Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 138 of 318
Found at i:42795462 original size:18 final size:16
Alignment explanation
Indices: 42795430--42795464 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
42795420 ATGTATTTTG
42795430 AAATTAAAAAAATATT
1 AAATTAAAAAAATATT
42795446 AAATGTAAAAAATATATT
1 AAAT-TAAAAAA-ATATT
42795464 A
1 A
42795465 CTATTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 7 0.41
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (16 bp):
AAATTAAAAAAATATT
Found at i:42797052 original size:13 final size:13
Alignment explanation
Indices: 42797034--42797058 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42797024 TAATGGTATA
42797034 TTGAATCCATGAC
1 TTGAATCCATGAC
42797047 TTGAATCCATGA
1 TTGAATCCATGA
42797059 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:42797639 original size:27 final size:26
Alignment explanation
Indices: 42797608--42797785 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 26
42797598 TAAATTGTAC
42797608 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
42797635 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
*
42797661 ATGCACTAAGTGTGCGAATTGACCATGT
1 A-GCACTAAGTGTGCG-ATTGACTATGT
*
42797689 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* *
42797717 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
42797744 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
42797771 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42797786 GGCTCAATAT
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 103 0.79
28 26 0.20
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:42797724 original size:82 final size:81
Alignment explanation
Indices: 42797609--42797764 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
42797599 AAATTGTACA
* *
42797609 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
42797673 TGCGAATTGACCATGTG
65 TGCGAATTGACCATGTG
* ** *
42797690 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
42797755 TGCGAGTTGA
65 TGCGAATTGA
42797765 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGTG
Found at i:42797776 original size:82 final size:81
Alignment explanation
Indices: 42797608--42797785 Score: 223
Period size: 82 Copynumber: 2.2 Consensus size: 81
42797598 TAAATTGTAC
* *
42797608 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
*
42797673 TGCGAATTGACCATGT
66 TGCGAATTGACCATAT
* * ** *
42797689 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAG
1 AGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* **
42797753 TGTGCGAGTTGATTATAT
64 TGTGCGAATTGACCATAT
*
42797771 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42797786 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 16 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATAT
Found at i:42808743 original size:21 final size:21
Alignment explanation
Indices: 42808719--42808780 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
42808709 CCATATGGGT
42808719 TGAACGGAAGCTCATAAGAGC
1 TGAACGGAAGCTCATAAGAGC
* * * *
42808740 TGAATGAAAACTCATAAGAGT
1 TGAACGGAAGCTCATAAGAGC
* * *
42808761 TAAACAGAAGCTCAAAAGAG
1 TGAACGGAAGCTCATAAGAG
42808781 TTAAACAAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.16
Consensus pattern (21 bp):
TGAACGGAAGCTCATAAGAGC
Found at i:42808781 original size:21 final size:21
Alignment explanation
Indices: 42808750--42808811 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
42808740 TGAATGAAAA
42808750 CTCATAAGAGTTAAACAGAAG
1 CTCATAAGAGTTAAACAGAAG
* *
42808771 CTCAAAAGAGTTAAACAAAAG
1 CTCATAAGAGTTAAACAGAAG
* * *
42808792 ATCATGAGAGCTAAACAGAA
1 CTCATAAGAGTTAAACAGAA
42808812 AGTAAACACA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.52, C:0.15, G:0.18, T:0.16
Consensus pattern (21 bp):
CTCATAAGAGTTAAACAGAAG
Found at i:42811117 original size:49 final size:50
Alignment explanation
Indices: 42811054--42811181 Score: 154
Period size: 50 Copynumber: 2.6 Consensus size: 50
42811044 TATCAAGTCC
*
42811054 ATGCCATGTTCCAGATATGGTCTTACAC-AGACTATCA-AAAT-CGAGGCCG
1 ATGCCATGTCCCAGATATGGTCTTACACTAG-CTATCACAAATCCG-GGCCG
* * * * *
42811103 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCG
1 ATGCCATGTCCCAGATATGGTCTTACACTAGCTATCACAAATCCGGGCCG
*
42811153 ATGCCATGTCCTAGATATGGTCTTACACT
1 ATGCCATGTCCCAGATATGGTCTTACACT
42811182 GGCACCTCTA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
49 30 0.45
50 35 0.52
51 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (50 bp):
ATGCCATGTCCCAGATATGGTCTTACACTAGCTATCACAAATCCGGGCCG
Found at i:42811173 original size:50 final size:48
Alignment explanation
Indices: 42811054--42811211 Score: 144
Period size: 50 Copynumber: 3.2 Consensus size: 48
42811044 TATCAAGTCC
* * *
42811054 ATGCCATGTTCCAGATATGGTCTTACAC-AGACTATCA-AAATCGAGGCCG
1 ATGCCATG-TCCAGATATGGTCTTACACTAG-CTCTCACATATCG-TGCCG
* *
42811103 ATGCCATATCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCG
1 ATGCCATGT-CCAGATATGGTCTTACACTAGCTCTCACATAT-CGTGCCG
* * *
42811153 ATGCCATGTCCTAGATATGGTCTTACACTGGCAC-CTC-TATTCGTGCCG
1 ATGCCATGTCC-AGATATGGTCTTACACTAGCTCTCACATA-TCGTGCCG
*
42811201 ATGCAATGTCC
1 ATGCCATGTCC
42811212 CAGACATGTT
Statistics
Matches: 92, Mismatches: 11, Indels: 13
0.79 0.09 0.11
Matches are distributed among these distances:
48 20 0.22
49 34 0.37
50 36 0.39
51 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCAGATATGGTCTTACACTAGCTCTCACATATCGTGCCG
Found at i:42811210 original size:48 final size:50
Alignment explanation
Indices: 42811099--42811219 Score: 156
Period size: 50 Copynumber: 2.5 Consensus size: 50
42811089 CAAAATCGAG
* *
42811099 GCCGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACATATCCGT
* * * * *
42811149 GCCGATGCCATGTCCTAGATATGGTCTTACACTGGCAC-CTC-TATTCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACATATCCGT
*
42811197 GCCGATGCAATGTCCCAGACATG
1 GCCGATGCCATGTCCCAGACATG
42811220 TTTTACATTG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 26 0.43
49 2 0.03
50 33 0.54
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACTCACATATCCGT
Found at i:42812924 original size:2 final size:2
Alignment explanation
Indices: 42812917--42812943 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42812907 GCAACAAAAC
42812917 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
42812944 AAGGGTTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42813987 original size:24 final size:23
Alignment explanation
Indices: 42813959--42814005 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
42813949 TATGCGTAAT
42813959 AAATTTA-AAAACACAATTATATAC
1 AAATTTATAAAA-A-AATTATATAC
42813983 AAATTTATTAAAAAAATTATATA
1 AAATTTA-TAAAAAAATTATATA
42814006 TATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 16 0.76
25 1 0.05
26 4 0.19
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATTTATAAAAAAATTATATAC
Found at i:42833224 original size:16 final size:16
Alignment explanation
Indices: 42833205--42833235 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42833195 CTTCTTCACT
42833205 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
42833221 TACTTACTTACTTAA
1 TACTCACTTACTTAA
42833236 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:42833241 original size:20 final size:20
Alignment explanation
Indices: 42833202--42833241 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
42833192 AAACTTCTTC
* *
42833202 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
42833222 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
42833242 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:42833630 original size:55 final size:54
Alignment explanation
Indices: 42833428--42833682 Score: 226
Period size: 55 Copynumber: 4.8 Consensus size: 54
42833418 ACACGGGTAC
* * * *
42833428 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TTT-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTTAGAAA
* * * *
42833477 CTTACCATTGTCAT-CTCTCGACATGGTCTTACATGGTATCTTTGCC-TTATG-AA
1 CTTACCAATGCCATGC-CTTGACATGGTCTTACATGGTATCCTTGCCTTTA-GAAA
* *
42833530 CTCACCAATGCCATGCCTT-AGCATGGTCTTACATGGGA-CCTTTGCCTTCTAGAAA
1 CTTACCAATGCCATGCCTTGA-CATGGTCTTACATGGTATCC-TTGCCTT-TAGAAA
* * * *
42833585 CTTATCAATGCCATGTCTTGACATGGTCTTACAAGATATCCTTGCC-TTAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTTAGAAA
* *
42833638 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
42833683 AAACCCTAAT
Statistics
Matches: 165, Mismatches: 24, Indels: 28
0.76 0.11 0.13
Matches are distributed among these distances:
49 34 0.21
50 1 0.01
52 4 0.02
53 42 0.25
54 12 0.07
55 69 0.42
56 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTTAGAAA
Found at i:42833630 original size:108 final size:110
Alignment explanation
Indices: 42833473--42833675 Score: 277
Period size: 108 Copynumber: 1.9 Consensus size: 110
42833463 GTATCCTTTT
* * * * *
42833473 GAAACTTACCATTGTCATCTCTCGACATGGTCTTACATGGTATCTTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATCTCTCGACATGGTCTTACAAGATATCCTTGCCTTA-GAAACCTCACC
42833536 AA-TGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTCTA
65 AATTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTCTA
* * * *
42833581 GAAACTTATCAATGCCATGTCTTGACATGGTCTTACAAGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATCTCTCGACATGGTCTTACAAGATATCCTTGCCTTAGAAACCTCACCA
* *
42833646 ATTTCCATGCCTTGGCATGGTCTTACATGG
66 ATTGCCATGCCTTAGCATGGTCTTACATGG
42833676 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.58
109 7 0.09
110 26 0.32
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATCTCTCGACATGGTCTTACAAGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTAGCATGGTCTTACATGGGACCTTTGCCTTCTA
Found at i:42838423 original size:332 final size:332
Alignment explanation
Indices: 42837817--42840470 Score: 5227
Period size: 332 Copynumber: 8.0 Consensus size: 332
42837807 GGTCCCCGGC
*
42837817 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTAAATA
1 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
42837882 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
66 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
42837947 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
131 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
*
42838012 TCAACATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
196 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
*
42838077 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACCCCTAATTATT
261 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
