Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 52 of 199
Found at i:15286951 original size:86 final size:86
Alignment explanation
Indices: 15286844--15287014 Score: 261
Period size: 86 Copynumber: 2.0 Consensus size: 86
15286834 ATTCAAACAA
*
15286844 GATTTGTGCAAGAACTAGATATTATTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGA
1 GATTTGCGCAAGAACTAGATATTATTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGA
* *
15286909 TTCGTAAGAGGTCTTTTAATC
66 TTCGTAAGAGATCATTTAATC
* * *** *
15286930 GATTTGCGCAAGAATTAGATATTGTTTTCAAGATTTATCAAGATTATTGGGAAATATTGACAAGA
1 GATTTGCGCAAGAACTAGATATTATTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGA
15286995 TTCGTAAGAGATCATTTAAT
66 TTCGTAAGAGATCATTTAAT
15287015 TGATCTTAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 76 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (86 bp):
GATTTGCGCAAGAACTAGATATTATTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGA
TTCGTAAGAGATCATTTAATC
Found at i:15290159 original size:26 final size:25
Alignment explanation
Indices: 15290118--15290166 Score: 80
Period size: 26 Copynumber: 1.9 Consensus size: 25
15290108 TCTCATCCTA
*
15290118 ATTTTACTCCGGTAAAATTTTGATG
1 ATTTTACTCCGATAAAATTTTGATG
15290143 ATTTTACCTCCGATAAAATTTTGA
1 ATTTTA-CTCCGATAAAATTTTGA
15290167 GAAAATTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (25 bp):
ATTTTACTCCGATAAAATTTTGATG
Found at i:15293668 original size:26 final size:26
Alignment explanation
Indices: 15293592--15293669 Score: 93
Period size: 26 Copynumber: 3.0 Consensus size: 26
15293582 TAAATTTTAG
*
15293592 GAAAGAAAAGCCTTTGTGGCGTAACAT
1 GAAAG-AAAGCCTTTGTGGCGTAATAT
* *
15293619 GAAATAAAGCCTTTGTGGTGTAATAT
1 GAAAGAAAGCCTTTGTGGCGTAATAT
* * *
15293645 GAAAGAAAGCTTTTGTAGCATAATA
1 GAAAGAAAGCCTTTGTGGCGTAATA
15293670 ATGTTTTTGT
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 39 0.91
27 4 0.09
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.28
Consensus pattern (26 bp):
GAAAGAAAGCCTTTGTGGCGTAATAT
Found at i:15294698 original size:13 final size:13
Alignment explanation
Indices: 15294680--15294706 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15294670 CGAGTTGAAG
15294680 TTGTAATTACTTA
1 TTGTAATTACTTA
15294693 TTGTAATTACTTA
1 TTGTAATTACTTA
15294706 T
1 T
15294707 GTATTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TTGTAATTACTTA
Found at i:15295917 original size:45 final size:45
Alignment explanation
Indices: 15295867--15296063 Score: 288
Period size: 45 Copynumber: 4.4 Consensus size: 45
15295857 TGACTACTGT
15295867 TACTGTTACCGTTACTGTTACCAATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACCAATTCGACACTTTGTGTGTCGAA
* **
15295912 TACTGTTACCGTTACTGTTATCAATTCGGTACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACCAATTCGACACTTTGTGTGTCGAA
* * *
15295957 TACTATTATCGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACCAATTCGACACTTTGTGTGTCGAA
* *
15296002 TACTGTTACCGTTACTGTTACAAATTC-AGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACCAATTCGA-CACTTTGTGTGTCGAA
* *
15296047 TATTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
15296064 ATACTGCTAC
Statistics
Matches: 137, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 137 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACCAATTCGACACTTTGTGTGTCGAA
Found at i:15298647 original size:41 final size:41
Alignment explanation
Indices: 15298590--15298780 Score: 337
Period size: 41 Copynumber: 4.6 Consensus size: 41
15298580 GACTATATGT
*
15298590 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAAGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
15298631 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
15298672 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* * *
15298713 CTAGCAGGCTAAGTTCCGGTGATCTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
15298754 CTAGCAGGCTAAGTGCCGGTGAATCTG
1 CTAGCAGGCTAAGTGCCGGTG-ATCTG
15298781 TTAAATTAAG
Statistics
Matches: 144, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
41 139 0.97
42 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:15301749 original size:19 final size:19
Alignment explanation
Indices: 15301720--15301772 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
15301710 AATATTACAT
15301720 ATTTTTATTATTATACCTAC
1 ATTTTT-TTATTATACCTAC
* * *
15301740 ATTTTTTTATTTTACTTTC
1 ATTTTTTTATTATACCTAC
*
15301759 TTTTTTTTA-TATAC
1 ATTTTTTTATTATAC
15301773 TTTTTTGCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 4 0.14
19 18 0.64
20 6 0.21
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (19 bp):
ATTTTTTTATTATACCTAC
Found at i:15301773 original size:18 final size:17
Alignment explanation
Indices: 15301741--15301788 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
15301731 TATACCTACA
*
15301741 TTTTTTTATTTTACTTTCT
1 TTTTTTTA-TATACTTT-T
15301760 TTTTTTTATATACTTTT
1 TTTTTTTATATACTTTT
**
15301777 TTGCTTTATATA
1 TTTTTTTATATA
15301789 TACATATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 11 0.42
18 7 0.27
19 8 0.31
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTTTTTATATACTTTT
Found at i:15307352 original size:10 final size:10
Alignment explanation
Indices: 15307337--15307366 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
15307327 CTAAAACTCG
15307337 GGCCCGACCC
1 GGCCCGACCC
15307347 GGCCCGACCC
1 GGCCCGACCC
15307357 GGCCCG-CCC
1 GGCCCGACCC
15307366 G
1 G
15307367 TATTAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.07, C:0.60, G:0.33, T:0.00
Consensus pattern (10 bp):
GGCCCGACCC
Found at i:15307557 original size:30 final size:30
Alignment explanation
Indices: 15307523--15307585 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
15307513 ACTTAACAAG
15307523 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
15307553 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
15307583 CAA
1 CAA
15307586 GAAATAAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:15311339 original size:24 final size:24
Alignment explanation
Indices: 15311307--15311355 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
15311297 CACTAATATG
15311307 ATTAATGA-TAA-TTAAATTAAATTA
1 ATTAATGATTAAGTT-AATT-AATTA
15311331 ATTAATGATTAAGTTAATTAATTA
1 ATTAATGATTAAGTTAATTAATTA
15311355 A
1 A
15311356 GGTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 14 0.61
25 7 0.30
26 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
ATTAATGATTAAGTTAATTAATTA
Found at i:15311347 original size:16 final size:16
Alignment explanation
Indices: 15311304--15311352 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
15311294 CTCCACTAAT
*
15311304 ATGATTAATGATAATTA
1 ATGATTAA-GTTAATTA
*
15311321 A--ATTAAATTAATTA
1 ATGATTAAGTTAATTA
15311335 ATGATTAAGTTAATTA
1 ATGATTAAGTTAATTA
15311351 AT
1 AT
15311353 TAAGGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.26
15 5 0.19
16 14 0.52
17 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
ATGATTAAGTTAATTA
Found at i:15316865 original size:22 final size:22
Alignment explanation
Indices: 15316840--15316883 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15316830 TAGTCATATA
15316840 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
15316862 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
15316884 TATTTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:15316918 original size:18 final size:18
Alignment explanation
Indices: 15316883--15316921 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
15316873 TTTTAATAAA
*
15316883 TTATTTAATAATTCAATT
1 TTATTTAATAATTAAATT
15316901 TTATTGTAATAA-TAAATT
1 TTATT-TAATAATTAAATT
15316919 TTA
1 TTA
15316922 AAAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TTATTTAATAATTAAATT
Found at i:15316927 original size:16 final size:16
Alignment explanation
Indices: 15316907--15316943 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
15316897 AATTTTATTG
15316907 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
15316924 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
15316939 TAATA
1 TAATA
15316944 TTATACACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:15316996 original size:15 final size:15
Alignment explanation
Indices: 15316976--15317033 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 15
15316966 ATTCAATATT
15316976 AATATTTTAATAATA
1 AATATTTTAATAATA
*
15316991 AATATTTATTACATTTATA
1 AATA-TT-TTA-A-TAATA
*
15317010 AATATATTAATAATA
1 AATATTTTAATAATA
15317025 AATATTTTA
1 AATATTTTA
15317034 TAGTATAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 16 0.46
16 3 0.09
17 6 0.17
18 2 0.06
19 8 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:15318608 original size:6 final size:6
Alignment explanation
Indices: 15318566--15318607 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
15318556 ATGCAAAAGA
*
15318566 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT ATATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
15318608 AAAGCATAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:15318746 original size:35 final size:35
Alignment explanation
Indices: 15318698--15318814 Score: 126
Period size: 36 Copynumber: 3.5 Consensus size: 35
15318688 GATAAATAAG
*
15318698 ATATAAAGTATATAGATATGAAAATGAAAAATACGT
1 ATATAAAGTATATATATATGAAAAT-AAAAATACGT
*
15318734 ATATAAAG-ATATATATAT----AT---AATAAG-
1 ATATAAAGTATATATATATGAAAATAAAAATACGT
15318760 ATATAAAGTATATATATATGAAAATTAAAAATACGT
1 ATATAAAGTATATATATATGAAAA-TAAAAATACGT
15318796 ATATAAAGATATATATATA
1 ATATAAAG-TATATATATA
15318815 ATAAGATATA
Statistics
Matches: 67, Mismatches: 3, Indels: 21
0.74 0.03 0.23
Matches are distributed among these distances:
26 8 0.12
27 15 0.22
31 3 0.04
32 1 0.01
35 14 0.21
36 16 0.24
37 10 0.15
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.32
Consensus pattern (35 bp):
ATATAAAGTATATATATATGAAAATAAAAATACGT
Found at i:15318784 original size:62 final size:62
Alignment explanation
Indices: 15318642--15318856 Score: 304
Period size: 62 Copynumber: 3.6 Consensus size: 62
15318632 ATGCAAGCAT
** *
15318642 GTATATATATATGAAAATTAAAAATATATATATATAAAGATATATAGATA-AATAAGATATAAA
1 GTATATATATATGAAAATT-AAAA-ATACGTATATAAAGATATATATATATAATAAGATATAAA
* *
15318705 GTATATAGATATGAAAATGAAAAATACGTATATAAAGATATATATATATAATAAGATATAAA
1 GTATATATATATGAAAATTAAAAATACGTATATAAAGATATATATATATAATAAGATATAAA
15318767 GTATATATATATGAAAATTAAAAATACGTATATAAAG--ATATATATATAATAAGATAT--A
1 GTATATATATATGAAAATTAAAAATACGTATATAAAGATATATATATATAATAAGATATAAA
15318825 --ATATATATATGAAAATTAAAAAT--GTATATAAA
1 GTATATATATATGAAAATTAAAAATACGTATATAAA
15318857 TATGTGGATA
Statistics
Matches: 144, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
54 9 0.06
56 23 0.16
58 1 0.01
60 20 0.14
