Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003881.1 Hibiscus syriacus cultivar Beakdansim tig00008370_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: 143436
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1450 original size:147 final size:144
Alignment explanation
Indices: 1167--1573 Score: 423
Period size: 145 Copynumber: 2.8 Consensus size: 144
1157 TAAGCTTCAA
* * * * **
1167 CCAAAAAGGTCAAAACGAGCCATTAATAA--TAAGAAAATGCCCTCAATAATGCAACATGGTAGA
1 CCAAAAATGTCAAAACGAGCCATTAATAACTTCAGAAAATG--CTTAATAATGCAGCATGCCAGA
*
1230 AAATGTAAGCAACTTTTCAGTGCCCCATCAAT-AGTC-T-AGCAACTTTTCAGTGAAATGTCATC
64 AAATGTAAGCAACTTTTCAGTGCCCCATCAATCA-TCTTCAG-AACTTTTCAGTGAAATGCCATC
* *
1292 TTTAATAATGCACCATGC
127 TCTAATAATGCACCAAGC
* *
1310 CCGAAAATGTCAAAACGAACCATTAATAATCTTCAGAAAATGTCATTAATAATGCAGCATGCCA-
1 CCAAAAATGTCAAAACGAGCCATTAATAA-CTTCAGAAAATG-C-TTAATAATGCAGCATGCCAG
* * * * * * **
1374 AAAAAGTTAGTAACTTTTTAGTGCCCAATCAATCATCTTCAGAAACGTTTCAGTGAGCTGCCATC
63 AAAATGTAAGCAACTTTTCAGTGCCCCATCAATCATCTTCAG-AACTTTTCAGTGAAATGCCATC
* *
1439 TCTATTAATGCATCAAGC
127 TCTAATAATGCACCAAGC
* * * * *
1457 CCAAAAATGTCAAAATGGGTCATTGATAACCTTCAG-AAATGCTTAATAATGCAGCATGCCATAA
1 CCAAAAATGTCAAAACGAGCCATTAATAA-CTTCAGAAAATGCTTAATAATGCAGCATGCCAGAA
** *
1521 AATGCCAGCAACTTTTCAGTGCCCCATCAATCATCTTCAGCACTTTTCAGTGA
65 AATGTAAGCAACTTTTCAGTGCCCCATCAATCATCTTCAGAACTTTTCAGTGA
1574 TATATCAAAT
Statistics
Matches: 218, Mismatches: 38, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
143 26 0.12
144 30 0.14
145 68 0.31
146 31 0.14
147 63 0.29
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (144 bp):
CCAAAAATGTCAAAACGAGCCATTAATAACTTCAGAAAATGCTTAATAATGCAGCATGCCAGAAA
ATGTAAGCAACTTTTCAGTGCCCCATCAATCATCTTCAGAACTTTTCAGTGAAATGCCATCTCTA
ATAATGCACCAAGC
Found at i:7573 original size:2 final size:2
Alignment explanation
Indices: 7530--7554 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7520 GAAGAATTCA
7530 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7555 ATGATATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16659 original size:20 final size:20
Alignment explanation
Indices: 16628--16679 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
16618 CAAAGGGGGA
*
16628 ATCGGTTCCCTCATGAGGGT
1 ATCGATTCCCTCATGAGGGT
*
16648 ATCGATTTCCTCATGAGGGT
1 ATCGATTCCCTCATGAGGGT
16668 ATCGATTCCCTC
1 ATCGATTCCCTC
16680 TGCACAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.17, C:0.27, G:0.23, T:0.33
Consensus pattern (20 bp):
ATCGATTCCCTCATGAGGGT
Found at i:19901 original size:20 final size:20
Alignment explanation
Indices: 19864--19902 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
19854 GAAGCTTTAA
** *
19864 GATCATCATTTTCTTTTGAT
1 GATCATCATTGACCTTTGAT
19884 GATCATCATTGACCTTTGA
1 GATCATCATTGACCTTTGA
19903 AAGTAAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (20 bp):
GATCATCATTGACCTTTGAT
Found at i:24421 original size:51 final size:50
Alignment explanation
Indices: 24327--24427 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 50
24317 GCCGGATTAG
24327 CCATGATATTCGGCATTGAAAATCCAAGTTAAAGATTTGTTTACACAACT
1 CCATGATATTCGGCATTGAAAATCCAAGTTAAAGATTTGTTTACACAACT
24377 CCATGATATTCGGCATTGAAAAGTCCAAGTTAAAGATTTGTTTACACAACT
1 CCATGATATTCGGCATTGAAAA-TCCAAGTTAAAGATTTGTTTACACAACT
24428 GTACGGAGTT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 22 0.44
51 28 0.56
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.32
Consensus pattern (50 bp):
CCATGATATTCGGCATTGAAAATCCAAGTTAAAGATTTGTTTACACAACT
Found at i:24935 original size:19 final size:20
Alignment explanation
Indices: 24911--24961 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
24901 AATGACCAAT
24911 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
24930 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
24950 AAAATCGCAACG
1 AAAATCGCAACG
24962 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:24955 original size:20 final size:20
Alignment explanation
Indices: 24911--25248 Score: 164
Period size: 20 Copynumber: 16.6 Consensus size: 20
24901 AATGACCAAT
*
24911 AAAATCGCAACGCGA-T-ATC
1 AAAATCGCAACGCGATTGA-G
*
24930 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTGAG
** ***
24950 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTGAG
**
24970 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TGAG
**
24990 AAAATCGCAACGCGAGCTT-CC
1 AAAATCGCAACGCGA--TTGAG
**
25011 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT-G-AG
* *
25034 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
** * *
25054 TGAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
** * *
25074 TGAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTGAG
** *
25094 TGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTGAG
* *
25114 AGAGTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGA-TT-G-AG
* * *
25137 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* * * *
25157 AGATTCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* *
25177 AGAATCGCAACGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* *
25197 AGAATCGCAACGCGACTGAG
1 AAAATCGCAACGCGATTGAG
* *
25217 AGAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTGAG
*
25237 AAAATCACAACG
1 AAAATCGCAACG
25249 TTAAAAAGAA
Statistics
Matches: 269, Mismatches: 36, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
19 15 0.06
20 203 0.75
21 19 0.07
22 4 0.01
23 27 0.10
24 1 0.00
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (20 bp):
AAAATCGCAACGCGATTGAG
Found at i:25087 original size:40 final size:40
Alignment explanation
Indices: 25036--25242 Score: 225
Period size: 40 Copynumber: 5.1 Consensus size: 40
25026 TTTAGAAGAA
** **
25036 AATCGCAATGCGATTGATTGAATCGCAATGCGATTGATTG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
**
25076 AATCGCAATGCGATTGATTGAATCGCAATGCGATTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
* * *
25116 AGTCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGA-TT-G-AGAGAATCGCAATGCGATTGAGAG
* * * *
25159 ATTCGCAATGCGACTGAGAGAATCGCAACGCGACTGAGAG
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
* * * * *
25199 AATCGCAACGCGACTGAGAGAATCGCAACGCGATTTAGAA
1 AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
25239 AATC
1 AATC
25243 ACAACGTTAA
Statistics
Matches: 148, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
40 111 0.75
41 3 0.02
42 2 0.01
43 32 0.22
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (40 bp):
AATCGCAATGCGATTGAGAGAATCGCAATGCGATTGAGAG
Found at i:25142 original size:83 final size:80
Alignment explanation
Indices: 25036--25242 Score: 225
Period size: 83 Copynumber: 2.5 Consensus size: 80
25026 TTTAGAAGAA
* * ** ** * **
25036 AATCGCAATGCGATTGATTGAATCGCAATGCGATTGATTGAATCGCAATGCGATTGATTGAATCG
1 AATCGCAACGCGACTGAGAGAATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAATCG
* *
25101 CAATGCGATTGAGAG
66 CAACGCGACTGAGAG
* * * *
25116 AGTCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAGATTCGCAATGCGACTGAGAGAA
1 AATCGCAACGCGA-CT-G-AGAGAATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAA
25181 TCGCAACGCGACTGAGAG
63 TCGCAACGCGACTGAGAG
* * *
25199 AATCGCAACGCGACTGAGAGAATCGCAACGCGATTTAGAAAATC
1 AATCGCAACGCGACTGAGAGAATCGCAATGCGATTGAGAGAATC
25243 ACAACGTTAA
Statistics
Matches: 104, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
80 34 0.33
81 3 0.03
82 2 0.02
83 65 0.62
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (80 bp):
AATCGCAACGCGACTGAGAGAATCGCAATGCGATTGAGAGAATCGCAATGCGACTGAGAGAATCG
CAACGCGACTGAGAG
Found at i:25148 original size:103 final size:103
Alignment explanation
Indices: 25015--25238 Score: 313
Period size: 103 Copynumber: 2.2 Consensus size: 103
25005 GCTTCCAAGT
* ** * **
25015 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATTGAATCGCAATGCGATTGATTGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
* * ** * * *
25080 GCAATGCGATTGATTGAATCGCAATGCGATTGAGAGAG
66 GCAACGCGACTGAGAGAATCGCAACGCGACTGAGAGAA
* *
25118 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAGATTCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
25183 GCAACGCGACTGAGAGAATCGCAACGCGACTGAGAGAA
66 GCAACGCGACTGAGAGAATCGCAACGCGACTGAGAGAA
25221 TCGCAACGCGATTTAGAA
1 TCGCAACGCGATTTAGAA
25239 AATCACAACG
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (103 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
GCAACGCGACTGAGAGAATCGCAACGCGACTGAGAGAA
Found at i:25177 original size:63 final size:60
Alignment explanation
Indices: 25036--25231 Score: 221
Period size: 60 Copynumber: 3.2 Consensus size: 60
25026 TTTAGAAGAA
* ** * * ** * **
25036 AATCGCAATGCGATTGATTGAATCGCAATGCGATTGATTGAATCGCAATGCGATTGATTG
1 AATCGCAATGCGACTGAGAGAATCGCAACGCGACTGAGAGAATCGCAATGCGACTGAGAG
* * *
25096 AATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAG
1 AATCGCAATGCGACTGAGAGAATCGCAACGCGA-CT-G-AGAGAATCGCAATGCGACTGAGAG
* *
25159 ATTCGCAATGCGACTGAGAGAATCGCAACGCGACTGAGAGAATCGCAACGCGACTGAGAG
1 AATCGCAATGCGACTGAGAGAATCGCAACGCGACTGAGAGAATCGCAATGCGACTGAGAG
*
25219 AATCGCAACGCGA
1 AATCGCAATGCGA
25232 TTTAGAAAAT
Statistics
Matches: 117, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
60 63 0.54
61 3 0.03
62 2 0.02
63 49 0.42
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.19
Consensus pattern (60 bp):
AATCGCAATGCGACTGAGAGAATCGCAACGCGACTGAGAGAATCGCAATGCGACTGAGAG
Found at i:25258 original size:20 final size:20
Alignment explanation
Indices: 25235--25278 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
25225 AACGCGATTT
*
25235 AGAAAATCACAACGTTAAAA
1 AGAAAATCACAACGGTAAAA
* *
25255 AGAAAATCGCAACGGTCAAA
1 AGAAAATCACAACGGTAAAA
25275 AGAA
1 AGAA
25279 TAGTTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.11
Consensus pattern (20 bp):
AGAAAATCACAACGGTAAAA
Found at i:25263 original size:60 final size:60
Alignment explanation
Indices: 25075--25268 Score: 154
Period size: 60 Copynumber: 3.2 Consensus size: 60
25065 GCGATTGATT
* * ** * * * * * *
25075 GAATCGCAATGCGATTGATTGAATCGCAATGCGATTGAGAGAGTCGCAACGCGATTTAGAAGA
1 GAATCGCAACGCGACTGAGAGAATCGCAACGCGACTGAGAAAATCACAACGCGA---AAAAGA
* * * * * ***
