Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006638.1 Hibiscus syriacus cultivar Beakdansim tig00016349_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: 193951
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:468 original size:40 final size:42
Alignment explanation
Indices: 380--473 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
370 TCAGTAAGTT
* * * *
380 CTTCGAGCCAT-TAGTAAGTCTTTCGAGCATGATGCTTAAATC
1 CTTCGGGCCATCT-GTAAGCCTTTCGAGCAAGATGCATAAATC
* *
422 CTTCGGGTCATCTGTAAGCCTTT-GAGCAAGATG-ATAAGTC
1 CTTCGGGCCATCTGTAAGCCTTTCGAGCAAGATGCATAAATC
462 CTTCGGGCCATC
1 CTTCGGGCCATC
474 CATAAGACCT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 16 0.36
41 9 0.20
42 18 0.41
43 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (42 bp):
CTTCGGGCCATCTGTAAGCCTTTCGAGCAAGATGCATAAATC
Found at i:1126 original size:248 final size:248
Alignment explanation
Indices: 646--1245 Score: 866
Period size: 248 Copynumber: 2.4 Consensus size: 248
636 TTTCTTGATA
*
646 TGTAAATCCTTCGGGTCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGT
1 TGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGT
* *
711 AAGCCTTTCAAGCCAGATGATAAGTCCTTAGGGCCATCCGTCAAACCTTTGGGTAGGATGTTTAC
66 AAGCCTTTCAAGACAGATAATAAGTCCTTAGGGCCATCCGTCAAACCTTTGGGTAGGATGTTTAC
* ***
776 CTATGATTTTCACATGAAAATGAGAAAACGGTTTTCAAAGTTTCTCATTTAATGTTCAAGAAAAT
131 ATATGATTTTCACATGAAAATGAGAAAACAAATTTCAAAGTTTCTCATTTAATGTTCAAGAAAAT
*
841 GAAATTTTTGAAAAGTAAGAAGTTTCTTACCAGTAAATTATTTCGCACAAATT
196 GAAATTTTTGAAAAGTAAGAAGTTTCTTACCAGTAAATTATTTCCCACAAATT
*
894 TGTAAATCCTTCGGGTCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCATCTGT
1 TGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGT
** * *
959 AAGCCTTTCGCGATAGATAATAAGTCCTTAGGTCCATCCGTCAAACCTTTGGGTAGGATGTTTAC
66 AAGCCTTTCAAGACAGATAATAAGTCCTTAGGGCCATCCGTCAAACCTTTGGGTAGGATGTTTAC
*
1024 ATATGATTTTCGCAT-AAAATGAGAAAGA-AAATTTCAAAGTTTCTCATTTAATGTTCAAGAAAA
131 ATATGATTTTCACATGAAAATGAGAAA-ACAAATTTCAAAGTTTCTCATTTAATGTTCAAGAAAA
* *
1087 TGAAATTTTTGAAAAGTAAGAAGTTTTTTTACTAGTAAATTATTTCCCACAAATT
195 TGAAATTTTTGAAAAGTAAGAAG-TTTCTTACCAGTAAATTATTTCCCACAAATT
* * * * * ** * *
1142 TGTAAATCCTTTGGGTCATCTGTCAGTCTTTCGAGCCA-AATGTTTAAATCCTTATGGTCATTTA
1 TGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAG-CATGATGCTTAAATCCTTCGGGTCATCTG
* * * *
1206 TTAGTCTTTCGAG-CAAGATGAATAAGTCCTTTGGGCCATC
65 TAAGCCTTTCAAGAC-AGAT-AATAAGTCCTTAGGGCCATC
1246 TGTAAGACCT
Statistics
Matches: 315, Mismatches: 32, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
247 66 0.21
248 229 0.73
249 20 0.06
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (248 bp):
TGTAAATCCTTCGGGTCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCATCTGT
AAGCCTTTCAAGACAGATAATAAGTCCTTAGGGCCATCCGTCAAACCTTTGGGTAGGATGTTTAC
ATATGATTTTCACATGAAAATGAGAAAACAAATTTCAAAGTTTCTCATTTAATGTTCAAGAAAAT
GAAATTTTTGAAAAGTAAGAAGTTTCTTACCAGTAAATTATTTCCCACAAATT
Found at i:1201 original size:42 final size:42
Alignment explanation
Indices: 1136--1219 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
1126 TTATTTCCCA
*
1136 CAAATTTGTAAATCCTTTGGGTCATCTGTCAGTCTTTCGAGC
1 CAAATTTGTAAATCCTTTGGGTCATCTATCAGTCTTTCGAGC
* *
1178 CAAATGTT-TAAATCCTTAT-GGTCATTTATTAGTCTTTCGAGC
1 CAAAT-TTGTAAATCCTT-TGGGTCATCTATCAGTCTTTCGAGC
1220 AAGATGAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 34 0.92
43 3 0.08
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (42 bp):
CAAATTTGTAAATCCTTTGGGTCATCTATCAGTCTTTCGAGC
Found at i:1421 original size:3 final size:3
Alignment explanation
Indices: 1413--1456 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
1403 CTAATTATAT
* * *
1413 TTA TTA TTA TTA CTA TTA TTA TTA TAA TAA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1457 CAAATAATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:1467 original size:20 final size:20
Alignment explanation
Indices: 1421--1464 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1411 ATTTATTATT
*
1421 ATTACTATTATTATTATAATA
1 ATTA-TATTATTATTAAAATA
1442 ATTATATTATTATTACAAATA
1 ATTATATTATTATTA-AAATA
1463 AT
1 AT
1465 ATAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTATATTATTATTAAAATA
Found at i:12928 original size:68 final size:70
Alignment explanation
Indices: 12853--13058 Score: 212
Period size: 74 Copynumber: 2.9 Consensus size: 70
12843 TAAAATCAAA
*
12853 AAAAATATTAAAATTTCT-AAGTT-AAAATAATATCAAACTTTTAGAAATT-TTTATCAAATTTG
1 AAAAATATT-AAATTTCTGAAGTTAAAAATAATATCAAACTTTTAGAAATTGTTTAACAAATTTG
12915 AATTTT
65 AATTTT
* *
12921 AAAAATATTAAATTTTTGAAGTTAAAAATAATATCAAACTTTTAGAATTTGTTTAACAAATTTGA
1 AAAAATATTAAATTTCTGAAGTTAAAAATAATATCAAACTTTTAGAAATTGTTTAACAAATTTGA
*
12986 A---A
66 ATTTT
* *
12988 AAAAATTATTTTTTTAAAAATTTC-GAAGTTAAAAATAATATCAAACATTTAGAAAATT-TTAAA
1 AAAAA-TA-----TT--AAATTTCTGAAGTTAAAAATAATATCAAACTTTTAG-AAATTGTTTAA
13051 CAAATTTG
57 CAAATTTG
13059 GAAAAAACGG
Statistics
Matches: 118, Mismatches: 8, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
67 12 0.10
68 16 0.14
69 25 0.21
70 14 0.12
73 2 0.02
74 39 0.33
75 10 0.08
ACGTcount: A:0.49, C:0.05, G:0.06, T:0.40
Consensus pattern (70 bp):
AAAAATATTAAATTTCTGAAGTTAAAAATAATATCAAACTTTTAGAAATTGTTTAACAAATTTGA
ATTTT
Found at i:12963 original size:69 final size:69
Alignment explanation
Indices: 12853--12986 Score: 209
Period size: 69 Copynumber: 1.9 Consensus size: 69
12843 TAAAATCAAA
*
12853 AAAAATATTAAAATTTCTAAGTTAAAATAATATCAAACTTTTAGAAATT-TTTATCAAATTTGAA
1 AAAAATATTAAAATTTCTAAGTTAAAATAATATCAAACTTTTAGAAATTGTTTAACAAATTTGAA
12917 TTTT
66 TTTT
* *
12921 AAAAATATT-AAATTTTTGAAGTTAAAAATAATATCAAACTTTTAGAATTTGTTTAACAAATTTG
1 AAAAATATTAAAATTTCT-AAGTT-AAAATAATATCAAACTTTTAGAAATTGTTTAACAAATTTG
12985 AA
64 AA
12987 AAAAAATTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
67 7 0.12
68 14 0.23
69 25 0.42
70 14 0.23
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (69 bp):
AAAAATATTAAAATTTCTAAGTTAAAATAATATCAAACTTTTAGAAATTGTTTAACAAATTTGAA
TTTT
Found at i:15177 original size:32 final size:32
Alignment explanation
Indices: 15136--15205 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 32
15126 TGTTTTGGTT
* *
15136 AGATAAAAGGAGT-TAATTGTGTAAGAGATTGA
1 AGATGAAAGGAGTGT-ATTATGTAAGAGATTGA
*
15168 AGATGAAAGGAGTGTGTTATGTAAGAGATTGA
1 AGATGAAAGGAGTGTATTATGTAAGAGATTGA
15200 AGATGA
1 AGATGA
15206 TGTGCACAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 33 0.97
33 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.27
Consensus pattern (32 bp):
AGATGAAAGGAGTGTATTATGTAAGAGATTGA
Found at i:17129 original size:2 final size:2
Alignment explanation
Indices: 17122--17186 Score: 64
Period size: 2 Copynumber: 33.0 Consensus size: 2
17112 TAATTAGTAT
* * *
17122 TA TA TA TA TA TA GTA -A TA TGA TA TA -A TA TA TG TA TG GA -A TA
1 TA TA TA TA TA TA -TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA
17163 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
17187 CTATTGTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
1 3 0.06
2 46 0.87
3 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.45
Consensus pattern (2 bp):
TA
Found at i:17200 original size:35 final size:39
Alignment explanation
Indices: 17118--17200 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
17108 TAATTAATTA
*
17118 GTATTATATATATATAGTAATATGATATAATATATGTAT
1 GTATTATATATATATAGTAATATGATATAATATATATAT
* *
17157 GGAATATATATATATA-T-ATAT-ATAT-ATATACTAT-T
1 GTATTATATATATATAGTAATATGATATAATATA-TATAT
17192 GTATTATAT
1 GTATTATAT
17201 GTTTTGTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
35 13 0.34
36 6 0.16
37 4 0.11
38 1 0.03
39 14 0.37
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.47
Consensus pattern (39 bp):
GTATTATATATATATAGTAATATGATATAATATATATAT
Found at i:17263 original size:2 final size:2
Alignment explanation
Indices: 17256--17281 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17246 TGTGAGGTGC
17256 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
17282 TAACAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21758 original size:20 final size:21
Alignment explanation
Indices: 21719--21760 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21709 TTATTAAAAA
21719 TATTATTTTTTCTATCAATTT
1 TATTATTTTTTCTATCAATTT
*
21740 TATTATTTTTT-TATTAATTT
1 TATTATTTTTTCTATCAATTT
21760 T
1 T
21761 GCTATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTATTTTTTCTATCAATTT
Found at i:21766 original size:20 final size:21
Alignment explanation
Indices: 21722--21766 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
21712 TTAAAAATAT
*
21722 TATTTTTTCTATCAATTTTAT
1 TATTTTTTCTATCAATTTTAC
* *
21743 TATTTTTT-TATTAATTTTGC
1 TATTTTTTCTATCAATTTTAC
21763 TATT
1 TATT
21767 AATAAACGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (21 bp):
TATTTTTTCTATCAATTTTAC
Found at i:21825 original size:21 final size:21
Alignment explanation
Indices: 21791--21838 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
21781 CAAAAATATT
* *
21791 AAAA-AAATATTAATATTTTA
1 AAAATAAATAATAATATTGTA
21811 AAAATAAATAATAATATTGTA
1 AAAATAAATAATAATATTGTA
21832 AATAATA
1 AA-AATA
