Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 145 of 250
Found at i:46994809 original size:67 final size:68
Alignment explanation
Indices: 46994699--46994891 Score: 261
Period size: 68 Copynumber: 2.9 Consensus size: 68
46994689 TCTTCCACTA
* * * *
46994699 AAACTTCAAGGAGATCTGCTGT-GC-TTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAG-T-TT
1 AAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGATCCT
46994760 GCTG
66 -CTG
* * *
46994764 AAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAATAAAAGATCCT
1 AAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGATCCT
46994829 CTG
66 CTG
* *
46994832 AAACTTCAAGGAGATCTGCTGTGGTTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 AAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
46994892 AATTTGTAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
65 21 0.19
66 2 0.02
67 35 0.31
68 54 0.48
69 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (68 bp):
AAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGATCCT
CTG
Found at i:46995399 original size:87 final size:86
Alignment explanation
Indices: 46994912--46995850 Score: 438
Period size: 87 Copynumber: 10.8 Consensus size: 86
46994902 TTCCAGCCTA
* * * * * * *
46994912 TTACCCTACTACTTAGGGGTTTATGCCCAT-CATCTTCGATCTATTTCCCAACTGCTTAAGGGGT
1 TTACCCTACTGCTTAGGGGGTTAAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGGGGT
* * * * *
46994976 TAAGATCTGTAAATTCAACCTG
66 TAAG-GCTTTAATTTCGATCTG
* **** * * *
46994998 TTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTC-AGCCTATTACCCTACTGCTTAGGGG
1 TTACCCTACTGCTTAGGGGGTTAAG-CCCATACATCTTCGA-TCTGTTACCCTACTGCTTAGGGG
* * * *
46995062 TTTAAGGTTTGTAAATTCG-GCTTG
64 GTTAAGGCTT-TAATTTCGATC-TG
* ** *
46995086 TTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATTTTTTATCTGTTTCCCTACTGCTTA--GGG
1 TTACCCTACTGCTTAGGGGGTT-AAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGGGG
* * * *
46995148 -TAAGATCTGTAAATCTTC-AGCCAG
65 TTAAG-GCT-TTAAT-TTCGA-TCTG
* *** * * *
46995172 TTACCCTACTGCTTA-GGGTTTAAGGCTTGTA-A-ATTCG-GCTTGTTACCCTACTGCTTAGCGG
1 TTACCCTACTGCTTAGGGGGTTAA-GCCCATACATCTTCGATC-TGTTACCCTACTGCTTAGGGG
* ** * *
46995233 GTTAAAGCCCATCATCTTTGATCTG
64 GTT-AAGGCTTTAAT-TTCGATCTG
* * * ** * * * *
46995258 TTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTACCCTACTACTTAGGGC
1 TTACCCTACTGCTTAGGGGGTTAAG-CCCATACATCTTCGA-TCTGTTACCCTACTGCTTAGGGG
*
46995322 GTTAAGGCTTGTAAATTTGGAT-TG
64 GTTAAGGCTT-T-AATTTCGATCTG
**
46995346 TTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTGCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGGGGTT-AAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGGGG
* *
46995410 TTAA-GATCTTCATCTTCGATCTG
65 TTAAGGCT-TTAAT-TTCGATCTG
* * * ** * * * * *
46995433 TTTCCCTACTGCTTAGGGAGATAAGATC-TGCA-ATTCG-TCTGTTACCCT-CCGATTAGGGGTT
1 TTACCCTACTGCTTAGGGGGTTAAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGGGGT
* * * *
46995494 TAAGACCCTTCATCTCGATCTG
66 TAAG-GCTTTAATTTCGATCTG
* * ** * *
46995516 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTAGGGG
1 TTACCCTACTGCTTAGGGGGTTAAG-CCCATACATCTTCGA-TCTGTTACCCTACTGCTTAGGGG
* *
46995580 GTTAAGGCTTGTAAATTTAGCT-TG
64 GTTAAGGCTT-T-AATTTCGATCTG
*
46995604 TTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 TTACCCTACTGCTTAGGGGGTT-AAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGGGG
* *
46995668 TTAA-GATCTTCATCTTCGATCTG
65 TTAAGGCT-TTAAT-TTCGATCTG
* * * ** * * * *
46995691 TTTCCCTACTGCTTAGGGAGATAAGATC-TACA-ATTCGATCTGTTACCCTACCGATTAGGGGTT
1 TTACCCTACTGCTTAGGGGGTTAAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGGGGT
* * **
46995754 TAAGACCCTTCGTCTTCGATCTG
66 TAAG-GCTTTAAT-TTCGATCTG
* * * * ** * * *
46995777 TTTCCCTACTACTTAGGGGATTAAGATCTGTAAATCTTC-AGCCTGTTACCCTATTGCTTAGGGG
1 TTACCCTACTGCTTAGGGGGTTAAG-CCCATACATCTTCGA-TCTGTTACCCTACTGCTTAGGGG
*
46995841 CTTAAGGCTT
64 GTTAAGGCTT
46995851 GTGAATTCAC
Statistics
Matches: 641, Mismatches: 156, Indels: 110
0.71 0.17 0.12
Matches are distributed among these distances:
83 45 0.07
84 38 0.06
85 55 0.09
86 131 0.20
87 156 0.24
88 142 0.22
89 71 0.11
90 3 0.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (86 bp):
TTACCCTACTGCTTAGGGGGTTAAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGGGGT
TAAGGCTTTAATTTCGATCTG
Found at i:46995589 original size:258 final size:260
Alignment explanation
Indices: 46994995--46995857 Score: 1258
Period size: 258 Copynumber: 3.3 Consensus size: 260
46994985 TAAATTCAAC
* * * *
46994995 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGCCTATTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* * * * **
46995060 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
* * * *
46995125 ATCTGTTTCCCTACTGCTTA--GGG-TAAGATCTGTAAATCTTC-AGCCAGTTACCCTACTGCTT
131 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-TCTGTTTCCCTACTGCTT
** * * * * * * *
46995186 AGGG-TTTAAG-GCTTGTAAATTCGGCTTGTTACCCTACTGCTTAGCGGGTTAAAG-CCCATCAT
193 AGGGAGATAAGATC-TG-CAATTCGTC-TGTTACCCTACCGATTAG-GGGTTTAAGACCCTTCAT
*
46995248 CTTTGAT
254 CTTCGAT
* *
46995255 CTGTTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTACTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
46995320 GCGTTAAGGCTTGTAAATTTGGATTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
*
46995385 ATCTGTTTGCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
131 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
46995450 GAGATAAGATCTGCAATTCGTCTGTTACCCT-CCGATTAGGGGTTTAAGACCCTTCATC-TCGAT
196 GAGATAAGATCTGCAATTCGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCATCTTCGAT
46995513 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
*
46995578 GGGTTAAGGCTTGTAAATTTAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
66 GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
46995643 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
131 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
* *
46995708 GAGATAAGATCTACAATTCGATCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
196 GAGATAAGATCTGCAATTCG-TCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCATCTTCGA
46995773 T
260 T
* * *
46995774 CTGTTTCCCTACTACTTAGGGGATTAAGATCTGTAAATCTTCAGCCTGTTACCCTATTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
* *
46995839 GGCTTAAGGCTTGTGAATT
66 GGGTTAAGGCTTGTAAATT
46995858 CACTAATTCT
Statistics
Matches: 551, Mismatches: 42, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
258 220 0.40
259 25 0.05
260 170 0.31
261 116 0.21
262 11 0.02
263 9 0.02
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (260 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
GGGTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
GAGATAAGATCTGCAATTCGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCATCTTCGAT
Found at i:46995695 original size:43 final size:43
Alignment explanation
Indices: 46994912--46995846 Score: 534
Period size: 43 Copynumber: 21.6 Consensus size: 43
46994902 TTCCAGCCTA
* * * ** * *
46994912 TTACCCTACTACTTAGGGGTTTATGCCCATCATCTTCGATCTA
1 TTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTG
* * * ** * *
46994955 TTTCCCAACTGCTTAAGGGGTTAAGATCTGT-AAATTCAACCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCT-TCATCTTCGATCTG
* * * * *
46994998 TTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTC-AGCCTA
1 TTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-TCTG
* * * ** *
46995043 TTACCCTACTGCTTAGGGGTTTAAGGT-TTGTAAATTCG-GCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCGATC-TG
** * * **
46995086 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTATCTG
1 TTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGATCTG
* * * *
46995130 TTTCCCTACTGCTTA--GGG-TAAGATCTGTAAATCTTC-AGCCAG
1 TTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-TCTG
* * * ** *
46995172 TTACCCTACTGCTTA-GGGTTTAAG-GCTTGTAAATTCG-GCTTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCGATC-TG
* ** * *
46995214 TTACCCTACTGCTTAGCGGGTTAAAGCCCATCATCTTTGATCTG
1 TTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGATCTG
* * * *
46995258 TTTCCCTACTGCTTAAGGGGTTAAGATCTGTAAATCTTC-AGCCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-TCTG
* * * * *
46995303 TTACCCTACTACTTAGGGCGTTAAG-GCTTGTAAAT-TTGGAT-TG
1 TTACCCTACTGCTTAGGGGGTTAAGATC-T-T-CATCTTCGATCTG
** *
46995346 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGATCTG
**
46995390 TTTGCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTG
* * * * *
46995433 TTTCCCTACTGCTTAGGGAGATAAGATCTGCA-ATTCG-TCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTG
* * * *
46995474 TTACCCT-CCGATTAGGGGTTTAAGACCCTTCATC-TCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGA-TCTTCATCTTCGATCTG
* * *
46995516 TTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-TCTG
* * * *
46995561 TTACCCTACTGCTTAGGGGGTTAAG-GCTTGTAAAT-TTAGCT-TG
1 TTACCCTACTGCTTAGGGGGTTAAGATC-T-T-CATCTTCGATCTG
** *
46995604 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGATCTG
*
46995648 TTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTG
* * * * *
46995691 TTTCCCTACTGCTTAGGGAGATAAGATCTACA-ATTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTG
* * * * *
46995733 TTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTG
1 TTACCCTACTGCTTAGGGGGTTAAGA-TCTTCATCTTCGATCTG
* * * * *
46995777 TTTCCCTACTACTTAGGGGATTAAGATCTGTAAATCTTC-AGCCTG
1 TTACCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-TCTG
* *
46995822 TTACCCTATTGCTTAGGGGCTTAAG
1 TTACCCTACTGCTTAGGGGGTTAAG
46995847 GCTTGTGAAT
Statistics
Matches: 687, Mismatches: 157, Indels: 94
0.73 0.17 0.10
Matches are distributed among these distances:
40 17 0.02
41 21 0.03
42 94 0.14
43 263 0.38
44 152 0.22
45 140 0.20
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (43 bp):
TTACCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTG
Found at i:46996016 original size:66 final size:66
Alignment explanation
Indices: 46995910--46996036 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
46995900 TCTATGCTTA
*
46995910 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
46995975 G
66 G
* *
46995976 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCTTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
46996037 TATATGAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:46999981 original size:19 final size:20
Alignment explanation
Indices: 46999957--47000003 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
46999947 AGTGAAAGTT
46999957 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
46999976 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
46999996 -AATGCAAA
1 TAATGCAAA
47000004 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:47002546 original size:10 final size:10
Alignment explanation
Indices: 47002533--47002583 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
47002523 AAAACAATAC
47002533 TATATATAAA
1 TATATATAAA
*
47002543 TATATATATA
1 TATATATAAA
47002553 TATA-ATAAAA
1 TATATAT-AAA
*
47002563 TATACACTAATA
1 TATATA-TAA-A
47002575 TATATATAA
1 TATATATAA
47002584 TAGTAATAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
9 2 0.06
10 19 0.56
11 6 0.18
12 7 0.21
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (10 bp):
TATATATAAA
Found at i:47002565 original size:26 final size:26
Alignment explanation
Indices: 47002536--47002585 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
47002526 ACAATACTAT
47002536 ATATA-AATATATATATATATAATAAA
1 ATATACAATA-ATATATATATAATAAA
*
47002562 ATATACACTAATATATATATAATA
1 ATATACAATAATATATATATAATA
47002586 GTAATAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATACAATAATATATATATAATAAA
Found at i:47002800 original size:3 final size:3
Alignment explanation
Indices: 47002787--47002864 Score: 51
Period size: 3 Copynumber: 26.3 Consensus size: 3
47002777 GAGGGCATAT
47002787 ATA AT- ATA ATA AT- ATAA ATA ATA AT- ATA CATGA GA-A ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA -AT-A -ATA ATA ATA ATA
* *
47002832 AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
47002865 AACAAAGCTC
Statistics
Matches: 60, Mismatches: 5, Indels: 20
0.71 0.06 0.24
Matches are distributed among these distances:
2 11 0.18
3 41 0.68
4 6 0.10
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:47002809 original size:12 final size:12
Alignment explanation
Indices: 47002785--47002861 Score: 77
Period size: 12 Copynumber: 6.5 Consensus size: 12
47002775 GAGAGGGCAT
47002785 ATATAATATAATA
1 ATATAA-ATAATA
47002798 ATATAAATAATA
1 ATATAAATAATA
* * *
47002810 ATATACATGAGA
1 ATATAAATAATA
47002822 A-AT-AATAATA
1 ATATAAATAATA
47002832 ATATAAATAATA
1 ATATAAATAATA
* *
47002844 GTAAAAATAATA
1 ATATAAATAATA
*
47002856 AAATAA
1 ATATAA
47002862 TAAAACAAAG
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
10 5 0.10
11 4 0.08
12 36 0.71
13 6 0.12
