Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 132 of 292
Found at i:39288126 original size:36 final size:35
Alignment explanation
Indices: 39288059--39288126 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
39288049 CTATTTTATG
*
39288059 TATATATCTTTAATATTATATTATTTATATATATA
1 TATATATCTTTAATATTATATTATGTATATATATA
* * *
39288094 TATATATTTTTACATGTTATCTTATGTATATAT
1 TATATATCTTTA-ATATTATATTATGTATATAT
39288127 CTTAACTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 11 0.39
36 17 0.61
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.57
Consensus pattern (35 bp):
TATATATCTTTAATATTATATTATGTATATATATA
Found at i:39288137 original size:58 final size:58
Alignment explanation
Indices: 39288030--39288140 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 58
39288020 CTATATTACG
* *
39288030 TATATATATATATTTTATACTATTTTATGTATATATCTTTAATATTATATTATTTATA
1 TATATATATATATTTTATACTATCTTATGTATATATCTTTAATACTATATTATTTATA
39288088 TATATATATATATTTT-TACATGTTATCTTATGTATATATC-TT-A-ACTATATTAT
1 TATATATATATATTTTATAC----TATCTTATGTATATATCTTTAATACTATATTAT
39288141 GTATGTATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
57 3 0.06
58 25 0.53
59 1 0.02
60 2 0.04
61 16 0.34
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (58 bp):
TATATATATATATTTTATACTATCTTATGTATATATCTTTAATACTATATTATTTATA
Found at i:39288141 original size:22 final size:24
Alignment explanation
Indices: 39288115--39288173 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
39288105 ACATGTTATC
39288115 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
39288137 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
39288162 TTATGTACATAT
1 TTATGTATATAT
39288174 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:39288163 original size:25 final size:25
Alignment explanation
Indices: 39288131--39288179 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
39288121 ATATATCTTA
**
39288131 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
39288156 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
39288180 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:39288358 original size:16 final size:15
Alignment explanation
Indices: 39288334--39288381 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
39288324 TAATTATTAT
*
39288334 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
39288350 TATTTTAATATTTTA
1 TATTTTAATATTTTA
39288365 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
39288381 T
1 T
39288382 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:39288369 original size:7 final size:8
Alignment explanation
Indices: 39288334--39288385 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
39288324 TAATTATTAT
*
39288334 TATTCTAA
1 TATTTTAA
*
39288342 TATTTTGA
1 TATTTTAA
39288350 TATTTTAA
1 TATTTTAA
39288358 TATTTT-A
1 TATTTTAA
39288365 TATTTTATA
1 TATTTTA-A
*
39288374 TATTTTAT
1 TATTTTAA
39288382 TATT
1 TATT
39288386 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:39289921 original size:12 final size:12
Alignment explanation
Indices: 39289904--39289939 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
39289894 ATTCATTTGA
39289904 CATTCATGCATT
1 CATTCATGCATT
39289916 CATTCATGCATT
1 CATTCATGCATT
* *
39289928 TATTCATACATT
1 CATTCATGCATT
39289940 GCATATCCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.44
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:39297356 original size:73 final size:73
Alignment explanation
Indices: 39297270--39297757 Score: 613
Period size: 73 Copynumber: 6.5 Consensus size: 73
39297260 TGATTTTCAA
** *
39297270 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTTAATTTA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
* *
39297335 TGTTCATA
66 TGTTTATC
* * * *
39297343 AAAAATTAGCTCATATTGCAAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGT-ATTTTCAA
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTT-AA
39297406 TTTCTGTTTTCAATTTC
62 TTTCTG-TTT--A--TC
* *
39297423 TGTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAA
1 -----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA
*
39297488 ATTTCTGTTTGTC
61 ATTTCTGTTTATC
* * *
39297501 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
*
39297566 TGTTTGTC
66 TGTTTATC
*
39297574 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTT-AATTT
*
39297639 CTGTTTTTC
65 CTGTTTATC
* * *
39297648 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
*
39297712 TGTTTGTC
66 TGTTTATC
*
39297720 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
39297758 GGCTCACATG
Statistics
Matches: 367, Mismatches: 31, Indels: 35
0.85 0.07 0.08
Matches are distributed among these distances:
72 45 0.12
73 163 0.44
74 72 0.20
75 19 0.05
76 2 0.01
78 3 0.01
80 1 0.00
82 3 0.01
83 20 0.05
84 4 0.01
85 33 0.09
86 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTC
TGTTTATC
Found at i:39297417 original size:13 final size:13
Alignment explanation
Indices: 39297399--39297428 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
39297389 CGCTGAGGTA
39297399 TTTTCAATTTCTG
1 TTTTCAATTTCTG
39297412 TTTTCAATTTCTG
1 TTTTCAATTTCTG
39297425 TTTT
1 TTTT
39297429 AAAATCAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:39297720 original size:146 final size:146
Alignment explanation
Indices: 39297413--39297796 Score: 598
Period size: 146 Copynumber: 2.6 Consensus size: 146
39297403 CAATTTCTGT
39297413 TTTCAATTTCTGTTT-T--AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
39297475 TGAGGTAATTTAAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCA
66 TGAGGTATTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCA
39297540 AGACACGCTGAGGTAA
131 AGACACGCTGAGGTAA
39297556 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
* *
39297621 TGAGGTATTTTTAAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTC
66 TGAGGTA-TTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC
**
39297686 GGGACACGCTGAGGTAA
130 AAGACACGCTGAGGTAA
*
39297703 TTTCAATTT-TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACA
1 TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACA
* * * *
39297766 TGCTGAGGTCTTTTCAATTTCTGTTCTTCAA
63 CGCTGAGGTATTTTAAATTTCTGTTTTTCAA
39297797 TTTCTGTTCG
Statistics
Matches: 223, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
143 15 0.07
144 1 0.00
145 2 0.01
146 98 0.44
147 96 0.43
148 11 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (146 bp):
TTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTAAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCA
AGACACGCTGAGGTAA
Found at i:39297797 original size:14 final size:14
Alignment explanation
Indices: 39297778--39297805 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39297768 CTGAGGTCTT
39297778 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
39297792 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
39297806 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:39297921 original size:74 final size:72
Alignment explanation
Indices: 39297814--39298037 Score: 313
Period size: 74 Copynumber: 3.0 Consensus size: 72
39297804 TCGTAAAAAA
*
39297814 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTA-TTTTCAATTT
39297879 CTGTTTTTC
64 CTGTTTTTC
* *
39297888 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTTC
*
39297953 TGTTTGTC
65 TGTTTTTC
* * * *
39297961 AAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATT
*
39298026 TCTGTTCTTC
63 TCTGTTTTTC
39298036 AA
1 AA
39298038 TTTCTGTTCG
Statistics
Matches: 134, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
72 2 0.01
73 51 0.38
74 52 0.39
75 29 0.22
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCT
GTTTTTC
Found at i:39297939 original size:166 final size:165
Alignment explanation
Indices: 39297648--39297956 Score: 485
Period size: 166 Copynumber: 1.9 Consensus size: 165
39297638 TCTGTTTTTC
* * *
39297648 AAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTT
* * **
39297713 GTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTT
66 GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACACGCTGAGGTAAT
39297778 TTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAA
130 TTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAA
*
39297814 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-ATTTAAATTT
* * *
39297879 CTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-GACACGCTGAGGTAA
65 -TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACACGCTGAGGTAA
39297943 TTTCAATTTCTGTT
129 TTTCAATTTCTGTT
39297957 TGTCAAAAAT
Statistics
Matches: 130, Mismatches: 11, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
166 77 0.59
167 8 0.06
168 45 0.35
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (165 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTAAATTTT
GTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACACGCTGAGGTAATT
TCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAA
Found at i:39298038 original size:14 final size:14
Alignment explanation
Indices: 39298019--39298046 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39298009 CTGAGGTCTT
39298019 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
39298033 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
39298047 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:39298225 original size:72 final size:72
Alignment explanation
Indices: 39298053--39298476 Score: 343
Period size: 72 Copynumber: 5.6 Consensus size: 72
39298043 GTTCGTAAAA
* *
39298053 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTA-TTTTCAATTT
* *
39298118 CTGTTTTTA
64 CTGTTTGTC
* * *
39298127 AAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATTTCAATTTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCT
39298192 GTTTGTC
66 GTTTGTC
* * * *
39298199 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATT
39298264 TCTGTTCTTCAATTTCTGTTC
63 TCTG---------TT-TG-TC
* ** * * * * *
39298285 GTAAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATT
1 -AAAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTC-GGACACGCTGAGGTA-T
* *
39298347 TTTAAATTTCTGTTTTTC
55 TTTCAATTTCTGTTTGTC
* *
39298365 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGACACGCTGAGGTATTTTCAATTTC
39298430 TGTTTGTC
65 TGTTTGTC
* *
39298438 -AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
39298477 CTCACATGTT
Statistics
Matches: 279, Mismatches: 42, Indels: 61
0.73 0.11 0.16
Matches are distributed among these distances:
71 3 0.01
72 84 0.30
73 30 0.11
74 54 0.19
75 23 0.08
79 17 0.06
80 5 0.02
81 2 0.01
82 4 0.01
84 4 0.01
85 3 0.01
86 5 0.02
87 17 0.06
90 11 0.04
91 12 0.04
92 3 0.01
93 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.33
