Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 154 of 203
Found at i:48961429 original size:17 final size:17
Alignment explanation
Indices: 48961407--48961443 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
48961397 AATTTACATA
48961407 TTTTA-TAATTAAATAAT
1 TTTTATTAA-TAAATAAT
48961424 TTTTATTAATAAATAAT
1 TTTTATTAATAAATAAT
48961441 TTT
1 TTT
48961444 CAAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTTATTAATAAATAAT
Found at i:48964211 original size:22 final size:22
Alignment explanation
Indices: 48964186--48964227 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
48964176 TAATGAAATG
48964186 ACAGCAAAACAGTGAGAAAACA
1 ACAGCAAAACAGTGAGAAAACA
*
48964208 ACAGCAAAACTGTGAGAAAA
1 ACAGCAAAACAGTGAGAAAA
48964228 TGGCAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.17, G:0.19, T:0.07
Consensus pattern (22 bp):
ACAGCAAAACAGTGAGAAAACA
Found at i:48966096 original size:22 final size:21
Alignment explanation
Indices: 48966046--48966096 Score: 61
Period size: 20 Copynumber: 2.4 Consensus size: 21
48966036 TATAAAATAT
48966046 TAAAAAATATAAATACTTTGA
1 TAAAAAATATAAATACTTTGA
*
48966067 -AAAAAATATAAATTA-TTTTA
1 TAAAAAATATAAA-TACTTTGA
48966087 TAAAATAATA
1 TAAAA-AATA
48966097 ATATTTTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 16 0.62
21 6 0.23
22 4 0.15
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAAAAATATAAATACTTTGA
Found at i:48969665 original size:4 final size:4
Alignment explanation
Indices: 48969656--48969744 Score: 97
Period size: 4 Copynumber: 22.2 Consensus size: 4
48969646 GAGAATTTGT
* **
48969656 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGCA TGCC
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* * * * * *
48969704 TGCA TGTA TGCA TGCA TGCA TGCA TGCA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
48969745 ACTTGTGTGT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 79 1.00
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.42
Consensus pattern (4 bp):
TGTA
Found at i:48972927 original size:25 final size:25
Alignment explanation
Indices: 48972899--48972948 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
48972889 GAATTGTTCC
*
48972899 AGAAACCTTTAT-ATGGATTTATTTG
1 AGAAACCTTTATGGT-GATTTATTTG
*
48972924 AGAAGCCTTTATGGTGATTTATTTG
1 AGAAACCTTTATGGTGATTTATTTG
48972949 GGGAAGCCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 21 0.95
26 1 0.05
ACGTcount: A:0.28, C:0.08, G:0.20, T:0.44
Consensus pattern (25 bp):
AGAAACCTTTATGGTGATTTATTTG
Found at i:48972995 original size:51 final size:51
Alignment explanation
Indices: 48972926--48973091 Score: 199
Period size: 51 Copynumber: 3.3 Consensus size: 51
48972916 TTTATTTGAG
* *
48972926 AAGCCTTTATGGTGATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
1 AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
* * * *
48972977 AATCCTTTGTGGTAATTTATTTGGGAAAGCCTTTGTGCCAAGTCACTTGTA
1 AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
* * * * * *
48973028 CAGCCTTTGTGGCAATTTA-TTCGGGAAGCCTTTGTGGCAGGTTATCTGTA
1 AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
* *
48973078 ACGCCTTTATGGTA
1 AAGCCTTTGTGGTA
48973092 GGCTACCTGT
Statistics
Matches: 95, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
50 34 0.36
51 61 0.64
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (51 bp):
AAGCCTTTGTGGTAATTTATTTGGGGAAGCCTTTGTGGCAAGTCACCTGTA
Found at i:48973057 original size:25 final size:24
Alignment explanation
Indices: 48972915--48973066 Score: 81
Period size: 25 Copynumber: 6.0 Consensus size: 24
48972905 CTTTATATGG
* * **
48972915 ATTTATTTGAGAAGCCTTTATGGTG
1 ATTTA-TTGGGAAGCCTTTGTGGCA
48972940 ATTTATTTGGGGAAGCCTTTGTGGCA
1 ATTTA-TT-GGGAAGCCTTTGTGGCA
* * * ** * *
48972966 AGTCACCTGTAAATCCTTTGTGGTA
1 ATTTA-TTGGGAAGCCTTTGTGGCA
*
48972991 ATTTATTTGGGAAAGCCTTTGTGCCA
1 ATTTA-TTGGG-AAGCCTTTGTGGCA
* * *
48973017 AGTCACTT-GTACAGCCTTTGTGGCA
1 ATTTA-TTGGGA-AGCCTTTGTGGCA
48973042 ATTTATTCGGGAAGCCTTTGTGGCA
1 ATTTATT-GGGAAGCCTTTGTGGCA
48973067 GGTTATCTGT
Statistics
Matches: 93, Mismatches: 29, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
24 3 0.03
25 55 0.59
26 35 0.38
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.38
Consensus pattern (24 bp):
ATTTATTGGGAAGCCTTTGTGGCA
Found at i:48973115 original size:25 final size:25
Alignment explanation
Indices: 48973053--48973115 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 25
48973043 TTTATTCGGG
* * *
48973053 AAGCCTTTGTGGCAGGTTATCTGTA
1 AAGCCTTTGTGGTAGGCTACCTGTA
* *
48973078 ACGCCTTTATGGTAGGCTACCTGTA
1 AAGCCTTTGTGGTAGGCTACCTGTA
*
48973103 AAGCCTATGTGGT
1 AAGCCTTTGTGGT
48973116 GTAATGTCTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (25 bp):
AAGCCTTTGTGGTAGGCTACCTGTA
Found at i:48975450 original size:17 final size:18
Alignment explanation
Indices: 48975415--48975450 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
48975405 CTCAAAAGAC
*
48975415 ATTATTTTAAAAATATAT
1 ATTATTTAAAAAATATAT
48975433 ATTATTTAAAAAAT-TAT
1 ATTATTTAAAAAATATAT
48975450 A
1 A
48975451 AAAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTATTTAAAAAATATAT
Found at i:48976177 original size:6 final size:7
Alignment explanation
Indices: 48976140--48976183 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
48976130 ATATTTGAAA
*
48976140 TTTAATC
1 TTTAATT
* *
48976147 TTTGATC
1 TTTAATT
48976154 TTTAAGTT
1 TTTAA-TT
48976162 TTTAATT
1 TTTAATT
48976169 TTTAATT
1 TTTAATT
48976176 TTTAATT
1 TTTAATT
48976183 T
1 T
48976184 AATAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (7 bp):
TTTAATT
Found at i:48981427 original size:15 final size:16
Alignment explanation
Indices: 48981407--48981460 Score: 58
Period size: 15 Copynumber: 3.3 Consensus size: 16
48981397 ATTGAATATT
48981407 AATAT-TTAAATAATA
1 AATATATTAAATAATA
*
48981422 AATATTTATTACAATTATA
1 AATA--TATTA-AATAATA
48981441 AATATATT-AATAATA
1 AATATATTAAATAATA
48981456 AATAT
1 AATAT
48981461 TTTGTAGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
15 15 0.45
17 5 0.15
18 3 0.09
19 10 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (16 bp):
AATATATTAAATAATA
Found at i:48992804 original size:36 final size:36
Alignment explanation
Indices: 48992757--48992829 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
48992747 TTTTTAAAAC
48992757 AAATAAACGAAGCAAAGAAGAAGGGGAAAAGTTCTT
1 AAATAAACGAAGCAAAGAAGAAGGGGAAAAGTTCTT
48992793 AAATAAACGAAGCAAAGAAGAAGGGGAAAAGTTCTT
1 AAATAAACGAAGCAAAGAAGAAGGGGAAAAGTTCTT
48992829 A
1 A
48992830 CCGGTGGCAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.53, C:0.08, G:0.25, T:0.14
Consensus pattern (36 bp):
AAATAAACGAAGCAAAGAAGAAGGGGAAAAGTTCTT
Found at i:48993385 original size:3 final size:3
Alignment explanation
Indices: 48993377--48993415 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
48993367 TTTCAATAGA
48993377 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48993416 TCCATACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:48995208 original size:16 final size:16
Alignment explanation
Indices: 48995184--48995218 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
48995174 TTGTGTTTTG
*
48995184 TTTTGACTGCATGACA
1 TTTTCACTGCATGACA
*
48995200 TTTTCACTGCATGGCA
1 TTTTCACTGCATGACA
48995216 TTT
1 TTT
48995219 CATTATAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (16 bp):
TTTTCACTGCATGACA
Found at i:48998924 original size:17 final size:17
Alignment explanation
Indices: 48998902--48998936 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
48998892 TTTGACTCGT
*
48998902 ATGCTTTGATGTAAGTG
1 ATGCTTCGATGTAAGTG
48998919 ATGCTTCGATGTAAGTG
1 ATGCTTCGATGTAAGTG
48998936 A
1 A
48998937 AAGCCTAAGT
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:0.26, C:0.09, G:0.29, T:0.37
Consensus pattern (17 bp):
ATGCTTCGATGTAAGTG
Found at i:49014508 original size:18 final size:19
Alignment explanation
Indices: 49014461--49014508 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 19
49014451 AAAATAATTT
49014461 TAAAA-AATTA-AAGTTAA
1 TAAAATAATTATAAGTTAA
49014478 TAAAAT--TTAATAAGTTAA
1 TAAAATAATT-ATAAGTTAA
49014496 -AAAATAATTATAA
1 TAAAATAATTATAA
49014509 AAGAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 2 0.08
17 11 0.42
18 11 0.42
19 2 0.08
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (19 bp):
TAAAATAATTATAAGTTAA
Found at i:49017337 original size:29 final size:30
Alignment explanation
Indices: 49017305--49017393 Score: 81
Period size: 31 Copynumber: 3.0 Consensus size: 30
49017295 TTGGTTTAAT
49017305 GTGCAATTGTATACATG-AACTTTAATTTG
1 GTGCAATTGTATACATGAAACTTTAATTTG
* * ** *
49017334 GTGCAGTTATACGCATGAAACTCTAATTGTG
1 GTGCAATTGTATACATGAAACTTTAATT-TG
* * **
49017365 GTTCAAATGTATATTTGAAACTTTAATTT
1 GTGCAATTGTATACATGAAACTTTAATTT
49017394 TGATTTAATC
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
29 13 0.30
30 10 0.23
31 21 0.48
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (30 bp):
GTGCAATTGTATACATGAAACTTTAATTTG
Found at i:49025723 original size:22 final size:21
Alignment explanation
Indices: 49025698--49025742 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
49025688 TTATTTTTTT
49025698 TATTCTCAAATTTCTTCT-TTAC
1 TATTCTC-AATTTCTT-TATTAC
*
49025720 TATTTTCAATTTCTTTATTAC
1 TATTCTCAATTTCTTTATTAC
49025741 TA
1 TA
49025743 AATTTGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.05
21 14 0.67
22 6 0.29
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (21 bp):
TATTCTCAATTTCTTTATTAC
Found at i:49033304 original size:21 final size:19
Alignment explanation
Indices: 49033271--49033323 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 19
49033261 CATATCTTCT
49033271 AAGATTGCATATCATATCC
1 AAGATTGCATATCATATCC
*
49033290 AAGATTGTACATATCATATCT
1 AAGATTG--CATATCATATCC
49033311 AAGATTGCATATC
1 AAGATTGCATATC
49033324 CTTGAAGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (19 bp):
AAGATTGCATATCATATCC
Found at i:49034190 original size:88 final size:88
Alignment explanation
Indices: 49034096--49034852 Score: 878
Period size: 88 Copynumber: 8.6 Consensus size: 88
49034086 ATTTGTAATC
* * * * * * * *
49034096 TTTAACCTGCTCCACTGCCACCGAGAGAGGCCAGGCTAGTGTCTTCGATCTGTTTCAG-TGTCAG
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-GCTGTCGG
* * * *
49034160 TACAGAAAGGCAATATCTGCTATC
65 TGCAGGAAGGCAAGATCTGCTATT
* * * * * * * *
49034184 TTTAACCTGCTTCGCTGCCACCGAGGGAGGCAAGGTTAGTGTCTTCGATCTACTCCGCT-AC--T
