Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 97 of 240
Found at i:30399546 original size:13 final size:13
Alignment explanation
Indices: 30399528--30399552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30399518 TTATTAGTTA
30399528 GGTTTTTAATTAG
1 GGTTTTTAATTAG
30399541 GGTTTTTAATTA
1 GGTTTTTAATTA
30399553 AATTAGGTTA
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:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
GGTTTTTAATTAG
Found at i:30399546 original size:32 final size:36
Alignment explanation
Indices: 30399504--30399619 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 36
30399494 ATTAAATTAG
30399504 GTTAGGGTTTTTAATT-ATTA-GTTA-GGTTTTTAA
1 GTTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTAA
30399537 -TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
1 GTTAGGGTTTTTAATT-AATTAGGTTAGGGTTTTTAA
30399573 GTTTAGGGTTTAAGGTTTTAATTAAATTAGGTTAGGGTTTTTAA
1 G-TTAGGG--T----TTTTAATT-AATTAGGTTAGGGTTTTTAA
30399617 GTT
1 GTT
30399620 TAGAGTTTAG
Statistics
Matches: 71, Mismatches: 0, Indels: 14
0.84 0.00 0.16
Matches are distributed among these distances:
32 15 0.21
34 4 0.06
35 4 0.06
36 9 0.13
38 6 0.08
40 1 0.01
43 2 0.03
44 30 0.42
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (36 bp):
GTTAGGGTTTTTAATTAATTAGGTTAGGGTTTTTAA
Found at i:30399567 original size:23 final size:22
Alignment explanation
Indices: 30399537--30399731 Score: 152
Period size: 23 Copynumber: 8.7 Consensus size: 22
30399527 AGGTTTTTAA
30399537 TTAGGGTTTTTAATTAAATTAGG
1 TTAGGGTTTTTAATT-AATTAGG
*
30399560 TTAGGGTTTTTAAGT--TTAGGG
1 TTAGGGTTTTTAATTAATTA-GG
*
30399581 TTTAAGG-TTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATT-AATTAGG
*
30399604 TTAGGGTTTTTAAGT--TTAGAG
1 TTAGGGTTTTTAATTAATTAG-G
*
30399625 TTTAGGGTTTTTAAGTTAATCAGG
1 -TTAGGGTTTTTAA-TTAATTAGG
* ***
30399649 TTAGTGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAA-TTAATTAGG
* *
30399672 CTAGGGTTTTTAAGT--TTAGGG
1 TTAGGGTTTTTAATTAATTA-GG
30399693 TTTAGGGTTTTTAATTAAATTAGG
1 -TTAGGGTTTTTAATT-AATTAGG
30399717 TTAGGGTTTTTAATT
1 TTAGGGTTTTTAATT
30399732 TAAGGGTATT
Statistics
Matches: 137, Mismatches: 19, Indels: 32
0.73 0.10 0.17
Matches are distributed among these distances:
20 7 0.05
21 12 0.09
22 37 0.27
23 69 0.50
24 6 0.04
25 6 0.04
ACGTcount: A:0.25, C:0.01, G:0.26, T:0.48
Consensus pattern (22 bp):
TTAGGGTTTTTAATTAATTAGG
Found at i:30399683 original size:68 final size:68
Alignment explanation
Indices: 30399605--30399737 Score: 214
Period size: 68 Copynumber: 2.0 Consensus size: 68
30399595 TAAATTAGGT
*
30399605 TAGGGTTTTTAAGTTTAGAGTTTAGGGTTTTTAAGTT-AATCAGGTTAGTGTTTTTAAGTTAAGG
1 TAGGGTTTTTAAGTTTAGAGTTTAGGGTTTTTAA-TTAAATCAGGTTAGGGTTTTTAAGTTAAGG
30399669 GGGC
65 GGGC
* * *
30399673 TAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTTAAGGG
1 TAGGGTTTTTAAGTTTAGAGTTTAGGGTTTTTAATTAAATCAGGTTAGGGTTTTTAAGTTAAGGG
30399738 TATTAATGGT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
67 2 0.03
68 58 0.97
ACGTcount: A:0.24, C:0.02, G:0.29, T:0.46
Consensus pattern (68 bp):
TAGGGTTTTTAAGTTTAGAGTTTAGGGTTTTTAATTAAATCAGGTTAGGGTTTTTAAGTTAAGGG
GGC
Found at i:30399806 original size:25 final size:25
Alignment explanation
Indices: 30399777--30399824 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
30399767 TATAAAAAAT
30399777 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
30399802 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
30399825 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:30399826 original size:28 final size:26
Alignment explanation
Indices: 30399768--30399824 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
30399758 CTCAAATAAT
* *
30399768 ATAAAAAATTTCTATTTTATTACATC
1 ATAATAAACTTCTATTTTATTACATC
30399794 A-AATAAACTTCTATTTTATTACATC
1 ATAATAAACTTCTATTTTATTACATC
30399819 A-AATAA
1 ATAATAA
30399825 TATCAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAATAAACTTCTATTTTATTACATC
Found at i:30400278 original size:18 final size:18
Alignment explanation
Indices: 30400255--30400292 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
30400245 CTCGAAAAAT
*
30400255 GATACATATAAGGGTTAG
1 GATACATATAAGGGCTAG
30400273 GATACATATAAGGGCTAG
1 GATACATATAAGGGCTAG
30400291 GA
1 GA
30400293 AACGCACCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.08, G:0.29, T:0.24
Consensus pattern (18 bp):
GATACATATAAGGGCTAG
Found at i:30400953 original size:7 final size:7
Alignment explanation
Indices: 30400943--30400967 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
30400933 TTATATACAT
30400943 AATACTA
1 AATACTA
30400950 AATACTA
1 AATACTA
30400957 AATACTA
1 AATACTA
30400964 AATA
1 AATA
30400968 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:30401175 original size:20 final size:20
Alignment explanation
Indices: 30401138--30401175 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30401128 TTTATTTTTA
*
30401138 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
30401158 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
30401176 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:30402110 original size:12 final size:11
Alignment explanation
Indices: 30402068--30402110 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
30402058 ATTTTTACGG
*
30402068 TTTAAAAAAAA
1 TTTAAAAAATA
30402079 TTTAAAAAATA
1 TTTAAAAAATA
* *
30402090 TTTTTAAAATTA
1 -TTTAAAAAATA
30402102 TTTAAAAAA
1 TTTAAAAAA
30402111 AGAGAGTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTTAAAAAATA
Found at i:30402133 original size:11 final size:11
Alignment explanation
Indices: 30402117--30402147 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
30402107 AAAAAGAGAG
30402117 TTAAGAGAAAC
1 TTAAGAGAAAC
*
30402128 TTAAGAGGAAC
1 TTAAGAGAAAC
30402139 TTAAGAGAA
1 TTAAGAGAA
30402148 TTTTTTAAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (11 bp):
TTAAGAGAAAC
Found at i:30402189 original size:12 final size:11
Alignment explanation
Indices: 30402155--30402190 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
30402145 GAATTTTTTA
*
30402155 AGGAAATTGGG
1 AGGAAATTGAG
30402166 AGGAAATTGAG
1 AGGAAATTGAG
30402177 AGGAAATTTGAG
1 AGGAAA-TTGAG
30402189 AG
1 AG
30402191 AGGATTAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.42, C:0.00, G:0.39, T:0.19
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:30409053 original size:5 final size:5
Alignment explanation
Indices: 30409036--30409067 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
30409026 TATTGCAAAT
30409036 AATTA AA-TA AATTA AATTA AATTA AATTA AAT
1 AATTA AATTA AATTA AATTA AATTA AATTA AAT
30409068 AGATAAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:30409605 original size:20 final size:19
Alignment explanation
Indices: 30409580--30409662 Score: 66
Period size: 17 Copynumber: 4.4 Consensus size: 19
30409570 TACATAATTT
30409580 AAAATATTACAAAATTATTA
1 AAAATATTA-AAAATTATTA
30409600 AAAATATTTAAAAA-TA-TA
1 AAAATA-TTAAAAATTATTA
* *
30409618 AAAAAATTATTAAAATCATTA
1 AAAATATTA--AAAATTATTA
**
30409639 AAAA-GGT-AAAATTATTA
1 AAAATATTAAAAATTATTA
30409656 AAAATAT
1 AAAATAT
30409663 ATTAAAATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
17 16 0.32
18 7 0.14
19 6 0.12
20 12 0.24
21 9 0.18
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATATTAAAAATTATTA
Found at i:30409621 original size:8 final size:9
Alignment explanation
Indices: 30409580--30409662 Score: 62
Period size: 10 Copynumber: 8.8 Consensus size: 9
30409570 TACATAATTT
30409580 AAAATATTA
1 AAAATATTA
30409589 CAAAATTATTA
1 -AAAA-TATTA
30409600 AAAATATTTA
1 AAAATA-TTA
30409610 AAAATA-TA
1 AAAATATTA
*
30409618 AAAAAATTA
1 AAAATATTA
30409627 TTAAAATCATTA
1 --AAAAT-ATTA
**
30409639 AAAA-GGTA
1 AAAATATTA
*
30409647 AAATTATTA
1 AAAATATTA
30409656 AAAATAT
1 AAAATAT
30409663 ATTAAAATGT
Statistics
Matches: 58, Mismatches: 8, Indels: 15
0.72 0.10 0.19
Matches are distributed among these distances:
8 12 0.21
9 12 0.21
10 21 0.36
11 9 0.16
12 4 0.07
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAATATTA
Found at i:30410381 original size:30 final size:32
Alignment explanation
Indices: 30410346--30410416 Score: 110
Period size: 32 Copynumber: 2.3 Consensus size: 32
30410336 GTCAAATAAT
*
30410346 ATTAAAA-TAATT-TAGACTAATCAGAGTTTG
1 ATTAAAACAAATTCTAGACTAATCAGAGTTTG
30410376 ATTAAAACAAATTCTAGACTAATCAGAGTTTG
1 ATTAAAACAAATTCTAGACTAATCAGAGTTTG
*
30410408 ATTGAAACA
1 ATTAAAACA
30410417 GATAAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 7 0.19
31 4 0.11
32 26 0.70
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (32 bp):
ATTAAAACAAATTCTAGACTAATCAGAGTTTG
Found at i:30413021 original size:29 final size:29
Alignment explanation
Indices: 30412958--30413025 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
30412948 TAATCAACCG
30412958 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
30412987 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
30413016 CGCACACTTA
1 CGCACACTTA
30413026 CCTTTTCTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:30413138 original size:174 final size:174
Alignment explanation
Indices: 30412847--30413174 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
30412837 AACTCAAGGT
*
30412847 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
30412912 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
30412977 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
* * *
30413021 ACTTACCTTTTCTGTTGTCCAAAATTGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
30413086 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
30413151 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
30413175 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.31
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:30413166 original size:29 final size:30
Alignment explanation
Indices: 30413127--30413205 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
30413117 CTTAATAATC
30413127 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
30413157 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
30413186 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
30413206 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:30415829 original size:21 final size:21
Alignment explanation
Indices: 30415803--30415842 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
30415793 GAGTACATGG
30415803 ATAAA-TTTTAGATAACTTTGT
1 ATAAATTTTTA-ATAACTTTGT
30415824 ATAAATTTTTAATAACTTT
1 ATAAATTTTTAATAACTTT
30415843 TTAATAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
ATAAATTTTTAATAACTTTGT
Found at i:30415843 original size:11 final size:11
Alignment explanation
Indices: 30415808--30415849 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
30415798 CATGGATAAA
30415808 TTTTAGATAACT
1 TTTTA-ATAACT
* *
30415820 TTGT-ATAAAT
1 TTTTAATAACT
30415830 TTTTAATAACT
1 TTTTAATAACT
30415841 TTTTAATAA
1 TTTTAATAA
30415850 TTTCATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
10 8 0.32
11 14 0.56
12 3 0.12
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (11 bp):
TTTTAATAACT
Found at i:30415851 original size:21 final size:21
Alignment explanation
Indices: 30415803--30415852 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
30415793 GAGTACATGG
*
30415803 ATAAATTTTAGATAACTTTGT
1 ATAATTTTTAGATAACTTTGT
*
30415824 ATAAATTTTTA-ATAACTTTTT
1 AT-AATTTTTAGATAACTTTGT
30415845 AATAATTT
1 -ATAATTT
30415853 CATAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (21 bp):
ATAATTTTTAGATAACTTTGT
Found at i:30417752 original size:24 final size:23
Alignment explanation
Indices: 30417725--30417784 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 23
30417715 GGAGTTTGCA
*
30417725 GATAAAAGCTGCCAGTAATTTGTG
1 GATAAAA-CCGCCAGTAATTTGTG
30417749 GAT-AAACCGCCAGTAATTTGTG
1 GATAAAACCGCCAGTAATTTGTG
*
30417771 GAT-AAACCACCAGT
1 GATAAAACCGCCAGT
30417785 GTTTGTAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
22 28 0.82
23 3 0.09
24 3 0.09
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (23 bp):
GATAAAACCGCCAGTAATTTGTG
