Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1449
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: 133823
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Found at i:11063 original size:2 final size:2
Alignment explanation
Indices: 11056--11130 Score: 55
Period size: 2 Copynumber: 37.5 Consensus size: 2
11046 ATTAATATGT
* * * * *
11056 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TT TG CA GTA GA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
* *
11098 CCA T- TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11131 TGTTTGCAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
1 2 0.03
2 54 0.93
3 2 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:13821 original size:2 final size:2
Alignment explanation
Indices: 13816--13852 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
13806 AATAAAAATC
13816 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
13853 CACCTTCAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14030 original size:2 final size:2
Alignment explanation
Indices: 14023--14059 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
14013 TATTTGCTGT
*
14023 TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
14060 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:14747 original size:13 final size:14
Alignment explanation
Indices: 14722--14762 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
14712 TTTTTATAAT
14722 ATTAAATTAAAAATA
1 ATTAAA-TAAAAATA
*
14737 A-TCAATAAAAA-A
1 ATTAAATAAAAATA
14749 ATTAAATAAAAATA
1 ATTAAATAAAAATA
14763 GTATGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
12 2 0.09
13 15 0.68
14 4 0.18
15 1 0.05
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (14 bp):
ATTAAATAAAAATA
Found at i:15051 original size:17 final size:17
Alignment explanation
Indices: 15027--15106 Score: 68
Period size: 17 Copynumber: 5.2 Consensus size: 17
15017 TTTTATGTAG
15027 ATATAAAA-AAAATATA
1 ATATAAAATAAAATATA
15043 ATAT---A-AAAATATA
1 ATATAAAATAAAATATA
* *
15056 A-A-AAAAT-AATTAAA
1 ATATAAAATAAAATATA
*
15070 ATATGAAATAAAATATA
1 ATATAAAATAAAATATA
*
15087 ATATAAAATATAATATA
1 ATATAAAATAAAATATA
15104 ATA
1 ATA
15107 AACTAACATA
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
12 1 0.02
13 10 0.20
14 7 0.14
15 1 0.02
16 8 0.16
17 23 0.46
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (17 bp):
ATATAAAATAAAATATA
Found at i:15054 original size:24 final size:23
Alignment explanation
Indices: 15027--15099 Score: 98
Period size: 22 Copynumber: 3.3 Consensus size: 23
15017 TTTTATGTAG
15027 ATATAAAAAAAATATAATATAAA
1 ATATAAAAAAAATATAATATAAA
*
15050 A-ATATAAAAAA-ATAAT-TAAA
1 ATATAAAAAAAATATAATATAAA
*
15070 ATATGAAATAAAATATAATATAAA
1 ATAT-AAAAAAAATATAATATAAA
15094 ATATAA
1 ATATAA
15100 TATAATAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
20 5 0.12
21 7 0.16
22 15 0.35
23 8 0.19
24 8 0.19
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.27
Consensus pattern (23 bp):
ATATAAAAAAAATATAATATAAA
Found at i:15081 original size:12 final size:12
Alignment explanation
Indices: 15035--15104 Score: 87
Period size: 12 Copynumber: 6.2 Consensus size: 12
15025 AGATATAAAA
15035 AAAATATAATAT
1 AAAATATAATAT
15047 AAAA-AT-ATA-
1 AAAATATAATAT
*
15056 AAAAAATAAT-T
1 AAAATATAATAT
15067 AAAATATGAA-AT
1 AAAATAT-AATAT
15079 AAAATATAATAT
1 AAAATATAATAT
15091 AAAATATAATAT
1 AAAATATAATAT
15103 AA
1 AA
15105 TAAACTAACA
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
9 4 0.08
10 5 0.10
11 12 0.24
12 30 0.59
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:15127 original size:43 final size:44
Alignment explanation
Indices: 15027--15148 Score: 121
Period size: 44 Copynumber: 2.9 Consensus size: 44
15017 TTTTATGTAG
* * * *
15027 ATAT-AAAAAAAATATAATATAAAAATATAAAAAAAT-AATTAAA
1 ATATGAAATAAAATATAATAT-AAAATATAATATAATAAACTAAA
*
15070 ATATGAAATAAAATATAATATAAAATATAATATAATAAACTAAC
1 ATATGAAATAAAATATAATATAAAATATAATATAATAAACTAAA
* * *
15114 ATATTATAT-AAATAT-AT-TAAAAT-TTATATAATAAA
1 ATATGAAATAAAATATAATATAAAATATAATATAATAAA
15149 TATTATTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
40 11 0.16
41 6 0.09
42 2 0.03
43 23 0.33
44 27 0.39
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.32
Consensus pattern (44 bp):
ATATGAAATAAAATATAATATAAAATATAATATAATAAACTAAA
Found at i:15148 original size:14 final size:14
Alignment explanation
Indices: 15125--15173 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
15115 TATTATATAA
15125 ATATATTAAAATTT
1 ATATATTAAAATTT
*
15139 ATATAATAAATATTATT
1 ATATATTAAA-A-T-TT
15156 AATATATTAAAATTT
1 -ATATATTAAAATTT
15171 ATA
1 ATA
15174 AAAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 12 0.41
15 3 0.10
16 2 0.07
17 3 0.10
18 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:15172 original size:18 final size:18
Alignment explanation
Indices: 15124--15189 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
15114 ATATTATATA
15124 AATATATTAAAATTTA-T
1 AATATATTAAAATTTATT
15141 -ATA-A-T-AAATATTATT
1 AATATATTAAAAT-TTATT
*
15156 AATATATTAAAATTTATA
1 AATATATTAAAATTTATT
*
15174 AAAATATATAAAATTT
1 AATATAT-TAAAATTT
15190 TAAATATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
13 4 0.10
14 4 0.10
15 2 0.05
16 6 0.15
17 1 0.03
18 11 0.28
19 12 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATATTAAAATTTATT
Found at i:15183 original size:10 final size:10
Alignment explanation
Indices: 15043--15186 Score: 62
Period size: 10 Copynumber: 13.8 Consensus size: 10
15033 AAAAAATATA
15043 ATATAAAAAT
1 ATATAAAAAT
*
15053 ATAAAAAAAT
1 ATATAAAAAT
*
15063 A-ATTAAAAT
1 ATATAAAAAT
*
15072 ATGAAATAAAAT
1 AT-ATA-AAAAT
15084 ATAATATAAAAT
1 AT-ATA-AAAAT
*
15096 ATA-ATATAAT
1 ATATA-AAAAT
* *
15106 AAACT-AACAT
1 ATA-TAAAAAT
*
15116 ATTATATAAAT
1 A-TATAAAAAT
*
15127 ATATTAAAATTT
1 ATA-TAAAA-AT
15139 ATATAATAAAT
1 ATATAA-AAAT
**
15150 AT-TATTAAT
1 ATATAAAAAT
*
15159 ATATTAAAAT
1 ATATAAAAAT
*
15169 TTATAAAAAT
1 ATATAAAAAT
15179 ATATAAAA
1 ATATAAAA
15187 TTTTAAATAT
Statistics
Matches: 98, Mismatches: 25, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
9 12 0.12
10 46 0.47
11 17 0.17
12 23 0.23
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:15193 original size:18 final size:20
Alignment explanation
Indices: 15156--15218 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 20
15146 AAATATTATT
15156 AATATATTAAAATTTATAAA
1 AATATATTAAAATTTATAAA
15176 AATATA-TAAAATTT-TAAA
1 AATATATTAAAATTTATAAA
* *
15194 TATA-ATTATAA--TATAAA
1 AATATATTAAAATTTATAAA
15211 AATTATAT
1 AA-TATAT
15219 ATTTACATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.03
17 6 0.17
18 13 0.36
19 10 0.28
20 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATATTAAAATTTATAAA
Found at i:18364 original size:2 final size:2
Alignment explanation
Indices: 18353--18401 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
18343 TATAATCTAT
18353 TA TA TA -A 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
18394 TA TA TA TA
1 TA TA TA TA
18402 AAGGTAGGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:19189 original size:15 final size:15
Alignment explanation
Indices: 19169--19203 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
19159 TTGAACTAAG
*
19169 TTATTATTTAAATTA
1 TTATTAATTAAATTA
*
19184 TTATTAATTAATTTA
1 TTATTAATTAAATTA
19199 TTATT
1 TTATT
19204 TATATGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTAATTAAATTA
Found at i:19704 original size:3 final size:3
Alignment explanation
Indices: 19698--19735 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
19688 AAAAAAAGAA
19698 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
19736 AATGTGCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:21234 original size:13 final size:14
Alignment explanation
Indices: 21194--21234 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
21184 GTTTAATTTA
*
21194 AAAATATATATTTT
1 AAAATATATATTAT
*
21208 AAAATA-ATAATAT
1 AAAATATATATTAT
21221 AAAATATAT-TTAT
1 AAAATATATATTAT
21234 A
1 A
21235 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATATATATTAT
Found at i:22595 original size:14 final size:15
Alignment explanation
Indices: 22565--22604 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
22555 TTATTATCAA
*
22565 TAAATTAA-ATTACT
1 TAAATTAATTTTACT
22579 TAAATTAATTTTA-T
1 TAAATTAATTTTACT
22593 TAAA-TAATTTTA
1 TAAATTAATTTTA
22605 ACGAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 13 0.54
15 3 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATTAATTTTACT
Found at i:22794 original size:16 final size:17
Alignment explanation
Indices: 22762--22811 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
22752 TAAAAATTTT
22762 AAATTAT-AATTTGATA
1 AAATTATAAATTTGATA
22778 AAATTATAAATTT-ATA
1 AAATTATAAATTTGATA
* *
22794 ACACTTATAAAATTGATA
1 A-AATTATAAATTTGATA
22812 TTAAATTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 11 0.38
17 15 0.52
18 3 0.10
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (17 bp):
AAATTATAAATTTGATA
Found at i:23125 original size:16 final size:17
Alignment explanation
Indices: 23091--23125 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23081 GAAGCTCAAC
*
23091 AAAAAAATTAGAGACAG
1 AAAAAAAGTAGAGACAG
23108 AAAAAAAGTAGAGA-AG
1 AAAAAAAGTAGAGACAG
23124 AA
1 AA
23126 TGCTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.69, C:0.03, G:0.20, T:0.09
Consensus pattern (17 bp):
AAAAAAAGTAGAGACAG
Found at i:25506 original size:464 final size:463
Alignment explanation
Indices: 24633--25563 Score: 1355
Period size: 464 Copynumber: 2.0 Consensus size: 463
24623 GTTTTTTTGT
* * * ** *
24633 TTTTCTAGTTTCCAAGTTGTAAATCCACTCCTCTTACCACACCTATGGTTGGGACCTCCTTTAAG
1 TTTTCCAGTTTCCAAGTTATAAATCCACTCCTCTAACCACACCTATGGTTGAAACCTCCTTCAAG
*
24698 TTAACTGTCTTGATCCACTCGGTTGCTTTTCAATTTTGAGATCAAACTTTTTGCCAACTTTCTTA
66 TTAACTGTCTTGATCCACTCGGTTGCTTTTCAATTTTAAGATCAAACTTTTTGCCAACTTTCTTA
* ** * *
24763 GATATAAATAAGTCTGATGCTTTTGTGTTAACTAAAGCAGTTATTTGTTTGCTTATGATCTTGAT
131 GATATAAATAAGTCTGACGCTCCTGTGTCAACTAAAGCAGTTATTTGTTTGCCTATGATCTTGAT
* * ** * * *
