Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 157 of 182
Found at i:48379285 original size:28 final size:27
Alignment explanation
Indices: 48379254--48379306 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
48379244 ATATAAGTGA
48379254 ATTAAAAAAATATTATAAAATAAAAATC
1 ATTAAAAAAAT-TTATAAAATAAAAATC
* * *
48379282 ATTAAAAATATTTATTATATAAAAA
1 ATTAAAAAAATTTATAAAATAAAAA
48379307 AATAAAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (27 bp):
ATTAAAAAAATTTATAAAATAAAAATC
Found at i:48379340 original size:23 final size:24
Alignment explanation
Indices: 48379310--48379359 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 24
48379300 ATAAAAAAAT
*
48379310 AAAGTAATACATTATAA-AAT-TA
1 AAAGTAATACATGATAATAATATA
*
48379332 AAAGATAATATATGATAATAATATA
1 AAAG-TAATACATGATAATAATATA
48379357 AAA
1 AAA
48379360 CTTAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 11 0.48
24 3 0.13
25 5 0.22
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (24 bp):
AAAGTAATACATGATAATAATATA
Found at i:48379380 original size:30 final size:33
Alignment explanation
Indices: 48379322--48379391 Score: 89
Period size: 30 Copynumber: 2.3 Consensus size: 33
48379312 AGTAATACAT
48379322 TATAAAA-TTAAAAGATAATATATGATAATA-A
1 TATAAAACTTAAAAGATAATATATGATAATAGA
48379353 TATAAAACTT-AAA-ATAATAGTAT-ATAATAGA
1 TATAAAACTTAAAAGATAATA-TATGATAATAGA
48379384 -ATAAAACT
1 TATAAAACT
48379392 ATGTATATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
30 20 0.56
31 14 0.39
32 2 0.06
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (33 bp):
TATAAAACTTAAAAGATAATATATGATAATAGA
Found at i:48379448 original size:12 final size:11
Alignment explanation
Indices: 48379425--48379485 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 11
48379415 ATATATAAAC
*
48379425 TAATATAGTAA
1 TAATATAATAA
48379436 TAATATCAATAA
1 TAATAT-AATAA
48379448 T-A-ATAATAA
1 TAATATAATAA
*
48379457 TATTAGTAATAA
1 TAATA-TAATAA
48379469 TAATGATAATAA
1 TAAT-ATAATAA
48379481 TAATA
1 TAATA
48379486 AATTAATTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
9 6 0.14
10 2 0.05
11 9 0.21
12 24 0.57
13 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (11 bp):
TAATATAATAA
Found at i:48379449 original size:3 final size:3
Alignment explanation
Indices: 48379433--48379486 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
48379423 ACTAATATAG
* * *
48379433 TAA TAA T-A TCAA TAA TAA TAA TAA TAT TAG TAA TAA TAA TGA TAA
1 TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
48379478 TAA TAA TAA
1 TAA TAA TAA
48379487 ATTAATTGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:48381109 original size:143 final size:143
Alignment explanation
Indices: 48380825--48381742 Score: 1198
Period size: 143 Copynumber: 6.4 Consensus size: 143
48380815 ATCCACTCTA
** * * *
48380825 CTGCAACTTCAGATAGATTAGGATGG-GGCTTCAATCTGCTCCATTGCAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * * * *
48380889 ATTCGCCATAACTTGTAGCTTTAATCTGTTTCACTGCAACACCAGGGAAATAAGATTTGCCGTCT
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
48380954 TCAGTCTGCTCCG
131 TCAGTCTGCTCCG
* * *
48380967 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTCCTCCACTGTAACTTCAGGAATATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * *
48381032 ATCCACCATAATTTGTAGCTTTAATCTGTCCCACTGCAATGCCAGGGAAATAAGATTCGCTATCT
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
* *
48381097 TCACTCTACTCCG
131 TCAGTCTGCTCCG
* *
48381110 CTGCAACTTCAGGGAGATAAGTCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * * *
48381175 ATTCACCATAACTTGTAGCTTTAATCTGTTCCACTGCAACGCGAGGGAAATAAGATTCGTTGTCT
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
48381240 TCAGTCTGCTCCG
131 TCAGTCTGCTCCG
* *
48381253 CTGCAATTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAT
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* ** * * * * *
48381318 ATTCGCCATAATTTGTAGCTTTAATCTACTCCACTACAATGCCAAGGAAATAAAATCCGCTGTCT
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
*
48381383 TCAGTCTACTCCG
131 TCAGTCTGCTCCG
* * * **
48381396 TTGCAACTTCAGGGAGATAAGGCTGATGGCTTCAATATGCTCCACCACAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * **
48381461 ATCCGCCATAATTTGTAACTTTAATCTGTTCCACTGCAACGCTAGGGAAATAAGATTCATTGTCT
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
* *
48381526 CCAGTCTGCTCTG
131 TCAGTCTGCTCCG
* ** *
48381539 CTACAACTTCAGGGAGATAAGGCTAATGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAG
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
* * * *
48381604 ATCTGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACACTAGGGAAATAAGATTCGAC-ATC
66 ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCG-CTGTC
* *
48381668 TTCAATCTGCTCCA
130 TTCAGTCTGCTCCG
* * ** * *
48381682 CTGCAACTTCAAGGAGATAAGACT--T-GCTTCAATCCACCCCCACTGCAACTTCAAGAAGATA
1 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT-CTGCTCCACTGCAACTTCAGGAAGATA
48381743 GGAATTATGT
Statistics
Matches: 676, Mismatches: 97, Indels: 7
0.87 0.12 0.01
Matches are distributed among these distances:
140 8 0.01
141 23 0.03
142 22 0.03
143 623 0.92
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (143 bp):
CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
ATCCGCCATAATTTGTAGCTTTAATCTGTTCCACTGCAACGCCAGGGAAATAAGATTCGCTGTCT
TCAGTCTGCTCCG
Found at i:48381160 original size:44 final size:45
Alignment explanation
Indices: 48380906--48381316 Score: 172
Period size: 44 Copynumber: 8.8 Consensus size: 45
48380896 ATAACTTGTA
* * * ** * * **
48380906 GCTTTAATCTGTTTCACTGCAACACCAGGGAAATAAGATTTGCCG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTG
* * * *
48380951 TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAG-GCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTG
* * * * * *
48380995 GCTTCAATCTCCTCCACTGTAACTTCAGGAATATAAGATCCACCATAATTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT----C-----TGGTG
* * * * *
48381049 GCTTTAATCTG-TCCCACTGCAA-TGCCAGGGAAATAAGAT-TCGCTA
1 GCTTCAATCTGCT-CCACTGCAACT-TCAGGGAGATAAGATCT-GGTG
* * * *
48381094 TCTTCACTCTACTCCGCTGCAACTTCAGGGAGATAAG-TCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTG
* * * *
48381138 GCTTCAATCTGCTCCACTGCAACTTCAAGAAGATAAGATTCACCATAACTTGTA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG-------AT--CTGGTG
* * * * *
48381192 GCTTTAATCTGTTCCACTGCAAC-GCGAGGGAAATAAGAT-TCGTTG
1 GCTTCAATCTGCTCCACTGCAACTTC-AGGGAGATAAGATCT-GGTG
* * * * *
48381237 TCTTCAGTCTGCTCCGCTGCAATTTCAGGGAGATAAG-GCTGGTG
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTG
*
48381281 GCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
1 GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
48381317 TATTCGCCAT
Statistics
Matches: 264, Mismatches: 72, Indels: 61
0.66 0.18 0.15
Matches are distributed among these distances:
44 103 0.39
45 86 0.33
46 3 0.01
47 2 0.01
49 1 0.00
52 1 0.00
53 3 0.01
54 65 0.25
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (45 bp):
GCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGGTG
Found at i:48383028 original size:14 final size:14
Alignment explanation
Indices: 48383001--48383044 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
48382991 TGGCCTCTCC
*
48383001 ATTTTTACATTTTTT
1 ATTTTTTCA-TTTTT
48383016 ATTTTTTCATTTTT
1 ATTTTTTCATTTTT
*
48383030 ATTTTTTTATTTTT
1 ATTTTTTCATTTTT
48383044 A
1 A
48383045 CGACTGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 19 0.70
15 8 0.30
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (14 bp):
ATTTTTTCATTTTT
Found at i:48383036 original size:15 final size:16
Alignment explanation
Indices: 48383001--48383044 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
48382991 TGGCCTCTCC
*
48383001 ATTTTTACATTTTT-T
1 ATTTTTTCATTTTTAT
48383016 ATTTTTTCATTTTTAT
1 ATTTTTTCATTTTTAT
48383032 -TTTTTT-ATTTTTA
1 ATTTTTTCATTTTTA
48383045 CGACTGAAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 7 0.26
15 19 0.70
16 1 0.04
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTTTTCATTTTTAT
Found at i:48383110 original size:50 final size:51
Alignment explanation
Indices: 48383033--48383149 Score: 155
Period size: 50 Copynumber: 2.3 Consensus size: 51
48383023 CATTTTTATT
* *
48383033 TTTTTATTTTTACGACTGAAAGCGCCCTTTGCGAGTTTTCACCTTGGT-TTC
1 TTTTT-TTTTTAGGACTCAAAGCGCCCTTTGCGAGTTTTCACCTTGGTCTTC
* *
48383084 TTTTTTTTTTAGGACTCAAGGTGCCCTTTGCGAGTTTTCACCTTGGTCCCTTC
1 TTTTTTTTTTAGGACTCAAAGCGCCCTTTGCGAGTTTTCACCTTGGT--CTTC
*
48383137 TTATTTTTTTAGG
1 TTTTTTTTTTAGG
48383150 CAAAGTCTTT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
50 38 0.66
51 5 0.09
53 15 0.26
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.48
Consensus pattern (51 bp):
TTTTTTTTTTAGGACTCAAAGCGCCCTTTGCGAGTTTTCACCTTGGTCTTC
Found at i:48384108 original size:14 final size:14
Alignment explanation
Indices: 48384091--48384122 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
48384081 TTGAAATATT
*
48384091 TTTTGATTTTTTTA
1 TTTTGATTTTTATA
48384105 TTTTGATTTTTATA
1 TTTTGATTTTTATA
48384119 TTTT
1 TTTT
48384123 TTTTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (14 bp):
TTTTGATTTTTATA
Found at i:48384114 original size:20 final size:20
Alignment explanation
