Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_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: 6215474
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 29
Found at i:442 original size:18 final size:18
Alignment explanation
Indices: 416--460 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
406 GTCGATCAGA
416 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
*
434 TGATAGCTCTGGGTGAGG
1 TGATGGCTCTGGGTGAGG
452 TGATGGCTC
1 TGATGGCTC
461 CCGAAGTGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.13, C:0.13, G:0.44, T:0.29
Consensus pattern (18 bp):
TGATGGCTCTGGGTGAGG
Found at i:1825 original size:20 final size:20
Alignment explanation
Indices: 1777--1833 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
1767 AATAGTTTCT
**
1777 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACAC
*
1797 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACAC
**
1817 GAATTTGACTATCGCAA
1 GAAAATGACTATCGCAA
1834 TGAGATAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.18
Consensus pattern (20 bp):
GAAAATGACTATCGCAACAC
Found at i:2125 original size:22 final size:22
Alignment explanation
Indices: 2098--2141 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2088 GATGGAGATA
2098 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
2120 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
2142 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:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:2356 original size:20 final size:20
Alignment explanation
Indices: 2330--2443 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
2320 GATTATGTAT
2330 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2350 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2370 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
2390 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
2411 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
2431 TATCGCATTGCGA
1 TATCGCGTTGCGA
2444 TTTTCCCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:2447 original size:41 final size:41
Alignment explanation
Indices: 2310--2445 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
2300 CGCTTTGAAA
*
2310 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
2351 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * * *
2391 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
2432 ATCGCATTGCGATT
1 ATCGCATTGCGATT
2446 TTCCCAATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.40
41 42 0.54
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:2462 original size:21 final size:21
Alignment explanation
Indices: 2433--2525 Score: 91
Period size: 20 Copynumber: 4.5 Consensus size: 21
2423 ATAGTCAGTA
2433 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
2454 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
*
2474 TCACATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
2495 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
2515 TCGCATTGCGA
1 TCGCATTGCGA
2526 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:2463 original size:41 final size:41
Alignment explanation
Indices: 2372--2506 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
2362 AAAGTCAGTA
* * * ** *
2372 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-GTATT
1 TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* * *
2412 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCACATTGCGATTTTCCCAAT
* **
2454 TCGCGTTGCGAT-TTACTTATTCACATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCACATTGCGATTTTCCCAAT
2495 TCGCGTTGCGAT
1 TCGCGTTGCGAT
2507 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:2507 original size:41 final size:41
Alignment explanation
Indices: 2436--2525 Score: 171
Period size: 41 Copynumber: 2.2 Consensus size: 41
2426 GTCAGTATCG
2436 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
*
2477 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCG
1 CATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTATTCA
2518 CATTGCGA
1 CATTGCGA
2526 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:2803 original size:21 final size:20
Alignment explanation
Indices: 2757--2804 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
2747 CGTTAGAGAT
*
2757 TATAATATTAACATAATAAT
1 TATAATATTAACATAATAAA
* *
2777 TCATAATATTAATATGATAACA
1 T-ATAATATTAACATAATAA-A
2799 TATAAT
1 TATAAT
2805 GATTGATGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 21 0.91
22 1 0.04
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (20 bp):
TATAATATTAACATAATAAA
Found at i:17035 original size:21 final size:22
Alignment explanation
Indices: 16996--17036 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16986 ATTTTTAGAT
16996 GACAAATTTTATGTCTAATTGC
1 GACAAATTTTATGTCTAATTGC
17018 GACAAATGTTT-T-TCTAATT
1 GACAAAT-TTTATGTCTAATT
17037 CACATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 8 0.44
23 3 0.17
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (22 bp):
GACAAATTTTATGTCTAATTGC
Found at i:25868 original size:20 final size:20
Alignment explanation
Indices: 25845--25885 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
25835 GGTCGGTAAC
25845 CAATACCAAGACTGGTACCA
1 CAATACCAAGACTGGTACCA
*
25865 CAATATCAAGACTGGTACCA
1 CAATACCAAGACTGGTACCA
25885 C
1 C
25886 CGCCGATCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.29, G:0.15, T:0.17
Consensus pattern (20 bp):
CAATACCAAGACTGGTACCA
Found at i:29236 original size:11 final size:9
Alignment explanation
Indices: 29230--29271 Score: 59
Period size: 9 Copynumber: 4.6 Consensus size: 9
29220 TAATAATACT
29230 TATATAATA
1 TATATAATA
29239 TATATATATAA
1 TATATA-AT-A
29250 TATATAATA
1 TATATAATA
29259 TATA-AATA
1 TATATAATA
29267 TATAT
1 TATAT
29272 GTTTTTTCGG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.27
9 11 0.37
10 4 0.13
11 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (9 bp):
TATATAATA
Found at i:29241 original size:2 final size:2
Alignment explanation
Indices: 29230--29271 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
29220 TAATAATACT
*
29230 TA TA TA -A TA TA TA TA TA TA -A TA TA TA -A TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29269 TA T
1 TA T
29272 GTTTTTTCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:29242 original size:7 final size:7
Alignment explanation
Indices: 29230--29270 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
29220 TAATAATACT
29230 TATATAA
1 TATATAA
29237 TATAT-A
1 TATATAA
29243 TATATAA
1 TATATAA
29250 TATATAA
1 TATATAA
29257 TATATAAA
1 TATAT-AA
29265 TATATA
1 TATATA
29271 TGTTTTTTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 19 0.59
8 7 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TATATAA
Found at i:29255 original size:20 final size:20
Alignment explanation
Indices: 29230--29268 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
29220 TAATAATACT
*
29230 TATATAATATATATATATAA
1 TATATAATATATAAATATAA
29250 TATATAATATATAAATATA
1 TATATAATATATAAATATA
29269 TATGTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATATAATATATAAATATAA
Found at i:29709 original size:105 final size:105
Alignment explanation
Indices: 29531--30201 Score: 1207
Period size: 105 Copynumber: 6.4 Consensus size: 105
29521 GTATTGTCCC
* *** * * *
29531 GAGTCCAATATCCTCCACCGTGAAGTTGAAACTAGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
* *
29596 CAGTGGTCCCTTCGTCGTGAGGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
29636 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
29701 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
29741 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
*
29806 CAGCGGTCCCTTCGTCGTGAAGCTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
29846 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
*
29911 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
29951 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
*
30016 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
30056 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
30121 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
30161 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
30202 GTAAAACCTG
Statistics
Matches: 547, Mismatches: 19, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 547 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:41937 original size:2 final size:2
