Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold450
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: 725389
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 2 of 5
Found at i:192573 original size:20 final size:20
Alignment explanation
Indices: 192548--192598 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
192538 ATTGGGCATG
* *
192548 ATGTATCGATACAAT-TCTTC
1 ATGTATCGATACATTATC-CC
192568 ATGTATCGATACATTATCCC
1 ATGTATCGATACATTATCCC
192588 ATGTATCGATA
1 ATGTATCGATA
192599 TATTTCACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 26 0.93
21 2 0.07
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTATCCC
Found at i:192655 original size:20 final size:19
Alignment explanation
Indices: 192630--192701 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 19
192620 TACCAGTTTC
192630 ATGTATCGATACCATTGAGT
1 ATGTATCGATA-CATTGAGT
* **
192650 ATGTATCGTTACAAAGCA-T
1 ATGTATCGATACATTG-AGT
192669 AATGTATCGATACATCTGAGT
1 -ATGTATCGATACAT-TGAGT
192690 ATGTATCGATAC
1 ATGTATCGATAC
192702 TTTCTAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
19 4 0.10
20 36 0.86
21 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACATTGAGT
Found at i:194861 original size:13 final size:13
Alignment explanation
Indices: 194843--194868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
194833 AATTTTTTTG
194843 TGTATCGATACAT
1 TGTATCGATACAT
194856 TGTATCGATACAT
1 TGTATCGATACAT
194869 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:194879 original size:32 final size:34
Alignment explanation
Indices: 194822--194886 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
194812 TACAAGCCAA
*
194822 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
194856 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
194887 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:194991 original size:20 final size:20
Alignment explanation
Indices: 194938--194993 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
194928 ACATCTTTTT
*
194938 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
194958 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
194977 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
194994 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:196971 original size:21 final size:20
Alignment explanation
Indices: 196942--196984 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
196932 GACTAGTGTG
**
196942 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCATGACCT
*
196963 GGGAGTGCCGGTCATGACCT
1 GGGACTGCCGGTCATGACCT
196983 GG
1 GG
196985 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.26, G:0.42, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCATGACCT
Found at i:197437 original size:13 final size:13
Alignment explanation
Indices: 197416--197453 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
197406 ATAATCCCCC
*
197416 TGTAGCGATACAG
1 TGTATCGATACAG
*
197429 TGTATCGATACAT
1 TGTATCGATACAG
197442 TGTATCGATACA
1 TGTATCGATACA
197454 ATGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:199555 original size:15 final size:15
Alignment explanation
Indices: 199535--199565 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
199525 ATTTCGTTTG
*
199535 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
199550 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
199565 G
1 G
199566 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:201391 original size:21 final size:21
Alignment explanation
Indices: 201362--201406 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
201352 AAGTTTTTAT
*
201362 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
201382 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
201404 TTT
1 TTT
201407 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:203646 original size:13 final size:13
Alignment explanation
Indices: 203628--203653 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
203618 AATTTTTTTG
203628 TGTATCGATACAT
1 TGTATCGATACAT
203641 TGTATCGATACAT
1 TGTATCGATACAT
203654 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:203664 original size:32 final size:34
Alignment explanation
Indices: 203607--203671 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
203597 TACAAGCCAA
*
203607 TGTATCGATACAATTTTTTTGTGTATCGATACAT
1 TGTATCGATACAATTATTTTGTGTATCGATACAT
203641 TGTATCGATAC-A-TATTTTGTGTATCGATACA
1 TGTATCGATACAATTATTTTGTGTATCGATACA
203672 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 1 0.03
34 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
TGTATCGATACAATTATTTTGTGTATCGATACAT
Found at i:203776 original size:20 final size:20
Alignment explanation
Indices: 203723--203778 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
203713 ACATCTTTTT
*
203723 CATGTATCGATACATTGCAA
1 CATGTATCGATACTTTGCAA
203743 CATGTATCGATACTTTG-AA
1 CATGTATCGATACTTTGCAA
*
203762 CTGTGTATCGATACTTT
1 C-ATGTATCGATACTTT
203779 TAAGGGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (20 bp):
CATGTATCGATACTTTGCAA
Found at i:209873 original size:33 final size:32
Alignment explanation
Indices: 209828--209897 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
209818 CTAGTGACAT
* * *
209828 TGGG-TTTAGA-AAGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAAAGTTGACACCAACTTATG
*
209858 TGGGCTTTAGAGAAAGTTGACACCGACTTATG
1 TGGGCTTTAGAGAAAGTTGACACCAACTTATG
209890 TGGGCTTT
1 TGGGCTTT
209898 GAAAGGATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 4 0.12
31 6 0.18
32 24 0.71
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (32 bp):
TGGGCTTTAGAGAAAGTTGACACCAACTTATG
Found at i:210177 original size:19 final size:19
Alignment explanation
Indices: 210153--210220 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
210143 AATTCAACGA
210153 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
210172 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
210187 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
210204 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
210221 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:210191 original size:32 final size:32
Alignment explanation
Indices: 210155--210217 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
210145 TTCAACGATT
*
210155 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
210187 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
210218 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:210192 original size:13 final size:13
Alignment explanation
Indices: 210174--210198 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
210164 ACATAAGTTT
210174 TGTATCGATACAA
1 TGTATCGATACAA
210187 TGTATCGATACA
1 TGTATCGATACA
210199 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:210278 original size:13 final size:13
Alignment explanation
Indices: 210260--210285 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
210250 CATTTTTCTG
210260 TGTATCGATACAT
1 TGTATCGATACAT
210273 TGTATCGATACAT
1 TGTATCGATACAT
210286 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:210282 original size:33 final size:33
Alignment explanation
Indices: 210240--210306 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
210230 GCCAAGGAAA
***
210240 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
210273 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
210306 T
1 T
210307 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:212824 original size:27 final size:27
Alignment explanation
Indices: 212767--212838 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
212757 CTTCACAATC
* **
212767 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
** *
212794 GGGGATACTCCAACCCCGTTTTTCCGA
1 GGGGATACTCCAACCCCGTTAATCAGA
212821 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
212839 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.22, C:0.36, G:0.22, T:0.19
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:212940 original size:78 final size:78
Alignment explanation
Indices: 212793--212995 Score: 239
Period size: 78 Copynumber: 2.6 Consensus size: 78
212783 CGTTAATCAT
* *
212793 CGGGGATACTCCAACCCCGTT-TTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCC-GATTTATTCCCAAAATAT
* * *
212857 TGATTTCTCATAAT
65 CGATTTCTCACAAC
* * * ** *
212871 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAAT-AT
212935 CGATTTCTCACAAC
65 CGATTTCTCACAAC
* * * *
212949 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
212996 TTATCATCTC
Statistics
Matches: 106, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
77 3 0.03
78 81 0.76
79 22 0.21
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTATTCCCAAAATATC
GATTTCTCACAAC
Found at i:214049 original size:28 final size:28
Alignment explanation
Indices: 213968--214119 Score: 178
Period size: 28 Copynumber: 5.4 Consensus size: 28
213958 TGCGATAGTA
** * *
213968 GGCTTTGAAAAGAAGCCACTGACTTATG
1 GGCTTTGAAAAGGTGCCATTGACTTGTG
* * * * *
213996 GACCTAGAGAAGGAGCCATTGACTTGTG
1 GGCTTTGAAAAGGTGCCATTGACTTGTG
*
214024 GGCTTTGAGAAGGTGCCATTGACTTGTG
1 GGCTTTGAAAAGGTGCCATTGACTTGTG
* *
214052 GGCTTTGAAAAGATGCCACTGACTTGTG
1 GGCTTTGAAAAGGTGCCATTGACTTGTG
* *
214080 GGCTTTGAAAAGGTACCATAGACTTGTG
1 GGCTTTGAAAAGGTGCCATTGACTTGTG
214108 GGCTTTGAAAAG
1 GGCTTTGAAAAG
214120 AGGTCGTATT
Statistics
Matches: 106, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 106 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (28 bp):
GGCTTTGAAAAGGTGCCATTGACTTGTG
Found at i:215460 original size:24 final size:24
Alignment explanation
Indices: 215432--215480 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
215422 TTTTTTCTTG
215432 GTTTTGGTT-TTTTTCTTGTTTTTT
1 GTTTT-GTTATTTTTCTTGTTTTTT
* *
215456 GTTTTTTTATTTTTTTTGTTTTTT
1 GTTTTGTTATTTTTCTTGTTTTTT
215480 G
1 G
215481 AGAAGGACGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 2 0.09
24 20 0.91
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.82
Consensus pattern (24 bp):
GTTTTGTTATTTTTCTTGTTTTTT
Found at i:215471 original size:18 final size:18
Alignment explanation
Indices: 215418--215479 Score: 90
Period size: 18 Copynumber: 3.5 Consensus size: 18
215408 CCTTTTTATG
*
215418 TTGTTTTTTTCTTGGTTT
1 TTGTTTTTTTCTTGTTTT
*
215436 TGGTTTTTTTCTTGTTTT
1 TTGTTTTTTTCTTGTTTT
*
215454 TTGTTTTTTTATT-TTTT
1 TTGTTTTTTTCTTGTTTT
215471 TTGTTTTTT
1 TTGTTTTTT
215480 GAGAAGGACG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 13 0.32
18 27 0.68
ACGTcount: A:0.02, C:0.03, G:0.13, T:0.82
Consensus pattern (18 bp):
TTGTTTTTTTCTTGTTTT
Found at i:222819 original size:15 final size:16
Alignment explanation
Indices: 222801--222885 Score: 50
Period size: 15 Copynumber: 5.0 Consensus size: 16
222791 ATTAAAAATT
222801 ATATTA-TTTAATTAA
1 ATATTATTTTAATTAA
*
222816 ATA-TATTTTTATTAA
1 ATATTATTTTAATTAA
*
222831 ATATT-TTATTATATTTA
1 ATATTATT-TTA-ATTAA
222848 ATATTTAAATTTTTAATTAA
1 ATA-TT--A-TTTTAATTAA
*
222868 ATAATTTAATTTAATTAA
1 AT-A-TTATTTTAATTAA
222886 TTTAATTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
14 2 0.04
15 16 0.29
16 3 0.05
17 7 0.13
18 11 0.20
19 1 0.02
20 6 0.11
21 7 0.13
22 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATATTATTTTAATTAA
Found at i:222846 original size:37 final size:37
Alignment explanation
Indices: 222805--222875 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
222795 AAAATTATAT
* *
222805 TATTTAATTAAATATATTTTT-ATTAAATATTTTATTA
1 TATTTAA-TAAATAAATTTTTAATTAAATAATTTATTA
**
222842 TATTTAATATTTAAATTTTTAATTAAATAATTTA
1 TATTTAATAAATAAATTTTTAATTAAATAATTTA
