Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 1 of 284
Found at i:706 original size:29 final size:29
Alignment explanation
Indices: 664--737 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
654 GTTGCGAGAT
* * *
664 TGGCACTAATTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
693 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
722 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
738 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:901 original size:80 final size:80
Alignment explanation
Indices: 769--965 Score: 252
Period size: 80 Copynumber: 2.5 Consensus size: 80
759 GTGTGCGAAC
* * *
769 TGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAA
1 TGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAA
*
834 GGCAATTGTGCAAGT
66 GGCAATTGAGCAAGT
* * * *
849 TGATACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAA
1 TGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAA
**
914 GGCAATTGAGCTTGT
66 GGCAATTGAGCAAGT
* * *
929 GGTTATATCCGGGCTAA-ATTCCGAAGAGCATTCGTGC
1 TGATATATCCGGGCTAAGA-CCCGAAG-GCATTCGTGC
966 TAGTGAGGTA
Statistics
Matches: 101, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 90 0.89
81 10 0.10
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
TGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAATTGATATACCCGGGCTAAGACCCGAA
GGCAATTGAGCAAGT
Found at i:941 original size:40 final size:40
Alignment explanation
Indices: 760--945 Score: 221
Period size: 40 Copynumber: 4.7 Consensus size: 40
750 AAGCACTATG
** * *
760 TGTGCGAACTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
*
800 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* *
840 TGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGGC-AT
1 TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* * *
879 TCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
1 T-GTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
* ** * *
920 TGAGCTTGTGGTTATATCCGGGCTAA
1 TGTGCGAGTTGATATATCCGGGCTAA
946 ATTCCGAAGA
Statistics
Matches: 126, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 120 0.95
41 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
TGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAAT
Found at i:978 original size:40 final size:40
Alignment explanation
Indices: 773--1038 Score: 141
Period size: 40 Copynumber: 6.7 Consensus size: 40
763 GCGAACTGAT
* ** * * * *
773 ATATCCGGGATAAGACCCGAAG-GCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGC-TAGTGAG
** * *
813 ATATCCGGGCTAAGACCCGAAG-GCAATT-GTGCAAGTTGAT
1 ATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTAG-TGAG
* ** * **
853 ACATCCGGGCTAAGACCCGAAG-GCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAG-TGAG
* * ** * *
893 ATACCCGGGTTAAGACCCGAAG-GCAATT-GAGCTTGTG-G
1 ATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTAGTGAG
*
931 TTATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGAG
1 --ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAG
* * * **
973 GTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAG
* *
1013 ATATCCGGGCTAGGTCCCGAAGAGCA
1 ATATCCGGGCTAAGTTCCGAAGAGCA
1039 ATCATGCTGG
Statistics
Matches: 188, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
39 7 0.04
40 165 0.88
41 15 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAG
Found at i:1021 original size:120 final size:120
Alignment explanation
Indices: 772--1040 Score: 260
Period size: 120 Copynumber: 2.2 Consensus size: 120
762 TGCGAACTGA
* * *
772 TATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGC
1 TATATCCGGGATAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCTAAGACCCGAAGGC
* *
837 AATTGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGC
66 AATTGTGCAAGTTGAGACATCCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGC
* * *** * *
892 TATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTATATCCGGGCTAA-ATTCCGAAGA
1 TATATCCGGGATAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCTAAGA-CCCGAAG-
* ** ** *
956 GC-ATTCGTGCTAG-TGAGGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTG-G-TGT
64 GCAATT-GTGCAAGTTGAGACATCCGGACTAAGACCCGAAG-GCATTCGTGC-GAGTTGC
* * *
1012 TATATCCGGGCTAGGTCCCGAAGAGCAAT
1 TATATCCGGGATAAGACCCGAAG-GCAAT
1041 CATGCTGGTG
Statistics
Matches: 121, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
119 1 0.01
120 95 0.79
121 24 0.20
122 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (120 bp):
TATATCCGGGATAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGCTAAGACCCGAAGGC
AATTGTGCAAGTTGAGACATCCGGACTAAGACCCGAAGGCATTCGTGCGAGTTGC
Found at i:1047 original size:40 final size:40
Alignment explanation
Indices: 812--1050 Score: 157
Period size: 40 Copynumber: 6.0 Consensus size: 40
802 TGCGAATTGA
** * * *
812 TATATCCGGGCTAAGACCCGAAG-GCAATT-GTGCAAGTTGA
1 TATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGC-TGGTGT
* ** *
852 TACATCCGGGCTAAGACCCGAAG-GCATTCGTGC-GAGTTGC
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTG-G-TGT
* * ** * *
892 TATACCCGGGTTAAGACCCGAAG-GCAATT-GAGCTTGTGGT
1 TATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTGGT-GT
* * *
932 TATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGT
** *
972 GGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGT
* * * *
1012 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTG
1051 ACATGTATTC
Statistics
Matches: 161, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 4 0.02
40 145 0.90
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGT
Found at i:3557 original size:13 final size:13
Alignment explanation
Indices: 3539--3563 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3529 TAATGGTATA
3539 TTGAATCCATGAC
1 TTGAATCCATGAC
3552 TTGAATCCATGA
1 TTGAATCCATGA
3564 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:5288 original size:49 final size:49
Alignment explanation
Indices: 5219--6164 Score: 1555
Period size: 49 Copynumber: 19.5 Consensus size: 49
5209 GAAATGATAG
5219 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
5268 TAAGGCCTAATGGCCGATGTGATGACTGTGAAAGTG--TATATATGTGAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG-A
* * *
5316 TAGGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
5363 TAAGGCCTAATGGCCGATGTGATGACTGTGAAAGTG--TATATATGTGAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG-A
* * *
5411 TAGGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
5458 TAAGGCCTAATGGCCGATGTGATGACTGTGAAAGTG--TATATATGTGAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG-A
5506 TAAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 T-AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
5556 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
5605 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
5654 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
5703 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
5752 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
5801 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
5850 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
5899 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
5948 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
5997 TAAGGCCTAATGGCCGATGTGATGACTGTGAAAGTG--TATATATGTGAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTG-A
* * * **
6045 TAGGGCTTAATGGCCGATGTGATGAATGCGAAAGTG--TATATGCGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* **
6092 TAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGCGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* *
6139 TAAGGCTTAATGGCCAATGTGATGAA
1 TAAGGCCTAATGGCCGATGTGATGAA
6165 GTGTATATAT
Statistics
Matches: 862, Mismatches: 28, Indels: 16
0.95 0.03 0.02
Matches are distributed among these distances:
47 177 0.21
48 129 0.15
49 544 0.63
50 2 0.00
51 10 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:6169 original size:40 final size:40
Alignment explanation
Indices: 6116--6204 Score: 101
Period size: 40 Copynumber: 2.3 Consensus size: 40
6106 CGATGTGATG
* * **
6116 AATGTGA--AAGTGTATATGCGTGATAAGGCTTAATGGCC
1 AATGTGATGAAGTGTATATACGTGACAAGGCCGAATGGCC
* * *
6154 AATGTGATGAAGTGTATATATGTGACAGGGCCGAGTGGCC
1 AATGTGATGAAGTGTATATACGTGACAAGGCCGAATGGCC
6194 AATGTGATGAA
1 AATGTGATGAA
6205 TGTGAAAGTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 7 0.17
40 35 0.83
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.27
Consensus pattern (40 bp):
AATGTGATGAAGTGTATATACGTGACAAGGCCGAATGGCC
Found at i:6404 original size:37 final size:37
Alignment explanation
Indices: 6350--6425 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
6340 GAGTTCTAAG
* *
6350 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGGGATTATGTCCGGGTAA
*
6387 GACCCGATAACTTCGTGTGGGGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGGGATTATGTCCGGGTAA
6424 GA
1 GA
6426 TTTCGTAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGGGATTATGTCCGGGTAA
Found at i:6781 original size:71 final size:71
Alignment explanation
Indices: 6691--6830 Score: 262
Period size: 71 Copynumber: 2.0 Consensus size: 71
6681 AGATGTGCAG
* *
6691 ATTCGGTAAAGGGATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
1 ATTCGGAAAAGGAATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
6756 TTTGGT
66 TTTGGT
6762 ATTCGGAAAAGGAATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
1 ATTCGGAAAAGGAATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