61 22 0.15
62 52 0.36
63 17 0.12
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.33
Consensus pattern (62 bp):
GTATATATATATGAAAATTAAAAATACGTATATAAAGATATATATATATAATAAGATATAAA
Found at i:15319184 original size:3 final size:3
Alignment explanation
Indices: 15319171--15319220 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
15319161 TAGTTGAGTA
* * * *
15319171 AAT AGT AAT AAT AAT ATT TAT AAT AAT -AT AAT -AT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15319217 AAT A
1 AAT A
15319221 TGTAAAATGA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
AAT
Found at i:15320307 original size:27 final size:27
Alignment explanation
Indices: 15320266--15320331 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 27
15320256 AAAATAAAAA
15320266 TTACCTAAAATATTATAAC-TTTTT-TTAT
1 TTACC-AAAATATT-T-ACTTTTTTATTAT
15320294 TTACCAAAATA-TTACTTTTTTATTAT
1 TTACCAAAATATTTACTTTTTTATTAT
*
15320320 TTACGAAAATAT
1 TTACCAAAATAT
15320332 ACCCAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 2 0.06
25 6 0.18
26 15 0.44
27 6 0.18
28 5 0.15
ACGTcount: A:0.38, C:0.11, G:0.02, T:0.50
Consensus pattern (27 bp):
TTACCAAAATATTTACTTTTTTATTAT
Found at i:15320438 original size:27 final size:27
Alignment explanation
Indices: 15320400--15320477 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
15320390 GGCTAATCAC
*
15320400 ATTGGCGGCACCAAAGGTGCCAAAGAG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
* * *
15320427 ATTGGTGGCACCAATGGCGCCAAAGTG
1 ATTGGCGGCACCAATGGTGCCAAAGAG
15320454 ATTGGCGGCACCAATGGTGCCAAA
1 ATTGGCGGCACCAATGGTGCCAAA
15320478 TGACTAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.29, C:0.23, G:0.32, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGAG
Found at i:15320579 original size:19 final size:19
Alignment explanation
Indices: 15320552--15320621 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
15320542 TCAACTCATT
*
15320552 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
15320571 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
15320589 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
15320608 TTTTAATTTAATAA
1 TTTTAATTTAATAA
15320622 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:15320602 original size:37 final size:37
Alignment explanation
Indices: 15320557--15320627 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
15320547 TCATTTTTTT
15320557 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
15320594 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
15320628 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:15320849 original size:19 final size:19
Alignment explanation
Indices: 15320825--15320880 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 19
15320815 TCTAATTAAG
15320825 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * * *
15320844 TAATAA-ACTATTCTCATA
1 TAATAACTCTATTTTAATT
15320862 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
15320881 AAAAAAATTA
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 14 0.50
19 14 0.50
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:15320945 original size:37 final size:37
Alignment explanation
Indices: 15320901--15320971 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
15320891 AGTATTACTT
15320901 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
15320938 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
15320972 AAAAAAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:15320976 original size:19 final size:19
Alignment explanation
Indices: 15320907--15320975 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
15320897 ACTTAATAGT
15320907 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
15320926 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
15320944 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
15320963 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
15320976 AAATGAGTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:15321137 original size:27 final size:27
Alignment explanation
Indices: 15321051--15321128 Score: 129
Period size: 27 Copynumber: 2.9 Consensus size: 27
15321041 ATTTTAGTCA
*
15321051 TTTGGCACCATTGGTGCCGCCAATCAC
1 TTTGGCACCATTGGTGCCGCCAATCTC
*
15321078 TTTGGCACCATTGGTGCCACCAATCTC
1 TTTGGCACCATTGGTGCCGCCAATCTC
*
15321105 TTTGGCACCTTTGGTGCCGCCAAT
1 TTTGGCACCATTGGTGCCGCCAAT
15321129 GTGATTGGCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.17, C:0.32, G:0.22, T:0.29
Consensus pattern (27 bp):
TTTGGCACCATTGGTGCCGCCAATCTC
Found at i:15323009 original size:43 final size:41
Alignment explanation
Indices: 15322929--15323093 Score: 136
Period size: 43 Copynumber: 3.9 Consensus size: 41
15322919 TACTCTGATA
* * *
15322929 TGTGTTTTCGTGTAAGGCCACT-TCTGGGACGTCGGCATCGACT
1 TGTG-TTTCGTGTAAGACCA-TGTCTGGGACATTGGCATCGA-T
*
15322972 TGTGTTTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
1 TGTGTTT-CGTGTAAGACCATGTCTGGGACATTGGCATCG-AT
* * *
15323015 T-TGATTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGAT
1 TGTGTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
* ** * * *
15323055 ATGAGATAGCATGTAAGACCACGTCTGGGACGTTGGCAT
1 -TGTG-TTTCGTGTAAGACCATGTCTGGGACATTGGCAT
15323094 TGTTCGATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 12
0.77 0.13 0.09
Matches are distributed among these distances:
40 2 0.02
41 30 0.30
42 9 0.09
43 57 0.58
44 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (41 bp):
TGTGTTTCGTGTAAGACCATGTCTGGGACATTGGCATCGAT
Found at i:15323030 original size:41 final size:43
Alignment explanation
Indices: 15322980--15323093 Score: 133
Period size: 41 Copynumber: 2.7 Consensus size: 43
15322970 CTTGTGTTTA
* ** *
15322980 CGTGTAAGACCATGTCTAGGACATTGGCATCG-TATTTGAT-T
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATAG
* *
15323021 CGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGAGATAG
1 CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATAG
* * *
15323064 CATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACATTGGCAT
15323094 TGTTCGATAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 29 0.48
42 6 0.10
43 25 0.42
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATAG
Found at i:15325167 original size:20 final size:20
Alignment explanation
Indices: 15325126--15325168 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15325116 TCTTAACGAG
*
15325126 ACTGCTAATGTGGCAAGTTA
1 ACTGCTAATGTGGCAAGCTA
* *
15325146 ACTGCTGATGTGGCCAGCTA
1 ACTGCTAATGTGGCAAGCTA
15325166 ACT
1 ACT
15325169 TGCCACGTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (20 bp):
ACTGCTAATGTGGCAAGCTA
Found at i:15325880 original size:14 final size:14
Alignment explanation
Indices: 15325861--15325903 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
15325851 CCATTTTTTC
*
15325861 TCTTCTCCTCTTCT
1 TCTTCTTCTCTTCT
* *
15325875 TCTTCTTTTTTTCT
1 TCTTCTTCTCTTCT
*
15325889 TCTTTTTCTCTTCT
1 TCTTCTTCTCTTCT
15325903 T
1 T
15325904 AAACCCTAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (14 bp):
TCTTCTTCTCTTCT
Found at i:15325888 original size:11 final size:11
Alignment explanation
Indices: 15325874--15325903 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
15325864 TCTCCTCTTC
15325874 TTCTTCTTTTT
1 TTCTTCTTTTT
15325885 TTCTTCTTTTT
1 TTCTTCTTTTT
*
15325896 CTCTTCTT
1 TTCTTCTT
15325904 AAACCCTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (11 bp):
TTCTTCTTTTT
Found at i:15328173 original size:26 final size:26
Alignment explanation
Indices: 15328144--15328197 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
15328134 TTATTTATTT
* *
15328144 ATGAAACGTGTTTTC-AAAGATAACAA
1 ATGAAAAGTGTTTTCTAAAAATAA-AA
*
15328170 ATGAAAATTGTTTTCTAAAAATAAAA
1 ATGAAAAGTGTTTTCTAAAAATAAAA
15328196 AT
1 AT
15328198 ATATATGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 17 0.71
27 7 0.29
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.31
Consensus pattern (26 bp):
ATGAAAAGTGTTTTCTAAAAATAAAA
Found at i:15329471 original size:42 final size:41
Alignment explanation
Indices: 15329398--15329482 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 41
15329388 TACTCTGCCA
*
15329398 TTTATTTTAATATTAAAATCAAGTATATTCATGGGTAAATAT
1 TTTATTTTAATATTAAAATCAAGGATATTCATGGGTAAA-AT
* * *
15329440 TTTATTTTAATATTAATATTAAGGATTTTCATGGGTAAAAT
1 TTTATTTTAATATTAAAATCAAGGATATTCATGGGTAAAAT
15329481 TT
1 TT
15329483 ATACATCAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 4 0.10
42 35 0.90
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.48
Consensus pattern (41 bp):
TTTATTTTAATATTAAAATCAAGGATATTCATGGGTAAAAT
Found at i:15330390 original size:3 final size:3
Alignment explanation
Indices: 15330382--15330407 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
15330372 GTCAATTTCT
15330382 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
15330408 TTTTTTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:15335002 original size:52 final size:48
Alignment explanation
Indices: 15334983--15335283 Score: 393
Period size: 46 Copynumber: 6.3 Consensus size: 48
15334973 TGACAAGTGG
* *
15334983 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
15335029 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
* *
15335077 GTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 ----AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
15335127 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
15335179 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
15335225 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
15335271 AAAGTGATAAGTG
1 AAAGTGATAAGTG
15335284 GCTACACTTA
Statistics
Matches: 232, Mismatches: 11, Indels: 24
0.87 0.04 0.09
Matches are distributed among these distances:
46 144 0.62
52 88 0.38
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:15335041 original size:98 final size:98
Alignment explanation
Indices: 15334921--15335272 Score: 623
Period size: 98 Copynumber: 3.6 Consensus size: 98
15334911 AGTACTTCTA
* *
15334921 ATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAA
15334986 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
*
15335019 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAA
15335084 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
* *
15335117 ATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAA
*
15335182 GTGATAAGTGATAGCTTCGGCTATACTTATCTG
66 GTGATAAGTAATAGCTTCGGCTATACTTATCTG
* * *
15335215 ATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
15335273 AGTGATAAGT
Statistics
Matches: 245, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 245 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
ATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGGAAA
GTGATAAGTAATAGCTTCGGCTATACTTATCTG
Found at i:15335291 original size:37 final size:37
Alignment explanation
Indices: 15335247--15335392 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
15335237 GATAGCTTTA
*
15335247 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
15335284 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
15335321 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
15335358 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
15335393 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:15338166 original size:32 final size:32
Alignment explanation
Indices: 15338130--15338192 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
15338120 AAAATAAGGA
*
15338130 TCAACCCGTCCAAGATCCCCCAAAGCTCCGTT
1 TCAACCCATCCAAGATCCCCCAAAGCTCCGTT
15338162 TCAACCCATCCAAGATCCCCCAAAGCTCCGT
1 TCAACCCATCCAAGATCCCCCAAAGCTCCGT
15338193 CTCCATCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.27, C:0.44, G:0.11, T:0.17
Consensus pattern (32 bp):
TCAACCCATCCAAGATCCCCCAAAGCTCCGTT
Found at i:15339869 original size:41 final size:41
Alignment explanation
Indices: 15339799--15339888 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
15339789 AAATTTTCCC
* *
15339799 TAGGGTCGCACGGGTAGTTCTGATCGACTATGGGCCTACCG
1 TAGGGTCGCACGAGTAGTTCCGATCGACTATGGGCCTACCG
* * *
15339840 TAGGGTCGCATGAGTCGTTCCGATTGACTATGGGCCTACCG
1 TAGGGTCGCACGAGTAGTTCCGATCGACTATGGGCCTACCG
15339881 TAGGGTCG
1 TAGGGTCG
15339889 GTAAGGGCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.17, C:0.23, G:0.34, T:0.26
Consensus pattern (41 bp):
TAGGGTCGCACGAGTAGTTCCGATCGACTATGGGCCTACCG
Found at i:15348001 original size:23 final size:23
Alignment explanation
Indices: 15347970--15348091 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
15347960 AGTGTTATTG
*
15347970 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
15347993 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
15348016 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
15348039 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
15348062 AACAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
15348085 ATCAGTG
1 ATCAGTG
15348092 TTGCACTTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 89 1.00
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:15348025 original size:46 final size:46
Alignment explanation
Indices: 15347972--15348091 Score: 213
Period size: 46 Copynumber: 2.6 Consensus size: 46
15347962 TGTTATTGAT
*
15347972 CAGTGGTAGCTTCGGCTACGTTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
15348018 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
* *
15348064 CAGTGGTAGCTTTGGCTACATATCAGTG
1 CAGTGGTAGCTTCGGCTACATTTCAGTG
15348092 TTGCACTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.31
Consensus pattern (46 bp):
CAGTGGTAGCTTCGGCTACATTTCAGTGGTAGCTTCGGCTACATAA
Found at i:15350460 original size:17 final size:17
Alignment explanation
Indices: 15350440--15350531 Score: 59
Period size: 17 Copynumber: 5.5 Consensus size: 17
15350430 AATTATGACA
15350440 AAAATTATATTATTTAT
1 AAAATTATATTATTTAT
* *
15350457 AAAATAATGTTACTTTAT
1 AAAATTATATTA-TTTAT
15350475 AAAACTT-T-TT-TTTAT
1 AAAA-TTATATTATTTAT
*
15350490 AAATGTTATA-TA-TTAT
1 AAA-ATTATATTATTTAT
* *
15350506 AAATTTTATATTATTTTT
1 AAA-ATTATATTATTTAT
*
15350524 AACATTAT
1 AAAATTAT
15350532 TTGTCACACC
Statistics
Matches: 59, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
15 10 0.17
16 15 0.25
17 18 0.31
18 15 0.25
19 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (17 bp):
AAAATTATATTATTTAT
Found at i:15350507 original size:16 final size:14
Alignment explanation
Indices: 15350486--15350519 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
15350476 AAACTTTTTT
15350486 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
15350502 TTATAAATTTTATA
1 TTATAAATTTTATA
15350516 TTAT
1 TTAT
15350520 TTTTAACATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:15358127 original size:12 final size:13
Alignment explanation
Indices: 15358110--15358136 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15358100 TTTTTTATTC
15358110 ATTTTTTAAAATT
1 ATTTTTTAAAATT
15358123 ATTTTTTAAAATT
1 ATTTTTTAAAATT
15358136 A
1 A
15358137 AAAGGAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTTTTAAAATT
Found at i:15359045 original size:31 final size:31
Alignment explanation
Indices: 15359007--15359071 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
15358997 GCCCGGCCCG
*
15359007 AATTATATATTAAATATATATTTTTGTTTTT
1 AATTATATATTAAATATATATTTTTATTTTT
15359038 AATTATATATTAAATATATATTTTTATTTTT
1 AATTATATATTAAATATATATTTTTATTTTT
15359069 AAT
1 AAT
15359072 CAAATATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (31 bp):
AATTATATATTAAATATATATTTTTATTTTT
Found at i:15359097 original size:42 final size:39
Alignment explanation
Indices: 15359041--15359160 Score: 115
Period size: 42 Copynumber: 3.0 Consensus size: 39
15359031 TGTTTTTAAT
15359041 TATATATT-AA-ATATATATTTTTATTTTTAATCAAATA
1 TATATATTAAATATATATATTTTTATTTTTAATCAAATA
* * *
15359078 TACTTTTTATTAAATATATATATTTTTTAGACTTTTAATTCGAAT-
1 TA---TATATTAAATATATATA-TTTTT--ATTTTTAA-TCAAATA
15359123 TATATATTAAATATATATA--TTTATTTTTAATCAAATA
1 TATATATTAAATATATATATTTTTATTTTTAATCAAATA
15359160 T
1 T
15359161 GGGCCGGGCC
Statistics
Matches: 67, Mismatches: 6, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
36 5 0.07
37 10 0.15
39 3 0.04
40 5 0.07
41 2 0.03
42 23 0.34
43 5 0.07
45 9 0.13
46 5 0.07
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (39 bp):
TATATATTAAATATATATATTTTTATTTTTAATCAAATA
Found at i:15359098 original size:20 final size:19
Alignment explanation
Indices: 15359045--15359104 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
15359035 TTTAATTATA
15359045 TATTAAATATATAT-TTTT
1 TATTAAATATATATATTTT
* * *
15359063 ATTTTTAATCAAATATACTTTT
1 -TATTAAAT-ATATATA-TTTT
15359085 TATTAAATATATATATTTT
1 TATTAAATATATATATTTT
15359104 T
1 T
15359105 TAGACTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 11 0.34
20 11 0.34
21 6 0.19
22 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTAAATATATATATTTT
Found at i:15359105 original size:20 final size:20
Alignment explanation
Indices: 15359045--15359106 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
15359035 TTTAATTATA
15359045 TATTAAATATATAT-TTTTAT
1 TATTAAATATATATATTTT-T
* * *
15359065 T-TTTAATCAAATATACTTTT
1 TATTAAAT-ATATATATTTTT
15359085 TATTAAATATATATATTTTT
1 TATTAAATATATATATTTTT
15359105 TA
1 TA
15359107 GACTTTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 5 0.15
20 20 0.61
21 8 0.24
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTAAATATATATATTTTT
Found at i:15363697 original size:44 final size:44
Alignment explanation
Indices: 15363633--15363773 Score: 194
Period size: 44 Copynumber: 3.2 Consensus size: 44
15363623 ACCATTGAAA
* * * * *
15363633 TTCTTACCTAAACAATCAACCAAGAGAATTATATTACATGTCCAT
1 TTCTTACCAAAACAATCAACCAA-ACAATTATAATGCATGTTCAT
*
15363678 TTCTTACC-AAACAATCAACCAAACATTTATAATGCATGTTCAT
1 TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
* *
15363721 TTATTACCAAAACAATCAATCAAACAATTATAATGCATGTTCAT
1 TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
15363765 TTCTTACCA
1 TTCTTACCA
15363774 TTTAACAACT
Statistics
Matches: 86, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
43 23 0.27
44 55 0.64
45 8 0.09
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (44 bp):
TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
Found at i:15364566 original size:42 final size:44
Alignment explanation
Indices: 15364518--15364614 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
15364508 TCCCAGAAAA
* * * *
15364518 GGTCTTACACGT-AATCATATA-TGGCGCCAAAGTCCCAGACTT
1 GGTCTTACACGTAAACCATAAATTGACGCCAAAGTCCCAGACGT
* * *
15364560 GGTCTTACACGTAAACCTTAAATTGATGCCAACGTCCCAGACGT
1 GGTCTTACACGTAAACCATAAATTGACGCCAAAGTCCCAGACGT
15364604 GGTCTTACACG
1 GGTCTTACACG
15364615 AATTCACATT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
42 12 0.26
43 6 0.13
44 28 0.61
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (44 bp):
GGTCTTACACGTAAACCATAAATTGACGCCAAAGTCCCAGACGT
Found at i:15365493 original size:15 final size:15
Alignment explanation
Indices: 15365473--15365507 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15365463 TTTCATATAC
*
15365473 TTTTATTATATGCTA
1 TTTTATTATATACTA
*
15365488 TTTTATTATTTACTA
1 TTTTATTATATACTA
15365503 TTTTA
1 TTTTA
15365508 ACCTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTTATTATATACTA
Found at i:15381221 original size:417 final size:414
Alignment explanation
Indices: 15380461--15381227 Score: 1028
Period size: 417 Copynumber: 1.8 Consensus size: 414
15380451 CTTAGGTAGT
* **
15380461 TTCTTTGACTCAAATATGCCTAAGTCAGCCTAGCTCCCACAAGGTAAGGATTCTCGCAGAATTCC
1 TTCTTTGACTCAAATATGCCTAAGTCAGCCTAACTCCCACAAAATAAGGATTCTCGCAGAATTCC
* *
15380526 TCTGAAGCACTAATTTATATAGCAGAAGCAACTCAAGCCAAAAGAATGCGCAAAAGAACAATAGC
66 TCTCAAGCACTAATTTATATAGCAGAAACAACTCAAGCCAAAAGAATGCGCAAAAGAACAATAGC
* * *
15380591 CATAGAAAAATAATGCACGAGAGGTGTTTGAGTAAATGTTCTCAAAGAATAATATTACTCAAGGA
131 CATAGAAAAACAATGCACGAGAGGTGTTTAAGTAAATGCTCTCAAAGAATAATATTACTCAAGGA
* * *
15380656 ATTCAAGATACAATAGGTGATTTACAACTAAAGAGGAGTCTTTCTATTTCTAGTTGAGCTCCCTC
196 ATTCAAGATACAATAGGTGATTTACAACTAAAGAGGAGGCTCTCTATTTATAGTTGAGCTCCCTC
* * * *
15380721 AAATCCAATGGTTTAGCTAAATTTACATCGACGGATGAGATAAAAACTATCCCTACAATTAAGAG
261 AAATCCAATAGTCTAGCTAAATTTACATCGACGAACGAGATAAAAACTATCCCTACAATTAAGAG
15380786 ATTTACAAGATTTACACAATCAAATCAGATCTAATCTTACTATCACAGGGCTAGAATTTTAGTCT
326 ATTTACAAGATTTACACAATCAAATCAGATCTAATCTTACTATCACAGGGCTAGAATTTTAGTCT
15380851 CACAATCCGTGTGGCCTTAGGCGA
391 CACAATCCGTGTGGCCTTAGGCGA
* * * *
15380875 TTCTTTCGACTCAAATCA-GCCTAAGTCAGCCTAACTCCCCCAAAATGAGGGTTCTCGTAGAATT
1 TTCTTT-GACTCAAAT-ATGCCTAAGTCAGCCTAACTCCCACAAAATAAGGATTCTCGCAGAATT
* * * * **
15380939 CCTC-CAATGCA-TCAATTTATATCG-TGAAAACAACTCAAGTCAAAAGATTGCTTAAAAGAATA
64 CCTCTCAA-GCACT-AATTTATATAGCAG-AAACAACTCAAGCCAAAAGAATGCGCAAAAG-A-A
* * **
15381001 GAATAGCCATAGAAAAACAATGCACGAGAGGTTTTTAAGTAAATGCTCTCAAAGAATTCTATTAC
124 CAATAGCCATAGAAAAACAATGCACGAGAGGTGTTTAAGTAAATGCTCTCAAAGAATAATATTAC
* * *
15381066 TTTAA-GAATTCAAGATACAAT-GGATGATTTACAGCT-GAGAGGGAGGCTCTCTATTTATAGTT
189 -TCAAGGAATTCAAGATACAATAGG-TGATTTACAACTAAAGA-GGAGGCTCTCTATTTATAGTT
* * * * *
15381128 GAGCTCCC-CTGAATCCAATAGTCTAGCTAAGTTTACATCGATGAACGAGATGAAACCTATCCCT
251 GAGCTCCCTC-AAATCCAATAGTCTAGCTAAATTTACATCGACGAACGAGATAAAAACTATCCCT
* *
15381192 ACAATTAAGGGATTTATAAGATTTACACAATCAAAT
315 ACAATTAAGAGATTTACAAGATTTACACAATCAAAT
15381228 TAAATAAAAT
Statistics
Matches: 303, Mismatches: 39, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