222876 ATTTAATTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 10 0.34
37 19 0.66
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (37 bp):
TATTTAATAAATAAATTTTTAATTAAATAATTTATTA
Found at i:222885 original size:9 final size:9
Alignment explanation
Indices: 222859--222896 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
222849 TATTTAAATT
222859 TTTAATTAA
1 TTTAATTAA
*
222868 -ATAATTTAA
1 TTTAA-TTAA
222877 TTTAATTAA
1 TTTAATTAA
222886 TTTAATTAA
1 TTTAATTAA
222895 TT
1 TT
222897 AAACCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 3 0.12
9 19 0.76
10 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (9 bp):
TTTAATTAA
Found at i:222895 original size:13 final size:13
Alignment explanation
Indices: 222859--222898 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
222849 TATTTAAATT
*
222859 TTTAATTAAATAA
1 TTTAATTAATTAA
222872 TTTAATTTAATTAA
1 TTTAA-TTAATTAA
222886 TTTAATTAATTAA
1 TTTAATTAATTAA
222899 ACCAAAAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:223142 original size:3 final size:3
Alignment explanation
Indices: 223134--223177 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
223124 CTGAAAACAC
* *
223134 TAT TAT TAT TAT TAT TAT TAG TAC TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
223178 CATTTTAGTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:223382 original size:6 final size:6
Alignment explanation
Indices: 223371--223397 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
223361 GTACCCATCT
223371 CCAACC CCAACC CCAACC CCAACC CCA
1 CCAACC CCAACC CCAACC CCAACC CCA
223398 TGGCCTCATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (6 bp):
CCAACC
Found at i:225104 original size:60 final size:60
Alignment explanation
Indices: 225011--225126 Score: 205
Period size: 60 Copynumber: 1.9 Consensus size: 60
225001 TACATGATTG
225011 CATGATCTCATCCAATCCTACATTAAATTTGATGACATAACATGTAAAAAATAATCCAAT
1 CATGATCTCATCCAATCCTACATTAAATTTGATGACATAACATGTAAAAAATAATCCAAT
* * *
225071 CATGATCTCGTCCAATCTTACATTAAATTTGATGACATAACATGTGAAAAATAATC
1 CATGATCTCATCCAATCCTACATTAAATTTGATGACATAACATGTAAAAAATAATC
225127 TAACTAAACT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (60 bp):
CATGATCTCATCCAATCCTACATTAAATTTGATGACATAACATGTAAAAAATAATCCAAT
Found at i:229859 original size:154 final size:153
Alignment explanation
Indices: 229544--230002 Score: 394
Period size: 154 Copynumber: 3.0 Consensus size: 153
229534 AAAAAGTGAA
* * * * * * *
229544 CCGGTGGCAACCTAGGACTT-GATTCTAAAAGAATTATGAAAAT-GCCCTTAAGGGATATCTTCG
1 CCGGTGACAACCAAGGACTTAG-TTCTGAAA-AATTACGAAAATAACCC-TAAGCGATACCTTCG
** * * * **
229607 ATTTAGAAA-TACTCAATACCCCTAAAGGACTTAAAAAGGAATATGGAAGGGATGAACCTATCCT
63 ACATA-AAAGTACTCGATA-CCCTAAAGGACTTAAAAAGG-TTTTAAAAGGGATGAACCTATCCT
* * *
229671 AAATACCCACCCTCGGCATAAAAGCAGAC
125 AAATATCCACCTTTGGCATAAAAGCAGAC
* * *
229700 TCGGTGACAACCGAAGG-CTTGGTTCTGAAAAATTACGAAAAT-ACTTCTAAGCGATACCTTCGA
1 CCGGTGACAACC-AAGGACTTAGTTCTGAAAAATTACGAAAATAAC-CCTAAGCGATACCTTCGA
* *
229763 CATAAAAGTACTCGATACTCCTAAAGAACTTAAAAAGGTTTTAAAAGGGATCAACCTATCCTAAA
64 CATAAAAGTACTCGATAC-CCTAAAGGACTTAAAAAGGTTTTAAAAGGGATGAACCTATCCTAAA
* *
229828 CATCCACCTTTGGCATAAAAG-TGAAC
128 TATCCACCTTTGGCATAAAAGCAG-AC
* * * * * * * **
229854 CCGGTGACGACCTAGGAGTTAGTTTTGAAAAATTATGAAAATAACCCTAGGGGATACCTTCGATG
1 CCGGTGACAACCAAGGACTTAGTTCTGAAAAATTACGAAAATAACCCTAAGCGATACCTTCGACA
** * *
229919 TAAAAGTA-TCAGATACCCTTAAAGGACCGAAAAAGAGTTTTAAAAGGGATGACCCTATCCCAAA
66 TAAAAGTACTC-GATACCC-TAAAGGACTTAAAAAG-GTTTTAAAAGGGATGAACCTATCCTAAA
*
229983 TATCCA-TTTTCGGCATAAAA
128 TATCCACCTTT-GGCATAAAA
230003 ACGGACCTAG
Statistics
Matches: 248, Mismatches: 43, Indels: 25
0.78 0.14 0.08
Matches are distributed among these distances:
153 8 0.03
154 120 0.48
155 95 0.38
156 21 0.08
157 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (153 bp):
CCGGTGACAACCAAGGACTTAGTTCTGAAAAATTACGAAAATAACCCTAAGCGATACCTTCGACA
TAAAAGTACTCGATACCCTAAAGGACTTAAAAAGGTTTTAAAAGGGATGAACCTATCCTAAATAT
CCACCTTTGGCATAAAAGCAGAC
Found at i:230059 original size:155 final size:154
Alignment explanation
Indices: 229718--230069 Score: 388
Period size: 155 Copynumber: 2.3 Consensus size: 154
229708 AACCGAAGGC
* * *
229718 TTGGTTCTGAAAAATTACGAAAATACTTCTAAGCGATACCTTCGACATAAAAGTACTCGATACTC
1 TTGGTTCTGAAAAATTACGAAAATACCTCTAGGAGATACCTTCGACATAAAAGTACTCGATACTC
** *
229783 CTAAAGAACTTAAAAAGGTTTTAAAAGGGATCAACCTATCCTAAACATCCACCTTTGGCATAAAA
66 CTAAAGAACCGAAAAAGGTTTTAAAAGGGATCAACCTATCCCAAACATCCACCTTTGGCATAAAA
** *
229848 GTGAACCCGGTGACGACCTAGGAG
131 ACGAACCCAGTGACGACCTAGGAG
* * * * **
229872 TTAGTTTTGAAAAATTATGAAAATAACC-CTAGGGGATACCTTCGATGTAAAAGTA-TCAGATAC
1 TTGGTTCTGAAAAATTACGAAAAT-ACCTCTAGGAGATACCTTCGACATAAAAGTACTC-GATAC
* * * * *
229935 -CCTTAAAGGACCGAAAAAGAGTTTTAAAAGGGATGACCCTATCCCAAATATCCA-TTTTCGGCA
64 TCC-TAAAGAACCGAAAAAG-GTTTTAAAAGGGATCAACCTATCCCAAACATCCACCTTT-GGCA
* * *
229998 TAAAAACGGACCTAGTGACGACTTAGGAG
126 TAAAAACGAACCCAGTGACGACCTAGGAG
** * *
230027 TTGGTTCAAAAAAATTACGAAAATGCCTCTAGGAGATATCTTC
1 TTGGTTCTGAAAAATTACGAAAATACCTCTAGGAGATACCTTC
230070 AACGTGAAAG
Statistics
Matches: 162, Mismatches: 30, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
153 4 0.02
154 67 0.41
155 91 0.56
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.26
Consensus pattern (154 bp):
TTGGTTCTGAAAAATTACGAAAATACCTCTAGGAGATACCTTCGACATAAAAGTACTCGATACTC
CTAAAGAACCGAAAAAGGTTTTAAAAGGGATCAACCTATCCCAAACATCCACCTTTGGCATAAAA
ACGAACCCAGTGACGACCTAGGAG
Found at i:230750 original size:21 final size:20
Alignment explanation
Indices: 230709--230755 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
230699 TCCCTAAATA
*
230709 ATTAAAACATGAAATTAAGC
1 ATTAAAACATGAAAATAAGC
* *
230729 ATTAAACACATTAAAATCAGC
1 ATTAAA-ACATGAAAATAAGC
230750 A-TAAAA
1 ATTAAAA
230756 AATTTACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 1 0.04
20 10 0.43
21 12 0.52
ACGTcount: A:0.57, C:0.13, G:0.06, T:0.23
Consensus pattern (20 bp):
ATTAAAACATGAAAATAAGC
Found at i:232455 original size:167 final size:167
Alignment explanation
Indices: 232115--232480 Score: 441
Period size: 167 Copynumber: 2.2 Consensus size: 167
232105 TAATATGAAT
* * * * * * *
232115 TAAATAATAATATTTAATAAATTTTAAAAATTAAAAAGCCAGAAAAGTTCTTCTGAAAACATTTA
1 TAAATAATAATATTTTATGAATTTTAAAAATTAAAAAGCAAGAAAAATCCCTCTGAAAACATGTA
* * * * * *
232180 CGGAGTAGAAAACTTCATATTTCGAAAATAGGAGAGTTTCAAGGAAAAAAATGAAAAACTCAAGA
66 CGGAGTAGAAAACTTCATATTTCGAAAAGAGAAAAATTTCAAAGAAAAAAATAAAAAACTCAAGA
* *
232245 AGATGAGTGAATTTTTGAAAAATAATTGAACATAAAT
131 AGATGAATGAATTTTTGAAAAATAATTGAACATAAAC
* *
232282 TAAATAATAATATTTTATGAATTTTAAAAATTAAAAATCAAGAAAAATCCCTCTGAAAAGATGTA
1 TAAATAATAATATTTTATGAATTTTAAAAATTAAAAAGCAAGAAAAATCCCTCTGAAAACATGTA
* * *
232347 TGGAGTAGAAAACTTCTTATTTCGAAAACGAGAAAAATTTCAAAG-AAAAAATAAAAAACTCATG
66 CGGAGTAGAAAACTTCATATTTCGAAAA-GAGAAAAATTTCAAAGAAAAAAATAAAAAACTCAAG
* * * ** **
232411 AAGATGAATTAATTTTT-AAAAACTGATTTAATGGT-GGC
130 AAGATGAATGAATTTTTGAAAAA-TAATTGAA-CATAAAC
232449 TAAATAATAATATTTTATGAATTTTAAAAATT
1 TAAATAATAATATTTTATGAATTTTAAAAATT
232481 TTGGATAAAT
Statistics
Matches: 169, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
166 5 0.03
167 152 0.90
168 12 0.07
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (167 bp):
TAAATAATAATATTTTATGAATTTTAAAAATTAAAAAGCAAGAAAAATCCCTCTGAAAACATGTA
CGGAGTAGAAAACTTCATATTTCGAAAAGAGAAAAATTTCAAAGAAAAAAATAAAAAACTCAAGA
AGATGAATGAATTTTTGAAAAATAATTGAACATAAAC
Found at i:233687 original size:82 final size:82
Alignment explanation
Indices: 233573--233808 Score: 248
Period size: 82 Copynumber: 2.9 Consensus size: 82
233563 GTAAACAAGG
* * * *
233573 GATGAAAGGTTGACTAGGGCTGAACTGATAAGTCAACAAAGGGTAAAAGAGTTTACTAGGGATTG
1 GATGAAAAGTTGACTAGGG-TAAACCGATAAGTCAACAAAGGGTAAAAGAGTTTACTAGGGACTG
*
233638 AGCCGATAAGTAA-CAGA
65 AGCCGATAAGTAAGAAGA
* * *
233655 GATGAAAATTTGACTAGGGTTAAACCGATAAGTCAAC-ATGGGCTAAAAGAGTTCT-CTAAGGAC
1 GATGAAAAGTTGACTAGGG-TAAACCGATAAGTCAACAAAGGG-TAAAAGAGTT-TACTAGGGAC
*
233718 TGAGCCGATAGGTAAGTAAGA
63 TGAGCCGATAAGTAAG-AAGA
* * * * *
233739 GAT-AAAAGGTTGACCATGGCAGAACCGATAAGTCAACAAAGGGTAAAGGATTTTACTAGGGACT
1 GATGAAAA-GTTGACTAGGGTA-AACCGATAAGTCAACAAAGGGTAAAAGAGTTTACTAGGGACT
233803 -AGCCGA
64 GAGCCGA
233809 CAAGCAAACG
Statistics
Matches: 128, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
81 4 0.03
82 62 0.48
83 13 0.10
84 45 0.35
85 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.21
Consensus pattern (82 bp):
GATGAAAAGTTGACTAGGGTAAACCGATAAGTCAACAAAGGGTAAAAGAGTTTACTAGGGACTGA
GCCGATAAGTAAGAAGA
Found at i:233802 original size:84 final size:82
Alignment explanation
Indices: 233518--233808 Score: 254
Period size: 84 Copynumber: 3.5 Consensus size: 82
233508 TAAAATTGAA
* * * * * * *
233518 AAGTCAACAAAGGAT-AAAGAAATTTACCT-GAGACTTAGCCGAGAGGTAAACAAGGGATGAAAG
1 AAGTCAACAAAGGGTAAAAG-ATTTTA-CTAGGGACTGAGCCGATAGGT-AA-AAGAGATAAAAG
* *
233581 GTTGACTAGGGCTGAACTGAT
62 GTTGACTAGGGCAGAACCGAT
* * * * *
233602 AAGTCAACAAAGGGTAAAAGAGTTTACTAGGGATTGAGCCGATAAGTAACAGAGATGAAAA-TTT
1 AAGTCAACAAAGGGTAAAAGATTTTACTAGGGACTGAGCCGATAGGTAAAAGAGAT-AAAAGGTT
*
233666 GACTAGGGTTA-AACCGAT
65 GACTAGGG-CAGAACCGAT
* * *
233684 AAGTCAAC-ATGGGCTAAAAGAGTTCT-CTAAGGACTGAGCCGATAGGTAAGTAAGAGATAAAAG
1 AAGTCAACAAAGGG-TAAAAGA-TTTTACTAGGGACTGAGCCGATAGGTAA--AAGAGATAAAAG
* *
233747 GTTGACCATGGCAGAACCGAT
62 GTTGACTAGGGCAGAACCGAT
*
233768 AAGTCAACAAAGGGTAAAGGATTTTACTAGGGACT-AGCCGA
1 AAGTCAACAAAGGGTAAAAGATTTTACTAGGGACTGAGCCGA
233809 CAAGCAAACG
Statistics
Matches: 166, Mismatches: 29, Indels: 25
0.75 0.13 0.11
Matches are distributed among these distances:
81 4 0.02
82 56 0.34
83 23 0.14
84 75 0.45
85 8 0.05
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (82 bp):
AAGTCAACAAAGGGTAAAAGATTTTACTAGGGACTGAGCCGATAGGTAAAAGAGATAAAAGGTTG
ACTAGGGCAGAACCGAT
Found at i:234193 original size:132 final size:130
Alignment explanation
Indices: 233994--234410 Score: 521
Period size: 132 Copynumber: 3.2 Consensus size: 130
233984 ATCTGACCAA
* * * * *
233994 GGTGGTAACCATACGTCAAACAAGAAAGAGGTAGATTTGATCAGGGTGATAA-ATATACGTCAAA
1 GGTGGTAATCATACGTCAAA-TAGAAAGAGGCAGATTTGACCAGGGTGGTAACA-A-ACGTCAAA
* * *
234058 TCAAAATGAAAAAAATCTAACTAGGGTGGTAACCATACATCAGACCAAGATGAGAAGAGTTTGAC
63 TCAAAATGAAAAGAATCTGACTAGGGTGGTAACCATACATCAGACCAAAATGAGAAGAGTTTGAC
234123 TAG
128 TAG
* * *
234126 GGTAGTAATTATACGTTAAATAGAAATGAGGCAGATTTGACCAGGGTGGTAACCAAACGTCAAAT
1 GGTGGTAATCATACGTCAAATAGAAA-GAGGCAGATTTGACCAGGGTGGTAA-CAAACGTCAAAT
* * * * *
234191 CAAAATGAAAAGAATCTGACTAGGGTGGTAACCATACGTCAAACTAAAATAAGAAGAGTTTGACC
64 CAAAATGAAAAGAATCTGACTAGGGTGGTAACCATACATCAGACCAAAATGAGAAGAGTTTGACT
234256 AG
129 AG
* * * * * *
234258 AGTGGTAACCATACGTCAAATAGGAAAGAGGCAAATTTGACTAGGGTAGTAACAATATGTCAAAT
1 GGTGGTAATCATACGTCAAATA-GAAAGAGGCAGATTTGACCAGGGTGGTAACAA-ACGTCAAAT
* * *
234323 CAAAATGAAAAGAATTTGACTAGGGTGATAACCATACATCAGACCAAAATGAAAAGAGTTTGACT
64 CAAAATGAAAAGAATCTGACTAGGGTGGTAACCATACATCAGACCAAAATGAGAAGAGTTTGACT
*
234388 AA
129 AG
*
234390 GGTGGTAATCATATGTCAAAT
1 GGTGGTAATCATACGTCAAAT
234411 CAAAAAGAAA
Statistics
Matches: 243, Mismatches: 37, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
131 8 0.03
132 229 0.94
133 5 0.02
134 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (130 bp):
GGTGGTAATCATACGTCAAATAGAAAGAGGCAGATTTGACCAGGGTGGTAACAAACGTCAAATCA
AAATGAAAAGAATCTGACTAGGGTGGTAACCATACATCAGACCAAAATGAGAAGAGTTTGACTAG
Found at i:234570 original size:44 final size:44
Alignment explanation
Indices: 233887--234622 Score: 462
Period size: 44 Copynumber: 16.7 Consensus size: 44
233877 CAAACCGACT