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:47003217 original size:21 final size:22
Alignment explanation
Indices: 47003193--47003289 Score: 94
Period size: 21 Copynumber: 4.5 Consensus size: 22
47003183 CTTCTTTCCA
47003193 AAAAAACAAAAAAA-CACCTCC
1 AAAAAACAAAAAAACCACCTCC
*
47003214 AAAAAACAAAAAAACCTCCTCC
1 AAAAAACAAAAAAACCACCTCC
*
47003236 --AAAACAAAGAACAATCCTCCTCC
1 AAAAAACAAA-AA-AA-CCACCTCC
* *
47003259 AAAAAACCAAAAACCCACC-CC
1 AAAAAACAAAAAAACCACCTCC
*
47003280 TAAAAACAAA
1 AAAAAACAAA
47003290 GTCTTGAATG
Statistics
Matches: 64, Mismatches: 6, Indels: 12
0.78 0.07 0.15
Matches are distributed among these distances:
20 8 0.12
21 26 0.41
22 12 0.19
23 9 0.14
24 2 0.03
25 7 0.11
ACGTcount: A:0.60, C:0.32, G:0.01, T:0.07
Consensus pattern (22 bp):
AAAAAACAAAAAAACCACCTCC
Found at i:47003217 original size:22 final size:22
Alignment explanation
Indices: 47003189--47003271 Score: 87
Period size: 22 Copynumber: 3.7 Consensus size: 22
47003179 CAACCTTCTT
*
47003189 TCCAAAAAAACAAAAAAACACC
1 TCCAAAAAAACAAAAAAACTCC
47003211 TCC-AAAAAACAAAAAAACCTCC
1 TCCAAAAAAACAAAAAAA-CTCC
* * **
47003233 TCCAAAACAAAGAACAATCCTCC
1 TCCAAAA-AAACAAAAAAACTCC
*
47003256 TCCAAAAAACCAAAAA
1 TCCAAAAAAACAAAAA
47003272 CCCACCCCTA
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
21 14 0.28
22 15 0.30
23 14 0.28
24 7 0.14
ACGTcount: A:0.60, C:0.30, G:0.01, T:0.08
Consensus pattern (22 bp):
TCCAAAAAAACAAAAAAACTCC
Found at i:47003418 original size:205 final size:207
Alignment explanation
Indices: 47003200--47003610 Score: 790
Period size: 205 Copynumber: 2.0 Consensus size: 207
47003190 CCAAAAAAAC
47003200 AAAAAAACACCTCCAAAAAACAAAAAAACCTCCTCCAAAACAAAGAACAATCCTCCTCCAAAAAA
1 AAAAAAACACCTCCAAAAAACAAAAAAACCTCCTCCAAAACAAAGAACAATCCTCCTCCAAAAAA
*
47003265 CCAAAAACCCACCC-CTAAAAACAAAGTCTTGAATGGCTTTTATAGCCAAATTTTACAAGTGGAG
66 CCAAAAACCCACCCTCTAAAAACAAAGTCTTGAATGGCTTTTATAGCCAAATTTTACAAGTGAAG
*
47003329 TGGTTGGGGT-GTTTAGGTGGCCAAGGGTGGTGGAGTTGGTGGCCAAGGTGGGTGGCCAACAAAG
131 TGGTTGGGGTGGTTTAGGTGGCCAAGGGTGGTGAAGTTGGTGGCCAAGGTGGGTGGCCAACAAAG
47003393 GTGGTGGAGTAA
196 GTGGTGGAGTAA
47003405 AAAAAAACACCTCCAAAAAACAAAAAAACCTCCTCCAAAACAAAGAACAATCCTCCTCCAAAAAA
1 AAAAAAACACCTCCAAAAAACAAAAAAACCTCCTCCAAAACAAAGAACAATCCTCCTCCAAAAAA
47003470 CCAAAAACCCACCCTCTAAAAACAAAGTCTTGAATGGCTTTTATAGCCAAATTTTACAAGTGAAG
66 CCAAAAACCCACCCTCTAAAAACAAAGTCTTGAATGGCTTTTATAGCCAAATTTTACAAGTGAAG
47003535 TGGTTGGGGTGGTTTAGGTGGCCAAGGGTGGTGAAGTTGGTGGCCAAGGTGGGTGGCCAACAAAG
131 TGGTTGGGGTGGTTTAGGTGGCCAAGGGTGGTGAAGTTGGTGGCCAAGGTGGGTGGCCAACAAAG
47003600 GTGGTGGAGTA
196 GTGGTGGAGTA
47003611 GGTGGCCAAG
Statistics
Matches: 202, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
205 79 0.39
206 59 0.29
207 64 0.32
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (207 bp):
AAAAAAACACCTCCAAAAAACAAAAAAACCTCCTCCAAAACAAAGAACAATCCTCCTCCAAAAAA
CCAAAAACCCACCCTCTAAAAACAAAGTCTTGAATGGCTTTTATAGCCAAATTTTACAAGTGAAG
TGGTTGGGGTGGTTTAGGTGGCCAAGGGTGGTGAAGTTGGTGGCCAAGGTGGGTGGCCAACAAAG
GTGGTGGAGTAA
Found at i:47003444 original size:20 final size:23
Alignment explanation
Indices: 47003421--47003467 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
47003411 ACACCTCCAA
47003421 AAAACAAA-AA-AA-CCTCCTCC
1 AAAACAAAGAACAATCCTCCTCC
47003441 AAAACAAAGAACAATCCTCCTCC
1 AAAACAAAGAACAATCCTCCTCC
47003464 AAAA
1 AAAA
47003468 AACCAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.33
21 2 0.08
22 2 0.08
23 12 0.50
ACGTcount: A:0.55, C:0.32, G:0.02, T:0.11
Consensus pattern (23 bp):
AAAACAAAGAACAATCCTCCTCC
Found at i:47007276 original size:20 final size:20
Alignment explanation
Indices: 47007251--47007304 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
47007241 AAGGTCGTAC
47007251 AATAGAACAAAGCAAAACAG
1 AATAGAACAAAGCAAAACAG
* *
47007271 AATAGAGCAGAA-CAAAACCG
1 AATAGAACA-AAGCAAAACAG
* *
47007291 AATGGTACAAAGCA
1 AATAGAACAAAGCA
47007305 GAGCAGAACT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.19, T:0.07
Consensus pattern (20 bp):
AATAGAACAAAGCAAAACAG
Found at i:47007331 original size:30 final size:30
Alignment explanation
Indices: 47007274--47007331 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
47007264 AAAACAGAAT
* * *
47007274 AGAGCAGAACAAAACCGAATGGTACAAAGC
1 AGAGCAGAACAAAACAGAATAGAACAAAGC
**
47007304 AGAGCAGAACTCAACAGAATAGAACAAA
1 AGAGCAGAACAAAACAGAATAGAACAAA
47007332 ACGGAGTAGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.53, C:0.19, G:0.21, T:0.07
Consensus pattern (30 bp):
AGAGCAGAACAAAACAGAATAGAACAAAGC
Found at i:47008794 original size:20 final size:20
Alignment explanation
Indices: 47008769--47008810 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
47008759 ACAGAGCGAG
47008769 CAAAACTGAA-CAGAACAGAA
1 CAAAAC-GAAGCAGAACAGAA
*
47008789 CAAAACGAAGCAGAGCAGAA
1 CAAAACGAAGCAGAACAGAA
47008809 CA
1 CA
47008811 GAACATGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.57, C:0.21, G:0.19, T:0.02
Consensus pattern (20 bp):
CAAAACGAAGCAGAACAGAA
Found at i:47009071 original size:730 final size:733
Alignment explanation
Indices: 47006587--47011912 Score: 6109
Period size: 733 Copynumber: 7.2 Consensus size: 733
47006577 ACCGAATGGT
* *
47006587 ACAGAACAAGAA-GGAGCAGAGCAAAACAAAACATGTATGTTTATGCAGGTGCAGTACTTTTT-A
1 ACAGAACAA-AACGGAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTA-TTTTTCA
* * * * *
47006650 GATAGATTAGAATGCAGATTTATTAGAAACAGTCATT-CCAAACTCTGTTACACACAAAAAATAG
64 AACAGATCAGAATGCAGATTTATCAGAAACAGTC-TTCCCAAACTCCGTTACACAC-AAAAATAG
* * * * *
47006714 AGTTCTCCCCCAAACTAATCCATCCAAAACACACTAAGAAAGTCA-CCCGGGGTTGATACCACTC
127 AGTTCTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTC-GGGTTGATACCACTA
* * *
47006778 AATATAACACCCCAAACCT-GACCTGGAAGTTTAAGCAGAACTTGGACGAGTTACACTAATGCAT
191 AATGTAACACCCCAAA-CTAGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCAT
* * * * * *
47006842 CT-AAAGCAGATTTCTTTTTGGGATTTTAATTTTGAAAACCAGAAATTCGTTTTTTTCAATTTTG
255 -TGAAAACTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTTTTTCGATTTAG
* * *
47006906 GTGATTTTGTAGCTTCTTGTTAGAAATTGACTAATACGGAC-ATGATTATCAAAAGGAAAGCAAG
319 GTGATTTTGTAGTTTCGTGTTAGAAATTGACTGATACGGACGA-GATTATCAAAAGGAAAGCAAG
* * * * *
47006970 GTAAATCCAAGACAATTTACAAACCCAAAAGA-CTAGTTCGTAGTTATTTCAGTGTAAAACAATT
383 GCAAATCCAAGACAATTTACAAACCCAAAAGATC-AATTCGCAGTTATTTTAGTGTAAAACAATC
* * * *
47007034 CGAGCTCCCGTACGACGTCCGATCCTAAATCAGATGTTTTACTAAACAGATGAAGTTAGAAAAAG
447 CGAGCTCCCGTACGACATCCGATCCTAAATCAGATGTTTTACTGAACAGATGAAGGTAGACAAAG
* **
47007099 GGTGAGTTACCAAGCATCGCGTATAACCAGGCTCAAATACAAATAAATAGAGCATACTATATAAC
512 GGTGAGTTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAAC
* * * * * * *
47007164 TCGTAGTAATGCAAATAACTGAAGAGTAGTTGTATAACCAATTCAGACAACACTAGAGTATCACA
577 TCGTAGTAACGCAAATAA-TTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACA
* *
47007229 GAGATTTAATCAAAGGTCGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCGAAT
641 GAGATTTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCAAAT
* * *
47007294 GGTACAAAGCAGAGCAGAACTCAACAGA
706 GGTACAGAGCAGAGCAAAACTGAACAGA
* *
47007322 ATAGAACAAAACGGAGTAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
1 ACAGAACAAAACGGAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
* * * ** * *
47007387 TAGATCAAAAAGTGGATTTATCAGAAACAGTCATCTCAAACAT-CGTTACACAC-AAAATAGAGT
66 CAGATCAGAATGCAGATTTATCAGAAACAGTCTTCCCAAAC-TCCGTTACACACAAAAATAGAGT
* * *
47007450 TCTTCCTCGAACTCATCCATCCAAAACACACTAAGAAAGTCATCTCGGGTT-ATACCACTAAATG
130 TCTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGATACCACTAAATG
* * * * * *
47007514 TGACACCCCAAACCAGACTTGGAAATTTAAGCCGAACTTGGACAAGTTACACCAATACATTGAAA
195 TAACACCCCAAACTAGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTGAAA
* * * *
47007579 ACTGGTTTCTTTTCGAGATTTTAATTTTGAAAACGAGAAATT-AGTTTTTTTCGATTTGGGTGAT
260 ACTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCA-TTTTTTTCGATTTAGGTGAT
** *
47007643 TTTGTAGTTTCGTGTTAGAAATTGACTGATATAGACGAGATTATCAAAAGAAAAGCAAGGCAAAT
324 TTTGTAGTTTCGTGTTAGAAATTGACTGATACGGACGAGATTATCAAAAGGAAAGCAAGGCAAAT
* **
47007708 CTAAGACAATTTACAAACCCAAAAGATCAATTAACAGTTA--TT--TG-AAAACAATCCGAGCTC
389 CCAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATCCGAGCTC
** ** * * * * *
47007768 GAGTTTGTCATCCGATCCTAAATCAGATGCTTT-CTCGAATAGATAAATGTAAGACAAAGGGTGA
454 CCGTACGACATCCGATCCTAAATCAGATGTTTTACT-GAACAGATGAAGGT-AGACAAAGGGTGA
* * * *
47007832 GTTACGAAGCACCGCGTACAACCAGGCTCAAATACAAATAAGCAGAGCATATTATATAACTAGTA
517 GTTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAACTCGTA
* * *
47007897 GTAACACAAATAACTTAAGAGCAATTGTATAACCAGTATGGACAACTCTAGAGTATCACAGAGAT
582 GTAACGCAAATAA-TTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAGAT
* * * *
47007962 TAAATCAAAGGTAGTACAATAGAACAAAGGAAAACAGAATATAGCAGAACAAAACCAAATGGTAT
646 TTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCAAATGGTAC
* * *
47008027 AGAACAGAGTATAACTGAACAGA
711 AGAGCAGAGCAAAACTGAACAGA
* * * * *
47008050 ATAGAACAAAAAGGAGTAGAGCAGAACAGAACATGTCTGTTTATGCAGGTGCAGTACTTTTCAAA
1 ACAGAACAAAACGGAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
* * *
47008115 CAGATTA-AATGCAGATTTATCAGAAACAGTCTTCCCAAACTCTGTTAGACACAAAAAATAGAGT
66 CAGATCAGAATGCAGATTTATCAGAAACAGTCTTCCCAAACTCCGTTACACAC-AAAAATAGAGT
* * * * * *
47008179 TCTTCCACGAACTAATCCATCTAAAACATACCAAGACAGTCAT-TCGAGGTTGATACCACTAAAT
130 TCTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCG-GGTTGATACCACTAAAT
* * ** * * *
47008243 GTAACACCTCAAACTTGACCTGGAAGTTTAATTCGAACTTGGACGAGTTACACTACTGCATTTAA
194 GTAACACCCCAAACTAGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTGAA
* * *
47008308 AACTGATTTCTTTTCGAGATTTTAATTTTGAAAACCAAAAATTCATTTTTTTCAATTTAGGTGAT
259 AACTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTTTTTCGATTTAGGTGAT
* * * *
47008373 TTTGTAGCTTCGTGTTAGAAATTGACTAAAACGGACAAGATTAT-AGAAAGGAAAGCAAGGCAAA
324 TTTGTAGTTTCGTGTTAGAAATTGACTGATACGGACGAGATTATCA-AAAGGAAAGCAAGGCAAA
* * *
47008437 TCCAAGACAATTTACAAACCCAAAAGACCAGTTCGTAGTTATTTTAGTGTAAAACAATCCGAGCT
388 TCCAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATCCGAGCT
* ** * * * *
47008502 CTCGTACGATGTCCAATCCTAAATCAGGTGTTTTACTGAACAAATGAAGGTAGACAAATGGTGAG
453 CCCGTACGACATCCGATCCTAAATCAGATGTTTTACTGAACAGATGAAGGTAGACAAAGGGTGAG
**
47008567 TTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAATAGAGCATACTATATAACTCGTAG
518 TTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAACTCGTAG
* * * * * *
47008632 TAATGCAAATAATTGAAAAGCAGTTGTATATCTAGTGCGGTCAACTCTAGAGTATCACAGAGATT
583 TAACGCAAATAATT-AAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAGATT
* * *
47008697 TTATCAAAGGTAGTGCAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCGAATGGTACA
647 TAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCAAATGGTACA
47008762 GAGC-GAGCAAAACTGAACAGA
712 GAGCAGAGCAAAACTGAACAGA
* * *** *
47008783 ACAGAACAAAACGAAGCAGAGCAGAACAGAACATGTAAGTTTATATGGGAGCAGTATTTTTCAAA
1 ACAGAACAAAACGGAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
* * *
47008848 TAGATCAGAATACAGATTTATCAGAAACAGTCTTCCCAAACTCCGTTACACATAAAAATAGAG-T
66 CAGATCAGAATGCAGATTTATCAGAAACAGTCTTCCCAAACTCCGTTACACACAAAAATAGAGTT
* *
47008912 CTCCCCCGAACTCATCCAT-CTAAA-ACACTAAGAAAGTCATC-CTGGGTTGATACCACTAAATG
131 CTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTC-GGGTTGATACCACTAAATG
* * * *
47008974 TAACACCCCAAACTAGACTTGGAAGTTTAAGCCGAACTTGGATGAGTTACACCAAAGTATTGAAA
195 TAACACCCCAAACTAGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTGAAA
* * *
47009039 ACTGAGTTT-TTCTCGGGATTTTAATCTTGAAAACCAGAAATTCA-TTTTGTCGATTTAGGTGAT
260 ACTGA-TTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTTTTTCGATTTAGGTGAT
* ** *
47009102 TTTGTAGTTTCATGTTAGAAATTGACTGATACAAACGACATTATCAAAAGGAAAGCAAGGCAAAT
324 TTTGTAGTTTCGTGTTAGAAATTGACTGATACGGACGAGATTATCAAAAGGAAAGCAAGGCAAAT
* * * * * *
47009167 CTAAGAAAATTTACAAACCCAAAAGAACAATTCGCAGTTATTTCAGTATAAAACAATTCGAGCTC
389 CCAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATCCGAGCTC
* ** * * * * * *
47009232 CCATACCCCATCCGATCCTAAATCAGGTATTTTTCCG-ACTAGATGAAAGTAAGACAAATGGTGA
454 CCGTACGACATCCGATCCTAAATCAGATGTTTTACTGAAC-AGATGAAGGT-AGACAAAGGGTGA
* *
47009296 GTTACCAAGCACTGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATGACTCGTA
517 GTTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAACTCGTA
** *
47009361 GTAACGCAAATAACTTAAGAGCAGTTGTATAGTCAGTACGGACAACTCTAGTGTATCACAGAGAT
582 GTAACGCAAATAA-TTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAGAT
* * * * **
47009426 TTAATCAAAGGTAATACAATAGAACAAAGCAAATCAGAATAGAGCAGAACAAAATCGAATGGTGT
646 TTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCAAATGGTAC
* * * * **
47009491 AGAACATAACAGAACAAAACAGA
711 AGAGCAGAGCAAAACTGAACAGA
* * *** *
47009514 ACAAAACGAAGTAGAGCAGAGCAGAACATAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
1 ACAGAACAAAACGGAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
** * * * * * * *
47009579 CAGATTTGAAGGCAGATTTATTAGAAATAGTCTTTCCAAATTCTGTTACACATAAAAATAGAGTT
66 CAGATCAGAATGCAGATTTATCAGAAACAGTCTTCCCAAACTCCGTTACACACAAAAATAGAGTT
* * *
47009644 CTCCTCTGAACTCATCCATCCAAAACACATCAAGAAAGTCATCTCGGGTTGATACCACTAAATGT
131 CTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGATACCACTAAATGT
* * * *
47009709 AACACCCCAAAC----CC-AGAGGTTTAAGCCGAACTTGGACAAGTTACACCAATGCATTTAAAA
196 AACACCCCAAACTAGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTGAAAA
* * *
47009769 CTGATATCTTTTTGGGATTTTAATTTTGAAAAGCCAGAAATTCATATTTTTCGATTTAGGTGATT
261 CTGATTTCTTTTCGGGATTTTAATTTTGAAAA-CCAGAAATTCATTTTTTTCGATTTAGGTGATT
* * * * * * *
47009834 TTGTAGCTTCGTGTTAGAAATTGGCTAATATGGATGAGATTATCAAAAGGAAAGTAAGGAAAATC
325 TTGTAGTTTCGTGTTAGAAATTGACTGATACGGACGAGATTATCAAAAGGAAAGCAAGGCAAATC
* * * * * * *
47009899 CAAGATAATTTACAAACCCAAAAGATCAGTTTGCAATTATGTTAGTGCAAAAAAAATTCCGAGCT
390 CAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTG-TAAAACAA-TCCGAGCT
* ** * * * *
47009964 TCTATACGACATTCGATCCTAAATCAGATGTTTTAATGAATAGATGAAGGTAAGACAAATGGTGA
453 CCCGTACGACATCCGATCCTAAATCAGATGTTTTACTGAACAGATGAAGGT-AGACAAAGGGTGA
* * ** * *
47010029 GTTACCAAGCACTGCGTAAAACCAGGCTCAAATACAAATAAATAGAACATACTATATATCTCGTA
517 GTTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAACTCGTA
* * * * *
47010094 GTAATGCAAATAATTGAATAGCAGTTGCATAACTAGTATAGG-CAACTCTAGAGTATCACAGAGA
582 GTAACGCAAATAATT-AAGAGCAGTTGTATAACCAGTA-CGGACAACTCTAGAGTATCACAGAGA
* * * * * * * *
47010158 TTTAATCAAAGGTACTACAACAGAAAAAAACAAAACAGAATAGAGCAAAATAGAACCAAATGGAA
645 TTTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCAAATGGTA
*
47010223 CAGAGCAGAACAAAGCTGAATGGTACAGAGTAAAGTAGAACTTAATAGA
710 C--AG-AG--C--A---G-A--G--C--A--AAACT-GAAC-----AGA
* * * * *
47010272 ATAGAAAAAAATGGAGTAGAGCAAAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
1 ACAGAACAAAACGGAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
* * * * * ** ** *
47010337 TAGAAT-GGAATGTAAATTTATTAGAAATGGTCTTCCCAAACTCTATTACAAACAAAAATAGAGT
66 CAG-ATCAGAATGCAGATTTATCAGAAACAGTCTTCCCAAACTCCGTTACACACAAAAATAGAGT
* *
47010401 TCTCCCCCGAACTCATCTATCCAAAACACACCAAGAAAGTTATCTCGGGTTGATACCACTAAATG
130 TCTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGATACCACTAAATG
* * * * *
47010466 TAA-AGCCCCAAACCT-GACCTGAAAGTTTAAGCCAAACTTAGATGAGTTACACCAATGCTTTGA
195 TAACA-CCCCAAA-CTAGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTGA
* ** *
47010529 AAACTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAAAAATTTGTTTTTTGTTGATTTAGGTG
258 AAACTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTTTT-TCGATTTAGGTG
* * * ** * * * * * *
47010594 ATTTTTTTAGTTTTGTATTAGAAATCAAGTGATATGGAAGAGATTATCAAAAGGAAAACACGGAA
322 A-TTTTGTAGTTTCGTGTTAGAAATTGACTGATACGGACGAGATTATCAAAAGGAAAGCAAGGCA
* * * * *
47010659 AATCCAAGACAATTTACAAACCCAAAAAATCAATTCGTAGTTATTTCAGTGTAAAATAATCTGAG
386 AATCCAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATCCGAG
** ** * * *
47010724 CTCCC-TACG-CTATTTGATCCTATGTCATATGTTTTCCTGAACAGATGAAGGTAAACAAAGGGT
451 CTCCCGTACGAC-ATCCGATCCTAAATCAGATGTTTTACTGAACAGATGAAGGTAGACAAAGGGT
* * * * * *
47010787 GAGTTACCAAGCACTGCGTACAACCAGGATCAAATATAAATAAGCAAAGCATACTATATAACTGG
515 GAGTTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAACTCG
*
47010852 TAGTAACGCAAATAACTTAAGAGGAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAG
580 TAGTAACGCAAATAA-TTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAG
*
47010917 ATTTAATCAAAGGTAGTACAATAGAACAAATCAAAACAGAATAGAGCAGAACAAAACCAAATGGT
644 ATTTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCAAATGGT
** * * *
47010982 TTAGAGCAGAGGAGAACTAAACAGA
709 ACAGAGCAGAGCAAAACTGAACAGA
* * * * * *
47011007 ACAGAATAAAACGGAGCAAAGCAAAATAGAACATGTATGTTTATGCAAGTGAAGTATTTTTCAAA
1 ACAGAACAAAACGGAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
*
47011072 CAGTTCAGAATGCAGATTTATCAGAAACAGTCTTCCCAAACTCCGTTACACACAAAAATAGAGTT
66 CAGATCAGAATGCAGATTTATCAGAAACAGTCTTCCCAAACTCCGTTACACACAAAAATAGAGTT
* *
47011137 CTCCCCCGAGCTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGGTACCACTAAATGT
131 CTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGATACCACTAAATGT
** * * * * *
47011202 AA-ACCCCAAACCCGACCTAGAAGTTTAAGCCAAACTTGGATGAGTTACAACAATGCATTAAAAA
196 AACACCCCAAACTAGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTGAAAA
* *
47011266 TTGATTTCTGTTT-GGGATTTTAATTTTGAAAACTAGAAATT--TGTTTTTTCGATTTAGGTGAT
261 CTGATTTCT-TTTCGGGATTTTAATTTTGAAAACCAGAAATTCAT-TTTTTTCGATTTAGGTGAT
* * *
47011328 TTTGTAGTTTCATGTTAGAAATTGAATGATACGGACGAGATTATCCAAAGGAAAGCAAGGCAAAT
324 TTTGTAGTTTCGTGTTAGAAATTGACTGATACGGACGAGATTATCAAAAGGAAAGCAAGGCAAAT
* * *
47011393 CTAAGACAATTTACAAACCCAAAAGATCAATTCACAGTTATTTTAGTGTAAAACAATTCGAGCTC
389 CCAAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATCCGAGCTC
* * * * * * * * **
47011458 CCGTACGCCATCCGATTCTAAATTAGATGTATTCCTGAACCGATGAAGGTAATATAAAGAATGAG
454 CCGTACGACATCCGATCCTAAATCAGATGTTTTACTGAACAGATGAAGGT-AGACAAAGGGTGAG
** * * * *
47011523 TTACCAAGCACCATGTATAACCAAGCTCAAATACAAATTAGCATATCATACTATATAACAT-GTA
518 TTACCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAAC-TCGTA
* * * * *
47011587 GTAACACAAATAGTTTAAGAGCAATTGTATAACCAGTACGGACAACTCTAGAGTATCACGGGGAT
582 GTAACGCAAATA-ATTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAGAT
* * * * * ** * *
47011652 TTAATCAAAGGTAGTACAACAAAACAAAGTAAAATAGAATATAATAGAACAAAATCAAAAGGTAC
646 TTAATCAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCAAATGGTAC
* * * *
47011717 AGAGCAGAGAAAAATTGAATAAA
711 AGAGCAGAGCAAAACTGAACAGA
* * * * * *
47011740 ATAAAACAAAACGGAGCAAAGCA-ATACAGTACATGTATGTTTATACAGATGCAGTATTTTTCAA
1 ACAGAACAAAACGGAGCAGAGCAGA-ACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAA
* * *
47011804 ACATATCAGAATGCAGATTTATCAGAAACAATCTTACCAAACTCCGTTACACACAAAAATAGAGT
65 ACAGATCAGAATGCAGATTTATCAGAAACAGTCTTCCCAAACTCCGTTACACACAAAAATAGAGT
* * * *
47011869 TCTCCCCTGAGCTCATCCATCTAAAACACACCAACAAAGTCATC
130 TCTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATC
47011913 CTAGGTTGCT
Statistics
Matches: 3887, Mismatches: 610, Indels: 190
0.83 0.13 0.04
Matches are distributed among these distances:
726 3 0.00
727 86 0.02
728 278 0.07
729 280 0.07
730 538 0.14
731 352 0.09
732 302 0.08
733 717 0.18
734 377 0.10
735 322 0.08
736 4 0.00
738 1 0.00
740 4 0.00
741 3 0.00
743 1 0.00
744 1 0.00
747 1 0.00
748 1 0.00
749 1 0.00
750 2 0.00
752 2 0.00
753 4 0.00
755 1 0.00
757 3 0.00
758 181 0.05
759 5 0.00
760 176 0.05
761 40 0.01
762 23 0.01
763 85 0.02
764 93 0.02
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.25
Consensus pattern (733 bp):
ACAGAACAAAACGGAGCAGAGCAGAACAGAACATGTATGTTTATGCAGGTGCAGTATTTTTCAAA
CAGATCAGAATGCAGATTTATCAGAAACAGTCTTCCCAAACTCCGTTACACACAAAAATAGAGTT
CTCCCCCGAACTCATCCATCCAAAACACACCAAGAAAGTCATCTCGGGTTGATACCACTAAATGT
AACACCCCAAACTAGACCTGGAAGTTTAAGCCGAACTTGGACGAGTTACACCAATGCATTGAAAA
CTGATTTCTTTTCGGGATTTTAATTTTGAAAACCAGAAATTCATTTTTTTCGATTTAGGTGATTT
TGTAGTTTCGTGTTAGAAATTGACTGATACGGACGAGATTATCAAAAGGAAAGCAAGGCAAATCC
AAGACAATTTACAAACCCAAAAGATCAATTCGCAGTTATTTTAGTGTAAAACAATCCGAGCTCCC
GTACGACATCCGATCCTAAATCAGATGTTTTACTGAACAGATGAAGGTAGACAAAGGGTGAGTTA
CCAAGCACCGCGTATAACCAGGCTCAAATACAAATAAGCAGAGCATACTATATAACTCGTAGTAA
CGCAAATAATTAAGAGCAGTTGTATAACCAGTACGGACAACTCTAGAGTATCACAGAGATTTAAT
CAAAGGTAGTACAATAGAACAAAGCAAAACAGAATAGAGCAGAACAAAACCAAATGGTACAGAGC
AGAGCAAAACTGAACAGA
Found at i:47009485 original size:20 final size:20
Alignment explanation
Indices: 47009455--47009533 Score: 54
Period size: 20 Copynumber: 4.0 Consensus size: 20
47009445 TAGAACAAAG
*
47009455 CAAATCAGAATAGAGCAGAA
1 CAAAACAGAATAGAGCAGAA
* * *
47009475 CAAAATC-GAATGGTGTAGAA
1 CAAAA-CAGAATAGAGCAGAA
* * * *
47009495 CATAACAGAACAAAACAGAA
1 CAAAACAGAATAGAGCAGAA
47009515 CAAAAC-GAAGTAGAGCAGA
1 CAAAACAGAA-TAGAGCAGA
47009534 GCAGAACATA
Statistics
Matches: 41, Mismatches: 15, Indels: 6
0.66 0.24 0.10
Matches are distributed among these distances:
19 4 0.10
20 36 0.88
21 1 0.02
ACGTcount: A:0.54, C:0.15, G:0.20, T:0.10
Consensus pattern (20 bp):
CAAAACAGAATAGAGCAGAA
Found at i:47009506 original size:10 final size:10
Alignment explanation
Indices: 47009491--47009520 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
47009481 CGAATGGTGT
*
47009491 AGAACATAAC
1 AGAACAAAAC
47009501 AGAACAAAAC
1 AGAACAAAAC
47009511 AGAACAAAAC
1 AGAACAAAAC
47009521 GAAGTAGAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.67, C:0.20, G:0.10, T:0.03
Consensus pattern (10 bp):
AGAACAAAAC
Found at i:47023001 original size:48 final size:48
Alignment explanation
Indices: 47022930--47023052 Score: 158
Period size: 48 Copynumber: 2.6 Consensus size: 48
47022920 CGGTTATAGG
* **
47022930 TGTAACATGGTGCTAAGTGGATATACCAAAATTATGCATATTGATACA
1 TGTAACGTGGTGCTAAGTGGATATACCAAAATTACACATATTGATACA
* *** * *
47022978 TGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCA
1 TGTAACGTGGTGCTAAGTGGATATACCAAAATTACACATATTGATACA
47023026 T-TAACGTGGTGCTAAGTGGATATACCA
1 TGTAACGTGGTGCTAAGTGGATATACCA
47023053 CGGTTAAACA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 25 0.38
48 40 0.62
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.32
Consensus pattern (48 bp):
TGTAACGTGGTGCTAAGTGGATATACCAAAATTACACATATTGATACA
Found at i:47023054 original size:47 final size:47
Alignment explanation
Indices: 47022932--47023143 Score: 210
Period size: 47 Copynumber: 4.7 Consensus size: 47
47022922 GTTATAGGTG
* *** *** *
47022932 TAACATGGTGCTAAGTGGATATACCAAAATTATGCATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
47022979 GTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
*
47023027 TAACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
47023065 TAATGTGGTGCTAAGTGGATATGA-TATGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATAT-ACCACGGTTACATATATTGATTCAT
*
47023112 TAACGTGGTGCTAAGTGGATATACCACAGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
47023144 AACATGTAAC
Statistics
Matches: 134, Mismatches: 19, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
38 27 0.20
39 2 0.01
40 2 0.01
41 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 57 0.43
48 38 0.28
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.33
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:47023082 original size:38 final size:38
Alignment explanation
Indices: 47023027--47023188 Score: 155
Period size: 38 Copynumber: 4.0 Consensus size: 38
47023017 ATTGATTCAT
47023027 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * * *
47023065 TAATGTGGTGCTAAGTGGATATGA-TATGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATAT-ACCACGGTTA-A-ACA-TG
*
47023106 ATTCATTAACGTGGTGCTAAGTGGATATACCACAGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
47023150 TAACGTGGTGCTAAGTGGATATGCCATGGTTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
47023188 T
1 T
47023189 TAATTTGAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
38 62 0.62
39 2 0.02
40 2 0.02
41 2 0.02
44 2 0.02
45 2 0.02
46 2 0.02
47 26 0.26
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.32
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:47023087 original size:85 final size:85
Alignment explanation
Indices: 47022975--47023181 Score: 369
Period size: 85 Copynumber: 2.4 Consensus size: 85
47022965 GCATATTGAT
*
47022975 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGCTA
*
47023040 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACAGTTAA
* **
47023060 ACATGTAATGTGGTGCTAAGTGGATATGATATGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGCTA
47023125 AGTGGATATACCACAGTTAA
66 AGTGGATATACCACAGTTAA
47023145 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTA
47023182 TACATGTTAA
Statistics
Matches: 114, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 114 1.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCATTAACGTGGTGCTA
AGTGGATATACCACAGTTAA
Found at i:47025653 original size:62 final size:61
Alignment explanation
Indices: 47025582--47025772 Score: 193
Period size: 62 Copynumber: 3.1 Consensus size: 61
47025572 CTCGTATGGC
** * *** * *
47025582 TTACACGGCCAGGGTACACACCCGTGTCCCTGGTTGTGTGGTCTTAAATCATAAACAGTGGG
1 TTACACGGCCAGGACACACACCCATGTCCCTGCCGGTGTGGTCCTAAATCATAAAC-GTGAG
* * *
47025644 TTACACGGCCTGGACACACATCCATGTCCTTGCCGGTGTGGTCCTAAATCATAAACGTGAG
1 TTACACGGCCAGGACACACACCCATGTCCCTGCCGGTGTGGTCCTAAATCATAAACGTGAG
* ** * * * * *
47025705 TTACAAGGCTTGGACACACACCTATATCCTTGCCCGTGTGGTCCTAAATCATAAACAGTAAG
1 TTACACGGCCAGGACACACACCCATGTCCCTGCCGGTGTGGTCCTAAATCATAAAC-GTGAG
47025767 TTACAC
1 TTACAC
47025773 AGCCTGGATA
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
61 54 0.50
62 55 0.50
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (61 bp):
TTACACGGCCAGGACACACACCCATGTCCCTGCCGGTGTGGTCCTAAATCATAAACGTGAG
Found at i:47025735 original size:61 final size:62