Consensus pattern (72 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCT
GTTTGTC
Found at i:39298230 original size:238 final size:239
Alignment explanation
Indices: 39297574--39298518 Score: 1727
Period size: 238 Copynumber: 4.0 Consensus size: 239
39297564 TCTGTTTGTC
39297574 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
*
39297639 CTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
39297704 TTCAATTT-TGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
131 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
39297768 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAAA
196 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGT--AAAA
39297814 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
*
39297879 CTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
*
39297944 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGCTCACATG
131 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
39298009 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
196 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
*
39298053 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGATACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
* *
39298118 CTGTTTTTAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAAT
66 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
* *
39298182 TTCAATTTTTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATG
131 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
39298247 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
196 CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
39298291 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
*
39298356 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAAT
66 CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
*
39298421 TTCAATTTCTGTTTGTC-AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATG
131 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
* *
39298485 TTGAGGTCTTTTTAATTTCTGCTT-TTCAATTTCT
196 CTGAGGTCTTTTCAATTTCTG-TTCTTCAATTTCT
39298519 ATTTTTTCAA
Statistics
Matches: 687, Mismatches: 15, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
238 307 0.45
239 147 0.21
240 138 0.20
241 95 0.14
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (239 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTT
CTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
CTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAA
Found at i:39298276 original size:14 final size:14
Alignment explanation
Indices: 39298257--39298284 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39298247 CTGAGGTCTT
39298257 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
39298271 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
39298285 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:39298310 original size:164 final size:164
Alignment explanation
Indices: 39298126--39298433 Score: 476
Period size: 164 Copynumber: 1.9 Consensus size: 164
39298116 TTCTGTTTTT
*
39298126 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTC-GGACACGCTGAGGTA-ATTTCAATT
1 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATT
* * * *
39298189 TTTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGT
66 TCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGT
**
39298254 CTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAA
129 AATTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAA
* *
39298290 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATT
* * *
39298355 TCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAA
66 TCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAA
39298420 TTTCAATTTCTGTT
131 TTTCAATTTCTGTT
39298434 TGTCAAAATT
Statistics
Matches: 130, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
164 63 0.48
165 15 0.12
166 52 0.40
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (164 bp):
AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATATTTAAATT
TCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAA
TTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAA
Found at i:39298491 original size:74 final size:70
Alignment explanation
Indices: 39298292--39298513 Score: 273
Period size: 74 Copynumber: 3.0 Consensus size: 70
39298282 TTCGTAAAAA
39298292 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTA-TTTTAAATTTC
39298357 TGTTTTTC
64 TG-TTTTC
* * *
39298365 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTAATTTCAATTTC
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGGACACGCTGAGGTATTTTAAATTTC
39298430 TGTTTGTC
64 TGTTT-TC
* * * * * *
39298438 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGTTGAGGTCTTTTTAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTAAATTT
39298503 CTGCTTTTC
63 CTG-TTTTC
39298512 AA
1 AA
39298514 TTTCTATTTT
Statistics
Matches: 131, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
71 3 0.02
72 36 0.27
73 13 0.10
74 75 0.57
75 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.35
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTAAATTTCTG
TTTTC
Found at i:39298524 original size:14 final size:14
Alignment explanation
Indices: 39298493--39298542 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
39298483 TGTTGAGGTC
*
39298493 TTTTT-AATTTCTG
1 TTTTTCAATTTCTA
*
39298506 CTTTTCAATTTCTA
1 TTTTTCAATTTCTA
*
39298520 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTA
39298535 TTTTTCAA
1 TTTTTCAA
39298543 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTA
Found at i:39298527 original size:15 final size:15
Alignment explanation
Indices: 39298507--39298539 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
39298497 TAATTTCTGC
*
39298507 TTTTCAATTTCTATT
1 TTTTCAATTTATATT
39298522 TTTTCAATTTATATT
1 TTTTCAATTTATATT
39298537 TTT
1 TTT
39298540 CAAAAATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTCAATTTATATT
Found at i:39299325 original size:30 final size:30
Alignment explanation
Indices: 39299289--39299522 Score: 321
Period size: 30 Copynumber: 7.8 Consensus size: 30
39299279 ACTTTTCTCA
* *
39299289 ACTAGCCACTCATTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
39299319 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
39299349 ACTAGCCACACTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
39299379 ACTAGCCACACCTTTTCCACCAACAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
39299409 ACTAGCCAC-TCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
39299438 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* ** *
39299468 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-TTCCACCACCAACTCC
* *
39299498 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-TTCCACCACCA
39299523 CTTGTACCTA
Statistics
Matches: 184, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
29 30 0.16
30 154 0.84
ACGTcount: A:0.27, C:0.47, G:0.04, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:39299337 original size:18 final size:18
Alignment explanation
Indices: 39299316--39299398 Score: 55
Period size: 18 Copynumber: 5.3 Consensus size: 18
39299306 CACCACCAAC
39299316 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
*
39299334 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
*
39299346 TCCACTAGCCACACTTTT
1 TCCACTAGCCACACCTTT
*
39299364 TCCACCA-CCA-A-C---
1 TCCACTAGCCACACCTTT
39299376 TCCACTAGCCACACCTTT
1 TCCACTAGCCACACCTTT
39299394 TCCAC
1 TCCAC
39299399 CAACAACTCC
Statistics
Matches: 47, Mismatches: 6, Indels: 24
0.61 0.08 0.31
Matches are distributed among these distances:
12 12 0.26
13 6 0.13
14 2 0.04
15 2 0.04
16 2 0.04
17 6 0.13
18 17 0.36
ACGTcount: A:0.25, C:0.48, G:0.04, T:0.23
Consensus pattern (18 bp):
TCCACTAGCCACACCTTT
Found at i:39299433 original size:119 final size:120
Alignment explanation
Indices: 39299289--39299508 Score: 370
Period size: 119 Copynumber: 1.8 Consensus size: 120
39299279 ACTTTTCTCA
*
39299289 ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCCACTAG
1 ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAG
** *
39299354 CCACACTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCAACAACTCC
66 CCACACTTGCTCCACCACCAACTCCACTAACCACACCTTTTCCACCAACAACTCC
39299409 ACTAGCCACTC-TTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAG
1 ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAG
** *
39299473 CCACACTTGCTCCATTACCTACTCCACTAACCACAC
66 CCACACTTGCTCCACCACCAACTCCACTAACCACAC
39299509 TTGCTCCACC
Statistics
Matches: 93, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 82 0.88
120 11 0.12
ACGTcount: A:0.28, C:0.47, G:0.04, T:0.22
Consensus pattern (120 bp):
ACTAGCCACTCATTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCCACTAG
CCACACTTGCTCCACCACCAACTCCACTAACCACACCTTTTCCACCAACAACTCC
Found at i:39300092 original size:29 final size:29
Alignment explanation
Indices: 39300060--39300222 Score: 93
Period size: 25 Copynumber: 6.0 Consensus size: 29
39300050 ATATATTAGG
*
39300060 TATAT-TTTAAATTCTATATTATGTATATA
1 TATATATTT-AATACTATATTATGTATATA
* *
39300089 TATATATTTTATAC--TATT-T-TATGTA
1 TATATATTTAATACTATATTATGTATATA
* * *
39300114 TATATCTTTAATATTATATTATTTATATA
1 TATATATTTAATACTATATTATGTATATA
* * * *
39300143 TATATATTT-TTAC-ATGTTATCT-TATG
1 TATATATTTAATACTATATTATGTATATA
*
39300169 TATATATCTT-A-ACTATATTATG--TATG
1 TATATAT-TTAATACTATATTATGTATATA
* *
39300195 TAT-T-TTTAACACTATATTATGTACATA
1 TATATATTTAATACTATATTATGTATATA
39300222 T
1 T
39300223 TTTTAATATT
Statistics
Matches: 105, Mismatches: 18, Indels: 24
0.71 0.12 0.16
Matches are distributed among these distances:
23 2 0.02
24 2 0.02
25 28 0.27
26 20 0.19
27 26 0.25
28 3 0.03
29 21 0.20
30 3 0.03
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (29 bp):
TATATATTTAATACTATATTATGTATATA
Found at i:39300133 original size:54 final size:54
Alignment explanation
Indices: 39300029--39300234 Score: 155
Period size: 54 Copynumber: 3.9 Consensus size: 54
39300019 TTCTTAATAT
* * * *
39300029 TATATTATATATATTCTTTTAATATATTAGGTATAT-T-TTAAAT-TCTATATTATG
1 TATA-TATATATATT-TTATACTATATTATGTATATATCTTTAATAT-TATATTATG
* *
39300083 TATATATATATATTTTATACTATTTTATGTATATATCTTTAATATTATATTATT
1 TATATATATATATTTTATACTATATTATGTATATATCTTTAATATTATATTATG
* *
39300137 TATATATATATATTTT-TACATGTTATCTTATGTATATATC-TT-A-ACTATATTATG
1 TATATATATATATTTTATAC----TATATTATGTATATATCTTTAATATTATATTATG
* * * * *
39300191 --TATGTAT-T-TTTAACACTATATTATGTACATATTTTTAATATTAT
1 TATATATATATATTTTATACTATATTATGTATATATCTTTAATATTAT
39300235 CACGTATTTA
Statistics
Matches: 125, Mismatches: 16, Indels: 26
0.75 0.10 0.16
Matches are distributed among these distances:
47 14 0.11
48 2 0.02
49 1 0.01
50 7 0.06
51 3 0.02
52 22 0.18
53 14 0.11
54 42 0.34
55 2 0.02
56 2 0.02
57 16 0.13
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (54 bp):