24828 GTCTATGAACATCAACCCTTTCTGTTTTTTACTCCTTTTAGTCTTAGTAGAATTTAGTATAATAG
196 GTCTATGAACATCAAACCTTCCTACTTTTGACTCCTCTTAGTCTTAATAGAATTTAGTATAATAG
* * * *
24893 AACCAAGCTTCAAAGTCTTATTCTCCAGCTCATTCTCTAGCTCATCATCCTCTTTATTGATGGTA
261 AACCAAGCTTCAAAGCCTCATTCTCCAGCTCATTCTCTAGCTCATCATCCTCCTTATTGATGGCA
*
24958 GATAACTTGGCTCGCTATGGGCAGTCTCGCATCCGATGTGAACTATCACATAAGAAGCACTTCAC
326 GATAACTTGGCTCGCTATGGGCAGTCTCGCATCCGATGTGAACCATCACATAAGAAGCACTTCAC
* *
25023 TGGCTCCTTATCTTTCTTTTTCTCCCATCGTTTGTTAGG-CTTAGGTTTTCC-TTTTGTAGGCTT
391 TGGCTCCCTATCTTTCTTTTTCTCCCATCGTTTGTT-GGACTTAGG-TTTCCATTTTATAGGCTT
*
25086 CTCATCCTTA
454 CTCATCCTCA
*
25096 TTTTCCAGTTTCCAAGTTATAAGTCCACTCCTCTAACCACACCTATGGTTGAAACCTCCTTCAAG
1 TTTTCCAGTTTCCAAGTTATAAATCCACTCCTCTAACCACACCTATGGTTGAAACCTCCTTCAAG
* * * **
25161 TTAACTGTCTTGATCTATTCGGTTGCCTTTTCAATTTTAAGATCAAATTTTTTGGTAACTTTCTT
66 TTAACTGTCTTGATCCACTCGGTTG-CTTTTCAATTTTAAGATCAAACTTTTTGCCAACTTTCTT
* *
25226 AGATATAATTAAGT-TCGACGCTCCTGTGTCAACTAAAGTAGTTATTTGTTTGCCTATGATCTTG
130 AGATATAAATAAGTCT-GACGCTCCTGTGTCAACTAAAGCAGTTATTTGTTTGCCTATGATCTTG
* * *
25290 ATGTTTATGAACATCAAATCTTCCTACTTTTGACTTCTCTTAGTCTTAATAGAATTTAGTATAAT
194 ATGTCTATGAACATCAAACCTTCCTACTTTTGACTCCTCTTAGTCTTAATAGAATTTAGTATAAT
* ** *
25355 AGAATCAAGCTTCAAAGCCTCATTCTCTGGCTCATTTTCTAGCTCATCATCCTCCTTATTGATGG
259 AGAACCAAGCTTCAAAGCCTCATTCTCCAGCTCATTCTCTAGCTCATCATCCTCCTTATTGATGG
* * * * *
25420 CAGATAACTTGGCTCGCTGTGGGTAGTCTCGGATTCGATGTGAACCGTCACATAAGAAGCACTTC
324 CAGATAACTTGGCTCGCTATGGGCAGTCTCGCATCCGATGTGAACCATCACATAAGAAGCACTTC
* * *
25485 ACTGGCTCCCTATCTTTCTTTTTCTCCTATCGTTTGTTGGACTTATGTTTCCATTTTATAGGTTT
389 ACTGGCTCCCTATCTTTCTTTTTCTCCCATCGTTTGTTGGACTTAGGTTTCCATTTTATAGGCTT
25550 CTCATCCTCA
454 CTCATCCTCA
25560 TTTT
1 TTTT
25564 TGTACTGTCG
Statistics
Matches: 414, Mismatches: 50, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
463 89 0.21
464 325 0.79
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (463 bp):
TTTTCCAGTTTCCAAGTTATAAATCCACTCCTCTAACCACACCTATGGTTGAAACCTCCTTCAAG
TTAACTGTCTTGATCCACTCGGTTGCTTTTCAATTTTAAGATCAAACTTTTTGCCAACTTTCTTA
GATATAAATAAGTCTGACGCTCCTGTGTCAACTAAAGCAGTTATTTGTTTGCCTATGATCTTGAT
GTCTATGAACATCAAACCTTCCTACTTTTGACTCCTCTTAGTCTTAATAGAATTTAGTATAATAG
AACCAAGCTTCAAAGCCTCATTCTCCAGCTCATTCTCTAGCTCATCATCCTCCTTATTGATGGCA
GATAACTTGGCTCGCTATGGGCAGTCTCGCATCCGATGTGAACCATCACATAAGAAGCACTTCAC
TGGCTCCCTATCTTTCTTTTTCTCCCATCGTTTGTTGGACTTAGGTTTCCATTTTATAGGCTTCT
CATCCTCA
Found at i:27422 original size:20 final size:20
Alignment explanation
Indices: 27397--27441 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
27387 TTGATATATC
27397 GATACAAAAGTGAATGTATT
1 GATACAAAAGTGAATGTATT
* *
27417 GATACATAAGTGAATGTGTT
1 GATACAAAAGTGAATGTATT
27437 GATAC
1 GATAC
27442 TAGATCCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (20 bp):
GATACAAAAGTGAATGTATT
Found at i:27736 original size:20 final size:20
Alignment explanation
Indices: 27711--27751 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
27701 AATTTCTAAT
27711 CATAAGTGAATGTATTGATA
1 CATAAGTGAATGTATTGATA
*
27731 CATAAGTGAATGTGTTGATA
1 CATAAGTGAATGTATTGATA
27751 C
1 C
27752 TAGATCCTGT
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:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (20 bp):
CATAAGTGAATGTATTGATA
Found at i:28046 original size:20 final size:20
Alignment explanation
Indices: 28021--28061 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
28011 AATTTCTAAT
28021 CATAAGTGAATGTATTGATA
1 CATAAGTGAATGTATTGATA
*
28041 CATAAGTGAATGTGTTGATA
1 CATAAGTGAATGTATTGATA
28061 C
1 C
28062 TAGATCCTGT
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:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (20 bp):
CATAAGTGAATGTATTGATA
Found at i:28561 original size:290 final size:290
Alignment explanation
Indices: 27421--29802 Score: 4215
Period size: 290 Copynumber: 8.0 Consensus size: 290
27411 TGTATTGATA
27421 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
27486 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
27551 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
27616 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
27681 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTATTGAT
261 AGGCCATATATTAGAGCTTAAA--T-T--TC-----------TA---AT
27730 ACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
1 -CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
27795 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
65 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
27860 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
130 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
27925 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
195 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
27990 CAGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTATTGAT
260 CAGGCCATATATTAGAGCTTAAA--T-T--TC-----------TA---AT
28040 ACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
1 -CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
28105 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
65 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
28170 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
130 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
28235 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
195 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
28300 CAGGCCATATATTAGAGCTTAAATTTCTAAT
260 CAGGCCATATATTAGAGCTTAAATTTCTAAT
28331 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
28396 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
28461 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
28526 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
28591 AGGCCATATATTAGAGCTTAAATTTCTAAT
261 AGGCCATATATTAGAGCTTAAATTTCTAAT
28621 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
28686 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
28751 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
28816 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
28881 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTATTGAT
261 AGGCCATATATTAGAGCTTAAA--T-T--TC-----------TA---AT
28930 ACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
1 -CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
28995 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
65 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
29060 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
130 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
29125 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
195 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
29190 CAGGCCATATATTAGAGCTTAAATTTCTAAT
260 CAGGCCATATATTAGAGCTTAAATTTCTAAT
29221 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
29286 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
29351 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
29416 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
29481 AGGCCATATATTAGAGCTTAAATTTCTAAT
261 AGGCCATATATTAGAGCTTAAATTTCTAAT
29511 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
*
29576 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTTCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
29641 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
29706 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
29771 AGGCCATATATTAGAGCTTAAATTTCTAAT
261 AGGCCATATATTAGAGCTTAAATTTCTAAT
29801 CA
1 CA
29803 AATTTGAATC
Statistics
Matches: 2051, Mismatches: 1, Indels: 60
0.97 0.00 0.03
Matches are distributed among these distances:
290 1153 0.56
291 4 0.00
292 1 0.00
293 1 0.00
294 4 0.00
295 2 0.00
305 4 0.00
306 2 0.00
307 2 0.00
308 2 0.00
309 2 0.00
310 874 0.43
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (290 bp):
CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
AGGCCATATATTAGAGCTTAAATTTCTAAT
Found at i:28936 original size:20 final size:20
Alignment explanation
Indices: 28911--28951 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
28901 AATTTCTAAT
28911 CATAAGTGAATGTATTGATA
1 CATAAGTGAATGTATTGATA
*
28931 CATAAGTGAATGTGTTGATA
1 CATAAGTGAATGTATTGATA
28951 C
1 C
28952 TAGATCCTGT
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:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (20 bp):
CATAAGTGAATGTATTGATA
Found at i:29160 original size:890 final size:890
Alignment explanation
Indices: 27421--29802 Score: 4575
Period size: 890 Copynumber: 2.7 Consensus size: 890
27411 TGTATTGATA
27421 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
27486 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
27551 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
27616 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
27681 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTATTGATACATAAGTGAATGTGT
261 AGGCCATATATTAGAGCTTAAA--T-T--TC-----------TA---AT-CATAAGTGAATGTGT
27746 TGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGA
306 TGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGA
27811 TGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCA
371 TGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCA
27876 AATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGAC
436 AATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGAC
27941 CCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGA
501 CCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGA
28006 GCTTAAATTTCTAATCATAAGTGAATGTATTGATACATAAGTGAATGTGTTGATACTAGATCCTG
566 GCTTAAATTTCTAATCATAAGTGAATGTATTGATACATAAGTGAATGTGTTGATACTAGATCCTG
28071 TCGAGGCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAA
631 TCGAGGCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAA
28136 TGTATCAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCAT
696 TGTATCAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCAT
28201 CTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTG
761 CTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTG
28266 AACATGTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAAT
826 AACATGTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAAT
28331 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
28396 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
28461 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
28526 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
28591 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTGTTGATACTAGATCCTGTCGAG
261 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTGTTGATACTAGATCCTGTCGAG
28656 GCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTAT
326 GCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTAT
28721 CAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGT
391 CAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGT
28786 TAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACAT
456 TAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACAT
28851 GTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAATCATAA
521 GTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAATCATAA
28916 GTGAATGTATTGATACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATT
586 GTGAATGTATTGATACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATT
28981 TTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCAT
651 TTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCAT
29046 TGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTT
716 TGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTT
29111 CGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTAT
781 CGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTAT
29176 AAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAAT
846 AAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAAT
29221 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
29286 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
29351 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
29416 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
29481 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTGTTGATACTAGATCCTGTCGAG
261 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTGTTGATACTAGATCCTGTCGAG
29546 GCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTAT
326 GCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTAT
*
29611 CAATACATCTTTCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGT
391 CAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGT
29676 TAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACAT
456 TAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACAT
29741 GTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAATCA
521 GTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAATCA
29803 AATTTGAATC
Statistics
Matches: 1471, Mismatches: 1, Indels: 20
0.99 0.00 0.01
Matches are distributed among these distances:
890 1181 0.80
891 2 0.00
894 2 0.00
905 2 0.00
907 1 0.00
908 1 0.00
910 282 0.19
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (890 bp):
CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTGTTGATACTAGATCCTGTCGAG
GCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTAT
CAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGT
TAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACAT
GTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAATCATAA
GTGAATGTATTGATACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATT
TTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCAT
TGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTT
CGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTAT
AAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAAT
Found at i:32246 original size:21 final size:21
Alignment explanation
Indices: 32212--32254 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
32202 CAGTTATCTT
32212 AAGATAATCAATGG-TAATTAC
1 AAGATAATCAATGGCT-ATTAC
32233 AAGATACATC-ATGGCTATTAC
1 AAGATA-ATCAATGGCTATTAC
32254 A
1 A
32255 CTTTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (21 bp):
AAGATAATCAATGGCTATTAC
Found at i:33208 original size:18 final size:18
Alignment explanation
Indices: 33182--33217 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33172 AGAAATCCTT
33182 TAGAAAATTTTGTAATAC
1 TAGAAAATTTTGTAATAC
*
33200 TAGATAATTTTGTAATAC
1 TAGAAAATTTTGTAATAC
33218 ACTACTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (18 bp):
TAGAAAATTTTGTAATAC
Found at i:37508 original size:32 final size:31
Alignment explanation
Indices: 37466--37542 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 31
37456 CATTTGGTTT
37466 AGAAGGGTTGCCACCAACTTGTGTAGGCTTTAG
1 AGAA-GGTTGCCACCAACTTGTGTAGGCTTT-G
*
37499 AGAAGGTTGCCACCAACTTGTGTGGGCTTTG
1 AGAAGGTTGCCACCAACTTGTGTAGGCTTTG
*
37530 AGAAGGATGCCAC
1 AGAAGGTTGCCAC
37543 TGACTTGCGG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
31 13 0.31
32 25 0.60
33 4 0.10
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (31 bp):
AGAAGGTTGCCACCAACTTGTGTAGGCTTTG
Found at i:37596 original size:28 final size:28
Alignment explanation
Indices: 37519--38125 Score: 609
Period size: 28 Copynumber: 21.5 Consensus size: 28
37509 CACCAACTTG
37519 TGTGGGCTTTGAGAAGGATGCCACTGACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * * * *
37548 TGCGGGCTTTAAAAATG-TGCCATTAACT
1 TGTGGGCTTT-GAAAGGATGCCACTGACT
* * *
37576 TATGGTCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
37604 TGTGGGCTTTGAAAATAATGCCACCGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
37633 TGTATGGGCTTCGAAAGGGTGCCATTGACT
1 TG--TGGGCTTTGAAAGGATGCCACTGACT
37663 TGT-GGCTTTGAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * * *
37690 TATGGGTTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
37718 TATGGGCTTTGAAAGGGTGCCACTAACC
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
37746 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
37774 TGTGGGCTTTTAAA-GTTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
37801 TGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
37829 TGTGAGCTTTGAACAGG-TGCCACTGACT
1 TGTGGGCTTTGAA-AGGATGCCACTGACT
* * *
37857 TATGGTCTTTTGAAAGGGTGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * *
37886 TGTGGGCTTCGAAAAGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
37914 TGTGGGTTTTAAACAGG-TGCCACTGACT
1 TGTGGGCTTTGAA-AGGATGCCACTGACT
* * * *
37942 TGTGGGCTTTTAAAGGGTGCCTCTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
37970 TGTGGGCTTTGAACAGG-TGCCATTGACT
1 TGTGGGCTTTGAA-AGGATGCCACTGACT
* *
37998 TGTGGACTTTTGAAAGGGTGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* *
38027 TGTGGGATTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
38055 TGTGGGCTTTTGAAA-GAGTGTCACTGACT
1 TGTGGGC-TTTGAAAGGA-TGCCACTGACT
* *
38084 TGTGGACTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
38112 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
38126 AGGTGAACGT
Statistics
Matches: 476, Mismatches: 82, Indels: 41
0.79 0.14 0.07
Matches are distributed among these distances:
27 54 0.11
28 298 0.63
29 101 0.21
30 15 0.03
31 8 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:37625 original size:85 final size:83
Alignment explanation
Indices: 37519--38128 Score: 597
Period size: 85 Copynumber: 7.2 Consensus size: 83
37509 CACCAACTTG
* * * * * * *
37519 TGTGGGCTTTGAGAAGGATGCCACTGACTTGCGGGCTTTAAAAATGTGCCATTAACTTATGGTCT
1 TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GTGCCACTGACTTGTGGACT
*
37584 TTGAAAGGATGCCACTAACT
65 TTGAAAGG-TGCCACTGACT
** * * * *
37604 TGTGGGCTTTGAAAATAATGCCACCGACTTGTATGGGCTTCGAAAGGGTGCCATTGACTTGTGG-
1 TGTGGGCTTTGAAAAGGATGCCACTGACTTG--TGGGCTTTGAAA-AGTGCCACTGACTTGTGGA
37668 CTTTGAAATGGTGCCACTGACT
63 CTTTGAAA-GGTGCCACTGACT
* ** * * * * *
37690 TATGGG-TTTTTAAAGGTTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTAACCTGTGGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAA-AGTGCCACTGACTTGTGGACT
37754 TTGAAAGGATGCCACTGACT
65 TTGAAAGG-TGCCACTGACT
* * *
37774 TGTGGGCTTT-TAAA-GTTGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTGACTTGT-GAGC
1 TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAG-TGCCACTGACTTGTGGA-C
37836 TTTGAACAGGTGCCACTGACT
64 TTTGAA-AGGTGCCACTGACT
* * * * * **
37857 TATGGTCTTTTG-AAAGGGTGCCACTGACTTGTGGGCTTCGAAAAGATACCACTGACTTGTGGGT
1 TGTGGGC-TTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAG-TGCCACTGACTTGTGGAC
*
37921 TTTAAACAGGTGCCACTGACT
64 TTTGAA-AGGTGCCACTGACT
* * * * * *
37942 TGTGGGCTTT-TAAAGGGTGCCTCTAACTTGTGGGCTTTGAACAGGTGCCATTGACTTGTGGACT
1 TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAA-AAGTGCCACTGACTTGTGGAC-
38006 TTTGAAAGGGTGCCACTGACT
64 TTTGAAA-GGTGCCACTGACT
* * *
38027 TGTGGGATTTG-AAAGGATGCCACTAACTTGTGGGCTTTTGAAAGAGTGTCACTGACTTGTGGAC
1 TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGC-TTTGAAA-AGTGCCACTGACTTGTGGAC
*
38091 TTTGAAAGGATGCCACTAACT
64 TTTGAAAGG-TGCCACTGACT
38112 TGTGGGCTTTGAAAAGG
1 TGTGGGCTTTGAAAAGG
38129 TGAACGTTCT
Statistics
Matches: 445, Mismatches: 57, Indels: 45
0.81 0.10 0.08
Matches are distributed among these distances:
82 3 0.01
83 89 0.20
84 84 0.19
85 191 0.43
86 52 0.12
87 26 0.06
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (83 bp):
TGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGTGCCACTGACTTGTGGACTT
TGAAAGGTGCCACTGACT
Found at i:39382 original size:11 final size:10
Alignment explanation
Indices: 39365--39408 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
39355 TCTGGACCCC
39365 TTTTTTTGTT
1 TTTTTTTGTT
39375 TGTTTTTTG--
1 T-TTTTTTGTT
39384 TTTTTTTGTT
1 TTTTTTTGTT
39394 TTTTTTTGTT
1 TTTTTTTGTT
39404 TTTTT
1 TTTTT
39409 GTACGAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 7 0.23
9 1 0.03
10 16 0.52
11 7 0.23
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:39387 original size:19 final size:18
Alignment explanation
Indices: 39365--39410 Score: 83
Period size: 18 Copynumber: 2.5 Consensus size: 18
39355 TCTGGACCCC
39365 TTTTTTTGTTTGTTTTTTG
1 TTTTTTTGTTT-TTTTTTG
39384 TTTTTTTGTTTTTTTTTG
1 TTTTTTTGTTTTTTTTTG
39402 TTTTTTTGT
1 TTTTTTTGT
39411 ACGAAAGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (18 bp):
TTTTTTTGTTTTTTTTTG
Found at i:39390 original size:8 final size:8
Alignment explanation
Indices: 39368--39410 Score: 52
