Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 161 of 189
Found at i:48353623 original size:12 final size:12
Alignment explanation
Indices: 48353606--48353636 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48353596 CAAAAGCATG
48353606 CTCCATTCTCAA
1 CTCCATTCTCAA
*
48353618 CTCCATTCTCGA
1 CTCCATTCTCAA
48353630 CTCCATT
1 CTCCATT
48353637 TACAACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.42, G:0.03, T:0.35
Consensus pattern (12 bp):
CTCCATTCTCAA
Found at i:48355198 original size:22 final size:22
Alignment explanation
Indices: 48355155--48355198 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
48355145 AATATATAAT
*
48355155 TAAATTAATCAAAATTTACAAA
1 TAAATTAATCAAAAATTACAAA
*
48355177 TAAA-TAATCCAAAAATTGCAAA
1 TAAATTAAT-CAAAAATTACAAA
48355199 CAGCAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAATTAATCAAAAATTACAAA
Found at i:48356043 original size:25 final size:26
Alignment explanation
Indices: 48356005--48356053 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
48355995 GGACAGAATT
48356005 TTGTTAAAATGAAATAATAAAAATAA
1 TTGTTAAAATGAAATAATAAAAATAA
48356031 TTGTT-AAATGAAATAATAAAAAT
1 TTGTTAAAATGAAATAATAAAAAT
48356054 TGAGCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (26 bp):
TTGTTAAAATGAAATAATAAAAATAA
Found at i:48358913 original size:23 final size:23
Alignment explanation
Indices: 48358887--48358931 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
48358877 TAATTTTTCT
48358887 TTAAATTAAATTAAATTA-ATCGA
1 TTAAATT-AATTAAATTAGATCGA
*
48358910 TTAAATTGATTAAATTAGATCG
1 TTAAATTAATTAAATTAGATCG
48358932 GATTGATAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (23 bp):
TTAAATTAATTAAATTAGATCGA
Found at i:48360088 original size:27 final size:27
Alignment explanation
Indices: 48360058--48360110 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
48360048 TGGAGGTTAT
48360058 GGAGGATACGGAGGGCGCGGTGGGTAC
1 GGAGGATACGGAGGGCGCGGTGGGTAC
*
48360085 GGAGGATACGGAGGGCGTGGTGGGTA
1 GGAGGATACGGAGGGCGCGGTGGGTA
48360111 TGGTGGTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.11, G:0.57, T:0.13
Consensus pattern (27 bp):
GGAGGATACGGAGGGCGCGGTGGGTAC
Found at i:48361991 original size:16 final size:17
Alignment explanation
Indices: 48361970--48362002 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
48361960 AATCCTTTAA
48361970 AAATATAAAT-TAATTT
1 AAATATAAATATAATTT
*
48361986 AAATATATATATAATTT
1 AAATATAAATATAATTT
48362003 TTTAGATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATATAAATATAATTT
Found at i:48362044 original size:32 final size:32
Alignment explanation
Indices: 48361999--48362063 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
48361989 TATATATATA
* *
48361999 ATTTTTTAGATAAATTCAAG-TACCAATTAAAT
1 ATTTTCTAAATAAATT-AAGATACCAATTAAAT
*
48362031 ATTTTCTAAATAAATTATGATACCAATTAAAT
1 ATTTTCTAAATAAATTAAGATACCAATTAAAT
48362063 A
1 A
48362064 CTTATAGGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 27 0.93
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (32 bp):
ATTTTCTAAATAAATTAAGATACCAATTAAAT
Found at i:48362282 original size:28 final size:29
Alignment explanation
Indices: 48362226--48362292 Score: 127
Period size: 28 Copynumber: 2.3 Consensus size: 29
48362216 ATAAAAAATA
48362226 ACCAAAATATTATAACTTTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTTATTT
48362255 ACCAAAATATTATAA-TTTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTTTATTT
48362283 ACCAAAATAT
1 ACCAAAATAT
48362293 ACCAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (29 bp):
ACCAAAATATTATAACTTTTTTTTTATTT
Found at i:48362379 original size:27 final size:27
Alignment explanation
Indices: 48362340--48362398 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
48362330 GCCTGATCAG
48362340 GCCAATCACATTGGAGGCACCAAAGGT
1 GCCAATCACATTGGAGGCACCAAAGGT
* * * *
48362367 GCCAATGAGATTGGCGGCACCAATGGT
1 GCCAATCACATTGGAGGCACCAAAGGT
48362394 GCCAA
1 GCCAA
48362399 AGGACTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.29, T:0.15
Consensus pattern (27 bp):
GCCAATCACATTGGAGGCACCAAAGGT
Found at i:48363419 original size:11 final size:10
Alignment explanation
Indices: 48363391--48363424 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
48363381 TCATCGTTTC
48363391 TTTT-TTTTA
1 TTTTCTTTTA
48363400 TTTTCTTTTA
1 TTTTCTTTTA
48363410 TTTTCATTTTA
1 TTTTC-TTTTA
48363421 TTTT
1 TTTT
48363425 ACCTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.17
10 10 0.43
11 9 0.39
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:48364185 original size:16 final size:16
Alignment explanation
Indices: 48364143--48364186 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
48364133 TTTACATATA
48364143 TATATACATTATTATTT
1 TATATACA-TATTATTT
* * *
48364160 TATTTTCATATTTTTT
1 TATATACATATTATTT
48364176 TATATACATAT
1 TATATACATAT
48364187 ATATACTCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (16 bp):
TATATACATATTATTT
Found at i:48366025 original size:13 final size:13
Alignment explanation
Indices: 48366007--48366031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48365997 AAGAGATTTA
48366007 TTTTCTAGTAAAG
1 TTTTCTAGTAAAG
48366020 TTTTCTAGTAAA
1 TTTTCTAGTAAA
48366032 AAATTAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (13 bp):
TTTTCTAGTAAAG
Found at i:48366101 original size:19 final size:19
Alignment explanation
Indices: 48366061--48366102 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
48366051 GTCTCTTTTC
* *
48366061 GCATTCATTTCATGCATTT
1 GCATTCATTACATGCATAT
48366080 GCATTACATTACAT-CATAT
1 GCATT-CATTACATGCATAT
48366099 GCAT
1 GCAT
48366103 CAAAGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (19 bp):
GCATTCATTACATGCATAT
Found at i:48368922 original size:7 final size:7
Alignment explanation
Indices: 48368897--48368929 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
48368887 AGTGATGTGA
48368897 AAAAATG
1 AAAAATG
48368904 AAAAGATG
1 AAAA-ATG
48368912 -AAAATG
1 AAAAATG
48368918 AAAAATG
1 AAAAATG
48368925 AAAAA
1 AAAAA
48368930 GTAAAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 18 0.75
8 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:48368936 original size:21 final size:21
Alignment explanation
Indices: 48368897--48368945 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
48368887 AGTGATGTGA
*
48368897 AAAAATGAAAAGATGAAAA-T
1 AAAAATGAAAAGATAAAAAGT
48368917 GAAAAATGAAAA-AGTAAAAAGT
1 -AAAAATGAAAAGA-TAAAAAGT
48368939 AAAAATG
1 AAAAATG
48368946 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAGATAAAAAGT
Found at i:48370328 original size:132 final size:132
Alignment explanation
Indices: 48370088--48370865 Score: 1236
Period size: 132 Copynumber: 5.9 Consensus size: 132
48370078 TTGACAGCGA
* **
48370088 AGCAGATCGAAGATGGCAAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
48370153 TTTATCTCCCT-AGACAGTAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
66 TCTATCTCCCTGAG-CAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAG
48370217 TGG
130 TGG
* * * *
48370220 AGTAGATCAAAGATGGTGGATTTTACCTCCCTGAGGTTACAGTAGAGTACATTGAAGCTAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
48370285 TCTATCTCCCTAAGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
48370350 GG
131 GG
* *
48370352 AGCAGATCAAGGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
48370417 TCTATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCGCTAAGCAGTAGT
66 TCTATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
48370482 GG
131 GG
* *
48370484 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* ** * *
48370549 TCTATCTCCCTGGGCAATAGTGGAATATATTGAAGATTACAGATCTTATCTCCCTAAACAGTAGT
66 TCTATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
48370614 GG
131 GG
* * *
48370616 AGCAGATCAAGGATGGCGGGTTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
48370681 TCTATCTCCCTGGGCAGTAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
66 TCTATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
48370746 GG
131 GG
* * ** * *
48370748 AGTAGATCGAAGATGGTAGATTTTACCTCCCTGAGGTTACAGTGAAATACATTGAAGCCAGTAAT
1 AGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
48370813 TCTATCTCCCT-AGGCAGCAGTCGAATAGATTGAAGATTACAGATCTTATCTCC
66 TCTATCTCCCTGA-GCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCC
48370866 TTAGGCAGCG
Statistics
Matches: 599, Mismatches: 45, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
132 597 1.00
133 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (132 bp):
AGCAGATCAAAGATGGCGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTATCTCCCTGAGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGT
GG
Found at i:48371793 original size:11 final size:10
Alignment explanation
Indices: 48371765--48371798 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
48371755 TCATCGTTTC
48371765 TTTT-TTTTA
1 TTTTCTTTTA
48371774 TTTTCTTTTA
1 TTTTCTTTTA
48371784 TTTTCATTTTA
1 TTTTC-TTTTA
48371795 TTTT
1 TTTT
48371799 ACCTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 4 0.17
10 10 0.43
11 9 0.39
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:48372441 original size:18 final size:18
Alignment explanation
Indices: 48372399--48372444 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
48372389 TATTGTATCC
* *
48372399 TTATTATTATATTATTCG
1 TTATTTTTATATTATTCA
48372417 TTA-TTTTATCATTATT-A
1 TTATTTTTAT-ATTATTCA
48372434 TTATTTTTATA
1 TTATTTTTATA
48372445 CACTTACATG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (18 bp):
TTATTTTTATATTATTCA
Found at i:48372559 original size:17 final size:18
Alignment explanation
Indices: 48372516--48372562 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
48372506 TTTACATATA
48372516 TATATACAT-TATTATTT
1 TATATACATATATTATTT
* * *
48372533 TATTTTCATAT-TTTTTT
1 TATATACATATATTATTT
48372550 TATATACATATAT
1 TATATACATATAT
48372563 ATACTCATAC
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
17 21 0.91
18 2 0.09
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (18 bp):
TATATACATATATTATTT
Found at i:48373525 original size:19 final size:19
Alignment explanation
Indices: 48373501--48373596 Score: 117
Period size: 19 Copynumber: 5.2 Consensus size: 19
48373491 TCTAATTAAG
48373501 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
48373520 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
48373538 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* *
48373557 TAATGAA--CTATTCTCATT
1 TAAT-AACTCTATTTTAATT
48373575 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
48373594 TAA
1 TAA
48373597 AAAATTAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
17 2 0.03
18 28 0.44
19 31 0.49
20 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.49