Alignment explanation
Indices: 41930--41969 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
41920 GGTAAAATGA
* *
41930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
41970 GTAAATACAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:43180 original size:11 final size:11
Alignment explanation
Indices: 43174--43212 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
43164 TAATAATACT
43174 TATATAATATA
1 TATATAATATA
43185 TATATAATATA
1 TATATAATATA
*
43196 TA-ATATATAAA
1 TATATA-ATATA
43207 TATATA
1 TATATA
43213 TGTTTTTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 3 0.12
11 19 0.76
12 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
TATATAATATA
Found at i:43185 original size:2 final size:2
Alignment explanation
Indices: 43174--43213 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
43164 TAATAATACT
*
43174 TA TA TA -A TA TA TA TA TA -A TA TA TA -A TA TA TA AA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43213 T
1 T
43214 GTTTTTTCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
1 3 0.09
2 30 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:43186 original size:7 final size:7
Alignment explanation
Indices: 43180--43212 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
43170 TACTTATATA
43180 ATAT-AT
1 ATATAAT
43186 ATATAAT
1 ATATAAT
43193 ATATAAT
1 ATATAAT
43200 ATATAAAT
1 ATAT-AAT
43208 ATATA
1 ATATA
43213 TGTTTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 4 0.16
7 14 0.56
8 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATATAAT
Found at i:43197 original size:18 final size:17
Alignment explanation
Indices: 43174--43213 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 17
43164 TAATAATACT
*
43174 TATATAATATATATATAA
1 TATATAATATATAAAT-A
43192 TATATAATATATAAATA
1 TATATAATATATAAATA
43209 TATAT
1 TATAT
43214 GTTTTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATATAATATATAAATA
Found at i:44007 original size:2 final size:2
Alignment explanation
Indices: 44000--44044 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
43990 TTATTATTAT
44000 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
44042 TA T
1 TA T
44045 TAACATGAAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45102 original size:26 final size:26
Alignment explanation
Indices: 45047--45102 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
45037 GGCTGTAAAT
* * * *
45047 GAGACGAGACAGATTGCGAGTTATTT
1 GAGACGAGACAGATCGCGAGCTACTC
*
45073 GAGACGAGATAGATCGCGAGCTACTC
1 GAGACGAGACAGATCGCGAGCTACTC
45099 GAGA
1 GAGA
45103 TTGATTCGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (26 bp):
GAGACGAGACAGATCGCGAGCTACTC
Found at i:47354 original size:18 final size:18
Alignment explanation
Indices: 47331--47365 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47321 TGTATTTTAA
47331 TTAATTACATTTA-AATTT
1 TTAATTA-ATTTATAATTT
47349 TTAATTAATTTATAATT
1 TTAATTAATTTATAATT
47366 ATACGTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAATTAATTTATAATTT
Found at i:47379 original size:22 final size:22
Alignment explanation
Indices: 47354--47395 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
47344 AATTTTTAAT
47354 TAATTTATAA-TTATACGTTTAG
1 TAATTTATAATTTA-ACGTTTAG
47376 TAATTTATAATTTAACGTTT
1 TAATTTATAATTTAACGTTT
47396 TATAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (22 bp):
TAATTTATAATTTAACGTTTAG
Found at i:53929 original size:2 final size:2
Alignment explanation
Indices: 53918--53946 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
53908 ATCTTGCCCC
53918 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53947 TTGTCTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:61009 original size:29 final size:29
Alignment explanation
Indices: 60912--61009 Score: 74
Period size: 29 Copynumber: 3.3 Consensus size: 29
60902 TAGGATGAAA
* * *
60912 TTGGAATGTCCAAAAGGTTTGGGGACCAAT
1 TTGGAATGTTCAAAA-GTTTGAGGACTAAT
* * *
60942 TTAGAATGAATGTC-ATAGTTTGAGGA-TAAAA
1 TTGGAATG--T-TCAAAAGTTTGAGGACT-AAT
*
60973 TTGAAATGTTCAAAAGTTTGAGGACTAAT
1 TTGGAATGTTCAAAAGTTTGAGGACTAAT
61002 TTGGAATG
1 TTGGAATG
61010 ATAGTCATAG
Statistics
Matches: 51, Mismatches: 11, Indels: 13
0.68 0.15 0.17
Matches are distributed among these distances:
28 2 0.04
29 21 0.41
30 8 0.16
31 16 0.31
32 3 0.06
33 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (29 bp):
TTGGAATGTTCAAAAGTTTGAGGACTAAT
Found at i:61034 original size:60 final size:61
Alignment explanation
Indices: 60892--61038 Score: 178
Period size: 60 Copynumber: 2.5 Consensus size: 61
60882 ATTAGTATAT
* *
60892 ATGT-ATAGTTTA-GGATGAAATTGGAATGTCCAAAAGGTTTGGGGACCAATTTAGAATGA
1 ATGTCATAGTTTAGGGATGAAATTGAAATGTCCAAAAGGTTTGAGGACCAATTTAGAATGA
* * * *
60951 ATGTCATAGTTT-GAGGATAAAATTGAAATGTTCAAAA-GTTTGAGGACTAATTTGGAATG-
1 ATGTCATAGTTTAG-GGATGAAATTGAAATGTCCAAAAGGTTTGAGGACCAATTTAGAATGA
*
61010 ATAGTCATAGTTTAGGGGTGAAATTGAAA
1 AT-GTCATAGTTTAGGGATGAAATTGAAA
61039 CATTTAAAAG
Statistics
Matches: 75, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
59 6 0.08
60 48 0.64
61 21 0.28
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (61 bp):
ATGTCATAGTTTAGGGATGAAATTGAAATGTCCAAAAGGTTTGAGGACCAATTTAGAATGA
Found at i:62728 original size:2 final size:2
Alignment explanation
Indices: 62721--62750 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
62711 TAGCTTTCCC
62721 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
62751 TATTTATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64665 original size:20 final size:21
Alignment explanation
Indices: 64629--64774 Score: 87
Period size: 20 Copynumber: 7.3 Consensus size: 21
64619 ATCTGTAAAT
*
64629 CGCAACAGAAAAGTCAAATTC
1 CGCAACACAAAAGTCAAATTC
* * *
64650 C-CAATACGATAGTCAAA-TC
1 CGCAACACAAAAGTCAAATTC
64669 CGCAACACAAAAGTCAAATT-
1 CGCAACACAAAAGTCAAATTC
* * **
64689 CGTAACGCGAATTTGT-AAA-T-
1 CGCAACAC-AA-AAGTCAAATTC
64709 CGCAACA-AAGAAGTCAAATT-
1 CGCAACACAA-AAGTCAAATTC
* * * *
64729 CGCAACGCGATAGCCAAATT-
1 CGCAACACAAAAGTCAAATTC
64749 CGCAACACAAAAGTCAAATT-
1 CGCAACACAAAAGTCAAATTC
64769 CGCAAC
1 CGCAAC
64775 GCGAAACACA
Statistics
Matches: 94, Mismatches: 24, Indels: 15
0.71 0.18 0.11
Matches are distributed among these distances:
18 4 0.04
19 6 0.06
20 74 0.79
21 8 0.09
22 2 0.02
ACGTcount: A:0.44, C:0.25, G:0.14, T:0.17
Consensus pattern (21 bp):
CGCAACACAAAAGTCAAATTC
Found at i:64681 original size:40 final size:39
Alignment explanation
Indices: 64607--64778 Score: 188
Period size: 40 Copynumber: 4.3 Consensus size: 39
64597 GAACTCTAAT
* *
64607 TTCGCAACGCGAATCTGT-AAATCGCAACAGAAAAGTCAAA
1 TTCGCAACGCG-AT-AGTCAAATCGCAACACAAAAGTCAAA
* **
64647 TTCCCAATACGATAGTCAAATCCGCAACACAAAAGTCAAA
1 TTCGCAACGCGATAGTCAAAT-CGCAACACAAAAGTCAAA
* *
64687 TTCGTAACGCGAATTTGT-AAATCGCAACA-AAGAAGTCAAA
1 TTCGCAACGCG-A-TAGTCAAATCGCAACACAA-AAGTCAAA
*
64727 TTCGCAACGCGATAGCCAAATTCGCAACACAAAAGTCAAA
1 TTCGCAACGCGATAGTCAAA-TCGCAACACAAAAGTCAAA
64767 TTCGCAACGCGA
1 TTCGCAACGCGA
64779 AACACAATAT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
38 4 0.04
39 12 0.11
40 85 0.77
41 7 0.06
42 3 0.03
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (39 bp):
TTCGCAACGCGATAGTCAAATCGCAACACAAAAGTCAAA
Found at i:64723 original size:80 final size:80
Alignment explanation
Indices: 64607--64779 Score: 267
Period size: 80 Copynumber: 2.2 Consensus size: 80
64597 GAACTCTAAT
* *
64607 TTCGCAACGCGAATCTGTAAATCGCAACAGAAAAGTCAAATTCCCAATACGATAGTCAAATCCGC
1 TTCGCAACGCGAATCTGTAAATCGCAACAGAAAAGTCAAATTCCCAACACGATAGCCAAATCCGC
64672 AACACAAAAGTCAAA
66 AACACAAAAGTCAAA
* * * * *
64687 TTCGTAACGCGAATTTGTAAATCGCAACA-AAGAAGTCAAATTCGCAACGCGATAGCCAAATTCG
1 TTCGCAACGCGAATCTGTAAATCGCAACAGAA-AAGTCAAATTCCCAACACGATAGCCAAATCCG
64751 CAACACAAAAGTCAAA
65 CAACACAAAAGTCAAA
64767 TTCGCAACGCGAA
1 TTCGCAACGCGAA
64780 ACACAATATT
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
79 2 0.02
80 82 0.98
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (80 bp):
TTCGCAACGCGAATCTGTAAATCGCAACAGAAAAGTCAAATTCCCAACACGATAGCCAAATCCGC
AACACAAAAGTCAAA
Found at i:64915 original size:22 final size:22
Alignment explanation
Indices: 64890--64940 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
64880 CTATGGCGAC
64890 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
**
64912 ATCCGTCCCCATCTCCGGTGAA
1 ATCCGTCCCCATCTCCGACGAA
64934 ATCCGTC
1 ATCCGTC
64941 TATCTCCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.22