Found at i:30417763 original size:22 final size:22
Alignment explanation
Indices: 30417735--30417784 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
30417725 GATAAAAGCT
30417735 GCCAGTAATTTGTGGATAAACC
1 GCCAGTAATTTGTGGATAAACC
30417757 GCCAGTAATTTGTGGATAAACC
1 GCCAGTAATTTGTGGATAAACC
*
30417779 ACCAGT
1 GCCAGT
30417785 GTTTGTAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (22 bp):
GCCAGTAATTTGTGGATAAACC
Found at i:30434235 original size:15 final size:16
Alignment explanation
Indices: 30434209--30434238 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
30434199 ATAAATTTTA
30434209 TTTTACTTTACTTAAG
1 TTTTACTTTACTTAAG
30434225 TTTTA-TTTACTTAA
1 TTTTACTTTACTTAA
30434239 TTACTAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (16 bp):
TTTTACTTTACTTAAG
Found at i:30440960 original size:20 final size:20
Alignment explanation
Indices: 30440935--30440977 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
30440925 TTGGTTGTAA
30440935 AAATAGTAAAAGTTCAAGTT
1 AAATAGTAAAAGTTCAAGTT
*
30440955 AAATAGTAAAAGTTTAAGTT
1 AAATAGTAAAAGTTCAAGTT
30440975 AAA
1 AAA
30440978 GCCAAATTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.53, C:0.02, G:0.14, T:0.30
Consensus pattern (20 bp):
AAATAGTAAAAGTTCAAGTT
Found at i:30445263 original size:15 final size:15
Alignment explanation
Indices: 30445239--30445270 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
30445229 TAGCTCTGAT
30445239 ACCACAAAAAGTAAC
1 ACCACAAAAAGTAAC
*
30445254 ACCACTAAAAGTAAC
1 ACCACAAAAAGTAAC
30445269 AC
1 AC
30445271 TGGATTAGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.28, G:0.06, T:0.09
Consensus pattern (15 bp):
ACCACAAAAAGTAAC
Found at i:30455598 original size:39 final size:39
Alignment explanation
Indices: 30455490--30455605 Score: 160
Period size: 39 Copynumber: 3.0 Consensus size: 39
30455480 AATTTAGTTT
* * *
30455490 GAGTCTTCAATTATGTCATAATTTGAAAATCATTAATAT
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* *
30455529 GAGTTTTTAATTATGTCATAATCTGAACATCATTAATAA
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* * *
30455568 GAGTCTTTAATTATGTCATAGTTTGGACATCTTTAATA
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATA
30455606 CATGTTTTTA
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 67 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.42
Consensus pattern (39 bp):
GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
Found at i:30458902 original size:15 final size:15
Alignment explanation
Indices: 30458884--30458920 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
30458874 GGAAAAAGTG
30458884 AGAAAGAAAAAAAAA
1 AGAAAGAAAAAAAAA
*
30458899 AGAAATCAAAAAAAAA
1 AGAAA-GAAAAAAAAA
30458915 AGAAAG
1 AGAAAG
30458921 GAAAGGATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (15 bp):
AGAAAGAAAAAAAAA
Found at i:30462642 original size:19 final size:20
Alignment explanation
Indices: 30462610--30462650 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
30462600 CTGAATTTTA
30462610 TTTTATTTGGTTTTATTTATT
1 TTTTATTT-GTTTTATTTATT
*
30462631 TTTTATTT-TTTTGTTTATT
1 TTTTATTTGTTTTATTTATT
30462650 T
1 T
30462651 AATCTGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTATTTGTTTTATTTATT
Found at i:30464935 original size:39 final size:39
Alignment explanation
Indices: 30464821--30464936 Score: 169
Period size: 39 Copynumber: 3.0 Consensus size: 39
30464811 AATTTAGCTT
* *
30464821 GAGTCTTTAATTATGTCATAATTTGAACATCATTAACAT
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* *
30464860 GAGTTTTTAATTATGTCATAATCTGAACATCATTAATAA
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
* * *
30464899 GAGTCTTTAATTATGTCATAGTTTGGACATCTTTAATA
1 GAGTCTTTAATTATGTCATAATTTGAACATCATTAATA
30464937 CATGTTTTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.42
Consensus pattern (39 bp):
GAGTCTTTAATTATGTCATAATTTGAACATCATTAATAA
Found at i:30470729 original size:28 final size:28
Alignment explanation
Indices: 30470697--30470768 Score: 135
Period size: 28 Copynumber: 2.6 Consensus size: 28
30470687 TTTAATAAGT
30470697 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
30470725 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
30470753 TCGTACACTTAGTGCT
1 TCGCACACTTAGTGCT
30470769 AATCTCTTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:30478003 original size:39 final size:37
Alignment explanation
Indices: 30477941--30478013 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
30477931 GTTATACATA
* *
30477941 AATTTTGATTCAATATGCAATTTAATATATAAATTTT
1 AATTTTGATTCAATATGCAATTTAAAAAATAAATTTT
*
30477978 AATTTTGATTCAATTATGTATATTTAAAAAATAAAT
1 AATTTTGATTCAA-TATGCA-ATTTAAAAAATAAAT
30478014 ATATCAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 13 0.42
38 5 0.16
39 13 0.42
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (37 bp):
AATTTTGATTCAATATGCAATTTAAAAAATAAATTTT
Found at i:30480237 original size:26 final size:26
Alignment explanation
Indices: 30480207--30480257 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
30480197 ACCAATGAAC
*
30480207 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
30480233 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
30480258 CTTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:30480250 original size:103 final size:105
Alignment explanation
Indices: 30480071--30480336 Score: 423
Period size: 104 Copynumber: 2.6 Consensus size: 105
30480061 TAACCGTTAT
* ** *
30480071 TGGTGGATCTCGCACTTAGCACCACCGCTGAATCGGGG-ATCAGCACTTAGCAACCCTTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
30480135 AATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
30480174 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
30480238 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
30480278 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
30480337 TTATATACAA
Statistics
Matches: 151, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
103 59 0.39
104 91 0.60
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (105 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:30481113 original size:19 final size:19
Alignment explanation
Indices: 30481089--30481141 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
30481079 GTTCGATAAA
30481089 TTATATTTTTTAAATTAAT
1 TTATATTTTTTAAATTAAT
* ** *
30481108 TTATATTTTTAAAAAGATT
1 TTATATTTTTTAAATTAAT
30481127 TTA-ATTTTTTAAATT
1 TTATATTTTTTAAATT
30481142 TATGTCTGCC
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 9 0.33
19 18 0.67
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTATATTTTTTAAATTAAT
Found at i:30482307 original size:37 final size:38
Alignment explanation
Indices: 30482212--30482309 Score: 90
Period size: 40 Copynumber: 2.6 Consensus size: 38
30482202 ACACACCAGT
* **
30482212 TTGGCACCCAATGCCTCATCAGATAATTCGAAGTAATAAA
1 TTGGCACCCAATGCCTCATCGGATAACCCGAAG--ATAAA
* * * * * *
30482252 TTGACAACTAGTGTCTCATCGGCTAACCCGAAG-TAAA
1 TTGGCACCCAATGCCTCATCGGATAACCCGAAGATAAA
30482289 TTGGCACCCAATGCCTCATCG
1 TTGGCACCCAATGCCTCATCG
30482310 AATTAATCTA
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
37 20 0.45
40 24 0.55
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (38 bp):
TTGGCACCCAATGCCTCATCGGATAACCCGAAGATAAA
Found at i:30483370 original size:15 final size:15
Alignment explanation
Indices: 30483320--30483370 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
30483310 TTTGTTTTAT
*
30483320 TATTATTATAATATA
1 TATTAATATAATATA
30483335 TATTAAGTA-AACT-TA
1 TATTAA-TATAA-TATA
*
30483350 TTTTAATATAATATA
1 TATTAATATAATATA
30483365 TATTAA
1 TATTAA
30483371 ATTCTCCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
14 3 0.10
15 23 0.79
16 3 0.10
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
TATTAATATAATATA
Found at i:30484393 original size:3 final size:3
Alignment explanation
Indices: 30484385--30484422 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
30484375 GGAAAAAACT
30484385 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
30484423 TCAACTCTGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30492219 original size:23 final size:23
Alignment explanation
Indices: 30492200--30492253 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
30492190 TGTATACACG
30492200 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
30492223 TACATAATAATAATA-ATAGTAA
1 TACATAATAAAAATATATACTAA
30492245 TAC-TAATAA
1 TACATAATAA
30492254 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:30492234 original size:3 final size:3
Alignment explanation
Indices: 30492203--30492273 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
30492193 ATACACGTAC
* * * *
30492203 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
30492250 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
30492274 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:30492758 original size:11 final size:12
Alignment explanation
Indices: 30492738--30492775 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
30492728 AGAAAAAAAA
30492738 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
30492751 GAAGAGAGAAGG
1 GAAGAGAGAAGG
30492763 G-AGAGAGAAGG
1 GAAGAGAGAAGG
30492774 GA
1 GA
30492776 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:30493258 original size:8 final size:8
Alignment explanation
Indices: 30493245--30493269 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
30493235 GGTGTTCGGC
30493245 GCAAGTGG
1 GCAAGTGG
30493253 GCAAGTGG
1 GCAAGTGG
30493261 GCAAGTGG
1 GCAAGTGG
30493269 G
1 G
30493270 GGGTAGGTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:30493809 original size:44 final size:45
Alignment explanation
Indices: 30493780--30494525 Score: 147
Period size: 44 Copynumber: 16.8 Consensus size: 45
30493770 CCTTTATTTT
*
30493780 AATCCACTCCACTGTAATCTCAGGCAGATAGGAT-TACTATCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
* * * * *
30493824 AATCTACTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTTTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTC
** *** * **
30493870 GGTCTGTTCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
* * *
30493914 AATCTGATGTGATCTACTCTACTGTAA-CTTCAGAG-AGATAAGATCCT-TTAT-TTT
1 AATC---------C-ACTCCACTGTAATC-TCAG-GCAGATAAGAT-CTACTATCTTC
* * *
30493968 AATCCGCTCCACTGTAA-CTTCAGAG-AGATAGGAT-TACTAGCTTC
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGATCTACTATCTTC
* * *
30494012 AATCTACTCCGCTGTAATCTCAGAG-AGATAAGATCT-CT-GCTTC
1 AATCCACTCCACTGTAATCTCAG-GCAGATAAGATCTACTATCTTC
** * * *
30494055 AATCTGCTCCACTGTAACCTCAGGGA-ATAAGATCTGA-AATTCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTC
** * * ** *
30494100 GGTCTACTCC-CTGTAACCTCAGGGTGATAAGA-C--CTGA--TGC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACT-ATCTTC
* * ** * *
30494140 GATCTACTCTGCTGTAA-CTTCAGAG-AGATAAGATCCT-TTAT-TTT
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGAT-CTACTATCTTC
* * * *
30494184 AATCCGCTCTACTGTAA-CTTCAGAG-AGATAGGAT-TACTAGCTTC
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGATCTACTATCTTC
* * **
30494228 AATCTACTCCGCTGTAATCTCAGAG-AGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAG-GCAGATAAGATCTACTATCTTC
** * * * *
30494272 AATCTGCTCCACTGTAACCTTAGGGAGATAAGATCTGA-AATTCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT-ACTA-TCTTC
** * * * ** *
30494318 GGTCTACTCCATTGTAACCT-AGGGTGATAAGA-C--CTGA--TGC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACT-ATCTTC
* * ** * *
30494358 GATCTACTCTGCTGTAA-CTTCAGAG-AGATAAGATCCT-TTAT-TTT
1 AATCCACTCCACTGTAATC-TCAG-GCAGATAAGAT-CTACTATCTTC
* * * *
30494402 AATCCGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTAGCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
* * ** **
30494446 AATCTACTCCGCTGTAATCTCAGAAAGATAAGATCT-CTGGCTTC
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
** * *
30494490 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT
1 AATCCACTCCACTGTAATCTCAGGCAGATAAGATCT
30494526 GAAATTCTTC
Statistics
Matches: 535, Mismatches: 109, Indels: 116
0.70 0.14 0.15
Matches are distributed among these distances:
39 1 0.00
