Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008782.1 Hibiscus syriacus cultivar Beakdansim tig00111913_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: 232071
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:3896 original size:59 final size:59
Alignment explanation
Indices: 3804--3920 Score: 189
Period size: 59 Copynumber: 2.0 Consensus size: 59
3794 GAGGGTTGGT
* * *
3804 TAGAGTCATATTATCGAGTTTACCTTTTCATTGCAACTAGGAGGGTTTGATAGGACACC
1 TAGAGCCATATTATCGAGTTTACCTTTTCATTGCAACTAGGAGGGCTCGATAGGACACC
* *
3863 TAGAGCCATATTATTGTGTTTACCTTTTCATTGCAACTAGGAGGGCTCGATAGGACAC
1 TAGAGCCATATTATCGAGTTTACCTTTTCATTGCAACTAGGAGGGCTCGATAGGACAC
3921 TTACCCATCT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (59 bp):
TAGAGCCATATTATCGAGTTTACCTTTTCATTGCAACTAGGAGGGCTCGATAGGACACC
Found at i:8304 original size:60 final size:59
Alignment explanation
Indices: 8200--8320 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 59
8190 GGAGGGTTGG
* * * * * *
8200 TTAGAGTCATATTATCGAGTTTTCCTTTTCATTGCGACTAGGAGGGTTTGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGCCTTTTCATAGCAACTAGGAGGGCTCGATAGGACAC
* *
8259 TTAGAGCCATATTATCGTGTTTGCATTTTTCATAGCAACTAGGAGGGCTCGATAGGACAC
1 TTAGAGCCATATTATCGAGTTTGC-CTTTTCATAGCAACTAGGAGGGCTCGATAGGACAC
8319 TT
1 TT
8321 GTCCATCTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
59 21 0.40
60 32 0.60
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (59 bp):
TTAGAGCCATATTATCGAGTTTGCCTTTTCATAGCAACTAGGAGGGCTCGATAGGACAC
Found at i:13157 original size:51 final size:50
Alignment explanation
Indices: 13088--13184 Score: 117
Period size: 51 Copynumber: 1.9 Consensus size: 50
13078 ATAAAAAAAT
* *
13088 AGTAGCCAAAACAGAAATAAATAGTGACCAAAATGCATA-AAATTGAAGAAC
1 AGTAGCCAAAACAAAAATAAACAGTGACCAAAAT--ATATAAATTGAAGAAC
* *
13139 AGTAGCCAAATA-AAAAATAAACGGTGACTAAAATATATAAATTGAA
1 AGTAGCCAAA-ACAAAAATAAACAGTGACCAAAATATATAAATTGAA
13185 AGTATCACGT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
49 3 0.08
50 8 0.20
51 28 0.70
52 1 0.03
ACGTcount: A:0.56, C:0.11, G:0.14, T:0.19
Consensus pattern (50 bp):
AGTAGCCAAAACAAAAATAAACAGTGACCAAAATATATAAATTGAAGAAC
Found at i:14719 original size:135 final size:135
Alignment explanation
Indices: 14476--14720 Score: 337
Period size: 135 Copynumber: 1.8 Consensus size: 135
14466 TAATCTAGAA
* * *
14476 AATTTGAAGATAACATGGTTCTTTCATGTTGAGGAAGTCTGATTATCTGAGGATGACACTGCTCC
1 AATTTGAAGACAACACGGTTCTTTCACGTTGAGGAAGTCTGATTATCTGAGGATGACACTGCTCC
* * * *
14541 TTTGTATTGAGGAGATCTGGTCGATGTATAACATTGTTTCTTCGTAGAGGACGTCTAGACGTATT
66 TTTGCATTGAGGACATCTGGTCGATGGATAACATTGTTCCTTCGTAGAGGACGTCTAGACGTATT
14606 TGGAT
131 TGGAT
* * * * *
14611 AATTTGGAGACAACACGGTTCTTTCGCGTTGAGGAAGTCTGATTATTTGAGGATGACATTTCTCC
1 AATTTGAAGACAACACGGTTCTTTCACGTTGAGGAAGTCTGATTATCTGAGGATGACACTGCTCC
* * * * *
14676 TTTGCGTTTAGGACATTTGGTCGGTGGATGACATTGTTCCTTCGT
66 TTTGCATTGAGGACATCTGGTCGATGGATAACATTGTTCCTTCGT
14721 GTTGAAGATG
Statistics
Matches: 93, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
135 93 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.37
Consensus pattern (135 bp):
AATTTGAAGACAACACGGTTCTTTCACGTTGAGGAAGTCTGATTATCTGAGGATGACACTGCTCC
TTTGCATTGAGGACATCTGGTCGATGGATAACATTGTTCCTTCGTAGAGGACGTCTAGACGTATT
TGGAT
Found at i:15383 original size:66 final size:67
Alignment explanation
Indices: 15273--15434 Score: 218
Period size: 66 Copynumber: 2.4 Consensus size: 67
15263 AAATTTGGGC
* *
15273 TTCAAGTGAAACTGTCTCAAGCGAGACAAAACTATATTTCGAGAGAAA-AATCTCTAAGACTTAT
1 TTCAAGAGAAACTGTCTCAAGCGAGACAAAACTATATTTCGAGAGAAAGAATCTCAAAGACTTAT
15337 GT
66 GT
* ** * * * **
15339 TTCAAGAGAAAATGTCTCAAGCGAGATGAAACTTTGTTTGGAGAGAAAGAATCTCAAAGGTTTAT
1 TTCAAGAGAAACTGTCTCAAGCGAGACAAAACTATATTTCGAGAGAAAGAATCTCAAAGACTTAT
15404 GT
66 GT
*
15406 TTCAAGAGAAACCGTCTCAAGCGAGACAA
1 TTCAAGAGAAACTGTCTCAAGCGAGACAA
15435 TTTTTTTAGG
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
66 41 0.51
67 40 0.49
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.25
Consensus pattern (67 bp):
TTCAAGAGAAACTGTCTCAAGCGAGACAAAACTATATTTCGAGAGAAAGAATCTCAAAGACTTAT
GT
Found at i:17349 original size:23 final size:24
Alignment explanation
Indices: 17318--17375 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
17308 TATTTTCAAA
* *
17318 TTTTGAAAAA-GATCAATTAATTT
1 TTTTAAAAAATGATCAATAAATTT
* * *
17341 TTTTTAAAAATGTTTAATAAATTT
1 TTTTAAAAAATGATCAATAAATTT
17365 TTTTAAAAAAT
1 TTTTAAAAAAT
17376 ATTGCCTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (24 bp):
TTTTAAAAAATGATCAATAAATTT
Found at i:17350 original size:24 final size:23
Alignment explanation
Indices: 17318--17374 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
17308 TATTTTCAAA
* *
17318 TTTTGAAAAAGATCAATTAATTTT
1 TTTTAAAAAAGATCAA-TAAATTT
* * *
17342 TTTTAAAAATGTTTAATAAATTT
1 TTTTAAAAAAGATCAATAAATTT
17365 TTTTAAAAAA
1 TTTTAAAAAA
17375 TATTGCCTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (23 bp):
TTTTAAAAAAGATCAATAAATTT
Found at i:18229 original size:9 final size:8
Alignment explanation
Indices: 18217--18278 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
18207 ACTTGATTTG
18217 TTTTCTTT
1 TTTTCTTT
18225 CTTTTCCTTT
1 -TTTT-CTTT
*
18235 TTTCCTTTT
1 TTTTC-TTT
*
18244 TTTTCTCT
1 TTTTCTTT
*
18252 TTTTCTTC
1 TTTTCTTT
18260 TTTTC--T
1 TTTTCTTT
18266 TTTTCTTT
1 TTTTCTTT
18274 TTTTC
1 TTTTC
18279 ACCTTGATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
6 5 0.12
8 20 0.47
9 14 0.33
10 4 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTCTTT
Found at i:18253 original size:11 final size:10
Alignment explanation
Indices: 18232--18277 Score: 56
Period size: 11 Copynumber: 4.4 Consensus size: 10
18222 TTTCTTTTCC
*
18232 TTTTTTCCTT
1 TTTTTTCTTT
18242 TTTTTTCTCTT
1 TTTTTTCT-TT
*
18253 TTTCTTCTTT
1 TTTTTTCTTT
18263 TCTTTTTCTTT
1 T-TTTTTCTTT
18274 TTTT
1 TTTT
18278 CACCTTGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
10 13 0.42
11 18 0.58
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:18262 original size:20 final size:19
Alignment explanation
Indices: 18217--18278 Score: 74
Period size: 20 Copynumber: 3.3 Consensus size: 19
18207 ACTTGATTTG
*
18217 TTTTCTTTCTTTTC-CTTT
1 TTTTCTTTTTTTTCTCTTT
*
18235 TTTCCTTTTTTTTCTCTTT
1 TTTTCTTTTTTTTCTCTTT
18254 TTCTTCTTTTCTTTT-TCTTT
1 TT-TTCTTTT-TTTTCTCTTT
18274 TTTTC
1 TTTTC
18279 ACCTTGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 12 0.32
19 9 0.24
20 13 0.34
21 4 0.11
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTCTTTTTTTTCTCTTT
Found at i:18268 original size:14 final size:13
Alignment explanation
Indices: 18222--18276 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
18212 ATTTGTTTTC
*
18222 TTTCTTTTCCTTT
1 TTTCTTTTTCTTT
*
18235 TTTCCTTTT-TTT
1 TTTCTTTTTCTTT
*
18247 TCTCTTTTTCTTCT
1 TTTCTTTTTCTT-T
18261 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
18274 TTT
1 TTT
18277 TCACCTTGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 10 0.29
13 13 0.37
14 12 0.34
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTCTTTTTCTTT
Found at i:19744 original size:16 final size:17
Alignment explanation
Indices: 19717--19748 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
19707 ATAGCAATCA
19717 TACCCAGACATGTTTTC
1 TACCCAGACATGTTTTC
19734 TACCC-GACATGTTTT
1 TACCCAGACATGTTTT
19749 ATTTTCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.38
