Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007486.1 Hibiscus syriacus cultivar Beakdansim tig00020665_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: 221202
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
File 1 of 2
Found at i:128 original size:37 final size:38
Alignment explanation
Indices: 60--166 Score: 112
Period size: 35 Copynumber: 2.8 Consensus size: 38
50 AAAAATGTTT
* * *
60 TTTTCAAAATATATAATATATGTTTT--TAAATCG-TA
1 TTTTCAAAATATATTATATATATTTTCAAAAATCGATA
95 TTTTCAAAATATATTATATATATTTTCAAAAATCGATA
1 TTTTCAAAATATATTATATATATTTTCAAAAATCGATA
* * *
133 TTTTTAAAAAACTATATATTATATATTTTGAAAA
1 TTTTCAAAATA-TAT-TA-TATATATTTTCAAAA
167 TATTTTCAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
35 24 0.40
37 6 0.10
38 11 0.18
39 3 0.05
40 2 0.03
41 14 0.23
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.47
Consensus pattern (38 bp):
TTTTCAAAATATATTATATATATTTTCAAAAATCGATA
Found at i:157 original size:41 final size:37
Alignment explanation
Indices: 60--181 Score: 103
Period size: 35 Copynumber: 3.4 Consensus size: 37
50 AAAAATGTTT
* * * *
60 TTTTCAAAATATATAATATATGTTTT--TAAATCGTA
1 TTTTCAAAAAATATTATATATATTTTCAAAAATCGTA
*
95 TTTTCAAAATATATTATATATATTTTCAAAAATCGATA
1 TTTTCAAAAAATATTATATATATTTTCAAAAATCG-TA
* *
133 TTTTTAAAAAACTATATATTATATATTTT-GAAAA---TA
1 TTTTCAAAAAA-TAT-TA-TATATATTTTCAAAAATCGTA
169 TTTTCAAAAAATA
1 TTTTCAAAAAATA
182 AGCTCCGGAC
Statistics
Matches: 74, Mismatches: 7, Indels: 12
0.80 0.08 0.13
Matches are distributed among these distances:
35 26 0.35
36 12 0.16
37 6 0.08
38 11 0.15
39 3 0.04
40 6 0.08
41 10 0.14
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (37 bp):
TTTTCAAAAAATATTATATATATTTTCAAAAATCGTA
Found at i:909 original size:14 final size:14
Alignment explanation
Indices: 892--924 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
882 ATTTCTATGT
*
892 AGGGAATTATTTGC
1 AGGGAATTATTTAC
906 AGGGAATTATTTAC
1 AGGGAATTATTTAC
920 AGGGA
1 AGGGA
925 TTACTCCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.30
Consensus pattern (14 bp):
AGGGAATTATTTAC
Found at i:2628 original size:24 final size:21
Alignment explanation
Indices: 2585--2626 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
2575 CCGGGTCTAC
2585 AAAAAATTATTTTATTATTAT
1 AAAAAATTATTTTATTATTAT
* *
2606 AAAAAATAATATTATTATTAT
1 AAAAAATTATTTTATTATTAT
2627 TACAACTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAAAAATTATTTTATTATTAT
Found at i:4211 original size:29 final size:30
Alignment explanation
Indices: 4178--4241 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
4168 TTTTAGATCT
*
4178 TTTAAATTTCTATTTTTGTT-TTTTGGTCC
1 TTTAAATTTCTATATTTGTTATTTTGGTCC
* *
4207 TTTAAGTTTCTGTATTTGTTATTTTGGTCC
1 TTTAAATTTCTATATTTGTTATTTTGGTCC
4237 TTTAA
1 TTTAA
4242 CTTTATGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.16, C:0.09, G:0.12, T:0.62
Consensus pattern (30 bp):
TTTAAATTTCTATATTTGTTATTTTGGTCC
Found at i:4234 original size:30 final size:29
Alignment explanation
Indices: 4178--4253 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 29
4168 TTTTAGATCT
* *
4178 TTTAAATTTCTATTTTTGTTTTTTGGTCC
1 TTTAAATTTCTGTATTTGTTTTTTGGTCC
*
4207 TTTAAGTTTCTGTATTTGTTATTTTGGTCC
1 TTTAAATTTCTGTATTTGTT-TTTTGGTCC
* *
4237 TTTAACTTTATGTATTT
1 TTTAAATTTCTGTATTT
4254 ACTATTCAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 17 0.41
30 24 0.59
ACGTcount: A:0.16, C:0.09, G:0.12, T:0.63
Consensus pattern (29 bp):
TTTAAATTTCTGTATTTGTTTTTTGGTCC
Found at i:9985 original size:32 final size:32
Alignment explanation
Indices: 9943--10006 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
9933 AAGAAACGAT
*
9943 GAATGATGGGGTATCATTGGAGATTCAACATC
1 GAATGATGGGGCATCATTGGAGATTCAACATC
* * *
9975 GAATGTTGGGGCATCTTTGGGGATTCAACATC
1 GAATGATGGGGCATCATTGGAGATTCAACATC
10007 TTGATGTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (32 bp):
GAATGATGGGGCATCATTGGAGATTCAACATC
Found at i:10332 original size:102 final size:95
Alignment explanation
Indices: 10208--10430 Score: 232
Period size: 97 Copynumber: 2.3 Consensus size: 95
10198 AAAATTTACC
* * *
10208 ATCTTTGAGTATGTTTCCCTTGAAACAAAATAAATATATTTGAGATTGTTTCTATTGAAACAAAT
1 ATCTTTGAGTATGTTTCTCTTGAAAC--AA-AAACATATTTGAG-TCGTTTC-ATTGAAACAAAT
* * *
10273 TTTGTCTCCCTTGAGGCAGTTTCT-TTCGAAACGCAAA
61 TTTGTCTCCCTTAAGACAGCTTCTCTT-G-AA-GCAAA
* * * *
10310 ATCTTTGAGTTTGTTTCTCTTGAAACAAAACCATCTTTGAGTCGTTTCCTTGAAACAAATTTTGT
1 ATCTTTGAGTATGTTTCTCTTGAAACAAAAACATATTTGAGTCGTTTCATTGAAACAAATTTTGT
* **
10375 CTCTCTTAAGACAGCTTCTCTTGAAGCATC
66 CTCCCTTAAGACAGCTTCTCTTGAAGCAAA
**
10405 ATCTTTGAGTCGGTTTCTCTTGAAAC
1 ATCTTTGAGTATGTTTCTCTTGAAAC
10431 CATTATCCCT
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
95 27 0.26
96 2 0.02
97 32 0.30
98 8 0.08
99 10 0.10
100 2 0.02
102 24 0.23
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (95 bp):
ATCTTTGAGTATGTTTCTCTTGAAACAAAAACATATTTGAGTCGTTTCATTGAAACAAATTTTGT
CTCCCTTAAGACAGCTTCTCTTGAAGCAAA
Found at i:10364 original size:30 final size:32
Alignment explanation
Indices: 10310--10368 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 32
10300 GAAACGCAAA
*
10310 ATCTTTGAGTTTGTTTCTCTTGAAACAAAACC
1 ATCTTTGAGTTCGTTTCTCTTGAAACAAAACC
10342 ATCTTTGAG-TCGTTTC-CTTGAAACAAA
1 ATCTTTGAGTTCGTTTCTCTTGAAACAAA
10369 TTTTGTCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 11 0.42
31 6 0.23
32 9 0.35
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.39
Consensus pattern (32 bp):
ATCTTTGAGTTCGTTTCTCTTGAAACAAAACC
Found at i:10765 original size:135 final size:129
Alignment explanation
Indices: 10476--10773 Score: 350
Period size: 135 Copynumber: 2.3 Consensus size: 129
10466 ATAGGAACCA
** * **
10476 TGTCATCCCCTGACTAGACCTCCTCATCACGTAGGAGTTGTGTCACCCTAATAACCAGCCGTCCT
1 TGTCATCCCCCAACCAGACCTCCTCATCACGTAGGAGACGTGTCACCCTAATAACCAGCCGTCCT
* * * * *
10541 CATCATGTAGGAATCGTGTTATCATCCCTAAAGATGGCATATCATCCTCATCACGTAGGTACCG
66 CATCACGTAGGAATCGTGTTATCACCCCTAAAGATGGCAGAACATCCTCATCACGTAGGTACAG
*
10605 TGTCATCCACCAACCAGACCTCCTCATCACGTAGGAGACGTGTCACCCCTAGATAACCAGCCGTC
1 TGTCATCCCCCAACCAGACCTCCTCATCACGTAGGAGACGTGTCA-CCCTA-ATAACCAGCCGTC
* * *
10670 CTCATCGCGTAGGAA-CTGTGTTATCACCCTCTTTAAATATGGCCAAGAAC-TCTTCATCACGTA
64 CTCATCACGTAGGAATC-GTGTTATCACCC-C--TAAAGATGG-C-AGAACATCCTCATCACGTA
*
10733 TG-AGCAG
123 GGTA-CAG
*
10740 TGTCATCCCCCAACCAGATCTCCTCATCACGTAG
1 TGTCATCCCCCAACCAGACCTCCTCATCACGTAG
10774 AAGCCGTATC
Statistics
Matches: 143, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
129 39 0.27
130 6 0.04
131 37 0.26
132 1 0.01
134 9 0.06
135 48 0.34
136 3 0.02
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (129 bp):
TGTCATCCCCCAACCAGACCTCCTCATCACGTAGGAGACGTGTCACCCTAATAACCAGCCGTCCT
CATCACGTAGGAATCGTGTTATCACCCCTAAAGATGGCAGAACATCCTCATCACGTAGGTACAG
Found at i:10995 original size:3 final size:3
Alignment explanation
Indices: 10987--11051 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
10977 AAAAATTATG
*
10987 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11035 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
11052 TACATACTTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:11850 original size:30 final size:29
Alignment explanation
Indices: 11805--11969 Score: 118
Period size: 30 Copynumber: 5.5 Consensus size: 29
11795 TGTTAATACC
* *
11805 ATTTTAGACCCTTTAAGATTCTATTTTTATT
1 ATTTTAG-TCCTTTAA-ATTCTATTTTTGTT
*
11836 ATTTTAGTCCTTTAAATATCTA-TTTTGCT
1 ATTTTAGTCCTTTAAAT-TCTATTTTTGTT
* * * **
11865 ATTTTAATCCCTTAAATGTCTTTTTTTACT
1 ATTTTAGTCCTTTAAAT-TCTATTTTTGTT
* *
11895 ATTTTAGACCTTTTAAATTTTTATTTTTGTT
1 ATTTTAGTCC-TTTAAA-TTCTATTTTTGTT
* * * *
11926 -TTTTGGTCCTTTAAGTTTCTGTATTTGTT
1 ATTTTAGTCCTTTAA-ATTCTATTTTTGTT
*
11955 ATTTTGGTCCTTTAA
1 ATTTTAGTCCTTTAA
11970 CTTTATGTAT
Statistics
Matches: 107, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
29 40 0.37
30 46 0.43
31 20 0.19
32 1 0.01
ACGTcount: A:0.21, C:0.12, G:0.08, T:0.58
Consensus pattern (29 bp):
ATTTTAGTCCTTTAAATTCTATTTTTGTT
Found at i:11879 original size:29 final size:30
Alignment explanation
Indices: 11829--11900 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
11819 AAGATTCTAT
* * *
11829 TTTTATTATTTTAGTCCTTTAAATATC-TA
1 TTTTACTATTTTAATCCCTTAAATATCTTA
* * *
11858 TTTTGCTATTTTAATCCCTTAAATGTCTTT
1 TTTTACTATTTTAATCCCTTAAATATCTTA
11888 TTTTACTATTTTA
1 TTTTACTATTTTA
11901 GACCTTTTAA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
29 22 0.63
30 13 0.37
ACGTcount: A:0.24, C:0.12, G:0.04, T:0.60
Consensus pattern (30 bp):
TTTTACTATTTTAATCCCTTAAATATCTTA
Found at i:11979 original size:30 final size:29
Alignment explanation
Indices: 11920--11981 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 29
11910 AATTTTTATT
* *
11920 TTTGTTTTTTGGTCCTTTAAGTTTCTGTA
1 TTTGTTTTTTGGTCCTTTAACTTTATGTA
11949 TTTGTTATTTTGGTCCTTTAACTTTATGTA
1 TTTGTT-TTTTGGTCCTTTAACTTTATGTA
11979 TTT
1 TTT
11982 ACTGTTCAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 6 0.20
30 24 0.80
ACGTcount: A:0.13, C:0.10, G:0.15, T:0.63
Consensus pattern (29 bp):
TTTGTTTTTTGGTCCTTTAACTTTATGTA
Found at i:15219 original size:20 final size:20
Alignment explanation
Indices: 15194--15232 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
15184 AATGAAACAT
15194 AAAAAAGATAGAAAA-GAAAG
1 AAAAAA-ATAGAAAATGAAAG
15214 AAAAAAATAGAAAATGAAA
1 AAAAAAATAGAAAATGAAA
15233 CAAATGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAAAAATAGAAAATGAAAG
Found at i:15242 original size:23 final size:22
Alignment explanation
Indices: 15215--15330 Score: 78
Period size: 23 Copynumber: 5.0 Consensus size: 22
15205 AAAAGAAAGA
*
15215 AAAAAATAGAAAATGAAACAAATG
1 AAAAAA-AGAAAAAGAAA-AAATG
15239 AAAAAAAGAAAAAGAAAAAATG
1 AAAAAAAGAAAAAGAAAAAATG
*
15261 AGAAAAAAG---AGGAAAAAA-G
1 A-AAAAAAGAAAAAGAAAAAATG
15280 AAAAAAATGAGAGAAAATGAGAAAAATG
1 -AAAAAA--AGA-AAAA-GA-AAAAATG
*
15308 AAAAGAAAGAAAGAAGAAAAAAT
1 -AAAAAAAGAAA-AAGAAAAAAT
15331 CGATCAAATA
Statistics
Matches: 76, Mismatches: 4, Indels: 24
0.73 0.04 0.23
Matches are distributed among these distances:
19 6 0.08
20 9 0.12
21 2 0.03
22 6 0.08
23 17 0.22
24 12 0.16
25 5 0.07
26 7 0.09
27 5 0.07
28 7 0.09
ACGTcount: A:0.74, C:0.01, G:0.18, T:0.07
Consensus pattern (22 bp):
AAAAAAAGAAAAAGAAAAAATG
Found at i:15258 original size:60 final size:59
Alignment explanation
Indices: 15194--15327 Score: 134
Period size: 60 Copynumber: 2.2 Consensus size: 59
15184 AATGAAACAT
*
15194 AAAAAAGATAGAAAAGAAAGAAAAAA-ATAGAAAATGA-A-ACAAATGA-AAAAAAGAAAAAGA
1 AAAAAAGA-AGAAAAG-AAGAAAAAAGA-AAAAAATGAGAGA-AAATGAGAAAAAAG-AAAAGA
* *
15254 AAAAATGAGAA-AAAAGAGGAAAAAAGAAAAAAATGAGAGAAAATGAGAAAAATGAAAAGA
1 AAAAA--AGAAGAAAAGAAGAAAAAAGAAAAAAATGAGAGAAAATGAGAAAAAAGAAAAGA
*
15314 AAGAAAGAAGAAAA
1 AAAAAAGAAGAAAA
15328 AATCGATCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 15
0.77 0.05 0.18
Matches are distributed among these distances:
58 4 0.06
59 20 0.32
60 28 0.44
61 8 0.13
62 3 0.05
ACGTcount: A:0.75, C:0.01, G:0.19, T:0.06
Consensus pattern (59 bp):
AAAAAAGAAGAAAAGAAGAAAAAAGAAAAAAATGAGAGAAAATGAGAAAAAAGAAAAGA
Found at i:15266 original size:10 final size:10
Alignment explanation
Indices: 15251--15305 Score: 71
Period size: 10 Copynumber: 5.7 Consensus size: 10
15241 AAAAAGAAAA
15251 AGAAAAAATG
1 AGAAAAAATG
15261 AGAAAAAA-G
1 AGAAAAAATG
15270 AGGAAAAAA-G
1 A-GAAAAAATG
15280 A-AAAAAATG
1 AGAAAAAATG
*
15289 AGAGAAAATG
1 AGAAAAAATG
15299 AGAAAAA
1 AGAAAAA
15306 TGAAAAGAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
8 6 0.15
9 4 0.10
10 30 0.75
ACGTcount: A:0.73, C:0.00, G:0.22, T:0.05