TATATATATATATTTTATACTATATTATGTATATATCTTTAATATTATATTATG
Found at i:39300226 original size:25 final size:25
Alignment explanation
Indices: 39300180--39300228 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
39300170 ATATATCTTA
**
39300180 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
39300205 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
39300229 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:39300418 original size:7 final size:7
Alignment explanation
Indices: 39300390--39300429 Score: 53
Period size: 8 Copynumber: 5.3 Consensus size: 7
39300380 TATTATTCTA
39300390 ATATTTT
1 ATATTTT
39300397 GATATTTT
1 -ATATTTT
39300405 AATATTTT
1 -ATATTTT
39300413 ATATTTT
1 ATATTTT
39300420 ATATATTT
1 ATAT-TTT
39300428 AT
1 AT
39300430 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 11 0.37
8 19 0.63
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (7 bp):
ATATTTT
Found at i:39300429 original size:15 final size:15
Alignment explanation
Indices: 39300383--39300427 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
39300373 TAATTATTAT
*
39300383 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
39300399 TATTTTAATATTTTA
1 TATTTTAATATTTTA
39300414 TATTTTATATATTT
1 TATTTTA-ATATTT
39300428 ATTATTCACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 8 0.30
16 19 0.70
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:39301257 original size:27 final size:27
Alignment explanation
Indices: 39301227--39301311 Score: 75
Period size: 27 Copynumber: 3.1 Consensus size: 27
39301217 GTGCAAATCG
*
39301227 TATTTACCAGTGGCTATGTGCCTATCA
1 TATTTACCAGTGGCTATGTGCCGATCA
* * * *
39301254 TATTTATC-GATGACTCTGTGTCGATCA
1 TATTTACCAG-TGGCTATGTGCCGATCA
* *
39301281 TATTTACCCA-TGGCTGTGTGCCGATTA
1 TATTTA-CCAGTGGCTATGTGCCGATCA
39301308 TATT
1 TATT
39301312 ACCTTCGCTG
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
26 1 0.02
27 43 0.96
28 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (27 bp):
TATTTACCAGTGGCTATGTGCCGATCA
Found at i:39304621 original size:6 final size:6
Alignment explanation
Indices: 39304605--39304662 Score: 98
Period size: 6 Copynumber: 9.3 Consensus size: 6
39304595 GAAGAACAAA
39304605 AAAACGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG AAAAAGG AAAAGG
1 AAAA-GG AAAAGG AAAAGG AAAAGG AAAAGG AAAAGG -AAAAGG AAAAGG
39304655 AAAAGG AA
1 AAAAGG AA
39304663 TGGTTTCGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
6 40 0.80
7 10 0.20
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAAGG
Found at i:39304646 original size:19 final size:19
Alignment explanation
Indices: 39304604--39304662 Score: 102
Period size: 19 Copynumber: 3.1 Consensus size: 19
39304594 AGAAGAACAA
39304604 AAAAACGGAAAAGGAAAAGG
1 AAAAA-GGAAAAGGAAAAGG
39304624 -AAAAGGAAAAGGAAAAGG
1 AAAAAGGAAAAGGAAAAGG
39304642 AAAAAGGAAAAGGAAAAGG
1 AAAAAGGAAAAGGAAAAGG
39304661 AA
1 AA
39304663 TGGTTTCGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
18 14 0.37
19 24 0.63
ACGTcount: A:0.68, C:0.02, G:0.31, T:0.00
Consensus pattern (19 bp):
AAAAAGGAAAAGGAAAAGG
Found at i:39313415 original size:25 final size:24
Alignment explanation
Indices: 39313364--39313431 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 24
39313354 TTATCCCAAC
* * *
39313364 TTTATCCCTGGTAAAAATATGATAT
1 TTTA-CCCTAGTAAAATTATGAAAT
39313389 TTTACCCTAGTAAAATTATGACAAT
1 TTTACCCTAGTAAAATTATGA-AAT
*
39313414 TTTACCTCTATTAAAATT
1 TTTACC-CTAGTAAAATT
39313432 TCCAAGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 15 0.41
25 12 0.32
26 10 0.27
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (24 bp):
TTTACCCTAGTAAAATTATGAAAT
Found at i:39315449 original size:23 final size:23
Alignment explanation
Indices: 39315406--39315474 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 23
39315396 GAAATACATA
*
39315406 GAAATGATGGTACATGATATATT
1 GAAATGATGATACATGATATATT
* *
39315429 GAAATGGATGATATATGTATATAAT
1 GAAAT-GATGATACATG-ATATATT
*
39315454 GAAACGATAAGATA-ATGATAT
1 GAAATGAT--GATACATGATAT
39315475 GTATCATGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.13
24 16 0.42
25 13 0.34
26 4 0.11
ACGTcount: A:0.45, C:0.03, G:0.20, T:0.32
Consensus pattern (23 bp):
GAAATGATGATACATGATATATT
Found at i:39315456 original size:25 final size:23
Alignment explanation
Indices: 39315390--39315474 Score: 64
Period size: 25 Copynumber: 3.5 Consensus size: 23
39315380 ATACAGGTAT
*
39315390 ATACATGAAATACATAGAAATGATG
1 ATACATGATATA-AT-GAAATGATG
* *
39315415 GTACATGATATATTGAAATGGATG
1 ATACATGATATAATGAAAT-GATG
* *
39315439 ATATATGTATATAATGAAACGATAAG
1 ATACATG-ATATAATGAAATGAT--G
39315465 ATA-ATGATAT
1 ATACATGATAT
39315475 GTATCATGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
23 5 0.10
24 17 0.35
25 23 0.47
26 4 0.08
ACGTcount: A:0.47, C:0.05, G:0.18, T:0.31
Consensus pattern (23 bp):
ATACATGATATAATGAAATGATG
Found at i:39323447 original size:21 final size:21
Alignment explanation
Indices: 39323423--39323464 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
39323413 TCATCAGATC
*
39323423 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
39323444 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
39323465 AGGTGGGGAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:39329015 original size:27 final size:27
Alignment explanation
Indices: 39328976--39329151 Score: 219
Period size: 27 Copynumber: 6.5 Consensus size: 27
39328966 ATACTTTAGT
*
39328976 TTACCAAATTACCCTTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
*
39329003 TTACCAAAATACCCTTGGTTTATAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
*
39329030 TTACCAAAATACCATTGGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* * *
39329057 TTACAAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
* *
39329084 TTACCAAAATACTCC-TGATTTGTGAAA
1 TTACCAAAATAC-CCTTGGTTTGTAAAA
* * **
39329111 TTACTAAAATACCCTCGACTTGTAAAA
1 TTACCAAAATACCCTTGGTTTGTAAAA
*
39329138 TTACCAAAGTACCC
1 TTACCAAAATACCC
39329152 CCGATTTATA
Statistics
Matches: 129, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 125 0.97
28 2 0.02
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TTACCAAAATACCCTTGGTTTGTAAAA
Found at i:39329167 original size:81 final size:81
Alignment explanation
Indices: 39328993--39329194 Score: 192
Period size: 81 Copynumber: 2.5 Consensus size: 81
39328983 ATTACCCTTG
* * * **
39328993 GTTTGTAAAATTACCAAAATACCCTTGGTTTATAAAATTACCAAAATACCATTGGTTTGTAAAAT
1 GTTTATAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCATCGACTTGTAAAAT
*
39329058 TACAAAAATACCCCTA
66 TACAAAAATACCCCGA
* * * * *
39329074 GTTTGTAAAATTACCAAAATACTCC-TGATTTGTGAAATTACTAAAATACCCTCGACTTGTAAAA
1 GTTTATAAAATTACCAAAATAC-CCTTGATTTATAAAATTACCAAAATACCATCGACTTGTAAAA
* *
39329138 TTACCAAAGTACCCCCGA
65 TTACAAAAATA-CCCCGA
* * *** * *
39329156 -TTTATAGAATTATCATTTTACCCTCGATTTAAAAAATTA
1 GTTTATAAAATTACCAAAATACCCTTGATTTATAAAATTA
39329195 TTGAAATACC
Statistics
Matches: 97, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
80 2 0.02
81 88 0.91
82 7 0.07
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (81 bp):
GTTTATAAAATTACCAAAATACCCTTGATTTATAAAATTACCAAAATACCATCGACTTGTAAAAT
TACAAAAATACCCCGA
Found at i:39330946 original size:2 final size:2
Alignment explanation
Indices: 39330939--39330979 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
39330929 TAACATGATC
39330939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
39330980 GAAGCATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:39337171 original size:2 final size:2
Alignment explanation
Indices: 39337164--39337189 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39337154 GTAATCTTAT
39337164 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
39337190 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:39337660 original size:33 final size:34
Alignment explanation
Indices: 39337592--39337677 Score: 156
Period size: 33 Copynumber: 2.5 Consensus size: 34
39337582 AGTAGGCAAC
39337592 AACAAGCTATTGCCCATGTTGTTCAAAAAAAAAAA
1 AACAAGCTATTGCCCATGTTGTTC-AAAAAAAAAA
39337627 AACAAGCTATTGCCCATGTTGTTC-AAAAAAAAA
1 AACAAGCTATTGCCCATGTTGTTCAAAAAAAAAA
39337660 AACAAGCTATTGCCCATG
1 AACAAGCTATTGCCCATG
39337678 AAGCTGGATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
33 27 0.53
35 24 0.47
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.23
Consensus pattern (34 bp):
AACAAGCTATTGCCCATGTTGTTCAAAAAAAAAA
Found at i:39343341 original size:85 final size:85
Alignment explanation
Indices: 39343185--39343343 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 85
39343175 GTTTGAGACA
* * * * * *
39343185 TCGTGTAAGACCGTGTCTGGGACATAGGCCTCGATTGAGATTTACATATAAGACCATGTCTAGGA
1 TCGTGTAAGACCCTATCTGGGACAAAGGCCTAGATTGAGATTTACATATAAGACCACGTCCAGGA
39343250 CATCGGCATCGTATCTGATT
66 CATCGGCATCGTATCTGATT
* * *
39343270 TCGTGTAAGACCCTATCTGGGACAAAGGCATCTATATTGA-A-TTACATGTAAGACCACGTCCGG
1 TCGTGTAAGACCCTATCTGGGACAAAGGC--CTAGATTGAGATTTACATATAAGACCACGTCCAG
*
39343333 GACGTCGGCAT
64 GACATCGGCAT
39343344 TGTACTTGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 54 0.87
86 1 0.02
87 7 0.11
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (85 bp):
TCGTGTAAGACCCTATCTGGGACAAAGGCCTAGATTGAGATTTACATATAAGACCACGTCCAGGA
CATCGGCATCGTATCTGATT
Found at i:39348826 original size:28 final size:28
Alignment explanation
Indices: 39348794--39348863 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
39348784 TATGGTACTC
*
39348794 AGTGTACGAAATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
39348822 AGTGTGCGAGATATTGAGAATGACACTT
1 AGTGTGCGAAATATTGAGAATGACACTT
*
39348850 AGTGTGCAAAATAT
1 AGTGTGCGAAATAT
39348864 CGAATGATTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (28 bp):
AGTGTGCGAAATATTGAGAATGACACTT
Found at i:39354832 original size:22 final size:22
Alignment explanation
Indices: 39354807--39354848 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
39354797 TGCAAAGTTG
39354807 ATAAT-AAT-TAA-TATATATT
1 ATAATAAATATAATTATATATT
39354826 ATAATAAATATAATTATATATT
1 ATAATAAATATAATTATATATT
39354848 A
1 A
39354849 GTTATTATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 3 0.15
21 3 0.15
22 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAATAAATATAATTATATATT
Found at i:39354835 original size:16 final size:15
Alignment explanation
Indices: 39354810--39354843 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
39354800 AAAGTTGATA
*
39354810 ATAATTAATATATATT
1 ATAATAAATATA-ATT
39354826 ATAATAAATATAATT
1 ATAATAAATATAATT
39354841 ATA
1 ATA
39354844 TATTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:39357198 original size:10 final size:10
Alignment explanation
Indices: 39357177--39357243 Score: 82