Indices: 48384091--48384130 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48384081 TTGAAATATT
48384091 TTTTGAT-TTTTTTATTTTGA
1 TTTTGATATTTTTT-TTTTGA
*
48384111 TTTTTATATTTTTTTTTTGA
1 TTTTGATATTTTTTTTTTGA
48384131 AAATCATAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (20 bp):
TTTTGATATTTTTTTTTTGA
Found at i:48386428 original size:16 final size:16
Alignment explanation
Indices: 48386386--48386428 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
48386376 ATGAGCATGT
*
48386386 CATGCAGTCAAGATGT
1 CATGCAGTCAAGATGC
* *
48386402 CGTACAGTCAAGATGC
1 CATGCAGTCAAGATGC
*
48386418 CATGCAATCAA
1 CATGCAGTCAA
48386429 AACGAAACAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (16 bp):
CATGCAGTCAAGATGC
Found at i:48388495 original size:23 final size:21
Alignment explanation
Indices: 48388449--48388499 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
48388439 AAAATATTTT
*
48388449 AATATAAATTGTATATACATA
1 AATATAAATAGTATATACATA
48388470 AATATGAAATAGTATTATATCA-A
1 AATAT-AAATAGTA-TATA-CATA
48388493 AATATAA
1 AATATAA
48388500 TTGTATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 5 0.19
22 9 0.35
23 10 0.38
24 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (21 bp):
AATATAAATAGTATATACATA
Found at i:48391477 original size:24 final size:23
Alignment explanation
Indices: 48391421--48391477 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 23
48391411 AAGAACTTTT
48391421 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
*
48391444 ATTTACTATTAAAATATTTAAAACA-A
1 ATTT--TATTAAAA-ATATAAAA-ATA
48391470 ATTTTATT
1 ATTTTATT
48391478 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 8 0.28
26 12 0.41
27 1 0.03
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:48391572 original size:21 final size:21
Alignment explanation
Indices: 48391546--48391615 Score: 122
Period size: 21 Copynumber: 3.3 Consensus size: 21
48391536 GTGGTTCAGC
*
48391546 TTCCGGTGAGGGTTATGGTTG
1 TTCCGGTGAGGGTTGTGGTTG
*
48391567 CTCCGGTGAGGGTTGTGGTTG
1 TTCCGGTGAGGGTTGTGGTTG
48391588 TTCCGGTGAGGGTTGTGGTTG
1 TTCCGGTGAGGGTTGTGGTTG
48391609 TTCCGGT
1 TTCCGGT
48391616 TGTGGGTGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 46 1.00
ACGTcount: A:0.06, C:0.13, G:0.44, T:0.37
Consensus pattern (21 bp):
TTCCGGTGAGGGTTGTGGTTG
Found at i:48392730 original size:13 final size:13
Alignment explanation
Indices: 48392692--48392724 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
48392682 AGGCATAGAC
48392692 TACCTTTGTAACA
1 TACCTTTGTAACA
48392705 TACCTTTGTAACA
1 TACCTTTGTAACA
48392718 TACCTTT
1 TACCTTT
48392725 CGAACAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.42
Consensus pattern (13 bp):
TACCTTTGTAACA
Found at i:48393941 original size:18 final size:18
Alignment explanation
Indices: 48393918--48393953 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
48393908 GGAAAAGTAA
*
48393918 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
48393936 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
48393954 GCGTACCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.28, T:0.25
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:48396369 original size:22 final size:22
Alignment explanation
Indices: 48396325--48396387 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
48396315 CTCACTCACG
*
48396325 TATTTTTACTTTTCATTTATTT
1 TATTTTTTCTTTTCATTTATTT
*
48396347 TATTTTTTCTTTTC-TTCTCTTT
1 TATTTTTTCTTTTCATT-TATTT
* *
48396369 TCTTTCTTTTTTTTCATTT
1 TATTT-TTTCTTTTCATTT
48396388 TGAATTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 2 0.06
22 21 0.62
23 9 0.26
24 2 0.06
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (22 bp):
TATTTTTTCTTTTCATTTATTT
Found at i:48402677 original size:11 final size:12
Alignment explanation
Indices: 48402663--48402692 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48402653 TTTAGGCTTA
48402663 GTTTTCT-CTAG
1 GTTTTCTCCTAG
48402674 GTTTTCTCCTAG
1 GTTTTCTCCTAG
48402686 GTTTTCT
1 GTTTTCT
48402693 TCCTCTTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.07, C:0.20, G:0.17, T:0.57
Consensus pattern (12 bp):
GTTTTCTCCTAG
Found at i:48403407 original size:20 final size:19
Alignment explanation
Indices: 48403382--48403421 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
48403372 TTCTTTAAAA
48403382 TAAAAATGAATGTCAAATTT
1 TAAAAATGAATGTC-AATTT
**
48403402 TAAAAATTTATGTCAATTT
1 TAAAAATGAATGTCAATTT
48403421 T
1 T
48403422 TGGGGGGGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (19 bp):
TAAAAATGAATGTCAATTT
Found at i:48406041 original size:21 final size:22
Alignment explanation
Indices: 48406002--48406059 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
48405992 CTCAAAAGTA
* * * *
48406002 AATAATTTTAATATCTAGATAT
1 AATATTTTTTATATCTAGAAAG
*
48406024 TATATTTTTTATAT-TAGAAAG
1 AATATTTTTTATATCTAGAAAG
48406045 AATATTGTTTTATAT
1 AATATT-TTTTATAT
48406060 ACTTATAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 10 0.34
22 19 0.66
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.52
Consensus pattern (22 bp):
AATATTTTTTATATCTAGAAAG
Found at i:48411529 original size:15 final size:17
Alignment explanation
Indices: 48411506--48411548 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
48411496 TAACCATAAT
48411506 TAATATATTAAT-AAATA
1 TAAT-TATTAATAAAATA
48411523 -AATTATTAAATAAAATA
1 TAATTATT-AATAAAATA
48411540 TAATTATTA
1 TAATTATTA
48411549 TAATTTTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.17
16 6 0.26
17 6 0.26
18 7 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATTATTAATAAAATA
Found at i:48416081 original size:16 final size:15
Alignment explanation
Indices: 48416056--48416085 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
48416046 TCGTACTTTC
48416056 ATAGATATTAATTAT
1 ATAGATATTAATTAT
48416071 ATAGCATATTAATTA
1 ATAG-ATATTAATTA
48416086 GTTAGAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (15 bp):
ATAGATATTAATTAT
Found at i:48416095 original size:16 final size:16
Alignment explanation
Indices: 48416056--48416096 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
48416046 TCGTACTTTC
48416056 ATAG-ATATTAATTAT
1 ATAGAATATTAATTAT
*
48416071 ATAGCATATTAATTAGT
1 ATAGAATATTAATTA-T
48416088 -TAGAATATT
1 ATAGAATATT
48416097 TATAGATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 18 0.78
17 1 0.04
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (16 bp):
ATAGAATATTAATTAT
Found at i:48416449 original size:22 final size:22
Alignment explanation
Indices: 48416424--48416468 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
48416414 CTCTAATTTA
*
48416424 TTAGCACATCGGTGCTCTCTGT
1 TTAGCACATCGGAGCTCTCTGT
*
48416446 TTAGCACATTGGAGCTCTCTGT
1 TTAGCACATCGGAGCTCTCTGT
48416468 T
1 T
48416469 CTATTAGTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (22 bp):
TTAGCACATCGGAGCTCTCTGT
Found at i:48417773 original size:35 final size:35
Alignment explanation
Indices: 48417734--48417905 Score: 158
Period size: 35 Copynumber: 4.9 Consensus size: 35
48417724 CATGATCCGA
* * *
48417734 TTGAAACACGAGATTTTTTTTAAAACACGAGAATT
1 TTGAAACACGAGATATTTTTGAAAACACGAAAATT
*
48417769 TTGAAACACGATAATAATTTTTGAAAACACGAAAATT
1 TTGAAACACGA-GAT-ATTTTTGAAAACACGAAAATT
* *
48417806 TGTGAAACACGGGA-ATTGTTGAAAACACGAAAATT
1 T-TGAAACACGAGATATTTTTGAAAACACGAAAATT
* *
48417841 TTAGAAACACCGA-A-A-TTTTGTAAAACACTAAGATTT
1 TT-GAAACA-CGAGATATTTTTG-AAAACACGAA-AATT
*
48417877 TTGAAACACGA-AGATTTTTG-AAACACGAA
1 TTGAAACACGAGATATTTTTGAAAACACGAA
48417906 TTTTATTTTT
Statistics
Matches: 116, Mismatches: 12, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
34 17 0.15
35 56 0.48
36 14 0.12
37 20 0.17
38 9 0.08
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.28
Consensus pattern (35 bp):
TTGAAACACGAGATATTTTTGAAAACACGAAAATT
Found at i:48417787 original size:19 final size:16
Alignment explanation
Indices: 48417751--48417905 Score: 114
Period size: 17 Copynumber: 8.9 Consensus size: 16
48417741 ACGAGATTTT
* *
48417751 TTTTAAAACACGAGAA
1 TTTTGAAACACGAAAA
48417767 TTTTGAAACACGATAATAA
1 TTTTGAAACACG--AA-AA
48417786 TTTTTGAAAACACGAAAA
1 -TTTTG-AAACACGAAAA
**
48417804 TTTGTGAAACACGGGAA
1 TTT-TGAAACACGAAAA
48417821 TTGTTGAAAACACGAAAA
1 TT-TTG-AAACACGAAAA
48417839 TTTTAGAAACACCG-AAA
1 TTTT-GAAACA-CGAAAA
* *
48417856 TTTTGTAAAACACTAAGAT
1 TTTTG--AAACACGAA-AA
*
48417875 TTTTGAAACACGAAGAT
1 TTTTGAAACACGAA-AA
48417892 TTTTGAAACACGAA
1 TTTTGAAACACGAA
48417906 TTTTATTTTT
Statistics
Matches: 116, Mismatches: 9, Indels: 27
0.76 0.06 0.18
Matches are distributed among these distances:
16 12 0.10
17 56 0.48
18 26 0.22
19 10 0.09
20 5 0.04
21 7 0.06
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (16 bp):
TTTTGAAACACGAAAA
Found at i:48417952 original size:29 final size:29
Alignment explanation
Indices: 48417919--48417974 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
48417909 TATTTTTTTT
48417919 AAGAAACACAAAAATTTGTGAAAACACGA
1 AAGAAACACAAAAATTTGTGAAAACACGA
*
48417948 AAGAAACACAAAGATTTGTGAAAACAC
1 AAGAAACACAAAAATTTGTGAAAACAC
48417975 AAATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (29 bp):
AAGAAACACAAAAATTTGTGAAAACACGA
Found at i:48417991 original size:20 final size:20