Consensus pattern (10 bp):
AGAAAAAATG
Found at i:15287 original size:28 final size:28
Alignment explanation
Indices: 15238--15311 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
15228 TGAAACAAAT
*
15238 GAAAAAAAG-AAAAAG-AAAAAATGAGA
1 GAAAAAGAGAAAAAAGAAAAAAATGAGA
15264 -AAAAAGAGGAAAAAAGAAAAAAATGAGA
1 GAAAAAGA-GAAAAAAGAAAAAAATGAGA
* *
15292 GAAAATGAGAAAAATGAAAA
1 GAAAAAGAGAAAAAAGAAAA
15312 GAAAGAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 6 0.15
26 1 0.02
27 6 0.15
28 22 0.54
29 6 0.15
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.05
Consensus pattern (28 bp):
GAAAAAGAGAAAAAAGAAAAAAATGAGA
Found at i:15986 original size:28 final size:28
Alignment explanation
Indices: 15946--16047 Score: 141
Period size: 28 Copynumber: 3.6 Consensus size: 28
15936 TCCAACCTGT
*
15946 AACACATTACCTCCCCAAATTAACGTGA
1 AACACATTACCTCCCCAAATTAACATGA
* *
15974 AACACATTACCTCACCAAATTAACCTGA
1 AACACATTACCTCCCCAAATTAACATGA
* *
16002 AACACATTACCACCCCAAAATAACATGA
1 AACACATTACCTCCCCAAATTAACATGA
* *
16030 AGCACATTACCTTCCCAA
1 AACACATTACCTCCCCAA
16048 GACAGCCTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 65 1.00
ACGTcount: A:0.42, C:0.33, G:0.05, T:0.20
Consensus pattern (28 bp):
AACACATTACCTCCCCAAATTAACATGA
Found at i:17533 original size:42 final size:42
Alignment explanation
Indices: 17474--17555 Score: 121
Period size: 42 Copynumber: 2.0 Consensus size: 42
17464 ATGGGTTTCT
*
17474 TGATGCGTAAGTCCTTCGGGCCATC-AGTAAGTCTTTCGAGGA
1 TGATGCGTAAATCCTTCGGGCCATCTA-TAAGTCTTTCGAGGA
* *
17516 TGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAG
1 TGATGCGTAAATCCTTCGGGCCATCTATAAGTCTTTCGAG
17556 CAAGATGATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 35 0.97
43 1 0.03
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.33
Consensus pattern (42 bp):
TGATGCGTAAATCCTTCGGGCCATCTATAAGTCTTTCGAGGA
Found at i:17838 original size:277 final size:278
Alignment explanation
Indices: 17317--18143 Score: 1179
Period size: 277 Copynumber: 3.0 Consensus size: 278
17307 AGCTAAACAA
* * * *
17317 CATGAT-ATTTTCAAAAGAATTTTTAAAGAAACTAAGTCTGATTTTCAGGGGTTTCTTGATGATG
1 CATGATGA-TTTCAAATGAGTTTTT--AGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATT
* * * * ** * *
17381 ATTTTCAATGAGTTTTTAAAAAGGAAGC-AAATCAAATTTTTAGGGGTTCCTTGATGACAACTAA
63 ATATCCAAAGAGTTTTT-AAAAGGAAACTAAGCCTAATTTTTAGGGGTTCCTTGATGAAAACTAA
* * *
17445 GAAACTAAGCTTGATTTTTATGGGTTTCTTGATGCGTAAGTCCTTCGGGCCATCAGTAAGTCTTT
127 GAAACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTT
* * *
17510 CGAGGATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGT-CTTCC
192 CGAGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGTCCTT-A
*
17574 GGGCCATCAATAAGACCTTCTG-G
256 GGGCCATCCATAAGACCTTC-GAG
17597 C-TGGATGATTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTAT-AGGGGTTTCTTGATGATTA
1 CAT-GATGATTTCAAATGAGTTTTTAGAAACTAAGCCTGATTT-TCAGGGGTTTCTTGATGATTA
17660 TATCCAAAGAGTTTTTAAAAGGAAACTAAGCCTAATTTTTAGGGGTTCCTTGATGAAAACTAAGA
64 TATCCAAAGAGTTTTTAAAAGGAAACTAAGCCTAATTTTTAGGGGTTCCTTGATGAAAACTAAGA
* * *
17725 AACT-AGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGTGTCATTAGTAAGTCTTTCG
129 AACTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCG
*
17789 ACCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGTCCTTAGGG
194 AGCATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGTCCTTAGGG
17854 CCATCCATAAGACCTTCGAG
259 CCATCCATAAGACCTTCGAG
* *
17874 CATGATGATTTCAAATAAGTTTTTAGAAACTAAGCCTTATTTTCA-GGGTTTCTTGATGATTATA
1 CATGATGATTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATA
** * * *
17938 TCCAAAGAGTTTTTAAAAGGAATTTAAGCCTAACTTTTAGGGGTTCCTTAATGAAAACTAAGAAG
66 TCCAAAGAGTTTTTAAAAGGAAACTAAGCCTAATTTTTAGGGGTTCCTTGATGAAAACTAAGAAA
*
18003 CTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCAAG
131 CTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
* * * *
18068 CATGATG-TGTAAGTCTTTCGGGCCATCTATAAGTCTTTCGAA-CAAGATGATAAGTCCTTTGGG
196 CATGATGCT-TAAATCCTTCGGGTCATCTATAAGTCTTTC-AAGCAAGATGATAAGTCCTTAGGG
18131 CCATCCATAAGAC
259 CCATCCATAAGAC
18144 ATCTGGGTAG
Statistics
Matches: 497, Mismatches: 39, Indels: 25
0.89 0.07 0.04
Matches are distributed among these distances:
276 84 0.17
277 300 0.60
278 92 0.19
279 2 0.00
280 18 0.04
281 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (278 bp):
CATGATGATTTCAAATGAGTTTTTAGAAACTAAGCCTGATTTTCAGGGGTTTCTTGATGATTATA
TCCAAAGAGTTTTTAAAAGGAAACTAAGCCTAATTTTTAGGGGTTCCTTGATGAAAACTAAGAAA
CTAAGCTTGATTTTCAAGGGTTTCTTGATGAGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAG
CATGATGCTTAAATCCTTCGGGTCATCTATAAGTCTTTCAAGCAAGATGATAAGTCCTTAGGGCC
ATCCATAAGACCTTCGAG
Found at i:17864 original size:41 final size:41
Alignment explanation
Indices: 17804--17882 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
17794 GATGCTTAAA
* * * * *
17804 TCCTTCGGGTCATCTATAAGTCTTTCAAGCAAGATGATAAG
1 TCCTTAGGGCCATCCATAAGACCTTCAAGCAAGATGATAAG
* *
17845 TCCTTAGGGCCATCCATAAGACCTTCGAGCATGATGAT
1 TCCTTAGGGCCATCCATAAGACCTTCAAGCAAGATGAT
17883 TTCAAATAAG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
TCCTTAGGGCCATCCATAAGACCTTCAAGCAAGATGATAAG
Found at i:18088 original size:42 final size:41
Alignment explanation
Indices: 18028--18141 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 41
18018 AAGGGTTTCT
*
18028 TGATGAGTAAGTCCTTCGGGCCATC-AGTAAGTCTTTC-AAGCA
1 TGATG-GTAAGTCTTTCGGGCCATCTA-TAAGTCTTTCGAA-CA
18070 TGATGTGTAAGTCTTTCGGGCCATCTATAAGTCTTTCGAACA
1 TGATG-GTAAGTCTTTCGGGCCATCTATAAGTCTTTCGAACA
* * *
18112 AGATGATAAGTCCTTT-GGGCCATCCATAAG
1 TGATGGTAAGT-CTTTCGGGCCATCTATAAG
18142 ACATCTGGGT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
41 18 0.28
42 43 0.67
43 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (41 bp):
TGATGGTAAGTCTTTCGGGCCATCTATAAGTCTTTCGAACA
Found at i:19929 original size:17 final size:17
Alignment explanation
Indices: 19907--19965 Score: 75
Period size: 17 Copynumber: 3.4 Consensus size: 17
19897 TTGTGTTTAT
19907 TTTTATTTTTTATTCTA
1 TTTTATTTTTTATTCTA
*
19924 TTTTATTTTTTATT-TT
1 TTTTATTTTTTATTCTA
19940 TTTTATTATTGTTATTCTA
1 TTTTATT-TT-TTATTCTA
19959 TTATTAT
1 TT-TTAT
19966 GTTTATTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
16 8 0.22
17 16 0.44
18 5 0.14
19 3 0.08
20 4 0.11
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTTATTTTTTATTCTA
Found at i:19971 original size:17 final size:16
Alignment explanation
Indices: 19909--19972 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 16
19899 GTGTTTATTT
19909 TTATT-TTTTATTCTA
1 TTATTATTTTATTCTA
* *
19924 TT-TTATTTTTTATTTTTT
1 TTATTA--TTTTA-TTCTA
19942 TTATTATTGTTATTCTA
1 TTATTATT-TTATTCTA
19959 TTATTATGTTTATT
1 TTATTAT-TTTATT
19973 AATTGTTTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
14 2 0.05
15 2 0.05
17 22 0.58
18 9 0.24
19 3 0.08
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (16 bp):
TTATTATTTTATTCTA
Found at i:19971 original size:35 final size:33
Alignment explanation
Indices: 19906--19972 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 33
19896 CTTGTGTTTA
*
19906 TTTTTATTTTTTATTCTATTTTATTTTTTATTT
1 TTTTTATTTTTTATTCTATTTTATTGTTTATTT
19939 TTTTTATTATTGTTATTCTATTATTA-TGTTTATT
1 TTTTTATT-TT-TTATTCTATT-TTATTGTTTATT
19973 AATTGTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 8 0.27
34 2 0.07
35 17 0.57
36 3 0.10
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (33 bp):
TTTTTATTTTTTATTCTATTTTATTGTTTATTT
Found at i:24595 original size:3 final size:3
Alignment explanation
Indices: 24589--24665 Score: 82
Period size: 3 Copynumber: 25.0 Consensus size: 3
24579 CATTTTAATG
* * * *
24589 TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TAA TAA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
24637 TTA TTA ATA TATA TTA TTTA TTA ATA TTA
1 TTA TTA TTA T-TA TTA -TTA TTA TTA TTA
24666 CAAAACCCGG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
3 60 0.91
4 6 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:24659 original size:17 final size:16
Alignment explanation
Indices: 24589--24663 Score: 68
Period size: 16 Copynumber: 4.8 Consensus size: 16
24579 CATTTTAATG
*
24589 TTATTATTATTAT-TA
1 TTATTATTAATATATA
24604 TTATTATT-AT-TATA
1 TTATTATTAATATATA
* * *
24618 ATAATAATAAT-TATTA
1 TTATTATTAATATA-TA
24634 TTATTATTAATATATA
1 TTATTATTAATATATA
24650 TTATTTATTAATAT
1 TTA-TTATTAATAT
24664 TACAAAACCC
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.02
14 8 0.17
15 12 0.25
16 15 0.31
17 12 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATTATTAATATATA
Found at i:26071 original size:27 final size:26
Alignment explanation
Indices: 26041--26099 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
26031 TAAATATATA
*
26041 TAATAAATAATTATTTATATATATTTT
1 TAATAAATAATT-TTAATATATATTTT
* *
26068 TAATAAATTATTTTAATATTTATTTT
1 TAATAAATAATTTTAATATATATTTT
26094 TCAATA
1 T-AATA
26100 TCGATGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 13 0.46
27 15 0.54
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (26 bp):
TAATAAATAATTTTAATATATATTTT
Found at i:26775 original size:24 final size:23
Alignment explanation
Indices: 26736--26784 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
26726 AATTTATAAT
26736 TTTTTATATATATATACATATTA
1 TTTTTATATATATATACATATTA
* *
26759 TTTTTATAGTATTTATATATATTA
1 TTTTTATA-TATATATACATATTA
26783 TT
1 TT
26785 AATATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTTTATATATATATACATATTA
Found at i:30100 original size:15 final size:15
Alignment explanation
Indices: 30080--30111 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30070 ATCAATACCT
30080 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
30095 TTTTGCATACATTCA
1 TTTTGCATACATGCA
30110 TT
1 TT
30112 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:37446 original size:10 final size:10
Alignment explanation
Indices: 37425--37482 Score: 55
Period size: 10 Copynumber: 5.6 Consensus size: 10
37415 GTTTGAAGAA
*
37425 AAAAAGAAAAA
1 AAAAAG-AAAG
*
37436 AAGAAAGAAAA
1 AA-AAAGAAAG
37447 AAAAAGAAAG
1 AAAAAGAAAG
*
37457 AAAAAAAAAG
1 AAAAAGAAAG
37467 AAAAA-AGAAG
1 AAAAAGA-AAG
37477 AAAAAG
1 AAAAAG
37483 GGGGGGTCAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
9 1 0.02
10 29 0.69
11 8 0.19
12 4 0.10
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:37450 original size:14 final size:14
Alignment explanation
Indices: 37431--37469 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
37421 AGAAAAAAAG
37431 AAAAAAAGAAAGAA
1 AAAAAAAGAAAGAA
37445 AAAAAAAGAAAGAA
1 AAAAAAAGAAAGAA
37459 AAAAAAAGAAA
1 AAAAAAAGAAA
37470 AAAGAAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAAGAA
Found at i:37460 original size:24 final size:23
Alignment explanation
Indices: 37423--37481 Score: 84
Period size: 24 Copynumber: 2.6 Consensus size: 23
37413 ATGTTTGAAG
*
37423 AAAAAAAG-AAAAAAAGAAAGAA
1 AAAAAAAGAAAAAAAAAAAAGAA
37445 AAAAAAAGAAAGAAAAAAAAAGAA
1 AAAAAAAGAAA-AAAAAAAAAGAA
*
37469 AAAAGAAGAAAAA
1 AAAAAAAGAAAAA
37482 GGGGGGGTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 8 0.24
23 4 0.12
24 21 0.64
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (23 bp):
AAAAAAAGAAAAAAAAAAAAGAA
Found at i:39812 original size:83 final size:83
Alignment explanation
Indices: 38637--39791 Score: 1927
Period size: 83 Copynumber: 13.9 Consensus size: 83
38627 GAACAAATGC
*
38637 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
38702 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
* * *
38720 AATGTGCTCATAGCATTTTCTGGAAGTGTTCTTTCAGTTATCTGATCTAGTTTGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
* *