Period size: 10 Copynumber: 6.6 Consensus size: 10
39357167 CATGAGATTT
39357177 TGATAT-ACA
1 TGATATGACA
39357186 TGATATGACA
1 TGATATGACA
39357196 TGATATGACA
1 TGATATGACA
39357206 TGATATGCACA
1 TGATATG-ACA
**
39357217 TGATATGTTA
1 TGATATGACA
*
39357227 TGAGATGCACA
1 TGATATG-ACA
39357238 TGATAT
1 TGATAT
39357244 ACTCATTATA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
9 6 0.12
10 27 0.55
11 16 0.33
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (10 bp):
TGATATGACA
Found at i:39357219 original size:21 final size:21
Alignment explanation
Indices: 39357177--39357243 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
39357167 CATGAGATTT
39357177 TGATAT-ACATGATATG-ACA
1 TGATATGACATGATATGCACA
39357196 TGATATGACATGATATGCACA
1 TGATATGACATGATATGCACA
** *
39357217 TGATATGTTATGAGATGCACA
1 TGATATGACATGATATGCACA
39357238 TGATAT
1 TGATAT
39357244 ACTCATTATA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 6 0.14
20 10 0.23
21 27 0.63
ACGTcount: A:0.37, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
TGATATGACATGATATGCACA
Found at i:39357255 original size:32 final size:31
Alignment explanation
Indices: 39357183--39357255 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
39357173 ATTTTGATAT
** * *
39357183 ACATGATATGACATGATATGACATGATATGC
1 ACATGATATGTTATGAGATGACATGATATAC
39357214 ACATGATATGTTATGAGATGCACATGATATAC
1 ACATGATATGTTATGAGATG-ACATGATATAC
* *
39357246 TCATTATATG
1 ACATGATATG
39357256 CATGGGTTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
31 17 0.49
32 18 0.51
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (31 bp):
ACATGATATGTTATGAGATGACATGATATAC
Found at i:39357344 original size:25 final size:24
Alignment explanation
Indices: 39357289--39357367 Score: 77
Period size: 25 Copynumber: 3.2 Consensus size: 24
39357279 GAGGAAGTGC
* *
39357289 AAAAAAGGGCTTTGCCCTAGTTTAC
1 AAAAAAGGGCTTTGCCC-AGTTAAT
**
39357314 CGAAAAGGGCTTTGTCCCAGTTAAT
1 AAAAAAGGGCTTTG-CCCAGTTAAT
* *
39357339 AAAAAAGGGTTTTGCGCCAGTTATT
1 AAAAAAGGGCTTTGC-CCAGTTAAT
39357364 AAAA
1 AAAA
39357368 GAGGATAGGC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.91
26 3 0.07
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAAAGGGCTTTGCCCAGTTAAT
Found at i:39362560 original size:26 final size:27
Alignment explanation
Indices: 39362526--39362582 Score: 107
Period size: 26 Copynumber: 2.1 Consensus size: 27
39362516 GAGTATAATT
39362526 TTTTTTCCATGGATGAATATG-TAAAA
1 TTTTTTCCATGGATGAATATGCTAAAA
39362552 TTTTTTCCATGGATGAATATGCTAAAA
1 TTTTTTCCATGGATGAATATGCTAAAA
39362579 TTTT
1 TTTT
39362583 GAAATTTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.70
27 9 0.30
ACGTcount: A:0.32, C:0.09, G:0.14, T:0.46
Consensus pattern (27 bp):
TTTTTTCCATGGATGAATATGCTAAAA
Found at i:39371287 original size:40 final size:40
Alignment explanation
Indices: 39371243--39371350 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 40
39371233 TGAAAAATTA
* *
39371243 GCTATATGTGGCACTTAGTGTGCGATTCGACTTAGCTT-TG
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAG-TTGTG
* * *
39371283 GCTATATATGGCACTTAGTGTACGAGATCGAGATAGTTGTG
1 GCTATATATGGCACTTAGTGTGCGA-TTCGACATAGTTGTG
39371324 GCTATATATGGCACTTAGTGTGCGATT
1 GCTATATATGGCACTTAGTGTGCGATT
39371351 TGAGATAGGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 26 0.44
41 33 0.56
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (40 bp):
GCTATATATGGCACTTAGTGTGCGATTCGACATAGTTGTG
Found at i:39371378 original size:81 final size:81
Alignment explanation
Indices: 39371243--39371391 Score: 199
Period size: 81 Copynumber: 1.8 Consensus size: 81
39371233 TGAAAAATTA
* * *** *
39371243 GCTATATGTGGCACTTAGTGTGCGATTCGACTTAGCTTTGGCTATATATGGCACTTAGTGTACGA
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATACGGCACTTAGTGTACGA
39371308 GATCGAGATAGTTGTG
66 GATCGAGATAGTTGTG
* * * * *
39371324 GCTATATATGGCACTTAGTGTGCGATTTGAGATAGGTTCAACTATGTACGGCACTTAGTGTGCGA
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATACGGCACTTAGTGTACGA
39371389 GAT
66 GAT
39371392 ATCAAGTAAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 57 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.34
Consensus pattern (81 bp):
GCTATATATGGCACTTAGTGTGCGATTCGACATAGCTTCAACTATATACGGCACTTAGTGTACGA
GATCGAGATAGTTGTG
Found at i:39375462 original size:49 final size:49
Alignment explanation
Indices: 39375402--39375905 Score: 845
Period size: 49 Copynumber: 10.4 Consensus size: 49
39375392 TTTGTATGAG
39375402 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
39375451 GTATATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
39375500 GTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
39375549 GTATATATATGTGATAAGGCCTAATGGCCGAAGTGATGAATGTAAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
39375598 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
39375647 GTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
39375696 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* *
39375745 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
*
39375794 GTATATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
* * * *
39375841 GTGTATATATGTGATAGGGCCGAATGGCCAATGTGATGAATGTGAAAGT
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
39375890 GTATA-A-ATGTGATAAG
1 GTATATATATGTGATAAG
39375906 TCCCGAAGGG
Statistics
Matches: 428, Mismatches: 25, Indels: 6
0.93 0.05 0.01
Matches are distributed among these distances:
47 48 0.11
48 7 0.02
49 373 0.87
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (49 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGT
Found at i:39379926 original size:40 final size:40
Alignment explanation
Indices: 39379871--39380078 Score: 285
Period size: 40 Copynumber: 5.2 Consensus size: 40
39379861 TGAATGATAC
* * *
39379871 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
39379911 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
39379951 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
39379991 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
39380031 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
39380071 CC-GGCTAA
1 CCGGGCTAA
39380079 ATTCCGAAGA
Statistics
Matches: 150, Mismatches: 17, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 5 0.03
40 143 0.95
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:39380004 original size:80 final size:80
Alignment explanation
Indices: 39379867--39380078 Score: 329
Period size: 80 Copynumber: 2.7 Consensus size: 80
39379857 CAATTGAATG
* * *
39379867 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
39379931 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
39379947 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
39380012 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
39380027 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
39380079 ATTCCGAAGA
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
79 6 0.05
80 113 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:39383822 original size:15 final size:15
Alignment explanation
Indices: 39383804--39383857 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
39383794 CTTCCTAATC
39383804 TTCTTTTTTTTCTCT
1 TTCTTTTTTTTCTCT
* **
39383819 TTCTTTTTCCTAATC-
1 TTCTTTTT-TTTCTCT
39383834 TTCTTTTTTTTTCTCT
1 TTC-TTTTTTTTCTCT
39383850 TTCTTTTT
1 TTCTTTTT
39383858 CCTGGTCACT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTTTTTTTCTCT
Found at i:39383823 original size:30 final size:31
Alignment explanation
Indices: 39383787--39383860 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
39383777 TTTTAATGGC
*
39383787 CTTTCTTCTTCCTAATCTTC-TTTTTTTTCT
1 CTTTCTTTTTCCTAATCTTCTTTTTTTTTCT
39383817 CTTTCTTTTTCCTAATCTTCTTTTTTTTTCT
1 CTTTCTTTTTCCTAATCTTCTTTTTTTTTCT
39383848 CTTTCTTTTTCCT
1 CTTTCTTTTTCCT
39383861 GGTCACTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 19 0.45
31 23 0.55
ACGTcount: A:0.05, C:0.26, G:0.00, T:0.69
Consensus pattern (31 bp):
CTTTCTTTTTCCTAATCTTCTTTTTTTTTCT
Found at i:39383919 original size:42 final size:43
Alignment explanation
Indices: 39383843--39383942 Score: 123
Period size: 42 Copynumber: 2.3 Consensus size: 43
39383833 CTTCTTTTTT
* * *
39383843 TTTCTCTTTCTTTTTCCTGGTCACTTTTCTTCTTCCCAATTTCC
1 TTTCTC-TTCTTTTTCCTGGTCACCTTTCGTCTTCCCAAATTCC
*
39383887 -TTCTCTTCTTTTTCCAT-GTGACCTTTCGTCTTCCCAAATTCC
1 TTTCTCTTCTTTTTCC-TGGTCACCTTTCGTCTTCCCAAATTCC
39383929 TTTTCTCTTCTTTT
1 -TTTCTCTTCTTTT
39383943 CTTTACTAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
42 31 0.63
43 6 0.12
44 12 0.24
ACGTcount: A:0.08, C:0.31, G:0.05, T:0.56
Consensus pattern (43 bp):
TTTCTCTTCTTTTTCCTGGTCACCTTTCGTCTTCCCAAATTCC
Found at i:39385789 original size:25 final size:24
Alignment explanation
Indices: 39385755--39385802 Score: 87
Period size: 25 Copynumber: 2.0 Consensus size: 24
39385745 TTCAAATCAC
39385755 GTATAATCAACCCAATATTTTCAAA
1 GTATAATCAACCCAAT-TTTTCAAA
39385780 GTATAATCAACCCAATTTTTCAA
1 GTATAATCAACCCAATTTTTCAA
39385803 TTACGTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.42, C:0.21, G:0.04, T:0.33
Consensus pattern (24 bp):
GTATAATCAACCCAATTTTTCAAA
Found at i:39386414 original size:2 final size:2
Alignment explanation
Indices: 39386407--39386449 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
39386397 ATATTATGTA
39386407 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39386449 A
1 A
39386450 GGCATAAGAG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:39386650 original size:92 final size:93
Alignment explanation
Indices: 39386472--39386653 Score: 244
Period size: 95 Copynumber: 2.0 Consensus size: 93
39386462 TTAAAAGCAC
* *
39386472 TTTTTTTTTCACTCATTTGGATACTTGAACTTTCAAAATACATAAAAAAAAAATCCTCAAATCTT
1 TTTTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATACAT-AAAAAAAAACCCTCAAATCTT
39386537 TTAAAAAAAAAAGCAATTAAGCCCTTACT
65 TTAAAAAAAAAAGCAATTAAGCCCTTACT
* * *
39386566 TTTTTTTTTGCACTCAATT-GAGTACTTGAACTTTCAAAATGCAT-CAAAAAGACCCTCAAA-CT
1 TTTTTTTTT-CACTCAATTGGA-TACTTGAACTTTCAAAATACATAAAAAAAAACCCTCAAATCT
***
39386628 TTTTTCAAAAAAAGCAATTAAGCCCT
64 TTTAAAAAAAAAAGCAATTAAGCCCT
39386654 GCTTTTATTA
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
92 25 0.32
93 13 0.17
94 11 0.14
95 29 0.37
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.35
Consensus pattern (93 bp):
TTTTTTTTTCACTCAATTGGATACTTGAACTTTCAAAATACATAAAAAAAAACCCTCAAATCTTT
TAAAAAAAAAAGCAATTAAGCCCTTACT
Found at i:39386770 original size:17 final size:17
Alignment explanation
Indices: 39386748--39386787 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
39386738 AAATTTATTA
39386748 AAAATT-AAGAAAAATAT
1 AAAATTGAA-AAAAATAT
*
39386765 AAAATTGTAAAAAATAT
1 AAAATTGAAAAAAATAT
39386782 AAAATT
1 AAAATT
