Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003800.1 Hibiscus syriacus cultivar Beakdansim tig00008128_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: 147164
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:4042 original size:41 final size:41
Alignment explanation
Indices: 3993--4194 Score: 221
Period size: 41 Copynumber: 4.9 Consensus size: 41
3983 GTTTTTTCCT
* * *
3993 CAAACGCCGCAATAGTGATAATCAATAGTTGCAGTTTTAGA
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTTAGA
*
4034 CAAACGCCGCAATAGTGTTACTCAATAGTGGCATTTTTAGA
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTTAGA
*** * * *
4075 CAAAACATTGCAATA-TAGTTAATCACTACTGGCCTTTTTAGA
1 C-AAACGCCGCAATAGT-GTTAATCAATAGTGGCATTTTTAGA
* *
4117 CAAACGTCGTAATAGTGTTAATCAATAGTGGCATTTTTTA-A
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCA-TTTTTAGA
* * *
4158 CAAACGCCACAATAAT-ATAATCAATAGTGGCATTTTT
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTT
4195 TTGTATAAAC
Statistics
Matches: 135, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 5 0.04
40 15 0.11
41 76 0.56
42 39 0.29
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (41 bp):
CAAACGCCGCAATAGTGTTAATCAATAGTGGCATTTTTAGA
Found at i:4208 original size:83 final size:81
Alignment explanation
Indices: 3993--4194 Score: 228
Period size: 83 Copynumber: 2.5 Consensus size: 81
3983 GTTTTTTCCT
* * * * *
3993 CAAACGCCGCAATAGTGATAATCAATAGTTGCAGTTTTAGACAAACGCCGCAATAGTGTTACTCA
1 CAAACGCCGCAATAAT-ATAATCAATAGTGGCATTTTTAGACAAACGTCGCAATAGTGTTAATCA
4058 ATAGTGGCATTTTTAGA
65 ATAGTGGCATTTTTAGA
*** * * * *
4075 CAAAACATTGCAAT-ATAGTTAATCACTACTGGCCTTTTTAGACAAACGTCGTAATAGTGTTAAT
1 C-AAACGCCGCAATAATA--TAATCAATAGTGGCATTTTTAGACAAACGTCGCAATAGTGTTAAT
4139 CAATAGTGGCATTTTTTA-A
63 CAATAGTGGCA-TTTTTAGA
*
4158 CAAACGCCACAATAATATAATCAATAGTGGCATTTTT
1 CAAACGCCGCAATAATATAATCAATAGTGGCATTTTT
4195 TTGTATAAAC
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
81 18 0.19
82 10 0.10
83 62 0.65
84 6 0.06
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (81 bp):
CAAACGCCGCAATAATATAATCAATAGTGGCATTTTTAGACAAACGTCGCAATAGTGTTAATCAA
TAGTGGCATTTTTAGA
Found at i:5504 original size:43 final size:43
Alignment explanation
Indices: 5445--5544 Score: 155
Period size: 43 Copynumber: 2.3 Consensus size: 43
5435 CGTTTTTTTA
*
5445 CAAACGCCGCAATAGGTACAATATTTAGTGGCGTTTTTCGCAT
1 CAAACGCCGCAATAGGTACAATATTTAGTGGCGTTTTTCGCAC
* * * *
5488 CAAATGCCGCATTAGGTATAATATTTAGTGGCGTTTTTTGCAC
1 CAAACGCCGCAATAGGTACAATATTTAGTGGCGTTTTTCGCAC
5531 CAAACGCCGCAATA
1 CAAACGCCGCAATA
5545 TTTGGGGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (43 bp):
CAAACGCCGCAATAGGTACAATATTTAGTGGCGTTTTTCGCAC
Found at i:13457 original size:21 final size:21
Alignment explanation
Indices: 13433--13485 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
13423 CGGAAAATAA
*
13433 AGCAAGGGAAGCAGAGAGAGC
1 AGCAACGGAAGCAGAGAGAGC
**
13454 AGCAACGGAAGCAGCTAGAGC
1 AGCAACGGAAGCAGAGAGAGC
*
13475 AGCAGCGGAAG
1 AGCAACGGAAG
13486 TAGACAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.40, T:0.02
Consensus pattern (21 bp):
AGCAACGGAAGCAGAGAGAGC
Found at i:13920 original size:45 final size:44
Alignment explanation
Indices: 13861--13958 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 44
13851 TAAAAAAAAT
*
13861 GCCGCAATATACCATACATTTAGCGGCATTTTGTATACTAGAAAC
1 GCCGTAATATACCATACATTTAGCGGCATTTT-TATACTAGAAAC
* *
13906 GCCGTAATATACCATACATTTAGCGGCGTTTTTATACTATAAAC
1 GCCGTAATATACCATACATTTAGCGGCATTTTTATACTAGAAAC
13950 GCCGCTAAT
1 GCCG-TAAT
13959 TCTCAACTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
44 15 0.31
45 34 0.69
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (44 bp):
GCCGTAATATACCATACATTTAGCGGCATTTTTATACTAGAAAC
Found at i:18088 original size:20 final size:20
Alignment explanation
Indices: 18063--18129 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
18053 TCTTATTGAT
18063 GAAAGTGTACGCAAATGGAA
1 GAAAGTGTACGCAAATGGAA
* ** * *
18083 GAAAGTCT-CGGGTCTTATTGAT
1 GAAAGTGTAC--G-CAAATGGAA
18105 GAAAGTGTACGCAAATGGAA
1 GAAAGTGTACGCAAATGGAA
18125 GAAAG
1 GAAAG
18130 ATATTGTTAT
Statistics
Matches: 33, Mismatches: 10, Indels: 8
0.65 0.20 0.16
Matches are distributed among these distances:
19 1 0.03
20 17 0.52
21 2 0.06
22 12 0.36
23 1 0.03
ACGTcount: A:0.39, C:0.10, G:0.30, T:0.21
Consensus pattern (20 bp):
GAAAGTGTACGCAAATGGAA
Found at i:18104 original size:42 final size:42
Alignment explanation
Indices: 18045--18129 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
18035 TTTGATTAGC
18045 GTCTCGGGTCTTATTGATGAAAGTGTACGCAAATGGAAGAAA
1 GTCTCGGGTCTTATTGATGAAAGTGTACGCAAATGGAAGAAA
18087 GTCTCGGGTCTTATTGATGAAAGTGTACGCAAATGGAAGAAA
1 GTCTCGGGTCTTATTGATGAAAGTGTACGCAAATGGAAGAAA
18129 G
1 G
18130 ATATTGTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (42 bp):
GTCTCGGGTCTTATTGATGAAAGTGTACGCAAATGGAAGAAA
Found at i:19418 original size:2 final size:2
Alignment explanation
Indices: 19407--19630 Score: 112
Period size: 2 Copynumber: 112.0 Consensus size: 2
19397 TTGAAACTAT
*
19407 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA GTT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * *
19448 TA TA TT TA TA T- TA T- TA TA TA CTA TA TA TA T- TA TG TA TA AA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* * * *
19488 CTA TA TA GTT TA T- TA -A TA TA AA CTA TA TA GTG TA TA TA TA AA
1 -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* * *
19530 CTA TA TA TA T- TA TA TA TA TA AA CTA TA TA GTT TA TA TT TA TA
1 -TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
* * *
19572 T- TA T- TA TA TA CTA TA TA TA AA CTA TG TA TA TA T- TA TG TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
* *
19613 GA CTA TA TA -A CA TA TA TA
1 TA -TA TA TA TA TA TA TA TA
19631 AATTATAGAA
Statistics
Matches: 167, Mismatches: 31, Indels: 48
0.68 0.13 0.20
Matches are distributed among these distances:
1 12 0.07
2 141 0.84
3 14 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:19502 original size:42 final size:42
Alignment explanation
Indices: 19448--19596 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 42
19438 TATTATAGTT
* * * *
19448 TATATTTA-TATTATTATATACTATATA-TATTATGTATAAAC
1 TATATATATTATTATTATAAACTATATAGT-GTATATATAAAC
*
19489 TATATAGT-TTATTAATATAAACTATATAGTGTATATATAAAC
1 TATATA-TATTATTATTATAAACTATATAGTGTATATATAAAC
* * * *
19531 TATATATATTA-TATATATAAACTATATAGTTTATATTTATAT
1 TATATATATTATTAT-TATAAACTATATAGTGTATATATAAAC
*
19573 TAT-TATA-TACTATATATAAACTAT
1 TATATATATTATTAT-TATAAACTAT
19597 GTATATATTA
Statistics
Matches: 92, Mismatches: 10, Indels: 12
0.81 0.09 0.11
Matches are distributed among these distances:
40 2 0.02
41 26 0.28
42 63 0.68
43 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (42 bp):
TATATATATTATTATTATAAACTATATAGTGTATATATAAAC
Found at i:19621 original size:114 final size:115
Alignment explanation
Indices: 19416--19630 Score: 287
Period size: 114 Copynumber: 1.9 Consensus size: 115
19406 TTATAATATA
* *
19416 TATATATATATATATATATATATATTATAGTTTATATTTATATTATTATATACTATATATATTAT
1 TATATATATATATATATATAAATATTATAGTTTATATTTATATTATTATATACTATATATACTAT
** *
19481 GTATAAACTATATAGTTTATTAATATAA-ACTATATAGTGTATATATAAAC
66 GTATAAACTATATAGTAGACTAATATAACA-TATATAGTGTATATATAAAC
19531 TATATATAT-TATATATATAAACTA-TATAGTTTATATTTATATTATTATATACTATATATAAAC
1 TATATATATATATATATATAAA-TATTATAGTTTATATTTATATTATTATATACTATATAT--AC
* * *
19594 TATGTATATATTATGTA-TAGACT-ATATAACATATATA
63 TATGTATAAACTATATAGTAGACTAATATAACATATATA
19631 AATTATAGAA
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
114 58 0.66
115 15 0.17
116 15 0.17
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (115 bp):
TATATATATATATATATATAAATATTATAGTTTATATTTATATTATTATATACTATATATACTAT
GTATAAACTATATAGTAGACTAATATAACATATATAGTGTATATATAAAC
Found at i:19849 original size:2 final size:2
Alignment explanation
Indices: 19844--19914 Score: 55
Period size: 2 Copynumber: 37.0 Consensus size: 2
19834 AGTATATAAG
*
19844 TA TA TA -A TA TA TA TA TA TA TA TA -A CTA TA TA TA CA 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
*
19885 -A TA -A TA TA AA GTA TA -A GTA T- TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA
19915 GTACAATTAC
Statistics
Matches: 56, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
1 6 0.11
2 47 0.84
3 3 0.05
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (2 bp):
TA
Found at i:19850 original size:17 final size:17
Alignment explanation
Indices: 19844--19914 Score: 78
Period size: 18 Copynumber: 4.2 Consensus size: 17
19834 AGTATATAAG
19844 TATATAATATATATATA
1 TATATAATATATATATA
*
19861 TATATAACTATATATACA
1 TATATAA-TATATATATA
19879 TATATAATA-ATATA-A
1 TATATAATATATATATA
19894 -AGTATAAGTAT-TATATA
1 TA-TATAA-TATATATATA
19911 TATA
1 TATA
19915 GTACAATTAC
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
14 1 0.02
15 6 0.13
16 11 0.23
17 12 0.26
18 17 0.36
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (17 bp):
TATATAATATATATATA
Found at i:20216 original size:22 final size:22
Alignment explanation
