Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2929
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: 48495
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Found at i:1818 original size:37 final size:37
Alignment explanation
Indices: 1682--1936 Score: 286
Period size: 39 Copynumber: 6.7 Consensus size: 37
1672 TTGAATGCTG
*
1682 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-ATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGT-ACTA-A
* *
1721 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAG-TACTAA
1760 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG-TACTAA
1799 TCCGGG-TAAGCCCGAAGGCATTTGTGCGAGTACTAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTACTAA
*
1835 TTCCGGG-TAAG-CCGAAGGCATTTGTGCGAGTTCTAAA
1 -TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTACT-AA
* *
1872 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGATTACTATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTACTA-A
* *
1911 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
1937 AACGAGGAGC
Statistics
Matches: 194, Mismatches: 12, Indels: 20
0.86 0.05 0.09
Matches are distributed among these distances:
36 34 0.18
37 40 0.21
38 7 0.04
39 94 0.48
40 19 0.10
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (37 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTACTAA
Found at i:9766 original size:39 final size:40
Alignment explanation
Indices: 9671--9893 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
9661 TTGAATGATG
*
9671 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
9709 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
9750 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
9789 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
9828 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
9867 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
9894 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:9857 original size:79 final size:81
Alignment explanation
Indices: 9671--9893 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
9661 TTGAATGATG
* * *
9671 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
9733 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
9750 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
9811 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
9828 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
9892 TG
66 TG
9894 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:9915 original size:79 final size:79
Alignment explanation
Indices: 9671--9926 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
9661 TTGAATGATG
* * * *
9671 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
9732 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
9750 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
9814 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
9828 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
9891 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
9908 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
9927 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:13546 original size:13 final size:13
Alignment explanation
Indices: 13502--13546 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
13492 CGCTGAGGTA
13502 TTTTTAATTTCTG
1 TTTTTAATTTCTG
*
13515 TTTTTCAATTTCTA
1 TTTTT-AATTTCTG
*
13529 CTTTTAATTTCTG
1 TTTTTAATTTCTG
13542 TTTTT
1 TTTTT
13547 CAAAAATCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.69
Consensus pattern (13 bp):
TTTTTAATTTCTG
Found at i:13611 original size:100 final size:98
Alignment explanation
Indices: 13429--13810 Score: 412
Period size: 100 Copynumber: 3.9 Consensus size: 98
13419 AATTTCCGTT
* * * *
13429 TTTTCAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACG
1 TTTT-AATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACG
*
13494 CTGAGGTATTTTTAATTTCTGTTTTTCAATTTCTAC
65 CTGAGGTATTTTCAATTTCTGTTTTTCAATTT-T-C
* * * *
13530 TTTTAATTTCTGTTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTAAGCCTCAGGGCACGC
1 TTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGC
13595 TGAGGTATTTTCAATTTCTGTTTTTCAATTTTTGCC
66 TGAGGTATTTTCAATTTCTGTTTTTCAA-TTTT--C
** * * *
13631 TTAAAAATTCTGCTTTTC--AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGC
*
13694 TGAGGTATTTTCAA-------TTTTC--GTTT-
66 TGAGGTATTTTCAATTTCTGTTTTTCAATTTTC
* *
13717 TTTTAATTTATG-TTTCTAAAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGACAC
1 TTTTAATTTATGCTTT-T-CAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACAC
* * * *
13781 ACTGAGGTAATTTCAATTTTTGTTTGTCAA
64 GCTGAGGTATTTTCAATTTCTGTTTTTCAA
13811 AACTCAACTC
Statistics
Matches: 240, Mismatches: 26, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
85 3 0.01
86 9 0.04
89 58 0.24
92 5 0.02
96 4 0.02
99 56 0.23
100 83 0.35
101 22 0.09
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (98 bp):
TTTTAATTTATGCTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGACACGC
TGAGGTATTTTCAATTTCTGTTTTTCAATTTTC
Found at i:13837 original size:73 final size:73
Alignment explanation
Indices: 13736--14297 Score: 691
Period size: 73 Copynumber: 7.6 Consensus size: 73
13726 ATGTTTCTAA
* * * ** *
13736 AAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGACACACTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
13801 TGTTTGTC
66 TGTTTGTC
* * *
13809 AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
*
13874 TGTTTTTC
66 TGTTTGTC
* * * * * *
13882 AAAAAAATCAACTCATATTACGATAGGTGAGTTGAGCTTCAGGACACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
13947 TTTGTTTGTC
64 TTTGTTTGTC
* *
13957 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
*
14022 TGTCTT-TAAA
66 TGT-TTGT--C
* * * *
14032 AAAAATCAGCTCATATTGCGAGAGGAGAGTTGAACCCCAAGACACGTTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
*
14097 TGTTTTTC
66 TGTTTGTC
* * * *
14105 AAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--ACGCTGAGGTAATTTCAATT
1 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATT
14168 TTTGTTTGTC
64 TTTGTTTGTC
* * *
14178 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGTTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
14243 TGTCTT-TC
66 TGT-TTGTC
* *
14251 AAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 ----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
14298 GCTGAGGTGT
Statistics
Matches: 421, Mismatches: 53, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
71 38 0.09
73 174 0.41
74 6 0.01
75 163 0.39
77 40 0.10
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.32
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTT
TGTTTGTC
Found at i:13913 original size:148 final size:147
Alignment explanation
Indices: 13716--14327 Score: 725
Period size: 148 Copynumber: 4.1 Consensus size: 147
13706 AATTTTCGTT
* * * * *
13716 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACA
* * * *
13780 CACTGAGGTAATTTCAATTTTTGTTTGTC-AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
*
13844 CTCAAGACACGTTGAGGTA
131 CTCAAG--ACGCTGAGGTA
* * * * *
13863 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAGCTTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACA
*
13928 CGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
* *
13992 CTCAAGACACGTTGGGGTA
131 CTCAAG--ACGCTGAGGTA
* * * * *
14011 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGAGAGTTGAA-CCCCAAGAC
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTCAAGAC
* * * *
14075 ACGTTGAGGTATTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGA
65 ACGCTGAGGTAATTTCAATTTTTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
14140 ACCTCAAGACGCTGAGGTA
129 ACCTCAAGACGCTGAGGTA
* * * * *
14159 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACA
* * * * *
14222 CGTTGAGTTATTTTCAATTTCTGTCTT-TCAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTT
66 CGCTGAGGTAATTTCAATTTTTGT-TTGTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTT
*
14286 GAACCTCAAGACGCTGAGGTG
127 GAACCTCAAGACGCTGAGGTA
* *
14307 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
14328 TTTTTGTGTT
Statistics
Matches: 406, Mismatches: 49, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
145 1 0.00