39386788 TTATAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
AAAATTGAAAAAAATAT
Found at i:39386777 original size:9 final size:9
Alignment explanation
Indices: 39386735--39386851 Score: 71
Period size: 9 Copynumber: 12.6 Consensus size: 9
39386725 ATTCAAATAT
39386735 TAAAAATTTA
1 TAAAAA-TTA
39386745 TTAAAAATTA
1 -TAAAAATTA
*
39386755 -AGAAAAATA
1 TA-AAAATTA
*
39386764 T-AAAATTG
1 TAAAAATTA
*
39386772 TAAAAAATA
1 TAAAAATTA
*
39386781 TAAAATTTTA
1 TAAAA-ATTA
*
39386791 TAAAAATTG
1 TAAAAATTA
39386800 TAAAAATTA
1 TAAAAATTA
39386809 T-AAAATATA
1 TAAAAAT-TA
*
39386818 TAGAAA-TA
1 TAAAAATTA
39386826 TAAAAAATTTA
1 T-AAAAA-TTA
*
39386837 TAAAATTTTA
1 TAAAA-ATTA
39386847 TAAAA
1 TAAAA
39386852 TCGTAAGAAA
Statistics
Matches: 83, Mismatches: 13, Indels: 21
0.71 0.11 0.18
Matches are distributed among these distances:
8 15 0.18
9 34 0.41
10 25 0.30
11 9 0.11
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:39386777 original size:27 final size:26
Alignment explanation
Indices: 39386747--39386865 Score: 89
Period size: 27 Copynumber: 4.3 Consensus size: 26
39386737 AAAATTTATT
*
39386747 AAAAATTAAGAAAAATATAAAATTGTA
1 AAAAATTAA-AAATATATAAAATTGTA
* *
39386774 AAAAATATAAAATTTTATAAAAATTGT-
1 AAAAAT-TAAAAATATAT-AAAATTGTA
*
39386801 AAAAATTATAAAATATATAGAAA-TATA
1 AAAAATTA-AAAATATATA-AAATTGTA
* *
39386828 AAAAATTTATAAAATTTTATAAAATCGTA
1 AAAAA-TTA-AAAA-TATATAAAATTGTA
39386857 AGAAAATTA
1 A-AAAATTA
39386866 TACAAAATGT
Statistics
Matches: 74, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
26 5 0.07
27 32 0.43
28 22 0.30
29 11 0.15
30 4 0.05
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (26 bp):
AAAAATTAAAAATATATAAAATTGTA
Found at i:39386787 original size:45 final size:47
Alignment explanation
Indices: 39386736--39386841 Score: 116
Period size: 45 Copynumber: 2.3 Consensus size: 47
39386726 TTCAAATATT
*
39386736 AAAAATTTATTAAAAATTAAG-AAAAA-TATAAAAT-TGTA-AAAAATA
1 AAAAATTTATTAAAAATT--GTAAAAATTATAAAATATATAGAAAAATA
* *
39386781 TAAAATTT-TATAAAAATTGTAAAAATTATAAAATATATAGAAATATA
1 AAAAATTTAT-TAAAAATTGTAAAAATTATAAAATATATAGAAAAATA
39386828 AAAAATTTA-TAAAA
1 AAAAATTTATTAAAA
39386842 TTTTATAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
43 1 0.02
44 6 0.12
45 23 0.45
46 8 0.16
47 13 0.25
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (47 bp):
AAAAATTTATTAAAAATTGTAAAAATTATAAAATATATAGAAAAATA
Found at i:39386796 original size:28 final size:28
Alignment explanation
Indices: 39386765--39386851 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
39386755 AGAAAAATAT
39386765 AAAATTGTAAAAAATATAAAATTTTATA
1 AAAATTGTAAAAAATATAAAATTTTATA
* *
39386793 AAAATTGTAAAAATTATAAAA-TATATA
1 AAAATTGTAAAAAATATAAAATTTTATA
* *
39386820 GAAA-TATAAAAAATTTATAAAATTTTATA
1 AAAATTGTAAAAAA--TATAAAATTTTATA
39386849 AAA
1 AAA
39386852 TCGTAAGAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
26 7 0.14
27 8 0.16
28 27 0.55
29 7 0.14
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (28 bp):
AAAATTGTAAAAAATATAAAATTTTATA
Found at i:39386843 original size:45 final size:44
Alignment explanation
Indices: 39386729--39386841 Score: 122
Period size: 46 Copynumber: 2.5 Consensus size: 44
39386719 AAAAAAATTC
* *
39386729 AAATATTAAAAATTTATTAAAAATTAAG-AAAAA-TATAAAATTGTA
1 AAATATAAAAAATTTA-TAAAAATT--GTAAAAATTATAAAATTATA
* *
39386774 AAAAATATAAAATTTTATAAAAATTGTAAAAATTATAAAATATATA
1 AAATATA-AAAAATTTATAAAAATTGTAAAAATTATAAAAT-TATA
39386820 GAAATATAAAAAATTTATAAAA
1 -AAATATAAAAAATTTATAAAA
39386842 TTTTATAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
43 1 0.02
44 5 0.09
45 21 0.37
46 24 0.42
47 6 0.11
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (44 bp):
AAATATAAAAAATTTATAAAAATTGTAAAAATTATAAAATTATA
Found at i:39386852 original size:28 final size:27
Alignment explanation
Indices: 39386801--39386867 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 27
39386791 TAAAAATTGT
*
39386801 AAAAATTATAAAA-TATATAGAAATATA
1 AAAAATTATAAAATTTTATA-AAATATA
*
39386828 AAAAATTTATAAAATTTTATAAAATCGTA
1 AAAAA-TTATAAAATTTTATAAAAT-ATA
39386857 AGAAAATTATA
1 A-AAAATTATA
39386868 CAAAATGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.15
28 12 0.35
29 13 0.38
30 4 0.12
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.33
Consensus pattern (27 bp):
AAAAATTATAAAATTTTATAAAATATA
Found at i:39386862 original size:21 final size:21
Alignment explanation
Indices: 39386838--39386882 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
39386828 AAAAATTTAT
* *
39386838 AAAATTTTATAAAATCGT-AAG
1 AAAATTATACAAAAT-GTAAAG
39386859 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
39386880 AAA
1 AAA
39386883 TATAACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:39387158 original size:9 final size:8
Alignment explanation
Indices: 39387146--39387188 Score: 54
Period size: 7 Copynumber: 5.4 Consensus size: 8
39387136 AATTTAATAA
39387146 ATTTTCTAT
1 ATTTT-TAT
39387155 ATTTTCTAT
1 ATTTT-TAT
39387164 ATTTTT-T
1 ATTTTTAT
39387171 ATTTTT-T
1 ATTTTTAT
39387178 ATTTTTAT
1 ATTTTTAT
39387186 ATT
1 ATT
39387189 ATTTTTCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
7 14 0.42
8 5 0.15
9 14 0.42
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (8 bp):
ATTTTTAT
Found at i:39387194 original size:25 final size:26
Alignment explanation
Indices: 39387146--39387204 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
39387136 AATTTAATAA
* *
39387146 ATTTTCTATATTTTCTATATTTTT-T
1 ATTTTTTATATTTTATATATTTTTCT
39387171 ATTTTTTAT-TTTTATATTATTTTTCT
1 ATTTTTTATATTTTATA-TATTTTTCT
*
39387197 AATTTTTA
1 ATTTTTTA
39387205 ATAAAGGGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 6 0.21
25 15 0.52
26 8 0.28
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (26 bp):
ATTTTTTATATTTTATATATTTTTCT
Found at i:39390011 original size:17 final size:18
Alignment explanation
Indices: 39389989--39390024 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
39389979 ATTTGGGCGC
39389989 GTGGG-CCACACGAACAT
1 GTGGGCCCACACGAACAT
*
39390006 GTGGGCCCACACGAGCAT
1 GTGGGCCCACACGAACAT
39390024 G
1 G
39390025 ACACACAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.25, C:0.31, G:0.33, T:0.11
Consensus pattern (18 bp):
GTGGGCCCACACGAACAT
Found at i:39390309 original size:13 final size:13
Alignment explanation
Indices: 39390291--39390315 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
39390281 ATTCTGTAAC
39390291 TCTGTATCTATTA
1 TCTGTATCTATTA
39390304 TCTGTATCTATT
1 TCTGTATCTATT
39390316 TTGGGGTGGG
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:0.16, G:0.08, T:0.56
Consensus pattern (13 bp):
TCTGTATCTATTA
Found at i:39390616 original size:27 final size:27
Alignment explanation
Indices: 39390586--39390653 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
39390576 GCGCATATGA
* *
39390586 TTCTGTTTACGTAAACTCAGAGTCTAT
1 TTCTGTTCACGTAAACTCACAGTCTAT
* * *
39390613 TTCTGTTCAGGTAAACTCACTGTCTGT
1 TTCTGTTCACGTAAACTCACAGTCTAT
*
39390640 TTCTGTTCAGGTAA
1 TTCTGTTCACGTAA
39390654 TCCACAGACT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (27 bp):
TTCTGTTCACGTAAACTCACAGTCTAT
Found at i:39397373 original size:37 final size:37
Alignment explanation
Indices: 39397323--39397412 Score: 162
Period size: 37 Copynumber: 2.4 Consensus size: 37
39397313 TTATTACGAA
39397323 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
39397360 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
* *
39397397 GTCTCACCCGAACATA
1 GTCTTACCCGGACATA
39397413 TTTCCAAGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:39397510 original size:48 final size:48
Alignment explanation
Indices: 39397452--39397603 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
39397442 TGTTACAACA
*
39397452 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
39397500 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
39397548 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
39397596 TTCACATT
1 TTCACATT
39397604 CATCACATCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:39397652 original size:49 final size:49
Alignment explanation
Indices: 39397595--39397977 Score: 648
Period size: 49 Copynumber: 7.9 Consensus size: 49
39397585 CACACATATA
*
39397595 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
39397644 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
39397691 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
**
39397740 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTG
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
39397787 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
39397836 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
39397885 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
39397934 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
39397978 CTCTCATACA
Statistics
Matches: 316, Mismatches: 14, Indels: 8
0.93 0.04 0.02
Matches are distributed among these distances:
47 88 0.28
49 228 0.72
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:39397695 original size:96 final size:96
Alignment explanation
Indices: 39397595--39397981 Score: 684
Period size: 96 Copynumber: 4.0 Consensus size: 96
39397585 CACACATATA
* *
39397595 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
39397660 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
*
39397691 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
39397756 TTGGCCATTAGGCCTTATCACATATATACTG
66 TCGGCCATTAGGCCTTATCACATATATACTC
*
39397787 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
39397852 TTGGCCATTAGGCCTTATCACATGTATATACAC
66 TCGGCCATTAGGCCTTATCACA--TATATACTC
39397885 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
39397950 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
39397981 T
1 T
39397982 CATACATATT
Statistics
Matches: 279, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
96 187 0.67
98 92 0.33
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTC
Found at i:39397751 original size:145 final size:145
Alignment explanation
Indices: 39397595--39397981 Score: 688
Period size: 145 Copynumber: 2.7 Consensus size: 145
39397585 CACACATATA
* *
39397595 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
39397660 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
39397725 CACATGTATATACAC
131 CACATGTATATACAC
**
39397740 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTGTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
39397803 TTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
66 TCGGCCATTAGGCCTTATCACA--TATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTT
39397868 ATCACATGTATATACAC
129 ATCACATGTATATACAC
39397885 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
