Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 167 of 175
Found at i:50297241 original size:37 final size:38
Alignment explanation
Indices: 50297163--50297243 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 38
50297153 AAAAAGTCAG
50297163 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
* *
50297201 TTATAATTAAACTTTTAATGAAATGA-TTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
50297238 TTATAA
1 TTATAA
50297244 ACTTTATATG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
37 16 0.39
38 25 0.61
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATGATTTTTAATTTAT
Found at i:50297475 original size:27 final size:25
Alignment explanation
Indices: 50297439--50297728 Score: 281
Period size: 27 Copynumber: 11.8 Consensus size: 25
50297429 ATATCCCCAC
50297439 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAA-TA-AAT
50297466 ATTACAATATTCATAC-AAA-AAA-
1 ATTACAATATTCATACAAAATAAAT
*
50297488 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAA-TA-AAT
*
50297515 ATTACAATATTCATA-TAAA-AAA-
1 ATTACAATATTCATACAAAATAAAT
*
50297537 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAA-TA-AAT
50297564 ATTACAATATTCATAC-AAA-AAAT
1 ATTACAATATTCATACAAAATAAAT
*
50297587 A-T--AATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAA-TA-AAT
50297611 ATTACAATATTCATAC-AAA-AAAT
1 ATTACAATATTCATACAAAATAAAT
*
50297634 -TTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAA-TA-AAT
50297660 ATTACAATATTCATAC-AAA-AAA-
1 ATTACAATATTCATACAAAATAAAT
* *
50297682 ATTATAATATTCATACAAAATTACGAT
1 ATTACAATATTCATACAAAA-TA-AAT
*
50297709 ATTACAATATTCAAACAAAA
1 ATTACAATATTCATACAAAA
50297729 AATTACTAAT
Statistics
Matches: 222, Mismatches: 14, Indels: 54
0.77 0.05 0.19
Matches are distributed among these distances:
20 11 0.05
21 3 0.01
22 59 0.27
23 25 0.11
24 8 0.04
25 5 0.02
26 23 0.10
27 88 0.40
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (25 bp):
ATTACAATATTCATACAAAATAAAT
Found at i:50297516 original size:49 final size:49
Alignment explanation
Indices: 50297386--50297730 Score: 452
Period size: 49 Copynumber: 7.1 Consensus size: 49
50297376 AGTTAATTAT
* *
50297386 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-C
1 AAAAAAATTGCAATATTCATAC--AAAATTACAATATTACAATATTCATAC
*** * *
50297434 -CCCACATTACAATATTCATACAAAATTACAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
* *
50297482 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAT
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
*
50297531 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
*
50297580 -AAAAAATAT--AATATTCATACAAAATTACAAAATTACAATATTCATAC
1 AAAAAAAT-TGCAATATTCATACAAAATTACAATATTACAATATTCATAC
* * *
50297627 AAAAAATTTGCAATATTCATACAAAACTATAATATTACAATATTCATAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
** * *
50297676 AAAAAAATTATAATATTCATACAAAATTACGATATTACAATATTCAAAC
1 AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
50297725 AAAAAA
1 AAAAAA
50297731 TTACTAATCC
Statistics
Matches: 263, Mismatches: 26, Indels: 15
0.87 0.09 0.05
Matches are distributed among these distances:
45 20 0.08
46 1 0.00
47 55 0.21
48 14 0.05
49 173 0.66
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (49 bp):
AAAAAAATTGCAATATTCATACAAAATTACAATATTACAATATTCATAC
Found at i:50297593 original size:145 final size:145
Alignment explanation
Indices: 50297383--50297731 Score: 522
Period size: 145 Copynumber: 2.4 Consensus size: 145
50297373 ACAAGTTAAT
* * ** * *
50297383 TATAAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-ATCCCCACATTACAA
1 TATAAAAAAATTACAATATTCATAC--AAAATTACAATATTACAATATTCATACAAAAAATACAA
* *
50297446 TATTCATACAAAATTACAATATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAATTA
64 TATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTA
50297511 TAATATTACAATATTCA
129 TAATATTACAATATTCA
* * *
50297528 TATAAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAATATAATA
1 TATAAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAATACAATA
*
50297593 TTCATACAAAATTACAAAATTACAATATTCATACAAAAAATTTGCAATATTCATACAAAACTATA
66 TTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATA
50297658 ATATTACAATATTCA
131 ATATTACAATATTCA
* * * *
50297673 TACAAAAAAATTATAATATTCATACAAAATTACGATATTACAATATTCAAACAAAAAAT
1 TATAAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAAT
50297732 TACTAATCCA
Statistics
Matches: 184, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
143 19 0.10
144 1 0.01
145 164 0.89
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (145 bp):
TATAAAAAAATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAATACAATA
TTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAACTATA
ATATTACAATATTCA
Found at i:50297731 original size:98 final size:98
Alignment explanation
Indices: 50297386--50297732 Score: 481
Period size: 96 Copynumber: 3.6 Consensus size: 98
50297376 AGTTAATTAT
* * *** * *
50297386 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-AT-CCCCACA-TTACAAT
1 AAAAAAATTATAATATTCATAC--AAAATTACAATATTACAATATTCATACAAAAAATTTGCAAT
*
50297447 ATTCATACAAAATTACAATATTACAATATTCATAC
64 ATTCATACAAAATTATAATATTACAATATTCATAC
** * * *
50297482 AAAAAAATTGCAATATTCATACAAAATTATAATATTACAATATTCATATAAAAAAATTGCAATAT
1 AAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAATTTGCAATAT
50297547 TCATACAAAATTATAATATTACAATATTCATAC
66 TCATACAAAATTATAATATTACAATATTCATAC
*
50297580 -AAAAAA-TATAATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAATTTGCAATAT
1 AAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAATTTGCAATAT
*
50297643 TCATACAAAACTATAATATTACAATATTCATAC
66 TCATACAAAATTATAATATTACAATATTCATAC
* *
50297676 AAAAAAATTATAATATTCATACAAAATTACGATATTACAATATTCAAACAAAAAATT
1 AAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAATT
50297733 ACTAATCCAA
Statistics
Matches: 225, Mismatches: 20, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
94 19 0.08
95 1 0.00
96 105 0.47
97 14 0.06
98 86 0.38
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.32
Consensus pattern (98 bp):
AAAAAAATTATAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAATTTGCAATAT
TCATACAAAATTATAATATTACAATATTCATAC
Found at i:50297797 original size:19 final size:19
Alignment explanation
Indices: 50297772--50297854 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 19
50297762 ATTATAAAAT
50297772 AATTACAATATTCATACAA
1 AATTACAATATTCATACAA
* * *
50297791 CATTACAACATTCATAAAAA
1 AATTACAATATTCAT-ACAA
*
50297811 AATTATAATATTCATACAAAA
1 AATTACAATATTCATAC--AA
*
50297832 AAGTTAAAATATTC-TACAA
1 AA-TTACAATATTCATACAA
50297851 AATT
1 AATT
50297855 CTAATCTAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
18 2 0.04
19 18 0.35
20 15 0.29
21 7 0.13
22 10 0.19
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.31
Consensus pattern (19 bp):
AATTACAATATTCATACAA
Found at i:50297823 original size:20 final size:20
Alignment explanation
Indices: 50297384--50297845 Score: 108
Period size: 27 Copynumber: 20.0 Consensus size: 20
50297374 CAAGTTAATT
*
50297384 ATAAAATAATTACAATATTC
1 ATAAAAAAATTACAATATTC
50297404 ATACAAAAAATTACAATATTAC
1 ATA-AAAAAATTACAATATT-C
** *
50297426 AATATATCCCCACATTACAATATTC
1 -ATA-A---AAAAATTACAATATTC
50297451 ATACAAAATTACAATATTACAATATTC
1 AT---AAA--A-AA-ATTACAATATTC
*
50297478 ATACAAAAAAATTGCAATATTC
1 AT--AAAAAAATTACAATATTC
50297500 ATACAAAATTATAATATTACAATATTC
1 AT---AAA--A-AA-ATTACAATATTC
*
50297527 ATATAAAAAAATTGCAATATTC
1 --ATAAAAAAATTACAATATTC
50297549 ATACAAAATTATAATATTACAATATTC
1 AT---AAA--A-AA-ATTACAATATTC
*
50297576 ATACAAAAAA-TATAATATTC
1 ATA-AAAAAATTACAATATTC
50297596 ATACAAAATTACAAAATTACAATATTC
1 AT----AA--A-AAAATTACAATATTC
*
50297623 ATACAAAAAATTTGCAATATTC
1 ATA-AAAAAA-TTACAATATTC
50297645 ATACAAAACTATAATATTACAATATTC
1 AT---AAA--A-AA-ATTACAATATTC
*
50297672 ATACAAAAAAATTATAATATTC
1 AT--AAAAAAATTACAATATTC
50297694 ATACAAAATTACGATATTACAATATTC
1 AT--AAAA--A--A-ATTACAATATTC
* * *
50297721 AAACAAAAAATTACTA-ATCC
1 ATA-AAAAAATTACAATATTC
50297741 A-AAACTATAAA-TACAAATTTAATT-
1 ATAAA--A-AAATTAC-AA--T-ATTC
*
50297765 ATAAAATAATTACAATATTC
1 ATAAAAAAATTACAATATTC
* * *
50297785 AT-ACAACATTACAACATTC
1 ATAAAAAAATTACAATATTC
*
50297804 ATAAAAAAATTATAATATTC
1 ATAAAAAAATTACAATATTC
*
50297824 ATACAAAAAAGTTAAAATATTC
1 ATA-AAAAAA-TTACAATATTC
50297846 TACAAAATTC
Statistics
Matches: 338, Mismatches: 39, Indels: 128
0.67 0.08 0.25
Matches are distributed among these distances:
18 2 0.01
19 19 0.06
20 43 0.13
21 36 0.11
22 74 0.22
23 23 0.07
24 13 0.04
25 13 0.04
26 36 0.11
27 76 0.22
28 1 0.00
29 2 0.01
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (20 bp):
ATAAAAAAATTACAATATTC
Found at i:50297842 original size:22 final size:21
Alignment explanation
Indices: 50297767--50297852 Score: 81
Period size: 20 Copynumber: 4.2 Consensus size: 21
50297757 ATTTAATTAT
*
50297767 AAAATAATTACAATATTCATAC
1 AAAA-AATTAAAATATTCATAC
* * *
50297789 --AACATTACAACATTCATA-
1 AAAAAATTAAAATATTCATAC
*
50297807 AAAAAATTATAATATTCATAC
1 AAAAAATTAAAATATTCATAC
50297828 AAAAAAGTTAAAATATTC-TAC
1 AAAAAA-TTAAAATATTCATAC
50297849 AAAA
1 AAAA
50297853 TTCTAATCTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 14 0.26
20 17 0.31
21 13 0.24
22 10 0.19
ACGTcount: A:0.57, C:0.13, G:0.01, T:0.29
Consensus pattern (21 bp):
AAAAAATTAAAATATTCATAC
Found at i:50298207 original size:27 final size:27
Alignment explanation
Indices: 50298176--50298241 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
50298166 GCAGAGGACA
*
50298176 CCATTGGCGCCTCTCCATGAGGCTCCT
1 CCATTGGCGCCTCTACATGAGGCTCCT
*
50298203 TCATTGGCGCCTCTACATGAGGCTCCT
1 CCATTGGCGCCTCTACATGAGGCTCCT
50298230 CCATTGGCGCCT
1 CCATTGGCGCCT
50298242 ACTAGACAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.12, C:0.38, G:0.23, T:0.27
Consensus pattern (27 bp):
CCATTGGCGCCTCTACATGAGGCTCCT
Found at i:50303301 original size:13 final size:13
Alignment explanation
Indices: 50303283--50303308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50303273 TTTATTGTAA
50303283 ACAAATTTAATAG
1 ACAAATTTAATAG
50303296 ACAAATTTAATAG
1 ACAAATTTAATAG
50303309 TTGGACTCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
ACAAATTTAATAG
Found at i:50306257 original size:12 final size:13
Alignment explanation
Indices: 50306229--50306257 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
50306219 CTCTACTTCA
50306229 ATTTAATTTTGTT
1 ATTTAATTTTGTT
50306242 ATTTAATTTT-TT
1 ATTTAATTTTGTT
50306254 ATTT
1 ATTT
50306258 TTTAATCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (13 bp):
ATTTAATTTTGTT
Found at i:50308372 original size:14 final size:14
Alignment explanation
Indices: 50308333--50308374 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
50308323 TATATACAAA
*
50308333 TTTTTATTTATATT
1 TTTTTATTTAAATT
*
50308347 TTTCTA-TT-AATT
1 TTTTTATTTAAATT
50308359 TTTTTATTTAAATT
1 TTTTTATTTAAATT
50308373 TT
1 TT
50308375 ATTAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTTATTTAAATT
Found at i:50308377 original size:23 final size:26
Alignment explanation
Indices: 50308333--50308388 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 26
50308323 TATATACAAA
* *
50308333 TTTTTATTTATATTTTTCTATTAATT
1 TTTTTATTTATATATTTCTATTAAAT
50308359 TTTTTATTTA-A-ATTT-TATTAAAT
1 TTTTTATTTATATATTTCTATTAAAT
50308382 TTTTTAT
1 TTTTTAT
50308389 CTATTTTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 14 0.50
24 3 0.11
25 1 0.04
26 10 0.36
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTTTATTTATATATTTCTATTAAAT
Found at i:50308386 original size:12 final size:12
Alignment explanation
Indices: 50308333--50308388 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
50308323 TATATACAAA
*
50308333 TTTTTATTTATAT
1 TTTTTA-TTAAAT
*
50308346 TTTTCTATTAATT
1 TTTT-TATTAAAT
50308359 TTTTTATTTAAA-
1 TTTTTA-TTAAAT
50308371 -TTTTATTAAAT
1 TTTTTATTAAAT
50308382 TTTTTAT
1 TTTTTAT
50308389 CTATTTTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
10 5 0.14
11 5 0.14
12 8 0.22
13 16 0.44
14 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTTATTAAAT
Found at i:50313345 original size:23 final size:23
Alignment explanation
Indices: 50313319--50313365 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
50313309 TTCTTCTTAA
*
50313319 TTTTTAGTATTTTTAATTAAATT
1 TTTTTAATATTTTTAATTAAATT
*
50313342 TTTTTAATATTTTTAGTTAAATT
1 TTTTTAATATTTTTAATTAAATT
50313365 T
1 T
50313366 AAATTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTTTAATATTTTTAATTAAATT
Found at i:50314130 original size:33 final size:33
Alignment explanation
Indices: 50314066--50314131 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
50314056 CAGACAATTT
* *
50314066 AACAAAGATACCAACATCTTAGTTTCGAGTAAC
1 AACAAAGATACCAACATCTGAGTTTCCAGTAAC
50314099 AACAAAGATACCAACATCCTGA-TTTCCAGTAAC
1 AACAAAGATACCAACAT-CTGAGTTTCCAGTAAC
50314132 CAAGGTATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.90