Alignment explanation
Indices: 47025617--47025780 Score: 226
Period size: 61 Copynumber: 2.7 Consensus size: 62
47025607 GTCCCTGGTT
* * * * *
47025617 GTGTGGTCTTAAATCATAAACAGTGGGTTACACGGCCTGGACACACATCCATGTCCTTGCCG
1 GTGTGGTCCTAAATCATAAACAGTGAGTTACAAGGCCTGGACACACATCCATATCCTTGCCC
*
47025679 GTGTGGTCCTAAATCATAAAC-GTGAGTTACAAGGCTTGGACACACA-CCTATATCCTTGCCC
1 GTGTGGTCCTAAATCATAAACAGTGAGTTACAAGGCCTGGACACACATCC-ATATCCTTGCCC
*
47025740 GTGTGGTCCTAAATCATAAACAGTAAGTTACACA-GCCTGGA
1 GTGTGGTCCTAAATCATAAACAGTGAGTTACA-AGGCCTGGA
47025781 TACATGGCCG
Statistics
Matches: 91, Mismatches: 8, Indels: 6
0.87 0.08 0.06
Matches are distributed among these distances:
60 2 0.02
61 53 0.58
62 35 0.38
63 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (62 bp):
GTGTGGTCCTAAATCATAAACAGTGAGTTACAAGGCCTGGACACACATCCATATCCTTGCCC
Found at i:47028446 original size:23 final size:24
Alignment explanation
Indices: 47028409--47028462 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
47028399 TAATTGGGTA
*
47028409 AATTTTT-TAATTAAATA-AATTT
1 AATTTTTATAAATAAATATAATTT
*
47028431 AATTTTTATAAATAAATATTATTT
1 AATTTTTATAAATAAATATAATTT
*
47028455 TATTTTTA
1 AATTTTTA
47028463 GTATGATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 7 0.26
23 9 0.33
24 11 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
AATTTTTATAAATAAATATAATTT
Found at i:47028954 original size:15 final size:15
Alignment explanation
Indices: 47028934--47028963 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47028924 ATTATACTTA
47028934 TTTTATTAATAATAT
1 TTTTATTAATAATAT
*
47028949 TTTTATTATTAATAT
1 TTTTATTAATAATAT
47028964 AATAGTTATT
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTATTAATAATAT
Found at i:47029262 original size:26 final size:26
Alignment explanation
Indices: 47029212--47029262 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
47029202 TTTTAGTTAT
*
47029212 TATTATTTGATATTCAATAGTTTTAC
1 TATTATTTGATATTCAATAATTTTAC
47029238 TATTATTTGATATT-AATAATATTTA
1 TATTATTTGATATTCAATAAT-TTTA
47029263 TATAATTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.55
Consensus pattern (26 bp):
TATTATTTGATATTCAATAATTTTAC
Found at i:47035301 original size:32 final size:33
Alignment explanation
Indices: 47035265--47035338 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
47035255 GGCCCTGCTG
*
47035265 TGGTCTT-TCATTC-ACATGCCATAACCCAGTTA
1 TGGTCTTATCATTCGA-ATGCCATAACCCAGCTA
* *
47035297 TGGTCTTATTATTCGATTGCCATAACCCAGCTA
1 TGGTCTTATCATTCGAATGCCATAACCCAGCTA
47035330 TGGTCTTAT
1 TGGTCTTAT
47035339 TTGGCAGCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
32 7 0.19
33 29 0.78
34 1 0.03
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (33 bp):
TGGTCTTATCATTCGAATGCCATAACCCAGCTA
Found at i:47040521 original size:51 final size:50
Alignment explanation
Indices: 47040444--47040591 Score: 215
Period size: 51 Copynumber: 2.9 Consensus size: 50
47040434 ACGATACACG
* *
47040444 GTGGCATTCACATAGTACCACCCTTGTAGCCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GCCAAAGCTATTTTATTCACAAA
* *
47040495 GTGGCCTTCACATAGTAGCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTG-CCAAAGCTATTTTATTCACAAA
* *
47040546 GTGGCCTTCACATAGTACCACACTTGTTTCCAATGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTG-TGCCAAAGCTATTTTATTC
47040592 CTAAGGTTCA
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.01
51 85 0.98
52 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.32
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTGCCAAAGCTATTTTATTCACAAA
Found at i:47040656 original size:24 final size:24
Alignment explanation
Indices: 47040627--47040726 Score: 103
Period size: 24 Copynumber: 4.0 Consensus size: 24
47040617 ACTAAGCACA
*
47040627 ATGCCATGGACTTACTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
47040651 ATGCCATCGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
**
47040675 CATATTGTCC-TAAACTTATTTCACTTAG
1 ---A-TG-CCATGGACTTATTTCACTTAG
*
47040703 ATGCCATGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
47040727 CACAATGTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
23 2 0.03
24 39 0.62
25 1 0.02
27 1 0.02
28 18 0.29
29 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:47046798 original size:47 final size:47
Alignment explanation
Indices: 47046737--47047264 Score: 838
Period size: 47 Copynumber: 11.4 Consensus size: 47
47046727 CAGCCAAGAC
47046737 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47046784 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47046831 AGTG----TAT-T-ATCA--CCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47046870 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47046917 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47046964 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
47047011 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
47047058 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
47047105 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
47047152 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
47047199 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
47047246 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
47047265 TCCCGAAGGG
Statistics
Matches: 450, Mismatches: 23, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
39 31 0.07
41 3 0.01
42 1 0.00
43 4 0.01
44 1 0.00
45 3 0.01
47 407 0.90
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:47047439 original size:37 final size:37
Alignment explanation
Indices: 47047383--47047461 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
47047373 CCGAGCTCTA
* *
47047383 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
47047420 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47047457 AAGAC
1 AAGAC
47047462 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47054103 original size:46 final size:44
Alignment explanation
Indices: 47054036--47054203 Score: 180
Period size: 46 Copynumber: 3.7 Consensus size: 44
47054026 TGTAACCCGC
47054036 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGATCTCGAGC-TT-GCAT
* * *
47054082 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGATCTC-GA-G-CTTGCAT
* * *
47054128 ACATCACTCGAACTCGGACTCAACTCAACGAGT-TCG-GACATTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGA-TCTCGAG-C-TTGCAT
47054174 CCATAAGTGAACTCGGACTCAACTCAACGA
1 CCATAAGTGAACTCGGACTCAACTCAACGA
47054204 GTTCGGATGC
Statistics
Matches: 102, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
44 2 0.02
45 24 0.24
46 46 0.45
47 27 0.26
48 2 0.02
49 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGATCTCGAGCTTGCAT
Found at i:47054198 original size:92 final size:93
Alignment explanation
Indices: 47054044--47054214 Score: 285
Period size: 92 Copynumber: 1.8 Consensus size: 93
47054034 GCCCATAAGT
*
47054044 GAACTCGGACTCAACTCAACGATCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGATCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47054109 CGAGCTCGGATGCCTAGTTACATCACTC
66 CGAGCTCGGATGCCTAGTTACATCACTC
47054137 GAACTCGGACTCAACTCAACGAGT-TCG-GACATT-GCATCCATAAGTGAACTCGGACTCAACTC
1 GAACTCGGACTCAACTCAACGA-TCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
47054199 AACGAGTTCGGATGCC
64 AACGAGCTCGGATGCC
47054215 CAACATCCTA
Statistics
Matches: 74, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
92 45 0.61
93 28 0.38
94 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGATCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCACTC
Found at i:47057381 original size:46 final size:45
Alignment explanation
Indices: 47057314--47057483 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
47057304 TGTAACCCGC
*
47057314 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
*
47057360 CCATAAGTGAACTCGGACTCAACTCAACGAG-TCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * *
47057409 CC-T---CGAA--CGGACTCAACTCAACGAGTTC-GACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-GTTGCAT
47057448 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
47057484 ATGCCAAACA
Statistics
Matches: 105, Mismatches: 6, Indels: 26
0.77 0.04 0.19
Matches are distributed among these distances:
39 8 0.08
40 2 0.02
43 22 0.21
44 2 0.02
45 28 0.27
46 32 0.30
47 1 0.01
48 2 0.02
49 5 0.05
50 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:47059882 original size:15 final size:15
Alignment explanation
Indices: 47059853--47059901 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
47059843 CAAAGATAAC
*
47059853 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
47059867 AAGAAATCCAGAAT-
1 AAGAAATCCAGAATA
* *
47059881 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
47059896 AAGAAA
1 AAGAAA
47059902 CCCAAGATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 20 0.69
15 9 0.31
ACGTcount: A:0.59, C:0.12, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:47062875 original size:45 final size:45
Alignment explanation
Indices: 47062811--47062982 Score: 197
Period size: 45 Copynumber: 3.8 Consensus size: 45
47062801 TGTAACCCGC
47062811 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTT-GCAT
* * * *
47062856 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGATGCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTGCAT
* * * * * *
47062901 ACATCACTCGAACTCGGACTC-GCTCAACGAGTTCGGACATTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTGCAT
*
47062946 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
47062983 TGCCCAAACA
Statistics
Matches: 104, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
44 14 0.13
45 75 0.72
46 14 0.13
47 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTGCAT
Found at i:47062946 original size:90 final size:91
Alignment explanation
Indices: 47062819--47062985 Score: 268
Period size: 90 Copynumber: 1.8 Consensus size: 91
47062809 GCCCATAAGT
*
47062819 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
47062884 GAGCTT-GGATGCTAGTTACATCACTC
66 GAG-TTCGGATGCTAGTTACATCACTC
* *
47062910 GAACTCGGACTC-GCTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
47062973 CGAGTTCGGATGC
65 CGAGTTCGGATGC
47062986 CCAAACATCC
Statistics
Matches: 71, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
89 2 0.03
90 54 0.76
91 15 0.21
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (91 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCTAGTTACATCACTC
Found at i:47067436 original size:42 final size:43
Alignment explanation
Indices: 47067327--47067443 Score: 123
Period size: 42 Copynumber: 2.7 Consensus size: 43
47067317 ATATGCGTTC
*
47067327 TCGTGTAAGACCAC-GTCTGGGAAATTGGCATCGACTTATGATT
1 TCGTGTAAGACC-CTGTCTGGGACATTGGCATCGACTTATGATT
* * * *
47067370 TATGTGTAAGACCATGTTTGGGACATTGGCATC-A-TATTTGATT
1 T-CGTGTAAGACCCTGTCTGGGACATTGGCATCGACT-TATGATT
* *
47067413 TCGTGTAAGACCCTGTCTAGGACAGTGGCAT
1 TCGTGTAAGACCCTGTCTGGGACATTGGCAT
47067444 TGTAACAGCC
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
42 26 0.43
43 9 0.15
44 26 0.43
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TCGTGTAAGACCCTGTCTGGGACATTGGCATCGACTTATGATT
Found at i:47068264 original size:34 final size:34
Alignment explanation
Indices: 47068219--47068294 Score: 100
Period size: 34 Copynumber: 2.2 Consensus size: 34
47068209 TAATAGTCCG
* *
47068219 GTATCAGTGTGGGCTTTAGCCCA-TAGCAGTAGCA
1 GTATCAGTGTGGGCCTTAGCCCATTA-CAGTAACA
* *
47068253 GTATCATTGTGGGCCTTAGCCGATTACAGTAACA
1 GTATCAGTGTGGGCCTTAGCCCATTACAGTAACA
47068287 GTATCAGT
1 GTATCAGT
47068295 AATGCAATAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
34 34 0.94
35 2 0.06
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (34 bp):
GTATCAGTGTGGGCCTTAGCCCATTACAGTAACA
Found at i:47073527 original size:25 final size:24
Alignment explanation
Indices: 47073487--47073541 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 24
47073477 ATACTGCGAT
47073487 AATGTGATACTTCTGACATTTGAA
1 AATGTGATACTTCTGACATTTGAA
47073511 AATGTGATGACTTCTGACATTTGAA
1 AATGTGAT-ACTTCTGACATTTGAA
47073536 AATGTG
1 AATGTG
47073542 TTTTCGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (24 bp):
AATGTGATACTTCTGACATTTGAA
Found at i:47080029 original size:51 final size:51
Alignment explanation
Indices: 47079952--47080150 Score: 303
Period size: 51 Copynumber: 3.9 Consensus size: 51
47079942 TGGATACACG
* * * *
47079952 GTGGCTTTCACATAGTACTACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAA
47080003 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATACTT-ACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATA-TTCACAAA
47080054 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* * *
47080105 GTGGCCTTCACATAGTACTACACTTATGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTC
47080151 CTAAGGTTCA
Statistics
Matches: 138, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
50 3 0.02