40 27 0.05
41 26 0.05
42 15 0.03
43 40 0.07
44 300 0.56
45 37 0.07
46 56 0.10
53 1 0.00
54 28 0.05
55 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (45 bp):
AATCCACTCCACTGTAATCTCAGGCAGATAAGATCTACTATCTTC
Found at i:30493852 original size:88 final size:87
Alignment explanation
Indices: 30493737--30494480 Score: 314
Period size: 88 Copynumber: 8.4 Consensus size: 87
30493727 GTCTGCTGTG
* *
30493737 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
*
30493802 GGCAGATAGGATTACTATCTTCA
66 GG-AGATAGGATTACTAGCTTCA
* * ** ** * *
30493825 ATCTACTCCGCTGTAA-TCTCAGGGAGATAAGAT-CTGAAATTTTTCGGTCTGTTCCACTGTAAT
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCT-TTA-TTTT-AATCCGCTCCACTGTAAT
* *
30493888 CTCAGGGAGATAAGATCT-CTGGCTTCA
62 CTCA-GGAGATAGGAT-TACTAGCTTCA
30493915 ATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
1 ATC-----T-A-CT-C-C-ACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCAC
30493980 TGTAA-CTTCAGAGAGATAGGATTACTAGCTTCA
56 TGTAATC-TCAG-GAGATAGGATTACTAGCTTCA
* * ** * * *
30494013 ATCTACTCCGCTGTAA-TCTCAGAGAGATAAGAT-CTCTGCTTCAATCTGCTCCACTGTAACCTC
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTC
* * * *
30494076 AGG-GAATAAGATCTGA-AATTCTTCG
65 AGGAG-ATAGGAT-T-ACTA-GCTTCA
* * * * * *** ** **
30494101 GTCTACTCC-CTGTAACCTCAGGGTGATAAGA-CC-TGA-TGCGATCTACTCTGCTGTAA-CTTC
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATC-TC
* * * *
30494161 AGAGAGATAAGATCCT-TTA-TTTTA
65 AG-GAGATAGGAT--TACTAGCTTCA
** * * * * * ** *
30494185 ATCCGCTCTACTGTAACTTCAGAGAGATAGGAT--TACTAGCTTCAATCTACTCCGCTGTAATCT
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCT-TTA-TTTTAATCCGCTCCACTGTAATCT
* *
30494248 CAGAGAGATAAGATCT-CTGGCTTCA
64 CAG-GAGATAGGAT-TACTAGCTTCA
* * ** ** ** * *
30494273 ATCTGCTCCACTGTAACCTT-AGGGAGATAAGAT-CTGAAATTCTTCGGTCTACTCCATTGTAAC
1 ATCTACTCCACTGTAA-CTTCAGAGAGATAAGATCCT-TTATT-TT-AATCCGCTCCACTGTAAT
* * * * * *
30494336 CT-AGGGTGATAAGA--CCT-GATGCG
62 CTCA-GGAGATAGGATTACTAGCTTCA
**
30494359 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
30494424 GGGAGATAGGATTACTAGCTTCA
66 -GGAGATAGGATTACTAGCTTCA
* *
30494447 ATCTACTCCGCTGTAA-TCTCAGAAAGATAAGATC
1 ATCTACTCCACTGTAACT-TCAGAGAGATAAGATC
30494481 TCTGGCTTCA
Statistics
Matches: 497, Mismatches: 104, Indels: 110
0.70 0.15 0.15
Matches are distributed among these distances:
84 22 0.04
85 53 0.11
86 48 0.10
87 63 0.13
88 158 0.32
89 21 0.04
90 52 0.10
91 5 0.01
92 1 0.00
93 1 0.00
95 1 0.00
96 1 0.00
97 5 0.01
98 37 0.07
99 5 0.01
100 21 0.04
101 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (87 bp):
ATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
GGAGATAGGATTACTAGCTTCA
Found at i:30494001 original size:188 final size:187
Alignment explanation
Indices: 30493704--30494047 Score: 575
Period size: 188 Copynumber: 1.8 Consensus size: 187
30493694 CTAACTGCTT
* *** *
30493704 AGGGAGATAAGATCTGTGGTTTTGTCTGCTGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
1 AGGGAGATAAGATCTCTGGTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
*
30493769 TCCTTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTATCTTCAATCTACTCC
66 TCCTTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTAGCTTCAATCTACTCC
*
30493834 GCTGTAATCTCAGGGAGATAAGATCTGAAATTTTTCGGTCTGTTCCACTGTAATCTC
131 GCTGTAATCTCAGAGAGATAAGATCTGAAATTTTTCGGTCTGTTCCACTGTAATCTC
30493891 AGGGAGATAAGATCTCTGGCTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
1 AGGGAGATAAGATCTCTGG-TTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAG
*
30493956 ATCCTTTATTTTAATCCGCTCCACTGTAA-CTTCAGAG-AGATAGGATTACTAGCTTCAATCTAC
65 ATCCTTTATTTTAATCCACTCCACTGTAATC-TCAG-GCAGATAGGATTACTAGCTTCAATCTAC
30494019 TCCGCTGTAATCTCAGAGAGATAAGATCT
128 TCCGCTGTAATCTCAGAGAGATAAGATCT
30494048 CTGCTTCAAT
Statistics
Matches: 146, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
187 19 0.13
188 126 0.86
189 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (187 bp):
AGGGAGATAAGATCTCTGGTTCAATCTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
TCCTTTATTTTAATCCACTCCACTGTAATCTCAGGCAGATAGGATTACTAGCTTCAATCTACTCC
GCTGTAATCTCAGAGAGATAAGATCTGAAATTTTTCGGTCTGTTCCACTGTAATCTC
Found at i:30494408 original size:218 final size:218
Alignment explanation
Indices: 30493917--30494535 Score: 1129
Period size: 218 Copynumber: 2.8 Consensus size: 218
30493907 TGGCTTCAAT
* *
30493917 CTGATGTGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
30493982 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
66 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
30494047 TCT-GCTTCAATCTGCTCCACTGTAACCTCAGGGA-ATAAGATCTGAAATTCTTCGGTCTACTCC
131 TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
30494110 CTGTAACCTCAGGGTGATAAGAC
196 CTGTAACCTCAGGGTGATAAGAC
*
30494133 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
30494198 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
66 TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
*
30494263 TCTGGCTTCAATCTGCTCCACTGTAACCTTAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
131 TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
*
30494328 ATTGTAACCT-AGGGTGATAAGAC
196 -CTGTAACCTCAGGGTGATAAGAC
30494351 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
* *
30494416 TAA-TCTCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAAAGATAAGAT
66 TAACT-TCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGAT
30494480 CTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTC
130 CTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTC
30494536 TTTTTGGTCT
Statistics
Matches: 390, Mismatches: 9, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
216 130 0.33
217 31 0.08
218 221 0.57
219 8 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (218 bp):
CTGATGCGATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
TAACTTCAGAGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAGAGAGATAAGATC
TCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCC
CTGTAACCTCAGGGTGATAAGAC
Found at i:30494512 original size:88 final size:87
Alignment explanation
Indices: 30493925--30494525 Score: 388
Period size: 88 Copynumber: 6.9 Consensus size: 87
30493915 ATCTGATGTG
** * ** * * *
30493925 ATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAACTTCA
1 ATCTACTCCGCTGTAAC-TCAGAGAGATAAGAT-CTCTGCTTCAATCTGCTCCACTGTAACCTCA
* *
30493990 GAGAGATAGGAT-TACTAGCTTCA
64 GGGAGATAAGATCTACTAGCTTCA
30494013 ATCTACTCCGCTGTAATCTCAGAGAGATAAGATCTCTGCTTCAATCTGCTCCACTGTAACCTCAG
1 ATCTACTCCGCTGTAA-CTCAGAGAGATAAGATCTCTGCTTCAATCTGCTCCACTGTAACCTCAG
* * *
30494078 GGA-ATAAGATCTGA-AATTCTTCG
65 GGAGATAAGATCT-ACTA-GCTTCA
* * * * * * * ** *
30494101 GTCTACTCC-CTGTAACCTCAGGGTGATAAGA-C-CTGATGCGATCTACTCTGCTGTAACTTCAG
1 ATCTACTCCGCTGTAA-CTCAGAGAGATAAGATCTCTGCTTCAATCTGCTCCACTGTAACCTCAG
* * * *
30494163 AGAGATAAGATCCT-TTA-TTTTA
65 GGAGATAAGAT-CTACTAGCTTCA
** ** * * * *
30494185 ATCCGCTCTACTGTAACTTCAGAGAGATAGGAT-TACTAGCTTCAATCTACTCCGCTGTAATCTC
1 ATCTACTCCGCTGTAAC-TCAGAGAGATAAGATCT-CT-GCTTCAATCTGCTCCACTGTAACCTC
* *
30494249 AGAGAGATAAGATCT-CTGGCTTCA
63 AGGGAGATAAGATCTACTAGCTTCA
* * * * * * ** * *
30494273 ATCTGCTCCACTGTAACCTTAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCATTGTAACCT
1 ATCTACTCCGCTGTAA-CTCAGAGAGATAAGATCT---CTGCTTCAATCTGCTCCACTGTAACCT
* * * *
30494338 -AGGGTGATAAGA-C--CT-GATGCG
62 CAGGGAGATAAGATCTACTAGCTTCA
* * ** * * *
30494359 ATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCA
1 ATCTACTCCGCTGTAAC-TCAGAGAGATAAGAT-CTCTGCTTCAATCTGCTCCACTGTAACCTCA
*
30494424 GGGAGATAGGAT-TACTAGCTTCA
64 GGGAGATAAGATCTACTAGCTTCA
*
30494447 ATCTACTCCGCTGTAATCTCAGAAAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCA
1 ATCTACTCCGCTGTAA-CTCAGAGAGATAAGATCTCT-GCTTCAATCTGCTCCACTGTAACCTCA
30494512 GGGAGATAAGATCT
64 GGGAGATAAGATCT
30494526 GAAATTCTTC
Statistics
Matches: 393, Mismatches: 92, Indels: 55
0.73 0.17 0.10
Matches are distributed among these distances:
84 25 0.06
85 53 0.13
86 44 0.11
87 65 0.17
88 170 0.43
89 15 0.04
90 19 0.05
91 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (87 bp):
ATCTACTCCGCTGTAACTCAGAGAGATAAGATCTCTGCTTCAATCTGCTCCACTGTAACCTCAGG
GAGATAAGATCTACTAGCTTCA
Found at i:30506983 original size:23 final size:23
Alignment explanation
Indices: 30506964--30507017 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
30506954 TGTATACACG
30506964 TACATAATAAAAATATATACTAA
1 TACATAATAAAAATATATACTAA
* *
30506987 TACATAATAATAATA-ATAGTAA
1 TACATAATAAAAATATATACTAA
30507009 TAC-TAATAA
1 TACATAATAA
30507018 TACTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 9 0.31
23 14 0.48
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (23 bp):
TACATAATAAAAATATATACTAA
Found at i:30506998 original size:3 final size:3
Alignment explanation
Indices: 30506967--30507037 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
30506957 ATACACGTAC
* * * *
30506967 ATA ATA AAA ATA TATA CTA ATA CATA ATA ATA ATA ATA GTA ATA CTA
1 ATA ATA ATA ATA -ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* *
30507014 ATA ATA CTA ATA AT- ATA AAA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
30507038 CAAGGATATT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:30507521 original size:11 final size:12
Alignment explanation
Indices: 30507501--30507538 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
30507491 AGAAAAAAAA
30507501 GAAGAGAGAGAGG
1 GAAGAGAGA-AGG
30507514 GAAGAGAGAAGG
1 GAAGAGAGAAGG
30507526 G-AGAGAGAAGG
1 GAAGAGAGAAGG
30507537 GA
1 GA
30507539 GGGGGAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:30508014 original size:8 final size:8
Alignment explanation
Indices: 30508001--30508025 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
30507991 GGTGTTCGGC
30508001 GCAAGTGG
1 GCAAGTGG
30508009 GCAAGTGG
1 GCAAGTGG
30508017 GCAAGTGG
1 GCAAGTGG
30508025 G
1 G
30508026 GGGGTAGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.52, T:0.12
Consensus pattern (8 bp):
GCAAGTGG
Found at i:30517754 original size:33 final size:30
Alignment explanation
Indices: 30517675--30517774 Score: 155
Period size: 33 Copynumber: 3.2 Consensus size: 30
30517665 GGTACCTCTC
30517675 TTTTTTTTGTAATGATGTTAAGATAAACTGA
1 TTTTTTTT-TAATGATGTTAAGATAAACTGA
30517706 TTTTTTTTTAATGATGTTAAGATAAACTGCAA
1 TTTTTTTTTAATGATGTTAAGATAAACTG--A
*
30517738 TTTTTGTTTTAGTGATGTTAAGATAAACTGA
1 TTTTT-TTTTAATGATGTTAAGATAAACTGA
30517769 TTTTTT
1 TTTTTT
30517775 AAACCCATTT
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
30 22 0.34
31 14 0.22
32 6 0.09
33 23 0.35
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (30 bp):
TTTTTTTTTAATGATGTTAAGATAAACTGA
Found at i:30521498 original size:69 final size:68
Alignment explanation
Indices: 30521330--30521616 Score: 222
Period size: 69 Copynumber: 4.2 Consensus size: 68
30521320 CGCAAACTAG
* ** * *
30521330 GTTGGAGGCTGCGATTTTTATCTTGTTAGCCCTAGTATGACAGTTGGGAGCTTT-CTTCTCGCTA
1 GTTGGAGGCTGCGATTTTTA-CCTGCAAGCCCTAGTATTACAGCTGGGAGCTTTGC-TCTCGCTA
30521394 ACTA-T
64 AC-AGT
* * * * * * * * *
30521399 GTTAGATGTTGCGATTTTTCACTTGTAAGCCCTAGTATTATAGTTGGGAGCTTTGTTCTCACTAA
1 GTTGGAGGCTGCGATTTTT-ACCTGCAAGCCCTAGTATTACAGCTGGGAGCTTTGCTCTCGCTAA
30521464 CAGT
65 CAGT
* * * *
30521468 GTTGGAGGCTGTGACTTTTTACCTGCAAGCCTTA--ATTGACAGCTAGGAGCTTTGCTCTTGCTA
1 GTTGGAGGCTGCGA-TTTTTACCTGCAAGCCCTAGTATT-ACAGCTGGGAGCTTTGCTCTCGCTA
*
30521531 ACTGT
64 ACAGT
* * * * * * * * *
30521536 GTTAGAGGCTGCGGCTCTTCACCTACGAGCCTTAATATTACAGCTGGGAGTTTTGCTCTCGCTAA
1 GTTGGAGGCTGC-GATTTTTACCTGCAAGCCCTAGTATTACAGCTGGGAGCTTTGCTCTCGCTAA
*
30521601 CTGT
65 CAGT
30521605 GTTGGAGGCTGC
1 GTTGGAGGCTGC
30521617 AACTCTTCCT
Statistics
Matches: 177, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
67 3 0.02
68 49 0.28
69 116 0.66
70 9 0.05
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (68 bp):
GTTGGAGGCTGCGATTTTTACCTGCAAGCCCTAGTATTACAGCTGGGAGCTTTGCTCTCGCTAAC
AGT
Found at i:30521623 original size:69 final size:69
Alignment explanation
Indices: 30521369--30521642 Score: 232
Period size: 69 Copynumber: 4.0 Consensus size: 69
30521359 CCCTAGTATG