38785 CACTGAAATTGGAAGATG
66 CATTGAATTTGGAAGATG
*
38803 AATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
38868 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
* * *
38886 AATATGCTTATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAAACCAA
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAG-AACCAA
*
38951 TCATTGAAATTGGAAGATG
65 TCATTGAATTTGGAAGATG
*
38970 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
39035 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
*
39053 AATGTGCTCATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
*
39118 CATTGAAATTGGAAGATG
66 CATTGAATTTGGAAGATG
* *
39136 AATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGAAAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
39201 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
* * *
39219 AATATGCTCATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
*
39284 CATTGAAATTGGAAGATG
66 CATTGAATTTGGAAGATG
* *
39302 AATGTGCTCATAGCATTTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
*
39367 CATTGAAATTGGAAGATG
66 CATTGAATTTGGAAGATG
* *
39385 AATGTGCTCATAGCATTTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAGTTTGACAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
39450 CATTGAATTTGGAAGATG
66 CATTGAATTTGGAAGATG
* * *
39468 AATATGCTCATAACATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
39533 CATTGAATTTGGAAGA-G
66 CATTGAATTTGGAAGATG
* * *
39550 TAATGTGCTCATAGCATTTTCTGGAAGTGTTCTTTGGGTTATCTGATCTGGTTTGGCAGAACCAA
1 -AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAA
*
39615 TCATTGAAGTTGGAAGA-G
65 TCATTGAATTTGGAAGATG
*
39633 TAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAA
1 -AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAA
39698 TCATTGAATTTGGAAGATG
65 TCATTGAATTTGGAAGATG
* ** *
39717 AATATGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAAACCAAT
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
*
39782 CATTGGATTT
66 CATTGAATTT
39792 AAAAGATAAA
Statistics
Matches: 1016, Mismatches: 53, Indels: 6
0.95 0.05 0.01
Matches are distributed among these distances:
82 1 0.00
83 936 0.92
84 79 0.08
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGACAGAACCAAT
CATTGAATTTGGAAGATG
Found at i:40795 original size:116 final size:113
Alignment explanation
Indices: 40608--41467 Score: 1133
Period size: 116 Copynumber: 7.5 Consensus size: 113
40598 CCATCATTCA
* * * *
40608 ATGGATCAGCATTACCAGGTAGAGTTCATAATAAGAAGAACTCGTCATCTGAAGAAGGAAGAAGA
1 ATGGATTAACATTTCCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGA
* * * *
40673 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTT
63 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATTCATCACTTG
* * *
40724 ATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAATGAAGAATA
1 ATGGATTAACATTTCCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGA
* * *
40789 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTG
63 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATTCATCACTTG
*
40840 ATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAGAAGA
1 ATGGATTAACATTTCCAGGTAGAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGA
*
40904 AGTTCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATTCATCACTTG
63 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATTCATCACTTG
* * *
40955 ATGGATCAGCTTTTCCA-G-AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 ATGGATTAACATTTCCAGGTAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* *
41018 TTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTTG
65 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATTCATCACTTG
* * * * *
41067 ATGGGTCAGCTTTTCCA-G-AGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAG
1 ATGGATTAACATTTCCAGGTAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
*
41130 TTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAA-TCTATCACTTG
65 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATTC-ATCACTTG
* * * * *
41179 ATGGATTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGATGAAGAAGT
1 ATGGATTAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
41244 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAA-TCTATCACTTG
66 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATTC-ATCACTTG
* *
41292 ATGGATTAAAATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATTACTTGAAGAAGGATGAAGA
1 ATGGATTAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCA-T-C-TGAAGAAGGAAGAAGA
* *
41357 AGTTCATAACGAGAAGAATTTGTTCAACCTTTTGTTCAAA-TCTATCACTTG
63 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATTC-ATCACTTG
* * * * * *
41408 ATGGACTATCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAA
1 ATGGATTAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
41468 TTTGTTCAAC
Statistics
Matches: 691, Mismatches: 45, Indels: 19
0.92 0.06 0.03
Matches are distributed among these distances:
111 13 0.02
112 176 0.25
113 143 0.21
114 22 0.03
115 69 0.10
116 268 0.39
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
ATGGATTAACATTTCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATTCATCACTTG
Found at i:41823 original size:3 final size:3
Alignment explanation
Indices: 41817--41902 Score: 73
Period size: 3 Copynumber: 28.0 Consensus size: 3
41807 CATTTTAATG
* * * * * *
41817 TTA TTA TTA TTA TTA TAA TTA TTA TTA TTA TAA TTA TAA TAA TAA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
41865 TAA TAA TTA TTA TTA TTA TATA TTA TTTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA TTA TTA
41903 CAAAACCTGG
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
3 67 0.92
4 6 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:42336 original size:14 final size:14
Alignment explanation
Indices: 42319--42353 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
42309 ACGGAGAGAG
42319 AGAGACAAAAACAA
1 AGAGACAAAAACAA
42333 AGAG-CAAAAACAA
1 AGAGACAAAAACAA
42346 AGA-ACAAA
1 AGAGACAAA
42354 TAACCCACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.71, C:0.14, G:0.14, T:0.00
Consensus pattern (14 bp):
AGAGACAAAAACAA
Found at i:43318 original size:27 final size:27
Alignment explanation
Indices: 43288--43346 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
43278 TAAATATATA
*
43288 TAATAAATAATTATTTATATATA-TTTT
1 TAATAAATAATT-TTAATATATATTTTT
* *
43315 TAATAAATTATTTTAATATTTATTTTT
1 TAATAAATAATTTTAATATATATTTTT
43342 TAATA
1 TAATA
43347 TCGAAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TAATAAATAATTTTAATATATATTTTT
Found at i:45991 original size:9 final size:9
Alignment explanation
Indices: 45977--46002 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
45967 AATGATGAGA
45977 AAATAAAGT
1 AAATAAAGT
45986 AAATAAAGT
1 AAATAAAGT
45995 AAATAAAG
1 AAATAAAG
46003 AAGAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (9 bp):
AAATAAAGT
Found at i:62642 original size:19 final size:20
Alignment explanation
Indices: 62618--62668 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
62608 CAGCCAAGAG
* *
62618 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATAAAAAAT
62637 CATGTATTTTCATAAAAAAT
1 CATGTATTTTCATAAAAAAT
62657 CATGTATTTTCA
1 CATGTATTTTCA
62669 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATAAAAAAT
Found at i:63038 original size:14 final size:14
Alignment explanation
Indices: 63004--63084 Score: 130
Period size: 14 Copynumber: 5.9 Consensus size: 14
62994 ATAAGATACT
*
63004 ATCTTTTCATCACC
1 ATCTTTCCATCACC
63018 ATC-TTCCATCACC
1 ATCTTTCCATCACC
63031 ATCTTTCCATCACC
1 ATCTTTCCATCACC
*
63045 ATTTTTCCATCACC
1 ATCTTTCCATCACC
63059 ATCTTTCCATCACC
1 ATCTTTCCATCACC
63073 ATC-TTCCATCAC
1 ATCTTTCCATCAC
63085 TTTCACGCCA
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
13 21 0.33
14 42 0.67
ACGTcount: A:0.22, C:0.41, G:0.00, T:0.37
Consensus pattern (14 bp):
ATCTTTCCATCACC
Found at i:67673 original size:21 final size:21
Alignment explanation
Indices: 67597--67674 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 21
67587 CCTTCTAGAT
*
67597 ATATATGTAATCCTTTGGAAC
1 ATATATGTGATCCTTTGGAAC
* * * * * *
67618 ATATTTGCGGTTCTTCGGGAC
1 ATATATGTGATCCTTTGGAAC
* * * *
67639 ACATATTTGGTCCTTTGGAAT
1 ATATATGTGATCCTTTGGAAC
67660 ATATATGTGATCCTT
1 ATATATGTGATCCTT
67675 AAGGAGCGGT
Statistics
Matches: 39, Mismatches: 18, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (21 bp):
ATATATGTGATCCTTTGGAAC
Found at i:67724 original size:21 final size:21
Alignment explanation
Indices: 67682--67748 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
67672 CTTAAGGAGC
* * *
67682 GGTCCTTTGGGACATCTATAT
1 GGTCCTTCGGGACATTTCTAT
67703 GGTCCTTCGGGACATTTCTAT
1 GGTCCTTCGGGACATTTCTAT
* *
67724 GCAGTCTTTCGGGACAAATTCTAT
1 G--GTCCTTCGGGAC-ATTTCTAT
67748 G
1 G
67749 TGCCCCTAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
21 19 0.50
23 11 0.29
24 8 0.21
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (21 bp):
GGTCCTTCGGGACATTTCTAT
Found at i:75330 original size:28 final size:28
Alignment explanation
Indices: 75259--75346 Score: 113
Period size: 28 Copynumber: 3.1 Consensus size: 28
75249 GGCATTTTTT
* *
75259 AGTGTAGATTACTATTGAGACACTTTCG
1 AGTGTAGATTACTGTTGAGGCACTTTCG
* *
75287 AATGCAGATTACTGTTGAGGCACTTTCG
1 AGTGTAGATTACTGTTGAGGCACTTTCG
* * *
75315 AGTGTAGATTATTGTTGTGGAACTTTCG
1 AGTGTAGATTACTGTTGAGGCACTTTCG
75343 AGTG
1 AGTG
75347 CGATTGATAT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 51 1.00
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.36
Consensus pattern (28 bp):
AGTGTAGATTACTGTTGAGGCACTTTCG
Found at i:75463 original size:2 final size:2
Alignment explanation
Indices: 75456--75525 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
75446 TATGTGAATA
75456 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
75498 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
75526 GGTTTATATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75860 original size:27 final size:28
Alignment explanation
Indices: 75801--75872 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
75791 ACTATTGAGT
*
75801 CACTTTTGAGTGCAGATTACTGTTTAGG
1 CACTTTCGAGTGCAGATTACTGTTTAGG
*
75829 CACTTTCGAGTGTA-ATTACTGTTGT-GG
1 CACTTTCGAGTGCAGATTACTGTT-TAGG
*
75856 TACTTTCGAGTGC-GATT
1 CACTTTCGAGTGCAGATT
75873 GACATGTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 25 0.66
28 13 0.34
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.40
Consensus pattern (28 bp):
CACTTTCGAGTGCAGATTACTGTTTAGG
Found at i:76034 original size:2 final size:2
Alignment explanation
Indices: 76027--76134 Score: 216
Period size: 2 Copynumber: 54.0 Consensus size: 2
76017 ATTTGGTGTA
76027 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76111 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
76135 GATAAAGTGT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 106 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79229 original size:10 final size:10
Alignment explanation
Indices: 79214--79266 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
79204 CATTTAATAA
79214 ATAAACGAAC
1 ATAAACGAAC
79224 ATAAACGAAC
1 ATAAACGAAC
79234 ----ACGAAC
1 ATAAACGAAC
79240 ATAAACGAAC
1 ATAAACGAAC
79250 ----ACGAAC
1 ATAAACGAAC
79256 ATAAACGAAC
1 ATAAACGAAC
79266 A
1 A
79267 CGAACATAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 16
0.69 0.00 0.31
Matches are distributed among these distances:
6 12 0.34
10 23 0.66
ACGTcount: A:0.58, C:0.23, G:0.11, T:0.08
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:79239 original size:16 final size:16
Alignment explanation
Indices: 79218--79294 Score: 136
Period size: 16 Copynumber: 4.8 Consensus size: 16