21839 TTTTATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 16 0.67
22 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATAAATAATAATATTGTA
Found at i:40994 original size:26 final size:26
Alignment explanation
Indices: 40964--41027 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
40954 ATAATGGTTA
40964 TGAATCATTCAGAATGTATTTAATGC
1 TGAATCATTCAGAATGTATTTAATGC
40990 TGAATCATTCAGAATGTATTTAATGC
1 TGAATCATTCAGAATGTATTTAATGC
*
41016 TGAATTATTCAG
1 TGAATCATTCAG
41028 CAGTATTGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (26 bp):
TGAATCATTCAGAATGTATTTAATGC
Found at i:47050 original size:21 final size:20
Alignment explanation
Indices: 47026--47100 Score: 62
Period size: 20 Copynumber: 3.5 Consensus size: 20
47016 CCATGGGAGT
*
47026 ATCGATTCCCCTACAGGGGGA
1 ATCGATTCCCTTA-AGGGGGA
*
47047 ATCGGTTCCCATTCAAAGGGGGA
1 ATCGATTCCC-TT--AAGGGGGA
* *
47070 ATC-AGTTCCCTTATGGGGGT
1 ATCGA-TTCCCTTAAGGGGGA
47090 ATCGATTCCCT
1 ATCGATTCCCT
47101 CTGCACCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
20 15 0.34
21 10 0.23
22 3 0.07
23 15 0.34
24 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (20 bp):
ATCGATTCCCTTAAGGGGGA
Found at i:54715 original size:28 final size:29
Alignment explanation
Indices: 54656--54723 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
54646 AAAATGAAAC
*
54656 AAAAATTAAACGTCATATGTGATTTTGAA
1 AAAAATTAAACGTCAGATGTGATTTTGAA
54685 AAAAATTAAACGTCAGATGTGATTTTGAA
1 AAAAATTAAACGTCAGATGTGATTTTGAA
54714 AAAAATTAAA
1 AAAAATTAAA
54724 AGTTTAACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.50, C:0.06, G:0.13, T:0.31
Consensus pattern (29 bp):
AAAAATTAAACGTCAGATGTGATTTTGAA
Found at i:55038 original size:21 final size:21
Alignment explanation
Indices: 55014--55116 Score: 82
Period size: 21 Copynumber: 4.9 Consensus size: 21
55004 CAGTTCCCAG
*
55014 AATCGCAACGCGATTTTAGAA
1 AATCGCAACGCGATTTTACAA
* **
55035 AATCGCAATGCGATAGTACAA
1 AATCGCAACGCGATTTTACAA
* ** * *
55056 ATTCGCATTGCGATTTTCCAG
1 AATCGCAACGCGATTTTACAA
* * *
55077 AATCGCAACGCGAATAT-GAA
1 AATCGCAACGCGATTTTACAA
55097 AATCGCAACGCGATTCTTAC
1 AATCGCAACGCGATT-TTAC
55117 TATCGCAACG
Statistics
Matches: 60, Mismatches: 20, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
20 15 0.25
21 45 0.75
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.24
Consensus pattern (21 bp):
AATCGCAACGCGATTTTACAA
Found at i:55143 original size:62 final size:60
Alignment explanation
Indices: 55077--55295 Score: 163
Period size: 62 Copynumber: 3.6 Consensus size: 60
55067 GATTTTCCAG
* * * **
55077 AATCGCAACGCGAATATGAAAATCGCAACGCGATTCTTACTATCGCAACGAGTATCCGTAAA
1 AATCGCAACGCGAATACGAAAATCGCAACGCGATACATAAAATCGCAACGAGTATCCGT--A
* * * * *
55139 AATCGCAACGCGTATCCGTAAATCGCAACGACAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAAAATCGCAACG-CGATACATAAAATCGCAACGAGTATCCGTA
* * * * ** * *
55200 AATCGCAACGAC-AATACGTAAAATCGTAACGCGTATCCGT-AAATCGCAATGACAATACATAA
1 AATCGCAACG-CGAATACG-AAAATCGCAACGCG-ATACATAAAATCGCAACGAGTATCCGT-A
* * * *
55262 AATCGCAATGCGTATCCGTAAATCGCAACGCGAT
1 AATCGCAACGCGAATACGAAAATCGCAACGCGAT
55296 TTTTAAAGCG
Statistics
Matches: 123, Mismatches: 28, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
60 2 0.02
61 43 0.35
62 55 0.45
63 23 0.19
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGAATACGAAAATCGCAACGCGATACATAAAATCGCAACGAGTATCCGTA
Found at i:55163 original size:20 final size:20
Alignment explanation
Indices: 55077--55293 Score: 154
Period size: 20 Copynumber: 10.6 Consensus size: 20
55067 GATTTTCCAG
* ** *
55077 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
55097 AATCGCAACGCG-ATTCTTA
1 AATCGCAACGCGTATCCGTA
* *
55116 CTATCGCAACGAGTATCCGTAAA
1 -AATCGCAACGCGTATCCGT--A
55139 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * *
55159 AATCGCAACGAC-AATACATAA
1 AATCGCAACG-CGTATCCGT-A
55180 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
55200 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
*
55221 AATCGTAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* * * *
55241 AATCGCAATGAC-AATACATAA
1 AATCGCAACG-CGTATCCGT-A
*
55262 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
55282 AATCGCAACGCG
1 AATCGCAACGCG
55294 ATTTTTAAAG
Statistics
Matches: 154, Mismatches: 30, Indels: 26
0.73 0.14 0.12
Matches are distributed among these distances:
19 3 0.02
20 81 0.53
21 52 0.34
22 17 0.11
23 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:55192 original size:41 final size:41
Alignment explanation
Indices: 55137--55291 Score: 274
Period size: 41 Copynumber: 3.8 Consensus size: 41
55127 AGTATCCGTA
55137 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACAT
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACAT
*
55178 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACAT
* *
55219 AAAATCGTAACGCGTATCCGTAAATCGCAATGACAATACAT
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACAT
*
55260 AAAATCGCAATGCGTATCCGTAAATCGCAACG
1 AAAATCGCAACGCGTATCCGTAAATCGCAACG
55292 CGATTTTTAA
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 107 1.00
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.19
Consensus pattern (41 bp):
AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACAT
Found at i:55239 original size:82 final size:83
Alignment explanation
Indices: 55095--55291 Score: 290
Period size: 82 Copynumber: 2.4 Consensus size: 83
55085 CGCGAATATG
* * * ** *
55095 AAAATCGCAACGCG-ATTCTTACTATCGCAACGAGTATCCGTAAAAATCGCAACGCGTATCCGTA
1 AAAATCGCAACGCGTATCCGTA-AATCGCAACGACAATACGTAAAAATCGCAACGCGTATCCGTA
55159 AATCGCAACGACAATACAT
65 AATCGCAACGACAATACAT
*
55178 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGT-AAAATCGTAACGCGTATCCGTAA
1 AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAAATCGCAACGCGTATCCGTAA
*
55242 ATCGCAATGACAATACAT
66 ATCGCAACGACAATACAT
*
55260 AAAATCGCAATGCGTATCCGTAAATCGCAACG
1 AAAATCGCAACGCGTATCCGTAAATCGCAACG
55292 CGATTTTTAA
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
82 70 0.67
83 29 0.28
84 5 0.05
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (83 bp):
AAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACGTAAAAATCGCAACGCGTATCCGTAA
ATCGCAACGACAATACAT
Found at i:56104 original size:20 final size:19
Alignment explanation
Indices: 56079--56309 Score: 228
Period size: 20 Copynumber: 11.5 Consensus size: 19
56069 ACGCCACGTA
*
56079 AAATCGCAACGCGTATCCGT
1 AAATCGCAACG-ATATCCGT
* * *
56099 AAATCGCAATGACAATACGT
1 AAATCGCAACGA-TATCCGT
*
56119 AAAATCGCAACGTGTATCCGT
1 -AAATCGCAACG-ATATCCGT
56140 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAT-ATCCGT
* *
56160 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGA-TATCCGT
*
56180 AAATCGCAACGATAATCTGT
1 AAATCGCAACGAT-ATCCGT
56200 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAT-ATCCGT
* * *
56220 AAATCACAACGAGAATCTGT
1 AAATCGCAACGA-TATCCGT
*
56240 AAATCGCAACGATAATCTGT
1 AAATCGCAACGAT-ATCCGT
56260 AAATCGCAACGATAATCCGT
1 AAATCGCAACGAT-ATCCGT
* *
56280 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGA-TATCCGT
56300 AAATCGCAAC
1 AAATCGCAAC
56310 ACTGAAATTT
Statistics
Matches: 181, Mismatches: 21, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.01
20 165 0.91
21 15 0.08
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (19 bp):
AAATCGCAACGATATCCGT
Found at i:56182 original size:40 final size:40
Alignment explanation
Indices: 56079--56309 Score: 309
Period size: 40 Copynumber: 5.8 Consensus size: 40
56069 ACGCCACGTA
* * * * *
56079 AAATCGCAACGCGTATCCGTAAATCGCAATGACAATACGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
56119 AAAATCGCAACGTGTATCCGTAAATCGCAACGATAATCCGT
1 -AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
56160 AAATCGCAACGAGAATCTGTAAATCGCAACGATAATCTGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* * * *
56200 AAATCGCAACGATAATCCGTAAATCACAACGAGAATCTGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
56240 AAATCGCAACGATAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
*
56280 AAATCGCAACGAGAATCTGTAAATCGCAAC
1 AAATCGCAACGAGAATCCGTAAATCGCAAC
56310 ACTGAAATTT
Statistics
Matches: 173, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
40 137 0.79
41 36 0.21
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (40 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:56211 original size:60 final size:60
Alignment explanation
Indices: 56079--56309 Score: 351
Period size: 60 Copynumber: 3.8 Consensus size: 60
56069 ACGCCACGTA
* * * * *
56079 AAATCGCAACGCGT-ATCCGTAAATCGCAATGACAATAC-GTAAAATCGCAACG-TGTATCCGT
1 AAATCGCAACG-ATAATCCGTAAATCGCAACGAGAAT-CTGT-AAATCGCAACGAT-AATCTGT
56140 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCTGT
1 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCTGT
*
56200 AAATCGCAACGATAATCCGTAAATCACAACGAGAATCTGTAAATCGCAACGATAATCTGT
1 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCTGT
56260 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAAC
1 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAAC
56310 ACTGAAATTT
Statistics
Matches: 160, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
60 126 0.79
61 34 0.21
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.21