Indices: 20191--20238 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
20181 ATAATACAAT
20191 TATA-AAGACTAAAGTATATAAG
1 TATACAAGA-TAAAGTATATAAG
*
20213 TATACAATATAAAGTATATAAG
1 TATACAAGATAAAGTATATAAG
20235 TATA
1 TATA
20239 TAAAGTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.31
Consensus pattern (22 bp):
TATACAAGATAAAGTATATAAG
Found at i:20220 original size:30 final size:31
Alignment explanation
Indices: 20184--20424 Score: 94
Period size: 29 Copynumber: 8.1 Consensus size: 31
20174 TCTGCATATA
20184 ATACAATTATAAAG-ACTA-AAGTATAT-AAGT
1 ATACAA-TATAAAGTA-TATAAGTATATAAAGT
20214 ATACAATATAAAGTATATAAGTATATAAAGTAT
1 ATACAATATAAAGTATATAAGTATATAAAG--T
* *
20247 ATATACATATAAAG--TATAAGTATATATA-T
1 ATACA-ATATAAAGTATATAAGTATATAAAGT
* * *
20276 ATA-TATATATA-TATATAAAGT-T-T-TAGT
1 ATACAATATAAAGTATAT-AAGTATATAAAGT
* *
20303 ATAAAATATATATACATATATAA-TAATATAAAGT
1 ATACAATATA-A-A-GTATATAAGT-ATATAAAGT
* * *
20337 ATA-AGTAT--ATTATAT-A-TATATAAGGT
1 ATACAATATAAAGTATATAAGTATATAAAGT
* *
20363 ATA-ATTATAAAG-ACTA-AAGTATAT-AAGC
1 ATACAATATAAAGTA-TATAAGTATATAAAGT
* *
20391 ATATAATATAAAGTATATATA-CATATAAAGT
1 ATACAATATAAAGTATATA-AGTATATAAAGT
20422 ATA
1 ATA
20425 AGTATATATA
Statistics
Matches: 165, Mismatches: 17, Indels: 57
0.69 0.07 0.24
Matches are distributed among these distances:
26 17 0.10
27 14 0.08
28 23 0.14
29 33 0.20
30 23 0.14
31 12 0.07
32 19 0.12
33 10 0.06
34 14 0.08
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (31 bp):
ATACAATATAAAGTATATAAGTATATAAAGT
Found at i:20227 original size:14 final size:15
Alignment explanation
Indices: 20184--20238 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
20174 TCTGCATATA
*
20184 ATACAATTATAAAG-
1 ATACAAGTATAAAGT
20198 ACTA-AAGTATATAAGT
1 A-TACAAGTATA-AAGT
20214 ATACAA-TATAAAGT
1 ATACAAGTATAAAGT
*
20228 ATATAAGTATA
1 ATACAAGTATA
20239 TAAAGTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 16 0.47
15 15 0.44
16 3 0.09
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.31
Consensus pattern (15 bp):
ATACAAGTATAAAGT
Found at i:20233 original size:9 final size:9
Alignment explanation
Indices: 20219--20264 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
20209 TAAGTATACA
20219 ATATAAAGT
1 ATATAAAGT
20228 ATAT-AAGT
1 ATATAAAGT
20236 ATATAAAGT
1 ATATAAAGT
* *
20245 ATATATA-C
1 ATATAAAGT
20253 ATATAAAGT
1 ATATAAAGT
20262 ATA
1 ATA
20265 AGTATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
8 14 0.45
9 17 0.55
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (9 bp):
ATATAAAGT
Found at i:20241 original size:17 final size:17
Alignment explanation
Indices: 20219--20272 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
20209 TAAGTATACA
20219 ATATAAAGTATATAAGT
1 ATATAAAGTATATAAGT
*
20236 ATATAAAGTATATATA-C
1 ATATAAAGTATATA-AGT
20253 ATATAAAG--TATAAGT
1 ATATAAAGTATATAAGT
20268 ATATA
1 ATATA
20273 TATATATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 1 0.03
15 9 0.27
17 22 0.67
18 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (17 bp):
ATATAAAGTATATAAGT
Found at i:20249 original size:2 final size:2
Alignment explanation
Indices: 20244--20495 Score: 68
Period size: 2 Copynumber: 126.5 Consensus size: 2
20234 GTATATAAAG
* *
20244 TA TA TA TA CA TA TA AA GTA TA -A GTA 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
* * * *
20287 TA TA TA AA GT- TT TA GTA TA -A AA TA TA TA TA CA TA TA TA -A TA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* **
20328 -A TA TA AA GTA TA -A GTA TA T- TA TA TA TA TA TA -A GG TA TA -A
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * *
20367 T- TA TA AA GA CTA AA GTA TA TA -A GCA TA TA -A TA TA AA GTA TA
1 TA TA TA TA TA -TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* * *
20408 TA TA CA TA TA AA GTA TA -A GTA TA TA TA TA TA TA TA TA -A TA AA
1 TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
20450 CTA TA TA GTT TA TA TT TA TA T- TA T- TA TA TA TA AA CTA TA CA
1 -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
20491 TA TA T
1 TA TA T
20496 TATGAATAAA
Statistics
Matches: 182, Mismatches: 37, Indels: 62
0.65 0.13 0.22
Matches are distributed among these distances:
1 16 0.09
2 151 0.83
3 15 0.08
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.40
Consensus pattern (2 bp):
TA
Found at i:20568 original size:11 final size:11
Alignment explanation
Indices: 20555--20744 Score: 70
Period size: 11 Copynumber: 18.5 Consensus size: 11
20545 ACTATTGAAC
*
20555 TATATATAAAC
1 TATATATAAAT
**
20566 TATATAGTTTAT
1 TATATA-TAAAT
20578 TA-ATATAAA-
1 TATATATAAAT
*
20587 T-TATATAATT
1 TATATATAAAT
20597 TATATATAAAT
1 TATATATAAAT
*
20608 TATATATGAAT
1 TATATATAAAT
*
20619 TATATTTAAA-
1 TATATATAAAT
* **
20629 TATATACAGCT
1 TATATATAAAT
* * *
20640 TCTATTTATA-
1 TATATATAAAT
**
20650 TAT-TATGTAT
1 TATATATAAAT
*
20660 AAT-TATAAAT
1 TATATATAAAT
*
20670 TATATAT--AC
1 TATATATAAAT
*
20679 TATGTATAAAT
1 TATATATAAAT
**
20690 TATATAGTTTAT
1 TATATA-TAAAT
20702 TA-ATAT-AA-
1 TATATATAAAT
*
20710 -A-CTATAAAT
1 TATATATAAAT
20719 TATATAT--AT
1 TATATATAAAT
20728 TATATATAAAT
1 TATATATAAAT
20739 TATATA
1 TATATA
20745 GTTTATATAG
Statistics
Matches: 128, Mismatches: 35, Indels: 32
0.66 0.18 0.16
Matches are distributed among these distances:
7 4 0.03
8 2 0.02
9 28 0.22
10 22 0.17
11 63 0.49
12 9 0.07
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (11 bp):
TATATATAAAT
Found at i:20585 original size:22 final size:20
Alignment explanation
Indices: 20520--20753 Score: 95
Period size: 20 Copynumber: 11.1 Consensus size: 20
20510 ATATACCATG
* *
20520 TATAAACTATATAGTTTATA
1 TATAAATTATATAATTTATA
* * *
20540 TATGAACTAT-TGAA-CTATA
1 TATAAATTATAT-AATTTATA
* *
20559 TATAAACTATATAGTTTATTAA
1 TATAAATTATATAATTTA-T-A
20581 TATAAATTATATAATTTATA
1 TATAAATTATATAATTTATA
*
20601 TATAAATTATATATGAATTATA
1 TATAAATTATATA--ATTTATA
* *
20623 TTTAAA-TATATACAGCTTCTATT
1 TATAAATTATATA-A--TT-TATA
* * *
20646 TATATATTATGT-A-TAAT-
1 TATAAATTATATAATTTATA
* *
20663 TATAAATTATAT-ATACTATG
1 TATAAATTATATAAT-TTATA
*
20683 TATAAATTATATAGTTTATTAA
1 TATAAATTATATAATTTA-T-A
20705 TATAAACTATAAATTATATATATTATA
1 TATAAA-T-T--A-TATA-AT-TTATA
*
20732 TATAAATTATATAGTTTATA
1 TATAAATTATATAATTTATA
20752 TA
1 TA
20754 GTTTAAATAT
Statistics
Matches: 164, Mismatches: 26, Indels: 48
0.69 0.11 0.20
Matches are distributed among these distances:
17 11 0.07
18 2 0.01
19 18 0.11
20 49 0.30
21 11 0.07
22 40 0.24
23 9 0.05
24 5 0.03
25 1 0.01
26 2 0.01
27 11 0.07
28 2 0.01
29 3 0.02
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (20 bp):
TATAAATTATATAATTTATA
Found at i:20665 original size:17 final size:17
Alignment explanation
Indices: 20645--20744 Score: 59
Period size: 17 Copynumber: 5.8 Consensus size: 17
20635 CAGCTTCTAT
* *
20645 TTATATATTATGTATAA
1 TTATAAATTATATATAA
20662 TTATAAATTATATATACTA
1 TTATAAATTATATATA--A
*
20681 TGTATAAA-T-TATATAG
1 T-TATAAATTATATATAA
20697 TT-T--ATTA-ATATAAA
1 TTATAAATTATATAT-AA
*
20711 CTATAAATTATATATATTA
1 TTATAAATTATATATA--A
20730 TATATAAATTATATA
1 T-TATAAATTATATA
20745 GTTTATATAG
Statistics
Matches: 64, Mismatches: 6, Indels: 23
0.69 0.06 0.25
Matches are distributed among these distances:
12 1 0.02
13 5 0.08
14 3 0.05
15 2 0.03
16 1 0.02
17 19 0.30
18 10 0.16
19 4 0.06
20 19 0.30
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (17 bp):
TTATAAATTATATATAA
Found at i:20715 original size:29 final size:26
Alignment explanation
Indices: 20683--20800 Score: 86
Period size: 29 Copynumber: 4.5 Consensus size: 26
20673 ATATACTATG
20683 TATAAATTATATAGTTTATTAATATAAA
1 TATAAATTATATA-TTTA-TAATATAAA
20711 CTATAAATTATATA--TAT--TAT--A
1 -TATAAATTATATATTTATAATATAAA
*
20732 TATAAATTATATAGTTTATATAGTTTAAA
1 TATAAATTATATA-TTTATA-A-TATAAA
** *
20761 TATAAAGAATATATGTATATATATAAA
1 TATAAATTATATATTTATA-ATATAAA
20788 CTATAAATTATAT
1 -TATAAATTATAT
20801 TGTATGTATG
Statistics
Matches: 72, Mismatches: 7, Indels: 21
0.72 0.07 0.21
Matches are distributed among these distances:
20 13 0.18
21 1 0.01
23 6 0.08
25 1 0.01
26 2 0.03
27 7 0.10
28 17 0.24
29 25 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (26 bp):
TATAAATTATATATTTATAATATAAA
Found at i:20727 original size:20 final size:19
Alignment explanation
Indices: 20704--20800 Score: 58
Period size: 20 Copynumber: 5.0 Consensus size: 19
20694 TAGTTTATTA
20704 ATATAAACTATAAATTATAT
1 ATATAAA-TATAAATTATAT
*
20724 ATATTATATATAAATTATAT
1 ATA-TAAATATAAATTATAT
* * *
20744 AGT-T-TATAT-AGTT-TAA
1 A-TATAAATATAAATTATAT
* *
20760 ATATAAAGAATATATGTATAT
1 ATATAAA-TATAAAT-TATAT
20781 ATATAAACTATAAATTATAT
1 ATATAAA-TATAAATTATAT
20801 TGTATGTATG
Statistics
Matches: 58, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
15 1 0.02
16 4 0.07
17 4 0.07
18 7 0.12
19 2 0.03
20 22 0.38
21 18 0.31
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (19 bp):
ATATAAATATAAATTATAT
Found at i:20765 original size:49 final size:49
Alignment explanation
Indices: 20663--20792 Score: 163
Period size: 49 Copynumber: 2.6 Consensus size: 49
20653 TATGTATAAT
* *
20663 TATAAATTATATATACTATGTATAAATTATATAGTTTATTAATATAAAC