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:48373542 original size:37 final size:37
Alignment explanation
Indices: 48373501--48373596 Score: 183
Period size: 37 Copynumber: 2.6 Consensus size: 37
48373491 TCTAATTAAG
48373501 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
*
48373538 TAATAACTCTATTTTAATTTAATGAACTATTCTCATT
1 TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
48373575 TAATAACTCTATTTTAATTTAA
1 TAATAACTCTATTTTAATTTAA
48373597 AAAATTAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.49
Consensus pattern (37 bp):
TAATAACTCTATTTTAATTTAATAAACTATTCTCATT
Found at i:48373693 original size:18 final size:19
Alignment explanation
Indices: 48373632--48373688 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
48373622 AATTTTTTTA
48373632 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
* * *
48373651 AAATGAGAATAG-TTTATT
1 AAATTAAAATAGAGTTATT
48373669 AAATTAAAATAGAGTTATT
1 AAATTAAAATAGAGTTATT
48373688 A
1 A
48373689 CTTAATTAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.51, C:0.00, G:0.12, T:0.37
Consensus pattern (19 bp):
AAATTAAAATAGAGTTATT
Found at i:48374278 original size:27 final size:27
Alignment explanation
Indices: 48374240--48374308 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
48374230 CATTTTAGTC
48374240 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
48374267 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
* *
48374294 CATTGGCACCTTTGG
1 CTTTGGCACCATTGG
48374309 CAGCAATTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.14, C:0.32, G:0.23, T:0.30
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:48374428 original size:27 final size:27
Alignment explanation
Indices: 48374389--48374447 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
48374379 TTTTAGTCCT
48374389 TTGGCACCATTGGTGCCGCCAATCTCA
1 TTGGCACCATTGGTGCCGCCAATCTCA
** * * *
48374416 TTGGCACTTTTGGTGCCTCCAATGTGA
1 TTGGCACCATTGGTGCCGCCAATCTCA
48374443 TTGGC
1 TTGGC
48374448 CTAATCAGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.15, C:0.27, G:0.25, T:0.32
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATCTCA
Found at i:48374438 original size:147 final size:147
Alignment explanation
Indices: 48374166--48374447 Score: 483
Period size: 147 Copynumber: 1.9 Consensus size: 147
48374156 CGCATAGTAG
* *
48374166 AATTCACTTTTAAAATTCAAAATGGTAAATTTGCATGTCAGGTCCTTAAAACTGCAGAAAGTTAC
1 AATTCACTTTCAAAATTCAAAATAGTAAATTTGCATGTCAGGTCCTTAAAACTGCAGAAAGTTAC
*
48374231 ATTTTAGTCCTTTGGCACCATTGGTGCCGCCAATCTCTTTGGCACCATTGGTGCCGCCAATCTCA
66 ATTTTAGTCCTTTGGCACCATTGGTGCCGCCAATCTCATTGGCACCATTGGTGCCGCCAATCTCA
48374296 TTGGCACCTTTGGCAGC
131 TTGGCACCTTTGGCAGC
*
48374313 AATTCACTTTCAAAATTTAAAATAGTAAATTTGCATGTCAGGTCCTTAAAACTGCAGAAAGTTAC
1 AATTCACTTTCAAAATTCAAAATAGTAAATTTGCATGTCAGGTCCTTAAAACTGCAGAAAGTTAC
** * * *
48374378 ATTTTAGTCCTTTGGCACCATTGGTGCCGCCAATCTCATTGGCACTTTTGGTGCCTCCAATGTGA
66 ATTTTAGTCCTTTGGCACCATTGGTGCCGCCAATCTCATTGGCACCATTGGTGCCGCCAATCTCA
48374443 TTGGC
131 TTGGC
48374448 CTAATCAGAC
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 126 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (147 bp):
AATTCACTTTCAAAATTCAAAATAGTAAATTTGCATGTCAGGTCCTTAAAACTGCAGAAAGTTAC
ATTTTAGTCCTTTGGCACCATTGGTGCCGCCAATCTCATTGGCACCATTGGTGCCGCCAATCTCA
TTGGCACCTTTGGCAGC
Found at i:48374513 original size:28 final size:29
Alignment explanation
Indices: 48374482--48374538 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
48374472 TTTTCCATTT
*
48374482 TTTTTTTTGT-ATATTTTGATAAATAAAA
1 TTTTTTTTATAATATTTTGATAAATAAAA
48374510 TTTTTTTTATAATATTTTGATAAATAAAA
1 TTTTTTTTATAATATTTTGATAAATAAAA
48374539 AAAATTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (29 bp):
TTTTTTTTATAATATTTTGATAAATAAAA
Found at i:48381037 original size:21 final size:21
Alignment explanation
Indices: 48381008--48381057 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
48380998 AGTTAAACTA
* *
48381008 AGAAGTAGGTGTTGTAGGTTG
1 AGAATTAGGTGTTGTAGGGTG
48381029 AGAATTAGGTGTTGTAGGGTG
1 AGAATTAGGTGTTGTAGGGTG
*
48381050 AGTATTAG
1 AGAATTAG
48381058 TAATAGCAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.40, T:0.34
Consensus pattern (21 bp):
AGAATTAGGTGTTGTAGGGTG
Found at i:48387843 original size:18 final size:19
Alignment explanation
Indices: 48387801--48387843 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
48387791 TCAAGATCTT
48387801 AAATTAATATGGTCCAAAC
1 AAATTAATATGGTCCAAAC
*
48387820 AAATTAATGTGGTCCAAA-
1 AAATTAATATGGTCCAAAC
48387838 AAATTA
1 AAATTA
48387844 GTTAGTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.28
Consensus pattern (19 bp):
AAATTAATATGGTCCAAAC
Found at i:48391253 original size:21 final size:21
Alignment explanation
Indices: 48391227--48391280 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
48391217 CAATAATCTT
*
48391227 ATAATAATAATAATATGTTGA
1 ATAATAATAATAATATCTTGA
* * *
48391248 ATAATAATACTTATATCTTTA
1 ATAATAATAATAATATCTTGA
*
48391269 ATGATAATAATA
1 ATAATAATAATA
48391281 CTTATAATAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.41
Consensus pattern (21 bp):
ATAATAATAATAATATCTTGA
Found at i:48391275 original size:24 final size:25
Alignment explanation
Indices: 48391247--48391302 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
48391237 TAATATGTTG
*
48391247 AATAATAATACTTAT-ATCTTTAAT
1 AATAATAATACTTATAATATTTAAT
*
48391271 GATAATAATACTTATAATATTTAAT
1 AATAATAATACTTATAATATTTAAT
48391296 AATAATA
1 AATAATA
48391303 CAATAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 14 0.50
25 14 0.50
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (25 bp):
AATAATAATACTTATAATATTTAAT
Found at i:48398391 original size:47 final size:46
Alignment explanation
Indices: 48398329--48398496 Score: 152
Period size: 47 Copynumber: 3.7 Consensus size: 46
48398319 TATTTAATAT
*
48398329 TAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAA
1 TAATTATTTGAAATTATATAAATTCATATAAGAAAATTTATTAT-AA
**
48398376 TAATT-TTATGAAATTATAT--ATT-AT-T-ATTAAATTATATGTAATAA
1 TAATTATT-TGAAATTATATAAATTCATATAAGAAAATT-TAT-T-ATAA
* * *
48398420 TAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTAGTTA
1 TAATTATTTGAAATTATATAAATTCATATAAGAAAATTTATTA-TAA
* *
48398467 TAATTATTTTAAATTTTATTAAATT-ATATA
1 TAATTATTTGAAATTATA-TAAATTCATATA
48398497 TTTTAATTAA
Statistics
Matches: 99, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
42 6 0.06
43 4 0.04
44 19 0.19
45 7 0.07
46 6 0.06
47 42 0.42
48 9 0.09
49 6 0.06
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (46 bp):
TAATTATTTGAAATTATATAAATTCATATAAGAAAATTTATTATAA
Found at i:48398431 original size:26 final size:28
Alignment explanation
Indices: 48398377--48398437 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
48398367 TATTATCAAT
* *
48398377 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
48398405 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
48398431 AATTATA
1 AATTATA
48398438 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:48398449 original size:54 final size:53
Alignment explanation
Indices: 48398377--48398537 Score: 149
Period size: 54 Copynumber: 3.1 Consensus size: 53
48398367 TATTATCAAT
* *
48398377 AATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATAATTATTTTA
1 AATTATATCAAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTTA
* * *
48398431 AATTATA-CAAATTCATATA--A-GA--AAATT-TATTAGTTATAATTATTTTA
1 AATTATATCAAATT-ATATATTATTATTAAATTATATTAATAATAATTATTTTA
* * * *
48398478 AATTTTATTAAATTATATATT-TTAATTAAAATATATTTAATAATAATTATGTTA
1 AATTATATCAAATTATATATTATT-ATTAAATTATA-TTAATAATAATTATTTTA
48398532 AATTAT
1 AATTAT
48398538 CTTTTATAGT
Statistics
Matches: 84, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
47 26 0.31
48 8 0.10
49 5 0.06
50 1 0.01
51 1 0.01
52 5 0.06
53 7 0.08
54 31 0.37
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (53 bp):
AATTATATCAAATTATATATTATTATTAAATTATATTAATAATAATTATTTTA
Found at i:48398507 original size:18 final size:17
Alignment explanation
Indices: 48398479--48398513 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48398469 ATTATTTTAA
*
48398479 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48398496 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48398514 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48398533 original size:44 final size:41
Alignment explanation
Indices: 48398485--48398659 Score: 116
Period size: 39 Copynumber: 4.3 Consensus size: 41
48398475 TTAAATTTTA
*
48398485 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG
1 TTAAATTATATATTTTAATTATAATATA-TTAATAAT--TTATG
* * * *
48398529 TTAAA-T-TATCTTTTATAGTATCATATATT-ATGATTTGA-G
1 TTAAATTATATATTTTA-ATTATAATATATTAATAATTT-ATG
** * *
48398568 -TAAATT-TATATTAGAA-TATTAAT-TATTAAGAATTT-TA
1 TTAAATTATATATTTTAATTA-TAATATATTAATAATTTATG
*
48398605 TTAAATTATATATTTTAATTATAATATTTTTAATAATAATTATG
1 TTAAATTATATATTTTAATTATAATA-TATTAATAAT--TTATG
48398649 TTAAATTATAT
1 TTAAATTATAT
48398660 TTTATAGTAT
Statistics
Matches: 100, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
37 6 0.06
38 19 0.19
39 22 0.22
40 3 0.03
41 12 0.12
42 10 0.10
43 11 0.11
44 17 0.17
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (41 bp):
TTAAATTATATATTTTAATTATAATATATTAATAATTTATG
Found at i:48398575 original size:59 final size:59
Alignment explanation
Indices: 48398512--48398693 Score: 158
Period size: 59 Copynumber: 3.1 Consensus size: 59
48398502 ATTAAAATAT
*
48398512 ATTTAATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAA
1 ATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAA
* * * * * * * *
48398571 ATTT-ATATTAGA--ATATTAATTATTAAGAATTTTATTA-AATTATATATTTTAATTAT-AATA
1 ATTTAATAATA-ATTATGTTAA--ATT-A-TATTTTA-TAGTATCATATATTATGATT-TGAGTA
*
48398631 T
59 A
* *
48398632 TTTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGCTTTGAGTAA
1 ATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAA
48398691 ATT
1 ATT
48398694 CATATAAGAA
Statistics
Matches: 89, Mismatches: 22, Indels: 24
0.66 0.16 0.18
Matches are distributed among these distances:
57 6 0.07
58 8 0.09
59 31 0.35
60 2 0.02
61 28 0.31
62 8 0.09
63 6 0.07
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (59 bp):
ATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAA
Found at i:48398591 original size:66 final size:65
Alignment explanation
Indices: 48398516--48398705 Score: 172
Period size: 66 Copynumber: 3.1 Consensus size: 65
48398506 AAATATATTT
48398516 AATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTTATATTA
1 AATAATAATTATGTTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTTATATTA
48398581 G
65 G
* * * * * *
48398582 AATATTAATTAT-TAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AATATT-T-TT