79208 TAATAAATAA
79218 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
79234 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
79250 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
79266 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
79282 ACAAACATAAACG
1 ACGAACATAAACG
79295 TTAGAGACCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 58 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:80278 original size:24 final size:24
Alignment explanation
Indices: 80218--80264 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
80208 TAAATGAATG
*
80218 AACATAAACGGACATAACCGAACA
1 AACATAAACGAACATAACCGAACA
80242 AACATAAACGAACATAACCGAAC
1 AACATAAACGAACATAACCGAAC
80265 GTACATAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.55, C:0.26, G:0.11, T:0.09
Consensus pattern (24 bp):
AACATAAACGAACATAACCGAACA
Found at i:80292 original size:20 final size:20
Alignment explanation
Indices: 80267--80319 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
80257 AACCGAACGT
*
80267 ACATAACTGAACGTTCATGA
1 ACATAACTGAACGTTCATAA
*
80287 ACATAACCGAACGTTCATAA
1 ACATAACTGAACGTTCATAA
*
80307 ACATAAATGAACG
1 ACATAACTGAACG
80320 AACGAGACCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (20 bp):
ACATAACTGAACGTTCATAA
Found at i:81482 original size:12 final size:11
Alignment explanation
Indices: 81467--81496 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
81457 TTCTTTCTTT
81467 TTTTTTTTTGAA
1 TTTTTTTTTG-A
81479 TTTTTTTTTGA
1 TTTTTTTTTGA
81490 TTTTTTT
1 TTTTTTT
81497 ACTAACTCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTGA
Found at i:82516 original size:19 final size:20
Alignment explanation
Indices: 82492--82537 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
82482 CAAAATGACC
*
82492 CAATTTC-ACATTCTAACAT
1 CAATTTCAACACTCTAACAT
82511 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
82531 TAATTTC
1 CAATTTC
82538 TAGCAATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.37, C:0.26, G:0.00, T:0.37
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:85294 original size:29 final size:29
Alignment explanation
Indices: 85252--85447 Score: 220
Period size: 29 Copynumber: 6.8 Consensus size: 29
85242 TAACACCTTT
* * *
85252 TTTTTAAAATAATTACCAAAATAGCA-CC
1 TTTTTGAATTAATTCCCAAAATAGCACCC
* * *
85280 TTTTTGAATTAAATTCTCTATATAGCA-CC
1 TTTTTGAATT-AATTCCCAAAATAGCACCC
*
85309 TTTTTGAATTAAATTCACAAAATAGCA--C
1 TTTTTGAATT-AATTCCCAAAATAGCACCC
**
85337 TTTTACAAATTAAATTCCCAAAATAGCACCC
1 TTTT-TGAATT-AATTCCCAAAATAGCACCC
*
85368 TTTTTGAATTAATCCCCAAAATAGCACCC
1 TTTTTGAATTAATTCCCAAAATAGCACCC
*
85397 ATTTTGAATTAATTCCCAAAATAGCACCC
1 TTTTTGAATTAATTCCCAAAATAGCACCC
*
85426 ATTTTGAATTAATTCCCAAAAT
1 TTTTTGAATTAATTCCCAAAAT
85448 GTCACTTGAT
Statistics
Matches: 147, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
28 13 0.09
29 125 0.85
30 4 0.03
31 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (29 bp):
TTTTTGAATTAATTCCCAAAATAGCACCC
Found at i:92662 original size:29 final size:28
Alignment explanation
Indices: 92599--92746 Score: 147
Period size: 29 Copynumber: 5.1 Consensus size: 28
92589 CATTTTACAG
* ** *
92599 AAATAGCATCTTTTTAAAATAATTACCA
1 AAATAGCACCTTTTCGAATTAATTACCA
*
92627 AAATAGCACCTTTTCGAATTAACTTACTA
1 AAATAGCACCTTTTCGAATTAA-TTACCA
*
92656 AAATAGCACCTTTTTCGAATTAA-TCCGCA
1 AAATAGCACC-TTTTCGAATTAATTAC-CA
*
92685 AAATAGCACCCATTTT-GAATTAATTCCCA
1 AAATAGCA-CC-TTTTCGAATTAATTACCA
* *
92714 AAATAGCACCCATTTCGAATTAATTCCCA
1 AAATAGCA-CCTTTTCGAATTAATTACCA
92743 AAAT
1 AAAT
92747 GTCGCCTGGT
Statistics
Matches: 105, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
28 23 0.22
29 61 0.58
30 21 0.20
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.32
Consensus pattern (28 bp):
AAATAGCACCTTTTCGAATTAATTACCA
Found at i:92717 original size:58 final size:58
Alignment explanation
Indices: 92618--92746 Score: 165
Period size: 58 Copynumber: 2.2 Consensus size: 58
92608 CTTTTTAAAA
* * **
92618 TAATTACCAAAATAGCACCTTTTCGAATTAACTTACTAAAATAGCACCTTTTTCGAAT
1 TAATTCCCAAAATAGCACCTTTTCGAATTAACTTACCAAAATAGCACCCATTTCGAAT
*
92676 TAA-TCCGCAAAATAGCACCCATTTT-GAATTAA-TTCCCAAAATAGCACCCATTTCGAAT
1 TAATTCC-CAAAATAGCA-CC-TTTTCGAATTAACTTACCAAAATAGCACCCATTTCGAAT
92734 TAATTCCCAAAAT
1 TAATTCCCAAAAT
92747 GTCGCCTGGT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
57 2 0.03
58 44 0.71
59 12 0.19
60 4 0.06
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.31
Consensus pattern (58 bp):
TAATTCCCAAAATAGCACCTTTTCGAATTAACTTACCAAAATAGCACCCATTTCGAAT
Found at i:94039 original size:14 final size:14
Alignment explanation
Indices: 94020--94046 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94010 TTCAACCTTA
94020 AGGTTTCGAAACCT
1 AGGTTTCGAAACCT
94034 AGGTTTCGAAACC
1 AGGTTTCGAAACC
94047 CCCTGATCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (14 bp):
AGGTTTCGAAACCT
Found at i:97060 original size:35 final size:35
Alignment explanation
Indices: 97014--97085 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
97004 AATGAATCGG
97014 ATGAGTAGAGTATGATAAACCGAAGAAGGATTTTT
1 ATGAGTAGAGTATGATAAACCGAAGAAGGATTTTT
97049 ATGAGTAGAGTATGATAAACCGAAGAAGGATTTTT
1 ATGAGTAGAGTATGATAAACCGAAGAAGGATTTTT
97084 AT
1 AT
97086 TGAGGCCTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.06, G:0.25, T:0.29
Consensus pattern (35 bp):
ATGAGTAGAGTATGATAAACCGAAGAAGGATTTTT
Found at i:97324 original size:13 final size:13
Alignment explanation
Indices: 97303--97332 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
97293 ACTTTGTGAA
*
97303 TTGTGTCTCAAAG
1 TTGTCTCTCAAAG
97316 TTGTCTCTCAAAG
1 TTGTCTCTCAAAG
97329 TTGT
1 TTGT
97333 TTCTAAGATT
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:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (13 bp):
TTGTCTCTCAAAG
Found at i:99270 original size:46 final size:46
Alignment explanation
Indices: 99182--99270 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
99172 TGCTTGAATC
* * * **
99182 CTGCATTAAATGACCTCTGAAAAGTAGCTGAAACGGTACATTATTA
1 CTGCAATAAATGACCTATGAAAAGTAGCTAAAACAATACATTATTA
* *
99228 CTGCAATAAATTACCTATGAAAAGTAGCTAAAACAATGCATTA
1 CTGCAATAAATGACCTATGAAAAGTAGCTAAAACAATACATTA
99271 ATTGAGCATC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 36 1.00
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.27
Consensus pattern (46 bp):
CTGCAATAAATGACCTATGAAAAGTAGCTAAAACAATACATTATTA
Found at i:99313 original size:34 final size:35
Alignment explanation
Indices: 99246--99313 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
99236 AATTACCTAT
*
99246 GAAAAGTAGCTAAAACAATGCATTAATTGAGCATC
1 GAAAAGTAGCTAAAACAATGCAATAATTGAGCATC
* * *
99281 GAAAAGTAGCTACAACAGTG-AATAATTTAGCAT
1 GAAAAGTAGCTAAAACAATGCAATAATTGAGCAT
99314 GGTTAAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 11 0.38
35 18 0.62
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.24
Consensus pattern (35 bp):
GAAAAGTAGCTAAAACAATGCAATAATTGAGCATC
Found at i:99719 original size:277 final size:276
Alignment explanation
Indices: 99171--99813 Score: 767
Period size: 277 Copynumber: 2.3 Consensus size: 276
99161 TTCTAAACAA
** * * * * * * *
99171 TTGCTTGAATCCTGCATTAAATGACCTCTGAAAAGTAGCTGAAACGGTACATTATTACTGCAATA
1 TTGCTTGAATTATGCATTAAATGACATCTGAAAAGTAGATGAAACAGTGCATCACTGCTGCAATA
* * *
99236 AATTACCTATGAAAAGTAGCTAAAACAATGCATTAATTGAGCATCGAAAAGTAGCTACAACAGTG
66 AATTACCTCTGAAAAGTAGCTGAAACAATGCATTAATTGAGCACCGAAAAGTAGCTACAACAGTG
* * *
99301 AATAATTTAGCATGGTTAAAACACATGTTTCTATTATTTGAAGTGACAATTCAACACCGAAGACT
131 AATAATTTAGCAGGGTTAAAACACACGTTTCTATGATTTGAAGTGACAATTCAACACCGAAGACT
* * * *
99366 TTTCTAATTTGAGTTGATATATCGTTGAGAAGTTGCAGAAGATATTAATGCAACACTATTTTCAC
196 TTTCTAATTTGAGTTGATATAGCATTGAGAAATTGCAGAAGATATTAATACAACACTATTTTCAC
*
99431 CTTTTTTTTCTGAATAG
261 C-TTGTTTTCTGAATAG
* * *
99448 TTGCTTGAATTATGCATTAAATGGAC-TTTGCAAAGTAGATGAAA-TGATGCATCACTGCTGCAA
1 TTGCTTGAATTATGCATTAAAT-GACATCTGAAAAGTAGATGAAACAG-TGCATCACTGCTGCAA
* *** *
99511 TAAATTACCTCTGAAAAGTAGTTGAAATGTTGCATTAATTGAGCACCGAAAAGTAGCTGA-AGCA
64 TAAATTACCTCTGAAAAGTAGCTGAAACAATGCATTAATTGAGCACCGAAAAGTAGCT-ACAACA
* * * * *
99575 GTGAATAATTTGGCCGGGTTAAAATACACGTTTTTTATGATTTGAAGTGACAATTCAACACTGAT
128 GTGAATAATTTAGCAGGGTTAAAACACACG-TTTCTATGATTTGAAGTGACAATTCAACACCGA-
* * * * * *
99640 A-AGTTTTTTTGATTTGAGTTGATATAGCATTGAGAAATTGTAGAAGTTGA-TAATACATCACTA
191 AGA-CTTTTCTAATTTGAGTTGATATAGCATTGAGAAATTGCAGAAGAT-ATTAATACAACACTA
*
99703 TTTTTACC-TGTTTTCTGAATAG
254 TTTTCACCTTGTTTTCTGAATAG
* * * *
99725 TTGCTTGAATTATGCATTAAATGTCATCTGAAAATTAGATGAAACAGTGCATTATTGCTGCAATA
1 TTGCTTGAATTATGCATTAAATGACATCTGAAAAGTAGATGAAACAGTGCATCACTGCTGCAATA
*
99790 AATGACCTCTGAAAAGTAGCTGAA
66 AATTACCTCTGAAAAGTAGCTGAA
99814 TGATTGAAGA
Statistics
Matches: 310, Mismatches: 47, Indels: 18
0.83 0.13 0.05
Matches are distributed among these distances:
276 3 0.01
277 214 0.69
278 36 0.12
279 56 0.18
280 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (276 bp):
TTGCTTGAATTATGCATTAAATGACATCTGAAAAGTAGATGAAACAGTGCATCACTGCTGCAATA
AATTACCTCTGAAAAGTAGCTGAAACAATGCATTAATTGAGCACCGAAAAGTAGCTACAACAGTG
AATAATTTAGCAGGGTTAAAACACACGTTTCTATGATTTGAAGTGACAATTCAACACCGAAGACT
TTTCTAATTTGAGTTGATATAGCATTGAGAAATTGCAGAAGATATTAATACAACACTATTTTCAC
CTTGTTTTCTGAATAG
Found at i:102775 original size:3 final size:3
Alignment explanation
Indices: 102767--102849 Score: 75
Period size: 3 Copynumber: 28.3 Consensus size: 3
102757 ATATTGTTCA
* *
102767 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TC ATTA TTT TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC
* **
102812 TT- TT- TTT TTC TTC -TC ATTC ACC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC T
102850 ATTCCTCCTC
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
2 8 0.12
3 56 0.84
4 3 0.04
ACGTcount: A:0.05, C:0.29, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:107056 original size:19 final size:20
Alignment explanation
Indices: 107022--107059 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
107012 AAACCCATAA
*
107022 TTACTTTCATATTCATAACT
1 TTACTTTCAGATTCATAACT
107042 TTACTTT-AGATTCATAAC
1 TTACTTTCAGATTCATAAC
107060 CCGATGCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (20 bp):
TTACTTTCAGATTCATAACT
Found at i:107159 original size:32 final size:34
Alignment explanation
Indices: 107123--107198 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 34
107113 TAAGCACTTC
*
107123 AGTGCTATCATCAAAT-TAG-AATATGCACTCCA
1 AGTGCAATCATCAAATATAGAAATATGCACTCCA
*
107155 AGTGCAATCATCAGATATAGAAATATGCACTCCA
1 AGTGCAATCATCAAATATAGAAATATGCACTCCA
* *
107189 GGTTCAATCA
1 AGTGCAATCA
107199 CATAATGTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 14 0.37
33 3 0.08
34 21 0.55
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.26
Consensus pattern (34 bp):
AGTGCAATCATCAAATATAGAAATATGCACTCCA
Found at i:116725 original size:15 final size:15
Alignment explanation
Indices: 116694--116792 Score: 67
Period size: 18 Copynumber: 6.2 Consensus size: 15
116684 ATTAGAAGAC
*
116694 AAATAAAAAATAATAA
1 AAATAATAAA-AATAA
** *
116710 ACTTAATTAAAATAA
1 AAATAATAAAAATAA
116725 AAATAATAAAAATAATAA
1 AAATAAT--AAA-AATAA
116743 AAATAATAAAAACATTAA
1 AAATAAT-AAAA-A-TAA
116761 AAAT-AT-AAAATAA
1 AAATAATAAAAATAA
*
116774 AAATAAAATAAAATAA
1 AAATAATA-AAAATAA
116790 AAA
1 AAA
116793 CCTAATTGTA
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
13 7 0.10
14 2 0.03
15 13 0.19
16 17 0.25
17 9 0.13
18 19 0.28
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (15 bp):
AAATAATAAAAATAA
Found at i:116729 original size:6 final size:6
Alignment explanation