51 133 0.96
52 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
Found at i:47091151 original size:13 final size:13
Alignment explanation
Indices: 47091133--47091158 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47091123 CCAGACGTTA
47091133 TGGCCGAATTTGG
1 TGGCCGAATTTGG
47091146 TGGCCGAATTTGG
1 TGGCCGAATTTGG
47091159 CGTGCCACAT
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:0.15, C:0.15, G:0.38, T:0.31
Consensus pattern (13 bp):
TGGCCGAATTTGG
Found at i:47102715 original size:9 final size:9
Alignment explanation
Indices: 47102701--47102727 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
47102691 CCCACGTGGG
47102701 TCCATTTTC
1 TCCATTTTC
47102710 TCCATTTTC
1 TCCATTTTC
47102719 TCCATTTTC
1 TCCATTTTC
47102728 GGCCCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (9 bp):
TCCATTTTC
Found at i:47107363 original size:43 final size:43
Alignment explanation
Indices: 47107310--47107455 Score: 186
Period size: 43 Copynumber: 3.4 Consensus size: 43
47107300 CCGAGATGTC
* * * *
47107310 ATTACATGTAAGACCATGTTTGAGACATTGGCTTTG-TATTGTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATT-TG
* * *
47107353 ATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTAATTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTTG
* *
47107396 ATTACATGTAAGACCCTGTCTGGGACAATGGCATCGATATTTG
1 ATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTTG
*
47107439 ATAACATGTAAGACCAT
1 ATTACATGTAAGACCAT
47107456 ATCTAGGATA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 86 0.97
44 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
ATTACATGTAAGACCATGTCTGGGACATTGGCATCGATATTTG
Found at i:47110064 original size:26 final size:26
Alignment explanation
Indices: 47110035--47110086 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
47110025 TTAAATGAGT
47110035 TAATTTTGATGTTTGCTTAAGTGTTG
1 TAATTTTGATGTTTGCTTAAGTGTTG
47110061 TAATTTTGATGTTTGCTTAAGTGTTG
1 TAATTTTGATGTTTGCTTAAGTGTTG
47110087 ATATAATGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.04, G:0.23, T:0.54
Consensus pattern (26 bp):
TAATTTTGATGTTTGCTTAAGTGTTG
Found at i:47112870 original size:53 final size:53
Alignment explanation
Indices: 47112799--47112904 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
47112789 CATACTTCAA
* *
47112799 ATATATATACATCGTAGAACATTCACAAC-CAAGACACCATAAAACTAATATTT
1 ATATATATACATCATAGAACATTCACAACTCAA-ACACCACAAAACTAATATTT
* * *
47112852 ATATATATACA-CTATAGAATATTCACACCTCCAACACCACAAAACTAATATTT
1 ATATATATACATC-ATAGAACATTCACAACTCAAACACCACAAAACTAATATTT
47112905 TATTACACCT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 1 0.02
53 43 0.93
54 2 0.04
ACGTcount: A:0.46, C:0.23, G:0.04, T:0.27
Consensus pattern (53 bp):
ATATATATACATCATAGAACATTCACAACTCAAACACCACAAAACTAATATTT
Found at i:47113403 original size:36 final size:36
Alignment explanation
Indices: 47113362--47113433 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
47113352 AATTGAAGAG
* *
47113362 TATAATTGAAGTAGAGGTCTTTAAATGGTAATTAGA
1 TATAATTGAAGTAGAGGTCCTTAAATAGTAATTAGA
47113398 TATAATTGAAGTAGAGGTCCTTAAATAGTAATTAGA
1 TATAATTGAAGTAGAGGTCCTTAAATAGTAATTAGA
47113434 CCATTAGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (36 bp):
TATAATTGAAGTAGAGGTCCTTAAATAGTAATTAGA
Found at i:47115351 original size:29 final size:29
Alignment explanation
Indices: 47115309--47115409 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
47115299 CATGAAATTG
47115309 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
47115338 GCACTAAGTGTGCGGGTTCAAGTTGTATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
* * *
47115367 GCACTAAGTGTGCGAGTTC-GATTATATA
1 GCACTAAGTGTGCGGGTTCAAATTGTATA
*
47115395 ACACTAAGTGTGCGG
1 GCACTAAGTGTGCGG
47115410 ACTTACTATA
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
28 19 0.29
29 46 0.71
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (29 bp):
GCACTAAGTGTGCGGGTTCAAATTGTATA
Found at i:47121280 original size:16 final size:16
Alignment explanation
Indices: 47121259--47121298 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
47121249 ATTGTTTTGC
47121259 TTTAAGTTAGTCTAAT
1 TTTAAGTTAGTCTAAT
47121275 TTTAAGTTAGTCTAAT
1 TTTAAGTTAGTCTAAT
47121291 TTTAAGTT
1 TTTAAGTT
47121299 GTGACACATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTAAGTTAGTCTAAT
Found at i:47127204 original size:6 final size:6
Alignment explanation
Indices: 47127186--47127335 Score: 65
Period size: 6 Copynumber: 24.3 Consensus size: 6
47127176 AAGAAACATT
* * *
47127186 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGA ATTAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * * * * * *
47127235 ATCAGA ATTAGT ATCAGGT AGCCGA ATCAAA ATTAGA ATCAGC ATCAGGTA
1 ATCAGA ATCAGA ATCA-GA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * *
47127286 AT-AGA ATCAAA ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
47127334 AT
1 AT
47127336 GTGAATACAA
Statistics
Matches: 106, Mismatches: 26, Indels: 24
0.68 0.17 0.15
Matches are distributed among these distances:
5 7 0.07
6 83 0.78
7 12 0.11
8 4 0.04
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (6 bp):
ATCAGA
Found at i:47127207 original size:18 final size:18
Alignment explanation
Indices: 47127186--47127335 Score: 65
Period size: 19 Copynumber: 8.1 Consensus size: 18
47127176 AAGAAACATT
47127186 ATCAGAA-CTAGAATCAGA
1 ATCAGAATC-AGAATCAGA
*
47127204 ATCAGAATCAGAATTAGA
1 ATCAGAATCAGAATCAGA
* *
47127222 ATTAG-GTGACAGAATCAGA
1 ATCAGAAT--CAGAATCAGA
* * * * *
47127241 ATTAGTATCAGGTAGCCGA
1 ATCAGAATCA-GAATCAGA
* * *
47127260 ATCAAAATTAGAATCAGC
1 ATCAGAATCAGAATCAGA
*
47127278 ATCAGGTAAT-AGAATCAAA
1 ATCA-G-AATCAGAATCAGA
* *
47127297 ATTAGAATCAGTATCAGGTA
1 ATCAGAATCAGAATCA-G-A
*
47127317 A-CAGAATCAAAATCAGA
1 ATCAGAATCAGAATCAGA
47127334 AT
1 AT
47127336 GTGAATACAA
Statistics
Matches: 96, Mismatches: 25, Indels: 22
0.67 0.17 0.15
Matches are distributed among these distances:
17 6 0.06
18 37 0.39
19 47 0.49
20 6 0.06
ACGTcount: A:0.47, C:0.13, G:0.18, T:0.22
Consensus pattern (18 bp):
ATCAGAATCAGAATCAGA
Found at i:47127240 original size:25 final size:25
Alignment explanation
Indices: 47127186--47127276 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 25
47127176 AAGAAACATT
* * *
47127186 ATCAGAACTAGAATCA-GAATCAGA
1 ATCAGAATTAGAATCAGGTAGCAGA
*
47127210 ATCAGAATTAGAATTAGGT-GACAGA
1 ATCAGAATTAGAATCAGGTAG-CAGA
* *
47127235 ATCAGAATTAGTATCAGGTAGCCGA
1 ATCAGAATTAGAATCAGGTAGCAGA
*
47127260 ATCAAAATTAGAATCAG
1 ATCAGAATTAGAATCAG
47127277 CATCAGGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
24 14 0.25
25 40 0.73
26 1 0.02
ACGTcount: A:0.45, C:0.13, G:0.20, T:0.22
Consensus pattern (25 bp):
ATCAGAATTAGAATCAGGTAGCAGA
Found at i:47127282 original size:31 final size:31
Alignment explanation
Indices: 47127238--47127335 Score: 142
Period size: 31 Copynumber: 3.2 Consensus size: 31
47127228 TGACAGAATC
* * *
47127238 AGAATTAGTATCAGGTAGCCGAATCAAAATT
1 AGAATCAGTATCAGGTAACAGAATCAAAATT
* *
47127269 AGAATCAGCATCAGGTAATAGAATCAAAATT
1 AGAATCAGTATCAGGTAACAGAATCAAAATT
*
47127300 AGAATCAGTATCAGGTAACAGAATCAAAATC
1 AGAATCAGTATCAGGTAACAGAATCAAAATT
47127331 AGAAT
1 AGAAT
47127336 GTGAATACAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.22
Consensus pattern (31 bp):
AGAATCAGTATCAGGTAACAGAATCAAAATT
Found at i:47127530 original size:26 final size:27
Alignment explanation
Indices: 47127467--47127540 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
47127457 GCTCAGTTAT
* *
47127467 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGATA
*
47127494 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAAAGCCACCAGATA
*
47127520 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
47127541 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAAAGCCACCAGATA
Found at i:47128328 original size:27 final size:27
Alignment explanation
Indices: 47128160--47128330 Score: 236
Period size: 27 Copynumber: 6.3 Consensus size: 27
47128150 ACAAGATATC
* *
47128160 TCGGTAATTCCACCCTACAGGGCTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
**
47128187 TTAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
47128214 GT-GGTAATTCTACCCTACAGGGGTATT
1 -TCGGTAATTCTACCCTACAGGGGTATT
* * *
47128241 TCGATAATTCTACCTTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
47128268 CCGGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
47128295 CCAGTAATTCTACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
47128322 TCGGTAATT
1 TCGGTAATT
47128331 TTGTAAATTG
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
26 1 0.01
27 125 0.98
28 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:47128345 original size:27 final size:26
Alignment explanation
Indices: 47128315--47128386 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
47128305 TACCCTACAG
47128315 GGGTATTTCGGTAATTTTGTAAATTGA
1 GGGTATTT-GGTAATTTTGTAAATTGA
**
47128342 GGGTCAAATGGTAATTTTGTAAATT-A
1 GGGT-ATTTGGTAATTTTGTAAATTGA
47128368 GGGGTACTTTGGTAATTTT
1 -GGGTA-TTTGGTAATTTT
47128387 ACAAGTCGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 2 0.05
27 34 0.89
28 2 0.05
ACGTcount: A:0.26, C:0.04, G:0.26, T:0.43
Consensus pattern (26 bp):
GGGTATTTGGTAATTTTGTAAATTGA
Found at i:47128399 original size:27 final size:26
Alignment explanation
Indices: 47128369--47128572 Score: 183
Period size: 27 Copynumber: 7.5 Consensus size: 26
47128359 TGTAAATTAG
* *
47128369 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAA-ACGA
*** **
47128396 GGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACA-AACGA
*
47128423 GGGATATTTTGGTAATTTTACAAACTA
1 GGG-TATTTTGGTAATTTTACAAACGA
* *
47128450 GGGGTATTTTGATAATTTTACAAACCA
1 -GGGTATTTTGGTAATTTTACAAACGA
*
47128477 GTGGTATTTTGGTAATTTTACAAACCA
1 G-GGTATTTTGGTAATTTTACAAACGA
* * *
47128504 GGGGTATTTTGGTGATTTTATAAACCAA
1 -GGGTATTTTGGTAATTTTACAAA-CGA
* * *
47128532 GGGTATTCTAGTAATTTTACAAACTA
1 GGGTATTTTGGTAATTTTACAAACGA
47128558 GTGGTATTTTGGTAA
1 G-GGTATTTTGGTAA
47128573 ACTAAAGTAT
Statistics
Matches: 146, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
26 4 0.03
27 121 0.83
28 21 0.14
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACGA
Found at i:47128483 original size:82 final size:81
Alignment explanation
Indices: 47128350--47128566 Score: 222
Period size: 81 Copynumber: 2.7 Consensus size: 81
47128340 GAGGGTCAAA
* * * * * *
47128350 TGGTAATTTTGTAAATTAGGGGTACTTTGGTAATTTTACAAGTCGAG-GGTATTTCAATAATTTT
1 TGGTAATTTTATAAACTAGGGGTATTTTGATAATTTTACAA-ACCAGTGGTATTTCAATAATTTT
** *
47128414 ACAGGTCGAGGGATATTT
65 ACA-AACCAGGGATATTT
* ***
47128432 TGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGTGGTATTTTGGTAATTTTA
1 TGGTAATTTTATAAACTAGGGGTATTTTGATAATTTTACAAACCAGTGGTATTTCAATAATTTTA
*
47128497 CAAACCAGGGGTATTT
66 CAAACCAGGGATATTT
* * * * *
47128513 TGGTGATTTTATAAACCAAGGGTATTCT-AGTAATTTTACAAACTAGTGGTATTT
1 TGGTAATTTTATAAACTAGGGGTATTTTGA-TAATTTTACAAACCAGTGGTATTT
47128567 TGGTAAACTA
Statistics
Matches: 113, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
80 1 0.01
81 59 0.52
82 53 0.47
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
TGGTAATTTTATAAACTAGGGGTATTTTGATAATTTTACAAACCAGTGGTATTTCAATAATTTTA
CAAACCAGGGATATTT
Found at i:47128500 original size:54 final size:53
Alignment explanation
Indices: 47128369--47128568 Score: 213
Period size: 54 Copynumber: 3.7 Consensus size: 53
47128359 TGTAAATTAG
* * * ** ** *
47128369 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGATAATTTTACA-AACCA
47128423 GGGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCA
1 GGG-TATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCA
* * * *
47128477 GTGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 G-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACC-A
* * *
47128532 GGGTATTCTAGTAATTTTACAAACTAGTGGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTG
47128569 GTAAACTAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
54 83 0.66
55 39 0.31
56 4 0.03
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCA
Found at i:47128548 original size:81 final size:81
Alignment explanation
Indices: 47128422--47128572 Score: 223
Period size: 81 Copynumber: 1.9 Consensus size: 81
47128412 TTACAGGTCG
* * *
47128422 AGGGATATTTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGTGGTATTTT
1 AGGGATATTTTGGTAATTTTACAAACCAAGGGTATTTAGATAATTTTACAAACCAGTGGTATTTT
47128487 GGTAATTTTACAAACC
66 GGTAATTTTACAAACC
* * * *
47128503 AGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTCTAG-TAATTTTACAAACTAGTGGTATTT
1 AGGGATATTTTGGTAATTTTACAAACCAAGGGTATT-TAGATAATTTTACAAACCAGTGGTATTT
47128567 TGGTAA
65 TGGTAA
47128573 ACTAAAGTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 60 0.97
82 2 0.03
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGATATTTTGGTAATTTTACAAACCAAGGGTATTTAGATAATTTTACAAACCAGTGGTATTTT