Period size: 8 Copynumber: 5.1 Consensus size: 8
39358 GGACCCCTTT
39368 TTTTGTTTG
1 TTTT-TTTG
39377 -TTTTTTG
1 TTTTTTTG
39384 TTTTTTTG
1 TTTTTTTG
39392 TTTTTTTTTG
1 --TTTTTTTG
39402 TTTTTTTG
1 TTTTTTTG
39410 T
1 T
39411 ACGAAAGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 4 0.13
8 19 0.61
10 8 0.26
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (8 bp):
TTTTTTTG
Found at i:39393 original size:15 final size:16
Alignment explanation
Indices: 39368--39408 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
39358 GGACCCCTTT
39368 TTTTGTTTGTTTTTTG
1 TTTTGTTTGTTTTTTG
39384 TTTT-TTTG-TTTTT-
1 TTTTGTTTGTTTTTTG
39397 TTTTGTTT-TTTT
1 TTTTGTTTGTTTT
39409 GTACGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.17
14 11 0.48
15 4 0.17
16 4 0.17
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (16 bp):
TTTTGTTTGTTTTTTG
Found at i:45086 original size:22 final size:22
Alignment explanation
Indices: 45032--45086 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
45022 GTTCCCCCTT
*
45032 CTTTTTTCTTATTGACAAAGGG
1 CTTTTTTCTTGTTGACAAAGGG
45054 CTTTTTTCTTGTTGACAAAGGG
1 CTTTTTTCTTGTTGACAAAGGG
*
45076 CTTTTTGCTTG
1 CTTTTTTCTTG
45087 ATCCAATTGC
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:0.16, C:0.15, G:0.20, T:0.49
Consensus pattern (22 bp):
CTTTTTTCTTGTTGACAAAGGG
Found at i:52937 original size:20 final size:20
Alignment explanation
Indices: 52873--52947 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
52863 AAAAAGACAG
*
52873 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
* * * *
52893 AGTATATCGATACATTCATA
1 AATGTATCGATACATTGAAA
*
52913 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
*
52933 AATGTATTGATACAT
1 AATGTATCGATACAT
52948 CTGGGTAAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:52968 original size:30 final size:30
Alignment explanation
Indices: 52933--53068 Score: 166
Period size: 30 Copynumber: 4.5 Consensus size: 30
52923 TACATTGAAA
*
52933 AATGTATTGATACATCTGGGTAAAAGACTG
1 AATGTATCGATACATCTGGGTAAAAGACTG
52963 AATGTATCGATACATCTGGGTAAAAGACTG
1 AATGTATCGATACATCTGGGTAAAAGACTG
* * * * ** **
52993 AATGTATCAATACATATCGATACATTGA-AA
1 AATGTATCGATACATCTGGGTA-AAAGACTG
*
53023 AATGTATCGATACATCTAGGTAAAAGACTG
1 AATGTATCGATACATCTGGGTAAAAGACTG
53053 AATGTATCGATACATC
1 AATGTATCGATACATC
53069 GAAAAATGTA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
29 3 0.03
30 81 0.93
31 3 0.03
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (30 bp):
AATGTATCGATACATCTGGGTAAAAGACTG
Found at i:53047 original size:24 final size:23
Alignment explanation
Indices: 53007--53101 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 23
52997 TATCAATACA
53007 TATCGATACAT-T-G-AAAAATG
1 TATCGATACATCTGGTAAAAATG
53027 TATCGATACATCTAGGTAAAAGACTGAATG
1 TATCGATACATCT-GGT--AA-A---AATG
53057 TATCGATACATC--G-AAAAATG
1 TATCGATACATCTGGTAAAAATG
53077 TATCGATACATCTGGGTAAAAATG
1 TATCGATACATCT-GGTAAAAATG
53101 T
1 T
53102 GACTTTTCCA
Statistics
Matches: 61, Mismatches: 0, Indels: 24
0.72 0.00 0.28
Matches are distributed among these distances:
20 27 0.44
21 1 0.02
23 3 0.05
24 10 0.16
26 2 0.03
27 2 0.03
30 16 0.26
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (23 bp):
TATCGATACATCTGGTAAAAATG
Found at i:54639 original size:13 final size:13
Alignment explanation
Indices: 54621--54647 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
54611 ACATTATGCT
54621 TTGTATCGATACA
1 TTGTATCGATACA
54634 TTGTATCGATACA
1 TTGTATCGATACA
54647 T
1 T
54648 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:54644 original size:33 final size:32
Alignment explanation
Indices: 54602--54664 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
54592 CGCATCCAGA
* *
54602 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAT-CATTGTATCGATACAT
*
54635 TGTATCGATACATGATCATTGTATTGATAC
1 TGTATCGATACATGATCATTGTATCGATAC
54665 GTGCATAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCGATACAT
Found at i:54656 original size:19 final size:19
Alignment explanation
Indices: 54632--54688 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
54622 TGTATCGATA
54632 CATTGTATCGATACATGAT
1 CATTGTATCGATACATGAT
* *
54651 CATTGTATTGATACGTGCAT
1 CATTGTATCGATACATG-AT
*
54671 AATTGTATCGATACATGA
1 CATTGTATCGATACATGA
54689 AACTGACAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.37
Consensus pattern (19 bp):
CATTGTATCGATACATGAT
Found at i:54677 original size:20 final size:19
Alignment explanation
Indices: 54628--54688 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 19
54618 GCTTTGTATC
54628 GATACATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
* * *
54648 GATCATTGTATTGATACGT
1 GATAATTGTATCGATACAT
54667 GCATAATTGTATCGATACAT
1 G-ATAATTGTATCGATACAT
54687 GA
1 GA
54689 AACTGACAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:56309 original size:3 final size:3
Alignment explanation
Indices: 56295--56331 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
56285 CATCAAAGCC
*
56295 GAT GAA GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
56332 TTGACTCGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:63380 original size:13 final size:13
Alignment explanation
Indices: 63362--63388 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63352 ACATTATGCT
63362 TTGTATCGATACA
1 TTGTATCGATACA
63375 TTGTATCGATACA
1 TTGTATCGATACA
63388 T
1 T
63389 GATCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:63385 original size:33 final size:32
Alignment explanation
Indices: 63343--63407 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
63333 CACATCTAGA
* * *
63343 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATGAT-CATTGTATCAATACAT
63376 TGTATCGATACATGATCATTGTATCAATACAT
1 TGTATCGATACATGATCATTGTATCAATACAT
63408 GCATAATTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATGATCATTGTATCAATACAT
Found at i:63397 original size:19 final size:20
Alignment explanation
Indices: 63373--63427 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
63363 TGTATCGATA
63373 CATTGTATCGATACATG-AT
1 CATTGTATCGATACATGCAT
*
63392 CATTGTATCAATACATGCAT
1 CATTGTATCGATACATGCAT
*
63412 AATTGTATCGATACAT
1 CATTGTATCGATACAT
63428 AAAATTGGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (20 bp):
CATTGTATCGATACATGCAT
Found at i:63418 original size:20 final size:19
Alignment explanation
Indices: 63369--63427 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 19
63359 GCTTTGTATC
63369 GATACATTGTATCGATACAT
1 GATA-ATTGTATCGATACAT
* *
63389 GATCATTGTATCAATACAT
1 GATAATTGTATCGATACAT
63408 GCATAATTGTATCGATACAT
1 G-ATAATTGTATCGATACAT
63428 AAAATTGGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (19 bp):
GATAATTGTATCGATACAT
Found at i:68867 original size:16 final size:16
Alignment explanation
Indices: 68833--68878 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
68823 TTTTACTTTC
*
68833 TTTCTC-TATTTCTCTT
1 TTTCTCTTATTT-TCAT
68849 TTTCTCTTATTTTCAT
1 TTTCTCTTATTTTCAT
*
68865 TTTTTCTTATTTTC
1 TTTCTCTTATTTTC
68879 CTATGTGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 22 0.81
17 5 0.19
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTCTCTTATTTTCAT
Found at i:72605 original size:54 final size:54
Alignment explanation
Indices: 72519--72630 Score: 188
Period size: 54 Copynumber: 2.1 Consensus size: 54
72509 AATTACAACT
* *
72519 TGATCTAATGGCCATTAACACATTTAAGTAGTCAAAACTTGATCTAATGGTTGG
1 TGATCTAATGGCCATTAACACATTTAAATAGTCAAAACCTGATCTAATGGTTGG
* *
72573 TGATCTAATTGCCATTGACACATTTAAATAGTCAAAACCTGATCTAATGGTTGG
1 TGATCTAATGGCCATTAACACATTTAAATAGTCAAAACCTGATCTAATGGTTGG
72627 TGAT
1 TGAT
72631 GTGTTGGAAC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (54 bp):
TGATCTAATGGCCATTAACACATTTAAATAGTCAAAACCTGATCTAATGGTTGG
Found at i:73916 original size:29 final size:29
Alignment explanation
Indices: 73884--73944 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
73874 TAAAAAAAAG
73884 TTAGCGGAGAATTCCATGTACTGACATTC
1 TTAGCGGAGAATTCCATGTACTGACATTC
*
73913 TTAGCGGAGAATTCCATGTATTGACATTC
1 TTAGCGGAGAATTCCATGTACTGACATTC
73942 TTA
1 TTA
73945 CTCGGATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (29 bp):
TTAGCGGAGAATTCCATGTACTGACATTC
Found at i:75621 original size:31 final size:33
Alignment explanation
Indices: 75552--75642 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 33
75542 AAAAGATTGG
75552 TAAGGACAAAACC-ATGATAGTCAAATAA-AATGAC
1 TAAGGACAAAACCTAT--TAGTCAAA-AAGAATGAC
75586 TAAGG-CAAAACCTATTAGTCAAAAAGAA-GAC
1 TAAGGACAAAACCTATTAGTCAAAAAGAATGAC
* * *
75617 TAAGGTC-GAACCT-TCAGTCAAAAAGA
1 TAAGGACAAAACCTATTAGTCAAAAAGA
75643 TTCACTAGGT
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
30 12 0.23
31 15 0.29
32 11 0.21
33 7 0.13
34 7 0.13
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (33 bp):
TAAGGACAAAACCTATTAGTCAAAAAGAATGAC
Found at i:76019 original size:31 final size:31
Alignment explanation
Indices: 75984--76061 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
75974 GTCAAAGTGG
75984 TGATTAGGGTGAAACCTTCAGTCGAAAAGAT
1 TGATTAGGGTGAAACCTTCAGTCGAAAAGAT
*
76015 TGATTAAGGTGAAACCTTCAGTCGAAAAGAT
1 TGATTAGGGTGAAACCTTCAGTCGAAAAGAT
*
76046 TGATTAGGGAGAAACC
1 TGATTAGGGTGAAACC
76062 ATGATAGTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (31 bp):
TGATTAGGGTGAAACCTTCAGTCGAAAAGAT
Found at i:76675 original size:13 final size:13
Alignment explanation
Indices: 76657--76685 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
76647 AGTTTACACA
76657 AAACTAGAAATCT
1 AAACTAGAAATCT
76670 AAACTAGAAATCT
1 AAACTAGAAATCT
76683 AAA
1 AAA
76686 AATGACTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.14, G:0.07, T:0.21
Consensus pattern (13 bp):
AAACTAGAAATCT
Found at i:77090 original size:89 final size:88
Alignment explanation
Indices: 76936--77126 Score: 211
Period size: 89 Copynumber: 2.2 Consensus size: 88
76926 AAACGATGCA
* * * ** *
76936 AATGACAATATCATCTAAGTTAAAGATGCTCGTGAAACGATGCCAATGTAAGTACTAGTAAAGAG
1 AATGACAATGTCATCTAAGTTAAAGATGCTCGTGAAACAATGCAAATACAAGTACTAATAAAGAG
*
77001 GCAAATACAAGTGAAATGATGTG
66 GCAAATACAAGTGAAATGATATG