42838142 CAATTCT
326 CAATTCT
42838149 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
1 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
*
42838214 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTCTT
66 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
42838279 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
131 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
42838344 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
196 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
42838409 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
261 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
42838474 CAATTCT
326 CAATTCT
42838481 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
1 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
42838546 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
66 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
42838611 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
131 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
42838676 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
196 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
42838741 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
261 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
42838806 CAATTCT
326 CAATTCT
42838813 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
1 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
42838878 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
66 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
42838943 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
131 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
**
42839008 TCAAAATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
196 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
42839073 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
261 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
42839138 CAATTCT
326 CAATTCT
42839145 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
1 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
42839210 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
66 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
42839275 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
131 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
42839340 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
196 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
42839405 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
261 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
42839470 CAATTCT
326 CAATTCT
42839477 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
1 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
42839542 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
66 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
42839607 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
131 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
*
42839672 TCAACATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
196 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
42839737 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
261 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
42839802 CAATTCT
326 CAATTCT
42839809 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
1 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
42839874 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
66 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
42839939 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
131 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
*
42840004 TCATCATAAATTCCTAATTTCGAAATTCTTTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
196 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
42840069 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
261 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
42840134 CAATTCT
326 CAATTCT
42840141 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
1 TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
42840206 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
66 TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
42840271 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
131 TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
42840336 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
196 TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
*
42840401 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTCTT
261 ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
42840466 CAATT
326 CAATT
42840471 TATTCAACAT
Statistics
Matches: 2308, Mismatches: 14, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
332 2308 1.00
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.40
Consensus pattern (332 bp):
TCAATGTTAGCTACGGGAATCAAACAATTAAAATTTATCAATACACTACAATTTAACATTGAATA
TTTCAATTTATACATAACTTTTGCCTAAATTCCAAATTAGTCCTTAAATCAAAACTAACTCTTTT
TTCTTCCAAACTAATTCCATATTTTCATTTAATTCCCATTTAAAACTAAATTTAACTCCCTAATT
TCATCATAAATTCCTAATTTCGAAATTCTCTCAACCTAGTCCCTATTACTTAAATTTTATGATTT
ATTTTACAATTCAATCCCTTTTTCACTAGTAACTTGAAATTCTATCAATTTAACGCCTAATTATT
CAATTCT
Found at i:42840956 original size:97 final size:97
Alignment explanation
Indices: 42840840--42841029 Score: 380
Period size: 97 Copynumber: 2.0 Consensus size: 97
42840830 CAATTGTTAA
42840840 AATTTGGTTTATTTATTTATTTAGTCCCTTGAATTTTCTCTATTCTATATTTAAGCTTTCACACT
1 AATTTGGTTTATTTATTTATTTAGTCCCTTGAATTTTCTCTATTCTATATTTAAGCTTTCACACT
42840905 TTATTCAATTTTCTTAATTCACGGAAATTTAC
66 TTATTCAATTTTCTTAATTCACGGAAATTTAC
42840937 AATTTGGTTTATTTATTTATTTAGTCCCTTGAATTTTCTCTATTCTATATTTAAGCTTTCACACT
1 AATTTGGTTTATTTATTTATTTAGTCCCTTGAATTTTCTCTATTCTATATTTAAGCTTTCACACT
42841002 TTATTCAATTTTCTTAATTCACGGAAAT
66 TTATTCAATTTTCTTAATTCACGGAAAT
42841030 AGTGACCCGA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (97 bp):
AATTTGGTTTATTTATTTATTTAGTCCCTTGAATTTTCTCTATTCTATATTTAAGCTTTCACACT
TTATTCAATTTTCTTAATTCACGGAAATTTAC
Found at i:42845555 original size:47 final size:47
Alignment explanation
Indices: 42845464--42845589 Score: 125
Period size: 47 Copynumber: 2.7 Consensus size: 47
42845454 TGGGTAAGGT
* * **
42845464 GTCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATATCTCAA
1 GTCGATGCCATGTCCCAGACATAGTCTTACACTAACTCATATCTCAA
* *
42845511 GTCGATGCCATGTCCCA-AGCATAGTCTTATACTAACT-ATCATCTCGTA
1 GTCGATGCCATGTCCCAGA-CATAGTCTTACACTAACTCAT-ATCTC-AA
* *
42845559 GCCGATG-CATGTCACAGACAT-GTCTTACACT
1 GTCGATGCCATGTCCCAGACATAGTCTTACACT
42845590 GGCTTACATC
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
46 12 0.18
47 46 0.70
48 8 0.12
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATAGTCTTACACTAACTCATATCTCAA
Found at i:42845600 original size:46 final size:46
Alignment explanation
Indices: 42845466--42845618 Score: 120
Period size: 47 Copynumber: 3.3 Consensus size: 46
42845456 GGTAAGGTGT
* * * * *
42845466 CGATGCCATGTTCCAGACATGGTCTTACACTGGCTCATATCTCAAGT
1 CGATGCCATG-TCCAGACATAGTCTTACACTGGCTTACATCTCTAGC
* **
42845513 CGATGCCATGTCCCA-AGCATAGTCTTATACTAAC-TATCATCTCGTAGC
1 CGATGCCATGT-CCAGA-CATAGTCTTACACTGGCTTA-CATCTC-TAGC
42845561 CGATG-CATGTCACAGACAT-GTCTTACACTGGCTTACATCT-TCAGGC
1 CGATGCCATGTC-CAGACATAGTCTTACACTGGCTTACATCTCT-A-GC
42845607 CGATG-CATGTCC
1 CGATGCCATGTCC
42845619 TAGATGTAAC
Statistics
Matches: 86, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 32 0.37
47 43 0.50
48 8 0.09
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CGATGCCATGTCCAGACATAGTCTTACACTGGCTTACATCTCTAGC
Found at i:42853534 original size:27 final size:28
Alignment explanation
Indices: 42853504--42853560 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
42853494 ATTTTTGATG
42853504 AAATGAGCTATTTG-GG-CTAATTTGTGA
1 AAATGAGCT-TTTGAGGACTAATTTGTGA
*
42853531 AAATGAGGTTTTGAAGGACTAATTTGTGA
1 AAATGAGCTTTTG-AGGACTAATTTGTGA
42853560 A
1 A
42853561 TTTAACATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
26 4 0.15
27 8 0.31
28 2 0.08
29 12 0.46
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.35
Consensus pattern (28 bp):
AAATGAGCTTTTGAGGACTAATTTGTGA
Found at i:42855714 original size:30 final size:30
Alignment explanation
Indices: 42855657--42855715 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
42855647 AAATTTACAT
* * *
42855657 CCTTAGTAAAATGATCATTTTGGCCCTAGA
1 CCTTAGCAAAATGACCATTTTGACCCTAGA
*
42855687 CCTTAGCAAAATGACCATTTTTACCCTAG
1 CCTTAGCAAAATGACCATTTTGACCCTAG
42855716 GCTCGAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (30 bp):
CCTTAGCAAAATGACCATTTTGACCCTAGA
Found at i:42856051 original size:12 final size:12
Alignment explanation
Indices: 42856034--42856058 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42856024 CAAAAATGTA
42856034 AAAATCATCAAG
1 AAAATCATCAAG
42856046 AAAATCATCAAG
1 AAAATCATCAAG
42856058 A
1 A
42856059 TCACTTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATCATCAAG
Found at i:42860703 original size:7 final size:7
Alignment explanation
Indices: 42860691--42860717 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
42860681 TTTTTGCGGG
42860691 AAAAATT
1 AAAAATT
42860698 AAAAATT
1 AAAAATT
42860705 AAAAATT
1 AAAAATT
42860712 AAAAAT
1 AAAAAT
42860718 GAACCTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:42866996 original size:43 final size:42
Alignment explanation
Indices: 42866785--42866996 Score: 167
Period size: 43 Copynumber: 5.0 Consensus size: 42
42866775 CACATAAGCT
* * * * * *
42866785 CATACAATGCC-ATATCCCGGATATGGTCTTACATGTTATCA
1 CATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCG
* * * * * * *
42866826 CATATCGATGCCACTGTCCTAAACAGGGTCTTACACGAAATCA
1 CATA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCG
* * * * * *
42866869 TATAACGATGCCAATGTCCTAAACATGGTCTTACACATAATAG
1 CAT-ACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCG
* *
42866912 CATA-ATGATGCCAATGCCCCAGACATGGTCTTACACATAATCG
1 CATACA--ATGCCAATGTCCCAGACATGGTCTTACACGTAATCG
*
42866955 CAATACAATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 C-ATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATC
42866997 TCATCTTGGT
Statistics
Matches: 137, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
41 4 0.03
42 7 0.05
43 121 0.88
44 4 0.03
45 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (42 bp):
CATACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCG
Found at i:42872736 original size:21 final size:21