Consensus pattern (60 bp):
AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCTGT
Found at i:57026 original size:24 final size:24
Alignment explanation
Indices: 56999--57052 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
56989 GTATTCGAAA
*
56999 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
57023 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
57047 TTTGAT
1 TTTGAT
57053 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:57244 original size:12 final size:12
Alignment explanation
Indices: 57227--57251 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57217 ATATAATCCT
57227 GAAGAAGAAAAA
1 GAAGAAGAAAAA
57239 GAAGAAGAAAAA
1 GAAGAAGAAAAA
57251 G
1 G
57252 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:59609 original size:33 final size:33
Alignment explanation
Indices: 59553--59686 Score: 108
Period size: 33 Copynumber: 3.8 Consensus size: 33
59543 CTTAATGACT
* * * *
59553 ATCGCAACGCGGAAATTACAATCGTAACGA-GAGA
1 ATCGCAACGC-GAAATGAAAATCGCAAC-ATGAAA
*
59587 ATCGCAATGCGAAATGAAAATCGCAACATGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACATGAAA
*
59620 ATCGCAACGCGAATATGAAAATCGCATCGTGGAAATGAAA
1 ATCGCAACGCGAA-ATGAAAATCGCA------ACATGAAA
*
59660 ATCGCAATGCGGAAATGAAAATCGCAA
1 ATCGCAACGC-GAAATGAAAATCGCAA
59687 TGCGAAATGA
Statistics
Matches: 83, Mismatches: 8, Indels: 18
0.76 0.07 0.17
Matches are distributed among these distances:
32 1 0.01
33 29 0.35
34 22 0.27
40 28 0.34
41 3 0.04
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACATGAAA
Found at i:59610 original size:19 final size:19
Alignment explanation
Indices: 59586--59767 Score: 170
Period size: 20 Copynumber: 9.7 Consensus size: 19
59576 GTAACGAGAG
59586 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
59605 AATCGCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
59619 AATCGCAACGCGAATATGAA
1 AATCGCAATGCGAA-ATGAA
*
59639 AATCGC-ATCGTGGAAATGAA
1 AATCGCAAT-G-CGAAATGAA
59659 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
59679 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
59698 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
59712 AATCGCAATGCGAAATGAAA
1 AATCGCAATGCGAAATG-AA
59732 ATCGCATCGCAATGCGAAATGAA
1 A----ATCGCAATGCGAAATGAA
*
59755 AATCGCATTGCGA
1 AATCGCAATGCGA
59768 TTCTCTCGTT
Statistics
Matches: 137, Mismatches: 6, Indels: 40
0.75 0.03 0.22
Matches are distributed among these distances:
14 23 0.17
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 37 0.27
20 45 0.33
21 5 0.04
23 3 0.02
24 16 0.12
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:59619 original size:14 final size:14
Alignment explanation
Indices: 59600--59627 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
59590 GCAATGCGAA
59600 ATGAAAATCGCAAC
1 ATGAAAATCGCAAC
59614 ATGAAAATCGCAAC
1 ATGAAAATCGCAAC
59628 GCGAATATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.21, G:0.14, T:0.14
Consensus pattern (14 bp):
ATGAAAATCGCAAC
Found at i:59678 original size:40 final size:39
Alignment explanation
Indices: 59586--59737 Score: 143
Period size: 33 Copynumber: 4.2 Consensus size: 39
59576 GTAACGAGAG
*
59586 AATCGCAATGCGAA-ATGAAAATCGCAA--C---ATGAA
1 AATCGCAACGCGAATATGAAAATCGCAATGCGAAATGAA
*
59619 AATCGCAACGCGAATATGAAAATCGC-ATCGTGGAAATGAA
1 AATCGCAACGCGAATATGAAAATCGCAAT-G-CGAAATGAA
*
59659 AATCGCAATGCGGAA-ATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGC-GAATATGAAAATCGCAATGCGAAATGAA
*
59698 AATCGCAA--CG---A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACGCGAATATGAAAATCGCAATGCGAAATGAA
59731 AATCGCA
1 AATCGCA
59738 TCGCAATGCG
Statistics
Matches: 104, Mismatches: 5, Indels: 20
0.81 0.04 0.16
Matches are distributed among these distances:
33 42 0.40
34 12 0.12
36 1 0.01
37 1 0.01
39 16 0.15
40 27 0.26
41 5 0.05
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (39 bp):
AATCGCAACGCGAATATGAAAATCGCAATGCGAAATGAA
Found at i:59740 original size:24 final size:24
Alignment explanation
Indices: 59713--59762 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
59703 CAACGAGAGA
59713 ATCGCAATGCGAAATGAAAATCGC
1 ATCGCAATGCGAAATGAAAATCGC
59737 ATCGCAATGCGAAATGAAAATCGC
1 ATCGCAATGCGAAATGAAAATCGC
59761 AT
1 AT
59763 TGCGATTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (24 bp):
ATCGCAATGCGAAATGAAAATCGC
Found at i:59816 original size:20 final size:19
Alignment explanation
Indices: 59776--59907 Score: 122
Period size: 19 Copynumber: 7.4 Consensus size: 19
59766 GATTCTCTCG
59776 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
59795 TTGTGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
59815 TTACGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
59834 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
* *
59848 TTGTGATTTTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
*
59868 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
59882 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
59901 TTGCGAT
1 TTGCGAT
59908 AGTCATTTTT
Statistics
Matches: 91, Mismatches: 10, Indels: 24
0.73 0.08 0.19
Matches are distributed among these distances:
14 11 0.12
16 12 0.13
17 11 0.12
18 5 0.05
19 30 0.33
20 22 0.24
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:59877 original size:34 final size:33
Alignment explanation
Indices: 59757--59907 Score: 194
Period size: 33 Copynumber: 4.4 Consensus size: 33
59747 GAAATGAAAA
59757 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* * *
59790 TCGCATTGTGATTTTCATTTCCGCATTACGATTTTCATT
1 TCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATT
*
59829 TCGCATTGCGATTCTCTCGTTGTGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
59862 TCCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
59896 TCGCATTGCGAT
1 TCGCATTGCGAT
59908 AGTCATTTTT
Statistics
Matches: 101, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
33 33 0.33
34 31 0.31
35 5 0.05
36 4 0.04
37 5 0.05
39 23 0.23
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:59915 original size:53 final size:53
Alignment explanation
Indices: 59758--59903 Score: 181
Period size: 53 Copynumber: 2.8 Consensus size: 53
59748 AAATGAAAAT
59758 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGTGATTTTCATTTC
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGTGATTTTCATTTC
* * * * * *
59811 CGCATTACGATT-T-TCATTTCGCA-TTGCGATTCTCTCGTTGTGATTTTCATTTC
1 CGCATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCATTGTGATTTTCATTTC
*
59864 CGCGTTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
1 CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTG
59904 CGATAGTCAT
Statistics
Matches: 74, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
51 9 0.12
52 5 0.07
53 46 0.62
54 5 0.07
55 9 0.12
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (53 bp):
CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGTGATTTTCATTTC
Found at i:60033 original size:14 final size:14
Alignment explanation
Indices: 60014--60050 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
60004 CATCAATTAA
60014 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
60028 ACAAATCATCTTTT
1 ACAAATCAACTTTT
60042 ACAAATCAA
1 ACAAATCAA
60051 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:60116 original size:84 final size:84
Alignment explanation
Indices: 60017--60192 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
60007 CAATTAAACA
***
60017 AATCAACTTTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAATTCTT
1 AATCAACTTTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAAGAATT
60082 ATTTCCTCATCTACTATTG
66 ATTTCCTCATCTACTATTG
60101 AATCAACTTTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAAGAATT
1 AATCAACTTTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAAGAATT
60166 ATTTCCTCATCTACTATTG
66 ATTTCCTCATCTACTATTG
60185 AATCAACT
1 AATCAACT
60193 ATTGCAGCCA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.34
Consensus pattern (84 bp):
AATCAACTTTTACAAATCATCTTTTACAAATCAATTAAACAATCAAAAAATAAGCAATAAGAATT
ATTTCCTCATCTACTATTG
Found at i:60124 original size:14 final size:14
Alignment explanation
Indices: 60101--60134 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
60091 TCTACTATTG
60101 AATCAACTTTTACA
1 AATCAACTTTTACA
*
60115 AATCATCTTTTACA
1 AATCAACTTTTACA
60129 AATCAA
1 AATCAA
60135 TTAAACAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (14 bp):
AATCAACTTTTACA
Found at i:61516 original size:21 final size:21
Alignment explanation
Indices: 61486--61546 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
61476 GTGAATCGGG
61486 CTCTTGAATGGTGGGAGGGAC
1 CTCTTGAATGGTGGGAGGGAC
* * ** * *
61507 CTCTTCAATGATGACAGTGTC
1 CTCTTGAATGGTGGGAGGGAC
61528 CTCTTGAATGGTGGGAGGG
1 CTCTTGAATGGTGGGAGGG
61547 GACTCTCGAG
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.16, G:0.36, T:0.28
Consensus pattern (21 bp):
CTCTTGAATGGTGGGAGGGAC
Found at i:61573 original size:42 final size:42
Alignment explanation
Indices: 61486--61574 Score: 101
Period size: 42 Copynumber: 2.1 Consensus size: 42
61476 GTGAATCGGG
* * *
61486 CTCTTGAATGGTGGGAGGGACCTCTTCAATGATGACAGTGTC