1 TATAAATTATATATATTATATATAAATTATATAGTTTATTAATATAAAC
* *
20712 TATAAATTATATATATTATATATAAATTATATAGTTTATATAGTTTAAA-
1 TATAAATTATATATATTATATATAAATTATATAGTTTAT-TAATATAAAC
** * *
20761 TATAAAGAATATATGTATATATATAAACTATA
1 TATAAATTATATATAT-TATATATAAATTATA
20793 AATTATATTG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
49 50 0.70
50 21 0.30
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (49 bp):
TATAAATTATATATATTATATATAAATTATATAGTTTATTAATATAAAC
Found at i:20809 original size:124 final size:123
Alignment explanation
Indices: 20553--20800 Score: 283
Period size: 124 Copynumber: 2.0 Consensus size: 123
20543 GAACTATTGA
*
20553 ACTATATATAAACTATATAGTTTATTAATATAAATTATATAATTTATATATAAATTATATATGAA
1 ACTATGTATAAACTATATAGTTTATTAATATAAATTATATAATTTATATATAAATTATATATGAA
** * * *
20618 TTATATTTAAATATATACAGCTTCTATTTATATATTATGTATAATTATAAATTATATAT
66 TTATATTTAAATATATACAGAATATATGTATATATTA-GTATAACTATAAATTATATAT
*
20677 ACTATGTATAAATTATATAGTTTATTAATATAAACTATAAATTATATATATTATATATAAATTAT
1 ACTATGTATAAACTATATAGTTTATTAATATAAA-T-T--A-TATA-AT-TTATATATAAATTAT
**
20742 ATA-GTTTATATAGTTTAAATATA-A-AGAATATATGTATATA-TA-TA-AACTATAAATTATAT
59 ATATGAAT-TATA-TTTAAATATATACAGAATATATGTATATATTAGTATAACTATAAATTATAT
20801 TGTATGTATG
Statistics
Matches: 106, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
124 32 0.30
125 1 0.01
126 15 0.14
127 2 0.02
128 1 0.01
129 6 0.06
130 16 0.15
131 23 0.22
132 10 0.09
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (123 bp):
ACTATGTATAAACTATATAGTTTATTAATATAAATTATATAATTTATATATAAATTATATATGAA
TTATATTTAAATATATACAGAATATATGTATATATTAGTATAACTATAAATTATATAT
Found at i:21979 original size:114 final size:114
Alignment explanation
Indices: 21779--22005 Score: 436
Period size: 114 Copynumber: 2.0 Consensus size: 114
21769 CCACTACCTC
*
21779 GTCTCATGGTTGGCACCCTTCATTGGACATCGTGGCATTTGCCGGGAGGACGGAGTGATTCTCGA
1 GTCTCATGGTTGGCACCCTTCATTGGACATCGTGGCATTTGCCGGGAGGACGGAGTGAATCTCGA
21844 TTTTTCCGGATCGAATTTCGTGAATATCAATGAATTTGCTTTTGGTGCT
66 TTTTTCCGGATCGAATTTCGTGAATATCAATGAATTTGCTTTTGGTGCT
*
21893 GTCTCATGGTTGGCACCCTTCATTGGACATCTTGGCATTTGCCGGGAGGACGGAGTGAATCTCGA
1 GTCTCATGGTTGGCACCCTTCATTGGACATCGTGGCATTTGCCGGGAGGACGGAGTGAATCTCGA
21958 TTTTTCCGGATCGAATTTCGTGAATATCAATGAATTTGCTTTTGGTGC
66 TTTTTCCGGATCGAATTTCGTGAATATCAATGAATTTGCTTTTGGTGC
22006 AATGGCTCGA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 111 1.00
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (114 bp):
GTCTCATGGTTGGCACCCTTCATTGGACATCGTGGCATTTGCCGGGAGGACGGAGTGAATCTCGA
TTTTTCCGGATCGAATTTCGTGAATATCAATGAATTTGCTTTTGGTGCT
Found at i:28893 original size:3 final size:3
Alignment explanation
Indices: 28885--28952 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
28875 TCATTTAAAT
** * *
28885 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
28933 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
28953 AATATTACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:30813 original size:111 final size:111
Alignment explanation
Indices: 30580--30813 Score: 276
Period size: 111 Copynumber: 2.1 Consensus size: 111
30570 TGATATTTAT
* * * *
30580 TTATTTT-TAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCATTTTCTGATATTTTT
1 TTATTTTGAAATATCAAAGAAAAGAGCTGTCTTAAGACACCTAGAAGCCATTTTCTGATATTTCT
* * * *
30644 GAATAAATAAATATCTTACTATATTAAAATAAAATGTTTTTGATAT
66 AAATAAATAAATATCTTACTATATTAAAATAAAATATTTTTGAAAA
* * *
30690 TTATTTTTAAATATCAAAGAAAAGAGCTGTCTTAAGATACCTAGAAGCCCTTTTCTGATATTTCT
1 TTATTTTGAAATATCAAAGAAAAGAGCTGTCTTAAGACACCTAGAAGCCATTTTCTGATATTTCT
* * * * * *
30755 AAATAAGTAAATATCTTA-TTTATGTATATTAATATATTTTCTTAAAA
66 AAATAAATAAATATCTTACTATAT-TAAAATAAAATATTTT-TGAAAA
30802 TTA-TTTGAAATA
1 TTATTTTGAAATA
30814 GTAGAATTAT
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
110 11 0.11
111 87 0.84
112 6 0.06
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (111 bp):
TTATTTTGAAATATCAAAGAAAAGAGCTGTCTTAAGACACCTAGAAGCCATTTTCTGATATTTCT
AAATAAATAAATATCTTACTATATTAAAATAAAATATTTTTGAAAA
Found at i:33555 original size:43 final size:44
Alignment explanation
Indices: 33508--33590 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
33498 AATAGAGAAA
* * * * *
33508 TTAGGAGTGAAAGTTTTTCCCTATATGTAA-AGTTTTGTTGAAG
1 TTAGGACTGAAAGTTGTCCCCTACATATAAGAGTTTTGTTGAAG
33551 TTAGGACTGAAAGTTGTCCCCTACATATAAGAGTTTTGTT
1 TTAGGACTGAAAGTTGTCCCCTACATATAAGAGTTTTGTT
33591 TGATGTACTG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 25 0.74
44 9 0.26
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.40
Consensus pattern (44 bp):
TTAGGACTGAAAGTTGTCCCCTACATATAAGAGTTTTGTTGAAG
Found at i:33689 original size:8 final size:7
Alignment explanation
Indices: 33665--33705 Score: 50
Period size: 6 Copynumber: 6.0 Consensus size: 7
33655 TTTTCATATA
33665 TGCATTT
1 TGCATTT
33672 T-CATTT
1 TGCATTT
33678 TGCATCTT
1 TGCAT-TT
33686 TGCATTT
1 TGCATTT
33693 T-CATTT
1 TGCATTT
*
33699 TGTATTT
1 TGCATTT
33706 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
6 12 0.40
7 11 0.37
8 7 0.23
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (7 bp):
TGCATTT
Found at i:36400 original size:17 final size:17
Alignment explanation
Indices: 36337--36400 Score: 51
Period size: 17 Copynumber: 3.6 Consensus size: 17
36327 AAGAGGTAGC
*
36337 AAAGAAAAAATCCAGCAAA
1 AAAGAAAAAAT-GAG-AAA
36356 GAAA-AAAAAA-GAGATGAA
1 -AAAGAAAAAATGAGA--AA
*
36374 AAAGGAAAAATGAGAAA
1 AAAGAAAAAATGAGAAA
36391 AAAGAAAAAA
1 AAAGAAAAAA
36401 GAAAAGGGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
16 1 0.03
17 16 0.43
18 7 0.19
19 10 0.27
20 3 0.08
ACGTcount: A:0.73, C:0.05, G:0.17, T:0.05
Consensus pattern (17 bp):
AAAGAAAAAATGAGAAA
Found at i:38749 original size:114 final size:114
Alignment explanation
Indices: 38549--38882 Score: 569
Period size: 114 Copynumber: 2.9 Consensus size: 114
38539 CATATGCTCA
38549 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* *
38614 GATATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTTCTCG
66 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTTCTCG
* *
38663 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGATTTATCTGATCTGGTTT
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
38728 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTTCTCG
66 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTTCTCG
* * *
38777 TAGTAGAAATAAGGAGATCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
* * * *
38842 GGTAGGAACCCTAGAACCAATCATTAGAATTGAAAGATGAA
66 GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAA
38883 CTGCATGATC
Statistics
Matches: 207, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 207 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (114 bp):
TAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTT
GGTATGAACCCTAAAACCAATCATTGGATTTGAAAGATGAATTTTCTCG
Found at i:41007 original size:54 final size:52
Alignment explanation
Indices: 40921--41071 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 52
40911 TAATTGAGAA
* *
40921 ATTTGAGCAGAAGCCACAGAAAAGGATAAATGTGTTGTCAAATGCTTTACAAAC
1 ATTTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATG-TTTAC-AAC
* *
40975 ATTTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAGTGTTT--TAC
1 ATTTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTACAAC
* * * *
41025 ATCTGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTT
1 ATTTGAGCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATGTTT
41072 TACGAACCAG
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
50 42 0.48
51 1 0.01
53 3 0.03
54 41 0.47
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (52 bp):
ATTTGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTACAAC
Found at i:42208 original size:76 final size:76
Alignment explanation
Indices: 42124--42850 Score: 1255
Period size: 76 Copynumber: 9.6 Consensus size: 76
42114 CTATTTCCCA
42124 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
42189 AGCCTTAGGGT
66 AGCCTTAGGGT
42200 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
42265 AGCCTTAGGGT
66 AGCCTTAGGGT
*
42276 CATCTGTAAGTCCTGCAGTGCATGATGTATCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTTA
42341 AAGCCTTAGGGT
65 AAGCCTTAGGGT
*
42353 CATCTGTAAGTTCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
42418 AGCCTTAGGGT
66 AGCCTTAGGGT
42429 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
42494 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
42505 CATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
42570 AGCCTTAGGGT
66 AGCCTTAGGGT
*
42581 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
*
42646 A-CCTTCGGGT
66 AGCCTTAGGGT
* * *
42656 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
*
42721 A-CCTTCGGGT
66 AGCCTTAGGGT
** * * *
42731 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
42796 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
42807 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
42851 TCATCTGTAA
Statistics
Matches: 628, Mismatches: 21, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
74 7 0.01
75 147 0.23
76 400 0.64
77 74 0.12