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:66798 original size:17 final size:17
Alignment explanation
Indices: 66776--66808 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
66766 ACACCCACAG
66776 AGGCTGAGCTTGCCACC
1 AGGCTGAGCTTGCCACC
66793 AGGCTGAGCTTGCCAC
1 AGGCTGAGCTTGCCAC
66809 TGATTGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.33, G:0.30, T:0.18
Consensus pattern (17 bp):
AGGCTGAGCTTGCCACC
Found at i:67449 original size:69 final size:63
Alignment explanation
Indices: 67376--67547 Score: 204
Period size: 63 Copynumber: 2.6 Consensus size: 63
67366 TGAGGTACAC
*
67376 TTTTTTGCTTGTTTAATTAAATTT-TACATTGAAATTTGATTTGTTTAATTGATGAGGAAATAAG
1 TTTTTTGCTTGTTTAATT-AATTTGT--A---AAAGTTGATTTGTTTAA--GATGAGGAAATAAG
67440 AATTA-
58 AATTAT
* * * *
67445 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTTTAAGATGTGTAAATAATAATTAT
1 TTTTTTGCTTGTTTAATTAATTTGTAAAAGTTGATTTGTTTAAGATGAGGAAATAAGAATTAT
*
67508 TTTTTTGCTTGTTTAATTGATTTGTAAAAGTTGATTTGTT
1 TTTTTTGCTTGTTTAATTAATTTGTAAAAGTTGATTTGTT
67548 GTTTTAAATT
Statistics
Matches: 96, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
62 16 0.17
63 40 0.42
64 16 0.17
67 1 0.01
68 4 0.04
69 19 0.20
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (63 bp):
TTTTTTGCTTGTTTAATTAATTTGTAAAAGTTGATTTGTTTAAGATGAGGAAATAAGAATTAT
Found at i:67510 original size:62 final size:64
Alignment explanation
Indices: 67411--67547 Score: 224
Period size: 63 Copynumber: 2.2 Consensus size: 64
67401 ACATTGAAAT
67411 TTGATTTGTTTAATTGATGAGGAAATAAGAATTA-TTTTTTGCTTGTTTAATTGATTTGTAAAAG
1 TTGATTTGTTTAA-TGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGTAAAAG
* * *
67475 TTGATTTGTTTAA-GATGTGTAAATAATAATTATTTTTTTGCTTGTTTAATTGATTTGTAAAAG
1 TTGATTTGTTTAATGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGTAAAAG
67538 TTGATTTGTT
1 TTGATTTGTT
67548 GTTTTAAATT
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
62 16 0.23
63 40 0.58
64 13 0.19
ACGTcount: A:0.29, C:0.01, G:0.18, T:0.52
Consensus pattern (64 bp):
TTGATTTGTTTAATGATGAGGAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGTAAAAG
Found at i:67997 original size:18 final size:18
Alignment explanation
Indices: 67974--68009 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
67964 AAGCCAGTTG
67974 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
67992 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
68010 CCTTTTGCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:70325 original size:24 final size:24
Alignment explanation
Indices: 70247--70326 Score: 124
Period size: 24 Copynumber: 3.3 Consensus size: 24
70237 CCATCACATC
* *
70247 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAATTCTGGGTATTGACCAAG
* *
70271 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAATTCTGGGTATTGACCAAG
70295 ATCAAATTCTGGGTATTGACCAAG
1 ATCAAATTCTGGGTATTGACCAAG
70319 ATCAAATT
1 ATCAAATT
70327 TCGAATACTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (24 bp):
ATCAAATTCTGGGTATTGACCAAG
Found at i:71287 original size:19 final size:20
Alignment explanation
Indices: 71263--71393 Score: 146
Period size: 19 Copynumber: 6.7 Consensus size: 20
71253 AACTAAAACC
*
71263 TGTTGCGAAATT-AAATTCA
1 TGTTGCGAATTTGAAATTCA
* *
71282 TGTTGCGAATTCGAAAATC-
1 TGTTGCGAATTTGAAATTCA
*
71301 TCGTTGCGAATTTCAAATTCA
1 T-GTTGCGAATTTGAAATTCA
71322 -GTTGCGAATTTGAAATTCA
1 TGTTGCGAATTTGAAATTCA
*
71341 -GTTGTGAATTTGAAATTCA
1 TGTTGCGAATTTGAAATTCA
*
71360 -GTTGCGAATTTGAAATTCCG
1 TGTTGCGAATTTGAAATT-CA
*
71380 CGTTGCGAATTTGA
1 TGTTGCGAATTTGA
71394 CTTCTGTGTT
Statistics
Matches: 97, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
19 63 0.65
20 21 0.22
21 13 0.13
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.37
Consensus pattern (20 bp):
TGTTGCGAATTTGAAATTCA
Found at i:71406 original size:20 final size:20
Alignment explanation
Indices: 71360--71496 Score: 104
Period size: 20 Copynumber: 6.8 Consensus size: 20
71350 TTGAAATTCA
* *
71360 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTG-ACTTCTGC
*
71381 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGC
*
71401 GTTGCG-A-TTCACAAATT-TGC
1 GTTGCGAATTTGAC---TTCTGC
*
71421 GTTGCGAATTTGACTATC-AC
1 GTTGCGAATTTGACT-TCTGC
* * *
71441 GTTGCGAATTTAACTTTTGT
1 GTTGCGAATTTGACTTCTGC
71461 GTTGCGAATTTGACTATC-GC
1 GTTGCGAATTTGACT-TCTGC
*
71481 GTTGAGAATTTGACTT
1 GTTGCGAATTTGACTT
71497 TCGTGTTGCG
Statistics
Matches: 92, Mismatches: 15, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
18 4 0.04
19 4 0.04
20 64 0.70
21 16 0.17
22 4 0.04
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (20 bp):
GTTGCGAATTTGACTTCTGC
Found at i:71445 original size:40 final size:40
Alignment explanation
Indices: 71360--71490 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 40
71350 TTGAAATTCA
** * *
71360 GTTGCGAATTTGAAATTCCGCGTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTCAAAATT-TGCGTTGCGAATTTGACTATC-GC
*
71401 GTTGCG-ATTCACAAATTTGCGTTGCGAATTTGACTATCAC
1 GTTGCGAATTCA-AAATTTGCGTTGCGAATTTGACTATCGC
* ** *
71441 GTTGCGAATTTAACTTTTGTGTTGCGAATTTGACTATCGC
1 GTTGCGAATTCAAAATTTGCGTTGCGAATTTGACTATCGC
*
71481 GTTGAGAATT
1 GTTGCGAATT
71491 TGACTTTCGT
Statistics
Matches: 76, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 59 0.78
41 17 0.22
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (40 bp):
GTTGCGAATTCAAAATTTGCGTTGCGAATTTGACTATCGC
Found at i:71483 original size:60 final size:60
Alignment explanation
Indices: 71380--71495 Score: 146
Period size: 60 Copynumber: 1.9 Consensus size: 60
71370 TGAAATTCCG
* * *
71380 CGTTGCGAATTTGACTTCTGTGTTGCGATTCACAAATTTGCGTTGCGAATTTGACTATCA
1 CGTTGCGAATTTAACTTCTGTGTTGCGATTCACAAATTCGCGTTGAGAATTTGACTATCA
* * *
71440 CGTTGCGAATTTAACTTTTGTGTTGCGAATTTGAC-TA-TCGCGTTGAGAATTTGACT
1 CGTTGCGAATTTAACTTCTGTGTTGCG-A-TTCACAAATTCGCGTTGAGAATTTGACT
71496 TTCGTGTTGC
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
60 42 0.88
61 2 0.04
62 4 0.08
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.40
Consensus pattern (60 bp):
CGTTGCGAATTTAACTTCTGTGTTGCGATTCACAAATTCGCGTTGAGAATTTGACTATCA
Found at i:71491 original size:40 final size:40
Alignment explanation
Indices: 71416--71507 Score: 139
Period size: 40 Copynumber: 2.3 Consensus size: 40
71406 GATTCACAAA
* *
71416 TTTGCGTTGCGAATTTGACTATCACGTTGCGAATTTAACT
1 TTTGTGTTGCGAATTTGACTATCACGTTGAGAATTTAACT
* *
71456 TTTGTGTTGCGAATTTGACTATCGCGTTGAGAATTTGACT
1 TTTGTGTTGCGAATTTGACTATCACGTTGAGAATTTAACT
*
71496 TTCGTGTTGCGA
1 TTTGTGTTGCGA
71508 TTTAGGGATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.20, C:0.15, G:0.24, T:0.41
Consensus pattern (40 bp):
TTTGTGTTGCGAATTTGACTATCACGTTGAGAATTTAACT
Found at i:71504 original size:20 final size:20
Alignment explanation
Indices: 71419--71507 Score: 106
Period size: 20 Copynumber: 4.5 Consensus size: 20
71409 TCACAAATTT
71419 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTATC
* * * *
71439 ACGTTGCGAATTTAACTTTT
1 GCGTTGCGAATTTGACTATC
*
71459 GTGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTATC
* *
71479 GCGTTGAGAATTTGACTTTC
1 GCGTTGCGAATTTGACTATC
*
71499 GTGTTGCGA
1 GCGTTGCGA
71508 TTTAGGGATT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTATC
Found at i:71813 original size:14 final size:15
Alignment explanation
Indices: 71782--71818 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
71772 ATATATTAGT
71782 TAAAAT-TTTAAAAG
1 TAAAATATTTAAAAG
*
71796 TAAACTATTTAAAA-
1 TAAAATATTTAAAAG
71810 TAAAATATT
1 TAAAATATT
71819 AATTATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (15 bp):
TAAAATATTTAAAAG
Found at i:73319 original size:17 final size:17
Alignment explanation
Indices: 73297--73334 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
73287 TTATAAAAAT
73297 TTTAAAT-TTTTATATAA
1 TTTAAATATTTT-TATAA
*
73314 TTTAAATATTTTTATAT
1 TTTAAATATTTTTATAA
73331 TTTA
1 TTTA
73335 TATTGATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTAAATATTTTTATAA
Found at i:79501 original size:20 final size:22
Alignment explanation
Indices: 79471--79510 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
79461 AAATAATAGT
79471 GAAAATGAAAT-AATAAAAAAA
1 GAAAATGAAATAAATAAAAAAA
79492 GAAAAT-AAATAAATAAAAA
1 GAAAATGAAATAAATAAAAA
79511 CATACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (22 bp):
GAAAATGAAATAAATAAAAAAA
Found at i:79520 original size:24 final size:24