25138 GAATCGCAATGCGACTGAGAGATTCGCAATGCGACTGAGAGAATCGCAACGCGACTGAGA
1 GAATCGCAACGCGACTGAGAGAATCGCAACGCGACTGAGAAAATCACAACGCGAAAAAGA
* * **
25198 GAATCGCAACGCGACTGAGAGAATCGCAACGCGATTTAGAAAATCACAACGTTAAAAAGA
1 GAATCGCAACGCGACTGAGAGAATCGCAACGCGACTGAGAAAATCACAACGCGAAAAAGA
*
25258 AAATCGCAACG
1 GAATCGCAACG
25269 GTCAAAAGAA
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
60 61 0.56
63 48 0.44
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (60 bp):
GAATCGCAACGCGACTGAGAGAATCGCAACGCGACTGAGAAAATCACAACGCGAAAAAGA
Found at i:25366 original size:6 final size:6
Alignment explanation
Indices: 25355--25446 Score: 177
Period size: 6 Copynumber: 15.5 Consensus size: 6
25345 GACACGTATT
25355 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
25403 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
25447 CGAGACGAGA
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 5 0.06
6 81 0.94
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:26134 original size:6 final size:6
Alignment explanation
Indices: 26108--26191 Score: 147
Period size: 6 Copynumber: 14.5 Consensus size: 6
26098 GGGACTCTCG
26108 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
26153 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
26192 AATACGTGTC
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
5 15 0.19
6 63 0.81
ACGTcount: A:0.00, C:0.17, G:0.52, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:26294 original size:20 final size:20
Alignment explanation
Indices: 26269--26312 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
26259 TTTTTAACTA
*
26269 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
* *
26289 TTCTTTTTAACGTTGTGATT
1 TTCTTTTGAACGTTGCGATT
26309 TTCT
1 TTCT
26313 AAATCGCGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:26322 original size:20 final size:20
Alignment explanation
Indices: 26299--26472 Score: 150
Period size: 20 Copynumber: 8.4 Consensus size: 20
26289 TTCTTTTTAA
* *
26299 CGTTGTGATTTTCTAAATCG
1 CGTTGCGATTCTCTAAATCG
* *
26319 CGTTGCGATTCTCTCAGTCG
1 CGTTGCGATTCTCTAAATCG
* *
26339 CGTTGCGATTCTCTCAGTCG
1 CGTTGCGATTCTCTAAATCG
*
26359 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TTC-TCTAAATCG
* *
26382 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTCTCTAAATCG
* *
26402 CATTGCGATTCTATAAATCG
1 CGTTGCGATTCTCTAAATCG
* ** *
26422 CATTGCGATTCAATCAATCG
1 CGTTGCGATTCTCTAAATCG
*
26442 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TTC-TCTAAATCG
26465 CGTTGCGA
1 CGTTGCGA
26473 ACTTGGAAGC
Statistics
Matches: 128, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
20 93 0.73
21 2 0.02
22 6 0.05
23 27 0.21
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.37
Consensus pattern (20 bp):
CGTTGCGATTCTCTAAATCG
Found at i:26386 original size:43 final size:43
Alignment explanation
Indices: 26336--26472 Score: 199
Period size: 43 Copynumber: 3.3 Consensus size: 43
26326 ATTCTCTCAG
*
26336 TCGCGTTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAA
1 TCGCGTTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAA
* *
26379 TCGCGTTGCGACTCTCTCAATCGCATTGCGA--TTC-TATAAA
1 TCGCGTTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAA
* **
26419 TCGCATTGCGATTCAATCAATCGCATTGCGATTTTCTTCTAAA
1 TCGCGTTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAA
26462 TCGCGTTGCGA
1 TCGCGTTGCGA
26473 ACTTGGAAGC
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
40 32 0.39
41 3 0.04
42 3 0.04
43 44 0.54
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (43 bp):
TCGCGTTGCGATTCTCTCAATCGCATTGCGATTTTCTTCTAAA
Found at i:26389 original size:63 final size:63
Alignment explanation
Indices: 26309--26431 Score: 192
Period size: 63 Copynumber: 2.0 Consensus size: 63
26299 CGTTGTGATT
* * * * * *
26309 TTCTAAATCGCGTTGCGATTCTCTCAGTCGCGTTGCGATTCTCTCAGTCGCATTGCGATTTTC
1 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTTTC
26372 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATT
1 TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATT
26432 CAATCAATCG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (63 bp):
TTCTAAATCGCGTTGCGACTCTCTCAATCGCATTGCGATTCTATAAATCGCATTGCGATTTTC
Found at i:26408 original size:83 final size:83
Alignment explanation
Indices: 26314--26472 Score: 246
Period size: 83 Copynumber: 1.9 Consensus size: 83
26304 TGATTTTCTA
* * * * * ** *
26314 AATCGCGTTGCGATTCTCTCAGTCGCGTTGCGATTCTCTCAGTCGCATTGCGATTTTCTTCTAAA
1 AATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATCAATCGCATTGCGATTTTCTTCTAAA
26379 TCGCGTTGCGACTCTCTC
66 TCGCGTTGCGACTCTCTC
26397 AATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATCAATCGCATTGCGATTTTCTTCTAAA
1 AATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATCAATCGCATTGCGATTTTCTTCTAAA
26462 TCGCGTTGCGA
66 TCGCGTTGCGA
26473 ACTTGGAAGC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (83 bp):
AATCGCATTGCGATTCTATAAATCGCATTGCGATTCAATCAATCGCATTGCGATTTTCTTCTAAA
TCGCGTTGCGACTCTCTC
Found at i:26511 original size:20 final size:20
Alignment explanation
Indices: 26486--26539 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
26476 TGGAAGCTCG
*
26486 CGTTGCGATTTTCTTTTGAC
1 CGTTGCGATTTTCTTTTGAA
*
26506 CGTTGCGATTTTCTTTTTAA
1 CGTTGCGATTTTCTTTTGAA
*
26526 CGTTGTGATTTTCT
1 CGTTGCGATTTTCT
26540 AAATCGCGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.11, C:0.17, G:0.19, T:0.54
Consensus pattern (20 bp):
CGTTGCGATTTTCTTTTGAA
Found at i:26549 original size:20 final size:19
Alignment explanation
Indices: 26526--26576 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
26516 TTCTTTTTAA
*
26526 CGTTGTGATTTTCTAAATCG
1 CGTTGTGATTTT-GAAATCG
* *
26546 CGTTGCGATTTTGATATCG
1 CGTTGTGATTTTGAAATCG
26565 CGTTGTGATTTT
1 CGTTGTGATTTT
26577 ATTGGTCATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.16, C:0.14, G:0.24, T:0.47
Consensus pattern (19 bp):
CGTTGTGATTTTGAAATCG
Found at i:27628 original size:186 final size:185
Alignment explanation
Indices: 27296--27689 Score: 630
Period size: 186 Copynumber: 2.1 Consensus size: 185
27286 TTTTTTAATT
* *
27296 TATATAA-AAATTGAATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATA
27360 ATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTA
66 ATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTA
* * * * *
27425 TTGGATCTTAGATTATTAATTGAGTTTTAAATGATTTGGGCTGAACCCATATGTTA
131 TTAGATCATAAATTATTAATTGAGTTTTAAATGATTTGGACTG-ACCCATATATTA
* *
27481 TATATAATATATTTAATATTTTTTAATTCAGAAAAACAGTTTATAATTAATTTAAATAATATATA
1 TATATAATATATTTAATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATA
* * * *
27546 ATTATAAAATAAAAATTTTATATAAATTTTTTAATTAATTAATATTGATTT-GGATTTAAAAGTT
66 ATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAAG-TTTAAAAATT
27610 ATTAGATCATAAATTATTAATTGAGTTTTAAATGATTTGGACTGACCCATATATTA
130 ATTAGATCATAAATTATTAATTGAGTTTTAAATGATTTGGACTGACCCATATATTA
*
27666 TATATAATATATTTAAAATTTTAT
1 TATATAATATATTTAATATTTTAT
27690 TTCGATTAAT
Statistics
Matches: 192, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
185 41 0.21
186 151 0.79
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (185 bp):
TATATAATATATTTAATATTTTATAATTCAAAAAAACAGTTTATAATTAATTTAAATAATATATA
ATTATAAAATAAAAAATTTATATAAAATTTTTAATTAATTAATATTGATTTAAGTTTAAAAATTA
TTAGATCATAAATTATTAATTGAGTTTTAAATGATTTGGACTGACCCATATATTA
Found at i:28286 original size:26 final size:26
Alignment explanation
Indices: 28257--28316 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
28247 AACTGTGTCT
28257 TCCGGCTGATTGTCGGCCAATTTTTA
1 TCCGGCTGATTGTCGGCCAATTTTTA
28283 TCCGGCTGATTGTCGGCCAATTTTTA
1 TCCGGCTGATTGTCGGCCAATTTTTA
28309 TCCGGCTG
1 TCCGGCTG
28317 TGCGCCGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.13, C:0.25, G:0.25, T:0.37
Consensus pattern (26 bp):
TCCGGCTGATTGTCGGCCAATTTTTA
Found at i:33251 original size:29 final size:29
Alignment explanation
Indices: 33188--33262 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
33178 ACCCTTAAAT
* *
33188 TTTTATTTTTAATATTTTAGTCCTTTAACC
1 TTTTATTTTT-TTATTTTAGTCCTTTAACA
33218 TTTTATTTTTTCTATTTGT-GTCCTTT-ACA
1 TTTTATTTTTT-TATTT-TAGTCCTTTAACA
*
33247 TTTTATTTATTTATTT
1 TTTTATTTTTTTATTT
33263 ATTTGTTTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 5 0.12
29 12 0.30
30 22 0.55
31 1 0.03
ACGTcount: A:0.19, C:0.11, G:0.04, T:0.67
Consensus pattern (29 bp):
TTTTATTTTTTTATTTTAGTCCTTTAACA
Found at i:34789 original size:16 final size:16
Alignment explanation
Indices: 34770--34803 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34760 CAATATACGA
34770 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
34786 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
34802 AT
1 AT
34804 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:35548 original size:130 final size:130
Alignment explanation
Indices: 35344--35591 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
35334 AATTTTCTTC
* *
35344 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
35409 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
35474 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
35539 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
35592 TATATAATAA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:36050 original size:35 final size:36
Alignment explanation
Indices: 35990--36064 Score: 107
Period size: 35 Copynumber: 2.1 Consensus size: 36
35980 TTGAATTTAT
* *
35990 TTGAATTATTTTTGGAATTTAGGGTTTAGAATAAAA
1 TTGAATTATCTTTGGAAATTAGGGTTTAGAATAAAA
* *
36026 TTGAATTA-CTTTGGAAATTGGGGTTTAGAATGAAA
1 TTGAATTATCTTTGGAAATTAGGGTTTAGAATAAAA
36061 TTGA
1 TTGA
36065 GGACTGTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
35 27 0.77
36 8 0.23
ACGTcount: A:0.35, C:0.01, G:0.23, T:0.41
Consensus pattern (36 bp):
TTGAATTATCTTTGGAAATTAGGGTTTAGAATAAAA
Found at i:38443 original size:11 final size:10
Alignment explanation
Indices: 38415--38518 Score: 56
Period size: 10 Copynumber: 10.4 Consensus size: 10
38405 AGATCCAATC
*
38415 AAGAACAAA-
1 AAGAAAAAAG
*
38424 AAGAGAAAAG
1 AAGAAAAAAG
38434 AAGCAAAAAAAG
1 AAG--AAAAAAG
38446 AAGAAAAAA-
1 AAGAAAAAAG
* *
38455 AACAGGAAAA-
1 AAGA-AAAAAG