1 CTCTTGAATGGTGGGAGGGACCTCTTCAAGGATGACAGGGGC
* *
61528 CTCTTGAATGGTGGGAGGGGA-CTC-TCGAGGAATGATAGGGGC
1 CTCTTGAATGGTGGGA-GGGACCTCTTCAAGG-ATGACAGGGGC
61570 CTCTT
1 CTCTT
61575 CAACGATAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 4 0.10
42 32 0.80
43 4 0.10
ACGTcount: A:0.20, C:0.18, G:0.35, T:0.27
Consensus pattern (42 bp):
CTCTTGAATGGTGGGAGGGACCTCTTCAAGGATGACAGGGGC
Found at i:62102 original size:19 final size:19
Alignment explanation
Indices: 62047--62123 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 19
62037 GACTATCGCA
*
62047 CAACGCGAAATGAAAATCG
1 CAACGAGAAATGAAAATCG
*
62066 CAACGAG--A-G--AATCA
1 CAACGAGAAATGAAAATCG
62080 CAACGAGAAATGAAAATCG
1 CAACGAGAAATGAAAATCG
*
62099 CAACGCGAAATGAAAATCG
1 CAACGAGAAATGAAAATCG
62118 CAACGA
1 CAACGA
62124 CAAAATCGCA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
14 11 0.23
16 2 0.04
17 2 0.04
19 33 0.69
ACGTcount: A:0.49, C:0.21, G:0.21, T:0.09
Consensus pattern (19 bp):
CAACGAGAAATGAAAATCG
Found at i:62110 original size:52 final size:52
Alignment explanation
Indices: 62047--62158 Score: 170
Period size: 52 Copynumber: 2.2 Consensus size: 52
62037 GACTATCGCA
* * **
62047 CAACGCGAAATGAAAATCGCAACGAGAGAATCACAACGAGAAATGAAAATCG
1 CAACGCGAAATGAAAATCGCAACGACAAAATCACAACGAGAAACCAAAATCG
* *
62099 CAACGCGAAATGAAAATCGCAACGACAAAATCGCAACGTGAAACCAAAATCG
1 CAACGCGAAATGAAAATCGCAACGACAAAATCACAACGAGAAACCAAAATCG
62151 CAACGCGA
1 CAACGCGA
62159 TTATAGTTTC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.48, C:0.23, G:0.20, T:0.09
Consensus pattern (52 bp):
CAACGCGAAATGAAAATCGCAACGACAAAATCACAACGAGAAACCAAAATCG
Found at i:62129 original size:33 final size:33
Alignment explanation
Indices: 62092--62155 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
62082 ACGAGAAATG
**
62092 AAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACCAAAATCGCAACGAC
*
62125 AAAATCGCAACGTGAAACCAAAATCGCAACG
1 AAAATCGCAACGCGAAACCAAAATCGCAACG
62156 CGATTATAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.48, C:0.25, G:0.17, T:0.09
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:62148 original size:19 final size:17
Alignment explanation
Indices: 62092--62155 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 17
62082 ACGAGAAATG
*
62092 AAAATCGCAACGCGAAATG
1 AAAATCGCAACG-GAAA-C
62111 AAAATCGCAAC-G--AC
1 AAAATCGCAACGGAAAC
62125 AAAATCGCAACGTGAAACC
1 AAAATCGCAACG-GAAA-C
62144 AAAATCGCAACG
1 AAAATCGCAACG
62156 CGATTATAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
14 11 0.28
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 24 0.62
ACGTcount: A:0.48, C:0.25, G:0.17, T:0.09
Consensus pattern (17 bp):
AAAATCGCAACGGAAAC
Found at i:62177 original size:19 final size:19
Alignment explanation
Indices: 62155--62198 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
62145 AAATCGCAAC
62155 GCGATTATAGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
* *
62174 GCGATTTTGGTTTCGCGTT
1 GCGATTATAGTTTCGCGTT
62193 GCGATT
1 GCGATT
62199 TTGTCGTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.30, T:0.43
Consensus pattern (19 bp):
GCGATTATAGTTTCGCGTT
Found at i:62199 original size:19 final size:18
Alignment explanation
Indices: 62164--62231 Score: 81
Period size: 19 Copynumber: 3.9 Consensus size: 18
62154 CGCGATTATA
62164 GTTTCGCGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
62182 GGTTTCGCGTTGCGATTTT
1 -GTTTCGCGTTGCGATTTT
62201 G--T--CGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
*
62215 CATTTCGCGTTGCGATT
1 -GTTTCGCGTTGCGATT
62232 CTATCGTTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
14 12 0.28
16 1 0.02
17 1 0.02
18 1 0.02
19 28 0.65
ACGTcount: A:0.07, C:0.18, G:0.28, T:0.47
Consensus pattern (18 bp):
GTTTCGCGTTGCGATTTT
Found at i:62212 original size:33 final size:33
Alignment explanation
Indices: 62170--62295 Score: 189
Period size: 33 Copynumber: 3.8 Consensus size: 33
62160 TATAGTTTCG
** * *
62170 CGTTGCGATTTTGGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
62203 CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
* * *
62236 CGTTGCGATTTTCATTTCTCGTTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
62269 CGTTGCGATTTTCATTTCGCGTTGCGA
1 CGTTGCGATTTTCATTTCGCGTTGCGA
62296 GAGTCATTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 84 1.00
ACGTcount: A:0.10, C:0.20, G:0.24, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTAT
Found at i:62259 original size:19 final size:19
Alignment explanation
Indices: 62202--62295 Score: 82
Period size: 19 Copynumber: 5.5 Consensus size: 19
62192 TGCGATTTTG
62202 TCGTTGCGATTTTCATTTC
1 TCGTTGCGATTTTCATTTC
* *
62221 GCGTTGCGA--TTC---TA
1 TCGTTGCGATTTTCATTTC
62235 TCGTTGCGATTTTCATTTC
1 TCGTTGCGATTTTCATTTC
*
62254 TCGTTGTGA--TTC---TC
1 TCGTTGCGATTTTCATTTC
62268 TCGTTGCGATTTTCATTTC
1 TCGTTGCGATTTTCATTTC
*
62287 GCGTTGCGA
1 TCGTTGCGA
62296 GAGTCATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
14 19 0.33
16 6 0.10
17 6 0.10
19 27 0.47
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (19 bp):
TCGTTGCGATTTTCATTTC
Found at i:62271 original size:14 final size:14
Alignment explanation
Indices: 62222--62278 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
62212 TTTCATTTCG
*
62222 CGTTGCGATTCTAT
1 CGTTGCGATTCTCT
62236 CGTTGCGATTTTCATTTCT
1 CGTTGCGA--TTC---TCT
*
62255 CGTTGTGATTCTCT
1 CGTTGCGATTCTCT
62269 CGTTGCGATT
1 CGTTGCGATT
62279 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:62645 original size:94 final size:93
Alignment explanation
Indices: 62384--62668 Score: 464
Period size: 94 Copynumber: 3.1 Consensus size: 93
62374 ATGGATTGCA
* *
62384 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCAGAGTATTAAAGAATACACAGTT
1 TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
* * * *
62449 TAGCAGAATTGACAACAACCAAACAAAT
66 TAGCAGAATTGGCAGCAACCGAATAAAT
*
62477 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACT-ATTTCACAGTGTTAAAGAATACACAGT
1 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
62541 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
* *
62570 TTACTTCAACCAAAAGACAAAACAAAAGACAAATATTAACTTCACAGTGTTAAAGAATAAACAGT
1 TTACTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
62635 TTAGCAGAATTGGCAGCAACCGAATAAAT
65 TTAGCAGAATTGGCAGCAACCGAATAAAT
62664 TTACT
1 TTACT
62669 AAGCAATCTA
Statistics
Matches: 179, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
92 19 0.11
93 69 0.39
94 91 0.51
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (93 bp):
TTACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAATAAAT
Found at i:64397 original size:20 final size:20
Alignment explanation
Indices: 64367--64497 Score: 129
Period size: 20 Copynumber: 7.0 Consensus size: 20
64357 TTTTGGTTGA
*
64367 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGCGAG
**
64387 AATGACTATCGCAACGCG-G
1 AATGAAAATCGCAACGCGAG
*
64406 AAATGAAAATTGCAACGCG-G
1 -AATGAAAATCGCAACGCGAG
64426 AAATGAAAATCGCAACGCGA-
1 -AATGAAAATCGCAACGCGAG
64446 AATGAAAATCGCAA--CGAG
1 AATGAAAATCGCAACGCGAG
64464 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGCGAG
*
64479 AATGAAAATCGCAATGCGA
1 AATGAAAATCGCAACGCGA
64498 TTTTGGTTTC
Statistics
Matches: 94, Mismatches: 8, Indels: 19
0.78 0.07 0.16
Matches are distributed among these distances:
14 8 0.09
16 5 0.05
17 5 0.05
19 27 0.29
20 49 0.52
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGCGAG
Found at i:64409 original size:40 final size:39
Alignment explanation
Indices: 64365--64492 Score: 153
Period size: 40 Copynumber: 3.4 Consensus size: 39
64355 TCTTTTGGTT
**
64365 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
* *
64404 GGAAATGAAAATTGCAACGCG-GAAATGAAAATCGCAACGC
1 -GAAATGAAAATCGCAACGAGAG-AATGAAAATCGCAACGC
64444 GAAATGAAAATCGCAAC--GAG-A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
64477 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
64493 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
33 27 0.33
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 17 0.21
40 33 0.41
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (39 bp):
GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
Found at i:64475 original size:33 final size:34
Alignment explanation
Indices: 64365--64492 Score: 132
Period size: 33 Copynumber: 3.5 Consensus size: 34
64355 TCTTTTGGTT
64365 GAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACG-GAG-A-GA--ATCGCAACGC
* *
64404 GGAAATGAAAATTGCAACGCGGAAATGAAAATCGCAACGC
1 -GAAATGAAAATCGCAA--CGG--A-GAGAATCGCAACGC
64444 GAAATGAAAATCGCAAC-GAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGGAGAGAATCGCAACGC
64477 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
64493 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
33 29 0.37
34 1 0.01
36 1 0.01
37 1 0.01
39 15 0.19
40 25 0.32
41 1 0.01
42 3 0.04
43 2 0.03
44 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (34 bp):
GAAATGAAAATCGCAACGGAGAGAATCGCAACGC
Found at i:64773 original size:33 final size:31
Alignment explanation
Indices: 64727--64788 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
64717 AAATTACCAG
* * *
64727 TAAACTAATCAAAAGTTTCAATATGAAAAACC