GGTAATTTTACAAACC
Found at i:47130575 original size:20 final size:20
Alignment explanation
Indices: 47130550--47130592 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 20
47130540 ATTTTTGTAC
47130550 AAAGTTCAAAA-TATGAAAAA
1 AAAGTTCAAAATTAT-AAAAA
47130570 AAAGTTCAAAATTATAAAAA
1 AAAGTTCAAAATTATAAAAA
47130590 AAA
1 AAA
47130593 TAAAGAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.67, C:0.05, G:0.07, T:0.21
Consensus pattern (20 bp):
AAAGTTCAAAATTATAAAAA
Found at i:47160738 original size:46 final size:45
Alignment explanation
Indices: 47160671--47160836 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 45
47160661 AACCCGCCCT
*
47160671 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCATCCA
* * * *
47160717 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGCATCCA
*** * * *
47160763 TCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCATCCA
*
47160810 TAAGTGAACTCGGACTC-CCTCAACGAG
1 TAAGTGAACTCGGACTCAACTCAACGAG
47160837 TTTGGATGCT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
45 10 0.10
46 51 0.53
47 33 0.34
48 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCATCCA
Found at i:47160791 original size:93 final size:92
Alignment explanation
Indices: 47160676--47160845 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 92
47160666 GCCCTTAAGT
* *
47160676 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTC-ACTCAA
47160741 CGAGCTCGGATGCCTAGTTACATCTCTC
65 CGAGCTCGGATGCCTAGTTACATCTCTC
* * * *
47160769 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCCCTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCACTCAAC
* *
47160834 GAGTTTGGATGC
66 GAGCTCGGATGC
47160846 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
92 16 0.23
93 53 0.77
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:47168232 original size:28 final size:28
Alignment explanation
Indices: 47168200--47168308 Score: 114
Period size: 28 Copynumber: 3.9 Consensus size: 28
47168190 TACCTGTCTA
* *
47168200 TGGCCCACTT-GGCCAAATCTCGTTCATG
1 TGGCCCA-TTAGGCCAAATCACATTCATG
* * *
47168228 TGGCCCATTAGGCCCATTCACATTTATG
1 TGGCCCATTAGGCCAAATCACATTCATG
*
47168256 TGGCCCATTAGGCCCAAATCACATTCATA
1 TGGCCCATTAGG-CCAAATCACATTCATG
*
47168285 TGG-CCACTAGGCACAAATCACATT
1 TGGCCCATTAGGC-CAAATCACATT
47168309 TACAGTTATG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 3 0.04
28 50 0.74
29 15 0.22
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (28 bp):
TGGCCCATTAGGCCAAATCACATTCATG
Found at i:47168545 original size:16 final size:16
Alignment explanation
Indices: 47168524--47168566 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
47168514 GTAGCCAAAC
*
47168524 TTTCGGCTTTTCCG-TA
1 TTTCGGCTTTT-CGACA
47168540 TTTCGGCTTTTCGACA
1 TTTCGGCTTTTCGACA
47168556 TTTCGGCTTTT
1 TTTCGGCTTTT
47168567 TGGGATTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.07, C:0.23, G:0.19, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:47169830 original size:16 final size:17
Alignment explanation
Indices: 47169803--47169836 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
47169793 AAAAATTAGA
47169803 GATTTCGGGATTTTTGG
1 GATTTCGGGATTTTTGG
47169820 GATTT-GGGATTTTTGG
1 GATTTCGGGATTTTTGG
47169836 G
1 G
47169837 GCGTTACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.12, C:0.03, G:0.38, T:0.47
Consensus pattern (17 bp):
GATTTCGGGATTTTTGG
Found at i:47176027 original size:27 final size:27
Alignment explanation
Indices: 47175963--47176070 Score: 112
Period size: 28 Copynumber: 3.9 Consensus size: 27
47175953 ACCTTCTATT
*
47175963 GCCCACTAGGCCCAATCTCTTTCA-GATG
1 GCCCACTAGGCCCAATCACTTT-ATG-TG
* *
47175991 GCCCATTAGGCCCATTCACTTTATGTG
1 GCCCACTAGGCCCAATCACTTTATGTG
*
47176018 GCCCATTAGGCCCAAATCACATTTATGTG
1 GCCCACTAGGCCC-AATCAC-TTTATGTG
47176047 G-CCACTAGGCCCAAATCACATTTA
1 GCCCACTAGGCCC-AATCAC-TTTA
47176071 CTGTCATGCT
Statistics
Matches: 72, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
27 16 0.22
28 47 0.65
29 9 0.12
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (27 bp):
GCCCACTAGGCCCAATCACTTTATGTG
Found at i:47176316 original size:16 final size:16
Alignment explanation
Indices: 47176297--47176334 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
47176287 CTACTTTCTA
47176297 GCATTTCA-ACTTTTCG
1 GCATTTCAGA-TTTTCG
47176313 GCATTTCAGATTTTCG
1 GCATTTCAGATTTTCG
*
47176329 GGATTT
1 GCATTT
47176335 GTTGATCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 19 0.95
17 1 0.05
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (16 bp):
GCATTTCAGATTTTCG
Found at i:47177585 original size:16 final size:16
Alignment explanation
Indices: 47177564--47177595 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
47177554 AAATTTGAGA
47177564 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
47177580 TTTCGGGATTTTTGGG
1 TTTCGGGATTTTTGGG
47177596 GCATTACATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.06, G:0.38, T:0.50
Consensus pattern (16 bp):
TTTCGGGATTTTTGGG
Found at i:47184000 original size:14 final size:14
Alignment explanation
Indices: 47183981--47184007 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47183971 CCTTATGGAG
47183981 CTGTTGAATTATAC
1 CTGTTGAATTATAC
47183995 CTGTTGAATTATA
1 CTGTTGAATTATA
47184008 TGGCAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (14 bp):
CTGTTGAATTATAC
Found at i:47187895 original size:26 final size:26
Alignment explanation
Indices: 47187860--47187911 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
47187850 AATGTGAAAG
*
47187860 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
47187886 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
47187912 TTTCATTGGT
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:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:47187992 original size:102 final size:104
Alignment explanation
Indices: 47187782--47188253 Score: 778
Period size: 103 Copynumber: 4.6 Consensus size: 104
47187772 TGTATATAAA
** * *
47187782 AGGGGTTGCTGTGTGCTGATTCCCCGATTT-ATGGGTGGTGCTATGTGCG-TGATCCACCATATC
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATC
**
47187845 TTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
47187885 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
47187950 TTGAAAT-AAAAGGGGGTTGCTATGTGCTGATT-CCCCG
66 TTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
47187987 AGGGGTTGCTAAGTGTTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
47188052 TTGAAATAAAAAGGGGGGTTGCTATGTGCTGATTCCCCCG
66 TTGAAATAAAAA-GGGGGTTGCTATGTGCTGATTCCCCCG
47188092 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
47188156 TTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* **
47188195 AGGGGTTGCTAAGTGCTGATTCCCCGA-TTCAGTGGTGGTGCTAAGTGCGGGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCA
47188254 ATAACGGCTA
Statistics
Matches: 354, Mismatches: 10, Indels: 10
0.95 0.03 0.03
Matches are distributed among these distances:
102 100 0.28
103 115 0.32
104 107 0.30
105 32 0.09
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCT
TTGAAATAAAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:47187997 original size:26 final size:26
Alignment explanation
Indices: 47187962--47188013 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
47187952 GAAATAAAAG
*
47187962 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
*
47187988 GGGGTTGCTAAGTGTTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
47188014 TTTCATTGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.13, C:0.21, G:0.35, T:0.31
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:47198769 original size:43 final size:43
Alignment explanation
Indices: 47198612--47198770 Score: 119
Period size: 43 Copynumber: 3.7 Consensus size: 43
47198602 TATGTGTTTT
** * * *
47198612 CATGTAAGACCACATCTGGGACGTTGGCATCGACT-TATCATTTA
1 CATGTAAGACCATGTCTGGAACGTTGGCATCGA-TATTTGA-TTA
** * * ** *
47198656 CATGTAAGATGATGTCTGGGACATCAGCATCG-TATTTGATTT
1 CATGTAAGACCATGTCTGGAACGTTGGCATCGATATTTGATTA
** *
47198698 TGTGTAAGACCCTGTCTGGGATA-G-TGGCATCGATATTTGATTA
1 CATGTAAGACCATGTCT-GGA-ACGTTGGCATCGATATTTGATTA
47198741 CATGTAAGACCATGTCTGGAACGTTGGCAT
1 CATGTAAGACCATGTCTGGAACGTTGGCAT
47198771 TGTATGAGCT
Statistics
Matches: 86, Mismatches: 23, Indels: 13
0.70 0.19 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.29
43 34 0.40
44 26 0.30
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGAACGTTGGCATCGATATTTGATTA
Found at i:47205736 original size:25 final size:25
Alignment explanation
Indices: 47205708--47205786 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
47205698 CTAATGGCCG
47205708 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
47205733 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
47205755 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
47205780 ATGTGAT
1 ATGTGAT
47205787 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:47205847 original size:49 final size:47
Alignment explanation
Indices: 47205578--47206320 Score: 1229
Period size: 47 Copynumber: 15.5 Consensus size: 47
47205568 GTGTGTATAC
*
47205578 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAC
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
47205625 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
47205672 GTGAAAGTGTATATATGAGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
47205719 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
47205766 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
47205813 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAA--T
47205864 GAAAGTGTAAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 ----GTG--AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
47205917 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
47205964 GTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
47206013 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
47206062 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
47206111 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
47206158 GTGAAAGTGTATATA--TGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
47206203 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
47206250 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
47206297 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
47206321 TCCCGAAGGG
Statistics
Matches: 667, Mismatches: 15, Indels: 28
0.94 0.02 0.04
Matches are distributed among these distances:
45 45 0.07
47 391 0.59
49 183 0.27
51 1 0.00
53 1 0.00
55 40 0.06
57 6 0.01
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:47206495 original size:37 final size:37
Alignment explanation
Indices: 47206439--47206517 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
47206429 CCGAGCTCTA
* * * *
47206439 AAGACCTGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
47206476 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47206513 AAGAC
1 AAGAC
47206518 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47210435 original size:44 final size:44
Alignment explanation
Indices: 47210316--47210466 Score: 164
Period size: 44 Copynumber: 3.5 Consensus size: 44
47210306 TATGTGTTTT
*
47210316 CGTGTAAGACCA-GATATGGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCATG-TCTGGGACGTTGGCATCGACTTATGATTTA
* ** *
47210360 TGTGTAAGACCACATCTAGGACGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATGATTTA
* * * * *
47210404 CGTGTAAGACCATGTCTGGGACATCGACATCG-TTTTTGATTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATGATTTA
* *
47210446 CGTGCAAGACCCTGTCTGGGA
1 CGTGTAAGACCATGTCTGGGA
47210467 TAGTGGCATA
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
42 19 0.21
43 8 0.09
44 64 0.70
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGACTTATGATTTA
Found at i:47217771 original size:262 final size:262
Alignment explanation
Indices: 47217306--47217830 Score: 996
Period size: 262 Copynumber: 2.0 Consensus size: 262
47217296 GTCACGAAAC
*
47217306 TACTATTCCGATTAGGCCCTAATTCGGGTTATCACATTGAAAATCTCTTTCAGTTGCGGAAGCTA
1 TACTATTCCGATTAGGCCCTAATTCGAGTTATCACATTGAAAATCTCTTTCAGTTGCGGAAGCTA
*
47217371 ATTTCAATTAAAGAAGTTTAAAACATAAGTTTCTGAAAACAGTAATTGGTTTGAAAACTTGTCTT
66 ATTTCAATTAAAGAAGTTTAAAACATAAGTTTCTGAAAACAGTAATTGGTTTGAAAACTTCTCTT
*
47217436 TTCCTATACTAGAAATTTAGGGTGAGTAATCAAAAGCCCATTTAAAAGTAAATCTCACAAATGAT
131 TTCCTAGACTAGAAATTTAGGGTGAGTAATCAAAAGCCCATTTAAAAGTAAATCTCACAAATGAT
47217501 CTTATTACAAACTAGAAATCCAAAATCAAAAATACGAATAAGCAATTCAATGTAGCAGTAGGAGC
196 CTTATTACAAACTAGAAATCCAAAATCAAAAATACGAATAAGCAATTCAATGTAGCAGTAGGAGC
47217566 AG
261 AG
*
47217568 TACTATTCCGATTAGGCCCTAATTCGAGTTGTCACATTGAAAATCTCTTTCAGTTGCGGAAGCTA
1 TACTATTCCGATTAGGCCCTAATTCGAGTTATCACATTGAAAATCTCTTTCAGTTGCGGAAGCTA
*
47217633 ATTTCAATTAAAGAAGTTTAAAACATATGTTTCTGAAAACAGTAATTGGTTTGAAAACTTCTCTT