Consensus pattern (17 bp):
TACCCAGACATGTTTTC
Found at i:19795 original size:23 final size:23
Alignment explanation
Indices: 19765--19810 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
19755 AAGAAATTGA
19765 TCCTGACCCCATGGTATCTAGTT
1 TCCTGACCCCATGGTATCTAGTT
* *
19788 TCCTGACCGCTTGGTATCTAGTT
1 TCCTGACCCCATGGTATCTAGTT
19811 CGCATGCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.15, C:0.28, G:0.20, T:0.37
Consensus pattern (23 bp):
TCCTGACCCCATGGTATCTAGTT
Found at i:23889 original size:2 final size:2
Alignment explanation
Indices: 23884--23926 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
23874 ACTATATAGT
23884 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23926 T
1 T
23927 CACATTTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24249 original size:21 final size:20
Alignment explanation
Indices: 24223--24268 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
24213 CATGTTAGGC
24223 ATGTTAA-ATTCATATACATAT
1 ATGTTAATATT-ATATA-ATAT
*
24244 ATGTTAATATTTTATAATAT
1 ATGTTAATATTATATAATAT
24264 ATGTT
1 ATGTT
24269 TTCTTATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
21 11 0.48
22 3 0.13
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (20 bp):
ATGTTAATATTATATAATAT
Found at i:24890 original size:64 final size:63
Alignment explanation
Indices: 24778--24905 Score: 150
Period size: 64 Copynumber: 2.0 Consensus size: 63
24768 ATATAAACGC
* * *
24778 CGCAATAGGTACATATGTAGTGGATTTTTTCAAAAAACGCTACAAAAGAGTAGTACTTTAGCGG
1 CGCAATAGGTACATATATAGTGGATTTTTTCAAAAAACGCCACAAAAGA-TAGTACTTCAGCGG
* * * * * *
24842 CGCAATAGGTCCATCTATAGTGGCGTTTTTTCGACAAATGCCAC-AAAGATAGTACTTCAGCGG
1 CGCAATAGGTACATATATAGTGG-ATTTTTTCAAAAAACGCCACAAAAGATAGTACTTCAGCGG
24905 C
1 C
24906 ATTTTTATAA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
63 14 0.26
64 25 0.46
65 15 0.28
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (63 bp):
CGCAATAGGTACATATATAGTGGATTTTTTCAAAAAACGCCACAAAAGATAGTACTTCAGCGG
Found at i:29806 original size:42 final size:43
Alignment explanation
Indices: 29707--29996 Score: 345
Period size: 43 Copynumber: 6.7 Consensus size: 43
29697 AAGGTAATTA
*
29707 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATAT-GACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATATCGACCTTTT
* * *
29750 GCGGCGTTTGTATCCAAAAACGCCTCTATATATAT-GATC-TTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATATCGACCTTTT
29792 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATAT-GACCTTTT
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATATCGACCTTTT
* * *
29835 GCGGCGTTTGTTCCAGAAACGCCACTATAGATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTT
* * *
29878 GCGGTGTTTGTTCCAAAAAACGCCACTATAGATATAGACCTTTT
1 GCGGCGTTTGTTCC-AAAAACGCCGCTATAGATATCGACCTTTT
* * *
29922 GCGGCGTTTGTTCAAAAAATGCCGCTATAGATATCGATCTTTT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTT
* * * * **
29965 ACGGCGTTTATTTCATAAACGCTACTATAGAT
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGAT
29997 CTGGACCTAT
Statistics
Matches: 216, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
42 59 0.27
43 119 0.55
44 38 0.18
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTT
Found at i:29893 original size:85 final size:86
Alignment explanation
Indices: 29707--29996 Score: 372
Period size: 85 Copynumber: 3.4 Consensus size: 86
29697 AAGGTAATTA
* *
29707 GCGGCGTTTGTATCCAAAAATGCCGCTATAGATATGACCTTTTGCGGCGTTTGTATCCAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCACTATAGATATGACCTTTTGCGGCGTTTGT-TCCAAAAACG
* *
29772 CCTCTATATATAT-GATC-TTT
65 CCACTATAGATATCGATCTTTT
* *
29792 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCCAGAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCACTATAGATATGACCTTTTGCGGCGTTTGTTCCAAAAACGC
* *
29857 CACTATAGATCTCGACCTTTT
66 CACTATAGATATCGATCTTTT
* * *
29878 GCGGTGTTTGT-TCCAAAAAACGCCACTATAGATATAGACCTTTTGCGGCGTTTGTTCAAAAAAT
1 GCGGCGTTTGTATCC-AAAAACGCCACTATAGATAT-GACCTTTTGCGGCGTTTGTTCCAAAAAC
*
29942 GCCGCTATAGATATCGATCTTTT
64 GCCACTATAGATATCGATCTTTT
* * * * *
29965 ACGGCGTTTAT-TTCATAAACGCTACTATAGAT
1 GCGGCGTTTGTATCCAAAAACGCCACTATAGAT
29997 CTGGACCTAT
Statistics
Matches: 181, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
84 19 0.10
85 59 0.33
86 48 0.27
87 55 0.30
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (86 bp):
GCGGCGTTTGTATCCAAAAACGCCACTATAGATATGACCTTTTGCGGCGTTTGTTCCAAAAACGC
CACTATAGATATCGATCTTTT
Found at i:30205 original size:31 final size:33
Alignment explanation
Indices: 30170--30243 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 33
30160 GTAGTGGTGT
*
30170 CTCCAAAAG-A-CATGTTTTATCTAAAAGGTAC
1 CTCCAAAAGCATCATGTTTTATCAAAAAGGTAC
* *
30201 CTCCAAAAGTCATGATGTTTTATCAAAAAGGTGC
1 CTCCAAAAG-CATCATGTTTTATCAAAAAGGTAC
30235 CTCCAAAAG
1 CTCCAAAAG
30244 TTATGATGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
31 9 0.24
33 1 0.03
34 27 0.73
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (33 bp):
CTCCAAAAGCATCATGTTTTATCAAAAAGGTAC
Found at i:30223 original size:34 final size:34
Alignment explanation
Indices: 30181--30260 Score: 124
Period size: 34 Copynumber: 2.3 Consensus size: 34
30171 TCCAAAAGAC
*
30181 ATGTTTTATCTAAAAGGTACCTCCAAAAGTCATG
1 ATGTTTTATCAAAAAGGTACCTCCAAAAGTCATG
* *
30215 ATGTTTTATCAAAAAGGTGCCTCCAAAAGTTATG
1 ATGTTTTATCAAAAAGGTACCTCCAAAAGTCATG
30249 ATGTTTTCATCA
1 ATGTTTT-ATCA
30261 CACATTTTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
34 38 0.90
35 4 0.10
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (34 bp):
ATGTTTTATCAAAAAGGTACCTCCAAAAGTCATG
Found at i:31176 original size:29 final size:28
Alignment explanation
Indices: 31119--31287 Score: 171
Period size: 28 Copynumber: 6.0 Consensus size: 28
31109 CCGGGTGGTA
*
31119 TTTGGTAATTATTTGAAAATGGTGGTAT
1 TTTGGTAATTATTTGAAAATGGTGATAT
*
31147 TTTGGTAATTATTTCGAAAATGGTGCTAT
1 TTTGGTAATTATTT-GAAAATGGTGATAT
* * * *
31176 TTTCGTAATTTTTTTAAAA-GTTGATAT
1 TTTGGTAATTATTTGAAAATGGTGATAT
* * **
31203 TTTTGTAATTTATTTTAAAAAAGTGATAT
1 TTTGGTAA-TTATTTGAAAATGGTGATAT
*
31232 TTTGGTAATTGGTTTGAAAATGGTGATA-
1 TTTGGTAATT-ATTTGAAAATGGTGATAT
* *
31260 TTTAGAAATTATTTTGAAAATGGTGATA
1 TTTGGTAATTA-TTTGAAAATGGTGATA
31288 ATTGTGTAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
27 13 0.11
28 54 0.46
29 51 0.43
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (28 bp):
TTTGGTAATTATTTGAAAATGGTGATAT
Found at i:31205 original size:56 final size:57
Alignment explanation
Indices: 31130--31287 Score: 160
Period size: 57 Copynumber: 2.8 Consensus size: 57
31120 TTGGTAATTA
* * * *
31130 TTTGAAAATGGTGGTATTTTGGTAATTATTTCGAAAATGGTGCTATTTTCGTAATT-T
1 TTTGAAAATGGTGATATTTTAGTAATTATTT-GAAAATGGTGATATTTTCGTAATTGG
* * * * ** *
31187 TTTTAAAA-GTTGATATTTTTGTAATTTATTTTAAAAAAGTGATATTTTGGTAATTGG
1 TTTGAAAATGGTGATATTTTAGTAA-TTATTTGAAAATGGTGATATTTTCGTAATTGG
*
31244 TTTGAAAATGGTGATA-TTTAGAAATTATTTTGAAAATGGTGATA
1 TTTGAAAATGGTGATATTTTAGTAATTA-TTTGAAAATGGTGATA
31288 ATTGTGTAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
56 35 0.44
57 39 0.49
58 6 0.08
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.47
Consensus pattern (57 bp):
TTTGAAAATGGTGATATTTTAGTAATTATTTGAAAATGGTGATATTTTCGTAATTGG
Found at i:32018 original size:24 final size:24
Alignment explanation
Indices: 31984--32054 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 24
31974 TTTTTGACGG