6827 TTTG
66 TTTG
6831 ATTGTTATCT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.41, C:0.10, G:0.24, T:0.24
Consensus pattern (71 bp):
ATTCGGAAAAGGAATGGTATGCCCGAAGGAAGAGTGAAATAAAAATACGAACAACTATGTTATAA
TTTGGT
Found at i:8399 original size:43 final size:43
Alignment explanation
Indices: 8338--8425 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
8328 TTGGTTTTCA
8338 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
*
8381 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAATTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
8424 GC
1 GC
8426 TTGAAATGCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (43 bp):
GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
Found at i:8449 original size:29 final size:29
Alignment explanation
Indices: 8407--8480 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
8397 GTTGCGAGAT
* * *
8407 TGGCACTAATTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
8436 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
8465 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
8481 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:8558 original size:40 final size:40
Alignment explanation
Indices: 8503--8740 Score: 370
Period size: 40 Copynumber: 6.0 Consensus size: 40
8493 AAGCACTATG
* *
8503 TGTGCGAACTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
8543 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
8583 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
8623 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAAT
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
*
8663 TGTGC-AAGTTGATACATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCATT
* * * * *
8703 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
8741 ATTGAGCTTG
Statistics
Matches: 183, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 2 0.01
40 180 0.98
41 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
TGTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATT
Found at i:8762 original size:80 final size:80
Alignment explanation
Indices: 8512--8788 Score: 369
Period size: 80 Copynumber: 3.5 Consensus size: 80
8502 GTGTGCGAAC
*
8512 TGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAA
1 TGATATATCCGGGATAAGACCCGAAGGCATTCGTGCGAATTGATATATCCGGGCTAAGACCCGAA
*
8577 GGCATTTGTGCGAA-T
66 GGCAATTGTGC-AAGT
*
8592 TGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAA
1 TGATATATCCGGGATAAGACCCGAAGGCATTCGTGCGAATTGATATATCCGGGCTAAGACCCGAA
8657 GGCAATTGTGCAAGT
66 GGCAATTGTGCAAGT
* * * * * *
8672 TGATACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAA
1 TGATATATCCGGGATAAGACCCGAAGGCATTCGTGCGAATTGATATATCCGGGCTAAGACCCGAA
* **
8737 GGCAATTGAGCTTGT
66 GGCAATTGTGCAAGT
* * * *
8752 GGTTATATCCGGGCTAA-ATTCCGAAGAGCATTCGTGC
1 TGATATATCCGGGATAAGA-CCCGAAG-GCATTCGTGC
8789 TAGTGAGGTA
Statistics
Matches: 179, Mismatches: 15, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
79 3 0.02
80 166 0.93
81 10 0.06
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (80 bp):
TGATATATCCGGGATAAGACCCGAAGGCATTCGTGCGAATTGATATATCCGGGCTAAGACCCGAA
GGCAATTGTGCAAGT
Found at i:8777 original size:120 final size:120
Alignment explanation
Indices: 8513--8768 Score: 361
Period size: 120 Copynumber: 2.1 Consensus size: 120
8503 TGTGCGAACT
* * *
8513 GATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAAGACCCGAAG
1 GATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAATTGATACATCCGGGCTAAGACCCGAAG
* * * * *
8578 GCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATT
66 GCATTCGTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATG
8633 GATATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGATACATCCGGGCTAAGACCCGAA
1 GATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAA-TTGATACATCCGGGCTAAGACCCGAA
* * * ***
8697 GGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTG
65 GGCATTCGTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATG
*
8753 GTTATATCCGGGCTAA
1 GATATATCCGGGCTAA
8769 ATTCCGAAGA
Statistics
Matches: 120, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
119 2 0.02
120 118 0.98
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (120 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAATTGATACATCCGGGCTAAGACCCGAAG
GCATTCGTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATG
Found at i:8801 original size:40 final size:40
Alignment explanation
Indices: 8516--8861 Score: 152
Period size: 40 Copynumber: 8.7 Consensus size: 40
8506 GCGAACTGAT
* ** * * * *
8516 ATATCCGGGATAAGACCCGAAG-GCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGC-TAGTGAG
** * * * *
8556 ATATCCGGGCTAAGACCCGAAG-GCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGC-TAGTGAG
* ** * * * *
8596 ATATCCGGGATAAGACCCGAAG-GCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGC-TAGTGAG
** * *
8636 ATATCCGGGCTAAGACCCGAAG-GCAATT-GTGCAAGTTGAT
1 ATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTAG-TGAG
* ** * **
8676 ACATCCGGGCTAAGACCCGAAG-GCATTCGTGCGAGTTGCT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAG-TGAG
* * ** * *
8716 ATACCCGGGTTAAGACCCGAAG-GCAATT-GAGCTTGTG-G
1 ATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTAGTGAG
*
8754 TTATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGAG
1 --ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAG
* * * **
8796 GTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAG
* *
8836 ATATCCGGGCTAGGTCCCGAAGAGCA
1 ATATCCGGGCTAAGTTCCGAAGAGCA
8862 ATCATGCTGG
Statistics
Matches: 266, Mismatches: 31, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
39 7 0.03
40 243 0.91
41 15 0.06
42 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGAG
Found at i:8802 original size:120 final size:120
Alignment explanation
Indices: 8513--8828 Score: 352
Period size: 120 Copynumber: 2.6 Consensus size: 120
8503 TGTGCGAACT
* * *
8513 GATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAA-TTGATATATCCGGGCTAAGACCCGAA
1 GATATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTGAGATATCCGGGCTAAGACCCGAA
* * * * *
8577 GGCATTTGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATT
65 GGCATTCGTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATG
* *
8633 GATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATACATCCGGGCTAAGACCCGAAG
1 GATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGAGATATCCGGGCTAAGACCCGAAG
* * * ***
8698 GCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTG
66 GCATTCGTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATG
* * * * * **
8753 GTTATATCCGGGCTAA-ATTCCGAAGAGC-ATTCGTGCTAG-TGAGGTATCCGGACTAAGTTCCG
1 GATATATCCGGGCTAAGA-CCCGAAG-GCAATT-GTGCAAGTTGAGATATCCGGGCTAAGACCCG
8815 AAGAGCATTCGTGC
63 AAG-GCATTCGTGC
8829 TGGTGTTATA
Statistics
Matches: 168, Mismatches: 23, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
119 3 0.02
120 147 0.88
121 18 0.11
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (120 bp):
GATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGAGATATCCGGGCTAAGACCCGAAG
GCATTCGTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATG
Found at i:8870 original size:40 final size:40
Alignment explanation
Indices: 8635--8873 Score: 157
Period size: 40 Copynumber: 6.0 Consensus size: 40
8625 TGCGAATTGA
** * * *
8635 TATATCCGGGCTAAGACCCGAAG-GCAATT-GTGCAAGTTGA
1 TATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGC-TGGTGT
* ** *
8675 TACATCCGGGCTAAGACCCGAAG-GCATTCGTGC-GAGTTGC
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTG-G-TGT
* * ** * *
8715 TATACCCGGGTTAAGACCCGAAG-GCAATT-GAGCTTGTGGT
1 TATATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTGGT-GT
* * *
8755 TATATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGT
** *
8795 GGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGT
* * * *
8835 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTG
8874 ACATGTATTC
Statistics
Matches: 161, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
38 1 0.01
39 4 0.02
40 145 0.90
41 11 0.07
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
TATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGT
Found at i:25380 original size:39 final size:40
Alignment explanation
Indices: 25279--25502 Score: 264
Period size: 40 Copynumber: 5.7 Consensus size: 40
25269 TTGAATGATG
*
25279 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
25318 ATCCGGACTAAGAT-CCGAAGGCATTTGTGAGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
25359 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
25398 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25437 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
25476 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
25503 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 73 0.45
40 77 0.47
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:25453 original size:79 final size:81
Alignment explanation
Indices: 25279--25502 Score: 273
Period size: 79 Copynumber: 2.8 Consensus size: 81
25269 TTGAATGATG
* * *
25279 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCA
*
25341 TTTGTGAGAGATACTAAT
64 TTTGTGAGAGATACTAAA
25359 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
* * *
25421 TGTGCGAGTTATTAAA
66 TGTGAGAGATACTAAA
* * * * *
25437 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
25501 TG
66 TG
25503 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