Indices: 116718--116792 Score: 68
Period size: 6 Copynumber: 12.7 Consensus size: 6
116708 AAACTTAATT
* * *
116718 AAAATA AAAATA ATAAA-A ATAATA AAAATA ATAAA-A ACATTA AAAATA
1 AAAATA AAAATA A-AAATA AAAATA AAAATA A-AAATA AAAATA AAAATA
116766 TAAAATA AAAAT- AAAAT- AAAATA AAAA
1 -AAAATA AAAATA AAAATA AAAATA AAAA
116793 CCTAATTGTA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
5 13 0.23
6 32 0.56
7 12 0.21
ACGTcount: A:0.79, C:0.01, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:116731 original size:24 final size:24
Alignment explanation
Indices: 116694--116792 Score: 89
Period size: 24 Copynumber: 4.1 Consensus size: 24
116684 ATTAGAAGAC
** *
116694 AAATAAAAAATAATAAACTTAATTA
1 AAAT-AAAAATAATAAAAATAATAA
116719 AAATAAAAATAATAAAAATAATAA
1 AAATAAAAATAATAAAAATAATAA
*
116743 AAATAATAAAAACATTAAAAAT-AT-A
1 AAATAA-AAATA-A-TAAAAATAATAA
*
116768 AAATAAAAATAA-AATAA-AATAA
1 AAATAAAAATAATAAAAATAATAA
116790 AAA
1 AAA
116793 CCTAATTGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
21 6 0.10
22 4 0.06
23 1 0.02
24 27 0.43
25 15 0.24
26 3 0.05
27 7 0.11
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (24 bp):
AAATAAAAATAATAAAAATAATAA
Found at i:116732 original size:9 final size:9
Alignment explanation
Indices: 116720--116786 Score: 79
Period size: 9 Copynumber: 7.8 Consensus size: 9
116710 ACTTAATTAA
116720 AATAAAAAT
1 AATAAAAAT
116729 AATAAAAAT
1 AATAAAAAT
116738 AATAAAAAT
1 AATAAAAAT
*
116747 AATAAAAAC
1 AATAAAAAT
*
116756 ATTAAAAAT
1 AATAAAAAT
116765 -AT-AAAAT
1 AATAAAAAT
116772 AA-AAATAA-
1 AATAAA-AAT
116780 AATAAAA
1 AATAAAA
116787 TAAAAACCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
7 5 0.10
8 7 0.14
9 38 0.76
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (9 bp):
AATAAAAAT
Found at i:118288 original size:89 final size:89
Alignment explanation
Indices: 118168--118337 Score: 259
Period size: 89 Copynumber: 1.9 Consensus size: 89
118158 GAGATATCGG
* * * * *
118168 TGTTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGTTGATCCAACTCTTTCTGC
1 TGTTAATCCACCTCCTTCTGTGACAGAATCGAGCTAAAAGTTGACGTTGATCCAACTCCTTATGC
118233 AATGGATTTGAACGAAAATAAAAA
66 AATGGATTTGAACGAAAATAAAAA
* *
118257 TGTTAATCCACCTTCTTCTGTGACAGAATCGATCTAAAAGTTGACGTTGATCCAACTCCTTATGC
1 TGTTAATCCACCTCCTTCTGTGACAGAATCGAGCTAAAAGTTGACGTTGATCCAACTCCTTATGC
* *
118322 GATGGATTTGAGCGAA
66 AATGGATTTGAACGAA
118338 CAAATTTTGA
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (89 bp):
TGTTAATCCACCTCCTTCTGTGACAGAATCGAGCTAAAAGTTGACGTTGATCCAACTCCTTATGC
AATGGATTTGAACGAAAATAAAAA
Found at i:118470 original size:218 final size:216
Alignment explanation
Indices: 118086--118477 Score: 552
Period size: 218 Copynumber: 1.8 Consensus size: 216
118076 TATTGAAGAT
* * *
118086 GTTGATCTAACTCCTTCTGTGATGGATTTGAGCGAACAAATATCGATCCCTCCTTCTATAACGAA
1 GTTGATCCAACTCCTTATGCGATGGATTTGAGCGAACAAATATCGATCCCTCCTTCTATAACGAA
** * * *
118151 ATCAAACGAGATATCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGTT
66 ATCAAACGAGATATCAATGCTGATCTACCTCCTTCTGTGACAAAATCGAGCTAAAAGTTGACGTT
*
118216 GATCCAACTCTTTCTGCAATGGATTTGAACGAAAATAAAAATGTTAATCCACCTTCTTCTGTGAC
131 GATCCAACTCCTTCTGCAATGGATTTGAACGAAAATAAAAATGTTAATCCACCTTCTTCTGTGAC
118281 AGAATCGATCTAAAAGTTGAC
196 AGAATCGATCTAAAAGTTGAC
* * * * *
118302 GTTGATCCAACTCCTTATGCGATGGATTTGAGCGAACAAATTTTGATCCACCTCCTTTTGTGACT
1 GTTGATCCAACTCCTTATGCGATGGATTTGAGCGAACAAATATCGAT-C-CCTCCTTCTATAAC-
** * * *
118367 G-AATTGAACGAGATGTCAATGCTGATCTACGTCCTTCTGTGACAAAATCGAGCTAAAAGTTGAT
63 GAAATCAAACGAGATATCAATGCTGATCTACCTCCTTCTGTGACAAAATCGAGCTAAAAGTTGAC
* **
118431 GTTGATCCAACTCCTTCTGCGATGGATTTGAGTGAAAATAAAAATGT
128 GTTGATCCAACTCCTTCTGCAATGGATTTGAACGAAAATAAAAATGT
118478 CGATCTATCT
Statistics
Matches: 151, Mismatches: 22, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
216 42 0.28
217 1 0.01
218 107 0.71
219 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (216 bp):
GTTGATCCAACTCCTTATGCGATGGATTTGAGCGAACAAATATCGATCCCTCCTTCTATAACGAA
ATCAAACGAGATATCAATGCTGATCTACCTCCTTCTGTGACAAAATCGAGCTAAAAGTTGACGTT
GATCCAACTCCTTCTGCAATGGATTTGAACGAAAATAAAAATGTTAATCCACCTTCTTCTGTGAC
AGAATCGATCTAAAAGTTGAC
Found at i:118557 original size:133 final size:132
Alignment explanation
Indices: 118266--118830 Score: 584
Period size: 133 Copynumber: 4.3 Consensus size: 132
118256 ATGTTAATCC
* * * * * * *
118266 ACCTTCTTCTGTGACAGAATCGATCTAAAAGTTGACGTTGATCCAACTCCTTATGCGATGGATTT
1 ACCTCCTTCTGTGATAAAATCAAGCTAAAAGTTGATGTTGATCCAACTCCTTCTGCGATGGATTT
* * * * * * *
118331 GAGCG---AACAAATTTTGATCCACCTCCTTTTGTGACT-GAATTGAACGAGATGTCAATGCTGA
66 GAGCGAAAAAAAAATGTCGATCCACCTCCTTCTGTGA-TGGAATCGAACGAGATATCAGTGCTGA
118392 TCT
130 TCT
* * *
118395 ACGTCCTTCTGTGACAAAATCGAGCTAAAAGTTGATGTTGATCCAACTCCTTCTGCGATGGATTT
1 ACCTCCTTCTGTGATAAAATCAAGCTAAAAGTTGATGTTGATCCAACTCCTTCTGCGATGGATTT
* * * * * *
118460 GAGTGAAAATAAAAATGTCGATCTATCTCCTTCTGTGTTGGAATCAAACGAGATATCGGTGCTGA
66 GAGCGAAAA-AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATATCAGTGCTGA
118525 TCT
130 TCT
* * * * * * * * *
118528 ACCTCCTTCTGCGATAAAATCAAGTTAAAATTTAACT-CTGATCCAGCTCTTTTTACGATGGATT
1 ACCTCCTTCTGTGATAAAATCAAGCTAAAAGTTGA-TGTTGATCCAACTCCTTCTGCGATGGATT
* *
118592 TGAGCGAAAATAAAAATGTCGATCCATCTCCTTCTTTGATGGAATCGAACGAGATATCAGTGCTG
65 TGAGCGAAAA-AAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATATCAGTGCTG
118657 ATCT
129 ATCT
* * * ** * *
118661 ACCTCATTTTGTGATAGAATTGAGCAAAAAGTTGATGCTGATCCAACTCCTTCTGCGATGGATTT
1 ACCTCCTTCTGTGATAAAATCAAGCTAAAAGTTGATGTTGATCCAACTCCTTCTGCGATGGATTT
* * * ** *
118726 GAGC-AAAAAAAAATGTCGATCCACCTCATTCTATGATGGAATCGAACGAGATGTTGGTGATGAT
66 GAGCGAAAAAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATATCAGTGCTGAT
*
118790 AT
131 CT
* * * *
118792 ACCTCCTTCTATGATAGAATTAAGCAAAAAGTTGATGTT
1 ACCTCCTTCTGTGATAAAATCAAGCTAAAAGTTGATGTT
118831 TAGCCCCTCT
Statistics
Matches: 365, Mismatches: 64, Indels: 12
0.83 0.15 0.03
Matches are distributed among these distances:
129 63 0.17
131 84 0.23
132 7 0.02
133 210 0.58
134 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (132 bp):
ACCTCCTTCTGTGATAAAATCAAGCTAAAAGTTGATGTTGATCCAACTCCTTCTGCGATGGATTT
GAGCGAAAAAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATATCAGTGCTGAT
CT
Found at i:118939 original size:39 final size:39
Alignment explanation
Indices: 118871--119360 Score: 498
Period size: 39 Copynumber: 12.6 Consensus size: 39
118861 AAGAAAAATA
* * * *
118871 ATCTCAAGGGAGAT-AAATCTTCTATTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
* * *
118909 ATCTCAAGCGAGATAAAATCTTTTGTTTCGAGTGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
* *
118948 ATCTCAAGCGAGATAAAATATTATGTTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
* * * *
118987 ATCTCAAGCGAAATAAATTTTTCTGTTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
*
119026 ATCTC-A---A-AT---A--TTCTGTTTCGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
119055 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
* * * **
119094 ATCTCAAGCAAGATAAATTTTTCTGTTTTGAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
* ** * *
119133 ATCTCAACTATTTCGAGGGAAACTATCTCAACTGTTTCGAGGGAAACT
1 ATCTC-A--A--GCGAGATAAA--ATCT--TCTGTTTCAAGGGAAACT
* *
119181 ATCTCAAGCGAGACAAAATCTTCCGTTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
* *
119220 ATCTCCAGCGAGACAAAATCTTCTGTTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
* **
119259 ATCTCAAGCGAGACAAAATCTTCCATTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
* * * *
119298 ATCTCAGGTGAGACAAAATCTTCTATTTCAAGGGAAACT
1 ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
*
119337 ATCTCAAGCGAGACAAAATCTTCT
1 ATCTCAAGCGAGATAAAATCTTCT
119361 TTAAAAACAA
Statistics
Matches: 389, Mismatches: 43, Indels: 39
0.83 0.09 0.08
Matches are distributed among these distances:
29 24 0.06
30 1 0.00
33 1 0.00
34 4 0.01
35 1 0.00
37 1 0.00
38 14 0.04
39 299 0.77
40 1 0.00
41 4 0.01
42 1 0.00
43 7 0.02
44 6 0.02
45 1 0.00
46 2 0.01
47 1 0.00
48 21 0.05
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (39 bp):
ATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACT
Found at i:119079 original size:68 final size:68
Alignment explanation
Indices: 118963--119100 Score: 222
Period size: 68 Copynumber: 2.0 Consensus size: 68
118953 AAGCGAGATA
* * *
118963 AAATATTATGTTTCAAGGGAAACTATCTCAAGCGAAATAAATTTTTCTGTTTCGAGGGAAACTAT
1 AAATATTATGTTTCAAGGGAAACTATCTCAAGCGAAATAAAATCTTCTGTTTCAAGGGAAACTAT
119028 CTC
66 CTC
* * *
119031 AAATATTCTGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTAT
1 AAATATTATGTTTCAAGGGAAACTATCTCAAGCGAAATAAAATCTTCTGTTTCAAGGGAAACTAT
119096 CTC
66 CTC
119099 AA
1 AA
119101 GCAAGATAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (68 bp):
AAATATTATGTTTCAAGGGAAACTATCTCAAGCGAAATAAAATCTTCTGTTTCAAGGGAAACTAT
CTC
Found at i:119118 original size:107 final size:102
Alignment explanation
Indices: 118932--119163 Score: 358
Period size: 107 Copynumber: 2.2 Consensus size: 102
118922 TAAAATCTTT
*
118932 TGTTTCGAGTGAAACTATCTCAAGCGAGATAAAATATTATGTTTCAAGGGAAACTATCTCAAGCG
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATATTATGTTTCAAGGGAAACTATCTCAAGCG
118997 AAATAAATTTTTCTGTTTCGAGGGAAACTATCTCAAATATTC
66 AAATAAATTTTTCTGTTTCGAGGGAAACTATCTC--A-A--C
* *
119039 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGC-
1 TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATATTATGTTTCAAGGGAAACTATCTCAAGCG
*
119103 AAGATAAATTTTTCTGTTTTGAGGGAAACTATCTCAAC
66 AA-ATAAATTTTTCTGTTTCGAGGGAAACTATCTCAAC
*
119141 TATTTCGAGGGAAACTATCTCAA
1 TGTTTCGAGGGAAACTATCTCAA
119164 CTGTTTCGAG
Statistics
Matches: 119, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
102 23 0.19
104 1 0.01
105 1 0.01
106 2 0.02
107 92 0.77
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (102 bp):
TGTTTCGAGGGAAACTATCTCAAGCGAGATAAAATATTATGTTTCAAGGGAAACTATCTCAAGCG
AAATAAATTTTTCTGTTTCGAGGGAAACTATCTCAAC
Found at i:119155 original size:24 final size:24
Alignment explanation
Indices: 119123--119187 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
119113 TTTCTGTTTT
119123 GAGGGAAACTATCTCAACTATTTC
1 GAGGGAAACTATCTCAACTATTTC
*
119147 GAGGGAAACTATCTCAACTGTTTC
1 GAGGGAAACTATCTCAACTATTTC
119171 GAGGGAAACTATCTCAA
1 GAGGGAAACTATCTCAA
119188 GCGAGACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (24 bp):
GAGGGAAACTATCTCAACTATTTC
Found at i:119534 original size:21 final size:21
Alignment explanation
Indices: 119510--119565 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
119500 AAAATCTTCA
* * *
119510 GTTTCAAGCGAAATAACTCTT
1 GTTTTAAGTGAAACAACTCTT
*
119531 GTTTTAAGTGAACCAACTCTT
1 GTTTTAAGTGAAACAACTCTT
119552 GTTTTAAGTGAAAC
1 GTTTTAAGTGAAAC
119566 TATCTCAAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (21 bp):
GTTTTAAGTGAAACAACTCTT
Found at i:119610 original size:39 final size:39
Alignment explanation
Indices: 119551--119629 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
119541 AACCAACTCT
* * *
119551 TGTTTTAAGTGAAACTATCTCAAGCGAGATAAAATCTTC
1 TGTTTTAAGAGAAACCATCTCAAGCGAGATAAAATATTC
* *
119590 TGTTTTGAGAGAAACCATCTCAAGTGAGATAAAATATTC
1 TGTTTTAAGAGAAACCATCTCAAGCGAGATAAAATATTC
119629 T
1 T
119630 TGAAAAACAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (39 bp):
TGTTTTAAGAGAAACCATCTCAAGCGAGATAAAATATTC
Found at i:125568 original size:9 final size:9
Alignment explanation
Indices: 125554--125649 Score: 68
Period size: 9 Copynumber: 9.9 Consensus size: 9
125544 TTGAAATTAG
125554 AAAAAAAAT
1 AAAAAAAAT
125563 AAAAAATAAT
1 AAAAAA-AAT
125573 AAAAATAAAAAT
1 --AAA-AAAAAT
*
125585 AATAAAAAT
1 AAAAAAAAT
*
125594 AAAAATAAT
1 AAAAAAAAT
*
