 -TATTAGGTTTAG-TTTCATACCTTCTATCAAAAACGAGCC
1 TTATTAGGTTTAGTTTTCATACCTTCTATCGAAACCAAGCC
*
76009 -TATTAAGTTTAG-TTTCATAC
1 TTATTAGGTTTAGTTTTCATAC
76029 TATCTGTCAA
Statistics
Matches: 248, Mismatches: 63, Indels: 41
0.70 0.18 0.12
Matches are distributed among these distances:
35 2 0.01
36 16 0.06
37 9 0.04
38 33 0.13
39 106 0.43
40 75 0.30
41 7 0.03
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.42
Consensus pattern (41 bp):
TTATTAGGTTTAGTTTTCATACCTTCTATCGAAACCAAGCC
Found at i:76039 original size:39 final size:39
Alignment explanation
Indices: 75933--76040 Score: 128
Period size: 39 Copynumber: 2.8 Consensus size: 39
75923 CTGAGTCTTT
* ** * *
75933 TTAAGTTTAGTTTCATACCTTTTGTTGAAACCAAGTCTA
1 TTAAGTTTAGTTTCATACCTTCTGTCAAAAACAAGCCTA
* * *
75972 TTAGGTTTAGTTTCATACCTTCTATCAAAAACGAGCCTA
1 TTAAGTTTAGTTTCATACCTTCTGTCAAAAACAAGCCTA
76011 TTAAGTTTAGTTTCATA-CTATCTGTCAAAA
1 TTAAGTTTAGTTTCATACCT-TCTGTCAAAA
76041 CGAAATCCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 2 0.03
39 56 0.97
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (39 bp):
TTAAGTTTAGTTTCATACCTTCTGTCAAAAACAAGCCTA
Found at i:76056 original size:38 final size:38
Alignment explanation
Indices: 75936--76080 Score: 116
Period size: 39 Copynumber: 3.7 Consensus size: 38
75926 AGTCTTTTTA
* ** * * *
75936 AGTTTAGTTTCATACCTTTTGTTGAAACCAAGTCTATT
1 AGTTTAGTTTCATACCTTCTGTCAAAACGAAATCCATT
* *
75974 AGGTTTAGTTTCATACCTTCTATCAAAAACG--AGCCTATT
1 A-GTTTAGTTTCATACCTTCTGTC-AAAACGAAATCC-ATT
76013 AAGTTTAGTTTCATA-CTATCTGTCAAAACGAAATCCATT
1 -AGTTTAGTTTCATACCT-TCTGTCAAAACGAAATCCATT
* * *
76052 AGTTTTAGTTTCACAGCTTTTGTCAAAAC
1 AG-TTTAGTTTCATACCTTCTGTCAAAAC
76081 CGAACCCTTT
Statistics
Matches: 86, Mismatches: 12, Indels: 17
0.75 0.10 0.15
Matches are distributed among these distances:
38 12 0.14
39 64 0.74
40 10 0.12
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (38 bp):
AGTTTAGTTTCATACCTTCTGTCAAAACGAAATCCATT
Found at i:76093 original size:78 final size:77
Alignment explanation
Indices: 75932--76095 Score: 177
Period size: 78 Copynumber: 2.1 Consensus size: 77
75922 ACTGAGTCTT
* ** * * *
75932 TTTAAGTTTAGTTTCATACCTTTTGTTGAAACCAAGTCTATTAGGTTTAGTTTCATACCTTCTAT
1 TTTAAGTTTAGTTTCATACCTTCTGTCAAAACCAAATCCATTAGGTTTAGTTTCACACCTTCTAT
*
75997 CAAAAACGAGCC
66 CAAAAACGACCC
* * * *
76009 TATTAAGTTTAGTTTCATA-CTATCTGTCAAAACGAAATCCATTAGTTTTAGTTTCACAGCTTTT
1 T-TTAAGTTTAGTTTCATACCT-TCTGTCAAAACCAAATCCATTAGGTTTAGTTTCACACCTTCT
* *
76073 GTCAAAACCGAACCC
64 ATCAAAAACG-ACCC
76088 TTTAAGTT
1 TTTAAGTT
76096 CAATTTTGTA
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
77 3 0.04
78 64 0.90
79 4 0.06
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (77 bp):
TTTAAGTTTAGTTTCATACCTTCTGTCAAAACCAAATCCATTAGGTTTAGTTTCACACCTTCTAT
CAAAAACGACCC
Found at i:78056 original size:22 final size:22
Alignment explanation
Indices: 78031--78100 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
78021 TAAAACATAA
78031 CTCCCCTTTAATTAAAAATTTT
1 CTCCCCTTTAATTAAAAATTTT
*
78053 CT-CCCTATTAATAAAAAAATTTT
1 CTCCCCT-TTAAT-TAAAAATTTT
*
78076 CTTCCCTTTAA-T-AAAATTTT
1 CTCCCCTTTAATTAAAAATTTT
*
78096 TTCCC
1 CTCCC
78101 TTTTTAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 11 0.27
21 4 0.10
22 7 0.17
23 15 0.37
24 4 0.10
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (22 bp):
CTCCCCTTTAATTAAAAATTTT
Found at i:78070 original size:23 final size:23
Alignment explanation
Indices: 78034--78091 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
78024 AACATAACTC
*
78034 CCCTTTAAT-TAAAAATTTTC-T
1 CCCTTTAATAAAAAAATTTTCTT
78055 CCCTATTAATAAAAAAATTTTCTT
1 CCCT-TTAATAAAAAAATTTTCTT
78079 CCCTTTAATAAAA
1 CCCTTTAATAAAA
78092 TTTTTTCCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
23 19 0.58
24 5 0.15
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.41
Consensus pattern (23 bp):
CCCTTTAATAAAAAAATTTTCTT
Found at i:78112 original size:20 final size:19
Alignment explanation
Indices: 78066--78103 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
78056 CCTATTAATA
78066 AAAAAATTTTCTTCCCTTT
1 AAAAAATTTTCTTCCCTTT
78085 AATAAAATTTT-TTCCCTTT
1 AA-AAAATTTTCTTCCCTTT
78104 TTAAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAAAATTTTCTTCCCTTT
Found at i:81552 original size:13 final size:13
Alignment explanation
Indices: 81534--81559 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81524 TACACAAAGT
81534 ATGTATCGATACA
1 ATGTATCGATACA
81547 ATGTATCGATACA
1 ATGTATCGATACA
81560 CCAAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:81557 original size:32 final size:33
Alignment explanation
Indices: 81516--81579 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
81506 TAGCCAAACT
**
81516 TGTATCGATACA-CAAAGTATGTATCGATACAA
1 TGTATCGATACACCAAAAAATGTATCGATACAA
81548 TGTATCGATACACCAAAAAATGTATCGATACA
1 TGTATCGATACACCAAAAAATGTATCGATACA
81580 TTAGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACCAAAAAATGTATCGATACAA
Done.