66 ATTTCAATTAAAGAAGTTTAAAACATAAGTTTCTGAAAACAGTAATTGGTTTGAAAACTTCTCTT
*
47217698 TTCCTAGACTAGCAATTTAGGGTGAGTAATCAAAAGCCCATTTAAAAGTAAATCTCACAAATGAT
131 TTCCTAGACTAGAAATTTAGGGTGAGTAATCAAAAGCCCATTTAAAAGTAAATCTCACAAATGAT
47217763 CTTATTACAAACTAGAAATCCAAAATCAAAAATACGAATAAGCAATTCAATGTAGCAGTAGGAGC
196 CTTATTACAAACTAGAAATCCAAAATCAAAAATACGAATAAGCAATTCAATGTAGCAGTAGGAGC
47217828 AG
261 AG
47217830 T
1 T
47217831 CATGTGGCCA
Statistics
Matches: 257, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
262 257 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (262 bp):
TACTATTCCGATTAGGCCCTAATTCGAGTTATCACATTGAAAATCTCTTTCAGTTGCGGAAGCTA
ATTTCAATTAAAGAAGTTTAAAACATAAGTTTCTGAAAACAGTAATTGGTTTGAAAACTTCTCTT
TTCCTAGACTAGAAATTTAGGGTGAGTAATCAAAAGCCCATTTAAAAGTAAATCTCACAAATGAT
CTTATTACAAACTAGAAATCCAAAATCAAAAATACGAATAAGCAATTCAATGTAGCAGTAGGAGC
AG
Found at i:47218465 original size:22 final size:22
Alignment explanation
Indices: 47218380--47218466 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
47218370 GTAATATGAT
* *
47218380 TGGCATAGAGCCATGATCA-AGA
1 TGGCACAGAGCCATAATCAGA-A
* *
47218402 TGGCACAGAGCCATAATCGGGA
1 TGGCACAGAGCCATAATCAGAA
**
47218424 TGGCACAGAGCCATCTTCAGAA
1 TGGCACAGAGCCATAATCAGAA
* *
47218446 TTGCATAGAGCCATAATCAGA
1 TGGCACAGAGCCATAATCAGA
47218467 TCAAGTGGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.18
Consensus pattern (22 bp):
TGGCACAGAGCCATAATCAGAA
Found at i:47220403 original size:24 final size:24
Alignment explanation
Indices: 47220358--47220403 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
47220348 CTTAAAATCC
*
47220358 CTCCATGATTTCCTCCCCAATCTT
1 CTCCATGATTTCCTCCACAATCTT
* * *
47220382 CTCCTTGATTTTCTCCATAATC
1 CTCCATGATTTCCTCCACAATC
47220404 CATTCCTTGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.17, C:0.37, G:0.04, T:0.41
Consensus pattern (24 bp):
CTCCATGATTTCCTCCACAATCTT
Found at i:47222257 original size:32 final size:29
Alignment explanation
Indices: 47222239--47222305 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
47222229 ATGCAGTATG
47222239 ATCGGCACAGAGCCATCAGTCAGTAATATA
1 ATCGGCACAGAGCCATCAGT-AGTAATATA
*
47222269 ATCGGTACAGAGCCATCAGTAACGGTAATATA
1 ATCGGCACAGAGCCATCAGT-A--GTAATATA
47222301 ATCGG
1 ATCGG
47222306 TAAAGAGCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 20 0.61
32 13 0.39
ACGTcount: A:0.36, C:0.21, G:0.22, T:0.21
Consensus pattern (29 bp):
ATCGGCACAGAGCCATCAGTAGTAATATA
Found at i:47222279 original size:30 final size:31
Alignment explanation
Indices: 47222239--47222313 Score: 107
Period size: 32 Copynumber: 2.4 Consensus size: 31
47222229 ATGCAGTATG
*
47222239 ATCGGCACAGAGCCATCAGT-CAGTAATATA
1 ATCGGTACAGAGCCATCAGTACAGTAATATA
*
47222269 ATCGGTACAGAGCCATCAGTAACGGTAATATA
1 ATCGGTACAGAGCCATCAGT-ACAGTAATATA
*
47222301 ATCGGTAAAGAGC
1 ATCGGTACAGAGC
47222314 TATGATCAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 19 0.47
32 21 0.52
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (31 bp):
ATCGGTACAGAGCCATCAGTACAGTAATATA
Found at i:47222419 original size:43 final size:43
Alignment explanation
Indices: 47222371--47222496 Score: 180
Period size: 43 Copynumber: 2.9 Consensus size: 43
47222361 GCGTCAGTAG
* * * *
47222371 GTCCACAGTTGTCTCGCGCGACCCGTACGACCTTAATAGAATA
1 GTCCACAGTCGTCTCGTGCGACCCGTGCGACCTTAACAGAATA
*
47222414 GTCCACAGTCGTCTCGTGCGACCCGTGCAACCTTAACAGAATA
1 GTCCACAGTCGTCTCGTGCGACCCGTGCGACCTTAACAGAATA
* * *
47222457 GTCCACAGTCATCTCGTGCGATCCGTGTGACCTTAACAGA
1 GTCCACAGTCGTCTCGTGCGACCCGTGCGACCTTAACAGA
47222497 TCAATACTGG
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (43 bp):
GTCCACAGTCGTCTCGTGCGACCCGTGCGACCTTAACAGAATA
Found at i:47222811 original size:27 final size:28
Alignment explanation
Indices: 47222779--47222865 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 28
47222769 AAAAATAGTT
**
47222779 ATTTTACCTTACAG-GAGTATTTCGATA
1 ATTTTACCAAACAGAGAGTATTTCGATA
* *
47222806 ATTTTA-CAAACCGAGAGTATTTTGATA
1 ATTTTACCAAACAGAGAGTATTTCGATA
* * *
47222833 ATTTTA-CAAATC-GGGGGTACTTCGATA
1 ATTTTACCAAA-CAGAGAGTATTTCGATA
47222860 ATTTTA
1 ATTTTA
47222866 AAACTAGGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 4 0.08
27 45 0.90
28 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (28 bp):
ATTTTACCAAACAGAGAGTATTTCGATA
Found at i:47222893 original size:52 final size:54
Alignment explanation
Indices: 47222799--47222902 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 54
47222789 ACAGGAGTAT
47222799 TTCGATAATTTTACAAACCGAGAGTATTTTGATAATTTTACAAATCGGGGGTAC
1 TTCGATAATTTTACAAACCGAGAGTATTTTGATAATTTTACAAATCGGGGGTAC
* * *
47222853 TTCGATAATTTTA-AAA-CTAGGGTATTTTGGTAATTTTACAAATCGGGGGT
1 TTCGATAATTTTACAAACCGAGAGTATTTTGATAATTTTACAAATCGGGGGT
47222903 CTTAACGACC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
52 31 0.66
53 3 0.06
54 13 0.28
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
TTCGATAATTTTACAAACCGAGAGTATTTTGATAATTTTACAAATCGGGGGTAC
Found at i:47230980 original size:23 final size:22
Alignment explanation
Indices: 47230911--47231074 Score: 80
Period size: 23 Copynumber: 6.9 Consensus size: 22
47230901 GAGTCATGAT
*
47230911 CGGTAAGCTCCTCCTGAGCTGATGAA
1 CGGTAAGCT-CT-ATGAGCTGA--AA
* * *
47230937 CAGTAAGCTTTAATGATCTGAAA
1 CGGTAAGCTCT-ATGAGCTGAAA
47230960 CGGTAAGCTCTATCGAGCTGAATA
1 CGGTAAGCTCTAT-GAGCTGAA-A
* *
47230984 --GTAAGCTCATACGAGTTGAAA
1 CGGTAAGCTC-TATGAGCTGAAA
* * *
47231005 TGATAAGCTTTAATGAGCTGAAAA
1 CGGTAAGCTCT-ATGAGCTG-AAA
*
47231029 CAGTAAGCTCTTATGAGCTGATATA
1 CGGTAAGCTC-TATGAGCTGA-A-A
*
47231054 TCGGTAAGCTCATGTGAGCTG
1 -CGGTAAGCTC-TATGAGCTG
47231075 TGGTGAGTCC
Statistics
Matches: 106, Mismatches: 21, Indels: 22
0.71 0.14 0.15
Matches are distributed among these distances:
21 1 0.01
22 18 0.17
23 33 0.31
24 19 0.18
25 10 0.09
26 25 0.24
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (22 bp):
CGGTAAGCTCTATGAGCTGAAA
Found at i:47235632 original size:48 final size:48
Alignment explanation
Indices: 47235560--47235739 Score: 270
Period size: 48 Copynumber: 3.7 Consensus size: 48
47235550 CGAGATGAGA
*
47235560 GCCAGTGTAAGAATCATGTCTGGGACATGGCATCGGTGTTGATATGTGT
1 GCCAGTGTAAG-ACCATGTCTGGGACATGGCATCGGTGTTGATATGTGT
* *
47235609 GCCAGTATAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGT
* * * * *
47235657 GCCAGTGTAAGGCCTTGTCTAGGACATGGCATCGGTGATGATAGGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGT
*
47235705 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG
47235740 CACCGATATG
Statistics
Matches: 117, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
48 107 0.91
49 10 0.09
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.27
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGT
Found at i:47238389 original size:51 final size:49
Alignment explanation
Indices: 47238205--47238396 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 49
47238195 AGCCAAAGCT
* * *
47238205 ATCTGA-TACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAC
1 ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
* * * *
47238253 AATCCG-GTACACGTAGTAACCTGCACTTAGTACTACACACGTGAACTCACC
1 -ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTG-AC-CAAC
*
47238304 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC
1 ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA--C
*
47238355 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACACGTG
1 ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTG
47238397 TATTCACAAT
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
49 37 0.30
50 44 0.36
51 41 0.34
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
ATCTGAGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAC
Found at i:47249751 original size:48 final size:48
Alignment explanation
Indices: 47249630--47249807 Score: 257
Period size: 48 Copynumber: 3.7 Consensus size: 48
47249620 AATGAGATCC
* * * * * *
47249630 AGTGTAAGACCATGTTTGGGACATGGCATCAGCATTCGAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTT-GATATGTGTGCT
*
47249679 AGTGTAAGAATCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCT
1 AGTGTAAG-ACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCT
* *
47249728 AGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCT
47249776 AGTGTAAGACCATGTCTGGGACATGGCATCGG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG
47249808 GAACCGATAT
Statistics
Matches: 118, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
48 69 0.58
49 25 0.21
50 24 0.20
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGTGCT
Found at i:47253620 original size:43 final size:42
Alignment explanation
Indices: 47253570--47253691 Score: 113
Period size: 42 Copynumber: 2.8 Consensus size: 42
47253560 TCCCAGACGT
* *
47253570 GGTCTTACATGTAATCACATATCGATGTCACTGTCCCAGAAAG
1 GGTCTTACACGTAATCACATATCGATG-CAATGTCCCAGAAAG
* * *
47253613 GGTCTTACACG-AA-CTCATATACGATGCTAATGTCCCAGACAT
1 GGTCTTACACGTAATCACATAT-CGATGC-AATGTCCCAGAAAG
* * *
47253655 AGTCTTACACGTAAATCAAAAATCGATGCCAATGTCC
1 GGTCTTACACGT-AATCACATATCGATG-CAATGTCC
47253692 AAGATGTGGT
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
41 7 0.11
42 28 0.44
43 10 0.16
44 14 0.22
45 5 0.08
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAATCACATATCGATGCAATGTCCCAGAAAG
Found at i:47254849 original size:13 final size:13
Alignment explanation
Indices: 47254831--47254855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47254821 ACAAACAATA
47254831 AAATTTTCACACG
1 AAATTTTCACACG
47254844 AAATTTTCACAC
1 AAATTTTCACAC
47254856 ATATCAATTC
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:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:47257226 original size:64 final size:64
Alignment explanation
Indices: 47257148--47257278 Score: 262
Period size: 64 Copynumber: 2.0 Consensus size: 64
47257138 GCATATAGGC
47257148 AAAGTAAGCTTCACAACCCTTTCTCACATACTTCTGAGCTAACATCAAAGATATCACTGCCGGT
1 AAAGTAAGCTTCACAACCCTTTCTCACATACTTCTGAGCTAACATCAAAGATATCACTGCCGGT
47257212 AAAGTAAGCTTCACAACCCTTTCTCACATACTTCTGAGCTAACATCAAAGATATCACTGCCGGT
1 AAAGTAAGCTTCACAACCCTTTCTCACATACTTCTGAGCTAACATCAAAGATATCACTGCCGGT
47257276 AAA
1 AAA
47257279 CCATTCAAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 67 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.26
Consensus pattern (64 bp):
AAAGTAAGCTTCACAACCCTTTCTCACATACTTCTGAGCTAACATCAAAGATATCACTGCCGGT
Found at i:47267142 original size:26 final size:26
Alignment explanation
Indices: 47267113--47267178 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
47267103 GTTCGCAACT
*
47267113 CAACAGCGAACCCCAGCTTACTAAAC
1 CAACAGCGAACCCCAGCTTACCAAAC
* * *
47267139 CAACAGCGAACACTAGCTTGCCAAAC
1 CAACAGCGAACCCCAGCTTACCAAAC
*
47267165 CAACTGGCGAACCC
1 CAAC-AGCGAACCC
47267179 AACTTGCAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 26 0.79
27 7 0.21
ACGTcount: A:0.36, C:0.38, G:0.15, T:0.11
Consensus pattern (26 bp):
CAACAGCGAACCCCAGCTTACCAAAC
Found at i:47270700 original size:51 final size:51
Alignment explanation
Indices: 47270637--47270771 Score: 254
Period size: 51 Copynumber: 2.7 Consensus size: 51
47270627 AATTTTAATG
*
47270637 ATGCAAACTTTAACTAACATGGGAGTTACATAATCCATATCATAATTTATT
1 ATGCAAACTTTAACTAACATGAGAGTTACATAATCCATATCATAATTTATT
47270688 ATGCAAACTTTAACTAACATGAGAGTTACATAATCCATATCATAATTTATT
1 ATGCAAACTTTAACTAACATGAGAGTTACATAATCCATATCATAATTTATT
47270739 ATGCAAAC-TTAACTAACATGAGAGTTACATAAT
1 ATGCAAACTTTAACTAACATGAGAGTTACATAAT
47270772 GCATGACTTT
Statistics
Matches: 83, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
50 25 0.30
51 58 0.70
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (51 bp):
ATGCAAACTTTAACTAACATGAGAGTTACATAATCCATATCATAATTTATT
Found at i:47272782 original size:15 final size:15
Alignment explanation
Indices: 47272762--47272790 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
47272752 TTTCTTGCTT
47272762 GCATTCTTTTTCTTC
1 GCATTCTTTTTCTTC
47272777 GCATTCTTTTTCTT
1 GCATTCTTTTTCTT
47272791 TCTTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.24, G:0.07, T:0.62
Consensus pattern (15 bp):
GCATTCTTTTTCTTC
Found at i:47280512 original size:42 final size:41
Alignment explanation
Indices: 47280423--47280513 Score: 94
Period size: 42 Copynumber: 2.2 Consensus size: 41
47280413 TGTTTGGGAC
* * *
47280423 ATGGCATCGATACGAAATTCATGTGAGACCATAGTTAGGCT
1 ATGGCATCGATACGAAATTCATGTAAGACCATAGTCAGGAT
* * *
47280464 ATTGGCATCGATATGAGATTACATGTAAGACTATA-TCCAGGAT
1 A-TGGCATCGATACGAAATT-CATGTAAGACCATAGT-CAGGAT
47280507 ATGGCAT
1 ATGGCAT
47280514 TGTACGACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
41 1 0.02
42 23 0.56
43 17 0.41
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (41 bp):
ATGGCATCGATACGAAATTCATGTAAGACCATAGTCAGGAT
Found at i:47281473 original size:24 final size:24
Alignment explanation
Indices: 47281446--47281491 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