125603 -AAAAACAT
1 AAAAAAAAT
* *
125611 TAAAAATAT
1 AAAAAAAAT
125620 AAAATAAAAT
1 AAAA-AAAAT
125630 AAACATAAAAT
1 AAA-A-AAAAT
125641 AAAATAAAA
1 AAAA-AAAA
125650 ACCTAATTGT
Statistics
Matches: 72, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
8 6 0.08
9 29 0.40
10 18 0.25
11 10 0.14
12 6 0.08
13 3 0.04
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:125579 original size:6 final size:6
Alignment explanation
Indices: 125557--125650 Score: 71
Period size: 6 Copynumber: 16.8 Consensus size: 6
125547 AAATTAGAAA
*
125557 AAAAAT -AAAA- AATAAT AAAAAT AAAAAT ---AAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
* * *
125600 AATAAA- AACATT AAAAAT ATAAAAT -AAAAT AAACAT -AAAAT -AAAAT
1 AA-AAAT AAAAAT AAAAAT A-AAAAT AAAAAT AAAAAT AAAAAT AAAAAT
125646 AAAAA
1 AAAAA
125651 CCTAATTGTA
Statistics
Matches: 70, Mismatches: 8, Indels: 20
0.71 0.08 0.20
Matches are distributed among these distances:
3 3 0.04
5 22 0.31
6 37 0.53
7 8 0.11
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:125582 original size:15 final size:15
Alignment explanation
Indices: 125557--125628 Score: 94
Period size: 15 Copynumber: 4.7 Consensus size: 15
125547 AAATTAGAAA
125557 AAAAATAAAAAATAAT
1 AAAAAT-AAAAATAAT
125573 AAAAATAAAAATAAT
1 AAAAATAAAAATAAT
125588 AAAAATAAAAATAAT
1 AAAAATAAAAATAAT
125603 AAAAACATTAAAAAT-AT
1 -AAAA-A-TAAAAATAAT
125620 -AAAATAAAA
1 AAAAATAAAA
125629 TAAACATAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.09
14 1 0.02
15 27 0.51
16 10 0.19
17 3 0.06
18 7 0.13
ACGTcount: A:0.79, C:0.01, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAAATAAAAATAAT
Found at i:125591 original size:24 final size:24
Alignment explanation
Indices: 125554--125650 Score: 92
Period size: 24 Copynumber: 4.0 Consensus size: 24
125544 TTGAAATTAG
125554 AAAAAAAATAAAAAATAATAAAAAT
1 AAAAAAAAT-AAAAATAATAAAAAT
*
125579 AAAAATAATAAAAATAA-AAATAAT
1 AAAAAAAATAAAAATAATAAA-AAT
* *
125603 AAAAACATTAAAAAT-AT-AAAAT
1 AAAAAAAATAAAAATAATAAAAAT
*
125625 AAAATAAACATAAAATAAAATAAAAA
1 AAAA-AAA-ATAAAA-ATAATAAAAA
125651 CCTAATTGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
22 7 0.12
23 8 0.14
24 29 0.49
25 9 0.15
26 2 0.03
27 4 0.07
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (24 bp):
AAAAAAAATAAAAATAATAAAAAT
Found at i:125629 original size:30 final size:32
Alignment explanation
Indices: 125557--125644 Score: 98
Period size: 33 Copynumber: 2.8 Consensus size: 32
125547 AAATTAGAAA
125557 AAAAATAAAA-AATAATAAAAATAAAAATAAT
1 AAAAATAAAATAATAATAAAAATAAAAATAAT
*
125588 AAAAATAAAAATAATAA-AAACATTAAAAAT-AT
1 AAAAAT-AAAATAATAATAAA-AATAAAAATAAT
125620 -AAAATAAAATAA-ACAT-AAAATAAAA
1 AAAAATAAAATAATA-ATAAAAATAAAA
125645 TAAAAACCTA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
29 7 0.14
30 10 0.20
31 11 0.22
32 9 0.18
33 13 0.26
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.19
Consensus pattern (32 bp):
AAAAATAAAATAATAATAAAAATAAAAATAAT
Found at i:125637 original size:16 final size:16
Alignment explanation
Indices: 125618--125648 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
125608 CATTAAAAAT
125618 ATAAAATAAAATAAAC
1 ATAAAATAAAATAAAC
125634 ATAAAATAAAATAAA
1 ATAAAATAAAATAAA
125649 AACCTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
ATAAAATAAAATAAAC
Found at i:127383 original size:19 final size:20
Alignment explanation
Indices: 127345--127394 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
127335 AATCAGCGAT
127345 GGTATCGATACTGAACCTTG
1 GGTATCGATACTGAACCTTG
*
127365 GGTATCGATACT-CACCTTG
1 GGTATCGATACTGAACCTTG
*
127384 AGTATCGATAC
1 GGTATCGATAC
127395 CAAAAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (20 bp):
GGTATCGATACTGAACCTTG
Found at i:130301 original size:20 final size:19
Alignment explanation
Indices: 130278--130324 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
130268 CGATATACCA
130278 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
130298 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
130318 GGTAAAA
1 GGTAAAA
130325 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:130401 original size:181 final size:182
Alignment explanation
Indices: 130066--130538 Score: 709
Period size: 182 Copynumber: 2.6 Consensus size: 182
130056 GATCCAAATT
* * * * * **
130066 AAAAATGTGTCGATCCAAAACGATATAATAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
130131 AAACTGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
130196 GTGAATTTAAAAGAGAAGCAGTTTTAA-ATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAACA-CCTATAAAGTGTCGATACTTTAA
* *
130248 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
130313 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
*
130377 GTGAATTTAAAAGAGAAGCAGTTTTAACACCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAACACCTATAAAGTGTCGATACTTTAA
* *
130429 AAAAATATATCGATCCACAACGATATAACAGGTAAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGT-AAAAATATGATAAAACCGGTATCAAAATGAT
*
130494 AAAACCGGTAAAATGATACCGGATATATTGAAAGTGTC-ATACTTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
130539 CGTAAGTACG
Statistics
Matches: 265, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
181 103 0.39
182 162 0.61
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAACACCTATAAAGTGTCGATACTTTAA
Found at i:130483 original size:21 final size:20
Alignment explanation
Indices: 130459--130506 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
130449 CGATATAACA
130459 GGTAAAAAATATGATAAAACC
1 GGTAAAAAA-ATGATAAAACC
**
130480 GGTATCAAAATGATAAAACC
1 GGTAAAAAAATGATAAAACC
130500 GGTAAAA
1 GGTAAAA
130507 TGATACCGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.19
Consensus pattern (20 bp):
GGTAAAAAAATGATAAAACC
Found at i:130508 original size:17 final size:19
Alignment explanation
Indices: 130469--130511 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
130459 GGTAAAAAAT
130469 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
130489 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
130506 ATGATA
1 ATGATA
130512 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:132709 original size:21 final size:21
Alignment explanation
Indices: 132684--132748 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
132674 AAGAAAATCA
*
132684 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
132705 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
132726 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
132747 AG
1 AG
132749 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:132824 original size:33 final size:33
Alignment explanation
Indices: 132782--132847 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
132772 AAATAGATGG
*
132782 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
132815 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
132848 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:134661 original size:19 final size:19
Alignment explanation
Indices: 134637--134685 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
134627 AATGTAGGGT
134637 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
134656 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
134675 TAATTTTGTAT
1 TAATTTTGTAT
134686 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:135147 original size:200 final size:200
Alignment explanation
Indices: 134798--135580 Score: 1311
Period size: 200 Copynumber: 3.9 Consensus size: 200
134788 AATTTACAAT
* *
134798 ATGGCCAACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
134863 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
134928 ATGAGAGAATATGTCTAAATAATGTGTCGACGCTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
134993 AATGA
196 AATGA
*
134998 ATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* *
135063 CGAAAACCAAAAGTATAATGTAATATTTAATTTTTCAATCTAACCGGTACAAGTATATCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
135128 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
135193 AATGA
196 AATGA
*
135198 ATGGCCAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
** *
135263 AAAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
135328 ATGAGATAATAGGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAC
131 ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
135393 AATGA
196 AATGA
* * *
135398 ATGGCAAACAGGCTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCTATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
* * *
135463 CGAAAACCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTATACTGGTTTT
66 CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * * *
135528 ATGAGAGAAT-TGATATATAAT-ATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 ATGAGAGAATATG-TCTA-AATAATGTGTCGACACTTTTTTA-GTTTGTGTCGATA
135581 CTAATTTAAA
Statistics
Matches: 548, Mismatches: 32, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
199 1 0.00
200 540 0.99
201 7 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACAT
CGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:137054 original size:6 final size:6
Alignment explanation
Indices: 137043--137148 Score: 86
Period size: 6 Copynumber: 17.7 Consensus size: 6
137033 CAAGCGGTCA
* * * * *
137043 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * * * * *
137091 ATGACG ATGAAG CTGACG ATGAAG ATGATG ACGATG ATGATG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
*
137139 ATGATG ATGA
1 ATGAAG ATGA
137149 TCCAAACAAG
Statistics
Matches: 83, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 83 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:137149 original size:6 final size:6
Alignment explanation
Indices: 137060--137149 Score: 90
Period size: 6 Copynumber: 15.0 Consensus size: 6
137050 TGAAGCTGAC
* * * * * * * *
137060 GATGAA GATGAC GATGAA GATGAC GATGAT GATGAC GATGAA GCTGAC
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
* *
137108 GATGAA GATGAT GACGAT GATGAT GATGAT GATGAT GATGAT
1 GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT GATGAT
137150 CCAAACAAGT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.23
Consensus pattern (6 bp):
GATGAT
Found at i:137149 original size:12 final size:12
Alignment explanation
Indices: 137043--137148 Score: 122
Period size: 12 Copynumber: 8.8 Consensus size: 12
137033 CAAGCGGTCA
*
137043 ATGAAGATGAAG
1 ATGACGATGAAG
*
137055 CTGACGATGAAG
1 ATGACGATGAAG
137067 ATGACGATGAAG
1 ATGACGATGAAG
*
137079 ATGACGATGATG
1 ATGACGATGAAG
137091 ATGACGATGAAG
1 ATGACGATGAAG
*
137103 CTGACGATGAAG
1 ATGACGATGAAG
* * *
137115 ATGATGACGATG
1 ATGACGATGAAG
* *
137127 ATGATGATGATG
1 ATGACGATGAAG
*
137139 ATGATGATGA
1 ATGACGATGA
137149 TCCAAACAAG
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 83 1.00
ACGTcount: A:0.38, C:0.08, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:138689 original size:183 final size:183
Alignment explanation
Indices: 138360--138934 Score: 974
Period size: 183 Copynumber: 3.1 Consensus size: 183
138350 CAAAGTTTTC
* * * * *
138360 ACACTTTTTAATATTGTTTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTATCGATACCATTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTG
* * *
138425 AAAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
65 ACAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTA
* *
138488 ATATAACCGGTTTAAATATACCGGTTTTATGAGCGAATATGTCTACAACCTATATCG
127 ATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
138545 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGC
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGA
*
138610 CAAAAAGTGTCGACATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