414 10 0.03
415 91 0.30
416 8 0.03
417 191 0.63
418 3 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.28
Consensus pattern (414 bp):
TTCTTTGACTCAAATATGCCTAAGTCAGCCTAACTCCCACAAAATAAGGATTCTCGCAGAATTCC
TCTCAAGCACTAATTTATATAGCAGAAACAACTCAAGCCAAAAGAATGCGCAAAAGAACAATAGC
CATAGAAAAACAATGCACGAGAGGTGTTTAAGTAAATGCTCTCAAAGAATAATATTACTCAAGGA
ATTCAAGATACAATAGGTGATTTACAACTAAAGAGGAGGCTCTCTATTTATAGTTGAGCTCCCTC
AAATCCAATAGTCTAGCTAAATTTACATCGACGAACGAGATAAAAACTATCCCTACAATTAAGAG
ATTTACAAGATTTACACAATCAAATCAGATCTAATCTTACTATCACAGGGCTAGAATTTTAGTCT
CACAATCCGTGTGGCCTTAGGCGA
Found at i:15384933 original size:18 final size:18
Alignment explanation
Indices: 15384901--15384935 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15384891 CAAAAATTTA
*
15384901 AAAATAAAACCTAAAAAT
1 AAAATAAAAACTAAAAAT
*
15384919 AAAATAAAAATTAAAAA
1 AAAATAAAAACTAAAAA
15384936 ATTACAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATAAAAACTAAAAAT
Found at i:15385537 original size:52 final size:52
Alignment explanation
Indices: 15385402--15385506 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
15385392 CAAATAAAAG
*
15385402 TAAAATTGCAAAAAATGACCAAATTGCACAATGTGTAAATGTTGAGGGTTAA
1 TAAAATTGCAAAAGATGACCAAATTGCACAATGTGTAAATGTTGAGGGTTAA
15385454 TAAAATTGCAAAAGATGACCAAATTGCACAATGTGTAAATGTTGAGGGTTAA
1 TAAAATTGCAAAAGATGACCAAATTGCACAATGTGTAAATGTTGAGGGTTAA
15385506 T
1 T
15385507 TTTTTTGGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.28
Consensus pattern (52 bp):
TAAAATTGCAAAAGATGACCAAATTGCACAATGTGTAAATGTTGAGGGTTAA
Found at i:15386744 original size:56 final size:56
Alignment explanation
Indices: 15386638--15386743 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 56
15386628 CTAATATAAT
* * *
15386638 ATTTGATATATGAATTTAATTCTTTTTCTTAATTTAATATTTAAATTTTTTATTTA
1 ATTTGATATATAAATTTAATTCTTTTTCTTAATTTAACACTTAAATTTTTTATTTA
* *
15386694 ATTTGGTATATAAATTTAATTC-TTTT-TTAATTTGACACTTAAACTTTTTT
1 ATTTGATATATAAATTTAATTCTTTTTCTTAATTTAACACTTAAA-TTTTTT
15386744 TTTGTCTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
54 14 0.32
55 10 0.23
56 20 0.45
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (56 bp):
ATTTGATATATAAATTTAATTCTTTTTCTTAATTTAACACTTAAATTTTTTATTTA
Found at i:15388881 original size:11 final size:11
Alignment explanation
Indices: 15388865--15388889 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15388855 AATCATTAAT
15388865 ATTATGTGTTA
1 ATTATGTGTTA
15388876 ATTATGTGTTA
1 ATTATGTGTTA
15388887 ATT
1 ATT
15388890 TCAAGACTTA
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:0.28, C:0.00, G:0.16, T:0.56
Consensus pattern (11 bp):
ATTATGTGTTA
Found at i:15410335 original size:17 final size:17
Alignment explanation
Indices: 15410315--15410348 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15410305 ATTATTAAGA
* *
15410315 ATTTTATTAAATTATAT
1 ATTTAATTAAAATATAT
15410332 ATTTAATTAAAATATAT
1 ATTTAATTAAAATATAT
15410349 TTAATAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTAATTAAAATATAT
Found at i:15410473 original size:15 final size:15
Alignment explanation
Indices: 15410438--15410489 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15410428 TTAAGAATTT
*
15410438 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15410452 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15410466 TATTTAATAATAAT-
1 TATTTAATTATAATA
15410480 TATGTTAATT
1 TAT-TTAATT
15410490 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15410529 original size:120 final size:120
Alignment explanation
Indices: 15410194--15410610 Score: 739
Period size: 120 Copynumber: 3.5 Consensus size: 120
15410184 AATTATTTTA
* *
15410194 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
15410258 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15410314 AATTTTATTAAATTATATA-TTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
15410378 ATAGTATTATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
15410433 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
*
15410498 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
15410553 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
15410611 ATGATTAAAT
Statistics
Matches: 285, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
119 114 0.40
120 166 0.58
121 5 0.02
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
ATAGTATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:15410582 original size:18 final size:17
Alignment explanation
Indices: 15410554--15410588 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15410544 ATTATTAAGA
*
15410554 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15410571 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15410589 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:15410773 original size:39 final size:40
Alignment explanation
Indices: 15410730--15410834 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
15410720 TTCCATTATG
15410730 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
15410769 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
15410814 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
15410835 ACACCTTTAA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:15410828 original size:45 final size:44
Alignment explanation
Indices: 15410728--15410837 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
15410718 TTTTCCATTA
15410728 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
15410767 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
15410812 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
15410838 CCTTTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:15410837 original size:16 final size:16
Alignment explanation
Indices: 15410818--15410869 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
15410808 GATTTGCTAT
* *
15410818 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
*
15410834 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
15410850 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
15410866 TACA
1 TACA
15410870 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.35, C:0.35, G:0.00, T:0.31
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:15411751 original size:3 final size:3
Alignment explanation
Indices: 15411745--15411789 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
15411735 CATCATTATT
* *
15411745 ATA ATA ATA A-A AT- ATA ATA ATA CTA ATA TTA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15411790 TAAAATTGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 6 0.17
3 29 0.83
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15416665 original size:36 final size:37
Alignment explanation
Indices: 15416625--15416698 Score: 114
Period size: 39 Copynumber: 2.0 Consensus size: 37
15416615 TGGATTGTGT
15416625 ATCAATACTT-AACAATAATAATACATTAATAAAGAG
1 ATCAATACTTAAACAATAATAATACATTAATAAAGAG
*
15416661 ATCAATACTTAACAACAATAATAATAGATTAATAAAGA
1 ATCAATACTT-A-AACAATAATAATACATTAATAAAGA
15416699 TAGTTAAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 10 0.29
39 24 0.71
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (37 bp):
ATCAATACTTAAACAATAATAATACATTAATAAAGAG
Found at i:15417065 original size:22 final size:22
Alignment explanation
Indices: 15417037--15417084 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
15417027 TAAATCTTTT
*
15417037 CTCTC-AATTTCTCTCCAATATC
1 CTCTCAAATTCCTCT-CAATATC
*
15417059 CTCTCAAATTCCTCTCAATCTC
1 CTCTCAAATTCCTCTCAATATC
15417081 CTCT
1 CTCT
15417085 TAAAAAAAGC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.40
Consensus pattern (22 bp):
CTCTCAAATTCCTCTCAATATC
Found at i:15417082 original size:11 final size:10
Alignment explanation
Indices: 15417037--15417084 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 10
15417027 TAAATCTTTT
*
15417037 CTCTCAATTT
1 CTCTCAATTC
15417047 CTCTCCAATATC
1 CTCT-CAAT-TC
15417059 CTCTCAAATTC
1 CTCTC-AATTC
15417070 CTCTCAATCTC
1 CTCTCAAT-TC
15417081 CTCT
1 CTCT
15417085 TAAAAAAAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 7 0.21
11 18 0.55
12 8 0.24
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.40
Consensus pattern (10 bp):
CTCTCAATTC
Found at i:15418849 original size:126 final size:126
Alignment explanation
Indices: 15418624--15418917 Score: 491
Period size: 126 Copynumber: 2.3 Consensus size: 126
15418614 GGCGAAACAT
* * * * *
15418624 GAGCTACTAAAGCAAAAGCGCATCCACGTGAAAGCTTCTTTCAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTTAGTACTTTTGCTGACAAAGCATC
* *
15418689 CTGTTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGCAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
*
15418750 GAGCTACTATAGCAAAAGTGCGTCCACGTGGAAGCTTCTTTTAGTACTTTTGCTGACAAAGCATC
1 GAGCTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTTAGTACTTTTGCTGACAAAGCATC
15418815 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
* *
15418876 GAGCTACTATAGCAAAAAAGCGTCCACGTGGGAGCTT-TTTTA
1 GAGCTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTTA
15418918 AATTAACACT
Statistics
Matches: 158, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
125 5 0.03
126 153 0.97
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (126 bp):
GAGCTACTATAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTTAGTACTTTTGCTGACAAAGCATC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAA
Found at i:15419802 original size:21 final size:20
Alignment explanation
Indices: 15419736--15419805 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
15419726 TAAAATCTTA
15419736 TTATAAAATTTAAAA-TAATAC
1 TTATAAAA-TTAAAATTAAT-C
* *
15419757 TT-TAAAAATTAAATATTATTT
1 TTAT-AAAATTAAA-ATTAATC
15419778 TTATAAAATTAAAATTGAATC
1 TTATAAAATTAAAATT-AATC
15419799 TTATAAA
1 TTATAAA
15419806 GATGTCATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
20 9 0.22
21 27 0.68
22 4 0.10
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (20 bp):
TTATAAAATTAAAATTAATC
Found at i:15420502 original size:18 final size:19
Alignment explanation
Indices: 15420479--15420519 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
15420469 GAAATTGATT
15420479 AAAAATCTTAAAA-AATAA
1 AAAAATCTTAAAATAATAA
*
15420497 AAAAATTTTAAAATAATAA
1 AAAAATCTTAAAATAATAA
15420516 AAAA
1 AAAA
15420520 GAGAGTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATCTTAAAATAATAA
Found at i:15421288 original size:91 final size:91
Alignment explanation
Indices: 15421181--15421465 Score: 410
Period size: 91 Copynumber: 3.1 Consensus size: 91
15421171 CTACATATGC
** * * * * * *
15421181 ATATGCGAACATTACATATTTTAATATGCGAACCCTGTATATTTATCATACGAGCTCTAGACATG
1 ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTAGACATG
*