** * * **
77024 AATGACAATGTCATCTAATGTTGTAGATGCTCGTGAAATAATGCAAATACATGTGTTAATAAAGA
1 AATGACAATGTCATCTAA-GTTAAAGATGCTCGTGAAACAATGCAAATACAAGTACTAATAAAGA
* **
77089 GGCAAATGCATTTGAAATGATATG
65 GGCAAATACAAGTGAAATGATATG
* *
77113 AATGCCAACGTCAT
1 AATGACAATGTCAT
77127 TCAATGGTGC
Statistics
Matches: 84, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
88 17 0.20
89 67 0.80
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (88 bp):
AATGACAATGTCATCTAAGTTAAAGATGCTCGTGAAACAATGCAAATACAAGTACTAATAAAGAG
GCAAATACAAGTGAAATGATATG
Found at i:77149 original size:89 final size:89
Alignment explanation
Indices: 76994--77156 Score: 193
Period size: 89 Copynumber: 1.8 Consensus size: 89
76984 TAAGTACTAG
* * * * * **
76994 TAAAGAGGCAAATACAAGTGAAATGATGTGAATGACAATGTCATCTAATGTTGTAGATGCTCGTG
1 TAAAGAGGCAAATACAAGTGAAATGATATGAATGACAACGTCATCTAATGGTGCAAAAACTCGTG
77059 AAATAATGCAAATACATGTGTTAA
66 AAATAATGCAAATACATGTGTTAA
* ** * *
77083 TAAAGAGGCAAATGCATTTGAAATGATATGAATGCCAACGTCAT-TCAATGGTGCAAAAACTTGT
1 TAAAGAGGCAAATACAAGTGAAATGATATGAATGACAACGTCATCT-AATGGTGCAAAAACTCGT
*
77147 GAAATGATGC
65 GAAATAATGC
77157 TAAAACAAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
88 1 0.02
89 59 0.98
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (89 bp):
TAAAGAGGCAAATACAAGTGAAATGATATGAATGACAACGTCATCTAATGGTGCAAAAACTCGTG
AAATAATGCAAATACATGTGTTAA
Found at i:77337 original size:44 final size:44
Alignment explanation
Indices: 77279--77386 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
77269 TAGATGCACG
* *
77279 TGAAATGATGCAAATGCAAGTATCA-ATAAAATGGCAAATGCCTA
1 TGAAACGATGCAAATGCAAGTATCATATAAAAT-GCAAATGCATA
* * * *
77323 TGAAACGATACAAATGCTAA-TGTCATATAAAATGCAAATGTATG
1 TGAAACGATGCAAATGC-AAGTATCATATAAAATGCAAATGCATA
*
77367 TGAAACGATGCAAATCCAAG
1 TGAAACGATGCAAATGCAAG
77387 CATACATAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
43 2 0.04
44 42 0.79
45 9 0.17
ACGTcount: A:0.45, C:0.14, G:0.18, T:0.23
Consensus pattern (44 bp):
TGAAACGATGCAAATGCAAGTATCATATAAAATGCAAATGCATA
Found at i:78984 original size:3 final size:3
Alignment explanation
Indices: 78976--79031 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
78966 AGGCATCTGA
78976 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
79024 TTC TTC TT
1 TTC TTC TT
79032 TGGTGAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:83594 original size:8 final size:8
Alignment explanation
Indices: 83556--83594 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
83546 CAAAATGGCC
*
83556 ATTTTTTC
1 ATTTTTTT
83564 ATTTATTTT
1 ATTT-TTTT
*
83573 ATTTTCTT
1 ATTTTTTT
83581 ATTTTTTT
1 ATTTTTTT
83589 ATTTTT
1 ATTTTT
83595 ACTTGTTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.79
Consensus pattern (8 bp):
ATTTTTTT
Found at i:86140 original size:65 final size:66
Alignment explanation
Indices: 86030--86155 Score: 184
Period size: 65 Copynumber: 1.9 Consensus size: 66
86020 TAATCCCGCC
* **
86030 TGCATTTAAATGTCTGTTACTGTATCAAGAACCTTCACTTTGCTTTCCATATATAT-TGTATCAC
1 TGCATTTAAATGTCTGTTACTATATCAAGAACCTTCACTCCGCTTTCCATATATATATGTATCAC
86094 A
66 A
* *
86095 TGCATTTAAATGTCTTTTA-TAATATCAAGAACCTTCACTCCGCTTTCCATATGTATATGTA
1 TGCATTTAAATGTCTGTTACT-ATATCAAGAACCTTCACTCCGCTTTCCATATATATATGTA
86156 GTTATATATG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
64 1 0.02
65 49 0.91
66 4 0.07
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (66 bp):
TGCATTTAAATGTCTGTTACTATATCAAGAACCTTCACTCCGCTTTCCATATATATATGTATCAC
A
Found at i:86176 original size:2 final size:2
Alignment explanation
Indices: 86158--86200 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
86148 TATATGTAGT
* * *
86158 TA TA TA TG TA TA GA TA TA TA TA TA TA TA TA TA TG 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
86200 T
1 T
86201 TATTTTTGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:86786 original size:28 final size:28
Alignment explanation
Indices: 86755--86811 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
86745 AACTTGAAAT
* *
86755 ATAATTATATGATTTTTTTAGCAAA-AAA
1 ATAATTATACGATTTTATT-GCAAATAAA
86783 ATAATTATACGATTTTATTGCAAATAAA
1 ATAATTATACGATTTTATTGCAAATAAA
86811 A
1 A
86812 GTATAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 5 0.19
28 21 0.81
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.40
Consensus pattern (28 bp):
ATAATTATACGATTTTATTGCAAATAAA
Found at i:88704 original size:21 final size:21
Alignment explanation
Indices: 88680--88722 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
88670 TAGAGTGTAG
88680 TTGTATCGATACAATTACATA
1 TTGTATCGATACAATTACATA
* *
88701 TTGTATCGATGCAATTGCATA
1 TTGTATCGATACAATTACATA
88722 T
1 T
88723 ACAATTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.40
Consensus pattern (21 bp):
TTGTATCGATACAATTACATA
Found at i:89447 original size:12 final size:12
Alignment explanation
Indices: 89414--89474 Score: 54
Period size: 12 Copynumber: 5.0 Consensus size: 12
89404 ACTTTCAGTT
*
89414 GAGAAAAAACCAA
1 GAGAAAAAA-GAA
89427 -AGAAGAAAAGAA
1 GAGAA-AAAAGAA
89439 GAGTAAAAAAG-A
1 GAG-AAAAAAGAA
*
89451 GAGAAAAAAAAA
1 GAGAAAAAAGAA
*
89463 GAAAAAAAAGAA
1 GAGAAAAAAGAA
89475 ATAGAGAGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 6 0.15
12 21 0.52
13 11 0.28
14 2 0.05
ACGTcount: A:0.75, C:0.03, G:0.20, T:0.02
Consensus pattern (12 bp):
GAGAAAAAAGAA
Found at i:89468 original size:22 final size:21
Alignment explanation
Indices: 89425--89470 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
89415 AGAAAAAACC
* * *
89425 AAAGAAGAAAAGAAGAGTAAA
1 AAAGAAGAAAAAAAAAGAAAA
89446 AAAGAGAGAAAAAAAAAGAAAA
1 AAAGA-AGAAAAAAAAAGAAAA
89468 AAA
1 AAA
89471 AGAAATAGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAGAAGAAAAAAAAAGAAAA
Found at i:89613 original size:24 final size:24
Alignment explanation
Indices: 89578--89633 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
89568 TATAAGAGCT
* *
89578 TAATGATCCTAAGCTATGCTTAGG
1 TAATGATTCTAAGCCATGCTTAGG
89602 TAATGATTCTAAGCCATGCTTAGG
1 TAATGATTCTAAGCCATGCTTAGG
*
89626 TGATGATT
1 TAATGATT
89634 TGTGCTAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (24 bp):
TAATGATTCTAAGCCATGCTTAGG
Found at i:89868 original size:22 final size:23
Alignment explanation
Indices: 89841--89887 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
89831 ATGGCTTTAT
89841 TTTTAT-GT-TATCTATTCCATGA
1 TTTTATGGTATATCTA-TCCATGA
*
89863 TTTTATGGTATATCTATGCATGA
1 TTTTATGGTATATCTATCCATGA
89886 TT
1 TT
89888 ATCATGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 6 0.27
23 10 0.45
24 6 0.27
ACGTcount: A:0.23, C:0.11, G:0.13, T:0.53
Consensus pattern (23 bp):
TTTTATGGTATATCTATCCATGA
Found at i:90344 original size:58 final size:59
Alignment explanation
Indices: 90201--90569 Score: 272
Period size: 59 Copynumber: 6.3 Consensus size: 59
90191 TACAATTTAG
** * *
90201 GGACTTTTATGCAAATTTCACATATTTTGATGTCATTTAGGTCATTTTTCATGATC-GAA
1 GGACTTTTATGC-AATTTCATGTATTTTGATGTCATTTAGGTCATTTTCCATGATCTAAA
** ** * * *
90260 GGACTTAGATATAATCTT-ATGAATTTTGTTGTCATTTAGATCATTTTCCATGATCTAAA
1 GGACTTTTATGCAAT-TTCATGTATTTTGATGTCATTTAGGTCATTTTCCATGATCTAAA
* * ** *
90319 GG-CTTTTATGCAATTTCATGTATTTTTGAGGTCATTCAATTCATTTTTCATGATCTAAA
1 GGACTTTTATGCAATTTCATGTA-TTTTGATGTCATTTAGGTCATTTTCCATGATCTAAA
* * * * ** * * *
90378 -TACTTTTATGCAAATTCCATGTATGTTG-GGTCATTTAGGTCATTTTTAATTA-CTTAG
1 GGACTTTTATGC-AATTTCATGTATTTTGATGTCATTTAGGTCATTTTCCATGATCTAAA
* * * *
90435 GGACTTCTATGAAATTT-ATATATTTTGATGTCATTTAGGTCATTTCCCATGATCT--A
1 GGACTTTTATGCAATTTCATGTATTTTGATGTCATTTAGGTCATTTTCCATGATCTAAA
** * * * * *
90491 GGAACTTTGGTGTAATTTCATGTATTTTTGATGTCATGTAGGTTATTTTCCATGAT-TTAT
1 GG-ACTTTTATGCAATTTCATGTA-TTTTGATGTCATTTAGGTCATTTTCCATGATCTAAA
* *
90551 GGACTTTCATGTAATTTCA
1 GGACTTTTATGCAATTTCA
90570 CATATCCTAG
Statistics
Matches: 241, Mismatches: 55, Indels: 28
0.74 0.17 0.09
Matches are distributed among these distances:
56 10 0.04
57 39 0.16
58 80 0.33
59 100 0.41
60 12 0.05
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.46
Consensus pattern (59 bp):
GGACTTTTATGCAATTTCATGTATTTTGATGTCATTTAGGTCATTTTCCATGATCTAAA
Found at i:93275 original size:51 final size:51
Alignment explanation
Indices: 93176--93313 Score: 186
Period size: 51 Copynumber: 2.7 Consensus size: 51
93166 ATTTAACTGG
* * *
93176 ATGTATCGATACATTAAAGAATATATCGATATATTTTGGTCAAAAACCCAAA
1 ATGTATCGATACAATAAA-AATATATCGATACATTTGGGTCAAAAACCCAAA
* * * *
93228 ATGTATCGATACAATAAACATATATCTATACATTTGGGTTAGAAACCCAAA
1 ATGTATCGATACAATAAAAATATATCGATACATTTGGGTCAAAAACCCAAA
**
93279 ATGTATTAATACAATAAAAATATATCGATACATTT
1 ATGTATCGATACAATAAAAATATATCGATACATTT
93314 TTTTTCCAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 58 0.77
52 17 0.23
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (51 bp):
ATGTATCGATACAATAAAAATATATCGATACATTTGGGTCAAAAACCCAAA
Found at i:93376 original size:20 final size:21
Alignment explanation
Indices: 93351--93396 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
93341 ATAAGGTCCA
93351 GTATCGATACATTCACTTA-T
1 GTATCGATACATTCACTTATT
*
93371 GTATCGATACATTTACTTATT
1 GTATCGATACATTCACTTATT
93392 GTATC
1 GTATC
93397 AATAAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.43
Consensus pattern (21 bp):
GTATCGATACATTCACTTATT
Found at i:93812 original size:14 final size:14
Alignment explanation
Indices: 93795--93845 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 14
93785 AAAAAAACAA
93795 GAAAGAAAAAAAGT
1 GAAAGAAAAAAAGT
*
93809 GAAAGAAACAAAGT
1 GAAAGAAAAAAAGT
**
93823 G-ACCAAAAAAAG-
1 GAAAGAAAAAAAGT
*
93835 AAAAGAAAAAA
1 GAAAGAAAAAA
93846 CCTCCTACTC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 15 0.52
14 14 0.48
ACGTcount: A:0.73, C:0.06, G:0.18, T:0.04
Consensus pattern (14 bp):
GAAAGAAAAAAAGT
Found at i:102281 original size:2 final size:2
Alignment explanation
Indices: 102276--102308 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
102266 TATATATATA
102276 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
102309 AAAGGCACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:107054 original size:2 final size:2
Alignment explanation