34 3 0.10
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.23
Consensus pattern (33 bp):
AACAAAGATACCAACATCTGAGTTTCCAGTAAC
Found at i:50315425 original size:15 final size:16
Alignment explanation
Indices: 50315405--50315434 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
50315395 CCTTTAAAAA
50315405 TATTAAAAT-ATAAAT
1 TATTAAAATAATAAAT
50315420 TATTAAAATAATAAA
1 TATTAAAATAATAAA
50315435 ATTTGATTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TATTAAAATAATAAAT
Found at i:50319083 original size:11 final size:11
Alignment explanation
Indices: 50319067--50319092 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50319057 TAGAAGAGAC
50319067 GAAACAGGGGA
1 GAAACAGGGGA
50319078 GAAACAGGGGA
1 GAAACAGGGGA
50319089 GAAA
1 GAAA
50319093 GAAGAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.42, T:0.00
Consensus pattern (11 bp):
GAAACAGGGGA
Found at i:50319765 original size:6 final size:6
Alignment explanation
Indices: 50319748--50319784 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
50319738 ATGTGAGGTA
* *
50319748 AGTATT AATATT AGTATT AGTATT ATTATT AGTATT A
1 AGTATT AGTATT AGTATT AGTATT AGTATT AGTATT A
50319785 TTAAGATGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (6 bp):
AGTATT
Found at i:50319771 original size:18 final size:18
Alignment explanation
Indices: 50319748--50319784 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
50319738 ATGTGAGGTA
50319748 AGTATTAATATTAGTATT
1 AGTATTAATATTAGTATT
*
50319766 AGTATTATTATTAGTATT
1 AGTATTAATATTAGTATT
50319784 A
1 A
50319785 TTAAGATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
AGTATTAATATTAGTATT
Found at i:50319965 original size:23 final size:26
Alignment explanation
Indices: 50319939--50319987 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 26
50319929 ATTGCGGATT
50319939 AATTATTG-ATTGAAAA-GTG-GAAA
1 AATTATTGAATTGAAAATGTGAGAAA
50319962 AATTATTGAATTGAAAATGTGAGAAA
1 AATTATTGAATTGAAAATGTGAGAAA
50319988 TTGTGATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.35
24 8 0.35
25 3 0.13
26 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (26 bp):
AATTATTGAATTGAAAATGTGAGAAA
Found at i:50324388 original size:33 final size:33
Alignment explanation
Indices: 50324327--50324389 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
50324317 CACATGAATG
* *
50324327 AAAGATACCAACATCTTAGTTTCGAGTAACAAC
1 AAAGATACCAACATCTGAGTTTCCAGTAACAAC
50324360 AAAGATACCAACATCCTGA-TTTCCAGTAAC
1 AAAGATACCAACAT-CTGAGTTTCCAGTAAC
50324390 CAAGGTATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 24 0.89
34 3 0.11
ACGTcount: A:0.41, C:0.24, G:0.11, T:0.24
Consensus pattern (33 bp):
AAAGATACCAACATCTGAGTTTCCAGTAACAAC
Found at i:50325669 original size:29 final size:29
Alignment explanation
Indices: 50325614--50325670 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
50325604 TTAAATTAAT
* * * **
50325614 AATGATAAAATTTTATTTTGATTCTTTAG
1 AATGATAAAAATTTAATTTAACCCTTTAG
50325643 AATGATAAAAATTTAATTTAACCCTTTA
1 AATGATAAAAATTTAATTTAACCCTTTA
50325671 AAAATATTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (29 bp):
AATGATAAAAATTTAATTTAACCCTTTAG
Found at i:50335589 original size:2 final size:2
Alignment explanation
Indices: 50335582--50335617 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
50335572 TGTCAAGCCT
50335582 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
50335618 ATGAGCACAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:50337070 original size:6 final size:6
Alignment explanation
Indices: 50337059--50337089 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
50337049 TGAGGTATGC
50337059 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT T
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT T
50337090 ATAGCATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (6 bp):
TTGTTT
Found at i:50338057 original size:16 final size:18
Alignment explanation
Indices: 50338036--50338075 Score: 66
Period size: 16 Copynumber: 2.3 Consensus size: 18
50338026 AATGTTTTTT
50338036 ATTAAATTTTTA-C-TTA
1 ATTAAATTTTTATCATTA
50338052 ATTAAATTTTTATCATTA
1 ATTAAATTTTTATCATTA
50338070 ATTAAA
1 ATTAAA
50338076 ATAATTAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 12 0.55
17 1 0.05
18 9 0.41
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTAAATTTTTATCATTA
Found at i:50338317 original size:30 final size:29
Alignment explanation
Indices: 50338281--50338347 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
50338271 TAAAAAAGTC
* *
50338281 TAATAAATTTTTTTTAAAAT-TGTATAAAAT
1 TAATAAATCTTATTTAAAATAT-T-TAAAAT
*
50338311 TAATAAAGCTTATTTAAAATATTTAAAAT
1 TAATAAATCTTATTTAAAATATTTAAAAT
*
50338340 TAAAAAAT
1 TAATAAAT
50338348 ATATTAGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 12 0.39
30 18 0.58
31 1 0.03
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.43
Consensus pattern (29 bp):
TAATAAATCTTATTTAAAATATTTAAAAT
Found at i:50338404 original size:19 final size:19
Alignment explanation
Indices: 50338339--50338404 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
50338329 ATATTTAAAA
* *
50338339 TTAAAAAATATATTAGAATT
1 TTAAAAAATA-ATAAAAATT
*
50338359 CTTAAAAGATAATAAAAATT
1 -TTAAAAAATAATAAAAATT
*
50338379 TGAAAAAA-ATATAAAAATAT
1 TTAAAAAATA-ATAAAAAT-T
50338399 TTAAAA
1 TTAAAA
50338405 CATTAAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 1 0.03
19 14 0.38
20 13 0.35
21 9 0.24
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (19 bp):
TTAAAAAATAATAAAAATT
Found at i:50339437 original size:9 final size:9
Alignment explanation
Indices: 50339425--50339629 Score: 76
Period size: 10 Copynumber: 21.3 Consensus size: 9
50339415 ATTTTATGAT
50339425 TTTTTATAA
1 TTTTTATAA
*
50339434 TTTTTATTAG
1 TTTTTA-TAA
* *
50339444 TTTATATTGA
1 TTTTTA-TAA
* *
50339454 TTTTAATAC
1 TTTTTATAA
* *
50339463 TTTTAATAG
1 TTTTTATAA
* * *
50339472 TTGTTACAT
1 TTTTTATAA
*
50339481 TTTTTATGAT
1 TTTTTAT-AA
50339491 TTTTTATAGAA
1 TTTTTAT--AA
* *
50339502 TTTTAATATG
1 TTTTTATA-A
50339512 TTTTTATAA
1 TTTTTATAA
50339521 TATTTTA-AA
1 T-TTTTATAA
* *
50339530 TATTTAAATA
1 TTTTTATA-A
50339540 TATTTTATTAA
1 T-TTTTA-TAA
50339551 -TTTTATAAA
1 TTTTTAT-AA
50339560 TTTTTATAA
1 TTTTTATAA
*
50339569 TTTATTAGAA
1 TTT-TTATAA
50339579 TTTTTATAA
1 TTTTTATAA
50339588 TATTTTAT--
1 T-TTTTATAA
50339596 TTATTTAATAA
1 TT-TTT-ATAA
50339607 TTTTTATAA
1 TTTTTATAA
*
50339616 GTTTATATCAA
1 -TTTTTAT-AA
50339627 TTT
1 TTT
50339630 CTTTCTTTAT
Statistics
Matches: 151, Mismatches: 26, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
7 1 0.01
8 9 0.06
9 55 0.36
10 68 0.45
11 17 0.11
12 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50339440 original size:19 final size:18
Alignment explanation
Indices: 50339416--50339614 Score: 62
Period size: 19 Copynumber: 10.4 Consensus size: 18
50339406 CGGTTCAAGA
50339416 TTTTATGATTTTTTATAAT
1 TTTTAT-ATTTTTTATAAT
* * *
50339435 TTTTATTAGTTTATATTGAT
1 TTTTA-TATTTTTTA-TAAT
* * * *
50339455 TTTAATACTTTTAATAGT
1 TTTTATATTTTTTATAAT
* * *
50339473 TGTTACATTTTTTATGATT
1 TTTTATATTTTTTAT-AAT
* * *
50339492 TTTTATAGAATTTTAATATGT
1 TTTTAT--ATTTTTTATA-AT
*
50339513 TTTTATAATATTTTA-AAT
1 TTTTAT-ATTTTTTATAAT
* *
50339531 ATTTAAATATATTTTATTAA-
1 -TTT-TATATTTTTTA-TAAT
*
50339551 TTTTATAAATTTTTATAAT
1 TTTTAT-ATTTTTTATAAT
* *
50339570 TTATTAGAATTTTTATAAT
1 TT-TTATATTTTTTATAAT
*
50339589 ATTTTAT-TTATTTAATAAT
1 -TTTTATATT-TTTTATAAT
50339608 TTTTATA
1 TTTTATA
50339615 AGTTTATATC
Statistics
Matches: 131, Mismatches: 33, Indels: 32
0.67 0.17 0.16
Matches are distributed among these distances:
18 25 0.19
19 69 0.53
20 21 0.16
21 16 0.12
ACGTcount: A:0.33, C:0.01, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTTATATTTTTTATAAT
Found at i:50339569 original size:48 final size:47
Alignment explanation
Indices: 50339503--50339621 Score: 134
Period size: 48 Copynumber: 2.5 Consensus size: 47
50339493 TTTATAGAAT
*
50339503 TTTAATATGTTTTTATAATATT-TTA-AATATTTAAATATATTTTATTAA
1 TTTAATA-ATTTTTATAAT-TTATTAGAATATTTAAA-ATATTTTATTAA
* * * *
50339551 TTTTATAAATTTTTATAATTTATTAGAATTTTTATAATATTTTATTTA
1 TTTAAT-AATTTTTATAATTTATTAGAATATTTAAAATATTTTATTAA
50339599 TTTAATAATTTTTATAAGTTTAT
1 TTTAATAATTTTTATAA-TTTAT
50339622 ATCAATTTCT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
47 13 0.21
48 39 0.64
49 9 0.15
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (47 bp):
TTTAATAATTTTTATAATTTATTAGAATATTTAAAATATTTTATTAA
Found at i:50339611 original size:18 final size:18
Alignment explanation
Indices: 50339584--50339658 Score: 53
Period size: 18 Copynumber: 3.9 Consensus size: 18
50339574 TAGAATTTTT
50339584 ATAATATTTTATTTATTTA
1 ATAAT-TTTTATTTATTTA
*
50339603 ATAATTTTTA-TAAGTTTA
1 ATAATTTTTATTTA-TTTA
*
50339621 TATCAATTTCTTTCTTTATTTA
1 -AT-AA-TT-TTTATTTATTTA
* *
50339643 TTTATTTTTATTTATT
1 ATAATTTTTATTTATT
50339659 ATATCATTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
17 2 0.05
18 18 0.41
19 9 0.20
20 3 0.07
21 3 0.07
22 7 0.16
23 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (18 bp):
ATAATTTTTATTTATTTA
Found at i:50340802 original size:13 final size:13
Alignment explanation
Indices: 50340784--50340831 Score: 96
Period size: 13 Copynumber: 3.7 Consensus size: 13
50340774 AGTTCTTTAT
50340784 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
50340797 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
50340810 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
50340823 TGCTTTTGA
1 TGCTTTTGA
50340832 AGAATAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.21, C:0.08, G:0.29, T:0.42
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:50342973 original size:75 final size:72
Alignment explanation
Indices: 50342845--50342996 Score: 207
Period size: 75 Copynumber: 2.1 Consensus size: 72
50342835 AAAATCACAT
* * *
50342845 ATAAACAACCATTAATAAAACTAATTTAATAAAAAATAAGTGGAACATAAATTCAATATCTAAAG
1 ATAAACAACCATTAATAAAACTAATTTAATAAAAAATAAGTAGAACATAAATTCAATATCCAAAA
50342910 ACCAAAC
66 ACCAAAC
* *
50342917 ATAAACAACTATTAATAAAACATAA-TTGATACACATAAATAAGTAGAACATAAATTCAATATCC
1 ATAAACAACCATTAATAAAAC-TAATTTAATA-A-A-AAATAAGTAGAACATAAATTCAATATCC
*
50342981 AAAAACTAAAC
62 AAAAACCAAAC
50342992 ATAAA
1 ATAAA
50342997 TAAAAACATA
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
72 25 0.36
73 4 0.06
74 1 0.01
75 40 0.57
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.24
Consensus pattern (72 bp):
ATAAACAACCATTAATAAAACTAATTTAATAAAAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:50343465 original size:18 final size:18
Alignment explanation
Indices: 50343448--50343513 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
50343438 TCCATCAATT
*
50343448 TGAACATCATTTGAAATT
1 TGAACATCATTTGAAATG
50343466 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
50343484 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
50343502 TGAACATCATTT
1 TGAACATCATTT
50343514 CTCATATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:50345398 original size:7 final size:7
Alignment explanation
Indices: 50345386--50345415 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
50345376 AGAGGGAACC
50345386 AGCAAAG
1 AGCAAAG
50345393 AGCAAAG
1 AGCAAAG
50345400 AGCAAAG
1 AGCAAAG
*
50345407 AGCAGAG
1 AGCAAAG
50345414 AG
1 AG
50345416 AAGTTTAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.53, C:0.13, G:0.33, T:0.00
Consensus pattern (7 bp):
AGCAAAG
Found at i:50345943 original size:5 final size:5
Alignment explanation
Indices: 50345933--50345959 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
50345923 TGTCTAAAAC
50345933 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
50345960 TGTTGATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:50346679 original size:26 final size:27
Alignment explanation
Indices: 50346632--50346693 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
50346622 AAAAATTCAA
*
50346632 AAAATTATAAAAAAATACAATTTTTA-
1 AAAATTATAAAAAAATACAATTTATAT
* *
50346658 AAGAATTATAATAAATTA-AATTTATAT
1 AA-AATTATAAAAAAATACAATTTATAT
50346685 AAAATTATA
1 AAAATTATA
50346694 CAAGAAGTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
26 16 0.52
27 15 0.48
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAATTATAAAAAAATACAATTTATAT
Found at i:50350433 original size:54 final size:54
Alignment explanation
Indices: 50350351--50350459 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
50350341 CTCTTTTAAC
50350351 AAAGAATTATTCTCTTCCGCTTCACATTCTTCTAATAATCTCTGTCTCAAACTT
1 AAAGAATTATTCTCTTCCGCTTCACATTCTTCTAATAATCTCTGTCTCAAACTT
50350405 AAAGAATTATTCTCTTCCGCTTCACATTCTTCTAATAATCTCTGTCTCAAACTT
1 AAAGAATTATTCTCTTCCGCTTCACATTCTTCTAATAATCTCTGTCTCAAACTT
50350459 A
1 A
50350460 CCCTTTTCTC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.28, C:0.26, G:0.06, T:0.40
Consensus pattern (54 bp):