Alignment explanation
Indices: 48417966--48418004 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
48417956 CAAAGATTTG
48417966 TGAAAACACAAATTTTTTTT
1 TGAAAACACAAATTTTTTTT
*
48417986 TGAAAACACGAATTTTTTT
1 TGAAAACACAAATTTTTTT
48418005 ATTTTTTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (20 bp):
TGAAAACACAAATTTTTTTT
Found at i:48418152 original size:27 final size:28
Alignment explanation
Indices: 48418122--48418179 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 28
48418112 CTTGATTCTA
*
48418122 TTAAAACACGAGAAATTTTT-ATTTTTT
1 TTAAAACACGAGAAATTTTTAATATTTT
*
48418149 TTAAAACACGAGAATTTTTTAATATTTT
1 TTAAAACACGAGAAATTTTTAATATTTT
48418177 TTA
1 TTA
48418180 TTTTTAAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (28 bp):
TTAAAACACGAGAAATTTTTAATATTTT
Found at i:48418440 original size:10 final size:10
Alignment explanation
Indices: 48418427--48418473 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
48418417 GCCCTTTTCC
48418427 CTTTTTTTTT
1 CTTTTTTTTT
*
48418437 CTTTTTTTCT
1 CTTTTTTTTT
*
48418447 CTTCTTTTTT
1 CTTTTTTTTT
* *
48418457 CCTCTTTTTT
1 CTTTTTTTTT
48418467 CTTTTTT
1 CTTTTTT
48418474 CATTTTCCCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:48418454 original size:20 final size:22
Alignment explanation
Indices: 48418421--48418468 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
48418411 GAATGGGCCC
* *
48418421 TTTTCCCTT-TTTTTTTCT-TT
1 TTTTCTCTTCTTTTTTCCTCTT
48418441 TTTTCTCTTCTTTTTTCCTCTT
1 TTTTCTCTTCTTTTTTCCTCTT
48418463 TTTTCT
1 TTTTCT
48418469 TTTTTCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 8 0.33
21 8 0.33
22 8 0.33
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTCTCTTCTTTTTTCCTCTT
Found at i:48418784 original size:13 final size:12
Alignment explanation
Indices: 48418766--48418810 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
48418756 GTTTTTTTAA
48418766 TTTTTTTCTTTCC
1 TTTTTTTCTTT-C
48418779 TTTTTTTC--TC
1 TTTTTTTCTTTC
48418789 -TTTTTTCTTTC
1 TTTTTTTCTTTC
48418800 TTTTTCTTCTT
1 TTTTT-TTCTT
48418811 CTTCTTTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 7 0.25
10 1 0.04
11 3 0.11
12 4 0.14
13 13 0.46
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:48418785 original size:22 final size:21
Alignment explanation
Indices: 48418757--48418804 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
48418747 CTGTTTTAGG
48418757 TTTTTTTAAT-TTTTTTCTTTCC
1 TTTTTTT-ATCTTTTTTCTTT-C
*
48418779 TTTTTTTCTCTTTTTTCTTTC
1 TTTTTTTATCTTTTTTCTTTC
48418800 TTTTT
1 TTTTT
48418805 CTTCTTCTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTTTATCTTTTTTCTTTC
Found at i:48418809 original size:22 final size:22
Alignment explanation
Indices: 48418767--48418809 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
48418757 TTTTTTTAAT
48418767 TTTTTTCTTTCCTTTTTTTCTC
1 TTTTTTCTTTCCTTTTTTTCTC
48418789 TTTTTTCTTT-CTTTTTCTTCT
1 TTTTTTCTTTCCTTTTT-TTCT
48418810 TCTTCTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (22 bp):
TTTTTTCTTTCCTTTTTTTCTC
Found at i:48418987 original size:26 final size:26
Alignment explanation
Indices: 48418936--48418987 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
48418926 CCTCTTTTTA
*
48418936 CTCTTCTCTTCTCACTTTCACTTTCT
1 CTCTTCTCTTCTCACTTTCACATTCT
* *
48418962 CTCTTTTCTTCTCTCCTTTC-CATTCT
1 CTCTTCTCTTCTC-ACTTTCACATTCT
48418988 TTTTCTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.06, C:0.38, G:0.00, T:0.56
Consensus pattern (26 bp):
CTCTTCTCTTCTCACTTTCACATTCT
Found at i:48419384 original size:22 final size:22
Alignment explanation
Indices: 48419331--48419385 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
48419321 AATCCCCCTT
* *
48419331 TTCTTTCTC-TTCAATTTTTTC
1 TTCTTACTCTTTCAATTTTGTC
* *
48419352 TTTTTAATCTTTCAATTTTGTC
1 TTCTTACTCTTTCAATTTTGTC
*
48419374 TTCTTCCTCTTT
1 TTCTTACTCTTT
48419386 GTTTTCAAGT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTACTCTTTCAATTTTGTC
Found at i:48419683 original size:16 final size:16
Alignment explanation
Indices: 48419659--48419691 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48419649 GGGGTTAAAA
48419659 TGTAATTTATATTTTT
1 TGTAATTTATATTTTT
*
48419675 TGTATTTTATATTTTT
1 TGTAATTTATATTTTT
48419691 T
1 T
48419692 TTCAAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (16 bp):
TGTAATTTATATTTTT
Found at i:48420151 original size:79 final size:75
Alignment explanation
Indices: 48420021--48420484 Score: 479
Period size: 73 Copynumber: 6.0 Consensus size: 75
48420011 TGGGTTGACC
* * * * * * *
48420021 TTTGAAAAATAGAAATT-GAAAAATACCTTGGCATATAACCCGAGGCTCAACTTATCTCTCGCAA
1 TTTG-AAAATA-AAATTAAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAA
48420085 TATGAGTTGATT
64 TATGAGTTGATT
* * *
48420097 TTTGAAAAGTAGAAAATTAAAAAAAGTACCTCGGCATGTGACCCGAGGTTCAACTCACCTCCCGC
1 TTTGAAAA-T--AAAATTAAAAAAA-TACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGC
*
48420162 AATATAAGTTGATTTT
62 AATATGAGTTGA--TT
* *
48420178 TTTGAAAAATAGAAATTAAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTTTCGC
1 TTTG-AAAATA-AAATT-AAAA-AAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGC
*
48420243 AATATAAGTTGATTTT
62 AATATGAGTTGA--TT
* * * *
48420259 TTTTATAAACAAAAATTAGAAAAATACCTCGATATGTGACCCGAGGCTCAACTCACCTCTCGCAA
1 TTTGA-AAA-TAAAATTAAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAA
48420324 TATGAGTTGATT
64 TATGAGTTGATT
* * * * **
48420336 TTTGAAAA-CAAA-TAAAAAAATACCTCAACGTGCGAATCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAATAAAATTAAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
48420399 TGAGTTGATT
66 TGAGTTGATT
* * * * **
48420409 TTTGAAAA-CAAA-TAAAAAAATACCTCAACGTGCGAATCGAGGCTCAACTCACCTCTCGCAATA
1 TTTGAAAATAAAATTAAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
48420472 TGAGTTGATT
66 TGAGTTGATT
48420482 TTT
1 TTT
48420485 TTGAAAAATT
Statistics
Matches: 347, Mismatches: 28, Indels: 29
0.86 0.07 0.07
Matches are distributed among these distances:
73 130 0.37
74 3 0.01
75 4 0.01
76 8 0.02
77 11 0.03
78 6 0.02
79 94 0.27
80 9 0.03
81 74 0.21
82 8 0.02
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.28
Consensus pattern (75 bp):
TTTGAAAATAAAATTAAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATT
Found at i:48420226 original size:160 final size:154
Alignment explanation
Indices: 48420021--48420493 Score: 541
Period size: 160 Copynumber: 3.1 Consensus size: 154
48420011 TGGGTTGACC
* * * * * *
48420021 TTTGAAAAATAGAAATT-GAAAAATACCTTGGCATATAACCCGAGGCTCAACTTATCTCTCGCAA
1 TTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
* *
48420085 TATGAGTTGATTTTTGAAAAGTAGAAAATTAAAAAAAGTACCTCGGCATGTGACCCGAGGTTCAA
66 TATGAGTTGATTTTTGAAAA--A-AAAATTAAAAAAA-TACCTCGACATGTGACCCGAGGCTCAA
* *
48420150 CTCACCTCCCGCAATATAAGTTGATTTT
127 CTCACCTCTCGCAATATGAGTTGATTTT
*
48420178 TTTGAAAAATAGAAATTAAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTTTCGC
1 TTTGAAAAATAGAAATT-AAAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGC
* * * *
48420243 AATATAAGTTGATTTTTTTTATAAACAAAAATTAGAAAAATACCTCGATATGTGACCCGAGGCTC
64 AATATGAGTTGA--TTTTTGA-AAA-AAAAATTAAAAAAATACCTCGACATGTGACCCGAGGCTC
48420308 AACTCACCTCTCGCAATATGAGTTGA--TT
125 AACTCACCTCTCGCAATATGAGTTGATTTT
* ** * * **
48420336 TTTG--AAA-ACAAA-TAAAAAAATACCTCAACGTGCGAATCGAGGCTCAACTCACCTCTCGCAA
1 TTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
* * * * **
48420397 TATGAGTTGATTTTTG-AAAACAAA-TAAAAAAATACCTCAACGTGCGAATCGAGGCTCAACTCA
66 TATGAGTTGATTTTTGAAAAAAAAATTAAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCA
48420460 CCTCTCGCAATATGAGTTGATTTT
131 CCTCTCGCAATATGAGTTGATTTT
48420484 TTTGAAAAAT
1 TTTGAAAAAT
48420494 TTGAAATTGA
Statistics
Matches: 271, Mismatches: 34, Indels: 28
0.81 0.10 0.08
Matches are distributed among these distances:
146 52 0.19
147 4 0.01
148 9 0.03
150 8 0.03
152 46 0.17
153 4 0.01
154 1 0.00
155 4 0.01
156 3 0.01
157 17 0.06
158 6 0.02
159 2 0.01
160 93 0.34
161 12 0.04
162 7 0.03
163 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (154 bp):
TTTGAAAAATAGAAATTAAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTTTTGAAAAAAAAATTAAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCA
CCTCTCGCAATATGAGTTGATTTT
Found at i:48432066 original size:30 final size:30
Alignment explanation
Indices: 48432032--48432097 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
48432022 TTTTGGGCTC
48432032 ATTGGGCTAAAGTTCGGGTTTAGGTATTGT
1 ATTGGGCTAAAGTTCGGGTTTAGGTATTGT
* *
48432062 ATTGGGCTAGAGTTTGGGTTTAGGTATTGT
1 ATTGGGCTAAAGTTCGGGTTTAGGTATTGT
48432092 ATTGGG
1 ATTGGG
48432098 TATTAGATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.18, C:0.05, G:0.36, T:0.41
Consensus pattern (30 bp):
ATTGGGCTAAAGTTCGGGTTTAGGTATTGT
Found at i:48432098 original size:18 final size:18
Alignment explanation
Indices: 48432047--48432103 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
48432037 GCTAAAGTTC
48432047 GGGTTTAGGTATTGTATT
1 GGGTTTAGGTATTGTATT
*
48432065 GGG-CTA-G-A--GT-TT
1 GGGTTTAGGTATTGTATT
48432077 GGGTTTAGGTATTGTATT
1 GGGTTTAGGTATTGTATT
48432095 GGGTATTAG
1 GGGT-TTAG
48432104 ATTAAAACGA
Statistics
Matches: 30, Mismatches: 2, Indels: 13