* * * * * * * * ** *
30521369 ACAGTTGGGAGCTTT-CTTCTCGCTAACTATGTTAGATGTTGCGATTTTTCACTTGTAAGCCCTA
1 ACAGCTGGGAGCTTTGC-TCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTACAAGCCTTA
*
30521433 GTATT
65 ATATT
* * * * * * * * *
30521438 ATAGTTGGGAGCTTTGTTCTCACTAACAGTGTTGGAGGCTGTGACTTTTTACCTGCAAGCCTTAA
1 ACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTACAAGCCTTAA
*
30521503 T-TG
66 TATT
* * * * *
30521506 ACAGCTAGGAGCTTTGCTCTTGCTAACTGTGTTAGAGGCTGCGGCTCTTCACCTACGAGCCTTAA
1 ACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTACAAGCCTTAA
30521571 TATT
66 TATT
* *
30521575 ACAGCTGGGAGTTTTGCTCTCGCTAACTGTGTTGGAGGCTGCAACTCTTC-CTCTGA-AAGCCTT
1 ACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCAC-CT-ACAAGCCTT
30521638 AATAT
64 AATAT
30521643 GACATAAATG
Statistics
Matches: 163, Mismatches: 38, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
68 54 0.33
69 108 0.66
70 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.35
Consensus pattern (69 bp):
ACAGCTGGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCACCTACAAGCCTTAA
TATT
Found at i:30528205 original size:17 final size:17
Alignment explanation
Indices: 30528183--30528220 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
30528173 GATTGAAACC
30528183 TAAAACCCCAT-TTAATT
1 TAAAA-CCCATATTAATT
*
30528200 TAAAACCCTTATTAATT
1 TAAAACCCATATTAATT
30528217 TAAA
1 TAAA
30528221 TAATTATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (17 bp):
TAAAACCCATATTAATT
Found at i:30528308 original size:89 final size:89
Alignment explanation
Indices: 30528146--30528315 Score: 259
Period size: 89 Copynumber: 1.9 Consensus size: 89
30528136 TACAAAGCCT
* *
30528146 TAACAATCGACGAGGTTAATTCGGAATGATTGAAACCTAAAACCCCATTTAATTTAAAACCCTTA
1 TAACAATCGACGAGGTTAATTCGGAATGATTGAAACCCAAAACCCCATTTAATTTAAAACCCGTA
*
30528211 TTAATTTAAATAATTATAAAATCC
66 ATAATTTAAATAATTATAAAATCC
* * * *
30528235 TAACAATCGAGGAGGTTAGTTCGGATTGATTGAAACCCAAAACCCCATTTAATTTGAAACCCGTA
1 TAACAATCGACGAGGTTAATTCGGAATGATTGAAACCCAAAACCCCATTTAATTTAAAACCCGTA
* *
30528300 ATAGTTTAAATGATTA
66 ATAATTTAAATAATTA
30528316 AACCCAAAAC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.40, C:0.16, G:0.13, T:0.31
Consensus pattern (89 bp):
TAACAATCGACGAGGTTAATTCGGAATGATTGAAACCCAAAACCCCATTTAATTTAAAACCCGTA
ATAATTTAAATAATTATAAAATCC
Found at i:30529440 original size:3 final size:3
Alignment explanation
Indices: 30529432--30529457 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
30529422 ATTGAGATTG
30529432 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
30529458 TGTGATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:30529976 original size:21 final size:21
Alignment explanation
Indices: 30529950--30529997 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
30529940 GACTGCTAAC
30529950 TTTATTGAGTACATAATAATA
1 TTTATTGAGTACATAATAATA
* * *
30529971 TTTATTGATTATATAATAGTA
1 TTTATTGAGTACATAATAATA
30529992 TTTATT
1 TTTATT
30529998 TTAGATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (21 bp):
TTTATTGAGTACATAATAATA
Found at i:30530010 original size:24 final size:21
Alignment explanation
Indices: 30529950--30530011 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
30529940 GACTGCTAAC
* *
30529950 TTTATTGAGTACATAATAATA
1 TTTATTGATTAAATAATAATA
* *
30529971 TTTATTGATTATATAATAGTA
1 TTTATTGATTAAATAATAATA
30529992 TTTATTTTAGATTAAATAAT
1 TTTA--TT-GATTAAATAAT
30530012 TTAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.65
23 2 0.06
24 10 0.29
ACGTcount: A:0.40, C:0.02, G:0.08, T:0.50
Consensus pattern (21 bp):
TTTATTGATTAAATAATAATA
Found at i:30533331 original size:50 final size:50
Alignment explanation
Indices: 30533256--30533350 Score: 127
Period size: 50 Copynumber: 1.9 Consensus size: 50
30533246 CTCTAGTCTA
* * * * *
30533256 TGTGACTCTAAATCCAATAGAGTGAGTTATACGGCCTAGACACACACCCG
1 TGTGACCCTAAAGCCAAAACAGTGAGTTACACGGCCTAGACACACACCCG
* *
30533306 TGTGACCCTAAAGCCAAAACAGTGAGTTACACGGCTTGGACACAC
1 TGTGACCCTAAAGCCAAAACAGTGAGTTACACGGCCTAGACACAC
30533351 GCCTGTATCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (50 bp):
TGTGACCCTAAAGCCAAAACAGTGAGTTACACGGCCTAGACACACACCCG
Found at i:30533411 original size:63 final size:63
Alignment explanation
Indices: 30533306--30533451 Score: 202
Period size: 63 Copynumber: 2.3 Consensus size: 63
30533296 CACACACCCG
* * * * * * * *
30533306 TGTGACCCTAAAGCCAAAACAGTGAGTTACACGGCTTGGACACACGCCTGTATCCTTGGCCCA
1 TGTGACCCTAAAGCCAAAACAATGAGTTACACGACCTAGACACACACATATATCCCTGGCCCA
* *
30533369 TGTGACCTTAAAGCCAAAACAATGAGTTACACGACCTAGACACACACATATGTCCCTGGCCCA
1 TGTGACCCTAAAGCCAAAACAATGAGTTACACGACCTAGACACACACATATATCCCTGGCCCA
30533432 TGTGACCCTAAAGCCAAAAC
1 TGTGACCCTAAAGCCAAAAC
30533452 CATACGACCA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 72 1.00
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.19
Consensus pattern (63 bp):
TGTGACCCTAAAGCCAAAACAATGAGTTACACGACCTAGACACACACATATATCCCTGGCCCA
Found at i:30538180 original size:12 final size:12
Alignment explanation
Indices: 30538087--30538184 Score: 53
Period size: 12 Copynumber: 8.1 Consensus size: 12
30538077 ATCTTGTAGA
*
30538087 TAAATATTAAAC
1 TAAATATTAAAT
30538099 TAAAT-TTAATAT
1 TAAATATTAA-AT
* *
30538111 TAAGATAATCAAT
1 TAA-ATATTAAAT
*
30538124 TTAATATTAAAT
1 TAAATATTAAAT
**
30538136 TAATATAGTTGTAT
1 TAA-ATA-TTAAAT
30538150 T-AATA-TAAGTAT
1 TAAATATTAA--AT
30538162 T-AA-ATTAAAT
1 TAAATATTAAAT
30538172 TAAATATTAAAT
1 TAAATATTAAAT
30538184 T
1 T
30538185 TATTAAAATA
Statistics
Matches: 65, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
10 4 0.06
11 7 0.11
12 37 0.57
13 10 0.15
14 7 0.11
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:30538194 original size:17 final size:17
Alignment explanation
Indices: 30538087--30538184 Score: 62
Period size: 17 Copynumber: 5.8 Consensus size: 17
30538077 ATCTTGTAGA
*
30538087 TAAATATTAAACTAAAT
1 TAAATATTAAATTAAAT
*
30538104 TTAATATTAAGA-T-AA-
1 TAAATATTAA-ATTAAAT
*
30538119 TCAAT-TTAATATTAAAT
1 TAAATATTAA-ATTAAAT
**
30538136 TAATATAGTTGTATT-AAT
1 TAA-ATA-TTAAATTAAAT
*
30538154 ATAAGTATTAAATTAAAT
1 -TAAATATTAAATTAAAT
30538172 TAAATATTAAATT
1 TAAATATTAAATT
30538185 TATTAAAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
14 5 0.08
15 5 0.08
16 4 0.06
17 29 0.47
18 11 0.18
19 6 0.10
20 2 0.03
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (17 bp):
TAAATATTAAATTAAAT
Found at i:30544308 original size:265 final size:265
Alignment explanation
Indices: 30543356--30545436 Score: 2476
Period size: 265 Copynumber: 7.9 Consensus size: 265
30543346 TGTTGTGCAT
* * * * * *
30543356 GTGCCTTTATGTTGATCATTACAAATCTTATTCTAACCTTGTTTTGCTAGTTGTTGTTTCTCCAT
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCCAT
* * *
30543421 AAGGGTAATGATTCCTCATACTTTATGCGGTGTGCTTACGTATTTG-CCTTAATATAATACTGAA
66 AAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAG
* ** * * * *
30543485 GGAACCTCTCTTTACTTTTCACACGTTCAATCGAAATTTGAGGGAATAAGAACATAATTACACAT
131 GGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATTACACAG
* * * * * *
30543550 GTGAAATTCAGTATTGATAACTTATTGAGACCAAATGTTGTGCAAGCGTGATTTATAGCCCGAGA
196 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGA
30543615 CATAC
261 CATAC
* * *
30543620 GTGGCTTCACATTGATCATTACAAATCTTATTCTAATC-TTTTTTGTCAGTTGTTGTTGCTCCAT
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCCAT
* * * *
30543684 AAGGGTAATGATGCCTCATACTTTATGCAGCGTGTTTACGTATTTGCCCTTAATATAATACTGAG
66 AAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAG
* * ** * *
30543749 GGAAGCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGCGAACTAGAAAATAATTCCACAG
131 GGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATTACACAG
* * * * **
30543814 GTGAAATTAAGTATTGATAACTTCTTAAGGTCAAATGTTGTACAAGTATGATTTATAGTCTGAGA
196 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGA
**
30543879 TTTAC
261 CATAC
* * * * **
30543884 GTGCCTTCACGTTCATCATTAAAAATCTTATTCTAAT-TTTTTTTACCAATTGTTGTT-CTTTTA
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGC-TCCA
* * * **
30543947 TAAGGGTGATGGTTCTTCATACTTTATGCGGTGTGTTCCCGTATTTGCCCTTAACATAATACTGA
65 TAAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGA
* * * *
30544012 GGGGACCT-CCTATTGATTTTCACATGTTCAACCAAAATTT-AGAGGAAGAAGAACATAGTTACA
130 GGGAACCTCCCT-TTGTTTTTCACACGTTCAACCAAAATTTGAG-GGAAGAAGAACATAATTACA
* * * * *
30544075 CATGTGAAAGTAAGTATTGATAACTTTTTGAGGCCAAATGTTGTGCAAACATGATTTATAGTTCA
193 CAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCA
30544140 AGACATAC
258 AGACATAC
* * *
30544148 GTGTCTTCACGTTGATCATTACAAATCCTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCTAT
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCCAT
** * * * * *
30544213 AAGGGTAATGATTATTTATACTTTATGCGGTGTGTTTATGTATTTGCTCTTAACATAATTCTGAA
66 AAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAG
* * * * *
30544278 GGAACCTCCCTTTATTTTTCACATGTTCAACCGAAATTTGAGGGAAGAAGAACGTAATTACACAA
131 GGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATTACACAG
* * *
30544343 GTGAAATTAAGTATTGATAACTTCTTGAGGCTAAATATTGTGCAAGCATGATGTATAGTCCAAGA
196 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGA
30544408 CATAC
261 CATAC
* * * * * * *
30544413 GTGTCTTCACATTCATGATTACAAATTTTATTCTAAT-TTTTTTTGGCA---ATTGTTGCTCCAT
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCCAT
* * * * * *
30544474 AAGGGCAATGATTCCTCATACTTTATGAGATATATTTACATATTT-CCCTTAACATAATACTGAG
66 AAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAG
* * * * *
30544538 GGAACCTCCATTTGTTTTTTACACATTCAACTAGAAA-TTGAGGGAAAAAGAACATAATTACACA
131 GGAACCTCCCTTTGTTTTTCACACGTTCAACCA-AAATTTGAGGGAAGAAGAACATAATTACACA
30544602 GGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAG
195 GGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAG
30544667 ACATAC
260 ACATAC
* * * * * * * *
30544673 GTGCTTTCATGTTGATCATTACAAATCTTGTTCTAATCTTGTTTTACTAGTTTTTGTTGCTCTAT
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCCAT
** * ** * * * *
30544738 AAAAGTAATGATTCGTCATACTTTATGCAATGTGTTTACATACTCGCCCTTAACATAATATTGAG
66 AAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAG
* * *
30544803 GGAACCTCCCTTCGCTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAG
131 GGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATTACACAG
* * *
30544868 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAGCATGATTTATAATGCAAGA
196 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGA
*
30544933 CATAT
261 CATAC
* * * * **
30544938 GTGCCTTCATGATGATCATTACAAATCTTGTTTTAATCTTTTTTTGTTAGTTGTTGTTGC-CCTA
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCC-A
* * * * *
30545002 GAAGGGTAATGATTTCTTATACTTTATGCAGTGTGTTTTCGTATTTGCCCTTAACATAATACTGA
65 TAAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGA
* * * * ** * * * * *
30545067 AGGAACCTACTTTTGCTTTTCACACGTTCAACTGAAATTTGAGTGAAGGAGAATATAAATCCACA
130 GGGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATTACACA
**
30545132 GGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTATAAGC-------ATAGTCCGAA
195 GGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCC-AA
*
30545190 -ACACAC
259 GACATAC
* * * *
30545196 ATGCCTTCACATTGATCATCACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTGCTCCAT
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCCAT
* * * * * *
30545261 AAGGGTAATGATTCCTTATACTTTATGCGATGTTTTTATGTATTTACCCTTAATATAATACTGAG
66 AAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAG
* * **
30545326 GGAAGCTCCATTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAATGTAATTACACAG
131 GGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATTACACAG
* * *
30545391 GTGAAATTAAGTATTGATAAGTTCTTGAGGCTAAATGTTATGCAAG
196 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAG
30545437 GGAGATTCTA
Statistics
Matches: 1546, Mismatches: 252, Indels: 44
0.84 0.14 0.02
Matches are distributed among these distances:
258 213 0.14
259 4 0.00
260 163 0.11
261 56 0.04
263 70 0.05
264 467 0.30
265 567 0.37
266 6 0.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (265 bp):
GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCCAT
AAGGGTAATGATTCCTCATACTTTATGCGGTGTGTTTACGTATTTGCCCTTAACATAATACTGAG
GGAACCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAACATAATTACACAG
GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGA
CATAC
Found at i:30544903 original size:790 final size:789
Alignment explanation
Indices: 30543356--30545436 Score: 2657
Period size: 790 Copynumber: 2.6 Consensus size: 789
30543346 TGTTGTGCAT
* * * * * *
30543356 GTGCCTTTATGTTGATCATTACAAATCTTATTCTAACCTTGTTTTGCTAGTTGTTGTTTCTCCAT
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTGCTCTAT
* * * * *
30543421 AAGGGTAATGATTCCTCATACTTTATGCGGTGTGCTTACGTATTTGCCTTAATATAATACTGAAG
66 AAGGGTAATGATT-TTTATACTTTATGCGGTGTGTTTATGTATTTGCCTTAACATAATACTGAAG
* * * *
30543486 GAACCTCTCTTTACTTTTCACACGTTCAATCGAAATTTGAGGGAATAAGAACATAATTACACATG
130 GAACCTCCCTTTACTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAAG
* * * * * * *
30543551 TGAAATTCAGTATTGATAACTTATTGAGACCAAATGTTGTGCAAGCGTGATTTATAGCCCGAGAC
195 TGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATGTATAGTCCAAGAC
* * *
30543616 ATACGTGGCTTCACATTGATCATTACAAATCTTATTCTAATCTTTTTTGTCAGTTGTTGTTGCTC
260 ATACGTGCCTTCACATTGATCATTACAAATCTTATTCTAATTTTTTTTGGCA--TGTTGTTGCTC
* * * *
30543681 CATAAGGGTAATGATGCCTCATACTTTATGCAG-CGTGTTTACGTATTTGCCCTTAATATAATAC
323 CATAAGGGTAATGATTCCTCATACTTTATG-AGATGTATTTACGTATTTACCCTTAATATAATAC
* * ** *
30543745 TGAGGGAAGCTCCCTTTGTTTTTCACACGTTCAACCAAAATTTGAGCGAACTAGAAAATAATTCC
387 TGAGGGAAGCTCCATTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAAAAGAAAATAATTAC
* * * * *
30543810 ACAGGTGAAATTAAGTATTGATAACTTCTTAAGGTCAAATGTTGTACAAGTATGATTTATAGTCT
452 ACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCC
* ** *
30543875 GAGATTTACGTGCCTTCACGTTCATCATTAAAAATCTTATTCTAATTTTTTTTACCAATTGTTGT
517 AAGACATACGTGCCTTCACGTTCATCATTAAAAATCTTATTCTAATTTGTTTTACCAATTGTTGT
* ** * * * ** * * * *
30543940 TCTTTTATAAGGGTGATGGTTCTTCATACTTTATGCGGTGTGTTCCCGTATTTGCCCTTAACATA
582 TCTTCTATAAAAGTAATGATTCGTCATACTTTATGCAATGTGTTCACATACTCGCCCTTAACATA
* * * *
30544005 ATACTGAGGGGACCTCCTATTGATTTTCACATGTTCAACCAAAATTTAGAGGAAGAAGAACATAG
647 ATACTGAGGGAACCTCCTATCGATTTTCACACGTTCAACCAAAATTTAGAGGAAGAAGAACATAA
* * *
30544070 TTACACATGTGAAAGTAAGTATTGATAACTTTTTGAGGCCAAATGTTGTGCAAACATGATTTATA
712 TTACACAGGTGAAAGTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAACATGATTTATA
* *
30544135 GTTCAAGACATAC
777 ATGCAAGACATAC
* * *
30544148 GTGTCTTCACGTTGATCATTACAAATCCTATTCTAATCTTTTTTTGCCAGTTGTTGTTGCTCTAT
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTGCTCTAT
*
30544213 AAGGGTAATGATTATTTATACTTTATGCGGTGTGTTTATGTATTTGCTCTTAACATAATTCTGAA
66 AAGGGTAATGATT-TTTATACTTTATGCGGTGTGTTTATGTATTTGC-CTTAACATAATACTGAA
* * *
30544278 GGAACCTCCCTTTATTTTTCACATGTTCAACCGAAATTTGAGGGAAGAAGAACGTAATTACACAA
129 GGAACCTCCCTTTACTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAA
* *
30544343 GTGAAATTAAGTATTGATAACTTCTTGAGGCTAAATATTGTGCAAGCATGATGTATAGTCCAAGA
194 GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATGTATAGTCCAAGA
* * * * *
30544408 CATACGTGTCTTCACATTCATGATTACAAATTTTATTCTAATTTTTTTTGGCA-ATTGTTGCTCC
259 CATACGTGCCTTCACATTGATCATTACAAATCTTATTCTAATTTTTTTTGGCATGTTGTTGCTCC
* * * *
30544472 ATAAGGGCAATGATTCCTCATACTTTATGAGATATATTTACATATTT-CCCTTAACATAATACTG
324 ATAAGGGTAATGATTCCTCATACTTTATGAGATGTATTTACGTATTTACCCTTAATATAATACTG
* * * * *
30544536 AGGGAACCTCCATTTGTTTTTTACACATTCAACTAGAAA-TTGAGGGAAAAAGAACATAATTACA
389 AGGGAAGCTCCATTTGTTTTTCACACGTTCAACCA-AAATTTGAGGGAAAAAGAAAATAATTACA
30544600 CAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCA
453 CAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCA
* * * * * * * *
30544665 AGACATACGTGCTTTCATGTTGATCATTACAAATCTTGTTCTAATCTTGTTTTACTAGTTTTTGT
518 AGACATACGTGCCTTCACGTTCATCATTAAAAATCTTATTCTAAT-TTGTTTTACCAATTGTTGT
*
30544730 TGC-TCTATAAAAGTAATGATTCGTCATACTTTATGCAATGTGTTTACATACTCGCCCTTAACAT
582 T-CTTCTATAAAAGTAATGATTCGTCATACTTTATGCAATGTGTTCACATACTCGCCCTTAACAT
* * *
30544794 AATATTGAGGGAACCTCCCT-TCGCTTTTCACACGTTCAACCGAAATTT-GAGGGAAGAAGAACA
646 AATACTGAGGGAACCT-CCTATCGATTTTCACACGTTCAACCAAAATTTAGA-GGAAGAAGAACA
* *
30544857 TAATTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAGCATGATTT
709 TAATTACACAGGTGAAAGTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAACATGATTT
*
30544922 ATAATGCAAGACATAT
774 ATAATGCAAGACATAC
* * * * * * *
30544938 GTGCCTTCATGATGATCATTACAAATCTTGTTTTAATCTTTTTTTGTTAGTTGTTGTTGCCCTAG
1 GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTGCTCTAT
*
30545003 AAGGGTAATGATTTCTTATACTTTATGCAGTGTGTTT-TCGTATTTGCCCTTAACATAATACTGA
66 AAGGGTAATGATTT-TTATACTTTATGCGGTGTGTTTAT-GTATTTG-CCTTAACATAATACTGA
* * * * * * * * *
30545067 AGGAACCTACTTTTGCTTTTCACACGTTCAACTGAAATTTGAGTGAAGGAGAATATAAATCCACA
128 AGGAACCTCCCTTTACTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACA
* * *
30545132 GGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGT------AT-AAGCATAGTCCGAA
193 AGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATGTATAGTCC-AA
* * *
30545190 -ACACACATGCCTTCACATTGATCATCACAAATCTTATTCTAATCTTTTTTT-GCTAGTTGTTGT
257 GACATACGTGCCTTCACATTGATCATTACAAATCTTATTCTAAT-TTTTTTTGGC-A--TGTTGT
* * * *
30545253 TGCTCCATAAGGGTAATGATTCCTTATACTTTATGCGATGTTTTTATGTATTTACCCTTAATATA
318 TGCTCCATAAGGGTAATGATTCCTCATACTTTATGAGATGTATTTACGTATTTACCCTTAATATA
* **
30545318 ATACTGAGGGAAGCTCCATTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAGAAGAATGTAA
383 ATACTGAGGGAAGCTCCATTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAAAAGAAAATAA
* * *
30545383 TTACACAGGTGAAATTAAGTATTGATAAGTTCTTGAGGCTAAATGTTATGCAAG
448 TTACACAGGTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAG
30545437 GGAGATTCTA
Statistics
Matches: 1115, Mismatches: 156, Indels: 40
0.85 0.12 0.03
Matches are distributed among these distances:
783 47 0.04
784 12 0.01
787 53 0.05
788 115 0.10
789 169 0.15
790 440 0.39
791 5 0.00
792 98 0.09
793 176 0.16
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (789 bp):
GTGCCTTCACGTTGATCATTACAAATCTTATTCTAATCTTTTTTTGCTAGTTGTTGTTGCTCTAT
AAGGGTAATGATTTTTATACTTTATGCGGTGTGTTTATGTATTTGCCTTAACATAATACTGAAGG
AACCTCCCTTTACTTTTCACACGTTCAACCGAAATTTGAGGGAAGAAGAACATAATTACACAAGT
GAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATGTATAGTCCAAGACA
TACGTGCCTTCACATTGATCATTACAAATCTTATTCTAATTTTTTTTGGCATGTTGTTGCTCCAT
AAGGGTAATGATTCCTCATACTTTATGAGATGTATTTACGTATTTACCCTTAATATAATACTGAG
GGAAGCTCCATTTGTTTTTCACACGTTCAACCAAAATTTGAGGGAAAAAGAAAATAATTACACAG
GTGAAATTAAGTATTGATAACTTCTTGAGGCCAAATGTTGTGCAAGCATGATTTATAGTCCAAGA
CATACGTGCCTTCACGTTCATCATTAAAAATCTTATTCTAATTTGTTTTACCAATTGTTGTTCTT
CTATAAAAGTAATGATTCGTCATACTTTATGCAATGTGTTCACATACTCGCCCTTAACATAATAC
TGAGGGAACCTCCTATCGATTTTCACACGTTCAACCAAAATTTAGAGGAAGAAGAACATAATTAC
ACAGGTGAAAGTAAGTATTGATAACTTCTTGAGGCCAAATGTTATGCAAACATGATTTATAATGC
AAGACATAC
Found at i:30549626 original size:17 final size:17
Alignment explanation
Indices: 30549606--30549638 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30549596 TAGAATTAGG
30549606 TTGAGAAAATAATTTAA
1 TTGAGAAAATAATTTAA
*
30549623 TTGAGAAATTAATTTA
1 TTGAGAAAATAATTTA
30549639 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:30549645 original size:9 final size:9
Alignment explanation
Indices: 30549629--30549705 Score: 86
Period size: 9 Copynumber: 8.7 Consensus size: 9
30549619 TTAATTGAGA
30549629 AATTAATTT
1 AATTAATTT
*
30549638 AGTTAATTT
1 AATTAATTT
*
30549647 AATTAATTA
1 AATTAATTT
*
30549656 AATTAATTA
1 AATTAATTT
30549665 AATTAATTT
1 AATTAATTT
*
30549674 AGTTAATTT
1 AATTAATTT
*
30549683 TATTAA-TT
1 AATTAATTT
30549691 AATTTAATTT
1 AA-TTAATTT
30549701 -ATTAA
1 AATTAA
30549706 ATAAATAATA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
8 7 0.12
9 49 0.84
10 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (9 bp):
AATTAATTT
Found at i:30549704 original size:13 final size:13
Alignment explanation
Indices: 30549640--30549705 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
30549630 ATTAATTTAG
30549640 TTAATTTAATTAAT
1 TTAATTT-ATTAAT
* * *
30549654 TAAATTAATTAAA
1 TTAATTTATTAAT
30549667 TTAATTTAGTTAAT
1 TTAATTTA-TTAAT
* *
30549681 TTTATTAATTAAT
1 TTAATTTATTAAT
30549694 TTAATTTATTAA
1 TTAATTTATTAA
30549706 ATAAATAATA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
13 26 0.63
14 15 0.37
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TTAATTTATTAAT
Found at i:30557092 original size:16 final size:16
Alignment explanation
Indices: 30557073--30557105 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
30557063 GCCGTGTAAC
30557073 TCTCTAACTTAGGTTA
1 TCTCTAACTTAGGTTA
30557089 TCTCTAACTTAGGTTA
1 TCTCTAACTTAGGTTA
30557105 T
1 T
30557106 ATGGCCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.45
Consensus pattern (16 bp):
TCTCTAACTTAGGTTA
Found at i:30558544 original size:26 final size:25
Alignment explanation
Indices: 30558473--30558555 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 25
30558463 CTGTATAACG
* *
30558473 GGAAGTTCATAAAAGCC-TAAATCA
1 GGAAGCTCATAAAAGCCTTTAATCA
* * * *
30558497 GGAAGTTCACAAAGAACTTTTAATCA
1 GGAAGCTCATAAA-AGCCTTTAATCA
30558523 GGAAGCTCATGAAAAGCCTTTAATCA
1 GGAAGCTCAT-AAAAGCCTTTAATCA
30558549 GG-AGCTC
1 GGAAGCTC
30558556 CGGATAGCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
24 12 0.25
25 7 0.15
26 26 0.54
27 3 0.06
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (25 bp):
GGAAGCTCATAAAAGCCTTTAATCA
Found at i:30562193 original size:28 final size:29
Alignment explanation
Indices: 30562155--30562221 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
30562145 AATAAACACC
*
30562155 AAAAATTTATTTTAAAAATA-AAAAAATA
1 AAAAAATTATTTTAAAAATATAAAAAATA
*
30562183 AAAAAATTATTTTAAAAATATTTTAAAAATA
1 AAAAAATTATTTTAAAAATA--TAAAAAATA
30562214 AAAAAATT
1 AAAAAATT
30562222 TATTATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 19 0.56
31 15 0.44
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (29 bp):
AAAAAATTATTTTAAAAATATAAAAAATA
Found at i:30562201 original size:12 final size:12
Alignment explanation
Indices: 30562184--30562212 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
30562174 AAAAAAATAA
30562184 AAAAATTATTTT
1 AAAAATTATTTT
30562196 AAAAA-TATTTT
1 AAAAATTATTTT
30562207 AAAAAT
1 AAAAAT
30562213 AAAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAAATTATTTT
Found at i:30566512 original size:22 final size:21
Alignment explanation
Indices: 30566479--30566521 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
30566469 AATTTGTAAA
*
30566479 AAAATTATTATAAAAATAATT
1 AAAATTAATATAAAAATAATT
**
30566500 AAAATTAAATATATTAATAATT
1 AAAATT-AATATAAAAATAATT
30566522 TAAGTACAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATTAATATAAAAATAATT
Found at i:30566553 original size:27 final size:28
Alignment explanation
Indices: 30566501--30566553 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
30566491 AAAATAATTA
*
30566501 AAATTAAATATATTAATAATTTAAGTAC
1 AAATTAAATATATTAATAATTAAAGTAC
* *
30566529 AAATTAATTAT-TTTATAATTAAAGT
1 AAATTAAATATATTAATAATTAAAGT
30566554 GTGAATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (28 bp):
AAATTAAATATATTAATAATTAAAGTAC
Found at i:30569450 original size:18 final size:18
Alignment explanation
Indices: 30569429--30569498 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
30569419 GTATGCACTC
30569429 CATGCATTCCATGCAAAA
1 CATGCATTCCATGCAAAA
**
30569447 CATGCATTCCATGCAACC
1 CATGCATTCCATGCAAAA
* * * *
30569465 CATGTATTTCATACAAAT
1 CATGCATTCCATGCAAAA
*
30569483 CATGCATCCCATGCAA
1 CATGCATTCCATGCAA
30569499 TGTGCTGCAT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.34, C:0.30, G:0.10, T:0.26
Consensus pattern (18 bp):
CATGCATTCCATGCAAAA
Found at i:30569468 original size:36 final size:36
Alignment explanation
Indices: 30569428--30569498 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
30569418 GGTATGCACT
* *
30569428 CCATGCATTCCATGCAAAACATGCATTCCATGCAAC
1 CCATGCATTCCATACAAAACATGCATCCCATGCAAC
* * *
30569464 CCATGTATTTCATACAAATCATGCATCCCATGCAA
1 CCATGCATTCCATACAAAACATGCATCCCATGCAA