47281436 ATGGTATAGG
47281446 GATGATGAATTGGTACATTTTGAT
1 GATGATGAATTGGTACATTTTGAT
*
47281470 GATGATGAATTGGTATATTTTG
1 GATGATGAATTGGTACATTTTG
47281492 TGGCATGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.43
Consensus pattern (24 bp):
GATGATGAATTGGTACATTTTGAT
Found at i:47293766 original size:16 final size:15
Alignment explanation
Indices: 47293744--47293798 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 15
47293734 GAAATTTTAT
47293744 ATTTTCTATCTTTCA
1 ATTTTCTATCTTTCA
47293759 ACTTTTCTATCCCTTT-A
1 A-TTTTCTAT--CTTTCA
47293776 ATTTT-TCATCTTTCCA
1 ATTTTCT-ATCTTT-CA
47293792 ATTTTCT
1 ATTTTCT
47293799 TTCTACTCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
14 4 0.12
15 2 0.06
16 20 0.61
17 3 0.09
18 4 0.12
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTTTCTATCTTTCA
Found at i:47299114 original size:20 final size:20
Alignment explanation
Indices: 47299089--47299126 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
47299079 AAAGATGCGT
47299089 AACAGAGACACCGAAGTGCA
1 AACAGAGACACCGAAGTGCA
*
47299109 AACAGAGGCACCGAAGTG
1 AACAGAGACACCGAAGTG
47299127 TGCAATCCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.24, G:0.29, T:0.05
Consensus pattern (20 bp):
AACAGAGACACCGAAGTGCA
Found at i:47303155 original size:6 final size:6
Alignment explanation
Indices: 47303139--47303176 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
47303129 AACTCATAAT
47303139 CCAACAA CCAAAA CCAAAA CCAAAA CCAAAA CCTAAAA
1 CCAA-AA CCAAAA CCAAAA CCAAAA CCAAAA CC-AAAA
47303177 TGTAAAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 22 0.73
7 8 0.27
ACGTcount: A:0.63, C:0.34, G:0.00, T:0.03
Consensus pattern (6 bp):
CCAAAA
Found at i:47304112 original size:102 final size:101
Alignment explanation
Indices: 47303988--47304191 Score: 363
Period size: 102 Copynumber: 2.0 Consensus size: 101
47303978 ATAGAATTTG
*
47303988 AGATTTAATCCTATACTTTAAAAGTTAAAAATACTGTCTTCTTACTTTTTCAATTTAAAAATCAT
1 AGATTTAATCCTATACTTTAAAAGTTAAAAATACTATCTTCTTACTTTTTCAATTTAAAAATCAT
47304053 TCTTAAATCATTATAATTGTTGATAGTTTCTGAAAA
66 TCTTAAATCATTATAATTGTTGATAGTTTCTGAAAA
47304089 AGATTTAATCCCTATACTTTAAAAGTTAAAAATACTATCTTCTTACTTTTTCAATTTAAAAATCA
1 AGATTTAAT-CCTATACTTTAAAAGTTAAAAATACTATCTTCTTACTTTTTCAATTTAAAAATCA
* * *
47304154 TTGTTCAATCATTATAATTGTTGATAGTTTTTGAAAA
65 TTCTTAAATCATTATAATTGTTGATAGTTTCTGAAAA
47304191 A
1 A
47304192 AATTGTCAAC
Statistics
Matches: 98, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 9 0.09
102 89 0.91
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.44
Consensus pattern (101 bp):
AGATTTAATCCTATACTTTAAAAGTTAAAAATACTATCTTCTTACTTTTTCAATTTAAAAATCAT
TCTTAAATCATTATAATTGTTGATAGTTTCTGAAAA
Found at i:47311064 original size:29 final size:29
Alignment explanation
Indices: 47311031--47311089 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
47311021 TGAAACATAG
*
47311031 TTTTCTTAAGATAAATTCCGCTGCTCCTA
1 TTTTCTTAAGATAAATTCCGCCGCTCCTA
*
47311060 TTTTCTTAAGATAAATTCGGCCGCTCCTA
1 TTTTCTTAAGATAAATTCCGCCGCTCCTA
47311089 T
1 T
47311090 GGTAGTTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (29 bp):
TTTTCTTAAGATAAATTCCGCCGCTCCTA
Found at i:47312614 original size:145 final size:145
Alignment explanation
Indices: 47312379--47312641 Score: 377
Period size: 145 Copynumber: 1.8 Consensus size: 145
47312369 TAAGGTTAAG
* * * *
47312379 TATCATTAATATAAAAATGTACTTTATAATATCATAATTGTATATGGGTTGCATATAATTAATAA
1 TATCATTAATATAAAAATGTACTTTATAATAACATAATTATATATGGATTACATATAATTAATAA
* * *
47312444 CCTACTTTAAGAATATCATGTTAATTGTATATATTAT-ATCTACCATAAAATTAGTTACAAGGGT
66 CCTACCTTAAGAATATAATGCTAATTGTATATATTATAATCTACCATAAAATTAGTTACAAGGGT
47312508 AGGGTTTAACTCACA
131 AGGGTTTAACTCACA
* *
47312523 TATCATTAATATAAAAATGTACATTT-TAATAACATAGTTATATATAGGATTACATATCATTAAT
1 TATCATTAATATAAAAATGTAC-TTTATAATAACATAATTATATAT-GGATTACATATAATTAAT
* ** *
47312587 AATCTACCTTAATTATATAATGCTAATTGTATATATTATAATTTACCATAAAATT
64 AACCTACCTTAAGAATATAATGCTAATTGTATATATTATAATCTACCATAAAATT
47312642 TATGGCACCC
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
144 38 0.37
145 51 0.50
146 14 0.14
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.40
Consensus pattern (145 bp):
TATCATTAATATAAAAATGTACTTTATAATAACATAATTATATATGGATTACATATAATTAATAA
CCTACCTTAAGAATATAATGCTAATTGTATATATTATAATCTACCATAAAATTAGTTACAAGGGT
AGGGTTTAACTCACA
Found at i:47314043 original size:27 final size:27
Alignment explanation
Indices: 47314013--47314190 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47314003 ATATTGAGTC
* * * *
47314013 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
47314040 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47314067 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
47314095 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
47314122 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
47314149 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47314176 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47314191 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:47314152 original size:82 final size:81
Alignment explanation
Indices: 47314034--47314189 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47314024 TGCTATATAA
* *
47314034 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
47314099 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
47314116 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
47314180 CACTTAGTGC
65 CACTTAGTGC
47314190 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47321084 original size:141 final size:142
Alignment explanation
Indices: 47320829--47321109 Score: 546
Period size: 141 Copynumber: 2.0 Consensus size: 142
47320819 TCTGATACCA
47320829 ATCAAATGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAGGTGTTAAACTGACTT
1 ATCAAATGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAGGTGTTAAACTGACTT
47320894 TAACCCCTTATAAAATTTATTTTCCAGACACTGCCCAATCTGTGTACTAGTCATTTTAAAAATCA
66 TAACCCCTTATAAAATTTATTTTCCAGACACTGCCCAATCTGTGTACTAGTCATTTTAAAAATCA
47320959 TATCTTGAGTCC
131 TATCTTGAGTCC
47320971 ATCAAATGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAGGTGTT-AACTGACTT
1 ATCAAATGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAGGTGTTAAACTGACTT
*
47321035 TAACCCCTTATAAAATTTATTTTCCAGACACTGCCCAATCTGTGTACTAGTCGTTTTAAAAATCA
66 TAACCCCTTATAAAATTTATTTTCCAGACACTGCCCAATCTGTGTACTAGTCATTTTAAAAATCA
47321100 TATCTTGAGT
131 TATCTTGAGT
47321110 TTCGTAACTC
Statistics
Matches: 138, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
141 83 0.60
142 55 0.40
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (142 bp):
ATCAAATGTAACACCCCGAACCCGAAACCGACACCGGAGTCGAACACGAGGTGTTAAACTGACTT
TAACCCCTTATAAAATTTATTTTCCAGACACTGCCCAATCTGTGTACTAGTCATTTTAAAAATCA
TATCTTGAGTCC
Found at i:47322356 original size:27 final size:27
Alignment explanation
Indices: 47322326--47322503 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
47322316 ATATTGAGTC
* * * *
47322326 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
47322353 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47322380 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
47322408 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
47322435 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
47322462 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
47322489 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47322504 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:47322465 original size:82 final size:81
Alignment explanation
Indices: 47322347--47322502 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
47322337 TGCTATATAA
* *
47322347 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
47322412 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
47322429 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
47322493 CACTTAGTGC
65 CACTTAGTGC
47322503 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:47334214 original size:13 final size:13
Alignment explanation
Indices: 47334198--47334229 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
47334188 ACAGCTGAGA
47334198 CACACGGCCATAG
1 CACACGGCCATAG
47334211 CACACGGCCATAG
1 CACACGGCCATAG
47334224 CACACG
1 CACACG
47334230 CCCGTGTGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.41, G:0.22, T:0.06
Consensus pattern (13 bp):
CACACGGCCATAG
Found at i:47335185 original size:47 final size:47
Alignment explanation
Indices: 47335111--47335295 Score: 142
Period size: 47 Copynumber: 3.9 Consensus size: 47
47335101 GGGGTAAGGT
* ** * *
47335111 GCCGATGCTATGTCCTGGACATAGTCTTACACTGGCTCACATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA
* * * * *
47335158 GTCGATGCCATGTCCCAGACATGGTCTTACAGT-GATTATCATTATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CA-TATC-AA
* * * * * * * *
47335207 GCCGATG-CGTGTCCCAAACA-CGTCTTACTCTCGCACTCGTATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA
*
47335252 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA
47335296 ATGTGGCCGA
Statistics
Matches: 102, Mismatches: 29, Indels: 13
0.71 0.20 0.09
Matches are distributed among these distances:
45 1 0.01
46 14 0.14
47 49 0.48
48 31 0.30
49 7 0.07
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAA
Found at i:47335715 original size:30 final size:29
Alignment explanation
Indices: 47335681--47335740 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
47335671 CATCTTTGGT
*
47335681 AAAATGACCATTTTGCCCCTATACTTTGAC
1 AAAATGACCATTTTACCCCTATAC-TTGAC
47335711 AAAATGACCATTTTACCCCTATACTTGAC
1 AAAATGACCATTTTACCCCTATACTTGAC
47335740 A
1 A
47335741 TTCGATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 6 0.21
30 23 0.79
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.32
Consensus pattern (29 bp):
AAAATGACCATTTTACCCCTATACTTGAC
Found at i:47337839 original size:48 final size:46
Alignment explanation
Indices: 47337763--47337984 Score: 232
Period size: 45 Copynumber: 4.8 Consensus size: 46
47337753 TGAATTATCA
* * * * **
47337763 ATGCTATGTCCTAGACATGGTCTTACACTGGCTCATATGTCGAGGCCG
1 ATGCCATGTCC-A-ACATGGTCTTACACTGGCTCACATATCAACACCG
* ** * *
47337811 ATGCCATGTCCCAAACATGGTCTTACACTAGCTTTCATCTCAATACCG
1 ATGCCATGT-CC-AACATGGTCTTACACTGGCTCACATATCAACACCG
* * ** * * *
47337859 AGGCCATGTCTAACATGGTCTTATGCTGTCTCACA-ATCAACGCTG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAACACCG
47337904 ATGCCATGTCCAACATGGTCTTACACTGGCTCACA-ATCAACACCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAACACCG
47337949 ATGCCATGTCCAACATGGTCTTACACTGGCTCACAT
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCACAT
47337985 GTCACCCAAA
Statistics
Matches: 143, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
45 79 0.55
46 18 0.13
47 1 0.01
48 42 0.29
49 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCACATATCAACACCG
Found at i:47344386 original size:48 final size:48
Alignment explanation
Indices: 47344312--47344450 Score: 165
Period size: 48 Copynumber: 2.9 Consensus size: 48
47344302 GGGTGAATTA
* *
47344312 CCGATGCCATGTCCCAGACATCGTCTTACACTGGCTCACATGTCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGG
* ** * *
47344360 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATCTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGG
* * * *
47344408 CTGAGGCCATGT-CCA-ACATGGTCTTACACTGGTTCATATGTCA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCA
47344451 CCCAAATGTC
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
46 22 0.29
47 3 0.04
48 51 0.67
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATGTCAAGG
Found at i:47344691 original size:19 final size:19
Alignment explanation
Indices: 47344667--47344704 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47344657 CACATAATTG
*
47344667 TTATTAGCATTTGGCATCA
1 TTATTAACATTTGGCATCA
47344686 TTATTAACATTTGGCATCA
1 TTATTAACATTTGGCATCA
47344705 CTTTCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (19 bp):
TTATTAACATTTGGCATCA
Found at i:47347550 original size:16 final size:16
Alignment explanation
Indices: 47347529--47347562 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47347519 ACTGTATTAA
47347529 ATCACCATACAATAAG
1 ATCACCATACAATAAG
* *
47347545 ATCACCGTACACTAAG
1 ATCACCATACAATAAG
47347561 AT
1 AT
47347563 AGTTTATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.26, G:0.09, T:0.21
Consensus pattern (16 bp):
ATCACCATACAATAAG
Found at i:47347737 original size:21 final size:20
Alignment explanation
Indices: 47347713--47347764 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
47347703 TTATGCCACA
47347713 TTAGTATTCTTATCCTAAATT
1 TTAGTATT-TTATCCTAAATT
* *
47347734 TTAGGATTTTATCCTGAATT
1 TTAGTATTTTATCCTAAATT
47347754 TTAGTATTTTA
1 TTAGTATTTTA
47347765 ATTTGAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.54
Consensus pattern (20 bp):
TTAGTATTTTATCCTAAATT
Done.