1 AATAATAATTATGTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAAT-TTATATT
48398636 --
64 AG
* * *
48398636 AATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGCTTTGAGTAAATTCATATAA
1 AATAATAATTATGTTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTTATATTA
48398701 G
65 G
48398702 AATA
1 AATA
48398706 TTGATTATTA
Statistics
Matches: 93, Mismatches: 15, Indels: 32
0.66 0.11 0.23
Matches are distributed among these distances:
54 15 0.16
55 3 0.03
56 6 0.06
57 5 0.05
58 3 0.03
59 10 0.11
60 7 0.08
61 10 0.11
62 2 0.02
63 5 0.05
64 5 0.05
65 3 0.03
66 19 0.20
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (65 bp):
AATAATAATTATGTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTTATATTAG
Found at i:48398603 original size:120 final size:120
Alignment explanation
Indices: 48398478--48398726 Score: 435
Period size: 120 Copynumber: 2.1 Consensus size: 120
48398468 AATTATTTTA
*
48398478 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
48398543 ATAGTATCATATATTATGATTTGAGTAAATTTATATTAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
48398598 AATTTTATTAAATTATATATTTTAATTATAATATTTTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
* *
48398663 ATAGTATCATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
48398718 AATTTTATT
1 AATTTTATT
48398727 CCATTCAACC
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 122 1.00
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:48398616 original size:61 final size:62
Alignment explanation
Indices: 48398539--48398726 Score: 146
Period size: 61 Copynumber: 3.1 Consensus size: 62
48398529 TTAAATTATC
*
48398539 TTTTA-TAGTATCATATATTATGATTTGAGTAAATTTATATTAGAATATTAATTATTAAGAA
1 TTTTATTAGAATCATATATTATGATTTGAGTAAATTTATATTAGAATATTAATTATTAAGAA
* * * * *
48398600 TTTTATTA-AATTATATATT-TTAATT-A-T-AATATT-T-TT--AATAATAATTATGTTAAATT
1 TTTTATTAGAATCATATATTATGATTTGAGTAAAT-TTATATTAGAATATTAATTA--TT-AA-G
48398656 ATA
61 A-A
* * * * *
48398659 TTTTA-TAGTATCATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAAGAA
1 TTTTATTAGAATCATATATTATGATTTGAGTAAATTTATATTAGAATATTAATTATTAAGAA
48398720 TTTTATT
1 TTTTATT
48398727 CCATTCAACC
Statistics
Matches: 94, Mismatches: 16, Indels: 33
0.66 0.11 0.23
Matches are distributed among these distances:
54 10 0.11
56 4 0.04
57 6 0.06
58 6 0.06
59 16 0.17
60 7 0.07
61 21 0.22
62 6 0.06
63 6 0.06
64 3 0.03
66 9 0.10
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (62 bp):
TTTTATTAGAATCATATATTATGATTTGAGTAAATTTATATTAGAATATTAATTATTAAGAA
Found at i:48398637 original size:15 final size:15
Alignment explanation
Indices: 48398608--48398658 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
48398598 AATTTTATTA
48398608 AATTAT-ATA-TTTT
1 AATTATAATATTTTT
48398621 AATTATAATATTTTT
1 AATTATAATATTTTT
* * *
48398636 AATAATAATTATGTTA
1 AATTATAA-TATTTTT
48398652 AATTATA
1 AATTATA
48398659 TTTTATAGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 6 0.19
14 3 0.10
15 11 0.35
16 11 0.35
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
AATTATAATATTTTT
Found at i:48398776 original size:44 final size:45
Alignment explanation
Indices: 48398728--48398818 Score: 132
Period size: 45 Copynumber: 2.0 Consensus size: 45
48398718 AATTTTATTC
**
48398728 CATTCAACCAAACACA-AGA-TTACTATTATGCCTCTATTCCATTA
1 CATTCAACCAAACA-ATAGATTTACTATTACACCTCTATTCCATTA
*
48398772 CATTCAACCAAACAATTGATTTACTATTACACCTCTATTCCATTA
1 CATTCAACCAAACAATAGATTTACTATTACACCTCTATTCCATTA
48398817 CA
1 CA
48398819 CCTCTAATCC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 16 0.38
45 25 0.60
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.33
Consensus pattern (45 bp):
CATTCAACCAAACAATAGATTTACTATTACACCTCTATTCCATTA
Found at i:48398818 original size:16 final size:16
Alignment explanation
Indices: 48398797--48398843 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
48398787 TTGATTTACT
48398797 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
48398813 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
48398829 ATTACGCCTCTATTC
1 ATTACACCTCTATTC
48398844 TAATACAGCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.26, C:0.36, G:0.02, T:0.36
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:48400078 original size:5 final size:5
Alignment explanation
Indices: 48400062--48400095 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
48400052 AATATAGCTA
48400062 TTTAT ATTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT -TTTAT TTTAT TTTAT TTTAT TTTAT TTT
48400096 TATGAGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:48406308 original size:29 final size:29
Alignment explanation
Indices: 48406268--48406326 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
48406258 GAATATAAAC
*
48406268 TATATTTTTTATTTTTAAAATACACCACA
1 TATATTTTTTATTTTTAAAAAACACCACA
*
48406297 TATATTTTTTATTTTTAAAAAACACTACA
1 TATATTTTTTATTTTTAAAAAACACCACA
48406326 T
1 T
48406327 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (29 bp):
TATATTTTTTATTTTTAAAAAACACCACA
Found at i:48407469 original size:19 final size:19
Alignment explanation
Indices: 48407441--48407477 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
48407431 TATTATTATA
*
48407441 ATGTTGTTTATTTCGACTC
1 ATGTTATTTATTTCGACTC
*
48407460 ATGTTATTTATTTGGACT
1 ATGTTATTTATTTCGACT
48407478 TTTACTTATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.11, G:0.16, T:0.54
Consensus pattern (19 bp):
ATGTTATTTATTTCGACTC
Found at i:48410565 original size:5 final size:5
Alignment explanation
Indices: 48410550--48410582 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
48410540 ATATGACTAG
48410550 TTATAT TTATT TTATT TTATT TTATT TTATT TT
1 TTAT-T TTATT TTATT TTATT TTATT TTATT TT
48410583 TATGAGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:48414303 original size:29 final size:29
Alignment explanation
Indices: 48414270--48414325 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
48414260 TGTCCACTTC
*
48414270 TCCCAGATTGGTACTTAAGGTTTTTTTTG
1 TCCCAGATTAGTACTTAAGGTTTTTTTTG
48414299 TCCCAGATTAGTACTTAAGGTTTTTTT
1 TCCCAGATTAGTACTTAAGGTTTTTTT
48414326 CCATTAACTA
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:0.20, C:0.14, G:0.18, T:0.48
Consensus pattern (29 bp):
TCCCAGATTAGTACTTAAGGTTTTTTTTG
Found at i:48417350 original size:242 final size:243
Alignment explanation
Indices: 48416924--48417372 Score: 794
Period size: 242 Copynumber: 1.9 Consensus size: 243
48416914 GATATTGAGT
* * *
48416924 ATCAAACGAAACAAGGTGTGTACGCGAAATGCAAAAAAAAAAAGAGATTCGGCGAAAAGCTAAAA
1 ATCAAACAAAACAAGGTGTGAACGCGAAACGCAAAAAAAAAAAGAGATTCGGCGAAAAGCTAAAA
48416989 TTGCTTGCTATTTGACAGCAACAGTAGGCTAACTTTGAAAATTCACCATAAATTGTGGAAATTTA
66 TTGCTTGCTATTTGACAGCAACAGTAGGCTAACTTTGAAAATTCACCATAAATTGTGGAAATTTA
*
48417054 ATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTCATAGATGAAATGGA
131 ATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTCATAGATAAAATGGA
48417119 GTAAGTAATGGAGTTATAGGCTTTGGAGTGCTCAGGGACTATTTTAGC
196 GTAAGTAATGGAGTTATAGGCTTTGGAGTGCTCAGGGACTATTTTAGC
* * *
48417167 ATCAAACAAAACAAGGTGTGAACGCGAAACGC-AAAAAAAAAA-AGATTTGGCGAAAAGTTGAAA
1 ATCAAACAAAACAAGGTGTGAACGCGAAACGCAAAAAAAAAAAGAGATTCGGCGAAAAGCTAAAA
*
48417230 TTGCTTGCTATTTGGACAGCAGCAGTAGGCTAACTTTGAAAATTCACCATAAATTGTGGAAATTT
66 TTGCTTGCTATTT-GACAGCAACAGTAGGCTAACTTTGAAAATTCACCATAAATTGTGGAAATTT
48417295 AATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTCATAGATAAAATGG
130 AATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTCATAGATAAAATGG
*
48417360 TGTAAGTAATGGA
195 AGTAAGTAATGGA
48417373 ATTTTAAATC
Statistics
Matches: 196, Mismatches: 9, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
241 31 0.16
242 136 0.69
243 29 0.15
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (243 bp):
ATCAAACAAAACAAGGTGTGAACGCGAAACGCAAAAAAAAAAAGAGATTCGGCGAAAAGCTAAAA
TTGCTTGCTATTTGACAGCAACAGTAGGCTAACTTTGAAAATTCACCATAAATTGTGGAAATTTA
ATTAGAGGATGAATAAAATATGGAATTAAAGCTTATTGAGTCTAGTTTCTCATAGATAAAATGGA
GTAAGTAATGGAGTTATAGGCTTTGGAGTGCTCAGGGACTATTTTAGC
Found at i:48420913 original size:38 final size:39
Alignment explanation
Indices: 48420858--48420953 Score: 142
Period size: 41 Copynumber: 2.4 Consensus size: 39
48420848 CACTCTACTA
48420858 AGTACATGTTGAA-CATGTCTACTACTAC-TGTTGAATTG
1 AGTACATGTT-AAGCATGTCTACTACTACTTGTTGAATTG
48420896 AGTACATGTTAAGCATGTCTACTACTACTATTGTTGAATTG
1 AGTACATGTTAAGCATGTCTACTACTAC--TTGTTGAATTG
*
48420937 AATACATGTTAAGCATG
1 AGTACATGTTAAGCATG
48420954 GCTGCTGTTT
Statistics
Matches: 53, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
37 2 0.04
38 25 0.47
41 26 0.49
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (39 bp):
AGTACATGTTAAGCATGTCTACTACTACTTGTTGAATTG
Found at i:48425762 original size:5 final size:5
Alignment explanation
Indices: 48425752--48425781 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
48425742 TCTTAATTTT
48425752 TATTA TATTA TATTA TATTA TATTAA TATT
1 TATTA TATTA TATTA TATTA TATT-A TATT
48425782 TTTTATCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:48436450 original size:9 final size:9
Alignment explanation
Indices: 48436436--48436487 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
48436426 TTTGGTTAAA
48436436 AATTACCCG
1 AATTACCCG
48436445 AATTACCCG
1 AATTACCCG
48436454 AATTACCCG
1 AATTACCCG
*
48436463 AATTAACCG
1 AATTACCCG
*
48436472 AATTAACCG
1 AATTACCCG
48436481 AATTACC
1 AATTACC
48436488 GAAAAATACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 41 1.00
ACGTcount: A:0.38, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:48442920 original size:20 final size:19
Alignment explanation
Indices: 48442883--48442925 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
48442873 AGATGTGTTC
48442883 TTTTTTTTTTTTGATAAT-
1 TTTTTTTTTTTTGATAATA
*
48442901 TTTTTTATTTTTGTGGTAATA
1 TTTTTT-TTTTT-TGATAATA
48442922 TTTT
1 TTTT
48442926 AAGGGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 5 0.24
20 6 0.29
21 4 0.19
ACGTcount: A:0.16, C:0.00, G:0.09, T:0.74
Consensus pattern (19 bp):
TTTTTTTTTTTTGATAATA
Found at i:48443463 original size:36 final size:34
Alignment explanation
Indices: 48443390--48443465 Score: 82
Period size: 36 Copynumber: 2.1 Consensus size: 34
48443380 TTAAAAATTA
*
48443390 AAAAATTAAAAAATATATAATTATTTAAATTAATT
1 AAAAATTAAAAAAAATATAATTATTTAAATT-ATT
* *
48443425 AAAAATTATAAAAAAATTTAATATTTTTAATATT-TT
1 AAAAATTA-AAAAAAATATAAT-TATTTAA-ATTATT
48443461 AAAAA
1 AAAAA
48443466 ATAATTAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
35 8 0.23
36 18 0.51
37 6 0.17
38 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (34 bp):
AAAAATTAAAAAAAATATAATTATTTAAATTATT
Found at i:48445624 original size:31 final size:32
Alignment explanation