Indices: 107047--107081 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
107037 ATGAATATGT
107047 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
107082 TATTTGCAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:108989 original size:20 final size:19
Alignment explanation
Indices: 108964--109027 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
108954 TATTTTTATA
108964 ATTAATTTTAAATAAATTTT
1 ATTAA-TTTAAATAAATTTT
*
108984 ATTAA-TTAAATAATAATTTA
1 ATTAATTTAAAT-A-AATTTT
109004 AGTTAATTTAAATAAATTTAT
1 A-TTAATTTAAATAAATTT-T
109025 ATT
1 ATT
109028 TTAAAAATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 6 0.16
19 1 0.03
20 18 0.49
21 6 0.16
22 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTAATTTAAATAAATTTT
Found at i:109782 original size:2 final size:2
Alignment explanation
Indices: 109777--109801 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
109767 AATAAAAATC
109777 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
109802 CACCTTCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:109979 original size:2 final size:2
Alignment explanation
Indices: 109972--110004 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
109962 TATTTGCTGT
*
109972 TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
110005 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:110009 original size:2 final size:2
Alignment explanation
Indices: 110004--110043 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
109994 TCTCTCTCTC
110004 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
110044 CTGTTCGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:111000 original size:11 final size:11
Alignment explanation
Indices: 110984--111026 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
110974 TTTTATGTAG
110984 ATATAAAAAAA
1 ATATAAAAAAA
110995 ATATAATATAAAA
1 ATATAA-A-AAAA
111008 ATATAAAAAATA
1 ATATAAAAAA-A
111020 AT-TAAAA
1 ATATAAAA
111027 TATGAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 14 0.48
12 5 0.17
13 10 0.34
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
ATATAAAAAAA
Found at i:111039 original size:12 final size:12
Alignment explanation
Indices: 110992--111060 Score: 87
Period size: 12 Copynumber: 6.2 Consensus size: 12
110982 AGATATAAAA
110992 AAAATATAATAT
1 AAAATATAATAT
111004 AAAA-AT-ATA-
1 AAAATATAATAT
111013 AAAA-ATAAT-T
1 AAAATATAATAT
111023 AAAATATGAA-AT
1 AAAATAT-AATAT
111035 AAAATATAATAT
1 AAAATATAATAT
111047 AAAATATAATAT
1 AAAATATAATAT
111059 AA
1 AA
111061 TAAACTAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 12
0.81 0.00 0.19
Matches are distributed among these distances:
9 6 0.12
10 9 0.18
11 6 0.12
12 30 0.59
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:111060 original size:24 final size:23
Alignment explanation
Indices: 110984--111060 Score: 90
Period size: 23 Copynumber: 3.4 Consensus size: 23
110974 TTTTATGTAG
*
110984 ATATAAAAAAAATATAATATAAA
1 ATATAAATAAAATATAATATAAA
*
111007 A-AT--ATAAAAAATAAT-TAAA
1 ATATAAATAAAATATAATATAAA
111026 ATATGAAATAAAATATAATATAAA
1 ATAT-AAATAAAATATAATATAAA
111050 ATATAATATAA
1 ATATAA-ATAA
111061 TAAACTAACA
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
19 5 0.11
20 12 0.27
22 2 0.04
23 14 0.31
24 12 0.27
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (23 bp):
ATATAAATAAAATATAATATAAA
Found at i:111083 original size:43 final size:44
Alignment explanation
Indices: 110984--111104 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 44
110974 TTTTATGTAG
* * *
110984 ATAT-AAAAAAAATATAATATAAAAATATAA-AAAAT-AATTAAA
1 ATATGAAATAAAATATAATAT-AAAATATAATATAATAAACTAAA
*
111026 ATATGAAATAAAATATAATATAAAATATAATATAATAAACTAAC
1 ATATGAAATAAAATATAATATAAAATATAATATAATAAACTAAA
* * *
111070 ATATTATAT-AAATAT-AT-TAAAAT-TTATATAATAAA
1 ATATGAAATAAAATATAATATAAAATATAATATAATAAA
111105 TATTATTAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
40 11 0.16
41 6 0.09
42 15 0.22
43 25 0.36
44 12 0.17
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (44 bp):
ATATGAAATAAAATATAATATAAAATATAATATAATAAACTAAA
Found at i:111104 original size:14 final size:14
Alignment explanation
Indices: 111081--111129 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 14
111071 TATTATATAA
111081 ATATATTAAAATTT
1 ATATATTAAAATTT
*
111095 ATATAATAAATATTATT
1 ATATATTAAA-A-T-TT
111112 AATATATTAAAATTT
1 -ATATATTAAAATTT
111127 ATA
1 ATA
111130 AAAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 12 0.41
15 3 0.10
16 2 0.07
17 3 0.10
18 9 0.31
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTAAAATTT
Found at i:111128 original size:18 final size:18
Alignment explanation
Indices: 111080--111145 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
111070 ATATTATATA
111080 AATATATTAAAATTTA-T
1 AATATATTAAAATTTATT
111097 -ATA-A-T-AAATATTATT
1 AATATATTAAAAT-TTATT
*
111112 AATATATTAAAATTTATA
1 AATATATTAAAATTTATT
*
111130 AAAATATATAAAATTT
1 AATATAT-TAAAATTT
111146 TAAATATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
13 4 0.10
14 4 0.10
15 2 0.05
16 6 0.15
17 1 0.03
18 11 0.28
19 12 0.30
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATATTAAAATTTATT
Found at i:111137 original size:8 final size:9
Alignment explanation
Indices: 110984--111143 Score: 53
Period size: 10 Copynumber: 17.0 Consensus size: 9
110974 TTTTATGTAG
*
110984 ATATAAAAA
1 ATATAAAAT
* *
110993 AAATATAAT
1 ATATAAAAT
111002 ATA-AAAAT
1 ATATAAAAT
*
111010 ATAAAAAAT
1 ATATAAAAT
*
111019 A-ATTAAA-
1 ATATAAAAT
*
111026 ATATGAAAT
1 ATATAAAAT
*
111035 A-A-AATAT
1 ATATAAAAT
111042 AATATAAAAT
1 -ATATAAAAT
*
111052 ATAATATAAT
1 AT-ATAAAAT
* *
111062 AAACTAACAT
1 ATA-TAAAAT
111072 ATTATATAAAT
1 A-TATA-AAAT
111083 ATATTAAAATTT
1 ATA-TAAAA--T
111095 ATATAATAA-
1 ATATAA-AAT
*
111104 ATATTATTAAT
1 ATA-TA-AAAT
111115 ATATTAAAAT
1 ATA-TAAAAT
*
111125 TTATAAAAAT
1 ATAT-AAAAT
111135 ATATAAAAT
1 ATATAAAAT
111144 TTTAAATATA
Statistics
Matches: 112, Mismatches: 21, Indels: 36
0.66 0.12 0.21
Matches are distributed among these distances:
7 4 0.04
8 18 0.16
9 28 0.25
10 40 0.36
11 16 0.14
12 6 0.05
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (9 bp):
ATATAAAAT
Found at i:111139 original size:10 final size:10
Alignment explanation
Indices: 111000--111142 Score: 62
Period size: 10 Copynumber: 13.8 Consensus size: 10
110990 AAAAAATATA
111000 ATATAAAAAT
1 ATATAAAAAT
111010 ATA-AAAAAT
1 ATATAAAAAT
*
111019 A-ATTAAAAT
1 ATATAAAAAT
*
111028 ATGAAATAAAAT
1 AT-ATA-AAAAT
111040 ATAATATAAAAT
1 AT-ATA-AAAAT
*
111052 ATA-ATATAAT
1 ATATA-AAAAT
* *
111062 AAACT-AACAT
1 ATA-TAAAAAT
*
111072 ATTATATAAAT
1 A-TATAAAAAT
*
111083 ATATTAAAATTT
1 ATA-TAAAA-AT
111095 ATATAATAAAT
1 ATATAA-AAAT
**
111106 AT-TATTAAT
1 ATATAAAAAT
*
111115 ATATTAAAAT
1 ATATAAAAAT
*
111125 TTATAAAAAT
1 ATATAAAAAT
111135 ATATAAAA
1 ATATAAAA
111143 TTTTAAATAT
Statistics
Matches: 98, Mismatches: 23, Indels: 24
0.68 0.16 0.17
Matches are distributed among these distances:
8 1 0.01
9 18 0.18
10 39 0.40
11 17 0.17
12 23 0.23
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (10 bp):
ATATAAAAAT
Found at i:111149 original size:18 final size:20
Alignment explanation
Indices: 111112--111174 Score: 64
Period size: 18 Copynumber: 3.4 Consensus size: 20
111102 AAATATTATT
111112 AATATATTAAAATTTATAAA
1 AATATATTAAAATTTATAAA
111132 AATATA-TAAAATTT-TAAA
1 AATATATTAAAATTTATAAA
* *
111150 TATA-ATTATAA--TATAAA
1 AATATATTAAAATTTATAAA
111167 AATTATAT
1 AA-TATAT
111175 ATTTACATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.03
17 6 0.17
18 13 0.36
19 10 0.28
20 6 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
AATATATTAAAATTTATAAA
Found at i:114319 original size:2 final size:2
Alignment explanation
Indices: 114308--114336 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
114298 TATAATCTAT
114308 TA TA TA -A 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
114337 AAGGTAGGAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:115122 original size:15 final size:15
Alignment explanation
Indices: 115102--115136 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
115092 TTGAACTAAG
*
115102 TTATTATTTAAATTA
1 TTATTAATTAAATTA
*
115117 TTATTAATTAATTTA
1 TTATTAATTAAATTA
115132 TTATT
1 TTATT
115137 TATATGAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTATTAATTAAATTA
Found at i:115642 original size:3 final size:3
Alignment explanation
Indices: 115634--115671 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
115624 AAAAAGAGAA
115634 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
115672 AATGTGCATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:117170 original size:13 final size:14
Alignment explanation
Indices: 117130--117170 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
117120 GTTTAATTTA
*
117130 AAAATATATATTTT
1 AAAATATATATTAT
*
117144 AAAATA-ATAATAT
1 AAAATATATATTAT
117157 AAAATATAT-TTAT
1 AAAATATATATTAT
117170 A
1 A
117171 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATATATATTAT
Found at i:117371 original size:2 final size:2
Alignment explanation
Indices: 117358--117388 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
117348 GTTAAATGTG
*
117358 TA TA TG 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
117389 TATTAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:118537 original size:14 final size:15
Alignment explanation
Indices: 118507--118546 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
118497 TTATTATCAA
*
118507 TAAATTAA-ATTACT
1 TAAATTAATTTTACT
118521 TAAATTAATTTTA-T
1 TAAATTAATTTTACT
118535 TAAA-TAATTTTA
1 TAAATTAATTTTA
118547 ACGAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 13 0.54
15 3 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATTAATTTTACT
Found at i:118736 original size:16 final size:17
Alignment explanation
Indices: 118704--118753 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
118694 TAAAAATTTT
118704 AAATTAT-AATTTGATA
1 AAATTATAAATTTGATA
118720 AAATTATAAATTT-ATA
1 AAATTATAAATTTGATA
* *
118736 ACACTTATAAAATTGATA
1 A-AATTATAAATTTGATA