31984 GATTTTGATATGATACTTGACCTA
1 GATTTTGATATGATACTTGACCTA
* * *
32008 GATTTTTATATGATACATGACATA
1 GATTTTGATATGATACTTGACCTA
* *
32032 GATTCTGATATGCTACTTGACCT
1 GATTTTGATATGATACTTGACCT
32055 GAATTATGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (24 bp):
GATTTTGATATGATACTTGACCTA
Found at i:38131 original size:5 final size:5
Alignment explanation
Indices: 38121--38145 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
38111 ACTAATTCCA
38121 ACCCG ACCCG ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG ACCCG ACCCG
38146 TTGAACGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:38272 original size:28 final size:26
Alignment explanation
Indices: 38223--38311 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 26
38213 AAAATGGTGC
* * *
38223 TATTTTCGTAATTTTTTTAAAATTGA
1 TATTTTCATAATTTTTTAAAAAGTGA
38249 TATTTTCATAATTTTTTAAAAAAAGTGA
1 TATTTTCATAATTTTTT--AAAAAGTGA
* ** *
38277 CATTTTGGTAATTGTTTTGAAAATGGTGA
1 TATTTTCATAATT-TTTT-AAAA-AGTGA
38306 TATTTT
1 TATTTT
38312 AGAAATTATT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 16 0.32
28 21 0.42
29 13 0.26
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (26 bp):
TATTTTCATAATTTTTTAAAAAGTGA
Found at i:38317 original size:17 final size:17
Alignment explanation
Indices: 38297--38346 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
38287 ATTGTTTTGA
38297 AAATGGTGATATTTTAG
1 AAATGGTGATATTTTAG
*
38314 AAAT--T-AT-TTTGA-
1 AAATGGTGATATTTTAG
38326 AAATGGTGATATTTTAG
1 AAATGGTGATATTTTAG
38343 AAAT
1 AAAT
38347 TATTTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
12 4 0.15
13 4 0.15
14 3 0.12
15 3 0.12
16 4 0.15
17 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (17 bp):
AAATGGTGATATTTTAG
Found at i:38363 original size:28 final size:29
Alignment explanation
Indices: 38160--38364 Score: 163
Period size: 29 Copynumber: 7.2 Consensus size: 29
38150 ACGTTAACCG
* * *
38160 GGTGGTATTTTAGTAATTA-TTTCATAAAT
1 GGTGATATTTTAGAAATTATTTTGA-AAAT
* * **
38189 GGTGGTATTTTGGTCATTATTTTGAAAAT
1 GGTGATATTTTAGAAATTATTTTGAAAAT
* * * *
38218 GGTGCTATTTTCGTAATT-TTTTTAAAAT
1 GGTGATATTTTAGAAATTATTTTGAAAAT
* * *
38246 --TGATATTTTCA-TAATT-TTTTAAAAAA
1 GGTGATATTTT-AGAAATTATTTTGAAAAT
* * * * *
38272 AGTGACATTTTGGTAATTGTTTTGAAAAT
1 GGTGATATTTTAGAAATTATTTTGAAAAT
38301 GGTGATATTTTAGAAATTATTTTGAAAAT
1 GGTGATATTTTAGAAATTATTTTGAAAAT
38330 GGTGATATTTTAGAAATTA-TTTGAAAAT
1 GGTGATATTTTAGAAATTATTTTGAAAAT
*
38358 GATGATA
1 GGTGATA
38365 ATTATGTAAA
Statistics
Matches: 149, Mismatches: 21, Indels: 13
0.81 0.11 0.07
Matches are distributed among these distances:
26 21 0.14
28 37 0.25
29 87 0.58
30 4 0.03
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (29 bp):
GGTGATATTTTAGAAATTATTTTGAAAAT
Found at i:44671 original size:11 final size:11
Alignment explanation
Indices: 44655--44697 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
44645 ATTTTTTTCA
44655 AAAAAAAAAAC
1 AAAAAAAAAAC
44666 AAAAAAACAAAAC
1 -AAAAAA-AAAAC
*
44679 AAAAACAAAAC
1 AAAAAAAAAAC
44690 AAAAAAAA
1 AAAAAAAA
44698 GCCAAAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 12 0.43
12 11 0.39
13 5 0.18
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:44713 original size:9 final size:9
Alignment explanation
Indices: 44701--44725 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
44691 AAAAAAAGCC
44701 AAAATTTAA
1 AAAATTTAA
44710 AAAATTTAA
1 AAAATTTAA
44719 AAAATTT
1 AAAATTT
44726 GCAAACGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AAAATTTAA
Found at i:47545 original size:21 final size:22
Alignment explanation
Indices: 47521--47579 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
47511 AAATTTTGGC
47521 TTTTTTGGCTTTTTTT-TT-TT
1 TTTTTTGGCTTTTTTTGTTCTT
*
47541 GTTTTTTGCCTTTTTTTGTTCTT
1 -TTTTTTGGCTTTTTTTGTTCTT
*
47564 TTTTTTTG-TTTTTTTG
1 TTTTTTGGCTTTTTTTG
47580 AAAAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 23 0.70
22 8 0.24
23 2 0.06
ACGTcount: A:0.00, C:0.07, G:0.12, T:0.81
Consensus pattern (22 bp):
TTTTTTGGCTTTTTTTGTTCTT
Found at i:47548 original size:30 final size:30
Alignment explanation
Indices: 47514--47577 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
47504 TTTTTTGAAA
*
47514 TTTTGGCTTTTTTGGCTT-TTTTTTTTTGTT
1 TTTTGCCTTTTTTGG-TTCTTTTTTTTTGTT
*
47544 TTTTGCCTTTTTTTGTTCTTTTTTTTTGTT
1 TTTTGCCTTTTTTGGTTCTTTTTTTTTGTT
47574 TTTT
1 TTTT
47578 TGAAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 2 0.06
30 29 0.94
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.80
Consensus pattern (30 bp):
TTTTGCCTTTTTTGGTTCTTTTTTTTTGTT
Found at i:47565 original size:20 final size:21
Alignment explanation
Indices: 47520--47567 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
47510 GAAATTTTGG
* *
47520 CTTTTTTGGCTTTTTTTTTTT
1 CTTTTTTGGCCTTTTTTTGTT
*
47541 GTTTTTT-GCCTTTTTTTGTT
1 CTTTTTTGGCCTTTTTTTGTT
47561 CTTTTTT
1 CTTTTTT
47568 TTTGTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.79
Consensus pattern (21 bp):
CTTTTTTGGCCTTTTTTTGTT
Found at i:55239 original size:17 final size:16
Alignment explanation
Indices: 55217--55256 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 16
55207 AAGCTTAGCG
55217 GAGAAGATGATGATGCT
1 GAGAAGATGATGATG-T
55234 GAGAAGATGATGATGT
1 GAGAAGATGATGATGT
55250 GA-AAGAT
1 GAGAAGAT
55257 ACATGAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 5 0.22
16 3 0.13
17 15 0.65
ACGTcount: A:0.40, C:0.03, G:0.35, T:0.23
Consensus pattern (16 bp):
GAGAAGATGATGATGT
Found at i:56814 original size:20 final size:20
Alignment explanation
Indices: 56789--56838 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
56779 ATTCAATCAA
56789 TATCGATACCGTTGAGGCAG
1 TATCGATACCGTTGAGGCAG
56809 TATCGATACCGTTGAGGCAG
1 TATCGATACCGTTGAGGCAG
56829 TATCGATACC
1 TATCGATACC
56839 ATTGTAAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (20 bp):
TATCGATACCGTTGAGGCAG
Found at i:57001 original size:19 final size:19
Alignment explanation
Indices: 56977--57025 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
56967 CCTAATTTTG
* *
56977 GTATCGATACCCGGAGGAA
1 GTATCGGTACCCGGAGAAA
56996 GTATCGGTACCCGGAGAAA
1 GTATCGGTACCCGGAGAAA
57015 GTATCGGTACC
1 GTATCGGTACC
57026 ATAGTATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.29, C:0.22, G:0.31, T:0.18
Consensus pattern (19 bp):
GTATCGGTACCCGGAGAAA
Found at i:57746 original size:157 final size:157
Alignment explanation
Indices: 57455--57761 Score: 488
Period size: 157 Copynumber: 2.0 Consensus size: 157
57445 AAACGAATGA
* *
57455 AAAAAAATAATGCATATGGGTGCATTAGTAGCATGAAAGGATGTCATAGCTGAAATGTATATGGG
1 AAAAAAATAATGCATATGGGTGCATTAGTAGCATGAAAGGATGCCATAGCTGAAATGTATACGGG
* *
57520 TACATTGTCAGTATAAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
66 TACATTGTCAGCATAAAAGAATAACGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
*
57585 GAAATGTATATGGGTACATTGTCAGCT
131 GAAATGCATATGGGTACATTGTCAGCT
* * * * *
57612 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGTTGCCATAGCTGAAATGTGTACGGG
1 AAAAAAATAATGCATATGGGTGCATTAGTAGCATGAAAGGATGCCATAGCTGAAATGTATACGGG
* * *
57677 TACATTGTCAGCATAAAAGAATAACGCGTATGGGTGCATTATTGGCATGAAAGGATTCCATCGCT
66 TACATTGTCAGCATAAAAGAATAACGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
*
57742 GAAATGCATATGGGTGCATT
131 GAAATGCATATGGGTACATT
57762 ATTAGCATAA
Statistics
Matches: 136, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
