Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000762.1 Hibiscus syriacus cultivar Beakdansim tig00001479_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: 54194
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:71 original size:3 final size:3
Alignment explanation
Indices: 63--96 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
53 CTACAAAAAA
63 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
97 ACTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:5753 original size:2 final size:2
Alignment explanation
Indices: 5746--5771 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5736 GTTTAAAAAG
5746 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
5772 GGAAAGACTT
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):
TA
Found at i:5849 original size:19 final size:19
Alignment explanation
Indices: 5822--5858 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5812 TATAAAGCAT
*
5822 TGTTAAATGACCTATTTGA
1 TGTTAAATGACCAATTTGA
*
5841 TGTTTAATGACCAATTTG
1 TGTTAAATGACCAATTTG
5859 TTACTTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (19 bp):
TGTTAAATGACCAATTTGA
Found at i:8209 original size:20 final size:20
Alignment explanation
Indices: 8172--8209 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8162 AAATTAATAT
*
8172 TATTATTAATTTTATAAAAA
1 TATTATTAATATTATAAAAA
8192 TATTATTAA-ATTACTAAA
1 TATTATTAATATTA-TAAA
8210 TATCTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTATTAATATTATAAAAA
Found at i:8484 original size:14 final size:14
Alignment explanation
Indices: 8428--8484 Score: 57
Period size: 14 Copynumber: 4.2 Consensus size: 14
8418 TTATAAAATA
*
8428 TAAAAAAAT-ATTT
1 TAAATAAATAATTT
8441 T-AAT-AATAAATTT
1 TAAATAAAT-AATTT
*
8454 TAAATAAATAATAT
1 TAAATAAATAATTT
*
8468 TAAATAAATTATTT
1 TAAATAAATAATTT
8482 TAA
1 TAA
8485 TATTTTTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
11 3 0.08
12 2 0.06
13 6 0.17
14 22 0.61
15 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAATAAATAATTT
Found at i:12004 original size:57 final size:57
Alignment explanation
Indices: 11924--12210 Score: 365
Period size: 57 Copynumber: 5.2 Consensus size: 57
11914 ATGGCACTGA
* *
11924 GTGTGAAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
* * * *
11981 GTGTGCAAAAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
* * *
12038 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATGGGTACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
* * * *
12095 GTGTGCAAAAAGTCAATAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
* *
12152 GTGTGCCAAAAA-CTAAGAAATTC------A-TGTATGAATTTCCGTATGGGCACTAT
1 GTGTG-CAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
*
12202 GAGTGCAAA
1 GTGTGCAAA
12211 CTAAGAAATT
Statistics
Matches: 204, Mismatches: 25, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
49 4 0.02
50 29 0.14
51 1 0.00
57 164 0.80
58 6 0.03
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (57 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATTAGTGTATGAATTTCCGTATGGGCACTTT
Found at i:12116 original size:114 final size:114
Alignment explanation
Indices: 11924--12176 Score: 420
Period size: 114 Copynumber: 2.2 Consensus size: 114
11914 ATGGCACTGA
* *
11924 GTGTGAAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAA
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAA
*
11989 AAAGATAAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTT
66 AAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
*
12038 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATGGGTACTTTGTGTGCAA
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAA
*
12103 AAAG-TCAATAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
66 AAAGAT-AAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
*
12152 GTGTGCCAAAAA-CTAAGAAATTCAT
1 GTGTG-CAAAAAGTTAAGAAATTCAT
12177 GTATGAATTT
Statistics
Matches: 131, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
113 1 0.01
114 124 0.95
115 6 0.05
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (114 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCATATGGGCACTTTGTGTGCAA
AAAGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
Found at i:12903 original size:227 final size:224
Alignment explanation
Indices: 12495--12908 Score: 579
Period size: 227 Copynumber: 1.8 Consensus size: 224
12485 TTTTATTATT
*
12495 TCGGGTCGGTTTTTTTAAGTGTGATATTTGGGTCGGGTCGAGTTCGGGTTTAGGGTGAAAAATAC
1 TCGGGTCGGTTTTTTTAAGTGTGATA-TT--GTCGGGTCGAGCTCGGGTTTAGGGTGAAAAATAC
* * *
12560 CCGACCTGAAAATATATAATTTTACCTTATATATTTAGGAATAATTACGATAATACCCCTCTATA
63 CCGACCCGAAAAAATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATA
* * *
12625 TATAATTTTTTTCAATTAAGTCACCATTTTATTGAATAAAATAATTTTTTATTATTTCGGATCGG
128 TATAATTATTTTCAATTAAGTCACCATTTTATTGAATAAAATAAGTTTTTATAATTTCGGATCGG
12690 GTCGGGTTAGATTTCTAATTCATATATTCGGG
193 GTCGGGTTAGATTTCTAATTCATATATTCGGG
12722 TCGGGTCGAG-TTTTTTAAGTGTGATA-T-TCGGGTCG-GCTCGGGTTTAGGGTGAAAAAAGCTG
1 TCGGGTCG-GTTTTTTTAAGTGTGATATTGTCGGGTCGAGCTCGGGTTTAGGGTG-AAAAA--T-
12783 GACCCGACCCGAAAAAAATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTC
61 -ACCCGACCCG-AAAAAATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTC
*** *
12848 TATATATAA-TATTTTCAATTAAGTCAATGTTTTTATTGAATAAACAT-GGTTTTTATAATTT
124 TATATATAATTATTTTCAATTAAGTC-ACCATTTTATTGAATAAA-ATAAGTTTTTATAATTT
12909 ATTGAAATGA
Statistics
Matches: 167, Mismatches: 11, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
221 15 0.09
222 13 0.08
224 1 0.01
225 1 0.01
226 24 0.14
227 110 0.66
228 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (224 bp):
TCGGGTCGGTTTTTTTAAGTGTGATATTGTCGGGTCGAGCTCGGGTTTAGGGTGAAAAATACCCG
ACCCGAAAAAATATAATTTTACCTTATATATTTAGGAATAATTACAATAATACCCCTCTATATAT
AATTATTTTCAATTAAGTCACCATTTTATTGAATAAAATAAGTTTTTATAATTTCGGATCGGGTC
GGGTTAGATTTCTAATTCATATATTCGGG
Found at i:14004 original size:3 final size:3
Alignment explanation
Indices: 13996--14060 Score: 76
Period size: 3 Copynumber: 21.0 Consensus size: 3
13986 ATTTATTTAT
* * * *
13996 TTA TTA TTA TTA TTA TAA TTA TAA TTA TTA TAA TCA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
14042 TTA TATA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA
14061 AAAAATAATA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 47 0.89
4 6 0.11
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:15296 original size:40 final size:40
Alignment explanation
Indices: 15219--15297 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