39397950 TCGGCCATTAGGCCTTATCACATATATACTCT
66 TCGGCCATTAGGCCTTATCACATATATACTCT
39397982 CATACATATT
Statistics
Matches: 228, Mismatches: 10, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
143 44 0.19
145 139 0.61
147 45 0.20
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.34
Consensus pattern (145 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
CACATGTATATACAC
Found at i:39401574 original size:80 final size:80
Alignment explanation
Indices: 39401443--39401595 Score: 216
Period size: 80 Copynumber: 1.9 Consensus size: 80
39401433 GCCCGAATAC
* * *
39401443 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCAGATACATCACTAGCACGAATGCTCTTCG
1 ACATCACCAGCACGAATGCTCTTCGGAACCTAGCCCAGATACATCACTAGCACGAATGCTCTTCG
39401508 GAACTTAGTCCGAAT
66 GAACTTAGTCCGAAT
* * * * * *
39401523 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATATCATTAGCACGAATGCTCTTCG
1 ACATCACCAGCACGAATGCTCTTCGGAACCTAGCCCAGATACATCACTAGCACGAATGCTCTTCG
*
39401588 GAATTTAG
66 GAACTTAG
39401596 CCGGATATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (80 bp):
ACATCACCAGCACGAATGCTCTTCGGAACCTAGCCCAGATACATCACTAGCACGAATGCTCTTCG
GAACTTAGTCCGAAT
Found at i:39401615 original size:40 final size:41
Alignment explanation
Indices: 39401445--39401627 Score: 191
Period size: 40 Copynumber: 4.6 Consensus size: 41
39401435 CCGAATACAC
* * * * * * * *
39401445 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCAGATA-C
1 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATA
39401485 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCC-GA-ATA
1 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATA
39401524 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATAT-
1 -ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATA
* *
39401565 ATCATTAGCACGAATGCTCTTCGGAATTTAG-CCGGATATA
1 ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATA
* *
39401605 ACCACAAGCAC-AATTGC-CTTCGG
1 ATCACTAGCACGAA-TGCTCTTCGG
39401628 GTCTTAACCT
Statistics
Matches: 125, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
38 1 0.01
39 18 0.14
40 102 0.82
41 2 0.02
42 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (41 bp):
ATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATATA
Found at i:39403674 original size:37 final size:37
Alignment explanation
Indices: 39403624--39403714 Score: 164
Period size: 37 Copynumber: 2.4 Consensus size: 37
39403614 TTATTACGAA
39403624 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
39403661 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
39403698 GTCTCACCCGGAACATA
1 GTCTTACCCGG-ACATA
39403715 TTTCCAAGTT
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
37 47 0.90
38 5 0.10
ACGTcount: A:0.25, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:39403812 original size:48 final size:48
Alignment explanation
Indices: 39403754--39403905 Score: 286
Period size: 48 Copynumber: 3.2 Consensus size: 48
39403744 TGTTACAACA
*
39403754 TTCACATTAGCCATTCGGCTTTACCACACATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
39403802 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
39403850 TTCACATTAGCCCTTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
39403898 TTCACATT
1 TTCACATT
39403906 CATCACATCG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 102 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:39403954 original size:49 final size:49
Alignment explanation
Indices: 39403897--39404278 Score: 639
Period size: 49 Copynumber: 7.9 Consensus size: 49
39403887 CACACATATA
*
39403897 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
* * *
39403946 CTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACTC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
39403993 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
**
39404042 TTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACTG
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
39404089 TTTCACATT-ATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
39404137 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
39404186 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
*
39404235 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATA
39404279 CTCTCATACA
Statistics
Matches: 314, Mismatches: 14, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
46 27 0.09
47 60 0.19
48 16 0.05
49 211 0.67
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.34
Consensus pattern (49 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACAC
Found at i:39403997 original size:96 final size:96
Alignment explanation
Indices: 39403897--39404282 Score: 675
Period size: 96 Copynumber: 4.0 Consensus size: 96
39403887 CACACATATA
* *
39403897 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
39403962 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
*
39403993 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
39404058 TTGGCCATTAGGCCTTATCACATATATACTG
66 TCGGCCATTAGGCCTTATCACATATATACTC
*
39404089 TTTCACATT-ATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
39404153 TTGGCCATTAGGCCTTATCACATGTATATACAC
66 TCGGCCATTAGGCCTTATCACA--TATATACTC
39404186 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
39404251 TCGGCCATTAGGCCTTATCACATATATACTC
66 TCGGCCATTAGGCCTTATCACATATATACTC
39404282 T
1 T
39404283 CATACATATT
Statistics
Matches: 277, Mismatches: 10, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
95 77 0.28
96 109 0.39
97 16 0.06
98 75 0.27
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.34
Consensus pattern (96 bp):
TTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACTC
Found at i:39404223 original size:193 final size:192
Alignment explanation
Indices: 39403897--39404280 Score: 680
Period size: 193 Copynumber: 2.0 Consensus size: 192
39403887 CACACATATA
39403897 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
39403962 TCGGCCATTAGGCCTTATCACATATATACTCTTTCACATTCATCACATTGGCCATTAGGCCTTAT
66 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
* *
39404027 CACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACTG
131 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTG
* * *
39404089 TTTCACATT-ATCACATTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACA
1 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
*
39404153 TTGGCCATTAGGCCTTATCACATGTATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
66 TCGGCCATTAGGCCTTATCACA--TATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
39404218 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACT
129 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACT
39404281 CTCATACATA
Statistics
Matches: 183, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
191 73 0.40
192 9 0.05
193 101 0.55
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.34
Consensus pattern (192 bp):
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACCTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTAT
CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACTG
Found at i:39406793 original size:39 final size:40
Alignment explanation
Indices: 39406685--39406869 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
39406675 TCGAATGATG
* *
39406685 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
39406724 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
39406765 TCCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
39406804 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGCGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
39406843 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
39406870 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:39406822 original size:79 final size:81
Alignment explanation
Indices: 39406685--39406867 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
39406675 TCGAATGATG
* *
39406685 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
39406749 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
39406764 TTCCGGGCTAAG-CCCAAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
*
39406826 TTTGTGCGCGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
39406844 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
39406868 TGAACGAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.66
80 29 0.33
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:39406891 original size:79 final size:79
Alignment explanation
Indices: 39406686--39406891 Score: 217
Period size: 79 Copynumber: 2.6 Consensus size: 79
39406676 CGAATGATGT
* *
39406686 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATATCCGGACTAAGATCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTAG-CTATATCCGG-TTAAGATCCGAAGGCATT
*
39406749 TGTGCGAGTTACTAATT
63 TGTGCGAGTTACTAATA
* * *
39406766 CCGGGCTAAG-CCCAAAGGCATTGGTGCGAGTTA-CTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATATCC-GGTTAAGAT-CCGAAGGCATT
*
39406828 TGTGCGCGTTACT-ATAA
63 TGTGCGAGTTACTAAT-A
* **
39406845 CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTA
39406892 TATTCCGAAG
Statistics
Matches: 105, Mismatches: 13, Indels: 17
0.78 0.10 0.13
Matches are distributed among these distances:
78 3 0.03
79 60 0.57
80 42 0.40
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGCTATATCCGGTTAAGATCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:39417923 original size:43 final size:43
Alignment explanation
Indices: 39417856--39417974 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
39417846 AAGCTCGTAC
* *
39417856 AATGCCAATGTCCCAGAC-GAGGTCTTATATGTAATCAAATATT
1 AATGCCAATGTCCCAGACAG-GGTCTTACATGTAATCAAATACT
* * * * *
39417899 AATGCCACTATCCCAGACAGGGTCTTACAGGAAATCATATACT
1 AATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACT
* *
39417942 -ATGCCAATGTCCTAGACATGGTCTTACATGTAA
1 AATGCCAATGTCCCAGACAGGGTCTTACATGTAA
39417975 ATTTGAAATC
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 27 0.44
43 34 0.55
44 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (43 bp):
AATGCCAATGTCCCAGACAGGGTCTTACATGTAATCAAATACT
Found at i:39418324 original size:19 final size:19
Alignment explanation
Indices: 39418302--39418340 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
39418292 AATTAATATA
39418302 AATTAACTTATTTAATCAC
1 AATTAACTTATTTAATCAC
39418321 AATTAACTTATTTAATCAC
1 AATTAACTTATTTAATCAC
39418340 A
1 A
39418341 TATGTACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTAACTTATTTAATCAC
Found at i:39431284 original size:14 final size:15
Alignment explanation
Indices: 39431254--39431285 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
39431244 CACCGATATC
39431254 AATAGCTCCATACAG
1 AATAGCTCCATACAG
39431269 AATAGCTCCA-ACAG
1 AATAGCTCCATACAG
39431283 AAT
1 AAT
39431286 TAAAAGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.44, C:0.25, G:0.12, T:0.19