138675 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
138728 ACACTTTTTAATATTGTGTTGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGA
138793 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
138858 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
138911 ACACTTTTTAATATTGTGTCGGTA
1 ACACTTTTTAATATTGTGTCGGTA
138935 ATTTTAAGTA
Statistics
Matches: 372, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
183 299 0.80
184 15 0.04
185 55 0.15
186 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGA
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:141832 original size:21 final size:23
Alignment explanation
Indices: 141782--141852 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
141772 ATAGGTAAAA
* *
141782 ATATGATGTAATATGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
141805 ATATAATGTAATAGGTATCG-TT
1 ATATAATGTAATAGGTAGCGCTT
*
141827 -TATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
141849 ATAT
1 ATAT
141853 TGTAAAGTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 17 0.41
22 4 0.10
23 20 0.49
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:141856 original size:21 final size:21
Alignment explanation
Indices: 141788--141857 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
141778 AAAAATATGA
* *
141788 TGTAATATGTAGCGCTTATAT
1 TGTAATAGGTAGTGCTTATAT
* *
141809 AATGTAATAGGTA-TCGTTTATAA
1 --TGTAATAGGTAGT-GCTTATAT
141832 TGTAATAGGTAGTGCTTATAT
1 TGTAATAGGTAGTGCTTATAT
141853 TGTAA
1 TGTAA
141858 AGTATCTGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 22 0.56
22 1 0.03
23 16 0.41
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (21 bp):
TGTAATAGGTAGTGCTTATAT
Found at i:142302 original size:23 final size:23
Alignment explanation
Indices: 142271--142343 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
142261 ATAGGTAAAA
*
142271 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
142294 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
142317 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
142340 ATAT
1 ATAT
142344 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:142788 original size:23 final size:23
Alignment explanation
Indices: 142756--142820 Score: 112
Period size: 23 Copynumber: 2.8 Consensus size: 23
142746 AATAGGTAAA
*
142756 AATATGATGTAATAGGTAGCGTT
1 AATATAATGTAATAGGTAGCGTT
142779 AATATAATGTAATAGGTAGCGTT
1 AATATAATGTAATAGGTAGCGTT
*
142802 TATATAATGTAATAGGTAG
1 AATATAATGTAATAGGTAG
142821 TGCTTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.35
Consensus pattern (23 bp):
AATATAATGTAATAGGTAGCGTT
Found at i:142827 original size:23 final size:22
Alignment explanation
Indices: 142757--142829 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 22
142747 ATAGGTAAAA
*
142757 ATATGATGTAATAGGTAGCGTT
1 ATATAATGTAATAGGTAGCGTT
142779 AATATAATGTAATAGGTAGCGTTT
1 -ATATAATGTAATAGGTAGCG-TT
*
142803 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCG-TT
142826 ATAT
1 ATAT
142830 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 44 0.96
24 2 0.04
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGTT
Found at i:142841 original size:977 final size:977
Alignment explanation
Indices: 141434--143231 Score: 3320
Period size: 977 Copynumber: 1.8 Consensus size: 977
141424 AGGTATGTAC
141434 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
*
141499 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTA-TAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
141564 TTAGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
130 TTAGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
141629 ATTTTGTGTGCAAATGAAATTATCAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
195 ATTTTGTGTGCAAATGAAATTATCAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
141694 AAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
260 AAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
* *
141759 CACTTTCAATATAATAGGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTAATAGGTATC
325 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
*
141824 GTTTATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTGTCCTTTTTATAAAAGTGTCCATA
390 GTTTATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
141889 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
455 CTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTT
*
141954 AGTAATTATAGGCGTCTAATGATTTGTTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
520 AGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAA
* *
142019 CAATAAACATATATTTTACATATTTATTATTATCTTTGGTTAATAATGTTAAATTTAAATTCTAA
585 CAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATAATGTTAAATTTAAATACTAA
142084 ATTATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
650 A-TATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
142149 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
714 ATATTGTAGGTGGAAAACATGAAACACTATT--AAAAAATTGAAACATAAATTACATAACTTTAA
*
142214 AAAAAGTATCGATCCTTTTTAT-AAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGAT
777 AAAAAATATCGATCCTTTTTATAAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGAT
142278 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
842 GTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATA
142343 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
907 TTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
142408 AAGGTT
972 AAGGTT
*
142414 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
*
142479 GTTACGATATATATTATTA-AAATTAAAAATAATAAACATATATATTACATATTTATTATTATCT
66 GTTACGATATATATTATTATAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
* * *
142543 TTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATC-AAACAATCAAATAA
131 TAGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
* *
142607 TTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAA
196 TTTTGTGTGCAAATGAAATTATCAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
142671 AAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
142735 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG-TTAATATAATGTAATAGGTAGC
326 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT-ATATAATGTAATAGGTAGC
142799 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
390 G-TT-TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
*
142864 TATTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
453 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAAT
142929 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAA
518 TTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAA
*
142994 AACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACT
583 AACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATAATGTTAAATTTAAATACT
143059 AAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATT
648 AAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATT
*
143124 AATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTTAAACATAAATTACATAACTTTAAA
713 AATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAAA
*
143189 AAAAATATCGATCTTTTTTATAAAAAAGTATAGACACTTTCAA
778 AAAAATATCGATCCTTTTTATAAAAAAGTATAGACACTTTCAA
143232 CATATTATAA
Statistics
Matches: 795, Mismatches: 19, Indels: 13
0.96 0.02 0.02
Matches are distributed among these distances:
974 53 0.07
975 118 0.15
976 127 0.16
977 324 0.41
978 91 0.11
980 82 0.10
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (977 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
TAGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATAA
TTTTGTGTGCAAATGAAATTATCAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCG
TTTATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC
TTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTA
GTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAAC
AATAAACATATATATTACATATTTATTATTATCTTTGGTTAATAATGTTAAATTTAAATACTAAA
TATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAAT
ATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTGAAACATAAATTACATAACTTTAAAAAA
AATATCGATCCTTTTTATAAAAAAGTATAGACACTTTCAATATAATAGGTAAAAATATGATGTAA
TAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGT
AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGG
TT
Found at i:142846 original size:486 final size:489
Alignment explanation
Indices: 141434--143231 Score: 3306
Period size: 489 Copynumber: 3.7 Consensus size: 489
141424 AGGTATGTAC
*
141434 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCATCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
141499 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTA-TAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
* *
141564 TTAGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
130 TTTGGTTAATATTGTTAAATTTAAATACTAAATATTATTTTATAAAATATCAAAACAATCAAATA
* *
141629 ATTTTGTGTGCAAATGAAATTATCAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
195 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
141694 AAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
260 AAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
* *
141759 CACTTTCAATATAATAGGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTAATAGGTATC
324 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
*
141824 G-TT-TATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTGTCCTTTTTATAAAAGTGTCCA
389 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
141887 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
454 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
*
141923 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTGTTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
141988 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATTTTACATATTTATTATTATC
66 GTTACGATATATATTATTA-TAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
* *
142053 TTTGGTTAATAATGTTAAATTTAAATTCTAAATTATTATTTTATAAAATATCAAAACAATCAAAT
130 TTTGGTTAATATTGTTAAATTTAAATACTAAA-TATTATTTTATAAAATATCAAAACAATCAAAT
142118 AATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
194 AATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
142183 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
259 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
142248 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
324 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
142313 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
389 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCA
142378 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
454 TACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
142414 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
142479 GTTACGATATATATTATTA-AAATTAAAAATAATAAACATATATATTACATATTTATTATTATCT
66 GTTACGATATATATTATTATAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
*
142543 TTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATC-AAACAATCAAATAA
131 TTGGTTAATATTGTTAAATTTAAATACTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
142607 TTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAA
196 TTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
142671 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
142736 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG-TTAATATAATGTAATAGGTAGCG
326 CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTT-ATATAATGTAATAGGTAGCG
142800 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
390 TTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCAT
*
142865 ATTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
455 ACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