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
AGCCTTAGGGT
Found at i:42525 original size:229 final size:228
Alignment explanation
Indices: 42124--42850 Score: 1264
Period size: 229 Copynumber: 3.2 Consensus size: 228
42114 CTATTTCCCA
42124 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
42189 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
42254 GATGTTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTATCCAAAAAAGCCTT
131 GATGTTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCC-AAAAAGCCTT
*
42319 CGGGAGCTTTTTGATGTTTTTAAAGCCTTAGGGT
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
42353 CATCTGTAAGTTCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
42418 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
42483 GATGTTTTTAAAGCCTTAGGGTCATCTGTAAGTCTTGCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
*
42548 GGGAGTTTTTTGATGTTTTCAAAGCCTTAGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
42581 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
* * *
42646 A-CCTTCGGGTCATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTT
66 AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
* * **
42710 GATGTTTTCAAA-CCTTCGGGTCATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
* *
42774 AGGAGCTTTTTAATGTTTTCAAAGCCTTAGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
42807 CATCTGTAAGTCCTTCAGTGCATGATGTTTTC-AAAA-CCTTCGGG
1 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGG
42851 TCATCTGTAA
Statistics
Matches: 478, Mismatches: 20, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
224 8 0.02
225 4 0.01
226 108 0.23
227 71 0.15
228 106 0.22
229 181 0.38
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (228 bp):
CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
AGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTTAAAGCCTTAGGGTCATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:42837 original size:45 final size:45
Alignment explanation
Indices: 42786--42885 Score: 173
Period size: 45 Copynumber: 2.2 Consensus size: 45
42776 GAGCTTTTTA
* *
42786 ATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATG
1 ATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATG
*
42831 ATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATG
1 ATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATG
42876 ATGTTTTCAA
1 ATGTTTTCAA
42886 CATTTCCATC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (45 bp):
ATGTTTTCAAAACCTTAGGGTCATCTGTAAGCCCTTCAGTGCATG
Found at i:43020 original size:3 final size:3
Alignment explanation
Indices: 43012--43079 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
43002 TCATTTAAAT
** * *
43012 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA GTA TTA TTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43060 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
43080 AATATTACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:44952 original size:111 final size:111
Alignment explanation
Indices: 44719--44952 Score: 285
Period size: 111 Copynumber: 2.1 Consensus size: 111
44709 TGATATTTAT
* * *
44719 TTATTTT-TAATATCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCATTTTCTGATATTTTT
1 TTATTTTGAAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCATTTTCTGATATTTCT
* * * *
44783 GAATAAATAAATATCTTACTATATTAAAATAAAATGTTTTTGATAT
66 AAATAAATAAATATCTTACTATATTAAAATAAAATATTTTTGAAAA
* * *
44829 TTATTTTTAAATATCAAAGAAAAGAGCTGTCTTAAGGTACCTAGAAGCCCTTTTCTGATATTTCT
1 TTATTTTGAAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCATTTTCTGATATTTCT
* * * * * *
44894 AAATAAGTAAATATCTTA-TTTATGTATATTAATATATTTTCTTAAAA
66 AAATAAATAAATATCTTACTATAT-TAAAATAAAATATTTT-TGAAAA
44941 TTA-TTTGAAATA
1 TTATTTTGAAATA
44953 GTAGAATTAT
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
110 11 0.10
111 88 0.84
112 6 0.06
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (111 bp):
TTATTTTGAAATATCAAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGCCATTTTCTGATATTTCT
AAATAAATAAATATCTTACTATATTAAAATAAAATATTTTTGAAAA
Found at i:47387 original size:7 final size:7
Alignment explanation
Indices: 47375--47410 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
47365 ATTAATTGAA
47375 AATATTT
1 AATATTT
47382 AATATTT
1 AATATTT
47389 AATATTT
1 AATATTT
*
47396 AATATGT
1 AATATTT
*
47403 ATTATTT
1 AATATTT
47410 A
1 A
47411 TAAATTTCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (7 bp):
AATATTT
Found at i:50260 original size:16 final size:16
Alignment explanation
Indices: 50238--50277 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
50228 GAAATCGTTG
50238 AAAAATTATATAGAAA
1 AAAAATTATATAGAAA
* * *
50254 TAAAATTATGTATAAA
1 AAAAATTATATAGAAA
50270 AAAAATTA
1 AAAAATTA
50278 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (16 bp):
AAAAATTATATAGAAA
Found at i:50440 original size:20 final size:21
Alignment explanation
Indices: 50415--50465 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
50405 AAAAACATTT
*
50415 GTGTTGCGAAATT-AAAATTC
1 GTGTTGCGAAATTCAAAAATC
50435 GTGTTGCG-AATTCAAAAATC
1 GTGTTGCGAAATTCAAAAATC
*
50455 GAGTTGCGAAA
1 GTGTTGCGAAA
50466 ACGGAATTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 4 0.15
20 21 0.78
21 2 0.07
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (21 bp):
GTGTTGCGAAATTCAAAAATC
Found at i:50571 original size:18 final size:19
Alignment explanation
Indices: 50548--50583 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
50538 CTGCGAATTT
50548 AAAAATT-GAGTTGCGAAA
1 AAAAATTCGAGTTGCGAAA
50566 AAAAATTCGAGTTGCGAA
1 AAAAATTCGAGTTGCGAA
50584 TTTGACTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.22
Consensus pattern (19 bp):
AAAAATTCGAGTTGCGAAA
Found at i:50642 original size:20 final size:20
Alignment explanation
Indices: 50568--50667 Score: 112
Period size: 20 Copynumber: 5.0 Consensus size: 20
50558 TTGCGAAAAA
*
50568 AAATTCGAGTTGCGAATT-T
1 AAATTCGAGTTGCGAATTCC
* * *
50587 GACTTCTGTGTTGCGAATTCC
1 AAATTC-GAGTTGCGAATTCC
**
50608 AAATTCTTTGTTGCGAATTCC
1 AAATTC-GAGTTGCGAATTCC
50629 AAATTCGAGTTGCGAATTCC
1 AAATTCGAGTTGCGAATTCC
*
50649 AAATTCGAGTTACGAATTC
1 AAATTCGAGTTGCGAATTC
50668 GGAAATTGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.06
20 41 0.59
21 24 0.35
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (20 bp):
AAATTCGAGTTGCGAATTCC
Found at i:52597 original size:2 final size:2
Alignment explanation
Indices: 52592--52631 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
52582 CGTGTGTGTG
52592 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
52632 ACCCATCCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55911 original size:19 final size:18
Alignment explanation
Indices: 55874--55916 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
55864 GTATATTTTA
55874 TTATTAATATTATTAATT
1 TTATTAATATTATTAATT
55892 TTATTAA-ATTATCATAATT
1 TTATTAATATTAT--TAATT
55911 TTATTA
1 TTATTA
55917 CAGGCCCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.22
18 7 0.30
19 11 0.48
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTAATATTATTAATT
Found at i:62950 original size:17 final size:17
Alignment explanation
Indices: 62928--62963 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
62918 AATTGTCATC
62928 AATGAACCTGTAACTGA
1 AATGAACCTGTAACTGA
62945 AATGAACCTGTAACTGA
1 AATGAACCTGTAACTGA
62962 AA
1 AA
62964 GTGGAGCTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (17 bp):
AATGAACCTGTAACTGA
Found at i:68810 original size:35 final size:37
Alignment explanation
Indices: 68771--68848 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
68761 TAGTGGAAAC
*
68771 AAGCAATGC-AA-TCAAGCCTTCACAAGA-GAGTAGTG
1 AAGCAATGCAAATTC-AGCCTTCACAAAAGGAGTAGTG
68806 AAGCAATGCAAATTCAGCCTTCACAAAAGGAGTAGTG
1 AAGCAATGCAAATTCAGCCTTCACAAAAGGAGTAGTG
68843 AAGCAA
1 AAGCAA
68849 GATCAGATCA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 9 0.23
36 14 0.36
37 16 0.41
ACGTcount: A:0.42, C:0.19, G:0.22, T:0.17
Consensus pattern (37 bp):
AAGCAATGCAAATTCAGCCTTCACAAAAGGAGTAGTG
Found at i:70520 original size:15 final size:16
Alignment explanation
Indices: 70501--70548 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
70491 TTATATAGTT
70501 TTAATATTAAATATTA
1 TTAATATTAAATATTA
* *
70517 -TAATAGTATTAATAATA
1 TTAATA-T-TAAATATTA
70534 TTAATATTAAATATT
1 TTAATATTAAATATT
70549 TAGTATTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
15 5 0.20
16 7 0.28
17 8 0.32
18 5 0.20
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TTAATATTAAATATTA
Found at i:70526 original size:18 final size:18
Alignment explanation
Indices: 70502--70548 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 18
70492 TATATAGTTT
70502 TAATATTAAATATTATAA
1 TAATATTAAATATTATAA
* *
70520 TAGTATT-AATA--ATAT
1 TAATATTAAATATTATAA
70535 TAATATTAAATATT
1 TAATATTAAATATT
70549 TAGTATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
15 9 0.39
16 4 0.17
17 4 0.17
18 6 0.26
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAATATTAAATATTATAA
Found at i:74615 original size:19 final size:18
Alignment explanation