Alignment explanation
Indices: 79485--79558 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
79475 ATGAAATAAT
*
79485 AAAAAAA-GAAAATAAATAA-ATA
1 AAAAAAACTAAAATAAATAACATA
* * *
79507 AAAACATACTAAAATTAAA-AAGAGA
1 AAAA-AAACTAAAA-TAAATAACATA
79532 AAAAAAACTAAAATAAAATAACATA
1 AAAAAAACTAAAAT-AAATAACATA
79557 AA
1 AA
79559 GTTAAAGGGA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
22 4 0.10
23 3 0.08
24 17 0.43
25 16 0.40
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (24 bp):
AAAAAAACTAAAATAAATAACATA
Found at i:80695 original size:7 final size:7
Alignment explanation
Indices: 80679--80721 Score: 54
Period size: 6 Copynumber: 6.1 Consensus size: 7
80669 CCTGGACCAC
80679 AAAAAT-
1 AAAAATA
80685 AAAAAT-
1 AAAAATA
80691 AAAAATAA
1 AAAAAT-A
80699 AAACAATA
1 AAA-AATA
80707 AAAAATA
1 AAAAATA
80714 AAAAATA
1 AAAAATA
80721 A
1 A
80722 TTATAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 12 0.35
7 12 0.35
8 7 0.21
9 3 0.09
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAATA
Found at i:80718 original size:17 final size:17
Alignment explanation
Indices: 80691--80732 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
80681 AAATAAAAAT
80691 AAAAAT-AAAAACAATA
1 AAAAATAAAAAACAATA
* *
80707 AAAAATAAAAAATAATT
1 AAAAATAAAAAACAATA
*
80724 ATAAATAAA
1 AAAAATAAA
80733 TAATTATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (17 bp):
AAAAATAAAAAACAATA
Found at i:80733 original size:14 final size:13
Alignment explanation
Indices: 80711--80741 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
80701 ACAATAAAAA
80711 ATAAAAAATAATT
1 ATAAAAAATAATT
80724 ATAAATAAATAATT
1 ATAAA-AAATAATT
80738 ATAA
1 ATAA
80742 TATATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAAAAAATAATT
Found at i:80907 original size:37 final size:37
Alignment explanation
Indices: 80748--81115 Score: 462
Period size: 37 Copynumber: 9.9 Consensus size: 37
80738 ATAATATATA
** *
80748 TTTTCAAAAACATTTTAAAACTATATATTATAT-A-T
1 TTTTCAAAATGATTTCAAAACTATATATTATATAAGT
* *
80783 TTTTTAAAATGTTTTCAAAACTATATATTATATAA--
1 TTTTCAAAATGATTTCAAAACTATATATTATATAAGT
* *
80818 TTTTCAAAAATGATTTTTTAAAACTGTATATTATATAAG-
1 TTTTC-AAAATGA--TTTCAAAACTATATATTATATAAGT
*
80857 TTTTCAAAATGATTTCAAAACAATATATTATATAAGT
1 TTTTCAAAATGATTTCAAAACTATATATTATATAAGT
80894 TTTTCAAAATGATTTCAAAACTATATATTATATAAGT
1 TTTTCAAAATGATTTCAAAACTATATATTATATAAGT
*
80931 TTTTAAAAATGATTTCAAAACTATATATTATATAAGT
1 TTTTCAAAATGATTTCAAAACTATATATTATATAAGT
*
80968 TTTTCAATATGATTTCAAAACTATATATTATATAAGT
1 TTTTCAAAATGATTTCAAAACTATATATTATATAAGT
* * *
81005 TTTTTAAAATGTTTTCAAAAACTATATATTATATATATT
1 TTTTCAAAATGATTTC-AAAACTATATATTATATA-AGT
* *
81044 TTTTCAAAATGTTTTCAAAAACTATATATTACAT-A-T
1 TTTTCAAAATGATTTC-AAAACTATATATTATATAAGT
* *
81080 ATTTTCAAAATGTTTTCAAAAACTATATAATATATA
1 -TTTTCAAAATGATTTC-AAAACTATATATTATATA
81116 CATTTTCAAA
Statistics
Matches: 299, Mismatches: 24, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
35 32 0.11
36 29 0.10
37 153 0.51
38 46 0.15
39 39 0.13
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTCAAAATGATTTCAAAACTATATATTATATAAGT
Found at i:81149 original size:15 final size:15
Alignment explanation
Indices: 81117--81162 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
81107 TAATATATAC
81117 ATTTTC-AAAAAT-T
1 ATTTTCAAAAAATAT
*
81130 GTTTTCTAAAAAA-AT
1 ATTTTC-AAAAAATAT
81145 ATTTTCAAAAAATAT
1 ATTTTCAAAAAATAT
81160 ATT
1 ATT
81163 ATATTATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 5 0.19
14 6 0.22
15 16 0.59
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (15 bp):
ATTTTCAAAAAATAT
Found at i:81154 original size:13 final size:13
Alignment explanation
Indices: 81117--81159 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
81107 TAATATATAC
*
81117 ATTTTCAAAAATT
1 ATTTTCAAAAAAT
*
81130 GTTTTCTAAAAAAAT
1 ATTTTC--AAAAAAT
81145 ATTTTCAAAAAAT
1 ATTTTCAAAAAAT
81158 AT
1 AT
81160 ATTATATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 14 0.56
15 11 0.44
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (13 bp):
ATTTTCAAAAAAT
Found at i:81629 original size:20 final size:20
Alignment explanation
Indices: 81604--81668 Score: 94
Period size: 20 Copynumber: 3.2 Consensus size: 20
81594 AACCAGATTG
* *
81604 CCCAGAGGGAACAGATTCCC
1 CCCAGAGGGTACCGATTCCC
81624 CCCAGAGGGTACCGATTCCC
1 CCCAGAGGGTACCGATTCCC
* *
81644 CTCAGGGGGTACCGATTCCC
1 CCCAGAGGGTACCGATTCCC
81664 CCCAG
1 CCCAG
81669 GTTTTTAGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.22, C:0.38, G:0.26, T:0.14
Consensus pattern (20 bp):
CCCAGAGGGTACCGATTCCC
Found at i:89975 original size:21 final size:21
Alignment explanation
Indices: 89949--89990 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
89939 TGAAATTTTG
*
89949 GTGCATCGATGCACTGTAGCA
1 GTGCATCGATGCAATGTAGCA
89970 GTGCATCGATGCAATGTAGCA
1 GTGCATCGATGCAATGTAGCA
89991 CTGTTCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (21 bp):
GTGCATCGATGCAATGTAGCA
Found at i:92578 original size:19 final size:20
Alignment explanation
Indices: 92539--92578 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
92529 TAAGTTTTAA
*
92539 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
92559 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
92578 T
1 T
92579 CGATTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:92831 original size:35 final size:36
Alignment explanation
Indices: 92772--92843 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
92762 ATTGCCCAGA
92772 GGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCC
1 GGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCC
* * *
92808 GGGAACATATTCCCCCTCA-GGGGTACTGATTCCCC
1 GGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCC
92843 G
1 G
92844 CAGGTTTTTG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 16 0.48
36 17 0.52
ACGTcount: A:0.19, C:0.36, G:0.26, T:0.18
Consensus pattern (36 bp):
GGGAACAGATTCCCCCCCAGGGGGTACCGATTCCCC
Found at i:94180 original size:10 final size:10
Alignment explanation
Indices: 94165--94230 Score: 51
Period size: 10 Copynumber: 5.9 Consensus size: 10
94155 GTGTTTGTGT
94165 TGTTCGTTTA
1 TGTTCGTTTA
94175 TGTTCGTTTA
1 TGTTCGTTTA
94185 TTGTGTTCGTTTA
1 ---TGTTCGTTTA
**
94198 TGTTCATTCGTTCG
1 TG----TTCGTTTA
94212 TGTTCGTTTA
1 TGTTCGTTTA
94222 TGTTCGTTT
1 TGTTCGTTT
94231 TATTATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
10 27 0.60
13 10 0.22
14 8 0.18
ACGTcount: A:0.08, C:0.12, G:0.21, T:0.59
Consensus pattern (10 bp):
TGTTCGTTTA
Found at i:96874 original size:29 final size:28
Alignment explanation
Indices: 96827--96883 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 28
96817 CACAGCAGCC
96827 ACCGTATCCACGACTTACATACCGTAGT
1 ACCGTATCCACGACTTACATACCGTAGT
96855 ACCGTATCCAACGACTTACATACCGTAGT
1 ACCGTATCC-ACGACTTACATACCGTAGT
96884 CATATATGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.25
Consensus pattern (28 bp):
ACCGTATCCACGACTTACATACCGTAGT
Found at i:99739 original size:68 final size:68
Alignment explanation
Indices: 99665--99872 Score: 164
Period size: 68 Copynumber: 3.1 Consensus size: 68
99655 TTACAAACAC
99665 AAAAATTAATTGAAAATAATTAGTATAATATTTTTTCAAATAATCATAATAAAATATAAGTAAAA
1 AAAAATTAATTGAAAATAATTAGTATAATATTTTTTCAAATAATCATAATAAAATATAAGTAAAA
99730 TAA
66 TAA
* * * *** * ** * * ** *
99733 AAAAATT-A-T-AAAAAAAATACCT-T-ATATTTCGACATATGCTCCCGCT-TTCCAAT-T--TT
1 AAAAATTAATTGAAAATAATTA-GTATAATATTTTTTCAAATAAT--C-ATAATAAAATATAAGT
* *
99789 ACAAACAC
62 A-AAATAA
99797 AAAAATTAATTGAAAATAATTAGTATAATATTTTTTCAAATAATCATAATAAAATATAAGTAAAA
1 AAAAATTAATTGAAAATAATTAGTATAATATTTTTTCAAATAATCATAATAAAATATAAGTAAAA
99862 TAA
66 TAA
99865 AAAAATTA
1 AAAAATTA
99873 TAAAAAAAAT
Statistics
Matches: 94, Mismatches: 32, Indels: 28
0.61 0.21 0.18
Matches are distributed among these distances:
63 2 0.02
64 22 0.23
65 12 0.13
66 14 0.15
67 12 0.13
68 30 0.32
69 2 0.02
ACGTcount: A:0.53, C:0.09, G:0.04, T:0.34
Consensus pattern (68 bp):
AAAAATTAATTGAAAATAATTAGTATAATATTTTTTCAAATAATCATAATAAAATATAAGTAAAA
TAA
Found at i:99794 original size:132 final size:133
Alignment explanation
Indices: 99626--99890 Score: 523
Period size: 132 Copynumber: 2.0 Consensus size: 133
99616 CGCAAAACTT
99626 TTTCGACATATGCTCCCGCTTTTCCAATTTTACAAACACAAAAATTAATTGAAAATAATTAGTAT
1 TTTCGACATATGCTCCCGCTTTTCCAATTTTACAAACACAAAAATTAATTGAAAATAATTAGTAT