15421246 TATTTATGCAAACCGTACAAGTAGCA
66 TATTTATGCAAACCGTACAAGTAGTA
*
15421272 ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTATACATG
1 ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTAGACATG
* *
15421337 TATTTATGCAAATCGTACAACTAGTA
66 TATTTATGCAAACCGTACAAGTAGTA
*
15421363 ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCT-GTATAT
1 ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTAG-ACAT
** *
15421427 GTATTTATGTGAACCCTACAAGTAGTA
65 GTATTTATGCAAACCGTACAAGTAGTA
15421454 ATATGCGAACCC
1 ATATGCGAACCC
15421466 CGTATGTTTA
Statistics
Matches: 174, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
91 174 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (91 bp):
ATATGCGAACCCTACATATTGTAATATGTGAACCCTGTTTGTTTATCATGCGAGCCCTAGACATG
TATTTATGCAAACCGTACAAGTAGTA
Found at i:15421297 original size:23 final size:23
Alignment explanation
Indices: 15421271--15421398 Score: 77
Period size: 23 Copynumber: 5.6 Consensus size: 23
15421261 TACAAGTAGC
15421271 AATATGCGAACCCTACATATTGT
1 AATATGCGAACCCTACATATTGT
* *
15421294 AATATGTGAACCCT--GT-TTGTT
1 AATATGCGAACCCTACATATTG-T
* * * *
15421315 TATCATGCGAGCCCTATACA-TGT
1 AAT-ATGCGAACCCTACATATTGT
* * * * *
15421338 ATTTATGCAAATCGTACA-ACTAGT
1 A-ATATGCGAACCCTACATA-TTGT
15421362 AATATGCGAACCCTACATATTGT
1 AATATGCGAACCCTACATATTGT
*
15421385 AATATGTGAACCCT
1 AATATGCGAACCCT
15421399 GTTTGTTTAT
Statistics
Matches: 75, Mismatches: 21, Indels: 18
0.66 0.18 0.16
Matches are distributed among these distances:
20 3 0.04
21 4 0.05
22 10 0.13
23 51 0.68
24 7 0.09
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (23 bp):
AATATGCGAACCCTACATATTGT
Found at i:15421544 original size:30 final size:30
Alignment explanation
Indices: 15421508--15421573 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
15421498 TTAGCATGCA
* * *
15421508 AACCCTGTATGTGCAAACCCTAGATGTGTG
1 AACCCTGTATGTGCAAACCCAACATGTGCG
**
15421538 AACCCTGTATGTGTGAACCCAACATGTGCG
1 AACCCTGTATGTGCAAACCCAACATGTGCG
15421568 AACCCT
1 AACCCT
15421574 TCTTGTGAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (30 bp):
AACCCTGTATGTGCAAACCCAACATGTGCG
Found at i:15421551 original size:15 final size:15
Alignment explanation
Indices: 15421508--15421557 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
15421498 TTAGCATGCA
**
15421508 AACCCTGTATGTGCA
1 AACCCTGTATGTGTG
15421523 AACCCTAG-ATGTGTG
1 AACCCT-GTATGTGTG
15421538 AACCCTGTATGTGTG
1 AACCCTGTATGTGTG
15421553 AACCC
1 AACCC
15421558 AACATGTGCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.94
16 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (15 bp):
AACCCTGTATGTGTG
Found at i:15425528 original size:23 final size:23
Alignment explanation
Indices: 15425478--15425528 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
15425468 ATTGAAATGT
* *
15425478 ATTAAATTATTTTTTATTTAATC
1 ATTAAATTATTTTTTAATTAATA
*
15425501 TTTAAATTGATTTTTTAATTAA-A
1 ATTAAATT-ATTTTTTAATTAATA
15425524 ATTAA
1 ATTAA
15425529 GAAATTTAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (23 bp):
ATTAAATTATTTTTTAATTAATA
Found at i:15434001 original size:23 final size:22
Alignment explanation
Indices: 15433974--15434016 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15433964 AGGAATACAT
15433974 AGGTGGTGTGAAGGAAACACTTG
1 AGGTGGT-TGAAGGAAACACTTG
* *
15433997 AGGTGGTTGAGGGACACACT
1 AGGTGGTTGAAGGAAACACT
15434017 GATAAGTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.28, C:0.12, G:0.40, T:0.21
Consensus pattern (22 bp):
AGGTGGTTGAAGGAAACACTTG
Found at i:15434795 original size:707 final size:706
Alignment explanation
Indices: 15432808--15434927 Score: 3813
Period size: 707 Copynumber: 3.0 Consensus size: 706
15432798 TGGATTTGAG
15432808 GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
1 GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
*
15432873 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCTCTATTTTTTTGTGACTTTTC
66 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTTGTGACTTTTC
*
15432938 TGTTCGTTCATGGTTTTTTTCTCTTCCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
131 TGTTCGTTCATGGTTTTTTTCTCTTTCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
15433003 TTTGCAAGAATTTTCATTTTTCGAGAGTAAGACTGACTTAGCAAATTTGAACCCAAGAAATCGCC
196 TTTGCAAGAATTTTCATTTTTCGAGAGTAA-ACTGACTTAGCAAATTTGAACCCAAGAAATCGCC
* * *
15433068 TAAGGCTTCATGGTTGGCCAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCTGAGCCAGTGTT
260 TAAGGCTTCATGGTTTGTCAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTT
*
15433133 CGAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAACAGAATGTCCCTATGGAGACTTATAGG
325 CGAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAATAGAATGTCCCTATGGAGACTTATAGG
*
15433198 AGATTTAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTGACCAATCT
390 AGATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTGACCAATCT
15433263 CGAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGGACACACTGATGAGTTAG
455 CGAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGGACACACTGATGAGTTAG
15433328 ACTCGATTAGAATACAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATG
520 ACTCGATTAGAATACAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATG
* *
15433393 AGAGAAACCCTCAATACTGCCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCT
585 AGAGAAACCCTCAATACCGTCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCT
15433458 CAAAGCTATGGTCGTGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTGAGAACTAA
650 CAAAGCTATGGTCGTGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTGAGAACTAA
*
15433515 GGAGCTCAACTATAAATAGATGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
1 GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
15433580 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTTGTGACTTTTC
66 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTTGTGACTTTTC
*
15433645 TGTTCGTTCATGGTTTTTTTCTCTTTCGAGTTTACTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
131 TGTTCGTTCATGGTTTTTTTCTCTTTCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
*
15433710 TTTCCAAGAATTTTCATTTTTC----G---ACTGACTTAGCAAATTTGAACCCAAGAAATCGCCT
196 TTTGCAAGAATTTTCATTTTTCGAGAGTAAACTGACTTAGCAAATTTGAACCCAAGAAATCGCCT
*
15433768 AAGGCTTCATGGTTTGTCAGACTAAAGTTTTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTTC
261 AAGGCTTCATGGTTTGTCAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTTC
* * *
15433833 AAAGGCGCCGATTGAGATGACGAAATGAGGAGACGAATAGAATGTCCCTATAGAGACTTATAGGA
326 GAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAATAGAATGTCCCTATGGAGACTTATAGGA
* *
15433898 GATTCAGGAAAAATAATAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTTACCAATCTC
391 GATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTGACCAATCTC
* * *
15433963 GAGGAATACATAGGTGGTGTGAAGGAAACACTTGAGGTGGTTGAGGGACACACTGATAAGTTAGA
456 GAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGGACACACTGATGAGTTAGA
* * *
15434028 CTCGATTAGAATGCAGCTCAGGGACTATGTGGTGGAGGCTCTTAGTTCCAATCAAGGTGCGATGA
521 CTCGATTAGAATACAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATGA
* *
15434093 GAGAAACCCTCAATACCGTCATGGATGATAAGTTCGAGAAACTAATTAAGAAGAATGATGCTCTC
586 GAGAAACCCTCAATACCGTCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCTC
*
15434158 AAAGCTATGGTCGTGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTCAGAACTAA
651 AAAGCTATGGTCGTGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTGAGAACTAA
15434214 GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
1 GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
* * *
15434279 TAATAGAATATTTTTTAGAGCATTTACTCAAACATTTGGTATGCACTATTTTTTTGTGACTTTTC
66 TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTTGTGACTTTTC
*
15434344 TATTCGTTCATGGTTTTTTTCTCTTTCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
131 TGTTCGTTCATGGTTTTTTTCTCTTTCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
15434409 TTTGCAAGAATTTTCATTTTTCGAGAGTAAAACTGACTTAGCAAATTTGAACCCAAGAAATCGCC
196 TTTGCAAGAATTTTCATTTTTCGAGAGT-AAACTGACTTAGCAAATTTGAACCCAAGAAATCGCC
15434474 TAAGGCTTCATGGTTTGTCAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTT
260 TAAGGCTTCATGGTTTGTCAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTT
* * *
15434539 CGAAGGCACCGGTTGAGATGACGAAATGAAGAGACGAATAGAATGTCCTTATGGAGACTTATAGG
325 CGAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAATAGAATGTCCCTATGGAGACTTATAGG
*
15434604 AGATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGATTTGGAAGGTCGAGTGACCAATCT
390 AGATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTGACCAATCT
*
15434669 CGAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGCACACACTGATGAGTTAG
455 CGAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGGACACACTGATGAGTTAG
15434734 ACTCGATTAGAATACAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATG
520 ACTCGATTAGAATACAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATG
15434799 AGAGAAACCCTCAATACCGTCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCT
585 AGAGAAACCCTCAATACCGTCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCT
* * * *
15434864 AAAATCTATGGTCGTGGCTTTGAAAGAGGAATTTTAGGCCATGATGTTGAGAACTGA
650 CAAAGCTATGGTCGTGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTGAGAACTAA
15434921 GGAGCTC
1 GGAGCTC
15434928 GAGGGAGAGC
Statistics
Matches: 1347, Mismatches: 58, Indels: 16
0.95 0.04 0.01
Matches are distributed among these distances:
699 669 0.50
703 2 0.00
707 676 0.50
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (706 bp):
GGAGCTCAACTATAAATAGAGGTCTTTCCACTCATTTGTAGTCACTTAATTGTAAACATTCAAAG
TAATAGAATACTTTTGAGAGCATTTACTCAAACATTTGGTGTGCACTATTTTTTTGTGACTTTTC
TGTTCGTTCATGGTTTTTTTCTCTTTCGAGTTTGCTTTTGTTTTGTTTCAGTGTCTTAGAGAATT
TTTGCAAGAATTTTCATTTTTCGAGAGTAAACTGACTTAGCAAATTTGAACCCAAGAAATCGCCT
AAGGCTTCATGGTTTGTCAGACTAAAGTTCTAGCCCCGTGACAATTAGTATCCGAGCCAGTGTTC
GAAGGCGCCGGTTGAGATGACGAAATGAGGAGACGAATAGAATGTCCCTATGGAGACTTATAGGA
GATTCAGGAAAAATAACAGATCGAGGGATATGTTGTTGGCTTTGGAAGGTCGAGTGACCAATCTC
GAGGAATACATGGGTGGTGTGAAGGAAACACTCGAGGTGGTTGAGGGACACACTGATGAGTTAGA
CTCGATTAGAATACAGCTCAGGGACTATGTGGCGGAGGCTCTTAGTTCCAATCGAGGTGCGATGA
GAGAAACCCTCAATACCGTCATGGATGATAAGTCCGAGAAGCTAATTAAGAAGAATGATGCTCTC
AAAGCTATGGTCGTGGCTTTGAAAGAGGAATTGTAGGCCATGATGTTGAGAACTAA
Found at i:15443219 original size:20 final size:19
Alignment explanation
Indices: 15443203--15443256 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
15443193 ATATATATAA
15443203 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AATTTTTATAAAT
*
15443223 ATTTTGAA-TTTTAGAAAATT
1 ATTTTGAATTTTTA-TAAA-T
15443243 ATTTTGAACTTTTT
1 ATTTTGAA-TTTTT
15443257 TTTTGTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 5 0.17
19 5 0.17
20 15 0.52
22 4 0.14