118754 TTAAATTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 11 0.38
17 15 0.52
18 3 0.10
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (17 bp):
AAATTATAAATTTGATA
Found at i:119065 original size:16 final size:17
Alignment explanation
Indices: 119032--119065 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
119022 GAAGCTCAAC
*
119032 AAAAAATTAGAGACAGA
1 AAAAAAGTAGAGACAGA
119049 AAAAAAGTAGAGA-AGA
1 AAAAAAGTAGAGACAGA
119065 A
1 A
119066 TGCTATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.68, C:0.03, G:0.21, T:0.09
Consensus pattern (17 bp):
AAAAAAGTAGAGACAGA
Found at i:121447 original size:464 final size:464
Alignment explanation
Indices: 120573--121504 Score: 1350
Period size: 464 Copynumber: 2.0 Consensus size: 464
120563 GTTTTTTTGT
* * * * * *
120573 TTTTCTAGTTTCCAAGTTGTAAATCCACTCCTCTTACCACACCTATGGTTGGGACCCTCCTTTAA
1 TTTTCCAGTTTCCAAGTTATAAATCCACTCCTCTAACCACACCTATGGTTGGAAACCTCCTTCAA
*
120638 GTTAACTGTCTTGATCCACTCGGTTGCTTTTCAATTTTGAGATCAAACTTTTTGCCAACTTTCTT
66 GTTAACTGTCTTGATCCACTCGGTTGCTTTTCAATTTTAAGATCAAACTTTTTGCCAACTTTCTT
* ** * *
120703 AGATATAAATAAGTCTGATGCTTTTGTGTTAACTAAAGCAGTTATTTGTTTGCTTATGATCTTGA
131 AGATATAAATAAGTCTGACGCTCCTGTGTCAACTAAAGCAGTTATTTGTTTGCCTATGATCTTGA
* * ** * * *
120768 TGTCTATGAACATCAACCCTTTCTGTTTTTTACTCCTTTTAGTCTTAGTAGAATTTAGTATAATA
196 TGTCTATGAACATCAAACCTTCCTACTTTTGACTCCTCTTAGTCTTAATAGAATTTAGTATAATA
* * * *
120833 GAACCAAGCTTCAAAGTCTTATTCTCCAGCTCATTCTCTAGCTCATCATCCTCTTTATTGATGGT
261 GAACCAAGCTTCAAAGCCTCATTCTCCAGCTCATTCTCTAGCTCATCATCCTCCTTATTGATGGC
*
120898 AGATAACTTGGCTCGCTATGGGCAGTCTCGCATCCGATGTGAACTATCACATAAGAAGCACTTCA
326 AGATAACTTGGCTCGCTATGGGCAGTCTCGCATCCGATGTGAACCATCACATAAGAAGCACTTCA
* *
120963 CTGGCTCCTTATCTTTCTTTTTCTCCCATCGTTTGTTAGG-CTTAGGTTTTCC-TTTTGTAGGCT
391 CTGGCTCCCTATCTTTCTTTTTCTCCCATCGTTTGTT-GGACTTAGG-TTTCCATTTTATAGGCT
*
121026 TCTCATCCTTA
454 TCTCATCCTCA
*
121037 TTTTCCAGTTTCCAAGTTATAAGTCCACTCCTCTAACCACACCTATGGTT-GAAACCTCCTTCAA
1 TTTTCCAGTTTCCAAGTTATAAATCCACTCCTCTAACCACACCTATGGTTGGAAACCTCCTTCAA
* * * **
121101 GTTAACTGTCTTGATCTATTCGGTTGCCTTTTCAATTTTAAGATCAAATTTTTTGGTAACTTTCT
66 GTTAACTGTCTTGATCCACTCGGTTG-CTTTTCAATTTTAAGATCAAACTTTTTGCCAACTTTCT
* *
121166 TAGATATAATTAAGT-TCGACGCTCCTGTGTCAACTAAAGTAGTTATTTGTTTGCCTATGATCTT
130 TAGATATAAATAAGTCT-GACGCTCCTGTGTCAACTAAAGCAGTTATTTGTTTGCCTATGATCTT
* * *
121230 GATGTTTATGAACATCAAATCTTCCTACTTTTGACTTCTCTTAGTCTTAATAGAATTTAGTATAA
194 GATGTCTATGAACATCAAACCTTCCTACTTTTGACTCCTCTTAGTCTTAATAGAATTTAGTATAA
* ** *
121295 TAGAATCAAGCTTCAAAGCCTCATTCTCTGGCTCATTTTCTAGCTCATCATCCTCCTTATTGATG
259 TAGAACCAAGCTTCAAAGCCTCATTCTCCAGCTCATTCTCTAGCTCATCATCCTCCTTATTGATG
* * * * *
121360 GCAGATAACTTGGCTCGCTGTGGGTAGTCTCGGATTCGATGTGAACCGTCACATAAGAAGCACTT
324 GCAGATAACTTGGCTCGCTATGGGCAGTCTCGCATCCGATGTGAACCATCACATAAGAAGCACTT
* * *
121425 CACTGGCTCCCTATCTTTCTTTTTCTCCTATCGTTTGTTGGACTTATGTTTCCATTTTATAGGTT
389 CACTGGCTCCCTATCTTTCTTTTTCTCCCATCGTTTGTTGGACTTAGGTTTCCATTTTATAGGCT
121490 TCTCATCCTCA
454 TCTCATCCTCA
121501 TTTT
1 TTTT
121505 TGTACTGTCG
Statistics
Matches: 414, Mismatches: 50, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
463 43 0.10
464 371 0.90
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.40
Consensus pattern (464 bp):
TTTTCCAGTTTCCAAGTTATAAATCCACTCCTCTAACCACACCTATGGTTGGAAACCTCCTTCAA
GTTAACTGTCTTGATCCACTCGGTTGCTTTTCAATTTTAAGATCAAACTTTTTGCCAACTTTCTT
AGATATAAATAAGTCTGACGCTCCTGTGTCAACTAAAGCAGTTATTTGTTTGCCTATGATCTTGA
TGTCTATGAACATCAAACCTTCCTACTTTTGACTCCTCTTAGTCTTAATAGAATTTAGTATAATA
GAACCAAGCTTCAAAGCCTCATTCTCCAGCTCATTCTCTAGCTCATCATCCTCCTTATTGATGGC
AGATAACTTGGCTCGCTATGGGCAGTCTCGCATCCGATGTGAACCATCACATAAGAAGCACTTCA
CTGGCTCCCTATCTTTCTTTTTCTCCCATCGTTTGTTGGACTTAGGTTTCCATTTTATAGGCTTC
TCATCCTCA
Found at i:123363 original size:20 final size:20
Alignment explanation
Indices: 123338--123382 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
123328 TTGATATATC
123338 GATACAAAAGTGAATGTATT
1 GATACAAAAGTGAATGTATT
* *
123358 GATACATAAGTGAATGTGTT
1 GATACAAAAGTGAATGTATT
123378 GATAC
1 GATAC
123383 TAGATCCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (20 bp):
GATACAAAAGTGAATGTATT
Found at i:123677 original size:20 final size:20
Alignment explanation
Indices: 123652--123692 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
123642 AATTTCTAAT
123652 CATAAGTGAATGTATTGATA
1 CATAAGTGAATGTATTGATA
*
123672 CATAAGTGAATGTGTTGATA
1 CATAAGTGAATGTATTGATA
123692 C
1 C
123693 TAGATCCTGT
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:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (20 bp):
CATAAGTGAATGTATTGATA
Found at i:123987 original size:20 final size:20
Alignment explanation
Indices: 123962--124002 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
123952 AATTTCTAAT
123962 CATAAGTGAATGTATTGATA
1 CATAAGTGAATGTATTGATA
*
123982 CATAAGTGAATGTGTTGATA
1 CATAAGTGAATGTATTGATA
124002 C
1 C
124003 TAGATCCTGT
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:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (20 bp):
CATAAGTGAATGTATTGATA
Found at i:124502 original size:290 final size:290
Alignment explanation
Indices: 123362--125742 Score: 4206
Period size: 290 Copynumber: 8.0 Consensus size: 290
123352 TGTATTGATA
123362 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
123427 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
123492 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
123557 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
123622 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTATTGAT
261 AGGCCATATATTAGAGCTTAAA--T-T--TC-----------TA---AT
123671 ACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
1 -CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
123736 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
65 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
123801 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
130 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
123866 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
195 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
123931 CAGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTATTGAT
260 CAGGCCATATATTAGAGCTTAAA--T-T--TC-----------TA---AT
123981 ACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
1 -CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
124046 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
65 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
124111 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
130 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
124176 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
195 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
124241 CAGGCCATATATTAGAGCTTAAATTTCTAAT
260 CAGGCCATATATTAGAGCTTAAATTTCTAAT
124272 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
124337 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
124402 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
124467 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
124532 AGGCCATATATTAGAGCTTAAATTTCTAAT
261 AGGCCATATATTAGAGCTTAAATTTCTAAT
124562 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
124627 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
124692 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
124757 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
124822 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTATTGAT
261 AGGCCATATATTAGAGCTTAAA--T-T--TC-----------TA---AT
124871 ACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
1 -CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATA
124936 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
65 CTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATT
125001 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
130 CTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAG
125066 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATG-TTTGTTACACTATAAGTCACCAGAATT
195 CCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATT
125130 CAGGCCATATATTAGAGCTTAAATTTCTAAT
260 CAGGCCATATATTAGAGCTTAAATTTCTAAT
125161 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
125226 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
125291 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
125356 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
125421 AGGCCATATATTAGAGCTTAAATTTCTAAT
261 AGGCCATATATTAGAGCTTAAATTTCTAAT
125451 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
*
125516 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTTCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
125581 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
125646 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
125711 AGGCCATATATTAGAGCTTAAATTTCTAAT
261 AGGCCATATATTAGAGCTTAAATTTCTAAT
125741 CA
1 CA
125743 AATTTGAATC
Statistics
Matches: 2049, Mismatches: 1, Indels: 62
0.97 0.00 0.03
Matches are distributed among these distances:
289 231 0.11
290 923 0.45
291 2 0.00
292 1 0.00
293 3 0.00
294 2 0.00
295 2 0.00
304 2 0.00
305 2 0.00
306 3 0.00
307 2 0.00
308 1 0.00
309 52 0.03
310 823 0.40
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (290 bp):
CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
AGGCCATATATTAGAGCTTAAATTTCTAAT
Found at i:124877 original size:20 final size:20
Alignment explanation
Indices: 124852--124892 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
124842 AATTTCTAAT
124852 CATAAGTGAATGTATTGATA
1 CATAAGTGAATGTATTGATA
*
124872 CATAAGTGAATGTGTTGATA
1 CATAAGTGAATGTATTGATA
124892 C
1 C
124893 TAGATCCTGT
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:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (20 bp):
CATAAGTGAATGTATTGATA
Found at i:125647 original size:889 final size:890
Alignment explanation
Indices: 123362--125742 Score: 4566
Period size: 889 Copynumber: 2.7 Consensus size: 890
123352 TGTATTGATA
123362 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
123427 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
123492 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