30569499 TGTGCTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.25
Consensus pattern (36 bp):
CCATGCATTCCATACAAAACATGCATCCCATGCAAC
Found at i:30574968 original size:8 final size:8
Alignment explanation
Indices: 30574957--30574999 Score: 52
Period size: 8 Copynumber: 5.5 Consensus size: 8
30574947 GAAAATACAA
30574957 AAAAAAAG
1 AAAAAAAG
30574965 AAAAAAA-
1 AAAAAAAG
* *
30574972 CAAAAAAC
1 AAAAAAAG
30574980 AAAAAAAG
1 AAAAAAAG
*
30574988 AAAAAAAT
1 AAAAAAAG
30574996 AAAA
1 AAAA
30575000 TAATATGTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.88, C:0.05, G:0.05, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:30576094 original size:21 final size:21
Alignment explanation
Indices: 30576048--30576095 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
30576038 CTAATTGTCA
*
30576048 CTTTCGTTCATCAATTCTTTT
1 CTTTTGTTCATCAATTCTTTT
*
30576069 ATTTTGTTCATCAATT-TTCTT
1 CTTTTGTTCATCAATTCTT-TT
30576090 CTTTTG
1 CTTTTG
30576096 CTCCATTTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.15, C:0.19, G:0.06, T:0.60
Consensus pattern (21 bp):
CTTTTGTTCATCAATTCTTTT
Found at i:30579496 original size:850 final size:850
Alignment explanation
Indices: 30577856--30579558 Score: 2962
Period size: 850 Copynumber: 2.0 Consensus size: 850
30577846 TCGTTTTAGG
* * * *
30577856 ATCACTTCAGTGGTCAATGTAACTTCTGAAATTCGGCTGAAACTTCTAGGTTGGGTTTTGGGGTG
1 ATCACTTCAGTGGTCAATGTAACTTCTGAAATCCGACTGAAACTTATAGGTTGGGTTTTGAGGTG
* *
30577921 CTATAATAAGGTTGATTAGCCTCGTCTTCATGTAAATAATGCTCAACGTGTGTCTCGTGCAAATG
66 CTACAATAAGGTTGATCAGCCTCGTCTTCATGTAAATAATGCTCAACGTGTGTCTCGTGCAAATG
30577986 ATGAGACTTTGGTTATTAATGACTGTATGCAACATTTTTAGCTAAACCAAAGTTCAACAATCCAC
131 ATGAGACTTTGGTTATTAATGACTGTATGCAACATTTTTAGCTAAACCAAAGTTCAACAATCCAC
30578051 CATTTCGAGGGAAGTATGATCCCAAAGCATATTGTGAGTGGGAATAGAAAATTGAACTTATGTTT
196 CATTTCGAGGGAAGTATGATCCCAAAGCATATTGTGAGTGGGAATAGAAAATTGAACTTATGTTT
*
30578116 CGTTACTATAAATTTTGGGAAGAGGAAAAAGTCCAATTGACGACCCTTGGATTTTAAGATTATGC
261 CGTTACTATAAATTTTGGGAAGAGGAAAAAGTCCAATTGACGACCCTTGGATTTTAAGATCATGC
* *
30578181 ATTGAGTTGGTGGATTCAACTAGGAATTGATCGTCAAAGAAACCACGAAAGGGTAATTGAAACAT
326 ATTGAGTTAGTGGATTCAACTAGGAATTGATCATCAAAGAAACCACGAAAGGGTAATTGAAACAT
* * *
30578246 GGGACAAGTTGAAGCAAATGATATGAAAGCGTTATGTTCTTCCTCATTACTATAGAGAGGTCTCA
391 GGGACAAGTTGAAGCAAATGATACGAAAGCGTTACGTTCTTCCTCATTACCATAGAGAGGTCTCA
* *
30578311 ACGAGACTTCAACACCTTGTTAAAGGTAATCGATCTCTTGATGAGTACTTTAAGGAGATAAAGAT
456 ACGAGACTTCAACACCTTGTTAAAGGTAATCGATCTCTTGATGAGTACTTTAAAGACATAAAGAT
* * *
30578376 GCTTATGCAAAGAGAAAATATACGAGAGGATGAAGAAACTACCATCGTGTAATTTATAGATGGCT
521 GCTTATGCAAAGAGAAAATATACGAGAGGACGAAGAAAATACCATCGTGCAATTTATAGATGGCT
* *
30578441 TGAATATTTTGATAGCCAATGCTCTTAATCTTCAAACCTATATTGATCTTGAGGAGATGGTACAC
586 TGAATAGTTCGATAGCCAATGCTCTTAATCTTCAAACCTATATTGATCTTGAGGAGATGGTACAC
*
30578506 AAGACAATTGAGATTGAGCAACAATTTCAGCAACATTAATCTCGTCCATTTGGCGCATCACACTA
651 AAGACAATTGAGATTGAGCAACAATTTCAGCAACATCAATCTCGTCCATTTGGCGCATCACACTA
30578571 TTATCGAGGTACAAGTTCTAATTCTAATTTCAACAATTTGAAACCTTCTTATGCTATTAATAAGT
716 TTATCGAGGTACAAGTTCTAATTCTAATTTCAACAATTTGAAACCTTCTTATGCTATTAATAAGT
*
30578636 TATTTCCAAAACATGCTGAGACTAAACCTTTTGAGTAGAAAAGTGGAGCTCTTACAAAACATTCT
781 TATTTCCAAAACATGCTGAGACTAAACCTTTTGAGTAGAAAAGTGGAGCTCCTACAAAACATTCT
30578701 ACTAC
846 ACTAC
* *
30578706 ATCACTTTAGTGGTCAATGTAACCTT-TGAGATCCGACTGAAACTTATAGGTTGGGTTTTGAGGT
1 ATCACTTCAGTGGTCAATGTAA-CTTCTGAAATCCGACTGAAACTTATAGGTTGGGTTTTGAGGT
*
30578770 GTTACAATAAGGTTGATCAGCCTCGTCTTCATGTAAATAATGCTCAACGTGTGTCTCGTGCAAAT
65 GCTACAATAAGGTTGATCAGCCTCGTCTTCATGTAAATAATGCTCAACGTGTGTCTCGTGCAAAT
30578835 GATGAGACTTTGGTTATTAATGACTGTATGCAACATTTTTAGCTAAACCAAAGTTCAACAATCCA
130 GATGAGACTTTGGTTATTAATGACTGTATGCAACATTTTTAGCTAAACCAAAGTTCAACAATCCA
*
30578900 CCATTTCGAGGGACGTATGATCCCAAAGCATATTGTGAGTGGGAATAGAAAATTGAACTTATGTT
195 CCATTTCGAGGGAAGTATGATCCCAAAGCATATTGTGAGTGGGAATAGAAAATTGAACTTATGTT
*
30578965 TCGTTACTATAAATTTTGGGAAGAGGAAAAAGTCCAATTGGCGACCCTTGGATTTTAAGATCATG
260 TCGTTACTATAAATTTTGGGAAGAGGAAAAAGTCCAATTGACGACCCTTGGATTTTAAGATCATG
* * * *
30579030 CATTGAGTTAGTGGATTTAACTTGGAATTGATCATCAAAGAAACCGCTAAAGGGTAATTGAAACA
325 CATTGAGTTAGTGGATTCAACTAGGAATTGATCATCAAAGAAACCACGAAAGGGTAATTGAAACA
*
30579095 TGGGACAAGTTGAAGCAAGTGATACGAAAGCGTTACGTTCCTT-CTCATTACCATAGAGAGGTCT
390 TGGGACAAGTTGAAGCAAATGATACGAAAGCGTTACGTT-CTTCCTCATTACCATAGAGAGGTCT
* *
30579159 CAACGAGACTTCAACACCTTGTTCAAGGTAATCGATCTGTTGATGAGTACTTTAAAGACATAAAG
454 CAACGAGACTTCAACACCTTGTTAAAGGTAATCGATCTCTTGATGAGTACTTTAAAGACATAAAG
* * * *
30579224 ATGCTTATGCAAAGGGCAAATATACGAGAGGACGAAGAAAATAGCA-CGGTGCAATTTGTAGATG
519 ATGCTTATGCAAAGAGAAAATATACGAGAGGACGAAGAAAATACCATC-GTGCAATTTATAGATG
*
30579288 GCTTGAATGGTTCGATAGCCAATGCTCTTAATCTTCAAACCTATATTGATCTTGAGGAGATGGTA
583 GCTTGAATAGTTCGATAGCCAATGCTCTTAATCTTCAAACCTATATTGATCTTGAGGAGATGGTA
* * *
30579353 CACAAGACAATTGAGTTTGAGCAACAATTTCAGCAACGTCAATGTCGTCCATTTGGCGCATCACA
648 CACAAGACAATTGAGATTGAGCAACAATTTCAGCAACATCAATCTCGTCCATTTGGCGCATCACA
*
30579418 CTATTATCGAGGTACAAGTTCTAATTCTACTTTCAACAATTTGAAACCTTCTTATGCTATTAATA
713 CTATTATCGAGGTACAAGTTCTAATTCTAATTTCAACAATTTGAAACCTTCTTATGCTATTAATA
*
30579483 AGTTATTTCCAAAACATGCTGAGACTAAACCTTTTGAGTGGAAAAGTGGAGCTCCTACAAAACAT
778 AGTTATTTCCAAAACATGCTGAGACTAAACCTTTTGAGTAGAAAAGTGGAGCTCCTACAAAACAT
*
30579548 TCTTCTAC
843 TCTACTAC
30579556 ATC
1 ATC
30579559 TTTCAAGGAA
Statistics
Matches: 806, Mismatches: 44, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
849 1 0.00
850 799 0.99
851 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (850 bp):
ATCACTTCAGTGGTCAATGTAACTTCTGAAATCCGACTGAAACTTATAGGTTGGGTTTTGAGGTG
CTACAATAAGGTTGATCAGCCTCGTCTTCATGTAAATAATGCTCAACGTGTGTCTCGTGCAAATG
ATGAGACTTTGGTTATTAATGACTGTATGCAACATTTTTAGCTAAACCAAAGTTCAACAATCCAC
CATTTCGAGGGAAGTATGATCCCAAAGCATATTGTGAGTGGGAATAGAAAATTGAACTTATGTTT
CGTTACTATAAATTTTGGGAAGAGGAAAAAGTCCAATTGACGACCCTTGGATTTTAAGATCATGC
ATTGAGTTAGTGGATTCAACTAGGAATTGATCATCAAAGAAACCACGAAAGGGTAATTGAAACAT
GGGACAAGTTGAAGCAAATGATACGAAAGCGTTACGTTCTTCCTCATTACCATAGAGAGGTCTCA
ACGAGACTTCAACACCTTGTTAAAGGTAATCGATCTCTTGATGAGTACTTTAAAGACATAAAGAT
GCTTATGCAAAGAGAAAATATACGAGAGGACGAAGAAAATACCATCGTGCAATTTATAGATGGCT
TGAATAGTTCGATAGCCAATGCTCTTAATCTTCAAACCTATATTGATCTTGAGGAGATGGTACAC
AAGACAATTGAGATTGAGCAACAATTTCAGCAACATCAATCTCGTCCATTTGGCGCATCACACTA
TTATCGAGGTACAAGTTCTAATTCTAATTTCAACAATTTGAAACCTTCTTATGCTATTAATAAGT
TATTTCCAAAACATGCTGAGACTAAACCTTTTGAGTAGAAAAGTGGAGCTCCTACAAAACATTCT
ACTAC
Found at i:30581517 original size:11 final size:11
Alignment explanation
Indices: 30581501--30581526 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
30581491 TTCGATGTCT
30581501 TATTATTCTAA
1 TATTATTCTAA
30581512 TATTATTCTAA
1 TATTATTCTAA
30581523 TATT
1 TATT
30581527 TGATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTATTCTAA
Found at i:30581553 original size:14 final size:13
Alignment explanation
Indices: 30581530--30581571 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
30581520 TAATATTTGA
30581530 TTTATTATTTTAT
1 TTTATTATTTTAT
30581543 TTTAGTTA-TTTAT
1 TTTA-TTATTTTAT
*
30581556 TTTAATTGTTTTAT
1 TTT-ATTATTTTAT
30581570 TT
1 TT
30581572 AACTTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:30585434 original size:22 final size:20
Alignment explanation
Indices: 30585385--30585434 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
30585375 GTTCACTTTT
30585385 ATATC-TTAAAATATAAAAA
1 ATATCATTAAAATATAAAAA
*
30585404 ATATTATTAAAATATAAAAAA
1 ATATCATTAAAATAT-AAAAA
30585425 ATATACATTA
1 ATAT-CATTA
30585435 GTCAAACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 9 0.35
21 9 0.35
22 4 0.15
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (20 bp):
ATATCATTAAAATATAAAAA
Found at i:30585550 original size:19 final size:21
Alignment explanation
Indices: 30585509--30585550 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
30585499 AATGTGATAT
* *
30585509 TTAAAACTATACAAATTATCA
1 TTAAAACTATACAAATAAGCA
30585530 TTAAAA-TATA-AAATAAGCA
1 TTAAAACTATACAAATAAGCA
30585549 TT
1 TT
30585551 CACTACCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 9 0.47
20 4 0.21
21 6 0.32
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAAACTATACAAATAAGCA
Found at i:30585568 original size:120 final size:120
Alignment explanation
Indices: 30585342--30585572 Score: 268
Period size: 120 Copynumber: 1.9 Consensus size: 120
30585332 TTCGTAATCC
* * * * * * * *
30585342 ACACAAATCTAATTATTCAAACAAACATATAATGTTCACTTTTATATCTTAAAATATAAAAAATA
1 ACACAAATATAATCATTCAAACAAAAATATAATGATAAATGTGATATCTTAAAATATAAAAAATA
* * * * *
30585407 TTATTAAAATATAAAAAAATATACATTAGTCAAACCAATCTTAATATCACTTTCA
66 TCATTAAAATATAAAAAAACATACACTAGCCAAAACAATCTTAATATCACTTTCA
* *
30585462 ACACAAATATAATCATTCAAACAAAAATATAATGATAAATGTGATAT-TTAAAACTATACAAATT
1 ACACAAATATAATCATTCAAACAAAAATATAATGATAAATGTGATATCTTAAAA-TATAAAAAAT
* * *
30585526 ATCATTAAAATATAAAATAAGCATTCACTA-CCAAAACTATCTTAATA
65 ATCATTAAAATATAAAA-AAACATACACTAGCCAAAACAATCTTAATA
30585573 CACAATTCTA
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
119 6 0.07
120 77 0.85
121 8 0.09
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.32
Consensus pattern (120 bp):
ACACAAATATAATCATTCAAACAAAAATATAATGATAAATGTGATATCTTAAAATATAAAAAATA
TCATTAAAATATAAAAAAACATACACTAGCCAAAACAATCTTAATATCACTTTCA
Found at i:30587798 original size:3 final size:3
Alignment explanation
Indices: 30587790--30587823 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
30587780 ACCCCTTTTT
30587790 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
30587824 TAAAGAGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:30588255 original size:18 final size:18
Alignment explanation
Indices: 30588211--30588256 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
30588201 TAAATAGATA
* *
30588211 TTAAACTTATTCATAAAT
1 TTAAATTTAATCATAAAT
*
30588229 TTAAAATTTAATCATGAAT
1 TT-AAATTTAATCATAAAT
30588248 TTAAATTTA
1 TTAAATTTA
30588257 TATATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (18 bp):
TTAAATTTAATCATAAAT
Found at i:30589355 original size:26 final size:28
Alignment explanation
Indices: 30589298--30589349 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
30589288 TTGAATCTAA
*
30589298 AAAAATTGTTTGAAAATTAAAAAAATAT
1 AAAAATTGTTAGAAAATTAAAAAAATAT
30589326 AAAAATT-TTAGAAAA-TAAAAAAAT
1 AAAAATTGTTAGAAAATTAAAAAAAT
30589350 TCAAAAGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 7 0.30
28 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (28 bp):
AAAAATTGTTAGAAAATTAAAAAAATAT
Found at i:30591212 original size:23 final size:24
Alignment explanation
Indices: 30591186--30591242 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
30591176 TTTTAAAACT
30591186 TTATATATTTTTTGAAT-TTTAAA
1 TTATATATTTTTTGAATGTTTAAA
* *
30591209 TTATATA-TATTTGAATGTTTAAG
1 TTATATATTTTTTGAATGTTTAAA
30591232 TTATATATTTT
1 TTATATATTTT
30591243 CGAATAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.28
23 19 0.66
24 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (24 bp):
TTATATATTTTTTGAATGTTTAAA
Found at i:30594870 original size:40 final size:39
Alignment explanation
Indices: 30594784--30594932 Score: 156
Period size: 40 Copynumber: 3.7 Consensus size: 39
30594774 CACACCAGTT
* * * *
30594784 TGTGGACAAGCCACCA-ATATTACATATAAACTGTCAGTAA
1 TGTGGACAAGCCACCAGA-ATTGCAAACAAA-TTTCAGTAA
* *
30594824 TATGGACAAGCCACCAGAATTGCAAACAAATTTCTAGTAT
1 TGTGGACAAGCCACCAGAATTGCAAACAAATTTC-AGTAA
* * * *
30594864 TGTGGACAAGCCACTAAAATTGCAAACAAGTTGCCAGTAA
1 TGTGGACAAGCCACCAGAATTGCAAACAAATT-TCAGTAA
*
30594904 TGTGGACAAGCCACCAGAATTGCAGACAA
1 TGTGGACAAGCCACCAGAATTGCAAACAA
30594933 CCTACTAGTA
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 86 0.95
41 2 0.02
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (39 bp):
TGTGGACAAGCCACCAGAATTGCAAACAAATTTCAGTAA
Found at i:30596987 original size:25 final size:26
Alignment explanation
Indices: 30596932--30596987 Score: 89
Period size: 25 Copynumber: 2.2 Consensus size: 26
30596922 AAATGTTAAG
30596932 TAAATATATTATATTATTATATATAA
1 TAAATATATTATATTATTATATATAA
*
30596958 T-AATATATTATGTTATTATA-ATAA