1 TAAAATAATCAAAAATTTCAAAAT-AAAAACC
64759 TAAAATAATGCAAAAATTTCAAAATAAAAA
1 TAAAATAAT-CAAAAATTTCAAAATAAAAA
64789 TAATTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.60, C:0.11, G:0.05, T:0.24
Consensus pattern (31 bp):
TAAAATAATCAAAAATTTCAAAATAAAAACC
Found at i:65132 original size:20 final size:20
Alignment explanation
Indices: 65094--65229 Score: 116
Period size: 20 Copynumber: 6.7 Consensus size: 20
65084 TTAAAAATCG
*
65094 CGTTGCGATTTTTCGTATTGT
1 CGTTGCGA-TTTACGTATTGT
* *
65115 CGTTGCGATTAACGTATTCT
1 CGTTGCGATTTACGTATTGT
* * *
65135 CGTTGCGA-TAATCAGAATCG-
1 CGTTGCGATTTA-C-GTATTGT
*
65155 CGTTGCGATTTACGTATTCT
1 CGTTGCGATTTACGTATTGT
* *
65175 CGTTGCGATTTACGGATACG-
1 CGTTGCGATTTACGTAT-TGT
*
65195 CGTTGCGATTTTACGTATTAT
1 CGTTGCGA-TTTACGTATTGT
65216 CGTTGCGATTTACG
1 CGTTGCGATTTACG
65230 GATACGCGTT
Statistics
Matches: 92, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
19 6 0.07
20 57 0.62
21 29 0.32
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTACGTATTGT
Found at i:65163 original size:40 final size:40
Alignment explanation
Indices: 65115--65307 Score: 160
Period size: 40 Copynumber: 4.8 Consensus size: 40
65105 TTCGTATTGT
*
65115 CGTTGCGATTAACGTATTCTCGTTGCGATAATCA-GAAT-CG
1 CGTTGCGATTTACGTATTCTCGTTGCGAT--TCACGAATACG
* *
65155 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTCACGAATACG
* * *
65195 CGTTGCGATTTTACGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGA-TTTACGTATTCTCGTTGCGATTCACGAATACG
* ** * *
65236 CGTTACGATTTTTACGGGTACTCGTTGCGATAGTCA-AAAT-CG
1 CGTTGCGA--TTTACGTATTCTCGTTGCGAT--TCACGAATACG
** * *
65278 CGTTGCGATTTATATGTTCGCGTTGCGATT
1 CGTTGCGATTTACGTATTCTCGTTGCGATT
65308 TTCATATTCG
Statistics
Matches: 129, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 3 0.02
39 3 0.02
40 54 0.42
41 38 0.29
42 27 0.21
43 2 0.02
44 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.24, T:0.37
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTCTCGTTGCGATTCACGAATACG
Found at i:65178 original size:60 final size:61
Alignment explanation
Indices: 65089--65203 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 61
65079 GCGCTTTAAA
* * * * *
65089 AATCGCGTTGCGATTTTTCGTATTGTCGTTGCGATTAACGTATTCTCGTTGCGATAATCAG
1 AATCGCGTTGCGATTTTACGTATTCTCGTTGCGATTAACGGATACGCGTTGCGATAATCAG
*
65150 AATCGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCGTTGCGAT
1 AATCGCGTTGCGATTTTACGTATTCTCGTTGCGATTAACGGATACGCGTTGCGAT
65204 TTTACGTATT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 35 0.73
61 13 0.27
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (61 bp):
AATCGCGTTGCGATTTTACGTATTCTCGTTGCGATTAACGGATACGCGTTGCGATAATCAG
Found at i:65220 original size:41 final size:40
Alignment explanation
Indices: 65115--65246 Score: 178
Period size: 40 Copynumber: 3.3 Consensus size: 40
65105 TTCGTATTGT
* * *
65115 CGTTGCGATTAACGTATTCTCGTTGCGA-TAATCAGA-ATCG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTA-CGGATA-CG
65155 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
*
65195 CGTTGCGATTTTACGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACG
*
65236 CGTTACGATTT
1 CGTTGCGATTT
65247 TTACGGGTAC
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
40 43 0.51
41 41 0.49
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACG
Found at i:65239 original size:20 final size:20
Alignment explanation
Indices: 65153--65266 Score: 113
Period size: 20 Copynumber: 5.5 Consensus size: 20
65143 TAATCAGAAT
* *
65153 CGCGTTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
65173 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
65193 CGCGTTGCGATTTTACGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
65215 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
65234 CGCGTTACGATTTTTACGGGTA
1 CGCGTTGCGA--TTTACGGATA
*
65256 CTCGTTGCGAT
1 CGCGTTGCGAT
65267 AGTCAAAATC
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.03
20 41 0.53
21 15 0.19
22 19 0.25
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.38
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:65247 original size:41 final size:41
Alignment explanation
Indices: 65115--65247 Score: 166
Period size: 41 Copynumber: 3.3 Consensus size: 41
65105 TTCGTATTGT
* * * *
65115 CGTTGCGA-TTAACGTATTCTCGTTGCGA-TAATCAGA-ATCG
1 CGTTGCGATTTTACGTATTATCGTTGCGATTTA-CGGATA-CG
*
65155 CGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACG
1 CGTTGCGATTTTACGTATTATCGTTGCGATTTACGGATACG
65195 CGTTGCGATTTTACGTATTATCGTTGCGATTTACGGATACG
1 CGTTGCGATTTTACGTATTATCGTTGCGATTTACGGATACG
*
65236 CGTTACGATTTT
1 CGTTGCGATTTT
65248 TACGGGTACT
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
40 40 0.47
41 45 0.53
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (41 bp):
CGTTGCGATTTTACGTATTATCGTTGCGATTTACGGATACG
Found at i:65298 original size:20 final size:20
Alignment explanation
Indices: 65275--65327 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
65265 ATAGTCAAAA
*
65275 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
65295 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
65315 TCGCGTTGCGATT
1 TCGCGTTGCGATT
65328 CTGGAAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 1 0.03
20 30 0.97
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.43
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:74068 original size:137 final size:139
Alignment explanation
Indices: 73749--74178 Score: 537
Period size: 137 Copynumber: 3.0 Consensus size: 139
73739 TGTGAATTGG
* * * * * * *
73749 AAAGTTTCTTCCATGGTGCATTATTCTGCCTATGGGAATTGCACGTTTTTACTGATATGAAGTGA
1 AAAGTTTCTACCATGGTGCATTATTTTGCCTATGAGAAATACACATTTTT-CTTATATGAAGTGA
*
73814 TATATCACCACTAAAAAGTTTTCTGAAATGAGTTGATATATCATTGAAAAGTTGCTGAAGATGAT
65 TATATCACCACT-AAAAGTTTTCTAAAATGAGTTGATATATCATTGAAAA--TGCT-AAGATGAT
73879 TAATTGGGCACTGA
126 TAATTGGGCACTGA
* *
73893 AAAATTTCTATCATGGTGCATTATTTTGCCTATGAGAAATACACATTTTTCTTATATGAAGTGAT
1 AAAGTTTCTACCATGGTGCATTATTTTGCCTATGAGAAATACACATTTTTCTTATATGAAGTGAT
*
73958 ATATCACTACTACAAAGTTTTCTAAAATGAGTTGATATATCATTGAAAA-G-T-AGATGATTAAT
66 ATATCACCACTA-AAAGTTTTCTAAAATGAGTTGATATATCATTGAAAATGCTAAGATGATTAAT
74020 TGGGCACTGA
130 TGGGCACTGA
* *
74030 AAAGTTTCTGCCATGGTGCAATATTTTGCCTATGAGAAATACA-AGTTTTTCTTATATGAAGTGA
1 AAAGTTTCTACCATGGTGCATTATTTTGCCTATGAGAAATACACA-TTTTTCTTATATGAAGTGA
* * ** *
74094 TATATCACCATTGAAAAGTTTTCTGAAAA-GAGTTGGTATATCACCGAAAAGCTACTAAAGATGA
65 TATATCACCACT-AAAAGTTTTCT-AAAATGAGTTGATATATCATTGAAAA--TGCT-AAGATGA
* *
74158 TTAATTGAGCATTGA
125 TTAATTGGGCACTGA
74173 AAAGTT
1 AAAGTT
74179 GCTGAAGATG
Statistics
Matches: 253, Mismatches: 23, Indels: 21
0.85 0.08 0.07
Matches are distributed among these distances:
136 1 0.00
137 117 0.46
138 5 0.02
139 1 0.00
140 1 0.00
141 1 0.00
142 1 0.00
143 84 0.33
144 42 0.17
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.35
Consensus pattern (139 bp):
AAAGTTTCTACCATGGTGCATTATTTTGCCTATGAGAAATACACATTTTTCTTATATGAAGTGAT
ATATCACCACTAAAAGTTTTCTAAAATGAGTTGATATATCATTGAAAATGCTAAGATGATTAATT
GGGCACTGA
Found at i:74176 original size:32 final size:32
Alignment explanation
Indices: 74139--74208 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
74129 GTATATCACC
*
74139 GAAAAGCTACTAAAGATGATTAATTGAGCATT
1 GAAAAGCTACTAAAGATGATTAATTGAGCATA
* * * *
74171 GAAAAGTTGCTGAAGATGATTAATTGGGCATA
1 GAAAAGCTACTAAAGATGATTAATTGAGCATA
74203 GAAAAG
1 GAAAAG
74209 TTTCTACCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (32 bp):
GAAAAGCTACTAAAGATGATTAATTGAGCATA
Found at i:74311 original size:175 final size:175
Alignment explanation
Indices: 74009--74339 Score: 477
Period size: 175 Copynumber: 1.9 Consensus size: 175
73999 ATTGAAAAGT
* * *
74009 AGATGATTAATTGGGCACTGAAAAGTTTCTGCCATGGTGCAATATTTTGCCTATGAGAAATACAA
1 AGATGATTAATTGGGCACTGAAAAGTTTCTACCATGATGCAATATTTTGCATATGAGAAATACAA
* * *
74074 GTTTTTCTTATATGAAGTGATATATCACCATTGAAAAGTTTTCTGAAAAGAGTTGGTATATCACC
66 GTTTTTCTTATATGAACTGATATATCACCACTGAAAAGTTTTCTGAAAAGAGTTGATATATCACC
*
74139 GAAAAGCTACTAAAGATGATTAATTGAGCATTGAAAAGTTGCTGA
131 GAAAAGCTACTAAAGATAATTAATTGAGCATTGAAAAGTTGCTGA
* * *
74184 AGATGATTAATTGGGCA-TAGAAAAGTTTCTACCATTATGCATTGTTTTGCATATGAGAAATA-A
1 AGATGATTAATTGGGCACT-GAAAAGTTTCTACCATGATGCAATATTTTGCATATGAGAAATACA
* * *
74247 ACGTTTTTGTTATATGAACTGATGTATCACCACTGAAAAGTTTTCTGAAATGAGTTGATATATCA
65 A-GTTTTTCTTATATGAACTGATATATCACCACTGAAAAGTTTTCTGAAAAGAGTTGATATATCA
** * *
74312 TTGAAAAGTTGCTAAAGATAATTAATTG
129 CCGAAAAGCTACTAAAGATAATTAATTG
74340 GACACTAAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
174 3 0.02
175 134 0.98
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (175 bp):
AGATGATTAATTGGGCACTGAAAAGTTTCTACCATGATGCAATATTTTGCATATGAGAAATACAA
GTTTTTCTTATATGAACTGATATATCACCACTGAAAAGTTTTCTGAAAAGAGTTGATATATCACC
GAAAAGCTACTAAAGATAATTAATTGAGCATTGAAAAGTTGCTGA
Found at i:74463 original size:33 final size:35
Alignment explanation
Indices: 74394--74464 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 35
74384 AAATGTACAT
*
74394 TTTTCTGATATAAATTGATATATCACTATTGAAAAG
1 TTTTCTGAAATAAATTGATATAT-ACTATTGAAAAG
* *
74430 TTTTCTGAAATGAGTTGATATAT-C-ATTGAAAAG
1 TTTTCTGAAATAAATTGATATATACTATTGAAAAG