78 35 0.28
79 54 0.43
80 37 0.29
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGAGAGATACTAAA
Found at i:25535 original size:79 final size:79
Alignment explanation
Indices: 25279--25527 Score: 192
Period size: 79 Copynumber: 3.2 Consensus size: 79
25269 TTGAATGATG
* * * * *
25279 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
* *
25341 TTTGTGA-GAGAT-ACTAAT
62 TTTG-AACGAG-TGACTAAA
* * *
25359 TCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** * *
25423 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
25437 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
*
25501 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
25517 TCC-GGTTAAAT
1 TCCGGGTTAAAT
25528 TCTGAAGGTA
Statistics
Matches: 138, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
77 1 0.01
78 29 0.21
79 63 0.46
80 44 0.32
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:26358 original size:28 final size:28
Alignment explanation
Indices: 26327--26386 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
26317 ATCTACTTTC
26327 ATAGCAAAGTAACGAAACAATCATACGA
1 ATAGCAAAGTAACGAAACAATCATACGA
26355 ATAGCAAAGTAACGAAACAATCATACGA
1 ATAGCAAAGTAACGAAACAATCATACGA
26383 ATAG
1 ATAG
26387 TATGTTAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (28 bp):
ATAGCAAAGTAACGAAACAATCATACGA
Found at i:27341 original size:40 final size:42
Alignment explanation
Indices: 27253--27367 Score: 121
Period size: 40 Copynumber: 2.8 Consensus size: 42
27243 CTAATTCTCA
* * * *
27253 CACACTAAGTGCCAATACATAGCTGAAGCTAT-TTTAATCTAG
1 CACATTAAGTG-CAATACGTAGCCGAAGCTATCTTGAATCTAG
*
27295 CACATTAAGTGCTATACGTAGCCGAAGCTATCTTGAAT-T-G
1 CACATTAAGTGCAATACGTAGCCGAAGCTATCTTGAATCTAG
* * *
27335 CACATTAAGTGCCATACGTAACCG-AGTTATCTT
1 CACATTAAGTGCAATACGTAGCCGAAGCTATCTT
27368 CAAATATGAC
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
39 8 0.12
40 23 0.36
41 18 0.28
42 15 0.23
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (42 bp):
CACATTAAGTGCAATACGTAGCCGAAGCTATCTTGAATCTAG
Found at i:27870 original size:21 final size:20
Alignment explanation
Indices: 27846--27885 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27836 ACTTGTTTAA
27846 CTATCAACAAATATTCAAAAT
1 CTATCAACAAA-ATTCAAAAT
* *
27867 CTATCATCAAACTTCAAAA
1 CTATCAACAAAATTCAAAA
27886 ATCATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.28
Consensus pattern (20 bp):
CTATCAACAAAATTCAAAAT
Found at i:30803 original size:27 final size:27
Alignment explanation
Indices: 30773--30834 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
30763 GGCATAATCA
*
30773 TCATTTTACCATATAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
*
30800 TCATTTTACCGTACAGGGGTATTACGG
1 TCATTTTACCATACAGGGGTATTACGG
30827 TCATTTTA
1 TCATTTTA
30835 TAAACTGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGG
Found at i:34051 original size:44 final size:44
Alignment explanation
Indices: 33997--34084 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
33987 ATTTTAATAT
*
33997 TATTATATTATATTAGTTAAAATAAAAATAAAAGAAACAAAAGA
1 TATTATATTATATTAGTTAAAATAAAAATAAAAGAAAAAAAAGA
*
34041 TATTCTATTATATTAGTTAAAATAAAAATAAAAGAAAAAAAAGA
1 TATTATATTATATTAGTTAAAATAAAAATAAAAGAAAAAAAAGA
34085 AAGAAAAAGA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (44 bp):
TATTATATTATATTAGTTAAAATAAAAATAAAAGAAAAAAAAGA
Found at i:35119 original size:47 final size:47
Alignment explanation
Indices: 35026--35126 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
35016 TCTTGTTTGT
** * * * *
35026 CGTACTGTTACTATTACTTCGGTTTAATCCGATGAGGTAGTGAGTAC
1 CGTACTGTTACTATTACTTCGGTCAAAGCCGATGAGGCACTAAGTAC
* *
35073 TGTACTGTTACTGTTTACTTCGG-CAAAGCCGATGAGGCACTAAGTAC
1 CGTACTGTTACT-ATTACTTCGGTCAAAGCCGATGAGGCACTAAGTAC
35120 CGTACTG
1 CGTACTG
35127 GTGTGTTGGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
47 35 0.80
48 9 0.20
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (47 bp):
CGTACTGTTACTATTACTTCGGTCAAAGCCGATGAGGCACTAAGTAC
Found at i:55898 original size:5 final size:5
Alignment explanation
Indices: 55888--55913 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
55878 GATTCCAACC
55888 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
55914 GTTTATTTTT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:60137 original size:15 final size:16
Alignment explanation
Indices: 60117--60149 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
60107 TTGGGTTGAG
60117 AAAATT-ATTTAATTA
1 AAAATTAATTTAATTA
*
60132 AAAATTAATTTATTTA
1 AAAATTAATTTAATTA
60148 AA
1 AA
60150 TTAACAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATTAATTTAATTA
Found at i:60153 original size:21 final size:22
Alignment explanation
Indices: 60121--60169 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 22
60111 GTTGAGAAAA
*
60121 TTATTTAATTAA-AAATTA-AT
1 TTATTTAATTAACAAATAATAT
60141 TTATTTAAATTAACAAATAATAT
1 TTATTT-AATTAACAAATAATAT
60164 TTATTT
1 TTATTT
60170 TGGAAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 6 0.24
21 6 0.24
22 5 0.20
23 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATTTAATTAACAAATAATAT
Found at i:61498 original size:25 final size:25
Alignment explanation
Indices: 61464--61514 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
61454 CAAGGTCTCT
*
61464 TAGGAATTCTGCACGCCACGTTCTA
1 TAGGAATTCTACACGCCACGTTCTA
61489 TAGGAATTCTACACGCCACGTTCTA
1 TAGGAATTCTACACGCCACGTTCTA
61514 T
1 T
61515 CTTCTCCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (25 bp):
TAGGAATTCTACACGCCACGTTCTA
Found at i:62371 original size:12 final size:12
Alignment explanation
Indices: 62354--62378 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62344 TAAAAATTAC
62354 AAGCCAAAACCA
1 AAGCCAAAACCA
62366 AAGCCAAAACCA
1 AAGCCAAAACCA
62378 A
1 A
62379 TAAAGACTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.32, G:0.08, T:0.00
Consensus pattern (12 bp):
AAGCCAAAACCA
Found at i:69777 original size:16 final size:17
Alignment explanation
Indices: 69740--69782 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
69730 TTAAAGTGTT
69740 AGAAAT-AAAAAATAAA
1 AGAAATAAAAAAATAAA
*
69756 AAAAATAAAAAAAT-AA
1 AGAAATAAAAAAATAAA
69772 AGAAATCAAAA
1 AGAAAT-AAAA
69783 TATGTTAGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (17 bp):
AGAAATAAAAAAATAAA
Found at i:77344 original size:18 final size:18
Alignment explanation
Indices: 77321--77355 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
77311 TAACAACCAT
77321 GTTACCACATGTGATCAA
1 GTTACCACATGTGATCAA
77339 GTTACCACATGTGATCA
1 GTTACCACATGTGATCA
77356 TACTCCCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (18 bp):
GTTACCACATGTGATCAA
Found at i:77703 original size:49 final size:49
Alignment explanation
Indices: 77599--77774 Score: 173
Period size: 49 Copynumber: 3.6 Consensus size: 49
77589 GGTACGATGT
* * * * *
77599 TGATGCCATGTTCTAAACATGGTCTTACACTGGCTCTC--ACATCTAAG-
1 TGATGCCATGTCCTAGACA-GGTCTTACACTGACTCTCATACATCGAGGC
*
77646 TCGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATACATCGAGGC
1 T-GATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATACATCGAGGC
* * * * *
77696 TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACT-TATCTGTGTC
1 TGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCA-TACATC-GAGGC
*
77746 -GATGCCATGTCCTAGACAAGTCTTACACT
1 TGATGCCATGTCCTAGACAGGTCTTACACT
77775 AGCTTGCATA
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
47 17 0.16
48 16 0.15
49 71 0.65
50 5 0.05
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (49 bp):
TGATGCCATGTCCTAGACAGGTCTTACACTGACTCTCATACATCGAGGC
Found at i:77769 original size:98 final size:96
Alignment explanation
Indices: 77599--77818 Score: 282
Period size: 98 Copynumber: 2.3 Consensus size: 96
77589 GGTACGATGT
* * *
77599 TGATGCCATGTTCTAAACATGGTCTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCTAGA
1 TGATGCCATGTCCCAGACA-GGTCTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCTAGA
* *
77664 CAGGTCTTACACT-GACTTTCATA-CATCGAGGC
65 CAAGTCTTACACTAG-CTTGCATATC-TCGAGGC
**
77696 TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCTAG
1 TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCAC--ATCTAAGTCGATGCCATGTCCTAG
*
77761 ACAAGTCTTACACTAGCTTGCATATCTTGAGGC
64 ACAAGTCTTACACTAGCTTGCATATCTCGAGGC
* * *
77794 CGATACCATGTCACAGACAGGTCTT
1 TGATGCCATGTCCCAGACAGGTCTT
77819 TCTGTAACAC
Statistics
Matches: 108, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
96 20 0.19
97 16 0.15
98 70 0.65
99 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (96 bp):
TGATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACATCTAAGTCGATGCCATGTCCTAGAC
AAGTCTTACACTAGCTTGCATATCTCGAGGC
Found at i:77803 original size:49 final size:47
Alignment explanation
Indices: 77600--77818 Score: 171
Period size: 49 Copynumber: 4.5 Consensus size: 47
77590 GTACGATGTT
* * * * *
77600 GATGCCATGTTCTAAACATGGTCTTACACTGGCTCTCACATC-T-AAGTC
1 GATGCCATGTCCTAGACA-GGTCTTACACT-GCT-TCATATCTTGAGGCC
* *
77648 GATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATA-CATCGAGGCT
1 GATGCCATGTCCTAGACAGGTCTTACACTG-C-TTCATATC-TTGAGGCC
* * *
77697 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATC-TG-TGTC
1 GATGCCATGTCCTAGACAGGTCTTACACT-GCT-TCA--TATCTTGAGGCC
*
77746 GATGCCATGTCCTAGACAAGTCTTACACTAGCTTGCATATCTTGAGGCC
1 GATGCCATGTCCTAGACAGGTCTTACACT-GCTT-CATATCTTGAGGCC
*
77795 GATACCATGTCAC-AGACAGGTCTT