Indices: 48445575--48445634 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
48445565 TTGGTACTTG
*
48445575 AATTTGACATGTTTTTCTTAA-TTTAGTATCTC
1 AATTTGACATCTTTTTCTTAAGTTT-GTATCTC
48445607 AATTTGACA-CTTTTTCTTAAGTTTGTAT
1 AATTTGACATCTTTTTCTTAAGTTTGTAT
48445635 TTAAACTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (32 bp):
AATTTGACATCTTTTTCTTAAGTTTGTATCTC
Found at i:48445890 original size:19 final size:18
Alignment explanation
Indices: 48445858--48445894 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
48445848 TCAATTGCTT
48445858 TTAATTTTATTTAATTAA
1 TTAATTTTATTTAATTAA
*
48445876 TTAATTTTTTATTAATTAA
1 TTAATTTTAT-TTAATTAA
48445895 AATAACGAAT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTAATTTTATTTAATTAA
Found at i:48447133 original size:28 final size:29
Alignment explanation
Indices: 48447071--48447127 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
48447061 TTAAAAATTT
**
48447071 AAAAATAA-TAAAAGTTATTTTTAAAAGTG
1 AAAAA-AATTAAAAGTTATTTAAAAAAGTG
48447100 AAAAAAATTAAAA-TTATTTAAAAAAGTG
1 AAAAAAATTAAAAGTTATTTAAAAAAGTG
48447128 TCAAAATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.32
Consensus pattern (29 bp):
AAAAAAATTAAAAGTTATTTAAAAAAGTG
Found at i:48458665 original size:34 final size:33
Alignment explanation
Indices: 48458599--48458671 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 33
48458589 ACATTTCAAT
* * *
48458599 TCAGTTGGGCCTTTGCCTATTGCAGTATCAGTA
1 TCAGTTGGGCCTTAGCCCATTACAGTATCAGTA
48458632 TCAGTGTGGGCCTTAGCCCATTACAGTGA-CAGTA
1 TCAGT-TGGGCCTTAGCCCATTACAGT-ATCAGTA
*
48458666 ACAGTT
1 TCAGTT
48458672 CAGATATGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
33 6 0.18
34 27 0.79
35 1 0.03
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (33 bp):
TCAGTTGGGCCTTAGCCCATTACAGTATCAGTA
Found at i:48458977 original size:27 final size:27
Alignment explanation
Indices: 48458937--48459008 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
48458927 ATAACATAAA
*
48458937 GCAT-ACAGTTATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
** *
48458963 GCATAACAGTCATTTTACCACGTAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
48458990 GCATAACAATCATTTTATA
1 GCATAACAGTCATTTTATA
48459009 TCAGTTTGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.11
27 34 0.89
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (27 bp):
GCATAACAGTCATTTTATAACATAGGG
Found at i:48460688 original size:23 final size:23
Alignment explanation
Indices: 48460662--48460709 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
48460652 GGAGCTGTCT
48460662 TTGATGACCAATGTTCGAATCCC
1 TTGATGACCAATGTTCGAATCCC
*
48460685 TTGATGACCAGTGTTCGAATCCC
1 TTGATGACCAATGTTCGAATCCC
48460708 TT
1 TT
48460710 CCTTCTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (23 bp):
TTGATGACCAATGTTCGAATCCC
Found at i:48466024 original size:257 final size:257
Alignment explanation
Indices: 48465568--48466080 Score: 981
Period size: 257 Copynumber: 2.0 Consensus size: 257
48465558 AGTTCCTTTG
*
48465568 GAGATTGGAAAACATTTTCAAATTCTGCCAATACCAATTGCAAATCCCTACTATCAACCAGACCT
1 GAGATTGGAAAACATCTTCAAATTCTGCCAATACCAATTGCAAATCCCTACTATCAACCAGACCT
48465633 GACATATGTAGAAGGGTGTGCTTGCTCAGGGTGATGAGCAATGGCCAAGTACTCTGATCAGACAG
66 GACATATGTAGAAGGGTGTGCTTGCTCAGGGTGATGAGCAATGGCCAAGTACTCTGATCAGACAG
* *
48465698 ATGCACCAACTTAGTGCTTTGAGTCCCTATCATAATCTGAATAGCTCTTAGAAGTATTCATTGTA
131 ATGCACCAACTTAGTGCTTTGAGTACCTATCATAATCTGAATAGCTCCTAGAAGTATTCATTGTA
48465763 AAGTACAATAGTGATCATTGTATACAAACTGCATAGTAAGAGAACTGAAATTCCAGACTATT
196 AAGTACAATAGTGATCATTGTATACAAACTGCATAGTAAGAGAACTGAAATTCCAGACTATT
48465825 GAGATTGGAAAACATCTTCAAATTCTGCCAATACCAATTGCAAATCCCTACTATCAACCAGACCT
1 GAGATTGGAAAACATCTTCAAATTCTGCCAATACCAATTGCAAATCCCTACTATCAACCAGACCT
48465890 GACATATGTAGAAGGGTGTGCTTGCTCAGGGTGATGAGCAATGGCCAAGTACTCTGATCAGACAG
66 GACATATGTAGAAGGGTGTGCTTGCTCAGGGTGATGAGCAATGGCCAAGTACTCTGATCAGACAG
48465955 ATGCACCAACTTAGTGCTTTGAGTACCTATCATAATCTGAATAGCTCCTAGAAGTATTCATTGTA
131 ATGCACCAACTTAGTGCTTTGAGTACCTATCATAATCTGAATAGCTCCTAGAAGTATTCATTGTA
**
48466020 AAGTACAATAGTGATTGTTGTATACAAACTGCATAGTAAGAGAACTGAAATTCCAGACTAT
196 AAGTACAATAGTGATCATTGTATACAAACTGCATAGTAAGAGAACTGAAATTCCAGACTAT
48466081 GGACCCCAAG
Statistics
Matches: 251, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
257 251 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (257 bp):
GAGATTGGAAAACATCTTCAAATTCTGCCAATACCAATTGCAAATCCCTACTATCAACCAGACCT
GACATATGTAGAAGGGTGTGCTTGCTCAGGGTGATGAGCAATGGCCAAGTACTCTGATCAGACAG
ATGCACCAACTTAGTGCTTTGAGTACCTATCATAATCTGAATAGCTCCTAGAAGTATTCATTGTA
AAGTACAATAGTGATCATTGTATACAAACTGCATAGTAAGAGAACTGAAATTCCAGACTATT
Found at i:48468039 original size:20 final size:20
Alignment explanation
Indices: 48468012--48468063 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
48468002 ACAAAAGTGT
* *
48468012 GTAT-AGGAGCACGAATGTG
1 GTATCAGGAGCACGAAAGTA
*
48468031 GTATCAGGAGTACGAAAGTA
1 GTATCAGGAGCACGAAAGTA
*
48468051 CTATCAGGAGCAC
1 GTATCAGGAGCAC
48468064 TTATTCAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 4 0.15
20 23 0.85
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (20 bp):
GTATCAGGAGCACGAAAGTA
Found at i:48468725 original size:7 final size:7
Alignment explanation
Indices: 48468713--48468743 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
48468703 AGCCAAAGGT
48468713 GGTTTAG
1 GGTTTAG
48468720 GGTTTAG
1 GGTTTAG
48468727 GGTTTAG
1 GGTTTAG
48468734 GGTTTAG
1 GGTTTAG
48468741 GGT
1 GGT
48468744 GGTTTGCCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.13, C:0.00, G:0.45, T:0.42
Consensus pattern (7 bp):
GGTTTAG
Found at i:48470692 original size:13 final size:11
Alignment explanation
Indices: 48470660--48470684 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48470650 GAGAAGGACG
48470660 GGAGTGGGGGA
1 GGAGTGGGGGA
48470671 GGAGTGGGGGA
1 GGAGTGGGGGA
48470682 GGA
1 GGA
48470685 CGGTGGGGAG
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:0.20, C:0.00, G:0.72, T:0.08
Consensus pattern (11 bp):
GGAGTGGGGGA
Found at i:48470751 original size:12 final size:12
Alignment explanation
Indices: 48470720--48470745 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48470710 AATTTCATTT
48470720 AATATTAATATA
1 AATATTAATATA
48470732 AATATTAATATA
1 AATATTAATATA
48470744 AA
1 AA
48470746 ATTTAAATTT
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATTAATATA
Found at i:48473025 original size:2 final size:2
Alignment explanation
Indices: 48473018--48473042 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48473008 AAAAGACAGA
48473018 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
48473043 AAGGAAAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:48475540 original size:341 final size:339
Alignment explanation
Indices: 48474879--48475558 Score: 1137
Period size: 341 Copynumber: 2.0 Consensus size: 339
48474869 GTGGAATGAC
*
48474879 TTCGTGACTAAATGAATTTATAATTAATAGGAAAAAACTAGAACTTAATTATAAATAATTTGAGC
1 TTCGCGACTAAATGAATTTATAATTAATAGGAAAAAACTAGAACTTAATTATAAATAATTTGAGC
* * *
48474944 CCTAATTACATATGTGCAATCGATCTCTCTAGTAGCTAGTTGAAACAAAAAATGACTTGCTTATT
66 CCTAATTACATATGTCCAATCGATCTCTCTAGTAGCTAGTTGAAACAAAAAATGAATTGCTTATA
* * *
48475009 GAATTAAATGAAAAGAAATGGATAGAAATGATAATGTTAAAAAAATGGATTACGTTCGGAAATGA
131 GAATGAAATGAAAAGAAATGGATAGAAATGATAAAGTTAAAAAAATGGATTACATTCGGAAATGA
* *
48475074 ATATGGTATCTCATTAAGTATGAAAATGACCTGATAATTAATTTAAGTTTTTGAATTATTATTTA
196 ATATGGTATCTCACTAAGTATGAAAATGACATGATAATTAATTTAAGTTTTTGAATTATTATTTA
*
48475139 ATCAAACAATTAAAGTTTGAAAAATGGAATTAAATTAATTGGTCATTTGAATTTGTTGAATATGA
261 ATCAAACAATTAAAGTTTGAAAAATGAAATTAAATTAATTGGTCATTTGAATTTGTTGAATATGA
48475204 AAATTAAATATATT
326 AAATTAAATATATT
* *
48475218 TTCGCGACTAAATGAATTTATAATTAATAGGCAAAAAAATTAGAACTTAATTATAAATCATTTGA
1 TTCGCGACTAAATGAATTTATAATTAATAGG--AAAAAACTAGAACTTAATTATAAATAATTTGA
* * *
48475283 GCCTTAATTACATATGTCCAATCGATCTCTCTGGTAGCTTGTTGAAACAAAAAATGAATTGCTTA
64 GCCCTAATTACATATGTCCAATCGATCTCTCTAGTAGCTAGTTGAAACAAAAAATGAATTGCTTA
* * * *
48475348 TAG-ATAGAAATGATAAGAAATGTATAGAAATGATAAAGTTAAAGAAATGGGTTACATTCGGAAA
129 TAGAAT-GAAATGAAAAGAAATGGATAGAAATGATAAAGTTAAAAAAATGGATTACATTCGGAAA
48475412 TGAATATGGTATCTCACTAAGTATGAAAATGACATGATAATTAATTTAAGTTTTTGAATTATTAT
193 TGAATATGGTATCTCACTAAGTATGAAAATGACATGATAATTAATTTAAGTTTTTGAATTATTAT
* *
48475477 TTAATCAAATAATTGAAGTTTGAAAAATGAAATTAAATTAATTGGTCATTTGAATTTGTTGAATA
258 TTAATCAAACAATTAAAGTTTGAAAAATGAAATTAAATTAATTGGTCATTTGAATTTGTTGAATA
48475542 TGAAAATTAAATATATT
323 TGAAAATTAAATATATT
48475559 GCCTCATAGA
Statistics
Matches: 317, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
339 30 0.09
340 2 0.01
341 285 0.90
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.35
Consensus pattern (339 bp):
TTCGCGACTAAATGAATTTATAATTAATAGGAAAAAACTAGAACTTAATTATAAATAATTTGAGC
CCTAATTACATATGTCCAATCGATCTCTCTAGTAGCTAGTTGAAACAAAAAATGAATTGCTTATA
GAATGAAATGAAAAGAAATGGATAGAAATGATAAAGTTAAAAAAATGGATTACATTCGGAAATGA
ATATGGTATCTCACTAAGTATGAAAATGACATGATAATTAATTTAAGTTTTTGAATTATTATTTA
ATCAAACAATTAAAGTTTGAAAAATGAAATTAAATTAATTGGTCATTTGAATTTGTTGAATATGA
AAATTAAATATATT
Found at i:48477057 original size:6 final size:6
Alignment explanation
Indices: 48477046--48477129 Score: 114
Period size: 6 Copynumber: 13.8 Consensus size: 6
48477036 GGTTTTCTCA
* *
48477046 AAATGG AAATGG AAATGG AAATTG AAATGG AAATGG AAATGG AAATAG
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
* * *
48477094 AAATGG AAATAG AAAGGG AAATGA AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
48477130 ATTCATTTGC
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
6 62 0.93
7 5 0.07
ACGTcount: A:0.55, C:0.00, G:0.29, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:48481474 original size:22 final size:22
Alignment explanation
Indices: 48481449--48481527 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
48481439 TGTTGTTTTC
*
48481449 TTAGCACTTCGGTACTCTTTGT
1 TTAGCACTTTGGTACTCTTTGT
* *
48481471 TTAGCACTTTGGTACTCTCTAT
1 TTAGCACTTTGGTACTCTTTGT
* *
48481493 TTAGCACTTTGATGCTCTTTGT
1 TTAGCACTTTGGTACTCTTTGT
* *
48481515 TCAACACTTTGGT
1 TTAGCACTTTGGT
48481528 GTTCTCCGTT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (22 bp):
TTAGCACTTTGGTACTCTTTGT
Found at i:48490921 original size:50 final size:50
Alignment explanation
Indices: 48490638--48490923 Score: 299
Period size: 50 Copynumber: 5.7 Consensus size: 50
48490628 GAATATAACA
* * * ** * * *
48490638 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** ** * * *
48490687 TGCCAATGCCATATCCCAGATATGGTCTTACATGAAAGTTTTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * **
48490737 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
48490787 TGCCAACGCCATGTCCCAGACATGGTCTTACATGTGG-CCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTCATCTCGG
**
48490837 TGCCAACGCCATGTCCCAGATGTGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
48490887 TGCCAACACCATGTCCCAGACAAGGTCTTACATGGGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
48490924 GTCTTAAATG
Statistics
Matches: 199, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
49 38 0.19
50 159 0.80
51 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:48490963 original size:63 final size:63
Alignment explanation
Indices: 48490861--48490986 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
48490851 CCCAGATGTG
* *
48490861 GTCTTACATGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACAAGGTCTTACATGGGA
1 GTCTTAAATGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACAACGTCTTACATGGGA
** *
48490924 GTCTTAAATGGGACCTCTCATCTCGGTGCCAACGTCATGTCCCAGACATCGTCTTACATGGGA
1 GTCTTAAATGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACAACGTCTTACATGGGA
48490987 CCTCTCTACC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (63 bp):
GTCTTAAATGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAGACAACGTCTTACATGGGA
Found at i:48493207 original size:29 final size:29
Alignment explanation
Indices: 48493159--48493237 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
48493149 AAAATAATAT
* **
48493159 ATAAATTTAAA-AT-TTAAAATAAATTTGA
1 ATAAA-TTAAAGATGTTAAAATAAACTAAA
* * *
48493187 ATAAATTAACGATGTTGAAATAAGCTAAA
1 ATAAATTAAAGATGTTAAAATAAACTAAA
48493216 ATAAATTAAAGATGTTAAAATA
1 ATAAATTAAAGATGTTAAAATA
48493238 TTTGAAAGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
27 4 0.10
28 7 0.17
29 30 0.73
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.33
Consensus pattern (29 bp):
ATAAATTAAAGATGTTAAAATAAACTAAA
Found at i:48495157 original size:50 final size:49
Alignment explanation
Indices: 48495087--48495275 Score: 193
Period size: 50 Copynumber: 3.8 Consensus size: 49
48495077 CAAGGAAAGT
*
48495087 AAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTTAGGGAAGC
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTT-GGGAAGC
* * * * *
48495137 AAGATTCG-TCGTTGTGGCTTTAATCTGTTCCACTGC-ATCGCCTGGGAAGT
1 AAGATTCGCT-GTTGTAGCTTTAATCTTTTCAACTGCAAT-G-TTGGGAAGC
* *
48495187 AAGATTCGCTATTGTAGCTTTAATCTTTTCAACTGCAATGTCGGGGAAGC
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGT-TGGGAAGC
* * * * * *
48495237 GAGATTCGCCGTTGTGGCTTTAATATGTTCCACTGCAAT
1 AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAAT
48495276 CTCAGGAAGA
Statistics
Matches: 113, Mismatches: 20, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
49 3 0.03
50 106 0.94
51 4 0.04
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (49 bp):
AAGATTCGCTGTTGTAGCTTTAATCTTTTCAACTGCAATGTTGGGAAGC
Found at i:48495213 original size:100 final size:101
Alignment explanation
Indices: 48495023--48495273 Score: 342
Period size: 100 Copynumber: 2.5 Consensus size: 101
48495013 CTTAATTGTG
* * * * * * *
48495023 ATGTCGGGGAAGCAAGATTTGCCATTGTAGCTTCAATCTATTTCACTGCACCGCCAAGGAAAGTA
1 ATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAAGGAAAGTA
* *
48495088 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCA
66 AGATTCGCTATTGTAGCTTTAATCTTTTCAACTGCA
* * * * *
48495124 ATGTTAGGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCCACTGCATCGCC-TGGGAAGTA
1 ATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAAGGAAAGTA
48495188 AGATTCGCTATTGTAGCTTTAATCTTTTCAACTGCA
66 AGATTCGCTATTGTAGCTTTAATCTTTTCAACTGCA
* * *
48495224 ATGTCGGGGAAGCGAGATTCGCCGTTGTGGCTTTAATATGTTCCACTGCA
1 ATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCA
48495274 ATCTCAGGAA
Statistics
Matches: 131, Mismatches: 19, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
100 86 0.66
101 45 0.34
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (101 bp):
ATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTTAATCTGTTCCACTGCACCGCCAAGGAAAGTA
AGATTCGCTATTGTAGCTTTAATCTTTTCAACTGCA
Found at i:48495491 original size:44 final size:44
Alignment explanation
Indices: 48495433--48495555 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 44
48495423 CCTTTATTTT
* * *
48495433 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCCTC
* * * *
48495477 AATCTGCTCTACTGTAATCTCAAGGACATAAGATTTCTGGCCTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCCTC
* * * *
48495521 AATCTGCTCCACCGTAACCTCAGAGAGATAAGATT
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATT
48495556 TGAAATTCTT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCCTC
Found at i:48495661 original size:219 final size:219
Alignment explanation
Indices: 48495268--48495664 Score: 645
Period size: 219 Copynumber: 1.8 Consensus size: 219
48495258 AATATGTTCC
* * *
48495268 ACTGCAATCTCAGGAAGATAAGATTTCTGGCCTCAATCTGCTCCACTGTAACCTCAGGGAGATAA
1 ACTGCAATCTCAGGAACATAAGATTTCTGGCCTCAATCTGCTCCACCGTAACCTCAGAGAGATAA
* *
48495333 GATTTGAAATTCTTCGGTCTATTCCACTGTAATCCTAGGGAGATAGGACCTGATGCGAACTACTC
66 GATTTGAAATTCTTCGGTCTATTCCACTGTAATCCCAGGGAGATAAGACCTGATGCGAACTACTC
* * * * *
48495398 TACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAAATA
131 TACTATAACTTCAGAGAGATAAGATCCTTTACTTTAACCCGCTCCACTGTAATCTCAGGGAAATA
48495463 GGATTACTGGCTTCAATCTGCTCT
196 GGATTACTGGCTTCAATCTGCTCT
*
48495487 ACTGTAATCTCAAGG-ACATAAGATTTCTGGCCTCAATCTGCTCCACCGTAACCTCAGAGAGATA
1 ACTGCAATCTC-AGGAACATAAGATTTCTGGCCTCAATCTGCTCCACCGTAACCTCAGAGAGATA
*
48495551 AGATTTGAAATTCTTCGGTCTATTCCACTGTAATCCCAGGGAGATAAGACCTGATGCGATCTACT
65 AGATTTGAAATTCTTCGGTCTATTCCACTGTAATCCCAGGGAGATAAGACCTGATGCGAACTACT
*
48495616 TTACTATAACTTCAGAGAGATAAGAT-CTATTACTTTAACCCGCTCCACT
130 CTACTATAACTTCAGAGAGATAAGATCCT-TTACTTTAACCCGCTCCACT
48495665 ACAACTTCAG
Statistics
Matches: 163, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
218 2 0.01
219 158 0.97
220 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (219 bp):
ACTGCAATCTCAGGAACATAAGATTTCTGGCCTCAATCTGCTCCACCGTAACCTCAGAGAGATAA
GATTTGAAATTCTTCGGTCTATTCCACTGTAATCCCAGGGAGATAAGACCTGATGCGAACTACTC
TACTATAACTTCAGAGAGATAAGATCCTTTACTTTAACCCGCTCCACTGTAATCTCAGGGAAATA
GGATTACTGGCTTCAATCTGCTCT
Found at i:48496393 original size:129 final size:127
Alignment explanation
Indices: 48495673--48496356 Score: 1091
Period size: 128 Copynumber: 5.3 Consensus size: 127
48495663 CTACAACTTC
* *
48495673 AGGGAGATAGGATCTGTAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
* ** *
48495738 TTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCATCTTTGATCTGCTCCGCTATTGCTT
65 TTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCC-GCTTTGATCTGCTCCGCTATTGCTT
*
48495802 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTAACCAGGGATATAGGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
*
48495867 TAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGCTTTCGATCTGCTCCGCTACTGCTT
66 TAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGCTTT-GATCTGCTCCGCTATTGCTT
* * *
48495930 AGGGAGACAAGATCTGTAATTTCCAAACTATTCCACTGCTGACCAGGGATATAAGACTTGTAGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
* *
48495995 TAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCACTTTTGATCTGCTCCGCTACTGCTT
66 TAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGC-TTTGATCTGCTCCGCTATTGCTT
* *
48496058 AGGGAGACAAGATCTGTAATTTCCAAACTATTCTACTGCTGACCAGGGATATAGGACTTGTGGCT
1 AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
48496123 TAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGCTTTTGATCTGCTCCGCTACTT-CTT
66 TAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGC-TTTGATCTGCTCCGCTA-TTGCTT
* *
48496186 AGAGAGACAAGATCTGTAATTTCCAAACCTATTCCACTACTGACCAGGGATATAGGACTTGTGGC
1 AGGGAGACAAGATCTGTAATTTCC-AACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGC
* * *
48496251 TTAAATCTGATTCCTTACACTTGAAGATAAGATTCGCCGTCTTTGATCTGCTCCGCTATTGCTT
65 TTAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCG-CTTTGATCTGCTCCGCTATTGCTT
*
48496315 AGGGAGATAAGATCTGTAATTTCCCAACCTATTCCACTGCTG
1 AGGGAGACAAGATCTGTAATTT-CCAACCTATTCCACTGCTG
48496357 GTCAGGGAGC
Statistics
Matches: 520, Mismatches: 28, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
127 4 0.01
128 360 0.69
129 153 0.29
130 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (127 bp):
AGGGAGACAAGATCTGTAATTTCCAACCTATTCCACTGCTGACCAGGGATATAGGACTTGTGGCT
TAAATCTGCTTCCTTACTCTTGAAGATAAGATTTGCCGCTTTGATCTGCTCCGCTATTGCTT
Found at i:48498580 original size:6 final size:6
Alignment explanation
Indices: 48498550--48498624 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
48498540 CTTCTCTCTT
* * * ** **
48498550 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTTC TTTTTC TTCTT--
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TT-TTGA
48498597 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
48498625 TTTTGAATTG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
4 2 0.03
5 2 0.03
6 55 0.90
7 2 0.03
ACGTcount: A:0.12, C:0.08, G:0.09, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:48498627 original size:29 final size:29
Alignment explanation
Indices: 48498569--48498630 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
48498559 TCATTTTGAC
** **
48498569 TTTGATTTTGATTTTTCTTTTTCTTCTTT
1 TTTGATTTTGATTTTGATTTTGATTCTTT
48498598 TTTGATTTTGATTTTGATTTTGATT-TTT
1 TTTGATTTTGATTTTGATTTTGATTCTTT
48498626 TTTGA
1 TTTGA
48498631 ATTGGATCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.11, C:0.05, G:0.11, T:0.73
Consensus pattern (29 bp):
TTTGATTTTGATTTTGATTTTGATTCTTT
Found at i:48502906 original size:29 final size:30
Alignment explanation
Indices: 48502858--48502936 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
48502848 AAAATAATAT
**
48502858 ATAAATTTAAA-AT-TTAAAATAAATTTG-A
1 ATAAA-TTAAAGATGTTAAAATAAAGCTGAA
* *
48502886 ATAAATTAACGATGTTGAAAT-AAGCTGAA
1 ATAAATTAAAGATGTTAAAATAAAGCTGAA
48502915 ATAAATTAAAGATGTTAAAATA
1 ATAAATTAAAGATGTTAAAATA
48502937 TTTGAAAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
27 4 0.10
28 11 0.27
29 26 0.63
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (30 bp):
ATAAATTAAAGATGTTAAAATAAAGCTGAA
Found at i:48514919 original size:30 final size:30
Alignment explanation
Indices: 48514883--48514945 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
48514873 ACTTATTTTA
48514883 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
48514913 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
48514943 TTG
1 TTG
48514946 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:48515080 original size:12 final size:12
Alignment explanation
Indices: 48515059--48515092 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48515049 TATATATTTT
*
48515059 AAAATTATATAA
1 AAAATAATATAA
48515071 AAAATAATATAA
1 AAAATAATATAA
*
48515083 AAATTAATAT
1 AAAATAATAT