* * **
233887 TGAAAAGAATTTGACTAGGGTGGTAACTATACGCCAAA-CGGGAA
1 TGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATC-AAAA
** * * **
233931 TGAGGTAG-ATTTGACTAAGGTGATAACCATGTGTCAAATCAAAA
1 TGA-AAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCAAAA
* * * *
233975 TGAAAAAAAATCTGACCAAGGTGGTAACCATACGTCAAA-CAAGAA
1 TG-AAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCAA-AA
* ** * **
234020 AGAGGTAG-ATTTGA-TCAGGGTGATAAATATACGTCAAATCAAAA
1 TGA-AAAGAATTTGACT-AGGGTGGTAACCATACGTCAAATCAAAA
* * * * * * *
234064 TGAAAAAAATCTAACTAGGGTGGTAACCATACATCAGACCAAGA
1 TGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCAAAA
* * * ** *
234108 TGAGAAGAGTTTGACTAGGGTAGTAATTATACGTTAAAT-AGAAA
1 TGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCA-AAA
** * *
234152 TGAGGCAG-ATTTGACCAGGGTGGTAACCAAACGTCAAATCAAAA
1 TGA-AAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCAAAA
*
234196 TGAAAAGAATCTGACTAGGGTGGTAACCATACGTCAAA-CTAAAA
1 TGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATC-AAAA
* * *
234240 T-AAGAAGAGTTTGACCAGAGTGGTAACCATACGTCAAAT-AGGAAA
1 TGAA-AAGAATTTGACTAGGGTGGTAACCATACGTCAAATCA--AAA
** * * *
234285 -GAGGCA-AATTTGACTAGGGTAGTAACAATATGTCAAATCAAAA
1 TGA-AAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCAAAA
* * * *
234328 TGAAAAGAATTTGACTAGGGTGATAACCATACATCAGACCAAAA
1 TGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCAAAA
* * * *
234372 TGAAAAGAGTTTGACTAAGGTGGTAATCATATGTCAAATCAAAA
1 TGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCAAAA
* * ** * * * *
234416 AGAAAAGAATCTGACTAAAGTGGTAACCATACATTAAACCGAAA
1 TGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCAAAA
* * * *
234460 TGAGAAGAGTTTGACTAAGGTGGTAACCATACTTCAAAT-AGAAA
1 TGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCA-AAA
* * * * * *
234504 TG--AGGCATATTTGGCCAAGGTGGTAACCATATGTCAAATCAGAA
1 TGAAAAG-A-ATTTGACTAGGGTGGTAACCATACGTCAAATCAAAA
* * * * * *
234548 TGAAATGAATCTGACTGGGGTGGTAACTATACGTCAGATCGAAA
1 TGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCAAAA
* * *
234592 T-AAGAA-AAGTTTGACCAAGGTGATAACCATA
1 TGAA-AAGAA-TTTGACTAGGGTGGTAACCATA
234623 TGTGCAACAA
Statistics
Matches: 520, Mismatches: 140, Indels: 64
0.72 0.19 0.09
Matches are distributed among these distances:
42 2 0.00
43 17 0.03
44 450 0.87
45 49 0.09
46 2 0.00
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (44 bp):
TGAAAAGAATTTGACTAGGGTGGTAACCATACGTCAAATCAAAA
Found at i:235501 original size:14 final size:14
Alignment explanation
Indices: 235459--235504 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
235449 AATTTTAATT
235459 TTTTATATT-TTTAA
1 TTTTAT-TTATTTAA
*
235473 ATTTATTTATTTAA
1 TTTTATTTATTTAA
235487 TTTTATTTATTTAA
1 TTTTATTTATTTAA
235501 TTTT
1 TTTT
235505 TAATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 2 0.07
14 27 0.93
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTATTTATTTAA
Found at i:235717 original size:41 final size:41
Alignment explanation
Indices: 235672--235749 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
235662 TTTATAATTT
* *
235672 TAAAATTTATATTTGTATACAAATATATATATATATATATG
1 TAAAATTTATATTTATATACAAATAAATATATATATATATG
* * *
235713 TAAAATTTATATTTATATATATATAAATATTTATATA
1 TAAAATTTATATTTATATACAAATAAATATATATATA
235750 ATTGAGATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (41 bp):
TAAAATTTATATTTATATACAAATAAATATATATATATATG
Found at i:235761 original size:2 final size:2
Alignment explanation
Indices: 235694--235749 Score: 51
Period size: 2 Copynumber: 28.5 Consensus size: 2
235684 TTGTATACAA
* * * *
235694 AT AT AT AT AT AT AT AT AT GT A- AA AT TT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
235735 AT AA AT AT TT AT AT A
1 AT AT AT AT AT AT AT A
235750 ATTGAGATAT
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:236428 original size:21 final size:22
Alignment explanation
Indices: 236399--236443 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
236389 TTAAAATGCT
236399 TAATTTTTA-TAT-TAAAAATA
1 TAATTTTTATTATATAAAAATA
*
236419 TAATTATTTATTATATAAATATA
1 TAATT-TTTATTATATAAAAATA
236442 TA
1 TA
236444 TTACAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 5 0.24
21 4 0.19
22 3 0.14
23 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TAATTTTTATTATATAAAAATA
Found at i:237768 original size:238 final size:239
Alignment explanation
Indices: 237349--238058 Score: 1314
Period size: 238 Copynumber: 3.0 Consensus size: 239
237339 AAAACCTTAT
* *
237349 TTATAAAGATTGGGGAGTCAATGGAAGAACTTTTATCGTGGGCAACGGCAATAGTCAGTCAAATG
1 TTATAAAGACTGGGGAGTCAATGGAAGAATTTTTATCGTGGGCAACGGCAATAGTCAGTCAAATG
*
237414 CTGTCTTATGTGTAGACACTTAATTTTATCTGGGCTCTTTTGTTAATAATCTTAAATATCAGAGA
66 CGGTCTTATGTGTAGACACTTAATTTTATCTGGGCTCTTTTGTTAATAATCTTAAATATCAGAGA
237479 ATAAGACTATAATGACCACTCTAATGGAGGTTGACTTTTATCAGAAGGATTTCACATTTTTGCAA
131 ATAAGACTATAATGACCACTCTAATGGAGGTTGACTTTTATCAGAAGGATTTCACATTTTTGCAA
237544 TATAATCAGTCATATGTGAATGGCTGTGCATGCTGTGCATGTGA
196 TATAATCAGTCATATGTGAATGGCTGTGCATGCTGTGCATGTGA
237588 TTATAAAGACTGGGGAGTCAATGGAAGAATTTTTATCGTGGGCAACGGCAAT-GTCAGTCAAATG
1 TTATAAAGACTGGGGAGTCAATGGAAGAATTTTTATCGTGGGCAACGGCAATAGTCAGTCAAATG
237652 CGGTCTTATGTGTAGACACTTAATTTTATCTGGGCTCTTTTGTTAATAATCTTAAATATCAGAGA
66 CGGTCTTATGTGTAGACACTTAATTTTATCTGGGCTCTTTTGTTAATAATCTTAAATATCAGAGA
*
237717 ATAAGACTATAATGGCCACTCTAATGGAGGTTGACTTTTATCAGAAGGATTTCACATTTTTGCAA
131 ATAAGACTATAATGACCACTCTAATGGAGGTTGACTTTTATCAGAAGGATTTCACATTTTTGCAA
* *
237782 TATAATCAGTCATATGTGAATAGTTGTGCATGCTGTGCATGTGA
196 TATAATCAGTCATATGTGAATGGCTGTGCATGCTGTGCATGTGA
*
237826 TTATAAAGACTGGGGAGTCAATGGAAGAATTTTTATCGTGGGCAATGGCAATAGTCAGTCAAATG
1 TTATAAAGACTGGGGAGTCAATGGAAGAATTTTTATCGTGGGCAACGGCAATAGTCAGTCAAATG
*
237891 CGGTTTTATGTGTAGACACTTAATTTTATCTGGGCTCTTTTGTTAATAATCTTAAATATCAGAGA
66 CGGTCTTATGTGTAGACACTTAATTTTATCTGGGCTCTTTTGTTAATAATCTTAAATATCAGAGA
*
237956 ATAAGACTATAATGACCACTCAAATGGAGGTTGACTTTTATCAGAAGGATTTCACATTTTTGCAA
131 ATAAGACTATAATGACCACTCTAATGGAGGTTGACTTTTATCAGAAGGATTTCACATTTTTGCAA
*
238021 TATAATCAGTCATATGTGAATGACTGTGCATGCATGTG
196 TATAATCAGTCATATGTGAATGGCTGTGCATGC-TGTG
238059 ATTAAAAAAA
Statistics
Matches: 456, Mismatches: 13, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
238 233 0.51
239 219 0.48
240 4 0.01
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.34
Consensus pattern (239 bp):
TTATAAAGACTGGGGAGTCAATGGAAGAATTTTTATCGTGGGCAACGGCAATAGTCAGTCAAATG
CGGTCTTATGTGTAGACACTTAATTTTATCTGGGCTCTTTTGTTAATAATCTTAAATATCAGAGA
ATAAGACTATAATGACCACTCTAATGGAGGTTGACTTTTATCAGAAGGATTTCACATTTTTGCAA
TATAATCAGTCATATGTGAATGGCTGTGCATGCTGTGCATGTGA
Found at i:238940 original size:166 final size:166
Alignment explanation
Indices: 238609--238991 Score: 406
Period size: 166 Copynumber: 2.3 Consensus size: 166
238599 TTCAAACATC
* ** *
238609 AAAATTCTTCAAATATTATCATTTAATTCACACCAAATTAGA-TTTAAAAAATTTATTTTATTTT
1 AAAATTATTCAAATATTATCATTTAA-TCACATTAAATTA-ATTTTGAAAAATTTATTTTATTTT
* * * **
238673 TTTGAGTTATTGATTTTCTTTTGGAATTCCTAATGTTTTCAAATTACGGGATTTTCTTCTCCGTA
64 TATGAGTTATTGATTTTCTTTTAGAATTCCTAATGTTTTCAAATTACGGGATTATCGACTCCGTA
* *
238738 GAATTTTTCGTGAGGATTTTCATGGGTTTAAAATTTTA
129 GAATTTTTCGTGAAGATTTTCATAGGTTTAAAATTTTA
* * * *
238776 AAAATTATTTAAATATTATCATTTAATCAACATTAAATCAATTTTGAAAATTTTCTTTTA-TTTT
1 AAAATTATTCAAATATTATCATTTAATC-ACATTAAATTAATTTTGAAAAATTTATTTTATTTTT
* *
238840 ATGAGTTATTGATTTTCTTTTAGAATTCTCCTTAT-TTTTGAAA-TAC-GGAGTTAT-GACTCCG
65 ATGAGTTATTGATTTTCTTTTAGAA-T-TCCTAATGTTTTCAAATTACGGGA-TTATCGACTCCG
* * *
238901 TA-AATGTTTTCG-GAAAGATTTTTCTTAGTTTTTAAATTTTA
127 TAGAAT-TTTTCGTG-AAGA-TTTTCATAGGTTTAAAATTTTA
* * *
238942 AAATTTA-TCAAATATTATCATTTGATTCACATTAAATTAGTTTTGAAAAA
1 AAAATTATTCAAATATTATCATTT-AATCACATTAAATTAATTTTGAAAAA
238992 GTCATTCACG
Statistics
Matches: 181, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
164 4 0.02
165 53 0.29
166 63 0.35
167 55 0.30
168 6 0.03
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.48
Consensus pattern (166 bp):
AAAATTATTCAAATATTATCATTTAATCACATTAAATTAATTTTGAAAAATTTATTTTATTTTTA
TGAGTTATTGATTTTCTTTTAGAATTCCTAATGTTTTCAAATTACGGGATTATCGACTCCGTAGA
ATTTTTCGTGAAGATTTTCATAGGTTTAAAATTTTA
Found at i:239108 original size:160 final size:162
Alignment explanation
Indices: 238874--239285 Score: 455
Period size: 166 Copynumber: 2.5 Consensus size: 162
238864 ATTCTCCTTA
* * * * ** * *
238874 TTTTTGAAATACGGAGTTAT-GACTCCGTAAATGTTTTCGGAAAGATTTTTCTTAGTTTTTAAA-
1 TTTTTGAAATAC-GAGTTTTCTACTCCATAAATGTTTTTGGAGGGATTTTTCTTAGATTTAAAAT
* *
238937 TTTTAAAATTTATCAAATATTATCATTTGATTCACATTAAATTAGTTTTGAAAAAGTCATTCA-C
65 TTTTAAAATTTATCAAATATTATCATTTGATTCAAATTAAATTAGGTTTGAAAAAGTCATTCATC
* *
239001 -GAGTTTTGAATTTTTTCCTTAAAATTTTTATG
130 AGAGTTTTAAATTTTTTCCTTAAAATTTTCATG
*
239033 TTTTTGAAATACGAAGTTTTCTACTCCATAAATGTTTTTAGG-GGGATTTTTCTT-GGTTTAAAA
1 TTTTTGAAATACG-AGTTTTCTACTCCATAAATGTTTTT-GGAGGGATTTTTCTTAGATTTAAAA
*
239096 TTTTTAAAATTTATCAAATATTATCATTTGATTCAAATTAAATTAGGTTTGAAAAATTCATTCAT
64 TTTTTAAAATTTATCAAATATTATCATTTGATTCAAATTAAATTAGGTTTGAAAAAGTCATTCA-
* * *
239161 TTTCATGAGTTTTAAATTTTTTCTTTGAAATTTTCCTG
128 --TCA-GAGTTTTAAATTTTTTCCTTAAAATTTTCATG
* * * * * *
239199 TTTCTAAAAAATCGATTTTTCTATTCCATAAATATTTTTGGAGGGATTTTT-TTCA-ATTTAAAA
1 TTTTTGAAATA-CGAGTTTTCTACTCCATAAATGTTTTTGGAGGGATTTTTCTT-AGATTTAAAA
*
239262 TTTTTAAAATTCAT-ATAATATTAT
64 TTTTTAAAATTTATCA-AATATTAT
239286 TATTAAACTC
Statistics
Matches: 214, Mismatches: 24, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
158 1 0.00
159 24 0.11
160 85 0.40
161 2 0.01
164 1 0.00
165 5 0.02
166 94 0.44
167 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (162 bp):
TTTTTGAAATACGAGTTTTCTACTCCATAAATGTTTTTGGAGGGATTTTTCTTAGATTTAAAATT
TTTAAAATTTATCAAATATTATCATTTGATTCAAATTAAATTAGGTTTGAAAAAGTCATTCATCA
GAGTTTTAAATTTTTTCCTTAAAATTTTCATG
Found at i:239617 original size:12 final size:12
Alignment explanation
Indices: 239600--239626 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
239590 CATAAATTGA
239600 TGAGTCATATGG
1 TGAGTCATATGG
239612 TGAGTCATATGG
1 TGAGTCATATGG
239624 TGA
1 TGA
239627 ATTAAATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.33
Consensus pattern (12 bp):
TGAGTCATATGG
Found at i:242561 original size:13 final size:13
Alignment explanation
Indices: 242543--242567 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
242533 CAATTCTTTA
242543 TGTATCGATACAT
1 TGTATCGATACAT
242556 TGTATCGATACA
1 TGTATCGATACA
242568 ATATGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:253162 original size:27 final size:27
Alignment explanation
Indices: 253132--253185 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
253122 TTTGGCAAAG
253132 GAAAAAAATATCCCGAAATATGAAAAT
1 GAAAAAAATATCCCGAAATATGAAAAT
*
253159 GAAAAAAATGTCCCGAAATATGAAAAT
1 GAAAAAAATATCCCGAAATATGAAAAT
253186 TTGCCTGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.11, G:0.13, T:0.19
Consensus pattern (27 bp):
GAAAAAAATATCCCGAAATATGAAAAT
Found at i:253555 original size:19 final size:19
Alignment explanation
Indices: 253531--253598 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
253521 AATTCAACAA
253531 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
253550 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
253565 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
253582 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
253599 TTAGCTACTA
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:253570 original size:13 final size:13
Alignment explanation
Indices: 253552--253576 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