AAAGAATTATTCTCTTCCGCTTCACATTCTTCTAATAATCTCTGTCTCAAACTT
Found at i:50362086 original size:32 final size:32
Alignment explanation
Indices: 50362045--50362109 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
50362035 AAGCCCTAAG
50362045 GATAATTTTCCTTTGCCACACATCGATACGTT
1 GATAATTTTCCTTTGCCACACATCGATACGTT
50362077 GATAATTTTCCTTTGCCACACATCGATACGTT
1 GATAATTTTCCTTTGCCACACATCGATACGTT
50362109 G
1 G
50362110 GTGGATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (32 bp):
GATAATTTTCCTTTGCCACACATCGATACGTT
Found at i:50363721 original size:32 final size:32
Alignment explanation
Indices: 50363680--50363747 Score: 120
Period size: 32 Copynumber: 2.1 Consensus size: 32
50363670 TGGTTATAGA
50363680 TTACTTCATAAAATGGGTAGAAGCCGA-TTCGT
1 TTACTTCATAAAATGGGTAGAAGCC-ACTTCGT
50363712 TTACTTCATAAAATGGGTAGAAGCCACTTCGT
1 TTACTTCATAAAATGGGTAGAAGCCACTTCGT
50363744 TTAC
1 TTAC
50363748 CCATGTGACG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (32 bp):
TTACTTCATAAAATGGGTAGAAGCCACTTCGT
Found at i:50365106 original size:20 final size:20
Alignment explanation
Indices: 50365067--50365110 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
50365057 GGGTTACTCG
* *
50365067 CAAAACTTGAGGAGAGAAGT
1 CAAAACTAGAGGAGAAAAGT
50365087 ACAAAACTAGA-GAGAAAAGT
1 -CAAAACTAGAGGAGAAAAGT
50365107 CAAA
1 CAAA
50365111 GATTGAAGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 4 0.19
20 8 0.38
21 9 0.43
ACGTcount: A:0.55, C:0.11, G:0.23, T:0.11
Consensus pattern (20 bp):
CAAAACTAGAGGAGAAAAGT
Found at i:50365580 original size:76 final size:74
Alignment explanation
Indices: 50365386--50367232 Score: 1688
Period size: 76 Copynumber: 24.1 Consensus size: 74
50365376 TTCTATTTTT
* * * * *
50365386 TTTTTCAAAAATAAACTCATAATGCGAGAGGTGAGTTGAGCATCGGGCCACACGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GTTTTT
*
50365451 TCAATTTTTG
65 TCAATTTATG
* * **
50365461 TTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGTCACACACCGAACGTT
1 -TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCG-A-GTT
*
50365526 ATTTCAATTTATG
62 TTTTCAATTTATG
* * **
50365539 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGTTGATGTAATT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GT--TT
* *
50365603 TTTAAATTTCTG
63 TTTCAATTTATG
* * *
50365615 TTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGACACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-G--TTT
*
50365679 TTTAAAATTTCTAT-
63 TTT-CAA-TT-TATG
* * * *
50365693 TTTTTCAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCCCGAG-CACACGCCGATGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GT-TTT
*
50365757 TTCAATTTCTG
64 TTCAATTTATG
* * *
50365768 TTTTTTCAAAAATAAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCACGTGCCGATGTATT
1 -TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GT-TT
50365833 TTT-AATTTCTAT-
63 TTTCAA-TT-TATG
* * * *
50365845 TTTTGTCAAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCGAGCCACACGCCGAGTTATT
1 TTTT-TCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG-T-TT
50365910 TTTCAATTTATG
63 TTTCAATTTATG
* *
50365922 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGGCCACATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-G--TTT
* *
50365987 TTTTAATTTTTG
63 TTTCAATTTATG
* **
50365999 TTTTTCAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACATGTAGAGGTAGT
1 TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GT--T
50366064 TTTT-AATTTATG
62 TTTTCAATTTATG
* * *
50366076 TTTTTCAAAAAAAT-AACTCATAATGCGATATGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
1 TTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GT-T
50366140 TTTTCAATTTATG
62 TTTTCAATTTATG
* * *
50366153 TTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGTGCCGAGGTAT
1 -TTTTT-CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GTTT
* *
50366218 TTTCAATTTCTA
63 TTTCAATTTATG
* * ** * * * *
50366230 TTTTTCAAGAATCAACTCATAATGCGAGAGGTGAATTGAGCCTTTGGCCGCACGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GTTTTT
*
50366295 TCAATTCATG
65 TCAATTTATG
*** * * * *
50366305 TTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACAAGCTGAGGTA
1 TTT---TTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GT-
* *
50366370 TTTTTTAATTT-TT
61 TTTTTCAATTTATG
* * * * *
50366383 TTTTTCAGAAATCAACTCATAATGCGAGATGTGAGTTGAGCCTCGGGCCACACGACGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GT-TTT
*
50366448 TT-AATTTTTG
64 TTCAATTTATG
* *
50366458 TTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA---TCGGG-CACATGCCAAGGTAT
1 -TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-G--T
* *
50366519 TTTTTTAATTT-TT
61 TTTTTCAATTTATG
* ** * *
50366532 TTTTTCAAAAAATCAACTCATAATGCG-GAAGTGAGTTGAGCCTCGGGTTGCACGCCGAGGTATT
1 TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GTTTT
*
50366596 TTCAATTTCTG
64 TTCAATTTATG
* *
50366607 TTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGT
1 -TTTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GT
* * *
50366672 ATTTTTTAACTTCTG
61 -TTTTTCAATTTATG
* * * * * *
50366687 TTTTTCAAAAATAAACTCATAATGCGAGAGGTGAGTTAAGCCTTGGGCCGCATGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GTTTTT
*
50366752 TCAATTTCTATT
65 TCAA-TT-TATG
* * * ** *
50366764 TTTTTGAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGAATT
1 TTTTT-CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA---TGCCGAGTT
*
50366829 TTTT-AATTTCTG
62 TTTTCAATTTATG
* * * * *
50366841 TTTTTCAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTAGGGCCGCACT-CCGAGGTATT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA-TGCCGA-GTTTT
*
50366905 TTCAATTTCTG
64 TTCAATTTATG
* *
50366916 TTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTT-ACGCCTCGGGTCACATGCCGAGTTC
1 -TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGA-GCCTCGGGTCACATGCCGAG-T-
*
50366980 TTTTTC-ATTTCTG
61 TTTTTCAATTTATG
* * *
50366993 TTTTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCC-CTGGGT-ACACGCTGAGGTA
1 --TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGGTCACATGCCGA-GT-
*
50367056 TTTTTCAATTTTTG
61 TTTTTCAATTTATG
** * *
50367070 TTTTTTCAAAAATCAACTCATAATGTTAGAGATGAGTTGAGCCTCGGGTCACATACCGAGGTATT
1 -TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GT-TT
*
50367135 TTTCAATTTCTG
63 TTTCAATTTATG
* * *
50367147 TTTTTCAAAAGTCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGG-CACATGCCGATGTATCT
1 TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGA-GT-TTT
50367211 TTCAATTTATG
64 TTCAATTTATG
50367222 TTTTTCAAAAA
1 TTTTTCAAAAA
50367233 AAACAAATAA
Statistics
Matches: 1495, Mismatches: 205, Indels: 143
0.81 0.11 0.08
Matches are distributed among these distances:
72 11 0.01
73 37 0.02
74 37 0.02
75 183 0.12
76 453 0.30
77 399 0.27
78 307 0.21
79 48 0.03
80 16 0.01
81 4 0.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (74 bp):
TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGTTTTTT
CAATTTATG
Found at i:50365727 original size:154 final size:153
Alignment explanation
Indices: 50365385--50367232 Score: 2040
Period size: 154 Copynumber: 12.1 Consensus size: 153
50365375 TTTCTATTTT
* * * *
50365385 TTTTTTCAAAAATAAACTCATAATGCGAGAGGTGAGTTGAGCATCGGGCCACACGCCGAGGTA-T
1 TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATT
* * * *
50365449 TTTCAATTTTTGTTTTTTCAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGTCAC
66 TTTCAATTTCTG-TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCAC
** * *
50365514 ACACCGAACGT-TATTTCAA-TT-TA
129 ATGCCG-AGGTATTTTTCAATTTCTA
* * ** *
50365537 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACATGTTGATGTAA
1 T-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGT-A
* * * *
50365601 TTTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTC-GGACAC
64 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCAC
*
50365665 ATGCCGAGGTATTTTTTAAAATTTCTA
129 ATGCCGAGGTA-TTTTT-CAATTTCTA
* * * * *
50365692 TTTTTTCAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCCCGAG-CACACGCCGATGTATT
1 TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATT
* * * *
50365756 TTTCAATTTCTGTTTTTTCAAAAATAAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGTCACG
66 TTTCAATTTCTG-TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACA
*
50365821 TGCCGATGTATTTTT-AATTTCTA
130 TGCCGAGGTATTTTTCAATTTCTA
* * * * *
50365844 TTTTTGTCAAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCGAGCCACACGCCGAGTTAT
1 TTTTT-TCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
* *
50365909 TTTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGGCCACA
65 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACA
*
50365974 TGCCGAGGTATTTTTTTAATTT-T-
130 TGCCGAGGTA-TTTTTCAATTTCTA
* **
50365997 TGTTTTTCAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACATGTAGAGGTA
1 T-TTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA
* * * *
50366062 GTTTTT-AATTTATGTTTTTCAAAAAAAT-AACTCATAATGCGATATGTGAGTTGAGCCTCGGGT
64 -TTTTTCAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
* * *
50366125 CACACGCCGAGGTATTTTTCAATTTATG
126 CACATGCCGAGGTATTTTTCAATTTCTA
* *
50366153 TTTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACGTGCCGAGGTA-
1 TTTTTT-CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTAT
* * * ** *
50366217 TTTTCAATTTCTATTTTTCAAGAATCAACTCATAATGCGAGAGGTGAATTGAGCCTTTGGCCGCA
65 TTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACA
*
50366282 CGCCGAGGTA-TTTTCAA-TTC-A
130 TGCCGAGGTATTTTTCAATTTCTA
* * * * *
50366303 -TGTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACAAGCTGAG
1 TTTTTTC-----AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG
* * * *
50366367 GTATTTTTTAATTT-TTTTTTTCAGAAATCAACTCATAATGCGAGATGTGAGTTGAGCCTCGGGC
61 GTATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGC
* * * *
50366431 CACACGACGAGGTATTTTT-AATTTTTG
126 CACATGCCGAGGTATTTTTCAATTTCTA
* *
50366458 TTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA---TCGGG-CACATGCCAAGGTAT
1 TTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA-
* * * ***
50366519 TTTTTTAATTT-TTTTTTTCAAAAAATCAACTCATAATGCG-GAAGTGAGTTGAGCCTCGGGTTG
64 TTTTTCAATTTCTGTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCA
* *
50366582 CACGCCGAGGTA-TTTTCAATTTCTG
128 CATGCCGAGGTATTTTTCAATTTCTA
* *
50366607 TTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGT
1 TTTTTTC---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGT
* * * * * *
50366672 ATTTTTTAACTTCTGTTTTTCAAAAATAAACTCATAATGCGAGAGGTGAGTTAAGCCTTGGGCCG
63 ATTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCA
50366737 CATGCCGAGGTA-TTTTCAATTTCTA
128 CATGCCGAGGTATTTTTCAATTTCTA
* * * * ** *
50366762 TTTTTTTGAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCACACGTTGAGGAA
1 -TTTTTT-CAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTA
* * * *
50366827 TTTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGTGAGAGGTGAGTTGAGCCTAGGGCCGC
64 TTTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCAC
*
50366892 ACT-CCGAGGTA-TTTTCAATTTCTG
129 A-TGCCGAGGTATTTTTCAATTTCTA
* * * *
50366916 TTTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAGTT-ACGCCTCGGGTCACATGCCGAGTTC
1 TTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGA-GCCTCGGGTCACATGCCGAGGTA
*
50366980 TTTTTC-ATTTCTGTTTTTTTCAAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCC-CTGGG-
64 TTTTTCAATTTCTG--TTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGGC
* * * * *
50367042 TACACGCTGAGGTATTTTTCAATTTTTG
126 CACATGCCGAGGTATTTTTCAATTTCTA
** * *
50367070 TTTTTTCAAAAATCAACTCATAATGTTAGAGATGAGTTGAGCCTCGGGTCACATACCGAGGTATT
1 TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATT
* *
50367135 TTTCAATTTCTGTTTTTCAAAAGTCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGG-CACAT
66 TTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACAT
* *
50367199 GCCGATGTATCTTTCAA-TT-TA
131 GCCGAGGTATTTTTCAATTTCTA
50367220 TGTTTTTCAAAAA
1 T-TTTTTCAAAAA
50367233 AAACAAATAA
Statistics
Matches: 1468, Mismatches: 168, Indels: 121
0.84 0.10 0.07
Matches are distributed among these distances:
148 15 0.01
149 71 0.05
150 24 0.02
151 57 0.04
152 177 0.12
153 437 0.30
154 477 0.32
155 192 0.13
156 18 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (153 bp):
TTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAGGTATT
TTTCAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCCACAT
GCCGAGGTATTTTTCAATTTCTA
Found at i:50367376 original size:17 final size:17
Alignment explanation
Indices: 50367356--50367392 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
50367346 TTTCAAAATT
50367356 ACATTTTGAAAATAAAC
1 ACATTTTGAAAATAAAC
50367373 ACA-TTTGAAAATAAAC
1 ACATTTTGAAAATAAAC
50367389 ACAT
1 ACAT
50367393 AAACTTAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (17 bp):
ACATTTTGAAAATAAAC
Found at i:50368605 original size:13 final size:13
Alignment explanation