*
38465 AAGAAAAGAG
1 AAGAAAAAAG
*
38475 AA-AATAAAAA
1 AAGAA-AAAAG
38485 AAGAAAAAAAG
1 AAG-AAAAAAG
*
38496 AA-AAAAATG
1 AAGAAAAAAG
*
38505 AAGAAAAAAC
1 AAGAAAAAAG
38515 AAGA
1 AAGA
38519 CGTATATGCA
Statistics
Matches: 72, Mismatches: 14, Indels: 17
0.70 0.14 0.17
Matches are distributed among these distances:
9 23 0.32
10 32 0.44
11 6 0.08
12 11 0.15
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (10 bp):
AAGAAAAAAG
Found at i:38446 original size:12 final size:11
Alignment explanation
Indices: 38429--38513 Score: 59
Period size: 12 Copynumber: 7.3 Consensus size: 11
38419 ACAAAAAGAG
38429 AAAAGAAGCAAA
1 AAAAGAAG-AAA
38441 AAAAGAAGAAA
1 AAAAGAAGAAA
38452 AAAA-ACAGGAAA
1 AAAAGA-A-GAAA
*
38464 AAAGAAAAGAGAA
1 AAA-AGAAGA-AA
38477 AATAA-AA-AAA
1 AA-AAGAAGAAA
*
38487 GAAAAAAAGAAA
1 -AAAAGAAGAAA
38499 AAAATGAAGAAA
1 AAAA-GAAGAAA
38511 AAA
1 AAA
38514 CAAGACGTAT
Statistics
Matches: 62, Mismatches: 1, Indels: 20
0.75 0.01 0.24
Matches are distributed among these distances:
10 5 0.08
11 17 0.27
12 31 0.50
13 7 0.11
14 2 0.03
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (11 bp):
AAAAGAAGAAA
Found at i:38471 original size:28 final size:29
Alignment explanation
Indices: 38440--38515 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
38430 AAAGAAGCAA
*
38440 AAAAAGAAGAA-AAAAAACAGGAAAAAAG
1 AAAAAGAAGAAGAAAAAACAGAAAAAAAG
*
38468 AAAAGAGAA-AATAAAAAA-AGAAAAAAAG
1 AAAA-AGAAGAAGAAAAAACAGAAAAAAAG
38496 AAAAA-AATGAAGAAAAAACA
1 AAAAAGAA-GAAGAAAAAACA
38516 AGACGTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 27 0.66
29 11 0.27
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.03
Consensus pattern (29 bp):
AAAAAGAAGAAGAAAAAACAGAAAAAAAG
Found at i:38476 original size:7 final size:7
Alignment explanation
Indices: 38439--38501 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
38429 AAAAGAAGCA
38439 AAAAAAG
1 AAAAAAG
38446 AAGAAAA-
1 AA-AAAAG
*
38453 AAAACAGG
1 AAAA-AAG
38461 AAAAAAG
1 AAAAAAG
*
38468 AAAAGAG
1 AAAAAAG
*
38475 AAAATA-
1 AAAAAAG
38481 AAAAAAG
1 AAAAAAG
38488 AAAAAAAG
1 -AAAAAAG
38496 AAAAAA
1 AAAAAA
38502 ATGAAGAAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
6 7 0.15
7 24 0.52
8 15 0.33
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.02
Consensus pattern (7 bp):
AAAAAAG
Found at i:38508 original size:20 final size:19
Alignment explanation
Indices: 38415--38513 Score: 73
Period size: 20 Copynumber: 5.1 Consensus size: 19
38405 AGATCCAATC
*
38415 AAGAACAAAAAG-AGAAAAG
1 AAGAA-AAAAAGAAGAAAAA
38434 AAGCAAAAAAAGAAGAAAAA
1 AAG-AAAAAAAGAAGAAAAA
*
38454 AA-ACAGGAAAA-AAGAAAAGA
1 AAGA-A-AAAAAGAAGAAAA-A
38474 GAA-AATAAAAA-AAGAAAAA
1 -AAGAA-AAAAAGAAGAAAAA
38493 AAGAAAAAAATGAAGAAAAA
1 AAGAAAAAAA-GAAGAAAAA
38513 A
1 A
38514 CAAGACGTAT
Statistics
Matches: 67, Mismatches: 4, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.12
19 20 0.30
20 36 0.54
21 3 0.04
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAAGAAGAAAAA
Found at i:38512 original size:46 final size:46
Alignment explanation
Indices: 38422--38513 Score: 112
Period size: 47 Copynumber: 2.0 Consensus size: 46
38412 ATCAAGAACA
** * *
38422 AAAAGAGAAAAGAAGCAAAAAAAGAAGAAAAAAAACAGGAAAAAAG
1 AAAAGAGAAAAGAAAAAAAAAAAAAAGAAAAAAAACAAGAAAAAAG
* **
38468 AAAAGAGAAAATAAAAAAAGAAAAAAAGAAAAAAATGAAGAAAAAA
1 AAAAGAGAAAAGAAAAAAA-AAAAAAAGAAAAAAAACAAGAAAAAA
38514 CAAGACGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 16 0.42
47 22 0.58
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (46 bp):
AAAAGAGAAAAGAAAAAAAAAAAAAAGAAAAAAAACAAGAAAAAAG
Found at i:40388 original size:85 final size:85
Alignment explanation
Indices: 40239--40884 Score: 713
Period size: 85 Copynumber: 7.6 Consensus size: 85
40229 AATTCGCAGC
* * *
40239 AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATT
1 AAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATT
*
40304 TACAGCATAGCTCAAGGCGAG
65 TACAGCATAACTCAAGGCGAG
* * *
40325 AAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATTAAATTC
1 AAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
* * * *
40390 GCAGCATAAATCAAGGAGAA
66 ACAGCATAACTCAAGGCGAG
** * * * * *
40410 AAGGATTATTTGCCAACAAAAGACCTTCGAGTTCGATTATATTCAGCTCAAAGGAACATCAAATT
1 AAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATT
* ** * *
40475 TACAGGATAGTTCAAGGCAAC
65 TACAGCATAACTCAAGGCGAG
* * * * *
40496 AAGGGCTATTTGTAAACAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCAAATTT
1 AAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
40561 ACAGCATAACTCAAGGCGAG
66 ACAGCATAACTCAAGGCGAG
* *
40581 AAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCCAATT
1 AAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATT
* *
40646 TACAACATAACTCAAGGCAAG
65 TACAGCATAACTCAAGGCGAG
* * * * * *
40667 AAAGGTTATCTGTTATAC-AAGACCTTCAAGTTCGATTACATTCAGCTCAGAGGCATATCAAAAT
1 AAGGGCTATCTGTCA-ACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATT
**
40731 TACAATATAACTCAAGGCGAG
65 TACAGCATAACTCAAGGCGAG
* * * ** *
40752 AAGGGTTATCTGTCAACAAATACCTTCGAGTTTGATCCCATTCAGCTC-AAGGACATGTCAAATT
1 AAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGG-CATATCAAATT
* * * *
40816 TACAACATAGCTTAAGTCGAG
65 TACAGCATAACTCAAGGCGAG
** * * **
40837 AAAAGCTATATGTCAACAAA-AACTATCGAGTTCGATTTTATTCAGCTC
1 AAGGGCTATCTGTCAACAAAGACCT-TCGAGTTCGATTACATTCAGCTC
40885 GATGACACAT
Statistics
Matches: 473, Mismatches: 81, Indels: 13
0.83 0.14 0.02
Matches are distributed among these distances:
84 8 0.02
85 305 0.64
86 158 0.33
87 2 0.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (85 bp):
AAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
ACAGCATAACTCAAGGCGAG
Found at i:40534 original size:171 final size:169
Alignment explanation
Indices: 40239--40884 Score: 740
Period size: 171 Copynumber: 3.8 Consensus size: 169
40229 AATTCGCAGC
40239 AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATT
1 AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATT
* *
40304 TACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACCAAGACCTTCGAGTTCGATTACATTCA
66 TACAGCATAGCTCAAGGCAAGAAGGGCTATCTGT-AAACAAGACCTTCGAGTTCGATTACATTCA
* * * * *
40369 GCTCAAAGGCATATTAAATTCGCAGCATAAATCAAGGAGAA
130 GCTCAAAGGCATATAAAATT-ACAGCATAACTCAAGGCGAG
* * * *
40410 AAGGATTATTTGCCAACAAAAGACCTTCGAGTTCGATTATATTCAGCTCAAAGGAACATCAAATT
1 AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATT
* * * * *
40475 TACAGGATAGTTCAAGGCAACAAGGGCTATTTGTAAACAAAGACCTTCGAGTTCGATTACACTCA
66 TACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTAAAC-AAGACCTTCGAGTTCGATTACATTCA
* * *
40540 ACTCAAAGGCACATCAAATTTACAGCATAACTCAAGGCGAG
130 GCTCAAAGGCATAT-AAAATTACAGCATAACTCAAGGCGAG
* * * * *
40581 AAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCCAATT
1 AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATT
* * * * * *
40646 TACAACATAACTCAAGGCAAGAAAGGTTATCTGTTATACAAGACCTTCAAGTTCGATTACATTCA
66 TACAGCATAGCTCAAGGCAAGAAGGGCTATCTG-TAAACAAGACCTTCGAGTTCGATTACATTCA
* **
40711 GCTCAGAGGCATATCAAAATTACAATATAACTCAAGGCGAG
130 GCTCAAAGGCATAT-AAAATTACAGCATAACTCAAGGCGAG
* * * **
40752 AAGGGTTATCTGTCAAC-AAATACCTTCGAGTTTGATCCCATTCAGCTC-AAGG-ACATGTCAAA
1 AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACA--TCAAA
* * * * ** * * * * **
40814 TTTACAACATAGCTTAAGTCGAGAAAAGCTATATGTCAACAAAAACTATCGAGTTCGATTTTATT
64 TTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTAAACAAGACCT-TCGAGTTCGATTACATT
40879 CAGCTC
128 CAGCTC
40885 GATGACACAT
Statistics
Matches: 402, Mismatches: 67, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
168 2 0.00
169 12 0.03
170 81 0.20
171 299 0.74
172 8 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (169 bp):
AAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATT
TACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTAAACAAGACCTTCGAGTTCGATTACATTCAG
CTCAAAGGCATATAAAATTACAGCATAACTCAAGGCGAG
Found at i:40712 original size:256 final size:256
Alignment explanation
Indices: 40238--40873 Score: 766
Period size: 256 Copynumber: 2.5 Consensus size: 256
40228 CAATTCGCAG
* **
40238 CAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAAT
1 CAAGGGCTATCTGTAAAC-AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAAT
* *
40303 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-CAAGACCTTCGAGTTCGATTACATT
65 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACT
* * * *
40367 CAGCTCAAAGGCATATTAAATTCGCAGCATAAATCAAGGAGAAAAGGATTATTTGCCAACAAAAG
130 CAGCTCAAAGGCATATCAAATTCACAACATAAATCAAGGAGAAAAGGATTATCTGCCAAC-AAAG
* * * * **
40432 ACCTTCGAGTTCGATTATATTCAGCTCAAAGGAACATCAAATTTACAGGATAGTTCAAGGCAA
194 ACCTTCAAGTTCGATTACATTCAGCTCAAAGGAACATCAAAATTACAAGATAACTCAAGGCAA
* * *
40495 CAAGGGCTATTTGTAAACAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCAAATT
1 CAAGGGCTATCTGTAAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATT
*
40560 TACAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTC
66 TACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTC
* * * **
40625 AGCTCAAAGGCATATCCAATTTACAACATAACTCAAGGCA-AGAAAGG-TTATCTGTTATAC-AA
131 AGCTCAAAGGCATATCAAATTCACAACATAAATCAAGG-AGA-AAAGGATTATCTGCCA-ACAAA
* * * * *
40687 GACCTTCAAGTTCGATTACATTCAGCTCAGAGGCATATCAAAATTACAATATAACTCAAGGCGA
193 GACCTTCAAGTTCGATTACATTCAGCTCAAAGGAACATCAAAATTACAAGATAACTCAAGGCAA
* * * * * **
40751 GAAGGGTTATCTGTCAACAAATACCTTCGAGTTTGATCCCATTCAGCTC-AAGG-ACATGTCAAA
1 CAAGGGCTATCTGTAAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACA--TCAAA
* * * ** *
40814 TTTACAACATAGCTTAAGTCGAGAAAAGCTATATGTCAACAAAA-A-CTATCGAGTTCGATT
64 TTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAGACCT-TCGAGTTCGATT
40874 TTATTCAGCT
Statistics
Matches: 326, Mismatches: 46, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
254 5 0.02
255 17 0.05
256 218 0.67
257 78 0.24
258 8 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (256 bp):
CAAGGGCTATCTGTAAACAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATT
TACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTC
AGCTCAAAGGCATATCAAATTCACAACATAAATCAAGGAGAAAAGGATTATCTGCCAACAAAGAC
CTTCAAGTTCGATTACATTCAGCTCAAAGGAACATCAAAATTACAAGATAACTCAAGGCAA