99691 AATATTTTTTCAAATAATCATAATAAAATATAAGTAAAATAAAAAAATTATAAAAAAAATACCTT
66 AATATTTTTTCAAATAATCATAATAAAATATAAGTAAAATAAAAAAATTATAAAAAAAATACCTT
99756 ATA
131 ATA
99759 TTTCGACATATGCTCCCGC-TTTCCAATTTTACAAACACAAAAATTAATTGAAAATAATTAGTAT
1 TTTCGACATATGCTCCCGCTTTTCCAATTTTACAAACACAAAAATTAATTGAAAATAATTAGTAT
99823 AATATTTTTTCAAATAATCATAATAAAATATAAGTAAAATAAAAAAATTATAAAAAAAATACCTT
66 AATATTTTTTCAAATAATCATAATAAAATATAAGTAAAATAAAAAAATTATAAAAAAAATACCTT
99888 ATA
131 ATA
99891 ACGAAAAATC
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
132 113 0.86
133 19 0.14
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.34
Consensus pattern (133 bp):
TTTCGACATATGCTCCCGCTTTTCCAATTTTACAAACACAAAAATTAATTGAAAATAATTAGTAT
AATATTTTTTCAAATAATCATAATAAAATATAAGTAAAATAAAAAAATTATAAAAAAAATACCTT
ATA
Found at i:101311 original size:10 final size:10
Alignment explanation
Indices: 101296--101321 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
101286 ACATTTTTTA
101296 AAATATATTT
1 AAATATATTT
101306 AAATATATTT
1 AAATATATTT
101316 AAATAT
1 AAATAT
101322 TTACTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AAATATATTT
Found at i:101854 original size:35 final size:35
Alignment explanation
Indices: 101792--101883 Score: 125
Period size: 35 Copynumber: 2.7 Consensus size: 35
101782 TTATAAGGCT
*
101792 TATTTATAGTACTAA-AAAAC-CTATTTTAGACTAG
1 TATTTA-AGTACTAATCAAACTCTATTTTAGACTAG
*
101826 TATTTGAGTACTAATCAAACTCTATTTTAGACTAG
1 TATTTAAGTACTAATCAAACTCTATTTTAGACTAG
* *
101861 TATTTAAGTCCTAATCCAACTCT
1 TATTTAAGTACTAATCAAACTCT
101884 TCTTTTTTGG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
33 8 0.16
34 9 0.18
35 34 0.67
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (35 bp):
TATTTAAGTACTAATCAAACTCTATTTTAGACTAG
Found at i:102024 original size:18 final size:17
Alignment explanation
Indices: 101976--102032 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
101966 ATATTTTAAA
*
101976 TATATTTGATTTATTTTT
1 TATATTTGA-ATATTTTT
*
101994 TAT-TTT-AACATTTTT
1 TATATTTGAATATTTTT
102009 TAATATTTGAATA-TTTT
1 T-ATATTTGAATATTTTT
102026 TATATTT
1 TATATTT
102033 TAATTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
15 7 0.21
16 9 0.27
17 11 0.33
18 6 0.18
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (17 bp):
TATATTTGAATATTTTT
Found at i:108305 original size:2 final size:2
Alignment explanation
Indices: 108298--108325 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
108288 ATTGATGTGA
108298 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
108326 CTTCCCCTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111297 original size:13 final size:13
Alignment explanation
Indices: 111279--111303 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111269 ATATTTAAAA
111279 ATATAATAAAATC
1 ATATAATAAAATC
111292 ATATAATAAAAT
1 ATATAATAAAAT
111304 ATTAAAAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAATAAAATC
Found at i:111953 original size:35 final size:36
Alignment explanation
Indices: 111907--111987 Score: 137
Period size: 35 Copynumber: 2.3 Consensus size: 36
111897 AACACAATCA
*
111907 TCAATTACATTCTAAACCCCAAATTCC-AAAATGCT
1 TCAATTACATTCTAAACCCCAAATTCCAAAAATACT
*
111942 TCAATTACATTCTAAACCTCAAATTCCAAAAATACT
1 TCAATTACATTCTAAACCCCAAATTCCAAAAATACT
111978 TCAATTACAT
1 TCAATTACAT
111988 GCCCAACCTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
35 26 0.60
36 17 0.40
ACGTcount: A:0.42, C:0.26, G:0.01, T:0.31
Consensus pattern (36 bp):
TCAATTACATTCTAAACCCCAAATTCCAAAAATACT
Found at i:111981 original size:36 final size:35
Alignment explanation
Indices: 111907--112003 Score: 140
Period size: 36 Copynumber: 2.7 Consensus size: 35
111897 AACACAATCA
* *
111907 TCAATTACATTCTAAACCCCAAATTCCAAAATGCT
1 TCAATTACATTCTAAACCTCAAATTCCAAAATACT
111942 TCAATTACATTCTAAACCTCAAATTCCAAAAATACT
1 TCAATTACATTCTAAACCTCAAATTCC-AAAATACT
* **
111978 TCAATTACATGCCCAACCTCAAATTC
1 TCAATTACATTCTAAACCTCAAATTC
112004 ATAATCCATT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 26 0.46
36 30 0.54
ACGTcount: A:0.40, C:0.29, G:0.02, T:0.29
Consensus pattern (35 bp):
TCAATTACATTCTAAACCTCAAATTCCAAAATACT
Found at i:112565 original size:148 final size:148
Alignment explanation
Indices: 112292--112584 Score: 514
Period size: 148 Copynumber: 2.0 Consensus size: 148
112282 AAACTATTTA
* *
112292 AATTAGAATCAAATAATATTATAGTATTATAAATATTTATAATTAAATTAAAACAGAAACTCAAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTAAAACAGAAACTCAAA
112357 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCAACT
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCAACT
112422 ATTTTATAAACTGAAATG
131 ATTTTATAAACTGAAATG
* * *
112440 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACATAAACTCGAA
1 AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTAAAACAGAAACTCAAA
* * *
112505 AATTTAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAGATTTTGAGTCAACT
66 AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCAACT
112570 ATTTTATAAACTGAA
131 ATTTTATAAACTGAA
112585 TTGAGTATTT
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
148 137 1.00
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (148 bp):
AATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTAAAACAGAAACTCAAA
AATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAAATTTCGAGTCAACT
ATTTTATAAACTGAAATG
Found at i:112798 original size:35 final size:35
Alignment explanation
Indices: 112759--112835 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
112749 GGTTGGCATA
*
112759 TAATTGGAGTATTTTAGAATTTGAGGTTTAGAATG
1 TAATTGAAGTATTTTAGAATTTGAGGTTTAGAATG
* * *
112794 TAATTGAAGTATTTTGGATTTTGGGGTTTAGAATG
1 TAATTGAAGTATTTTAGAATTTGAGGTTTAGAATG
112829 TAATTGA
1 TAATTGA
112836 CGAATGTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (35 bp):
TAATTGAAGTATTTTAGAATTTGAGGTTTAGAATG
Found at i:113332 original size:35 final size:35
Alignment explanation
Indices: 113266--113368 Score: 118
Period size: 35 Copynumber: 2.9 Consensus size: 35
113256 TTTATATACG
*
113266 TCTGATAACTGTAAAA-CATTTGATAACTATAAACA
1 TCTGATAACTG-AAAATCATATGATAACTATAAACA
* * * *
113301 TCTGGTATCTGAAAATCATCTGATAACTATAAATA
1 TCTGATAACTGAAAATCATATGATAACTATAAACA
* * *
113336 TTTTATAACTGAAAATCATATGATAACTGTAAA
1 TCTGATAACTGAAAATCATATGATAACTATAAA
113369 TATCATATTT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 4 0.07
35 53 0.93
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.34
Consensus pattern (35 bp):
TCTGATAACTGAAAATCATATGATAACTATAAACA
Found at i:113369 original size:18 final size:18
Alignment explanation
Indices: 113266--113369 Score: 95
Period size: 18 Copynumber: 5.9 Consensus size: 18
113256 TTTATATACG
*
113266 TCTGATAACTGTAAAACA
1 TCTGATAACTGTAAATCA
* *
113284 TTTGATAACTATAAA-CA
1 TCTGATAACTGTAAATCA
* * *
113301 TCTGGTATCTGAAAATCA
1 TCTGATAACTGTAAATCA
*
113319 TCTGATAACTATAAAT-A
1 TCTGATAACTGTAAATCA
* * *
113336 TTTTATAACTGAAAATCA
1 TCTGATAACTGTAAATCA
*
113354 TATGATAACTGTAAAT
1 TCTGATAACTGTAAAT
113370 ATCATATTTG
Statistics
Matches: 66, Mismatches: 18, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
17 25 0.38
18 41 0.62
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (18 bp):
TCTGATAACTGTAAATCA
Found at i:113373 original size:20 final size:20
Alignment explanation
Indices: 113315--113376 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 20
113305 GTATCTGAAA
* *
113315 ATCATCTGATAACTATAAAT
1 ATCATATGATAACTGTAAAT
*
113335 AT--T-TTATAACTG-AAA-
1 ATCATATGATAACTGTAAAT
113350 ATCATATGATAACTGTAAAT
1 ATCATATGATAACTGTAAAT
113370 ATCATAT
1 ATCATAT
113377 TTGGGCAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
15 2 0.06
16 3 0.09
17 8 0.24
18 9 0.26
19 3 0.09
20 9 0.26
ACGTcount: A:0.45, C:0.11, G:0.06, T:0.37
Consensus pattern (20 bp):
ATCATATGATAACTGTAAAT
Found at i:120027 original size:2 final size:2
Alignment explanation
Indices: 120020--120046 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
120010 GACCAGATCA
120020 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 A
120047 AAAGAGACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:120935 original size:40 final size:39
Alignment explanation
Indices: 120858--120935 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
120848 TTAATATAAA
* *
120858 ATTTTGCGTCTTCCATATTATTATTACCCTCAAATAAGT
1 ATTTTGCGTCTTACATATTATTACTACCCTCAAATAAGT
* * *
120897 ATTTTGCGTCTGTACATGTTATTACTACCGTCAGATAAG