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
ATTTTGAATTTTTATAAAT
Found at i:15445303 original size:6 final size:6
Alignment explanation
Indices: 15445294--15445331 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
15445284 ATCATCATCA
15445294 TCCTCT TCCTCT TCCTCT TCCTC- TCCGTCT TCCTCT TC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCC-TCT TCCTCT TC
15445332 ATCCACAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 3 0.10
6 24 0.80
7 3 0.10
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (6 bp):
TCCTCT
Found at i:15452765 original size:6 final size:6
Alignment explanation
Indices: 15452756--15452793 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
15452746 ATCATCATCA
15452756 TCCTCT TCCTCT TCCTCT TCCTC- TCCGTCT TCCTCT TC
1 TCCTCT TCCTCT TCCTCT TCCTCT TCC-TCT TCCTCT TC
15452794 ATCCACAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 3 0.10
6 24 0.80
7 3 0.10
ACGTcount: A:0.00, C:0.50, G:0.03, T:0.47
Consensus pattern (6 bp):
TCCTCT
Found at i:15460181 original size:88 final size:87
Alignment explanation
Indices: 15460026--15460202 Score: 219
Period size: 88 Copynumber: 2.0 Consensus size: 87
15460016 AAAGGAGACA
* * * ** *
15460026 GCTTTTTAGGCCAAAGAGAGTGACACATGGCAATGCGTGAGTGGCCAATGCAAAAGGGGAACTTT
1 GCTTTTCAGGCCAAAAAGAGTGACACATGGCAATGCGTGAGTGGCCAACGCAAAAGGAAAACATT
* *
15460091 TGATAAAATTTCGAGAGTTTCAT
66 TGAT-AAATATCAAGAGTTTCAT
* * * * * *
15460114 GCTTTTCAGGCCAAAAAGAGTGAGACATGGTAGTGCGTGAGTGGCCAGCGTAAAAGTAAAACATT
1 GCTTTTCAGGCCAAAAAGAGTGACACATGGCAATGCGTGAGTGGCCAACGCAAAAGGAAAACATT
15460179 TGATAAATATCAAGAGTTTCAT
66 TGATAAATATCAAGAGTTTCAT
15460201 GC
1 GC
15460203 GGAAGTGGAA
Statistics
Matches: 75, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
87 18 0.24
88 57 0.76
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (87 bp):
GCTTTTCAGGCCAAAAAGAGTGACACATGGCAATGCGTGAGTGGCCAACGCAAAAGGAAAACATT
TGATAAATATCAAGAGTTTCAT
Found at i:15465965 original size:26 final size:24
Alignment explanation
Indices: 15465916--15465965 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
15465906 ACATATGAAC
**
15465916 ATACTTACATTTTTATTTTTTATA
1 ATACTTACATTTTTATTTAATATA
15465940 ATACTTACAAATTTTTATTTAATATA
1 ATACTTAC--ATTTTTATTTAATATA
15465966 TATTTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 8 0.36
26 14 0.64
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (24 bp):
ATACTTACATTTTTATTTAATATA
Found at i:15466480 original size:107 final size:107
Alignment explanation
Indices: 15466294--15466505 Score: 361
Period size: 107 Copynumber: 2.0 Consensus size: 107
15466284 AAAGGAAGGT
* *
15466294 TTTTCTAAATAAGGAAATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTT
1 TTTTCTAAATAAGGAAATATTTCGCGCTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
* * *
15466359 TTGATTTCTCGTTCGACCAAATAGCCAAGTATCCTTTTAAGA
66 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAAGA
*
15466401 TTTTCTAAATAAGGCAATATTTCGCGCTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
1 TTTTCTAAATAAGGAAATATTTCGCGCTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
*
15466466 TCGATTTCTCGTTCGACTAAATAGCCAAATATCCTCTTAA
66 TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAA
15466506 AACTTCAAAG
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 98 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (107 bp):
TTTTCTAAATAAGGAAATATTTCGCGCTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTT
TCGATTTCTCGTTCGACCAAATAGCCAAATATCCTCTTAAGA
Found at i:15469291 original size:17 final size:19
Alignment explanation
Indices: 15469248--15469292 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
15469238 TTTTATTAAT
15469248 TTAATATTAAAATGATGATC
1 TTAATATTAAAATGA-GATC
*
15469268 TTAATATTAAATTGA-ATC
1 TTAATATTAAAATGAGATC
15469286 -TAATATT
1 TTAATATT
15469293 TATCTTGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 7 0.29
18 3 0.12
20 14 0.58
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (19 bp):
TTAATATTAAAATGAGATC
Found at i:15469296 original size:68 final size:69
Alignment explanation
Indices: 15469204--15469332 Score: 188
Period size: 69 Copynumber: 1.9 Consensus size: 69
15469194 ATAAATTTAG
* * * *
15469204 TATTTAATTTAATTTAATACTTATCATGAT-AGTATTTTATTAATTTAATATTAAAATGATGATC
1 TATTAAATTGAATCTAATACTTATCATGATAAGTATTATATTAATTTAATATTAAAATGATGATC
15469268 TTAA
66 TTAA
* * *
15469272 TATTAAATTGAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATATTAAAGTGAT
1 TATTAAATTGAATCTAATACTTATCATGATAAGTATTATATTAATTTAATATTAAAATGAT
15469333 TAAGTTTAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
68 25 0.47
69 28 0.53
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (69 bp):
TATTAAATTGAATCTAATACTTATCATGATAAGTATTATATTAATTTAATATTAAAATGATGATC
TTAA
Found at i:15474316 original size:290 final size:290
Alignment explanation
Indices: 15473796--15474377 Score: 1047
Period size: 290 Copynumber: 2.0 Consensus size: 290
15473786 ACATCACGAC
*
15473796 GAGGAAACACCTGATGTCACAACGATTTCCTACACGTGCTGACTTCGATTTTAAGGGCAATTCGA
1 GAGGAAACACCCGATGTCACAACGATTTCCTACACGTGCTGACTTCGATTTTAAGGGCAATTCGA
* * *
15473861 GGTCTTTTTCCATATTTAAAAGCCTAATTGTTGTAATAAATGGAGGAGCACTTTGGTCTTTGGAT
66 GATCTTTTTCCATATTTAAAAGCCTAATTGTTGTAATAAATGGAAGAGCACATTGGTCTTTGGAT
* * *
15473926 TCTTCATTATATAACCAACGTTCTAATTAAAATTAAAGGGAGACGTTCAGTGGAGACAAACAAAT
131 TCTTCACTATATAACCAACATTCTAATCAAAATTAAAGGGAGACGTTCAGTGGAGACAAACAAAT
*
15473991 ATTTAGTAGAGTAGATTAGTTTTAAGCTAGGTTTTCTTTTAGAATAATTTTGTATTAATTTCTTT
196 ATTTAGTAGAGTAGATTAGTTTTAAGCTAGGTTTTCTTTTAGAATAATTTTGTATTAATTTATTT
15474056 CTTTCTTTTTAGATGTTATTCTAATTGTTA
261 CTTTCTTTTTAGATGTTATTCTAATTGTTA
*
15474086 GAGGAAACACCCGATGTCACAATGATTTCCTACACGTGCTGACTTCGATTTTAAGGGCAATTCGA
1 GAGGAAACACCCGATGTCACAACGATTTCCTACACGTGCTGACTTCGATTTTAAGGGCAATTCGA
15474151 GATCTTTTTCCATATTTAAAAGCCTAATTGTTGTAATAAATGGAAGAGCACATTGGTCTTTGGAT
66 GATCTTTTTCCATATTTAAAAGCCTAATTGTTGTAATAAATGGAAGAGCACATTGGTCTTTGGAT
* *
15474216 TCTTCACTATGTAACCAACATTCTACTCAAAATTAAAGGGAGACGTTCAGTGGAGACAAACAAAT
131 TCTTCACTATATAACCAACATTCTAATCAAAATTAAAGGGAGACGTTCAGTGGAGACAAACAAAT
* *
15474281 ATTTAGTAGAGTAGATTAGTTTTAGGCTAGGTTTTCTTTTAGAATAATTTTGTATTTATTTATTT
196 ATTTAGTAGAGTAGATTAGTTTTAAGCTAGGTTTTCTTTTAGAATAATTTTGTATTAATTTATTT
15474346 CTTTCTTTTTAGATGTTATTCTAATTGTTA
261 CTTTCTTTTTAGATGTTATTCTAATTGTTA
15474376 GA
1 GA
15474378 TTGAATTTCT
Statistics
Matches: 279, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
290 279 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (290 bp):
GAGGAAACACCCGATGTCACAACGATTTCCTACACGTGCTGACTTCGATTTTAAGGGCAATTCGA
GATCTTTTTCCATATTTAAAAGCCTAATTGTTGTAATAAATGGAAGAGCACATTGGTCTTTGGAT
TCTTCACTATATAACCAACATTCTAATCAAAATTAAAGGGAGACGTTCAGTGGAGACAAACAAAT
ATTTAGTAGAGTAGATTAGTTTTAAGCTAGGTTTTCTTTTAGAATAATTTTGTATTAATTTATTT
CTTTCTTTTTAGATGTTATTCTAATTGTTA
Found at i:15474937 original size:15 final size:15
Alignment explanation
Indices: 15474919--15474949 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15474909 AGTAAATTAG
*
15474919 AATTAGTTTTATTTT
1 AATTAGTTTCATTTT
15474934 AATTAGTTTCATTTT
1 AATTAGTTTCATTTT
15474949 A
1 A
15474950 GTTTAATCAT
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:0.29, C:0.03, G:0.06, T:0.61
Consensus pattern (15 bp):
AATTAGTTTCATTTT
Found at i:15479763 original size:9 final size:9
Alignment explanation
Indices: 15479749--15479798 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
15479739 TTTGGTTAAA
15479749 AATTACCCG
1 AATTACCCG
*
15479758 AATTACTCG
1 AATTACCCG
*
15479767 AATTACCCA
1 AATTACCCG
* *
15479776 AATTAACTG
1 AATTACCCG
*
15479785 AATTAACCG
1 AATTACCCG
15479794 AATTA
1 AATTA
15479799 TCGAAAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTACCCG
Found at i:15479772 original size:18 final size:18
Alignment explanation
Indices: 15479749--15479803 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
15479739 TTTGGTTAAA
15479749 AATTACCCGAATTACTCG
1 AATTACCCGAATTACTCG
*
15479767 AATTACCCAAATTAACT-G
1 AATTACCCGAATT-ACTCG
*
15479785 AATTAACCGAATTA-TCG
1 AATTACCCGAATTACTCG
15479802 AA
1 AA
15479804 AAATACCCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 24 0.75
19 3 0.09
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (18 bp):
AATTACCCGAATTACTCG
Found at i:15482052 original size:29 final size:30
Alignment explanation
Indices: 15481988--15482057 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
15481978 ATCCCAAAAC
*
15481988 TATACATGAACTATGGTTTAATATGTAATTG
1 TATACATGAACTATGATTT-ATATGTAATTG
* * *
15482019 TATACATGAACTTTGATTT-TGTGTAATTT
1 TATACATGAACTATGATTTATATGTAATTG
15482048 TATACATGAA
1 TATACATGAA
15482058 ATTTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.51
31 17 0.49
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.44
Consensus pattern (30 bp):
TATACATGAACTATGATTTATATGTAATTG
Found at i:15482068 original size:29 final size:29
Alignment explanation
Indices: 15482011--15482068 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
15482001 TGGTTTAATA
* *
15482011 TGTAATTGTATACATGAACTTTGATTTTG
1 TGTAATTGTATACATGAAATTTGAATTTG
* *
15482040 TGTAATTTTATACATGAAATTTTAATTTG
1 TGTAATTGTATACATGAAATTTGAATTTG
15482069 ATCCAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (29 bp):
TGTAATTGTATACATGAAATTTGAATTTG
Found at i:15482285 original size:29 final size:30
Alignment explanation
Indices: 15482244--15482300 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
15482234 TTTGAATCTC
* *
15482244 AATTACAATTTTACGTATATAATTACACTA
1 AATTACAAGTTTACGTATACAATTACACTA
*
15482274 AATTA-AAGTTTATGTATACAATTACAC
1 AATTACAAGTTTACGTATACAATTACAC
15482301 ATTAGATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.44, C:0.12, G:0.05, T:0.39
Consensus pattern (30 bp):
AATTACAAGTTTACGTATACAATTACACTA
Found at i:15483789 original size:36 final size:36
Alignment explanation
Indices: 15483742--15483814 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
15483732 CATTTTTAAA
15483742 CCTCAATTTCGATTCCTTTATCTCCCCAATTCAAAG
1 CCTCAATTTCGATTCCTTTATCTCCCCAATTCAAAG
15483778 CCTCAATTTCGATTCCTTTATCTCCCCAATTCAAAG
1 CCTCAATTTCGATTCCTTTATCTCCCCAATTCAAAG
15483814 C
1 C
15483815 TAATGTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.25, C:0.34, G:0.05, T:0.36
Consensus pattern (36 bp):
CCTCAATTTCGATTCCTTTATCTCCCCAATTCAAAG
Found at i:15484217 original size:31 final size:31
Alignment explanation
Indices: 15484182--15484241 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
15484172 GGGTAATTTG
*
15484182 GGTAACAAAGTATAGTTTAGGTATCACTTTA
1 GGTAACAAAGTATAGTTTAGGTACCACTTTA
* *
15484213 GGTAATAGAGTATAGTTTAGGTACCACTT
1 GGTAACAAAGTATAGTTTAGGTACCACTT
15484242 GTGGCCAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.35