146 61 0.15
147 17 0.04
148 287 0.71
149 1 0.00
150 39 0.10
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (147 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAAC
CTCAAGACGCTGAGGTA
Found at i:13928 original size:75 final size:75
Alignment explanation
Indices: 13716--14327 Score: 733
Period size: 75 Copynumber: 8.3 Consensus size: 75
13706 AATTTTCGTT
* * * * * *
13716 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
13780 CACTGAGGTA
66 CGCTGAGGTA
* * * * *
13790 ATTTCAATTTTTGTTTGTC--AAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
13853 CGTTGAGGTA
66 CGCTGAGGTA
* * * *
13863 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAGCTTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
13928 CGCTGAGGTA
66 CGCTGAGGTA
* * *
13938 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
14001 CGTTGGGGTA
66 CGCTGAGGTA
* * * * * *
14011 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGAGAGTTGAACCCCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
14076 CGTTGAGGTA
66 CGCTGAGGTA
* * *
14086 TTTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
14149 CGCTGAGGTA
66 CGCTGAGGTA
* * * *
14159 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
14222 CGTTGAGTTA
66 CGCTGAGGTA
* * *
14232 TTTTCAATTTCTGTCTTTCAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-
1 TTTTCAATTTCTGTTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
*
14296 -ACGCTGAGGTG
64 CACGCTGAGGTA
* *
14307 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
14328 TTTTTGTGTT
Statistics
Matches: 459, Mismatches: 68, Indels: 23
0.83 0.12 0.04
Matches are distributed among these distances:
71 38 0.08
73 178 0.39
74 14 0.03
75 191 0.42
77 38 0.08
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTA
Found at i:14167 original size:221 final size:222
Alignment explanation
Indices: 13736--14327 Score: 872
Period size: 221 Copynumber: 2.7 Consensus size: 222
13726 ATGTTTCTAA
* * * ** * *
13736 AAAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAGGACACACTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* * * * *
13801 TGT-TTGT--CAAAACTCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTA
66 TGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTA
* *
13863 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAGCTTCAGGACA
130 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAACCTCA-GACA
13928 CGCTGAGGTAATTTCAATTTTTGTTTGTC
194 CGCTGAGGTAATTTCAATTTTTGTTTGTC
*
13957 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGGGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
* *
14022 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGAGAGTTGAACCCCAAGACACGTTGAGGTAT
66 TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
* * *
14087 TTTCAATTTTTGTTTTTCAAAAAAATCAACTCATATTGCGATAGGTGAGTTGAACCTCA-AGACG
131 TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAACCTCAGACACG
14151 CTGAGGTAATTTCAATTTTTGTTTGTC
196 CTGAGGTAATTTCAATTTTTGTTTGTC
* *
14178 AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGTTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
*
14243 TGTCTTTCAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--ACGCTGAGGT
66 TGTCTTT--AAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGT
* * *
14306 GTTTTCCATTTCTGTTCTTCAA
129 ATTTTCAATTTCTGTTTTTCAA
14328 TTTTTGTGTT
Statistics
Matches: 336, Mismatches: 30, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
221 188 0.56
222 2 0.01
223 146 0.43
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (222 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
TGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACACGTTGAGGTAT
TTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTACGATAGGTGAGTTGAACCTCAGACACG
CTGAGGTAATTTCAATTTTTGTTTGTC
Found at i:14424 original size:91 final size:88
Alignment explanation
Indices: 14296--14773 Score: 457
Period size: 91 Copynumber: 5.3 Consensus size: 88
14286 GAACCTCAAG
* * * * *
14296 ACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTTTGTGTTTCAAAAAAATCAGCTCATATTGC