0.67 0.04 0.29
Matches are distributed among these distances:
12 5 0.17
13 4 0.13
14 1 0.03
15 2 0.07
16 1 0.03
17 4 0.13
18 9 0.30
19 4 0.13
ACGTcount: A:0.18, C:0.02, G:0.37, T:0.44
Consensus pattern (18 bp):
GGGTTTAGGTATTGTATT
Found at i:48433520 original size:18 final size:18
Alignment explanation
Indices: 48433493--48433651 Score: 82
Period size: 18 Copynumber: 9.0 Consensus size: 18
48433483 ACAAGATAAT
*
48433493 AATTTTTGAAAACACGAA
1 AATTTGTGAAAACACGAA
* **
48433511 AATTTGTG-AAACAAGGG
1 AATTTGTGAAAACACGAA
*
48433528 AA-TTGTTGAAAACACCAA
1 AATTTG-TGAAAACACGAA
*
48433546 AATTT-T-AGAAACACCAA
1 AATTTGTGA-AAACACGAA
*
48433563 AATTTTTGAAAACACGAA
1 AATTTGTGAAAACACGAA
* *
48433581 GATTT-TTAAAACAC-AA
1 AATTTGTGAAAACACGAA
* * *
48433597 ATTTTTTTTAAGAA-AC-ACA
1 A-ATTTGTGAA-AACACGA-A
*
48433616 AATTTGTAAAAACACGAA
1 AATTTGTGAAAACACGAA
* *
48433634 GATTTGTGAACACACGAA
1 AATTTGTGAAAACACGAA
48433652 TTTTTCAATT
Statistics
Matches: 110, Mismatches: 19, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
16 6 0.05
17 38 0.35
18 58 0.53
19 8 0.07
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.27
Consensus pattern (18 bp):
AATTTGTGAAAACACGAA
Found at i:48433572 original size:35 final size:34
Alignment explanation
Indices: 48433493--48433603 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 34
48433483 ACAAGATAAT
*
48433493 AATTTTTGAAAACACGAAAATTTGT-GAAACA-AGGG
1 AATTTTTGAAAACACGAAAATTT-TAGAAACACA--A
* *
48433528 AATTGTTGAAAACACCAAAATTTTAGAAACACCAA
1 AATTTTTGAAAACACGAAAATTTTAGAAACA-CAA
*
48433563 AATTTTTGAAAACACGAAGATTTTTA-AAACACAA
1 AATTTTTGAAAACACGAA-AATTTTAGAAACACAA
*
48433597 ATTTTTT
1 AATTTTT
48433604 TTAAGAAACA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
34 10 0.15
35 48 0.74
36 6 0.09
37 1 0.02
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (34 bp):
AATTTTTGAAAACACGAAAATTTTAGAAACACAA
Found at i:48433586 original size:17 final size:17
Alignment explanation
Indices: 48433496--48433594 Score: 85
Period size: 17 Copynumber: 5.7 Consensus size: 17
48433486 AGATAATAAT
48433496 TTTTGAAAACACGAAAA
1 TTTTGAAAACACGAAAA
* **
48433513 TTTGTG-AAACAAGGGAA
1 TTT-TGAAAACACGAAAA
*
48433530 TTGTTGAAAACACCAAAA
1 TT-TTGAAAACACGAAAA
*
48433548 TTTT-AGAAACACCAAAA
1 TTTTGA-AAACACGAAAA
*
48433565 TTTTTGAAAACACGAAGA
1 -TTTTGAAAACACGAAAA
*
48433583 TTTTTAAAACAC
1 TTTTGAAAACAC
48433595 AAATTTTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
16 1 0.02
17 39 0.59
18 25 0.38
19 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.26
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:48433603 original size:17 final size:18
Alignment explanation
Indices: 48433548--48433620 Score: 60
Period size: 17 Copynumber: 4.0 Consensus size: 18
48433538 AACACCAAAA
*
48433548 TTTTAGAAACACCAAAATT
1 TTTTAGAAACA-CAAATTT
* * **
48433567 TTTGA-AAACACGAAGAT
1 TTTTAGAAACACAAATTT
48433584 TTTTA-AAACACAAATTTT
1 TTTTAGAAACACAAA-TTT
48433602 TTTTAAGAAACACAAATTT
1 TTTT-AGAAACACAAATTT
48433621 GTAAAAACAC
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
17 16 0.37
18 10 0.23
19 8 0.19
20 9 0.21
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (18 bp):
TTTTAGAAACACAAATTT
Found at i:48433628 original size:53 final size:55
Alignment explanation
Indices: 48433548--48433656 Score: 143
Period size: 53 Copynumber: 2.0 Consensus size: 55
48433538 AACACCAAAA
* * *
48433548 TTTTAGAAACACCAAAATTTTTGAAAACACGAAGATTT-TTAAAACACAAATTTT
1 TTTTAGAAACACCAAAATTTGTAAAAACACGAAGATTTGTGAAAACACAAATTTT
* *
48433602 TTTTAAGAAACA-C-AAATTTGTAAAAACACGAAGATTTGTGAACACACGAATTTT
1 TTTT-AGAAACACCAAAATTTGTAAAAACACGAAGATTTGTGAAAACACAAATTTT
48433656 T
1 T
48433657 CAATTTTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 22 0.46
54 19 0.40
55 7 0.15
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (55 bp):
TTTTAGAAACACCAAAATTTGTAAAAACACGAAGATTTGTGAAAACACAAATTTT
Found at i:48433814 original size:28 final size:28
Alignment explanation
Indices: 48433778--48433831 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
48433768 TGATTCTATT
*
48433778 AAAACACGAGAAATTTTT-ATTTTTTTAA
1 AAAACACGAG-AATTTTTGATTATTTTAA
48433806 AAAACACGAGAATTTTTGATTATTTT
1 AAAACACGAGAATTTTTGATTATTTT
48433832 CGATTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 7 0.29
28 17 0.71
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (28 bp):
AAAACACGAGAATTTTTGATTATTTTAA
Found at i:48434277 original size:6 final size:6
Alignment explanation
Indices: 48434248--48434292 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
48434238 GTTTTTTATT
*
48434248 TTTTTC TTTCCTTT TTTTTC -TTTTC TTTTTC TTTTTC TTTTTC TT
1 TTTTTC TTT--TTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT
48434293 CTTCGGGTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.15
6 24 0.71
8 5 0.15
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:48434446 original size:26 final size:25
Alignment explanation
Indices: 48434413--48434480 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 25
48434403 CTCCCCCTCT
48434413 CTTT-TCTCTTCTTTTCTCCTC-TTC
1 CTTTCTCTCTTCTTTTCT-CTCATTC
*
48434437 ACTTTCTCTCTTTTTTTCTCTCATTTC
1 -CTTTCTCTCTTCTTTTCTCTCA-TTC
*
48434464 CTTTCT-TTTTCTTTTCT
1 CTTTCTCTCTTCTTTTCT
48434481 TTTTCCTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
25 16 0.43
26 18 0.49
27 3 0.08
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (25 bp):
CTTTCTCTCTTCTTTTCTCTCATTC
Found at i:48434865 original size:22 final size:22
Alignment explanation
Indices: 48434812--48434866 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
48434802 AATCCCCTTT
* *
48434812 TTCTTTCTC-TTCAATTTTTTC
1 TTCTTACTCTTTCAATTTTGTC
* *
48434833 TTTTTAATCTTTCAATTTTGTC
1 TTCTTACTCTTTCAATTTTGTC
*
48434855 TTCTTCCTCTTT
1 TTCTTACTCTTT
48434867 GTTTTCAGGT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 6 0.23
22 20 0.77
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTACTCTTTCAATTTTGTC
Found at i:48435171 original size:16 final size:17
Alignment explanation
Indices: 48435140--48435174 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
48435130 AGGGCTAAAA
48435140 TGTAATTTATATTTTTT
1 TGTAATTTATATTTTTT
*
48435157 TGTATTTTATATTTTTT
1 TGTAATTTATATTTTTT
48435174 T
1 T
48435175 TCAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (17 bp):
TGTAATTTATATTTTTT
Found at i:48436137 original size:194 final size:194
Alignment explanation
Indices: 48435808--48436200 Score: 569
Period size: 194 Copynumber: 2.0 Consensus size: 194
48435798 AAAATATGAG
48435808 AAAAACTAAAAACAGATGTCACATGGCTGTGTGGCCAGATCGTGTGACAGAGGTCAGCCCGTGTG
1 AAAAACTAAAAACAGATGTCACATGGCTGTGTGGCCAGATCGTGTGACAGAGGTCAGCCCGTGTG
* *
48435873 GCCCCAAGCATGGTCCTGTGGCTACTTCACATGCCCGTGTGCTTAAACTATGTACAAATTGAAAA
66 GCCCCAAGCATGGTCCTGTGGCTACTTCACACGCCCGTGTGCTTAAACTATGTACAAATCGAAAA
* * * *
48435938 TAGGGTCACACGGTCATGT-CCTCAAGTCGTGTAACTAATTGTGC-C-TATGTGAAAAATCCTGC
131 TAGGGTCACACGGTCATGTCCCCCAA-CCGTGTAACTAACTATGCTCGTA--TGAAAAATCCTGC
48436000 AC
193 AC
* * * * * *
48436002 AAAAACTGAAAATAGATGTCTCATGGCTGTTTGGTCAG-GCTGTGTGACAGAGGTCAGCCCGTGT
1 AAAAACTAAAAACAGATGTCACATGGCTGTGTGGCCAGATC-GTGTGACAGAGGTCAGCCCGTGT
* * * *
48436066 GGCCCCAAGCATGGTCGTGTGGCTACTTCACACGCCTGTGTGCTTAGACTGTGTACAAATCGAAA
65 GGCCCCAAGCATGGTCCTGTGGCTACTTCACACGCCCGTGTGCTTAAACTATGTACAAATCGAAA
*
48436131 ATAGGGTCACATGGTCATGTCCCCCAACCGTGTAACTAACTATGCTCGTATGAAAAATCCTGCAC
130 ATAGGGTCACACGGTCATGTCCCCCAACCGTGTAACTAACTATGCTCGTATGAAAAATCCTGCAC
48436196 AAAAA
1 AAAAA
48436201 AAATCAAGCA
Statistics
Matches: 178, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
193 1 0.01
194 169 0.95
195 6 0.03
196 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (194 bp):
AAAAACTAAAAACAGATGTCACATGGCTGTGTGGCCAGATCGTGTGACAGAGGTCAGCCCGTGTG
GCCCCAAGCATGGTCCTGTGGCTACTTCACACGCCCGTGTGCTTAAACTATGTACAAATCGAAAA
TAGGGTCACACGGTCATGTCCCCCAACCGTGTAACTAACTATGCTCGTATGAAAAATCCTGCAC
Found at i:48440284 original size:13 final size:14
Alignment explanation
Indices: 48440260--48440345 Score: 58
Period size: 13 Copynumber: 6.5 Consensus size: 14
48440250 TCATACATCT
48440260 ATTTCCATATAACCA
1 ATTT-CATATAACCA
48440275 ATTT-ATATAACC-
1 ATTTCATATAACCA
* *
48440287 ATTTCATGTAATC-
1 ATTTCATATAACCA
*
48440300 ATTTCATATAA-CT
1 ATTTCATATAACCA
**
48440313 ATTTTGTATAACC-
1 ATTTCATATAACCA
* *
48440326 ATTTCATTTAAAC-
1 ATTTCATATAACCA
48440339 ATTTCAT
1 ATTTCAT
48440346 TTTACCACTT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
12 5 0.08
13 49 0.83
14 1 0.02
15 4 0.07
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.44
Consensus pattern (14 bp):
ATTTCATATAACCA
Found at i:48440309 original size:26 final size:26
Alignment explanation
Indices: 48440260--48440345 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
48440250 TCATACATCT
48440260 ATTTCCATATAACCAATTT-ATATAACC
1 ATTT-CATATAACC-ATTTCATATAACC
* * *
48440287 ATTTCATGTAATCATTTCATATAACT
1 ATTTCATATAACCATTTCATATAACC
** * *
48440313 ATTTTGTATAACCATTTCATTTAAAC
1 ATTTCATATAACCATTTCATATAACC
48440339 ATTTCAT
1 ATTTCAT
48440346 TTTACCACTT
Statistics
Matches: 46, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
25 4 0.09
26 38 0.83
27 4 0.09
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.44