Consensus pattern (31 bp):
GGTAACAAAGTATAGTTTAGGTACCACTTTA
Found at i:15487560 original size:49 final size:49
Alignment explanation
Indices: 15487504--15487612 Score: 139
Period size: 49 Copynumber: 2.2 Consensus size: 49
15487494 AATTCAAATG
** *
15487504 TTCTACCATCTTGAATGGCC-AGAAAATGATGGCTTTTACCAACTACTTA
1 TTCTACCATCCCGAATGGCCTAG-AAACGATGGCTTTTACCAACTACTTA
* * *
15487553 TTCTACCATCCCGAATGGCCTAGCAACGATGGCTTTTACCAATTGCTTA
1 TTCTACCATCCCGAATGGCCTAGAAACGATGGCTTTTACCAACTACTTA
*
15487602 TTCTATCATCC
1 TTCTACCATCC
15487613 TAGATAACCC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
49 50 0.96
50 2 0.04
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.33
Consensus pattern (49 bp):
TTCTACCATCCCGAATGGCCTAGAAACGATGGCTTTTACCAACTACTTA
Found at i:15487633 original size:49 final size:49
Alignment explanation
Indices: 15487528--15487637 Score: 109
Period size: 49 Copynumber: 2.3 Consensus size: 49
15487518 ATGGCCAGAA
* ** *
15487528 AATGATGGCTTTTACCAACTACTTATTCTACCATCCCGAATGGCCTAGC
1 AATGATGGCTTTTACCAACTACTTATTCTACCATCCAGAATACCCGAGC
* * * *
15487577 AACGATGGCTTTTACCAATTGCTTATTCTATCATCCTAG-ATAACCCGA-C
1 AATGATGGCTTTTACCAACTACTTATTCTACCATCC-AGAAT-ACCCGAGC
15487626 AATGATGG-TTTT
1 AATGATGGCTTTT
15487638 CACTATATAC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
48 4 0.08
49 42 0.84
50 4 0.08
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (49 bp):
AATGATGGCTTTTACCAACTACTTATTCTACCATCCAGAATACCCGAGC
Found at i:15489242 original size:3 final size:3
Alignment explanation
Indices: 15489234--15489265 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15489224 GGTCATTACA
15489234 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15489266 AGACTCATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15491718 original size:2 final size:2
Alignment explanation
Indices: 15491711--15491735 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15491701 TCGCAAGTGC
15491711 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
15491736 AGACTTGGAT
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:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15493610 original size:26 final size:24
Alignment explanation
Indices: 15493581--15493631 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
15493571 CTCTTTACAC
15493581 AAAAATTTT-GAGTCGAAAGTTTACTT
1 AAAAATTTTAGAGTC-AAA-TTTA-TT
15493607 -AAAATTTTAGAGTCAAATTTATT
1 AAAAATTTTAGAGTCAAATTTATT
15493630 AA
1 AA
15493632 TTCTTTTGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
23 2 0.09
24 5 0.22
25 11 0.48
26 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (24 bp):
AAAAATTTTAGAGTCAAATTTATT
Found at i:15496692 original size:81 final size:79
Alignment explanation
Indices: 15496590--15497215 Score: 514
Period size: 81 Copynumber: 7.7 Consensus size: 79
15496580 GGCAATGCAG
* *
15496590 GAAGGGATTTGGAAGGA-AAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAATCA
1 GAAGGG-TTTGGAA-GACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAATC-
* *
15496654 CTTTGATGGAGGTGATGT
62 CTTTGATGGAGGAGAAGT
** * * * * * * *
15496672 GAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCTTTTGATGCTGAAAAT-C-T
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAATCCTT
**
15496735 TGATAGAGAAAAGGAAGT
65 TGAT-G-GAGGA-GAAGT
* * * *
15496753 GACGAGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCAATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAATC-CT-
** * *
15496818 GCGAAGG-GAAAGAAGT
64 TTGATGGAG-GAGAAGT
15496834 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCACT
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAATC-CT
** * *
15496899 TCAATGGAGGTGATGT
64 TTGATGGAGGAGAAGT
** * * * * * * *
15496915 GAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCTT-TGCTGCCGAAAAT-C-
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAA-ACTTCTGATTCTG-AAATCCT
**
15496977 TTGATAGAGAAAAAGAAGT
64 TTGAT-G-G-AGGAGAAGT
* * *
15496996 GAAGGGTTTGGAAGACAAGTATGCTACCGCTTACTTTCACAAAACTTCTAATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAATCC-T-
** * *
15497061 GCGAAGG-GAAAGAAGT
64 TTGATGGAG-GAGAAGT
* * *
15497077 GAAGGGTTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCC-AT
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAATCCTTT
* *
15497141 GACGAAGGGAAAGAAGT
66 GATGGA-GG--AGAAGT
*
15497158 GAAGGGTTTGGAAGGCAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAA
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAA
15497216 TCAGAAGTGA
Statistics
Matches: 441, Mismatches: 78, Indels: 51
0.77 0.14 0.09
Matches are distributed among these distances:
78 11 0.02
79 4 0.01
80 15 0.03
81 387 0.88
82 18 0.04
83 2 0.00
84 4 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (79 bp):
GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAATCCTTT
GATGGAGGAGAAGT
Found at i:15496868 original size:162 final size:157
Alignment explanation
Indices: 15496597--15497347 Score: 658
Period size: 162 Copynumber: 4.8 Consensus size: 157
15496587 CAGGAAGGGA
* * * *
15496597 TTTGGAAGGA-AAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAATCACT-TTG-
1 TTTGGAA-GACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAAGCAATGGTGA
* ** * ** * * * * * *
15496659 ATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCTTTTGAT
64 AGGGA-AAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGAT
* *
15496724 GCTGAAAATCTTGATAGAGAAAAGGAAGTGACGAG
128 TCTGAAAATCTTGA-AG-G--AA-GAAGTGAAGAG
* *
15496759 TTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCAATGGCGAAG
1 TTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCAATGGTGAAG
15496824 GGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCT
66 GGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCT
* * * *
15496889 GAAAATCACTTCAATGGAGGTGATGTGAAGAA
131 GAAAAT--CTTGAA-GGA--AGAAGTGAAGAG
* * * * * * **
15496921 TTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCTT-TGCTGCCG-AA--AATCTTGAT
1 TTTGGAAGACAAATATGCTACGGCTTACTTTCACAAA-ACTTCTGATTCTGAAAGCAATGGTGA-
* * *
15496982 AGAGAAAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACCGCTTACTTTCACAAAACTTCTAA
64 AG-G-GAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGA
*** *
15497047 TTCTGAAAGCCATGGCGAAGGGAAAGAAGTGAAGGG
127 TTCTGAAA---ATCTTGAA-GG-AAGAAGTGAAGAG
* * * **
15497083 TTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATGACGAAG
1 TTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCAATGGTGAAG
*
15497148 GGAAAGAAGTGAAGGGTTTGGAAGGCAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCT
66 GGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCT
15497213 G--AATC--------AGAAGTGAAGAG
131 GAAAATCTTGAAGGAAGAAGTGAAGAG
* * * * *
15497230 CTTGGGAGACAAATATGCTACGGCTTATTTTCATC-AAACTTCTAATTCTGAAAGCCATGGTGAA
1 TTTGGAAGACAAATATGCTACGGCTTACTTTCA-CAAAACTTCTGATTCTGAAAGCAATGGTGAA
* * * * *
15497294 AGGAAAGCAA-TGAAGAGTTTGGAAGACAAATATTCCACGGCTTACTTTCACAAA
65 GGGAAAG-AAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAA
15497348 GCGTTTGATT
Statistics
Matches: 490, Mismatches: 77, Indels: 59
0.78 0.12 0.09
Matches are distributed among these distances:
147 110 0.22
148 3 0.01
157 2 0.00
159 5 0.01
160 3 0.01
161 15 0.03
162 322 0.66
163 16 0.03
164 8 0.02
165 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (157 bp):
TTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCAATGGTGAAG
GGAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCT
GAAAATCTTGAAGGAAGAAGTGAAGAG
Found at i:15497030 original size:243 final size:243
Alignment explanation
Indices: 15496590--15497135 Score: 923
Period size: 243 Copynumber: 2.2 Consensus size: 243
15496580 GGCAATGCAG
* * *
15496590 GAAGGGATTTGGAAGGA-AAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAATCA
1 GAAGGG-TTTGGAA-GACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCA
** *
15496654 CTTTGATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCTT
64 CTTCAATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCCT
* * * *
15496719 TTGATGCTGAAAATCTTGATAGAGAAAAGGAAGTGACGAGTTTGGAAGACAAGTATGCTACGGCT
129 TTGATGCCGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACCGCT
*
15496784 TACTTTCACAAAACTTCTGATTCTGAAAGCAATGGCGAAGGGAAAGAAGT
194 TACTTTCACAAAACTTCTAATTCTGAAAGCAATGGCGAAGGGAAAGAAGT
15496834 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCACT
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCACT
*
15496899 TCAATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCTTT
66 TCAATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCCTTT
* *
15496964 GCTGCCGAAAATCTTGATAGAGAAAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACCGCTTA
131 GATGCCGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACCGCTTA
*
15497029 CTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
196 CTTTCACAAAACTTCTAATTCTGAAAGCAATGGCGAAGGGAAAGAAGT
*
15497077 GAAGGGTTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA
1 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA
15497136 GCCATGACGA
Statistics
Matches: 285, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
242 2 0.01
243 277 0.97
244 6 0.02
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.27
Consensus pattern (243 bp):
GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCACT
TCAATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCCTTT
GATGCCGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACCGCTTA
CTTTCACAAAACTTCTAATTCTGAAAGCAATGGCGAAGGGAAAGAAGT
Found at i:15497170 original size:243 final size:240
Alignment explanation
Indices: 15496590--15497347 Score: 872
Period size: 243 Copynumber: 3.2 Consensus size: 240
15496580 GGCAATGCAG
*
15496590 GAAGGGATTTGGAAGGA-AAATATGCTACAGCTTACTTTCACAAAACTTCTGATTCTGCAAATCA
1 GAAGGG-TTTGGAA-GACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTG-AAA--A
** * * * *
15496654 CTTTGATGGAGG-TGATGTGAAGAATTTGGAAGACAAATATTCTACAGCTTACTTCCACAAAGCT
61 CCATGACGAAGGATGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCC
* * *
15496718 TTTGATGCTGAAAATCTTGATAGAGAAAAGGAAGTGACGAGTTTGGAAGACAAGTATGCTACGGC
126 TTTGCTGC-GAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACGGC
* *
15496783 TTACTTTCACAAAACTTCTGATTCTGAAAGCAATGGCGAAGGGAAAGAAGT
190 TTACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
* *
15496834 GAAGGGTTTGGAAGACAAGTATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAATCACT
1 GAAGGGTTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAACCA-T
*
15496899 -TC-AATGGAGGTGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCT
65 GACGAA-GGA--TGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCT
* *
15496962 TTGCTGCCGAAAATCTTGATAGAGAAAAAGAAGTGAAGGGTTTGGAAGACAAGTATGCTACCGCT