1 ATTTTGCGTCT-TACATATTATTACTACCCTCAAATAAG
120936 GTACTAAAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 11 0.33
40 22 0.67
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (39 bp):
ATTTTGCGTCTTACATATTATTACTACCCTCAAATAAGT
Found at i:129809 original size:26 final size:26
Alignment explanation
Indices: 129778--129838 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
129768 GTTGTATTCT
129778 TCTCCTCAATGCTTGACAATACTTCA
1 TCTCCTCAATGCTTGACAATACTTCA
129804 TCTCCTCAATGCTTGACAATACTTCA
1 TCTCCTCAATGCTTGACAATACTTCA
129830 TCTCCTCAA
1 TCTCCTCAA
129839 GATGACCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.34
Consensus pattern (26 bp):
TCTCCTCAATGCTTGACAATACTTCA
Found at i:131455 original size:4 final size:4
Alignment explanation
Indices: 131448--131489 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
131438 GCTCTTATAT
131448 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
131490 GTATATAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:135475 original size:19 final size:21
Alignment explanation
Indices: 135439--135500 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 21
135429 GATTTATGGC
135439 ATTAAATTTAATTA-AAATTTT
1 ATTAAA-TTAATTATAAATTTT
135460 ATTAAA-TAA-TATAAATATTT
1 ATTAAATTAATTATAAAT-TTT
*
135480 -TTAAATTAATTATAATTTTT
1 ATTAAATTAATTATAAATTTT
135500 A
1 A
135501 AATTTTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
19 12 0.34
20 9 0.26
21 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTAAATTAATTATAAATTTT
Found at i:136079 original size:11 final size:10
Alignment explanation
Indices: 136038--136079 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
136028 TATATTTTCA
136038 ATAAAAATAT
1 ATAAAAATAT
*
136048 AAAGAAAATAT
1 ATA-AAAATAT
136059 AT-AAAATAT
1 ATAAAAATAT
136068 ATAAAAAGTAT
1 ATAAAAA-TAT
136079 A
1 A
136080 ATTTTTTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
9 9 0.33
10 6 0.22
11 12 0.44
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:139926 original size:20 final size:20
Alignment explanation
Indices: 139901--139953 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
139891 TATTCTTTGG
*
139901 TAATCTTACATTTCCACTGA
1 TAATCTTACATTCCCACTGA
*
139921 TAATCTTACATTCCCACTGG
1 TAATCTTACATTCCCACTGA
*
139941 TATTCTTACATTC
1 TAATCTTACATTC
139954 TGTGAACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.06, T:0.42
Consensus pattern (20 bp):
TAATCTTACATTCCCACTGA
Found at i:141469 original size:15 final size:15
Alignment explanation
Indices: 141436--141469 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
141426 TTTTATTCTT
* *
141436 TTATATATTTTTAAT
1 TTATATATTTTAAAC
141451 TTATATATTTTAAAC
1 TTATATATTTTAAAC
141466 TTAT
1 TTAT
141470 TAGGAACGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATATTTTAAAC
Found at i:141534 original size:6 final size:6
Alignment explanation
Indices: 141523--141547 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
141513 TCCCTTTAAA
141523 TAAATT TAAATT TAAATT TAAATT T
1 TAAATT TAAATT TAAATT TAAATT T
141548 TGTCAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAAATT
Found at i:141701 original size:26 final size:27
Alignment explanation
Indices: 141652--141706 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
141642 TTCGGTTCGG
* * *
141652 TTCGGTTTGGCTTTAAACGGTTCAGTT
1 TTCGGTTCGGCTTTAAAAGCTTCAGTT
*
141679 TTCGGTTCGG-TTTAAAAGCTTCATTT
1 TTCGGTTCGGCTTTAAAAGCTTCAGTT
141705 TT
1 TT
141707 TTGATTCGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.16, C:0.15, G:0.22, T:0.47
Consensus pattern (27 bp):
TTCGGTTCGGCTTTAAAAGCTTCAGTT
Found at i:141842 original size:18 final size:19
Alignment explanation
Indices: 141819--141855 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
141809 TTCATTGAAA
141819 AACCGAAAAAC-CGAACCG
1 AACCGAAAAACTCGAACCG
141837 AACCGAAAAACTCGAACCG
1 AACCGAAAAACTCGAACCG
141856 TTAAAAAACC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.49, C:0.32, G:0.16, T:0.03
Consensus pattern (19 bp):
AACCGAAAAACTCGAACCG
Found at i:141875 original size:22 final size:21
Alignment explanation
Indices: 141844--141885 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
141834 CCGAACCGAA
141844 AAACTCGAACCGTTAAAAAACCC
1 AAACTCGAACCG--AAAAAACCC
141867 AAAC-CGAACCGAAAAAACC
1 AAACTCGAACCGAAAAAACC
141886 GATTTCGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.52, C:0.31, G:0.10, T:0.07
Consensus pattern (21 bp):
AAACTCGAACCGAAAAAACCC
Found at i:151531 original size:63 final size:63
Alignment explanation
Indices: 151432--151558 Score: 236
Period size: 63 Copynumber: 2.0 Consensus size: 63
151422 TTACGAATAG
*
151432 CGACCGACAGATTTGGACATCAAGACATTAAACCAAAACCTCAGAGTAGAGGAAAAGTAATTT
1 CGACCGACAGATTTGCACATCAAGACATTAAACCAAAACCTCAGAGTAGAGGAAAAGTAATTT
*
151495 CGACCGACAGATTTGCACATCAAGATATTAAACCAAAACCTCAGAGTAGAGGAAAAGTAATTT
1 CGACCGACAGATTTGCACATCAAGACATTAAACCAAAACCTCAGAGTAGAGGAAAAGTAATTT
151558 C
1 C
151559 CATGTCAAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.20
Consensus pattern (63 bp):
CGACCGACAGATTTGCACATCAAGACATTAAACCAAAACCTCAGAGTAGAGGAAAAGTAATTT
Found at i:154446 original size:22 final size:22
Alignment explanation
Indices: 154418--154472 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
154408 TCGGGTATTT
154418 GAGTTGCAAAATTGGCGAATTC
1 GAGTTGCAAAATTGGCGAATTC
*
154440 GAGTTGCGAAATTGGCGAATTC
1 GAGTTGCAAAATTGGCGAATTC
154462 GAGTTGCAAAA
1 GAGTTGCAAAA
154473 ATTTCCATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
GAGTTGCAAAATTGGCGAATTC
Found at i:154550 original size:20 final size:20
Alignment explanation
Indices: 154414--154577 Score: 88
Period size: 22 Copynumber: 8.0 Consensus size: 20
154404 TATATCGGGT
*
154414 ATTT-GAGTTGCAAAATTGGCG
1 ATTTCGAGTTGCGAAATT--CG
*
154435 AATTCGAGTTGCGAAATTGGCG
1 ATTTCGAGTTGCGAAATT--CG
* * *
154457 AATTCGAGTTGCAAAAATTTCC
1 ATTTCGAGTTGC-GAAA-TTCG
*
154479 ATGTTCGAGTTGCG-AATTCT
1 AT-TTCGAGTTGCGAAATTCG
* *
154499 ACTTCTGTGTTGCG-AATTCGG
1 ATTTC-GAGTTGCGAAATTC-G
* * *
154520 AAATT-GCGTTGCGAAATTGG
1 -ATTTCGAGTTGCGAAATTCG
154540 ATTTCGAGTTGCG-AATTCG
1 ATTTCGAGTTGCGAAATTCG
*
154559 ATTTCGAGATGCG-AATTCG
1 ATTTCGAGTTGCGAAATTCG
154578 TTGGTTATTT
Statistics
Matches: 117, Mismatches: 17, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
19 29 0.25
20 31 0.26
21 9 0.08
22 33 0.28
23 13 0.11
24 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.34
Consensus pattern (20 bp):
ATTTCGAGTTGCGAAATTCG
Found at i:154561 original size:19 final size:19
Alignment explanation
Indices: 154482--154577 Score: 86
Period size: 19 Copynumber: 4.9 Consensus size: 19
154472 AATTTCCATG
* *
154482 TTCGAGTTGCGAATTCTAC
1 TTCGAGTTGCGAATTCGAT
* *
154501 TTCTGTGTTGCGAATTCGGAAA
1 TTC-GAGTTGCGAATTC-G-AT
* *
154523 TT-GCGTTGCGAAATTGGAT
1 TTCGAGTTGCG-AATTCGAT
154542 TTCGAGTTGCGAATTCGAT
1 TTCGAGTTGCGAATTCGAT
*
154561 TTCGAGATGCGAATTCG
1 TTCGAGTTGCGAATTCG
154578 TTGGTTATTT
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
19 29 0.46
20 27 0.43
21 4 0.06
22 3 0.05
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (19 bp):
TTCGAGTTGCGAATTCGAT
Found at i:155226 original size:189 final size:192
Alignment explanation
Indices: 154906--155287 Score: 743
Period size: 189 Copynumber: 2.0 Consensus size: 192
154896 TATCATTTAA
154906 CTCATTGCTCTTAGATAATGTGCCAACAATGCATATACCACTAGTTCAGGTACCCTACATAGAAC
1 CTCATTGCTCTTAGATAATGTGCCAACAATGCATATACCACTAGTTCAGGTACCCTACATAGAAC
154971 ACTTACCGTGTGCGATATGAAGACATTCCCTGTTGAGTTTACAGTATCTAAAAGTTCATGGTTCA
66 ACTTACCGTGTGCGATATGAAGACATTCCCTGTTGAGTTTACAGTATCTAAAAGTTCATGGTTCA
155036 ATTTGTTGCCATGATC-TCATCATTAGGAGGCAGAAAACGGAATC-AACTAATG-AAATATC
131 ATTTGTTGCCATGATCTTCATCATTAGGAGGCAGAAAACGGAATCAAACTAATGAAAATATC
155095 CTCATTGCTCTTAGATAATGTGCCAACAATGCATATACCACTAGTTCAGGTACCCTACATAGAAC
1 CTCATTGCTCTTAGATAATGTGCCAACAATGCATATACCACTAGTTCAGGTACCCTACATAGAAC
155160 ACTTACCGTGTGCGATATGAAGACATTCCCTGTTGAGTTTACAGTATCTAAAAGTTCATGGTTCA
66 ACTTACCGTGTGCGATATGAAGACATTCCCTGTTGAGTTTACAGTATCTAAAAGTTCATGGTTCA
155225 ATTTGTTGCCATGATCTTCATCATTAGGAGGCAGAAAACGGAATCAAACTAATGAAAATATC
131 ATTTGTTGCCATGATCTTCATCATTAGGAGGCAGAAAACGGAATCAAACTAATGAAAATATC
155287 C
1 C
155288 GAGGGACGAC
Statistics
Matches: 190, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
189 146 0.77
190 28 0.15
191 8 0.04
192 8 0.04
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (192 bp):