Alignment explanation
Indices: 42872712--42872756 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
42872702 CTCATGTGAC
*
42872712 AATTAACATATACTTCATAAA
1 AATTAACAAATACTTCATAAA
* *
42872733 AATTCAGAAATACTTCATAAA
1 AATTAACAAATACTTCATAAA
42872754 AAT
1 AAT
42872757 ATTTTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.31
Consensus pattern (21 bp):
AATTAACAAATACTTCATAAA
Found at i:42877515 original size:2 final size:2
Alignment explanation
Indices: 42877510--42877542 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
42877500 CTTATATATA
42877510 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
42877543 TTGATTATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:42884682 original size:90 final size:90
Alignment explanation
Indices: 42884576--42884759 Score: 359
Period size: 90 Copynumber: 2.0 Consensus size: 90
42884566 TTGGGTCACT
42884576 ATTTTACATCCACTTGAATTTAAGAGAAAGTTGTAAAGAAAAAATCCTCTGAAGAGATTATTTCA
1 ATTTTACATCCACTTGAATTTAAGAGAAAGTTGTAAAGAAAAAATCCTCTGAAGAGATTATTTCA
*
42884641 GAAAATTTCTAAAGATATTTTTCTA
66 GAAAATTTCTAAAAATATTTTTCTA
42884666 ATTTTACATCCACTTGAATTTAAGAGAAAGTTGTAAAGAAAAAATCCTCTGAAGAGATTATTTCA
1 ATTTTACATCCACTTGAATTTAAGAGAAAGTTGTAAAGAAAAAATCCTCTGAAGAGATTATTTCA
42884731 GAAAATTTCTAAAAATATTTTTCTA
66 GAAAATTTCTAAAAATATTTTTCTA
42884756 ATTT
1 ATTT
42884760 ACAACTTGAC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.36
Consensus pattern (90 bp):
ATTTTACATCCACTTGAATTTAAGAGAAAGTTGTAAAGAAAAAATCCTCTGAAGAGATTATTTCA
GAAAATTTCTAAAAATATTTTTCTA
Found at i:42890380 original size:77 final size:77
Alignment explanation
Indices: 42890298--42890451 Score: 227
Period size: 77 Copynumber: 2.0 Consensus size: 77
42890288 ACCTTTCATT
* ** *
42890298 TTTTTTAAGTCTTTTTAATTTTTTGTCTTTTTAATCCATACATTTGTATTATTTGTTAAATTACT
1 TTTTTTAAATCTTTTTAATTTTTCATCTTTTTAATCCATACATTTGTATTATTTGTTAAATCACT
*
42890363 TGAAATGAATGA
66 CGAAATGAATGA
* * * *
42890375 TTTTTTAAATTTTTTTAATTTTTCATTTTTTTAATCTATATATTTGTATTATTTGTTAAATCACT
1 TTTTTTAAATCTTTTTAATTTTTCATCTTTTTAATCCATACATTTGTATTATTTGTTAAATCACT
42890440 CGAAATGAATGA
66 CGAAATGAATGA
42890452 AAAAATTAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 68 1.00
ACGTcount: A:0.29, C:0.07, G:0.08, T:0.56
Consensus pattern (77 bp):
TTTTTTAAATCTTTTTAATTTTTCATCTTTTTAATCCATACATTTGTATTATTTGTTAAATCACT
CGAAATGAATGA
Found at i:42891365 original size:28 final size:30
Alignment explanation
Indices: 42891309--42891365 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 30
42891299 CTTTTATATT
* *
42891309 TTTTAAAATTTGATTTGTTAATTTTTATAA
1 TTTTAAAATTTGATTTGTTAATGTATATAA
*
42891339 TTTTAAAA-TT-ATTTGTTGATGTATATA
1 TTTTAAAATTTGATTTGTTAATGTATATA
42891366 GGACAAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 14 0.58
29 2 0.08
30 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (30 bp):
TTTTAAAATTTGATTTGTTAATGTATATAA
Found at i:42891875 original size:16 final size:16
Alignment explanation
Indices: 42891856--42891891 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
42891846 TATTATTTTT
42891856 TATTAGTATT-AGTATG
1 TATTAGTATTGA-TATG
42891872 TATTAGTATTGATATG
1 TATTAGTATTGATATG
42891888 TATT
1 TATT
42891892 GATATCGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.53
Consensus pattern (16 bp):
TATTAGTATTGATATG
Found at i:42893776 original size:41 final size:41
Alignment explanation
Indices: 42893719--42893878 Score: 257
Period size: 41 Copynumber: 3.9 Consensus size: 41
42893709 GGCGTTTTAG
42893719 AGAGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAAGACC
1 AGAGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAAGACC
* *
42893760 AGAGCATTAGCGGCGCTTTTGTTAAAACGCCGCTAAAGACC
1 AGAGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAAGACC
* * *
42893801 AGAGCATCAACAGCGCTTTTGTTAAAACGCCGCTAAAGACC
1 AGAGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAAGACC
* *
42893842 AGAGCATTAGCGGCGCTTTTGGTAAAACGCCACTAAA
1 AGAGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAA
42893879 AGTCATATAA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 109 1.00
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (41 bp):
AGAGCATTAGCAGCGCTTTTGGTAAAACGCCGCTAAAGACC
Found at i:42893987 original size:53 final size:52
Alignment explanation
Indices: 42893895--42893996 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 52
42893885 ATAACTCTTA
*
42893895 AAATCCTAAACCCAAAAAACACAAAACACCAATCTATAAC-CCTTAAAATAGT
1 AAATCCTAAACCCAAAAAACACAAAACACCAAACTATAACACC-TAAAATAGT
* * * * *
42893947 AAATCCTAAACCCTAACAAGCCCTAAACACTAAACTATAACACCTAAAAT
1 AAATCCTAAACCC-AAAAAACACAAAACACCAAACTATAACACCTAAAAT
42893997 CCTAAACGTC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
52 13 0.31
53 27 0.64
54 2 0.05
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.18
Consensus pattern (52 bp):
AAATCCTAAACCCAAAAAACACAAAACACCAAACTATAACACCTAAAATAGT
Found at i:42894102 original size:14 final size:14
Alignment explanation
Indices: 42894080--42894118 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
42894070 TAGGATTTAT
* *
42894080 GATTTAGGGTTTTG
1 GATTTAGGGGTTGG
42894094 GATTTAGGGGTTGG
1 GATTTAGGGGTTGG
*
42894108 GGTTTAGGGGT
1 GATTTAGGGGT
42894119 AAATATAGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.46, T:0.41
Consensus pattern (14 bp):
GATTTAGGGGTTGG
Found at i:42895294 original size:22 final size:22
Alignment explanation
Indices: 42895266--42895308 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
42895256 ACATTCCTGC
42895266 GAATCCTGCTGTTAACGTTAAG
1 GAATCCTGCTGTTAACGTTAAG
42895288 GAATCCTGCTGTTAACGTTAA
1 GAATCCTGCTGTTAACGTTAA
42895309 AGATGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (22 bp):
GAATCCTGCTGTTAACGTTAAG
Found at i:42899601 original size:43 final size:43
Alignment explanation
Indices: 42899540--42899660 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
42899530 TTTTTGAATT
42899540 TCATGA-CTTTTAGGGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
1 TCATGATC-TTTAGGGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* *
42899583 TCATGATCTTTAGGGGCGTTTGTAGGAAAAGCGTCGCTAAAGG
1 TCATGATCTTTAGGGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
* * * *
42899626 TCTTGATTTTTAGCGGCGTTTGTGAGAAAAGCGCC
1 TCATGATCTTTAGGGGCGTTTGTGGGAAAAGCGCC
42899661 ACTAGCGGCG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 68 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (43 bp):
TCATGATCTTTAGGGGCGTTTGTGGGAAAAGCGCCGCTAAAGG
Found at i:42899666 original size:27 final size:27
Alignment explanation
Indices: 42899636--42899687 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
42899626 TCTTGATTTT
42899636 TAGCGGCGTTTGTGAGAAAAGCGCCAC
1 TAGCGGCGTTTGTGAGAAAAGCGCCAC
*
42899663 TAGCGGCGTTTGTGAGAAAGGCGCC
1 TAGCGGCGTTTGTGAGAAAAGCGCC
42899688 GTTAATGGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.37, T:0.19
Consensus pattern (27 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCAC
Found at i:42909636 original size:13 final size:13
Alignment explanation
Indices: 42909618--42909642 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42909608 TGTTACATCA
42909618 AGTATATTAATTC
1 AGTATATTAATTC
42909631 AGTATATTAATT
1 AGTATATTAATT
42909643 TAGTTGTGAA
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:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
AGTATATTAATTC
Found at i:42909798 original size:24 final size:24
Alignment explanation
Indices: 42909770--42909818 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
42909760 CCAAAATAAC
42909770 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
*
42909794 AATTAATTTTTGTATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
42909818 A
1 A
42909819 TAAATATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:42910647 original size:41 final size:41
Alignment explanation
Indices: 42910398--42910632 Score: 260
Period size: 41 Copynumber: 5.7 Consensus size: 41
42910388 TTATATGACT
* * * *
42910398 TTTAGTGGCGTTTTACCAAAAGCGCCACGAATGCTCTGGTC
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
* * *
42910439 TTTAGCGGCGTTTTACCAAAAGCGTCGCTAATGGTCTGGTC
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
42910480 TTTAGCGGCGTTTT-GCCAAAAGCGCCGCTAATGCTCTGGTC
1 TTTAGCGGCGTTTTAG-CAAAAGCGCCGCTAATGCTCTGGTC
* * *
42910521 TTTAGCGGCATTTT-GCCAAAAGCGCAGTTAATGCTCTGGTC
1 TTTAGCGGCGTTTTAG-CAAAAGCGCCGCTAATGCTCTGGTC
* * * * * * *
42910562 TTTAGCGGCGTTTTAACAAAAAACGTCGCTATTACTC-AGTT
1 TTTAGCGGCGTTTTAGC-AAAAGCGCCGCTAATGCTCTGGTC
*
42910603 TTTAGCGGCGTTTTAGCAAAAACGCCGCTA
1 TTTAGCGGCGTTTTAGCAAAAGCGCCGCTA
42910633 TTTCTCTGTG
Statistics
Matches: 168, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
40 12 0.07
41 143 0.85
42 13 0.08
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGTC
Found at i:42910818 original size:19 final size:19
Alignment explanation
Indices: 42910794--42910833 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
42910784 TATTTTGGTC
42910794 TTTTCCCATTTAGATTGCT
1 TTTTCCCATTTAGATTGCT
42910813 TTTTCCCATTTAGATTGCT
1 TTTTCCCATTTAGATTGCT
42910832 TT
1 TT
42910834 CTAACTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.20, G:0.10, T:0.55
Consensus pattern (19 bp):
TTTTCCCATTTAGATTGCT
Found at i:42916688 original size:20 final size:22
Alignment explanation
Indices: 42916663--42916702 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
42916653 GCAAGCCACC
*
42916663 ATTGAT-GA-ATTAGGCTTAAA
1 ATTGATAGATATTAAGCTTAAA
42916683 ATTGATAGATATTAAGCTTA
1 ATTGATAGATATTAAGCTTA
42916703 GATTATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (22 bp):
ATTGATAGATATTAAGCTTAAA
Found at i:42920872 original size:12 final size:12
Alignment explanation
Indices: 42920839--42920872 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
42920829 TAGAAATTAC
42920839 TTAACTT-GTAA
1 TTAACTTGGTAA
42920850 TTAAC-TGGTAA
1 TTAACTTGGTAA
42920861 TTAACTTGGTAA
1 TTAACTTGGTAA
42920873 ACACAATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (12 bp):
TTAACTTGGTAA
Found at i:42930130 original size:25 final size:25
Alignment explanation
Indices: 42930100--42930156 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
42930090 TCTCACATCC
42930100 ATTTATAAATTAATTCATATGTGAT
1 ATTTATAAATTAATTCATATGTGAT
42930125 ATTTATAAATTAATTCATATGTGAT
1 ATTTATAAATTAATTCATATGTGAT
42930150 ATTTATA
1 ATTTATA
42930157 GTGTGATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (25 bp):
ATTTATAAATTAATTCATATGTGAT