Consensus pattern (26 bp):
ATTTCATATAACCATTTCATATAACC
Found at i:48440323 original size:39 final size:39
Alignment explanation
Indices: 48440260--48440345 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
48440250 TCATACATCT
*
48440260 ATTTCCATATAACCAATTTATATAACCATTTCATGTAATC
1 ATTT-CATATAACCAATTTATATAACCATTTCATGTAAAC
* * * *
48440300 ATTTCATATAACTATTTTGTATAACCATTTCATTTAAAC
1 ATTTCATATAACCAATTTATATAACCATTTCATGTAAAC
48440339 ATTTCAT
1 ATTTCAT
48440346 TTTACCACTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 37 0.90
40 4 0.10
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.44
Consensus pattern (39 bp):
ATTTCATATAACCAATTTATATAACCATTTCATGTAAAC
Found at i:48440346 original size:13 final size:13
Alignment explanation
Indices: 48440325--48440368 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
48440315 TTTGTATAAC
48440325 CATTTCATTTAAA
1 CATTTCATTTAAA
* *
48440338 CATTTCATTTTAC
1 CATTTCATTTAAA
* *
48440351 CACTTCATTTACA
1 CATTTCATTTAAA
48440364 CATTT
1 CATTT
48440369 AACACATTAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.48
Consensus pattern (13 bp):
CATTTCATTTAAA
Found at i:48446624 original size:16 final size:17
Alignment explanation
Indices: 48446605--48446639 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48446595 ATTAATTAAT
48446605 TAATTGAAAATA-AAAA
1 TAATTGAAAATATAAAA
*
48446621 TAATTGAACATATAAAA
1 TAATTGAAAATATAAAA
48446638 TA
1 TA
48446640 CAAAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (17 bp):
TAATTGAAAATATAAAA
Found at i:48454706 original size:62 final size:62
Alignment explanation
Indices: 48454609--48454731 Score: 219
Period size: 62 Copynumber: 2.0 Consensus size: 62
48454599 TGAAATTAAA
*
48454609 TGTAATTCTTTAAAATACAAAGGATTGATTAATGATATACAATGCGAGATGATGATTCATGG
1 TGTAATTCTTTAAAATAAAAAGGATTGATTAATGATATACAATGCGAGATGATGATTCATGG
* *
48454671 TGTAATTCTTTAAAATAAAAATGATTGATTAATGATGTACAATGCGAGATGATGATTCATG
1 TGTAATTCTTTAAAATAAAAAGGATTGATTAATGATATACAATGCGAGATGATGATTCATG
48454732 AACTAAAACG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (62 bp):
TGTAATTCTTTAAAATAAAAAGGATTGATTAATGATATACAATGCGAGATGATGATTCATGG
Found at i:48456823 original size:44 final size:44
Alignment explanation
Indices: 48456775--48457005 Score: 331
Period size: 44 Copynumber: 5.2 Consensus size: 44
48456765 ACTACTACTT
* **
48456775 AGGGAGATAGGA-TCCACAATCTTCAACCTATTCCACTGCTATTC
1 AGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTC
*
48456819 AGGGAGATAGGA-TATACAATCTTCCACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCTGGTC
* *
48456863 AGGGAGTTAGGACTTGCAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
* * * *
48456907 AGGGAGTTAGGACTGACAATCTTCTACCTATTCCTCTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
48456951 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
1 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
*
48456995 AGGGAGCTAGG
1 AGGGAGATAGG
48457006 TTTTGTGATT
Statistics
Matches: 169, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
44 168 0.99
45 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (44 bp):
AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGGTC
Found at i:48466398 original size:49 final size:49
Alignment explanation
Indices: 48466339--48466439 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
48466329 TTGCTATATA
48466339 AAAAAAACGAAAGGGATTAGACTAACTTAAAAACATAATTAAAAGAACC
1 AAAAAAACGAAAGGGATTAGACTAACTTAAAAACATAATTAAAAGAACC
48466388 AAAAAAACGAAAGGGATTAGACTAACTTAAAAACATAATTAAAAGAACC
1 AAAAAAACGAAAGGGATTAGACTAACTTAAAAACATAATTAAAAGAACC
48466437 AAA
1 AAA
48466440 TGAAAATAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.60, C:0.12, G:0.12, T:0.16
Consensus pattern (49 bp):
AAAAAAACGAAAGGGATTAGACTAACTTAAAAACATAATTAAAAGAACC
Found at i:48466419 original size:27 final size:27
Alignment explanation
Indices: 48466340--48466420 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 27
48466330 TGCTATATAA
48466340 AAAAAACGAAAGGGATTAGACTAACTT
1 AAAAAACGAAAGGGATTAGACTAACTT
* * ** **
48466367 -AAAAAC-ATA---ATTAAAAGAACCA
1 AAAAAACGAAAGGGATTAGACTAACTT
48466389 AAAAAACGAAAGGGATTAGACTAACTT
1 AAAAAACGAAAGGGATTAGACTAACTT
48466416 AAAAA
1 AAAAA
48466421 CATAATTAAA
Statistics
Matches: 37, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
22 8 0.22
23 6 0.16
24 2 0.05
25 2 0.05
26 6 0.16
27 13 0.35
ACGTcount: A:0.59, C:0.11, G:0.14, T:0.16
Consensus pattern (27 bp):
AAAAAACGAAAGGGATTAGACTAACTT
Found at i:48467579 original size:17 final size:17
Alignment explanation
Indices: 48467559--48467591 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
48467549 TTAATTTGGT
*
48467559 TTTATTTTATTTATTTG
1 TTTATTTGATTTATTTG
48467576 TTTATTTGATTTATTT
1 TTTATTTGATTTATTT
48467592 CACTAACGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTATTTGATTTATTTG
Found at i:48467581 original size:8 final size:9
Alignment explanation
Indices: 48467559--48467591 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
48467549 TTAATTTGGT
*
48467559 TTTATTTTA
1 TTTATTTGA
48467568 TTTATTTG-
1 TTTATTTGA
48467576 TTTATTTGA
1 TTTATTTGA
48467585 TTTATTT
1 TTTATTT
48467592 CACTAACGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (9 bp):
TTTATTTGA
Found at i:48467709 original size:5 final size:6
Alignment explanation
Indices: 48467669--48467708 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
48467659 GAATGATGCC
* *
48467669 AAAAGA AAGAAGC AAAAGA AAAAGA AAAATA AAAAGA AAA
1 AAAAGA AA-AAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
48467709 GGTGAGGGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (6 bp):
AAAAGA
Found at i:48471626 original size:24 final size:24
Alignment explanation
Indices: 48471599--48471645 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
48471589 GAACTTCCAG
48471599 GATTTATGGCTATCCGGAGCTTCT
1 GATTTATGGCTATCCGGAGCTTCT
* *
48471623 GATTTATGGCTCTTCGGAGCTTC
1 GATTTATGGCTATCCGGAGCTTC
48471646 CCGTTAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (24 bp):
GATTTATGGCTATCCGGAGCTTCT
Found at i:48473682 original size:20 final size:20
Alignment explanation
Indices: 48473653--48473690 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48473643 ATAATTATAT
* *
48473653 TAATTGTATATGTTAAATAA
1 TAATTATATATATTAAATAA
48473673 TAATTATATATATTAAAT
1 TAATTATATATATTAAAT
48473691 CATCAACCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
TAATTATATATATTAAATAA
Found at i:48473834 original size:15 final size:16
Alignment explanation
Indices: 48473816--48473846 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48473806 TATATTTATG
48473816 ATAAAT-TTTTTTAAT
1 ATAAATATTTTTTAAT
48473831 ATAAATATTTTTTAAT
1 ATAAATATTTTTTAAT
48473847 GTGTTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATAAATATTTTTTAAT
Found at i:48479828 original size:30 final size:31
Alignment explanation
Indices: 48479787--48479845 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
48479777 TTCCACATCC
*
48479787 TTTATGTATAT-ATTTATTAGAATCTTTAGCT
1 TTTATGTATATAATTTATTAAAAT-TTTAGCT
48479818 TTTA-GTATATAATTTATTAAAATTTTAG
1 TTTATGTATATAATTTATTAAAATTTTAG
48479846 AATTTATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.54
Consensus pattern (31 bp):
TTTATGTATATAATTTATTAAAATTTTAGCT
Found at i:48483841 original size:16 final size:16
Alignment explanation
Indices: 48483820--48483850 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48483810 TTCACTATTA
*
48483820 TATCTTTTGTATTTTC
1 TATCTTTTATATTTTC
48483836 TATCTTTTATATTTT
1 TATCTTTTATATTTT
48483851 GCATGCATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (16 bp):
TATCTTTTATATTTTC
Found at i:48485524 original size:20 final size:19
Alignment explanation
Indices: 48485499--48485551 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
48485489 AAATAGTATT
48485499 TTATTAATTTAATTTTAAA
1 TTATTAATTTAATTTTAAA
*
48485518 GTTATT-ATCTTAATATTAAA
1 -TTATTAAT-TTAATTTTAAA
48485538 -T-TTAATTTAATTTT
1 TTATTAATTTAATTTT
48485552 TATCTTGTAG
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
17 9 0.31
18 3 0.10
19 2 0.07
20 15 0.52
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (19 bp):
TTATTAATTTAATTTTAAA
Found at i:48486948 original size:17 final size:17
Alignment explanation
Indices: 48486926--48486960 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
48486916 ATTAAACAAC
*
48486926 ACAAGTAAGTTTAATGA
1 ACAAGTAAGCTTAATGA
48486943 ACAAGTAAGCTTAATGA
1 ACAAGTAAGCTTAATGA
48486960 A
1 A
48486961 GCTTAATAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (17 bp):
ACAAGTAAGCTTAATGA
Found at i:48487465 original size:24 final size:24
Alignment explanation
Indices: 48487433--48487480 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
48487423 TACTTAGGTA
*
48487433 ATTTGCCATCAATTCATCATTTGC
1 ATTTACCATCAATTCATCATTTGC
48487457 ATTTACCATCAATTCATCATTTGC
1 ATTTACCATCAATTCATCATTTGC
48487481 CACAGAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (24 bp):
ATTTACCATCAATTCATCATTTGC
Found at i:48494438 original size:21 final size:21
Alignment explanation
Indices: 48494371--48494456 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 21
48494361 CAACTGAATG
* *