Indices: 74593--74628 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
74583 TTAAAAATTA
74593 TTATATTTATAAAAAAATC
1 TTAT-TTTATAAAAAAATC
*
74612 TTATTTTTTAAAAAAAT
1 TTATTTTATAAAAAAAT
74629 TAAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTATTTTATAAAAAAATC
Found at i:83513 original size:63 final size:63
Alignment explanation
Indices: 83390--83513 Score: 149
Period size: 63 Copynumber: 2.0 Consensus size: 63
83380 CTTGAATAAA
* * * * *
83390 GAAAACATCGAATGCAATGAGTGTATCGATACATAGGGAGAGTATCGATACCCCCTTTAAGAT
1 GAAAAAATCGAATGCAATGAGTGTATCAATACATAGGGAGAGTATCGATACACACATTAAGAT
* ** * * *
83453 GAAAAAATCGAATGTAATTTGTGTATCAATACATAGGTAGTGTATCGATACATACATTAAG
1 GAAAAAATCGAATGCAATGAGTGTATCAATACATAGGGAGAGTATCGATACACACATTAAG
83514 GGATATACAG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 50 1.00
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (63 bp):
GAAAAAATCGAATGCAATGAGTGTATCAATACATAGGGAGAGTATCGATACACACATTAAGAT
Found at i:84116 original size:18 final size:18
Alignment explanation
Indices: 84093--84127 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
84083 AGGGATTATC
84093 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
84111 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
84128 AATATTCAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:91609 original size:2 final size:2
Alignment explanation
Indices: 91602--91631 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
91592 TATAATTTTG
91602 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
91632 TATTTGAATT
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:92099 original size:26 final size:25
Alignment explanation
Indices: 92070--92124 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
92060 CAAACCTTCT
*
92070 TGTTATAAATTGTTTAAGCTTGAAAA
1 TGTTATAAA-TGATTAAGCTTGAAAA
*
92096 TGTTATATATGATTAAGCTTGAAAA
1 TGTTATAAATGATTAAGCTTGAAAA
92121 TGTT
1 TGTT
92125 TGCAGGAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 19 0.70
26 8 0.30
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.44
Consensus pattern (25 bp):
TGTTATAAATGATTAAGCTTGAAAA
Found at i:94593 original size:41 final size:42
Alignment explanation
Indices: 94546--94635 Score: 155
Period size: 41 Copynumber: 2.2 Consensus size: 42
94536 CCCAAATCCC
*
94546 GTGTTTGTTTCACGTAATTTGTTTTCCGAAAAATA-TTTCTA
1 GTGTTTGTTTCACGTAATTTATTTTCCGAAAAATATTTTCTA
*
94587 GTGTTTGTTTCACGTAATTTATTTTCCGGAAAATATTTTCTA
1 GTGTTTGTTTCACGTAATTTATTTTCCGAAAAATATTTTCTA
94629 GTGTTTG
1 GTGTTTG
94636 GTTGGAGGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 33 0.72
42 13 0.28
ACGTcount: A:0.22, C:0.11, G:0.17, T:0.50
Consensus pattern (42 bp):
GTGTTTGTTTCACGTAATTTATTTTCCGAAAAATATTTTCTA
Found at i:94860 original size:21 final size:23
Alignment explanation
Indices: 94827--94883 Score: 57
Period size: 21 Copynumber: 2.6 Consensus size: 23
94817 TAATTATTAA
*
94827 AATATTTAAAATATATTT-AT-T
1 AATATTTATAATATATTTAATAT
*
94848 AATATTTCTAATA-ATTTAATAT
1 AATATTTATAATATATTTAATAT
* *
94870 TATATTTTTAATAT
1 AATATTTATAATAT
94884 TATAATAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.14
21 13 0.45
22 12 0.41
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTTATAATATATTTAATAT
Found at i:94875 original size:22 final size:23
Alignment explanation
Indices: 94844--94890 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
94834 AAAATATATT
94844 TATTAATATTTCTAATAATT-TAA
1 TATTAATATTTCTAAT-ATTATAA
*
94867 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATATTATAA
94889 TA
1 TA
94891 AAGTAATCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 15 0.68
23 4 0.18
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAATATTTCTAATATTATAA
Found at i:100205 original size:14 final size:15
Alignment explanation
Indices: 100184--100291 Score: 114
Period size: 14 Copynumber: 7.1 Consensus size: 15
100174 TTCCAAAAAT
100184 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
*
100199 G-AATTCAATTTCCA
1 GTAATTCATTTTCCA
100213 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
*
100228 -TAATTCAATTTCCAAAAA
1 GTAATTCATTTTCC----A
100246 TGTAATTCATTTTCCA
1 -GTAATTCATTTTCCA
100262 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
* *
100277 -AAATTCAATTTCCA
1 GTAATTCATTTTCCA
100291 G
1 G
100292 GAAACCAATT
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
14 37 0.47
15 28 0.35
16 1 0.01
18 1 0.01
20 12 0.15
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:100226 original size:29 final size:29
Alignment explanation
Indices: 100184--100291 Score: 119
Period size: 29 Copynumber: 3.6 Consensus size: 29
100174 TTCCAAAAAT
100184 GTAATTCATTTTCCAGAATTCAATTTCCA
1 GTAATTCATTTTCCAGAATTCAATTTCCA
*
100213 GTAATTCATTTTCCATAATTCAATTTCCAAAAA
1 GTAATTCATTTTCCAGAATTCAATTTCC----A
*
100246 TGTAATTCATTTTCCAGTAATTCATTTTCCA
1 -GTAATTCATTTTCCAG-AATTCAATTTCCA
* *
100277 -AAATTCAATTTCCAG
1 GTAATTCATTTTCCAG
100292 GAAACCAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
29 40 0.59
31 1 0.01
33 1 0.01
34 15 0.22
35 11 0.16
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.42
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAATTCAATTTCCA
Found at i:101703 original size:17 final size:16
Alignment explanation
Indices: 101679--101723 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
101669 TAAATTTGGT
*
101679 TTGCTTTCGGTTCGGG
1 TTGCTTTCGGTTCGAG
*
101695 TTGCTTTTCAGTTCGAG
1 TTGC-TTTCGGTTCGAG
*
101712 TTGATTTCGGTT
1 TTGCTTTCGGTT
101724 AAAATATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.07, C:0.16, G:0.29, T:0.49
Consensus pattern (16 bp):
TTGCTTTCGGTTCGAG
Found at i:101869 original size:13 final size:13
Alignment explanation
Indices: 101851--101883 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
101841 TATTTACCCT
101851 AATTAATTTAATA
1 AATTAATTTAATA
101864 AATTAATTTAATA
1 AATTAATTTAATA
101877 AATTAAT
1 AATTAAT
101884 CCTCTAATCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATTAATTTAATA
Found at i:102277 original size:10 final size:10
Alignment explanation
Indices: 102262--102336 Score: 52
Period size: 10 Copynumber: 7.7 Consensus size: 10
102252 CATTTAATAA
102262 ATAAACGAAC
1 ATAAACGAAC
102272 ATAAACGAAC
1 ATAAACGAAC
102282 ----ACGAAC
1 ATAAACGAAC
102288 ATAAACGAAC
1 ATAAACGAAC
*** *
102298 ACGGAC-ATAA
1 ATAAACGA-AC
102308 ATGAACACGAAC
1 AT-AA-ACGAAC
102320 ATAAACGAAC
1 ATAAACGAAC
102330 ATAAACG
1 ATAAACG
102337 TTGGAGACCC
Statistics
Matches: 49, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 34 0.69
11 2 0.04
12 5 0.10
13 1 0.02
ACGTcount: A:0.56, C:0.21, G:0.13, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:102287 original size:16 final size:16
Alignment explanation
Indices: 102266--102330 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
102256 TAATAAATAA
102266 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
102282 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
102298 ACGGACATAAATGAAC
1 ACGAACATAAACGAAC
102314 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
102330 A
1 A
102331 TAAACGTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.55, C:0.23, G:0.14, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:103425 original size:14 final size:14
Alignment explanation
Indices: 103408--103449 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
103398 GATTGGGTTA
*
103408 AACATAAATGAACG
1 AACATAAACGAACG
103422 AACATAAACGAACG
1 AACATAAACGAACG
*
103436 AACATAACCGAACG
1 AACATAAACGAACG
103450 TTCACGAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.55, C:0.21, G:0.14, T:0.10
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:103668 original size:6 final size:6
Alignment explanation
Indices: 103657--104381 Score: 1223
Period size: 6 Copynumber: 121.5 Consensus size: 6
103647 ATCAACCCAC
103657 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
103705 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
103753 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
103801 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
103849 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
103897 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
103945 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
*
103993 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGC ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
104041 ATGTATGT ATATGT ATGTATGT ATATG- -TATGT ATATGT ATATGT ATATGT
1 A--TATGT ATATGT A--TATGT ATATGT ATATGT ATATGT ATATGT ATATGT
104091 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
104139 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
104187 ATATGT ATATGT ATATG- -TATGT ATATG- -TATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
* *
104231 ATATGT ATATG- -TATGT ATATGT ATATGT ATATGT ATATGC ATATGC
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
* * ** *
104277 ATATGC ATATGT ATATGT ATATGT ATATGT ATACGT ATACAT ATACGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
* ** ** * *
104325 ATATGT ATATGT ATATGT ATACGT ATACAT ATACAT ATACGT ATACGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