253542 ACATAAGTTT
253552 TGTATCGATACAA
1 TGTATCGATACAA
253565 TGTATCGATACA
1 TGTATCGATACA
253577 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:253574 original size:32 final size:32
Alignment explanation
Indices: 253533--253595 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
253523 TTCAACAATT
*
253533 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
253565 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
253596 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:253656 original size:13 final size:13
Alignment explanation
Indices: 253638--253663 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
253628 CATTTTTCTG
253638 TGTATCGATACAT
1 TGTATCGATACAT
253651 TGTATCGATACAT
1 TGTATCGATACAT
253664 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:253660 original size:33 final size:33
Alignment explanation
Indices: 253618--253684 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
253608 ACCAAGGAAA
***
253618 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
253651 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
253684 T
1 T
253685 TGGAAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:256249 original size:52 final size:53
Alignment explanation
Indices: 256164--256333 Score: 190
Period size: 52 Copynumber: 3.3 Consensus size: 53
256154 CGTATTTCGA
* *
256164 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTTCCATAATC
1 GGGGATACTCCAACTCCGGTTTTATTTC-CAAAAACACCAATTTTTCCATAATC
* * *
256216 GGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATTTCCAAAAACACCAATTTTTCC-ATAATC
* * *
256268 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTCCAAAAACACCAATTTTTCCATAATC
*
256320 GAGGATACTCCAAC
1 GGGGATACTCCAAC
256334 CTCGTTATTT
Statistics
Matches: 100, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
51 9 0.09
52 73 0.73
53 13 0.13
54 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (53 bp):
GGGGATACTCCAACTCCGGTTTTATTTCCAAAAACACCAATTTTTCCATAATC
Found at i:256353 original size:28 final size:28
Alignment explanation
Indices: 256317--256393 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
256307 ATTTTTCACA
* * *
256317 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
256345 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
256373 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
256394 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:256460 original size:107 final size:107
Alignment explanation
Indices: 256268--256472 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 107
256258 TCCTTTAATC
* * *
256268 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
256333 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
256376 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
256440 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
256473 ATTTTTTTTC
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 3 0.04
107 58 0.71
108 21 0.26
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:256526 original size:78 final size:79
Alignment explanation
Indices: 256347--256548 Score: 230
Period size: 78 Copynumber: 2.6 Consensus size: 79
256337 GTTATTTCAT
* * * *
256347 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * *
256412 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
256426 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
256489 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* *
256504 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
256549 TGTTATTATC
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
77 8 0.08
78 55 0.53
79 41 0.39
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:262723 original size:36 final size:36
Alignment explanation
Indices: 262682--262784 Score: 84
Period size: 36 Copynumber: 3.2 Consensus size: 36
262672 CTTTTTTCTT
262682 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
* * * *
262718 TCAAAG---A-GC-AG--GAT-GCTTTTTCT--T-T
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
*
262743 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
262779 TCAAAG
1 TCAAAG
262785 AGCAGGACAC
Statistics
Matches: 47, Mismatches: 9, Indels: 22
0.60 0.12 0.28
Matches are distributed among these distances:
25 6 0.13
26 1 0.02
28 9 0.19
29 3 0.06
30 2 0.04
31 2 0.04
32 3 0.06
33 8 0.17
35 1 0.02
36 12 0.26
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (36 bp):
TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
Found at i:262827 original size:55 final size:55
Alignment explanation
Indices: 262682--263862 Score: 1435
Period size: 55 Copynumber: 20.9 Consensus size: 55
262672 CTTTTTTCTT
* * * *
262682 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTC
262743 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
*
262798 TCAAAGCCCACACAAGTTGGTGACATTTTCCAGTCCTCAAAGAGCAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
*
262853 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTT
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
262908 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * *
262963 TTAAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCCCCAAAGAGCAGGACACCTT
1 TCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAGCAGGACACCTC
** *
263018 TCAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTT
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
*
263073 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * *
263128 TCAAAGCCCACACAAGTTGGTGGCACCTTTT---GTCCCCAAAAAGCAGGACGCCTTC
1 TCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAGCAGGACACC-TC
* *
263183 TCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCACCT
1 T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA------CACCT
*
263248 T
55 C
*
263249 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * * * *
263304 TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAAGATACTTTTTCTTT
1 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC-----C-TC
*
263365 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* *
263420 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATACCTT
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* *
263475 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCTTCAAAGAGCAGGACACCTT
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * * *
263530 TTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGTAGGACGCCTTTTC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC---TC
* ** ** *
263588 TTTTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGTCCTCAAAGAGTGGGACGCCTTTTC
1 --TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC---TC
263647 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
1 --TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * *
263704 TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCTC
1 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTC
* * * * *
263759 TTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTAGGACGCCTT
1 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTC
** * ** * *
263814 TCAAAGCCCACACGTGTTTGTGGCATTTTTTACTCCTCAATGAGCAGGA
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
263863 TACACTTTAT
Statistics
Matches: 1003, Mismatches: 80, Indels: 80
0.86 0.07 0.07
Matches are distributed among these distances:
53 2 0.00
54 20 0.02
55 674 0.67
56 8 0.01
57 10 0.01
58 3 0.00
59 55 0.05
60 74 0.07
61 151 0.15
65 1 0.00
66 2 0.00
67 3 0.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (55 bp):
TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTC
Found at i:266873 original size:52 final size:51
Alignment explanation
Indices: 266798--266967 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
266788 TTATTTTCGA
*
266798 GGGGATACTCCAACTCCGATTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGATTTTATC-CTAAAACACCAATTTTTCCACAATC
* ** * **
266850 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GATTTTATCCT-AAAACACCAATTTTTCC-ACAATC
* *
266902 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGATTTTA--TCCTAAAACACCAATTTTTCCACAATC
*
266954 GAGGATACTCCAAC
1 GGGGATACTCCAAC
266968 CTCGTTATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
51 10 0.11
52 68 0.72
53 12 0.13
54 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGATTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:266951 original size:104 final size:103
Alignment explanation
Indices: 266631--266966 Score: 297
Period size: 104 Copynumber: 3.2 Consensus size: 103
266621 ATCAATTCTC
* * * * *
266631 CACAATCGAGGATATTCTAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
266695 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * * ** * * * ** **
266736 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTTCGA
1 CACAATCGAGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCC-TT-TAATC--
* *
266798 GGGGATACTCCAACTCCGATTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
* *
266842 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
266907 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
266947 CACAATCGAGGATACTCCAA
1 CACAATCGAGGATACTCCAA
266967 CCTCGTTATT
Statistics
Matches: 178, Mismatches: 37, Indels: 33
0.72 0.15 0.13
Matches are distributed among these distances:
103 6 0.03
104 45 0.25
105 32 0.18
106 21 0.12
107 41 0.23
108 4 0.02
109 29 0.16
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:266987 original size:28 final size:28
Alignment explanation
Indices: 266951--267027 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
266941 ATTTTTCACA
* * *
266951 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
266979 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
267007 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
267028 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:266996 original size:212 final size:212
Alignment explanation
Indices: 266629--267023 Score: 616
Period size: 212 Copynumber: 1.9 Consensus size: 212
266619 TTATCAATTC
* * *
266629 TCCACAATCGAGGATATTCTAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
266694 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* *
266759 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACTCCGATTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACTCCGATTTTATC
266824 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
266841 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
266905 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* *
266968 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAAC
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAAC
267024 CCCGGCTTTA
Statistics
Matches: 166, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.19
212 100 0.60
213 35 0.21
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACTCCGATTTTATC
GCTAAAACACTAATTTT
Found at i:267094 original size:107 final size:107
Alignment explanation
Indices: 266689--267106 Score: 305
Period size: 107 Copynumber: 3.9 Consensus size: 107
266679 TTCTATAATC
* * * * *
266689 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGAGGATACTCC
* * * *
266754 AACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGA
64 AACCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
* * * * * * *
266798 GGGGATACTCCAACTCCGA-TTT-TATCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTC-CAAAAATACCAATTTCT-CACAATCGAGGATACTCC
* * * ***** * * ** * *
266861 AATCCTGGT-TTTATTTTCAAAACGCCAATTTTCCTTTA-AT-C--
64 AACCCCGTTATTTATCGGGGATACTCCAA--CCCCGTTACTTCCGA
* * *
266902 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