Indices: 50368587--50368631 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
50368577 TTTTGATTTC
*
50368587 AATTAAAATTATA
1 AATTAAAATAATA
50368600 AATTAAAATAATA
1 AATTAAAATAATA
* * *
50368613 ATTTAAAATGATC
1 AATTAAAATAATA
50368626 AATTAA
1 AATTAA
50368632 TATATGATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
AATTAAAATAATA
Found at i:50368691 original size:27 final size:29
Alignment explanation
Indices: 50368656--50368709 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
50368646 TTTAATCCAA
*
50368656 AAAATTATT-ATTACAGTTAAT-TTATTGT
1 AAAATTATTAAATACA-TTAATATTATTGT
50368684 AAAA-TATTAAATACATTAATATTATT
1 AAAATTATTAAATACATTAATATTATT
50368710 TTAATTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (29 bp):
AAAATTATTAAATACATTAATATTATTGT
Found at i:50372674 original size:17 final size:17
Alignment explanation
Indices: 50372652--50372685 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50372642 CAACCATTAT
50372652 ATATATAAATAATATAA
1 ATATATAAATAATATAA
**
50372669 ATATATTGATAATATAA
1 ATATATAAATAATATAA
50372686 TCTACAATTT
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:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATATATAAATAATATAA
Found at i:50372956 original size:9 final size:10
Alignment explanation
Indices: 50372929--50372954 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
50372919 TATTATTATT
50372929 ATTTTTTAAA
1 ATTTTTTAAA
50372939 ATTTTTTAAA
1 ATTTTTTAAA
50372949 ATTTTT
1 ATTTTT
50372955 AATATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:50373402 original size:26 final size:27
Alignment explanation
Indices: 50373373--50373425 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
50373363 TAATTACTAT
50373373 ATATATAATATACCC-TTTATCTTTGC
1 ATATATAATATACCCTTTTATCTTTGC
50373399 ATATATAATATACCCTTTTATCTTTGC
1 ATATATAATATACCCTTTTATCTTTGC
50373426 TTTCTAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.30, C:0.19, G:0.04, T:0.47
Consensus pattern (27 bp):
ATATATAATATACCCTTTTATCTTTGC
Found at i:50375465 original size:26 final size:26
Alignment explanation
Indices: 50375398--50375486 Score: 92
Period size: 26 Copynumber: 3.4 Consensus size: 26
50375388 TGTCTTAAGT
* *
50375398 TTTTATATTTATTATTTATTTGAA-CTA
1 TTTTATA--TATTATTTATTTAAATTTA
* *
50375425 TTTTATATATAATTTATTTAAATTTC
1 TTTTATATATTATTTATTTAAATTTA
50375451 TTTTATATATTATTTATTGTAAATTTA
1 TTTTATATATTATTTATT-TAAATTTA
*
50375478 -TGTATATAT
1 TTTTATATAT
50375487 CTTTCAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
25 13 0.25
26 26 0.49
27 14 0.26
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTTATATATTATTTATTTAAATTTA
Found at i:50375683 original size:14 final size:15
Alignment explanation
Indices: 50375642--50375688 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
50375632 TTTTGAATTG
50375642 TCTTTAAATTATTTA
1 TCTTTAAATTATTTA
50375657 T-TTTGAATTATTATTT-
1 TCTTT-AA--ATTATTTA
50375673 TCTTTAAATTATTTA
1 TCTTTAAATTATTTA
50375688 T
1 T
50375689 ATTCTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
14 10 0.37
15 4 0.15
16 3 0.11
17 10 0.37
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (15 bp):
TCTTTAAATTATTTA
Found at i:50380148 original size:15 final size:15
Alignment explanation
Indices: 50380126--50380162 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
50380116 TACTTCACTT
50380126 GAAAAAAAAACGAAAA
1 GAAAAAAAAA-GAAAA
50380142 GAAAAAAAAAGAAAA
1 GAAAAAAAAAGAAAA
50380157 GAAAAA
1 GAAAAA
50380163 TGAAAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.84, C:0.03, G:0.14, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAGAAAA
Found at i:50381322 original size:50 final size:50
Alignment explanation
Indices: 50381268--50381556 Score: 242
Period size: 50 Copynumber: 5.8 Consensus size: 50
50381258 GGCATTACGG
* * *
50381268 TGGAAAAGATTGAAGCCACAATGGCGAATCTTACTTCTCTGGCGGTGCAG
1 TGGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAA
* * * ** * * **
50381318 TGGAACAGATTGAAGCTACAACAGCGAATCTTGTTTCCCCGACATTGCAA
1 TGGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAA
** * * *
50381368 TTAAAAATATGGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAA
1 TGGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAA
** * * * * ** *
50381418 TGGAGCAGATTGAAGCTACAATGGCGAATCTTACTT-TCTCGACATTACAAA
1 TGGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCT-GGCGGTGC-AA
* ** *
50381469 T-AAAAAGATTGAAGCCACAACAACGAATCTTACTTCCCTGGCGGTGCAG
1 TGGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAA
* *
50381518 TGGAACAA-ATTGAAGCTACAACGGCGAATCTTGCTTCCC
1 TGGAA-AAGATTGAAGCCACAACGGCGAATCTTACTTCCC
50381557 CGACATTGCA
Statistics
Matches: 176, Mismatches: 58, Indels: 10
0.72 0.24 0.04
Matches are distributed among these distances:
49 4 0.02
50 165 0.94
51 7 0.04
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (50 bp):
TGGAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAA
Found at i:50381403 original size:100 final size:100
Alignment explanation
Indices: 50381271--50381604 Score: 445
Period size: 100 Copynumber: 3.3 Consensus size: 100
50381261 ATTACGGTGG
* * * *
50381271 AAAAGATTGAAGCCACAATGGCGAATCTTACTTCTCTGGCGGTGCAGTGGAACAGATTGAAGCTA
1 AAAAAATTGAAGCCACAACGACGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
*
50381336 CAACAGCGAATCTTGTTTCCCCGACATTGCAATTA
66 CAACGGCGAATCTTGTTTCCCCGACATTGCAATTA
* * * * * *
50381371 AAAATATGGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAATGGAGCAGATTGAAGCTA
1 AAAAAATTGAAGCCACAACGACGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
* * * * *
50381436 CAATGGCGAATCTTACTTT-CTCGACATTACAAATA
66 CAACGGCGAATCTT-GTTTCCCCGACATTGCAATTA
* * *
50381471 AAAAGATTGAAGCCACAACAACGAATCTTACTTCCCTGGCGGTGCAGTGGAACAAATTGAAGCTA
1 AAAAAATTGAAGCCACAACGACGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
*
50381536 CAACGGCGAATCTTGCTTCCCCGACATTGCAATTA
66 CAACGGCGAATCTTGTTTCCCCGACATTGCAATTA
** *
50381571 AAAAAATTGAAGCCGGAATGACGAATCTTACTTC
1 AAAAAATTGAAGCCACAACGACGAATCTTACTTC
50381605 TTCGACATTG
Statistics
Matches: 200, Mismatches: 32, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
99 2 0.01
100 195 0.98
101 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (100 bp):
AAAAAATTGAAGCCACAACGACGAATCTTACTTCCCTGGCGGTGCAGTGGAACAGATTGAAGCTA
CAACGGCGAATCTTGTTTCCCCGACATTGCAATTA
Found at i:50381578 original size:50 final size:50
Alignment explanation
Indices: 50381271--50381621 Score: 225
Period size: 50 Copynumber: 7.0 Consensus size: 50
50381261 ATTACGGTGG
* * * * * ** * **
50381271 AAAAGATTGAAGCCACAATGGCGAATCTTACTTCTCTGGCGGTGCAGTGG
1 AAAAAATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTA
* * * * **
50381321 AACAGATTGAAGCTACAACAGCGAATCTTGTTTCCCCGACATTGCAATTA
1 AAAAAATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTA
* * * * ** * **
50381371 AAAATATGGAAGCCACAACGGCGAATCTTACTTCCCTGGCGGTGTAATGG
1 AAAAAATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTA
** * * * * * * *
50381421 AGCAGATTGAAGCTACAATGGCGAATCTTACTTTCTCGACATTACAAATA
1 AAAAAATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTA
* ** * * ** * **
50381471 AAAAGATTGAAGCCACAACAACGAATCTTACTTCCCTGGCGGTGCAGTGG
1 AAAAAATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTA
* * *
50381521 AACAAATTGAAGCTACAACGGCGAATCTTGCTTCCCCGACATTGCAATTA
1 AAAAAATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTA
** * * **
50381571 AAAAAATTGAAGCCGGAATGACGAATCTTACTTCTTCGACATTGCAATTA
1 AAAAAATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTA
50381621 A
1 A
50381622 TTAGACTGAA
Statistics
Matches: 217, Mismatches: 84, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
50 217 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (50 bp):
AAAAAATTGAAGCCACAACGGCGAATCTTACTTCCCCGACATTGCAATTA
Found at i:50381702 original size:44 final size:44
Alignment explanation
Indices: 50381639--50381975 Score: 262
Period size: 44 Copynumber: 7.8 Consensus size: 44
50381629 GAAGATAGCT
* * * *
50381639 AATCATATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGAAACC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACC
* * ** *
50381683 AATCCTATCTCCCTGAAGTTACAGTGGAGTAGACAGAAGAAACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACC
*
50381727 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACC
*** ** *
50381771 AATCCTATCTTTTTGAAGTTGCAGTGGAGTGGATT-AA-AACCAC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAAC-C
* * * * * *
50381814 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT---GCATCT
1 A-ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACC
* * ** *
50381856 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAATG-AACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GAAACC
* ** *
50381899 AA-CCTTATCTCCCT-AATGTTGCAGTGGAGCAGGTTGAAGCCA-T
1 AATCC-TATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGAAACC
*
50381942 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGA
50381976 CTAAAACCAC
Statistics
Matches: 235, Mismatches: 44, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
41 29 0.12
42 7 0.03
43 38 0.16
44 158 0.67
45 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACC
Found at i:50381788 original size:88 final size:88
Alignment explanation
Indices: 50381637--50381976 Score: 322
Period size: 88 Copynumber: 3.9 Consensus size: 88
50381627 CTGAAGATAG
* * * *
50381637 CTAATCATATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGAAACCAATCCTATCTCCCTGAAGT
1 CTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCTATCTCCCTGAAGT
*
50381702 TACAGTGGAGTAGACAGAAGA-AA
66 TGCAGTGGAGTAGACA-AAGACAA
***
50381725 CTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCTATCTTTTTGAAGT
1 CTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCTATCTCCCTGAAGT
* * *
50381790 TGCAGTGGAGTGGATTAAA-ACCA
66 TGCAGTGGAGTAGA-CAAAGACAA
* * * * * * *
50381813 C-AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT---GCATCTAGTCTTATCTCCCTGAAG
1 CTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCTATCTCCCTGAAG
*
50381874 TTGCAGTGGAGCAGACAAATG--AA
65 TTGCAGTGGAGTAGACAAA-GACAA
* * ** * *
50381897 CTAACCTTATCTCCCT-AATGTTGCAGTGGAGCAGGTTGAAGCCA-TAAGTCTTATCTCCCTGAA
1 CTAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAGAAACCAA-TCCTATCTCCCTGAA
*
50381960 GTTGCAGTGGAGCAGAC
64 GTTGCAGTGGAGTAGAC
50381977 TAAAACCACA
Statistics
Matches: 209, Mismatches: 32, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
83 2 0.01
84 32 0.15
85 30 0.14
86 2 0.01
87 36 0.17
88 106 0.51
89 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (88 bp):
CTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAAACCAATCCTATCTCCCTGAAGT
TGCAGTGGAGTAGACAAAGACAA
Found at i:50383444 original size:26 final size:26
Alignment explanation
Indices: 50383377--50383465 Score: 92
Period size: 26 Copynumber: 3.4 Consensus size: 26
50383367 TGTCTTAAGT
* *
50383377 TTTTATATTTATTATTTATTTGAA-CTA
1 TTTTATA--TATTATTTATTTAAATTTA
* *
50383404 TTTTATATATAATTTATTTAAATTTC
1 TTTTATATATTATTTATTTAAATTTA
50383430 TTTTATATATTATTTATTGTAAATTTA
1 TTTTATATATTATTTATT-TAAATTTA
*
50383457 -TGTATATAT
1 TTTTATATAT
50383466 CTTTCAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
25 13 0.25
26 26 0.49
27 14 0.26
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (26 bp):
TTTTATATATTATTTATTTAAATTTA
Found at i:50386932 original size:26 final size:26
Alignment explanation
Indices: 50386883--50386941 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
50386873 AAAAATTATT
50386883 TTTTACAAATATTAAATTATTTATATAA
1 TTTTA-AAATATTAAATTATTTAT-TAA
* * *
50386911 TTTTAAAAT-TTATATTCTTTATTAT
1 TTTTAAAATATTAAATTATTTATTAA
50386936 TTTTAA
1 TTTTAA
50386942 TGGTGTTTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 8 0.29
26 11 0.39
27 4 0.14
28 5 0.18
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTAAAATATTAAATTATTTATTAA
Found at i:50387718 original size:13 final size:13
Alignment explanation
Indices: 50387700--50387744 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
50387690 ATATGATTTC
*
50387700 AATTAAAATTATA
1 AATTAAAATAATA
50387713 AATTAAAATAATA
1 AATTAAAATAATA
* * *
50387726 ATTTAAAATGATC
1 AATTAAAATAATA
50387739 AATTAA
1 AATTAA
50387745 TATATTATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (13 bp):
AATTAAAATAATA
Found at i:50387804 original size:27 final size:29
Alignment explanation
Indices: 50387769--50387822 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
50387759 TTTAATCCAA
*
50387769 AAAATTATT-ATTACAGTTAAT-TTATTGT
1 AAAATTATTAAATACA-TTAATATTATTGT
50387797 AAAA-TATTAAATACATTAATATTATT
1 AAAATTATTAAATACATTAATATTATT
50387823 TTAATTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (29 bp):
AAAATTATTAAATACATTAATATTATTGT
Found at i:50388443 original size:5 final size:5
Alignment explanation
Indices: 50388433--50388466 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