15209 AGTTTTATAA
* *
15219 TTTTATATTTTAATTATTCAAATTTTAGTTTTGATTATTT
1 TTTTATATTTTAATTATTCAAATTATAGTTTTAATTATTT
*
15259 TTTTATATTTTATATT-TT-AATATTATATTTTTAATTATT
1 TTTTATATTTTA-ATTATTCAA-ATTATAGTTTTAATTATT
15298 ATTTGCAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 2 0.06
40 29 0.85
41 3 0.09
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (40 bp):
TTTTATATTTTAATTATTCAAATTATAGTTTTAATTATTT
Found at i:15297 original size:15 final size:15
Alignment explanation
Indices: 15252--15299 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
15242 TTTAGTTTTG
*
15252 ATTATTTTTTTATATT
1 ATTATATTTTTA-ATT
15268 -TTATA-TTTTAA-T
1 ATTATATTTTTAATT
15280 ATTATATTTTTAATT
1 ATTATATTTTTAATT
15295 ATTAT
1 ATTAT
15300 TTGCAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.04
13 6 0.21
14 11 0.39
15 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTATATTTTTAATT
Found at i:15300 original size:13 final size:13
Alignment explanation
Indices: 15247--15326 Score: 51
Period size: 14 Copynumber: 6.1 Consensus size: 13
15237 CAAATTTTAG
*
15247 TTTTGATTATT-T
1 TTTTAATTATTAT
15259 TTTTATATT-TTAT
1 TTTTA-ATTATTAT
15272 ATTTTAA-TATTATAT
1 -TTTTAATTA-T-TAT
15287 TTTTAATTATTAT
1 TTTTAATTATTAT
**
15300 TTGCAA-TATTAT
1 TTTTAATTATTAT
*
15312 TTTATTATTATTAT
1 TTT-TAATTATTAT
15326 T
1 T
15327 ACTTTTTATT
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
12 15 0.28
13 13 0.25
14 20 0.38
15 5 0.09
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.68
Consensus pattern (13 bp):
TTTTAATTATTAT
Found at i:15312 original size:3 final size:3
Alignment explanation
Indices: 15306--15351 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
15296 TTATTTGCAA
* *
15306 TAT TAT T-T TAT TAT TAT TAT TACT TTT TAT TAT TAT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
15351 T
1 T
15352 TATATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:15353 original size:19 final size:19
Alignment explanation
Indices: 15306--15354 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
15296 TTATTTGCAA
15306 TATTATTTTATTATTATTAT
1 TATTA-TTTATTATTATTAT
*
15326 TACTT-TTTATTATTATTCT
1 TA-TTATTTATTATTATTAT
15345 TATTATTTAT
1 TATTATTTAT
15355 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 20 0.77
20 2 0.08
21 2 0.08
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTATTTATTATTATTAT
Found at i:15590 original size:116 final size:114
Alignment explanation
Indices: 15446--15666 Score: 284
Period size: 116 Copynumber: 1.9 Consensus size: 114
15436 TATTTTAATA
* * * * *
15446 TTTATTTATTTATTTTTCAATATTAAGAAATG-GCAGTCTTAAAATAACTGGATGTCCATTTTCT
1 TTTATTTATTTATTTTTCAATATAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCC-TTTTCT
*
15510 GATATTTTTAAATAAATAAATATCTTATTTTATAAATTATATAGTAATTGTT
65 GATATTTATAAATAAATAAATATCTTA-TTTATAAA-TATATAGTAATTGTT
* ** *
15562 TTTATTTATTTATTTTT-AATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCT
1 TTTATTTATTTATTTTTCAATAT-AAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCCTTTTCT
* *
15626 TATATTTATAAATAAATAAATATTTTATTTATAAATATATA
65 GATATTTATAAATAAATAAATATCTTATTTATAAATATATA
15667 AATTAATATA
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
114 6 0.07
115 13 0.14
116 54 0.59
117 18 0.20
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.47
Consensus pattern (114 bp):
TTTATTTATTTATTTTTCAATATAAAGAAAAGAGCAGTCTTAAAACAACTAGAAGTCCTTTTCTG
ATATTTATAAATAAATAAATATCTTATTTATAAATATATAGTAATTGTT
Found at i:15693 original size:27 final size:30
Alignment explanation
Indices: 15631--15694 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 30
15621 TTTCTTATAT
*
15631 TTATAAATAAATAAATATTTTATTTATAAA
1 TTATAAATAAATAAATATTTTATTCATAAA
* *
15661 TATATAAATTAATATATA-TTT-TTCAT-AA
1 T-TATAAATAAATAAATATTTTATTCATAAA
15689 TTATAA
1 TTATAA
15695 TTTTAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 5 0.17
28 3 0.10
29 4 0.13
30 4 0.13
31 14 0.47
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (30 bp):
TTATAAATAAATAAATATTTTATTCATAAA
Found at i:16191 original size:18 final size:16
Alignment explanation
Indices: 16164--16207 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
16154 TTTCTTTCAA
*
16164 ATTTTTTATTACTTATT
1 ATTTTTTATTA-TTAAT
16181 ATTTTTATATTATTAAT
1 ATTTTT-TATTATTAAT
16198 ATTTTTTATT
1 ATTTTTTATT
16208 TATGAAGGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 16 0.64
18 5 0.20
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTTTATTATTAAT
Found at i:21289 original size:11 final size:11
Alignment explanation
Indices: 21275--21304 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
21265 AAAACAACAA
21275 AAAGAAAAAAG
1 AAAGAAAAAAG
21286 AAAGAAAAAAG
1 AAAGAAAAAAG
21297 AAA-AAAAA
1 AAAGAAAAA
21305 GGGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:21316 original size:27 final size:27
Alignment explanation
Indices: 21263--21316 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
21253 ATACTTGAAA
* *
21263 AAAAAACAACAAAAAGAAAAAAGAAAG
1 AAAAAACAAAAAAAAGAAAAAAAAAAG
* **
21290 AAAAAAGAAAAAAAAGGGAAAAAAAAG
1 AAAAAACAAAAAAAAGAAAAAAAAAAG
21317 GGAGAAATTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.81, C:0.04, G:0.15, T:0.00
Consensus pattern (27 bp):
AAAAAACAAAAAAAAGAAAAAAAAAAG
Found at i:23662 original size:114 final size:114
Alignment explanation
Indices: 23462--23681 Score: 336
Period size: 114 Copynumber: 1.9 Consensus size: 114
23452 CACATTCTCG
23462 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGAATTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGAATTGGTTT
* * *
23527 GGTATGAACCCCAAAACCAATCCTTAGATTTGAAAGATGAATTTGCTCA
66 GGTATGAACCACAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCA
* *
23576 TAGTAGAAATAA-AGAGGCCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG-ATCTGGT
1 TAGTAGAAATAAGA-AGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGAAT-TGGT
* * *
23639 TTGGTATGAACCACAGAACCAATCATTGGAATTGAAAGGTGAA
64 TTGGTATGAACCACAAAACCAATCATTAGAATTGAAAGATGAA
23682 CTGCATGATC
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
113 3 0.03
114 93 0.97
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTAAGTTATCTGAATTGGTTT
GGTATGAACCACAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCA
Found at i:25586 original size:40 final size:40
Alignment explanation
Indices: 25531--25606 Score: 152
Period size: 40 Copynumber: 1.9 Consensus size: 40
25521 CAGAAGCCAT
25531 AGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATCCCAC
1 AGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATCCCAC
25571 AGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 AGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
25607 TAAGCTGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.32
Consensus pattern (40 bp):
AGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATCCCAC
Found at i:26040 original size:22 final size:22
Alignment explanation
Indices: 26012--26063 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
26002 TACACTCTTC
* *
26012 AAAGATGATAGATTCCCTTTTT
1 AAAGATGACAGATTCCCTTTTA
*
26034 AAAGATGACAGATTCTCTTTTA
1 AAAGATGACAGATTCCCTTTTA
26056 AAAGATGA
1 AAAGATGA
26064 AAGCTTTATC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (22 bp):
AAAGATGACAGATTCCCTTTTA
Found at i:26773 original size:113 final size:114
Alignment explanation
Indices: 26450--27121 Score: 1118
Period size: 113 Copynumber: 5.9 Consensus size: 114
26440 TTTCAAAGAT
* *
26450 TCAAATCCATCACTTGATGGATCAGCTTTTTCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
* *
26515 AAGAAGGAAGAAGAAATTCATAATGAGAATAATTTGTTCAACCTTTTGC
66 AAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
26564 TCAAATCCATCATTTGATGGATCAGTTTTTTTCAGAAAAAAGTTCATAATAAGAAGAACTCATCT
1 TCAAATCCATCATTTGATGGATCAG-CTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
*
26629 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 GAAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
26679 TCAAATCCATCATTCGATGGATCAGCTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
26743 AAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-C
66 AAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
26791 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
*
26856 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
26905 TCAAATCCATCATTTGATGGATCAACTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT-
*
26969 AAGAAGGAAGAAGGAAGAAGAAATTCATAAAGAGAAGAATTTGTTCAACCTTTTGC
65 --GAA-G-A-AA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
*
27025 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATATG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
27090 AAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
66 AAGAAAGAAGAAGAAA-TTCATAATGAGAAGAA
27122 CTCATCTGAA
Statistics
Matches: 529, Mismatches: 17, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
112 34 0.06
113 183 0.35
114 86 0.16
115 112 0.21
116 4 0.01
117 2 0.00
118 4 0.01
119 1 0.00
120 75 0.14
121 28 0.05
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (114 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:27113 original size:40 final size:40
Alignment explanation
Indices: 27060--27161 Score: 161
Period size: 40 Copynumber: 2.5 Consensus size: 40
27050 CTTTTCCAGA
27060 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
* *
27100 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
*
27140 AGGAAA-TTCATAATGAGAAGAA
1 A-AAAAGTTCATAATGAGAAGAA
27162 ATTGATCATC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 55 0.95
41 3 0.05
ACGTcount: A:0.53, C:0.08, G:0.22, T:0.18
Consensus pattern (40 bp):
AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
Found at i:27374 original size:114 final size:114
Alignment explanation
Indices: 27100--27959 Score: 1393
Period size: 114 Copynumber: 7.5 Consensus size: 114
27090 AAGAAAGAAG
* *
27100 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
* * * ** * * ** *
27165 GATCATCCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTG
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-A
* *
27215 AAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAAAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
*
27280 GTTCAACCTTTTGCTCAAATCCATCATTTGTTGGATCAGCTTTTCCAGA
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
*
27329 AAAAAGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
27394 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
* *
27442 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
* * ** * * ** *
27507 GATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTG
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-A
*
27557 AAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
*
27622 GTTAAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
27671 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
27736 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
*
27784 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
27849 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
*
27898 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAA
27960 CTCATTTGAA
Statistics
Matches: 693, Mismatches: 48, Indels: 9
0.92 0.06 0.01
Matches are distributed among these distances:
113 217 0.31
114 276 0.40
115 200 0.29
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (114 bp):
AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
Found at i:27723 original size:342 final size:342
Alignment explanation
Indices: 27098--27959 Score: 1539
Period size: 342 Copynumber: 2.5 Consensus size: 342
27088 TGAAGAAAGA
27098 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
*
27163 TTGATCATCCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
* *
27228 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTG
131 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTG
* *
27293 CTCAAATCCATCATTTGTTGGATCAGCTTTTCCAGAAAAAAGTTTATAATGAGAAGAACTCATCT
196 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
27358 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
261 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
27423 GATGGATCAGCTTTTCC
326 GATGGATCAGCTTTTCC
27440 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
27505 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
27570 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTG
131 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTG
27635 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
196 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
27700 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
261 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
27765 GATGGATCAGCTTTTCC
326 GATGGATCAGCTTTTCC
* *
27782 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATGAAATTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
* * ** * * ** * *
27847 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
*
27911 TGAGAAGAACTCATCTGAAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