Found at i:42930868 original size:18 final size:18
Alignment explanation
Indices: 42930847--42930904 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
42930837 GTGAAGGTGA
42930847 GAGAAGAAG-AA-AG-AG
1 GAGAAGAAGAAAGAGAAG
*
42930862 GAGGAGAAGAAAGAGAAG
1 GAGAAGAAGAAAGAGAAG
* *
42930880 GAGAAGGAGAAGGAGAAG
1 GAGAAGAAGAAAGAGAAG
42930898 GAGAAGA
1 GAGAAGA
42930905 TGATGATGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 8 0.23
16 2 0.06
17 2 0.06
18 23 0.66
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (18 bp):
GAGAAGAAGAAAGAGAAG
Found at i:42930871 original size:15 final size:15
Alignment explanation
Indices: 42930851--42930904 Score: 72
Period size: 15 Copynumber: 3.4 Consensus size: 15
42930841 AGGTGAGAGA
*
42930851 AGAAGAAAGAGGAGG
1 AGAAGAAAGAGAAGG
42930866 AGAAGAAAGAGAAGG
1 AGAAGAAAGAGAAGG
42930881 AGAAGGAGAAGGAGAAGG
1 AGAA-GA-AA-GAGAAGG
42930899 AGAAGA
1 AGAAGA
42930905 TGATGATGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
15 18 0.51
16 2 0.06
17 4 0.11
18 11 0.31
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (15 bp):
AGAAGAAAGAGAAGG
Found at i:42930903 original size:12 final size:12
Alignment explanation
Indices: 42930847--42930903 Score: 66
Period size: 12 Copynumber: 5.0 Consensus size: 12
42930837 GTGAAGGTGA
* *
42930847 GAGAAGAAGAAA
1 GAGAAGGAGAAG
*
42930859 GAGGAGGAGAA-
1 GAGAAGGAGAAG
42930870 GA-AA-GAGAAG
1 GAGAAGGAGAAG
42930880 GAGAAGGAGAAG
1 GAGAAGGAGAAG
42930892 GAGAAGGAGAAG
1 GAGAAGGAGAAG
42930904 ATGATGATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
9 5 0.13
10 3 0.08
11 4 0.10
12 27 0.69
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (12 bp):
GAGAAGGAGAAG
Found at i:42930911 original size:3 final size:3
Alignment explanation
Indices: 42930903--42930931 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
42930893 AGAAGGAGAA
42930903 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
42930932 AGAAGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:42932871 original size:3 final size:3
Alignment explanation
Indices: 42932863--42932893 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
42932853 AAATAGAAAA
42932863 AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
42932894 AAGCTAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:42934940 original size:50 final size:50
Alignment explanation
Indices: 42934829--42935012 Score: 208
Period size: 50 Copynumber: 3.7 Consensus size: 50
42934819 CTGGTACGCA
**
42934829 TAGTAGCCTGCACAAAGTACTACACATGCGACC-AATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAATTATCCGGTACACG
* * * ** * *
42934878 TAGTAGCTTGCACTTAGTACTACAGATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAATTATCCGGTACACG
* * * * * * *
42934928 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-TTATCCGGTACACG
42934979 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
42935013 CACAATAGAT
Statistics
Matches: 109, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
49 28 0.26
50 43 0.39
51 38 0.35
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAATTATCCGGTACACG
Found at i:42934998 original size:101 final size:99
Alignment explanation
Indices: 42934829--42935012 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
42934819 CTGGTACGCA
* * *
42934829 TAGTAGCCTGCACAAAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCTTGCACTTA
1 TAGTAGCCTGCACAAAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* *
42934894 GTACTACAGATGTGACCTAACCATCTGATACACG
66 GTACTACACATGCGACCTAACCATCTGATACACG
** * * * *
42934928 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACAAAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
42934993 TAGTACTACACATGCGACCT
64 TAGTACTACACATGCGACCT
42935013 CACAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 27 0.38
100 3 0.04
101 42 0.58
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACAAAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCTAACCATCTGATACACG
Found at i:42940831 original size:15 final size:15
Alignment explanation
Indices: 42940811--42940840 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42940801 TCTTGTTAGT
42940811 CGTTGGAAAAGTTAC
1 CGTTGGAAAAGTTAC
*
42940826 CGTTGGAATAGTTAC
1 CGTTGGAAAAGTTAC
42940841 TATTGAAAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (15 bp):
CGTTGGAAAAGTTAC
Found at i:42943130 original size:17 final size:18
Alignment explanation
Indices: 42943100--42943136 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
42943090 AATTAAAATA
*
42943100 AATTTAATTGATTTTCTT
1 AATTAAATTGATTTTCTT
42943118 AATTAAATT-ATTTTCTT
1 AATTAAATTGATTTTCTT
42943135 AA
1 AA
42943137 CCCAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (18 bp):
AATTAAATTGATTTTCTT
Found at i:42943783 original size:42 final size:43
Alignment explanation
Indices: 42943717--42943804 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 43
42943707 AGCCAAACTA
* * **
42943717 TGTACAATTCAAAATGAGGGTCACACGGCCATGTCGCAACCCG
1 TGTACAAATCAAAATGAAGGTCACACAACCATGTCGCAACCCG
* * *
42943760 TGTACAAATCGAAAT-AAGGTCACACAACCATGTTGCAAGCCG
1 TGTACAAATCAAAATGAAGGTCACACAACCATGTCGCAACCCG
42943802 TGT
1 TGT
42943805 CCCAAACTGT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 25 0.66
43 13 0.34
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (43 bp):
TGTACAAATCAAAATGAAGGTCACACAACCATGTCGCAACCCG
Found at i:42946829 original size:33 final size:33
Alignment explanation
Indices: 42946752--42946829 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
42946742 ATATGTATAC
* *
42946752 GTGTAAGACCATAGCTGGGCTATGCCATCCTGA
1 GTGTAAGACCATAACTGGGCTATGCCATCATGA
* * * *
42946785 -TGATAAAACCATAACTGGGTTATGGCATTATGA
1 GTG-TAAGACCATAACTGGGCTATGCCATCATGA
42946818 GTGTAAGACCAT
1 GTGTAAGACCAT
42946830 GGCAAGGCCA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
32 2 0.06
33 32 0.89
34 2 0.06
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (33 bp):
GTGTAAGACCATAACTGGGCTATGCCATCATGA
Found at i:42948705 original size:17 final size:17
Alignment explanation
Indices: 42948679--42948724 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 17
42948669 ATGCTAAAAC
*
42948679 AATTATAAAAACATAAA
1 AATTACAAAAACATAAA
42948696 AATTACAAAAACATAAA
1 AATTACAAAAACATAAA
*
42948713 ACTTACTAAAAA
1 AATTAC-AAAAA
42948725 ACGGAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.22
Consensus pattern (17 bp):
AATTACAAAAACATAAA
Found at i:42952852 original size:10 final size:10
Alignment explanation
Indices: 42952837--42952861 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
42952827 TGCATAATTA
42952837 TATATATATG
1 TATATATATG
42952847 TATATATATG
1 TATATATATG
42952857 TATAT
1 TATAT
42952862 CTCGTGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:42965591 original size:76 final size:75
Alignment explanation
Indices: 42965494--42966264 Score: 523
Period size: 77 Copynumber: 9.9 Consensus size: 75
42965484 GATGTTTTTA
* * *
42965494 TTTCAAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
42965559 TTTTTTGTATG
66 TTTTTTGT-TG
*
42965570 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
* *
42965635 -TTTCTG-TC
66 TTTTTTGTTG
* *
42965643 CTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGGTATTT
1 TTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
** *
42965708 TCAA-TTGATGTTT
62 TCAATTTTTTGTTG
** * * * * *** * * * * *
42965721 TTTCAATTTACGCTTTTCAAAAATCA-ACT-CATATTACAAGAGGTGAG-TTGA-G-C-CTC-GG
1 TTTCAA---A----AATC--AACTCATATTGC-GA-GAGGTGAGTTGAGCCTCAGGACACGCTGA
* *** * **
42965779 GGAACGCTGAGGTATTTTCAATTAATG
55 GGTATTTTCA---ATTTT---TTGTTG
* * * * **
42965806 CTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGCGCCTCGGGTCACATGCCAAGGTATTT
1 --TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTT
42965871 TCAAAATCTATTTTGCAAATTCTG
62 TC--AAT-T-TTTTG-----T-TG
*
42965895 TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTT
1 -TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
*
42965960 CAA-TTTCTGCTTG
63 CAATTTTTTG-TTG
* * *
42965973 --TC-AAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
*
42966035 TTTTTTATATG
66 TTTTTTGT-TG
** *
42966046 TTTCAAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTATTGTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
*
42966110 TTTTTTATATG
66 TTTTTTGT-TG
*
42966121 TTTCAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
1 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
* *
42966186 -TTTCTG-TC
66 TTTTTTGTTG
* * *
42966194 CTTCAAAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGACGCGCTGAGGTATTT
1 TTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
42966259 TCAATT
62 TCAATT
42966265 GATGTTTTTT
Statistics
Matches: 549, Mismatches: 89, Indels: 112
0.73 0.12 0.15
Matches are distributed among these distances:
72 57 0.10
73 14 0.03
74 2 0.00
75 86 0.16
76 116 0.21
77 124 0.23
78 25 0.05
79 6 0.01
80 5 0.01
81 5 0.01
82 7 0.01
83 20 0.04
84 5 0.01
85 7 0.01
86 4 0.01
87 7 0.01
88 19 0.03
89 2 0.00
90 38 0.07
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (75 bp):
TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
TTTTTTGTTG
Found at i:42966338 original size:88 final size:88
Alignment explanation
Indices: 42966202--42966592 Score: 556
Period size: 88 Copynumber: 4.4 Consensus size: 88
42966192 TCCTTCAAAA
* *
42966202 AAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGACGCGCTGAGGTATTTTCAATTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTGA
42966267 TGTTTTTTCAATTTACGCTTTTC
66 TGTTTTTTCAATTTACGCTTTTC
* * *
42966290 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGA-ACGCTGAGGTATTTTCAATTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTG
*
42966354 ATGTTTTTTCAATTTATGCTTTTC
65 ATGTTTTTTCAATTTACGCTTTTC
* * * **
42966378 AAAAATTAACTCATATTACGAGAGGTGAGTTGAGTCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTGA
****
42966443 TG-TTTTTCAATTT-CTGTCCTAAAA
66 TGTTTTTTCAATTTAC-G--CTTTTC
42966467 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTGA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTGA
*
42966532 TGTTTTTTCAATTTATGC-TTTC
66 TGTTTTTTCAATTTACGCTTTTC
42966554 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
42966593 TGGCTCACGT
Statistics
Matches: 268, Mismatches: 26, Indels: 17
0.86 0.08 0.05
Matches are distributed among these distances:
87 15 0.06
88 137 0.51
89 104 0.39
90 12 0.04
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTGA
TGTTTTTTCAATTTACGCTTTTC