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
** *
49034246 GCTTAGGGAA-ATAAGATTTG-TAATT
66 GC--A-GGAAGGCAAGATCTGCT-ATT
* * * ** * ** * * * *
49034271 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGAGTCTTTGATCTGCTTCGCTGTCAGT
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
49034336 GCAGGAAGGCAAGATCTGCTATT
66 GCAGGAAGGCAAGATCTGCTATT
* * * *
49034359 TTTAACCTGCTCCACTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCCGC
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
49034424 GCAGGAAGGCAAGATCTACTATT
66 GCAGGAAGGCAAGATCTGCTATT
* * * *
49034447 TTTAACCTGCTCCGCTGCAACCCAGGGATGTAAGGCTGGTGTCTTCGATCTGGTTCGCTGTCGGC
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
49034512 GCAGAAAGGCAAGATCTGCTATT
66 GCAGGAAGGCAAGATCTGCTATT
* * *
49034535 TTTAACCTGCTCCGCTGTAACCCAGAGAGGCAAAGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
49034600 GTAGGAAGGCAAGATCTGCTATT
66 GCAGGAAGGCAAGATCTGCTATT
* *
49034623 TTTATCCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGC
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
49034688 GCAGGAAGGTAAGATCTGCTATT
66 GCAGGAAGGCAAGATCTGCTATT
* *
49034711 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTATCTTCGATCTGCTTCGCTGTCGAT
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
*
49034776 GCAGGAAGGCAAGATCTGCTATC
66 GCAGGAAGGCAAGATCTGCTATT
* * * * * *
49034799 TTCAACCTACTCCACTACAACCTAGGGAGGCAAGGCTGGTATCTTCGATCTGCT
1 TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCT
49034853 CTCCGAGGAA
Statistics
Matches: 575, Mismatches: 84, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
85 2 0.00
86 1 0.00
87 59 0.10
88 509 0.89
89 1 0.00
90 3 0.01
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (88 bp):
TTTAACCTGCTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGT
GCAGGAAGGCAAGATCTGCTATT
Found at i:49040276 original size:51 final size:50
Alignment explanation
Indices: 49040181--49040298 Score: 116
Period size: 51 Copynumber: 2.3 Consensus size: 50
49040171 TTATAAAACT
** *
49040181 TATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATA-AATA
1 TATA-ATATAAAATACATAATGCATTTACAAAAAAAAGGAAAATATATAA-A
* * * *
49040232 TATACATATAAAATATATTCATGCATTTACAAAAAAAATG-AAATATATAAG
1 TATA-ATATAAAATACA-TAATGCATTTACAAAAAAAAGGAAAATATATAAA
49040283 TATAATATAAAA-ACAT
1 TATAATATAAAATACAT
49040299 GAAAAATATT
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
48 1 0.02
49 2 0.04
50 8 0.14
51 26 0.46
52 19 0.34
ACGTcount: A:0.57, C:0.07, G:0.06, T:0.31
Consensus pattern (50 bp):
TATAATATAAAATACATAATGCATTTACAAAAAAAAGGAAAATATATAAA
Found at i:49040562 original size:3 final size:3
Alignment explanation
Indices: 49040554--49040593 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
49040544 ATATGTAGGT
49040554 ATA ATA ATA ATA ATA TATA AT- ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA A
49040594 CAAAATTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 30 0.86
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:49040569 original size:24 final size:21
Alignment explanation
Indices: 49040553--49040593 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
49040543 TATATGTAGG
49040553 TATAATAATAATAATATATAA
1 TATAATAATAATAATATATAA
49040574 TATAATAATAATAATA-ATAA
1 TATAATAATAATAATATATAA
49040594 CAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TATAATAATAATAATATATAA
Found at i:49040603 original size:24 final size:24
Alignment explanation
Indices: 49040554--49040609 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
49040544 ATATGTAGGT
* *
49040554 ATAATAATAATAATATATAATATA
1 ATAATAATAATAATACAAAATATA
49040578 ATAATAATAATAATAACAAAAT-TA
1 ATAATAATAATAAT-ACAAAATATA
49040602 ATAA-AATA
1 ATAATAATA
49040610 GACTAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 4 0.14
24 20 0.69
25 5 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (24 bp):
ATAATAATAATAATACAAAATATA
Found at i:49041088 original size:21 final size:19
Alignment explanation
Indices: 49041052--49041126 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
49041042 AATCATATCT
49041052 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
49041071 TCCAAGATTGCACATATCATA
1 TCTAAGATTG--CATATCATA
49041092 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
49041111 TCTAAGGTTGCATATC
1 TCTAAGATTGCATATC
49041127 CTTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:49041100 original size:40 final size:38
Alignment explanation
Indices: 49041045--49041122 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 38
49041035 ATTACAAAAT
49041045 CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
1 CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
* *
49041083 CATATCATATCTAAGATTGCATATCATATCTAAGGTTGCA
1 CATATC-T-TCTAAGATTGCATATCATATCCAAGATTGCA
49041123 TATCCTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 6 0.17
39 1 0.03
40 29 0.81
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (38 bp):
CATATCTTCTAAGATTGCATATCATATCCAAGATTGCA
Found at i:49051281 original size:28 final size:27
Alignment explanation
Indices: 49051249--49051308 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
49051239 ACAAAAATTC
* *
49051249 ATTATGATTCAAATATTAATATTAATA
1 ATTATAATTCAAATAATAATATTAATA
* *
49051276 TATTATAATTTAAATAATATTATTAATA
1 -ATTATAATTCAAATAATAATATTAATA
49051304 ATTAT
1 ATTAT
49051309 TACAAGTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTATAATTCAAATAATAATATTAATA
Found at i:49052424 original size:17 final size:17
Alignment explanation
Indices: 49052402--49052435 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
49052392 ATATTTTGTA
49052402 ATTTTATATTTATCCTT
1 ATTTTATATTTATCCTT
49052419 ATTTTATATTTATCCTT
1 ATTTTATATTTATCCTT
49052436 GCTATACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATATTTATCCTT
Found at i:49052677 original size:13 final size:13
Alignment explanation
Indices: 49052647--49052671 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49052637 TAACTTTTAA
49052647 AAAAATTAAAAAG
1 AAAAATTAAAAAG
49052660 AAAAATTAAAAA
1 AAAAATTAAAAA
49052672 TTAAAAGGCA
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:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATTAAAAAG
Found at i:49062233 original size:15 final size:14
Alignment explanation
Indices: 49062212--49062247 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
49062202 ATAATCGTTA
*
49062212 ATAATTATCTTAAT
1 ATAATTATCCTAAT
49062226 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
49062241 ATAATTA
1 ATAATTA
49062248 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:49062809 original size:14 final size:14
Alignment explanation
Indices: 49062790--49062816 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49062780 CTAAATTATA
49062790 TTTTTTTCTTTTTC
1 TTTTTTTCTTTTTC
49062804 TTTTTTTCTTTTT
1 TTTTTTTCTTTTT
49062817 TATTTATTTT
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:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTTTCTTTTTC
Found at i:49062826 original size:16 final size:14
Alignment explanation
Indices: 49062788--49062826 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
49062778 CCCTAAATTA
49062788 TATTTTTTTCTTTT
1 TATTTTTTTCTTTT
*
49062802 TCTTTTTTTCTTTTT
1 TATTTTTTTC-TTTT
49062817 TATTTATTTT
1 TATTT-TTTT
49062827 GATTTTGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 9 0.43
15 8 0.38
16 4 0.19
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (14 bp):
TATTTTTTTCTTTT
Found at i:49064294 original size:5 final size:5
Alignment explanation
Indices: 49064284--49064335 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
49064274 GTTGTAAAAT
* *
49064284 AATAA AATAA AATAA AGTAATA AATAA AGT-A AATAA AATAA AAT-A AATAA
1 AATAA AATAA AATAA AAT-A-A AATAA AATAA AATAA AATAA AATAA AATAA
49064334 AA
1 AA
49064336 ATTGGGTTGC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 7 0.18
5 27 0.69
6 2 0.05
7 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:49064335 original size:9 final size:9
Alignment explanation
Indices: 49064278--49064335 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
49064268 AAATAAGTTG
49064278 TAAAAT-AA
1 TAAAATAAA
49064286 TAAAATAAAA
1 TAAAAT-AAA
*
49064296 TAAAGT-AA
1 TAAAATAAA
49064304 T-AAATAAA
1 TAAAATAAA
49064312 GT-AAATAAAA
1 -TAAAAT-AAA
49064322 TAAAATAAA
1 TAAAATAAA
49064331 TAAAA
1 TAAAA
49064336 ATTGGGTTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
7 3 0.07
8 11 0.26
9 14 0.33
10 14 0.33
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (9 bp):
TAAAATAAA
Found at i:49069652 original size:28 final size:28
Alignment explanation
Indices: 49069608--49069679 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 28
49069598 TAAAAAAATT
* *
49069608 AGCACTAAGTGTACGAGTTTAATTGTGA
1 AGCACTAAGTGTGCGAGTTTAATTATGA
* *
49069636 AGCACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTATGA
49069664 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
49069680 ACTTATTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATTATGA
Found at i:49072312 original size:38 final size:37
Alignment explanation
Indices: 49072261--49072338 Score: 129
Period size: 38 Copynumber: 2.1 Consensus size: 37
49072251 GTGTTGGGGC
**
49072261 AAGTACAATAATTGAGTTTGTTATAAATGTAGATCGGA
1 AAGTACAATAATTGAGTTTCCTATAAATGTAGATC-GA
49072299 AAGTACAATAATTGAGTTTCCTATAAATGTAGATCGA
1 AAGTACAATAATTGAGTTTCCTATAAATGTAGATCGA
49072336 AAG
1 AAG
49072339 ATCATTTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 5 0.13
38 33 0.87
ACGTcount: A:0.41, C:0.08, G:0.19, T:0.32
Consensus pattern (37 bp):
AAGTACAATAATTGAGTTTCCTATAAATGTAGATCGA
Found at i:49078197 original size:18 final size:18
Alignment explanation
Indices: 49078168--49078212 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
49078158 AATTATAAAA
49078168 TATAAAATATATATATGAAT
1 TATAAAATATATATAT--AT
*
49078188 TATAAAATATGTATATAT
1 TATAAAATATATATATAT
49078206 TATAAAA
1 TATAAAA
49078213 AAACGTATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 9 0.38
20 15 0.62
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (18 bp):
TATAAAATATATATATAT
Found at i:49079327 original size:25 final size:22
Alignment explanation
Indices: 49079279--49079321 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
49079269 GTAGGCAGGG
49079279 GTTAGGTGCGACGATGACAGAA
1 GTTAGGTGCGACGATGACAGAA
* *
49079301 GTTAGGTGCGGCGATGGCAGA
1 GTTAGGTGCGACGATGACAGA
49079322 GCAAGTGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.42, T:0.19