CTCATTGCTCTTAGATAATGTGCCAACAATGCATATACCACTAGTTCAGGTACCCTACATAGAAC
ACTTACCGTGTGCGATATGAAGACATTCCCTGTTGAGTTTACAGTATCTAAAAGTTCATGGTTCA
ATTTGTTGCCATGATCTTCATCATTAGGAGGCAGAAAACGGAATCAAACTAATGAAAATATC
Found at i:156896 original size:7 final size:7
Alignment explanation
Indices: 156884--156946 Score: 65
Period size: 7 Copynumber: 8.6 Consensus size: 7
156874 ATACTTGAAG
156884 AAAAGAA
1 AAAAGAA
156891 AAAAGAA
1 AAAAGAA
156898 GAAAA-AA
1 -AAAAGAA
*
156905 GAAAAGGA
1 -AAAAGAA
156913 AAAAGAAA
1 AAAAG-AA
*
156921 AAAAGGA
1 AAAAGAA
156928 AAAAGAA
1 AAAAGAA
156935 AGAAAGAA
1 A-AAAGAA
156943 AAAA
1 AAAA
156947 ATAATAATAG
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
7 30 0.62
8 18 0.38
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:156900 original size:15 final size:15
Alignment explanation
Indices: 156880--156946 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
156870 TATTATACTT
156880 GAAGAAAAGAAAAAA
1 GAAGAAAAGAAAAAA
156895 GAAGAAAA-AAGAAAA
1 GAAGAAAAGAA-AAAA
*
156910 GGA-AAAAGAAAAAA
1 GAAGAAAAGAAAAAA
*
156924 -AGGAAAAAGAAAGAAA
1 GAAG-AAAAGAAA-AAA
156940 GAA-AAAA
1 GAAGAAAA
156947 ATAATAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
14 10 0.24
15 28 0.67
16 3 0.07
17 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
GAAGAAAAGAAAAAA
Found at i:156906 original size:22 final size:21
Alignment explanation
Indices: 156881--156947 Score: 89
Period size: 22 Copynumber: 3.0 Consensus size: 21
156871 ATTATACTTG
156881 AAGAAAAGAAAAAAGAAGAAAA
1 AAGAAAAGAAAAAAGAA-AAAA
*
156903 AAGAAAAGGAAAAAGAAAAAA
1 AAGAAAAGAAAAAAGAAAAAA
*
156924 AGGAAAAAGAAAGAAAGAAAAAA
1 AAG-AAAAGAAA-AAAGAAAAAA
156947 A
1 A
156948 TAATAATAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 6 0.15
22 23 0.57
23 11 0.28
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (21 bp):
AAGAAAAGAAAAAAGAAAAAA
Found at i:158039 original size:122 final size:122
Alignment explanation
Indices: 157815--158390 Score: 983
Period size: 122 Copynumber: 4.7 Consensus size: 122
157805 CACTCGATGG
*
157815 ATCAACATTGTCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
157880 ATGAGAAGAACTTTTCAACCTTTCGCTTGATTTTATCACAGAAGGAGATAGATCAAC
66 ATGAGAAGAACTTTTCAACCTTTCACTTGATTCTATCACAGAAGGAGATAGATCAAC
*
157937 ATAAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* * *
158002 ATGAGAAGAATTTTTCAACCTTTCGCTTGATTCTATCACAGAAGAAGATAGATCAAC
66 ATGAGAAGAACTTTTCAACCTTTCACTTGATTCTATCACAGAAGGAGATAGATCAAC
* *
158059 ATCAACATTGCCAGGAAGAGTTCATAATGAGAA-AATATCATCTGAAGAGGAAGAATAAGTTCAT
1 ATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAA-CTCATCTGAAGAGGAAGAAGAAGTTCAT
*
158123 AATGAGAAGAACTTTTCAACCTTTCACTTGATTCTATCACAGAAGGAGATAGATCAGC
65 AATGAGAAGAACTTTTCAACCTTTCACTTGATTCTATCACAGAAGGAGATAGATCAAC
158181 ATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
1 ATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
* *
158246 ATGAGAAGAACTTTTCAACCTTTCACTTGATTTTATCACAGAAGGAGATAGATCAGC
66 ATGAGAAGAACTTTTCAACCTTTCACTTGATTCTATCACAGAAGGAGATAGATCAAC
* * *
158303 ATCAACATTACCAGGAAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAATTTCATA
1 ATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
*
158368 ATGAGAAGAACTTGTTTAACCTT
66 ATGAGAAGAACTT-TTCAACCTT
158391 GTCTTAATTC
Statistics
Matches: 432, Mismatches: 19, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
121 2 0.00
122 420 0.97
123 10 0.02
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.25
Consensus pattern (122 bp):
ATCAACATTGCCAGGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATA
ATGAGAAGAACTTTTCAACCTTTCACTTGATTCTATCACAGAAGGAGATAGATCAAC
Found at i:159990 original size:9 final size:9
Alignment explanation
Indices: 159976--160008 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
159966 TATCTTATGA
159976 TAATTAATT
1 TAATTAATT
159985 TAATTAATT
1 TAATTAATT
*
159994 TTA-TAATT
1 TAATTAATT
160002 TAATTAA
1 TAATTAA
160009 AGAATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TAATTAATT
Found at i:160118 original size:23 final size:22
Alignment explanation
Indices: 160066--160118 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
160056 CCTTTTTTTG
* *
160066 ATATTT-TAAAATAATAAATAT
1 ATATTTATAAAAAAATAAAAAT
*
160087 ATTACTTATAAAAAAACTAAAAAT
1 A-TATTTATAAAAAAA-TAAAAAT
160111 ATATTTAT
1 ATATTTAT
160119 TTAATTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 1 0.04
22 4 0.16
23 13 0.52
24 7 0.28
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
ATATTTATAAAAAAATAAAAAT
Found at i:164889 original size:18 final size:17
Alignment explanation
Indices: 164850--164892 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
164840 ATTATATGTA
164850 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
164866 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
164884 TATTATTAT
1 TATTATTAT
164893 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:164987 original size:51 final size:57
Alignment explanation
Indices: 164898--165016 Score: 133
Period size: 53 Copynumber: 2.2 Consensus size: 57
164888 ATTATATGTA
* * * * * * *
164898 TATATATATATATTTAATTATTTTCATTTGATTTTTTAC-TAT-ATTTTATTATTAT
1 TATATATATATATATAATTATTTTCATTTAATATTTTACTTATAAGTCTAATATTAC
164953 TATATATATATATAT-A-TA-TTTC-TTTAATATTTTACTTATAAGTCTAATATTAC
1 TATATATATATATATAATTATTTTCATTTAATATTTTACTTATAAGTCTAATATTAC
165006 TATATATATAT
1 TATATATATAT
165017 TAATTTATCT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
51 11 0.20
52 7 0.13
53 22 0.40
54 1 0.02
55 14 0.25
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (57 bp):
TATATATATATATATAATTATTTTCATTTAATATTTTACTTATAAGTCTAATATTAC
Found at i:165155 original size:8 final size:8
Alignment explanation
Indices: 165142--165170 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
165132 GTAATATATC
165142 TTATAACT
1 TTATAACT
165150 TTATAACT
1 TTATAACT
165158 TTATAACT
1 TTATAACT
165166 TTATA
1 TTATA
165171 TTATTTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (8 bp):
TTATAACT
Found at i:168034 original size:8 final size:8
Alignment explanation
Indices: 168021--168059 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
168011 GAACATTTCA
*
168021 TGCATTCT
1 TGCATTTT
168029 TGCA-TTT
1 TGCATTTT
168036 TGCATTTT
1 TGCATTTT
*
168044 TGCCTTTT
1 TGCATTTT
168052 TGCATTTT
1 TGCATTTT
168060 CATCTACAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.10, C:0.18, G:0.13, T:0.59
Consensus pattern (8 bp):
TGCATTTT
Found at i:169256 original size:9 final size:9
Alignment explanation
Indices: 169244--169294 Score: 57
Period size: 9 Copynumber: 5.3 Consensus size: 9
169234 TAAAAAGGGC
169244 AAAAAGAAA
1 AAAAAGAAA
169253 AAAAAGCAAAAA
1 AAAAAG---AAA
*
169265 AAAAAGCAA
1 AAAAAGAAA
*
169274 AAAAAGAAC
1 AAAAAGAAA
169283 AAAAAGAAA
1 AAAAAGAAA
169292 AAA
1 AAA
169295 GAAAAAGGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
9 26 0.74
12 9 0.26
ACGTcount: A:0.84, C:0.06, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAAGAAA
Found at i:169256 original size:18 final size:16
Alignment explanation
Indices: 169242--169300 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
169232 AATAAAAAGG
169242 GCAAAAAGAAAAAAAA
1 GCAAAAAGAAAAAAAA
*
169258 GCAAAAA-AAAAAGCAA
1 GCAAAAAGAAAAA-AAA
*
169274 --AAAAAGAACAAAAA
1 GCAAAAAGAAAAAAAA
*
169288 GAAAAAAGAAAAA
1 GCAAAAAGAAAAA
169301 GGGACAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 7 0.20
15 9 0.26
16 19 0.54
ACGTcount: A:0.81, C:0.07, G:0.12, T:0.00
Consensus pattern (16 bp):
GCAAAAAGAAAAAAAA
Found at i:169269 original size:30 final size:31
Alignment explanation
Indices: 169235--169310 Score: 91
Period size: 30 Copynumber: 2.5 Consensus size: 31
169225 TAATCAGAAT
*
169235 AAAAAGGGCAAAAAGAAAAAAAAGCAAAAA-
1 AAAAAGGGCAAAAAGAAAAAAAAGAAAAAAG
*** *
169265 AAAAAGCAAAAAAAGAACAAAAAGAAAAAAG
1 AAAAAGGGCAAAAAGAAAAAAAAGAAAAAAG
169296 AAAAAGGGACAAAAA
1 AAAAAGGG-CAAAAA
169311 ACACATGCAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
30 25 0.69
31 6 0.17
32 5 0.14
ACGTcount: A:0.78, C:0.07, G:0.16, T:0.00
Consensus pattern (31 bp):
AAAAAGGGCAAAAAGAAAAAAAAGAAAAAAG
Found at i:169299 original size:12 final size:12
Alignment explanation
Indices: 169250--169293 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
169240 GGGCAAAAAG
169250 AAAAAAAAGCAA
1 AAAAAAAAGCAA
169262 AAAAAAAAGCAA
1 AAAAAAAAGCAA
*
169274 AAAAAGAA-CAA
1 AAAAAAAAGCAA
169285 AAAGAAAAA
1 AAA-AAAAA