157 136 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.28
Consensus pattern (157 bp):
AAAAAAATAATGCATATGGGTGCATTAGTAGCATGAAAGGATGCCATAGCTGAAATGTATACGGG
TACATTGTCAGCATAAAAGAATAACGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCT
GAAATGCATATGGGTACATTGTCAGCT
Found at i:57788 original size:79 final size:79
Alignment explanation
Indices: 57455--57774 Score: 475
Period size: 79 Copynumber: 4.1 Consensus size: 79
57445 AAACGAATGA
* * *
57455 AAAAAAATAATGCATATGGGTGCATTAGTAGCATGAAAGGATGT-CATAGCTGAAATGTATATGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGAT-TCCATAGCTGAAATGTATATGG
*
57519 GTACATTGTCAGTAT
65 GTACATTGTCAGCAT
*
57534 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGTATATGGG
57599 TACATTGTCAGC-T
66 TACATTGTCAGCAT
* *
57612 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGG-TTGCCATAGCTGAAATGTGTACGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATT-CCATAGCTGAAATGTATATGG
57676 GTACATTGTCAGCAT
65 GTACATTGTCAGCAT
* * * *
57691 AAAAGAATAACGCGTATGGGTGCATTATTGGCATGAAAGGATTCCATCGCTGAAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGTATATGGG
* * *
57756 TGCATTATTAGCAT
66 TACATTGTCAGCAT
57770 AAAAG
1 AAAAG
57775 TATATTTTAT
Statistics
Matches: 220, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
77 1 0.00
78 73 0.33
79 144 0.65
80 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTCCATAGCTGAAATGTATATGGG
TACATTGTCAGCAT
Found at i:64139 original size:95 final size:96
Alignment explanation
Indices: 63972--64151 Score: 265
Period size: 95 Copynumber: 1.9 Consensus size: 96
63962 TGAAGTATCA
* * * *
63972 ATACCATTGTAAGGGTATCGATACCGAGCAAACATCGAAACTAATTTTGGTATCGATACCATAAA
1 ATACCATGGTAAGGGTATCAATACCAAGCAAACATCGAAACTAATTTTGGTATCGATACCACAAA
* *
64037 GGGGTATCGGTACCATAGTAGGGTAGTATTG
66 GGAGTATCAGTACCATAGTAGGGTAGTATTG
* *
64068 ATACCATGGTAAGGGTATCAATACCAAGC-AACATCGAACCTAATTTTGGTATCGATACC-CAGA
1 ATACCATGGTAAGGGTATCAATACCAAGCAAACATCGAAACTAATTTTGGTATCGATACCACAAA
64131 GGAAGTATCAGTACCATAGTA
66 GG-AGTATCAGTACCATAGTA
64152 TTGAAGTATC
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
94 4 0.05
95 45 0.60
96 26 0.35
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.26
Consensus pattern (96 bp):
ATACCATGGTAAGGGTATCAATACCAAGCAAACATCGAAACTAATTTTGGTATCGATACCACAAA
GGAGTATCAGTACCATAGTAGGGTAGTATTG
Found at i:64719 original size:79 final size:79
Alignment explanation
Indices: 64583--64823 Score: 385
Period size: 79 Copynumber: 3.1 Consensus size: 79
64573 AAACAAATGA
*
64583 AAAAG-ATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGTATACGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGTATATGGG
*
64647 TACATTGTCAGTAT
66 TACATTGTCAGCAT
*
64661 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATTTCATAGCTGAAATGTATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGTATATGGG
64726 TACATTGTCAGCAT
66 TACATTGTCAGCAT
* * * *
64740 AAAAGAATAATGCATATGGGTGCATTATTGGCATAAAAGGATGTCATCGTTGAAATGCATATGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGTATATGGG
* * *
64805 TTCATTATTAGCAT
66 TACATTGTCAGCAT
64819 AAAAG
1 AAAAG
64824 TATATTTTAT
Statistics
Matches: 151, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
78 5 0.03
79 146 0.97
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGTATATGGG
TACATTGTCAGCAT
Found at i:66415 original size:12 final size:12
Alignment explanation
Indices: 66398--66430 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
66388 ACAACCACAA
66398 CCGCAACAAATG
1 CCGCAACAAATG
*
66410 CTGCAACAAATG
1 CCGCAACAAATG
66422 CCGCAACAA
1 CCGCAACAA
66431 CTATTTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.42, C:0.33, G:0.15, T:0.09
Consensus pattern (12 bp):
CCGCAACAAATG
Found at i:67289 original size:26 final size:25
Alignment explanation
Indices: 67240--67298 Score: 59
Period size: 25 Copynumber: 2.3 Consensus size: 25
67230 AAAAAGATAT
67240 TAAAATATTTTTTATAAATTATAA-A
1 TAAAATATTTTTTATAAA-TATAACA
67265 TAAAATATTTATTTATTTAAA-ATAACA
1 TAAAATATTT-TTTA--TAAATATAACA
*
67292 GAAAATA
1 TAAAATA
67299 CATCTAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 10 0.34
26 8 0.28
27 7 0.24
28 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
TAAAATATTTTTTATAAATATAACA
Found at i:68858 original size:3 final size:3
Alignment explanation
Indices: 68850--68885 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
68840 ATTATTTATT
68850 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
68886 GTAAAATGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:68949 original size:15 final size:16
Alignment explanation
Indices: 68921--68951 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
68911 GCTGCCCCTC
68921 TTTGCTCTATTCTTGT
1 TTTGCTCTATTCTTGT
68937 TTTGCTC-ATTCTTGT
1 TTTGCTCTATTCTTGT
68952 GTAAACAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.06, C:0.19, G:0.13, T:0.61
Consensus pattern (16 bp):
TTTGCTCTATTCTTGT
Found at i:69264 original size:116 final size:116
Alignment explanation
Indices: 69036--69880 Score: 1300
Period size: 116 Copynumber: 7.3 Consensus size: 116
69026 GATGGAAATG
* * * * * *
69036 TTGAAAACATTCTGCCCAG-AGGTTTTATGAATGGCCCTGAGGTCTTATCATCTTGCACTTTATG
1 TTGAAAACATTCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
* * *
69100 TTTTACAGATGACCCAGAGGTTTTAAATATCAAAAAGCTCACAAAGGCTTT
66 TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCAAAGGCTTT
* **
69151 TTGAAAACATTCTGCACTGTAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTTTACTGTAGG
1 TTGAAAACATTCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
* **
69216 TCTTACAAATGACCCGGAGGTTTTAAATATCAAAAAGCTCATAAAGGCTTT
66 TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCAAAGGCTTT
* * *
69267 TTGAAAACATCCTTCACTGTAGGTCTTATGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGG
1 TTGAAAACATTCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
*
69332 TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCTAAGGCTTT
66 TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCAAAGGCTTT
* * *
69383 TTGAAAACA-TCCGACACTTTAGGTCTTATGGATGGCCCTGAGGTCTTATTATCTTGCACTGTAG
1 TTGAAAACATTCTG-CACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
* * *
69447 GTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAGGCTCCCGAAGGCTTT
65 GTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCAAAGGCTTT
*
69499 TTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
1 TTGAAAACATTCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
* *
69564 TCTTACAAATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTT
66 TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCAAAGGCTTT
* *
69615 TTGAAAACATCCTGCACTGTAGGTCCTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
1 TTGAAAACATTCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
* ** **
69680 TCTTACAGATGACCAGGAGGCCTTAAATATCAAAAAGCTCCTGAAGGCTTT
66 TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCAAAGGCTTT
* * *
69731 TTGAAAACATTTTGCATTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTACACTGTAGG
1 TTGAAAACATTCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
*
69796 TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTT
66 TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCAAAGGCTTT
69847 TTGAAAACA-TCATGCACTGTAGGTCTTATGGATG
1 TTGAAAACATTC-TGCACTGTAGGTCTTATGGATG
69881 TGGGAAATAG
Statistics
Matches: 672, Mismatches: 54, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