Consensus pattern (22 bp):
GTTAGGTGCGACGATGACAGAA
Found at i:49080141 original size:44 final size:43
Alignment explanation
Indices: 49080035--49080226 Score: 117
Period size: 44 Copynumber: 4.4 Consensus size: 43
49080025 GTCTGATGCG
* * **
49080035 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCCATCATT-TT-A
1 ATCTGCTCCACTGCAACTTCAG-GAGATAGGATTGAT--TTCTTCA
* * **
49080079 ATCCGCTTCACTATAACTTCAGGAAGATAGGATTGATTTCTTCA
1 ATCTGCTCCACTGCAACTTCAGG-AGATAGGATTGATTTCTTCA
* * *
49080123 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGA----TGCG
1 ATCTGCTCCACTGCAACTTCA-GGAGATAGGATT-GATTTCTTCA
* * * **
49080164 ATCTGCTCTACTGCAATTTCAAGGAGATAGGATTGGTTTCTTTT
1 ATCTGCTCCACTGCAACTTC-AGGAGATAGGATTGATTTCTTCA
* *
49080208 GTCTACTCCACTGCAACTT
1 ATCTGCTCCACTGCAACTT
49080227 TAGGGGATGA
Statistics
Matches: 112, Mismatches: 26, Indels: 20
0.71 0.16 0.13
Matches are distributed among these distances:
40 1 0.01
41 31 0.28
42 3 0.03
43 3 0.03
44 70 0.62
45 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.33
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGAGATAGGATTGATTTCTTCA
Found at i:49080432 original size:99 final size:100
Alignment explanation
Indices: 49080315--49080661 Score: 450
Period size: 99 Copynumber: 3.5 Consensus size: 100
49080305 TGATTAACTA
* ** * * *
49080315 CAATGTCAGGGAAACAAGATTCGTCGTTGTA-CTTCAATCTATTCTATTGCACCGCTAGAGAAGT
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCTAGGGAAGT
*
49080379 AAGATTCGCTATTGTGGCTTCAATCTTTTTAATTG
66 AAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTG
* * * *
49080414 CAATGTCGGGGAAGCAAGATTCACCGTT-TAGCTTCAATATATTCCACTGCACTGCCAGGGAAGT
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCTAGGGAAGT
*
49080478 AAGATTCG-TCGTTGTGGCTTCAATATTTTTAATTG
66 AAGATTCGCT-GTTGTGGCTTCAATCTTTTTAATTG
* * * * * *
49080513 CAATGTCGGGGAAGCAAGATTCATCGTTGTAGCTTTAATCTGTTCCACTGCATC-ATCAGGGAAG
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCT-AGGGAAG
* *
49080577 TAAGATTTGCTGTTATGGCTTCAATCTTTTTAATTG
65 TAAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTG
* *
49080613 CAAAGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTACTCCACT
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACT
49080662 ACACTGCCAG
Statistics
Matches: 214, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
98 3 0.01
99 109 0.51
100 101 0.47
101 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (100 bp):
CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTATTCCACTGCACCGCTAGGGAAGT
AAGATTCGCTGTTGTGGCTTCAATCTTTTTAATTG
Found at i:49080433 original size:50 final size:50
Alignment explanation
Indices: 49080315--49080653 Score: 244
Period size: 50 Copynumber: 6.8 Consensus size: 50
49080305 TGATTAACTA
* *
49080315 CAATGTCAGGGAAACAAGATTCG-TCGTTGTA-CTTCAATCTATTCT-ATTG
1 CAATGTCAGGGAAGCAAGATTCGCT-GTTGTAGCTTCAATCT-TTTTAATTG
** * * * *
49080364 CACCG-CTAGAGAAGTAAGATTCGCTATTGTGGCTTCAATCTTTTTAATTG
1 CAATGTC-AGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTTTTTAATTG
* * * * * ** *
49080414 CAATGTCGGGGAAGCAAGATTCACCGTT-TAGCTTCAATATATTCCACTG
1 CAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTTTTTAATTG
* * * * *
49080463 CACTGCCAGGGAAGTAAGATTCG-TCGTTGTGGCTTCAATATTTTTAATTG
1 CAATGTCAGGGAAGCAAGATTCGCT-GTTGTAGCTTCAATCTTTTTAATTG
* * * * ** *
49080513 CAATGTCGGGGAAGCAAGATTC-ATCGTTGTAGCTTTAATCTGTTCCACTG
1 CAATGTCAGGGAAGCAAGATTCGCT-GTTGTAGCTTCAATCTTTTTAATTG
* * * * *
49080563 C-ATCATCAGGGAAGTAAGATTTGCTGTTATGGCTTCAATCTTTTTAATTG
1 CAAT-GTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTTTTTAATTG
* * *
49080613 CAAAGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCT
1 CAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCT
49080654 ACTCCACTAC
Statistics
Matches: 215, Mismatches: 64, Indels: 21
0.72 0.21 0.07
Matches are distributed among these distances:
48 1 0.00
49 61 0.28
50 150 0.70
51 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (50 bp):
CAATGTCAGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTTTTTAATTG
Found at i:49081920 original size:19 final size:18
Alignment explanation
Indices: 49081898--49081948 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
49081888 TTGGCCTCTC
49081898 CTTTTGACTTTTTCATTCT
1 CTTTT-ACTTTTTCATTCT
* *
49081917 CTTTTTTCTTTTTC-TTTT
1 C-TTTTACTTTTTCATTCT
49081935 CTTTTA-TTTTTCAT
1 CTTTTACTTTTTCAT
49081949 CATCTTCATT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 6 0.22
17 5 0.19
18 4 0.15
19 8 0.30
20 4 0.15
ACGTcount: A:0.08, C:0.18, G:0.02, T:0.73
Consensus pattern (18 bp):
CTTTTACTTTTTCATTCT
Found at i:49086097 original size:20 final size:18
Alignment explanation
Indices: 49086072--49086116 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 18
49086062 AAATTATAAA
49086072 TATAAAATATATATATGAAT
1 TATAAAATATATATAT--AT
* *
49086092 TATAAATTATGTATATAT
1 TATAAAATATATATATAT
49086110 TATAAAA
1 TATAAAA
49086117 AGAAACGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 8 0.36
20 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TATAAAATATATATATAT
Found at i:49087218 original size:22 final size:22
Alignment explanation
Indices: 49087192--49087234 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49087182 GTGGGAAGGG
*
49087192 GTTAGGTACGGCGATGACAGAA
1 GTTAGGTACGACGATGACAGAA
* *
49087214 GTTAGGTCCGACGATGGCAGA
1 GTTAGGTACGACGATGACAGA
49087235 GCAAGTGGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.37, T:0.19
Consensus pattern (22 bp):
GTTAGGTACGACGATGACAGAA
Found at i:49089800 original size:26 final size:23
Alignment explanation
Indices: 49089751--49089806 Score: 58
Period size: 26 Copynumber: 2.3 Consensus size: 23
49089741 ACTTCAAATC
* *
49089751 TTTTTTAATAATAATATCTCATA
1 TTTTTTAATAATAATATATAATA
49089774 TTTTTTATATATATAAATATATAATA
1 TTTTTTA-ATA-AT-AATATATAATA
49089800 TATTTTT
1 T-TTTTT
49089807 TTAGTATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 3 0.11
25 2 0.07
26 10 0.37
27 5 0.19
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTTTAATAATAATATATAATA
Found at i:49091909 original size:15 final size:14
Alignment explanation
Indices: 49091872--49091899 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
49091862 TAAAACATAT
49091872 GAAACAAAAAAAAA
1 GAAACAAAAAAAAA
49091886 GAAACAAAAAAAAA
1 GAAACAAAAAAAAA
49091900 CTATACAAAA
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:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (14 bp):
GAAACAAAAAAAAA
Found at i:49092039 original size:3 final size:3
Alignment explanation
Indices: 49092031--49092088 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
49092021 ATACATGTTG
49092031 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49092079 ATA ATA ATA A
1 ATA ATA ATA A
49092089 CAGAATGACT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49094063 original size:264 final size:264
Alignment explanation
Indices: 49093622--49094178 Score: 979
Period size: 264 Copynumber: 2.1 Consensus size: 264
49093612 CTTCGATATA
*
49093622 CTTCACGCCAATACATGAAGACAAGATCTGCTTTTTCAATCGATTCCACTGCCGACCGGGGAGGT
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCAATCGATTCCACTGCCGACCGGGGAGGT
*
49093687 AGAATTGCTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCGATCT
49093752 GCTCAACTACTACTTAGGGAGGCAAGATCTGTAATCTTCAATCTACTTCGCCGCCGGTATGGGAA
131 GCTCAACTACTACTTAGGGAGGCAAGATCTGTAATCTTCAATCTACTTCGCCGCCGGTATGGGAA
* * *
49093817 GATAAAATATGTATATTTGATCCACTTTGCTACCAATACCGGAAGACAGGACCTACTAACTTTGA
196 GATAAAATATGTATATTCGATCCACTTCGCTACCAATACAGGAAGACAGGACCTACTAACTTTGA
49093882 TCTC
261 TCTC
**
49093886 CTTCACGCCAGTACATGAAGACGGGATCTGCTTTTTCAATCGATTCCACTGCCGACCGGGGAGGT
1 CTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCAATCGATTCCACTGCCGACCGGGGAGGT
49093951 AGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCGATCT
66 AGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCGATCT
* *
49094016 GCTCCACTACTGCTTAGGGAGGCAAGATCTGTAATCTTCAATCTACTTCGCCGCCGGTATGGGAA
131 GCTCAACTACTACTTAGGGAGGCAAGATCTGTAATCTTCAATCTACTTCGCCGCCGGTATGGGAA
* * *
49094081 GATAAAATATGTATATTCGATCCACTTCGCTACCAATATAGGAAGACATGACCTACTATCTTTGA
196 GATAAAATATGTATATTCGATCCACTTCGCTACCAATACAGGAAGACAGGACCTACTAACTTTGA
49094146 TCTC
261 TCTC
* * *
49094150 TTTCAAGCCAGTACATGAAGACACGATCT
1 CTTCACGCCAGTACATGAAGACAAGATCT
49094179 ATTTTCTTCA
Statistics
Matches: 277, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
264 277 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (264 bp):
CTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCAATCGATTCCACTGCCGACCGGGGAGGT
AGAATTACTGGCTTCAATATACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCGATCT
GCTCAACTACTACTTAGGGAGGCAAGATCTGTAATCTTCAATCTACTTCGCCGCCGGTATGGGAA
GATAAAATATGTATATTCGATCCACTTCGCTACCAATACAGGAAGACAGGACCTACTAACTTTGA
TCTC
Found at i:49094359 original size:89 final size:89
Alignment explanation
Indices: 49094140--49095072 Score: 1210
Period size: 89 Copynumber: 10.5 Consensus size: 89
49094130 GACCTACTAT
* * ** ** *
49094140 CTTTGATCT-CTTTCAAGCC-AGTACATGAAGACACGATCTATTTTCTTCAACCTACTCCACCAC
1 CTTTGATCTAC-TTCACGCCGA-TACATGAAGACAAGATCTGCTTTCTTTTATCTACTCCACCAC
*
49094203 CAGTATGGGGAGACAAGATCTGTT-T
64 CAGTATGGGGAGACAAGATCTGTTGA
* * * * *
49094228 CTTTGATCTATTTCACGCC-AGTACATGAAGACAAGATCTGCTTTCTTTGATCTGCTACGCCACC
1 CTTTGATCTACTTCACGCCGA-TACATGAAGACAAGATCTGCTTTCTTTTATCTACTCCACCACC
* *
49094292 AATATGGGAAGACAAGATCTGTTGA
65 AGTATGGGGAGACAAGATCTGTTGA
*
49094317 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATTTGCTTTCTTTTATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTTTATCTACTCCACCACCA
49094382 GTATGGGGAGACAAGATCTGTTGA
66 GTATGGGGAGACAAGATCTGTTGA
*
49094406 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATTTGCTTTCTTTTATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTTTATCTACTCCACCACCA
49094471 GTATGGGGAGACAAGATCTGTTGA
66 GTATGGGGAGACAAGATCTGTTGA
*
49094495 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATTTGCTTTCTTTTATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTTTATCTACTCCACCACCA
49094560 GTATGGGGAGACAAGATCTGTTGA
66 GTATGGGGAGACAAGATCTGTTGA
*
49094584 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATTTGCTTTCTTTTATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTTTATCTACTCCACCACCA
49094649 GTATGGGGAGACAAGATCTGTTGA
66 GTATGGGGAGACAAGATCTGTTGA
*
49094673 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATTTGCTTTCTTTTATCTACTCCACCACCA
1 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTTTATCTACTCCACCACCA
49094738 GTATGGGGAGACAAGATCTGTTGA
66 GTATGGGGAGACAAGATCTGTTGA
* * * * * * *
49094762 CTTTGATCTACTTCACGCTGATACATGAAGACAATATCTACTTTCTTTCGATCTGCTTCGCCACC
1 CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTT-TATCTACTCCACCACC
* *
49094827 AGTATGGGAATG-CGAGATCTGTAT-A
65 AGTATGGGGA-GACAAGATCTGT-TGA
** * *
49094852 -TTTGATCTACTTCACGCC-AGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCACCA
1 CTTTGATCTACTTCACGCCGA-TACATGAAGACAAGATCTGCT-TT-CTTTTATCTACTCCACCA
* ** * *
49094914 CCAGCATGGTAAGGCGAGATCTGTT-A
63 CCAGTATGGGGAGACAAGATCTGTTGA
** * *
49094940 TCTTTGATCTACTTCACGCC-AGTACATGAAGACAAGATCTG-TATTCCTTCGATCTGCTTCACC
1 -CTTTGATCTACTTCACGCCGA-TACATGAAGACAAGATCTGCT-TT-CTTTTATCTACTCCACC
* ** * *
49095003 ACCAGCATGGTAAGGCGAGATCTGTT-A
62 ACCAGTATGGGGAGACAAGATCTGTTGA
49095030 TCTTTGATCTACTTCACGCC-AGTACATGAAGACAAGATCTGCT
1 -CTTTGATCTACTTCACGCCGA-TACATGAAGACAAGATCTGCT
49095073 GCTTTTCAAC
Statistics
Matches: 793, Mismatches: 39, Indels: 23
0.93 0.05 0.03
Matches are distributed among these distances:
88 78 0.10
89 548 0.69
90 164 0.21
91 3 0.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
CTTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGCTTTCTTTTATCTACTCCACCACCA
GTATGGGGAGACAAGATCTGTTGA
Found at i:49096258 original size:56 final size:56
Alignment explanation
Indices: 49096198--49096303 Score: 158
Period size: 56 Copynumber: 1.9 Consensus size: 56
49096188 TATTGATTTA
* * * *
49096198 GGTATAGCAAGACTACTGCATGCCCCGTTCTGATTAGTATTTGAGCTGCTGATTCT
1 GGTATAGCAAGACCACTGCATACCCCATTCTGATCAGTATTTGAGCTGCTGATTCT
* *
49096254 GGTATAGCAAGACCACTGTATATCCCATTCTGATCAGTATTTGAGCTGCT
1 GGTATAGCAAGACCACTGCATACCCCATTCTGATCAGTATTTGAGCTGCT
49096304 CTGATTACTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 44 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (56 bp):
GGTATAGCAAGACCACTGCATACCCCATTCTGATCAGTATTTGAGCTGCTGATTCT
Found at i:49096471 original size:48 final size:47
Alignment explanation
Indices: 49096417--49096508 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
49096407 TTAACCTCTC
* * * *
49096417 CTTTTTTTTT-ACTCAAGGCTCCTTTTGTAGGGTTTCACCCTGGTCT
1 CTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCT
*
49096463 CTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTC
1 CTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTC
49096509 CCACCTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
46 10 0.25
47 30 0.75
ACGTcount: A:0.12, C:0.25, G:0.17, T:0.46
Consensus pattern (47 bp):
CTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCT
Found at i:49096518 original size:48 final size:47
Alignment explanation
Indices: 49096419--49096519 Score: 112
Period size: 47 Copynumber: 2.1 Consensus size: 47
49096409 AACCTCTCCT
* * * * * * **
49096419 TTTTTTTTACTCAAGGCTCCTTTTGTAGGGTTTCACCCTGGTCTCTT
1 TTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCCC
*
49096466 TTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCTTGGTCCCACC
1 TTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCC-CC
49096514 TTTTTT
1 TTTTTT
49096520 AAGCAGAGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
47 38 0.86
48 6 0.14
ACGTcount: A:0.12, C:0.26, G:0.16, T:0.47
Consensus pattern (47 bp):
TTTTTTTGACTCAAAGCGCCCTTTGTAGGCTTTCACCCTGGTCCCCC
Found at i:49107477 original size:40 final size:40
Alignment explanation
Indices: 49107422--49107503 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
49107412 TTAATTTCAG
*
49107422 CTTTCGTAGTTTACTGATTTTCAGGTTTCTCGTTACCCAC
1 CTTTCATAGTTTACTGATTTTCAGGTTTCTCGTTACCCAC
*
49107462 CTTTCATAGTTTACTGATTTTTAGGTTTCTCGTTACCCAC
1 CTTTCATAGTTTACTGATTTTCAGGTTTCTCGTTACCCAC
49107502 CT
1 CT
49107504 GGTTCGGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.13, T:0.46
Consensus pattern (40 bp):
CTTTCATAGTTTACTGATTTTCAGGTTTCTCGTTACCCAC
Found at i:49108132 original size:18 final size:19
Alignment explanation
Indices: 49108102--49108138 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
49108092 ATTAGTTTTT
*
49108102 CTTTTATTATTTATTTTAA
1 CTTTTATTATTTATATTAA
49108121 CTTTTATT-TTTATATTAA
1 CTTTTATTATTTATATTAA
49108139 AAGGTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (19 bp):
CTTTTATTATTTATATTAA
Found at i:49112431 original size:47 final size:49
Alignment explanation
Indices: 49112339--49112440 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 49
49112329 AAAATATGAT
* *
49112339 TATGTGATTTCCGTGTAAGACTATATCTGGATATGGCATC-A-GTGTGA
1 TATGTGATTTCCGTGTAAGACCATAGCTGGATATGGCATCGATGTGTGA
* * *
49112386 TATGTG-TTTCCGTGTAAGACCATAGCTGGGCTATGGCTTCGGTGTGTGA
1 TATGTGATTTCCGTGTAAGACCATAGCT-GGATATGGCATCGATGTGTGA
49112435 TATGTG
1 TATGTG
49112441 GTAATGTGCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
46 19 0.40
47 16 0.34
49 12 0.26
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (49 bp):
TATGTGATTTCCGTGTAAGACCATAGCTGGATATGGCATCGATGTGTGA
Found at i:49116473 original size:35 final size:35
Alignment explanation
Indices: 49116424--49116492 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
49116414 ACAGTGTAGG
* *
49116424 GGGATACCATATGCTTCAATCCACGCCACTCTTTA
1 GGGATACCACATGCTTCAATCCACGACACTCTTTA
*
49116459 GGGATACCACATGCTTCAATCTACGACACTCTTT
1 GGGATACCACATGCTTCAATCCACGACACTCTTT
49116493 CCTCTACTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.29
Consensus pattern (35 bp):
GGGATACCACATGCTTCAATCCACGACACTCTTTA
Found at i:49119397 original size:56 final size:52
Alignment explanation
Indices: 49119309--49119549 Score: 262
Period size: 50 Copynumber: 4.7 Consensus size: 52
49119299 AAAGAGATCT
* * * *
49119309 CATGTAAGACCATGTTTGAGACATGACATTGGCATCCTTGAGATCATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC--GAGA-CATGAGAGGTCC
*
49119365 CATGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGAC--GAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATGAGAGGTCC
*
49119415 CATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAG--ATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATGAGAGGTCC
* * * **
49119465 CCTGTAAGACCATGTCTGGGACATGGC-ATGAGCA-C-TGACATGAGAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCGTTG-GCACCGAGACATGAG-AGGTCC
* *
49119516 CATGTAAGACCATGTCTGGGACATGACTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCGTTGGCA
49119550 TGTTATTATT
Statistics
Matches: 164, Mismatches: 14, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
48 1 0.01
49 3 0.02
50 88 0.54
51 32 0.20
52 3 0.02
53 4 0.02
55 2 0.01
56 31 0.19
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (52 bp):
CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACATGAGAGGTCC
Found at i:49128069 original size:19 final size:19
Alignment explanation
Indices: 49128045--49128082 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
49128035 TCATCCACTT
*
49128045 ATGTCTGATACATTTTGAC
1 ATGTCTGATACATGTTGAC
*
49128064 ATGTCTGATGCATGTTGAC
1 ATGTCTGATACATGTTGAC
49128083 TAGTACAATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (19 bp):
ATGTCTGATACATGTTGAC
Found at i:49129975 original size:28 final size:27
Alignment explanation
Indices: 49129943--49130002 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
49129933 ACAAAAATTC
* *
49129943 ATTATGATTCAAATATTAATATTAATA
1 ATTATAATTCAAATAATAATATTAATA
* *
49129970 TATTATAATTTAAATAATATTATTAATA
1 -ATTATAATTCAAATAATAATATTAATA
49129998 ATTAT
1 ATTAT
49130003 TACAAGTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTATAATTCAAATAATAATATTAATA
Found at i:49132608 original size:7 final size:7
Alignment explanation
Indices: 49132596--49132636 Score: 55
Period size: 7 Copynumber: 5.6 Consensus size: 7
49132586 CATATGTTCA
49132596 ACTAACT
1 ACTAACT
49132603 ACTAACT
1 ACTAACT
49132610 ACTAACT
1 ACTAACT
*
49132617 AGTAACT
1 ACTAACT
49132624 AATCTAACT
1 -A-CTAACT
49132633 ACTA
1 ACTA
49132637 CAAACATCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 23 0.77
8 2 0.07
9 5 0.17
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.29
Consensus pattern (7 bp):
ACTAACT
Found at i:49141480 original size:19 final size:19
Alignment explanation
Indices: 49141446--49141483 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
49141436 TAATAATATT
**
49141446 ATTTTTAAAATTTTATAAC
1 ATTTTTAAAAAATTATAAC
49141465 ATTTTTAAAAAATTATAAC
1 ATTTTTAAAAAATTATAAC
49141484 GAATAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTTTTAAAAAATTATAAC
Found at i:49141736 original size:20 final size:19
Alignment explanation
Indices: 49141703--49141753 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
49141693 CATAATGAAA
* *
49141703 TAATATATTTTATAAGTAT
1 TAATATATTATATAACTAT
49141722 TAATATATATATATAACTAT
1 TAATATAT-TATATAACTAT
*
49141742 TATTATATTATA
1 TAATATATTATA
49141754 GATTATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (19 bp):
TAATATATTATATAACTAT
Found at i:49142287 original size:15 final size:16
Alignment explanation
Indices: 49142269--49142312 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
49142259 ATAAATTATT
*
49142269 ATATTTGAAATTA-AA
1 ATATTTAAAATTAGAA
49142284 ATATTTATAAATTAGAA
1 ATATTTA-AAATTAGAA
49142301 AT-TTTAAAATTA
1 ATATTTAAAATTA
49142313 TCTGAATCCG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 12 0.46
16 10 0.38
17 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (16 bp):
ATATTTAAAATTAGAA
Found at i:49145847 original size:22 final size:22
Alignment explanation
Indices: 49145804--49145852 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
49145794 ACAATAACAA
* * *
49145804 CAAAATAGTAGCAATATAATAG
1 CAAAATAGCAACAAAATAATAG
*
49145826 CAAAATAGCAACAAAATGATAG
1 CAAAATAGCAACAAAATAATAG
49145848 CAAAA
1 CAAAA
49145853 CAACAAAACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (22 bp):
CAAAATAGCAACAAAATAATAG
Found at i:49146589 original size:21 final size:21
Alignment explanation
Indices: 49146563--49146603 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
49146553 TAACTGGATC
49146563 GCTGATGTGG-CAAGTTAACTA
1 GCTGATGTGGCCAA-TTAACTA
49146584 GCTGATGTGGCCAATTAACT
1 GCTGATGTGGCCAATTAACT
49146604 TGCCACATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCCAATTAACTA
Found at i:49146992 original size:16 final size:16
Alignment explanation
Indices: 49146971--49147014 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
49146961 TAGTTTTTTA
49146971 TTTTTTGGATTTAGGG
1 TTTTTTGGATTTAGGG
** *
49146987 TTTTTTCAATTTAGGT
1 TTTTTTGGATTTAGGG
49147003 TTATTTTGGATT
1 TT-TTTTGGATT