1 TAAATATATTATATTATTATATATAA
30596982 TAAATA
1 TAAATA
30596988 AATAAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 5 0.18
25 22 0.79
26 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (26 bp):
TAAATATATTATATTATTATATATAA
Found at i:30597949 original size:41 final size:38
Alignment explanation
Indices: 30597902--30598014 Score: 102
Period size: 41 Copynumber: 2.9 Consensus size: 38
30597892 TTCGACTTCT
*
30597902 AGTCGATGAGACACTGGGTGTCAATTTAGTACTTTGGATTA
1 AGTCGATGAGACACTGGGTGTCAA-TTA-TACTTCGG-TTA
* ** * * *
30597943 ATTCGATGAGACGTTGGATGTGAATT-TACTTCGGTTT
1 AGTCGATGAGACACTGGGTGTCAATTATACTTCGGTTA
*
30597980 AGCCGATGAGACACTGGGTGTCAAATTATTACTTC
1 AGTCGATGAGACACTGGGTGTC-AATTA-TACTTC
30598015 AAATTATCTG
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
37 18 0.32
38 11 0.20
40 8 0.14
41 19 0.34
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.35
Consensus pattern (38 bp):
AGTCGATGAGACACTGGGTGTCAATTATACTTCGGTTA
Found at i:30603308 original size:15 final size:15
Alignment explanation
Indices: 30603288--30603330 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
30603278 TGTTAAGTAA
30603288 ATATATTATATTATT
1 ATATATTATATTATT
30603303 ATATA-TA-A-TA--
1 ATATATTATATTATT
30603313 ATATATTATATTATT
1 ATATATTATATTATT
30603328 ATA
1 ATA
30603331 ATAAAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 5 0.22
11 2 0.09
12 3 0.13
13 3 0.13
14 2 0.09
15 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATATTATATTATT
Found at i:30603315 original size:25 final size:24
Alignment explanation
Indices: 30603287--30603334 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
30603277 ATGTTAAGTA
30603287 AATATATTATATTATTATATATAAT
1 AATATATTATATTATTATA-ATAAT
30603312 AATATATTATATTATTATAATAA
1 AATATATTATATTATTATAATAA
30603335 AACAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
AATATATTATATTATTATAATAAT
Found at i:30603436 original size:27 final size:27
Alignment explanation
Indices: 30603348--30603439 Score: 73
Period size: 27 Copynumber: 3.3 Consensus size: 27
30603338 AAATAAATAA
* *
30603348 AAAGAAAAAGGAAATAGAA-AAAGAAGG
1 AAAGAAAAA-GAAAGAAAAGAAAGAAGG
* * *
30603375 AAAGAAACAGAGAAAGCCAAACGAAACATGG
1 AAAGAAA-A-AGAAAG--AAAAGAAAGAAGG
30603406 --AGAAAAAGAAAGAAAAGAAAGAAGG
1 AAAGAAAAAGAAAGAAAAGAAAGAAGG
30603431 AAAGAAAAA
1 AAAGAAAAA
30603440 TTAGGGTTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
25 10 0.20
27 20 0.40
28 6 0.12
29 6 0.12
30 2 0.04
31 6 0.12
ACGTcount: A:0.68, C:0.05, G:0.24, T:0.02
Consensus pattern (27 bp):
AAAGAAAAAGAAAGAAAAGAAAGAAGG
Found at i:30607853 original size:24 final size:24
Alignment explanation
Indices: 30607824--30607880 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
30607814 GTTATTACTG
30607824 TTTTGATGAGAACTTTGTAGGTGT
1 TTTTGATGAGAACTTTGTAGGTGT
*
30607848 TTTTGATGAGACCTTTGTAGGTGT
1 TTTTGATGAGAACTTTGTAGGTGT
30607872 TTTTGATGA
1 TTTTGATGA
30607881 AAGTTCAACC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.28, T:0.47
Consensus pattern (24 bp):
TTTTGATGAGAACTTTGTAGGTGT
Found at i:30622692 original size:17 final size:18
Alignment explanation
Indices: 30622661--30622696 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
30622651 CATGTTGTTG
30622661 GCTCGTGTAGGCCCACAC
1 GCTCGTGTAGGCCCACAC
30622679 GCTCGTGT-GGCCCACAC
1 GCTCGTGTAGGCCCACAC
30622696 G
1 G
30622697 GCCCAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.14, C:0.39, G:0.31, T:0.17
Consensus pattern (18 bp):
GCTCGTGTAGGCCCACAC
Found at i:30635226 original size:16 final size:17
Alignment explanation
Indices: 30635205--30635238 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30635195 ATTATTTTGG
*
30635205 ATTTTTGG-GTATTTCC
1 ATTTTTGGTATATTTCC
30635221 ATTTTTGGTATATTTCC
1 ATTTTTGGTATATTTCC
30635238 A
1 A
30635239 GTCAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.18, C:0.12, G:0.15, T:0.56
Consensus pattern (17 bp):
ATTTTTGGTATATTTCC
Found at i:30639383 original size:29 final size:29
Alignment explanation
Indices: 30639350--30639416 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
30639340 GGTTTAATGG
***
30639350 TTTAGGGTTTAGGGTTTAAGATTTATGAT
1 TTTAGGGTTTACAATTTAAGATTTATGAT
* *
30639379 TTTAGGGTTTACAATTTATGATTTATGGT
1 TTTAGGGTTTACAATTTAAGATTTATGAT
30639408 TTTAGGGTT
1 TTTAGGGTT
30639417 AATTTATGGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.22, C:0.01, G:0.25, T:0.51
Consensus pattern (29 bp):
TTTAGGGTTTACAATTTAAGATTTATGAT
Found at i:30639411 original size:22 final size:22
Alignment explanation
Indices: 30639357--30639402 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
30639347 TGGTTTAGGG
30639357 TTTAGGGTTTA-AGATTTATGAT
1 TTTAGGGTTTACA-ATTTATGAT
30639379 TTTAGGGTTTACAATTTATGAT
1 TTTAGGGTTTACAATTTATGAT
30639401 TT
1 TT
30639403 ATGGTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.26, C:0.02, G:0.20, T:0.52
Consensus pattern (22 bp):
TTTAGGGTTTACAATTTATGAT
Found at i:30639569 original size:22 final size:22
Alignment explanation
Indices: 30639544--30639590 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
30639534 TGTTTAGGGT
*
30639544 TTAAGAGG-TTAAAGTTTAAAGG
1 TTAAG-GGTTTAAAGTCTAAAGG
*
30639566 TTAAGGGTTTAAAGTCTAAGGG
1 TTAAGGGTTTAAAGTCTAAAGG
30639588 TTA
1 TTA
30639591 GGGGCTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (22 bp):
TTAAGGGTTTAAAGTCTAAAGG
Found at i:30639575 original size:15 final size:15
Alignment explanation
Indices: 30639539--30639589 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
30639529 TTTATTGTTT
30639539 AGGGTTTAAGAGGTTA
1 AGGGTTTAA-AGGTTA
*
30639555 A-AGTTTAAAGGTTA
1 AGGGTTTAAAGGTTA
30639569 AGGGTTTAAA-GTCTA
1 AGGGTTTAAAGGT-TA
30639584 AGGGTT
1 AGGGTT
30639590 AGGGGCTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 9 0.29
15 21 0.68
16 1 0.03
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.33
Consensus pattern (15 bp):
AGGGTTTAAAGGTTA
Found at i:30639670 original size:23 final size:23
Alignment explanation
Indices: 30639639--30639684 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
30639629 ATTTAAGGGT
*
30639639 TATGCTAAAAATATAAAAAAATA
1 TATGCTAAAAATAGAAAAAAATA
*
30639662 TATGTTAAAAATAGAAAAAAATA
1 TATGCTAAAAATAGAAAAAAATA
30639685 AAATAGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (23 bp):
TATGCTAAAAATAGAAAAAAATA
Found at i:30640148 original size:115 final size:115
Alignment explanation
Indices: 30639805--30640263 Score: 473
Period size: 115 Copynumber: 4.0 Consensus size: 115
30639795 TTGTCTGATT
* * * * * * *
30639805 TTTTGGTGGCGTTTTTTCTAAAATGCCGCAAAAGGAGT-TATATTAGTGGCGTTTCTACGAAAAA
1 TTTTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGA-TATGTGTTAGTGGCGTTTTTACTAAAAA
* ** * *
30639869 CGCCGCAATTATGTTTTTTTGTCTTTGTTAAACGTTGTCGTTTTTATCTACG
65 CGCCGCAATTATG-TTATAAGTGTTTGCTAAACGTTGTCGTTTTTATCTACG
* * * **
30639921 TTTTCAGTGGCGTTTTTTCCAAAACGCCGCAAAATGATATGTGTTAGTGGCG-TTTT-C-AGGTA
1 TTTT-AGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATGTGTTAGTGGCGTTTTTACTA-AAA
* * * *
30639983 ACGCCGCAATTATGTTATTAGTCTTTTG-TAAACGTTGTTGTTTTTATCTACA
64 ACGCCGCAATTATGTTATAAGT-GTTTGCTAAACGTTGTCGTTTTTATCTACG
* * * * *
30640035 TTATTAGTGGCATTTTTACAAAAATGCCGCAAAAGGTTATGTGGTAGTGGCGTTTTTA-TAAAAA
1 TT-TTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATGTGTTAGTGGCGTTTTTACTAAAAA
*
30640099 TGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTTTATCTACG
65 CGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTTTATCTACG
* * * * * * *
30640150 TTTTTAGTGGCGTTTGTACTAAAACGCCAG-TAAAGGATATGTTTTCGTGGCATTTTTATTATAA
1 -TTTTAGTGGCGTTTTTACTAAAACGCC-GCAAAAGGATATGTGTTAGTGGCGTTTTTACTAAAA
*
30640214 ACGCCGCAATTATGTTTTAAGTGTTTGCTAAACGTTGTCGTTTTCTATCT
64 ACGCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTT-TATCT
30640264 GGGATTTTTT
Statistics
Matches: 289, Mismatches: 41, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
114 75 0.26
115 112 0.39
116 58 0.20
117 44 0.15
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (115 bp):
TTTTAGTGGCGTTTTTACTAAAACGCCGCAAAAGGATATGTGTTAGTGGCGTTTTTACTAAAAAC
GCCGCAATTATGTTATAAGTGTTTGCTAAACGTTGTCGTTTTTATCTACG
Found at i:30640152 original size:229 final size:234
Alignment explanation
Indices: 30639810--30640263 Score: 559
Period size: 229 Copynumber: 2.0 Consensus size: 234
30639800 TGATTTTTTG
* * *
30639810 GTGGCGTTTTTTCTAAAATGCCGCAAAAGGAGTTATATTAGTGGCGTTTCTACGAAAAACGCCGC
1 GTGGCATTTTTACAAAAATGCCGCAAAAGGAGTTATATTAGTGGCGTTTCTACGAAAAACGCCGC
* ** * * *
30639875 AATTATGTTTTTTTGTCTTTGTTAAACGTTGTCGTTTTTATCTACGTTTTCAGTGGCGTTTTTTC
66 AATTATGTTTATAAGTCTTTGCTAAACGTTGTCGTTTTTATCTACGTTTTCAGTGGCGTTTGTAC
* * *
30639940 CAAAACGCC-GCAAAATGATATGTGTTAGTGGCGTTTTCA-GGT-AACGCCGCAATTATGTTATT
131 CAAAACGCCAG-AAAAGGATATGTGTTAGTGGCATTTTCATGATAAACGCCGCAATTATGTT-TT
* *
30640002 -AGTCTTTTG-TAAACGTTGTTGTTTT-TATCTACATTATTA
194 AAGT-GTTTGCTAAACGTTGTCGTTTTCTATCTACATTATTA
* * * *
30640041 GTGGCATTTTTACAAAAATGCCGCAAAA-G-GTTATGTGGTAGTGGCGTTTTTA-TAAAAATGCC
1 GTGGCATTTTTACAAAAATGCCGCAAAAGGAGTTATAT--TAGTGGCGTTTCTACGAAAAACGCC
* *
30640103 GCAATTATG-TTATAAGTGTTTGCTAAACGTTGTCGTTTTTATCTACGTTTTTAGTGGCGTTTGT
64 GCAATTATGTTTATAAGTCTTTGCTAAACGTTGTCGTTTTTATCTACGTTTTCAGTGGCGTTTGT
* * * * * *
30640167 ACTAAAACGCCAGTAAAGGATATGTTTTCGTGGCATTTTTATTATAAACGCCGCAATTATGTTTT
129 ACCAAAACGCCAGAAAAGGATATGTGTTAGTGGCATTTTCATGATAAACGCCGCAATTATGTTTT
30640232 AAGTGTTTGCTAAACGTTGTCGTTTTCTATCT
194 AAGTGTTTGCTAAACGTTGTCGTTTTCTATCT
30640264 GGGATTTTTT
Statistics
Matches: 189, Mismatches: 26, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
229 85 0.45
230 26 0.14
231 73 0.39
232 5 0.03
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.41
Consensus pattern (234 bp):
GTGGCATTTTTACAAAAATGCCGCAAAAGGAGTTATATTAGTGGCGTTTCTACGAAAAACGCCGC
AATTATGTTTATAAGTCTTTGCTAAACGTTGTCGTTTTTATCTACGTTTTCAGTGGCGTTTGTAC
CAAAACGCCAGAAAAGGATATGTGTTAGTGGCATTTTCATGATAAACGCCGCAATTATGTTTTAA
GTGTTTGCTAAACGTTGTCGTTTTCTATCTACATTATTA
Found at i:30640397 original size:14 final size:14
Alignment explanation
Indices: 30640378--30640405 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
30640368 CCCCACTCTG
30640378 ATTTCCCTAATTTC
1 ATTTCCCTAATTTC
30640392 ATTTCCCTAATTTC
1 ATTTCCCTAATTTC
30640406 CCATTTCCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTCCCTAATTTC
Found at i:30641957 original size:13 final size:13
Alignment explanation
Indices: 30641933--30641966 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
30641923 ATTTCAAACT
30641933 TTAAATATAAAAAA
1 TTAAA-ATAAAAAA
*
30641947 TTAAAATAAAAAG
1 TTAAAATAAAAAA
30641960 TTAAAAT
1 TTAAAAT
30641967 CTCTATTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
TTAAAATAAAAAA
Found at i:30642180 original size:12 final size:12
Alignment explanation
Indices: 30642163--30642188 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30642153 TTCTTAATAA
30642163 TTATATATAAGC
1 TTATATATAAGC
30642175 TTATATATAAGC
1 TTATATATAAGC
30642187 TT
1 TT
30642189 GCATAACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (12 bp):
TTATATATAAGC
Found at i:30642206 original size:12 final size:12
Alignment explanation
Indices: 30642191--30642248 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
30642181 ATAAGCTTGC
30642191 ATAACTTACATA
1 ATAACTTACATA
30642203 ATAACTTAC---
1 ATAACTTACATA
*
30642212 ATAACTTATAT-
1 ATAACTTACATA
*
30642223 ATAA-TAACATA
1 ATAACTTACATA
*
30642234 ATAAATTACATA
1 ATAACTTACATA
30642246 ATA
1 ATA
30642249 CATAACTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 8 0.21
10 4 0.11
11 8 0.21
12 18 0.47
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:30642215 original size:9 final size:9
Alignment explanation
Indices: 30642203--30643040 Score: 569
Period size: 9 Copynumber: 95.4 Consensus size: 9
30642193 AACTTACATA
30642203 ATAACTTAC
1 ATAACTTAC
*
30642212 ATAACTTAT
1 ATAACTTAC
30642221 AT-A--TA-
1 ATAACTTAC
*
30642226 ATAACATA-
1 ATAACTTAC
*
30642234 ATAAATTAC
1 ATAACTTAC
30642243 ATAA--TAC
1 ATAACTTAC
*
30642250 ATAACTTATAT
1 ATAAC-T-TAC
*
30642261 ATAAGCTTGC
1 ATAA-CTTAC