74463 TT
1 TT
74465 GCTAAAGATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 11 0.34
34 1 0.03
36 20 0.62
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (35 bp):
TTTTCTGAAATAAATTGATATATACTATTGAAAAG
Found at i:82476 original size:14 final size:15
Alignment explanation
Indices: 82455--82497 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
82445 TATATTTTAT
82455 TTAAAAAAATTTAAA
1 TTAAAAAAATTTAAA
*
82470 TTTAAAAAATTTAAA
1 TTAAAAAAATTTAAA
*
82485 TTAATAAAATTTA
1 TTAAAAAAATTTA
82498 TATAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TTAAAAAAATTTAAA
Found at i:83032 original size:3 final size:3
Alignment explanation
Indices: 83024--83068 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
83014 TTCTCTTATC
83024 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
83069 AGACAAGGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:85085 original size:21 final size:21
Alignment explanation
Indices: 85061--85104 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
85051 CACATTTAGG
*
85061 GTTTATGATTTAGAGTTTATA
1 GTTTATAATTTAGAGTTTATA
* *
85082 GTTTATAATTTAGGGTTTTTA
1 GTTTATAATTTAGAGTTTATA
85103 GT
1 GT
85105 CAAGGTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (21 bp):
GTTTATAATTTAGAGTTTATA
Found at i:85150 original size:34 final size:33
Alignment explanation
Indices: 85112--85181 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 33
85102 AGTCAAGGTA
* *
85112 TATGTACTAAATTAAACATTTTAATAAATAAATG
1 TATGTACTAAATTAAAAAATTTAATAAATAAA-G
*
85146 TATGTATTAAATTAAAAAATTTAATAAATAAAG
1 TATGTACTAAATTAAAAAATTTAATAAATAAAG
85179 TAT
1 TAT
85182 CATGTTAGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 4 0.12
34 29 0.88
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (33 bp):
TATGTACTAAATTAAAAAATTTAATAAATAAAG
Found at i:86932 original size:2 final size:2
Alignment explanation
Indices: 86925--86955 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
86915 ACCCCACCCA
86925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
86956 ATAAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88975 original size:2 final size:2
Alignment explanation
Indices: 88970--88998 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
88960 ATTTTTTTTT
88970 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 T
88999 TTATTAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94759 original size:60 final size:59
Alignment explanation
Indices: 94671--94857 Score: 173
Period size: 60 Copynumber: 3.1 Consensus size: 59
94661 TTCAAAGTGT
* * * *
94671 ATAGTTTGGGATGAAATTGGAATGTTCAAAAAGTTCAGGGCCAATTTAGAATGAAGGTC
1 ATAGTTTGGGATGAAATTGAAATATTCAAAAAGTTAAGGACCAATTTAGAATGAAGGTC
* * *
94730 ATAGTTTGGTGATGAAATTGAAATATTC-AAAAGTTTTAGGACTAATTTAGAATGATA-GTA
1 ATAGTTTGG-GATGAAATTGAAATATTCAAAAAG-TTAAGGACCAATTTAGAATGA-AGGTC
* * ** * * *
94790 ATAATTTAGAGACAAAATTAAAATATTTAAAAAGTTAAGGACCAATTTAAAAT-AAGTGTC
1 ATAGTTT-GGGATGAAATTGAAATATTCAAAAAGTTAAGGACCAATTTAGAATGAAG-GTC
*
94850 ATACTTTG
1 ATAGTTTG
94858 AGGACATTTG
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
58 1 0.01
59 16 0.15
60 80 0.77
61 7 0.07
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (59 bp):
ATAGTTTGGGATGAAATTGAAATATTCAAAAAGTTAAGGACCAATTTAGAATGAAGGTC
Found at i:96678 original size:20 final size:21
Alignment explanation
Indices: 96653--96704 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
96643 TTTTCCCAAT
*
96653 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
96673 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
96694 TCGCAATGCGA
1 TCGCAATGCGA
96705 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:96718 original size:20 final size:20
Alignment explanation
Indices: 96693--96806 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
96683 AATTGGGAAA
*
96693 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
96713 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
96733 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
96754 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
96774 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
96794 TTCGCAACGCGAT
1 ATCGCAACGCGAT
96807 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:96737 original size:61 final size:61
Alignment explanation
Indices: 96690--96806 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
96680 GCGAATTGGG
* * * * *
96690 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
96751 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
96807 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:97422 original size:19 final size:19
Alignment explanation
Indices: 97400--97597 Score: 147
Period size: 19 Copynumber: 11.1 Consensus size: 19
97390 GAAACAAAAA
* *
97400 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
97419 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
97438 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
97457 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
97476 TTGCGTTGCGA--TT-GTT
1 TCGCGTTGCGATTTTCATT
* **
97492 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
97509 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
97523 TCTCGTTGCGA--TTC-TA
1 TCGCGTTGCGATTTTCATT
**
97539 T--CGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
97556 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
97576 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
97596 TC
1 TC
97598 AACCAAAAGA
Statistics
Matches: 147, Mismatches: 18, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
14 27 0.18
15 1 0.01
16 7 0.05
17 9 0.06
18 1 0.01
19 71 0.48
20 30 0.20
21 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:97529 original size:14 final size:14
Alignment explanation
Indices: 97512--97548 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
97502 AGTCATTTCG
*
97512 CGTTGCGATTCTCT
1 CGTTGCGATTCTAT
97526 CGTTGCGATTCTAT
1 CGTTGCGATTCTAT
97540 CGTTGCGAT
1 CGTTGCGAT
97549 AGTCATTTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.11, C:0.24, G:0.24, T:0.41
Consensus pattern (14 bp):
CGTTGCGATTCTAT
Found at i:97534 original size:33 final size:33
Alignment explanation
Indices: 97460--97534 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
97450 TTTTATTTCG
** * * *
97460 CGTTGCGATTTTCATTTTGCGTTGCGATTGTTT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
* *
97493 GGTCGCGATAGTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
97526 CGTTGCGAT
1 CGTTGCGAT
97535 TCTATCGTTG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.11, C:0.20, G:0.27, T:0.43
Consensus pattern (33 bp):
CGTTGCGATAGTCATTTCGCGTTGCGATTCTCT
Found at i:97548 original size:47 final size:48
Alignment explanation
Indices: 97479--97572 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 48
97469 TTTCATTTTG
* * *
97479 CGTTGCGATTGTTTGGTCGCGATAGTCATTT-CGCGTTGCGATTCTCT
1 CGTTGCGATTCTATCGTCGCGATAGTCATTTCCGCGTTGCGATTCTCT
*
97526 CGTTGCGATTCTATCGTTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 CGTTGCGATTCTATCGTCGCGATAGTCATTTCCGCGTTGCGATTCTC
97573 ATTATCTCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 27 0.64
48 15 0.36
ACGTcount: A:0.12, C:0.23, G:0.26, T:0.39
Consensus pattern (48 bp):
CGTTGCGATTCTATCGTCGCGATAGTCATTTCCGCGTTGCGATTCTCT
Found at i:97574 original size:20 final size:20
Alignment explanation
Indices: 97540--97597 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
97530 GCGATTCTAT
**
97540 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
97560 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
97580 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
97598 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:101096 original size:14 final size:14
Alignment explanation
Indices: 101077--101112 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
101067 ATTGTTTAAT
101077 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
101091 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
101105 TGATTTGT
1 TGATTTGT
101113 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:101337 original size:33 final size:32
Alignment explanation
Indices: 101295--101421 Score: 175
Period size: 33 Copynumber: 3.9 Consensus size: 32
101285 ATTAAATTCG
*
101295 CGTTGCGATTTTTATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
101328 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
101361 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
*
101394 CGTTGCTATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
101422 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
31 3 0.04
33 78 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:101354 original size:19 final size:19
Alignment explanation
Indices: 101291--101421 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
101281 CAAAATTAAA
* *
101291 TTCGCGTTGCGATTTTTAT
1 TTCGCATTGCGATTTTCAT
*
101310 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
101326 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
101343 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
101357 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