266967 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
267010 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
267074 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
267107 ATTTTTTTTC
Statistics
Matches: 241, Mismatches: 54, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
104 46 0.19
105 24 0.10
106 25 0.10
107 98 0.41
108 30 0.12
109 18 0.07
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:267160 original size:78 final size:79
Alignment explanation
Indices: 266981--267182 Score: 230
Period size: 78 Copynumber: 2.6 Consensus size: 79
266971 GTTATTTCAT
* * * *
266981 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
* * *
267046 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * ** *
267060 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCC-GATTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAAT-A
267123 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* *
267138 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
267183 TGTTATTATC
Statistics
Matches: 104, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
77 8 0.08
78 55 0.53
79 41 0.39
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:268919 original size:52 final size:51
Alignment explanation
Indices: 268841--269830 Score: 809
Period size: 49 Copynumber: 19.8 Consensus size: 51
268831 AAAAGAATGT
* * ** * *
268841 CAATGTGCTGATTCACGGTCAGCGACATTAAACTTGAAGATGAGAAGCATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAG-GTGC
* * * ** * *
268893 CAATGTGCTGATTCAAGGCCAACGACATTGG-GTTAAGGAATGTTACGGATGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGAGAAGG-TGC
* * * ****
268945 CAATAT-CTCGATTCAAGGCCAGTGATATTGGACTTAAAGATGATGAAGACAT
1 CAATGTGCT-GATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* *
268997 CGATGTGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGA-AA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * *
269046 TAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAAAAAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG-AGAAGGTGC
* * * ** *
269098 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGACGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* * * * *
269150 CGATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGAT--GAAGGTAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* ** *
269199 TAATGTGCTGATTCAAGGCCAGTAACATTGGACTTAAAGGTGA-AA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * * *
269248 CAATGTGCTAATTCAAGGCCAACAACATTGGACTTAAAGGT-A-AAGGTGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * ***
269297 CAATGTGCTGATTCAAGGCCAGC-AGCATTGGACTTAGAGATGACAAAGACAC
1 CAATGTGCTGATTCAAGGCCAGCGA-CATTGGACTTAAAGATGA-GAAGGTGC
* * * *
269349 CGATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT--GAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* ** * *
269398 TAATGTGCTGATTCAAGGCCAGTAACATTAGACTTAAAG--GTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * * * *
269447 TAATGTGCTGATTCAAGGTCAGCAACATTGGACTTAAAGATGACAAAGGCGT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* * * * **
269499 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGGATGACAAAGACGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-GAAGGTGC
* * *
269551 CGATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--GAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * ** *
269600 TAATGTGGTGATTCAAGGCCAGTAACATTGGACTTAAAG--GTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * * * *
269649 CAATGTGCTGATTTAAGGCCAACAACATTAGACTTGAAGGTGA-AA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* * * *
269698 CAATGTGCTGATTCAAGGCCAGCAATATTGAACTTAAAG--GTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* *
269747 CGATGTGCTGATTCAAGGCCAGCAACATTGGAC-T-----T-A-AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
* *
269790 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
269831 AGATGCCACC
Statistics
Matches: 761, Mismatches: 140, Indels: 76
0.78 0.14 0.08
Matches are distributed among these distances:
43 36 0.05
44 1 0.00
47 1 0.00
48 7 0.01
49 379 0.50
50 8 0.01
51 11 0.01
52 308 0.40
53 10 0.01
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.24
Consensus pattern (51 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGAAGGTGC
Found at i:269264 original size:202 final size:200
Alignment explanation
Indices: 268954--269785 Score: 1147
Period size: 202 Copynumber: 4.2 Consensus size: 200
268944 ACAATATCTC
* * *
268954 GATTCAAGGCCAGTGATATTGGACTTAAAGATGATGAAG-ACATCGATGTGCTGATTCAAGGCCA
1 GATTCAAGGCCAGCGATATTGGACTTAAAGATGA--AGGTAC-T-AATGTGCTGATTCAAGGCCA
** * * * *
269018 GCGATATTGGACTTAAAGATGAAAGTGCTAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAA
62 GTAACATTGGACTTAAAGGTGAAAGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAA
269083 AGATGAAAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGAC
127 AGATG--AAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGAC
*
269148 GTCGATATGCT
190 GCCGATATGCT
*
269159 GATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTACTAATGTGCTGATTCAAGGCCAGTAA
1 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTACTAATGTGCTGATTCAAGGCCAGTAA
* *
269224 CATTGGACTTAAAGGTGAAAGTGCCAATGTGCTAATTCAAGGCCAACAACATTGGACTTAAAGGT
66 CATTGGACTTAAAGGTGAAAGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGAT
* * * *
269289 -AAAGGTGTCAATGTGCTGATTCAAGGCCAGC-AGCATTGGACTTAGAGATGACAAAGACACCGA
131 GAAAGGTGTCAATATGCTGATTCAAGGCCAGCGA-TATTGGACTTAAAGATGACAAAGACGCCGA
269352 TATGCT
195 TATGCT
* *
269358 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCTAATGTGCTGATTCAAGGCCAGTAA
1 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTACTAATGTGCTGATTCAAGGCCAGTAA
* * * * *
269423 CATTAGACTTAAAGGTGAAGGTGCTAATGTGCTGATTCAAGGTCAGCAACATTGGACTTAAAGAT
66 CATTGGACTTAAAGGTGAAAGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGAT
* *
269488 GACAAAGGCGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGGATGACAAAGACGCCG
131 G--AAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGACGCCG
269553 ATATGCT
194 ATATGCT
* *
269560 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGGTGATTCAAGGCCAGTAA
1 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTACTAATGTGCTGATTCAAGGCCAGTAA
* * * * *
269625 CATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTTAAGGCCAACAACATTAGACTTGAAGGT
66 CATTGGACTTAAAGGTGAAAGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGAT
* * * * * **
269690 GAAA-GTGCCAATGTGCTGATTCAAGGCCAGCAATATTGAACTTAAAGGTG---AAGGTGCCGAT
131 GAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGACGCCGAT
*
269751 GTGCT
196 ATGCT
* *
269756 GATTCAAGGCCAGCAACATTGGACTTAAAG
1 GATTCAAGGCCAGCGATATTGGACTTAAAG
269786 GTGCCAATAT
Statistics
Matches: 566, Mismatches: 55, Indels: 21
0.88 0.09 0.03
Matches are distributed among these distances:
196 41 0.07
198 1 0.00
199 221 0.39
200 3 0.01
202 262 0.46
203 4 0.01
204 2 0.00
205 32 0.06
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (200 bp):
GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTACTAATGTGCTGATTCAAGGCCAGTAA
CATTGGACTTAAAGGTGAAAGTGCCAATGTGCTGATTCAAGGCCAACAACATTGGACTTAAAGAT
GAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGACGCCGAT
ATGCT
Found at i:269639 original size:401 final size:404
Alignment explanation
Indices: 268954--269721 Score: 1265
Period size: 401 Copynumber: 1.9 Consensus size: 404
268944 ACAATATCTC
** * *
268954 GATTCAAGGCCAGTGATATTGGACTTAAAGATGATGAAGACATCGATGTGCTGATTCAAGGCCAG
1 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGAAGACATCAATGTGCTGATTCAAGGCCAG
* * *
269019 CGATATTGGACTTAAAGATGAAAGTGCTAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAA
66 CAACATTAGACTTAAAGATGAAAGTGCTAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAA
*
269084 GATGAAAAAGGTGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGACG
131 GATGAAAAAGGCGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGACG
*
269149 TCGATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTACTAATGTGCTGATTCA
196 CCGATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTACTAATGTGCTGATTCA
*
269214 AGGCCAGTAACATTGGACTTAAAGGTGAAAGTGCCAATGTGCTAATTCAAGGCCAACAACATTGG
261 AGGCCAGTAACATTGGACTTAAAGGTGAAAGTGCCAATGTGCTAATTCAAGGCCAACAACATTAG
*
269279 ACTTAAAGGT-AAAGGTGTCAATGTGCTGATTCAAGGCCAGCAGCATTGGACTTAGAGATGACAA
326 ACTTAAAGGTGAAA-GTGCCAATGTGCTGATTCAAGGCCAGCAGCATTGGACTTAGAGATGACAA
269343 AGACACCGATATGCT
390 AGACACCGATATGCT
**
269358 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTG-C-T-AATGTGCTGATTCAAGGCCAG
1 GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGAAGACATCAATGTGCTGATTCAAGGCCAG
* * * *
269420 TAACATTAGACTTAAAGGTGAAGGTGCTAATGTGCTGATTCAAGGTCAGCAACATTGGACTTAAA
66 CAACATTAGACTTAAAGATGAAAGTGCTAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAA
* *
269485 GATGACAAAGGCGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGGATGACAAAGACG
131 GATGAAAAAGGCGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGACG
* * *
269550 CCGATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGGTGATTCA
196 CCGATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTACTAATGTGCTGATTCA
* * *
269615 AGGCCAGTAACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTTAAGGCCAACAACATTAG
261 AGGCCAGTAACATTGGACTTAAAGGTGAAAGTGCCAATGTGCTAATTCAAGGCCAACAACATTAG
*
269680 ACTTGAAGGTGAAAGTGCCAATGTGCTGATTCAAGGCCAGCA
326 ACTTAAAGGTGAAAGTGCCAATGTGCTGATTCAAGGCCAGCA
269722 ATATTGAACT
Statistics
Matches: 337, Mismatches: 26, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
401 298 0.88
402 4 0.01
403 1 0.00
404 34 0.10
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (404 bp):
GATTCAAGGCCAACGATATTGGACTTAAAGATGAAGAAGACATCAATGTGCTGATTCAAGGCCAG
CAACATTAGACTTAAAGATGAAAGTGCTAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAA
GATGAAAAAGGCGTCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGACG
CCGATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAGATGAAGGTACTAATGTGCTGATTCA
AGGCCAGTAACATTGGACTTAAAGGTGAAAGTGCCAATGTGCTAATTCAAGGCCAACAACATTAG
ACTTAAAGGTGAAAGTGCCAATGTGCTGATTCAAGGCCAGCAGCATTGGACTTAGAGATGACAAA
GACACCGATATGCT
Found at i:269827 original size:147 final size:147
Alignment explanation
Indices: 268945--269832 Score: 561
Period size: 150 Copynumber: 5.9 Consensus size: 147
268935 TTACGGATGA
** * * ** *
268945 CAATAT-CTCGATTCAAGGCCAGTGATATTGGACTTAAAGATGATGAAGACATCGATGTGCTGAT
1 CAATATGCT-GATTCAAGGCCAGCAATATTGAACTTAAAGATGAAGGTG-C--CAATGTGCTGAT
* * * * * * *
269009 TCAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCTAATGTGCTGATTCAAGGCCAGCAACAT
62 TCAAGGCCAGCAACATTGGACTT--A-A-GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
* * * ** *
269074 TGGACTTAAAG-ATGAAAAAGGTGT
123 TGGACTTAGAGAAGGACAAAGACGC
* * ** * * *
269098 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGACGTCGATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCAATATTGAACTTAAAGATG---AAGGTGCCAATGTGCTGATT
* * * * * * ** *
269163 CAAGGCCAGCGATATTAGACTTAAAGATGAAGGTACTAATGTGCTGATTCAAGGCCAGTAACATT
63 CAAGGCCAGCAACATTGGACTT--A-A-GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
** *
269228 GGACTT--A-AAGGTGAAAG-TGC
124 GGACTTAGAGAAGGACAAAGACGC
* * * * * * * *
269248 CAATGTGCTAATTCAAGGCCAACAACATTGGACTTAAAGGTAAAGGTGTCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCAATATTGAACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* *** * *
269313 GGCCAGCAGCATTGGACTTAGAGATGACAAAGACACCGATATGCTGATTCAAGGCCAACGATATT
66 GGCCAGCAACATTGGACTT--A-A-G---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