49147015 ATTTCTATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.16, C:0.02, G:0.20, T:0.61
Consensus pattern (16 bp):
TTTTTTGGATTTAGGG
Found at i:49147598 original size:15 final size:15
Alignment explanation
Indices: 49147565--49147619 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
49147555 TGTCTAATTT
* * *
49147565 TGATGTGTTTGGTAA
1 TGATGTGTCTGATAG
*
49147580 TGATGTGTCTGTTAG
1 TGATGTGTCTGATAG
* *
49147595 TGATGTATCTGAAAG
1 TGATGTGTCTGATAG
49147610 TGATGTGTCT
1 TGATGTGTCT
49147620 AATGGGATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.20, C:0.05, G:0.31, T:0.44
Consensus pattern (15 bp):
TGATGTGTCTGATAG
Found at i:49149352 original size:21 final size:22
Alignment explanation
Indices: 49149284--49149362 Score: 74
Period size: 21 Copynumber: 3.7 Consensus size: 22
49149274 CAACTAAGTG
** *
49149284 GCTACCCCAACTCAACAACAG-
1 GCTACCCCAACTCAGTAAGAGA
* *
49149305 GCTACCCCAAATCAGCAAGAGA
1 GCTACCCCAACTCAGTAAGAGA
*
49149327 G-TACCCCAACTCAGTAGGA-A
1 GCTACCCCAACTCAGTAAGAGA
*
49149347 GCTACCCCCACTCAGT
1 GCTACCCCAACTCAGT
49149363 TACAAACTGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
20 2 0.04
21 46 0.94
22 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.15, T:0.13
Consensus pattern (22 bp):
GCTACCCCAACTCAGTAAGAGA
Found at i:49150063 original size:25 final size:25
Alignment explanation
Indices: 49149996--49150064 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 25
49149986 ATATTCTCCC
49149996 ATTACAATTTGTAAGCAACAACAAT
1 ATTACAATTTGTAAGCAACAACAAT
*** *
49150021 ATTACAA--AACATG-AACAACAAT
1 ATTACAATTTGTAAGCAACAACAAT
*
49150043 ATTACAATTTGTAAGCGACAAC
1 ATTACAATTTGTAAGCAACAAC
49150065 CACGTATTCT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
22 16 0.50
23 2 0.06
24 2 0.06
25 12 0.38
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.25
Consensus pattern (25 bp):
ATTACAATTTGTAAGCAACAACAAT
Found at i:49154701 original size:14 final size:14
Alignment explanation
Indices: 49154679--49154723 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
49154669 ATTAATAATT
49154679 TAAATTTTATAAAAA
1 TAAA-TTTATAAAAA
*
49154694 TAAATTTAAAAAAA
1 TAAATTTATAAAAA
*
49154708 TAAGATTAATAAAAA
1 TAA-ATTTATAAAAA
49154723 T
1 T
49154724 TCAAAAAAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
TAAATTTATAAAAA
Found at i:49158223 original size:89 final size:89
Alignment explanation
Indices: 49158072--49158346 Score: 541
Period size: 89 Copynumber: 3.1 Consensus size: 89
49158062 GTTCATGGAC
49158072 TTGACCCCACTATTCATGGGACTGACATTTTGAGCAAGCCTCGGGCACGTTGAACACGTGTACTG
1 TTGACCCCACTATTCATGGGACTGACATTTTGAGCAAGCCTCGGGCACGTTGAACACGTGTACTG
49158137 TTCTAGGTTGCCTCTTAGTTCTTG
66 TTCTAGGTTGCCTCTTAGTTCTTG
49158161 TTGACCCCACTATTCATGGGACTGACATTTTGAGCAAGCCTCGGGCACGTTGAACACGTGTACTG
1 TTGACCCCACTATTCATGGGACTGACATTTTGAGCAAGCCTCGGGCACGTTGAACACGTGTACTG
49158226 TTCTAGGTTGCCTCTTAGTTCTTG
66 TTCTAGGTTGCCTCTTAGTTCTTG
49158250 TTGACCCCACTATTCATGGGACTGACATTTTGAGCAAGCCTCGGGCACGTTGAACACGTGTACTG
1 TTGACCCCACTATTCATGGGACTGACATTTTGAGCAAGCCTCGGGCACGTTGAACACGTGTACTG
49158315 TTCTAGGTTGCCTCTTAGTTCTTG
66 TTCTAGGTTGCCTCTTAGTTCTTG
*
49158339 TTGTCCCC
1 TTGACCCC
49158347 TGCATACAAA
Statistics
Matches: 185, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 185 1.00
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (89 bp):
TTGACCCCACTATTCATGGGACTGACATTTTGAGCAAGCCTCGGGCACGTTGAACACGTGTACTG
TTCTAGGTTGCCTCTTAGTTCTTG
Found at i:49161335 original size:28 final size:27
Alignment explanation
Indices: 49161291--49161346 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 27
49161281 TTTATTTTAC
49161291 ATATTAAATCAAAAAATTTTATCATATAAT
1 ATATTAAATC-AAAAA-TTTAT-ATATAAT
49161321 ATATTAAATC-AAAATTTATATATAAT
1 ATATTAAATCAAAAATTTATATATAAT
49161347 TTGATCAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
26 7 0.27
27 5 0.19
28 4 0.15
30 10 0.38
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (27 bp):
ATATTAAATCAAAAATTTATATATAAT
Found at i:49167507 original size:30 final size:30
Alignment explanation
Indices: 49167471--49167531 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
49167461 AAGTTTGCAG
49167471 ACTAAAAAAATCTTTCTATTGTCTCAAACA
1 ACTAAAAAAATCTTTCTATTGTCTCAAACA
49167501 ACTAAAAAAATCTTTCTATTGTCTCAAACA
1 ACTAAAAAAATCTTTCTATTGTCTCAAACA
49167531 A
1 A
49167532 GCTCCAAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (30 bp):
ACTAAAAAAATCTTTCTATTGTCTCAAACA
Found at i:49168737 original size:30 final size:30
Alignment explanation
Indices: 49168701--49168761 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
49168691 CCCTATGGCA
49168701 AATGATTTACATGCATAAAGTTGAGTTCTT
1 AATGATTTACATGCATAAAGTTGAGTTCTT
49168731 AATGATTTACATGCATAAAGTTGAGTTCTT
1 AATGATTTACATGCATAAAGTTGAGTTCTT
49168761 A
1 A
49168762 CTCTTAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (30 bp):
AATGATTTACATGCATAAAGTTGAGTTCTT
Found at i:49168853 original size:87 final size:86
Alignment explanation
Indices: 49168748--49168911 Score: 238
Period size: 87 Copynumber: 1.9 Consensus size: 86
49168738 TACATGCATA
* * * *
49168748 AAGTTGAGTTCTTACTCTTAATGAATTCATATCCCAGAGTTTGGGTGATCCTATTGAGACAAACT
1 AAGTTAAGTTCTTACTCTTAATCAATTAATATCCCAAAGTTTGGGTGATCCTATTGAGACAAACT
*
49168813 TTATGAATTCACTGACATGTG
66 TGATGAATTCACTGACATGTG
* * * *
49168834 AAGTTAAGTTTCTTACTCTTAATCAGTTAATATCCCAAAGTTTGGGTGGTCCTATTGATACTAAC
1 AAGTTAAG-TTCTTACTCTTAATCAATTAATATCCCAAAGTTTGGGTGATCCTATTGAGACAAAC
49168899 TTGATGAATTCAC
65 TTGATGAATTCAC
49168912 CGAACTTAAA
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
86 7 0.10
87 61 0.90
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (86 bp):
AAGTTAAGTTCTTACTCTTAATCAATTAATATCCCAAAGTTTGGGTGATCCTATTGAGACAAACT
TGATGAATTCACTGACATGTG
Found at i:49170894 original size:21 final size:21
Alignment explanation
Indices: 49170870--49170911 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
49170860 CGAGACAAAG
*
49170870 GCCACTTGTCTCAAAGCTTAA
1 GCCACTTGTCTAAAAGCTTAA
49170891 GCCACTTGTCTAAAAGCTTAA
1 GCCACTTGTCTAAAAGCTTAA
49170912 ATAGGATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (21 bp):
GCCACTTGTCTAAAAGCTTAA
Found at i:49187006 original size:20 final size:20
Alignment explanation
Indices: 49186966--49187007 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
49186956 CCTCAAAAAA
** *
49186966 TTTTCATTTTTTATTATATT
1 TTTTCATTTTTTAAAAAATT
49186986 TTTTCATTTTTTAAAAAATT
1 TTTTCATTTTTTAAAAAATT
49187006 TT
1 TT
49187008 AATTAAACTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTCATTTTTTAAAAAATT
Found at i:49187030 original size:32 final size:30
Alignment explanation
Indices: 49186994--49187061 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 30
49186984 TTTTTTCATT
**
49186994 TTTTAAAAAATTTTAATTAAACTCTCTTAAAA
1 TTTTAAAAAATTTTAATT-AAC-CTCAAAAAA
* *
49187026 TTTTAGAAAATTTTCATTAACCTCAAAAAA
1 TTTTAAAAAATTTTAATTAACCTCAAAAAA
49187056 TTTTAA
1 TTTTAA
49187062 TCAAGCCCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 12 0.39
31 3 0.10
32 16 0.52
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (30 bp):
TTTTAAAAAATTTTAATTAACCTCAAAAAA
Found at i:49191399 original size:5 final size:5
Alignment explanation
Indices: 49191380--49191414 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
49191370 TGTTTTAGGA
49191380 AAAAT AAAAT GAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
49191415 AAATATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:49191415 original size:11 final size:11
Alignment explanation
Indices: 49191379--49191415 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
49191369 TTGTTTTAGG
49191379 AAAAATAAAAT
1 AAAAATAAAAT
*
49191390 GAAAATAAAAT
1 AAAAATAAAAT
49191401 -AAAATAAAAT
1 AAAAATAAAAT
49191411 AAAAA
1 AAAAA
49191416 AATATATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:49196809 original size:69 final size:68
Alignment explanation
Indices: 49196723--49196890 Score: 187
Period size: 69 Copynumber: 2.5 Consensus size: 68
49196713 CATAAAGATG
* * *
49196723 TACAAA-ACCATGGTTGGACCATGGTAATGTTTACATAAGACCATAGAGAGACTATGATAGTTTT
1 TACAAAGACCATGGTTGGACCATGGCAATGTTCACATAAGACCATAGAGAGACTATAATAGTTTT
49196787 TCAGA
66 T--GA
* ** * * * *
49196792 TGC-AAGACCATGGTTGGACTGTGGCAATATTCACGTAAGACCATAGCGAGGCTATAATAGTTTT
1 TACAAAGACCATGGTTGGACCATGGCAATGTTCACATAAGACCATAGAGAGACTATAATAGTTTT
49196856 TGA
66 TGA
**
49196859 TACATAAGGTCATGGTTGGACCATGGCAATGT
1 TACA-AAGACCATGGTTGGACCATGGCAATGT
49196891 ATATATATAT
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
67 4 0.05
68 2 0.03
69 74 0.93
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (68 bp):
TACAAAGACCATGGTTGGACCATGGCAATGTTCACATAAGACCATAGAGAGACTATAATAGTTTT
TGA
Found at i:49197644 original size:6 final size:6
Alignment explanation
Indices: 49197633--49197658 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
49197623 AAGGTTGAGA
49197633 CATGGG CATGGG CATGGG CATGGG CA
1 CATGGG CATGGG CATGGG CATGGG CA
49197659 CGGACACAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.46, T:0.15
Consensus pattern (6 bp):
CATGGG
Found at i:49200307 original size:20 final size:21
Alignment explanation
Indices: 49200271--49200309 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49200261 AATCTTAACC
49200271 TTTTTTTAATATATTTTTAGA
1 TTTTTTTAATATATTTTTAGA
49200292 TTTTTTATAAT-T-TTTTTA
1 TTTTTT-TAATATATTTTTA
49200310 AAAATATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (21 bp):
TTTTTTTAATATATTTTTAGA
Found at i:49202466 original size:21 final size:22
Alignment explanation
Indices: 49202436--49202485 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 22
49202426 ATATTGTATA
*
49202436 ATTTTTTAAATTA-ATAAA-AT
1 ATTTTTTAAAATATATAAATAT
49202456 ATTTTATTAAAATATATAAATAT
1 ATTTT-TTAAAATATATAAATAT
49202479 ATTTTTT
1 ATTTTTT
49202486 GTTTAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 5 0.19
21 7 0.27
22 7 0.27
23 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTTTTAAAATATATAAATAT
Found at i:49202512 original size:26 final size:27
Alignment explanation
Indices: 49202440--49202512 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 27
49202430 TGTATAATTT
*
49202440 TTTAAATTAATAAAATATTT-TATTAAA
1 TTTAAATTAAT-AATTATTTGTATTAAA
* * * *
49202467 -ATATATAAATATATTTTTTGT-TTAAA
1 TTTAAATTAATA-ATTATTTGTATTAAA
49202493 TTTAAATTAATAATTATTTG
1 TTTAAATTAATAATTATTTG
49202513 CAAATAAATC
Statistics
Matches: 34, Mismatches: 9, Indels: 7
0.68 0.18 0.14