131 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAA
27960 CTCATTTGAA
Statistics
Matches: 501, Mismatches: 18, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
340 3 0.01
341 56 0.11
342 442 0.88
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (342 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTG
CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
GATGGATCAGCTTTTCC
Found at i:27942 original size:496 final size:496
Alignment explanation
Indices: 27440--28608 Score: 2230
Period size: 496 Copynumber: 2.4 Consensus size: 496
27430 CAGCTTTTCC
*
27440 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
27505 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
27570 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTG
131 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTG
27635 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
196 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
27700 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
261 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
* *
27765 GATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATGAAA
326 GATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
27830 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCC
391 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCC
*
27895 AGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
456 AGAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGA
*
27936 AGAAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
28001 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
* *
28066 TGAGAAGAACTCATCTGAAGAAGGGAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
131 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTG
28131 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
196 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
28196 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
261 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
28261 GATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
326 GATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
*
28326 TTCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCC
391 TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCC
28391 AGAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGA
456 AGAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGA
*
28432 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGTAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
28497 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
* *
28562 TGAGAAGAACTCATCTGAAGAAAGAAGAAAAAAGTTCATAATGAGAA
131 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAA
28609 AAACTCATCT
Statistics
Matches: 659, Mismatches: 13, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
496 646 0.98
497 13 0.02
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (496 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTAAACCTTTTG
CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCT
GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
GATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA
TTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCC
AGAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGA
Found at i:27951 original size:40 final size:40
Alignment explanation
Indices: 27898--27999 Score: 170
Period size: 40 Copynumber: 2.5 Consensus size: 40
27888 CTTTTCCAGA
27898 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG
* *
27938 AAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG
27978 AGAAAA-TTCATAATGAGAAGAA
1 A-AAAAGTTCATAATGAGAAGAA
28000 ATTGATCAAC
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 55 0.93
41 4 0.07
ACGTcount: A:0.53, C:0.08, G:0.21, T:0.19
Consensus pattern (40 bp):
AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAG
Found at i:27971 original size:154 final size:155
Alignment explanation
Indices: 27782--28114 Score: 501
Period size: 154 Copynumber: 2.2 Consensus size: 155
27772 CAGCTTTTCC
27782 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATG-AAATTCATAATGAGAAGAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA-GAAAATTCATAATGAGAAGAA
* * * **
27846 TTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAAGTTCATA
65 ATTGATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATCCCCAGTAAAAAAGTTCATA
27910 ATGAGAAGAACTCATCTGAAGAAAGA
130 ATGAGAAGAACTCATCTGAAGAAAGA
*
27936 AGAAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
* ** * * *
28001 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATCCCCAGTAAAAAAGTTCATAA
* *
28066 TGAGAAGAACTCATCTGAAGAAGGG
131 TGAGAAGAACTCATCTGAAGAAAGA
28091 AGAAGAAA-TTCATAATGAGAAGAA
1 AGAA-AAAGTTCATAATGAGAAGAA
28115 TTTGTTCAAC
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
153 1 0.01
154 103 0.64
155 55 0.34
156 3 0.02
ACGTcount: A:0.43, C:0.12, G:0.20, T:0.25
Consensus pattern (155 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAA
TTGATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCATCCCCAGTAAAAAAGTTCATAA
TGAGAAGAACTCATCTGAAGAAAGA
Found at i:28072 original size:838 final size:837
Alignment explanation
Indices: 26450--28455 Score: 3577
Period size: 838 Copynumber: 2.4 Consensus size: 837
26440 TTTCAAAGAT
* *
26450 TCAAATCCATCACTTGATGGATCAGCTTTTTCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
*
26515 AAGAAGGAAGAAGAAATTCATAATGAGAATAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
* * *
26580 ATGGATCAGTTTTTTTCAGAAAAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAA
131 ATGGATCAG-CTTTTCCAG-AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
*
26645 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTC
194 ATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTC
26710 CA-GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGA
259 CAGGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGA
*
26774 ATTTGTTCAACCTTTTCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAA
324 ATTTGTTAAACCTTTTCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAA
26839 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
389 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
26904 CTCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
454 CTCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT-
26969 AAGAAGGAAGAAGGAAGAAGAAATTCATAAAGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCA
518 ----A-GAAGAAGGAAGAAGAAATTCATAAAGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCA
27034 TCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAA
578 TCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAA
*
27099 GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAAT
643 GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAAT
*
27164 TGATCATCCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAAT
708 TGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAAT
27229 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTGC
773 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTGC
* *
27294 TCAAATCCATCATTTGTTGGATCAGCTTTTCCAGAAAAAAGTTTATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
27359 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
*
27424 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAAT
131 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
* * * ** * * **
27489 TCATAATGAGAAGAAATTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCA
196 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCA
* *
27554 GTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
261 G-GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAA
27619 TTTGTTAAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAA
325 TTTGTTAAACCTTTT-CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAA
27684 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
389 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
*
27749 CTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCT-
454 CTCAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTA
* *
27813 GAAGAAGGAAGATGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
519 GAAGAAGGAAGAAGAAATTCATAAAGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTT
*
27878 GATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAAAA
584 GATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAAAAA
*
27943 GTTCATAATGAGAAGAACTCATTTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAATTGATCA
649 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAATTGATCA
28008 ACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAG
714 ACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAG
* *
28073 AACTCATCTGAAGAAGGGAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
779 AACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTGC
28132 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
28197 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
66 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
*
28262 ATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
131 ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
*
28327 TCATAATGAGAAGAATTTGTTTAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCA
196 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCA
* *
28392 GAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
261 GGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAA-TTCATAATGAGAAGAA
28456 CTCATCTGAA
Statistics
Matches: 1109, Mismatches: 49, Indels: 15
0.95 0.04 0.01
Matches are distributed among these distances:
836 3 0.00
837 55 0.05
838 558 0.50
842 100 0.09
843 7 0.01
844 209 0.19
845 177 0.16
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (837 bp):
TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATCTG
AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTG
ATGGATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCA
GGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAATTCATAATGAGAAGAAT
TTGTTAAACCTTTTCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAATG
AGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
CAAATCCATCATTTGATGGATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTAGA
AGAAGGAAGAAGAAATTCATAAAGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTTGA
TGGATCAGCTTTTCCAGAAAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAAAAAGT
TCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGAAAATTCATAATGAGAAGAAATTGATCAAC
CTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAATGAGAAGAA
CTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTGC
Found at i:28220 original size:114 final size:114
Alignment explanation
Indices: 27938--28455 Score: 835
Period size: 114 Copynumber: 4.5 Consensus size: 114
27928 AAGAAAGAAG
* *
27938 AAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAG-AGAAAATTCATAATGAGAAGAAAT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAATTCATAATGAGAAGAATT
* * ** * * ** *
28002 TGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTG
65 TGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-A
* *
28053 AAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGGAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
28118 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
28167 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
*
28232 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAG-
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
28280 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
*
28345 GTTTAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
66 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
* *
28394 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
1 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAA
28456 CTCATCTGAA
Statistics
Matches: 380, Mismatches: 20, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
113 114 0.30
114 166 0.44
115 98 0.26
116 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (114 bp):
AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
Found at i:28420 original size:227 final size:227
Alignment explanation
Indices: 27098--27959 Score: 1395
Period size: 227 Copynumber: 3.8 Consensus size: 227
27088 TGAAGAAAGA
* *
27098 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
* * * ** * * ** * *
27163 TTGATCATCCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAAGTTCATAA
*
27228 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAAAATTTGTTCAACCTTTTG
130 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
*
27293 CTCAAATCCATCATTTGTTGGATCAGCTTTTCC
195 CTCAAATCCATCATTTGATGGATCAGCTTTTCC
*
27326 AGAAAAAAGTTTATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
1 AG-AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAA
27391 TTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAGTTCATAA
65 TTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAA
* * *
27455 TGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATTGATCAACCTTTTG
130 TGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
* ** * * **
27520 TTTGAATTCATCATTTGATGGATCAGCATCCCC
195 CTCAAATCCATCATTTGATGGATCAGCTTTTCC
*
27553 AGTGAAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
1 A--GAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGA
*
27618 ATTTGTTAAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATA
64 ATTTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATA
27683 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
129 ATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT
27748 GCTCAAATCCATCATTTGATGGATCAGCTTTTCC
194 GCTCAAATCCATCATTTGATGGATCAGCTTTTCC
*
27782 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGATGAAATTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
27847 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAAT
66 TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAAT
*
27912 GAGAAGAACTCATCTGAAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
131 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAA
27960 CTCATTTGAA
Statistics
Matches: 587, Mismatches: 42, Indels: 11
0.92 0.07 0.02
Matches are distributed among these distances:
226 3 0.01
227 268 0.46
228 112 0.19
229 204 0.35
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (227 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
TTGTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAGAAAAAAGTTCATAAT
GAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
TCAAATCCATCATTTGATGGATCAGCTTTTCC
Found at i:28428 original size:227 final size:228
Alignment explanation
Indices: 27938--28455 Score: 844
Period size: 227 Copynumber: 2.3 Consensus size: 228
27928 AAGAAAGAAG
*
27938 AAAAAGTTCATAATGAGAAGAACTCATTTGAAGAAGGAAG-AGAAAATTCATAATGAGAAGAAAT
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAG-AAATTCATAATGAGAAGAAAT
* ** * * *
28002 TGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAAT
65 TGATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACATCCCCAG-GAAAAAGTTCATAAT
*
28067 GAGAAGAACTCATCTGAAGAAGGGAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
129 GAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
28132 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
194 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGA
* *
28167 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAATT
* * **
28232 GTTCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCA-GAAAAAGTTCATAATGA
66 GATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACATCCCCAGGAAAAAGTTCATAATGA
*
28296 GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGCTC
131 GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
28361 AAATCCATCATTTGATGGATCAGCTTTTCCAGA
196 AAATCCATCATTTGATGGATCAGCTTTTCCAGA
*
28394 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAGAA-AAAGTTCATAATGAGAAGAA
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAA-TTCATAATGAGAAGAA
28456 CTCATCTGAA
Statistics
Matches: 271, Mismatches: 16, Indels: 6
0.92 0.05 0.02
Matches are distributed among these distances:
226 3 0.01
227 168 0.62
229 98 0.36
230 2 0.01
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.27
Consensus pattern (228 bp):
AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAATT
GATCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACATCCCCAGGAAAAAGTTCATAATGA
GAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
AAATCCATCATTTGATGGATCAGCTTTTCCAGA
Found at i:28447 original size:40 final size:40
Alignment explanation
Indices: 28394--28495 Score: 161
Period size: 40 Copynumber: 2.5 Consensus size: 40
28384 CTTTTCCAGA
28394 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
* *
28434 AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
*
28474 AGTAAA-TTCATAATGAGAAGAA
1 A-AAAAGTTCATAATGAGAAGAA
28496 ATTGATCAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
40 55 0.95
41 3 0.05
ACGTcount: A:0.53, C:0.08, G:0.21, T:0.19
Consensus pattern (40 bp):
AAAAAGTTCATAATGAGAAGAACTCATATGAAGAAAGAAG
Found at i:28614 original size:41 final size:41
Alignment explanation
Indices: 28553--28648 Score: 149
Period size: 41 Copynumber: 2.4 Consensus size: 41
28543 CCAGTGAAAG
*
28553 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAAAA
1 AGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAAAA
* **
28594 AGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAGGAA
1 AGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAAAA
28635 A-TTCATAATGAGAA
1 AGTTCATAATGAGAA
28649 GAAATTGATC
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 13 0.25
41 38 0.75
ACGTcount: A:0.51, C:0.09, G:0.21, T:0.19
Consensus pattern (41 bp):
AGTTCATAATGAGAAAAACTCATCTGAAGAAAGAAGAAAAA
Found at i:28641 original size:156 final size:155
Alignment explanation
Indices: 28278--28767 Score: 786
Period size: 156 Copynumber: 3.2 Consensus size: 155
28268 CAACTTTTCC
* *
28278 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAAT
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
* * * ** * * ** * *
28343 TTGTTTAACCTTTTGCTCAAATCCATCATTTGATGGATCAGCTTTTCCAG-AAAAAAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
*
28407 TGAGAAGAACTCATATGAAGAAAGA
131 TGAGAAGAACTCATCTGAAGAAAGA
*
28432 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGTAAATTCATAATGAGAAGAAA
1 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
28497 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
66 TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
28562 TGAGAAGAACTCATCTGAAGAAAGA
131 TGAGAAGAACTCATCTGAAGAAAGA
*
28587 AGAAAAAAGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAA
1 AG-AAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAA
* *
28652 ATTGATCAACCTTTTATTTGAATTTATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATA
65 ATTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATA
28717 ATGAGAAGAACTCATCTGAAG-AAGA
130 ATGAGAAGAACTCATCTGAAGAAAGA
*
28742 AGAAGAAGTTCATAATGAGAAGAACT
1 AGAAAAAGTTCATAATGAGAAGAACT
28768 TGTTCAACTT
Statistics
Matches: 313, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
154 125 0.40
155 44 0.14
156 144 0.46
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.25
Consensus pattern (155 bp):
AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAA
TTGATCAACCTTTTGTTTGAATTCATCATTTGATGGATCAGCATCCCCAGTGAAAGAGTTCATAA
TGAGAAGAACTCATCTGAAGAAAGA
Found at i:28802 original size:114 final size:112
Alignment explanation
Indices: 28594--28893 Score: 395
Period size: 114 Copynumber: 2.6 Consensus size: 112