Consensus pattern (15 bp):
AATAGCTCCATACAG
Found at i:39433598 original size:40 final size:40
Alignment explanation
Indices: 39433457--39433643 Score: 150
Period size: 39 Copynumber: 4.7 Consensus size: 40
39433447 TCGAATGATG
* * *
39433457 TCCGGGCTAAGTCCCGAAGGC-TCTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * * ** *
39433497 TCCGGACTAGGAT-CCGAAGGCATTCGTGTGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
*
39433537 TCCGAGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* * * * *
39433576 CCCGGGTTAAGTCCCGAAGGCATTCG-GCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
* **
39433616 -CTGGGCTTCGTCCCGAAGGCATTTGTGC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC
39433644 GAGTCGTTAT
Statistics
Matches: 114, Mismatches: 27, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
39 60 0.53
40 49 0.43
41 5 0.04
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:39438455 original size:24 final size:26
Alignment explanation
Indices: 39438402--39438466 Score: 80
Period size: 24 Copynumber: 2.6 Consensus size: 26
39438392 CTCACCACAG
* * *
39438402 CTCATATGAGCTTAATGATATATCAG
1 CTCATAAGAGCTTACTGATATATCAA
39438428 CTCATAAGAGCTTACT-AT-TATCAA
1 CTCATAAGAGCTTACTGATATATCAA
*
39438452 CTCATTAGAGCTTAC
1 CTCATAAGAGCTTAC
39438467 CGTTTCAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 19 0.54
25 2 0.06
26 14 0.40
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (26 bp):
CTCATAAGAGCTTACTGATATATCAA
Found at i:39438483 original size:23 final size:24
Alignment explanation
Indices: 39438422--39438522 Score: 80
Period size: 24 Copynumber: 4.1 Consensus size: 24
39438412 CTTAATGATA
*
39438422 TATCAGCTC-ATAAGAGCTTACTAT
1 TATCAGCTCAAT-AGAGCTTACCAT
* * *
39438446 TATCAACTCATTAGAGCTTACCGT
1 TATCAGCTCAATAGAGCTTACCAT
* *
39438470 T-TCAGCTCAATAGAGCATACTAT
1 TATCAGCTCAATAGAGCTTACCAT
**
39438493 TCATCAGCTCAGGAGGAGCTTACCAAT
1 T-ATCAGCTCAATA-GAGCTTACC-AT
39438520 TAT
1 TAT
39438523 GGCTTGAAAG
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
23 18 0.31
24 19 0.32
25 10 0.17
26 9 0.15
27 3 0.05
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.31
Consensus pattern (24 bp):
TATCAGCTCAATAGAGCTTACCAT
Found at i:39448456 original size:17 final size:18
Alignment explanation
Indices: 39448434--39448468 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
39448424 GATATGATAC
*
39448434 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
39448451 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
39448469 CCGAGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:39448757 original size:22 final size:21
Alignment explanation
Indices: 39448722--39448797 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
39448712 AAAAGGTATC
* * *
39448722 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCAAAGAT
39448743 TACAAAATCATATCTTCAAAGAT
1 TAC-AAATCATATC-TCAAAGAT
* *
39448766 TGCATATCATATCTC--AGAT
1 TACAAATCATATCTCAAAGAT
*
39448785 TGC-AATCATATCT
1 TACAAATCATATCT
39448798 AAGATTGTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 9 0.19
19 7 0.15
21 5 0.11
22 17 0.36
23 9 0.19
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (21 bp):
TACAAATCATATCTCAAAGAT
Found at i:39448811 original size:17 final size:18
Alignment explanation
Indices: 39448761--39448829 Score: 95
Period size: 17 Copynumber: 3.8 Consensus size: 18
39448751 CATATCTTCA
39448761 AAGATTGCATATCATATCT
1 AAGATTGC-TATCATATCT
* *
39448780 CAGATTGCAATCATATCT
1 AAGATTGCTATCATATCT
39448798 AAGATTG-TATCATATCT
1 AAGATTGCTATCATATCT
39448815 AAGATTGCATATCAT
1 AAGATTGC-TATCAT
39448830 TGAAGATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
17 16 0.36
18 15 0.34
19 13 0.30
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (18 bp):
AAGATTGCTATCATATCT
Found at i:39449296 original size:44 final size:45
Alignment explanation
Indices: 39449180--39449453 Score: 279
Period size: 45 Copynumber: 6.1 Consensus size: 45
39449170 GGAAGGCGAT
* *
39449180 ATCTGCTATCTTTGATCTGCTCCCTGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
*
39449225 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
39449270 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
** * * * *
39449314 ATCTATTATCTCCGATTTGCTCCCCATCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * * * * *
39449359 ATCTG-TCATCTTGGATCTGCT--GCGATGTAA-ACACATGAAGGTCAG
1 ATCTGCT-ATCTTCGATCTGCTCCCCG-TCTAATACAGA-G-ACGCCAA
* *
39449404 ATCTGCTATGTCTTCCATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTA--TCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
39449451 ATC
1 ATC
39449454 ATCTTGGATC
Statistics
Matches: 187, Mismatches: 31, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
43 5 0.03
44 46 0.25
45 106 0.57
46 1 0.01
47 18 0.10
48 5 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.30
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:39449302 original size:89 final size:90
Alignment explanation
Indices: 39449180--39449363 Score: 280
Period size: 89 Copynumber: 2.1 Consensus size: 90
39449170 GGAAGGCGAT
** * * *
39449180 ATCTGCTATCTTTGATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATTATCTCCGATCTGC
*
39449245 TCCCCGTCTAATACAGAGACGCCAA
66 TCCCCATCTAATACAGAGACGCCAA
* *
39449270 ATCTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTATTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATTATCTCCGATCTGC
*
39449334 TCCCCATCTAATACAGAGATGCCAA
66 TCCCCATCTAATACAGAGACGCCAA
39449359 ATCTG
1 ATCTG
39449364 TCATCTTGGA
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
89 78 0.92
90 7 0.08
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTATTATCTCCGATCTGC
TCCCCATCTAATACAGAGACGCCAA
Found at i:39449525 original size:78 final size:78
Alignment explanation
Indices: 39449393--39450008 Score: 817
Period size: 78 Copynumber: 7.8 Consensus size: 78
39449383 ATGTAAACAC
*
39449393 ATGAAGGTCAGATCTGCTATGTCTTCCATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
39449458 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
39449471 ATAAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
*
39449535 TTGGATCTACTTCA
65 TTGGATCTGCTTCA
* * **
39449549 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTACTCCCTATCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
39449614 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * * ** *
39449627 ATGAAGGTCAGATCTACTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGTCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
39449692 TAGATCTGCTTCAGTGTAAA
66 TGGATCTGCTTC-------A
*
39449712 CACGTGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCA
1 -A--TGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCA
*
39449777 TCTTGGATCTACTTCA
63 TCTTGGATCTGCTTCA
*
39449793 ATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
39449857 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * * * * *
39449871 ATAAAGGTCAGATCTGTTGTGTATTTGATCTACTCCCCATCTAATACA-AGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
39449935 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * *
39449948 ATGAAGGTCAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATA-TGAAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAG-AGATGCCAAATC
39450009 TGTTTCTTCG
Statistics
Matches: 475, Mismatches: 47, Indels: 32
0.86 0.08 0.06
Matches are distributed among these distances:
77 71 0.15
78 327 0.69
79 4 0.01
80 1 0.00
81 1 0.00
85 1 0.00
86 1 0.00
88 69 0.15
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:39450001 original size:155 final size:156
Alignment explanation
Indices: 39449718--39450008 Score: 444
Period size: 155 Copynumber: 1.9 Consensus size: 156
39449708 TAAACACGTG
* * * *
39449718 AAGGTCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGTCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTATTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGG
*
39449783 ATCTACTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGC
66 ATCTACTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGC
39449848 CAAATCATCTTGGATCTGCTTCAATA
131 CAAATCATCTTGGATCTGCTTCAATA
* * *
39449874 AAGGTCAGATCTGTTGTGTATTTGATCTACTCCCCATCTAATACA-AGATGCCAAATCATCTTGG
1 AAGGTCAGATCTGCTATGTATTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGG
* * *
39449938 ATCTGCTTCAATGAAGGT-CAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATA-TGAAGAT
66 ATCTACTTCAATGAAGGTCCA-ATCTGTTATGTCTTCGATCTGCTCCCCGTCGAATACAG-AGAT
39450001 GCCAAATC
129 GCCAAATC
39450009 TGTTTCTTCG
Statistics
Matches: 122, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
154 3 0.02
155 80 0.66
156 39 0.32
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (156 bp):
AAGGTCAGATCTGCTATGTATTCGATCTACTCCCCATCTAATACAGAGATGCCAAATCATCTTGG
ATCTACTTCAATGAAGGTCCAATCTGTTATGTCTTCGATCTGCTCCCCGTCGAATACAGAGATGC
CAAATCATCTTGGATCTGCTTCAATA
Found at i:39450346 original size:220 final size:220
Alignment explanation
Indices: 39449950--39450543 Score: 922
Period size: 220 Copynumber: 2.7 Consensus size: 220
39449940 CTGCTTCAAT
* * *
39449950 GAAGGTCAGATCTGTTATGTCTTCGATCTGCTCTCCGTCGAATATGAAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
*
39450015 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACG
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
* * * * *
39450080 TGAAAGCCAAATCTGCTATGTCTTCGATCTGGTCCTTGTCAACGCAAGGATGCCAAATCATTTTG
131 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTATAAACGCAAGGATGCCAAATCATCTTG
* *
39450145 GATCTACTTTGATGTGAATACATCC
196 GATCTACTTCGATGTGAAAACATCC
* * *
39450170 GAAGGTTAGATCTGCTATGTCTTCGATCTGTTCTCCGTCGAGTATGGAGATGCCAAATCTATTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
39450235 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
39450300 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTATAAACGCAAGGATGCCAAATCATCTTG
131 TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTATAAACGCAAGGATGCCAAATCATCTTG
*
39450365 GATCTACTTCGATGTGAAAACATCT
196 GATCTACTTCGATGTGAAAACATCC
* * *
39450390 GAAGGTTAGATCTACTATGTCTTCGATCTGCTCTCTGTTGAATATGGAGATGCCAAATCTGTTTC
1 GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
* * ** **
39450455 TTCAATTTGTTCTCTGACAATACAGAGATGTTAAATCATCTT-GTATCCACTTCAGCGTAAACAC
66 TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAG-ATCTGCTTCAGCGTAAACAC
* * *
39450519 CTGAAGGTCAAATCTGCTATG-CTTT
130 ATGAAAGCCAAATCTGCTATGTCTTT
39450544 AGCCTGTTAC
Statistics
Matches: 343, Mismatches: 30, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
219 5 0.01
220 338 0.99
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (220 bp):
GAAGGTTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTC
TTCGATTTGTTCTCTGACAGTACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACA
TGAAAGCCAAATCTGCTATGTCTTTGATCTGCTCCTTATAAACGCAAGGATGCCAAATCATCTTG
GATCTACTTCGATGTGAAAACATCC
Found at i:39461436 original size:27 final size:27
Alignment explanation
Indices: 39461388--39461546 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
39461378 GCAAGGCTGC
* *
39461388 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
39461415 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
39461441 TAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
39461468 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
39461495 CAGATATATGTGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
39461522 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
39461547 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.08
27 99 0.88
28 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:39461488 original size:54 final size:54
Alignment explanation
Indices: 39461388--39461546 Score: 214
Period size: 54 Copynumber: 3.0 Consensus size: 54
39461378 GCAAGGCTGC
* * * * *
39461388 CAGATAT-TGTGACGAAGTCACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* * * *
39461441 TAGATATATGTGGTAGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
39461495 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
39461547 GACGCTTCCT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 11 0.12
54 80 0.88
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAAAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:39461714 original size:28 final size:26
Alignment explanation
Indices: 39461652--39461714 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
39461642 AAAGTAACCC
** * *
39461652 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
39461678 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
39461706 TAGGGGTAT
1 TAGGGGTAT
39461715 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:39463166 original size:26 final size:26
Alignment explanation
Indices: 39463129--39463211 Score: 148
Period size: 26 Copynumber: 3.2 Consensus size: 26
39463119 ATGAAATTCC
39463129 TATCATGGAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
39463155 TATCATGAAACATTTACCTAACCCAT
1 TATCATGGAACATTTACCTAACCCAT
*
39463181 TATCATGGAACATTTACCTATCCCAT
1 TATCATGGAACATTTACCTAACCCAT
39463207 TATCA
1 TATCA
39463212 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.33
Consensus pattern (26 bp):
TATCATGGAACATTTACCTAACCCAT
Found at i:39468709 original size:2 final size:2
Alignment explanation
Indices: 39468702--39468727 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39468692 TTATTTGATG
39468702 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
39468728 GTATTCGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39470442 original size:49 final size:49
Alignment explanation
Indices: 39470370--39470619 Score: 382
Period size: 49 Copynumber: 5.1 Consensus size: 49
39470360 AGTCTGTACA
* *
39470370 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
*
39470419 TGAAAGTGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
* *
39470468 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
*
39470517 TG-AAG-GTGTATATATGTGATAAGGCTTAATGGCCAATGTGATGAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
* *
39470564 TG-AAG-GTGTATATATGTGATAAGGCTTAATGGCCAATGTGTATAAATG
1 TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTG-ATGAATG
39470612 TGATAAGT
1 TGA-AAGT
39470620 CCCGAAGGGC
Statistics
Matches: 187, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
47 79 0.42
48 11 0.06
49 94 0.50
50 3 0.02
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.31
Consensus pattern (49 bp):
TGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATG
Found at i:39470558 original size:22 final size:22
Alignment explanation
Indices: 39470530--39470608 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 22
39470520 AGGTGTATAT
39470530 ATGTGATAAGGCTTAATGGCCA
1 ATGTGATAAGGCTTAATGGCCA
* * ***
39470552 ATGTGATGAATG-TGAAGGTGTATA
1 ATGTGAT-AAGGCTTAA--TGGCCA
39470576 TATGTGATAAGGCTTAATGGCCA
1 -ATGTGATAAGGCTTAATGGCCA
39470599 ATGTGTATAA
1 ATGTG-ATAA
39470609 ATGTGATAAG
Statistics
Matches: 41, Mismatches: 10, Indels: 11
0.66 0.16 0.18
Matches are distributed among these distances:
22 15 0.37
23 10 0.24
24 6 0.15
25 10 0.24
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.32
Consensus pattern (22 bp):
ATGTGATAAGGCTTAATGGCCA
Found at i:39471280 original size:2 final size:2
Alignment explanation
Indices: 39471273--39471298 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
39471263 TATTCGAAGG
39471273 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
39471299 AGACAGCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39472362 original size:27 final size:27
Alignment explanation
Indices: 39472314--39472472 Score: 191
Period size: 27 Copynumber: 5.9 Consensus size: 27
39472304 GCAAGGCTGC
* * *
39472314 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
39472341 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
39472367 CAGATATATGTGGCTGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
39472394 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
39472421 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
39472448 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
39472473 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
26 10 0.09
27 101 0.88
28 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:39472407 original size:54 final size:54
Alignment explanation
Indices: 39472314--39472472 Score: 241
Period size: 54 Copynumber: 3.0 Consensus size: 54
39472304 GCAAGGCTGC
* * * *
39472314 CAGATAT-TGTGACAAAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* *
39472367 CAGATATATGTGGCTGAGCCACCAGATCAGATAATCGTGGCATAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
39472421 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
39472473 GACGCTTCCT
Statistics
Matches: 96, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 12 0.12
54 84 0.88
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:39473988 original size:93 final size:93
Alignment explanation
Indices: 39473876--39474047 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
39473866 CGCCCATAAG
* * *
39473876 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39473941 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
39473969 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39474034 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
39474048 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:39474044 original size:46 final size:46
Alignment explanation
Indices: 39473869--39474044 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
39473859 TGTAACCCGC
* * *
39473869 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
39473915 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
39473965 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
39474008 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
39474045 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:39476884 original size:26 final size:26
Alignment explanation
Indices: 39476854--39476961 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
39476844 TGAAATTCCC
39476854 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
39476880 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
39476906 AGCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
39476932 ATCATGGAACATTTACCTAACCAATT
1 ATCATGGAACATTTACCTAACCCATT
39476958 ATCA
1 ATCA
39476962 ATTTATCAAT
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:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:39484773 original size:169 final size:169
Alignment explanation
Indices: 39484489--39484824 Score: 609
Period size: 169 Copynumber: 2.0 Consensus size: 169
39484479 GGTTATATAC
** *
39484489 TTGTAAATTGAGATTCTTTTTTAAATGATTGAATAACTAATGATTATATGCAAGCCTAATTCTAA
1 TTGTAAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGATTATATGCAAGCCTAATTCTAA
39484554 GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGTTGGTATGAGTTAGGTATGATATTTTTGGG
66 GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGTTGGTATGAGTTAGGTATGATATTTTTGGG
39484619 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTTTG
131 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTTTG
* *
39484658 TTGTGAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGGTTATATGCAAGCCTAATTCTAA
1 TTGTAAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGATTATATGCAAGCCTAATTCTAA
* *
39484723 GTTTAAGCATAAGTGGGTGAGCATGAAGTGGTAAGTTGGTATGAGTTAGGTATGGTATTTTTGGG
66 GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGTTGGTATGAGTTAGGTATGATATTTTTGGG
39484788 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTT
131 TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTT
39484825 GCATTTTAAA
Statistics
Matches: 160, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
169 160 1.00
ACGTcount: A:0.29, C:0.06, G:0.25, T:0.40
Consensus pattern (169 bp):
TTGTAAATTGAGATTCTAGTTTAAATGATTGAAAAACTAATGATTATATGCAAGCCTAATTCTAA
GTTTAAGCATAAGTGGGTGAGCATGAAATGGTAAGTTGGTATGAGTTAGGTATGATATTTTTGGG
TTTAAATGTAAGTCAATTTGAGTGTGTTGTGGCTTTTTG
Found at i:39487529 original size:37 final size:37
Alignment explanation
Indices: 39487476--39487597 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
39487466 TATAAAAGAA
*
39487476 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
39487513 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
39487550 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
39487587 GTCTCACCCGG
1 GTCTTACCCGG
39487598 AACATATTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.21, C:0.34, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:39487754 original size:49 final size:49
Alignment explanation
Indices: 39487699--39487864 Score: 305
Period size: 49 Copynumber: 3.4 Consensus size: 49
39487689 TTTTACATTA
39487699 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
39487748 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
39487797 GCCATTAGGCCTCATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
39487846 GCCATTCGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
39487865 CATATATGTA
Statistics
Matches: 113, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 113 1.00
ACGTcount: A:0.30, C:0.33, G:0.09, T:0.28
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:39492572 original size:2 final size:2
Alignment explanation
Indices: 39492567--39492596 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
39492557 ATATATACAT
39492567 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
39492597 GTAAAAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Done.