Found at i:42378 original size:30 final size:30
Alignment explanation
Indices: 42344--42405 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
42334 TTAATTCCAG
42344 TTTAGACCCTTAA-ATTTCTATTTTTGATAT
1 TTTAGACCCTTAACATTT-TATTTTTGATAT
* * * *
42374 TTTAGTCCTTTAACCTTTTATTTTTGCTAT
1 TTTAGACCCTTAACATTTTATTTTTGATAT
42404 TT
1 TT
42406 ACGTCCTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.21, C:0.15, G:0.06, T:0.58
Consensus pattern (30 bp):
TTTAGACCCTTAACATTTTATTTTTGATAT
Found at i:42406 original size:29 final size:30
Alignment explanation
Indices: 42357--42425 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
42347 AGACCCTTAA
42357 ATTTCTATTTTTGATATTTTA-GTCCTTTAAC
1 ATTT-TATTTTTGATATTTTACGTCCTTT-AC
* *
42388 CTTTTATTTTTGCTA-TTTACGTCCTTTAC
1 ATTTTATTTTTGATATTTTACGTCCTTTAC
42417 ATTTTATTT
1 ATTTTATTT
42426 ATTTATTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 14 0.41
30 17 0.50
31 3 0.09
ACGTcount: A:0.19, C:0.14, G:0.06, T:0.61
Consensus pattern (30 bp):
ATTTTATTTTTGATATTTTACGTCCTTTAC
Found at i:42428 original size:4 final size:4
Alignment explanation
Indices: 42419--42445 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
42409 TCCTTTACAT
42419 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
42446 TTAATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:42474 original size:2 final size:2
Alignment explanation
Indices: 42467--42503 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
42457 CAACATCATT
42467 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
42504 TTTACACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45114 original size:2 final size:2
Alignment explanation
Indices: 45107--45140 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
45097 TCACATGTAA
* *
45107 AT AT AT AT GT GT 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
45141 GGTCAACCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45332 original size:2 final size:2
Alignment explanation
Indices: 45325--45360 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
45315 TAGTGTACCA
45325 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
45361 TAAAAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49501 original size:29 final size:29
Alignment explanation
Indices: 49459--49645 Score: 196
Period size: 29 Copynumber: 6.7 Consensus size: 29
49449 GACCCGACCC
* *
49459 AGTGATATTCTGGGAATTTTTATGAAAAA
1 AGTGACATTCTGGGAATTTTTGTGAAAAA
*
49488 AGTGACATTCTGGGAATTGTTGTGAAAAA
1 AGTGACATTCTGGGAATTTTTGTGAAAAA
* *
49517 TGTAACATTCTGGGAATTTTTGTGAAACAA
1 AGTGACATTCTGGGAATTTTTGTGAAA-AA
49547 A-TGACA--C-GGGAA-TTTTGTG-AAAA
1 AGTGACATTCTGGGAATTTTTGTGAAAAA
* *
49570 AGTGACAATCTGGGAATTGTTGTG-AAAA
1 AGTGACATTCTGGGAATTTTTGTGAAAAA
49598 A-TGACAATT-TGGGAATTATTT-TGAAAAA
1 AGTGAC-ATTCTGGGAATT-TTTGTGAAAAA
* *
49626 AGTGACATTTTGAGAATTTT
1 AGTGACATTCTGGGAATTTT
49646 CGAATGTGGA
Statistics
Matches: 135, Mismatches: 12, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
23 3 0.02
24 7 0.05
25 7 0.05
26 6 0.04
27 20 0.15
28 25 0.19
29 65 0.48
30 2 0.01
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.34
Consensus pattern (29 bp):
AGTGACATTCTGGGAATTTTTGTGAAAAA
Found at i:50603 original size:32 final size:31
Alignment explanation
Indices: 50529--50614 Score: 82
Period size: 31 Copynumber: 2.7 Consensus size: 31
50519 CTAATGCGAC
* * *
50529 TCTTAGGTAGGCTCTGCGGCCCTGAGATCAT
1 TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
** **
50560 TCTCGGGTAGGCCCTACGGCCCTAAGATGTGT
1 TCTTAGGTAGGCCCTACGGCCCTAAGAT-CAT
* *
50592 TCTTAGGTAGGCCCCACGACCCT
1 TCTTAGGTAGGCCCTACGGCCCT
50615 GAAATCTATC
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
31 23 0.53
32 20 0.47
ACGTcount: A:0.16, C:0.30, G:0.28, T:0.26
Consensus pattern (31 bp):
TCTTAGGTAGGCCCTACGGCCCTAAGATCAT
Found at i:51718 original size:3 final size:3
Alignment explanation
Indices: 51710--51743 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
51700 CCAATTAAAT
*
51710 ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
51744 ATAAGTTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:60484 original size:21 final size:21
Alignment explanation
Indices: 60460--60579 Score: 213
Period size: 21 Copynumber: 5.7 Consensus size: 21
60450 TTCTAGTTGG
*
60460 GAGTATCGATACTGCTGGAGG
1 GAGTATCGATACTGCTGGAGA
60481 GAGTATCGATACTGCTGGAGA
1 GAGTATCGATACTGCTGGAGA
60502 GAGTATCGATACTGCTGGAGA
1 GAGTATCGATACTGCTGGAGA
*
60523 GAGTATCGATACTACTGGAGA
1 GAGTATCGATACTGCTGGAGA
*
60544 GAGTATCGATACTGTTGGAGA
1 GAGTATCGATACTGCTGGAGA
60565 GAGTATCGATACTGC
1 GAGTATCGATACTGC
60580 CCCTACAGTA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 94 1.00
ACGTcount: A:0.28, C:0.14, G:0.33, T:0.25
Consensus pattern (21 bp):
GAGTATCGATACTGCTGGAGA
Found at i:63268 original size:28 final size:27
Alignment explanation
Indices: 63233--63293 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
63223 TTTTAGTATC
63233 ATTTTAATA-AAAATATTAATTATTAA-A
1 ATTTTAATATAAAATA-TAATT-TTAATA
*
63260 ATATTTAATATATAATATAATTTTAATA
1 AT-TTTAATATAAAATATAATTTTAATA
63288 ATTTTA
1 ATTTTA
63294 TATTTTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 10 0.33
28 15 0.50
29 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
ATTTTAATATAAAATATAATTTTAATA
Found at i:63373 original size:26 final size:27
Alignment explanation
Indices: 63328--63392 Score: 64
Period size: 26 Copynumber: 2.5 Consensus size: 27
63318 TACTCAGCTA
* * *
63328 TATT-ATAATAATATATTATATTATAT
1 TATTAATATTAATATATTATAATAAAT
*
63354 TTTTAAT-TTAATA-ATATATAATAAAT
1 TATTAATATTAATATAT-TATAATAAAT
63380 TATTAATATTAAT
1 TATTAATATTAAT
63393 TATCATTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
25 2 0.06
26 22 0.71
27 7 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTAATATTAATATATTATAATAAAT
Found at i:63387 original size:47 final size:46
Alignment explanation
Indices: 63336--63431 Score: 110
Period size: 45 Copynumber: 2.1 Consensus size: 46
63326 TATATTATAA
**
63336 TAATATATTATATTAT-ATTTTTA-ATTTAATAATATATAATAAATTAT
1 TAATATATTA-ATTATCATTTTTATA-AAAATAATAT-TAATAAATTAT
*
63383 T-A-ATATTAATTATCATTTTTATAAAAATAATATTATTAAATTAT
1 TAATATATTAATTATCATTTTTATAAAAATAATATTAATAAATTAT
63427 TAATA
1 TAATA
63432 ATGAGTAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
44 16 0.38
45 22 0.52
46 3 0.07
47 1 0.02
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (46 bp):
TAATATATTAATTATCATTTTTATAAAAATAATATTAATAAATTAT
Found at i:64188 original size:35 final size:36
Alignment explanation
Indices: 64149--64223 Score: 84
Period size: 35 Copynumber: 2.1 Consensus size: 36
64139 ATTAATTATT
*
64149 TATTAAATTAATA-ATTTTATATTATATTT-TAAAAA
1 TATTAAATTAATATATTTTA-AATATATTTATAAAAA
* * *
64184 TATT-AATTAGTATGTTTTAAATATATTTATTAAAA
1 TATTAAATTAATATATTTTAAATATATTTATAAAAA
64219 TATTA
1 TATTA
64224 TTAGATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
34 15 0.45
35 18 0.55
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (36 bp):
TATTAAATTAATATATTTTAAATATATTTATAAAAA
Found at i:64373 original size:47 final size:44
Alignment explanation
Indices: 64304--64399 Score: 106
Period size: 47 Copynumber: 2.1 Consensus size: 44
64294 ATATGAAATT
*
64304 AATAAATAATATAAATTTTATTA-ATAATTTATTATATATTATTAA
1 AATAAATAATATAAATTTTATTATATAATTGATTAT-T-TTATTAA
*
64349 AATAAA-AATATAATATCTTATATTATTATAATTGATTATTTTATTAT
1 AATAAATAATATAA-AT-TT-TATTA-TATAATTGATTATTTTATTAA
64396 AATA
1 AATA
64400 TTTAAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
44 7 0.16
45 8 0.18
46 2 0.05
47 15 0.34
48 1 0.02
49 11 0.25
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (44 bp):
AATAAATAATATAAATTTTATTATATAATTGATTATTTTATTAA
Found at i:64380 original size:18 final size:17
Alignment explanation
Indices: 64357--64413 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
64347 AAAATAAAAA
64357 TATAATATCTTATATTAT
1 TATAATAT-TTATATTAT
*
64375 TATAAT-TGATTATTTTAT
1 TATAATAT--TTATATTAT
* *
64393 TATAATATTTAAAATAT
1 TATAATATTTATATTAT
64410 TATA
1 TATA
64414 TTATATTATT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
17 11 0.34
18 20 0.62
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TATAATATTTATATTAT
Found at i:64415 original size:22 final size:22
Alignment explanation
Indices: 64385--64431 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
64375 TATAATTGAT
*
64385 TATTTTATTATAATATTTA-AAA
1 TATTATATTATAATA-TTAGAAA
*
64407 TATTATATTATATTATTAGAAA
1 TATTATATTATAATATTAGAAA
64429 TAT
1 TAT
64432 GAATAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 19 0.86
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TATTATATTATAATATTAGAAA
Found at i:64421 original size:74 final size:76
Alignment explanation
Indices: 64333--64498 Score: 168
Period size: 72 Copynumber: 2.2 Consensus size: 76
64323 ATTAATAATT
** *
64333 TATTATA-TATTATTAAAATAAAAATAT-AATATCTTATATTATT-ATAATTGATTATTTT-ATT
1 TATTATATTA-TATTAAAATAAAAATATGAATA-AATATATT-TTAATAATT-AATATTTTGATT
*
64394 ATAAT-AT-TTAAAA
62 AAAATGATATTAAAA
* *
64407 TATTATATTATATT--ATTAGAAATATGAATAAATATATTTTAATAATTAATATTTTGATTAAAA
1 TATTATATTATATTAAAATAAAAATATGAATAAATATATTTTAATAATTAATATTTTGATTAAAA
64470 TGATATTAAAA
66 TGATATTAAAA
*
64481 TATTTTATTAATATTAAA
1 TATTATATT-ATATTAAA
64499 TTCATAAAAT
Statistics
Matches: 76, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
71 9 0.12
72 28 0.37
73 6 0.08
74 25 0.33
75 7 0.09
77 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.49
Consensus pattern (76 bp):
TATTATATTATATTAAAATAAAAATATGAATAAATATATTTTAATAATTAATATTTTGATTAAAA
TGATATTAAAA
Found at i:71997 original size:17 final size:18
Alignment explanation
Indices: 71975--72011 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
71965 TGAAAACATT
*
71975 TTAACTTT-TATTTTTGG
1 TTAACTTTCTATTTTGGG
71992 TTAACTTTCTATTTTGGG
1 TTAACTTTCTATTTTGGG
72010 TT
1 TT
72012 GTCTAAGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.16, C:0.08, G:0.14, T:0.62
Consensus pattern (18 bp):
TTAACTTTCTATTTTGGG
Found at i:83983 original size:22 final size:23
Alignment explanation