1 GATGCCATGTC-CTAGACAGGTCTT
77819 TCTGTAACAC
Statistics
Matches: 138, Mismatches: 19, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
46 2 0.01
47 20 0.14
48 21 0.15
49 89 0.64
50 3 0.02
51 2 0.01
52 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCTAGACAGGTCTTACACTGCTTCATATCTTGAGGCC
Found at i:101099 original size:29 final size:30
Alignment explanation
Indices: 101056--101113 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
101046 AATCTGCCAG
*
101056 ATATAAAATAGTGCGATACAATCGCCAATA
1 ATATAAAATAGTGCGATAAAATCGCCAATA
*
101086 ATATATAATA-TGCGATAAAATCGCCAAT
1 ATATAAAATAGTGCGATAAAATCGCCAAT
101114 CCCTCGATAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.26
Consensus pattern (30 bp):
ATATAAAATAGTGCGATAAAATCGCCAATA
Found at i:117471 original size:19 final size:18
Alignment explanation
Indices: 117437--117472 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
117427 TTGAAATATA
117437 AATTAATTTAAAATAATT
1 AATTAATTTAAAATAATT
*
117455 AATTAATATTTAAATAAT
1 AATTAAT-TTAAAATAAT
117473 AAAAAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTAATTTAAAATAATT
Found at i:122588 original size:24 final size:25
Alignment explanation
Indices: 122533--122601 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 25
122523 GAGTCATGGT
* * *
122533 CGGTAAGCTCCTCTTGAGCTGATAAA
1 CGGTAAGCT-CTATTAAGCTGAGAAA
*
122559 CAGTAAGCTCTATTAAGCTG-GAAA
1 CGGTAAGCTCTATTAAGCTGAGAAA
*
122583 CGGTAAGCTTTATTAAGCT
1 CGGTAAGCTCTATTAAGCT
122602 AACAGTAAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 20 0.54
25 9 0.24
26 8 0.22
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (25 bp):
CGGTAAGCTCTATTAAGCTGAGAAA
Found at i:122611 original size:21 final size:22
Alignment explanation
Indices: 122557--122614 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 22
122547 TGAGCTGATA
122557 AACAGTAAGCTCTATTAAGCTGG
1 AACAGTAAGCTCTATTAAGCT-G
* *
122580 AAACGGTAAGCTTTATTAAGCT-
1 -AACAGTAAGCTCTATTAAGCTG
122602 AACAGTAAGCTCT
1 AACAGTAAGCTCT
122615 TTTGAATTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 11 0.37
24 19 0.63
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (22 bp):
AACAGTAAGCTCTATTAAGCTG
Found at i:124018 original size:17 final size:17
Alignment explanation
Indices: 123998--124049 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
123988 GTTCGCATAA
*
123998 AATAACAGTTCATGCAT
1 AATAACAGTTCATACAT
*
124015 AATAAAAGTTCATACA-
1 AATAACAGTTCATACAT
*
124031 ATATAACAGTTCATTCAT
1 A-ATAACAGTTCATACAT
124049 A
1 A
124050 CCACATCGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 1 0.03
17 27 0.93
18 1 0.03
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (17 bp):
AATAACAGTTCATACAT
Found at i:124957 original size:29 final size:28
Alignment explanation
Indices: 124896--124989 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 28
124886 CTACACGTAT
* *
124896 ATATATTGTATATATAATAAAACCATAGACGC
1 ATATATT-TATATATAACAAAACC---CACGC
*
124928 ATATATTTTATATATAACAAACCCCACGC
1 ATATA-TTTATATATAACAAAACCCACGC
*
124957 ATATA-TTATATATAACAAAACCCACAC
1 ATATATTTATATATAACAAAACCCACGC
124984 ATATAT
1 ATATAT
124990 AGGTATAATG
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
27 25 0.45
29 9 0.16
32 19 0.35
33 2 0.04
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (28 bp):
ATATATTTATATATAACAAAACCCACGC
Found at i:127198 original size:26 final size:26
Alignment explanation
Indices: 127169--127276 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
127159 TGGTACAAAT
127169 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
127195 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127221 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
127247 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
127273 TGAT
1 TGAT
127277 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:130009 original size:20 final size:20
Alignment explanation
Indices: 129963--130003 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
129953 GTGTATGAGA
*
129963 TTGATACGAGATGGTATAAG
1 TTGATACGAGATGGTACAAG
129983 TTGATACGAGATGGTACAAG
1 TTGATACGAGATGGTACAAG
130003 T
1 T
130004 CTATACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.29
Consensus pattern (20 bp):
TTGATACGAGATGGTACAAG
Found at i:134125 original size:25 final size:26
Alignment explanation
Indices: 134097--134167 Score: 81
Period size: 25 Copynumber: 2.6 Consensus size: 26
134087 TAATAAAACT
*
134097 AAAATCTAACCTAAAAA-GAAAAGAG
1 AAAACCTAACCTAAAAATGAAAAGAG
*
134122 AAAACCTAATCTAAAAATGAAAAGAAAAG
1 AAAACCTAACCTAAAAATGAAAAG---AG
134151 AAAACCTAACCCTAAAA
1 AAAACCTAA-CCTAAAA
134168 CTATGGAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
25 15 0.39
26 6 0.16
29 11 0.29
30 6 0.16
ACGTcount: A:0.63, C:0.15, G:0.08, T:0.13
Consensus pattern (26 bp):
AAAACCTAACCTAAAAATGAAAAGAG
Found at i:134167 original size:29 final size:31
Alignment explanation
Indices: 134110--134167 Score: 84
Period size: 29 Copynumber: 1.9 Consensus size: 31
134100 ATCTAACCTA
*
134110 AAAAGAAAAGAGAAAACCTAATCTAAAAATG
1 AAAAGAAAAGAGAAAACCTAACCTAAAAATG
134141 AAAAG-AAA-AGAAAACCTAACCCTAAAA
1 AAAAGAAAAGAGAAAACCTAA-CCTAAAA
134168 CTATGGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 11 0.44
30 9 0.36
31 5 0.20
ACGTcount: A:0.66, C:0.14, G:0.10, T:0.10
Consensus pattern (31 bp):
AAAAGAAAAGAGAAAACCTAACCTAAAAATG
Found at i:143734 original size:56 final size:56
Alignment explanation
Indices: 143672--143781 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 56
143662 GCATTTAAAA
** * * * *
143672 TTTGATTCATGCATTTTGAATATGTTATGTATCGTGCTCAATGTAGCATTCAATAT
1 TTTGATTCAAACATTTTGAATATGTTATATATCATACTCAATGCAGCATTCAATAT
* *
143728 TTTGATTCAAACATTTTGAATATGTTTTATATCATATTCAATGCAGCATTCAAT
1 TTTGATTCAAACATTTTGAATATGTTATATATCATACTCAATGCAGCATTCAAT
143782 GTTTCTGCTA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.45
Consensus pattern (56 bp):
TTTGATTCAAACATTTTGAATATGTTATATATCATACTCAATGCAGCATTCAATAT
Found at i:146824 original size:19 final size:19
Alignment explanation
Indices: 146800--146838 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
146790 TTCCCTAAGG
*
146800 TTGAAAATATAATGATTTT
1 TTGAAAAAATAATGATTTT
146819 TTGAAAAAATAATGATTTT
1 TTGAAAAAATAATGATTTT
146838 T
1 T
146839 CTCTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (19 bp):
TTGAAAAAATAATGATTTT
Found at i:147872 original size:38 final size:38
Alignment explanation
Indices: 147821--147896 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
147811 GTAAAATTGC
147821 CATAATATGAATTTTGGACTAAATTGAATAGAATGTAT
1 CATAATATGAATTTTGGACTAAATTGAATAGAATGTAT
147859 CATAATATGAATTTTGGACTAAATTGAATAGAATGTAT
1 CATAATATGAATTTTGGACTAAATTGAATAGAATGTAT
147897 TTTGAATGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.05, G:0.16, T:0.37
Consensus pattern (38 bp):
CATAATATGAATTTTGGACTAAATTGAATAGAATGTAT
Found at i:149698 original size:13 final size:13
Alignment explanation
Indices: 149680--149704 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
149670 CTCGGCAGGG
149680 ACACGCCCGTGTA
1 ACACGCCCGTGTA
149693 ACACGCCCGTGT
1 ACACGCCCGTGT
149705 GCAATTACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
ACACGCCCGTGTA
Found at i:163854 original size:102 final size:102
Alignment explanation
Indices: 163678--163879 Score: 404
Period size: 102 Copynumber: 2.0 Consensus size: 102
163668 GTTTCAAATG
163678 AAATCAAATAGAACACATTATGAATTCTGTACAATGAAAAATTTGATTCGTAGTGAAGAGTGGTC
1 AAATCAAATAGAACACATTATGAATTCTGTACAATGAAAAATTTGATTCGTAGTGAAGAGTGGTC
163743 AGGTTAGTCAAACAGTGAAACAGGGGAAACTTTAATT
66 AGGTTAGTCAAACAGTGAAACAGGGGAAACTTTAATT
163780 AAATCAAATAGAACACATTATGAATTCTGTACAATGAAAAATTTGATTCGTAGTGAAGAGTGGTC
1 AAATCAAATAGAACACATTATGAATTCTGTACAATGAAAAATTTGATTCGTAGTGAAGAGTGGTC
163845 AGGTTAGTCAAACAGTGAAACAGGGGAAACTTTAA
66 AGGTTAGTCAAACAGTGAAACAGGGGAAACTTTAA
163880 GAAAAATCTG
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 100 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.27
Consensus pattern (102 bp):
AAATCAAATAGAACACATTATGAATTCTGTACAATGAAAAATTTGATTCGTAGTGAAGAGTGGTC
AGGTTAGTCAAACAGTGAAACAGGGGAAACTTTAATT
Found at i:164420 original size:47 final size:47
Alignment explanation
Indices: 164366--164559 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
164356 TTAGGATTTT
** * *
164366 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
164413 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
164460 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
164507 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
164554 ATGTGA
1 ATGTGA
164560 AATATGTATG
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:164466 original size:22 final size:22
Alignment explanation
Indices: 164395--164466 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
164385 GTATATATGA
164395 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
164417 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
164442 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
164464 GAT
1 GAT
164467 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:164515 original size:25 final size:25
Alignment explanation
Indices: 164440--164515 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
164430 ATGCATATAT
164440 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
164465 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
164487 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