115 19 0.03
116 651 0.97
117 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (116 bp):
TTGAAAACATTCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCAAAGGCTTT
Found at i:69567 original size:22 final size:23
Alignment explanation
Indices: 69506--69568 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 23
69496 TTTTTGAAAA
*
69506 CATCCTGCACTGTAGGTCTTATG
1 CATCTTGCACTGTAGGTCTTATG
* * *
69529 GA--TGGCCCTG-AGGTCTTAT-
1 CATCTTGCACTGTAGGTCTTATG
69548 CATCTTGCACTGTAGGTCTTA
1 CATCTTGCACTGTAGGTCTTA
69569 CAAATGACCC
Statistics
Matches: 30, Mismatches: 7, Indels: 7
0.68 0.16 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
21 11 0.37
22 8 0.27
23 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (23 bp):
CATCTTGCACTGTAGGTCTTATG
Found at i:73391 original size:13 final size:13
Alignment explanation
Indices: 73370--73416 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
73360 TCGATTCAAT
*
73370 TTTTTTCTTTTTC
1 TTTTCTCTTTTTC
73383 TTTTCTCTTCTTTTC
1 TTTTCTC-T-TTTTC
73398 TTTTCCTCTTTTT-
1 TTTT-CTCTTTTTC
73411 TTTTCT
1 TTTTCT
73417 TATGATGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 2 0.07
13 10 0.33
14 5 0.17
15 10 0.33
16 3 0.10
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTCTTTTTC
Found at i:73395 original size:16 final size:16
Alignment explanation
Indices: 73374--73416 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
73364 TTCAATTTTT
73374 TTCTTTTTCTTTTCTC
1 TTCTTTTTCTTTTCTC
73390 TTC-TTTTCTTTTC-C
1 TTCTTTTTCTTTTCTC
73404 -TCTTTTT-TTTTCT
1 TTCTTTTTCTTTTCT
73417 TATGATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 7 0.28
14 5 0.20
15 10 0.40
16 3 0.12
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
TTCTTTTTCTTTTCTC
Found at i:73398 original size:15 final size:14
Alignment explanation
Indices: 73378--73416 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
73368 ATTTTTTTCT
73378 TTTTCTTTTCTCTTC
1 TTTTCTTTTCTC-TC
73393 TTTTCTTTTC-CTC
1 TTTTCTTTTCTCTC
*
73406 TTTTTTTTTCT
1 TTTTCTTTTCT
73417 TATGATGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 11 0.50
14 1 0.05
15 10 0.45
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTCTTTTCTCTC
Found at i:74902 original size:19 final size:18
Alignment explanation
Indices: 74869--74905 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
74859 TTGTTGATCA
*
74869 CATTTTCAATTAATTCTC
1 CATTTTCAATAAATTCTC
74887 CATTTATCAATAAATTCTC
1 CATTT-TCAATAAATTCTC
74906 GATCAGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (18 bp):
CATTTTCAATAAATTCTC
Found at i:78780 original size:22 final size:23
Alignment explanation
Indices: 78733--78781 Score: 57
Period size: 25 Copynumber: 2.1 Consensus size: 23
78723 AAAAAGATAT
78733 TAAAATATTTTTTATAAATTATAAA
1 TAAAATATTTTTTAT--ATTATAAA
78758 TAAAATATTTATTTAT-TTA-AAA
1 TAAAATATTT-TTTATATTATAAA
78780 TA
1 TA
78782 TCAAAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.22
23 3 0.13
25 10 0.43
26 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAAAATATTTTTTATATTATAAA
Found at i:81799 original size:5 final size:5
Alignment explanation
Indices: 81789--81814 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
81779 ATTAAATGTA
81789 TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT T
81815 TTTTGAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATAT
Found at i:81829 original size:2 final size:2
Alignment explanation
Indices: 81824--81861 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
81814 TTTTTGAACA
81824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81862 GCTATGGGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94483 original size:95 final size:94
Alignment explanation
Indices: 94292--94530 Score: 286
Period size: 95 Copynumber: 2.5 Consensus size: 94
94282 ATTCAAACAA
* *
94292 TATCGGTACCA-AGCGATGTAGTATCAATACCATGGTAAGGGTATCGATACAAGGAAACATCGAA
1 TATCGGTACCATAGC-ATGTAGTATCGATACCATGGTAAGGGTATCGATACAAGGAAACATCAAA
*
94356 CCTAATTTTGGTATCGATACCGAATAGAGG
65 CATAATTTTGGTATCGATACCGAATAGAGG
* **
94386 TATCGGTACCATAGCATAGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCTACATCAAA
1 TATCGGTACCATAGCAT-GTAGTATCGATACCATGGTAAGGGTATCGATACAAGGAAACATCAAA
* * * *
94451 GATAATTTTGGTATCGATACAGGAA-GGGGG
65 CATAATTTTGGTATCGATAC-CGAATAGAGG
* * * * *
94481 TATCGATACCATAGTAGGGTAGTATCGATACGATAGT-AGGGTATCGATAC
1 TATCGGTACCATAGCA-TGTAGTATCGATACCATGGTAAGGGTATCGATAC
94531 TGAAGAGCCA
Statistics
Matches: 126, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
94 26 0.21
95 97 0.77
96 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (94 bp):
TATCGGTACCATAGCATGTAGTATCGATACCATGGTAAGGGTATCGATACAAGGAAACATCAAAC
ATAATTTTGGTATCGATACCGAATAGAGG
Found at i:94500 original size:19 final size:20
Alignment explanation
Indices: 94477--94530 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
94467 ATACAGGAAG
94477 GGGGTATCGATACCATAGTA
1 GGGGTATCGATACCATAGTA
*
94497 GGGTAGTATCGATACGATAGTA
1 GGG--GTATCGATACCATAGTA
94519 -GGGTATCGATAC
1 GGGGTATCGATAC
94531 TGAAGAGCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 10 0.32
20 3 0.10
21 2 0.06
22 16 0.52
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (20 bp):
GGGGTATCGATACCATAGTA
Found at i:94508 original size:22 final size:22
Alignment explanation
Indices: 94480--94523 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
94470 CAGGAAGGGG
94480 GTATCGATACCATAGTAGGGTA
1 GTATCGATACCATAGTAGGGTA
*
94502 GTATCGATACGATAGTAGGGTA
1 GTATCGATACCATAGTAGGGTA
94524 TCGATACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (22 bp):
GTATCGATACCATAGTAGGGTA
Found at i:95012 original size:45 final size:45
Alignment explanation
Indices: 94958--95257 Score: 324
Period size: 45 Copynumber: 6.7 Consensus size: 45
94948 AGGATGCCAT
94958 AGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATGCTAG
1 AGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATGCTAG
* * * *
95003 AGTTAAAATGCGTATGGGTGCATTATCAACAGAAAAGTAAGCTAG
1 AGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATGCTAG
* * * * *
95048 AGTTGAAATGCATATGGGTACATTATCAACAGAAATGTATGTTAT
1 AGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATGCTAG
* *
95093 AGTTGAAATGCATATGGGTGCATTATCAACAGAAGAA-CATGCTAG
1 AGTTGAAATGCATATAGGTGCATTATCAACAGAA-AAGTATGCTAG
* * *
95138 AGTTGAAAT--ATATATGGTACATTATCAACAGAAAAGTATACTAT
1 AGTTGAAATGCATATA-GGTGCATTATCAACAGAAAAGTATGCTAG
** * *
95182 AGTTGAAATGCATA-AGGGTGTGTTATCAACAGAAAAG-ATGTTAT
1 AGTTGAAATGCATATA-GGTGCATTATCAACAGAAAAGTATGCTAG
* * *
95226 AGTTTAAAGTGCATA-ATGGTGTATTATAAACA
1 AGTTGAAA-TGCATATA-GGTGCATTATCAACA
95258 TAAATGGAGG
Statistics
Matches: 218, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
43 6 0.03
44 43 0.20
45 165 0.76
46 4 0.02
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (45 bp):
AGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATGCTAG
Found at i:95239 original size:134 final size:134
Alignment explanation
Indices: 94956--95257 Score: 387
Period size: 134 Copynumber: 2.2 Consensus size: 134
94946 AAAGGATGCC
* * *
94956 ATAGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATGCTAGAGTTAAAATGCGTATGGG
1 ATAGTTGAAATGCATAT-GGTGCATTATCAACAGAAAAGCATGCTAGAGTTAAAATACATATGGG
* * *
95021 TGCATTATCAACAGAAAAGTAAGCTAGAGTTGAAATGCATATGGGTACATTATCAACAGAAATGT
65 TACATTATCAACAGAAAAGTAAGCTAGAGTTGAAATGCATAAGGGTACATTATCAACAGAAAAGT
95086 ATGTT
130 ATGTT