Indices: 83957--83999 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
83947 AAAAATTAAA
83957 AACAAA-AAAA-ACAACATAAAAT
1 AACAAATAAAATA-AACATAAAAT
83979 AACAAATAAAATAAACATAAA
1 AACAAATAAAATAAACATAAA
84000 TACAATGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 12 0.63
24 1 0.05
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (23 bp):
AACAAATAAAATAAACATAAAAT
Found at i:84000 original size:22 final size:21
Alignment explanation
Indices: 83953--84001 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
83943 AATAAAAAAT
83953 TAAA-AACAAAAAAAACAACA
1 TAAATAACAAAAAAAACAACA
83973 TAAAATAACAAATAAAATA-AACA
1 T-AAATAACAAA-AAAA-ACAACA
83996 TAAATA
1 TAAATA
84002 CAATGACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.04
21 3 0.12
22 11 0.44
23 9 0.36
24 1 0.04
ACGTcount: A:0.76, C:0.10, G:0.00, T:0.14
Consensus pattern (21 bp):
TAAATAACAAAAAAAACAACA
Found at i:84702 original size:21 final size:22
Alignment explanation
Indices: 84676--84729 Score: 101
Period size: 21 Copynumber: 2.5 Consensus size: 22
84666 CCCACTGCCG
84676 AAAAAACTCCCAAAATCGCT-A
1 AAAAAACTCCCAAAATCGCTCA
84697 AAAAAACTCCCAAAATCGCTCA
1 AAAAAACTCCCAAAATCGCTCA
84719 AAAAAACTCCC
1 AAAAAACTCCC
84730 TAAGCCCAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.52, C:0.31, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAAAACTCCCAAAATCGCTCA
Found at i:93063 original size:64 final size:64
Alignment explanation
Indices: 92994--93147 Score: 163
Period size: 64 Copynumber: 2.4 Consensus size: 64
92984 TTGAAGGTGT
* ** *
92994 ATCGATGCACATGTAGTGCATCGATGCA-CTCTTTTAA-AATAAAAAGATCGAATACA-ATTAGT
1 ATCGATGCACAAGTAGTGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATACATATTA-T
93056 GC
63 GC
* * * * *
93058 ATCGATGCATAAGGCA-TGCATCGATGCATCCCATTAATAATAAATCATCGAATGCATTTTATGC
1 ATCGATGCACAA-GTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACATATTATGC
93122 ATCGATGCACAAGTAGTGCATCGATG
1 ATCGATGCACAAGTAGTGCATCGATG
93148 TATACCTTCA
Statistics
Matches: 74, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
63 2 0.03
64 63 0.85
65 9 0.12
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (64 bp):
ATCGATGCACAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATACATATTATGC
Found at i:93893 original size:42 final size:42
Alignment explanation
Indices: 93815--93894 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
93805 CTTATCATCT
* * * *
93815 TGCTCGAAAGACTTATAGATGACTCGAAGGATTTAAGCACCA
1 TGCTCGAAAGACTTATAGATGACCCAAAAGACTTAAGCACCA
*
93857 TGCTCGAAAGACTTACT-GATGGCCCAAAAGACTTAAGC
1 TGCTCGAAAGACTTA-TAGATGACCCAAAAGACTTAAGC
93895 TAATTCAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 31 0.97
43 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
TGCTCGAAAGACTTATAGATGACCCAAAAGACTTAAGCACCA
Found at i:94126 original size:22 final size:23
Alignment explanation
Indices: 94084--94128 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
94074 TTGAGTTTTT
94084 GGGTCTTGGATTGAGGCTGGTTC
1 GGGTCTTGGATTGAGGCTGGTTC
*
94107 GGGTCTTGGCTTG-GGCTGGTTC
1 GGGTCTTGGATTGAGGCTGGTTC
94129 AGGTTTGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.04, C:0.16, G:0.44, T:0.36
Consensus pattern (23 bp):
GGGTCTTGGATTGAGGCTGGTTC
Found at i:94909 original size:21 final size:22
Alignment explanation
Indices: 94885--94930 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
94875 ACAAGAAACG
* *
94885 AAATTATG-CATGTAAGAATGT
1 AAATTATGTAATGTAAGAATGA
94906 AAA-TATGTAATGTAAGAATGA
1 AAATTATGTAATGTAAGAATGA
94927 AAAT
1 AAAT
94931 AACAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.50, C:0.02, G:0.17, T:0.30
Consensus pattern (22 bp):
AAATTATGTAATGTAAGAATGA
Found at i:95757 original size:24 final size:24
Alignment explanation
Indices: 95712--95758 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
95702 TCTATTATAA
* *
95712 TAATATATTATAATATTTTTAATT
1 TAATATATTATAAAATTATTAATT
95736 TAATATA-TATAAAAATTATTAAT
1 TAATATATTAT-AAAATTATTAAT
95759 AAATTTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAATATATTATAAAATTATTAATT
Found at i:97053 original size:2 final size:2
Alignment explanation
Indices: 97046--97070 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
97036 AACCAAAGCC
97046 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
97071 ATGAAGGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:97812 original size:151 final size:152
Alignment explanation
Indices: 97619--97916 Score: 589
Period size: 151 Copynumber: 2.0 Consensus size: 152
97609 AACTCTATGG
97619 CATTCAACTATAAGTTAAACTACATACCGTTGAGTTGCCAGGTGATGAAAAGTTTGACAAACAAC
1 CATTCAACTATAAGTTAAACTACATACCGTTGAGTTGCCAGGTGATGAAAAGTTTGACAAACAAC
97684 AGCAAATAAACAAAAAACTACACGATCTACAAACACCTTGTCGATGACCACCTGTCAAATCCTTT
66 AGCAAATAAACAAAAAACTACACGATCTACAAACACCTTGTCGATGACCACCTGTCAAATCCTTT
97749 GATAA-CAACCATATATACAGA
131 GATAACCAACCATATATACAGA
97770 CATTCAACTATAAGTTAAACTACATACCGTTGAGTTGCCAGGTGATGAAAAGTTTGACAAACAAC
1 CATTCAACTATAAGTTAAACTACATACCGTTGAGTTGCCAGGTGATGAAAAGTTTGACAAACAAC
97835 AGCAAATAAACAAAAAACTACACGATCTACAAACACCTTGTCGATGACCACCTGTCAAATCCTTT
66 AGCAAATAAACAAAAAACTACACGATCTACAAACACCTTGTCGATGACCACCTGTCAAATCCTTT
97900 GATAACCAACCATATAT
131 GATAACCAACCATATAT
97917 TAGACAGATG
Statistics
Matches: 146, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
151 135 0.92
152 11 0.08
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.23
Consensus pattern (152 bp):
CATTCAACTATAAGTTAAACTACATACCGTTGAGTTGCCAGGTGATGAAAAGTTTGACAAACAAC
AGCAAATAAACAAAAAACTACACGATCTACAAACACCTTGTCGATGACCACCTGTCAAATCCTTT
GATAACCAACCATATATACAGA
Found at i:99327 original size:30 final size:30
Alignment explanation
Indices: 99292--99351 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
99282 CAAACGAGAT
* *
99292 AAAAAGTCAACGA-TGGGTACTAAAATGAAA
1 AAAAAGTCAAC-ATTAGATACTAAAATGAAA
*
99322 AAAAAGTTAACATTAGATACTAAAATGAAA
1 AAAAAGTCAACATTAGATACTAAAATGAAA
99352 TAAAGAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.57, C:0.08, G:0.15, T:0.20
Consensus pattern (30 bp):
AAAAAGTCAACATTAGATACTAAAATGAAA
Found at i:99616 original size:25 final size:26
Alignment explanation
Indices: 99587--99640 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
99577 TGTATCTATA
* *
99587 ATTTTTCTTC-TCCATTATTTTAATT
1 ATTTTTCGTCTTCAATTATTTTAATT
*
99612 A-TTTTCGTCTTCAATTCTTTTAATT
1 ATTTTTCGTCTTCAATTATTTTAATT
99637 ATTT
1 ATTT
99641 GAACAATAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
24 7 0.29
25 15 0.62
26 2 0.08
ACGTcount: A:0.20, C:0.15, G:0.02, T:0.63
Consensus pattern (26 bp):
ATTTTTCGTCTTCAATTATTTTAATT
Found at i:102902 original size:35 final size:37
Alignment explanation
Indices: 102863--103058 Score: 114
Period size: 37 Copynumber: 5.3 Consensus size: 37
102853 AATAATAATA
102863 ATAATATATATATATAT-AAACGTTTTCAAAAAC-AT
1 ATAATATATATATATATAAAACGTTTTCAAAAACTAT
* * * * *
102898 ATAATATATAAATTTTTAAAATGTTTTTAAAAACTAT
1 ATAATATATATATATATAAAACGTTTTCAAAAACTAT
* * ** * *
102935 ATATTATATATAT-TTTCAACATGGTTTTTAAAAAATTAT
1 ATAATATATATATATAT-AA-AACG-TTTTCAAAAACTAT
* * * * * * *
102974 ATATTATATAAATGTTTTCATAATGTTTTC-AAAAGTAT
1 ATAATATATATAT-ATAT-AAAACGTTTTCAAAAACTAT
* *
103012 ATATTATATATAT-TTTAAAAACGTTTTCAAAAACTAT
1 ATAATATATATATATAT-AAAACGTTTTCAAAAACTAT
*
103049 ATATTATATA
1 ATAATATATA
103059 ATTTTCAAAA
Statistics
Matches: 131, Mismatches: 22, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
35 14 0.11
36 29 0.22
37 32 0.24
38 21 0.16
39 28 0.21
40 2 0.02
41 5 0.04
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
ATAATATATATATATATAAAACGTTTTCAAAAACTAT
Found at i:102914 original size:26 final size:27
Alignment explanation
Indices: 102868--102918 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
102858 TAATAATAAT
102868 ATATATATATATAAACGTTTTCAAAAAC
1 ATATATATATATAAACGTTTT-AAAAAC
*
102896 ATATA-ATATATAAA-TTTTTAAAA
1 ATATATATATATAAACGTTTTAAAA
102919 TGTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 4 0.18
26 4 0.18
27 9 0.41
28 5 0.23
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (27 bp):
ATATATATATATAAACGTTTTAAAAAC
Found at i:103067 original size:25 final size:25
Alignment explanation
Indices: 103035--103111 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
103025 TTTAAAAACG
*
103035 TTTTCAAAAACTATATATTATATAA
1 TTTTCAAAAAATATATATTATATAA
* * **
103060 TTTTCAAAAAATATATTTTCAAAATGG
1 TTTTCAAAAAATATATATT--ATATAA
* *
103087 TTTTTAAAAATTATATATTATATAA
1 TTTTCAAAAAATATATATTATATAA
103112 ATGTTTTCAT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
25 20 0.51
27 19 0.49
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (25 bp):
TTTTCAAAAAATATATATTATATAA
Found at i:103070 original size:38 final size:38
Alignment explanation
Indices: 102880--103271 Score: 238
Period size: 36 Copynumber: 10.1 Consensus size: 38
102870 ATATATATAT
* * *
102880 AAACGTTTTCAAAAAC-ATATAATATATAAATTTT-TA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTCAA
* *
102916 AAATGTTTTTAAAAACTATATATTATATATATTTTCAA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTCAA
* ** * * *
102954 CATGGTTTTTAAAAAATTATATATTATATAAATGTTTTC-A
1 AAACG-TTTTCAAAAACTATATATTATAT--ATATTTTCAA
* * *
102994 TAATGTTTTC-AAAAGTATATATTATATATATTTT-AA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTCAA
103030 AAACGTTTTCAAAAACTATATATTATATA-ATTTTCAAAAA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTC---AA
* * *
103070 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTC-A
1 A-A-A----C------GTTTTCAAAAACTATATATTATATATAT--TTTCAA
* *
103121 TAACGTTTTC-AAAAGTATATATTATATATATTTT--A
1 AAACGTTTTCAAAAACTATATATTATATATATTTTCAA
* *
103156 AAACGCTTTCAAAAACTATATATTATGTA-ATTTTCAA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTCAA
** * *
103193 AAATATTTT-AAAAACTATATAATATACATATTTTCAAA
1 AAACGTTTTCAAAAACTATATATTATATATATTTTC-AA
*
103231 AAATGTTTT---AAACTATATATTATATATGTATTTTCAA
1 AAACGTTTTCAAAAACTATATATTATATA--TATTTTCAA
103268 AAAC
1 AAAC
103272 AATTTGTAAA
Statistics
Matches: 283, Mismatches: 40, Indels: 65
0.73 0.10 0.17
Matches are distributed among these distances:
35 14 0.05
36 84 0.30
37 51 0.18
38 55 0.19
39 30 0.11
40 6 0.02