28584 AGAAGAAAAA
* * * * *
28594 AGTTCATAATGAGAAAAACTCATCTGAAGAAGGAAGAGGAAATTCATAATGAGAAGAAATTGATC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * * * * *
28659 AACCTTTTATTTGAATTTATCATTTGATGGATCAGCATCCCCAGTGAAAG
65 AACCTTTTACTCGAATTCATCACTCGATGGATCAACATCCCCA--GAAAG
28709 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* ** *
28774 A-CTTTTCACTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAG
66 ACCTTTT-ACTCGAATTCATCACTCGATGGATCAACATCCCCAGAAAG
*
28821 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
*
28886 GACCTTTT
65 AACCTTTT
28894 GCATGACTCT
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
112 33 0.20
113 40 0.24
114 62 0.38
115 30 0.18
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (112 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
ACCTTTTACTCGAATTCATCACTCGATGGATCAACATCCCCAGAAAG
Found at i:28963 original size:17 final size:17
Alignment explanation
Indices: 28941--28995 Score: 51
Period size: 17 Copynumber: 3.1 Consensus size: 17
28931 GCATTTCCAA
28941 AAGAACTTCACAATGAG
1 AAGAACTTCACAATGAG
28958 AAGAAC-TCATCTGAA-GAAG
1 AAGAACTTCA-C--AATG-AG
*
28977 AAGAAGTTCACAATGAG
1 AAGAACTTCACAATGAG
28994 AA
1 AA
28996 TAGCTTGCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
16 3 0.10
17 13 0.42
18 2 0.06
19 10 0.32
20 3 0.10
ACGTcount: A:0.49, C:0.15, G:0.20, T:0.16
Consensus pattern (17 bp):
AAGAACTTCACAATGAG
Found at i:29222 original size:3 final size:3
Alignment explanation
Indices: 29214--29286 Score: 58
Period size: 3 Copynumber: 24.0 Consensus size: 3
29204 ATTTATTTAT
* * * * * * *
29214 TTA TTA TTA TTA TTA TAA TAA TTA TAA TAA TTA TAA TCA TTA -CA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
29262 TTA TTA TATA TTA TTA TTA TTA TTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA
29287 AAAAATAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 52 0.90
4 5 0.09
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:30508 original size:15 final size:15
Alignment explanation
Indices: 30463--30510 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
30453 TTTATTTTTG
*
30463 ATTATTTTTTTATATT
1 ATTATATTTTTA-ATT
30479 -TTATA-TTTTAA-T
1 ATTATATTTTTAATT
30491 ATTATATTTTTAATT
1 ATTATATTTTTAATT
30506 ATTAT
1 ATTAT
30511 TTGCAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 1 0.04
13 6 0.21
14 11 0.39
15 10 0.36
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTATATTTTTAATT
Found at i:30523 original size:3 final size:3
Alignment explanation
Indices: 30517--30562 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
30507 TTATTTGCAA
* *
30517 TAT TAT T-T TAT TAT TAT TAT TACT TTT TAT TAT TAT TCT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
30562 T
1 T
30563 TATATAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:30564 original size:19 final size:19
Alignment explanation
Indices: 30517--30565 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
30507 TTATTTGCAA
30517 TATTATTTTATTATTATTAT
1 TATTA-TTTATTATTATTAT
*
30537 TACTT-TTTATTATTATTCT
1 TA-TTATTTATTATTATTAT
30556 TATTATTTAT
1 TATTATTTAT
30566 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 2 0.08
19 20 0.77
20 2 0.08
21 2 0.08
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (19 bp):
TATTATTTATTATTATTAT
Found at i:30780 original size:115 final size:114
Alignment explanation
Indices: 30661--30877 Score: 262
Period size: 116 Copynumber: 1.9 Consensus size: 114
30651 TTAATATATA
* * * * *
30661 TTTATTTATTTTTCAATAT-TAAGAAAGGA-CAGTCTTAAAATAAC-TGGATGTCCATTTTCTGA
1 TTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTT-AAAGAACATAGAAGT-CATTTTCTGA
30723 TATTTT-TAAATAAATAAATATCTTATTTTATAAATTATATAGTAATTGTTTTT
64 T-TTTTCTAAATAAATAAATATCTTA-TTTATAAA-TATATAGTAATTGTTTTT
* * * * *
30776 TTTATTTATTTTTTAATATCAAAGAAAAGAGCTGTCTTAAGGCACATAGAAGTCATTTTCTTATT
1 TTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAGAACATAGAAGTCATTTTCTGATT
*
30841 TTTCTAAATAAATAAATATTTTATTTATAAATATATA
66 TTTCTAAATAAATAAATATCTTATTTATAAATATATA
30878 AATTAATATA
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
114 6 0.07
115 30 0.34
116 40 0.46
117 11 0.13
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.47
Consensus pattern (114 bp):
TTTATTTATTTTTCAATATCAAAGAAAAGAGCAGTCTTAAAGAACATAGAAGTCATTTTCTGATT
TTTCTAAATAAATAAATATCTTATTTATAAATATATAGTAATTGTTTTT
Found at i:36803 original size:19 final size:20
Alignment explanation
Indices: 36781--36822 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
36771 ATGGTATTGG
*
36781 TACCGTAATAGA-GTATCGA
1 TACCATAATAGAGGTATCGA
**
36800 TACCATGGTAGAGGTATCGA
1 TACCATAATAGAGGTATCGA
36820 TAC
1 TAC
36823 TATTGAGCCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (20 bp):
TACCATAATAGAGGTATCGA
Found at i:37233 original size:57 final size:56
Alignment explanation
Indices: 37153--37645 Score: 532
Period size: 57 Copynumber: 8.8 Consensus size: 56
37143 ATGGCACTGA
* *
37153 GTGTGTAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCAGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTTC-GTATGGGCACTTT
* *
37210 GTGTACAAAAAGTTAAGAAATTCATAATTAA-TTTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAA-TAAGTGTATGAA-TTTCGTATGGGCACTTT
* * * *
37267 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTTCGTATAGGAACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAA-TTTCGTATGGGCACTTT
** * *
37324 GTGTGCAAAAACCTAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAA-TTTCGTATGGGCACTTT
* * *
37381 GTGTGCAAAAATTTAAGAAATTCATAATTAGTTTATGAATATTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAAT-TTCGTATGGGCACTTT
* *
37438 GTGTGCAAAAAGTCAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTT-CGTATGGGCACTTT
** * * * * *
37495 GTGCACAAACAA-CTAAGAAATTTATACTAAGTGTATGAATTTATGTATGGGCACTAT
1 GTGTGCAAA-AAGTTAAGAAATTCATAATAAGTGTATGAATTT-CGTATGGGCACTTT
* * * * * * *
37552 GTGT---ACAAGCTAAAAAATTCATACTAAGTGTGTGAATTTACGTATGGGAACTAT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTT-CGTATGGGCACTTT
* * **
37606 ATGTGCAAACA--TAAGAAATTCATAATAAGTGGGTGAATTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTT
37646 TCATATTGGT
Statistics
Matches: 380, Mismatches: 46, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
53 2 0.01
54 44 0.12
55 26 0.07
56 5 0.01
57 294 0.77
58 9 0.02
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.35
Consensus pattern (56 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATAAGTGTATGAATTTCGTATGGGCACTTT