* *
95091 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAA-CATGCTAGAGTTGAAATATATAT-G
1 ATAGTTGAAATGCATAT-GGTGCATTATCAACAGAA-AAGCATGCTAGAGTTAAAATACATATGG
* ***
95154 GTACATTATCAACAGAAAAGTATA-CTATAGTTGAAATGCATAAGGGTGTGTTATCAACAGAAAA
64 GTACATTATCAACAGAAAAGTA-AGCTAGAGTTGAAATGCATAAGGGTACATTATCAACAGAAAA
95218 G-ATGTT
128 GTATGTT
* * *
95224 ATAGTTTAAAGTGCATAATGGTGTATTATAAACA
1 ATAGTTGAAA-TGCAT-ATGGTGCATTATCAACA
95258 TAAATGGAGG
Statistics
Matches: 147, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
133 14 0.10
134 75 0.51
135 56 0.38
136 2 0.01
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (134 bp):
ATAGTTGAAATGCATATGGTGCATTATCAACAGAAAAGCATGCTAGAGTTAAAATACATATGGGT
ACATTATCAACAGAAAAGTAAGCTAGAGTTGAAATGCATAAGGGTACATTATCAACAGAAAAGTA
TGTT
Found at i:101378 original size:20 final size:19
Alignment explanation
Indices: 101334--101382 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
101324 AGCTAATTTT
101334 GGTATCGATA-CTAGAAGG
1 GGTATCGATACCTAGAAGG
* *
101352 GGGATCGATACCATAGTAGG
1 GGTATCGATACC-TAGAAGG
101372 GGTATCGATAC
1 GGTATCGATAC
101383 TGAAGAGCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 9 0.35
19 1 0.04
20 16 0.62
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (19 bp):
GGTATCGATACCTAGAAGG
Found at i:101871 original size:45 final size:45
Alignment explanation
Indices: 101772--102070 Score: 347
Period size: 45 Copynumber: 6.7 Consensus size: 45
101762 ATGAAAATAC
*** * * * *
101772 AAATGCATATGGGTGCATTATTGGCATG-AAAGGATACCATAGTTG
1 AAATGCATATGGGTGCATTATCAACA-GAAAAGTATGCTAGAGTTG
* * * *
101817 AAATACATATGGGTTCATTACCAACAGAAAAGTATGCTAGAGTTA
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
*
101862 AAATGCATATGGGTGCATTATCAATAGAAAAGTATGCTAGAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
* * * *
101907 AAATGTATATGGGTGCATTATCAACATACATGTATGCTAGAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
* *
101952 AAATGCATATGGGTGCA-TATCAACAGAAGAGCATGCTAGAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
* * * *
101996 AAAT--ATATGGGTACATTATCAACAGAAAATTATACTATAGTTG
1 AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
*
102039 AAATGCATAT-GGTGCATTATCAACATAAAAGT
1 AAATGCATATGGGTGCATTATCAACAGAAAAGT
102071 GTTATAGTTT
Statistics
Matches: 214, Mismatches: 36, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
42 10 0.05
43 26 0.12
44 46 0.21
45 132 0.62
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.29
Consensus pattern (45 bp):
AAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAGAGTTG
Found at i:103324 original size:20 final size:20
Alignment explanation
Indices: 103299--103353 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 20
103289 ATTTAAAGTA
103299 GGTATCGGTACCCTCTACAG
1 GGTATCGGTACCCTCTACAG
*
103319 GGTATCGGTACACCCCTCTATAG
1 GGTATCGGT--A-CCCTCTACAG
*
103342 GGTATCGATACC
1 GGTATCGGTACC
103354 ATACCTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 11 0.37
21 1 0.03
22 1 0.03
23 17 0.57
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (20 bp):
GGTATCGGTACCCTCTACAG
Found at i:111623 original size:27 final size:25
Alignment explanation
Indices: 111594--111642 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
111584 AAAATAAAAT
111594 TTTTCAGTATTCATAAATAAAACAGA
1 TTTTCA-TATTCATAAATAAAACAGA
* *
111620 TTTTCATATTCGTATATAAAACA
1 TTTTCATATTCATAAATAAAACA
111643 AAATACAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.43, C:0.12, G:0.06, T:0.39
Consensus pattern (25 bp):
TTTTCATATTCATAAATAAAACAGA
Found at i:112274 original size:24 final size:24
Alignment explanation
Indices: 112210--112277 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
112200 AAACGGAGAT
* *
112210 ATCATAAATCAAAACAGAATACAG
1 ATCAGAAATCAAAACATAATACAG
* *
112234 ATCAGATATCAGAACATAAT-CTAG
1 ATCAGAAATCAAAACATAATAC-AG
112258 ATCAGAAATCAAAACATAAT
1 ATCAGAAATCAAAACATAAT
112278 TCAGGTAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
23 1 0.03
24 36 0.97
ACGTcount: A:0.54, C:0.16, G:0.09, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAAAACATAATACAG
Found at i:113718 original size:12 final size:12
Alignment explanation
Indices: 113701--113732 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
113691 ATCATATGCA
113701 AGAATGTCAATC
1 AGAATGTCAATC
*
113713 AGAATGTCAGTC
1 AGAATGTCAATC
113725 AGAATGTC
1 AGAATGTC
113733 TTCCAGTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (12 bp):
AGAATGTCAATC
Found at i:114925 original size:44 final size:45
Alignment explanation
Indices: 114860--114958 Score: 173
Period size: 44 Copynumber: 2.2 Consensus size: 45
114850 AAAATAAAAG
*
114860 AAAGAAAAAAGGTTTAAAGAGGGAGGGCGTAATTCTTTTCATCTTT
1 AAAG-AAAAAGGTTTAAAGAGGGAGGGAGTAATTCTTTTCATCTTT
114906 AAAGAAAAA-GTTTAAAGAGGGAGGGAGTAATTCTTTTCATCTTT
1 AAAGAAAAAGGTTTAAAGAGGGAGGGAGTAATTCTTTTCATCTTT
114950 AAAGAAAAA
1 AAAGAAAAA
114959 AATATTTACG
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
44 43 0.83
45 5 0.10
46 4 0.08
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.28
Consensus pattern (45 bp):
AAAGAAAAAGGTTTAAAGAGGGAGGGAGTAATTCTTTTCATCTTT
Found at i:115239 original size:14 final size:15
Alignment explanation
Indices: 115220--115248 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
115210 GGAGTGTTTG
115220 GTGAGGTT-TTTTTT
1 GTGAGGTTATTTTTT
115234 GTGAGGTTATTTTTT
1 GTGAGGTTATTTTTT
115249 TAATTACTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.10, C:0.00, G:0.28, T:0.62
Consensus pattern (15 bp):
GTGAGGTTATTTTTT
Found at i:116295 original size:19 final size:19
Alignment explanation
Indices: 116271--116315 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
116261 ACGTGGACAC
116271 ATTGCAAGCCAATGTCCAA
1 ATTGCAAGCCAATGTCCAA
116290 ATTGCAAGCCAATGTCCAA
1 ATTGCAAGCCAATGTCCAA
*
116309 ATCGCAA
1 ATTGCAA
116316 AACCATGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.20
Consensus pattern (19 bp):
ATTGCAAGCCAATGTCCAA
Found at i:118681 original size:17 final size:17
Alignment explanation
Indices: 118661--118699 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
118651 TTTAGGGAAT
*
118661 TAGTTCATTAATTAAAC
1 TAGTTCATTAATCAAAC
*
118678 TAGTTCATTCATCAAAC
1 TAGTTCATTAATCAAAC
118695 TAGTT
1 TAGTT
118700 TGTTTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (17 bp):
TAGTTCATTAATCAAAC
Found at i:120088 original size:21 final size:21
Alignment explanation
Indices: 120033--120101 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
120023 ATATTTTCAT
*
120033 GAAATGGTTAAG-CACTTTCATC
1 GAAA-GGTTAAGTCA-TTTAATC
* * *
120055 AAAAGGATGAGTCATTTAATC
1 GAAAGGTTAAGTCATTTAATC
*
120076 GAAAGGTTAAGTCCTTTCAA-C
1 GAAAGGTTAAGTCATTT-AATC
120097 GAAAG
1 GAAAG
120102 ATCTTAACCC
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
21 30 0.81
22 7 0.19
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (21 bp):
GAAAGGTTAAGTCATTTAATC
Found at i:123057 original size:66 final size:66
Alignment explanation
Indices: 122915--123058 Score: 148
Period size: 66 Copynumber: 2.1 Consensus size: 66
122905 TGGTGACTTA
* * * *
122915 TACTTGTATGGCTCCTTAAGAGGAGGAGGAGGAGACTTGTACTTGTACACTGGAGGAGGTGGAGA
1 TACTTGTATGACTCCTT-A-AGGAGGAAGAGGAGACTTATACTTGTACACCGGAGGAGGTGGAGA
*
122980 CTTG
64 -TGG
* * * *
122984 TATTTGTATGACTCCTT-AGGAGGAAGAGGAGACTTATACTTGTAGACCGGTGGGGGTGGCAG-T
1 TACTTGTATGACTCCTTAAGGAGGAAGAGGAGACTTATACTTGTACACCGGAGGAGGTGG-AGAT