Matches are distributed among these distances:
25 1 0.03
26 24 0.71
27 9 0.26
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (27 bp):
TTTAAATTAATAATTATTTGTATTAAA
Found at i:49202911 original size:9 final size:9
Alignment explanation
Indices: 49202874--49203212 Score: 157
Period size: 10 Copynumber: 36.6 Consensus size: 9
49202864 AAAAAAGAAA
49202874 AAAAAGTTAT
1 AAAAA-TTAT
* * *
49202884 ACAAATCAG
1 AAAAATTAT
*
49202893 AAAAAATAT
1 AAAAATTAT
49202902 AAAAATTAT
1 AAAAATTAT
49202911 --AAATTATT
1 AAAAATTA-T
*
49202919 AAAGA-T-T
1 AAAAATTAT
49202926 AAAAA-TAT
1 AAAAATTAT
*
49202934 TAAAATTGAT
1 AAAAATT-AT
*
49202944 ATAAACTTAT
1 A-AAAATTAT
*
49202954 AAAAATTTT
1 AAAAATTAT
49202963 AAAAATATAT
1 AAAAAT-TAT
49202973 AAAAATTAT
1 AAAAATTAT
*
49202982 -AAAATAAAT
1 AAAAAT-TAT
*
49202991 AAAAATATTT
1 AAAAAT-TAT
*
49203001 AAAATTTTAT
1 AAAA-ATTAT
49203011 AAAAATGTAT
1 AAAAAT-TAT
*
49203021 AAAAATTCT
1 AAAAATTAT
*
49203030 AATAAATCAT
1 AA-AAATTAT
49203040 AAAAATT-T
1 AAAAATTAT
49203048 AAAAA-T-T
1 AAAAATTAT
49203055 -AAAATTA-
1 AAAAATTAT
49203062 ACATAAACTT-T
1 A-A-AAA-TTAT
*
49203073 TAAAATTAT
1 AAAAATTAT
**
49203082 AAAAAAAAT
1 AAAAATTAT
*
49203091 AAAAACTAAT
1 AAAAA-TTAT
* *
49203101 AAATATCAT
1 AAAAATTAT
49203110 AAAAA-TAT
1 AAAAATTAT
*
49203118 AAAAATTCT
1 AAAAATTAT
*
49203127 AATAAATTCT
1 AA-AAATTAT
49203137 AAAAATTTAT
1 AAAAA-TTAT
*
49203147 AAAAACTAAT
1 AAAAA-TTAT
49203157 AAAAATATATTT
1 AAAAAT-TA--T
*
49203169 AAAATTTTAT
1 AAAA-ATTAT
49203179 AAAAACTTAT
1 AAAAA-TTAT
49203189 AAATAA-TAT
1 AAA-AATTAT
49203198 AATAAATTAT
1 AA-AAATTAT
49203208 AAAAA
1 AAAAA
49203213 AAGTCATTTA
Statistics
Matches: 254, Mismatches: 42, Indels: 67
0.70 0.12 0.18
Matches are distributed among these distances:
6 4 0.02
7 15 0.06
8 26 0.10
9 84 0.33
10 107 0.42
11 10 0.04
12 7 0.03
13 1 0.00
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:49202936 original size:16 final size:16
Alignment explanation
Indices: 49202894--49202987 Score: 59
Period size: 16 Copynumber: 5.4 Consensus size: 16
49202884 ACAAATCAGA
49202894 AAAAATA-TAAAAATT
1 AAAAATATTAAAAATT
* *
49202909 ATAAATTATTAAAGATT
1 A-AAAATATTAAAAATT
49202926 AAAAATATT-AAAATT
1 AAAAATATTAAAAATT
49202941 GATATAAACT-TATAAAAATTTT
1 -A-A-AAA-TAT-TAAAAA--TT
49202963 AAAAATATATAAAAATT
1 AAAAATAT-TAAAAATT
49202980 ATAAAATA
1 A-AAAATA
49202988 AATAAAAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 21
0.72 0.05 0.24
Matches are distributed among these distances:
15 6 0.10
16 13 0.21
17 12 0.19
18 11 0.17
19 13 0.21
20 5 0.08
21 1 0.02
22 2 0.03
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (16 bp):
AAAAATATTAAAAATT
Found at i:49202964 original size:28 final size:28
Alignment explanation
Indices: 49202925--49203212 Score: 124
Period size: 28 Copynumber: 10.2 Consensus size: 28
49202915 TATTAAAGAT
* *
49202925 TAAAAATATTAAAATTGATAT-AAACTTA
1 TAAAAATATTAAAAAT-ATATAAAAATTA
*
49202953 TAAAAATTTTAAAAATATATAAAAATTA
1 TAAAAATATTAAAAATATATAAAAATTA
* * *
49202981 T-AAAATAAATAAAAATATTTAAAATTTTA
1 TAAAAAT-ATTAAAAATATATAAAA-ATTA
* * *
49203010 TAAAAATGTATAAAAAT-TCTAATAAATCA
1 TAAAAATAT-TAAAAATATATAA-AAATTA
49203039 TAAAAAT-TT-AAAA-AT-T-AAAATTA
1 TAAAAATATTAAAAATATATAAAAATTA
* **
49203062 -ACATAAACT-TTTAAAAT-TATAAAAAAAA
1 TA-A-AAA-TATTAAAAATATATAAAAATTA
*
49203090 TAAAAACTA--ATAAATATCATAAAAA-TA
1 TAAAAA-TATTAAAAATAT-ATAAAAATTA
*
49203117 TAAAAAT-TCTAATAAAT-TCTAAAAATTTA
1 TAAAAATAT-TAA-AAATATATAAAAA-TTA
* *
49203146 TAAAAACTAATAAAAATATATTTAAAATTTTA
1 TAAAAA-TATTAAAAATATA--TAAAA-ATTA
* *
49203178 TAAAAA-CTTATAAATAATATAATAAATTA
1 TAAAAATATTAAAAAT-ATATAA-AAATTA
49203207 TAAAAA
1 TAAAAA
49203213 AAGTCATTTA
Statistics
Matches: 201, Mismatches: 27, Indels: 63
0.69 0.09 0.22
Matches are distributed among these distances:
22 1 0.00
23 6 0.03
24 4 0.02
25 4 0.02
26 15 0.07
27 30 0.15
28 51 0.25
29 46 0.23
30 27 0.13
31 3 0.01
32 14 0.07
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.34
Consensus pattern (28 bp):
TAAAAATATTAAAAATATATAAAAATTA
Found at i:49202973 original size:19 final size:19
Alignment explanation
Indices: 49202893--49203212 Score: 138
Period size: 19 Copynumber: 16.8 Consensus size: 19
49202883 TACAAATCAG
49202893 AAAAA-ATATAAAAATTAT
1 AAAAATATATAAAAATTAT
* *
49202911 -AAATTAT-TAAAGA-T-T
1 AAAAATATATAAAAATTAT
49202926 AAAAATAT-T-AAAATTGAT
1 AAAAATATATAAAAATT-AT
* *
49202944 ATAAACT-TATAAAAATTTT
1 A-AAAATATATAAAAATTAT
49202963 AAAAATATATAAAAATTAT
1 AAAAATATATAAAAATTAT
* *
49202982 -AAAATAAATAAAAATATTT
1 AAAAATATATAAAAAT-TAT
* *
49203001 AAAATTTTATAAAAATGTAT
1 AAAAATATATAAAAAT-TAT
* *
49203021 AAAAAT-TCTAATAAATCAT
1 AAAAATATATAA-AAATTAT
*
49203040 AAAAAT-T-TAAAAATTAA
1 AAAAATATATAAAAATTAT
* *
49203057 AATTAACATAAACTTTTAAAATTAT
1 AA--AA-AT--A-TATAAAAATTAT
* *
49203082 AAAAA-AAATAAAAACTA-
1 AAAAATATATAAAAATTAT
*
49203099 ATAAATATCATAAAAA-TAT
1 AAAAATAT-ATAAAAATTAT
* *
49203118 AAAAAT-TCTAATAAATTCT
1 AAAAATATATAA-AAATTAT
* *
49203137 AAAAATTTATAAAAACTAAT
1 AAAAATATATAAAAA-TTAT
*
49203157 AAAAATATATTTAAAATTTTAT
1 AAAAATATA--TAAAA-ATTAT
49203179 AAAAACT-TATAAATAA-TAT
1 AAAAA-TATATAAA-AATTAT
49203198 AATAAAT-TATAAAAA
1 AA-AAATATATAAAAA
49203213 AAGTCATTTA
Statistics
Matches: 231, Mismatches: 38, Indels: 66
0.69 0.11 0.20
Matches are distributed among these distances:
15 4 0.02
16 9 0.04
17 22 0.10
18 42 0.18
19 71 0.31
20 52 0.23
21 1 0.00
22 16 0.07
23 3 0.01
24 1 0.00
25 10 0.04
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAAATATATAAAAATTAT
Found at i:49203054 original size:27 final size:26
Alignment explanation
Indices: 49202952--49203151 Score: 86
Period size: 29 Copynumber: 7.3 Consensus size: 26
49202942 ATATAAACTT
* *
49202952 ATAAAAATTTTAAAAATATATAAAAATT
1 ATAAAAA-TTTAAAAAT-TCTAAAAATC
** * * *
49202980 ATAAAATAAATAAAAATATTTAAAATTTT
1 ATAAAA-ATTTAAAAAT-TCTAAAA-ATC
49203009 ATAAAAATGTATAAAAATTCTAATAAATC
1 ATAAAAAT-T-TAAAAATTCTAA-AAATC
*
49203038 ATAAAAATTTAAAAA-T-TAAAATTAAC
1 ATAAAAATTTAAAAATTCTAAAA--ATC
* * * **
49203064 AT-AAACTTTTAAAATTATAAAAAAA
1 ATAAAAATTTAAAAATTCTAAAAATC
*
49203089 ATAAAAA-CTAATAAATATCATAAAAAT-
1 ATAAAAATTTAA-AAAT-TC-TAAAAATC
*
49203116 ATAAAAATTCTAATAAATTCTAAAAATTT
1 ATAAAAATT-TAA-AAATTCTAAAAA-TC
49203145 ATAAAAA
1 ATAAAAA
49203152 CTAATAAAAA
Statistics
Matches: 136, Mismatches: 19, Indels: 33
0.72 0.10 0.18
Matches are distributed among these distances:
24 2 0.01
25 19 0.14
26 13 0.10
27 25 0.18
28 31 0.23
29 37 0.27
30 9 0.07
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.33
Consensus pattern (26 bp):
ATAAAAATTTAAAAATTCTAAAAATC
Found at i:49203066 original size:26 final size:27
Alignment explanation
Indices: 49203009--49203077 Score: 68
Period size: 26 Copynumber: 2.5 Consensus size: 27
49202999 TTAAAATTTT
**
49203009 ATAAAAATGTATAAAAATTCTAATAAATC
1 ATAAAAAT-T-TAAAAATTAAAATAAATC
*
49203038 ATAAAAATTTAAAAATTAAAATTAA-C
1 ATAAAAATTTAAAAATTAAAATAAATC
**
49203064 ATAAACTTTTAAAA
1 ATAAAAATTTAAAA
49203078 TTATAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
26 13 0.37
27 13 0.37
28 1 0.03
29 8 0.23
ACGTcount: A:0.61, C:0.06, G:0.01, T:0.32
Consensus pattern (27 bp):
ATAAAAATTTAAAAATTAAAATAAATC
Found at i:49203155 original size:27 final size:27
Alignment explanation
Indices: 49203083--49203159 Score: 95
Period size: 27 Copynumber: 2.8 Consensus size: 27
49203073 TAAAATTATA
*
49203083 AAAAAAATAAAAACTAATAAATATCAT
1 AAAAATATAAAAACTAATAAATATCAT
49203110 AAAAATATAAAAATTCTAATAAAT-TC-T
1 AAAAATATAAAAA--CTAATAAATATCAT
49203137 AAAAATTTATAAAAACTAATAAA
1 AAAAA--TATAAAAACTAATAAA
49203160 AATATATTTA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
27 26 0.58
28 2 0.04
29 17 0.38
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.27
Consensus pattern (27 bp):
AAAAATATAAAAACTAATAAATATCAT
Found at i:49203162 original size:29 final size:27
Alignment explanation
Indices: 49203089--49203212 Score: 90
Period size: 29 Copynumber: 4.3 Consensus size: 27
49203079 TATAAAAAAA
*
49203089 ATAAAAACTAATAAATATCATAAAAA-T
1 ATAAAAACTAATAAAAATC-TAAAAATT
*
49203116 ATAAAAATTCTAAT-AAATTCTAAAAATTT
1 ATAAAAA--CTAATAAAAATCTAAAAA-TT
*
49203145 ATAAAAACTAATAAAAATATATTTAAAATTTT
1 ATAAAAACTAATAAAAATCTA---AAAA--TT
* *
49203177 ATAAAAACTTATAAATAATATAATAAATT
1 ATAAAAACTAATAAA-AATCTAA-AAATT
49203206 ATAAAAA
1 ATAAAAA
49203213 AAGTCATTTA
Statistics
Matches: 81, Mismatches: 5, Indels: 20
0.76 0.05 0.19
Matches are distributed among these distances:
27 18 0.22
28 10 0.12
29 22 0.27
30 1 0.01
31 7 0.09
32 17 0.21
33 6 0.07
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (27 bp):
ATAAAAACTAATAAAAATCTAAAAATT
Found at i:49203178 original size:32 final size:34
Alignment explanation
Indices: 49203126--49203198 Score: 105
Period size: 32 Copynumber: 2.2 Consensus size: 34
49203116 ATAAAAATTC
*
49203126 TAATAAATTCTAAAAATTTATAAAAACTAATAAA
1 TAATATATTCTAAAAATTTATAAAAACTAATAAA
* *
49203160 -AATATATT-TAAAATTTTATAAAAACTTATAAA
1 TAATATATTCTAAAAATTTATAAAAACTAATAAA
49203192 TAATATA
1 TAATATA
49203199 ATAAATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (34 bp):
TAATATATTCTAAAAATTTATAAAAACTAATAAA
Found at i:49203565 original size:10 final size:10
Alignment explanation
Indices: 49203550--49203642 Score: 52
Period size: 10 Copynumber: 9.3 Consensus size: 10
49203540 ATATCAATTT
49203550 TAATATTTTA
1 TAATATTTTA
49203560 TAATATTTGTA
1 TAATATTT-TA
* *
49203571 TTATTTTTTA
1 TAATATTTTA
49203581 TAAGT-TTTTAA
1 TAA-TATTTT-A
*
49203592 GAAT-TTTTA
1 TAATATTTTA
*
49203601 TACCT-TTTTA
1 TA-ATATTTTA
*
49203611 TAAAATTTTA
1 TAATATTTTA
49203621 -AATATGTTTA
1 TAATAT-TTTA
*
49203631 TTA-ATTTTA
1 TAATATTTTA
49203640 TAA
1 TAA
49203643 AGAATTATAA
Statistics
Matches: 65, Mismatches: 11, Indels: 15
0.71 0.12 0.16
Matches are distributed among these distances:
9 12 0.18
10 40 0.62
11 13 0.20
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (10 bp):
TAATATTTTA
Found at i:49203631 original size:30 final size:30
Alignment explanation
Indices: 49203575--49203631 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
49203565 TTTGTATTAT
** *
49203575 TTTTTATAAGTTTTTAAGAATTTTTATACC
1 TTTTTATAAAATTTTAAGAATGTTTATACC
49203605 TTTTTATAAAATTTTAA-ATATGTTTAT
1 TTTTTATAAAATTTTAAGA-ATGTTTAT
49203632 TAATTTTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 1 0.04
30 22 0.96
ACGTcount: A:0.33, C:0.04, G:0.05, T:0.58
Consensus pattern (30 bp):
TTTTTATAAAATTTTAAGAATGTTTATACC