Found at i:42966391 original size:476 final size:473
Alignment explanation
Indices: 42965496--42966895 Score: 1412
Period size: 476 Copynumber: 2.8 Consensus size: 473
42965486 TGTTTTTATT
*
42965496 TCAAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
1 TCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
* ** *
42965561 TTTTGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGAGG
65 TTTTATATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGG
** **** *
42965626 TATTTTCAATTTCTGTCCTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
130 TA-TTTCAATTT-T-TTATTGTTTAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAG
* *
42965691 GACATGCTGAGGTATTTTCAATTGATGTTTTTTCAATTTACGCTTTTCAAAAATCAACTCATATT
192 GACACGCTGAGGTATTTTCAATTGCTG--TTTTCAA---A--------AAAAATCAACTCATATT
* * *
42965756 ACAAGAGGTGAGTTGAGCCTCGGGGA-ACGCTGAGGTATTTTC-A--A-----TT-AA--T-GCT
244 GCGAGAGGTGAGTTGAGCCTC-AGGACACGCTGAGGTATTTTCAATTATGTTTTTCAATTTCGCT
* * * **
42965808 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGCGCCTCGGGTCACATGCCAAGGTATTTTC
308 TTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGG-GA-ACGCTGAGGTATTTTC
* * * *
42965873 AA--AATCTATTTTGCAAATTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
371 AATTAATCT-TTTTTCAATTTATGCTTTTC--AAAAATCAACTCATATTACGAGAGGTGAGTTGA
42965935 GCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-C-T-TG
433 GCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTCATCTG
* *
42965973 TCAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTGTCAATTT
1 TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
42966038 TTTATATGTTTCAAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGT
66 TTTATATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGT
*
42966102 ATTGTCAATTTTTTATATGTTTCAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGA
131 ATT-TCAATTTTTTAT-TGTTTAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGA
* * *
42966167 CACGCTGAGGTATTTTCAATTTCTGTCCTTCAAAAAAAAATCAACTCATATTGCGAGATGTGAGT
194 CACGCTGAGGTATTTTCAATTGCTGT-TTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGT
*
42966232 TGAGCCTCAGGACGCGCTGAGGTATTTTCAATTGATGTTTTTTCAATTTACGCTTTTCAAAAATC
257 TGAGCCTCAGGACACGCTGAGGTATTTTCAATT-ATG-TTTTTCAATTT-CGCTTTTCAAAAATC
*
42966297 AACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGAACGCTGAGGTATTTTCAATTAATGTTTTT
319 AACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGAACGCTGAGGTATTTTCAATTAATCTTTTT
* *
42966362 TCAATTTATGCTTTTCAAAAATTAACTCATATTACGAGAGGTGAGTTGAGTCTCAGGACACGCTG
384 TCAATTTATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTG
*
42966427 AGGTATTTTCAATTTCTGTTTTTCAATTTCTG
449 AGGTAATTTCAATTTCTG----TC-A--TCTG
*
42966459 TCCTAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
1 T-C------AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTT
42966524 TCAATTGATGTTTTTTCAATTTATGCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
59 TC-A---A--TTTTTT--A--TATG-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** * ***
42966589 GCCTTGGCTCACG-TGTTGAGTCACTTTCAATTTCTATTTTTATGTCTGTTTTTTTAAATCAACT
111 GCCTTGGGACACGCTG-AG-GT-A-TTTCAA----T-TTTTTA--T-TG-TTTAAAAAATCAACT
* *
42966653 CATATTGCGGGAGGCGAGTTGAGCCTC-GGAGCGCGCTGAGGTATTTTCAATTGCTGTTTGTC--
163 CATATTGCGGGAGGTGAGTTGAGCCTCAGGA-CACGCTGAGGTATTTTCAATTGCTGTTT-TCAA
* * *
42966715 -AAAAATCAACTCATACTGCGAGAGGAGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTT
226 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA-TT
*
42966779 CTGTTTTTCAATTTCTG-TTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGCT
290 ATGTTTTTCAATTTC-GCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGG--
* * * * * *
42966843 CGCACGCTGAGGTATTTTTATTTTTTATTTTTTTTCAATTTATGCTTTTCAAA
352 GGAACGCTGAGGTATTTTCA--ATTAATCTTTTTTCAATTTATGCTTTTCAAA
42966896 TTCTGCTTTT
Statistics
Matches: 786, Mismatches: 63, Indels: 110
0.82 0.07 0.11
Matches are distributed among these distances:
462 3 0.00
463 50 0.06
464 1 0.00
467 1 0.00
471 1 0.00
472 1 0.00
473 7 0.01
474 71 0.09
475 40 0.05
476 163 0.21
477 18 0.02
478 56 0.07
481 1 0.00
485 1 0.00
486 3 0.00
487 1 0.00
493 55 0.07
494 1 0.00
497 1 0.00
499 6 0.01
501 1 0.00
503 4 0.01
504 4 0.01
506 19 0.02
507 27 0.03
508 2 0.00
509 5 0.01
510 2 0.00
511 46 0.06
512 12 0.02
513 76 0.10
514 8 0.01
515 28 0.04
516 7 0.01
517 64 0.08
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.35
Consensus pattern (473 bp):
TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
TTTATATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGT
ATTTCAATTTTTTATTGTTTAAAAAATCAACTCATATTGCGGGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTATTTTCAATTGCTGTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
CCTCAGGACACGCTGAGGTATTTTCAATTATGTTTTTCAATTTCGCTTTTCAAAAATCAACTCAT
ATTACGAGAGGTGAGTTGAGCCTCGGGGAACGCTGAGGTATTTTCAATTAATCTTTTTTCAATTT
ATGCTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAAT
TTCAATTTCTGTCATCTG
Found at i:42966451 original size:14 final size:14
Alignment explanation
Indices: 42966432--42966459 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42966422 CGCTGAGGTA
42966432 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
42966446 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
42966460 CCTAAAAAAA
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:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:42966723 original size:73 final size:73
Alignment explanation
Indices: 42966644--42966789 Score: 213
Period size: 73 Copynumber: 2.0 Consensus size: 73
42966634 CTGTTTTTTT
* * * *
42966644 AAATCAACTCATATTGCGGGAGGCGAGTTGAGCCTC-GGAGCGCGCTGAGGTATTTTCAATTGCT
1 AAATCAACTCATACTGCGAGAGGAGAGTTGAGCCTCAGGA-CACGCTGAGGTATTTTCAATTGCT
42966708 GTTTGTCAA
65 GTTTGTCAA
* *
42966717 AAATCAACTCATACTGCGAGAGGAGAGTTGAGCCTCAGGACATGCTGAGGTATTTTCAATTTCTG
1 AAATCAACTCATACTGCGAGAGGAGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTGCTG
*
42966782 TTTTTCAA
66 TTTGTCAA
42966790 TTTCTGTTTT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 62 0.95
74 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (73 bp):
AAATCAACTCATACTGCGAGAGGAGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTGCTG
TTTGTCAA
Found at i:42966802 original size:13 final size:14
Alignment explanation
Indices: 42966769--42966799 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
42966759 TGCTGAGGTA
42966769 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
42966783 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
42966797 TTT
1 TTT
42966800 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.06, T:0.68
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:42966964 original size:109 final size:105
Alignment explanation
Indices: 42966769--42966969 Score: 260
Period size: 109 Copynumber: 1.9 Consensus size: 105
42966759 TGCTGAGGTA
* * * *
42966769 TTTTCAATTTCTGTTTTTCAATTTCTGTTTTCAAAAATCAACTCATATTACGAGAGGTGAGTTGA
1 TTTTCAATTTATGCTTTTCAAATTCTGTTTTAAAAAATCAACTCATATTACGAGAGGTGAGTTGA
*
42966834 GCCTCGGCTCGCACGCTGAGGTATTTTTATTTTTTATTTT
66 GCCTCGGCTCACACGCTGAGGTATTTTTATTTTTTATTTT
* * *
42966874 TTTTCAATTTATGCTTTTCAAATTCTGCTTTTTAAAAAAAATCAACTCCTATTGCTAGAGGTGAG
1 TTTTCAATTTATGCTTTTCAAATTCTG--TTTT--AAAAAATCAACTCATATTACGAGAGGTGAG
* *
42966939 TTGAGCCTCGGGTCACATG-TCGAGGTATTTT
62 TTGAGCCTCGGCTCACACGCT-GAGGTATTTT
42966970 CAAAATTTGC
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
105 24 0.30
107 4 0.05
108 1 0.01
109 52 0.64
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (105 bp):
TTTTCAATTTATGCTTTTCAAATTCTGTTTTAAAAAATCAACTCATATTACGAGAGGTGAGTTGA
GCCTCGGCTCACACGCTGAGGTATTTTTATTTTTTATTTT
Found at i:42968979 original size:10 final size:10
Alignment explanation
Indices: 42968964--42968988 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
42968954 TGCATAATTA
42968964 TATATATATG
1 TATATATATG
42968974 TATATATATG
1 TATATATATG
42968984 TATAT
1 TATAT
42968989 CTCGTGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:42971580 original size:26 final size:26
Alignment explanation
Indices: 42971551--42971602 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
42971541 TATAATATAA
*
42971551 GATTGAGCCTTAATTTGATTAGTATC
1 GATTGAACCTTAATTTGATTAGTATC
42971577 GATTGAACCTTAATTTGATTAGTATC
1 GATTGAACCTTAATTTGATTAGTATC
42971603 TTTTCTACTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (26 bp):
GATTGAACCTTAATTTGATTAGTATC
Found at i:42978824 original size:19 final size:20
Alignment explanation
Indices: 42978797--42978841 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
42978787 TTTTTAAGCC
*
42978797 AATGTTAAATATT-ATTTAT
1 AATGATAAATATTAATTTAT
*
42978816 AATGATAAATTTTAATTTAT
1 AATGATAAATATTAATTTAT
42978836 ATATGA
1 A-ATGA
42978842 ATGTAGCACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (20 bp):
AATGATAAATATTAATTTAT
Found at i:42979274 original size:6 final size:6
Alignment explanation
Indices: 42979263--42979289 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
42979253 TATGATGTAA
42979263 AAAAAG AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAA
42979290 TCATTCCGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:42979936 original size:31 final size:31
Alignment explanation
Indices: 42979894--42979960 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
42979884 TTAAATCTCA
* *
42979894 AATACTATTATTTTGATAAATAAATAGGATT
1 AATATTATTATTTTGATAAACAAATAGGATT
42979925 AATATTATTATTTTGATAAACAAATAGGATT
1 AATATTATTATTTTGATAAACAAATAGGATT
42979956 AATAT
1 AATAT
42979961 AGAGAGGAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.03, G:0.09, T:0.42
Consensus pattern (31 bp):
AATATTATTATTTTGATAAACAAATAGGATT
Found at i:42980565 original size:21 final size:22
Alignment explanation
Indices: 42980524--42980565 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
42980514 AAATGCAAAC
*
42980524 ACAGACAATTGAATACAAAAAT
1 ACAGACAATCGAATACAAAAAT
*
42980546 ACAGAGAATCGAAT-CAAAAA
1 ACAGACAATCGAATACAAAAA
42980566 AGGAAAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.60, C:0.14, G:0.12, T:0.14
Consensus pattern (22 bp):
ACAGACAATCGAATACAAAAAT
Found at i:42981513 original size:3 final size:3
Alignment explanation
Indices: 42981498--42981546 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
42981488 CTATTCTTTG
*
42981498 TAT TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
42981546 T
1 T
42981547 TTTAAACCGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:42986933 original size:5 final size:5