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAAATTTTGT-TTTC-AAAAAATCAACTCATATTGC
* *
14361 AAGTGGTGAGTTGAGCCTTGACTCAC
64 GAGAGGTGAGTTGAGCCTTGA-TCAC
*
14387 ACGCTGAGGTGTTTTCAAATTT-TGTTTTTCAAATTTTGTTTTTCCAAAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTC-AATTTCTGTTTTTCAAATTTTG-TTTT-CAAAAAATCAACTCATATTG
* * **
14451 CGAGAGGTGAGTTCAGCC-TCAGGAC
63 CGAGAGGTGAGTTGAGCCTTGATCAC
* *
14476 ACGCTGAGATATTTTCAATTTCTTTTTTTC-AATTTATGTTTGTCAAAAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAAATTT-TGTTT-TC-AAAAAATCAACTCATATTG
*
14540 CGAGAGGTGAGTTGAGCCTCAGATCAC
63 CGAGAGGTGAGTTGAGCCT-TGATCAC
* * * *
14567 ACGCCGAGGTATTTTCAATTGATTTTTTTTTC-AATTTATGCTTTGC-AAAAATCAACTCATATT
1 ACGCTGAGGTATTTTCAATT--TCTGTTTTTCAAATTT-TG-TTTTCAAAAAATCAACTCATATT
* * *
14630 ACGAGAGGTGAGTTGAGCCTCGGGTCAC
62 GCGAGAGGTGAGTTGAGCCT-TGATCAC
** * ** * *
14658 ATACCGAGGTATTTTCAAAATCTGTTTTACAAATTTTGTTTT--AAAAATCAACTCATATTGTGA
1 ACGCTGAGGTATTTTCAATTTCTGTTTTTCAAATTTTGTTTTCAAAAAATCAACTCATATTGCGA
* *
14721 GAAGTGAGTTGAGCCTTGGCTCAC
66 GAGGTGAGTTGAGCCTT-GATCAC
** *
14745 GTGCTGAGCTATTTTCAATTTCTGTTTTT
1 ACGCTGAGGTATTTTCAATTTCTGTTTTT
14774 AATGTCTAGT
Statistics
Matches: 328, Mismatches: 45, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
87 61 0.19
88 17 0.05
89 71 0.22
90 7 0.02
91 145 0.44
92 6 0.02
93 18 0.05
94 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (88 bp):
ACGCTGAGGTATTTTCAATTTCTGTTTTTCAAATTTTGTTTTCAAAAAATCAACTCATATTGCGA
GAGGTGAGTTGAGCCTTGATCAC
Found at i:14434 original size:15 final size:14
Alignment explanation
Indices: 14398--14430 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
14388 CGCTGAGGTG
14398 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
14412 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
14426 TTTTC
1 TTTTC
14431 CAAAAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (14 bp):
TTTTCAAATTTTGT
Found at i:14537 original size:180 final size:177
Alignment explanation
Indices: 14254--14773 Score: 565
Period size: 180 Copynumber: 2.9 Consensus size: 177
14244 GTCTTTCAAA
* * * * *
14254 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGACGCTGAGGTGTTTTCCATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* * * *
14317 CTGTTCTTCAATTTTTGTGTTTCAAAAAAATCAGCTCATATTGCAAGTGGTGAGTTGAGCCTTGA
66 CTGTTTTTCAA-TTTTGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGA
* *
14382 CTCACACGCTGAGGTGTTTTCAAATTTTGTTTTTCAAATTT-TGTTTTTCC
129 CTCACACGCTGAGGTATTTTCAAATTTTGTTTTTC-AATTTATG-CTTTCC
* *
14432 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
14497 CTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 CTGTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TG
* *
14562 A-TCACACGCCGAGGTATTTTCAATTGATTTT-TTTTTCAATTTATGCTTTGC
128 ACTCACACGCTGAGGTATTTTCAA---ATTTTGTTTTTCAATTTATGCTTTCC
* * ** * *
14613 -AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACATACCGAGGTATTTTCAAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAAT
* * * *
14677 ATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTTG
64 TTCTGTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
* ** *
14739 GCTCACGTGCTGAGCTATTTTC-AATTTCTGTTTTT
128 ACTCACACGCTGAGGTATTTTCAAATTT-TGTTTTT
14774 AATGTCTAGT
Statistics
Matches: 291, Mismatches: 36, Indels: 32
0.81 0.10 0.09
Matches are distributed among these distances:
174 4 0.01
175 1 0.00
176 5 0.02
177 2 0.01
178 88 0.30
179 5 0.02
180 127 0.44
181 12 0.04
182 37 0.13
183 10 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (177 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
CTGTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGACT
CACACGCTGAGGTATTTTCAAATTTTGTTTTTCAATTTATGCTTTCC
Found at i:15491 original size:30 final size:30
Alignment explanation
Indices: 15455--15523 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
15445 CTAGCCTTTG
*
15455 CCACCACCAACTCCACTAGTCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
15485 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
15515 CCACCACCA
1 CCACCACCA
15524 CTTGTACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.26, C:0.51, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:16105 original size:25 final size:26