41 8 0.03
42 1 0.00
45 1 0.00
46 1 0.00
49 1 0.00
50 1 0.00
51 1 0.00
52 23 0.08
53 2 0.01
55 4 0.01
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (38 bp):
AAACGTTTTCAAAAACTATATATTATATATATTTTCAA
Found at i:103079 original size:15 final size:16
Alignment explanation
Indices: 103054--103083 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
103044 ACTATATATT
103054 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
103070 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
103084 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:103117 original size:127 final size:127
Alignment explanation
Indices: 102942--103195 Score: 456
Period size: 127 Copynumber: 2.0 Consensus size: 127
102932 TATATATTAT
* *
102942 ATATATTTTCAACATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAATGTTTTCAAA
1 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
*
103007 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 AGTATATATTATATATATTTT-AAAACGCTTTCAAAAACTATATATTATATAATTTTCAAAAA
103070 ATATATTTTCAAAATGGTTTTT-AAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
*
103134 AGTATATATTATATATATTTTAAAACGCTTTCAAAAACTATATATTATGTAATTTTCAAAAA
66 AGTATATATTATATATATTTTAAAACGCTTTCAAAAACTATATATTATATAATTTTCAAAAA
103196 TATTTTAAAA
Statistics
Matches: 122, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
126 39 0.32
127 62 0.51
128 21 0.17
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (127 bp):
ATATATTTTCAAAATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
AGTATATATTATATATATTTTAAAACGCTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:103179 original size:36 final size:37
Alignment explanation
Indices: 103070--103296 Score: 151
Period size: 36 Copynumber: 6.1 Consensus size: 37
103060 TTTTCAAAAA
* * * *
103070 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTAT
1 ATATATTTTCAAAA-CGATTTCAAAAACTATATATTAT
* * * *
103108 ATAAATGTTTTCATAACGTTTTC-AAAAGTATATATTAT
1 AT--ATATTTTCAAAACGATTTCAAAAACTATATATTAT
*
103146 ATATATTTT-AAAACGCTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAACGATTTCAAAAACTATATATTAT
* ** * *
103182 GTA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAACGATTTCAAAAACTATATATTAT
* * **
103218 ACATATTTTCAAAA-AATGTT-TTAAACTATATATTAT
1 ATATATTTTCAAAACGAT-TTCAAAAACTATATATTAT
* ** *
103254 ATATGTATTTTCAAAAACAATTT-GTAAACTATATAATAT
1 ATA--TATTTTC-AAAACGATTTCAAAAACTATATATTAT
103293 ATAT
1 ATAT
103297 GTGTATATAT
Statistics
Matches: 155, Mismatches: 24, Indels: 21
0.77 0.12 0.10
Matches are distributed among these distances:
35 14 0.09
36 62 0.40
37 13 0.08
38 25 0.16
39 28 0.18
40 13 0.08
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
ATATATTTTCAAAACGATTTCAAAAACTATATATTAT
Found at i:103285 original size:39 final size:37
Alignment explanation
Indices: 103172--103298 Score: 125
Period size: 39 Copynumber: 3.4 Consensus size: 37
103162 TTTCAAAAAC
* *
103172 TATATAT-TATGTAATTTTCAAAAATATTTTAAAAACTA
1 TATATATATATGT-ATTTTCAAAAA-AATTTATAAACTA
** *
103210 TATA-ATATACATATTTTC-AAAAAATGTTTTAAACTA
1 TATATATATATGTATTTTCAAAAAAAT-TTATAAACTA
*
103246 TATATTATATATGTATTTTCAAAAACAATTTGTAAACTA
1 TATA-TATATATGTATTTTCAAAAA-AATTTATAAACTA
103285 TATAATATATATGT
1 TAT-ATATATATGT
103299 GTATATATGT
Statistics
Matches: 74, Mismatches: 8, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
35 2 0.03
36 16 0.22
37 8 0.11
38 19 0.26
39 25 0.34
40 4 0.05
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATATATATGTATTTTCAAAAAAATTTATAAACTA
Found at i:104045 original size:84 final size:82
Alignment explanation
Indices: 103873--104456 Score: 622
Period size: 84 Copynumber: 7.0 Consensus size: 82
103863 GCTATGTTGT
* * * * ** *
103873 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTCTTTGG-CAGATAGCCCTTCTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTC
*
103937 GACTTAAGCTATGCTGC
66 GACTTAAGTTATGCTGC
* * * ** *
103954 AATTGATGTGCCGTTG-AGCTGAGCGTAGCCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGT--CAGATAACCCTT
* * *
104018 CTAGCCTTGAGTTATGCTGC
63 CTCGACTTAAGTTATGCTGC
* * * ** *
104038 AAATGATGTGCCCTCGAATCTGAGTGTAATCTAACTCGGGGGTCTTTGG-CAGATAGCCCTTCTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTC
* *
104102 GACTTAAGCTATACTGC
66 GACTTAAGTTATGCTGC
* * *
104119 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGG-T--CAGATAACCCTT
104183 CTCGACTTAAGTTATGCTGC
63 CTCGACTTAAGTTATGCTGC
* **
104203 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGTCACAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTC-TTTGGT--CAGATAACCCTT
* * * *
104268 CTAGCCTTGAGTTATGCTGT
63 CTCGACTTAAGTTATGCTGC
* ** *
104288 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG-CAGATAGCCCTTCTC
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTC
* *
104352 GACTTAAGCTATACTGC
66 GACTTAAGTTATGCTGC
* * *
104369 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
1 AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGG-T--CAGATAACCCTT
104433 CTCGACTTAAGTTATGCTGC
63 CTCGACTTAAGTTATGCTGC
104453 AAAT
1 AAAT
104457 AGTTTGTTTA
Statistics
Matches: 415, Mismatches: 73, Indels: 27
0.81 0.14 0.05
Matches are distributed among these distances:
80 82 0.20
81 87 0.21
84 122 0.29
85 119 0.29
86 5 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (82 bp):
AAATGATGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAAGGTCTTTGGTCAGATAACCCTTCTC
GACTTAAGTTATGCTGC
Found at i:104076 original size:165 final size:162
Alignment explanation
Indices: 103862--104456 Score: 685
Period size: 165 Copynumber: 3.6 Consensus size: 162
103852 TCTTGCCATG
* * * * *
103862 AGCTATGTTGTAAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTC-TTTGGCAGA
1 AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGCAGA
* * * *
103926 TAGCCCTTCTCGACTTAAGCTATGCTGCAATTGATGTGCCGTTGAGCTGAGCGTAGCCGAACTCA
66 TAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC-TTGAGCTGAGCGTAGTCGAACTCG
* * *
103991 AAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTG
130 AAGGTC-TTTGGT--CAGATAACCCTTCTCGACTTA
* * *
104027 AGTTATGCTGCAAATGATGTGCCCTCGAATCTGAGTGTAATCTAACTCGGGGGTC-TTTGGCAGA
1 AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGCAGA
* *
104091 TAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCG
66 TAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT-GAGCTGAGCGTAGTCGAACTCG
104156 AAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
130 AAGGTCTTTGG-T--CAGATAACCCTTCTCGACTTA
*
104192 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGTCAC
1 AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGG---C
* * * * * * * *
104257 AGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAA
63 AGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTG-AGCTGAGCGTAGTCGAA
** *
104322 CTCGGGGGTCTTTGG-CAGATAGCCCTTCTCGACTTA
126 CTCGAAGGTCTTTGGTCAGATAACCCTTCTCGACTTA
* * * * * **
104358 AGCTATACTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGC
1 AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT--TTGGC
*
104422 AGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
63 AGATAACCCTTCTCGACTTAAGCTATGCTGCAAAT
104457 AGTTTGTTTA
Statistics
Matches: 375, Mismatches: 44, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
164 7 0.02
165 251 0.67
166 46 0.12
168 4 0.01
169 36 0.10
170 31 0.08
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (162 bp):
AGCTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGCAGA
TAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGAGCTGAGCGTAGTCGAACTCGA
AGGTCTTTGGTCAGATAACCCTTCTCGACTTA
Found at i:104281 original size:250 final size:249
Alignment explanation
Indices: 103918--104456 Score: 943
Period size: 250 Copynumber: 2.2 Consensus size: 249
103908 TCGGGGGTCT
* * * * * *
103918 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAATTGATGTGCCGTTGAGCTGAGCGTAGC
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAGCTGAGCGTAAC
103983 CGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
66 CGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
* *
104048 CCCTCGAATCTGAGTGTAATCTAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
131 CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
104113 TACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
196 TACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
*
104167 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAA
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCG-AGCTGAGCGTAA
* *** *
104232 TCGAACTCGGGGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
65 CCGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
104297 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCT
104362 ATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
195 ATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
104417 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
104457 AGTTTGTTTA
Statistics
Matches: 275, Mismatches: 14, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
249 47 0.17
250 228 0.83
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.29
Consensus pattern (249 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAGCTGAGCGTAAC
CGAACTCAAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGTG
CCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTA
TACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
Found at i:107905 original size:18 final size:19
Alignment explanation
Indices: 107864--107908 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
107854 AGTTAATGTG
107864 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
107883 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
107901 AATGCAAA
1 AATGCAAA
107909 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:109648 original size:23 final size:24
Alignment explanation
Indices: 109637--109694 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
109627 TTAAATAAAT
*
109637 AAATAACAAAACAATAGAATAATA
1 AAATAAAAAAACAATAGAATAATA
*
109661 AAATAAAAAAACGAAATTGAATAAATA
1 AAATAAAAAAAC--AATAGAAT-AATA
109688 AAA-AAAA
1 AAATAAAA
109695 GGTTAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 11 0.38