Alignment explanation
Indices: 42986932--42986975 Score: 63
Period size: 5 Copynumber: 8.6 Consensus size: 5
42986922 CTTTTTTATT
42986932 TTTTA TTTTA TTTTA TTTTA -TTTA TTTTA TTTTTAA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTT-A TTTTA TTT
42986976 CTTTTGAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
4 4 0.11
5 23 0.64
6 8 0.22
7 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:42986945 original size:19 final size:19
Alignment explanation
Indices: 42986923--42986971 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
42986913 TTAGATTATC
42986923 TTTTTTATTTTTTATTTTA
1 TTTTTTATTTTTTATTTTA
*
42986942 TTTTATT-TTATTTATTTTA
1 TTTT-TTATTTTTTATTTTA
*
42986961 TTTTTAATTTT
1 TTTTTTATTTT
42986972 ATTTCTTTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 22 0.88
20 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTTATTTTTTATTTTA
Found at i:42986947 original size:26 final size:26
Alignment explanation
Indices: 42986926--42986975 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
42986916 GATTATCTTT
*
42986926 TTTATTTT-TTATTTTATTTTATTTTA
1 TTTATTTTATT-TTTAATTTTATTTTA
42986952 TTTATTTTATTTTTAATTTTATTT
1 TTTATTTTATTTTTAATTTTATTT
42986976 CTTTTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (26 bp):
TTTATTTTATTTTTAATTTTATTTTA
Found at i:42986955 original size:14 final size:15
Alignment explanation
Indices: 42986932--42986975 Score: 63
Period size: 14 Copynumber: 2.9 Consensus size: 15
42986922 CTTTTTTATT
42986932 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
42986947 TTTTA-TTTATTTTA
1 TTTTATTTTATTTTA
42986961 TTTTTAATTTTATTT
1 -TTTT-ATTTTATTT
42986976 CTTTTGAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.35
15 9 0.35
16 1 0.04
17 7 0.27
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTATTTTATTTTA
Found at i:42986980 original size:9 final size:9
Alignment explanation
Indices: 42986933--42986963 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
42986923 TTTTTTATTT
42986933 TTTATTTTA
1 TTTATTTTA
42986942 TTTTATTTTA
1 -TTTATTTTA
42986952 TTTATTTTA
1 TTTATTTTA
42986961 TTT
1 TTT
42986964 TTAATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:43003086 original size:44 final size:45
Alignment explanation
Indices: 43002852--43003636 Score: 287
Period size: 44 Copynumber: 17.5 Consensus size: 45
43002842 TTATCATGGA
* * * * **
43002852 AAATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCCAC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTAC
* * * * * * * *
43002896 AAACCTTATTTCCCTGAAATTACAGTGAAGTAGGTTAAAAATAAAC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGT-TAC
* *
43002942 AAATCTT-TCTCCCTGATGTTATAGTGGAGTAGATTGAAGATGGGTTAC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAA-A---GTTAC
* * * * **
43002990 GAATCTTATCTCCCCGAAGTTGCAATGGAGTAGATT-AAAGCCAC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTAC
* *
43003034 AAACCTTATCTCCCTGAAGTTACAGTGGAGTAGGTTGAAA-TTAC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTAC
* ** * *
43003078 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTG-AA-TATAGC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGT-TA-C
* * * * * * * *
43003123 AAATATTATCTCTCTGAAGTTGCAGTAGAGCAGATT-AATGCTAT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTAC
* * * * ** * ** * **
43003167 AAATCATATTTCCCTAAATTTGTAGAGGAACAAATT-AAAGCCAC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTAC
* * * * * * * *
43003211 AAGTCTTATCTCCCTGAATTTATAGTAGAGCAGACTG-AAGATAGA
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTA-C
* * * * * *
43003256 AAATCTTATCTCTCTGAAGTTGCACTAGAGCAGATT-AAAGTTAT
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTAC
* ** * * *
43003300 AAACCTTATCTCCCTGAAGTTTTAGTAGAGCAGATT-AAAGCTAC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTAC
* * * *
43003344 AAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTG-AAGTAAC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTAC
* * * * *
43003388 AAGTCCTATAC-CCTTGAAGTTGCAGTGG-GTTAGATT-AAATCTATCATGGC
1 AAATCTTAT-CTCCCTGAAGTTACAGTGGAG-TAGATTGAAA-GT-T-A---C
* * ** * * * **
43003438 AAATCTTATGTCCTTGAAGTTGTAGTAGAGCAGACTG-AAGATGGC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAG-TTAC
* * * * **
43003483 GAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATT-ACAA-CCAC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGA-AAGTTAC
* * * * * * *
43003527 TAACCTTATCTCCCTAAAGTTACAATGGAGCAGGTTG-AAGTTAG
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTAC
* * * * **
43003571 AAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACT-AAAGATGGC
1 AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAG-TTAC
* *
43003616 TAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTT
43003637 GTAGGGGAGC
Statistics
Matches: 556, Mismatches: 150, Indels: 69
0.72 0.19 0.09
Matches are distributed among these distances:
43 6 0.01
44 322 0.58
45 150 0.27
46 11 0.02
47 2 0.00
48 10 0.02
49 24 0.04
50 30 0.05
51 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (45 bp):
AAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAAGTTAC
Found at i:43003181 original size:133 final size:133
Alignment explanation
Indices: 43002852--43003413 Score: 475
Period size: 133 Copynumber: 4.2 Consensus size: 133
43002842 TTATCATGGA
* * * * *
43002852 AAATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAACCTTATTTCCCTGAAATT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTT
* * * ** * * * *
43002917 ACAGTGAAGTAGGTTAAAAATAAACAAATCTT-TCTCCCTGATGTTATAGTGGAGTAGATTGAAG
66 ACAGTGGAGCAGATTAAAGCT--ACAAGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAG
*
43002981 ATGGGTTAC
129 AT-AG---C
* * * * *
43002990 GAATCTTATCTCCCCGAAGTTGCAATGGAGTAGATTAAAGCCACAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTT
* * * * *
43003055 ACAGTGGAGTAGGTTGAAA-TTACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAATA
66 ACAGTGGAGCAGATT-AAAGCTACAAGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAGA
43003119 TAGC
130 TAGC
* * * * * * * * * *
43003123 AAATATTATCTCTCTGAAGTTGCAGTAGAGCAGATTAATGCTATAAATCATATTTCCCTAAATTT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTT
** * * * * * *
43003188 GTAGAGGAACAAATTAAAGCCACAAGTCTTATCTCCCTGAATTTATAGTAGAGCAGACTGAAGAT
66 ACAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAGAT
*
43003253 AGA
131 AGC
* * ** *
43003256 AAATCTTATCTCTCTGAAGTTGCACTAGAGCAGATTAAAGTTATAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTT
** * * ** * *
43003321 TTAGTAGAGCAGATTAAAGCTACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGTAGATTGAAG-T
66 ACAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAGAT
*
43003385 AAC
131 AGC
* * *
43003388 AAGTCCTATAC-CCTTGAAGTTGCAGT
1 AAATCTTAT-CTCCCTGAAGTTGCAGT
43003414 GGGTTAGATT
Statistics
Matches: 345, Mismatches: 75, Indels: 14
0.79 0.17 0.03
Matches are distributed among these distances:
132 24 0.07
133 208 0.60
136 9 0.03
137 29 0.08
138 72 0.21
139 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (133 bp):
AAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTT
ACAGTGGAGCAGATTAAAGCTACAAGTCTTATCTCCCTGAAGTTATAGTGGAGCAGACTGAAGAT
AGC
Found at i:43003566 original size:89 final size:89
Alignment explanation
Indices: 43003473--43003700 Score: 217
Period size: 89 Copynumber: 2.6 Consensus size: 89
43003463 TAGAGCAGAC
* *
43003473 TGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTACA-ACCACTAACCTTATC
1 TGAAGAT-GCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACCACTAACCTTATC
*
43003537 TCCCTAAAGTTACAATGGAGCAGGT
65 TCCCTAAAGTTACAAGGGAGCAGGT
** * * * ***
43003562 TGAAG-TTAGAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAGATGGCTAACCTTATC
1 TGAAGATGCGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACCACTAACCTTATC
* ** *
43003626 TCCCTGAAGTTGTAGGGGAGCAGGT
65 TCCCTAAAGTTACAAGGGAGCAGGT
* * * * * * *
43003651 AGAAGACAGCAAATCTTATTTCCCTGAGGTTGTAGTGGAACAGATTAAAG
1 TGAAGA-TGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG
43003701 CTATCAAAGT
Statistics
Matches: 108, Mismatches: 27, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
87 3 0.03
88 32 0.30
89 41 0.38
90 30 0.28
91 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (89 bp):
TGAAGATGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGACCACTAACCTTATCT
CCCTAAAGTTACAAGGGAGCAGGT
Found at i:43005465 original size:3 final size:3
Alignment explanation
Indices: 43005443--43005497 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
43005433 TTAGGTATTC
* * * *
43005443 TAT TAT T-T GTAT TAT CAT TAT TAA TAT TAT TAT CAT TAT TAT TAA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43005488 TAT TAT TAT T
1 TAT TAT TAT T
43005498 TTTAAATTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 40 0.95
4 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:43005473 original size:18 final size:18
Alignment explanation
Indices: 43005452--43005493 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
43005442 CTATTATTTG
*
43005452 TATTATCATTATTAATAT
1 TATTATCATTATTAATAA
*
43005470 TATTATCATTATTATTAA
1 TATTATCATTATTAATAA
43005488 TATTAT
1 TATTAT
43005494 TATTTTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTATCATTATTAATAA
Found at i:43006057 original size:18 final size:18
Alignment explanation
Indices: 43006034--43006072 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
43006024 TAACTTACGG
43006034 GATGTAATTATCTTTCTC
1 GATGTAATTATCTTTCTC
*
43006052 GATGTAATTCTCTTTCTC
1 GATGTAATTATCTTTCTC
43006070 GAT
1 GAT
43006073 TAACGTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.49
Consensus pattern (18 bp):
GATGTAATTATCTTTCTC
Found at i:43007278 original size:24 final size:22
Alignment explanation
Indices: 43007251--43007303 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
43007241 CTCTGATGTC
43007251 CTTTTTTCTCTTTTCTTCTCGTC-T
1 CTTTTTT-TC-TTTCTT-TCGTCGT
*
43007275 CTTTCTTTTCTTTCTTTCTTCGT
1 CTTT-TTTTCTTTCTTTCGTCGT
43007298 CTTTTT
1 CTTTTT
43007304 GGTGTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 6 0.23
23 11 0.42
24 6 0.23
25 3 0.12
ACGTcount: A:0.00, C:0.26, G:0.04, T:0.70
Consensus pattern (22 bp):
CTTTTTTTCTTTCTTTCGTCGT
Found at i:43009303 original size:25 final size:25
Alignment explanation
Indices: 43009256--43009304 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
43009246 TTATATTTGT
**
43009256 TAGTATATCTTGAAACTGCTATAGG
1 TAGTATATCTTGAAACTAATATAGG
*
43009281 TAGTATATGTTGAAACTAATATAG