101376 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
* *
101392 CTCG--TTGCTATTTTCAT
1 TTCGCATTGCGATTTTCAT
101409 TTCGCATTGCGAT
1 TTCGCATTGCGAT
101422 AGTAATTTCC
Statistics
Matches: 81, Mismatches: 16, Indels: 30
0.64 0.13 0.24
Matches are distributed among these distances:
14 22 0.27
16 13 0.16
17 12 0.15
19 34 0.42
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:101384 original size:66 final size:66
Alignment explanation
Indices: 101288--101420 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
101278 ACGCAAAATT
* *
101288 AAATTCGCGTTGCGATTTTTATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
101353 G
66 G
* *
101354 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCTATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
101419 G
66 G
101420 A
1 A
101421 TAGTAATTTC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.43
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:103943 original size:24 final size:24
Alignment explanation
Indices: 103909--103962 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
103899 CTGAAACATC
* *
103909 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
103933 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
103957 ATCAAA
1 ATCAAA
103963 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:105045 original size:20 final size:20
Alignment explanation
Indices: 105016--105066 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
105006 ATTCATTTGA
*
105016 CTATCACAACGCAAAAATGG
1 CTATCGCAACGCAAAAATGG
*
105036 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCAAAAATGG
105056 CTATCGCAACG
1 CTATCGCAACG
105067 AGAAAATCGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCAAAAATGG
Found at i:105071 original size:20 final size:20
Alignment explanation
Indices: 105016--105073 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
105006 ATTCATTTGA
*
105016 CTATCACAACGCA-AAAATGG
1 CTATCGCAACG-AGAAAATGG
*
105036 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGAGAAAATGG
105056 CTATCGCAACGAGAAAAT
1 CTATCGCAACGAGAAAAT
105074 CGCAATGCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGAGAAAATGG
Found at i:105116 original size:14 final size:14
Alignment explanation
Indices: 105097--105150 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
105087 GAAAATCGCA
105097 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
105111 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
*
105128 CATTGCGATTTTCTTG
1 --TTGCGATTTTCTCG
105144 TTGCGAT
1 TTGCGAT
105151 AGCCATTTCG
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
16 2 0.06
17 3 0.09
19 11 0.32
ACGTcount: A:0.11, C:0.19, G:0.20, T:0.50
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:105116 original size:33 final size:33
Alignment explanation
Indices: 105079--105149 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
105069 AAAATCGCAA
105079 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** ** *
105112 TGCGATTTTCATTTCGCATTGCGATTTTCTTGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
105145 TGCGA
1 TGCGA
105150 TAGCCATTTC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:105133 original size:19 final size:16
Alignment explanation
Indices: 105092--105141 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 16
105082 GAAATGAAAA
105092 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
105108 TCG--TTGCGATTTTC
1 TCGCATTGCGATTTTC
105122 ATTTCGCATTGCGATTTTC
1 ---TCGCATTGCGATTTTC
105141 T
1 T
105142 TGTTGCGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
14 11 0.38
16 4 0.14
17 3 0.10
19 11 0.38
ACGTcount: A:0.12, C:0.22, G:0.18, T:0.48
Consensus pattern (16 bp):
TCGCATTGCGATTTTC
Found at i:105150 original size:33 final size:33
Alignment explanation
Indices: 105092--105169 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 33
105082 GAAATGAAAA
***
105092 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
105125 TCGCATTGCGATTTTCTTGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
105158 TCGCGTTGCGAT
1 TCGCATTGCGAT
105170 AGTCTGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.44
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:105276 original size:14 final size:14
Alignment explanation
Indices: 105257--105293 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
105247 CATCAATTAA
105257 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
105271 ACAAATCATCTTTT
1 ACAAATCAACATTT
105285 ACAAATCAA
1 ACAAATCAA
105294 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:107186 original size:19 final size:19
Alignment explanation
Indices: 107162--107228 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
107152 GAAACTTAAA
107162 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
* *
107181 ATCGCAATGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
107201 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
107220 ATCGCAACG
1 ATCGCAACG
107229 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
19 23 0.56
20 18 0.44
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:107197 original size:20 final size:19
Alignment explanation
Indices: 107162--107217 Score: 85
Period size: 20 Copynumber: 2.9 Consensus size: 19
107152 GAAACTTAAA
*
107162 ATCGCAACGCGAAATGACT
1 ATCGCAATGCGAAATGACT
*
107181 ATCGCAATGCGGAAATGGCT
1 ATCGCAATGC-GAAATGACT
107201 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
107218 AAATCGCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 15 0.45
20 18 0.55
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (19 bp):
ATCGCAATGCGAAATGACT
Found at i:107236 original size:14 final size:14
Alignment explanation
Indices: 107217--107274 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
107207 ATGCGAAATG
107217 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
107231 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
107247 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
107263 AAAATCGCAACG
1 AAAATCGCAACG
107275 CGAAACACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:107259 original size:32 final size:33
Alignment explanation
Indices: 107201--107279 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
107191 GGAAATGGCT
*
107201 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
107234 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
107266 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
107280 CACAAATCAC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 30 0.67
33 15 0.33
ACGTcount: A:0.47, C:0.24, G:0.19, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:107321 original size:18 final size:18
Alignment explanation
Indices: 107289--107366 Score: 101
Period size: 18 Copynumber: 4.5 Consensus size: 18
107279 ACACAAATCA
107289 CATTGCGATTTTCATTTCG
1 CATTGCGA-TTTCATTTCG
*
107308 CGTTGCGATTTCATTTCG
1 CATTGCGATTTCATTTCG
*
107326 CATTGCGATTT--TGTCG
1 CATTGCGATTTCATTTCG
107342 --TTGCGATTTCATTTCG
1 CATTGCGATTTCATTTCG
107358 CATTGCGAT
1 CATTGCGAT
107367 AGCCATTTCC
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
14 9 0.18
16 8 0.16
18 27 0.53
19 7 0.14
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.45
Consensus pattern (18 bp):
CATTGCGATTTCATTTCG
Found at i:107373 original size:19 final size:20
Alignment explanation
Indices: 107351--107394 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
107341 GTTGCGATTT
*
107351 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTACGATAGC
* *
107370 CATTTCCGCGTTACGATAGT
1 CATTTCCGCATTACGATAGC
107390 CATTT
1 CATTT
107395 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTACGATAGC
Found at i:107919 original size:18 final size:18
Alignment explanation
Indices: 107893--107937 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
107883 GTCGATCAGA
**
107893 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGACGAGG
*
107911 TGATAGCTCTGGACGAGG
1 TGATGGCTCTGGACGAGG
107929 TGATGGCTC
1 TGATGGCTC
107938 CCGAAGTGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.16, G:0.42, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGACGAGG
Found at i:109278 original size:20 final size:20
Alignment explanation
Indices: 109253--109295 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
109243 AATAGTTTCT
109253 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
109273 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
109293 GAA
1 GAA
109296 TTCGACTATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.12
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:109601 original size:22 final size:22
Alignment explanation
Indices: 109574--109617 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
109564 GATGGAGATA
*
109574 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
109596 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
109618 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.43, T:0.18
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:109853 original size:20 final size:20
Alignment explanation
Indices: 109805--109857 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
109795 GATTATGTAT
109805 TATCGCGTTGCGAAAGTCAA