** **
269378 GGACTT--A-AA-GATGAAGGTGC
124 GGACTTAGAGAAGGACAAAGACGC
* * * * * *
269398 TAATGTGCTGATTCAAGGCCAGTAACATT-AGACTTAAAGGTGAAGGTGCTAATGTGCTGATTCA
1 CAATATGCTGATTCAAGGCCAGCAATATTGA-ACTTAAAGATGAAGGTGCCAATGTGCTGATTCA
* * *
269462 AGGTCAGCAACATTGGACTTAAAGATGACAAAGGCGTCAATATGCTGATTCAAGGCCAGCGATAT
65 AGGCCAGCAACATTGGACTT--A-A-G---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATAT
* *
269527 TGGACTTA-AGGATGACAAAGACGC
123 TGGACTTAGAGAAGGACAAAGACGC
* * * * *
269551 CGATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCTAATGTGGTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCAATATTGAACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * * * * *
269616 GGCCAGTAACATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGATTTAAGGCCAACAACATTAGA
66 GGCCAGCAACATTGGACTT-AA---GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
** *
269681 CTT---GAAGGTGAAAG-TGC
127 CTTAGAGAAGGACAAAGACGC
* * *
269698 CAATGTGCTGATTCAAGGCCAGCAATATTGAACTTAAAGGTGAAGGTGCCGATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCAATATTGAACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
269763 GGCCAGCAACATTGGACTT-A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
66 GGCCAGCAACATTGGACTTAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
269826 GAAGAAG
131 G-AGAAG
269833 ATGCCACCAA
Statistics
Matches: 614, Mismatches: 101, Indels: 48
0.80 0.13 0.06
Matches are distributed among these distances:
141 36 0.06
145 5 0.01
147 117 0.19
148 7 0.01
149 4 0.01
150 229 0.37
151 9 0.01
152 3 0.00
153 198 0.32
154 2 0.00
156 4 0.01
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.24
Consensus pattern (147 bp):
CAATATGCTGATTCAAGGCCAGCAATATTGAACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCAACATTGGACTTAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
GAGAAGGACAAAGACGC
Found at i:269906 original size:28 final size:26
Alignment explanation
Indices: 269847--270057 Score: 203
Period size: 27 Copynumber: 7.6 Consensus size: 26
269837 CACCAACTTG
*
269847 TGTGGGCTTTTGAAAGGGTTG-CACCAGCT
1 TGTGGGC-TTTG-AA-GGTTGCCACTA-CT
*
269876 TGTGTGCTTTTGAAGGTTGCCACTACCT
1 TGTGGGC-TTTGAAGGTTGCCACTA-CT
*
269904 TGTGGGCTTCGAAGGTTGCCACTAACT
1 TGTGGGCTTTGAAGGTTGCCACT-ACT
269931 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG--AAGGTTGCCACT-ACT
* *
269959 TGTGGGCTTTGGAGGTTGCCACTAAAT
1 TGTGGGCTTTGAAGGTTGCCACT-ACT
269986 TGTGGGCTTTGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG--AAGGTTGCCACT-ACT
*
270014 TGTGGGCTTTGGAGGTTGCCACTGACT
1 TGTGGGCTTTGAAGGTTGCCACT-ACT
270041 TGTGGGCTTTAGAAGGT
1 TGTGGGCTTT-GAAGGT
270058 GAGGAATGTC
Statistics
Matches: 158, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.04
27 73 0.46
28 61 0.39
29 18 0.11
ACGTcount: A:0.18, C:0.18, G:0.33, T:0.32
Consensus pattern (26 bp):
TGTGGGCTTTGAAGGTTGCCACTACT
Found at i:269917 original size:27 final size:27
Alignment explanation
Indices: 269874--270057 Score: 221
Period size: 27 Copynumber: 6.7 Consensus size: 27
269864 GTTGCACCAG
*
269874 CTTGTGTGCTTTTGAAGGTTGCCACT-A
1 CTTGTGGGC-TTTGAAGGTTGCCACTGA
* *
269901 CCTTGTGGGCTTCGAAGGTTGCCACTAA
1 -CTTGTGGGCTTTGAAGGTTGCCACTGA
269929 CTTGTGGGCTTTGAAAAGG-TGCCACTGA
1 CTTGTGGGCTTTG--AAGGTTGCCACTGA
* *
269957 CTTGTGGGCTTTGGAGGTTGCCACTAA
1 CTTGTGGGCTTTGAAGGTTGCCACTGA
*
269984 ATTGTGGGCTTTGAAAAGG-TGCCACTGA
1 CTTGTGGGCTTTG--AAGGTTGCCACTGA
*
270012 CTTGTGGGCTTTGGAGGTTGCCACTGA
1 CTTGTGGGCTTTGAAGGTTGCCACTGA
270039 CTTGTGGGCTTTAGAAGGT
1 CTTGTGGGCTTT-GAAGGT
270058 GAGGAATGTC
Statistics
Matches: 136, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.04
27 68 0.50
28 55 0.40
29 7 0.05
ACGTcount: A:0.17, C:0.18, G:0.32, T:0.33
Consensus pattern (27 bp):
CTTGTGGGCTTTGAAGGTTGCCACTGA
Found at i:269952 original size:55 final size:55
Alignment explanation
Indices: 269888--270058 Score: 265
Period size: 55 Copynumber: 3.1 Consensus size: 55
269878 TGTGCTTTTG
* *
269888 AAGGTTGCCACT-ACCTTGTGGGCTTCGAAGGTTGCCACTAACTTGTGGGCTTTGAA
1 AAGG-TGCCACTGA-CTTGTGGGCTTTGGAGGTTGCCACTAACTTGTGGGCTTTGAA
*
269944 AAGGTGCCACTGACTTGTGGGCTTTGGAGGTTGCCACTAAATTGTGGGCTTTGAA
1 AAGGTGCCACTGACTTGTGGGCTTTGGAGGTTGCCACTAACTTGTGGGCTTTGAA
* *
269999 AAGGTGCCACTGACTTGTGGGCTTTGGAGGTTGCCACTGACTTGTGGGCTTT-AG
1 AAGGTGCCACTGACTTGTGGGCTTTGGAGGTTGCCACTAACTTGTGGGCTTTGAA
270053 AAGGTG
1 AAGGTG
270059 AGGAATGTCT
Statistics
Matches: 108, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
54 7 0.06
55 96 0.89
56 5 0.05
ACGTcount: A:0.19, C:0.18, G:0.33, T:0.30
Consensus pattern (55 bp):
AAGGTGCCACTGACTTGTGGGCTTTGGAGGTTGCCACTAACTTGTGGGCTTTGAA
Found at i:285421 original size:21 final size:20
Alignment explanation
Indices: 285397--285435 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
285387 ATTGGGACCT
*
285397 TGTATCGATACATTCTAGAAA
1 TGTATCAATACATT-TAGAAA
285418 TGTATCAATACATTTAGA
1 TGTATCAATACATTTAGA
285436 TAAAAATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTATCAATACATTTAGAAA
Found at i:287005 original size:13 final size:13
Alignment explanation
Indices: 286987--287011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
286977 CATTTCTTCA
286987 TGTATCGATACAT
1 TGTATCGATACAT
287000 TGTATCGATACA
1 TGTATCGATACA
287012 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:287115 original size:19 final size:18
Alignment explanation
Indices: 287055--287116 Score: 81
Period size: 19 Copynumber: 3.3 Consensus size: 18
287045 TAGCTACTGC
*
287055 CAATTTCATGTATCGATA
1 CAATGTCATGTATCGATA
287073 CAATTGTGCATGTAT-GATA
1 CAA-TGT-CATGTATCGATA
287092 CAATGATCATGTATCGATA
1 CAATG-TCATGTATCGATA
287111 CAATGT
1 CAATGT
287117 ATCGATACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 13 0.33
19 19 0.49
20 7 0.18
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (18 bp):
CAATGTCATGTATCGATA
Found at i:287118 original size:13 final size:13
Alignment explanation
Indices: 287100--287126 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
287090 TACAATGATC
287100 ATGTATCGATACA
1 ATGTATCGATACA
287113 ATGTATCGATACA
1 ATGTATCGATACA
287126 A
1 A
287127 GCATAATGTA
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:287125 original size:32 final size:31
Alignment explanation
Indices: 287082--287144 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
287072 ACAATTGTGC
*
287082 ATGTATGATACAATG-ATCATGTATCGATACA
1 ATGTATGATACAA-GCATAATGTATCGATACA
287113 ATGTATCGATACAAGCATAATGTATCGATACA
1 ATGTAT-GATACAAGCATAATGTATCGATACA
287145 TCTGGATGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 7 0.24
32 22 0.76
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (31 bp):
ATGTATGATACAAGCATAATGTATCGATACA
Found at i:294732 original size:20 final size:21
Alignment explanation
Indices: 294701--294755 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
294691 TCAAAAACTC
* *
294701 AGAATTTATCGATACTTTG-A
1 AGAATGTATCGATACATTGCA
*
294721 ATAATGTATCGATACATTGCA
1 AGAATGTATCGATACATTGCA
*
294742 AGCATGTATCGATA
1 AGAATGTATCGATA
294756 GATTCACTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (21 bp):
AGAATGTATCGATACATTGCA
Found at i:301439 original size:2 final size:2
Alignment explanation
Indices: 301432--301460 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
301422 TAAACTACCC
301432 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
301461 GCTACTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:303185 original size:20 final size:21
Alignment explanation
Indices: 303159--303214 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
303149 TATAAACAGT
*
303159 AAATGTATCGATACATAAGTG
1 AAATGTATCGATACATAACTG
* **
303180 -AATGTATAGATACATTTCTG
1 AAATGTATCGATACATAACTG
303200 AAATGTATCGATACA
1 AAATGTATCGATACA
303215 AGACCATGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (21 bp):
AAATGTATCGATACATAACTG
Found at i:303284 original size:20 final size:20
Alignment explanation
Indices: 303256--303303 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
303246 AAAGAAAATG
*
303256 TATCAATATATTTTTCATTA
1 TATCGATATATTTTTCATTA
* *
303276 TATCGATATATTTTTTATTG
1 TATCGATATATTTTTCATTA
303296 TATCGATA
1 TATCGATA
303304 CATTCTGGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.54
Consensus pattern (20 bp):
TATCGATATATTTTTCATTA
Found at i:309951 original size:20 final size:20
Alignment explanation
Indices: 309926--310003 Score: 86
Period size: 20 Copynumber: 3.8 Consensus size: 20
309916 AAAAACACAG
309926 AATGTATCGATACAATGAGA
1 AATGTATCGATACAATGAGA
309946 AATGTATCGATACAATTGTA-A
1 AATGTATCGATACAA-TG-AGA
* * * *
309967 GCATGTATCGATACATTTAGT
1 -AATGTATCGATACAATGAGA
309988 AATGTATCGATACAAT
1 AATGTATCGATACAAT
310004 TTCTTGGCAG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 30 0.62
21 4 0.08
22 14 0.29
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACAATGAGA
Found at i:311210 original size:26 final size:26
Alignment explanation
Indices: 311158--311210 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
311148 AAACTGTTTT
**
311158 TAAAAATCACAAAATGATATTTTGTG
1 TAAAAATCACAAAATGATATTCCGTG
311184 TAAAAATCACAAAATGATATTCCGTG
1 TAAAAATCACAAAATGATATTCCGTG
311210 T
1 T
311211 CGTTATCTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.32
Consensus pattern (26 bp):
TAAAAATCACAAAATGATATTCCGTG
Found at i:319092 original size:55 final size:54
Alignment explanation
Indices: 318969--319092 Score: 119
Period size: 55 Copynumber: 2.2 Consensus size: 54
318959 TAAATTATTA
* * * *
318969 AAATATAAAAATTTATATAAATTTATAATACTTTTAACATATCAAAATTAAAAATT
1 AAATATAAACATGTA-A-AAATTTATAATACTTTTAAAACATCAAAATTAAAAATT
*
319025 AAATTATTAACATGTAAAAATTTATAATA-TTTTAAAACA-CAAAAATAATAAAAATCT
1 AAA-TATAAACATGTAAAAATTTATAATACTTTTAAAACATC-AAAAT--TAAAAAT-T
319082 AAA-ATAAACAT
1 AAATATAAACAT
319093 ACAAAATTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
53 1 0.02
54 13 0.23
55 19 0.33
56 11 0.19
57 13 0.23
ACGTcount: A:0.58, C:0.06, G:0.01, T:0.35
Consensus pattern (54 bp):
AAATATAAACATGTAAAAATTTATAATACTTTTAAAACATCAAAATTAAAAATT
Found at i:319386 original size:20 final size:19
Alignment explanation
Indices: 319342--319389 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
319332 AAAAAATTAG
319342 ATTTA-ATATGAGTTATAT
1 ATTTATATATGAGTTATAT
* * *
319360 ATATATATATGTATTTATTT
1 ATTTATATATG-AGTTATAT
319380 ATTTATATAT
1 ATTTATATAT
319390 ACTTTTGCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 4 0.17
19 5 0.21
20 15 0.62
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
ATTTATATATGAGTTATAT
Found at i:319931 original size:43 final size:43
Alignment explanation
Indices: 319868--319950 Score: 148
Period size: 43 Copynumber: 1.9 Consensus size: 43
319858 ACAAGATTAA
*
319868 TAAAATGTGTGGTGTGGAATACTGGGATAGTACTTGTTTTTTC
1 TAAAATGTGTGGTGTGGAATACTGAGATAGTACTTGTTTTTTC
*
319911 TAAAATGTGTGGTGTTGAATACTGAGATAGTACTTGTTTT
1 TAAAATGTGTGGTGTGGAATACTGAGATAGTACTTGTTTT
319951 AGCCGACAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.25, C:0.06, G:0.27, T:0.42
Consensus pattern (43 bp):
TAAAATGTGTGGTGTGGAATACTGAGATAGTACTTGTTTTTTC
Found at i:322274 original size:27 final size:28
Alignment explanation
Indices: 322228--322286 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
322218 ATAAATATTT
* *
322228 AATAATTTTAAATTTTAAA-TATTAAATA
1 AATAATTTTAAATATAAAATTATTAAA-A
322256 AATAA-TTTAAATATAAAATTATTAAAA
1 AATAATTTTAAATATAAAATTATTAAAA
322283 AATA
1 AATA
322287 TAATAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (28 bp):
AATAATTTTAAATATAAAATTATTAAAA
Found at i:322313 original size:23 final size:22
Alignment explanation