123047 GG
65 GG
123049 TGACTTGTAT
1 T-ACTTGTAT
123059 TTGTATGGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
65 3 0.05
66 43 0.68
67 2 0.03
69 15 0.24
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.28
Consensus pattern (66 bp):
TACTTGTATGACTCCTTAAGGAGGAAGAGGAGACTTATACTTGTACACCGGAGGAGGTGGAGATG
G
Found at i:123118 original size:141 final size:141
Alignment explanation
Indices: 122895--123168 Score: 324
Period size: 141 Copynumber: 1.9 Consensus size: 141
122885 GGTGGGGGTA
* *
122895 GGGGTGGTCGTGGTGACTTATACTTGTATGGCTCCTTAAGAGGAGGAGGAGGAGACTTGTACTTG
1 GGGGTGGTCGTGGTGACTTATACTTGTATGGCTCCTTAAGAGGAGGAGGAAGAGACTTGTACCTG
* * * *
122960 TACACTGGAGGAGGTGGAGACTTGTATTTGTATGACTCCTT-AGGAGGAAGA-GGAGACTTATAC
66 GACACAGGAGGAAGTGGAGACTTGTACTTGTATGACTCCTTGA-GAGG-AGATGGAGACTTATAC
123023 TTGTAGACCGGTG
129 TTGTAGACCGGTG
* * * *
123036 GGGGTGG-CAGTGGTGACTTGTATTTGTATGGTTCCTT-GGAAGGAGGAGGAAGAGACTTGTACA
1 GGGGTGGTC-GTGGTGACTTATACTTGTATGGCTCCTTAAG-AGGAGGAGGAAGAGACTTGTAC-
* * * * * *
123099 CTGGAGA-AGGTGGAAGTGGAGATTTGTACTTGTATGGCTTCTTGAGAGGAGATGGAGACTTGTA
63 CTGGACACAGGAGGAAGTGGAGACTTGTACTTGTATGACTCCTTGAGAGGAGATGGAGACTTATA
123163 CTTGTA
128 CTTGTA
123169 AAGGAGGGAA
Statistics
Matches: 112, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
140 5 0.04
141 102 0.91
142 5 0.04
ACGTcount: A:0.23, C:0.11, G:0.36, T:0.29
Consensus pattern (141 bp):
GGGGTGGTCGTGGTGACTTATACTTGTATGGCTCCTTAAGAGGAGGAGGAAGAGACTTGTACCTG
GACACAGGAGGAAGTGGAGACTTGTACTTGTATGACTCCTTGAGAGGAGATGGAGACTTATACTT
GTAGACCGGTG
Found at i:124175 original size:17 final size:17
Alignment explanation
Indices: 124137--124178 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
124127 GGGGGTTTTG
124137 GTAAAAATGATTAAATA
1 GTAAAAATGATTAAATA
* *
124154 ATAAAAAGTGATTTAA-A
1 GTAAAAA-TGATTAAATA
124171 GTAAAAAT
1 GTAAAAAT
124179 AAAGAATGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.29
Consensus pattern (17 bp):
GTAAAAATGATTAAATA
Found at i:124765 original size:19 final size:19
Alignment explanation
Indices: 124736--124778 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
124726 TTAGCAAGTT
124736 TAAAAATAAAACTT-AAAA
1 TAAAAATAAAACTTGAAAA
124754 TAAAAATGAAAACTTGAAAA
1 TAAAAAT-AAAACTTGAAAA
*
124774 GAAAA
1 TAAAA
124779 GAAAAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 7 0.32
20 8 0.36
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.19
Consensus pattern (19 bp):
TAAAAATAAAACTTGAAAA
Found at i:130340 original size:21 final size:23
Alignment explanation
Indices: 130322--130371 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
130312 GTTTAAAAAT
130322 AAACTT-AAAA-AAATAAAAAGA
1 AAACTTGAAAAGAAATAAAAAGA
* *
130343 AAACTTGAAAAGAAATGAAATGA
1 AAACTTGAAAAGAAATAAAAAGA
130366 AAACTT
1 AAACTT
130372 TATAAAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 4 0.16
23 15 0.60
ACGTcount: A:0.66, C:0.06, G:0.10, T:0.18
Consensus pattern (23 bp):
AAACTTGAAAAGAAATAAAAAGA
Found at i:130895 original size:24 final size:24
Alignment explanation
Indices: 130860--130907 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
130850 CATATAAGTG
130860 AATGAAAGTCTTCACGAGATGACT
1 AATGAAAGTCTTCACGAGATGACT
*
130884 AATGAAATTCTTCACGAGATGACT
1 AATGAAAGTCTTCACGAGATGACT
130908 CTACTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
AATGAAAGTCTTCACGAGATGACT
Found at i:136800 original size:24 final size:24
Alignment explanation
Indices: 136754--136802 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
136744 ATATATAAGG
* *
136754 ACTTCAACTAGAAACATTGTAGCA
1 ACTTCAACTAGAAACACTATAGCA
* *
136778 ACTTCAACTCGAGACACTATAGCA
1 ACTTCAACTAGAAACACTATAGCA
136802 A
1 A
136803 TATCAAGTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.22
Consensus pattern (24 bp):
ACTTCAACTAGAAACACTATAGCA
Found at i:138589 original size:17 final size:17
Alignment explanation
Indices: 138567--138599 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
138557 TGTGTAAAAA
138567 ACATAATATTAAAATAC
1 ACATAATATTAAAATAC
*
138584 ACATAATCTTAAAATA
1 ACATAATATTAAAATA
138600 GAAGCTTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (17 bp):
ACATAATATTAAAATAC
Found at i:146456 original size:9 final size:9
Alignment explanation
Indices: 146442--146496 Score: 83
Period size: 9 Copynumber: 6.0 Consensus size: 9
146432 AAAACCCACT
146442 AAAAATGAA
1 AAAAATGAA
146451 AAAAATGAA
1 AAAAATGAA
146460 AAAAATTGAA
1 AAAAA-TGAA
*
146470 AAAAATAAA
1 AAAAATGAA
*
146479 AAAAATAAA
1 AAAAATGAA
146488 AAAAATGAA
1 AAAAATGAA
146497 GTTATGAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
9 34 0.79
10 9 0.21
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.13
Consensus pattern (9 bp):
AAAAATGAA
Found at i:159566 original size:21 final size:21
Alignment explanation
Indices: 159540--159619 Score: 128
Period size: 21 Copynumber: 3.9 Consensus size: 21
159530 TGATTTATTA
159540 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
159561 TTATGGATTTCAAGTTTG--G
1 TTATGGATTTCAAGTTTGTTG
* *
159580 TTATGGATTTCAAGTTTCTTA
1 TTATGGATTTCAAGTTTGTTG
159601 TTATGGATTTCAAGTTTGT
1 TTATGGATTTCAAGTTTGT
159620 GTCTTAATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 4
0.89 0.05 0.07
Matches are distributed among these distances:
19 18 0.33
21 36 0.67
ACGTcount: A:0.21, C:0.06, G:0.21, T:0.51
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:159595 original size:40 final size:40
Alignment explanation
Indices: 159540--159618 Score: 140
Period size: 40 Copynumber: 2.0 Consensus size: 40
159530 TGATTTATTA
* *
159540 TTATGGATTTCAAGTTTGTTGTTATGGATTTCAAGTTTGG
1 TTATGGATTTCAAGTTTCTTATTATGGATTTCAAGTTTGG
159580 TTATGGATTTCAAGTTTCTTATTATGGATTTCAAGTTTG
1 TTATGGATTTCAAGTTTCTTATTATGGATTTCAAGTTTG
159619 TGTCTTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.51
Consensus pattern (40 bp):
TTATGGATTTCAAGTTTCTTATTATGGATTTCAAGTTTGG
Found at i:159692 original size:27 final size:27
Alignment explanation
Indices: 159662--159725 Score: 110
Period size: 27 Copynumber: 2.4 Consensus size: 27
159652 TAAAGCTAAT
*
159662 GATATTAAATTTAGGTGTTGTAGAGTA
1 GATATTAAATTTAGGTGTTGTAGAGAA
159689 GATATTAAATTTAGGTGTTGTAGAGAA
1 GATATTAAATTTAGGTGTTGTAGAGAA
*
159716 GAAATTAAAT
1 GATATTAAAT
159726 ATGCAAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.23, T:0.38
Consensus pattern (27 bp):
GATATTAAATTTAGGTGTTGTAGAGAA
Found at i:159877 original size:43 final size:42
Alignment explanation
Indices: 159791--160059 Score: 260
Period size: 43 Copynumber: 6.4 Consensus size: 42
159781 AAAATGTCGA
* * * ** *
159791 TATAGGTCTGACCTTT-GCAGTGTTTGTTTGAAAAACACCGC
1 TATAGATCTGACCTTTAGCGGCGTTTGTTCCAAAAACGCCGC
* * *
159832 TATAGATCTAAACTTTAGCGGCGTTTGTTACAAACAACGCCGC
1 TATAGATCTGACCTTTAGCGGCGTTTGTTCCAAA-AACGCCGC
* *
159875 TATAGATCTGCCCTTTAGCGGCGTTTATT-CAAAAA-GCCGC
1 TATAGATCTGACCTTTAGCGGCGTTTGTTCCAAAAACGCCGC
* * *
159915 TATAGATCTTTAGCTTTAGCGTCGTTTG-TCCAAAAACGCCGC
1 TATAGATC-TGACCTTTAGCGGCGTTTGTTCCAAAAACGCCGC
* * *
159957 TATAGATCTCGACCGTTT-GCGGCATTTGTTTCAAAAATGCCGC
1 TATAGATCT-GACC-TTTAGCGGCGTTTGTTCCAAAAACGCCGC
* * *
160000 TATAGATCCTGACCTTTTGCGGTGTTTGTTCCAAAAATGCCGC
1 TATAGAT-CTGACCTTTAGCGGCGTTTGTTCCAAAAACGCCGC
*
160043 TATAGATCCCGACCTTT
1 TATAGAT-CTGACCTTT
160060 TGCAGTATTT
Statistics
Matches: 191, Mismatches: 27, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
40 14 0.07
41 36 0.19
42 43 0.23
43 96 0.50