123557 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
123622 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTATTGATACATAAGTGAATGTGT
261 AGGCCATATATTAGAGCTTAAA--T-T--TC-----------TA---AT-CATAAGTGAATGTGT
123687 TGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGA
306 TGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGA
123752 TGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCA
371 TGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCA
123817 AATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGAC
436 AATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGAC
123882 CCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGA
501 CCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGA
123947 GCTTAAATTTCTAATCATAAGTGAATGTATTGATACATAAGTGAATGTGTTGATACTAGATCCTG
566 GCTTAAATTTCTAATCATAAGTGAATGTATTGATACATAAGTGAATGTGTTGATACTAGATCCTG
124012 TCGAGGCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAA
631 TCGAGGCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAA
124077 TGTATCAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCAT
696 TGTATCAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCAT
124142 CTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTG
761 CTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTG
124207 AACATGTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAAT
826 AACATGTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAAT
124272 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
124337 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
124402 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
124467 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
124532 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTGTTGATACTAGATCCTGTCGAG
261 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTGTTGATACTAGATCCTGTCGAG
124597 GCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTAT
326 GCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTAT
124662 CAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGT
391 CAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGT
124727 TAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACAT
456 TAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACAT
124792 GTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAATCATAA
521 GTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAATCATAA
124857 GTGAATGTATTGATACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATT
586 GTGAATGTATTGATACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATT
124922 TTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCAT
651 TTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCAT
124987 TGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTT
716 TGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTT
125052 CGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATG-TTTGTTACACTAT
781 CGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTAT
125116 AAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAAT
846 AAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAAT
125161 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
1 CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
125226 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
66 TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
125291 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
131 TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
125356 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
196 CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
125421 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTGTTGATACTAGATCCTGTCGAG
261 AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTGTTGATACTAGATCCTGTCGAG
125486 GCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTAT
326 GCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTAT
*
125551 CAATACATCTTTCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGT
391 CAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGT
125616 TAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACAT
456 TAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACAT
125681 GTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAATCA
521 GTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAATCA
125743 AATTTGAATC
Statistics
Matches: 1470, Mismatches: 1, Indels: 21
0.99 0.00 0.01
Matches are distributed among these distances:
889 639 0.43
890 541 0.37
891 2 0.00
894 2 0.00
905 2 0.00
907 1 0.00
908 1 0.00
910 282 0.19
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (890 bp):
CATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATTTTAGAAAAATTATAC
TGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCATTGTATCGATACATTC
TAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTTCGAGCCATTTTCAGC
CTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTATAAGTCACCAGAATTC
AGGCCATATATTAGAGCTTAAATTTCTAATCATAAGTGAATGTGTTGATACTAGATCCTGTCGAG
GCAAAATTTTGTATTTTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTAT
CAATACATCTTCCATTGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGT
TAAATTTAGGCATTTCGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACAT
GTTTTGTTACACTATAAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAATCATAA
GTGAATGTATTGATACATAAGTGAATGTGTTGATACTAGATCCTGTCGAGGCAAAATTTTGTATT
TTAGAAAAATTATACTGATACATAAGTGGATGTACATGCTGGTAATGTATCAATACATCTTCCAT
TGTATCGATACATTCTAGATTTTTGACCCAAATGTATCAATTCATCTAGTTAAATTTAGGCATTT
CGAGCCATTTTCAGCCTTTGCTCATTGGACCCAATGTTTGGTTTGAACATGTTTTGTTACACTAT
AAGTCACCAGAATTCAGGCCATATATTAGAGCTTAAATTTCTAAT
Found at i:128183 original size:22 final size:20
Alignment explanation
Indices: 128154--128195 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
128144 GTTATCTTAA
128154 GATAATCAATGG-TAATTACAC
1 GATAATC-ATGGCT-ATTACAC
128175 GATACATCATGGCTATTACAC
1 GATA-ATCATGGCTATTACAC
128196 TTTTCTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (20 bp):
GATAATCATGGCTATTACAC
Found at i:129146 original size:18 final size:18
Alignment explanation
Indices: 129120--129155 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
129110 AGAAATCCTT
129120 TAGAAAATTTTGTAATAC
1 TAGAAAATTTTGTAATAC
*
129138 TAGATAATTTTGTAATAC
1 TAGAAAATTTTGTAATAC
129156 ACTACTCAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.42
Consensus pattern (18 bp):
TAGAAAATTTTGTAATAC
Found at i:133442 original size:32 final size:31
Alignment explanation
Indices: 133400--133476 Score: 118
Period size: 32 Copynumber: 2.4 Consensus size: 31
133390 CATTTGGTTT
133400 AGAAGGGTTGCCACCAACTTGTGTAGGCTTTAG
1 AGAA-GGTTGCCACCAACTTGTGTAGGCTTT-G
*
133433 AGAAGGTTGCCACCAACTTGTGTGGGCTTTG
1 AGAAGGTTGCCACCAACTTGTGTAGGCTTTG
*
133464 AGAAGGATGCCAC
1 AGAAGGTTGCCAC
133477 TGACTTGCGG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
31 13 0.31
32 25 0.60
33 4 0.10
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (31 bp):
AGAAGGTTGCCACCAACTTGTGTAGGCTTTG
Found at i:133530 original size:28 final size:28
Alignment explanation
Indices: 133455--133822 Score: 305
Period size: 28 Copynumber: 13.0 Consensus size: 28
133445 CCAACTTGTG
*
133455 TGGGCTTTGAGAAGGATGCCACTGACTTG
1 TGGGCTTTGA-AAGGATGCCACTGACTTA
* * * * *
133484 CGGGCTTTAAAAATG-TGCCATTAACTTA
1 TGGGCTTT-GAAAGGATGCCACTGACTTA
* * *
133512 TGGTCTTTGAAAGGATGCCACTAACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTA
** *
133540 TGGGCTTTGAAAATAATGCCACCGACTTGTA
1 TGGGCTTTG-AAAGGATGCCACTGAC-T-TA
* * * *
133571 TGGGCTTCGAAAGGGTGCCATTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTA
133599 T-GGCTTTGAAATGG-TGGCCACTGACTTA
1 TGGGCTTTGAAA-GGAT-GCCACTGACTTA
* * *
133627 TGGGTTTTTAAAGGTTGCCACTGACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTTA
* * * *
133655 TGGGCTTTGAAAGGGTGCCACTAACCTG
1 TGGGCTTTGAAAGGATGCCACTGACTTA
* *
133683 TGGACTTTGAAAGGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTA
* * * *
133711 TGGGCTTTTAAA-GTTGCCACTAACTTT
1 TGGGCTTTGAAAGGATGCCACTGACTTA
* *
133738 TGGGCTTTGAAAAGATGCCACTGACTTG
1 TGGGCTTTGAAAGGATGCCACTGACTTA
*
133766 TGAGCTTTGAACAGG-TGCCACTGACTTA
1 TGGGCTTTGAA-AGGATGCCACTGACTTA
* *
133794 TGGTCTTTTGAAAGGGTGCCACTGGACTT
1 TGGGC-TTTGAAAGGATGCCACT-GACTT
133823 G
Statistics
Matches: 271, Mismatches: 54, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
27 37 0.14
28 160 0.59
29 47 0.17
30 18 0.07
31 9 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.31
Consensus pattern (28 bp):
TGGGCTTTGAAAGGATGCCACTGACTTA
Found at i:133531 original size:56 final size:56
Alignment explanation
Indices: 133459--133823 Score: 351
Period size: 56 Copynumber: 6.4 Consensus size: 56
133449 CTTGTGTGGG
* * *
133459 CTTTGAGAAGGATGCCACTGACTTGCGGGCTTTAAAAATGTGCCATTAACTTATGGT
1 CTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAAATGTGCCACTAACTTATGGT
* * ** *
133516 CTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAATAATGCCACCGACTTGTATGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAT-GTGCCACTAAC-T-TATGGT
* * * *
133575 CTTCGAAAGGGTGCCATTGACTTGT-GGCTTTG-AAATGGTGGCCACTGACTTATGGGT
1 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAT-GT-GCCACTAACTTAT-GGT
* * * ** * * *
133632 -TTTTAAAGGTTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTAACCTGTGGA
1 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAATGTGCCACTAACTTATGGT
* * * *
133687 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTTAAAGT-TGCCACTAACTTTTGGG
1 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAATGTGCCACTAACTTATGGT
* * * * *
133742 CTTTGAAAAGATGCCACTGACTTGTGAGCTTTGAACAGGTGCCACTGACTTATGGT
1 CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAATGTGCCACTAACTTATGGT
*
133798 CTTTTGAAAGGGTGCCACTGGACTTG
1 C-TTTGAAAGGATGCCACT-GACTTG
Statistics
Matches: 251, Mismatches: 46, Indels: 21
0.79 0.14 0.07
Matches are distributed among these distances:
55 48 0.19
56 108 0.43
57 45 0.18
58 24 0.10
59 26 0.10
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (56 bp):
CTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAATGTGCCACTAACTTATGGT
Done.