48515093 GGGTGGGACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:48525272 original size:120 final size:119
Alignment explanation
Indices: 48525043--48525453 Score: 563
Period size: 120 Copynumber: 3.4 Consensus size: 119
48525033 AGATTAACCG
* * * * *
48525043 AACACACCAGACAGAAGCTCACAAGAGCTAATCCAACCGAAATACACCAAACAGAAGCTCATAAG
1 AACACACCAAACAGAAGCTCATAAGAGCTAATCCAACCAAAACACGCCAAACAGAAGCTCATAAG
* *
48525108 AGCTGATCCAACCGAAACACGCCAAACA-AATACTCATAAAAGCTGATCCAATCGA
66 AGCTGATCCAACC-AAACATGCCAAACAGAA-GCTCATAAAAGCTGATCCAATCGA
* * * * *
48525163 AACACACCAAACATAAGCTCATAAGGGTTGATCCAACCGAAACACGCCAAACAGAAGCTCATAAG
1 AACACACCAAACAGAAGCTCATAAGAGCTAATCCAACCAAAACACGCCAAACAGAAGCTCATAAG
* * * *
48525228 AGCTGATCCAACCAAATCATACCAAACAGAAGCTTATAAGAGCTGATCCAACCGA
66 AGCTGATCCAACCAAA-CATGCCAAACAGAAGCTCATAAAAGCTGATCCAATCGA
* *
48525283 AACACGCCAAACAGAAGCTCATAAGAGCTAATCCAACCAAAACACGCCAAACAGAAGGTCATAAG
1 AACACACCAAACAGAAGCTCATAAGAGCTAATCCAACCAAAACACGCCAAACAGAAGCTCATAAG
* * *
48525348 AGCTAATCCAACCAAAACATGCCAAACAGAAGCTCAAAAAAGCTGGTCCAATCGA
66 AGCTGATCCAACC-AAACATGCCAAACAGAAGCTCATAAAAGCTGATCCAATCGA
* * *
48525403 AACACGCCAAACAGAAGTTCATAAGAGCTAATCCAACCAAAACATGCCAAA
1 AACACACCAAACAGAAGCTCATAAGAGCTAATCCAACCAAAACACGCCAAA
48525454 TAGAGAGTAT
Statistics
Matches: 258, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
119 3 0.01
120 250 0.97
121 5 0.02
ACGTcount: A:0.46, C:0.28, G:0.14, T:0.12
Consensus pattern (119 bp):
AACACACCAAACAGAAGCTCATAAGAGCTAATCCAACCAAAACACGCCAAACAGAAGCTCATAAG
AGCTGATCCAACCAAACATGCCAAACAGAAGCTCATAAAAGCTGATCCAATCGA
Found at i:48525452 original size:40 final size:40
Alignment explanation
Indices: 48525043--48525453 Score: 500
Period size: 40 Copynumber: 10.3 Consensus size: 40
48525033 AGATTAACCG
* * * * *
48525043 AACACACCAGACAGAAGCTCACAAGAGCTAATCCAACCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
* * *
48525083 AATACACCAAACAGAAGCTCATAAGAGCTGATCCAACCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
* * * *
48525123 AACACGCCAAACA-AATACTCATAAAAGCTGATCCAATCGA
1 AACACGCCAAACAGAA-GCTCATAAGAGCTGATCCAACCAA
* * * * *
48525163 AACACACCAAACATAAGCTCATAAGGGTTGATCCAACCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
48525203 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
* ** * *
48525243 ATCATACCAAACAGAAGCTTATAAGAGCTGATCCAACCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
*
48525283 AACACGCCAAACAGAAGCTCATAAGAGCTAATCCAACCAA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
* *
48525323 AACACGCCAAACAGAAGGTCATAAGAGCTAATCCAACCAA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
* * * * * *
48525363 AACATGCCAAACAGAAGCTCAAAAAAGCTGGTCCAATCGA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
* *
48525403 AACACGCCAAACAGAAGTTCATAAGAGCTAATCCAACCAA
1 AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
*
48525443 AACATGCCAAA
1 AACACGCCAAA
48525454 TAGAGAGTAT
Statistics
Matches: 320, Mismatches: 49, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
39 2 0.01
40 316 0.99
41 2 0.01
ACGTcount: A:0.46, C:0.28, G:0.14, T:0.12
Consensus pattern (40 bp):
AACACGCCAAACAGAAGCTCATAAGAGCTGATCCAACCAA
Found at i:48536398 original size:230 final size:219
Alignment explanation
Indices: 48536004--48536452 Score: 666
Period size: 230 Copynumber: 2.0 Consensus size: 219
48535994 TTACACAAAA
* * * *
48536004 GTTTCATATATTGTTATTTAGTAATAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATTT
1 GTTTCATATATTGTTATTTAGCAAGAAAGTAGTGGAAATTTAATTTCAAAGAATAAATTATATAT
48536069 TTTGGGAATTTCAATTCTATTTGAGAGAATTACTTATCTATTAAAAGTAATAAATCATTTCTAGT
66 TTTGGGAATTTCAATTCTATTTGAGAGAATTACTTATCTATTAAAAGTAATAAATCATTTCTAGT
* * *
48536134 TTTGTGTTTGGTTCATATTGCTCAATCTCACACTCAACACAATTCAAGGTACGAGGATAGTAAAG
131 TTTGTGTTTGGTTCATATTGCTCAATCCCACACTCAACACAAGTCAAGGTAAGAGGATAGTAAAG
48536199 AAGGTCGTTCAGTTGAAACCCGAG
196 AAGGTCGTTCAGTTGAAACCCGAG
48536223 GTTTCATATATTGTTATTCT-GCAAGAAAGTAGTGGAAATTTAATTTCAAAGAATAAATTATATA
1 GTTTCATATATTGTTATT-TAGCAAGAAAGTAGTGGAAATTTAATTTCAAAGAATAAATTATATA
48536287 TTTTGGGAATTTCAATTTCTATCGGTTTCTATTTGAGAGAATTACTTATCTATTAAAAGTAATAA
65 TTTTGGGAATTTC-A-----A-----TTCTATTTGAGAGAATTACTTATCTATTAAAAGTAATAA
* * * *
48536352 ATCATTTCTAGTTTTTTGTTTGGTTCATATTGCTCGATCCCACACTCGATACAAGTCAAGGTAAG
119 ATCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCAATCCCACACTCAACACAAGTCAAGGTAAG
* *
48536417 AGGATAGTAAAGAAGGTCGTTTAGTTGAAAGCCGAG
184 AGGATAGTAAAGAAGGTCGTTCAGTTGAAACCCGAG
48536453 AATGATACAA
Statistics
Matches: 205, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
219 71 0.35
220 2 0.01
225 1 0.00
230 131 0.64
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (219 bp):
GTTTCATATATTGTTATTTAGCAAGAAAGTAGTGGAAATTTAATTTCAAAGAATAAATTATATAT
TTTGGGAATTTCAATTCTATTTGAGAGAATTACTTATCTATTAAAAGTAATAAATCATTTCTAGT
TTTGTGTTTGGTTCATATTGCTCAATCCCACACTCAACACAAGTCAAGGTAAGAGGATAGTAAAG
AAGGTCGTTCAGTTGAAACCCGAG
Found at i:48537608 original size:58 final size:59
Alignment explanation
Indices: 48537511--48537626 Score: 139
Period size: 58 Copynumber: 2.0 Consensus size: 59
48537501 TTTTTTCTTT
* ** *
48537511 TTCATTTTCATTTTGGATAAAACCACATTCATTTCCAAAT-TATTCCATTTCTTCATTA
1 TTCATTTTCATTTTGGAGAAAACCACATAAATTTCCAAATGTATTCCATTTCTCCATTA
* *
48537569 TTCATTTTCATTTTGGAGAAAACTTTA-ATAAATTT-CAAATGTTTTCCATTTCTCCATT
1 TTCATTTTCATTTTGGAGAAAAC--CACATAAATTTCCAAATGTATTCCATTTCTCCATT
48537627 TTTACCATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
58 27 0.55
59 21 0.43
60 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.05, T:0.47
Consensus pattern (59 bp):
TTCATTTTCATTTTGGAGAAAACCACATAAATTTCCAAATGTATTCCATTTCTCCATTA
Found at i:48539016 original size:41 final size:41
Alignment explanation
Indices: 48538940--48539030 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
48538930 CCATGTTGTT
* * *
48538940 GTTGCAAAGTTCAGAATGGGCGCTTCTCCCGCCATGTTAATA
1 GTTGCAAAGTTCAGAATGGGCCCTCCTCCCACCATGTTAA-A
*
48538982 -TTGCAAAGTTCAGAATGGGCCCTCCTCTCACCATGTTAAA
1 GTTGCAAAGTTCAGAATGGGCCCTCCTCCCACCATGTTAAA
48539022 GTTGCAAAG
1 GTTGCAAAG
48539031 GTTCTTCCCA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
40 1 0.02
41 43 0.98
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.27
Consensus pattern (41 bp):
GTTGCAAAGTTCAGAATGGGCCCTCCTCCCACCATGTTAAA
Found at i:48539571 original size:230 final size:230
Alignment explanation
Indices: 48539154--48539607 Score: 827
Period size: 230 Copynumber: 2.0 Consensus size: 230
48539144 TTACACAGAA
* *
48539154 GTTTCATATATTGTTATGCTGTAAGAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATTT
1 GTTTCATATATTGTTATGCTGCAAGAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATAT
* *
48539219 TTTGGGAATTTCAATTTCTATCGGTTTCTATTTGAGAGAAGTACTTATCTATTAAAAGTAATAAA
66 TTTGGGAATTTCAATTTCTATCGATTTCTATTTGAGAAAAGTACTTATCTATTAAAAGTAATAAA
* *
48539284 TCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCAATCCTACACTCGACATAATTCAAGGTACGA
131 TCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCAATCCCACACTCGACACAATTCAAGGTACGA
48539349 GGATAGTAAAGAAGGTCGTTCAGTTGAAACCCGAG
196 GGATAGTAAAGAAGGTCGTTCAGTTGAAACCCGAG
*
48539384 GTTTCATATATTGTTATTCTGCAAGAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATAT
1 GTTTCATATATTGTTATGCTGCAAGAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATAT
48539449 TTTGGGAATTTCAATTTCTATCGATTTCTATTTGAGAAAAGTACTTATCTATTAAAAGTAATAAA
66 TTTGGGAATTTCAATTTCTATCGATTTCTATTTGAGAAAAGTACTTATCTATTAAAAGTAATAAA
* *
48539514 TCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCGATCCCACACTTGACACAATTCAAGGTACGA
131 TCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCAATCCCACACTCGACACAATTCAAGGTACGA
48539579 GGATAGTAAAGAAGGTCGTTCAGTTGAAA
196 GGATAGTAAAGAAGGTCGTTCAGTTGAAA
48539608 GGCGAGAACG
Statistics
Matches: 215, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
230 215 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (230 bp):
GTTTCATATATTGTTATGCTGCAAGAAAGTAGTGGAAATTTAATTTCTAAGAATAAATTATATAT
TTTGGGAATTTCAATTTCTATCGATTTCTATTTGAGAAAAGTACTTATCTATTAAAAGTAATAAA
TCATTTCTAGTTTTGTGTTTGGTTCATATTGCTCAATCCCACACTCGACACAATTCAAGGTACGA
GGATAGTAAAGAAGGTCGTTCAGTTGAAACCCGAG
Found at i:48540677 original size:15 final size:15
Alignment explanation
Indices: 48540653--48540683 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48540643 TTTAAGGTTA
48540653 TTTTCATTTTCATTT
1 TTTTCATTTTCATTT
*
48540668 TTTTCTTTTTCATTT
1 TTTTCATTTTCATTT
48540683 T
1 T
48540684 CATTTTGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTCATTTTCATTT
Found at i:48540769 original size:57 final size:59
Alignment explanation
Indices: 48540676--48540785 Score: 145
Period size: 57 Copynumber: 1.9 Consensus size: 59
48540666 TTTTTTCTTT
* * * *
48540676 TTCATTTTCATTTTGGATAAAACCACATTCATTTCCAAAT-TATT-CCATTTCTTCATTA
1 TTCATTTTCATTTTGGAGAAAACCACAATAAATTCCAAATGT-TTCCCATTTCTTCATTA
*
48540734 TTCATTTT-ATTTTGGAGAAAACCATAATAAATTCCAAATGTTTCCCATTTCT
1 TTCATTTTCATTTTGGAGAAAACCACAATAAATTCCAAATGTTTCCCATTTCT
48540786 CCGTTTTTAC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
57 28 0.62
58 17 0.38
ACGTcount: A:0.31, C:0.19, G:0.05, T:0.45
Consensus pattern (59 bp):
TTCATTTTCATTTTGGAGAAAACCACAATAAATTCCAAATGTTTCCCATTTCTTCATTA
Found at i:48542147 original size:41 final size:41
Alignment explanation
Indices: 48542090--48542197 Score: 162
Period size: 41 Copynumber: 2.6 Consensus size: 41
48542080 AAGGTTGTTT
* * *
48542090 CCGCCATGTTGATGTTGCAAAGTTTAGAATGGGCCCTTCTC
1 CCGCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTC
48542131 CCGCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTC
1 CCGCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTC
* *
48542172 TCGCCATGTTAAAGTTGCAAATGTTC
1 CCGCCATGTTAATGTTGCAAA-GTTC
48542198 TTCCCGCCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
41 57 0.93
42 4 0.07
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (41 bp):
CCGCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTC
Found at i:48542203 original size:70 final size:70
Alignment explanation
Indices: 48542129--48542433 Score: 314
Period size: 70 Copynumber: 4.4 Consensus size: 70
48542119 TGGGCCCTTC
* * * *
48542129 TCCCGCCATGTTAAT-GTTGCAAAGTTCAGAATGGGCCCTCCTCTCGCCATGTTAAAGTTGCAAA
1 TCCCGCCATGTTGATAG-TGCAAAGTTCAGAATGGGCCCTCCTCTCACCATGTTGAAGTTGAAAA
48542193 TGTTCT
65 TGTTCT
* ** * *
48542199 TCCCGCCATTTTGATAGTGCAAAGTTTGGAATGGGCTCTCCTTTCACCATGTTGAAGTTGTAAAA
1 TCCCGCCATGTTGATAGTGCAAAGTTCAGAATGGGCCCTCCTCTCACCATGTTGAAGTTG-AAAA
48542264 -GTTCT
65 TGTTCT
** * * **
48542269 TCTTGCCATGTTGATGGTGCAAAGTTTAGAATGGGTTCTCCTCTCACCATGTTGAAGTTGAAAAT
1 TCCCGCCATGTTGATAGTGCAAAGTTCAGAATGGGCCCTCCTCTCACCATGTTGAAGTTGAAAAT
*
48542334 TTTCT
66 GTTCT
* * * * *
48542339 TCCTGCCATGTTGATAGTGCATAGTTC-GAAATAGACCCTCCTCTCGCCATGTTGAA-TTGAAAA
1 TCCCGCCATGTTGATAGTGCAAAGTTCAG-AATGGGCCCTCCTCTCACCATGTTGAAGTTG-AAA