169294 AGAAAAAGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
11 6 0.21
12 23 0.79
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGCAA
Found at i:169927 original size:22 final size:22
Alignment explanation
Indices: 169899--169942 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
169889 AGCTACCCCA
169899 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
169921 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
169943 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:170955 original size:36 final size:36
Alignment explanation
Indices: 170908--171095 Score: 149
Period size: 36 Copynumber: 5.4 Consensus size: 36
170898 ATTGAAAACA
* *
170908 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
170944 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
* * *
170973 TTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * *
171009 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
171046 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* *
171082 TTACTCTTGAAACA
1 TTTCCCTTGAAACA
171096 CAAAATCTTC
Statistics
Matches: 121, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
28 3 0.02
29 19 0.16
30 2 0.02
35 1 0.01
36 63 0.52
37 33 0.27
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:170968 original size:65 final size:65
Alignment explanation
Indices: 170859--171012 Score: 195
Period size: 65 Copynumber: 2.4 Consensus size: 65
170849 TTAAACCAAG
* *
170859 ATTT-GTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAA
1 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
* * * ** * *
170923 ATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACA-AAATATTTGAATATGTTTTCTTTGAAACA
1 ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACATAAACA-TTGAAAACATTTCCCTTGAAACA
170987 A
65 A
*
170988 ATTTCGTCTCCCTTGAGACAGTTTC
1 ATTTCGTCTCTCTTGAGACAGTTTC
171013 TTTTGGAACT
Statistics
Matches: 77, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 8 0.10
65 69 0.90
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (65 bp):
ATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACATAAACATTGAAAACATTTCCCTTGAAACAA
Found at i:171040 original size:37 final size:36
Alignment explanation
Indices: 170974--171095 Score: 165
Period size: 36 Copynumber: 3.4 Consensus size: 36
170964 TTGAATATGT
*
170974 TTTCT-TTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * * *
171009 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
*
171046 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
171082 TTACTCTTGAAACA
1 TTTCTCTTGAAACA
171096 CAAAATCTTC
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
35 5 0.07
36 39 0.52
37 31 0.41
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:171929 original size:105 final size:105
Alignment explanation
Indices: 171768--172322 Score: 877
Period size: 105 Copynumber: 5.3 Consensus size: 105
171758 GCCATCCGCG
* * * *
171768 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
* * *
171833 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGATCCA
63 GGGACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
171876 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
171941 ACCGCTGCTTGTCAACAACAACTTCCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
171981 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
172046 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGGGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
*
172086 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
172151 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGGGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
172191 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * **
172256 ACCGTTGCTTGTCAACAA-AA-TT-TC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
* *
172291 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
172323 TGAACAATGC
Statistics
Matches: 426, Mismatches: 21, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
100 36 0.08
101 2 0.00
102 1 0.00
103 2 0.00
104 2 0.00
105 358 0.84
106 3 0.01
108 22 0.05
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
Found at i:173513 original size:18 final size:17
Alignment explanation
Indices: 173474--173516 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
173464 ATTATATGGA
173474 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
173490 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
173508 TATTATTAT
1 TATTATTAT
173517 ATGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:178337 original size:27 final size:26
Alignment explanation
Indices: 178294--178376 Score: 76
Period size: 32 Copynumber: 2.9 Consensus size: 26
178284 AAATAATAAT
*
178294 ACGAAACAAATGAGAATGAGACGAATG
1 ACGAAACAAGTG-GAATGAGACGAATG
178321 ACGAAACAAGTAGGAATGAGACAAAACGAATG
1 ACGAAACAAGT-GGAATGAG-----ACGAATG
*
178353 ACGAAACAAGTGGGTATGAGACGA
1 ACGAAACAAGT-GGAATGAGACGA
178377 GACGAGTGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
27 21 0.45
28 1 0.02
32 25 0.53
ACGTcount: A:0.49, C:0.12, G:0.28, T:0.11
Consensus pattern (26 bp):
ACGAAACAAGTGGAATGAGACGAATG
Found at i:178339 original size:18 final size:18
Alignment explanation
Indices: 178314--178363 Score: 54
Period size: 14 Copynumber: 3.0 Consensus size: 18
178304 TGAGAATGAG
178314 ACGAATGACGAAACAAGT
1 ACGAATGACGAAACAAGT
* *
178332 AGGAATGA-G--ACAA-A
1 ACGAATGACGAAACAAGT
178346 ACGAATGACGAAACAAGT
1 ACGAATGACGAAACAAGT
178364 GGGTATGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 8
0.67 0.11 0.22
Matches are distributed among these distances:
14 7 0.29
15 5 0.21
17 5 0.21
18 7 0.29
ACGTcount: A:0.52, C:0.14, G:0.24, T:0.10
Consensus pattern (18 bp):
ACGAATGACGAAACAAGT
Found at i:178352 original size:32 final size:32
Alignment explanation
Indices: 178314--178374 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
178304 TGAGAATGAG
178314 ACGAATGACGAAACAAGTAGGAATGAGACAAA
1 ACGAATGACGAAACAAGTAGGAATGAGACAAA
* *
178346 ACGAATGACGAAACAAGTGGGTATGAGAC
1 ACGAATGACGAAACAAGTAGGAATGAGAC
178375 GAGACGAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.28, T:0.11
Consensus pattern (32 bp):
ACGAATGACGAAACAAGTAGGAATGAGACAAA
Found at i:178717 original size:2 final size:2
Alignment explanation
Indices: 178710--178736 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
178700 TGCCCCAACA
178710 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 A
178737 AGAATCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:184055 original size:22 final size:23
Alignment explanation
Indices: 184019--184061 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
184009 ACTGACATAT
*
184019 AAATATTATTATTATTATTATTA
1 AAATATTATTATTATGATTATTA
*
184042 AAATATT-TTTTTATGATTAT
1 AAATATTATTATTATGATTAT
184062 ATAATAGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
AAATATTATTATTATGATTATTA
Found at i:186513 original size:2 final size:2
Alignment explanation
Indices: 186506--186536 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
186496 TTTAATTTCT
186506 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
186537 TTAAAAAATA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:194203 original size:4 final size:4
Alignment explanation
Indices: 194194--194219 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
194184 ATGTTAACAG
194194 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
194220 AAAAACAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:195528 original size:12 final size:12
Alignment explanation
Indices: 195508--195546 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
195498 GCTCTAGTTA
195508 AAGAAGATGAAG
1 AAGAAGATGAAG
*
195520 AAGATGATGAAG
1 AAGAAGATGAAG
* *
195532 AAGACGATGGAG
1 AAGAAGATGAAG
195544 AAG
1 AAG
195547 CATCAGGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.51, C:0.03, G:0.36, T:0.10
Consensus pattern (12 bp):
AAGAAGATGAAG
Found at i:197280 original size:22 final size:21
Alignment explanation
Indices: 197222--197280 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
197212 GTCATATGAC
* *
197222 ATTT-TAAATTTATTTAAAAT
1 ATTTATAAAATTAATTAAAAT
**
197242 ATTCTATAAAAAAAATTAAAATT
1 ATT-TATAAAATTAATTAAAA-T
197265 ATTTATAAAATTAATT
1 ATTTATAAAATTAATT
197281 TTTAAAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 3 0.10
21 1 0.03
22 22 0.73
23 4 0.13
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTTATAAAATTAATTAAAAT
Done.