1 TAGTATATCTTGAAACTAATATAG
43009305 ATAGACTGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (25 bp):
TAGTATATCTTGAAACTAATATAGG
Found at i:43015592 original size:23 final size:24
Alignment explanation
Indices: 43015561--43015605 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
43015551 ATAACCCCAC
*
43015561 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
43015584 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
43015606 GTAGGACTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:43016782 original size:45 final size:46
Alignment explanation
Indices: 43016726--43016818 Score: 125
Period size: 45 Copynumber: 2.0 Consensus size: 46
43016716 GACCTGACTT
* * *
43016726 TACAGAATTAAATTCCTAATTTGAAGTTTTAGAAAAATACAAACAC
1 TACAGAATTAAATTCCTAATATAAAATTTTAGAAAAATACAAACAC
* * *
43016772 TACAG-ATTAAATTCCTACTATAAAATTTTCGAAAAATACAATCAC
1 TACAGAATTAAATTCCTAATATAAAATTTTAGAAAAATACAAACAC
43016817 TA
1 TA
43016819 TAGACATATT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
45 36 0.88
46 5 0.12
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.31
Consensus pattern (46 bp):
TACAGAATTAAATTCCTAATATAAAATTTTAGAAAAATACAAACAC
Found at i:43017422 original size:3 final size:3
Alignment explanation
Indices: 43017414--43017451 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
43017404 CCTTTTCTCC
43017414 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
43017452 GACTACTACA
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:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:43028639 original size:34 final size:34
Alignment explanation
Indices: 43028575--43028641 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
43028565 GGTAGCAACC
* * *
43028575 AATATGCTTATAACAATTAAATACAGTAGCAAAT
1 AATATGCTTATAAAAATCAAATACAATAGCAAAT
*
43028609 AATATGCTTATAAAAGATCAACT-CAATAGCAAA
1 AATATGCTTATAAAA-ATCAAATACAATAGCAAA
43028642 GGTCTTGCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 23 0.82
35 5 0.18
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (34 bp):
AATATGCTTATAAAAATCAAATACAATAGCAAAT
Found at i:43028923 original size:28 final size:27
Alignment explanation
Indices: 43028892--43028970 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
43028882 AAAATTCTGT
* *
43028892 CAAAACTATAAAATATGAAAAATATGGG
1 CAAAACTATAAAAT-TAAAAAATAAGGG
* * *
43028920 CAAAATTGTAAAATTTAAAAATAAGGG
1 CAAAACTATAAAATTAAAAAATAAGGG
*
43028947 AAAAACTATAAAATTTAAAAAATA
1 CAAAACTATAAAA-TTAAAAAATA
43028971 CAAAAAATTG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 21 0.50
28 21 0.50
ACGTcount: A:0.61, C:0.05, G:0.10, T:0.24
Consensus pattern (27 bp):
CAAAACTATAAAATTAAAAAATAAGGG
Found at i:43028951 original size:27 final size:27
Alignment explanation
Indices: 43028900--43029000 Score: 91
Period size: 27 Copynumber: 3.7 Consensus size: 27
43028890 GTCAAAACTA
* * *
43028900 TAAAATATGAAAAATATGGGCAAAATTG
1 TAAAAT-TTAAAAATAAGGGAAAAATTG
* *
43028928 TAAAATTTAAAAATAAGGGAAAAACTA
1 TAAAATTTAAAAATAAGGGAAAAATTG
43028955 TAAAATTTAAAAAATACA---AAAAATTG
1 TAAAATTT-AAAAATA-AGGGAAAAATTG
* *
43028981 TAAAATCTAAAAATAGGGGA
1 TAAAATTTAAAAATAAGGGA
43029001 TACACAGTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
25 7 0.12
26 13 0.22
27 25 0.42
28 13 0.22
29 1 0.02
ACGTcount: A:0.59, C:0.04, G:0.13, T:0.24
Consensus pattern (27 bp):
TAAAATTTAAAAATAAGGGAAAAATTG
Found at i:43032244 original size:16 final size:16
Alignment explanation
Indices: 43032220--43032263 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
43032210 TTATGTTTTG
* *
43032220 TCATGTATTTTTCGTA
1 TCATATATTTTTAGTA
*
43032236 TCATATATTTTTTATTA
1 TCATATA-TTTTTAGTA
43032253 TCATATATTTT
1 TCATATATTTT
43032264 GTTAACTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.25, C:0.09, G:0.05, T:0.61
Consensus pattern (16 bp):
TCATATATTTTTAGTA
Found at i:43033113 original size:134 final size:130
Alignment explanation
Indices: 43032787--43033117 Score: 338
Period size: 131 Copynumber: 2.5 Consensus size: 130
43032777 TAAAAATTCT
* * *
43032787 TTAAAACGAAGGCGATATTCAATATTTGACAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGC
1 TTAAAACGAAGGCGATATTCAATGTTTGACAATT--TGGAATCGTGCCCTATCGTGCTGGGTTGC
* * *
43032852 AATTTCTCGTTTATTCAAAATAATCAAATAACCCTTCAAAATTTCACTCATGTCTTCTAAAAATC
64 AATTTCTCGTTTAGTCAAAACAATCAAATAACCCTTCAAAATTTCACTCATGTCTTCTAAAAAAC
*
43032917 CT
129 CA
* * ** * * * **
43032919 TTAAAACGAAGGCAATACTCGGTGTTTGACGATTCGGGAATCATGCCCTATCGTGCTGGGTTGTG
1 TTAAAACGAAGGCGATATTCAATGTTTGACAATT-TGGAATCGTGCCCTATCGTGCTGGGTTGCA
* ** * *** * *
43032984 ATTTCTCGTTTGGTCAAAACAATCAAATATTCCTTTAGGTTTTCACTCATGTTTTTTTAAGAAAA
65 ATTTCTCGTTTAGTCAAAACAATCAAATAACCCTTCAAAATTTCACTCATG-TCTTCTAA-AAAA
43033049 CACA
128 C-CA
* * * *
43033053 TTAAAACGAAGGTGATGTTCAATGTTTGGCAATTTGAGAATCGTGTCCTATCGTGCTGGGTTGCA
1 TTAAAACGAAGGCGATATTCAATGTTTGACAATTTG-GAATCGTGCCCTATCGTGCTGGGTTGCA
43033118 CTTTTTTATT
Statistics
Matches: 156, Mismatches: 39, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
131 66 0.42
132 34 0.22
133 5 0.03
134 51 0.33
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (130 bp):
TTAAAACGAAGGCGATATTCAATGTTTGACAATTTGGAATCGTGCCCTATCGTGCTGGGTTGCAA
TTTCTCGTTTAGTCAAAACAATCAAATAACCCTTCAAAATTTCACTCATGTCTTCTAAAAAACCA
Found at i:43033290 original size:131 final size:132
Alignment explanation
Indices: 43033067--43033309 Score: 292
Period size: 132 Copynumber: 1.8 Consensus size: 132
43033057 AACGAAGGTG
* * * * * * ***
43033067 ATGTTCAATGTTTGGCAATTTGAGAATCGTGTCCTATCGTGCTGGGTTGCACTTTTTTATTGGTT
1 ATGTTCAATGTTTGGCAATTGGAGAATAGTGCCCTATCGTGCTAGGTTGCAATCTCCCATTGGTT
* *
43033132 CGAAACAATTGAAGATCCCTTCGGAAA-TTCACTCACATTTTCTAAAAACTCTTAAAAATGAAAG
66 CAAAACAATCGAAGATCCCTTCGGAAATTTCACTCACATTTTCTAAAAACTCTTAAAAATGAAAG
43033196 AA
131 AA
* * *
43033198 ATGTTCAATGTTTGGCAATTCGGGGAATAGTGCCCTATCGTGCTAGGTTGCAATCTCCCGTTTGT
1 ATGTTCAATGTTTGGCAATT-GGAGAATAGTGCCCTATCGTGCTAGGTTGCAATCTCCCATTGGT
* * * **
43033263 TCAAAATAATCGAATATCTCTTC-GAAATTTCACTCGTATTTTCTAAA
65 TCAAAACAATCGAAGATCCCTTCGGAAATTTCACTCACATTTTCTAAA
43033310 GTTAAGGCAA
Statistics
Matches: 91, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
131 24 0.26
132 67 0.74
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (132 bp):
ATGTTCAATGTTTGGCAATTGGAGAATAGTGCCCTATCGTGCTAGGTTGCAATCTCCCATTGGTT
CAAAACAATCGAAGATCCCTTCGGAAATTTCACTCACATTTTCTAAAAACTCTTAAAAATGAAAG
AA
Found at i:43034293 original size:50 final size:50
Alignment explanation
Indices: 43034232--43034352 Score: 163
Period size: 50 Copynumber: 2.4 Consensus size: 50
43034222 GCCGTGTGGG
* * * *
43034232 CCACACAGGTATGGCCAGGTTAGGCGTGTAGGCCACAC-GAGCGAGTGAGC
1 CCACACGGGTATGGCCAAGTTAGACGTATAGGCCACACAG-GCGAGTGAGC
*
43034282 CCACACGGGTATGGCCAAGTTAGACGTATAGGCCACACAGGCGAGTGGGC
1 CCACACGGGTATGGCCAAGTTAGACGTATAGGCCACACAGGCGAGTGAGC
**
43034332 CCACACGGGTATAACCAAGTT
1 CCACACGGGTATGGCCAAGTT
43034353 GGGCTTTTGG
Statistics
Matches: 63, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
50 62 0.98
51 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.32, T:0.15
Consensus pattern (50 bp):
CCACACGGGTATGGCCAAGTTAGACGTATAGGCCACACAGGCGAGTGAGC
Found at i:43034376 original size:50 final size:50
Alignment explanation
Indices: 43034227--43034390 Score: 150
Period size: 50 Copynumber: 3.3 Consensus size: 50
43034217 GTATGGCCGT
* ** * * * *
43034227 GTGGG-CCACACAGGTATGGCCAGGTTAGGCGTGTAGGCCACACGAGCGA
1 GTGGGCCCACACGGGTATAACCAAGTTAGACGTATAGGCCACACAAGCGA
* ** *
43034276 GTGAGCCCACACGGGTATGGCCAAGTTAGACGTATAGGCCACACAGGCGA
1 GTGGGCCCACACGGGTATAACCAAGTTAGACGTATAGGCCACACAAGCGA
* * * * * **
43034326 GTGGGCCCACACGGGTATAACCAAGTTGGGCTTTTGGGCTTCACAAGCGA
1 GTGGGCCCACACGGGTATAACCAAGTTAGACGTATAGGCCACACAAGCGA
*
43034376 GTGGGCCTACACGGG
1 GTGGGCCCACACGGG
43034391 CATGTCACAT
Statistics
Matches: 95, Mismatches: 19, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
49 4 0.04
50 91 0.96
ACGTcount: A:0.23, C:0.25, G:0.35, T:0.16
Consensus pattern (50 bp):
GTGGGCCCACACGGGTATAACCAAGTTAGACGTATAGGCCACACAAGCGA
Found at i:43049434 original size:48 final size:49
Alignment explanation
Indices: 43049371--43049465 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 49
43049361 AAAAATGTAA
43049371 AAAAAAAAATTCTCATTTATATTAATAGTGTTGAAGAGAGGT-AAATGT
1 AAAAAAAAATTCTCATTTATATTAATAGTGTTGAAGAGAGGTCAAATGT
43049419 AAAAAAAAATTCTCATTTATATTAATAGTGTTGAAGAGAGGTCAAAT
1 AAAAAAAAATTCTCATTTATATTAATAGTGTTGAAGAGAGGTCAAAT
43049466 CCTTCATGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 42 0.91
49 4 0.09
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.33
Consensus pattern (49 bp):
AAAAAAAAATTCTCATTTATATTAATAGTGTTGAAGAGAGGTCAAATGT
Found at i:43051039 original size:92 final size:91
Alignment explanation
Indices: 43050920--43051092 Score: 233
Period size: 92 Copynumber: 1.9 Consensus size: 91
43050910 ATGCAGTATG
* **
43050920 AACTGCCAGATCAGATAATAGTACGTAGCATAGCTAACGTCCCTATG-GTATGGTGCAATGCGGT
1 AACTGCCAGATCAGATAATAGTACGTAGCATAGCTAACGT-AC-ATGAGTAAAGTGCAATGCGGT
43050984 AATCCGCTATACCGATAGGTCGCAATAA
64 AATCCGCTATACCGATAGGTCGCAATAA
* * * *
43051012 AACTGCCAGTTCAG-TCAATGGTACGTAGCGTAGCTAATGTACATGCAGTAAAGTGCAATGCGGT
1 AACTGCCAGATCAGAT-AATAGTACGTAGCATAGCTAACGTACATG-AGTAAAGTGCAATGCGGT
43051076 AATCCGCTATACCGATA
64 AATCCGCTATACCGATA
43051093 TAATGTCACC
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
90 3 0.04
91 2 0.03
92 66 0.93
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.24
Consensus pattern (91 bp):
AACTGCCAGATCAGATAATAGTACGTAGCATAGCTAACGTACATGAGTAAAGTGCAATGCGGTAA
TCCGCTATACCGATAGGTCGCAATAA
Found at i:43053204 original size:92 final size:91
Alignment explanation
Indices: 43053104--43053272 Score: 232
Period size: 92 Copynumber: 1.8 Consensus size: 91
43053094 AAGCTCCTCT
* *
43053104 TTTTTTCACTCAATTGAGCACTTGAATTTTAAAAATGCATAAAAAAGACTATC-AAACTTCATCA
1 TTTTTTCACTCAATTGAGCACTTGAACTTTAAAAATGCATAAAAAAGACCATCAAAACTT-ATC-
43053168 AAAAAAGCAATTAAACCCTTGCTTCTTC
64 AAAAAAGCAATTAAACCCTTGCTTCTTC
* * * * * * *
43053196 TTTTTTCACTCGATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAACTTTTCAA
1 TTTTTTCACTCAATTGAGCACTTGAACTTTAAAAATGCATAAAAAAGACCATCAAAACTTATCAA
43053261 AAAAGCAATTAA
66 AAAAGCAATTAA
43053273 GCCCCTACTC
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
91 14 0.21
92 47 0.70
93 6 0.09
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (91 bp):
TTTTTTCACTCAATTGAGCACTTGAACTTTAAAAATGCATAAAAAAGACCATCAAAACTTATCAA