1 TATCGCGTTGCGAAAGTCAA
*
109825 AATCGCGTTGCGAAAGT-AA
1 TATCGCGTTGCGAAAGTCAA
*
109844 GTATCTCGTTGCGA
1 -TATCGCGTTGCGA
109858 TTTTGTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 2 0.07
20 27 0.93
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAA
Found at i:109891 original size:20 final size:19
Alignment explanation
Indices: 109785--109899 Score: 68
Period size: 20 Copynumber: 5.7 Consensus size: 19
109775 CGCTTTAAAA
*
109785 ATCGCATTGCGATTATGTATT
1 ATCGCATTGCGA-TA-GTAGT
* * **
109806 ATCGCGTTGCGAAAGTCAAA
1 ATCGCATTGCGATAGT-AGT
* *
109826 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGT-AGT
* * * *
109846 ATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGA--TAGTAGT
109867 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGT-AGT
109887 ATCGCATTGCGAT
1 ATCGCATTGCGAT
109900 TTTCCCAATT
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
19 5 0.07
20 45 0.60
21 23 0.31
22 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (19 bp):
ATCGCATTGCGATAGTAGT
Found at i:109917 original size:21 final size:21
Alignment explanation
Indices: 109888--109980 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
109878 ATAGTCAGTA
109888 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
109909 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
109929 TCACATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
109950 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
109970 TCGCATTGCGA
1 TCGCATTGCGA
109981 ATTGGGAAAA
Statistics
Matches: 56, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
20 31 0.55
21 25 0.45
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:109918 original size:41 final size:41
Alignment explanation
Indices: 109827--109961 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
109817 AAAGTCAAAA
* * * ** *
109827 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* * *
109867 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* **
109909 TCGCGTTGCGAT-TTACTTATTCACATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCACATTGCGATTTTCCCAAT
109950 TCGCGTTGCGAT
1 TCGCGTTGCGAT
109962 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
Found at i:109962 original size:41 final size:41
Alignment explanation
Indices: 109891--109980 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
109881 GTCAGTATCG
109891 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
*
109932 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
109973 CATTGCGA
1 CATTGCGA
109981 ATTGGGAAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.19, C:0.24, G:0.17, T:0.40
Consensus pattern (41 bp):
CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
Found at i:110673 original size:19 final size:19
Alignment explanation
Indices: 110651--110718 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
110641 ATCGCAACGA
110651 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
110670 GAAAATCGTAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
110689 GAAAATAGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
110703 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
110719 TTTTCATTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 10 0.24
15 1 0.02
16 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.49, C:0.15, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:110762 original size:20 final size:20
Alignment explanation
Indices: 110737--110794 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
110727 TCGCATTGCG
*
110737 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
110757 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
110777 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
110795 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:111874 original size:24 final size:24
Alignment explanation
Indices: 111847--111900 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
111837 GTATTCGAAA
* *
111847 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
111871 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
111895 TTTGAT
1 TTTGAT
111901 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:112092 original size:12 final size:12
Alignment explanation
Indices: 112075--112099 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
112065 ATATAATCCT
112075 GAAGAAGAAAAA
1 GAAGAAGAAAAA
112087 GAAGAAGAAAAA
1 GAAGAAGAAAAA
112099 G
1 G
112100 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:114413 original size:19 final size:19
Alignment explanation
Indices: 114391--114488 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
114381 GGAAATTACT
114391 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
114410 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
114424 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
114443 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
114457 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
114476 ATCGCAACGCGAA
1 ATCGCAATGCGAA
114489 TTTAATTTCG
Statistics
Matches: 58, Mismatches: 11, Indels: 20
0.65 0.12 0.22
Matches are distributed among these distances:
14 17 0.29
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 29 0.50
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:114434 original size:33 final size:33
Alignment explanation
Indices: 114392--114491 Score: 150
Period size: 33 Copynumber: 3.0 Consensus size: 33
114382 GAAATTACTA
*
114392 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
*
114425 TCGCAATGCGAAATGAAAATCGCAACGAGGGAA--
1 TCGCAATGCGAAATGAAAATCGCAAC--GCGAATT
114458 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
114491 T
1 T
114492 AATTTCGCGT
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
31 4 0.07
33 53 0.88
35 3 0.05
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:114506 original size:19 final size:20
Alignment explanation
Indices: 114484--114526 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
114474 AAATCGCAAC
114484 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
114503 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
114523 GCGA
1 GCGA
114527 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:114511 original size:14 final size:14
Alignment explanation
Indices: 114512--114545 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
114502 TGCGATTTTC
114512 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
114526 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
114540 ATTTTC
1 ATTTTC
114546 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:114686 original size:14 final size:14
Alignment explanation
Indices: 114667--114703 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
114657 CATCAATTAA
114667 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
114681 ACAAATCACCTTTT
1 ACAAATCAACTTTT
114695 ACAAATCAA
1 ACAAATCAA
114704 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:116123 original size:21 final size:21
Alignment explanation
Indices: 116057--116123 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
116047 GTGAATCGGG
*
116057 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
116077 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
116099 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
116120 CTCT
1 CTCT
116124 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:116142 original size:42 final size:42
Alignment explanation
Indices: 116096--116175 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
116086 CGATGACAGT
* * *
116096 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAAG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAAG
* * *
116138 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
116176 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAAG
Found at i:117874 original size:33 final size:33
Alignment explanation
Indices: 117817--117902 Score: 127
Period size: 33 Copynumber: 2.6 Consensus size: 33
117807 ATGAGATAAT
*
117817 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
* *
117851 TAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
*
117884 GACAATCGCAACGCGAAAT
1 GAGAATCGCAACGCGAAAT
117903 AAAAATTGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 34 0.72
34 13 0.28
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:117913 original size:19 final size:19
Alignment explanation
Indices: 117887--117951 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
117877 GCGACCAGAC
117887 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
* *
117906 AATTGCAACGCGAAATGAA
1 AATCGCAACGCGAAATAAA
117925 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATAAA
117944 AATCGCAA
1 AATCGCAA
117952 TGTGATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAAATAAA
Found at i:117979 original size:19 final size:19
Alignment explanation
Indices: 117957--117993 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
117947 CGCAATGTGA
*
117957 TTTTTGTTTCGCGTTGCGT
1 TTTTTATTTCGCGTTGCGT
117976 TTTTTATTTCGCGTTGCG
1 TTTTTATTTCGCGTTGCG
117994 ATTCTCTCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.16, G:0.24, T:0.57
Consensus pattern (19 bp):
TTTTTATTTCGCGTTGCGT
Done.