48542402 AT-TTCT
64 ATGTTCT
* * * *
48542408 TCTCACCATGATGATGGTGCAAAGTT
1 TCCCGCCATGTTGATAGTGCAAAGTT
48542434 TGGAATAGGA
Statistics
Matches: 198, Mismatches: 32, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
69 32 0.16
70 162 0.82
71 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (70 bp):
TCCCGCCATGTTGATAGTGCAAAGTTCAGAATGGGCCCTCCTCTCACCATGTTGAAGTTGAAAAT
GTTCT
Found at i:48542328 original size:140 final size:139
Alignment explanation
Indices: 48542132--48542439 Score: 382
Period size: 140 Copynumber: 2.2 Consensus size: 139
48542122 GCCCTTCTCC
* * * * *
48542132 CGCCATGTTAATGTTGCAAAGTTCAGAATGGGCCCTCCTCTCGCCATGTTAAAGTTGCAAATGTT
1 CGCCATGTTGATGGTGCAAAGTTTAGAATGGGCCCTCCTCTCACCATGTTAAAGTTGAAAATGTT
* * * * * * * *
48542197 CTTCCCGCCATTTTGATAGTGCAAAGTTTGGAATGGGCTCTCCTTTCACCATGTTGAAGTTGTAA
66 CTTCCCGCCATGTTGATAGTGCAAAGTTCGAAATAGACCCTCCTCTCACCATGTTGAA-TTGAAA
48542262 AAGTTCTTCT
130 AAGTTCTTCT
* ** * *
48542272 TGCCATGTTGATGGTGCAAAGTTTAGAATGGGTTCTCCTCTCACCATGTTGAAGTTGAAAATTTT
1 CGCCATGTTGATGGTGCAAAGTTTAGAATGGGCCCTCCTCTCACCATGTTAAAGTTGAAAATGTT
* * *
48542337 CTTCCTGCCATGTTGATAGTGCATAGTTCGAAATAGACCCTCCTCTCGCCATGTTGAATTGAAAA
66 CTTCCCGCCATGTTGATAGTGCAAAGTTCGAAATAGACCCTCCTCTCACCATGTTGAATTGAAAA
*
48542402 ATTTCTTCT
131 AGTTCTTCT
* * *
48542411 CACCATGATGATGGTGCAAAGTTTGGAAT
1 CGCCATGTTGATGGTGCAAAGTTTAGAAT
48542440 AGGACCTGTT
Statistics
Matches: 142, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
139 39 0.27
140 103 0.73
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (139 bp):
CGCCATGTTGATGGTGCAAAGTTTAGAATGGGCCCTCCTCTCACCATGTTAAAGTTGAAAATGTT
CTTCCCGCCATGTTGATAGTGCAAAGTTCGAAATAGACCCTCCTCTCACCATGTTGAATTGAAAA
AGTTCTTCT
Found at i:48546844 original size:3 final size:3
Alignment explanation
Indices: 48546836--48546872 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
48546826 CAAGTGTATC
48546836 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
48546873 TCTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48547860 original size:12 final size:12
Alignment explanation
Indices: 48547828--48547862 Score: 61
Period size: 13 Copynumber: 2.8 Consensus size: 12
48547818 AGTCAAACCA
48547828 ATATAAATTATT
1 ATATAAATTATT
48547840 ATATCAAATTATT
1 ATAT-AAATTATT
48547853 ATATAAATTA
1 ATATAAATTA
48547863 CTCTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (12 bp):
ATATAAATTATT
Found at i:48562776 original size:27 final size:26
Alignment explanation
Indices: 48562733--48563066 Score: 224
Period size: 27 Copynumber: 12.4 Consensus size: 26
48562723 CCTCAAAATA
48562733 GGTAAAATGACCAAAATAGCCCTATAA-
1 GGTAAAATGACCAAAATA-CCCTA-AAG
* * *
48562760 GATAAAATGACCGAAATACCCCCGAAA-
1 GGTAAAATGACCAAAATA--CCCTAAAG
* * *
48562787 GATAAAATGATCGAAATACCCTTGAAA-
1 GGTAAAATGACCAAAATACCC-T-AAAG
* ** *
48562814 GGTAAAATAACCAAAATACCCCCGAAT
1 GGTAAAATGACCAAAATA-CCCTAAAG
* * ***
48562841 GATAAAATAATTGAAATACCCTCAAAG
1 GGTAAAATGACCAAAATACCCT-AAAG
* *
48562868 GGTAAAATGACTAAAATACCCTCGAAG
1 GGTAAAATGACCAAAATACCCT-AAAG
48562895 GGTAAAATGACCAAAATACCCTAAAAG
1 GGTAAAATGACCAAAATACCCT-AAAG
*
48562922 GGTAAAATAACCAAAATACCCCTAAAG
1 GGTAAAATGACCAAAATA-CCCTAAAG
* *
48562949 GGTAAAATGACCGAAATACCTCTAAAT
1 GGTAAAATGACCAAAATACC-CTAAAG
* * *
48562976 AGTAAAATGACCAAAATACCCTCGAAT
1 GGTAAAATGACCAAAATACCCT-AAAG
* * *** *
48563003 GCTAAAATAATTGAAATACCCTTGAAG
1 GGTAAAATGACCAAAATACCC-TAAAG
* **
48563030 GGTAAAATGACCGAAATAGCCCCGAAG
1 GGTAAAATGACCAAAATA-CCCTAAAG
48563057 GGTAAAATGA
1 GGTAAAATGA
48563067 TTTTTATACC
Statistics
Matches: 250, Mismatches: 46, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.01
26 9 0.04
27 223 0.89
28 15 0.06
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (26 bp):
GGTAAAATGACCAAAATACCCTAAAG
Found at i:48562874 original size:81 final size:82
Alignment explanation
Indices: 48562732--48563066 Score: 333
Period size: 81 Copynumber: 4.1 Consensus size: 82
48562722 ACCTCAAAAT
* * * * * *
48562732 AGGTAAAATGACCAAAATA-GCCCTATAAGATAAAATGACCGAAATACCCCCGAAA-GATAAAAT
1 AGGTAAAATGACCAAAATACCCCCGA-ATGATAAAATAACCGAAATACCCTCGAAAGGGTAAAAT
* *
48562795 GATCGAAATACCCTTGAA
65 GACCGAAATACCCTCGAA
* **
48562813 AGGTAAAATAACCAAAATACCCCCGAATGATAAAATAATTGAAATACCCTC-AAAGGGTAAAATG
1 AGGTAAAATGACCAAAATACCCCCGAATGATAAAATAACCGAAATACCCTCGAAAGGGTAAAATG
**
48562877 ACTAAAATACCCTCGAA
66 ACCGAAATACCCTCGAA
* *** * * * *
48562894 GGGTAAAATGACCAAAATACCCTAAAAGGGTAAAATAACCAAAATACCC-CTAAAGGGTAAAATG
1 AGGTAAAATGACCAAAATACCCCCGAATGATAAAATAACCGAAATACCCTCGAAAGGGTAAAATG
*
48562958 ACCGAAATA-CCTCTAA
66 ACCGAAATACCCTCGAA
* * * ** *
48562974 ATAGTAAAATGACCAAAATACCCTCGAATGCTAAAATAATTGAAATACCCTTG-AAGGGTAAAAT
1 A-GGTAAAATGACCAAAATACCCCCGAATGATAAAATAACCGAAATACCCTCGAAAGGGTAAAAT
48563038 GACCGAAATAGCCC-CGAA
65 GACCGAAATA-CCCTCGAA
*
48563056 GGGTAAAATGA
1 AGGTAAAATGA
48563067 TTTTTATACC
Statistics
Matches: 207, Mismatches: 40, Indels: 14
0.79 0.15 0.05
Matches are distributed among these distances:
80 10 0.05
81 188 0.91
82 7 0.03
83 2 0.01
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.18
Consensus pattern (82 bp):
AGGTAAAATGACCAAAATACCCCCGAATGATAAAATAACCGAAATACCCTCGAAAGGGTAAAATG
ACCGAAATACCCTCGAA
Found at i:48563077 original size:54 final size:53
Alignment explanation
Indices: 48562762--48563067 Score: 310
Period size: 54 Copynumber: 5.7 Consensus size: 53
48562752 CCCTATAAGA
* * *
48562762 TAAAATGACCGAAATACCCCCGAAAGATAAAATGATCGAAATACCCTTGAAA-GG
1 TAAAATGACCAAAATA-CCCCGAAGGGTAAAATGATCGAAATACCCTT-AAAGGG
* * * * * *
48562816 TAAAATAACCAAAATACCCCCGAATGATAAAATAATTGAAATACCCTCAAAGGG
1 TAAAATGACCAAAATA-CCCCGAAGGGTAAAATGATCGAAATACCCTTAAAGGG
* * * *
48562870 TAAAATGACTAAAATACCCTCGAAGGGTAAAATGACCAAAATACCCTAAAAGGG
1 TAAAATGACCAAAATACCC-CGAAGGGTAAAATGATCGAAATACCCTTAAAGGG
* * * **
48562924 TAAAATAACCAAAATACCCCTAAAGGGTAAAATGACCGAAATA-CCTCTAAATAG
1 TAAAATGACCAAAATACCCC-GAAGGGTAAAATGATCGAAATACCCT-TAAAGGG
* * * * *
48562978 TAAAATGACCAAAATACCCTCGAATGCTAAAATAATTGAAATACCCTTGAAGGG
1 TAAAATGACCAAAATACCC-CGAAGGGTAAAATGATCGAAATACCCTTAAAGGG
*
48563032 TAAAATGACCGAAATAGCCCCGAAGGGTAAAATGAT
1 TAAAATGACCAAAATA-CCCCGAAGGGTAAAATGAT
48563068 TTTTATACCC
Statistics
Matches: 209, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
53 10 0.05
54 192 0.92
55 7 0.03
ACGTcount: A:0.47, C:0.19, G:0.15, T:0.18
Consensus pattern (53 bp):
TAAAATGACCAAAATACCCCGAAGGGTAAAATGATCGAAATACCCTTAAAGGG
Found at i:48568877 original size:54 final size:54
Alignment explanation
Indices: 48568792--48568932 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
48568782 CCCCAAAATA
* * * * *
48568792 GGTAAAATTACCAAAATAGCC-CCATAAGGTAAAATGACCGAAATACCCCCGAAG
1 GGTAAAATGACCGAAATA-CCTCTATAGGGTAAAATGACCGAAATACCCCCAAAG
** *
48568846 GGTAAAATGACCGAAATACCTCTGA-AGGGTAAAATGATTGAAATACCCCTAAAG
1 GGTAAAATGACCGAAATACCTCT-ATAGGGTAAAATGACCGAAATACCCCCAAAG
*
48568900 GGTAAAATGACTGAAATACCTCTATAGGGTAAA
1 GGTAAAATGACCGAAATACCTCTATAGGGTAAA
48568933 CTAATTTTTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
53 3 0.04
54 71 0.95
55 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.19
Consensus pattern (54 bp):
GGTAAAATGACCGAAATACCTCTATAGGGTAAAATGACCGAAATACCCCCAAAG
Found at i:48568928 original size:27 final size:26
Alignment explanation
Indices: 48568792--48568932 Score: 149
Period size: 27 Copynumber: 5.2 Consensus size: 26
48568782 CCCCAAAATA
* *
48568792 GGTAAAATTACCAAAATAGCCCCATAA-
1 GGTAAAATGACCGAAATA-CCCC-TAAG
*
48568819 GGTAAAATGACCGAAATACCCCCGAAG
1 GGTAAAATGACCGAAATA-CCCCTAAG
*
48568846 GGTAAAATGACCGAAATACCTCTGAAG
1 GGTAAAATGACCGAAATACCCCT-AAG
**
48568873 GGTAAAATGATTGAAATACCCCTAAAG
1 GGTAAAATGACCGAAATACCCCT-AAG
* *
48568900 GGTAAAATGACTGAAATACCTCTATAG
1 GGTAAAATGACCGAAATACCCCTA-AG
48568927 GGTAAA
1 GGTAAA
48568933 CTAATTTTTA
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.06
27 93 0.94
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.19
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCTAAG
Found at i:48569350 original size:28 final size:27
Alignment explanation
Indices: 48569309--48569368 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
48569299 ACTGTAATGT
* *
48569309 TACTGTATTGGGCTAGGGCCCACACTG
1 TACTGAATTGGGCTAAGGCCCACACTG
*
48569336 ATACTGAATTTGGCTAAGGCCCACACTG
1 -TACTGAATTGGGCTAAGGCCCACACTG
48569364 TACTG
1 TACTG
48569369 TCACTAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (27 bp):
TACTGAATTGGGCTAAGGCCCACACTG
Found at i:48571737 original size:21 final size:21
Alignment explanation
Indices: 48571713--48571754 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
48571703 TGGTTTGTCC
*
48571713 ATGAGTGGTTCGTCCACAATG
1 ATGAGTGGTTCATCCACAATG
*
48571734 ATGAGTGGTTTATCCACAATG
1 ATGAGTGGTTCATCCACAATG
48571755 TGGTGTAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (21 bp):
ATGAGTGGTTCATCCACAATG
Found at i:48576093 original size:13 final size:13
Alignment explanation
Indices: 48576075--48576099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48576065 TAATATATTT
48576075 ATTAATTAAAAAC
1 ATTAATTAAAAAC
48576088 ATTAATTAAAAA
1 ATTAATTAAAAA
48576100 TAAAAAAATT
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:48578589 original size:25 final size:28
Alignment explanation
Indices: 48578561--48578614 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
48578551 TCTACAAATG
*
48578561 TTATGAA-AAA-A-ATTATAACATTTTT
1 TTATGAATAAATATATTATAACACTTTT
48578586 TTATGAATAAATATATTATAACACTTTT
1 TTATGAATAAATATATTATAACACTTTT
48578614 T
1 T
48578615 ATAACATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 7 0.28
26 3 0.12
27 1 0.04
28 14 0.56
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (28 bp):
TTATGAATAAATATATTATAACACTTTT
Found at i:48578671 original size:25 final size:26
Alignment explanation
Indices: 48578643--48578693 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
48578633 TTATAATAAT
48578643 TTTTTTGCCATAACTTGA-AAATATA
1 TTTTTTGCCATAACTTGATAAATATA
** *
48578668 TTTTTTGTTATAACTTTATAAATATA
1 TTTTTTGCCATAACTTGATAAATATA
48578694 AATAAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (26 bp):
TTTTTTGCCATAACTTGATAAATATA
Found at i:48580059 original size:23 final size:24
Alignment explanation
Indices: 48580015--48580059 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
48580005 AAAATCATAC
*
48580015 CCATCCAGCCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
48580039 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
48580060 ATGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.27, C:0.51, G:0.02, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:48582935 original size:27 final size:27
Alignment explanation
Indices: 48582905--48582957 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