Found at i:37458 original size:171 final size:171
Alignment explanation
Indices: 37166--37645 Score: 600
Period size: 171 Copynumber: 2.8 Consensus size: 171
37156 TGTAAAAAGT
* *
37166 TAAGAAATTCATAATAAGTTTATGAATTTCA-GTATGGGCACTTTGTGTACAAAAAGTTAAGAAA
1 TAAGAAATTCATACTAAGTGTATGAATTT-ATGTATGGGCACTTTGTGTACAAAAAGTTAAGAAA
* *
37230 TTCATAATTAATTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAAGTTAAGAAATTCATAAT
65 TTCATAATTAATTTATGAATATTCGTATGGGCACTTTGTGTGCAAAAAGTCAAGAAATTCATAAT
* * * **
37295 TAGTTTATGAATTTTCGTATAGGAACTTTGTGTGCAAA-AACC
130 AAGTGTATGAATTTCCGTATAGGAACTTTGTGCACAAACAA-C
* * *
37337 TAAGAAATTCATACTAAGTGTATGAATTTTTGTATGGGCACTTTGTGTGCAAAAATTTAAGAAAT
1 TAAGAAATTCATACTAAGTGTATGAATTTATGTATGGGCACTTTGTGTACAAAAAGTTAAGAAAT
* *
37402 TCATAATTAGTTTATGAATATTCGTATGGGCACTTTGTGTGCAAAAAGTCAAGAAATTCATACTA
66 TCATAATTAATTTATGAATATTCGTATGGGCACTTTGTGTGCAAAAAGTCAAGAAATTCATAATA
* *
37467 AGTGTATGAATTTCCGTATGGGCACTTTGTGCACAAACAAC
131 AGTGTATGAATTTCCGTATAGGAACTTTGTGCACAAACAAC
* * * *
37508 TAAGAAATTTATACTAAGTGTATGAATTTATGTATGGGCACTATGTGTAC---AAGCTAAAAAAT
1 TAAGAAATTCATACTAAGTGTATGAATTTATGTATGGGCACTTTGTGTACAAAAAGTTAAGAAAT
* * * * * * *
37570 TCAT-ACTAAGTGTGTGAAT-TTACGTATGGGAACTATATGTGCAAACA-T-AAGAAATTCATAA
66 TCATAATTAA-TTTATGAATATT-CGTATGGGCACTTTGTGTGCAAAAAGTCAAGAAATTCATAA
**
37631 TAAGTGGGTGAATTT
129 TAAGTGTATGAATTT
37646 TCATATTGGT
Statistics
Matches: 271, Mismatches: 34, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
166 25 0.09
167 6 0.02
168 41 0.15
171 197 0.73
172 2 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (171 bp):
TAAGAAATTCATACTAAGTGTATGAATTTATGTATGGGCACTTTGTGTACAAAAAGTTAAGAAAT
TCATAATTAATTTATGAATATTCGTATGGGCACTTTGTGTGCAAAAAGTCAAGAAATTCATAATA
AGTGTATGAATTTCCGTATAGGAACTTTGTGCACAAACAAC
Found at i:39946 original size:28 final size:28
Alignment explanation
Indices: 39906--39960 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
39896 TACATGTATT
*
39906 CATCTTTTGATTTGT-ATTTGTGTTTTTG
1 CATCTTTTGATTT-TCATTTGTATTTTTG
39934 CATCTTTAT-ATTTTCATTTGTATTTTT
1 CATCTTT-TGATTTTCATTTGTATTTTT
39961 AAATTTGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 1 0.04
28 22 0.92
29 1 0.04
ACGTcount: A:0.15, C:0.09, G:0.11, T:0.65
Consensus pattern (28 bp):
CATCTTTTGATTTTCATTTGTATTTTTG
Found at i:41600 original size:169 final size:170
Alignment explanation
Indices: 41301--41638 Score: 570
Period size: 169 Copynumber: 2.0 Consensus size: 170
41291 CAATTCATTT
* * * * * *
41301 CAGAAAGTTTAAGCCTTATAAAGTGTTCTTGAACCTTTCTAAACCTTTAAATCCATCTAGTAACA
1 CAGAAAGTTTAAGACTTAGAAAGTGTTCTTAAACCCTTCTAAACCTTTAAATCAATCTAATAACA
* *
41366 CTTATGCTTGATTCTTGACTAGTTAGAGAAGTTGGAGAAAGCTTCAAAACTAGGGGAAAGGAGAA
66 CTTATGCTTAATTATTGACTAGTTAGAGAAGTTGGAGAAAGCTTCAAAACTAGGGGAAAGGAGAA
41431 GCTCACTCTTGGTTGAACCATGGGTGTTTCCAGTAGCTTC
131 GCTCACTCTTGGTTGAACCATGGGTGTTTCCAGTAGCTTC
*
41471 CAGAAAGTTTAA-ACTTAGGAAGTGTTCTTAAACCCTTCTAAACCTTTAAATCAATCTAATAACA
1 CAGAAAGTTTAAGACTTAGAAAGTGTTCTTAAACCCTTCTAAACCTTTAAATCAATCTAATAACA
*
41535 CTTATGCTTAATTATTGACTAGTTAGAGAAGTTGGAGAAAGCTTCAAAGCTAGGGGAAAGGAGAA
66 CTTATGCTTAATTATTGACTAGTTAGAGAAGTTGGAGAAAGCTTCAAAACTAGGGGAAAGGAGAA
*
41600 GCTCACTCTTGGTTGAACCTTGGGTGTTTCCAGTAGCTT
131 GCTCACTCTTGGTTGAACCATGGGTGTTTCCAGTAGCTT
41639 GGGACATGAA
Statistics
Matches: 157, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
169 145 0.92
170 12 0.08
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (170 bp):
CAGAAAGTTTAAGACTTAGAAAGTGTTCTTAAACCCTTCTAAACCTTTAAATCAATCTAATAACA
CTTATGCTTAATTATTGACTAGTTAGAGAAGTTGGAGAAAGCTTCAAAACTAGGGGAAAGGAGAA
GCTCACTCTTGGTTGAACCATGGGTGTTTCCAGTAGCTTC
Found at i:42717 original size:16 final size:16
Alignment explanation
Indices: 42698--42732 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
42688 CACTTCAGCC
42698 GCCAACTGGCATAGAT
1 GCCAACTGGCATAGAT
42714 GCCAACTGGCATAGAT
1 GCCAACTGGCATAGAT
42730 GCC
1 GCC
42733 CCAAGAATCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.26, T:0.17
Consensus pattern (16 bp):
GCCAACTGGCATAGAT
Found at i:46033 original size:97 final size:97
Alignment explanation
Indices: 45906--46099 Score: 361
Period size: 97 Copynumber: 2.0 Consensus size: 97
45896 AAAAGGAAGA
*
45906 CTGTTTGATGAAGTTGTGCATCAACTACAAGTAATTGAACAAGTTAACTATCAAGAACCATTACC
1 CTGTTCGATGAAGTTGTGCATCAACTACAAGTAATTGAACAAGTTAACTATCAAGAACCATTACC
*
45971 CAATTCCTAGGATAAACGATCTCTTCAATTAT
66 CAATTCCTAGGATAAACAATCTCTTCAATTAT
46003 CTGTTCGATGAAGTTGTGCATCAACTACAAGTAATTGAACAAGTTAACTATCAAGAACCATTACC
1 CTGTTCGATGAAGTTGTGCATCAACTACAAGTAATTGAACAAGTTAACTATCAAGAACCATTACC
*
46068 CAATTTCTAGGATAAACAATCTCTTCAATTAT
66 CAATTCCTAGGATAAACAATCTCTTCAATTAT
46100 ATCTGAGGGG
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
97 94 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (97 bp):
CTGTTCGATGAAGTTGTGCATCAACTACAAGTAATTGAACAAGTTAACTATCAAGAACCATTACC
CAATTCCTAGGATAAACAATCTCTTCAATTAT
Found at i:51919 original size:14 final size:14
Alignment explanation
Indices: 51900--51932 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51890 ATGGAGAGAG
51900 AGAAATAAAA-ATAA
1 AGAAATAAAATA-AA
51914 AGAAATAAAATAAA
1 AGAAATAAAATAAA
51928 AGAAA
1 AGAAA
51933 GGAATAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.94
15 1 0.06
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (14 bp):
AGAAATAAAATAAA
Found at i:51933 original size:18 final size:18
Alignment explanation
Indices: 51902--51946 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
51892 GGAGAGAGAG
*
51902 AAATAAAAATAAAGAAATA
1 AAAT-AAAAGAAAGAAATA
*
51921 AAATAAAAGAAAGGAATA
1 AAATAAAAGAAAGAAATA
*
51939 AAGTAAAA
1 AAATAAAA
51947 ATATTTTCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (18 bp):
AAATAAAAGAAAGAAATA
Found at i:52074 original size:13 final size:13
Alignment explanation
Indices: 52056--52094 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
52046 ATCCAGGAAC
*
52056 AAAATAGAAATAA
1 AAAATAAAAATAA
52069 AAAATAAAAAT-A
1 AAAATAAAAATAA
*
52081 AATATAAAAATAA
1 AAAATAAAAATAA
52094 A
1 A
52095 TTCATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:52077 original size:6 final size:6
Alignment explanation
Indices: 52056--52094 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
52046 ATCCAGGAAC
* *
52056 AAAATA GAAATAA AAAATA AAAATA AATATA AAAATA AA
1 AAAATA AAAAT-A AAAATA AAAATA AAAATA AAAATA AA
52095 TTCATTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
6 23 0.82
7 5 0.18
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Done.