Alignment explanation
Indices: 16065--16137 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
16055 ATTCTAAATT
* *
16065 CTATATTACGTATATATATATATTATA
1 CTATATTATGTATATATATAT-TAATA
* *
16092 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
*
16117 CTATATTATTTATATATATAT
1 CTATATTATGTATATATATAT
16138 ATATTTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
25 20 0.53
26 2 0.05
27 16 0.42
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:16183 original size:22 final size:22
Alignment explanation
Indices: 16153--16260 Score: 71
Period size: 22 Copynumber: 4.9 Consensus size: 22
16143 TTTTTACATG
*
16153 TTATCTTATGTATATATTTTAA
1 TTATATTATGTATATATTTTAA
*
16175 TTATATTATGTATGTATTTTTTACA
1 TTATATTATGTA--TATATTTTA-A
* *
16200 CTATATTATGTACATATTTTTAA
1 TTATATTATGTATATA-TTTTAA
* * *
16223 -TATTATCACGTATTTATTTT--
1 TTA-TATTATGTATATATTTTAA
*
16243 TTATA-TATGTACATATTT
1 TTATATTATGTATATATTT
16261 ATGTAGTATT
Statistics
Matches: 67, Mismatches: 13, Indels: 15
0.71 0.14 0.16
Matches are distributed among these distances:
19 9 0.13
20 2 0.03
21 2 0.03
22 17 0.25
23 12 0.18
24 13 0.19
25 12 0.18
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (22 bp):
TTATATTATGTATATATTTTAA
Found at i:16209 original size:25 final size:24
Alignment explanation
Indices: 16159--16245 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 24
16149 CATGTTATCT
*
16159 TATGTATATATTTTAATTATATTATG
1 TATGTAT-T-TTTTAACTATATTATG
16185 TATGTATTTTTTACACTATATTATG
1 TATGTATTTTTTA-ACTATATTATG
** * *
16210 TACATA-TTTTTAA-TATTATCACG
1 TATGTATTTTTTAACTA-TATTATG
*
16233 TATTTATTTTTTA
1 TATGTATTTTTTA
16246 TATATGTACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
22 2 0.04
23 10 0.20
24 17 0.33
25 15 0.29
26 7 0.14
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (24 bp):
TATGTATTTTTTAACTATATTATG
Found at i:16227 original size:20 final size:20
Alignment explanation
Indices: 16202--16260 Score: 57
Period size: 23 Copynumber: 2.9 Consensus size: 20
16192 TTTTTACACT
16202 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
** *
16222 ATATTATCACGTATTTATTTTTT
1 ATATTAT---GTACATATTTTTA
16245 ATA-TATGTACATATTT
1 ATATTATGTACATATTT
16261 ATGTAGTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 3 0.10
23 13 0.42
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:16399 original size:16 final size:15
Alignment explanation
Indices: 16375--16409 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
16365 TAATTATTAT
16375 TATTCTAATATTTTGA
1 TATTCTAATATTTT-A
*
16391 TATTTTAATATTTTA
1 TATTCTAATATTTTA
16406 TATT
1 TATT
16410 ATTCACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (15 bp):
TATTCTAATATTTTA
Found at i:18021 original size:13 final size:13
Alignment explanation
Indices: 18003--18029 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17993 TCTTACGATT
18003 GAACTTTCACTTA
1 GAACTTTCACTTA
18016 GAACTTTCACTTA
1 GAACTTTCACTTA
18029 G
1 G
18030 TGAAAACATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (13 bp):
GAACTTTCACTTA
Found at i:20299 original size:10 final size:11
Alignment explanation
Indices: 20275--20308 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
20265 TGAGCTCATG
20275 ATAT-TGTGAT
1 ATATGTGTGAT
20285 ATATGTGTGAT
1 ATATGTGTGAT
20296 -TATGTGTGAT
1 ATATGTGTGAT
20306 ATA
1 ATA
20309 CAAGTGGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (11 bp):
ATATGTGTGAT
Found at i:23581 original size:29 final size:29
Alignment explanation
Indices: 23546--23619 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
23536 GTTGTGAGAT
* *
23546 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
23575 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
23604 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
23620 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:26615 original size:26 final size:27
Alignment explanation
Indices: 26579--26636 Score: 91
Period size: 26 Copynumber: 2.2 Consensus size: 27
26569 TGTGAGTACG
26579 TGTAAGACCATAGCTGGGCTATGACA-