26 11 0.38
27 7 0.24
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (24 bp):
AAATAAAAAAACAATAGAATAATA
Found at i:109692 original size:24 final size:22
Alignment explanation
Indices: 109622--109694 Score: 58
Period size: 24 Copynumber: 3.1 Consensus size: 22
109612 AATAATAATT
*
109622 AAACATTA-AATAAATAAATAACA
1 AAACAATAGAATAAATAAA-AA-A
*
109645 AAACAATAGAATAATAAAATAAAA
1 AAACAATAGAATAA-ATAA-AAAA
*
109669 AAACGAAATTGAATAAATAAAAAA
1 AAAC--AATAGAATAAATAAAAAA
109693 AA
1 AA
109695 GGTTAAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
23 7 0.17
24 16 0.39
25 8 0.20
26 10 0.24
ACGTcount: A:0.73, C:0.05, G:0.04, T:0.18
Consensus pattern (22 bp):
AAACAATAGAATAAATAAAAAA
Found at i:110922 original size:25 final size:27
Alignment explanation
Indices: 110878--110927 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
110868 ATAATAATAT
*
110878 ATATATATATATAACGTTTTCAAAAAC
1 ATATATATATATAACATTTTCAAAAAC
*
110905 ATATA-ATATATAA-ATTTTTAAAA
1 ATATATATATATAACATTTTCAAAA
110928 TGTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 8 0.38
27 5 0.24
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (27 bp):
ATATATATATATAACATTTTCAAAAAC
Found at i:110923 original size:26 final size:26
Alignment explanation
Indices: 110878--110927 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
110868 ATAATAATAT
*
110878 ATATATATATATAACGTTTTCAAAAAC
1 ATATATATATATAAAGTTTT-AAAAAC
*
110905 ATATA-ATATATAAATTTTTAAAA
1 ATATATATATATAAAGTTTTAAAA
110928 TGTTTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 12 0.57
27 5 0.24
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (26 bp):
ATATATATATATAAAGTTTTAAAAAC
Found at i:110953 original size:37 final size:37
Alignment explanation
Indices: 110893--111077 Score: 196
Period size: 37 Copynumber: 5.0 Consensus size: 37
110883 TATATATAAC
* * *
110893 GTTTTCAAAAAC-ATATAATATATAAATTTTTAAAAT
1 GTTTTTAAAAACTATATATTATATAAATTTTCAAAAT
* *
110929 GTTTTTAAAAACTATATATTATATATATTTTCAACAT
1 GTTTTTAAAAACTATATATTATATAAATTTTCAAAAT
* *
110966 GGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAAT
1 -GTTTTT-AAAAACTATATATTATATAAA--TTTTCAAAAT
* * * * *
111007 G-TTTTCAAAAGTATATATTATATATATTTTAAAAAC
1 GTTTTTAAAAACTATATATTATATAAATTTTCAAAAT
*
111043 GTTTTCAAAAACTATATATTATAT-AATTTTCAAAA
1 GTTTTTAAAAACTATATATTATATAAATTTTCAAAA
111078 AATATATTTT
Statistics
Matches: 123, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
36 28 0.23
37 39 0.32
38 24 0.20
39 23 0.19
40 1 0.01
41 8 0.07
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
GTTTTTAAAAACTATATATTATATAAATTTTCAAAAT
Found at i:111072 original size:36 final size:36
Alignment explanation
Indices: 110890--111265 Score: 183
Period size: 36 Copynumber: 9.8 Consensus size: 36
110880 ATATATATAT
* *
110890 AACGTTTTCAAAAAC-ATATAATATATAAATTTTTAA
1 AACGTTTTCAAAAACTATATATTATAT-AATTTTAAA
* * *
110926 AATGTTTTTAAAAACTATATATTATATATATTTTCAAC
1 AACGTTTTCAAAAACTATATATTATATA-ATTTT-AAA
** * * * *
110964 ATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCAT
1 AACG-TTTTCAAAAACTATATATTATAT-AA--TTTTAAA
* *
111004 AATGTTTTC-AAAAGTATATATTATATATATTTTAAA
1 AACGTTTTCAAAAACTATATATTATATA-ATTTTAAA
111040 AACGTTTTCAAAAACTATATATTATATAATTTTCAAAAAA
1 AACGTTTTCAAAAACTATATATTATATAATTTT----AAA
* * * *
111080 TATATTTTCAAAATGGTTTCTAAAAATTATATATTATATAAATGTTTTCAT
1 -A-A----C-----GTTTTC-AAAAACTATATATTATAT-AA--TTTTAAA
*
111131 AACGTTTTC-AAAAGTATATATTATATATATTTT-AA
1 AACGTTTTCAAAAACTATATATTATATA-ATTTTAAA
* *
111166 AACGCTTTCAAAAACTATATATTATGTAATTTTCAAA
1 AACGTTTTCAAAAACTATATATTATATAATTTT-AAA
** * *
111203 AATATTTT-AAAAACTATATAATATACATATTTTCAAAA
1 AACGTTTTCAAAAACTATATATTATATA-ATTTT--AAA
*
111241 AATGTTTT---AAACTATATATTATATA
1 AACGTTTTCAAAAACTATATATTATATA
111266 TGTATTTTCA
Statistics
Matches: 267, Mismatches: 39, Indels: 68
0.71 0.10 0.18
Matches are distributed among these distances:
35 14 0.05
36 83 0.31
37 46 0.17
38 47 0.18
39 26 0.10
40 12 0.04
41 5 0.02
42 1 0.00
45 1 0.00
46 1 0.00
49 1 0.00
50 1 0.00
51 6 0.02
52 17 0.06
53 2 0.01
55 4 0.01
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (36 bp):
AACGTTTTCAAAAACTATATATTATATAATTTTAAA
Found at i:111076 original size:25 final size:24
Alignment explanation
Indices: 111044--111120 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 24
111034 TTTAAAAACG
111044 TTTTCAAAAACTATATATTATATAA
1 TTTTCAAAAA-TATATATTATATAA
* *
111069 TTTTCAAAAA-ATATATTTTCAAAA
1 TTTTCAAAAATATATATTAT-ATAA
111093 TGGTTTCTAAAAATTATATATTATATAA
1 T--TTTC-AAAAA-TATATATTATATAA
111121 ATGTTTTCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
23 8 0.19
24 4 0.10
25 10 0.24
26 4 0.10
27 5 0.12
28 3 0.07
29 8 0.19
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (24 bp):
TTTTCAAAAATATATATTATATAA
Found at i:111088 original size:15 final size:16
Alignment explanation
Indices: 111063--111092 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
111053 ACTATATATT
111063 ATATAATTTTCAAAAA
1 ATATAATTTTCAAAAA
111079 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
111093 TGGTTTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (16 bp):
ATATAATTTTCAAAAA
Found at i:111125 original size:127 final size:127
Alignment explanation
Indices: 110951--111204 Score: 447
Period size: 127 Copynumber: 2.0 Consensus size: 127
110941 TATATATTAT
* * *
110951 ATATATTTTCAACATGGTTTTTAAAAAATTATATATTATATAAATGTTTTCATAATGTTTTCAAA
1 ATATATTTTCAAAATGGTTTCTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
*
111016 AGTATATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAA
66 AGTATATATTATATATATTTT-AAAACGCTTTCAAAAACTATATATTATATAATTTTCAAAAA
111079 ATATATTTTCAAAATGGTTTCT-AAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
1 ATATATTTTCAAAATGGTTTCTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
*
111143 AGTATATATTATATATATTTTAAAACGCTTTCAAAAACTATATATTATGTAATTTTCAAAAA
66 AGTATATATTATATATATTTTAAAACGCTTTCAAAAACTATATATTATATAATTTTCAAAAA
111205 TATTTTAAAA
Statistics
Matches: 121, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
126 39 0.32
127 62 0.51
128 20 0.17
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.44
Consensus pattern (127 bp):
ATATATTTTCAAAATGGTTTCTAAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAA
AGTATATATTATATATATTTTAAAACGCTTTCAAAAACTATATATTATATAATTTTCAAAAA
Found at i:111198 original size:35 final size:37
Alignment explanation
Indices: 111079--111305 Score: 160
Period size: 36 Copynumber: 6.1 Consensus size: 37
111069 TTTTCAAAAA
* * *
111079 ATATATTTTCAAAATGGTTTCTAAAAATTATATATTAT
1 ATATATTTTCAAAACGATTTC-AAAAACTATATATTAT
* * * *
111117 ATAAATGTTTTCATAACGTTTTC-AAAAGTATATATTAT
1 AT--ATATTTTCAAAACGATTTCAAAAACTATATATTAT
*
111155 ATATATTTT-AAAACGCTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAACGATTTCAAAAACTATATATTAT
* ** * *
111191 GTA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAACGATTTCAAAAACTATATATTAT
* * **
111227 ACATATTTTCAAAA-AATGTT-TTAAACTATATATTAT
1 ATATATTTTCAAAACGAT-TTCAAAAACTATATATTAT
* ** *
111263 ATATGTATTTTCAAAAACAATTT-GTAAACTATATAATAT
1 ATA--TATTTTC-AAAACGATTTCAAAAACTATATATTAT
111302 ATAT
1 ATAT
111306 GTGTATATAT
Statistics
Matches: 155, Mismatches: 24, Indels: 21
0.77 0.12 0.10
Matches are distributed among these distances:
35 14 0.09
36 62 0.40
37 13 0.08
38 25 0.16
39 23 0.15
40 18 0.12
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
ATATATTTTCAAAACGATTTCAAAAACTATATATTAT
Found at i:111242 original size:38 final size:36
Alignment explanation
Indices: 111177--111305 Score: 138
Period size: 38 Copynumber: 3.5 Consensus size: 36
111167 ACGCTTTCAA
* *
111177 AAACTATATATTATGTA-ATTTTC-AAAAATATTTT
1 AAACTATATAATATATATATTTTCAAAAAATATTTT
* *
111211 AAAAACTATATAATATACATATTTTCAAAAAATGTTTT
1 --AAACTATATAATATATATATTTTCAAAAAATATTTT
*
111249 AAACTATATATTATATATGTATTTTCAAAAACA-ATTTGT
1 AAACTATATA--ATATATATATTTTCAAAAA-ATATTT-T
111288 AAACTATATAATATATAT
1 AAACTATATAATATATAT
111306 GTGTATATAT
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
36 24 0.30
37 13 0.16
38 30 0.38
39 12 0.15
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (36 bp):
AAACTATATAATATATATATTTTCAAAAAATATTTT
Found at i:111303 original size:39 final size:38
Alignment explanation
Indices: 111182--111307 Score: 132
Period size: 39 Copynumber: 3.3 Consensus size: 38
111172 TTCAAAAACT
* *
111182 ATATATTATGTAATTTTCAAAAATATTTTAAAAACTATATA
1 ATATA-TATGT-ATTTTCAAAAA-AATTTATAAACTATATA
* *
111223 ATATACA--TATTTTC-AAAAAATGTTTTAAACTATATA
1 ATATATATGTATTTTCAAAAAAAT-TTATAAACTATATA
* *
111259 TTATATATGTATTTTCAAAAACAATTTGTAAACTATATA
1 ATATATATGTATTTTCAAAAA-AATTTATAAACTATATA
111298 ATATATATGT
1 ATATATATGT
111308 GTATATATGT
Statistics
Matches: 72, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
35 2 0.03
36 21 0.29
37 6 0.08
38 8 0.11
39 26 0.36
40 4 0.06
41 5 0.07
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (38 bp):
ATATATATGTATTTTCAAAAAAATTTATAAACTATATA
Found at i:112253 original size:35 final size:35
Alignment explanation
Indices: 112200--112298 Score: 94
Period size: 44 Copynumber: 2.6 Consensus size: 35
112190 CTTAGATTTG
*
112200 ATGTTGAAGC-ATT-CCAACTTATTTTATAAAACT
1 ATGTTGGAGCTATTACCAACTTATTTTATAAAACT
112233 ATGTTGGAGCTATTACCAACTTTTCCAACTTATTTTATAAAACT
1 ATGTTGGAGCTATT----A-----CCAACTTATTTTATAAAACT
112277 ATGTTGGAGCTATTACCAACTT
1 ATGTTGGAGCTATTACCAACTT
112299 TTCCAACTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
33 9 0.17
34 3 0.06
35 7 0.13
40 1 0.02
44 34 0.63
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (35 bp):
ATGTTGGAGCTATTACCAACTTATTTTATAAAACT
Found at i:112274 original size:44 final size:44
Alignment explanation
Indices: 112211--112311 Score: 202
Period size: 44 Copynumber: 2.3 Consensus size: 44
112201 TGTTGAAGCA
112211 TTCCAACTTATTTTATAAAACTATGTTGGAGCTATTACCAACTT
1 TTCCAACTTATTTTATAAAACTATGTTGGAGCTATTACCAACTT
112255 TTCCAACTTATTTTATAAAACTATGTTGGAGCTATTACCAACTT
1 TTCCAACTTATTTTATAAAACTATGTTGGAGCTATTACCAACTT
112299 TTCCAACTTATTT
1 TTCCAACTTATTT
112312 GTATTTTTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.31, C:0.19, G:0.08, T:0.43