50388423 TGTACTTTAT
50388433 TATTA TATTA TATTA TATTA TATTA TATTA TATT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATT
50388467 CAGCTTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:50389573 original size:13 final size:13
Alignment explanation
Indices: 50389555--50389594 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
50389545 AGGTTATAGA
50389555 TTTAGGATTTGAG
1 TTTAGGATTTGAG
50389568 TTTAGGATTTAGAG
1 TTTAGGATTT-GAG
50389582 TTTAAGG-TTTGAG
1 TTT-AGGATTTGAG
50389595 ATTTTAGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.52
14 9 0.36
15 3 0.12
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (13 bp):
TTTAGGATTTGAG
Found at i:50389584 original size:14 final size:14
Alignment explanation
Indices: 50389551--50389585 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
50389541 TTCGAGGTTA
50389551 TAGA-TTTAGGATT
1 TAGAGTTTAGGATT
50389564 T-GAGTTTAGGATT
1 TAGAGTTTAGGATT
50389577 TAGAGTTTA
1 TAGAGTTTA
50389586 AGGTTTGAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 2 0.10
13 11 0.55
14 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (14 bp):
TAGAGTTTAGGATT
Found at i:50389800 original size:14 final size:14
Alignment explanation
Indices: 50389781--50389810 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
50389771 TTTATGGTCG
50389781 GATATTTTGAAAAA
1 GATATTTTGAAAAA
50389795 GATATTTTGAAAAA
1 GATATTTTGAAAAA
50389809 GA
1 GA
50389811 AAATTGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (14 bp):
GATATTTTGAAAAA
Found at i:50392089 original size:22 final size:23
Alignment explanation
Indices: 50392064--50392108 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
50392054 TACTATATAT
50392064 ATAATATACCC-TTTATCTTTGC
1 ATAATATACCCTTTTATCTTTGC
50392086 ATAATATACCCTTTTATCTTTGC
1 ATAATATACCCTTTTATCTTTGC
50392109 TTTCTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (23 bp):
ATAATATACCCTTTTATCTTTGC
Found at i:50393602 original size:3 final size:3
Alignment explanation
Indices: 50393589--50393637 Score: 80
Period size: 3 Copynumber: 16.3 Consensus size: 3
50393579 CCATCCAGCT
* *
50393589 GAA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAG GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
50393637 G
1 G
50393638 GAGGAGGAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:50394026 original size:37 final size:38
Alignment explanation
Indices: 50393978--50394064 Score: 108
Period size: 40 Copynumber: 2.3 Consensus size: 38
50393968 TTTTACATTA
* *
50393978 TATTATTGTTAG-T-TATTATTTTTAGTA-AAACCCTAAT
1 TATTATTGTTAGTTATATTATTTTGAGTATAAA-ACT-AT
50394015 TATTATTGTTAGTTAGTATTATTTTGAGTATAAAACTAT
1 TATTATTGTTAGTTA-TATTATTTTGAGTATAAAACTAT
50394054 TATTATTGTTA
1 TATTATTGTTA
50394065 TTGTGTTAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
37 12 0.27
38 1 0.02
39 13 0.30
40 15 0.34
41 3 0.07
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.53
Consensus pattern (38 bp):
TATTATTGTTAGTTATATTATTTTGAGTATAAAACTAT
Found at i:50399631 original size:149 final size:147
Alignment explanation
Indices: 50399093--50399830 Score: 739
Period size: 149 Copynumber: 4.9 Consensus size: 147
50399083 ATGTGTGTAT
*
50399093 CCCTTATTTCGGCCATTTGTTCGTA-TTTTTTCCCGAGTTTTATTACTTTAAAAAATATACTATT
1 CCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAAAAAA-ATA-TATT
* *
50399157 TTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTG
64 TTCT--TTGTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT--ATTAATTTAGTGTG
50399222 TTTTTTAAATAAATTTA-AAAAAA
125 -TTTTTAAATAAATTTAGAAAAAA
* * * *
50399245 CCCTTATTTCGGCCCTTTGCTC--ATTTTTTTCTCGAATTTTGTTACTTTCAATAAAAATATATT
1 CCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTT--A-AAAAA-ATA-T
* * * * * *
50399308 ATTTTCGTATTTTATTGTTTTACTTTATTTTAATACATTATGTTTGAAATATATTAA-TTAAT-T
61 ATTTTC-T-TTGTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGT
* ** *
50399371 CTTTTT-TTTAAATTTAGTAAAAA
124 GTTTTTAAATAAATTTAGAAAAAA
* **
50399394 CCCTTATTTCGACCATTTGTTCGTA-TTTTTTCATGAATTTTATTACTTTAAAAAAATACTATTT
1 CCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAAAAAAATA-TATTT
* *
50399458 TCCAATTT-TATTATTTTATATTATTTTAGTACATTATGTTTAAAATTTATTAATTTAGTGTGTT
65 T-C--TTTGTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGTT
50399522 TTTAAATAAATTTTA-AAAAAA
127 TTTAAATAAA-TTTAGAAAAAA
* * * * *
50399543 CCCTTATTTCGTCCCTTTGCTAGTATTTTTTTCCCAAATTTTATTACTTTCAATAAAAATATATT
1 CCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTT-AA-AAAAATATATT
* * * *
50399608 ATT-TTTGTATTTTTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAA-TTA-TTTCTAT
64 -TTCTTTGTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGT-T
***
50399670 TTTTTTTAAATTTAGTAAAAAA
127 TTTAAATAAATTTAG-AAAAAA
* * * *
50399692 CCCTAACTTCGGCCATTTGTTCGTA-TTTTTTCTCTGCATTTTATTACTTTAAAAAATATCATAT
1 CCCTTATTTCGGCCATTTGTTCGTATTTTTTTC-CCGAATTTTATTACTTTAAAAAA-AT-ATAT
* * *
50399756 TTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATCAATTTAGCGTGT
63 TTTCT--TTGTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTG-
50399821 TTTTTAAATA
125 TTTTTAAATA
50399831 TACAATTTTT
Statistics
Matches: 485, Mismatches: 70, Indels: 61
0.79 0.11 0.10
Matches are distributed among these distances:
146 48 0.10
147 23 0.05
148 43 0.09
149 145 0.30
150 48 0.10
151 76 0.16
152 36 0.07
153 8 0.02
154 57 0.12
155 1 0.00
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (147 bp):
CCCTTATTTCGGCCATTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTAAAAAAATATATTTT
CTTTGTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATTAATTTAGTGTGTTTTTA
AATAAATTTAGAAAAAA
Found at i:50399759 original size:300 final size:296
Alignment explanation
Indices: 50399100--50399830 Score: 1096
Period size: 300 Copynumber: 2.4 Consensus size: 296
50399090 TATCCCTTAT
*
50399100 TTCGGCCATTTGTTCGTATTTTTTCCCGAGTTTTATTACTTTAAAAAATATACTATTTTCTAATT
1 TTCGGCCATTTGTTCGTATTTTTTCCTGA-TTTTATTACTTTAAAAAATATACTATTTTCTAATT
50399165 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTAAATAAATTTAGTGTGTTTTTTAA
65 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTT--ATAAATTTAGTGTGTTTTTTAA
* * *
50399230 ATAAATTTAAAAAAACCCTTATTTCGGCCCTTTGCTCATTTTTTTCTCGAATTTTGTTACTTTCA
128 ATAAATTTAAAAAAACCCTTATTTCGGCCCTTTGCTCATTTTTTTCCCAAATTTTATTACTTTCA
*
50399295 ATAAAAATATATTATTTTCGTATTTTATTGTTTTACTTTATTTTAATACATTATGTTTGAAATAT
193 ATAAAAATATATTATTTTCGTA--TTATTGTTTTACATTATTTTAATACATTATGTTTGAAATAT
* *
50399360 ATTAATTAATTCTTTTTTTTAAATTTAGTAAAAACCCTTAT
256 ATTAATTAATTCTTTTTTTTAAATTTAGTAAAAACCCTAAC
* * *
50399401 TTCGACCATTTGTTCGTATTTTTTCATGAATTTTATTACTTTAAAAAA-ATACTATTTTCCAATT
1 TTCGGCCATTTGTTCGTATTTTTTCCTG-ATTTTATTACTTTAAAAAATATACTATTTTCTAATT
* * *
50399465 TTATTATTTTATATTATTTTAGTACATTATGTTTAAAATTTATTAATTTAGTGTG-TTTTTAAAT
65 TTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATAAATTTAGTGTGTTTTTTAAAT
* *
50399529 AAATTTTAAAAAAACCCTTATTTCGTCCCTTTGCTAGTATTTTTTTCCCAAATTTTATTACTTTC
130 AAA-TTTAAAAAAACCCTTATTTCGGCCCTTTGCT--CATTTTTTTCCCAAATTTTATTACTTTC
* * *
50399594 AATAAAAATATATTATTTTTGTA-T-TT-TTTTACATTATTTTAGTACATTATGTTTGAAATGTA
192 AATAAAAATATATTATTTTCGTATTATTGTTTTACATTATTTTAATACATTATGTTTGAAATATA
*
50399656 TTAATTATTTCTATTTTTTTTAAATTTAGTAAAAAACCCTAAC
257 TTAATTAATTC--TTTTTTTTAAATTTAGT-AAAAACCCTAAC
50399699 TTCGGCCATTTGTTCGTATTTTTTCTCTGCATTTTATTACTTTAAAAAATAT-CATATTTTCTAA
1 TTCGGCCATTTGTTCGTATTTTTTC-CTG-ATTTTATTACTTTAAAAAATATAC-TATTTTCTAA
* *
50399763 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATCAATTTAGCGTGTTTTTTAA
63 TTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATAAATTTAGTGTGTTTTTTAA
50399828 ATA
128 ATA
50399831 TACAATTTTT
Statistics
Matches: 392, Mismatches: 27, Indels: 22
0.89 0.06 0.05
Matches are distributed among these distances:
295 43 0.11
296 2 0.01
297 30 0.08
298 77 0.20
299 22 0.06
300 164 0.42
301 53 0.14
302 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.52
Consensus pattern (296 bp):
TTCGGCCATTTGTTCGTATTTTTTCCTGATTTTATTACTTTAAAAAATATACTATTTTCTAATTT
TATTATTTTACATTATTTTAGTACATTATGTTTGAAATTTATAAATTTAGTGTGTTTTTTAAATA
AATTTAAAAAAACCCTTATTTCGGCCCTTTGCTCATTTTTTTCCCAAATTTTATTACTTTCAATA
AAAATATATTATTTTCGTATTATTGTTTTACATTATTTTAATACATTATGTTTGAAATATATTAA
TTAATTCTTTTTTTTAAATTTAGTAAAAACCCTAAC
Found at i:50400209 original size:20 final size:21
Alignment explanation
Indices: 50400184--50400228 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
50400174 CCTCTTCTTC
50400184 TTCTCCTTTCTCTTTT-TTT-T
1 TTCTCCTTTC-CTTTTCTTTCT
50400204 TTCTCCTTTCCTTTTCTTTCT
1 TTCTCCTTTCCTTTTCTTTCT
50400225 TTCT
1 TTCT
50400229 TCTCCTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.22
20 13 0.57
21 5 0.22
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
TTCTCCTTTCCTTTTCTTTCT
Found at i:50400231 original size:24 final size:25
Alignment explanation
Indices: 50400176--50400238 Score: 83
Period size: 24 Copynumber: 2.5 Consensus size: 25
50400166 CTTGCTTCCC
* *
50400176 TCTTCTTCTTCTCCTTTCTCTTTTTT
1 TCTTCTCCTT-TCCTTTCTCTTTCTT
*
50400202 TTTTCTCCTTTCCTTT-TCTTTCTT
1 TCTTCTCCTTTCCTTTCTCTTTCTT
50400226 TCTTCTCCTTTCC
1 TCTTCTCCTTTCC
50400239 CTCTCCTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 19 0.58
25 6 0.18
26 8 0.24
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (25 bp):
TCTTCTCCTTTCCTTTCTCTTTCTT
Found at i:50400248 original size:24 final size:24
Alignment explanation
Indices: 50400177--50400248 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
50400167 TTGCTTCCCT
50400177 CTTC-TTCTTCTCCTTT--CTCT-
1 CTTCTTTCTTCTCCTTTCCCTCTC
* * * *
50400197 -TTTTTTTTTCTCCTTTCCTTTTC
1 CTTCTTTCTTCTCCTTTCCCTCTC
*
50400220 TTTCTTTCTTCTCCTTTCCCTCTC
1 CTTCTTTCTTCTCCTTTCCCTCTC
50400244 CTTCT
1 CTTCT
50400249 CCACCCACCA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 2 0.05
20 11 0.29
22 2 0.05
24 23 0.61
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (24 bp):
CTTCTTTCTTCTCCTTTCCCTCTC
Found at i:50401696 original size:22 final size:21
Alignment explanation
Indices: 50401665--50401709 Score: 81
Period size: 22 Copynumber: 2.1 Consensus size: 21
50401655 GTCTTTTATG
50401665 TTATTACTTGTTTATAATTTC
1 TTATTACTTGTTTATAATTTC
50401686 TTATTGACTTGTTTATAATTTC
1 TTATT-ACTTGTTTATAATTTC
50401708 TT
1 TT
50401710 TTAATGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.62
Consensus pattern (21 bp):
TTATTACTTGTTTATAATTTC
Found at i:50403011 original size:22 final size:23
Alignment explanation
Indices: 50402983--50403034 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
50402973 TAATTAACAA
50402983 AATTTAATTTAACA-AGTTTT-TT
1 AATTTAATTTAA-ATAGTTTTATT
50403005 AATTTAATTTAAATAGTTTTATT
1 AATTTAATTTAAATAGTTTTATT
*
50403028 AAATTAA
1 AATTTAA
50403035 ATTCAATGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 18 0.67
23 8 0.30
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
AATTTAATTTAAATAGTTTTATT
Found at i:50408202 original size:23 final size:23
Alignment explanation
Indices: 50408175--50408220 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
50408165 CCAATATTAG
*
50408175 CAACAATGAC-AATAATAGAATAA
1 CAACAATAACAAATAA-AGAATAA
50408198 CAACAATAACAAATAAAGAATAA
1 CAACAATAACAAATAAAGAATAA
50408221 TAATGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.65, C:0.13, G:0.07, T:0.15
Consensus pattern (23 bp):
CAACAATAACAAATAAAGAATAA
Found at i:50410176 original size:88 final size:88
Alignment explanation
Indices: 50409975--50410518 Score: 567
Period size: 88 Copynumber: 6.1 Consensus size: 88
50409965 GCCAAATACA
* * * * * *
50409975 GGAAGGCAAGATCTGCAATCCTCGATCTACTTCACGCCAATACACGAAGATAAGATCTGTGTTTT
1 GGAAGACAAGATCGGC-ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC--TG-CTT
* * **
50410040 TTTTTGATCTACTTCACCACCCGTATG
62 TCTTCGATCTACTTCACCACCAATATG
** * *
50410067 GGAAGACAAGATTTGCATCTTCGATCCACTTCACGCCAATACATGAAGACAAGATCTGCTCTCTT
1 GGAAGACAAGATCGGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
50410132 CGATCTACTTCACCACCAATATG
66 CGATCTACTTCACCACCAATATG
* * *
50410155 GGAAGACAAGATCGGCATCTTCGATCTACTTCACGCTAATGCCTGAAGACAAGATCTGCTTTCTT
1 GGAAGACAAGATCGGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
*
50410220 -GATCTACTTCGCCACCAATATG
66 CGATCTACTTCACCACCAATATG
* * * * * *** *
50410242 GGAAGACAAGATCTGCTTTCTTGGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATC
1 GGAAGACAAGATCGGC-ATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTC
* * *
50410306 TTCGATCCACTTC-CTACCAATATA
64 TTCGATCTACTTCACCACCAATATG
* * **
50410330 GGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GGAAGACAAGATC-GGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
50410395 TCGATCTACTTCACCACCAATATG
65 TCGATCTACTTCACCACCAATATG
* * * * * * * *
50410419 GGAAGACAAGATCGGCATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGATATCT
1 GGAAGACAAGATCGGCATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCT
* **
50410483 TCGATCTACTTCA-CGCCAATACA
65 TCGATCTACTTCACCACCAATATG
*
50410506 TGAAGACAAGATC
1 GGAAGACAAGATC
50410519 TGCTTTCTTC
Statistics
Matches: 379, Mismatches: 66, Indels: 19
0.82 0.14 0.04
Matches are distributed among these distances:
87 78 0.21
88 200 0.53
89 51 0.13
91 36 0.09
92 14 0.04
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (88 bp):
GGAAGACAAGATCGGCATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTT
CGATCTACTTCACCACCAATATG
Found at i:50410248 original size:132 final size:131
Alignment explanation
Indices: 50410067--50410528 Score: 606
Period size: 132 Copynumber: 3.5 Consensus size: 131
50410057 CACCCGTATG
* * * * * *
50410067 GGAAGACAAGATTTG-CATCTTCGATCCACTTCACGCCAATACATGAAGACAAGATCTGCTCTCT
1 GGAAGACAAGATCTGATATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTTCT
*
50410131 TCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTTCGATCTACTTC-ACGCTAAT
66 TCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCTAC-C-AAT
* *
50410195 GCC
129 ACA
* * * * **
50410198 TGAAGACAAGATCTGCTTTCTT-GATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCTTTC
1 GGAAGACAAGATCTGATATCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGATCTGCTTTC
* * *
50410262 TTGGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAAT
65 TTCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTT-CTACCAAT
*
50410327 ATA
129 ACA
* * * *
50410330 GGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GGAAGACAAGATCTGATATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTTCT
50410395 TCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCCTACCAATA
66 TCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTT-CTACCAATA
*
50410460 TA
130 CA
* * * *
50410462 GGAAGATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GGAAGACAAGATCTGATATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTTCT
50410527 TC
66 TC
50410529 TTCAATCTAT
Statistics
Matches: 295, Mismatches: 31, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
131 22 0.07
132 259 0.88
133 12 0.04
134 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (131 bp):
GGAAGACAAGATCTGATATCTTCGATCTACTTCACACCAATACAGGAAGACAAGATCTGCTTTCT
TCGATCTACTTCACCACCAATATGGGAAGACAAGATCGGCATCTTCGATCCACTTCTACCAATAC
A
Found at i:50410528 original size:44 final size:44
Alignment explanation
Indices: 50409969--50410528 Score: 495
Period size: 44 Copynumber: 12.7 Consensus size: 44
50409959 TTCGCTGCCA
* * * * *
50409969 AATACAGGAAGGCAAGATCTGCAATCCTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * * * * * *
50410013 AATACACGAAGATAAGATCTGTGTTTTTTTTTGATCTACTTCACCACC
1 AATATAGGAAGACAAGATC--TG-CTATCTTCGATCTACTTCA-CACC
** * * * *
50410061 CGTATGGGAAGACAAGATTTGC-ATCTTCGATCCACTTCACGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * *
50410104 AATACATGAAGACAAGATCTGCTCTCTTCGATCTACTTCACCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CACC
* * * *
50410149 AATATGGGAAGACAAGATCGGC-ATCTTCGATCTACTTCACGCT
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
**** * *
50410192 AATGCCTGAAGACAAGATCTGCTTTCTT-GATCTACTTCGCCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACC
* * * *
50410236 AATATGGGAAGACAAGATCTGCTTTCTTGGATCTACTTCGCCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACACC
* *
50410281 AATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
* * * *
50410324 AATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * *
50410368 AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACCACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CACC
* * *
50410413 AATATGGGAAGACAAGATCGGC-ATCTTCGATCCACTTC-CTACC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-ACC
* * * *
50410456 AATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGCC
1 AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
* * *
50410500 AATACATGAAGACAAGATCTGCTTTCTTC
1 AATATAGGAAGACAAGATCTGCTATCTTC
50410529 TTCAATCTAT
Statistics
Matches: 413, Mismatches: 87, Indels: 32
0.78 0.16 0.06
Matches are distributed among these distances:
42 2 0.00
43 89 0.22
44 208 0.50
45 82 0.20
46 4 0.01
47 13 0.03
48 15 0.04
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (44 bp):
AATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACACC
Found at i:50422901 original size:23 final size:23
Alignment explanation
Indices: 50422874--50422919 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
50422864 CCAATATTAG
*
50422874 CAACAATGAC-AATAATAGAATAA
1 CAACAATAACAAATAA-AGAATAA
50422897 CAACAATAACAAATAAAGAATAA
1 CAACAATAACAAATAAAGAATAA
50422920 TAATGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.65, C:0.13, G:0.07, T:0.15
Consensus pattern (23 bp):
CAACAATAACAAATAAAGAATAA
Found at i:50426880 original size:27 final size:28
Alignment explanation
Indices: 50426835--50426887 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
50426825 TAATCCAAAA
*
50426835 AAAATATTATTACAGTTAAT-TTATTGT
1 AAAATATTAATACAGTTAATATTATTGT
50426862 AAAATATTAAATACA-TTAATATTATT
1 AAAATATT-AATACAGTTAATATTATT
50426888 TTAATTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (28 bp):
AAAATATTAATACAGTTAATATTATTGT
Found at i:50427795 original size:31 final size:31
Alignment explanation
Indices: 50427757--50427818 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
50427747 ATAAAGTGTA
50427757 AGTGTTGAAATAATGAATATTTCTCACTGAG
1 AGTGTTGAAATAATGAATATTTCTCACTGAG
50427788 AGTGTTGAAATAATGAATATTTCTCACTGAG
1 AGTGTTGAAATAATGAATATTTCTCACTGAG
50427819 TTGGACTCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (31 bp):
AGTGTTGAAATAATGAATATTTCTCACTGAG
Found at i:50431406 original size:22 final size:23
Alignment explanation
Indices: 50431381--50431425 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
50431371 TACTATATAT
50431381 ATAATATACCC-TTTATCTTTGC
1 ATAATATACCCTTTTATCTTTGC
50431403 ATAATATACCCTTTTATCTTTGC
1 ATAATATACCCTTTTATCTTTGC
50431426 TTTCTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (23 bp):
ATAATATACCCTTTTATCTTTGC
Found at i:50440150 original size:17 final size:17
Alignment explanation
Indices: 50440120--50440160 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
50440110 TTTTGTCCCT
* *
50440120 GTAAATTTAGAAAATAA
1 GTAAAATTACAAAATAA
50440137 GTAAAATTACAAAATAA
1 GTAAAATTACAAAATAA
*
50440154 TTAAAAT
1 GTAAAAT
50440161 AATTTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (17 bp):
GTAAAATTACAAAATAA
Found at i:50440455 original size:23 final size:23
Alignment explanation
Indices: 50440413--50440465 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
50440403 TAATTAACAA
*
50440413 AATTTAATTTAACAAGTTTTTTT
1 AATTTAATTTAACAAGTTTTATT
*
50440436 AATTTAATTTAA-ATGATTTTATT
1 AATTTAATTTAACAAG-TTTTATT
*
50440459 AAATTAA
1 AATTTAA
50440466 ATTCAATGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (23 bp):
AATTTAATTTAACAAGTTTTATT
Found at i:50440473 original size:23 final size:23
Alignment explanation
Indices: 50440429--50440473 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
50440419 ATTTAACAAG
* * *
50440429 TTTTTTTAATTTAATTTAAATGA
1 TTTTATTAAATTAAATTAAATGA
*
50440452 TTTTATTAAATTAAATTCAATG
1 TTTTATTAAATTAAATTAAATG
50440474 CTCAACCTAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (23 bp):
TTTTATTAAATTAAATTAAATGA
Found at i:50444284 original size:5 final size:5
Alignment explanation
Indices: 50444274--50444299 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
50444264 ATTCATTTTC
50444274 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
50444300 TGCAAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:50453404 original size:9 final size:9
Alignment explanation
Indices: 50453387--50453903 Score: 110
Period size: 9 Copynumber: 60.4 Consensus size: 9
50453377 TAAGTATAAT
*
50453387 TAAGCTATG
1 TAAGTTATG
50453396 TAAGTTATG
1 TAAGTTATG
50453405 TAAGTTATG
1 TAAGTTATG
50453414 T-A-TTATG
1 TAAGTTATG
50453421 TAAGTTATG
1 TAAGTTATG
50453430 CATTAAGTTAT-
1 ---TAAGTTATG
*
50453441 TTA-TTATG
1 TAAGTTATG
* *
50453449 AAAATTATG
1 TAAGTTATG
50453458 TAAGTTATG
1 TAAGTTATG
50453467 T-A-TTATG
1 TAAGTTATG
*
50453474 -AATATTATG
1 TAA-GTTATG
*
50453483 TAAGTTGTG
1 TAAGTTATG
*
50453492 -AA-TTAAG
1 TAAGTTATG
* **
50453499 TTAGTGCTG
1 TAAGTTATG
50453508 T-A-TTATG
1 TAAGTTATG
50453515 ATCAA-TTATG
1 -T-AAGTTATG
50453525 TAAGTTATG
1 TAAGTTATG
50453534 T-A-TTATG
1 TAAGTTATG
* *
50453541 AAAATTATG
1 TAAGTTATG
* *
50453550 TAAGCTGTG
1 TAAGTTATG
*
50453559 T-ACTGTA--
1 TAAGT-TATG
*
50453566 TAAGTTATA
1 TAAGTTATG
50453575 TAAGTTATG
1 TAAGTTATG
*
50453584 TAAGTT-TT
1 TAAGTTATG
*
50453592 TTA-TTATG
1 TAAGTTATG
* ** *
50453600 AAAAATAAG
1 TAAGTTATG
*
50453609 TAACTTATG
1 TAAGTTATG
50453618 T-A-TTATG
1 TAAGTTATG
* *
50453625 AAAATTATG
1 TAAGTTATG
*
50453634 TAAGTTCA-A
1 TAAGTT-ATG
50453643 T-A-TTATG
1 TAAGTTATG
*
50453650 TAACTTATG
1 TAAGTTATG
*
50453659 T-A-CTATG
1 TAAGTTATG
* * *
50453666 AAAATGATG
1 TAAGTTATG
50453675 TAAGTTATG
1 TAAGTTATG
*
50453684 TAAGTTGTG
1 TAAGTTATG
* *
50453693 T-A-TTGTA
1 TAAGTTATG
50453700 TAAGTTATG
1 TAAGTTATG
* *
50453709 TAGGTTACG
1 TAAGTTATG
* * *
50453718 AAAATTTTG
1 TAAGTTATG
50453727 TAAGTTATG
1 TAAGTTATG
50453736 TAAGTTAT-
1 TAAGTTATG
**
50453744 T-TTTTATG
1 TAAGTTATG
* * *
50453752 AAAATTAAG
1 TAAGTTATG
50453761 TAAGTTATG
1 TAAGTTATG
50453770 T-A-TTATG
1 TAAGTTATG
* *
50453777 AAAATTATG
1 TAAGTTATG
*
50453786 TAAGTTCA-A
1 TAAGTT-ATG
* *
50453795 TATTGTTGTG
1 TA-AGTTATG
*
50453805 T-ATTATATG
1 TAAGT-TATG
50453814 TAAGTTATG
1 TAAGTTATG
*
50453823 TATGTGTATAATG
1 TA--AGT-T-ATG
*
50453836 AAAGTTATG
1 TAAGTTATG
50453845 TAAG-T-TG
1 TAAGTTATG
50453852 T--G-TATG
1 TAAGTTATG
50453858 TAAGTTATG
1 TAAGTTATG
*
50453867 TAAGTTAAG
1 TAAGTTATG
*
50453876 T-A-TAAT-
1 TAAGTTATG
*
50453882 TAAGCTATG
1 TAAGTTATG
50453891 TAAGTTATG
1 TAAGTTATG
50453900 TAAG
1 TAAG
50453904 ATGTGATAAT
Statistics
Matches: 360, Mismatches: 93, Indels: 110
0.64 0.17 0.20
Matches are distributed among these distances:
5 2 0.01
6 5 0.01
7 64 0.18
8 40 0.11
9 215 0.60
10 17 0.05
11 4 0.01
12 9 0.03
13 4 0.01
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:50453420 original size:25 final size:25
Alignment explanation
Indices: 50453392--50453791 Score: 190
Period size: 25 Copynumber: 15.8 Consensus size: 25
50453382 ATAATTAAGC
50453392 TATGTAAGTTATGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
*
50453417 TATGTAAGTTATGCATTAAGTTATTTAT
1 TATGTAAGTTATG---TAAGTTATGTAT
* *
50453445 TATGAAAATTATGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
50453470 TATG-AATATTATGTAAGTTGTGAAT
1 TATGTAA-GTTATGTAAGTTATGTAT
* * **
50453495 TAAGTTAGTGCTGT-A-TTATGATCAAT
1 TATGTAAGTTATGTAAGTTATG-T--AT
*
50453521 TATGTAAGTTATGT-A-TTATGAAAAT
1 TATGTAAGTTATGTAAGTTATG--TAT
* * * *
50453546 TATGTAAGCTGTGT-ACTGTAT-AAGT
1 TATGTAAGTTATGTAAGT-TATGTA-T
* * *
50453571 TATATAAGTTATGTAAGTTTTTTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* ** * *
50453596 TATGAAAAATAAGTAACTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
50453621 TATGAAAATTATGTAAGTTCA-ATAT
1 TATGTAAGTTATGTAAGTT-ATGTAT
* * *
50453646 TATGTAACTTATGT-A-CTATGAAAAT
1 TATGTAAGTTATGTAAGTTATG--TAT
* *
50453671 GATGTAAGTTATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* * * * *
50453696 TGTATAAGTTATGTAGGTTACGAAAAT
1 TATGTAAGTTATGTAAGTTATG--TAT
* * *
50453723 TTTGTAAGTTATGTAAGTTATTTTT
1 TATGTAAGTTATGTAAGTTATGTAT
* * *
50453748 TATGAAAATTAAGTAAGTTATGTAT
1 TATGTAAGTTATGTAAGTTATGTAT
* *
50453773 TATGAAAATTATGTAAGTT
1 TATGTAAGTTATGTAAGTT
50453792 CAATATTGTT
Statistics
Matches: 284, Mismatches: 69, Indels: 44
0.72 0.17 0.11
Matches are distributed among these distances:
22 1 0.00
23 5 0.02
24 6 0.02
25 199 0.70
26 25 0.09
27 26 0.09
28 22 0.08
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTATGTAT
Found at i:50453421 original size:16 final size:16
Alignment explanation
Indices: 50453400--50453710 Score: 70
Period size: 16 Copynumber: 19.0 Consensus size: 16
50453390 GCTATGTAAG
50453400 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
50453416 TTATGTAAGTTATG--
1 TTATGTAAGTTATGTA
* *
50453430 -CAT-TAAGTTATTTA
1 TTATGTAAGTTATGTA
* *
50453444 TTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
50453461 GTTATGT-A-TTATGAATA
1 -TTATGTAAGTTATG--TA
* *
50453478 TTATGTAAGTTGTGAA
1 TTATGTAAGTTATGTA
* * **
50453494 TTAAGTTAGTGCTGTA
1 TTATGTAAGTTATGTA
50453510 TTATGATCAA-TTATGTAA
1 TTATG-T-AAGTTATGT-A
*
50453528 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
* *
50453545 TTATGTAAGCTGTGTA
1 TTATGTAAGTTATGTA
* * * *
50453561 CTGTATAAGTTATATAA
1 TTATGTAAGTTATGT-A
* *
50453578 GTTATGTAAGTTTTTTA
1 -TTATGTAAGTTATGTA
* ** *
50453595 TTATGAAAAATAAGTAA
1 TTATGTAAGTTATGT-A
*
50453612 CTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
50453629 TTATGTAAGTTCA-ATA
1 TTATGTAAGTT-ATGTA
*
50453645 TTATGTAACTTATGTA
1 TTATGTAAGTTATGTA