30642271 ATAACTTAC
1 ATAACTTAC
30642280 ATAA--TAC
1 ATAACTTAC
**
30642287 ACCACTTAC
1 ATAACTTAC
30642296 ATAACTTAC
1 ATAACTTAC
*
30642305 ATAGCTTAC
1 ATAACTTAC
*
30642314 AT-TC-TAC
1 ATAACTTAC
*
30642321 ACAACTTAC
1 ATAACTTAC
*
30642330 ATAACATAC
1 ATAACTTAC
30642339 ATAA--TAC
1 ATAACTTAC
*
30642346 AGAACTTAC
1 ATAACTTAC
**
30642355 ATAAAATAC
1 ATAACTTAC
30642364 --AACTTAC
1 ATAACTTAC
*
30642371 ATATCTTAC
1 ATAACTTAC
30642380 ATAA--TAC
1 ATAACTTAC
30642387 ATAACTTAC
1 ATAACTTAC
30642396 ATAA--TAC
1 ATAACTTAC
*
30642403 A-ACATTTAC
1 ATA-ACTTAC
* *
30642412 ACAACTTAA
1 ATAACTTAC
*
30642421 ATAACTTAT
1 ATAACTTAC
*
30642430 ATAACTTGC
1 ATAACTTAC
*
30642439 ATAACTTAT
1 ATAACTTAC
*
30642448 ATAA-TAAC
1 ATAACTTAC
*
30642456 ATAACAACTAAC
1 AT---AACTTAC
** *
30642468 ATAAAATAT
1 ATAACTTAC
*
30642477 ATAAACATATAT
1 AT-AAC-T-TAC
* *
30642489 AGAAACTTGC
1 A-TAACTTAC
*
30642499 ATAACTTAT
1 ATAACTTAC
*
30642508 ATAA-TAAC
1 ATAACTTAC
*
30642516 ATAA-TAAC
1 ATAACTTAC
30642524 -TAACATAATAC
1 ATAAC-T--TAC
30642535 ATAACTTAC
1 ATAACTTAC
30642544 ATAACTTAC
1 ATAACTTAC
30642553 ATAACTTAC
1 ATAACTTAC
*
30642562 ATAAATTA-
1 ATAACTTAC
30642570 AGTAACTTAC
1 A-TAACTTAC
30642580 ATAACTTAC
1 ATAACTTAC
30642589 ATAACTTAC
1 ATAACTTAC
* *
30642598 ATAAATTAA
1 ATAACTTAC
30642607 ATAACTTAC
1 ATAACTTAC
30642616 ATAACTTAC
1 ATAACTTAC
30642625 ATAACTTAC
1 ATAACTTAC
30642634 ATAACTTAC
1 ATAACTTAC
* *
30642643 ATAAATTAA
1 ATAACTTAC
30642652 ATAACTTAC
1 ATAACTTAC
30642661 ATAACTTAC
1 ATAACTTAC
*
30642670 ATAACTTAA
1 ATAACTTAC
30642679 ATAACTTAC
1 ATAACTTAC
30642688 ATAA--TAC
1 ATAACTTAC
30642695 ATAACCTT-C
1 ATAA-CTTAC
*
30642704 CTAACTTAC
1 ATAACTTAC
* *
30642713 ATTATTTAC
1 ATAACTTAC
30642722 ATAA--TAC
1 ATAACTTAC
* *
30642729 A-ATGCCTAC
1 ATA-ACTTAC
30642738 ATAACTTAC
1 ATAACTTAC
30642747 ATAACTTAC
1 ATAACTTAC
* *
30642756 ATAAATTAA
1 ATAACTTAC
30642765 ATAACTTAC
1 ATAACTTAC
30642774 ATAACTTAC
1 ATAACTTAC
*
30642783 ATAACTTAA
1 ATAACTTAC
*
30642792 ATAACTTAA
1 ATAACTTAC
30642801 ATAACTTAC
1 ATAACTTAC
30642810 ATAA--TAC
1 ATAACTTAC
*
30642817 ATAACTTTC
1 ATAACTTAC
*
30642826 CTAACTTAC
1 ATAACTTAC
* *
30642835 ATTATTTAC
1 ATAACTTAC
30642844 ATAA--TAC
1 ATAACTTAC
** **
30642851 ATTGCCCAC
1 ATAACTTAC
30642860 ATAACTTAC
1 ATAACTTAC
30642869 ATAACTTAC
1 ATAACTTAC
* *
30642878 ATAAATTAA
1 ATAACTTAC
30642887 ATAACTTAC
1 ATAACTTAC
30642896 ATAACTTAC
1 ATAACTTAC
*
30642905 ATAACTTAA
1 ATAACTTAC
30642914 ATAACTTAC
1 ATAACTTAC
30642923 ATAA-TTA-
1 ATAACTTAC
*
30642930 AT-ATTATAC
1 ATAACT-TAC
* *
30642939 ACAATTTAC
1 ATAACTTAC
30642948 ATAA--TAC
1 ATAACTTAC
*
30642955 ATTACTTAC
1 ATAACTTAC
30642964 ATAACTTAC
1 ATAACTTAC
*
30642973 ATTACTTAC
1 ATAACTTAC
30642982 AGT-ACTTTAC
1 A-TAAC-TTAC
30642992 TTATAGTACTTAC
1 --ATA--ACTTAC
*
30643005 GTAA--TAC
1 ATAACTTAC
30643012 ATAA--TAC
1 ATAACTTAC
30643019 ATAACTTAC
1 ATAACTTAC
30643028 ATAACTTAC
1 ATAACTTAC
30643037 ATAA
1 ATAA
30643041 TACATAAAAA
Statistics
Matches: 661, Mismatches: 103, Indels: 130
0.74 0.12 0.15
Matches are distributed among these distances:
5 2 0.00
6 6 0.01
7 87 0.13
8 34 0.05
9 470 0.71
10 21 0.03
11 16 0.02
12 19 0.03
13 4 0.01
14 2 0.00
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:30642356 original size:41 final size:41
Alignment explanation
Indices: 30642319--30642399 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
30642309 CTTACATTCT
30642319 ACACAACTTACATAACATACATAATACAGAACTTACATAAA
1 ACACAACTTACATAACATACATAATACAGAACTTACATAAA
* * * *
30642360 ATACAACTTACATATCTTACATAATACATAACTTACATAA
1 ACACAACTTACATAACATACATAATACAGAACTTACATAA
30642400 TACAACATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.51, C:0.21, G:0.01, T:0.27
Consensus pattern (41 bp):
ACACAACTTACATAACATACATAATACAGAACTTACATAAA
Found at i:30642509 original size:31 final size:29
Alignment explanation
Indices: 30642432--30642524 Score: 89
Period size: 29 Copynumber: 3.1 Consensus size: 29
30642422 TAACTTATAT
*
30642432 AACTTGCATAACTTATATAATAACATAAC
1 AACTTGCATAACTTATATAATAACATAAA
** ** *
30642461 AACTAACATAAAATATATAA-ACATATATAGA
1 AACTTGCATAACTTATATAATA-ACATA-A-A
*
30642492 AACTTGCATAACTTATATAATAACATAAT
1 AACTTGCATAACTTATATAATAACATAAA
30642521 AACT
1 AACT
30642525 AACATAATAC
Statistics
Matches: 48, Mismatches: 12, Indels: 8
0.71 0.18 0.12
Matches are distributed among these distances:
28 1 0.02
29 24 0.50
30 2 0.04
31 20 0.42
32 1 0.02
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.30
Consensus pattern (29 bp):
AACTTGCATAACTTATATAATAACATAAA
Found at i:30642768 original size:113 final size:113
Alignment explanation
Indices: 30642643--30642927 Score: 462
Period size: 122 Copynumber: 2.4 Consensus size: 113
30642633 CATAACTTAC
30642643 ATAAATTAAATAACTTACATAACTTACATAACTTAAATAACTTACATAATACATAACCTTCCTAA
1 ATAAATTAAATAACTTACATAACTTACATAACTTAAATAACTTACATAATACATAACCTTCCTAA
*
30642708 CTTACATTATTTACATAATACAATGCCTACATAACTTACATAACTTAC
66 CTTACATTATTTACATAATACAATGCCCACATAACTTACATAACTTAC
30642756 ATAAATTAAATAACTTACATAACTTACATAACTTAAATAACTTAAATAACTTACATAATACATAA
1 ATAAATTAAATAACTTACATAAC-T---T-AC----ATAACTTAAATAACTTACATAATACATAA
* *
30642821 CTTTCCTAACTTACATTATTTACATAATACATTGCCCACATAACTTACATAACTTAC
57 CCTTCCTAACTTACATTATTTACATAATACAATGCCCACATAACTTACATAACTTAC
30642878 ATAAATTAAATAACTTACATAACTTACATAACTTAAATAACTTACATAAT
1 ATAAATTAAATAACTTACATAACTTACATAACTTAAATAACTTACATAAT
30642928 TAATATTATA
Statistics
Matches: 160, Mismatches: 3, Indels: 18
0.88 0.02 0.10
Matches are distributed among these distances:
113 46 0.29
114 1 0.01
117 3 0.02
118 3 0.02
121 1 0.01
122 106 0.66
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (113 bp):
ATAAATTAAATAACTTACATAACTTACATAACTTAAATAACTTACATAATACATAACCTTCCTAA
CTTACATTATTTACATAATACAATGCCCACATAACTTACATAACTTAC
Found at i:30645968 original size:21 final size:20
Alignment explanation
Indices: 30645942--30645992 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
30645932 TACAACTTAT
* *
30645942 AGCAGAGGTGGCAGCGAGGGA
1 AGCAGAGGT-ACAGCGAGAGA
30645963 AGCAGAGGCTACAGCGAGAGA
1 AGCAGAGG-TACAGCGAGAGA
*
30645984 AGTAGAGGT
1 AGCAGAGGT
30645993 TCAAAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 24 0.92
22 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.45, T:0.08
Consensus pattern (20 bp):
AGCAGAGGTACAGCGAGAGA
Found at i:30646604 original size:85 final size:85
Alignment explanation
Indices: 30646423--30646634 Score: 259
Period size: 85 Copynumber: 2.5 Consensus size: 85
30646413 TTTGTGAAGA
* * * * *
30646423 AAGCGCCGCTAAAGAACATGATCTTTAGCGACATC-TTTCTCTAAGCGCCACTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCTAAACGCCACTAAAGAACATGAC
*
30646487 CTTTAGTGGCGTTTTTCTCC
66 CTTTAGCGGCGTTTTTCTCC
* * * *
30646507 ATGCGCCACTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTTAAACGCCGCTAAAGAACATGAC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCTAAACGCCACTAAAGAACATGAC
* *
30646572 CTTTAGCGGC-TTTTGTTTCT
66 CTTTAGCGGCGTTTT-TCTCC
* * *
30646592 AAGCGCCGCTAAAGAACATGACCTTAAGCGGTGT-TTTTTTCTA
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCTA
30646635 TAAATACTGC
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
84 43 0.40
85 65 0.60
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (85 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTCTAAACGCCACTAAAGAACATGAC
CTTTAGCGGCGTTTTTCTCC
Found at i:30646633 original size:42 final size:42
Alignment explanation
Indices: 30646423--30646634 Score: 255
Period size: 42 Copynumber: 5.0 Consensus size: 42
30646413 TTTGTGAAGA
* * * *
30646423 AAGCGCCGCTAAAGAACATGATCTTTAGCGACATCTTTCTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
* * * *
30646465 AAGCGCCACTAAAGAACATGATCTTTAGTGGCGTTTTTCTCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
* * *
30646507 ATGCGCCACTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTTCT
* *
30646550 AAACGCCGCTAAAGAACATGACCTTTAGCGGC-TTTTGTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTTCT
* * *
30646592 AAGCGCCGCTAAAGAACATGACCTTAAGCGGTGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
30646634 A
1 A
30646635 TAAATACTGC
Statistics
Matches: 148, Mismatches: 19, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
41 3 0.02
42 108 0.73
43 37 0.25
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
Found at i:30655691 original size:12 final size:12
Alignment explanation
Indices: 30655676--30655702 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
30655666 TAAGGAGGGG
30655676 ATCGTGGAGAAA
1 ATCGTGGAGAAA
30655688 ATCGTGGAGAAA
1 ATCGTGGAGAAA
30655700 ATC
1 ATC
30655703 AATGGGATGT
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:0.41, C:0.11, G:0.30, T:0.19
Consensus pattern (12 bp):
ATCGTGGAGAAA
Found at i:30656993 original size:18 final size:17
Alignment explanation
Indices: 30656970--30657003 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30656960 GTGGGCCGAA
30656970 ATGGGCCATATGGGCCCG
1 ATGGGCCA-ATGGGCCCG
*
30656988 ATGGGCTAATGGGCCC
1 ATGGGCCAATGGGCCC
30657004 AACACGGGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.18, C:0.26, G:0.38, T:0.18
Consensus pattern (17 bp):
ATGGGCCAATGGGCCCG
Found at i:30662876 original size:346 final size:353
Alignment explanation
Indices: 30662193--30662885 Score: 933
Period size: 346 Copynumber: 2.0 Consensus size: 353
30662183 GGGGTAGTTG
30662193 TTTACTCCATCCATCTTTTTAGTCAAAAGCCTTAGCTTAATGAGTGAGTCCCATTCAAATTGTGA
1 TTTACTCCATCCATCTTTTTAGTCAAAAGCCTTAGCTTAATGAG-GAGTCCCATTCAAATTGTGA
* * * * * *
30662258 CATGATTGAGTTTCTAGCAATTCGGTTTATACTCCACTGTGATTGTTGAGTAAAAAATTCTTATG
65 AATAATTGAGTATCTAGCAATTCAGTTTATACTCCACTGTGATTGTCGAGTAAAAAATTCATATG
30662323 AAAAGTTGAATCCCCTAATAAAAAATATAAAAAATAAATGTGCATGTATTTGAGTATGTATAAGG
130 AAAAGTTGAATCCCCTAATAAAAAATATAAAAAATAAA---G-A-GTA-TT-AGTATGTATAAGG
* * * *
30662388 CCAATAAAAAAGAGAGGAAAAAATGAAACTGGGTTTTGTTAAAAGATGAAATGGGTAAATTAGGA
188 CCAATAAAAAAGAGAGAAAAAAATGAAACTAGGTTTAGTTAAAAGATGAAATAGGTAAATTAGGA
* *
30662453 GATACTTGCTATAGTGGAAGTTTATGGATACTTACGATTTCTTGTTTTTAGGGCAATACTTTCTA
253 GATACTTGCTATAGTGGAAGTGTATGGATACTTACGAGTTCTTGTTTTTAGGGCAATACTTTCTA
** *
30662518 AATTGTCTTTCCTGAAT-AGCTAAAAGGTTAATTGT
318 AACGGCCTTTCCTGAATGAGCTAAAAGGTTAATTGT
*
30662553 TTTA-TCCATCCATCTTTTTAGTCAAAAGCCTTAGCTTCATGA-GAGTCCCATTCAAATTGTGAA
1 TTTACTCCATCCATCTTTTTAGTCAAAAGCCTTAGCTTAATGAGGAGTCCCATTCAAATTGTGAA
* * *
30662616 ATAATTGAGTATCTGGCAATTCAGTTTATGCTCCATTGTGATTGTCGAGTCAAAAAA-TCATATG
66 ATAATTGAGTATCTAGCAATTCAGTTTATACTCCACTGTGATTGTCGAGT-AAAAAATTCATATG
* *
30662680 AAAAGTTGAATGCCCTAATAAAAAATATAATAAAT-AA-A-TA-T-GTATGTATAAGGCCAGCA-
130 AAAAGTTGAATCCCCTAATAAAAAATATAAAAAATAAAGAGTATTAGTATGTATAAGGCCA--AT
*
30662739 AAAAAATG-GAGAAAAAAATGAAA-TCAGGTTTAGTTAAAAGATGAACTAGGTAAATTAGGAGAT
193 AAAAAA-GAGAGAAAAAAATGAAACT-AGGTTTAGTTAAAAGATGAAATAGGTAAATTAGGAGAT
* * * * **
30662802 ACTTGCTATAGTGGAAGTGTATGGGTACTTAGGAGTTCTTGTTTTTAGGGCAATATTTTTTGCAC
256 ACTTGCTATAGTGGAAGTGTATGGATACTTACGAGTTCTTGTTTTTAGGGCAATACTTTCTAAAC
30662867 GGCCTTTCCTGAATGAGCT
321 GGCCTTTCCTGAATGAGCT
30662886 TATGAAACAT
Statistics
Matches: 299, Mismatches: 28, Indels: 25
0.85 0.08 0.07
Matches are distributed among these distances:
345 16 0.05
346 122 0.41
347 7 0.02
349 2 0.01
351 1 0.00
356 2 0.01
357 102 0.34
358 6 0.02
359 37 0.12
360 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (353 bp):
TTTACTCCATCCATCTTTTTAGTCAAAAGCCTTAGCTTAATGAGGAGTCCCATTCAAATTGTGAA
ATAATTGAGTATCTAGCAATTCAGTTTATACTCCACTGTGATTGTCGAGTAAAAAATTCATATGA
AAAGTTGAATCCCCTAATAAAAAATATAAAAAATAAAGAGTATTAGTATGTATAAGGCCAATAAA
AAAGAGAGAAAAAAATGAAACTAGGTTTAGTTAAAAGATGAAATAGGTAAATTAGGAGATACTTG
CTATAGTGGAAGTGTATGGATACTTACGAGTTCTTGTTTTTAGGGCAATACTTTCTAAACGGCCT
TTCCTGAATGAGCTAAAAGGTTAATTGT
Found at i:30689048 original size:6 final size:6
Alignment explanation
Indices: 30689031--30689060 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
30689021 TCAGATCTTG
30689031 TATTTAA TATTTA TATTTA TATTTA TATTT
1 TATTT-A TATTTA TATTTA TATTTA TATTT
30689061 GTTCGCTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Done.