Consensus pattern (44 bp):
TTCCAACTTATTTTATAAAACTATGTTGGAGCTATTACCAACTT
Found at i:118317 original size:3 final size:3
Alignment explanation
Indices: 118309--118414 Score: 89
Period size: 3 Copynumber: 36.0 Consensus size: 3
118299 TTTGGGCATG
* * *
118309 TAA TAA TAA T-T TAA TTAA TAA TAA TAA T-T TAA TTAA TAAA TAA -AT
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA -TAA T-AA TAA TAA
* *
118354 TAA TAA TAA TAAA TAA TAA -AA TAA TAA -AA TAA TAG TAA T-A TAT
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
118397 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
118415 ACCAAATGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
2 9 0.11
3 62 0.75
4 12 0.14
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:118375 original size:8 final size:8
Alignment explanation
Indices: 118358--118415 Score: 57
Period size: 8 Copynumber: 7.1 Consensus size: 8
118348 ATAAATTAAT
118358 AATAAT-A
1 AATAATAA
118365 AATAATAA
1 AATAATAA
118373 AATAATAA
1 AATAATAA
*
118381 AATAATAGT
1 AATAATA-A
*
118390 AAT-ATATT
1 AATAATA-A
118398 AATAATAA
1 AATAATAA
118406 TAATAATAA
1 -AATAATAA
118415 A
1 A
118416 CCAAATGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
7 6 0.14
8 24 0.55
9 14 0.32
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (8 bp):
AATAATAA
Found at i:118377 original size:30 final size:30
Alignment explanation
Indices: 118321--118408 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
118311 ATAATAATTT
*
118321 AATTAATAATAATAATTTAAT-TAATAAATA
1 AATTAATAATAATAA-TTAATAAAATAAATA
*
118351 AATTAATAATAATAAATAATAAAAT-AATA
1 AATTAATAATAATAATTAATAAAATAAATA
* *
118380 AAATAATAGTAATATATTAATAATAATAA
1 AATTAATAATAATA-ATTAATAA-AATAA
118409 TAATAAACCA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
29 20 0.41
30 25 0.51
31 3 0.06
32 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (30 bp):
AATTAATAATAATAATTAATAAAATAAATA
Found at i:118414 original size:37 final size:34
Alignment explanation
Indices: 118320--118414 Score: 104
Period size: 37 Copynumber: 2.6 Consensus size: 34
118310 AATAATAATT
*
118320 TAATTAATAATAATAATTTAATTAATAAATAAATTAA
1 TAATTAATAATAATAA--TAA-TAATAAATAAAGTAA
118357 TAA-TAATAAATAATAA-AATAATAAAATAATAGTAA
1 TAATTAAT-AATAATAATAATAAT-AAATAA-AGTAA
118392 TATATTAATAATAATAATAATAA
1 TA-ATTAATAATAATAATAATAA
118415 ACCAAATGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
33 4 0.08
34 8 0.16
35 6 0.12
36 13 0.25
37 20 0.39
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (34 bp):
TAATTAATAATAATAATAATAATAAATAAAGTAA
Found at i:120092 original size:54 final size:54
Alignment explanation
Indices: 120005--120166 Score: 236
Period size: 54 Copynumber: 3.0 Consensus size: 54
119995 ATAATTACTG
* * * *
120005 GTTCATAAAACATTTGACAACACATTTATCCTTTCTTGTGGCTTCTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGATTCTGCACAGAT
*
120059 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGT-GATTCATGCACATAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGATTC-TGCACAGAT
* * *
120113 GTTCGTAAAACATTTGACAACGCATTCATCCTTTCCTGTGGTTTTTGCACAGAT
1 GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGATTCTGCACAGAT
120167 TTTTTTCTCT
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 4 0.04
54 90 0.93
55 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (54 bp):
GTTCGTAAAACATTTGACAACACATTCATCCTTTCCTGTGGATTCTGCACAGAT
Found at i:120393 original size:18 final size:18
Alignment explanation
Indices: 120370--120407 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
120360 CATATAAAAG
*
120370 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTAGAA
*
120388 AATAAATTGATTTTAGAA
1 AATAAATTGAATTTAGAA
120406 AA
1 AA
120408 GATAAACTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.11, T:0.34
Consensus pattern (18 bp):
AATAAATTGAATTTAGAA
Found at i:132058 original size:26 final size:26
Alignment explanation
Indices: 132027--132077 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
132017 AATATATTAA
*
132027 ATTTTATAAATATATATATTT-TTTAT
1 ATTTTATAAATA-AGATATTTATTTAT
132053 ATTTTATAAATAAGATATTTATTTA
1 ATTTTATAAATAAGATATTTATTTA
132078 CTTATAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTTTATAAATAAGATATTTATTTAT
Found at i:133815 original size:3 final size:3
Alignment explanation
Indices: 133807--133888 Score: 82
Period size: 3 Copynumber: 28.0 Consensus size: 3
133797 TTTGTACCTG
* *
133807 TAA TAA TAA T-T TAA TTAT TAA TAA TAA TAA -AA -AA T-A TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
133849 TAA AAA AAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
133889 ATATAATATA
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
2 7 0.10
3 56 0.82
4 5 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:133845 original size:12 final size:12
Alignment explanation
Indices: 133830--133896 Score: 57
Period size: 12 Copynumber: 5.5 Consensus size: 12
133820 ATTATTAATA
133830 ATAATAAAAAAT
1 ATAATAAAAAAT
133842 ATAATAATAAAA-
1 ATAATAA-AAAAT
* *
133854 AAAATAATAATAT
1 ATAATAA-AAAAT
*
133867 ATAAT-AATAAT
1 ATAATAAAAAAT
*
133878 AATAATAATAAAT
1 -ATAATAAAAAAT
133891 ATAATA
1 ATAATA
133897 TAAACCAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
11 3 0.07
12 29 0.66
13 12 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAATAAAAAAT
Found at i:133845 original size:15 final size:15
Alignment explanation
Indices: 133827--133900 Score: 87
Period size: 15 Copynumber: 4.7 Consensus size: 15
133817 TTAATTATTA
133827 ATAATAATAAAAAAT
1 ATAATAATAAAAAAT
*
133842 ATAATAATAAAAAAA
1 ATAATAATAAAAAAT
133857 ATAATAATATATAATAAT
1 ATAATAATA-A-AA-AAT
*
133875 AATAATAATAATAAAT
1 -ATAATAATAAAAAAT
133891 ATAAT-ATAAA
1 ATAATAATAAA
133901 CCAAATGAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
14 4 0.08
15 28 0.55
16 4 0.08
17 3 0.06
18 3 0.06
19 9 0.18
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
ATAATAATAAAAAAT
Found at i:134740 original size:14 final size:15
Alignment explanation
Indices: 134709--134742 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
134699 GATTTAATAG
*
134709 AAAAAGTCCAATTAA
1 AAAAAATCCAATTAA
*
134724 AAAAAATCCAATCAA
1 AAAAAATCCAATTAA
134739 AAAA
1 AAAA
134743 CGTATGTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.15, G:0.03, T:0.15
Consensus pattern (15 bp):
AAAAAATCCAATTAA
Found at i:139272 original size:461 final size:461
Alignment explanation
Indices: 138131--139318 Score: 1795
Period size: 461 Copynumber: 2.6 Consensus size: 461
138121 ACAAGTAAGA
** * * ** *
138131 TAAAGCCTTTGCTCGAAGTACATTTTACAAAAAATACTGAAACAAAAAGAAATAAAACACAAACT
1 TAAAGCCTTTGCTCGAAGTACATTTTAGGAAAAATAATG-AA-AAAAGGAAATGCAATACAAACT
* * * * *
138196 TCAAAGCCAAAAACGGAGCTCTATTTTTTAACAATAGAACAGAGAAACTTGTCCTCTG--TTTAA
64 TCAAAGCCAAAAACCGAGCTCTATTTTTTAACACTAAAACAGAGAAACTTCTCCTTTGTTTTTAA
* *
138259 ACAACAAAGTACATTTTAAAATCAACCATAAAGGATAAAAGAACTAAAAGAAGAAAAATAGTAGA
129 ACAACAAAGTACACTTTAAAATCAACCATAAAGGAGAAAAGAACTAAAAGAAGAAAAATAGTAGA
* *
138324 ATAGATAGAGACTCAA-GGAAAAAAAGTGAAGGCGACAGCGTTAAGGTTTAAAGAGTGCGAAGGT
194 ATAGAT--AGACTCAAGGGAAAAAAAGTGAAGGTGACAGCGTTAAGATTTAAAGAGTGCGAAGGT
*
138388 GAGTTAAATATTTAATTTATTAGAACTTAGTATTGTTATTTCATTGGGATAGCTTATTTTTAGTC
257 GAGTTAAATATTTAATTTATTAGAACTTAGTATTGTTATTTCATTGAGATAGCTTATTTTTAGTC
*
138453 AGTGTTGTCAAGGGCACCAGGTGCACTAGAGGCGCTAAGACCTCTAAATAGCCTGAGGCATATGG
322 AGTGTTGTCAAGGGCAACAGGTGCACTAGAGGCGCTAAGACCTCTAAATAGCCTGAGGCATATGG
*
138518 AGCAAAAAAGCACGTGCCCGGTTGAAATAAGGTGCATGCATATAAAAATATTTATAATGCATGTA
387 AGCAAAAAAGCACGTGCCCGGTTGAAATAAGGTGCATACATATAAAAATATTTATAATGCATGTA
138583 GACGTAAAAT
452 GACGTAAAAT
*
138593 TAAAGCCTTTGCTCGAAGTACATTTTAGGAAAAATAATGAAAAAAGGGAAAGGCAATACAAACTT
1 TAAAGCCTTTGCTCGAAGTACATTTTAGGAAAAATAATGAAAAAA-GGAAATGCAATACAAACTT
* *
138658 CAAAGCCAAAAACCGAGCTCTATTTTTTAACGCTAAAACAGAAAAACTTCTCCTTTGTTTTTTAA
65 CAAAGCCAAAAACCGAGCTCTATTTTTTAACACTAAAACAGAGAAACTTCTCCTTTG-TTTTTAA
138723 AC-ACAAAGTACAC-TTAAAATCAACCAT-AAGGAGAAAAGAACTAAAAGAAGAAAAATAGTAGA
129 ACAACAAAGTACACTTTAAAATCAACCATAAAGGAGAAAAGAACTAAAAGAAGAAAAATAGTAGA
* *
138785 ATAGATAGACTCAAGGAAAAAAAAAGTAAAGGTGACAGCGTTAAGATTTAAAGAGGGTGCGAAGG
194 ATAGATAGACTCAAGG-GAAAAAAAGTGAAGGTGACAGCGTTAAGATTTAAAGA--GTGCGAAGG
138850 TGAGTTAAATATTTAATTTATTAGAACTTAGTATTGTTATTTCATTGAGATAGCTTA-TTTTAGT
256 TGAGTTAAATATTTAATTTATTAGAACTTAGTATTGTTATTTCATTGAGATAGCTTATTTTTAGT
* ** *
138914 CCGTGTTGTCAAGGGCAACAGGTGCACTAGAGGCGCTAAGAGTTCTATATAGCCTGAGGCATATG
321 CAGTGTTGTCAAGGGCAACAGGTGCACTAGAGGCGCTAAGACCTCTAAATAGCCTGAGGCATATG
* * *
138979 G-TCAAAAAAGCGCTTGCCCGGTTGAAATAAGGTGCATACATATAAAAATATTTATAATGCATGT
386 GAGCAAAAAAGCACGTGCCCGGTTGAAATAAGGTGCATACATATAAAAATATTTATAATGCATGT
139043 AGACGTAAAAT
451 AGACGTAAAAT
* *
139054 TAAAGTCTTTGCTCGAAGTACATTTTTGGAAAAATAATG-AAAAAGGTAAATGCAATACAAACTT
1 TAAAGCCTTTGCTCGAAGTACATTTTAGGAAAAATAATGAAAAAAGG-AAATGCAATACAAACTT
* *
139118 CAAAGCCAAAAACCGAGCTCTA-TTTTTAACACTAAAATAGAGCAACTTCTCCTTTGTTTTTAAA
65 CAAAGCCAAAAACCGAGCTCTATTTTTTAACACTAAAACAGAGAAACTTCTCCTTTGTTTTTAAA
139182 CAACAAAGTACACTTTAAAATCAACCATAAAGGAGAAAAGAACTAAAAGAAGAAAAATTAGTAGA
130 CAACAAAGTACACTTTAAAATCAACCATAAAGGAGAAAAGAACTAAAAGAAGAAAAA-TAGTAGA
* ** * * * ** *
139247 ATAGGTAGACTCAAGGGGGAAAAAGTGAAGGTGACTGAGATAACG-TTTAAAGAGAACGAAGATG
194 ATAGATAGACTCAAGGGAAAAAAAGTGAAGGTGACAGCGTTAA-GATTTAAAGAGTGCGAAGGTG
139311 AGTTAAAT
258 AGTTAAAT
139319 CTTTTAAATT
Statistics
Matches: 663, Mismatches: 49, Indels: 31
0.89 0.07 0.04
Matches are distributed among these distances:
458 9 0.01
459 67 0.10
460 62 0.09
461 302 0.46
462 141 0.21
463 75 0.11
464 7 0.01
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (461 bp):
TAAAGCCTTTGCTCGAAGTACATTTTAGGAAAAATAATGAAAAAAGGAAATGCAATACAAACTTC
AAAGCCAAAAACCGAGCTCTATTTTTTAACACTAAAACAGAGAAACTTCTCCTTTGTTTTTAAAC
AACAAAGTACACTTTAAAATCAACCATAAAGGAGAAAAGAACTAAAAGAAGAAAAATAGTAGAAT
AGATAGACTCAAGGGAAAAAAAGTGAAGGTGACAGCGTTAAGATTTAAAGAGTGCGAAGGTGAGT
TAAATATTTAATTTATTAGAACTTAGTATTGTTATTTCATTGAGATAGCTTATTTTTAGTCAGTG
TTGTCAAGGGCAACAGGTGCACTAGAGGCGCTAAGACCTCTAAATAGCCTGAGGCATATGGAGCA
AAAAAGCACGTGCCCGGTTGAAATAAGGTGCATACATATAAAAATATTTATAATGCATGTAGACG
TAAAAT
Done.