127 TTGCTG-CGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACGGCT
15497027 TACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
191 TACTTTCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
* * *
15497077 GAAGGGTTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAGCCATG
1 GAAGGGTTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAACCATG
* * ** * * * * *
15497142 ACGAAGGGAAAGAAGTGAAGGGTTTGGAAGGCAAGTATGCTACGGCTTACTTTCACAAA-AC-TT
66 ACGAA-GG-ATGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCTTT
* ** * * * *
15497205 -CT--G---A--TT-CT---GAATCAGAAGTGAAGAGCTTGGGAGACAAATATGCTACGGCTTAT
129 GCTGCGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACGGCTTAC
* *
15497258 TTTCATC-AAACTTCTAATTCTGAAAGCCATGGTGAAAGGAAAGCAA-T
194 TTTCA-CAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAG-AAGT
* * *
15497305 GAAGAGTTTGGAAGACAAATATTCCACGGCTTACTTTCACAAA
1 GAAGGGTTTGGAAGACAAATATGCTACGGCTTACTTTCACAAA
15497348 GCGTTTGATT
Statistics
Matches: 456, Mismatches: 46, Indels: 40
0.84 0.08 0.07
Matches are distributed among these distances:
228 116 0.25
229 3 0.01
231 1 0.00
232 2 0.00
234 1 0.00
237 1 0.00
239 1 0.00
240 5 0.01
241 3 0.01
242 7 0.02
243 304 0.67
244 11 0.02
245 1 0.00
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (240 bp):
GAAGGGTTTGGAAGACAAATATGCTACGGCTTACTTTCACAAAACTTCTGATTCTGAAAACCATG
ACGAAGGATGATGTGAAGAATTTGGAAGACAAATATTCTACGGCTTACTTCCACAAAGCCTTTGC
TGCGAAAATCTTGATAGAGAAAAAGAAGTGAAGAGTTTGGAAGACAAGTATGCTACGGCTTACTT
TCACAAAACTTCTAATTCTGAAAGCCATGGCGAAGGGAAAGAAGT
Found at i:15497262 original size:66 final size:66
Alignment explanation
Indices: 15497152--15497281 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
15497142 ACGAAGGGAA
* * * * *
15497152 AGAAGTGAAGGGTTTGGAAGGCAAGTATGCTACGGCTTACTTTCA-CAAAACTTCTGATTCTGAA
1 AGAAGTGAAGAGCTTGGAAGACAAATATGCTACGGCTTACTTTCATC-AAACTTCTAATTCTGAA
15497216 TC
65 TC
* *
15497218 AGAAGTGAAGAGCTTGGGAGACAAATATGCTACGGCTTATTTTCATCAAACTTCTAATTCTGAA
1 AGAAGTGAAGAGCTTGGAAGACAAATATGCTACGGCTTACTTTCATCAAACTTCTAATTCTGAA
15497282 AGCCATGGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 55 0.98
67 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.29
Consensus pattern (66 bp):
AGAAGTGAAGAGCTTGGAAGACAAATATGCTACGGCTTACTTTCATCAAACTTCTAATTCTGAAT
C
Found at i:15497357 original size:147 final size:147
Alignment explanation
Indices: 15497071--15497347 Score: 387
Period size: 147 Copynumber: 1.9 Consensus size: 147
15497061 GCGAAGGGAA
* * * *
15497071 AGAAGTGAAGGGTTTGGAAGACAAGTATACTACGGCTTACTTTCACAAAACTTCTGATTCTGAAA
1 AGAAGTGAAGAGCTTGGAAGACAAATATACTACGGCTTACTTTCACAAAACTTCTAATTCTGAAA
* * * * *
15497136 GCCATGACGAAGGGAAAGAAGTGAAGGGTTTGGAAGGCAAGTATGCTACGGCTTACTTTCACAAA
66 GCCATGACGAAAGGAAAGAAGTGAAGAGTTTGGAAGACAAATATGCCACGGCTTACTTTCACAAA
15497201 ACTTCTGATTCTGAATC
131 ACTTCTGATTCTGAATC
* * *
15497218 AGAAGTGAAGAGCTTGGGAGACAAATATGCTACGGCTTATTTTCATC-AAACTTCTAATTCTGAA
1 AGAAGTGAAGAGCTTGGAAGACAAATATACTACGGCTTACTTTCA-CAAAACTTCTAATTCTGAA
** *
15497282 AGCCATGGTGAAAGGAAAGCAA-TGAAGAGTTTGGAAGACAAATATTCCACGGCTTACTTTCACA
65 AGCCATGACGAAAGGAAAG-AAGTGAAGAGTTTGGAAGACAAATATGCCACGGCTTACTTTCACA
15497346 AA
129 AA
15497348 GCGTTTGATT
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
147 110 0.97
148 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (147 bp):
AGAAGTGAAGAGCTTGGAAGACAAATATACTACGGCTTACTTTCACAAAACTTCTAATTCTGAAA
GCCATGACGAAAGGAAAGAAGTGAAGAGTTTGGAAGACAAATATGCCACGGCTTACTTTCACAAA
ACTTCTGATTCTGAATC
Found at i:15498849 original size:6 final size:6
Alignment explanation
Indices: 15498838--15498870 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
15498828 TTCTTGTTTT
15498838 ATATAA ATATAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATA
15498871 ATAATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:15504377 original size:6 final size:6
Alignment explanation
Indices: 15504366--15504391 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
15504356 TGATTTTAAC
15504366 GGAATT GGAATT GGAATT GGAATT GG
1 GGAATT GGAATT GGAATT GGAATT GG
15504392 TTTGAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (6 bp):
GGAATT
Found at i:15504419 original size:16 final size:18
Alignment explanation
Indices: 15504393--15504425 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15504383 TGGAATTGGT
15504393 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
15504410 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
15504426 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:15516736 original size:20 final size:20
Alignment explanation
Indices: 15516698--15516743 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
15516688 TGTATTTTTT
*
15516698 ATTTTTTATTTTATTTTAAG
1 ATTTTTTATTTTATATTAAG
*
15516718 ATTTTTTATTTT-TAATTAAT
1 ATTTTTTATTTTAT-ATTAAG
15516738 ATTTTT
1 ATTTTT
15516744 AACATAGTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
ATTTTTTATTTTATATTAAG
Found at i:15517094 original size:17 final size:17
Alignment explanation
Indices: 15517072--15517104 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15517062 ATAATTAATT
15517072 AAAATATTTCAAATATA
1 AAAATATTTCAAATATA
*
15517089 AAAATATTTGAAATAT
1 AAAATATTTCAAATAT
15517105 CATACTACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
AAAATATTTCAAATATA
Found at i:15519269 original size:50 final size:50
Alignment explanation
Indices: 15519100--15519347 Score: 309
Period size: 50 Copynumber: 4.8 Consensus size: 50
15519090 ATTTGGGTAA
* *
15519100 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
*
15519156 AGAGGTCCCATATAAGACCATGTCTGGGACATGGC-GTGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
15519205 AGAGGTCTCATATAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
15519255 AGAGGTCCCCTATAAGACCATGTCTTGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
15519305 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCA
15519348 TGTTATTATC
Statistics
Matches: 172, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 36 0.21
50 60 0.35
51 33 0.19
52 3 0.02
54 2 0.01
55 5 0.03
56 33 0.19
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:15519289 original size:99 final size:104
Alignment explanation
Indices: 15519104--15519348 Score: 329
Period size: 99 Copynumber: 2.4 Consensus size: 104
15519094 GGGTAAAGAG
*
15519104 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATGAGAGGTCCCATAT
1 ATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATGAGAGGTCCCATAT
* *
15519169 AAGACCATGTCTGGGACATGGCGT-GGCACCGAGATGAG-AG
63 AAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* * * * *
15519209 GTCTCATATAAGACCATGTCTAGGACATGGCGTTGGCA-CC-GAG-ATGAGAGGTCCCCTATAAG
1 ATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCATATAAG
*
15519271 ACCATGTCTTGGACATGGCATGGGCACCGAGATGAGAAC
66 ACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
* *
15519310 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 ATCCCATATAAGACCATGTCTGGGACATGGCATTGGCAT
15519349 GTTATTATCA
Statistics
Matches: 123, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
99 37 0.30
100 14 0.11
101 34 0.28
102 3 0.02
104 2 0.02
105 33 0.27
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (104 bp):
ATCCCATATAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATGAGAGGTCCCATATAAG
ACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:15526812 original size:50 final size:50
Alignment explanation
Indices: 15526687--15526935 Score: 309
Period size: 50 Copynumber: 4.8 Consensus size: 50
15526677 ATTTGGGTAA
* *
15526687 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCA-CC--GAG---ATG
*
15526743 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* **
15526793 AGAGGTCCCATATAAGACCATGTCTAGGACATGGTGTTGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
15526843 AGAGGTCCCCTATAAGACCATGTCTTGGACATGGCATGGGCACCGAGATG
1 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
15526893 AGAACATCCCATGTAAGACCATGTCTGGGGCATGGCTTTGGCA
1 AG-AGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCA
15526936 TGTTATTATC
Statistics
Matches: 174, Mismatches: 18, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
50 98 0.56
51 32 0.18
53 3 0.02
55 2 0.01
56 39 0.22
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:15529761 original size:11 final size:11
Alignment explanation
Indices: 15529745--15529801 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
15529735 ATGGTAAGGA
15529745 AATATTATACG
1 AATATTATACG
15529756 AATATTATACG
1 AATATTATACG
* *
15529767 AAT-TGA-ACA
1 AATATTATACG
*
15529776 AATATTGTACG
1 AATATTATACG
* *
15529787 GATATTATACT
1 AATATTATACG
15529798 AATA
1 AATA
15529802 CTGAAGCAAT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
9 5 0.14
10 3 0.09
11 27 0.77
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.35
Consensus pattern (11 bp):
AATATTATACG
Found at i:15531090 original size:44 final size:44
Alignment explanation
Indices: 15530991--15531110 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 44
15530981 AAAAATTTTG
* * * *
15530991 AAACAGGATTAAAAATAAATTATGAACATATATCGATAATTTAA
1 AAACAAGATTAAAAATAAATTATGAACAGATACCAATAATTTAA
* *
15531035 AAA-TAGAATTAAAAATAAATTATGAATAGATACCAATAATTTAA
1 AAACAAG-ATTAAAAATAAATTATGAACAGATACCAATAATTTAA
** * *
15531079 AAACAAGATTAAACGTAAAATATTAACAGATA
1 AAACAAGATTAAAAATAAATTATGAACAGATA
15531111 AATTTAGGCT
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
43 1 0.02
44 59 0.95
45 2 0.03
ACGTcount: A:0.57, C:0.07, G:0.08, T:0.28
Consensus pattern (44 bp):
AAACAAGATTAAAAATAAATTATGAACAGATACCAATAATTTAA
Found at i:15532894 original size:12 final size:12
Alignment explanation
Indices: 15532877--15532905 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
15532867 TTACTAAAAA
15532877 CATCTGGTTATT
1 CATCTGGTTATT
15532889 CATCTGGTTATT
1 CATCTGGTTATT
15532901 CATCT
1 CATCT
15532906 TCAACAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (12 bp):
CATCTGGTTATT
Found at i:15533679 original size:11 final size:13
Alignment explanation
Indices: 15533653--15533685 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
15533643 AGTATTTGAC
15533653 ATATAAATATTAT
1 ATATAAATATTAT
15533666 ATATAAATATTAT
1 ATATAAATATTAT
15533679 ATATAAA
1 ATATAAA
15533686 GAAAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATAAATATTAT
Found at i:15542230 original size:21 final size:21
Alignment explanation
Indices: 15542204--15542244 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15542194 AGACGAGCAA
* *
15542204 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
15542225 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
15542245 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Done.