104373 ATATGT ATA
1 ATATGT ATA
104382 CATTTAAAAT
Statistics
Matches: 695, Mismatches: 12, Indels: 24
0.95 0.02 0.03
Matches are distributed among these distances:
4 16 0.02
6 667 0.96
8 12 0.02
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.48
Consensus pattern (6 bp):
ATATGT
Found at i:104045 original size:4 final size:4
Alignment explanation
Indices: 104036--104074 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
104026 TGCATATGTA
104036 TATG TATG TATG TA-- TATG TATG TATG TA-- TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
104075 ATGTATATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
2 4 0.13
4 27 0.87
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:104559 original size:20 final size:20
Alignment explanation
Indices: 104534--104583 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
104524 ATTTTTACTA
*
104534 AATTTAATATTTTTTTGTAT
1 AATTTAATATTTTATTGTAT
*
104554 -ATTTTA-ATTTTATTGTAT
1 AATTTAATATTTTATTGTAT
*
104572 AAATTAATATTT
1 AATTTAATATTT
104584 AAAATATTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
18 11 0.46
19 9 0.38
20 4 0.17
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
AATTTAATATTTTATTGTAT
Found at i:109010 original size:228 final size:227
Alignment explanation
Indices: 108608--109055 Score: 799
Period size: 228 Copynumber: 2.0 Consensus size: 227
108598 GTAAATTATC
* * *
108608 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
108673 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
108738 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
108803 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
108836 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
108901 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-ATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
* *
108965 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
109030 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
109056 GCATTTTAAA
Statistics
Matches: 211, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
227 4 0.02
228 123 0.58
229 84 0.40
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:109150 original size:19 final size:20
Alignment explanation
Indices: 109105--109154 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
109095 TATATCGATC
* *
109105 CAAAACGATATACCAGGTAA
1 CAAAATGATAAACCAGGTAA
*
109125 -AATATGATAAACC-GGTAA
1 CAAAATGATAAACCAGGTAA
109143 CAAAATGATAAA
1 CAAAATGATAAA
109155 ACCGTAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.54, C:0.14, G:0.14, T:0.18
Consensus pattern (20 bp):
CAAAATGATAAACCAGGTAA
Found at i:109305 original size:20 final size:19
Alignment explanation
Indices: 109282--109328 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
109272 CGATATAACA
109282 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
109302 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
109322 GGTAAAA
1 GGTAAAA
109329 TGATACTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:109330 original size:17 final size:19
Alignment explanation
Indices: 109291--109333 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
109281 AGGTAAAAAT
109291 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
109311 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
109328 ATGATA
1 ATGATA
109334 CTGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:111576 original size:21 final size:21
Alignment explanation
Indices: 111529--111593 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
111519 AAGACAATCA
* *
111529 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
111551 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
111571 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
111592 AG
1 AG
111594 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:113451 original size:18 final size:19
Alignment explanation
Indices: 113428--113469 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
113418 AAATGTAGGT
113428 TAATTTTGTATA-GATTTA
1 TAATTTTGTATACGATTTA
113446 TAA-TTTGTATACGATTTA
1 TAATTTTGTATACGATTTA
113464 T-ATTTT
1 TAATTTT
113470 TTTATGTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATACGATTTA
Found at i:113454 original size:17 final size:18
Alignment explanation
Indices: 113432--113465 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
113422 GTAGGTTAAT
113432 TTTGTATA-GATTTATAA
1 TTTGTATACGATTTATAA
113449 TTTGTATACGATTTATA
1 TTTGTATACGATTTATA
113466 TTTTTTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.32, C:0.03, G:0.12, T:0.53
Consensus pattern (18 bp):
TTTGTATACGATTTATAA
Found at i:114872 original size:393 final size:395
Alignment explanation
Indices: 113591--116114 Score: 4073
Period size: 393 Copynumber: 6.4 Consensus size: 395
113581 TACAATGGCC
* * *
113591 AACA-GGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
113654 CAAAAGTATAATGT-ATA--T--TTTTTCAATCTAACCGGT--AATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
113711 AATATGTCTAAATAATGTGTCGACACT-ATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
113775 GGAAAACA-GGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
*
113838 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATACTGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
*
113902 AGAGA-ATATATAAATAATGTGTCGACACT-A-ATA-TTTGTGTCGATATTTTTTTCCAGAATGA
325 AGAGATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGA
113963 ATGGAA
390 ATGGAA
*
113969 AAGAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCG-ACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
114031 C--AA--ATAATGTAATATGT-ATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
114090 AATA--TATAAATAATGTGTCGACACT-A-ATA-TTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
*
114150 GAAAAGAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCG-
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
114212 ACCC--AA--ATAATGTAATATGT-ATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTAGTG
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA-TG
** * * * * **
114271 -TCGATCCATATATAAA-AA-GTGTCGATCCCAAAATCATCGAACCCAAAAGTTTATGAGAGAAT
325 AGAGAT--ATGTATAAATAATGTGTCGA---C---A-C-T--AA---TATAGTTTGTG-TCG-AT
*
114333 ATGTCTAAATATGTGTCGACAGAATGAATGAATGGA
373 AT-T-T---T-T-T-TC--CAGAATGAATG---GAA
* *
114369 AACATGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCAC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
114433 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
114498 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
**
114563 GTCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
114628 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
114693 GAGATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAA
326 GAGATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
114757 TGGAA
391 TGGAA
114762 AACAGGGTG-ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
114826 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCTGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
114891 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
*
114956 GAAAACAGGATGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
115021 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
*
115086 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGA
326 GAG-ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGA
115150 ATGGAA
390 ATGGAA
*
115156 AACAGGATGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCC-AAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
115218 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
115283 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCG--ATTTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
115346 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
115411 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
115476 GAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGA
326 GAG-ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGA
115540 ATGGAA
390 ATGGAA
115546 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
115611 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
115674 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
*
115738 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATTGA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
115803 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
*
115868 GAGATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
326 GAGATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGA
115933 ATGGAA
390 ATGGAA
*
115939 AAGAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
116004 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
116069 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
116115 CTAATTTAAA
Statistics
Matches: 2014, Mismatches: 47, Indels: 153
0.91 0.02 0.07
Matches are distributed among these distances:
368 32 0.02
369 27 0.01
370 2 0.00
371 11 0.01
372 1 0.00
373 15 0.01
374 53 0.03
375 39 0.02
376 5 0.00
377 43 0.02
378 41 0.02
379 20 0.01
380 18 0.01
384 2 0.00
385 5 0.00
386 1 0.00
387 4 0.00