164512 GTGA
1 GTGA
164516 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:164693 original size:98 final size:96
Alignment explanation
Indices: 164530--164713 Score: 298
Period size: 98 Copynumber: 1.9 Consensus size: 96
164520 GAACATGCAT
*
164530 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
164595 ATGACTAATGTGAAATATGTATGAGATATGC
66 ATGACTAATGTGAAATATGTATGAGATATGC
*
164626 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAATC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
* *
164690 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGACTAATGTGAAATATGTA
164714 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 51 0.63
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGACTAATGTGAAATATGTATGAGATATGC
Found at i:164729 original size:50 final size:48
Alignment explanation
Indices: 164529--164713 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
164519 TGAACATGCA
164529 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
164577 TATATGTGGTAAAGCCGAATGACTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
164625 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
164675 TATATGTGGTAAATCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
164714 GGCGATGTGC
Statistics
Matches: 125, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 79 0.63
49 4 0.03
50 40 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:164912 original size:37 final size:37
Alignment explanation
Indices: 164862--164973 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
164852 AATGTATTCC
*
164862 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
*
164899 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
* *
164936 GGGTAAGACCCGATAACTTCGTGTGGAGATTTTGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
164973 G
1 G
164974 AGCTAAAGGT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCT
Found at i:166559 original size:40 final size:40
Alignment explanation
Indices: 166236--166547 Score: 401
Period size: 40 Copynumber: 7.8 Consensus size: 40
166226 GAGAATTGAG
* * *
166236 AGTGATATGTCCGGGCTAAATCCCGAAAAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
166276 AGTGATATATCTGGGCTAAATCCCGAAGAGCATTCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * * *
166316 GGTGATATATCTGGGCTAAATCCCGAAGAGCATCCATGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
166356 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
166396 AGTGATGTATCC-GGATGAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCT-AAGTCCCGAAGAGCATTCGTGCT
* * *
166436 AGTGATGTATCCGGACTAAGTACCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
166476 AGTGATATATCCGTGCTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
166516 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
166548 ATCATGCTGG
Statistics
Matches: 243, Mismatches: 27, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
39 3 0.01
40 238 0.98
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:173704 original size:23 final size:23
Alignment explanation
Indices: 173668--173743 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
173658 TACCGATATA
* * *
173668 TCAGCTCGTAAGAGTTTACTGTT
1 TCAGCTCATTAGAGCTTACTGTT
*
173691 TCAGCTCATTAGAGCTTACCGTT
1 TCAGCTCATTAGAGCTTACTGTT
*
173714 TTAGCTCA-TATGAGCTTACTGTT
1 TCAGCTCATTA-GAGCTTACTGTT
173737 ATCAGCT
1 -TCAGCT
173744 TAAGAGGAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 2 0.05
23 37 0.84
24 5 0.11
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.38
Consensus pattern (23 bp):
TCAGCTCATTAGAGCTTACTGTT
Found at i:186058 original size:29 final size:29
Alignment explanation
Indices: 185995--186062 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
185985 TAATCAACCG
*
185995 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
186024 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
186053 CGCACACTTA
1 CGCACACTTA
186063 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:186174 original size:174 final size:174
Alignment explanation
Indices: 185884--186211 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
185874 AACTCAAGGT
* * *
185884 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCGCCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
185949 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
186014 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
186058 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
186123 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
*
186188 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
186212 TGTACAATTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:186203 original size:29 final size:30
Alignment explanation
Indices: 186164--186242 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
186154 CTTAATAATC
186164 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
186194 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
*
186223 AACCCGGACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
186243 ATCTCATGAC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:187947 original size:22 final size:22
Alignment explanation
Indices: 187922--187997 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
187912 GAGATGAATA
187922 GTAAGCTCTATTGAGC-AGAACG
1 GTAAGCTCTATTGAGCTA-AACG
*
187944 GTAAGCTCTATTGAGCTAAATG
1 GTAAGCTCTATTGAGCTAAACG
* * **
187966 GTAAGCTCCAATGAGCTGAAATA
1 GTAAGCTCTATTGAGCT-AAACG
187989 GTAAGCTCT
1 GTAAGCTCT
187998 TACGAGCTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
22 34 0.72
23 13 0.28
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTAAACG
Found at i:188004 original size:23 final size:22
Alignment explanation
Indices: 187956--188006 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 22
187946 AAGCTCTATT
* *
187956 GAGCTAAATGGTAAGCTCCAAT
1 GAGCTAAATAGTAAGCTCCAAC
**
187978 GAGCTGAAATAGTAAGCTCTTAC
1 GAGCT-AAATAGTAAGCTCCAAC
188001 GAGCTA
1 GAGCTA
188007 TGGTGAATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (22 bp):
GAGCTAAATAGTAAGCTCCAAC
Found at i:195364 original size:23 final size:22
Alignment explanation
Indices: 195315--195413 Score: 128
Period size: 23 Copynumber: 4.4 Consensus size: 22
195305 GTCATGGTCG
*
195315 GTAAGCTCTTTTGAGCTGAACA
1 GTAAGCTCTATTGAGCTGAACA
*
195337 ATAAGCTCTATTGAGCTGAAACA
1 GTAAGCTCTATTGAGCTG-AACA
*
195360 GTAAGCTCTATTGAGCTGAACG
1 GTAAGCTCTATTGAGCTGAACA
*
195382 GTAAGCTCCAATT-AGCTGAAACA
1 GTAAGCT-CTATTGAGCTG-AACA
195405 GTAAGCTCT
1 GTAAGCTCT
195414 TACGAGCTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
22 32 0.48
23 35 0.52
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (22 bp):
GTAAGCTCTATTGAGCTGAACA
Found at i:195379 original size:45 final size:45
Alignment explanation
Indices: 195315--195413 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
195305 GTCATGGTCG
* *
195315 GTAAGCTCTTTTGAGCTGAACAATAAGCT-CTATTGAGCTGAAACA
1 GTAAGCTCTATTGAGCTGAACAATAAGCTCCAATT-AGCTGAAACA
**
195360 GTAAGCTCTATTGAGCTGAACGGTAAGCTCCAATTAGCTGAAACA
1 GTAAGCTCTATTGAGCTGAACAATAAGCTCCAATTAGCTGAAACA
195405 GTAAGCTCT
1 GTAAGCTCT
195414 TACGAGCTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 45 0.92
46 4 0.08
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (45 bp):
GTAAGCTCTATTGAGCTGAACAATAAGCTCCAATTAGCTGAAACA
Found at i:202081 original size:12 final size:12
Alignment explanation
Indices: 202066--202092 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
202056 ATGATCTTCG
202066 AAGATATTTATC
1 AAGATATTTATC
202078 AAGATATTTATC
1 AAGATATTTATC
202090 AAG
1 AAG
202093 TTTGCACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (12 bp):
AAGATATTTATC
Found at i:208035 original size:19 final size:21
Alignment explanation
Indices: 208011--208050 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
208001 ACACCTATTA
208011 TTTATTTTTA-CTTT-TTTAT
1 TTTATTTTTATCTTTATTTAT
208030 TTTATTTTTATCTTTATTTAT
1 TTTATTTTTATCTTTATTTAT
208051 ATTTTGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 4 0.21
21 5 0.26
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTATTTTTATCTTTATTTAT
Found at i:211388 original size:16 final size:16
Alignment explanation
Indices: 211319--211386 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
211309 TTTGGTTCGC
211319 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
211335 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
211351 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
211367 TGTAATGGAATAGATG
1 TGTATTGGATTAGAGG
211383 TGTA
1 TGTA
211387 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:211418 original size:45 final size:44
Alignment explanation
Indices: 211367--211457 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 44
211357 GGATTAGAGG
* *
211367 TGTAATGGAATAGATGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
211412 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
211456 TG
1 TG
211458 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 18 0.45
45 22 0.55
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:211630 original size:25 final size:25
Alignment explanation
Indices: 211598--211652 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
211588 TAATTTAATC
*
211598 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
211622 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
211647 ATATAT
1 ATATAT