Found at i:49207829 original size:20 final size:20
Alignment explanation
Indices: 49207792--49207830 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49207782 TAACCTTTCC
*
49207792 ATTAAAGCTTATGTTGCTAA
1 ATTAAAGATTATGTTGCTAA
49207812 ATTAAAGATT-TGTGTGCTA
1 ATTAAAGATTATGT-TGCTA
49207831 TGTTAGATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTAAAGATTATGTTGCTAA
Found at i:49209370 original size:20 final size:20
Alignment explanation
Indices: 49209347--49209391 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
49209337 CCCTGCCATT
* * *
49209347 GCCACGGTCATGTCGCCACC
1 GCCACGATCACGTCACCACC
49209367 GCCACGATCACGTCACCACC
1 GCCACGATCACGTCACCACC
*
49209387 ACCAC
1 GCCAC
49209392 TTGCGTCGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.49, G:0.18, T:0.11
Consensus pattern (20 bp):
GCCACGATCACGTCACCACC
Found at i:49209617 original size:18 final size:18
Alignment explanation
Indices: 49209594--49209631 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
49209584 GATCTATTCG
49209594 TTTTTTTTA-TATTTTAT
1 TTTTTTTTATTATTTTAT
*
49209611 TTTTTTTTATTTTTTTAT
1 TTTTTTTTATTATTTTAT
49209629 TTT
1 TTT
49209632 CTTTCTCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (18 bp):
TTTTTTTTATTATTTTAT
Found at i:49210372 original size:3 final size:3
Alignment explanation
Indices: 49210364--49210440 Score: 84
Period size: 3 Copynumber: 25.7 Consensus size: 3
49210354 TATTGTTAAC
* * *
49210364 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATC ATC ATCT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* * *
49210409 ATT ATT ATT AAT AAT ATT ATT ATT ATC ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
49210441 ATTTCCATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
2 1 0.02
3 65 0.98
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:49211174 original size:109 final size:109
Alignment explanation
Indices: 49210913--49211252 Score: 520
Period size: 108 Copynumber: 3.1 Consensus size: 109
49210903 TTTCTAATTG
* * ** *
49210913 AGGCAATATTTAGCGTTTGGAAATTCGAGAAAATGTGCCCTAAGGTGCTGGGTGTTGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
49210978 CATTCAACCAAATGGCTTAATATCCTTTT-AAAATTTTAAAATA
66 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
* * *
49211021 AGGCAATGTTTTGCGTTTGGAAATTCAAGAAAACATGCCTTAAGGTGCTGGGTGTCGATTTCTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
49211086 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
66 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
* * *
49211130 AAGCAATGTTTTGCGTTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCAATTTTTTC
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA-TTTTTC
* * * *
49211195 TCGTTCAACCAAATAGCTAAATAGCCTTTCAAAAATTTTAAAATA
65 TCGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
49211240 AGGCAATGTTTTG
1 AGGCAATGTTTTG
49211253 TGTTGACACC
Statistics
Matches: 210, Mismatches: 20, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
108 85 0.40
109 67 0.32
110 58 0.28
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (109 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
Found at i:49211935 original size:17 final size:17
Alignment explanation
Indices: 49211913--49211945 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
49211903 GAGTTTATAC
49211913 ATATAATGAT-TTAAAAT
1 ATATAAT-ATATTAAAAT
49211930 ATATAATATATTAAAA
1 ATATAATATATTAAAA
49211946 GAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATATATTAAAAT
Found at i:49213952 original size:205 final size:205
Alignment explanation
Indices: 49213595--49213965 Score: 634
Period size: 205 Copynumber: 1.8 Consensus size: 205
49213585 CTTTGTTTTA
* * *
49213595 ATCCGCTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGTAATCTCAG
1 ATCCACTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAG
* * *
49213660 GGAGATAAGATCCCTGGCTTCAATCTGCTCCACTATAACCTTAGGGAGATAAGATCTGAAATTCT
66 GAAGATAAGATCCCTGGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGACCTGAAATTCT
49213725 TCGGTCTACTCCACCGTAACCTCAAGGAGATAAGACCTGATGCAATCTACTCTGCTGTAACTTCA
131 TCGGTCTACTCCACCGTAACCTCAAGGAGATAAGACCTGATGCAATCTACTCTGCTGTAACTTCA
49213790 GAGAGATAAG
196 GAGAGATAAG
*
49213800 ATCCACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAG
1 ATCCACTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAG
** *
49213865 GAAGATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCT
66 GAAGATAAGATCCCTGGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGACCTGAAATTCT
* *
49213930 TCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
131 TCGGTCTACTCCACCGTAACCTCAAGGAGATAAGAC
49213966 TTGTATATTC
Statistics
Matches: 154, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
205 154 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (205 bp):
ATCCACTCCACTGTAACTTCAAGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAG
GAAGATAAGATCCCTGGCTTCAATCTGCTCCACTATAACCTCAGGGAGATAAGACCTGAAATTCT
TCGGTCTACTCCACCGTAACCTCAAGGAGATAAGACCTGATGCAATCTACTCTGCTGTAACTTCA
GAGAGATAAG
Found at i:49213961 original size:90 final size:87
Alignment explanation
Indices: 49213805--49214007 Score: 221
Period size: 90 Copynumber: 2.3 Consensus size: 87
49213795 ATAAGATCCA
* * * *
49213805 CTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAGGAAGA
1 CTCCACTGTAACTTCAGGGAGATAAGATAATGTCTTCGATCTACTCCACTGTAAACTCAGGAAGA
* * *
49213870 TAAGATTTCTGGCTTCAA-TCTG
66 TAAGACTTCTAGATTCAACT-TG
* * *
49213892 CTCCACTGTAACCTCAGGGAGATAAGACCTGAAAT-TCTTCGGTCTACTCCACTGTAACCTCAGG
1 CTCCACTGTAACTTCAGGGAGATAAGA--T--AATGTCTTCGATCTACTCCACTGTAAACTCAGG
* * *
49213956 GAGATAAGACTTGTATATTCAACTTG
62 AAGATAAGACTTCTAGATTCAACTTG
*
49213982 CCCCACTGTAACTTCAGGGAGATAAG
1 CTCCACTGTAACTTCAGGGAGATAAG
49214008 GTTTGTGGCT
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
87 25 0.26
89 1 0.01
90 67 0.70
91 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (87 bp):
CTCCACTGTAACTTCAGGGAGATAAGATAATGTCTTCGATCTACTCCACTGTAAACTCAGGAAGA
TAAGACTTCTAGATTCAACTTG
Found at i:49214035 original size:44 final size:44
Alignment explanation
Indices: 49213805--49214093 Score: 200
Period size: 44 Copynumber: 6.6 Consensus size: 44
49213795 ATAAGATCCA
* *
49213805 CTCCACTGTAACTTCAGGGAGATAGGA-TAGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTGTCTTCGATCTG
* * * * * *
49213848 CTCCGCTGTAAAC-TCAGGAAGATAAGATTTCTGGCTTCAATCTG
1 CTCCACTGT-AACTTCAGGGAGATAAGACTTGTGTCTTCGATCTG
* * * *
49213892 CTCCACTGTAACCTCAGGGAGATAAGACCTGAAAT-TCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGAGATAAGACTTG---TGTCTTCGATCTG
* * * *
49213938 CTCCACTGTAACCTCAGGGAGATAAGACTTGTATATTC-AACTTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTGTCTTCGATC-TG
* ** * *
49213982 CCCCACTGTAACTTCAGGGAGATAAGGTTTGTGGCTCCGATCTG
1 CTCCACTGTAACTTCAGGGAGATAAGACTTGTGTCTTCGATCTG
* * * * *
49214026 CTCCTCTGT-AGTCTCAGGGAGATGAGAC-T-TG-ATACGATCTG
1 CTCCACTGTAACT-TCAGGGAGATAAGACTTGTGTCTTCGATCTG
* *
49214067 CTCCACCGTAA-TCTCAGGAAGATAAGA
1 CTCCACTGTAACT-TCAGGGAGATAAGA
49214094 TCTCTAATAT
Statistics
Matches: 193, Mismatches: 42, Indels: 24
0.75 0.16 0.09
Matches are distributed among these distances:
41 29 0.15
42 3 0.02
43 28 0.15
44 93 0.48
45 2 0.01
46 37 0.19
47 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
CTCCACTGTAACTTCAGGGAGATAAGACTTGTGTCTTCGATCTG
Found at i:49214043 original size:134 final size:133
Alignment explanation
Indices: 49213804--49214053 Score: 306
Period size: 134 Copynumber: 1.9 Consensus size: 133
49213794 GATAAGATCC
* * * * * * *
49213804 ACTCCACTGTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCGCTGTAAACTCAGGAAG
1 ACTCCACTGTAACCTCAGGGAGATAAGATAGTATATTCAATCTGCCCCACTGTAAACTCAGGAAG
*
49213869 ATAAGATTTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCGG
66 ATAAGATTTCTGGCTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCGG
49213934 TCT
131 TCT
*
49213937 ACTCCACTGTAACCTCAGGGAGATAAGACTTGTATATTCAA-CTTGCCCCACTGT-AACTTCAGG
1 ACTCCACTGTAACCTCAGGGAGATAAGA-TAGTATATTCAATC-TGCCCCACTGTAAAC-TCAGG
* * * * * ** *
49214000 GAGATAAGGTTTGTGGCTCCGATCTGCTCCTCTGTAGTCTCAGGGAGATGAGAC
63 AAGATAAGATTTCTGGCTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAC
49214054 TTGATACGAT
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
133 30 0.31
134 67 0.69
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (133 bp):
ACTCCACTGTAACCTCAGGGAGATAAGATAGTATATTCAATCTGCCCCACTGTAAACTCAGGAAG
ATAAGATTTCTGGCTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGAAATTCTTCGG
TCT
Found at i:49231541 original size:40 final size:40
Alignment explanation
Indices: 49231481--49231630 Score: 237
Period size: 40 Copynumber: 3.8 Consensus size: 40
49231471 NNNNNNNNNN
*
49231481 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
*
49231521 ATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
*
49231561 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * * *
49231601 ACCCGGGTTAAGACCTGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
49231631 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 102 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:49231642 original size:80 final size:80
Alignment explanation
Indices: 49231481--49231650 Score: 252
Period size: 80 Copynumber: 2.1 Consensus size: 80
49231471 NNNNNNNNNN
* *
49231481 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCTGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATACCCGGGCTAAGACCTGAAGGCAAT
*
49231546 TGTGCGAGTTGATAT
66 TGTGCGAGTGGATAT
* * *
49231561 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCTGAAGGCAAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATACCCGGGCTAAGACCTGAAGGCAAT
** *
49231626 TGTGCTTGTGGTTAT
66 TGTGCGAGTGGATAT
49231641 ATCC-GGCTAA
1 ATCCGGGCTAA
49231651 ATTCCGAAGA
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
79 6 0.07
80 75 0.93
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATACCCGGGCTAAGACCTGAAGGCAAT
TGTGCGAGTGGATAT
Found at i:49242771 original size:50 final size:50
Alignment explanation
Indices: 49242695--49243317 Score: 233
Period size: 50 Copynumber: 12.5 Consensus size: 50
49242685 GCAGCGTAAC
* * * *
49242695 AGATTGAAGCGACAACAGCGAATCTTACTTCCCCGACATTACAATTCAGA
1 AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAGA
* * * * *
49242745 AGATCGAAGCCACAATGGTGAATCTTATTTCCCAAGAGA-TGCAA--CAGAA
1 AGATCGAAGCCACAACGGCGAATCTTACTTCCC-CGACATTGCAATTCAG-A
* * * * * *
49242794 CAGATTGAAGCTACGACGGCGAATCTCACTTCCCCGACATTGCAATTTAAA