388 1 0.00
389 1 0.00
390 246 0.12
391 101 0.05
392 378 0.19
393 403 0.20
394 122 0.06
395 81 0.04
396 11 0.01
397 11 0.01
398 2 0.00
399 1 0.00
400 30 0.01
401 10 0.00
402 23 0.01
404 3 0.00
405 1 0.00
406 14 0.01
407 24 0.01
408 26 0.01
409 8 0.00
410 20 0.01
411 1 0.00
412 5 0.00
413 60 0.03
414 1 0.00
415 31 0.02
416 5 0.00
418 2 0.00
419 1 0.00
420 22 0.01
421 25 0.01
422 25 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (395 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GAGATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
TGGAA
Found at i:115611 original size:980 final size:991
Alignment explanation
Indices: 113591--116114 Score: 4106
Period size: 980 Copynumber: 2.6 Consensus size: 991
113581 TACAATGGCC
* * *
113591 AACA-GGTGCA-CCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
113654 CAAAAGTATAATGT-ATA--T--TTTTTCAATCTAACCGGT--AATTATACCGG-TTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
113711 AATATGTCTAAATAATGTGTCGACACT-ATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA--TTTTTTCCAGAATGAAT
113775 GGAAAACA-GGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCG
194 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
113838 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-GTACAATTATA-CTGGTTTTAT
259 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCT-GTTTTAT
113901 GAGAGAATA--TATAAATAATGTGTCGACACT-A-ATA-TTTGTGTCGATATTTTTTTCCAGAAT
323 GAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAAT
113961 GAATGGAAAAGAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATC
388 GAATGGAAAAGAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATC
114024 ATCG-ACCC--AA--ATAATGTAATATGT-ATTTTTCAATCTAACCGGTAC-ATTATACCGGTTT
453 ATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTT
*
114082 TATGAGAGAATA--TATAAATAATGTGTCGACACT-A-ATA-TTTGTGTCGATATTTTTTTCCAG
518 TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAG
* *
114142 AATGAATGGAAAAGAGGGTGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAAT
583 AATGAATGGAAAACAGGATGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAAT
*
114207 CATCGACCCAAATAATGTAATATGTATTTTTCAATCTAACCGGTACATTATACCGGTTTTAGTGT
648 CATCGACCCAAATAATGTAATATGTATTTTTCAATCTAACCGGTACATTATACCGGTTTTAGTGG
*
114272 CGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTTTATGAGAGAATATGT
713 AGAT-CATATATAAAAAGTGTCGA--CC--AATCATC-AA--CAAAAGTTTATGAGAG-A-ATGT
* *
114337 CTAAATATGTGTCGACAGAATGAATGAATGGAAACATGGTGCACCCATAAAGTGTCGATCCATAT
768 CT--ATATGTGTC-ACAGAATGAATG-A-GAAAACAGGGTGCACCCATAAAGTGTCGATCCATAT
114402 ATAAAAAGTGTCGATCACAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCT
828 ATAAAAAGTGTCGATCACAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCT
*
114467 AACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAG
893 AACCGGTACAATTATACCGGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAG
**
114532 TTTGTGTCGATATTTTTTTCCAGAATGAATGGTC
958 TTTGTGTCGATATTTTTTTCCAGAATGAATGGAA
114566 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
114631 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
114696 -ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGG
114760 AAAACAGGGTG-ACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
196 AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
114824 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCTGTTTTATGAG
261 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCTGTTTTATGAG
114889 AGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
326 AGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
* *
114954 TGGAAAACAGGATGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
391 TGGAAAAGAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
115019 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
456 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
115084 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAAT
521 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAAT
115148 GAATGGAAAACAGGATGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCC-AAATCAT
586 GAATGGAAAACAGGATGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCAT
115212 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
651 CG-ACCC--AA--ATAATGTAATATGT-ATTTTTCAATCTAACCGGTAC-ATTATACCGGTTTTA
* * * * * **
115277 -TGAGAGAAT-ATGTCTAAATAATGTGTCGA-C-A-C-T-AA-TATAGTTTGTG-TCG-AT-T-T
709 GTG-GAG-ATCATATATAAA-AA-GTGTCGACCAATCATCAACAAAAGTTTATGAGAGAATGTCT
115330 -T-T-T-TC-CAGAATGAATG-GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAA
770 ATATGTGTCACAGAATGAATGAGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAA
*
115389 GTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGG
835 GTGTCGATCAC-AAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGG
115454 TACAATTATACCGGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTG
899 TACAATTATACCGGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTG
115519 TCGATA-TTTTTTCCAGAATGAATGGAA
964 TCGATATTTTTTTCCAGAATGAATGGAA
115546 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
115611 C-AAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
115674 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGG
*
115739 AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATTGAA
196 AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
*
115804 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
261 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCTGTTTTATGAG
*
115869 AG-ATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
326 AGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGA
115933 ATGGAAAAGAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
390 ATGGAAAAGAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCAT
115998 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
455 CGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTA
116063 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
520 TGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
116115 CTAATTTAAA
Statistics
Matches: 1470, Mismatches: 30, Indels: 93
0.92 0.02 0.06
Matches are distributed among these distances:
975 4 0.00
976 6 0.00
977 64 0.04
978 17 0.01
979 166 0.11
980 451 0.31
981 123 0.08
982 18 0.01
983 61 0.04
984 107 0.07
985 57 0.04
986 3 0.00
987 22 0.01
988 2 0.00
989 3 0.00
990 61 0.04
991 1 0.00
992 31 0.02
993 6 0.00
995 2 0.00
996 1 0.00
997 22 0.01
998 21 0.01
999 25 0.02
1000 2 0.00
1001 20 0.01
1002 11 0.01
1003 76 0.05
1004 13 0.01
1005 2 0.00
1007 15 0.01
1008 30 0.02
1009 18 0.01
1010 9 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (991 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCAGAATGAATGG
AAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAA
CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCTGTTTTATGAG
AGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAA
TGGAAAAGAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAAT
GAATGGAAAACAGGATGCACCCATAAAGTGTCGATCCATATAAAAAGTGTCGATCCCAAAATCAT
CGACCCAAATAATGTAATATGTATTTTTCAATCTAACCGGTACATTATACCGGTTTTAGTGGAGA
TCATATATAAAAAGTGTCGACCAATCATCAACAAAAGTTTATGAGAGAATGTCTATATGTGTCAC
AGAATGAATGAGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCAC
AAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACC
GGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTT
TCCAGAATGAATGGAA
Found at i:117593 original size:18 final size:18
Alignment explanation
Indices: 117572--117633 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
117562 AGCGGTCGCA
117572 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
117590 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
117608 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
117626 GAAGATGA
1 GAAGATGA
117634 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:117596 original size:6 final size:6
Alignment explanation
Indices: 117572--117663 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
117562 AGCGGTCGCA
* * * * * *
117572 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
117620 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
117664 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:117607 original size:3 final size:3
Alignment explanation
Indices: 117587--117667 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
117577 TGAAGCTGAC
* * * * * ** *
117587 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
117635 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
117668 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:117626 original size:36 final size:36
Alignment explanation
Indices: 117575--117651 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
117565 GGTCGCAGAA
*
117575 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
117611 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
117647 GATGA
1 GATGA
117652 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:117667 original size:12 final size:12
Alignment explanation
Indices: 117575--117663 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
117565 GGTCGCAGAA
*
117575 GATGAAGCTGAC