211653 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:211959 original size:25 final size:26
Alignment explanation
Indices: 211920--211970 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
211910 TATATGTAAT
*
211920 ATTATTAAAATAATATTTTTATTTTA
1 ATTATTAAAATAATATTTTTAATTTA
*
211946 ATTATTTAAA-AATATTTTTAATTTA
1 ATTATTAAAATAATATTTTTAATTTA
211971 TGCGATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:211964 original size:26 final size:26
Alignment explanation
Indices: 211920--211969 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
211910 TATATGTAAT
*
211920 ATTATTAAAATAATATTTTTATTTTA
1 ATTATTAAAATAATATTTTAATTTTA
*
211946 ATTATTTAAA-AATATTTTTAATTT
1 ATTATTAAAATAATA-TTTTAATTT
211970 ATGCGATGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTAATTTTA
Found at i:216663 original size:48 final size:48
Alignment explanation
Indices: 216592--216686 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
216582 CCCTAATCTA
216592 AAGTTAGTTAAAAACCCTGAAGCGAGTTAATCTTCATGATTTGTTTAG
1 AAGTTAGTTAAAAACCCTGAAGCGAGTTAATCTTCATGATTTGTTTAG
* *
216640 AAGTTAGTTAAAAACCCTGAAGCGGGTTAATCTTCCTGATTTGTTTA
1 AAGTTAGTTAAAAACCCTGAAGCGAGTTAATCTTCATGATTTGTTTA
216687 ATGATTTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.36
Consensus pattern (48 bp):
AAGTTAGTTAAAAACCCTGAAGCGAGTTAATCTTCATGATTTGTTTAG
Found at i:221175 original size:13 final size:13
Alignment explanation
Indices: 221157--221196 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
221147 GAAGTAATCG
221157 CACACGGGCGTGT
1 CACACGGGCGTGT
*
221170 CACACGGGCTTGT
1 CACACGGGCGTGT
221183 CACACGGGCGTGT
1 CACACGGGCGTGT
221196 C
1 C
221197 CTTGCCGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.15, C:0.33, G:0.35, T:0.17
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:223696 original size:33 final size:33
Alignment explanation
Indices: 223654--223718 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
223644 ATAGAGTTAT
*
223654 GTTTGTCATCGTCCTCAACCCTATGTCAGCTAG
1 GTTTGTCATCGTCCTCAACCCTAGGTCAGCTAG
*
223687 GTTTTTCATCGTCCTCAACCCTAGGTCAGCTA
1 GTTTGTCATCGTCCTCAACCCTAGGTCAGCTA
223719 ACACTCTCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.18, C:0.31, G:0.17, T:0.34
Consensus pattern (33 bp):
GTTTGTCATCGTCCTCAACCCTAGGTCAGCTAG
Found at i:237108 original size:18 final size:18
Alignment explanation
Indices: 237072--237109 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
237062 TCTTAATGCT
237072 ATGTGTTGAGCTATATGTA
1 ATGTGTTGA-CTATATGTA
237091 ATGTGTTGA-TAGTATGTA
1 ATGTGTTGACTA-TATGTA
237109 A
1 A
237110 CTGACTAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.11
18 7 0.39
19 9 0.50
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (18 bp):
ATGTGTTGACTATATGTA
Found at i:246913 original size:29 final size:29
Alignment explanation
Indices: 246847--246970 Score: 162
Period size: 29 Copynumber: 4.3 Consensus size: 29
246837 AAGTTTATAT
* *
246847 ACATGCATATGGCCC-CTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
246874 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* * * *
246903 ATATTCGTATGGCCAATTGGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
246932 ACATTCATAAGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
246961 ACATTCATAT
1 ACATTCATAT
246971 ACATGCTTTC
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 13 0.16
28 7 0.09
29 61 0.75
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:255370 original size:40 final size:40
Alignment explanation
Indices: 255311--255528 Score: 255
Period size: 40 Copynumber: 5.5 Consensus size: 40
255301 TGGATGATAA
* * * *
255311 CCGGGATAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
255351 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
255391 CCGAGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
255431 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
255471 CCGGGCTATA-TCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTA-AGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
255511 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
255529 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 16 0.10
40 138 0.88
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:260739 original size:19 final size:19
Alignment explanation
Indices: 260717--260754 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
260707 AGCTATCTGG
260717 TCATTTTCTTACTATGTAT
1 TCATTTTCTTACTATGTAT
260736 TCATTTTCTTACTATGTAT
1 TCATTTTCTTACTATGTAT
260755 CTGTAACAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (19 bp):
TCATTTTCTTACTATGTAT
Found at i:263435 original size:40 final size:40
Alignment explanation
Indices: 263335--263506 Score: 213
Period size: 40 Copynumber: 4.3 Consensus size: 40
263325 GCTCCTCGTT
* * *
263335 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
263375 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
263414 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
263454 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
263494 CAAATGCCTTCGG
1 CAAATGCCTTCGG
263507 ATCTTAGTCC
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:263501 original size:80 final size:79
Alignment explanation
Indices: 263335--263559 Score: 231
Period size: 80 Copynumber: 2.8 Consensus size: 79
263325 GCTCCTCGTT
* * * * * *
263335 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGGCTTAACCCGGA
263399 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* *
263414 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGGCTTAACCCGG
** *
263479 AATTT-GTATCTCGCA
64 AATTTAACAACTCGCA
* * * * *
263494 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGGCTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGGCTTAACCCG
263558 GA
63 GA
263560 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGGCTTAACCCGGAA
TTTAACAACTCGCA
Found at i:263568 original size:41 final size:41
Alignment explanation
Indices: 263491--263568 Score: 95
Period size: 40 Copynumber: 1.9 Consensus size: 41
263481 TTTGTATCTC
* * * *
263491 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGAGCTTAGCCCGGACACATTCACTTA
*
263532 GCACAAA-GCCTTCGGGGCTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTCGGAGCTTAGCCCGGACA-CATTCA
263569 ATTAATCATG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 19 0.61
41 12 0.39
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGAGCTTAGCCCGGACACATTCACTTA
Found at i:263877 original size:73 final size:73
Alignment explanation
Indices: 263758--263903 Score: 274
Period size: 73 Copynumber: 2.0 Consensus size: 73
263748 CGAACGATTT
*
263758 CGCTAGCTATTCAACCACTTTTTCCTTCCCTTTATCGGATTTATTTCCCCTTTGCTCTTGAGCTT
1 CGCTAACTATTCAACCACTTTTTCCTTCCCTTTATCGGATTTATTTCCCCTTTGCTCTTGAGCTT
263823 AATTAAAC
66 AATTAAAC
*
263831 CGCTAACTATTCGACCACTTTTTCCTTCCCTTTATCGGATTTATTTCCCCTTTGCTCTTGAGCTT
1 CGCTAACTATTCAACCACTTTTTCCTTCCCTTTATCGGATTTATTTCCCCTTTGCTCTTGAGCTT
263896 AATTAAAC
66 AATTAAAC
263904 AAATAAATTG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.42
Consensus pattern (73 bp):
CGCTAACTATTCAACCACTTTTTCCTTCCCTTTATCGGATTTATTTCCCCTTTGCTCTTGAGCTT
AATTAAAC
Found at i:267032 original size:53 final size:53
Alignment explanation
Indices: 266850--267056 Score: 173
Period size: 53 Copynumber: 3.8 Consensus size: 53
266840 ATTAGGGTGT
* * * * * *
266850 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGG-AAGGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAA-G-TTCATAAGGC
* * * * * * * * *
266904 AAGGAAATCATGTAAGACCTTGTCAAGACATGGCAGTGATAAACTACTATAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * *
266959 AAAGATCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* * *
267012 AAGGATACCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
267057 TAAAAACGAA
Statistics
Matches: 116, Mismatches: 34, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
53 44 0.38
54 34 0.29
55 36 0.31
56 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:276184 original size:22 final size:22
Alignment explanation
Indices: 276087--276185 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
276077 CGAAGTTCTT
*
276087 TAAAT-AGTAGTCACCGAAGTG
1 TAAATCAGTAGGCACCGAAGTG
** * *
276108 TTGATCAATAGGCACCAAAGTG
1 TAAATCAGTAGGCACCGAAGTG
* *
276130 TAAAGCAGTAAGCACC-AACGTG
1 TAAATCAGTAGGCACCGAA-GTG
* *
276152 TGAATCAGTAGGCACCGTAGTG
1 TAAATCAGTAGGCACCGAAGTG
276174 TAAATCAGTAGG
1 TAAATCAGTAGG
276186 TATTATAATG
Statistics
Matches: 60, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
21 5 0.08
22 54 0.90
23 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (22 bp):
TAAATCAGTAGGCACCGAAGTG
Found at i:280093 original size:47 final size:47
Alignment explanation
Indices: 279971--280094 Score: 162
Period size: 47 Copynumber: 2.6 Consensus size: 47
279961 TTAGGATTTT
* * *
279971 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAG
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCAGAATGGCAG
* *
280018 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA-
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCAGAATGG-CAG
*
280065 ATGTGATGAACGTGGAA-GTGTATATATGTG
1 ATGTGATGAATGT-GAACGTGTATATATGTG
280095 GTAAAGCCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 62 0.93
48 5 0.07
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACGTGTATATATGTGATAAGGCAGAATGGCAG
Found at i:280108 original size:47 final size:47
Alignment explanation
Indices: 279971--280114 Score: 150