48494371 GAAACCTATAAGGGTTAAACT
1 GAAACCCATAAGGGTTAAACA
* * * * *
48494392 GAAGCTCAAAAGAGTTGAACA
1 GAAACCCATAAGGGTTAAACA
*
48494413 GAAACCCATAAGGGTTAAAAA
1 GAAACCCATAAGGGTTAAACA
* * *
48494434 GAAACTCATATGAGTT-AACA
1 GAAACCCATAAGGGTTAAACA
48494454 GAA
1 GAA
48494457 GCTCATGCGA
Statistics
Matches: 48, Mismatches: 17, Indels: 1
0.73 0.26 0.02
Matches are distributed among these distances:
20 6 0.12
21 42 0.88
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.19
Consensus pattern (21 bp):
GAAACCCATAAGGGTTAAACA
Found at i:48494449 original size:42 final size:41
Alignment explanation
Indices: 48494325--48494456 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 41
48494315 ATAAGTGCTA
* * **
48494325 AACAGAAACCCGTAAGGGTTAAACGGAAGCTCATAGCAACTG
1 AACAGAAACCCATAAGGGTTAAACAGAAGCTCATAG-AGTTG
** * * *
48494367 AATGGAAACCTATAAGGGTTAAACTGAAGCTCAAAAGAGTTG
1 AACAGAAACCCATAAGGGTTAAACAGAAGCTC-ATAGAGTTG
* *
48494409 AACAGAAACCCATAAGGGTTAAAAAGAAACTCATATGAGTT-
1 AACAGAAACCCATAAGGGTTAAACAGAAGCTCATA-GAGTTG
48494450 AACAGAA
1 AACAGAA
48494457 GCTCATGCGA
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
41 9 0.12
42 61 0.84
43 3 0.04
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.17
Consensus pattern (41 bp):
AACAGAAACCCATAAGGGTTAAACAGAAGCTCATAGAGTTG
Found at i:48494560 original size:24 final size:24
Alignment explanation
Indices: 48494528--48494575 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
48494518 TACTTAGGTA
*
48494528 ATTTTCCATCAATTCATCATTTGC
1 ATTTACCATCAATTCATCATTTGC
*
48494552 ATTTACCATCAATTCATCCTTTGC
1 ATTTACCATCAATTCATCATTTGC
48494576 CACAGAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.44
Consensus pattern (24 bp):
ATTTACCATCAATTCATCATTTGC
Found at i:48498994 original size:26 final size:26
Alignment explanation
Indices: 48498958--48499023 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
48498948 CTTGACCCAC
48498958 AGCTCGTGTGAGCAGGCCCATTTCAT
1 AGCTCGTGTGAGCAGGCCCATTTCAT
*
48498984 AGCTCATGTGAGCAGGCCCATTTCAT
1 AGCTCGTGTGAGCAGGCCCATTTCAT
*
48499010 AGCTTGTGTGAGCA
1 AGCTCGTGTGAGCA
48499024 TTTACAGTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.27
Consensus pattern (26 bp):
AGCTCGTGTGAGCAGGCCCATTTCAT
Found at i:48499047 original size:25 final size:25
Alignment explanation
Indices: 48499015--48499076 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
48499005 TTCATAGCTT
48499015 GTGTGAGCATTTA-CAGTTACAACTC
1 GTGTGAGCATTTATC-GTTACAACTC
* * *
48499040 GTGTGAGCAATTATCGTTATAGCTC
1 GTGTGAGCATTTATCGTTACAACTC
48499065 GTGTGAGCATTT
1 GTGTGAGCATTT
48499077 TCCCTCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (25 bp):
GTGTGAGCATTTATCGTTACAACTC
Found at i:48505617 original size:28 final size:29
Alignment explanation
Indices: 48505585--48505645 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
48505575 AAAGGAATAT
* * *
48505585 CTTTGTGGCAATTTCTG-TAAATGGACGC
1 CTTTGTGGCAATCTCTGTTAAAAGGACAC
*
48505613 CTTTGTGGCTATCTCTGTTAAAAGGACAC
1 CTTTGTGGCAATCTCTGTTAAAAGGACAC
48505642 CTTT
1 CTTT
48505646 ATGACTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (29 bp):
CTTTGTGGCAATCTCTGTTAAAAGGACAC
Found at i:48505644 original size:29 final size:29
Alignment explanation
Indices: 48505585--48505663 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
48505575 AAAGGAATAT
* * * *
48505585 CTTTGTGGCAATTTCTG-TAAATGGACGC
1 CTTTGTGGCTATCTCTGTTAAAAGGACAC
48505613 CTTTGTGGCTATCTCTGTTAAAAGGACAC
1 CTTTGTGGCTATCTCTGTTAAAAGGACAC
* *
48505642 CTTTATGACTATCT-TAGTTAAA
1 CTTTGTGGCTATCTCT-GTTAAA
48505664 GAAATACTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 16 0.37
29 27 0.63
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (29 bp):
CTTTGTGGCTATCTCTGTTAAAAGGACAC
Found at i:48518852 original size:60 final size:60
Alignment explanation
Indices: 48518783--48518901 Score: 193
Period size: 60 Copynumber: 2.0 Consensus size: 60
48518773 TTGTTTTTTA
* * * *
48518783 TAATTATTTTAAAATCAATTTGTTAGTAATTTAGGGTTATGTTATAAATTTTTGTGTTTG
1 TAATTATTTTAAAATCAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
*
48518843 TAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
1 TAATTATTTTAAAATCAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTT
48518902 AGTTTAGTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.33, C:0.01, G:0.13, T:0.53
Consensus pattern (60 bp):
TAATTATTTTAAAATCAATTTATTAGTAATTTAGGATTAAGTTATAAATTGTTGTGTTTG
Found at i:48521283 original size:33 final size:33
Alignment explanation
Indices: 48521246--48521316 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
48521236 CAGTACTCTG
* *
48521246 CTCCTTCTGG-CTCGTATCTACCTCAATACTCCA
1 CTCCTTCTGGCCT-GTATCCACCGCAATACTCCA
* **
48521279 CTCCTTTTGGCCTGTATCCACCGCCGTACTCCA
1 CTCCTTCTGGCCTGTATCCACCGCAATACTCCA
48521312 CTCCT
1 CTCCT
48521317 CCCGGCTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.14, C:0.42, G:0.11, T:0.32
Consensus pattern (33 bp):
CTCCTTCTGGCCTGTATCCACCGCAATACTCCA
Found at i:48525260 original size:192 final size:196
Alignment explanation
Indices: 48524869--48525257 Score: 594
Period size: 192 Copynumber: 2.0 Consensus size: 196
48524859 TCGTATCTAT
48524869 ACCTGGGTTATATACTGATCCGGGAAAAAAATTAATAATATTTTATTAAACGAGAAAAAAATAAA
1 ACCTGGGTTATATACTGATCCGGGAAAAAAATTAATAATATTTTATTAAAC-AGAAAAAAATAAA
* * * *
48524934 ATATTTTAATATAAAAATTTGATTCGCGCCTGTCAGATAGGCGCAATTAAAGAAACGTACCATTT
65 ATATTTTAATATAAAAAATTGATTCGCGCCTATCAGATAGGCACAATTAAAGAAACATACCATTT
* *
48524999 CGGTAATTAATTTAGCTGACAACCAATTTAGGTATTTAAAATTTTTTTTAATATATTTGGGTAAA
130 CGATAATTAATCTAGCTGACAACCAATTTAGGTATTTAAAATTTTTTTTAATATATTTGGGTAAA
48525064 AA
195 AA
* * *
48525066 ACCT-GGTTATATACTGATCCGGG-GAAAAATTAATAATATTTTTATTAAA-A-CAAGAAA-AAA
1 ACCTGGGTTATATACTGATCCGGGAAAAAAATTAATAATA-TTTTATTAAACAGAAAAAAATAAA
* *
48525126 ATATTTTAATATAAAAAATTGATTCGCGCCTATCAGATAGGTACGATTAAAGAAAACATACCATT
65 ATATTTTAATATAAAAAATTGATTCGCGCCTATCAGATAGGCACAATTAAAG-AAACATACCATT
*
48525191 TCGATAATTAATCTAGCTGACAACCTATTTAGGTATTT-AAA-TTTTTTTAATATATTTGGGTAA
129 TCGATAATTAATCTAGCTGACAACCAATTTAGGTATTTAAAATTTTTTTTAATATATTTGGGTAA
48525254 AAA
194 AAA
48525257 A
1 A
48525258 ACCCTCAAAT
Statistics
Matches: 178, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
191 26 0.15
192 53 0.30
193 51 0.29
194 1 0.01
195 14 0.08
196 29 0.16
197 4 0.02
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (196 bp):
ACCTGGGTTATATACTGATCCGGGAAAAAAATTAATAATATTTTATTAAACAGAAAAAAATAAAA
TATTTTAATATAAAAAATTGATTCGCGCCTATCAGATAGGCACAATTAAAGAAACATACCATTTC
GATAATTAATCTAGCTGACAACCAATTTAGGTATTTAAAATTTTTTTTAATATATTTGGGTAAAA
A
Found at i:48526799 original size:31 final size:32
Alignment explanation
Indices: 48526754--48526816 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
48526744 TTTTTTTGGG
* *
48526754 GGGGGGGGGGTTTGGGTTGGTTGGT-GGTTTT
1 GGGGGGGGGATTTGGGTTGGTTAGTGGGTTTT
*
48526785 GGGGGGTGGATTTGGGTTGGTTAGTGGGTTTT
1 GGGGGGGGGATTTGGGTTGGTTAGTGGGTTTT
48526817 AGGTTGGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 22 0.79
32 6 0.21
ACGTcount: A:0.03, C:0.00, G:0.57, T:0.40
Consensus pattern (32 bp):
GGGGGGGGGATTTGGGTTGGTTAGTGGGTTTT
Found at i:48530346 original size:7 final size:7
Alignment explanation
Indices: 48530336--48530389 Score: 90
Period size: 7 Copynumber: 7.7 Consensus size: 7
48530326 TCCTCAATCC
48530336 TCAATTT
1 TCAATTT
48530343 TCAATTT
1 TCAATTT
*
48530350 TCTATTT
1 TCAATTT
48530357 TCAATTT
1 TCAATTT
*
48530364 TTAATTT
1 TCAATTT
48530371 TCAATTT
1 TCAATTT
48530378 TCAATTT
1 TCAATTT
48530385 TCAAT
1 TCAAT
48530390 CCTCAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.28, C:0.13, G:0.00, T:0.59
Consensus pattern (7 bp):
TCAATTT
Found at i:48530347 original size:21 final size:21
Alignment explanation
Indices: 48530323--48530396 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
48530313 CCTAAATTCC
**
48530323 CAATCCTCAATCCTCAATTTT
1 CAATCCTCAATTTTCAATTTT
** *
48530344 CAATTTTCTATTTTCAATTTT
1 CAATCCTCAATTTTCAATTTT
* **
48530365 TAATTTTCAATTTTCAATTTT
1 CAATCCTCAATTTTCAATTTT
48530386 CAATCCTCAAT
1 CAATCCTCAAT
48530397 AATTTTTTAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.00, T:0.50
Consensus pattern (21 bp):
CAATCCTCAATTTTCAATTTT
Found at i:48530439 original size:15 final size:16
Alignment explanation
Indices: 48530414--48530448 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
48530404 TAAATTCTTT
48530414 TTTGAATTTTATTCTC
1 TTTGAATTTTATTCTC
*
48530430 TTTG-ATTTTATTCTT
1 TTTGAATTTTATTCTC
48530445 TTTG
1 TTTG
48530449 TTATAACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.69
Consensus pattern (16 bp):
TTTGAATTTTATTCTC
Found at i:48532177 original size:54 final size:54
Alignment explanation
Indices: 48532119--48532334 Score: 198
Period size: 54 Copynumber: 3.8 Consensus size: 54
48532109 ACACGCACAC
* * *
48532119 TCATTCCCCACATCATCACCTTTAGCTTCGGTTTATTTTATACAACATGCGCAA
1 TCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATACAACATGCGCAA
* * * ** * *
48532173 TCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAAGCATCATGACACGCACA
1 TCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATAC-A--A-CATG---CGCA-A
48532235 CTCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATACAACATGCGCAA
1 -TCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATACAACATGCGCAA
* * * ** * *
48532290 TCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAA
1 TCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATACAA
48532335 GCATCACGAC
Statistics
Matches: 129, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
54 71 0.55
55 2 0.02
56 4 0.03
57 1 0.01
58 4 0.03
59 4 0.03
60 1 0.01
61 4 0.03
62 2 0.02
63 36 0.28
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.31
Consensus pattern (54 bp):
TCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATACAACATGCGCAA
Found at i:48532272 original size:63 final size:62
Alignment explanation
Indices: 48532168--48532371 Score: 246
Period size: 63 Copynumber: 3.4 Consensus size: 62
48532158 ATACAACATG
48532168 CGCA-ATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAAGCATCATGACA
1 CGCACATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAAGCATCATGACA
* * * ** * *
48532229 CGCACACTCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATAC-A--A-CATG---
1 CGCACA-TCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAAGCATCATGACA
*
48532285 CGCA-ATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAAGCATCACGACA
1 CGCACATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAAGCATCATGACA
*
48532346 CGCACAATCATTCCCTGTATCAACAC
1 CGCAC-ATCATTCCCTGCATCAACAC
48532372 TTTCTCCAGG
Statistics
Matches: 116, Mismatches: 16, Indels: 20
0.76 0.11 0.13
Matches are distributed among these distances:
54 36 0.31
55 2 0.02
56 4 0.03
57 1 0.01
58 3 0.03
59 4 0.03
60 1 0.01
61 8 0.07
62 2 0.02
63 55 0.47
ACGTcount: A:0.32, C:0.33, G:0.08, T:0.27
Consensus pattern (62 bp):
CGCACATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTACACAAGCATCATGACA
Found at i:48532303 original size:117 final size:117
Alignment explanation
Indices: 48532097--48532361 Score: 476
Period size: 117 Copynumber: 2.3 Consensus size: 117
48532087 ATTTTTTTTT
* * * *
48532097 ACAAGCATCACAACACGCACACTCATTCCCCACATCATCACCTTTAGCTTCGGTTTATTTTATAC
1 ACAAGCATCACGACACGCACACTCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATAC
48532162 AACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTAC
66 AACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTAC
*
48532214 ACAAGCATCATGACACGCACACTCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATAC
1 ACAAGCATCACGACACGCACACTCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATAC
48532279 AACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTAC
66 AACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTAC
*
48532331 ACAAGCATCACGACACGCACAATCATTCCCT
1 ACAAGCATCACGACACGCACACTCATTCCCT
48532362 GTATCAACAC
Statistics
Matches: 141, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 141 1.00
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.28
Consensus pattern (117 bp):
ACAAGCATCACGACACGCACACTCATTCCCTACATCATCACCTTCAGCTTCAGTTTATTTTATAC
AACATGCGCAATCATTCCCTGCATCAACACATTCAGCACCAATTTATTTTAC
Found at i:48534432 original size:30 final size:30
Alignment explanation
Indices: 48534396--48534453 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
48534386 AAGAAAATAT
48534396 ATTTTGTTTAACTTGACTTGCAAGCAATTC
1 ATTTTGTTTAACTTGACTTGCAAGCAATTC
48534426 ATTTTGTTTAACTTGACTTGCAAGCAAT
1 ATTTTGTTTAACTTGACTTGCAAGCAAT
48534454 ATATTTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.43
Consensus pattern (30 bp):
ATTTTGTTTAACTTGACTTGCAAGCAATTC
Found at i:48540601 original size:24 final size:24
Alignment explanation
Indices: 48540574--48540622 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
48540564 CTTTCATGAG
48540574 CACTAGCATATTTTCATTTGAGTA
1 CACTAGCATATTTTCATTTGAGTA
48540598 CACTAGCATATTTTCATTTGAGTA
1 CACTAGCATATTTTCATTTGAGTA
48540622 C
1 C
48540623 TTACCCTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (24 bp):
CACTAGCATATTTTCATTTGAGTA
Found at i:48541213 original size:25 final size:25
Alignment explanation
Indices: 48541185--48541245 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
48541175 ATTCATATTC
48541185 GGGAATGCTCATACAAG-CACATAAT
1 GGGAA-GCTCATACAAGCCACATAAT
* * * *
48541210 GGGAAGCTCTTTCGAGCCATATAAT
1 GGGAAGCTCATACAAGCCACATAAT
48541235 GGGAAGCTCAT
1 GGGAAGCTCAT
48541246 GTGAGCCATG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (25 bp):
GGGAAGCTCATACAAGCCACATAAT
Found at i:48541251 original size:25 final size:25
Alignment explanation
Indices: 48541205--48541265 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
48541195 ATACAAGCAC
*
48541205 ATAATGGGAAGCTCTTTCGAGCCAT
1 ATAATGGGAAGCTCTGTCGAGCCAT
48541230 ATAATGGGAAGCTCATGT-GAGCCAT
1 ATAATGGGAAGCTC-TGTCGAGCCAT
* *
48541255 GTAACGGGAAG
1 ATAATGGGAAG
48541266 TTCCGTAGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 30 0.94
26 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (25 bp):
ATAATGGGAAGCTCTGTCGAGCCAT
Found at i:48541360 original size:25 final size:25
Alignment explanation
Indices: 48541329--48541388 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
48541319 TGAGCTAATA
*
48541329 TCGGGAAGCTCCGGAGAGCCTTTAAT
1 TCGGGAAGCTCCGAAGAGCCTTT-AT
**
48541355 T-GGGAAGCTCTTAAGAGCCTTTAT
1 TCGGGAAGCTCCGAAGAGCCTTTAT
48541379 TCGGGAAGCT
1 TCGGGAAGCT
48541389 TCGAGGAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.10
25 26 0.87
26 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (25 bp):
TCGGGAAGCTCCGAAGAGCCTTTAT
Found at i:48541715 original size:20 final size:19
Alignment explanation
Indices: 48541692--48541731 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
48541682 GTCAATTACA
*
48541692 CAATTCACATACATAAGATT
1 CAATTCAAATACATAA-ATT
*
48541712 CAATTCAAATATATAAATT
1 CAATTCAAATACATAAATT
48541731 C
1 C
48541732 TCAATTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.33
Consensus pattern (19 bp):
CAATTCAAATACATAAATT
Found at i:48542392 original size:19 final size:19
Alignment explanation
Indices: 48542360--48542429 Score: 56
Period size: 18 Copynumber: 3.7 Consensus size: 19
48542350 CTTCGTCTCC
**
48542360 TTCTTTCTCCCTTTTCTTT
1 TTCTTTCTTTCTTTTCTTT
48542379 TTCTTTCTTTC-TTTCTTT
1 TTCTTTCTTTCTTTTCTTT
*
48542397 TT-TTCCTTT-TGTTTCGTTT
1 TTCTTTCTTTCT-TTTC-TTT
* *
48542416 TGCTTTGTTTCTTT
1 TTCTTTCTTTCTTT
48542430 CTAATTCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
17 6 0.15
18 13 0.32
19 13 0.32
20 7 0.17
21 1 0.03
ACGTcount: A:0.00, C:0.21, G:0.06, T:0.73
Consensus pattern (19 bp):
TTCTTTCTTTCTTTTCTTT
Found at i:48547002 original size:41 final size:37
Alignment explanation
Indices: 48546900--48547005 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 37
48546890 AATTCAAAGT
* **
48546900 AGTAAATTGACACCCAGTGTCTCCTCGGTTAAACCAA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAAACCAA
* * * *
48546937 AGTAAATTGGCACCTAGTGCCTCATCGAATAATTCCGAA
1 AGTAAATTGACACCCAGTGTCTCATCGAATAA-ACC-AA
*
48546976 GTGATAAATTGACACCCAGTGTCTCATCGA
1 -AG-TAAATTGACACCCAGTGTCTCATCGA
48547006 CTAGAAGTCG
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
37 26 0.48
38 2 0.04
39 2 0.04
40 1 0.02
41 23 0.43
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (37 bp):
AGTAAATTGACACCCAGTGTCTCATCGAATAAACCAA
Found at i:48547897 original size:14 final size:14
Alignment explanation
Indices: 48547878--48547935 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
48547868 GCGTTTCTTC
48547878 TTTCTTTTTCTTTA
1 TTTCTTTTTCTTTA
48547892 TTTC-TTTTCTTTCCAA
1 TTTCTTTTTCTTT---A
* *
48547908 TTTTGTTTTTCTTTC
1 -TTTCTTTTTCTTTA
48547923 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
48547936 TATTATACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
13 8 0.22
14 16 0.44
16 1 0.03
17 3 0.08
18 8 0.22
ACGTcount: A:0.05, C:0.17, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTTTCTTTA
Found at i:48553195 original size:50 final size:46
Alignment explanation
Indices: 48553100--48553203 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 46
48553090 TAAAATTATA
*
48553100 AAAAAATTTTAAATTCTATTCAGAGTTTTATAATTTCAAAGCAAAAT
1 AAAAAA-TTTAAATTCTATTCAGAGTTTTATAATTTCAAAACAAAAT
* **
48553147 ACAAAATTTAAATTCTATTCAGAATGAGTTTTATGCTTTCAAAACAAAAT
1 AAAAAATTTAAATTCTATTC---A-GAGTTTTATAATTTCAAAACAAAAT
48553197 AAAAAAT
1 AAAAAAT
48553204 CTTGTGCCAA
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
46 14 0.29
47 5 0.10
49 1 0.02
50 28 0.58
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.36
Consensus pattern (46 bp):
AAAAAATTTAAATTCTATTCAGAGTTTTATAATTTCAAAACAAAAT
Found at i:48553961 original size:9 final size:9
Alignment explanation
Indices: 48553865--48553950 Score: 54
Period size: 9 Copynumber: 9.6 Consensus size: 9
48553855 CATGTGGCAA
48553865 AAAAATTAT
1 AAAAATTAT
48553874 AAAAA--AT
1 AAAAATTAT
*
48553881 AAAAATCAAT
1 AAAAAT-TAT
*
48553891 AAAAGTTAT
1 AAAAATTAT
48553900 AAAAATTATT
1 AAAAATTA-T
* **
48553910 TAATTTTAAT
1 AAAAATT-AT
48553920 AAAAA-TAT
1 AAAAATTAT
48553928 AAAAA-TATT
1 AAAAATTA-T
*
48553937 AAAAATTAG
1 AAAAATTAT
48553946 AAAAA
1 AAAAA
48553951 AAATTATAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
7 7 0.12
8 9 0.15
9 26 0.43
10 17 0.28
11 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:48554212 original size:11 final size:11