* * * *
50453661 CTATGAAAATGATGTAA
1 TTATGTAAGTTATGT-A
*
50453678 GTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTA
* *
50453695 TTGTATAAGTTATGTA
1 TTATGTAAGTTATGTA
50453711 GGTTACGAAA
Statistics
Matches: 206, Mismatches: 59, Indels: 60
0.63 0.18 0.18
Matches are distributed among these distances:
12 8 0.04
13 2 0.01
15 3 0.01
16 125 0.61
17 19 0.09
18 43 0.21
19 6 0.03
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:50453521 original size:26 final size:26
Alignment explanation
Indices: 50453492--50453541 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
50453482 GTAAGTTGTG
* *
50453492 AATTAAGTTAGTGCTGTATTATGATC
1 AATTAAGTAAGTGATGTATTATGATC
* *
50453518 AATTATGTAAGTTATGTATTATGA
1 AATTAAGTAAGTGATGTATTATGA
50453542 AAATTATGTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (26 bp):
AATTAAGTAAGTGATGTATTATGATC
Found at i:50453843 original size:22 final size:22
Alignment explanation
Indices: 50453801--50453868 Score: 75
Period size: 22 Copynumber: 3.0 Consensus size: 22
50453791 TCAATATTGT
50453801 TGTGTATTATATGTAAGTTATGTA
1 TGTGTA-TA-ATGTAAGTTATGTA
*
50453825 TGTGTATAATGAAAGTTATGTA
1 TGTGTATAATGTAAGTTATGTA
* *
50453847 AGTTGTGT-ATGTAAGTTATGTA
1 TG-TGTATAATGTAAGTTATGTA
50453869 AGTTAAGTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 27 0.69
23 6 0.15
24 6 0.15
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.46
Consensus pattern (22 bp):
TGTGTATAATGTAAGTTATGTA
Found at i:50453869 original size:22 final size:22
Alignment explanation
Indices: 50453808--50453896 Score: 92
Period size: 22 Copynumber: 4.0 Consensus size: 22
50453798 TGTTGTGTAT
*
50453808 TATATGTAAGTTATGTATG-TG
1 TATATGTAAGTTATGTAAGTTG
*
50453829 TATAATGAAAGTTATGTAAGTTG
1 TAT-ATGTAAGTTATGTAAGTTG
*
50453852 TGTATGTAAGTTATGTAAGTTAAG
1 TATATGTAAGTTATGTAAGTT--G
*
50453876 TATAAT-TAAGCTATGTAAGTT
1 TAT-ATGTAAGTTATGTAAGTT
50453897 ATGTAAGATG
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 3 0.05
22 31 0.54
23 4 0.07
24 17 0.30
25 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.21, T:0.43
Consensus pattern (22 bp):
TATATGTAAGTTATGTAAGTTG
Found at i:50453872 original size:31 final size:31
Alignment explanation
Indices: 50453810--50453903 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
50453800 TTGTGTATTA
*
50453810 TATGTAAGTTATGTATGT--GTATAATGAAAGT
1 TATGTAAGTTATGTATGTAAGT-T-ATGTAAGT
*
50453841 TATGTAAGTTGTGTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTATGTAAGTTATGTAAGT
* * *
50453872 TAAGTATAATTAAGCTATGTAAGTTATGTAAG
1 TATGTA-AGTTATG-TATGTAAGTTATGTAAG
50453904 ATGTGATAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
31 29 0.55
32 5 0.09
33 19 0.36
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.41
Consensus pattern (31 bp):
TATGTAAGTTATGTATGTAAGTTATGTAAGT
Found at i:50455260 original size:367 final size:366
Alignment explanation
Indices: 50453931--50455534 Score: 2967
Period size: 366 Copynumber: 4.4 Consensus size: 366
50453921 TTAAGTTATG
*
50453931 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAAAAAAAAAACTGAACATTATTTAAATAATT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
* *
50453996 TGCATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAACCTGAACATTATTTAA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
* * * * *
50454061 ATAATTTAAATAATATTTTAGTTGAGTGGCAAATAAAAAAATTTACTAATATTATTAGTTCAAGT
131 ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
*
50454126 TCAAATCCTACAATATTTTTATTTTTATTGATTTTTAAATTTAGAAAAACTAATATATATTAAAA
196 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
50454191 ATGGTATATTTACAGAGGCGAAGTCAGAAA-TTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
261 ATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
50454255 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
326 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
50454296 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
50454361 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
50454426 ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
131 ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
50454491 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
196 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
* *
50454556 ATGGTATATTTACAGAGGTGGAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
261 ATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
50454621 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
326 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
*
50454662 TTTTCAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
* * *
50454727 TACATTGTTATCGTATATGATAAAAAATTTAATTCGAAAGTGTCAAAAAATTGAACATTATTTAA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
50454792 ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
131 ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
50454857 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
196 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
*
50454922 ATGGTATATTTATAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
261 ATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
50454987 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
326 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
*
50455028 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAGCATTATTTAAATAATT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
50455093 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAAACTGAACATTATTTA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTC-AAAAAACTGAACATTATTTA
50455158 AATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAG
130 AATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAG
50455223 TTCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAA
195 TTCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAA
* * **
50455288 AATGGTATATTTATAGAGGCGAAGTCAAAAAAATTTTTTAGAAGATCTCGAAATTTTAATAGTCA
260 AATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCA
50455353 AAATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
325 AAATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
* * *
50455395 TTTTTAAAATATAAACCAATATGACATTTTTGTTAACAAAAAAACTGAACATTATTTAAATATTT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
*
50455460 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGCCAAAAAACTGAACATTATTTAA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
50455525 ATAATTTAAA
131 ATAATTTAAA
50455535 ATATTCATAA
Statistics
Matches: 1206, Mismatches: 31, Indels: 3
0.97 0.03 0.00
Matches are distributed among these distances:
365 279 0.23
366 570 0.47
367 357 0.30
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (366 bp):
TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
ATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCA
Found at i:50455425 original size:733 final size:731
Alignment explanation
Indices: 50453931--50455534 Score: 2965
Period size: 733 Copynumber: 2.2 Consensus size: 731
50453921 TTAAGTTATG
*
50453931 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAAAAAAAAAACTGAACATTATTTAAATAATT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
* *
50453996 TGCATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAACCTGAACATTATTTAA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
*
50454061 ATAATTTAAATAATATTTTAGTTGAGTGGCAAATAAAAAAATTTACTAATATTATTAGTTCAAGT
131 ATAATTTAAATAATATTTTAGTTGAGTGGCAAATAAAAAAATTTACTAATATAATTAGTTCAAGT
*
50454126 TCAAATCCTACAATATTTTTATTTTTATTGATTTTTAAATTTAGAAAAACTAATATATATTAAAA
196 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
50454191 ATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTAGAAGATCTCGAAATTTTAATAGTCAAA
261 ATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTAGAAGATCTCGAAATTTTAATAGTCAAA
50454256 ATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCATTTTTAAAATATAAACCAATATGGC
326 ATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCATTTTTAAAATATAAACCAATATGGC
50454321 ATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATTTACATTGTTATCTTATATGATAGAA
391 ATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATTTACATTGTTATCTTATATGATAGAA
50454386 AATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAAATAATTTAAATAATATTTTAGTTGA
456 AATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAAATAATTTAAATAATATTTTAGTTGA
50454451 GTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGTTCAAATCCTACAATATTTTTATTTT
521 GTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGTTCAAATCCTACAATATTTTTATTTT
* *
50454516 TATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAAATGGTATATTTACAGAGGTGGAGTC
586 TATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAAATGGTATATTTACAGAGGCGAAGTC
* **
50454581 AGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAAAATATTCATAATTTTAAAAGGACTA
651 AAAAAAATTTTTTAGAAGATCTCGAAATTTTAATAGTCAAAATATTCATAATTTTAAAAGGACTA
50454646 AATCAATTTTTTATCA
716 AATCAATTTTTTATCA
*
50454662 TTTTCAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
* * *
50454727 TACATTGTTATCGTATATGATAAAAAATTTAATTCGAAAGTGTCAAAAAATTGAACATTATTTAA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
* * * *
50454792 ATAATTTAAATAATATTTTAGTTGAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGT
131 ATAATTTAAATAATATTTTAGTTGAGTGGCAAATAAAAAAATTTACTAATATAATTAGTTCAAGT
50454857 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
196 TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
*
50454922 ATGGTATATTTATAGAGGCGAAGTCAGAAATTTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
261 ATGGTATATTTACAGAGGCGAAGTCAGAAA-TTTTTTTAGAAGATCTCGAAATTTTAATAGTCAA
50454987 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCATTTTTAAAATATAAACCAATATGG
325 AATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCATTTTTAAAATATAAACCAATATGG
*
50455052 CATTTTTCTTAACAAAAAAACTGAGCATTATTTAAATAATTTACATTGTTATCTTATATGATAGA
390 CATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATTTACATTGTTATCTTATATGATAGA
50455117 AAATTTAATTCGAAAGTGTCAAAAAAACTGAACATTATTTAAATAATTTAAATAATATTTTAGTT
455 AAATTTAATTCGAAAGTGTC-AAAAAACTGAACATTATTTAAATAATTTAAATAATATTTTAGTT
50455182 GAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGTTCAAATCCTACAATATTTTTATT
519 GAGTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGTTCAAATCCTACAATATTTTTATT
*
50455247 TTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAAATGGTATATTTATAGAGGCGAAG
584 TTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAAATGGTATATTTACAGAGGCGAAG
50455312 TCAAAAAAATTTTTTAGAAGATCTCGAAATTTTAATAGTCAAAATATTCATAATTTTAAAAGGAC
649 TCAAAAAAATTTTTTAGAAGATCTCGAAATTTTAATAGTCAAAATATTCATAATTTTAAAAGGAC
50455377 TAAATCAATTTTTTATCA
714 TAAATCAATTTTTTATCA
* * *
50455395 TTTTTAAAATATAAACCAATATGACATTTTTGTTAACAAAAAAACTGAACATTATTTAAATATTT
1 TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
*
50455460 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGCCAAAAAACTGAACATTATTTAA
66 TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
50455525 ATAATTTAAA
131 ATAATTTAAA
50455535 ATATTCATAA
Statistics
Matches: 842, Mismatches: 29, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
731 276 0.33
732 183 0.22
733 383 0.45
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (731 bp):
TTTTTAAAATATAAACCAATATGGCATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATT
TACATTGTTATCTTATATGATAGAAAATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAA
ATAATTTAAATAATATTTTAGTTGAGTGGCAAATAAAAAAATTTACTAATATAATTAGTTCAAGT
TCAAATCCTACAATATTTTTATTTTTATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAA
ATGGTATATTTACAGAGGCGAAGTCAGAAATTTTTTTAGAAGATCTCGAAATTTTAATAGTCAAA
ATATTCATAATTTTAAAAGGACTAAATCAATTTTTTATCATTTTTAAAATATAAACCAATATGGC
ATTTTTCTTAACAAAAAAACTGAACATTATTTAAATAATTTACATTGTTATCTTATATGATAGAA
AATTTAATTCGAAAGTGTCAAAAAACTGAACATTATTTAAATAATTTAAATAATATTTTAGTTGA
GTGGTAAATTAAAAATTTTACTAATGTAATTAGTTCAAGTTCAAATCCTACAATATTTTTATTTT
TATTAATTTTTAAATTTAGAAAAACTAATATATATTAAAAATGGTATATTTACAGAGGCGAAGTC
AAAAAAATTTTTTAGAAGATCTCGAAATTTTAATAGTCAAAATATTCATAATTTTAAAAGGACTA
AATCAATTTTTTATCA
Found at i:50456327 original size:16 final size:18
Alignment explanation
Indices: 50456306--50456382 Score: 90
Period size: 19 Copynumber: 4.4 Consensus size: 18
50456296 TCTCATATGC
50456306 TTAACATTC-AAA-ATGT
1 TTAACATTCAAAACATGT
*
50456322 TTAACATTCAAAACATAGC
1 TTAACATTCAAAACAT-GT
*
50456341 TTAACATTCAAAACTATGA
1 TTAACATTCAAAAC-ATGT
50456360 TTAACATTC-AAA-ATGT
1 TTAACATTCAAAACATGT
50456376 TTAACAT
1 TTAACAT
50456383 AGCTTAACAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
16 19 0.35
17 3 0.06
18 5 0.09
19 25 0.46
20 2 0.04
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (18 bp):
TTAACATTCAAAACATGT
Found at i:50457631 original size:94 final size:91
Alignment explanation
Indices: 50457470--50457757 Score: 445
Period size: 94 Copynumber: 3.1 Consensus size: 91