AAAAGCAATTAAACCCTTGCTTCTTC
Found at i:43053319 original size:18 final size:20
Alignment explanation
Indices: 43053293--43053343 Score: 61
Period size: 18 Copynumber: 2.6 Consensus size: 20
43053283 TTACTAAAAA
43053293 TTAGAAAAAAATAATAAA-T
1 TTAGAAAAAAATAATAAATT
* *
43053312 TTAG-AAAAATTATTAAATT
1 TTAGAAAAAAATAATAAATT
43053331 TTAGTAAAAAAAT
1 TTAG-AAAAAAAT
43053344 TTAAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.42
19 9 0.35
21 6 0.23
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (20 bp):
TTAGAAAAAAATAATAAATT
Found at i:43053372 original size:37 final size:38
Alignment explanation
Indices: 43053287--43053373 Score: 99
Period size: 37 Copynumber: 2.3 Consensus size: 38
43053277 CTACTCTTAC
43053287 TAAAAATTAG-AAAAAAATAATAAATTTAGAAAAATTAT
1 TAAAAATTAGTAAAAAAATAATAAATTTA-AAAAATTAT
** * *
43053325 TAAATTTTAGTAAAAAAAT-TTAAAATTT-AAAATTTAT
1 TAAAAATTAGTAAAAAAATAAT-AAATTTAAAAAATTAT
43053362 TAAAAATTAGTA
1 TAAAAATTAGTA
43053374 TTTTTTATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
37 18 0.44
38 9 0.22
39 14 0.34
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (38 bp):
TAAAAATTAGTAAAAAAATAATAAATTTAAAAAATTAT
Found at i:43053413 original size:19 final size:19
Alignment explanation
Indices: 43053376--43053414 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
43053366 AATTAGTATT
*
43053376 TTTTATAAAAATTAAAAAA
1 TTTTATAAAAATCAAAAAA
43053395 TTTTATAAAAATCATAAAAA
1 TTTTATAAAAATCA-AAAAA
43053415 AATTAACGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (19 bp):
TTTTATAAAAATCAAAAAA
Found at i:43055242 original size:38 final size:38
Alignment explanation
Indices: 43055144--43055271 Score: 159
Period size: 38 Copynumber: 3.4 Consensus size: 38
43055134 AAAACAGTGA
* * * *
43055144 ACATGTTTAACATGTATTTAGTCCAACAGTAGAAATAT
1 ACATGCTTAACATGTATTTAGTTCAACAGTAGCAATAG
43055182 ACATGCTTAACATGTATTTAGTTCAACAGTAGCAATAG
1 ACATGCTTAACATGTATTTAGTTCAACAGTAGCAATAG
* * * *
43055220 ACATGCTTAACATGTAATTAGTTTAATAGTAGCAGTAG
1 ACATGCTTAACATGTATTTAGTTCAACAGTAGCAATAG
*
43055258 GCATG-TTGAACATG
1 ACATGCTT-AACATG
43055272 CAATCAATAA
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
37 2 0.03
38 78 0.98
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (38 bp):
ACATGCTTAACATGTATTTAGTTCAACAGTAGCAATAG
Found at i:43056916 original size:18 final size:18
Alignment explanation
Indices: 43056903--43056937 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43056893 TTAATTTTCT
*
43056903 AGGTTTTTGGAATTTTTG
1 AGGTTTTAGGAATTTTTG
43056921 AGGTTTTAGGAATTTTT
1 AGGTTTTAGGAATTTTT
43056938 TTGAATTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (18 bp):
AGGTTTTAGGAATTTTTG
Found at i:43057611 original size:17 final size:17
Alignment explanation
Indices: 43057567--43057618 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
43057557 TATGATTCAG
43057567 AATATTAT-AAATATATA
1 AATATTATAAAAT-TATA
* *
43057584 TATATTA-AAAATTGTA
1 AATATTATAAAATTATA
43057600 AATATTATAAAATTATA
1 AATATTATAAAATTATA
43057617 AA
1 AA
43057619 ACAAAGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 9 0.31
17 20 0.69
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AATATTATAAAATTATA
Found at i:43058166 original size:22 final size:22
Alignment explanation
Indices: 43058124--43058166 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
43058114 GGTTTTACAA
*
43058124 AGATTTAAATATTTTAATTTTG
1 AGATTTAAATATTCTAATTTTG
*
43058146 AGATATTAAAT-TTCTATTTTT
1 AGAT-TTAAATATTCTAATTTT
43058167 TTCATTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (22 bp):
AGATTTAAATATTCTAATTTTG
Found at i:43059071 original size:3 final size:3
Alignment explanation
Indices: 43059065--43059108 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
43059055 TTATTTTTCT
43059065 TTA TTA 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 TTA TTA TT
43059109 TCTATGTCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:43059448 original size:21 final size:22
Alignment explanation
Indices: 43059405--43059448 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
43059395 TGAAACGTTT
* *
43059405 GTCTATTTTGGTATAAAACTTTA
1 GTCTATTTT-GTAGAAAAATTTA
43059428 GTCTATTTT-TAGAAAAATTTA
1 GTCTATTTTGTAGAAAAATTTA
43059449 CGAGTTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
23 9 0.47
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (22 bp):
GTCTATTTTGTAGAAAAATTTA
Found at i:43061900 original size:21 final size:21
Alignment explanation
Indices: 43061876--43061918 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
43061866 TCATTTTAGA
43061876 TTAATAC-CTAATTATATTATT
1 TTAATACTCTAATTA-ATTATT
*
43061897 TTAATACTTTAATTAATTATT
1 TTAATACTCTAATTAATTATT
43061918 T
1 T
43061919 ATGATATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (21 bp):
TTAATACTCTAATTAATTATT
Found at i:43066298 original size:16 final size:17
Alignment explanation
Indices: 43066274--43066307 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
43066264 AAAAATTTAC
*
43066274 TATATTTAA-TTTAATT
1 TATAATTAATTTTAATT
43066290 TATAATTAATTTTAATT
1 TATAATTAATTTTAATT
43066307 T
1 T
43066308 GTTACAATGA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATAATTAATTTTAATT
Found at i:43066467 original size:23 final size:22
Alignment explanation
Indices: 43066436--43066493 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
43066426 TTCTTTTAAT
43066436 AAATATTTATAAAAAAATATTTTA
1 AAAT-TTTATAAAAAAATA-TTTA
* *
43066460 AAATTTTATTAAATAATATTTA
1 AAATTTTATAAAAAAATATTTA
*
43066482 AAA-GTTATAAAA
1 AAATTTTATAAAA
43066494 CAGTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 7 0.23
22 7 0.23
23 12 0.40
24 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
AAATTTTATAAAAAAATATTTA
Found at i:43068283 original size:21 final size:21
Alignment explanation
Indices: 43068257--43068312 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
43068247 ATCAGTGGTG
*
43068257 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* *
43068278 GCGGTGAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
43068299 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
43068313 AACAGCGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.07, G:0.38, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:43071714 original size:12 final size:13
Alignment explanation
Indices: 43071695--43071720 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43071685 GATTGAGTAC
43071695 CAAAAAAATTAAG
1 CAAAAAAATTAAG
43071708 CAAAAAAATTAAG
1 CAAAAAAATTAAG
43071721 GGTTCATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
CAAAAAAATTAAG
Found at i:43072060 original size:12 final size:12
Alignment explanation
Indices: 43072043--43072074 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
43072033 CTTGGAACCG
43072043 CCGATTTTTTTA
1 CCGATTTTTTTA
43072055 CCGATTTTTTTA
1 CCGATTTTTTTA
*
43072067 CCAATTTT
1 CCGATTTT
43072075 AGTGAGAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.19, C:0.19, G:0.06, T:0.56
Consensus pattern (12 bp):
CCGATTTTTTTA
Found at i:43072241 original size:25 final size:26
Alignment explanation
Indices: 43072213--43072272 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
43072203 GAATATGCTG
43072213 AGAAGAGAAG-ATGAAGAACGGAAGA
1 AGAAGAGAAGAATGAAGAACGGAAGA
*
43072238 AGAA-A-AAGGAATGAAGAACGGATGA
1 AGAAGAGAA-GAATGAAGAACGGAAGA
43072263 AG--GAGAAGAA
1 AGAAGAGAAGAA
43072273 GCCTTACCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
23 2 0.07
24 6 0.20
25 22 0.73
ACGTcount: A:0.57, C:0.03, G:0.35, T:0.05
Consensus pattern (26 bp):
AGAAGAGAAGAATGAAGAACGGAAGA
Found at i:43075068 original size:62 final size:62
Alignment explanation
Indices: 43074971--43075097 Score: 254
Period size: 62 Copynumber: 2.0 Consensus size: 62
43074961 CTATCAGTCA
43074971 CCACTGTATACTTGACACTAGTTATACACCTCATTATAAGTGTATCCATTCTTCACAAAATC
1 CCACTGTATACTTGACACTAGTTATACACCTCATTATAAGTGTATCCATTCTTCACAAAATC
43075033 CCACTGTATACTTGACACTAGTTATACACCTCATTATAAGTGTATCCATTCTTCACAAAATC
1 CCACTGTATACTTGACACTAGTTATACACCTCATTATAAGTGTATCCATTCTTCACAAAATC
43075095 CCA
1 CCA
43075098 ATCGTTACAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (62 bp):
CCACTGTATACTTGACACTAGTTATACACCTCATTATAAGTGTATCCATTCTTCACAAAATC
Found at i:43079756 original size:18 final size:18
Alignment explanation
Indices: 43079733--43079775 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
43079723 ATTCAAGGTG
* *
43079733 TAATTAATTTAATTTTTT
1 TAATTAATTAAATTTATT
43079751 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
43079769 TAATTAA
1 TAATTAA
43079776 AAATATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:43081950 original size:22 final size:21
Alignment explanation
Indices: 43081915--43081990 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
43081905 AAAATGTATC
* *
43081915 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
43081936 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
43081959 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
43081978 TGC-AATCATATCT
1 TACAAATCATATCT
43081991 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:43082007 original size:35 final size:37
Alignment explanation
Indices: 43081944--43082041 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
43081934 ATTACAAAAT
43081944 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
43081980 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
43082015 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
43082042 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:43082049 original size:17 final size:19
Alignment explanation
Indices: 43081951--43082041 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
43081941 AATCATATCT
43081951 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43081970 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
43081988 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
43082005 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43082024 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
43082042 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43082198 original size:21 final size:20
Alignment explanation
Indices: 43082161--43082199 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
43082151 TGGACTTCGG
**
43082161 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
43082181 TTTTGTTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
43082200 TCTGGGCCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Done.