Period size: 47 Copynumber: 3.1 Consensus size: 47
279961 TTAGGATTTT
* * * *
279971 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGG-CA
1 ATGTGATGAATGTGAACGTGTATATATGTGATAAAGCCAAATGGCCA
* * *
280017 GATGTGATGAATGTGAACATGCATATATGTGAT-AAGGCAGAATGGCCA
1 -ATGTGATGAATGTGAACGTGTATATATGTGATAAAGCCA-AATGGCCA
* * *
280065 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCAAATGGCTA
1 ATGTGATGAATGT-GAACGTGTATATATGTGATAAAGCCAAATGGCCA
280112 ATG
1 ATG
280115 CGAAATGTGT
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
46 3 0.04
47 67 0.84
48 10 0.12
ACGTcount: A:0.35, C:0.08, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACGTGTATATATGTGATAAAGCCAAATGGCCA
Found at i:280144 original size:46 final size:46
Alignment explanation
Indices: 280088--280224 Score: 229
Period size: 46 Copynumber: 3.0 Consensus size: 46
280078 GGAAGTGTAT
280088 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
280134 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
* *
280180 ATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATG
280225 TGTATATATA
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:282835 original size:14 final size:15
Alignment explanation
Indices: 282816--282846 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
282806 ACTAAAGACT
282816 AAACTTATAAAG-AA
1 AAACTTATAAAGTAA
282830 AAACTTATAAAGTAA
1 AAACTTATAAAGTAA
282845 AA
1 AA
282847 TCTGTCCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (15 bp):
AAACTTATAAAGTAA
Found at i:287077 original size:71 final size:71
Alignment explanation
Indices: 286961--287245 Score: 552
Period size: 71 Copynumber: 4.0 Consensus size: 71
286951 TCTAAGTCGG
*
286961 ATATGGGGTGTTACAAAAATCAAGTTGAAAAAATTAGTCAAGTAAATGTTTCTTTCTTTTTTTTA
1 ATATGGGGTGTTACAAAAATCAAATTGAAAAAATTAGTCAAGTAAATGTTTCTTTCTTTTTTTTA
287026 AAATTT
66 AAATTT
287032 ATATGGGGTGTTACAAAAATCAAATTGAAAAAATTAGTCAAGTAAATGTTTCTTTCTTTTTTTTA
1 ATATGGGGTGTTACAAAAATCAAATTGAAAAAATTAGTCAAGTAAATGTTTCTTTCTTTTTTTTA
287097 AAATTT
66 AAATTT
287103 ATATGGGGTGTTACAAAAATCAAATTGAAAAAATTAGTCAAGTAAATGTTTCTTTCTTTTTTTTA
1 ATATGGGGTGTTACAAAAATCAAATTGAAAAAATTAGTCAAGTAAATGTTTCTTTCTTTTTTTTA
287168 AAATTT
66 AAATTT
*
287174 ATATGGGGTGTTACAAAAATCAAATTGAAAAAATTAGTCAAGTAAATGTTTCTTTCTTTTTTTTT
1 ATATGGGGTGTTACAAAAATCAAATTGAAAAAATTAGTCAAGTAAATGTTTCTTTCTTTTTTTTA
287239 AAATTT
66 AAATTT
287245 A
1 A
287246 GGTATTAATT
Statistics
Matches: 212, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 212 1.00
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (71 bp):
ATATGGGGTGTTACAAAAATCAAATTGAAAAAATTAGTCAAGTAAATGTTTCTTTCTTTTTTTTA
AAATTT
Found at i:287686 original size:16 final size:17
Alignment explanation
Indices: 287652--287697 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
287642 TATTATCAAA
*
287652 TATTAAT-ATAAATATT
1 TATTAATAATAAAGATT
287668 TATTAATAATAAAGA-T
1 TATTAATAATAAAGATT
*
287684 TATTGAAAAATAAA
1 TATT-AATAATAAA
287698 ATATATCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
TATTAATAATAAAGATT
Found at i:291168 original size:59 final size:59
Alignment explanation
Indices: 291099--291986 Score: 1722
Period size: 59 Copynumber: 15.0 Consensus size: 59
291089 TTAACTCTAA
*
291099 AAATTAAAAAATTTATTATTTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTA-TAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291159 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291218 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291277 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291336 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291395 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291454 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291513 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291572 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291631 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291690 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291749 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291808 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291867 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
* * * *
291926 AAATTTAAAAATTTTTAATTTTTTTAAATTCATTTTTAACTCTTTATAACCTATCAACT
1 AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
291985 AA
1 AA
291987 CTCATGTGAG
Statistics
Matches: 823, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
59 808 0.98
60 15 0.02
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.45
Consensus pattern (59 bp):
AAATTAAAAAATTTATAATTTTTTTAAATTCATTTTTAACCCTTTATAACCCATCAACT
Found at i:295801 original size:43 final size:43
Alignment explanation
Indices: 295753--295835 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
295743 CACAGCCATG
* *
295753 TGGCCGGACGGTGTAACTCACACGGCTAAGACACACGCCCGTA
1 TGGCCGAACAGTGTAACTCACACGGCTAAGACACACGCCCGTA
* * * * *
295796 TGGCCGAACAGTGTGACTTACATGGCTGAGACACATGCCC
1 TGGCCGAACAGTGTAACTCACACGGCTAAGACACACGCCC
295836 ATGTTTTTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Consensus pattern (43 bp):
TGGCCGAACAGTGTAACTCACACGGCTAAGACACACGCCCGTA
Found at i:296994 original size:35 final size:35
Alignment explanation
Indices: 296910--296994 Score: 89
Period size: 35 Copynumber: 2.4 Consensus size: 35
296900 CCAATTCCTG
* *
296910 CAAAACACACCAAATGCTCATACGAGCCAGTCCAAC
1 CAAAACACACC-AATGCTCATAAGAGCCAGGCCAAC
** ** **
296946 GGAAACATGCCAATGCTCATAAGAGTTAGGCCAAC
1 CAAAACACACCAATGCTCATAAGAGCCAGGCCAAC
296981 CAAAACACACCAAT
1 CAAAACACACCAAT
296995 CAGATAGTAT
Statistics
Matches: 37, Mismatches: 12, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
35 30 0.81
36 7 0.19
ACGTcount: A:0.42, C:0.31, G:0.14, T:0.13
Consensus pattern (35 bp):
CAAAACACACCAATGCTCATAAGAGCCAGGCCAAC
Found at i:299398 original size:19 final size:18
Alignment explanation
Indices: 299355--299421 Score: 75
Period size: 17 Copynumber: 3.7 Consensus size: 18
299345 TGACGCAAAT
*
299355 AGTAAAAAAAAGCATAAAC
1 AGTAAAAAAAAGC-TAAAA
299374 AG--AAAAAAAGCTGAAAA
1 AGTAAAAAAAAGCT-AAAA
299391 AGTAAAAAAAAAGCTAAAA
1 AGT-AAAAAAAAGCTAAAA
*
299410 AATAAAAAAAAG
1 AGTAAAAAAAAG
299422 GTTACAGGCG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
16 1 0.02
17 14 0.33
18 9 0.21
19 8 0.19
20 10 0.24
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.09
Consensus pattern (18 bp):
AGTAAAAAAAAGCTAAAA
Found at i:299399 original size:20 final size:19
Alignment explanation
Indices: 299376--299420 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
299366 GCATAAACAG
*
299376 AAAAAAAGCTGAAAAAGTAA
1 AAAAAAAGCT-AAAAAATAA
299396 AAAAAAAGCTAAAAAATAA
1 AAAAAAAGCTAAAAAATAA
299415 AAAAAA
1 AAAAAA
299421 GGTTACAGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.78, C:0.04, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAAAAAGCTAAAAAATAA
Found at i:299606 original size:16 final size:15
Alignment explanation
Indices: 299585--299621 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
299575 TGATTTCGTA
299585 AAGAAAGAAGGAGAAG
1 AAGAAAGAA-GAGAAG
299601 AAGAAAAGAAGAGAAG
1 AAG-AAAGAAGAGAAG
299617 AAGAA
1 AAGAA
299622 GGAGATGGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 2 0.10
16 12 0.60
17 6 0.30
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
AAGAAAGAAGAGAAG
Found at i:301207 original size:29 final size:29
Alignment explanation
Indices: 301147--301239 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
301137 GTGAGCATGA
* * *
301147 ATAT-AAGGTGATTTAGGCCTAACAGGCT
1 ATATAAAGGTGATTTGGGCCTAATAGGCC
*
301175 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATAGGCC
* ** *
301204 ATATGAATATGAATTGGGCCTAATAGGCC
1 ATATAAAGGTGATTTGGGCCTAATAGGCC
301233 ATATAAA
1 ATATAAA
301240 TGAGATTGGG
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 4 0.07
29 50 0.93
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATAGGCC
Found at i:308532 original size:17 final size:18
Alignment explanation
Indices: 308499--308534 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
308489 ACCGGGCTAG
308499 AATGGGCTAAATGGGCCC
1 AATGGGCTAAATGGGCCC
*
308517 AATGGGCT-ATTGGGCCC
1 AATGGGCTAAATGGGCCC
308534 A
1 A
308535 TAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.19
Consensus pattern (18 bp):
AATGGGCTAAATGGGCCC
Found at i:308624 original size:28 final size:29
Alignment explanation
Indices: 308593--308653 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
308583 GTGAGCATGA
*
308593 ATAT-AAGGTGATTTGAGCCTAACGGGTC
1 ATATAAAGGTAATTTGAGCCTAACGGGTC
* * *
308621 ATATAAAGGTAATTTGGGCCTAATGGGTT
1 ATATAAAGGTAATTTGAGCCTAACGGGTC
308650 ATAT
1 ATAT
308654 GAATATGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 4 0.14
29 24 0.86
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (29 bp):
ATATAAAGGTAATTTGAGCCTAACGGGTC
Found at i:308666 original size:29 final size:28
Alignment explanation
Indices: 308634--308710 Score: 86
Period size: 28 Copynumber: 2.7 Consensus size: 28
308624 TAAAGGTAAT
**
308634 TTGGGCCTAATGGGTTATATGAATATGA-A
1 TTGGGCCTAATGGGCCATAT-AA-ATGAGA
*
308663 TTGGGCCTGATGGGCCATATAAATGAGA
1 TTGGGCCTAATGGGCCATATAAATGAGA
308691 TTGGGCC-AAGTGGGCCATAT
1 TTGGGCCTAA-TGGGCCATAT
308711 GCATGTATGT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 5 0.12
28 20 0.48
29 17 0.40
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATAAATGAGA
Found at i:310401 original size:15 final size:15