50457460 ACATTATTAA
* *
50457470 AAATTTTAACATTTTATAATGAAATTATCCCTTTTATTTCAATAATATTATTTAAAAATATGATA
1 AAATTTTAATATTTTATAATGAAATTATCCATTTTA--T-AATAATATTATTTAAAAATATGATA
*
50457535 CAGATTTAAGAAATTGTTTTTAATTATAC
63 CAGATTTAAGATATTGTTTTTAATTATAC
* *
50457564 AAATTTTAATATTTTATAATAAAATTATCCATTTTAATAAAATAATATTACTTAAAAATATGATA
1 AAATTTTAATATTTTATAATGAAATTATCCATTTT-AT--AATAATATTATTTAAAAATATGATA
*
50457629 CAGATTTAAGATATTATTTTTAATTATAC
63 CAGATTTAAGATATTGTTTTTAATTATAC
*
50457658 AAATTTTAATATTTTATAATGAAATTATCCATTTT-TTATAATATTATTTAAAAATATGATACAG
1 AAATTTTAATATTTTATAATGAAATTATCCATTTTATAATAATATTATTTAAAAATATGATACAG
50457722 ATTTAAGATATTGTTTTTAATTATAC
66 ATTTAAGATATTGTTTTTAATTATAC
50457748 AAA-TTTAATA
1 AAATTTTAATA
50457758 AATTTCTAAA
Statistics
Matches: 181, Mismatches: 11, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
89 7 0.04
90 54 0.30
92 1 0.01
93 1 0.01
94 117 0.65
95 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.46
Consensus pattern (91 bp):
AAATTTTAATATTTTATAATGAAATTATCCATTTTATAATAATATTATTTAAAAATATGATACAG
ATTTAAGATATTGTTTTTAATTATAC
Found at i:50457663 original size:28 final size:28
Alignment explanation
Indices: 50457626--50457755 Score: 73
Period size: 30 Copynumber: 4.4 Consensus size: 28
50457616 TAAAAATATG
* *
50457626 ATACAGATTTAAGATATTATTTTTAATT
1 ATACAAATTTAAGATATTATTTTAAATT
* * * *
50457654 ATACAAATTTTAATATTTTATAATGAAATT
1 ATACAAA-TTTAAGATATTAT-TTTAAATT
* ** *
50457684 ATCCATTTTTTATA-ATATTATTTAAAAATAT
1 ATACA-AATTTA-AGATATTATTT-TAAAT-T
* * *
50457715 GATACAGATTTAAGATATTGTTTTTAATT
1 -ATACAAATTTAAGATATTATTTTAAATT
50457744 ATACAAATTTAA
1 ATACAAATTTAA
50457756 TAAATTTCTA
Statistics
Matches: 75, Mismatches: 19, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
28 17 0.23
29 13 0.17
30 27 0.36
31 14 0.19
32 4 0.05
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.48
Consensus pattern (28 bp):
ATACAAATTTAAGATATTATTTTAAATT
Found at i:50457778 original size:16 final size:16
Alignment explanation
Indices: 50457757--50457819 Score: 74
Period size: 16 Copynumber: 3.9 Consensus size: 16
50457747 CAAATTTAAT
*
50457757 AAATTTCTAAATATTC
1 AAATTTATAAATATTC
50457773 AAATTTATAAATACTT-
1 AAATTTATAAATA-TTC
* *
50457789 AAATACTATCAATATTC
1 AAAT-TTATAAATATTC
50457806 AAATTTATAAATAT
1 AAATTTATAAATAT
50457820 GTTTGCGGCG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 26 0.67
17 13 0.33
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATTTATAAATATTC
Found at i:50458645 original size:15 final size:16
Alignment explanation
Indices: 50458615--50458650 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
50458605 ATTTTTGTAA
*
50458615 ATATTAATTTATATTT
1 ATATTAATTTACATTT
50458631 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
50458646 ATATT
1 ATATT
50458651 CTAAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:50460093 original size:23 final size:23
Alignment explanation
Indices: 50460067--50460121 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
50460057 ATTACTAGTA
* *
50460067 TATTATGTT-TATAATTTTATTTT
1 TATTTTGTTGTATAAATTT-TTTT
*
50460090 TATTTTTTTGTATAAATTTTTTT
1 TATTTTGTTGTATAAATTTTTTT
50460113 TATTTTGTT
1 TATTTTGTT
50460122 ATTTTTGTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.70
24 8 0.30
ACGTcount: A:0.22, C:0.00, G:0.05, T:0.73
Consensus pattern (23 bp):
TATTTTGTTGTATAAATTTTTTT
Found at i:50460822 original size:14 final size:14
Alignment explanation
Indices: 50460803--50460840 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
50460793 TGTAAGTCTT
50460803 AACCCTAAA-TATTA
1 AACCCTAAACTA-TA
50460817 AACCCTAAACTATA
1 AACCCTAAACTATA
*
50460831 AAACCTAAAC
1 AACCCTAAAC
50460841 CCCAAACTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 20 0.91
15 2 0.09
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (14 bp):
AACCCTAAACTATA
Found at i:50460962 original size:21 final size:22
Alignment explanation
Indices: 50460937--50460990 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
50460927 CGTAAACATT
**
50460937 AACCATAAATTTTAAACCC-TA
1 AACCATAAACATTAAACCCGTA
50460958 AACCATAAACATTAAACCCGTA
1 AACCATAAACATTAAACCCGTA
*
50460980 AACCACAAACA
1 AACCATAAACA
50460991 ACAACCACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 17 0.59
22 12 0.41
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.19
Consensus pattern (22 bp):
AACCATAAACATTAAACCCGTA
Found at i:50464858 original size:25 final size:25
Alignment explanation
Indices: 50464813--50464861 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
50464803 TATTTGTTTA
*
50464813 ATTATAATATTATAATATAATATAT
1 ATTATAACATTATAATATAATATAT
50464838 ATTATAACATTTATAAT-TAATATA
1 ATTATAACA-TTATAATATAATATA
50464862 AAAAACTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATAACATTATAATATAATATAT
Found at i:50466227 original size:21 final size:21
Alignment explanation
Indices: 50466211--50466257 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
50466201 GCGGGGGTTG
*
50466211 TGGTTGCTCCGATGGGGATTC
1 TGGTTCCTCCGATGGGGATTC
*
50466232 TGGTTCCTCCGATAGGG-TATC
1 TGGTTCCTCCGATGGGGAT-TC
50466253 TGGTT
1 TGGTT
50466258 GTCGATGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.11, C:0.19, G:0.34, T:0.36
Consensus pattern (21 bp):
TGGTTCCTCCGATGGGGATTC
Found at i:50466525 original size:18 final size:18
Alignment explanation
Indices: 50466499--50466541 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
50466489 GACTCGGAAA
*
50466499 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGTT
50466517 AGGATACATATAAGGGTT
1 AGGATACATATAAGGGTT
*
50466535 AGAATAC
1 AGGATAC
50466542 GCACCTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGTT
Found at i:50470617 original size:3 final size:3
Alignment explanation
Indices: 50470611--50470694 Score: 107
Period size: 3 Copynumber: 27.0 Consensus size: 3
50470601 TATTTAGCTA
50470611 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
50470659 -GT ATTT ATT ATT ACTT ACCTT ATT ATT ATT TTT ATT
1 ATT A-TT ATT ATT A-TT A--TT ATT ATT ATT ATT ATT
50470695 TACCCATTTA
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
2 1 0.01
3 63 0.86
4 5 0.07
5 4 0.05
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:50470858 original size:12 final size:12
Alignment explanation
Indices: 50470843--50470868 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
50470833 TACTTACATA
50470843 TATATATATATT
1 TATATATATATT
50470855 TATATATATATT
1 TATATATATATT
50470867 TA
1 TA
50470869 ATAGTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATATATATT
Found at i:50472628 original size:15 final size:14
Alignment explanation
Indices: 50472599--50472639 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
50472589 AATTATACCC
50472599 TAAATAA-ATAATA
1 TAAATAATATAATA
50472612 TATAA-AATATAAGTA
1 TA-AATAATATAA-TA
50472627 TAAATAATATAAT
1 TAAATAATATAAT
50472640 TATTAACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 4 0.17
14 9 0.38
15 11 0.46
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (14 bp):
TAAATAATATAATA
Found at i:50473912 original size:23 final size:23
Alignment explanation
Indices: 50473886--50473934 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
50473876 CAGGCATTAA
50473886 GATTAGCGCTGCTAAGCATATCG
1 GATTAGCGCTGCTAAGCATATCG
*
50473909 GATTAGCGTTGCTAAGCATATCG
1 GATTAGCGCTGCTAAGCATATCG
50473932 GAT
1 GAT
50473935 GCGAGAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (23 bp):
GATTAGCGCTGCTAAGCATATCG
Found at i:50474600 original size:5 final size:5
Alignment explanation
Indices: 50474566--50474599 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
50474556 TCAATTCATT
* *
50474566 TTTAA TTTAA TTTAA TTTAA TTTAT TTTAT TTTA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTA
50474600 TGCAAGAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (5 bp):
TTTAA
Found at i:50478648 original size:22 final size:22
Alignment explanation
Indices: 50478615--50478660 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
50478605 AGTACTTCAA
50478615 TTGACTATTGATTCAATT-GAT
1 TTGACTATTGATTCAATTCGAT
*
50478636 TTGACTGATTGATTCGATTCGAT
1 TTGACT-ATTGATTCAATTCGAT
50478659 TT
1 TT
50478661 AGATAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (22 bp):
TTGACTATTGATTCAATTCGAT
Found at i:50488343 original size:43 final size:42
Alignment explanation
Indices: 50488227--50488353 Score: 168
Period size: 43 Copynumber: 3.0 Consensus size: 42
50488217 TTTTGTGAAA
* *
50488227 TAAGCACCGCTAAAGAACACT-A-CTTTTAGCAGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTT-TTCC
50488270 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
* *
50488313 TTAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
50488354 TATAAACGCC
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
42 5 0.06
43 70 0.91
44 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:50488364 original size:43 final size:42
Alignment explanation
Indices: 50488227--50488370 Score: 152
Period size: 43 Copynumber: 3.4 Consensus size: 42
50488217 TTTTGTGAAA
* *
50488227 TAAGCACCGCTAAAGAACACT-A-CTTTTAGC-AGCGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGA-CGTTTT-TTCT
*
50488270 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTT-TTT-CT
50488314 T-AGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTCT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTCT
* *
50488355 ATAAACGCCGCAAAAG
1 -TAAGCGCCGCTAAAG
50488371 TTAACGACGT
Statistics
Matches: 88, Mismatches: 6, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
41 2 0.02
42 5 0.06
43 77 0.88
44 4 0.05
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGACGTTTTTTCT
Found at i:50490684 original size:27 final size:27
Alignment explanation
Indices: 50490646--50490700 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
50490636 CCCTTGTTAG
50490646 TGTTTCTAATTCTCTAGCATAACCCAA
1 TGTTTCTAATTCTCTAGCATAACCCAA
50490673 TGTTTCTAATTCTCTAGCATAACCCAA
1 TGTTTCTAATTCTCTAGCATAACCCAA
50490700 T
1 T
50490701 ACAAAGGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (27 bp):
TGTTTCTAATTCTCTAGCATAACCCAA
Found at i:50493320 original size:96 final size:94
Alignment explanation
Indices: 50493163--50493339 Score: 246
Period size: 96 Copynumber: 1.9 Consensus size: 94
50493153 GATTATAGAC
* * **
50493163 TATAGAGCTACAACGAGCTAGAATAAAAGTTTCACCTCTATTAAATTAAATAGGATTGTGTTAAA
1 TATAGAGCTACAACGAGCTAAAATAAAAGTTTCACCTCTATTAAATTAAATAGAAACGTGTTAAA
*
50493228 TTCATATTATTCTTATAAAGTTGGTATGAT
66 TTCAGATTATT-TTATAAAGTTGGTATGAT
* * *
50493258 TATAGAGCTATAACGATGTTAAAATAAAAGTTTCACCTCTATTAGATTAAATAGAAACGTGTTAA
1 TATAGAGCTACAACGA-GCTAAAATAAAAGTTTCACCTCTATTAAATTAAATAGAAACGTGTTAA
* *
50493323 GTTTAGATTATTTTATA
65 ATTCAGATTATTTTATA
50493340 TCTTAATTAA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
95 20 0.28
96 51 0.72
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (94 bp):
TATAGAGCTACAACGAGCTAAAATAAAAGTTTCACCTCTATTAAATTAAATAGAAACGTGTTAAA
TTCAGATTATTTTATAAAGTTGGTATGAT
Found at i:50496059 original size:55 final size:55
Alignment explanation
Indices: 50495975--50496135 Score: 236
Period size: 55 Copynumber: 3.0 Consensus size: 55
50495965 ACGTGTTATG
* *
50495975 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGTAATATTCCAACA
1 TAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGCAATATTCCAACA
* * * *
50496030 TAACAATCGAATTAAACATATAAAAAATCGCTTCAGAAGAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGCAATATTCCAACA
* *
50496085 TGACAATCGATTTAAAC--GTAAAAAATCGATTCAAAAGAAGCAATATTCCAA
1 TAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGCAATATTCCAA
50496136 AAATTAAGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 30 0.32
55 64 0.68
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.24
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGCAATATTCCAACA
Found at i:50497239 original size:35 final size:34
Alignment explanation
Indices: 50497200--50497417 Score: 183
Period size: 35 Copynumber: 6.2 Consensus size: 34
50497190 TACAAGAATT
* *
50497200 TTTTTTTAAAACACGATAA-TTTTGAAACACAATA
1 TTTTTTGAAAACACGAAAATTTTTGAAACACAA-A
* *
50497234 TTTTTTGAAGACACGAAAATTTTTGAAACAAAGAA
1 TTTTTTGAAAACACGAAAATTTTTGAAACACA-AA
* *
50497269 TTTTTTTG-AAACACAAAAACTTTTGAAACACGAAA
1 -TTTTTTGAAAACACGAAAATTTTTGAAACAC-AAA
* *
50497304 ATTTTTGAAAACACGAAAATTTTTGAAACACGGGAA
1 TTTTTTGAAAACACGAAAATTTTTGAAACAC--AAA
* * * *
50497340 -CTTTTGAAAACACGGAAATTTATGAAACACGGGATAT
1 TTTTTTGAAAACACGAAAATTTTTGAAACAC---A-AA
* **
50497377 TTTTTTGAAAACACG-AATTTTTTGAAACATGAA
1 TTTTTTGAAAACACGAAAATTTTTGAAACACAAA
50497410 TTTTTTGA
1 TTTTTTGA
50497418 TTTTTTTCTT
Statistics
Matches: 152, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
33 9 0.06
34 22 0.14
35 81 0.53
36 14 0.09
37 13 0.09
38 13 0.09
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (34 bp):
TTTTTTGAAAACACGAAAATTTTTGAAACACAAA
Done.