Alignment explanation
Indices: 48554196--48554220 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48554186 CTTTATAAAA
48554196 TTTTATAATTT
1 TTTTATAATTT
48554207 TTTTATAATTT
1 TTTTATAATTT
48554218 TTT
1 TTT
48554221 ACGATTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:48554216 original size:19 final size:20
Alignment explanation
Indices: 48554165--48554218 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
48554155 ATTTCTTTAC
*
48554165 ATTTTTTTATAATTTTCATG
1 ATTTTTTTATAATTTTCATA
* * *
48554185 A-CTTTATAAAATTTT-ATA
1 ATTTTTTTATAATTTTCATA
48554203 ATTTTTTTATAATTTT
1 ATTTTTTTATAATTTT
48554219 TTACGATTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 3
0.72 0.19 0.08
Matches are distributed among these distances:
18 3 0.12
19 22 0.85
20 1 0.04
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTTTTATAATTTTCATA
Found at i:48554297 original size:19 final size:19
Alignment explanation
Indices: 48554268--48554313 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48554258 ATATTTATAT
48554268 TTTTTATTAAAATTTAATCA
1 TTTTTA-TAAAATTTAATCA
* * *
48554288 TTTTTATAAATTTTACTGA
1 TTTTTATAAAATTTAATCA
48554307 TTTTTAT
1 TTTTTAT
48554314 TTTTTAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTATAAAATTTAATCA
Found at i:48557678 original size:20 final size:20
Alignment explanation
Indices: 48557653--48557702 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 20
48557643 CGGCATCACC
48557653 TATAAAAAATAATATTTTAA
1 TATAAAAAATAATATTTTAA
48557673 TATAAATAAAATAATATTTTAA
1 TAT-AA-AAAATAATATTTTAA
*
48557695 TCTAAAAA
1 TATAAAAA
48557703 GGGGTGACGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 6 0.22
21 4 0.15
22 17 0.63
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAAAAAATAATATTTTAA
Found at i:48557685 original size:22 final size:22
Alignment explanation
Indices: 48557658--48557700 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
48557648 TCACCTATAA
48557658 AAAATAATATTTTAATATAAAT
1 AAAATAATATTTTAATATAAAT
*
48557680 AAAATAATATTTTAATCTAAA
1 AAAATAATATTTTAATATAAA
48557701 AAGGGGTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATAATATTTTAATATAAAT
Found at i:48561986 original size:23 final size:23
Alignment explanation
Indices: 48561959--48562002 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
48561949 TTCACACCAA
48561959 AATTTGGATAGCATAAATACATC
1 AATTTGGATAGCATAAATACATC
* *
48561982 AATTTGGGTAGCATATATACA
1 AATTTGGATAGCATAAATACA
48562003 ACAGTTTGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (23 bp):
AATTTGGATAGCATAAATACATC
Found at i:48562010 original size:23 final size:23
Alignment explanation
Indices: 48561959--48562010 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
48561949 TTCACACCAA
*
48561959 AATTTGGATAGCATAAATACATC
1 AATTTGGATAGCATAAATACAAC
* *
48561982 AATTTGGGTAGCATATATACAAC
1 AATTTGGATAGCATAAATACAAC
*
48562005 AGTTTG
1 AATTTG
48562011 AGCAACATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (23 bp):
AATTTGGATAGCATAAATACAAC
Found at i:48562064 original size:23 final size:23
Alignment explanation
Indices: 48562033--48562175 Score: 146
Period size: 23 Copynumber: 6.1 Consensus size: 23
48562023 ACACCAAAAC
*
48562033 TGGATAGCATATATGCAACAAAT
1 TGGACAGCATATATGCAACAAAT
* * *
48562056 TGGGCAGCATTTAAGCATTA-AAAT
1 TGGACAGCATATATGCA--ACAAAT
*
48562080 TGGACAGCATATATGTAACAAAT
1 TGGACAGCATATATGCAACAAAT
*
48562103 TGGACAGCATATATGTAACAAAT
1 TGGACAGCATATATGCAACAAAT
* * *
48562126 TGGATAGCATTTAAT-CATCAAAAT
1 TGGACAGCATAT-ATGCAAC-AAAT
*
48562150 TGGACAGCATATATGTAACAAAT
1 TGGACAGCATATATGCAACAAAT
48562173 TGG
1 TGG
48562176 TTCAACTCAT
Statistics
Matches: 98, Mismatches: 16, Indels: 12
0.78 0.13 0.10
Matches are distributed among these distances:
22 1 0.01
23 61 0.62
24 35 0.36
25 1 0.01
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (23 bp):
TGGACAGCATATATGCAACAAAT
Found at i:48562067 original size:47 final size:48
Alignment explanation
Indices: 48561990--48562112 Score: 124
Period size: 47 Copynumber: 2.6 Consensus size: 48
48561980 TCAATTTGGG
* ** * * *
48561990 TAGCATATATACAACAGTTTGAGCAACATTTTTA-CACCAAAACTGGA
1 TAGCATATATGCAACAAATTGGGCAGCATTTTAAGCACCAAAACTGGA
** *
48562037 TAGCATATATGCAACAAATTGGGCAGCA-TTTAAGCATTAAAATTGGA
1 TAGCATATATGCAACAAATTGGGCAGCATTTTAAGCACCAAAACTGGA
* * *
48562084 CAGCATATATGTAACAAATTGGACAGCAT
1 TAGCATATATGCAACAAATTGGGCAGCAT
48562113 ATATGTAACA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
46 4 0.06
47 58 0.94
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (48 bp):
TAGCATATATGCAACAAATTGGGCAGCATTTTAAGCACCAAAACTGGA
Found at i:48562112 original size:70 final size:70
Alignment explanation
Indices: 48562033--48562175 Score: 232
Period size: 70 Copynumber: 2.0 Consensus size: 70
48562023 ACACCAAAAC
* * *
48562033 TGGATAGCATATATGCAACAAATTGGGCAGCATTTAAGCATTAAAATTGGACAGCATATATGTAA
1 TGGACAGCATATATGCAACAAATTGGACAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
48562098 CAAAT
66 CAAAT
* * *
48562103 TGGACAGCATATATGTAACAAATTGGATAGCATTTAATCATCAAAATTGGACAGCATATATGTAA
1 TGGACAGCATATATGCAACAAATTGGACAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
48562168 CAAAT
66 CAAAT
48562173 TGG
1 TGG
48562176 TTCAACTCAT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 67 1.00
ACGTcount: A:0.41, C:0.13, G:0.18, T:0.28
Consensus pattern (70 bp):
TGGACAGCATATATGCAACAAATTGGACAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
CAAAT
Found at i:48563087 original size:43 final size:43
Alignment explanation
Indices: 48563021--48563145 Score: 150
Period size: 43 Copynumber: 2.9 Consensus size: 43
48563011 AACTCTTACA
* *
48563021 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACGT-A-TCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA--ACATAAGTCG
48563064 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACATAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAACATAAGTCG
48563107 ATGCCAACGTCCCAGACGTGGTCTTACACGATAACACAT
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAA-ACAT
48563146 CTCAGAAATC
Statistics
Matches: 72, Mismatches: 2, Indels: 14
0.82 0.02 0.16
Matches are distributed among these distances:
41 3 0.04
42 4 0.06
43 55 0.76
44 6 0.08
45 4 0.06
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACATAAGTCG
Found at i:48571777 original size:3 final size:3
Alignment explanation
Indices: 48571771--48571825 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
48571761 TAAATAAATA
*
48571771 AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG -AG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
48571818 AAG AAG AA
1 AAG AAG AA
48571826 TGAAAAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:48582070 original size:24 final size:23
Alignment explanation
Indices: 48582039--48582089 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
48582029 CATAATTATC
*
48582039 AAGTTGGCATAGTATAAAATATT
1 AAGTTGGCATAGTACAAAATATT
48582062 AAGTCTGGCATAGTACAAAATATT
1 AAGT-TGGCATAGTACAAAATATT
48582086 AAGT
1 AAGT
48582090 AAAAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.31
Consensus pattern (23 bp):
AAGTTGGCATAGTACAAAATATT
Found at i:48588765 original size:14 final size:14
Alignment explanation
Indices: 48588746--48588773 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48588736 AAACCCTTGC
48588746 AAACTGAGAAAATA
1 AAACTGAGAAAATA
48588760 AAACTGAGAAAATA
1 AAACTGAGAAAATA
48588774 GAGTTTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AAACTGAGAAAATA
Found at i:48592146 original size:12 final size:12
Alignment explanation
Indices: 48592129--48592154 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48592119 CTTATTAAAC
48592129 GTGATTATTCTT
1 GTGATTATTCTT
48592141 GTGATTATTCTT
1 GTGATTATTCTT
48592153 GT
1 GT
48592155 TGATGTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.19, T:0.58
Consensus pattern (12 bp):
GTGATTATTCTT
Found at i:48596756 original size:18 final size:18
Alignment explanation
Indices: 48596716--48596749 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
48596706 AATGGCATAG
*
48596716 AAAT-AATATAAACAAAC
1 AAATAAATAAAAACAAAC
48596733 AAATAAATAAAAACAAA
1 AAATAAATAAAAACAAA
48596750 TCAATAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (18 bp):
AAATAAATAAAAACAAAC
Found at i:48596938 original size:30 final size:30
Alignment explanation
Indices: 48596902--48596958 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
48596892 CATGTACATA
*
48596902 TATAAAAAA-ATTATATACATATATATAGAT
1 TATAAAAAAGATAAT-TACATATATATAGAT
48596932 TATAAAAAAGATAATTACATATATATA
1 TATAAAAAAGATAATTACATATATATA
48596959 TAAACAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.35
Consensus pattern (30 bp):
TATAAAAAAGATAATTACATATATATAGAT
Found at i:48597018 original size:23 final size:23
Alignment explanation
Indices: 48596992--48597035 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
48596982 ATATTAAAAT
**
48596992 TAATTAATTTAGAATAATATATA
1 TAATTAATGAAGAATAATATATA
*
48597015 TAATTTATGAAGAATAATATA
1 TAATTAATGAAGAATAATATA
48597036 AGAAAACATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (23 bp):
TAATTAATGAAGAATAATATATA
Done.