Indices: 322273--322360 Score: 60
Period size: 21 Copynumber: 4.0 Consensus size: 22
322263 TAAATATAAA
322273 ATTATTAAAAAATATAATAAATT
1 ATTATTAAAAAATATAAT-AATT
*
322296 ATTATTAATTAAAT-TAATAATT
1 ATTATTAA-AAAATATAATAATT
* * *
322318 -TTATTTGATAAATAT-AT-TTT
1 ATTA-TTAAAAAATATAATAATT
*
322338 ATTTTTAAAAAATTATAA-AATT
1 ATTATTAAAAAA-TATAATAATT
322360 A
1 A
322361 AAATTAATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
20 8 0.16
21 15 0.29
22 12 0.24
23 12 0.24
24 4 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (22 bp):
ATTATTAAAAAATATAATAATT
Found at i:322369 original size:10 final size:11
Alignment explanation
Indices: 322355--322386 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
322345 AAAAATTATA
322355 AAATTAAAATT
1 AAATTAAAATT
322366 -AATTAAAATT
1 AAATTAAAATT
322376 AAATTAAAATT
1 AAATTAAAATT
322387 TTATATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATTAAAATT
Found at i:322372 original size:16 final size:15
Alignment explanation
Indices: 322353--322382 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
322343 TAAAAAATTA
322353 TAAAATTAAAATTAAT
1 TAAAATT-AAATTAAT
322369 TAAAATTAAATTAA
1 TAAAATTAAATTAA
322383 AATTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAAATTAAATTAAT
Found at i:325275 original size:16 final size:16
Alignment explanation
Indices: 325254--325298 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
325244 TCACGTCATC
* *
325254 AAAAATTTAAAATTTA
1 AAAAATATAAAAATTA
325270 AAAAATATAAAAATTA
1 AAAAATATAAAAATTA
*
325286 AAAACTATAAAAA
1 AAAAATATAAAAA
325299 AAATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAAATATAAAAATTA
Found at i:325333 original size:34 final size:34
Alignment explanation
Indices: 325272--325356 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
325262 AAAATTTAAA
325272 AAATATAAAAATTAAAAACTATAAAAAAAATTTT
1 AAATATAAAAATTAAAAACTATAAAAAAAATTTT
* * *
325306 AAAT-TAAAAATTCAAAAAGT-TATAAAAATATTTA
1 AAATATAAAAATT-AAAAACTATA-AAAAAAATTTT
*
325340 AAAAAT-AAAATTAAAAA
1 AAATATAAAAATTAAAAA
325357 GATAAGAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
33 15 0.34
34 28 0.64
35 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.28
Consensus pattern (34 bp):
AAATATAAAAATTAAAAACTATAAAAAAAATTTT
Found at i:325343 original size:43 final size:43
Alignment explanation
Indices: 325254--325356 Score: 101
Period size: 43 Copynumber: 2.5 Consensus size: 43
325244 TCACGTCATC
*
325254 AAAAATTTAAAATTTAAAAAATATAAAAATTAAAAACTATAAA
1 AAAAATTTAAAATTTAAAAAATATAAAAATTAAAAAATATAAA
* **
325297 AAAAATTTTAAA-TT-AAAAAT-TCAAAAAGTTATAAAAATATTTA
1 AAAAATTTAAAATTTAAAAAATAT-AAAAA-TTA-AAAAATATAAA
325340 AAAAA--TAAAA-TTAAAAA
1 AAAAATTTAAAATTTAAAAA
325357 GATAAGAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
40 1 0.02
41 17 0.33
42 9 0.18
43 24 0.47
ACGTcount: A:0.68, C:0.02, G:0.01, T:0.29
Consensus pattern (43 bp):
AAAAATTTAAAATTTAAAAAATATAAAAATTAAAAAATATAAA
Found at i:325461 original size:82 final size:81
Alignment explanation
Indices: 325306--325477 Score: 208
Period size: 82 Copynumber: 2.1 Consensus size: 81
325296 AAAAAATTTT
*
325306 AAATTAAAAATTCAAAAAGTTATAAAAATATTTAAAAAATAAAATTAAAAAGATAAGAATAACTT
1 AAATTAAAAATTCAAAAAGTTATAAAAATATATAAAAAATAAAATTAAAAAGATAAGAATAACTT
*
325371 TTTAAAAATATTTAAA
66 TTAAAAAATATTTAAA
** * *
325387 AAATTAAACAATTCAAAAAGTTATTTAAATATAT-AAAATTAAAATTTTAAAAA-ATAAGAA-AC
1 AAATTAAA-AATTCAAAAAGTTATAAAAATATATAAAAAATAAAA--TTAAAAAGATAAGAATAA
* *
325449 CTTTTAAGAAA-ATTCAAA
63 CTTTTAAAAAATATTTAAA
*
325467 AAAATAAAAAT
1 AAATTAAAAAT
325478 ATGAACAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
79 3 0.04
80 13 0.16
81 27 0.34
82 29 0.37
83 7 0.09
ACGTcount: A:0.62, C:0.04, G:0.03, T:0.30
Consensus pattern (81 bp):
AAATTAAAAATTCAAAAAGTTATAAAAATATATAAAAAATAAAATTAAAAAGATAAGAATAACTT
TTAAAAAATATTTAAA
Found at i:325932 original size:22 final size:20
Alignment explanation
Indices: 325878--325915 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
325868 ACTGCCAAGA
325878 AAATGTATCGATACATACGT
1 AAATGTATCGATACATACGT
325898 AAATGTATCGATACATAC
1 AAATGTATCGATACATAC
325916 TTATAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (20 bp):
AAATGTATCGATACATACGT
Found at i:327100 original size:21 final size:20
Alignment explanation
Indices: 327072--327110 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
327062 CGTATTTTTA
327072 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
327092 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
327111 AGGTCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:328143 original size:21 final size:20
Alignment explanation
Indices: 328112--328157 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
328102 GTTAACATCC
*
328112 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
*
328132 CTATGTTTCATGCATTTTTAG
1 C-ATGTTTCATGCATTTTGAG
328153 CATGT
1 CATGT
328158 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.22, C:0.15, G:0.17, T:0.46
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:331019 original size:31 final size:32
Alignment explanation
Indices: 330963--331032 Score: 106
Period size: 31 Copynumber: 2.2 Consensus size: 32
330953 TTCAACGATT
*
330963 TGTATCGATACATAAATGTTGTATCGATATAA
1 TGTATCGATACATAAATGTTGTATCGATACAA
* *
330995 TGTATTGATACATAAGT-TTGTATCGATACAA
1 TGTATCGATACATAAATGTTGTATCGATACAA
331026 TGTATCG
1 TGTATCG
331033 CTACGAAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 19 0.56
32 15 0.44
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATAAATGTTGTATCGATACAA
Found at i:331095 original size:13 final size:13
Alignment explanation
Indices: 331077--331101 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
331067 ATTACTTAAA
331077 TGTATCGATACAT
1 TGTATCGATACAT
331090 TGTATCGATACA
1 TGTATCGATACA
331102 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:331154 original size:52 final size:52
Alignment explanation
Indices: 331110--331238 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
331100 CACTGATCTT
331110 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
* * * *
331162 TGTATCGATACATACAGGTAAATTTGTCCAGATATATCGATACACTATGAAA
1 TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
331214 TGTATCAATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGTAAATTT
331239 TTATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGTAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:331898 original size:1 final size:1
Alignment explanation
Indices: 331892--331961 Score: 59
Period size: 1 Copynumber: 70.0 Consensus size: 1
331882 CCTTCTCTTC
** * * * * * * *
331892 AAAAAAAAAGCAAAAAAAAAACAAAAAAAAACAAAACAAAGAAAAAGAGAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
331957 AAAAA
1 AAAAA
331962 TCTGCTTAAG
Statistics
Matches: 52, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.87, C:0.06, G:0.07, T:0.00
Consensus pattern (1 bp):
A
Found at i:331961 original size:11 final size:11
Alignment explanation
Indices: 331892--331961 Score: 68
Period size: 12 Copynumber: 5.8 Consensus size: 11
331882 CCTTCTCTTC
331892 AAAAAAAAAGCA
1 AAAAAAAAAG-A
*
331904 AAAAAAAAACAA
1 AAAAAAAAA-GA
*
331916 AAAAAAACAAAA
1 AAAAAAA-AAGA
331928 CAAAGAAAAAGAGA
1 -AAA-AAAAA-AGA
331942 AAAAAAAAAGA
1 AAAAAAAAAGA
331953 AAAAAAAAA
1 AAAAAAAAA
331962 TCTGCTTAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
11 12 0.24
12 24 0.47
13 9 0.18
14 6 0.12
ACGTcount: A:0.87, C:0.06, G:0.07, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:332935 original size:55 final size:55
Alignment explanation
Indices: 332853--333900 Score: 1320
Period size: 55 Copynumber: 18.5 Consensus size: 55
332843 AGGAACACAA
* *
332853 GTGGCA-TTTCC-TTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
*
332906 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
*
332961 GTGGCATTTTCCAGTCTTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* * *
333016 GTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* * * *
333071 GTGGCATTTTTCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTG
*
333132 GTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
1 GTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* * *
333187 GTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* * * *
333242 GTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTA
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTG
* *
333303 GTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGACCACACAAGTTG
1 GTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* *
333358 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* * *
333413 GTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTG
*
333474 GTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
1 GTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* *
333529 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* * *
333584 GTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTG
*
333645 GTGGCACCTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
1 GTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* *
333700 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* * *
333755 GTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTG
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTG
* * *
333816 GTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTG
1 GTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* * *
333871 GTGGCACTTTT-TACTCCTCAATGAGCAGGA
1 GTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
333901 TACAGTTCAT
Statistics
Matches: 879, Mismatches: 75, Indels: 80
0.85 0.07 0.08
Matches are distributed among these distances:
53 6 0.01
54 17 0.02
55 608 0.69
57 5 0.01
59 5 0.01
61 223 0.25
62 15 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (55 bp):
GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
Found at i:333185 original size:171 final size:171
Alignment explanation
Indices: 332853--333900 Score: 1828
Period size: 171 Copynumber: 6.2 Consensus size: 171
332843 AGGAACACAA
* * * *
332853 GTGGCA-TTTCC-TTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
* * * * *
332916 CCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACATAAGTTGGTGGCA-TTTTCCA
66 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CA
*
332974 GTCTTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
130 GTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
*
333016 GTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
*
333081 TCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
66 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
333146 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
131 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
*
333187 GTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
*
333252 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTAGTGGCACCTTTCAG
66 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
*
333317 TCCTCAAAGAGCAGGACACCTTTCAAAGACCACACAAGTTG
131 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
333358 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
333423 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
66 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
333488 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
131 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
333529 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
333594 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
66 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