44 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (42 bp):
TATAGATCTGACCTTTAGCGGCGTTTGTTCCAAAAACGCCGC
Found at i:160027 original size:85 final size:85
Alignment explanation
Indices: 159813--160062 Score: 269
Period size: 84 Copynumber: 3.0 Consensus size: 85
159803 CTTTGCAGTG
* * * *
159813 TTTGTTTGAAAAACACCGCTATAGAT-CTAAACTTTAGCGGCGTTTGTTACAAACAACGCCGCTA
1 TTTGTTTCAAAAA-GCCGCTATAGATCCTAAACTTTAGCGGTGTTTGTTCCAAA-AACGCCGCTA
*
159877 TAGATCT-G-CCCTTTAGCGGCG
64 TAGATCTCGACCCTTT-GCGGCA
* * * *
159898 TTT-ATTCAAAAAGCCGCTATAGATCTTTAGCTTTAGC-GTCGTTTG-TCCAAAAACGCCGCTAT
1 TTTGTTTCAAAAAGCCGCTATAGATCCTAAACTTTAGCGGT-GTTTGTTCCAAAAACGCCGCTAT
*
159960 AGATCTCGACCGTTTGCGGCA
65 AGATCTCGACCCTTTGCGGCA
* * * *
159981 TTTGTTTCAAAAATGCCGCTATAGATCCTGACCTTTTGCGGTGTTTGTTCCAAAAATGCCGCTAT
1 TTTGTTTCAAAAA-GCCGCTATAGATCCTAAACTTTAGCGGTGTTTGTTCCAAAAACGCCGCTAT
* *
160046 AGATCCCGACCTTTTGC
65 AGATCTCGACCCTTTGC
160063 AGTATTTTTT
Statistics
Matches: 139, Mismatches: 18, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
82 17 0.12
83 26 0.19
84 34 0.24
85 29 0.21
86 33 0.24
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (85 bp):
TTTGTTTCAAAAAGCCGCTATAGATCCTAAACTTTAGCGGTGTTTGTTCCAAAAACGCCGCTATA
GATCTCGACCCTTTGCGGCA
Found at i:163827 original size:13 final size:13
Alignment explanation
Indices: 163809--163838 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
163799 GATACTGCTT
163809 TCTCATGCCCTTA
1 TCTCATGCCCTTA
*
163822 TCTCATGTCCTTA
1 TCTCATGCCCTTA
163835 TCTC
1 TCTC
163839 TTTCCAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.37, G:0.07, T:0.43
Consensus pattern (13 bp):
TCTCATGCCCTTA
Found at i:166601 original size:12 final size:12
Alignment explanation
Indices: 166545--166595 Score: 59
Period size: 12 Copynumber: 4.1 Consensus size: 12
166535 CAAAGCATTT
166545 TTATTTTACTTG
1 TTATTTTACTTG
*
166557 TTCATTTT-TTTG
1 TT-ATTTTACTTG
166569 TATAGTTTTACTTG
1 T-TA-TTTTACTTG
166583 TTATTTTACTTG
1 TTATTTTACTTG
166595 T
1 T
166596 CTTTTTCAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
12 17 0.52
13 12 0.36
14 4 0.12
ACGTcount: A:0.16, C:0.08, G:0.10, T:0.67
Consensus pattern (12 bp):
TTATTTTACTTG
Found at i:180527 original size:27 final size:29
Alignment explanation
Indices: 180497--180556 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
180487 AAAATCATAT
180497 AAAAAAATTATTA-T-TTAAAAAATTCTA
1 AAAAAAATTATTATTATTAAAAAATTCTA
*
180524 AAAAAAATTATTATTACTTAAAAACTTCTA
1 AAAAAAATTATTATTA-TTAAAAAATTCTA
180554 AAA
1 AAA
180557 TAGCAATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 13 0.45
28 1 0.03
30 15 0.52
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAAAAATTATTATTATTAAAAAATTCTA
Found at i:182508 original size:34 final size:34
Alignment explanation
Indices: 182451--182546 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 34
182441 GACACAATTC
*
182451 TTCATCCAAAAGGTGT-CTTCAAAAGTCATGACGT
1 TTCATCCAAAAGGT-TCCTCCAAAAGTCATGACGT
* * ***
182485 TTCATCAAAAAGGTTCCTCCAAAAGGCATGTTTT
1 TTCATCCAAAAGGTTCCTCCAAAAGTCATGACGT
* *
182519 TTCATCCAAAATGTGCCTCCAAAAGTCA
1 TTCATCCAAAAGGTTCCTCCAAAAGTCA
182547 CAAATATTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 1 0.02
34 50 0.98
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (34 bp):
TTCATCCAAAAGGTTCCTCCAAAAGTCATGACGT
Found at i:190493 original size:66 final size:66
Alignment explanation
Indices: 190373--190497 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 66
190363 GAAGACTCTA
* * * *
190373 GCAGGTTCAGTTGCTGTGGGTAATTCTTTGTATAGGTTCTGCACCGACTAGTAATTCCTATCTTT
1 GCAGGTTCAGATACTGTGGGTAATTCTTTGTATAGGTTCAGCACCAACTAGTAATTCCTATCTTT
190438 G
66 G
* * * * *
190439 GCAGGTTCAGATATTGTTGGTAATTCCTTT-TATAGGTTCAGCACTAATTGGTAATTCCT
1 GCAGGTTCAGATACTGTGGGTAATT-CTTTGTATAGGTTCAGCACCAACTAGTAATTCCT
190498 TATGGACCTA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 45 0.92
67 4 0.08
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (66 bp):
GCAGGTTCAGATACTGTGGGTAATTCTTTGTATAGGTTCAGCACCAACTAGTAATTCCTATCTTT
G
Found at i:198430 original size:20 final size:20
Alignment explanation
Indices: 198405--198445 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
198395 TATCTAATTT
198405 ATAATA-TAAAGAATAAATAA
1 ATAATATTAAA-AATAAATAA
*
198425 ATAATATTATAAATAAATAA
1 ATAATATTAAAAATAAATAA
198445 A
1 A
198446 AAAGGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
ATAATATTAAAAATAAATAA
Found at i:200797 original size:21 final size:19
Alignment explanation
Indices: 200759--200804 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
200749 AATTAATCCT
200759 ACTAAGTATTAAAGCTAAGA
1 ACTAA-TATTAAAGCTAAGA
200779 ACTAATATTAAGGAGCTAAGA
1 ACTAATATTAA--AGCTAAGA
200800 A-TAAT
1 ACTAAT
200805 GATTCAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.50, C:0.09, G:0.15, T:0.26
Consensus pattern (19 bp):
ACTAATATTAAAGCTAAGA
Found at i:213559 original size:10 final size:10
Alignment explanation
Indices: 213546--213582 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
213536 TCCATTAGGT
213546 TATTTTTTAG
1 TATTTTTTAG
213556 TATTTTTT--
1 TATTTTTTAG
*
213564 TATTTTTTTG
1 TATTTTTTAG
213574 TATTTTTTA
1 TATTTTTTA
213583 TTTTGTGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
8 8 0.33
10 16 0.67
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.78
Consensus pattern (10 bp):
TATTTTTTAG
Found at i:213579 original size:17 final size:18
Alignment explanation
Indices: 213545--213586 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
213535 TTCCATTAGG
213545 TTATTTTTTAGTATTTTT
1 TTATTTTTTAGTATTTTT
*
213563 TTATTTTTTTGTA-TTTT
1 TTATTTTTTAGTATTTTT
213580 TTATTTT
1 TTATTTT
213587 GTGTAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (18 bp):
TTATTTTTTAGTATTTTT
Found at i:214341 original size:2 final size:2
Alignment explanation
Indices: 214334--214371 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
214324 ATTATACTTG
214334 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
214372 ATTTAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:222981 original size:59 final size:59
Alignment explanation
Indices: 222889--223009 Score: 188
Period size: 59 Copynumber: 2.1 Consensus size: 59
222879 GGAGGGTTGG
* * *
222889 TTAGAGCCATATTGTTGAGTTTAACTTTTCATTGCAACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATTGAGTTTAACTTTTCATTGCAACTAGGAGGGCTCGAAAGGACAC
* * *
222948 TTAGAGCCATATTATTGTGTTTACCTTTTCATTGCGACTAGGAGGGCTCGAAAGGACAC
1 TTAGAGCCATATTATTGAGTTTAACTTTTCATTGCAACTAGGAGGGCTCGAAAGGACAC
223007 TTA
1 TTA
223010 TCCATCTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (59 bp):
TTAGAGCCATATTATTGAGTTTAACTTTTCATTGCAACTAGGAGGGCTCGAAAGGACAC
Found at i:227317 original size:60 final size:59
Alignment explanation
Indices: 227204--227325 Score: 181
Period size: 60 Copynumber: 2.1 Consensus size: 59
227194 GGAGGTTTGG
* *
227204 TTAGAGCCATATTATCAAGTTTGCCTTTTAATTGCGACTAGGAGGGTTCGATAGGACAC
1 TTAGAGCCATATTATCAAGTTTGCCTTTTAATTGCAACTAGGAGGGCTCGATAGGACAC
** * *
227263 TTAGAGCCATATTATCGTGTTTGCATTTTTCATTGCAACTAGGAGGGCTCGATAGGACAC
1 TTAGAGCCATATTATCAAGTTTGC-CTTTTAATTGCAACTAGGAGGGCTCGATAGGACAC
227323 TTA
1 TTA
227326 TCCATCTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
59 22 0.39
60 34 0.61
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (59 bp):
TTAGAGCCATATTATCAAGTTTGCCTTTTAATTGCAACTAGGAGGGCTCGATAGGACAC
Done.