1 GATGAAGATGAC
117587 GATGAAGATGAC
1 GATGAAGATGAC
*
117599 GATGATGATGAC
1 GATGAAGATGAC
* *
117611 GATGAAGCTGGC
1 GATGAAGATGAC
*
117623 GATGAAGATGAT
1 GATGAAGATGAC
* * *
117635 GACGATGATGAT
1 GATGAAGATGAC
* *
117647 GATGATGATGAA
1 GATGAAGATGAC
117659 GATGA
1 GATGA
117664 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:117667 original size:18 final size:18
Alignment explanation
Indices: 117572--117663 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
117562 AGCGGTCGCA
*
117572 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
117590 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
117608 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
117626 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
117644 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
117662 GA
1 GA
117664 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:119400 original size:183 final size:183
Alignment explanation
Indices: 119092--119608 Score: 946
Period size: 183 Copynumber: 2.8 Consensus size: 183
119082 CTTTCAACAT
* * * *
119092 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
119157 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
119222 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATTGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
119275 ATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
119340 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
119405 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
119458 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATA-CGGTTTTATGCGCGAATA
1 ATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
* *
119522 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
119587 AATGTGTCGATACCATTTAAAA
131 AATGTGTCGATACGATTTAAAA
119609 GTGTCGGTAA
Statistics
Matches: 325, Mismatches: 9, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
182 102 0.31
183 223 0.69
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
ATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:122106 original size:25 final size:25
Alignment explanation
Indices: 122072--122136 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
122062 TTATCATTAA
122072 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
122097 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
122122 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
122137 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:122512 original size:23 final size:23
Alignment explanation
Indices: 122481--122544 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
122471 ATAGGTAAAC
*
122481 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
122504 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
122527 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
122545 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:122551 original size:23 final size:23
Alignment explanation
Indices: 122481--122553 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
122471 ATAGGTAAAC
* **
122481 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
122504 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
122527 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
122550 ATAT
1 ATAT
122554 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:122856 original size:25 final size:25
Alignment explanation
Indices: 122822--122872 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
122812 ACAACAAATC
*
122822 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
122847 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
122872 A
1 A
122873 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:123283 original size:18 final size:18
Alignment explanation
Indices: 123262--123298 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
123252 GTAATTGGAG
123262 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
123280 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
123298 T
1 T
123299 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:123306 original size:24 final size:24
Alignment explanation
Indices: 123254--123300 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
123244 TTTCATATGT
* *
123254 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
123278 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
123301 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:123601 original size:39 final size:39
Alignment explanation
Indices: 123558--123644 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
123548 TCCGATGCTC
*
123558 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
123597 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
123636 ATCAAAATC
1 ATCAAAATC
123645 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:128116 original size:3 final size:3
Alignment explanation
Indices: 128108--128132 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
128098 GAATTGGGTT
128108 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
128133 AATTATAGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:128418 original size:23 final size:23
Alignment explanation
Indices: 128387--128459 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
128377 ATAGGTAAAC
*
128387 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
128410 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
128433 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
128456 ATAT
1 ATAT
128460 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:129151 original size:335 final size:329
Alignment explanation
Indices: 128501--129164 Score: 1229
Period size: 335 Copynumber: 2.0 Consensus size: 329
128491 CCATACTTTT
128501 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
1 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
128566 TTATAGGCGTCTAATGATTTATTTTTTCGTTACGATATATATTATTAAATTAAAAATTCTAAATA
66 TTATAGGCGTCTAATGATTTATTTTTTCGTTACGATATATATTATTAAATTAAAAATTCTAAATA
*
128631 TTATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATT
131 ATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATT
* *
128696 GTAGGTGGAAAACATGAAATACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAG
196 GTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAA
*
128761 TATCGATCCTTTTTATAAAAAGTATAGACACTTTCAATATAATATAATGTAATAGGTAAATTTGC
261 TATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATAATATAATGTAATAGGTAAATTTGC
128826 AATG
326 AATG
128830 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
1 TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
128895 TTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTA
66 TTATAGGCGTCTAATGATTTATTTTTT-CGTTACG--ATATA-TATTATTAAATTAAAAATTCTA
128960 AATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTA
127 AATAATATTTTATAAAATATCAAAACAATCAAATAA-TTTTTGTGCAAATGAAATTATTAAATTA
129025 ATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAA
191 ATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAA
*
129090 AAGAAATATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAATATAATGTAATAGGTAA
255 AAGAAATATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATAATATAATGTAATAGGTAA
129155 ATTTGCAATG
320 ATTTGCAATG
129165 CTATCGGTAT
Statistics
Matches: 324, Mismatches: 5, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
329 92 0.28
330 7 0.02
332 5 0.02
333 57 0.18
334 58 0.18
335 105 0.32
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (329 bp):
TTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAA
TTATAGGCGTCTAATGATTTATTTTTTCGTTACGATATATATTATTAAATTAAAAATTCTAAATA
ATATTTTATAAAATATCAAAACAATCAAATAATTTTTGTGCAAATGAAATTATTAAATTAATATT
GTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAA
TATCGATCATTTTTATAAAAAGTATAGACACTTTCAATATAATATAATGTAATAGGTAAATTTGC
AATG
Found at i:134181 original size:40 final size:40
Alignment explanation
Indices: 134137--134220 Score: 159
Period size: 40 Copynumber: 2.1 Consensus size: 40
134127 ACAATAAGGG
*
134137 AAAAATGTTTTGGACCAAATTGAATTTGTTCAAACATTGC
1 AAAAATATTTTGGACCAAATTGAATTTGTTCAAACATTGC
134177 AAAAATATTTTGGACCAAATTGAATTTGTTCAAACATTGC
1 AAAAATATTTTGGACCAAATTGAATTTGTTCAAACATTGC
134217 AAAA
1 AAAA
134221 TAATTGAAAG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (40 bp):
AAAAATATTTTGGACCAAATTGAATTTGTTCAAACATTGC
Found at i:136243 original size:3 final size:3
Alignment explanation
Indices: 136235--136285 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
136225 GTTTGTAGTA
136235 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
136283 AAT
1 AAT
136286 GGTTGAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:137213 original size:20 final size:21
Alignment explanation
Indices: 137188--137238 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
137178 ATTCAAGAAC
137188 TTTTCTTCT-CTTAAAAAATA
1 TTTTCTTCTCCTTAAAAAATA
*
137208 TTTTC-TCTCCTTAGAAAATA
1 TTTTCTTCTCCTTAAAAAATA
*
137228 TTATCTT-TCCT
1 TTTTCTTCTCCT
137239 CCTTAGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 3 0.11
20 23 0.85
21 1 0.04
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (21 bp):
TTTTCTTCTCCTTAAAAAATA
Done.