Alignment explanation
Indices: 310381--310433 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
310371 AAAAATAGTA
310381 TAAAAAATAAAATAC
1 TAAAAAATAAAATAC
*** *
310396 TAAAAAATATCTTAA
1 TAAAAAATAAAATAC
310411 TAAAAAAATAAAATAC
1 T-AAAAAATAAAATAC
310427 TAAAAAA
1 TAAAAAA
310434 ATAACTTTTT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
15 18 0.62
16 11 0.38
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.23
Consensus pattern (15 bp):
TAAAAAATAAAATAC
Found at i:310430 original size:16 final size:16
Alignment explanation
Indices: 310372--310437 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
310362 ACCTTTTACA
*
310372 AAAATAGTATAAAAAAT
1 AAAATACTA-AAAAAAT
310389 AAAATACT-AAAAAAT
1 AAAATACTAAAAAAAT
*** *
310404 ATCTTAATAAAAAAAT
1 AAAATACTAAAAAAAT
310420 AAAATACTAAAAAAAT
1 AAAATACTAAAAAAAT
310436 AA
1 AA
310438 CTTTTTTGGA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
15 11 0.28
16 21 0.54
17 7 0.18
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.23
Consensus pattern (16 bp):
AAAATACTAAAAAAAT
Found at i:310646 original size:25 final size:26
Alignment explanation
Indices: 310618--310679 Score: 65
Period size: 30 Copynumber: 2.3 Consensus size: 26
310608 ATTATGTACT
310618 AAAATAATA-TAAAAAATAAAATAC-G
1 AAAATAATATTAAAAAATAAAAT-CTG
310643 AAAATAGTATATTTTAAAAAATAAAATCTG
1 AAAATA--ATA--TTAAAAAATAAAATCTG
310673 AAAATAA
1 AAAATAA
310680 AAAAATACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
25 6 0.19
27 3 0.10
28 1 0.03
29 1 0.03
30 20 0.65
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (26 bp):
AAAATAATATTAAAAAATAAAATCTG
Found at i:310784 original size:13 final size:14
Alignment explanation
Indices: 310766--310803 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
310756 ATTATGTACT
310766 AAAATAATATA-AA
1 AAAATAATATACAA
*
310779 AAAATAAAATACAA
1 AAAATAATATACAA
310793 AAAATAATATA
1 AAAATAATATA
310804 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATAATATACAA
Found at i:310796 original size:14 final size:13
Alignment explanation
Indices: 310766--310799 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
310756 ATTATGTACT
*
310766 AAAATAATATAAA
1 AAAATAAAATAAA
310779 AAAATAAAATACAA
1 AAAATAAAATA-AA
310793 AAAATAA
1 AAAATAA
310800 TATATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:310876 original size:149 final size:150
Alignment explanation
Indices: 310471--311151 Score: 924
Period size: 148 Copynumber: 4.6 Consensus size: 150
310461 GAGGGGTTTT
* * *
310471 TACTAAAA-AATAT-AAAAATAAAATACGAAAATAGTATATTCT--AAAA-AAAATTTAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
* * *
310531 AAAAAATATGAACAAAGTGCCAAAATCAGGCTTATTTATTAAATTAATATAAAAAACA-T-AAAT
66 AAAAAATACGAACAAAGTGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAAT
310594 AATACATTTGAAACATTATG
131 AATACATTTGAAACATTATG
310614 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
* * * * * *
310679 AAAAAATACAAACAAAGTACCAAAATCAAGGCTATTTATTAAATTAATATAAAAAA-A-TTAAAT
66 AAAAAATACGAACAAAGTGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAAT
*
310742 AATACATTTGAAATATTATG
131 AATACATTTGAAACATTATG
* * *
310762 TACTAAAATAATATAAAAAAATAAAATACAAAAAATAATATATTTTAAAAAATAAAATCCGAAAA
1 TACTAAAATAATAT-AAAAAATAAAATAC-GAAAATAGTATATTTTAAAAAATAAAATCTGAAAA
* *
310827 T-AAAAAATACGATCAAAGTGTCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAA
64 TAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAA
* *
310891 ATAATATATTTGAAACATTATT
129 ATAATACATTTGAAACATTATG
* * * *
310913 TACTAAAATAATATAAAAAATAGAATACGAAAATAATATATTTTAAAAAATAAAATCCG----GA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
* * *
310974 AAAAAATACTAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAATAATACTAAAA
66 AAAAAATACGAACAAAGTGCCAAAATCAGGGTTATTTACTAAATTAATATAAAA-AACACTAAAA
*
311039 TAATACATTTGAAACATTATA
130 TAATACATTTGAAACATTATG
* * * *
311060 TACTTAAATAATAT-AAAAATTAAATACGAAAATAGTATGTTTTAAAAAGTAAAATCTGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
* *
311124 AAAAAATACCAACAAAGGGCCAAAATCA
66 AAAAAATACGAACAAAGTGCCAAAATCA
311152 CCCAACAAAA
Statistics
Matches: 479, Mismatches: 43, Indels: 25
0.88 0.08 0.05
Matches are distributed among these distances:
143 8 0.02
144 5 0.01
145 28 0.06
146 88 0.18
147 47 0.10
148 99 0.21
149 93 0.19
150 75 0.16
151 36 0.08
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (150 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATA
AAAAAATACGAACAAAGTGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAACACTAAAAT
AATACATTTGAAACATTATG
Found at i:311037 original size:11 final size:11
Alignment explanation
Indices: 311010--311044 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
311000 CAGGGTTATT
*
311010 TACTAAATTAA
1 TACTAAAATAA
311021 TA-TAAAATAA
1 TACTAAAATAA
311031 TACTAAAATAA
1 TACTAAAATAA
311042 TAC
1 TAC
311045 ATTTGAAACA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.31
Consensus pattern (11 bp):
TACTAAAATAA
Found at i:313714 original size:30 final size:30
Alignment explanation
Indices: 313657--313714 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
313647 TTTTCGAACA
*
313657 TAGGGGCAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
*
313687 TAGGGGCAAAATGGTCATTTTATCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
313715 ATGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:314211 original size:46 final size:46
Alignment explanation
Indices: 314058--314273 Score: 197
Period size: 46 Copynumber: 4.6 Consensus size: 46
314048 TTCGTGGGCT
* * * *
314058 AGTGTAAGACATGTCTGGGACATGCATCGACCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GACGAGAGCC
* * * *
314104 AGTGTAAGACCAAGTCTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGAGAGCC
314152 AGTGTAAGA-ATGTCTGGGACATGCATCGGCCTCGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-AGAGCC
* ** * * * *
314197 AATGTAAGACATGTCTCAGACATGCATCGG-CTACGTGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGAGAGCC
*
314243 AGTGTAAGACCATGTCTGAGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
314274 ACACCTTACC
Statistics
Matches: 141, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
45 29 0.21
46 56 0.40
47 26 0.18
48 29 0.21
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGAGAGCC
Found at i:319930 original size:35 final size:35
Alignment explanation
Indices: 319891--319961 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
319881 AACATTTATC
319891 TTTACATTTAACCACTTAAATTCAGTTATACGTTT
1 TTTACATTTAACCACTTAAATTCAGTTATACGTTT
319926 TTTACATTTAACCACTTAAATTCAGTTATACGTTT
1 TTTACATTTAACCACTTAAATTCAGTTATACGTTT
319961 T
1 T
319962 CTTCCATCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (35 bp):
TTTACATTTAACCACTTAAATTCAGTTATACGTTT
Found at i:321462 original size:19 final size:19
Alignment explanation
Indices: 321419--321459 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
321409 TTTGACTTGA
*
321419 TTAATTTTATTTATTATTT
1 TTAATTTAATTTATTATTT
321438 TTAATTTAATTTATT-TTT
1 TTAATTTAATTTATTATTT
321456 TTAA
1 TTAA
321460 ATTGAATAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTAATTTAATTTATTATTT
Found at i:321723 original size:23 final size:24
Alignment explanation
Indices: 321687--321732 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
321677 ATTTTTTAGA
321687 ATTTTTGAATTTTTTTAAAAAATG
1 ATTTTTGAATTTTTTTAAAAAATG
*
321711 ATTTTTTAA-TTTTTTAAAAAAT
1 ATTTTTGAATTTTTTTAAAAAAT
321733 ACTTTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTTTTGAATTTTTTTAAAAAATG
Found at i:321745 original size:23 final size:24
Alignment explanation
Indices: 321690--321746 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
321680 TTTTAGAATT
*
321690 TTTGAAT-TTTTTTAAAAAATGAT
1 TTTGAATATTTTTTAAAAAATGAC
**
321713 TTTTTA-ATTTTTTAAAAAAT-AC
1 TTTGAATATTTTTTAAAAAATGAC
321735 TTTGAATATTTT
1 TTTGAATATTTT
321747 GTAATTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
22 5 0.19
23 22 0.81
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (24 bp):
TTTGAATATTTTTTAAAAAATGAC
Found at i:327845 original size:13 final size:13
Alignment explanation
Indices: 327827--327852 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
327817 ATGATTATTG
327827 AGATGGTTATGAA
1 AGATGGTTATGAA
327840 AGATGGTTATGAA
1 AGATGGTTATGAA
327853 TTGAATAATT
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:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
AGATGGTTATGAA
Found at i:330869 original size:26 final size:26
Alignment explanation
Indices: 330817--330869 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
330807 TATATCTTCA
*
330817 AAAAAAAATGATAGAAAATATATTTG
1 AAAAAAAATGATAGAAAATATAATTG
*
330843 AAAAAAATTGATATGAAAAT-TAATTG
1 AAAAAAAATGATA-GAAAATATAATTG
330869 A
1 A
330870 GTTTTTAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (26 bp):
AAAAAAAATGATAGAAAATATAATTG
Found at i:332147 original size:17 final size:17
Alignment explanation
Indices: 332110--332158 Score: 59
Period size: 16 Copynumber: 3.0 Consensus size: 17
332100 AAAGTGATAA
332110 AAAAAGTACAAAAAAAT
1 AAAAAGTACAAAAAAAT
332127 -AAAA-TACGAAAAAAAT
1 AAAAAGTAC-AAAAAAAT
*
332143 AAAAAATA-AAAAAAAT
1 AAAAAGTACAAAAAAAT
332159 TCCGTGGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 3 0.10
16 20 0.69
17 4 0.14
18 2 0.07
ACGTcount: A:0.80, C:0.04, G:0.04, T:0.12
Consensus pattern (17 bp):
AAAAAGTACAAAAAAAT
Done.