48582895 AAACTATAAT
48582905 TTAAAAATTATCAATT-AAAT-TTTATTA
1 TTAAAAATT-T-AATTCAAATATTTATTA
*
48582932 TTAAATATTTAATTCAAATATTTATT
1 TTAAAAATTTAATTCAAATATTTATT
48582958 TAGAATAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 4 0.17
26 5 0.22
27 14 0.61
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (27 bp):
TTAAAAATTTAATTCAAATATTTATTA
Found at i:48584154 original size:27 final size:27
Alignment explanation
Indices: 48584120--48584183 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
48584110 ATAAAAAATA
48584120 ATCAAAATATTATAATTTTTTTTATTT
1 ATCAAAATATTATAATTTTTTTTATTT
48584147 ATCAAAATATTATAATTTTTTTTATTT
1 ATCAAAATATTATAATTTTTTTTATTT
*
48584174 ACCAAAATAT
1 ATCAAAATAT
48584184 ACCAAAGGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (27 bp):
ATCAAAATATTATAATTTTTTTTATTT
Found at i:48584224 original size:27 final size:27
Alignment explanation
Indices: 48584184--48584253 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
48584174 ACCAAAATAT
* *
48584184 ACCAAAGGTACCAAAGAGATTGACAGC
1 ACCAATGGTGCCAAAGAGATTGACAGC
***
48584211 ACCAATGGTGCCAAAGAGATTGGTGGC
1 ACCAATGGTGCCAAAGAGATTGACAGC
*
48584238 ACCAATGGTGTCAAAG
1 ACCAATGGTGCCAAAG
48584254 GACTAAAATG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.37, C:0.20, G:0.27, T:0.16
Consensus pattern (27 bp):
ACCAATGGTGCCAAAGAGATTGACAGC
Found at i:48584485 original size:18 final size:18
Alignment explanation
Indices: 48584456--48584516 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
48584446 TCTAATTAAG
*
48584456 TAATAAATCTATTTTAATT
1 TAATAAA-CTATTCTAATT
*
48584475 TAATAAACTATTCTCATT
1 TAATAAACTATTCTAATT
48584493 TAAT-AA--ATTCTAATT
1 TAATAAACTATTCTAATT
48584508 TAATAAACT
1 TAATAAACT
48584517 CTATTTTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
15 12 0.33
16 2 0.06
17 2 0.06
18 13 0.36
19 7 0.19
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAAACTATTCTAATT
Found at i:48584508 original size:15 final size:15
Alignment explanation
Indices: 48584470--48584519 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
48584460 AAATCTATTT
48584470 TAATTTAATAAACTATTC
1 TAATTTAAT-AA--ATTC
*
48584488 TCATTTAATAAATTC
1 TAATTTAATAAATTC
*
48584503 TAATTTAATAAACTC
1 TAATTTAATAAATTC
48584518 TA
1 TA
48584520 TTTTGGTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
15 19 0.66
17 2 0.07
18 8 0.28
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTTAATAAATTC
Found at i:48584553 original size:23 final size:23
Alignment explanation
Indices: 48584527--48584598 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
48584517 CTATTTTGGT
48584527 AATTTGATGAGAATAGTTTATTA
1 AATTTGATGAGAATAGTTTATTA
*
48584550 AA-TT-A--A-AATAGAGTTATTAA
1 AATTTGATGAGAATAG-TTTATT-A
48584570 GTAATTTGATGAGAATAGTTTATTA
1 --AATTTGATGAGAATAGTTTATTA
48584595 AATT
1 AATT
48584599 AAAATAGAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
18 5 0.13
19 6 0.16
20 1 0.03
21 1 0.03
22 4 0.11
23 8 0.21
24 1 0.03
25 1 0.03
26 6 0.16
27 5 0.13
ACGTcount: A:0.43, C:0.00, G:0.15, T:0.42
Consensus pattern (23 bp):
AATTTGATGAGAATAGTTTATTA
Found at i:48584620 original size:45 final size:45
Alignment explanation
Indices: 48584525--48584613 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
48584515 CTCTATTTTG
48584525 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
1 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
48584570 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTA
1 GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTA
48584614 CTTAATTAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (45 bp):
GTAATTTGATGAGAATAGTTTATTAAATTAAAATAGAGTTATTAA
Found at i:48584915 original size:40 final size:41
Alignment explanation
Indices: 48584835--48585093 Score: 224
Period size: 41 Copynumber: 6.4 Consensus size: 41
48584825 TTTTGGGGGC
*
48584835 TTTAGCGGCGTTTATAAAAAAGCGCCGCTAATGTTCAGGCT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGTTCAGGCT
* *
48584876 TTTAGTGGCGTTTTTGAAAAAGCGCCGCTAATGTT-AGGCT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGTTCAGGCT
* * *
48584916 TTTAGCGGCGTTTTTAAAAAAGTGCTGC-AAGTGCTCAGGCT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAA-TGTTCAGGCT
** * * * * *
48584957 TTTAGCAACGCTTTTAGAAAA-CTGTCGCTAATGCTCGAAGC-
1 TTTAGCGGCGTTTTTAAAAAAGC-GCCGCTAATGTTC-AGGCT
* * * *
48584998 TTTAGCGGCGTTTTT-TATAAGCGCCGCTAATGCTCTGGCT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGTTCAGGCT
* * * * * *
48585038 TTTAGCGGCCTTTTTAGAGAAGAGACACTAATGCTT-AGGCT
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATG-TTCAGGCT
*
48585079 TTTAGCGGCATTTTT
1 TTTAGCGGCGTTTTT
48585094 GTTAAAGCGC
Statistics
Matches: 176, Mismatches: 33, Indels: 18
0.78 0.15 0.08
Matches are distributed among these distances:
39 4 0.02
40 61 0.35
41 105 0.60
42 6 0.03
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGTTCAGGCT
Found at i:48584986 original size:81 final size:82
Alignment explanation
Indices: 48584833--48585043 Score: 218
Period size: 81 Copynumber: 2.6 Consensus size: 82
48584823 TTTTTTGGGG
* * *** *
48584833 GCTTTAGCGGCGTTTATAAAAAAGCGCCGCTAATGTTCAGGCTTTTAGTGGCGTTTTTGAAAAAG
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCAACGTTTTAGAAAAAG
* *
48584898 CGCCGCTAATG-T-TAG
66 CGCCGCTAATGCTCGAA
* *
48584913 GCTTTTAGCGGCGTTTTTAAAAAAGTGCTGC-AAGTGCTCAGGCTTTTAGCAACGCTTTTAG-AA
1 GC-TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAA-TGCTCAGGCTTTTAGCAACG-TTTTAGAAA
*
48584976 AA-CTGTCGCTAATGCTCGAA
63 AAGC-GCCGCTAATGCTCGAA
* * *
48584996 GCTTTAGCGGCGTTTTT-TATAAGCGCCGCTAATGCTCTGGCTTTTAGC
1 GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCTTTTAGC
48585044 GGCCTTTTTA
Statistics
Matches: 108, Mismatches: 16, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
80 5 0.05
81 77 0.71
82 23 0.21
83 3 0.03
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (82 bp):
GCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCAGGCTTTTAGCAACGTTTTAGAAAAAG
CGCCGCTAATGCTCGAA
Found at i:48585524 original size:187 final size:185
Alignment explanation
Indices: 48585209--48585589 Score: 726
Period size: 187 Copynumber: 2.0 Consensus size: 185
48585199 AGTGAATAAA
*
48585209 TTTAAAATAATGACACGTAGAAATAATTTGAAATAAAAAACATAGAAAAATATTTTTTAAAAATA
1 TTTAAAATAATGACACATAGAAATAATTTGAAATAAAAAACATAGAAAAATATTTTTTAAAAATA
48585274 GAAAAATTAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATGACTGATTGATTT
66 GAAAAATTAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATGACTGATTGA-TT
48585339 TTAATTTATATATTAAATAATTTCATATACAATTGTAAAAGATACGATAGTATTAAT
130 TTAATTTATATATTAAATAATTTCATATA-AATTGTAAAAGATACGATAGTATTAAT
48585396 TTTAAAATAATGACACATAGAAATAATTTGAAATAAAAAACATAGAAAAATATTTTTTAAAAATA
1 TTTAAAATAATGACACATAGAAATAATTTGAAATAAAAAACATAGAAAAATATTTTTTAAAAATA
*
48585461 GAAAAATTAAAATACTATTATTTAAAATAATTTTAAATTTTTTTGGGTACATGACTGATTGATTT
66 GAAAAATTAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATGACTGATTGATTT
48585526 TAATTTATATATTAAATAATTTCATATAAATTGTAAAAGATACGATAGTATTAAT
131 TAATTTATATATTAAATAATTTCATATAAATTGTAAAAGATACGATAGTATTAAT
48585581 TTTAAAATA
1 TTTAAAATA
48585590 TTTAATTAAT
Statistics
Matches: 192, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
185 36 0.19
186 31 0.16
187 125 0.65
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (185 bp):
TTTAAAATAATGACACATAGAAATAATTTGAAATAAAAAACATAGAAAAATATTTTTTAAAAATA
GAAAAATTAAAATACTATTATTTAAAATAATTTTAAAATTTTTTGGGTACATGACTGATTGATTT
TAATTTATATATTAAATAATTTCATATAAATTGTAAAAGATACGATAGTATTAAT
Found at i:48585879 original size:14 final size:14
Alignment explanation
Indices: 48585860--48585897 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
48585850 TAAATAAAAT
48585860 TTAGGGGTTAGTA-G
1 TTAGGGGTTAG-AGG
48585874 TTAGGGGTTAGAGG
1 TTAGGGGTTAGAGG
*
48585888 TTAGAGGTTA
1 TTAGGGGTTA
48585898 AGAGTTAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 1 0.05
14 21 0.95
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (14 bp):
TTAGGGGTTAGAGG
Found at i:48585939 original size:126 final size:130
Alignment explanation
Indices: 48585748--48585983 Score: 318
Period size: 126 Copynumber: 1.8 Consensus size: 130
48585738 GGGTTGTGAT
* * * * * *
48585748 TTAGGGGTTAGGGGTTAGAGATTAAGAGTTAGAGATTTAGGGTTTATAGATTTGGTGTCATGTTA
1 TTAGGGGTTAGAGGTTAGAGATTAAGAGTTAGAGATTTAGGATTTAGAGATTCGGGGTCAGGTTA
*
48585813 GGGTTT-AGATTA-ATT-AGT-ATTTTTTTAATTTATATATTAAATAAAATTTAGGGGTTAGTAG
66 GGGTTTAAGATTAGATTAAGTAATATTTTTAATTTATATATTAAATAAAATTTAGGGGTTAGTAG
* * **
48585874 TTAGGGGTTAGAGGTTAGAGGTTAAGAGTTAGTGATTTAGGATTTAGAGATTCGGGGTTGGGTTA
1 TTAGGGGTTAGAGGTTAGAGATTAAGAGTTAGAGATTTAGGATTTAGAGATTCGGGGTCAGGTTA
* *
48585939 GGGTTTAAAGTTTAGATTAATTAATATTTTTAATTTATATATTAA
66 GGGTTT-AAGATTAGATTAAGTAATATTTTTAATTTATATATTAA
48585984 TTAAGTTCTT
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
126 61 0.66
128 5 0.05
129 3 0.03
130 2 0.02
131 21 0.23
ACGTcount: A:0.30, C:0.01, G:0.27, T:0.42
Consensus pattern (130 bp):
TTAGGGGTTAGAGGTTAGAGATTAAGAGTTAGAGATTTAGGATTTAGAGATTCGGGGTCAGGTTA
GGGTTTAAGATTAGATTAAGTAATATTTTTAATTTATATATTAAATAAAATTTAGGGGTTAGTAG
Found at i:48586195 original size:28 final size:28
Alignment explanation
Indices: 48586163--48586251 Score: 85
Period size: 28 Copynumber: 3.1 Consensus size: 28
48586153 ATAATTTTAA
48586163 TTTTAATATATTAAAATTATGATTATAG
1 TTTTAATATATTAAAATTATGATTATAG
* *
48586191 TTTTAAT-TATTTAAGAGATAATAGA-TA-AA
1 TTTTAATATA-TTAA-A-ATTAT-GATTATAG
*
48586220 TTTTATATATATTAAAAATATGATTATAG
1 TTTTA-ATATATTAAAATTATGATTATAG
48586249 TTT
1 TTT
48586252 CTGATTCTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 15
0.71 0.07 0.22
Matches are distributed among these distances:
27 4 0.08
28 16 0.33
29 12 0.25
30 12 0.25
31 4 0.08
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (28 bp):
TTTTAATATATTAAAATTATGATTATAG
Found at i:48587300 original size:16 final size:17
Alignment explanation
Indices: 48587279--48587310 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
48587269 GGTGCCGCCA
48587279 CAGGTTTTT-TTTTTTG
1 CAGGTTTTTGTTTTTTG
48587295 CAGGTTTTTGTTTTTT
1 CAGGTTTTTGTTTTTT
48587311 TTTGGTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.06, C:0.06, G:0.19, T:0.69
Consensus pattern (17 bp):
CAGGTTTTTGTTTTTTG
Found at i:48587349 original size:26 final size:27
Alignment explanation
Indices: 48587317--48587379 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
48587307 TTTTTTTGGT
48587317 ATATTTTGGTAAATAAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
*
48587343 ATATTTTGATAAATAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAGTTATA
48587370 ATATTTTGGT
1 ATATTTTGGT
48587380 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTATA
Done.