1 TGTAAGACCATAGCTGGGCTATGACAT
* *
26605 TGTAAGACCATAGCTGGGTTATGGCAT
1 TGTAAGACCATAGCTGGGCTATGACAT
26632 TGTAA
1 TGTAA
26637 TCCCATGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
TGTAAGACCATAGCTGGGCTATGACAT
Found at i:28302 original size:29 final size:28
Alignment explanation
Indices: 28266--28343 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
28256 TCATGAGATT
28266 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
28296 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
28323 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
28344 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:28561 original size:174 final size:174
Alignment explanation
Indices: 28296--28797 Score: 923
Period size: 174 Copynumber: 2.9 Consensus size: 174
28286 AAATTGTACA
*
28296 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
28361 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
28426 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * *
28470 GCCCTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
28535 TGTGCGAACCCGATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
*
28600 TTTTGGACAGCAGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
28644 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
28709 TGTGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
28774 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
28798 ACCTTGAGTT
Statistics
Matches: 314, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 314 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:30268 original size:48 final size:48
Alignment explanation
Indices: 30212--30426 Score: 295
Period size: 48 Copynumber: 4.5 Consensus size: 48
30202 GGGGTGTTAC
* *
30212 AGACCATGTCTGGGACATGGCATTGGCATCGGTATGTGATCCTATGTA
1 AGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTA
*
30260 AGACCATGTCTGGGACATGGCATTGGCATTGATATGTGATCCCATGTA
1 AGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTA
* *
30308 AGACCATGTCTGGGACATGACATTGGCATCGATATATGATCCCATGTA
1 AGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTA
* * * * * ** *
30356 AGACCATATCTGGGATATGGCCTTGTCATCGTTATGTGATTTCGTGTA
1 AGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTA
* *
30404 AGACTATGTCTGGAACATGGCAT
1 AGACCATGTCTGGGACATGGCAT
30427 CGATATGAGA
Statistics
Matches: 146, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 146 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (48 bp):
AGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTA
Found at i:30466 original size:42 final size:42
Alignment explanation
Indices: 30382--30469 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
30372 ATGGCCTTGT
* * * *
30382 CATCGTTATGTGATTTCGTGTAAGACTATGTCTGGAACATGG
1 CATCGATATGAGACTTCGTGTAAGACCATGTCTGGAACATGG
30424 CATCGATATGAGACTTCGTGTAAGACCATAGT-TGG-ACTATGG
1 CATCGATATGAGACTTCGTGTAAGACCAT-GTCTGGAAC-ATGG
30466 CATC
1 CATC
30470 AAGTAAACGA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
41 2 0.05
42 36 0.90
43 2 0.05
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
CATCGATATGAGACTTCGTGTAAGACCATGTCTGGAACATGG
Found at i:33785 original size:20 final size:20
Alignment explanation
Indices: 33755--33799 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
33745 CTGTTTTGTT
*
33755 ATGGG-CCAACTGTATTGAA
1 ATGGGCCCAACTGTATTAAA
*
33774 ATGGGCCCAACTGTGTTAAA
1 ATGGGCCCAACTGTATTAAA
33794 ATGGGC
1 ATGGGC
33800 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (20 bp):
ATGGGCCCAACTGTATTAAA
Found at i:39895 original size:42 final size:42
Alignment explanation
Indices: 39818--39900 Score: 96
Period size: 42 Copynumber: 2.0 Consensus size: 42
39808 CATGAAATAT
* * *
39818 CATATCGACGCCATGTCCCTGACATGGTCTTATACGAAATCA
1 CATATCGACGCCATATCCCTGACATAGTCTCATACGAAATCA
* * *
39860 CATATCGAGGCCATAT-CCTGGATATAGTCTCATACGGAATC
1 CATATCGACGCCATATCCCT-GACATAGTCTCATACGAAATC
39901 TTAATAACCT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
41 3 0.09
42 31 0.91
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (42 bp):
CATATCGACGCCATATCCCTGACATAGTCTCATACGAAATCA
Done.