142900 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
142965 GTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGATATATATTATTA-TAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
143030 TTTGGTTAATATTGTTAAATTTAAATACTAAATATTATTTTATAAAATATCAAAACAATCAAATA
130 TTTGGTTAATATTGTTAAATTTAAATACTAAATATTATTTTATAAAATATCAAAACAATCAAATA
143095 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT--AA
195 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
* * *
143158 AAAATTTAAACATAAATTACATAACTTTAAAAAAAATATCGATCTTTTTTATAAAAAAGTATAGA
260 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAAGTATAGA
143223 CACTTTCAA
324 CACTTTCAA
143232 CATATTATAA
Statistics
Matches: 1278, Mismatches: 23, Indels: 16
0.97 0.02 0.01
Matches are distributed among these distances:
485 2 0.00
486 313 0.24
487 74 0.06
488 163 0.13
489 423 0.33
490 125 0.10
491 178 0.14
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (489 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGATATATATTATTATAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCT
TTGGTTAATATTGTTAAATTTAAATACTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
TTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGT
TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATA
CTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
Found at i:160694 original size:28 final size:28
Alignment explanation
Indices: 160656--160715 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
160646 AAATATGTAA
160656 TTTGTGAAAGAAACCATATTTTACCTAT
1 TTTGTGAAAGAAACCATATTTTACCTAT
160684 TTTGTGAAAGAAACCATATTTTACCTAT
1 TTTGTGAAAGAAACCATATTTTACCTAT
160712 TTTG
1 TTTG
160716 GATTGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (28 bp):
TTTGTGAAAGAAACCATATTTTACCTAT
Found at i:168848 original size:22 final size:22
Alignment explanation
Indices: 168823--168865 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
168813 GCCCATATTC
168823 TGCACTAGGTATC-CTTTAGTGT
1 TGCACTAGGTATCAC-TTAGTGT
*
168845 TGCAGTAGGTATCACTTAGTG
1 TGCACTAGGTATCACTTAGTG
168866 CTATATCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.21, C:0.16, G:0.26, T:0.37
Consensus pattern (22 bp):
TGCACTAGGTATCACTTAGTGT
Found at i:170292 original size:19 final size:20
Alignment explanation
Indices: 170268--170306 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
170258 CAAAATATGC
170268 CAAATTC-ACACTCTAACAT
1 CAAATTCAACACTCTAACAT
170287 CAAATTCAACACTCTAACAT
1 CAAATTCAACACTCTAACAT
170307 TAATTTGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.26
Consensus pattern (20 bp):
CAAATTCAACACTCTAACAT
Found at i:173134 original size:20 final size:20
Alignment explanation
Indices: 173100--173170 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
173090 CACTCAACAA
*
173100 CTTTAGGTATTGATATCAAGC
1 CTTT-GGTATGGATATCAAGC
*
173121 CTTTGGTATGGATAATCAA-T
1 CTTTGGTATGGAT-ATCAAGC
* *
173141 CTTCGGTATGGATAT-TAGAC
1 CTTTGGTATGGATATCAAG-C
173161 CTTTGGTATG
1 CTTTGGTATG
173171 TAGACGGTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 1 0.02
19 2 0.05
20 29 0.71
21 9 0.22
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (20 bp):
CTTTGGTATGGATATCAAGC
Found at i:173200 original size:20 final size:20
Alignment explanation
Indices: 173166--173235 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
173156 TAGACCTTTG
173166 GTATGTAGA-CGGTCTTTCA
1 GTATGTAGACCGGTCTTTCA
*
173185 GTATGTAGACCGGTCTTTCG
1 GTATGTAGACCGGTCTTTCA
* *
173205 GTATGTAAACTGGTCTTTCA
1 GTATGTAGACCGGTCTTTCA
*
173225 GTATGAAGACC
1 GTATGTAGACC
173236 AGTCCTCCGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
19 9 0.21
20 34 0.79
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (20 bp):
GTATGTAGACCGGTCTTTCA
Found at i:173228 original size:40 final size:38
Alignment explanation
Indices: 173161--173235 Score: 114
Period size: 40 Copynumber: 1.9 Consensus size: 38
173151 GATATTAGAC
* *
173161 CTTTGGTATGTAGACGGTCTTTCAGTATGTAGACCGGT
1 CTTTGGTATGTAAACGGTCTTTCAGTATGAAGACCGGT
173199 CTTTCGGTATGTAAACTGGTCTTTCAGTATGAAGACC
1 CTTT-GGTATGTAAAC-GGTCTTTCAGTATGAAGACC
173236 AGTCCTCCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 4 0.12
39 10 0.30
40 19 0.58
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.36
Consensus pattern (38 bp):
CTTTGGTATGTAAACGGTCTTTCAGTATGAAGACCGGT
Found at i:187050 original size:2 final size:2
Alignment explanation
Indices: 187037--187122 Score: 74
Period size: 2 Copynumber: 43.5 Consensus size: 2
187027 TTTATTTATT
* * *
187037 TA TA TT TA TA TA TA T- TA GTA T- TA TA T- TA TT TA TA TG TA CTCA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -T-A
187079 TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TCA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA
187120 TA T
1 TA T
187123 TGCTACTATA
Statistics
Matches: 69, Mismatches: 6, Indels: 18
0.74 0.06 0.19
Matches are distributed among these distances:
1 5 0.07
2 58 0.84
3 5 0.07
4 1 0.01
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:187058 original size:6 final size:5
Alignment explanation
Indices: 187028--187123 Score: 51
Period size: 6 Copynumber: 18.4 Consensus size: 5
187018 TAGTTAGTAT
187028 TTAT- TTAT- TTATA TT-TA TATATA TTAGTA TTATA TTAT- TTATA TGTACTCA
1 TTATA TTATA TTATA TTATA T-TATA TTA-TA TTATA TTATA TTATA T-TA-T-A
*
187079 TAATA -TATA TATATA TATATA TATATA TATATA TTCATA -TATA TT
1 TTATA TTATA T-TATA T-TATA T-TATA T-TATA TT-ATA TTATA TT
187124 GCTACTATAG
Statistics
Matches: 78, Mismatches: 2, Indels: 23
0.76 0.02 0.22
Matches are distributed among these distances:
4 21 0.27
5 16 0.21
6 37 0.47
7 2 0.03
8 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (5 bp):
TTATA
Found at i:187797 original size:217 final size:215
Alignment explanation
Indices: 187408--187920 Score: 719
Period size: 217 Copynumber: 2.4 Consensus size: 215
187398 CTATCACTTC
* * * *
187408 AGGGAGT-AGAACTTGAACAATCTTCTGTTTACGGGTTCGCCCCCTCTTTGTTTAGGGCGTAGGA
1 AGGGAGTAAGAACTTGAACAATCTTCT-TCTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
* *
187472 AGTCGAACAATCTTCTGTCAACGTGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAAT
65 ACTCGAACAATCTTCTGTCAACGAGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAAT
*
187537 CTTATGTCAACGGGATCGTTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTG-TCAA
130 CTTATGTCAACGGGATCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCT-AA
* *
187601 CGTGTTCGCTCCCCTCTTTCTTT
194 CGGGTTCGCT-CCCTCTTTCTCT
* * *
187624 AGGGAGTAAGAACTCGAACAATCTTCTATCAACGTGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
1 AGGGAGTAAGAACTTGAACAATCTTCT-TCTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGA
* *
187689 ACTCGAACAATCTTCTGTCAATGAGTTTGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAAT
65 ACTCGAACAATCTTCTGTCAACGAGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAAT
* * * *
187754 CTTCTGTCAACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACGATCTTCTGCTTAC
130 CTTATGTCAACGGGATCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCTAAC
187819 GGGTTCGCTCCCTCTTTCTCT
195 GGGTTCGCTCCCTCTTTCTCT
* * ** * *
187840 AGGGAGTATGGAACTTAAAC-ATCTTCTTCTTACGGGTTTACTCCCTCTTTCTCTAGCGAGTATG
1 AGGGAGTA-AGAACTTGAACAATCTTCTTC-TACGGGTTCGCTCCCTCTTTCTTTAGGGAGTA-G
187904 GAACTCGAAC-ATCTTCT
63 GAACTCGAACAATCTTCT
187921 TCTACTTTAC
Statistics
Matches: 264, Mismatches: 28, Indels: 10
0.87 0.09 0.03
Matches are distributed among these distances:
215 2 0.01
216 66 0.25
217 195 0.74
218 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (215 bp):
AGGGAGTAAGAACTTGAACAATCTTCTTCTACGGGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAA
CTCGAACAATCTTCTGTCAACGAGTTCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATC
TTATGTCAACGGGATCGCTCCCTCTTTCTTTAGGGAGTAGGAACTCGAACAATCTTCTGCTAACG
GGTTCGCTCCCTCTTTCTCT
Found at i:187923 original size:54 final size:54
Alignment explanation
Indices: 187408--187920 Score: 694
Period size: 54 Copynumber: 9.5 Consensus size: 54
187398 CTATCACTTC
* ** * *
187408 AGGGAGTA-GAACTTGAACAATCTTCTGTTTACGGGTTCGCCCCCTCTTTGTTT
1 AGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTT
* * *
187461 AGGGCGTAGGAAGTCGAACAATCTTCTGTCAACGTGTTCGCTCCCTCTTTCTTT
1 AGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTT
* * *
187515 AGGGAGTAGGAACTCGAACAATCTTATGTCAACGGGATCGTTCCCTCTTTCTTT
1 AGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTT
*
187569 AGGGAGTAGGAACTCGAACAATCTTCTGTCAACGTGTTCGCTCCCCTCTTTCTTT
1 AGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCT-CCCTCTTTCTTT
* * *
187624 AGGGAGTAAGAACTCGAACAATCTTCTATCAACGTGTTCGCTCCCTCTTTCTTT
1 AGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTT
* * *
187678 AGGGAGTAGGAACTCGAACAATCTTCTGTCAATGAGTTTGCTCCCTCTTTCTTT
1 AGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTT
187732 AGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTT
1 AGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTT
* * *
187786 AGGGAGTAGGAACTCGAACGATCTTCTG-CTTACGGGTTCGCTCCCTCTTTCTCT
1 AGGGAGTAGGAACTCGAACAATCTTCTGTC-AACGGGTTCGCTCCCTCTTTCTTT
** * ** *
187840 AGGGAGTATGGAACTTAAAC-ATCTTCT-TCTTACGGGTTTACTCCCTCTTTCTCT
1 AGGGAGTA-GGAACTCGAACAATCTTCTGTC-AACGGGTTCGCTCCCTCTTTCTTT
*
187894 AGCGAGTATGGAACTCGAAC-ATCTTCT
1 AGGGAGTA-GGAACTCGAACAATCTTCT
187921 TCTACTTTAC
Statistics
Matches: 417, Mismatches: 38, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
53 8 0.02
54 348 0.83
55 61 0.15
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (54 bp):
AGGGAGTAGGAACTCGAACAATCTTCTGTCAACGGGTTCGCTCCCTCTTTCTTT
Found at i:189241 original size:22 final size:22
Alignment explanation
Indices: 189216--189277 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
189206 TTAAACCCTC
*
189216 TTTTTCTTATTCTTCTTCTTTT
1 TTTTTCTTTTTCTTCTTCTTTT
* *
189238 TTTTTCTTTTTTTTGTTCTTTT
1 TTTTTCTTTTTCTTCTTCTTTT
* *
189260 TTTATCTTTTTCATCTTC
1 TTTTTCTTTTTCTTCTTC
189278 AAGAAAAATA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTCTTTTTCTTCTTCTTTT
Found at i:189246 original size:10 final size:10
Alignment explanation
Indices: 189216--189270 Score: 56
Period size: 11 Copynumber: 5.1 Consensus size: 10
189206 TTAAACCCTC
189216 TTTTTCTTATT
1 TTTTTCTT-TT
*
189227 CTTCTTCTTTT
1 -TTTTTCTTTT
189238 TTTTTCTTTTT
1 TTTTTC-TTTT
189249 TTTGTTCTTTT
1 TTT-TTCTTTT
*
189260 TTTATCTTTT
1 TTTTTCTTTT
189270 T
1 T
189271 CATCTTCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
10 12 0.32
11 16 0.42
12 10 0.26
ACGTcount: A:0.04, C:0.13, G:0.02, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:189249 original size:12 final size:12
Alignment explanation
Indices: 189214--189262 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
189204 TCTTAAACCC
189214 TCTTTTTCTTATTCT
1 TCTTTTT-TT-TT-T
189229 TCTTCTTTTTTTT
1 TCTT-TTTTTTTT
*
189242 TCTTTTTTTTGT
1 TCTTTTTTTTTT
189254 TCTTTTTTT
1 TCTTTTTTT
189263 ATCTTTTTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
12 16 0.50
13 5 0.16
14 2 0.06
15 6 0.19
16 3 0.09
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:198854 original size:25 final size:25
Alignment explanation
Indices: 198815--198891 Score: 118
Period size: 25 Copynumber: 3.0 Consensus size: 25
198805 AGAACATTAA
198815 AACCTTAACCACATGATATCTAGTTC
1 AACC-TAACCACATGATATCTAGTTC
* *
198841 AACCTAACCGCATGATATCTAATTC
1 AACCTAACCACATGATATCTAGTTC
*
198866 AACCTAACCACATGATCTCTAGTTC
1 AACCTAACCACATGATATCTAGTTC
198891 A
1 A
198892 CATGCATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
25 42 0.91
26 4 0.09
ACGTcount: A:0.35, C:0.29, G:0.08, T:0.29
Consensus pattern (25 bp):
AACCTAACCACATGATATCTAGTTC
Done.