1 -AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAGA
* ** * * *
49242845 AGATCGAAGCCACAACGGCGAATCTTATTTCTCAGGA-AATG-TA-GCAGAA
1 AGATCGAAGCCACAACGGCGAATCTTACTTC-CCCGACATTGCAATTCAG-A
* * * * * *
49242894 CAGATTGAAGCTACGACGGCGAATCTCACTTTCCCGACATTGCAATTCAAA
1 -AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAGA
* * * * * * * * *
49242945 AGATTGAAGTCACAACGACAAATCTCA-TTTCCCTAGCGA-TGC-A-GCGGAA
1 AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGA-C-ATTGCAATTCAG-A
* * * * * * * * *
49242994 TAGATTGAAGCTACGATGGCTAATCTCACTTCCCCGACAGTGCAATTTAAA
1 -AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAGA
* * * *
49243045 AGATTGAAGCCACAACGGCGAATCTTACTT-CCCTAGCAATGC-A-TCGGAA
1 AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGA-CATTGCAATTCAG-A
* * * * * * * * *
49243094 CAGATTGAAGCTACGATGGTGAATCTCACTTCCCCGACAGTGCAATTTAAA
1 -AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAGA
* * * * *
49243145 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGA-TGC-A-GCAGAA
1 AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGAC-ATTGCAATTCAG-A
* * ** * * *
49243194 CAGATTGAAGCTACGGCGGCGAATC--ACTTCCCCAATATTGCAATTCACA
1 -AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAGA
* * * * * * * *
49243243 AGATTGAAGCTACGATGGCAAATCTTGCTTTCCCGACATTGCAACT-A-A
1 AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAGA
* * *
49243291 AGATTGAAGTCGCAACGGCGAATCTTA
1 AGATCGAAGCCACAACGGCGAATCTTA
49243318 TTTTCTCGAC
Statistics
Matches: 420, Mismatches: 119, Indels: 70
0.69 0.20 0.11
Matches are distributed among these distances:
47 1 0.00
48 59 0.14
49 30 0.07
50 301 0.72
51 25 0.06
52 4 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
AGATCGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTCAGA
Found at i:49242825 original size:100 final size:100
Alignment explanation
Indices: 49242631--49243252 Score: 734
Period size: 100 Copynumber: 6.2 Consensus size: 100
49242621 AAGAAACCAT
* * *
49242631 ACATTGCAAATT-AAAAGATTGAAGCCACAACGGTGAATCTTACTT-CCAGGCGATGCAGC-GTA
1 ACATTGC-AATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAAGAGATGCAGCAG-A
* * * *
49242693 ACAGATTGAAGCGACAACAGCGAATCTTACTTCCCCG
64 ACAGATTGAAGCTACGACGGCGAATCTCACTTCCCCG
* * * * * * *
49242730 ACATTACAATTCAGAAGATCGAAGCCACAATGGTGAATCTTATTTCCCAAGAGATGCAACAGAAC
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAAGAGATGCAGCAGAAC
49242795 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCG
66 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCG
* * * * * * *
49242830 ACATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTATTTCTCAGGAAATGTAGCAGAAC
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAAGAGATGCAGCAGAAC
*
49242895 AGATTGAAGCTACGACGGCGAATCTCACTTTCCCG
66 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCG
* * * * * * * * *
49242930 ACATTGCAATTCAAAAGATTGAAGTCACAACGACAAATCTCATTTCCCTAGCGATGCAGCGGAAT
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAAGAGATGCAGCAGAAC
* *
49242995 AGATTGAAGCTACGATGGCTAATCTCACTTCCCCG
66 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCG
* * * * *
49243030 ACAGTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCA-ATGCATCGGAA
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAAG-AGATGCAGCAGAA
* *
49243094 CAGATTGAAGCTACGATGGTGAATCTCACTTCCCCG
65 CAGATTGAAGCTACGACGGCGAATCTCACTTCCCCG
* * * * *
49243130 ACAGTGCAATTTAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCAGAAC
1 ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAAGAGATGCAGCAGAAC
* *
49243195 AGATTGAAGCTACGGCGGCGAA--TCACTTCCCCA
66 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCG
* *
49243228 ATATTGCAATTCACAAGATTGAAGC
1 ACATTGCAATTCAAAAGATTGAAGC
49243253 TACGATGGCA
Statistics
Matches: 452, Mismatches: 66, Indels: 11
0.85 0.12 0.02
Matches are distributed among these distances:
98 35 0.08
99 35 0.08
100 381 0.84
101 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (100 bp):
ACATTGCAATTCAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAAGAGATGCAGCAGAAC
AGATTGAAGCTACGACGGCGAATCTCACTTCCCCG
Found at i:49243495 original size:15 final size:16
Alignment explanation
Indices: 49243477--49243513 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
49243467 CCCCAGGCCC
49243477 AAACAAAAACA-AAAA
1 AAACAAAAACAGAAAA
*
49243492 AAAC-AAATCAGAAAA
1 AAACAAAAACAGAAAA
49243507 AAACAAA
1 AAACAAA
49243514 CCCTAGGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 5 0.26
15 12 0.63
16 2 0.11
ACGTcount: A:0.81, C:0.14, G:0.03, T:0.03
Consensus pattern (16 bp):
AAACAAAAACAGAAAA
Found at i:49243597 original size:20 final size:20
Alignment explanation
Indices: 49243568--49243618 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
49243558 CCCTAGCCCT
* *
49243568 GCCACTGCCATGGTCACGTC
1 GCCACCGCCACGGTCACGTC
49243588 GCCACCGCCACGGTCACGTC
1 GCCACCGCCACGGTCACGTC
* *
49243608 ACCACCACCAC
1 GCCACCGCCAC
49243619 TTACGCCGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.20, C:0.49, G:0.20, T:0.12
Consensus pattern (20 bp):
GCCACCGCCACGGTCACGTC
Found at i:49243835 original size:7 final size:7
Alignment explanation
Indices: 49243823--49243847 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49243813 TCTATTCGTT
49243823 TTTTATA
1 TTTTATA
49243830 TTTTATA
1 TTTTATA
49243837 TTTTATA
1 TTTTATA
49243844 TTTT
1 TTTT
49243848 TTTATTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:49244573 original size:19 final size:20
Alignment explanation
Indices: 49244541--49244581 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
49244531 TTTCATTTCG
49244541 ATTTAATCCCCTTTTTTAGC
1 ATTTAATCCCCTTTTTTAGC
49244561 ATTTAAT-CCCTTTTTTAGC
1 ATTTAATCCCCTTTTTTAGC
49244580 AT
1 AT
49244582 CTTCTATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (20 bp):
ATTTAATCCCCTTTTTTAGC
Found at i:49244638 original size:3 final size:3
Alignment explanation
Indices: 49244632--49244721 Score: 119
Period size: 3 Copynumber: 29.7 Consensus size: 3
49244622 TAATGTTACC
49244632 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
49244680 ATC ATC ATCCT -TT ATT ATT ATT ATT AAT ATT ATT ATC ATT AT
1 ATT ATT AT--T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
49244722 ATTTCCATTA
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
2 1 0.01
3 76 0.97
4 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:49245022 original size:18 final size:18
Alignment explanation
Indices: 49245001--49245051 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
49244991 TCCTTTATTT
49245001 TTATGTTCATTTATGTAC
1 TTATGTTCATTTATGTAC
49245019 TTA--TT--TTTAT-T--
1 TTATGTTCATTTATGTAC
49245030 TTATGTTCATTTATGTAC
1 TTATGTTCATTTATGTAC
49245048 TTAT
1 TTAT
49245052 TTTTATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 14
0.65 0.00 0.35
Matches are distributed among these distances:
11 3 0.12
13 3 0.12
14 5 0.19
15 5 0.19
16 3 0.12
18 7 0.27
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.63
Consensus pattern (18 bp):
TTATGTTCATTTATGTAC
Found at i:49245023 original size:24 final size:24
Alignment explanation
Indices: 49244995--49245065 Score: 97
Period size: 29 Copynumber: 2.8 Consensus size: 24
49244985 ATGTTTTCCT
49244995 TTATTTTTATGTTCATTTATGTAC
1 TTATTTTTATGTTCATTTATGTAC
49245019 TTATTTTTATTTTATGTTCATTTATGTAC
1 TTA----T-TTTTATGTTCATTTATGTAC
49245048 TTATTTTTATGTTCATTT
1 TTATTTTTATGTTCATTT
49245066 TTATGCTTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
24 17 0.40
25 1 0.02
28 1 0.02
29 23 0.55
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.66
Consensus pattern (24 bp):
TTATTTTTATGTTCATTTATGTAC
Found at i:49245031 original size:29 final size:29
Alignment explanation
Indices: 49244994--49245057 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
49244984 TATGTTTTCC
49244994 TTTATTTTTATGTTCATTTATGTACTTATT
1 TTTA-TTTTATGTTCATTTATGTACTTATT
49245024 TTTATTTTATGTTCATTTATGTACTTATT
1 TTTATTTTATGTTCATTTATGTACTTATT
49245053 TTTAT
1 TTTAT
49245058 GTTCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.20, C:0.06, G:0.06, T:0.67
Consensus pattern (29 bp):
TTTATTTTATGTTCATTTATGTACTTATT
Found at i:49245444 original size:109 final size:108
Alignment explanation
Indices: 49245222--49245733 Score: 771
Period size: 109 Copynumber: 4.7 Consensus size: 108
49245212 TTTCTAATTG
* * *
49245222 AGGCAATATTTAGCGTTTGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* *
49245287 CGTTCAACCAAATGGCTTCATATCCTTTTAAAATTTTAAAATA
66 CGTTCAACCAAATGACTTAATATCCTTTTAAAATTTTAAAATA
*
49245330 AGGCAATGTTTTGCGGTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTTC
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA-TTTTTC
49245395 TCGTTCAACCAAATGACTTAATATCCTTTTAAAATTTTAAAATA
65 TCGTTCAACCAAATGACTTAATATCCTTTTAAAATTTTAAAATA
* * *
49245439 AGGCAATGTTTTGCGTTTGGAATTTCGAGAAAACATGCCTTAAGGTGCTGGGTGTCGATTTCTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
49245504 CGTTCAACCAAATGGCTTAATATCCTTTTAAAAATTTTAAAATA
66 CGTTCAACCAAATGACTTAATATCCTTTT-AAAATTTTAAAATA
49245548 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTTC
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGA-TTTTTC
* * * *
49245613 TCGTTCAACCAAAT-AGCTAAATAGCCTTTCAAAAATTTCAAAATA
65 TCGTTCAACCAAATGA-CTTAATATCCTTT-TAAAATTTTAAAATA
* * * *
49245658 AGGCAATGTTTTGCGTTTGGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTTGA--TTTC
1 AGGCAATGTTTTGCGTTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
*
49245720 TCGTTTAACCAAAT
65 TCGTTCAACCAAAT
49245734 TGCCAAATAT
Statistics
Matches: 374, Mismatches: 24, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
107 17 0.05
108 88 0.24
109 173 0.46
110 85 0.23
111 11 0.03
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (108 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATGACTTAATATCCTTTTAAAATTTTAAAATA
Found at i:49254831 original size:60 final size:60
Alignment explanation
Indices: 49254738--49254854 Score: 171
Period size: 60 Copynumber: 1.9 Consensus size: 60
49254728 TGTTACATTT
* * *
49254738 ACATCGTATAATTCTATGAGACCACATGATGTAGGTTCGCACCATCATATAGGCGAACCC
1 ACATCATATAATTCTATGAGACCACACGATGTAGGTTCGCACCATCATATAGCCGAACCC
** * *
49254798 ACATCATATAATTCTATGAGACTGCACGATGTAGGTTCGCATCATCTTATAGCCGAA
1 ACATCATATAATTCTATGAGACCACACGATGTAGGTTCGCACCATCATATAGCCGAA
49254855 TTAACATTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 50 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (60 bp):
ACATCATATAATTCTATGAGACCACACGATGTAGGTTCGCACCATCATATAGCCGAACCC
Done.