333659 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
131 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
333700 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
1 GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
333765 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
66 TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* *
333830 TCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTG
131 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
* * *
333871 GTGGCACTTTT-TACTCCTCAATGAGCAGGA
1 GTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA
333901 TACAGTTCAT
Statistics
Matches: 853, Mismatches: 22, Indels: 12
0.96 0.02 0.01
Matches are distributed among these distances:
163 6 0.01
164 5 0.01
165 66 0.08
167 1 0.00
171 768 0.90
172 7 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (171 bp):
GTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTT
TCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
Found at i:334641 original size:13 final size:13
Alignment explanation
Indices: 334623--334647 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
334613 ACATAAGTTT
334623 TGTATCGATACAA
1 TGTATCGATACAA
334636 TGTATCGATACA
1 TGTATCGATACA
334648 TAATTAGCTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:334708 original size:13 final size:13
Alignment explanation
Indices: 334690--334715 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
334680 CATTTTTTTG
334690 TGTATCGATACAT
1 TGTATCGATACAT
334703 TGTATCGATACAT
1 TGTATCGATACAT
334716 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:337108 original size:51 final size:53
Alignment explanation
Indices: 337039--337169 Score: 160
Period size: 51 Copynumber: 2.5 Consensus size: 53
337029 AGTTTATCAA
* * * * *
337039 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
337090 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
337144 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
337170 CCCATTAATC
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
50 2 0.03
51 32 0.48
53 9 0.14
54 20 0.30
55 3 0.05
ACGTcount: A:0.32, C:0.25, G:0.10, T:0.33
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:337278 original size:28 final size:27
Alignment explanation
Indices: 337153--337253 Score: 202
Period size: 27 Copynumber: 3.7 Consensus size: 27
337143 TTTCTTCACA
337153 ATCGGGGATACTCCAACCCCATTAATC
1 ATCGGGGATACTCCAACCCCATTAATC
337180 ATCGGGGATACTCCAACCCCATTAATC
1 ATCGGGGATACTCCAACCCCATTAATC
337207 ATCGGGGATACTCCAACCCCATTAATC
1 ATCGGGGATACTCCAACCCCATTAATC
337234 ATCGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
337254 GTTATTTCCG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.29, C:0.35, G:0.16, T:0.21
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCATTAATC
Found at i:337420 original size:52 final size:51
Alignment explanation
Indices: 337265--337433 Score: 180
Period size: 52 Copynumber: 3.3 Consensus size: 51
337255 TTATTTCCGA
** * *
337265 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACA-CTATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTT-CACAATC
* * * **
337316 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATTTCCAAAACACCAATTTTTC-ACAATC
* *
337368 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTCC-AAAACACCAATTTTTCACAATC
*
337420 GAGGATACTCCAAC
1 GGGGATACTCCAAC
337434 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
50 3 0.03
51 27 0.28
52 50 0.52
53 16 0.17
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:337453 original size:28 final size:28
Alignment explanation
Indices: 337417--337493 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
337407 ATTTTTCACA
* * *
337417 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
337445 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
337473 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
337494 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:337560 original size:107 final size:107
Alignment explanation
Indices: 337368--337572 Score: 245
Period size: 107 Copynumber: 1.9 Consensus size: 107
337358 TCCTTTAATC
* * *
337368 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
337433 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCTCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
337476 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
337540 CC-CTGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCTC-GTTATTTATCG--GGGATACTCCAACCCCG
337573 ATTTTTTTTC
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
105 3 0.04
106 1 0.01
107 57 0.70
108 21 0.26
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCTCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:339218 original size:79 final size:77
Alignment explanation
Indices: 338960--339242 Score: 311
Period size: 78 Copynumber: 3.6 Consensus size: 77
338950 TCATTGATGT
* ** * * *
338960 TTTTATTTCTAAAATATCGATTTTCCACCATCGGGGATACTCCAACCCCATTATTTT-TGAGGGG
1 TTTTATTTCTAAAACATCGATTTTTTACCATCAGGGATACTCCAACCCCGTTATTTTCT-AAGGG
339024 ATACTCCAACCCAG
65 ATACT-CAACCCAG
* * * *
339038 TTTTATTTCTAAAACATCGATTTTTCACCAT-TGAGGATACTCCAACCCCGTTATTTTCGAAGAG
1 TTTTATTTCTAAAACATCGATTTTTTACCATCAG-GGATACTCCAACCCCGTTATTTTCTAAGGG
339102 ATACTCTAACCCAG
65 ATACTC-AACCCAG
* * * *
339116 TTTTATTTCTAAAACATCGATTTTTTACTATCAGGGATACTCCCACCCCGTTATTTTCTATGGGT
1 TTTTATTTCTAAAACATCGATTTTTTACCATCAGGGATACTCCAACCCCGTTATTTTCTAAGGGA
339181 TACTACAACCTC-G
66 TACT-CAACC-CAG
* ** * *
339194 ATTTTATTTCTAAAACCTTAATTTTCTACCATCAGGGATACTCTAACCC
1 -TTTTATTTCTAAAACATCGATTTTTTACCATCAGGGATACTCCAACCC
339243 TGATTTTATT
Statistics
Matches: 176, Mismatches: 22, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
77 2 0.01
78 130 0.74
79 44 0.25
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (77 bp):
TTTTATTTCTAAAACATCGATTTTTTACCATCAGGGATACTCCAACCCCGTTATTTTCTAAGGGA
TACTCAACCCAG
Found at i:339269 original size:51 final size:51
Alignment explanation
Indices: 339193--339292 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
339183 CTACAACCTC
* * *
339193 GATTTTATTTCTAAAACCTTAA-TTTTCTACCATCAGGGATACTCTAACCCT
1 GATTTTATTTCTAAAACATCAATTTTTC-ACCATCAGGGATACTCCAACCCT
* * *
339244 GATTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACC
1 GATTTTATTTCTAAAACATCAATTTTTCACCATCAGGGATACTCCAACC
339293 TCATTATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
51 37 0.88
52 5 0.12
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (51 bp):
GATTTTATTTCTAAAACATCAATTTTTCACCATCAGGGATACTCCAACCCT
Found at i:339362 original size:130 final size:129
Alignment explanation
Indices: 339101--339443 Score: 370
Period size: 130 Copynumber: 2.6 Consensus size: 129
339091 TTTTCGAAGA
* * * *
339101 GATACTCTAACCCAGTTTTATTTCTAAAACATCGATTTTTTACTATCAGGGATACTCCCACCCCG
1 GATACTCTAACCCAGTTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCA
* * * * *
339166 TTATTTTCTATGGGTTACTACAACCTCGATTTTATTTCTAAAACCTTAATTTTCTACCATCAGG
66 TTATTTTCTAGGGGATACTACAACCTCGATTTTATTTCAAAAACCTGAATTTTCTAACATCAGG
* *
339230 GATACTCTAACCCTGATTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCTC
1 GATACTCTAACCCAG-TTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCC
* * * * *
339295 ATTA-TTTCTGAGGGGATATTCCAACCTCGATTTTGTTTTCAAAATATC-GACTTTTC-AACATC
65 ATTATTTTCT-AGGGGATACTACAACCTCGATTTT-ATTTCAAAA-ACCTGAATTTTCTAACATC
*
339357 GGG
127 AGG
* * * * * *
339360 GATACTCCAACCCCGTTTTTATTT-TCAAAATATCAATTTCTCACCATCGGGGATACTCCAACCC
1 GATACTCTAACCCAG-TTTTATTTCT-AAAACATCGATTTTTCACTATCGGGGATACTCCAACCC
* * *
339424 CATTGTTTTCGAGAGGATAC
64 CATTATTTTCTAGGGGATAC
339444 CCTAACCCCA
Statistics
Matches: 179, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
129 20 0.11
130 140 0.78
131 17 0.09
132 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.36
Consensus pattern (129 bp):
GATACTCTAACCCAGTTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTCCAACCCCA
TTATTTTCTAGGGGATACTACAACCTCGATTTTATTTCAAAAACCTGAATTTTCTAACATCAGG
Found at i:339385 original size:51 final size:51
Alignment explanation
Indices: 339306--339424 Score: 168
Period size: 51 Copynumber: 2.3 Consensus size: 51
339296 TTATTTCTGA
* * * *
339306 GGGGATATTCCAACCTCGATTTTGTTTTCAAAATATCGACTTT-TCAACATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATATC-AATTTCTCAACATC
* *
339357 GGGGATACTCCAACCCCGTTTTTATTTTCAAAATATCAATTTCTCACCATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATATCAATTTCTCAACATC
339408 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
339425 ATTGTTTTCG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
50 4 0.07
51 57 0.93
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATATCAATTTCTCAACATC
Found at i:339466 original size:130 final size:130
Alignment explanation
Indices: 339223--339472 Score: 303
Period size: 130 Copynumber: 1.9 Consensus size: 130
339213 AATTTTCTAC
* * * * *
339223 CATCAGGGATACTCTAACCCTGATTTTATTTCTAAAACATCGATTTTTCACTATCGGGGATACTC
1 CATCAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTCTCACCATCGGGGATACTC
* * * *
339288 CAACCTCATTATTTCTGAGGGGATATTCCAACCTCGATTTTGTTTTCAAAATATCGACTTTTCAA
66 CAACCCCATTATTTCTGAGAGGATATCCCAACCTCCATTTTGTTTTCAAAATATCGACTTTTCAA
* * *
339353 CATCGGGGATACTCCAACCCCGTTTTTATTT-TCAAAATATCAATTTCTCACCATCGGGGATACT
1 CATCAGGGATACTCCAACCCCGATTTTATTTCT-AAAACATCAATTTCTCACCATCGGGGATACT
*
339417 CCAACCCCATTGTTT-TCGAGAGGATA-CCCTAACC-CCATTTT-TATCTTCAAAATATC
65 CCAACCCCATTATTTCT-GAGAGGATATCCC-AACCTCCATTTTGT-T-TTCAAAATATC
339473 AAATTTTTCA
Statistics
Matches: 102, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
128 1 0.01
129 11 0.11
130 90 0.88
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (130 bp):
CATCAGGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTCTCACCATCGGGGATACTC
CAACCCCATTATTTCTGAGAGGATATCCCAACCTCCATTTTGTTTTCAAAATATCGACTTTTCAA
Found at i:342626 original size:52 final size:52
Alignment explanation
Indices: 342548--342675 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
342538 CGAAATATGA
* *
342548 AAATTTGCCTGCACGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
342600 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
342652 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
342676 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
51 21 0.29
52 47 0.64
53 5 0.07
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:342688 original size:51 final size:50
Alignment explanation
Indices: 342548--342695 Score: 185
Period size: 52 Copynumber: 2.9 Consensus size: 50
342538 CGAAATATGA
* *
342548 AAATTTGCCTGCACGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGC
342600 AAATTTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGC
342652 AAA-TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
342696 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.38
52 46 0.52
53 1 0.01
54 4 0.05
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGC
Found at i:342702 original size:13 final size:13
Alignment explanation
Indices: 342684--342708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
342674 CAAAGATCAG
342684 TGTATCGATACAA
1 TGTATCGATACAA
342697 TGTATCGATACA
1 TGTATCGATACA
342709 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:342786 original size:33 final size:33
Alignment explanation
Indices: 342749--342815 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
342739 AGTAGCTTAA
342749 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
342782 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
342815 A
1 A
342816 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Done.