Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 284 of 335
Found at i:85858318 original size:21 final size:21
Alignment explanation
Indices: 85858289--85858328 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
85858279 GTTTTTATAT
*
85858289 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
85858310 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
85858329 GAATATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:85862541 original size:24 final size:27
Alignment explanation
Indices: 85862494--85862542 Score: 68
Period size: 24 Copynumber: 1.9 Consensus size: 27
85862484 GTTCGTCAGG
85862494 ATGTAGATGAAGATATTTACGATTTAT
1 ATGTAGATGAAGATATTTACGATTTAT
*
85862521 ATGTAG-T-AAGAT-TTTATGATTT
1 ATGTAGATGAAGATATTTACGATTT
85862543 TTTATTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 5 0.24
26 1 0.05
27 6 0.29
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (27 bp):
ATGTAGATGAAGATATTTACGATTTAT
Found at i:85864573 original size:43 final size:43
Alignment explanation
Indices: 85864526--85864929 Score: 482
Period size: 43 Copynumber: 9.5 Consensus size: 43
85864516 CTGGGCAAAT
* *
85864526 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* *
85864569 TAGCGGCG-TTTTTATAAAAGCGTCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-TGGTCTA
*
85864611 TAGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTACAT-GTCTA
1 TAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAAGTAC-TGGTCTA
*
85864655 TAGCGGCG-TTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-TGGTCTA
* * *
85864697 TAGCGGCGTTTTTTAAAAAAGCACCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* * * *
85864740 TAGCGGCATTTTTTATAAAAGTGCCTCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
*
85864783 TAGCGGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTAC-TGGTCTA
* * * *
85864826 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAGGTTCTGGTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
* * * * * *
85864869 TGGCGGCGTTTTTT-TAAGAGCGCCGCTAAAGGTCCTGTTCTT
1 TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
*
85864911 TAGCGGCG-CTTTTATAAAA
1 TAGCGGCGTTTTTTATAAAA
85864930 AACGCGCTAT
Statistics
Matches: 315, Mismatches: 36, Indels: 21
0.85 0.10 0.06
Matches are distributed among these distances:
41 17 0.05
42 103 0.33
43 146 0.46
44 42 0.13
45 7 0.02
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
TAGCGGCGTTTTTTATAAAAGCGCCGCTAAAAGTACTGGTCTA
Found at i:85864974 original size:24 final size:24
Alignment explanation
Indices: 85864942--85865013 Score: 144
Period size: 24 Copynumber: 3.0 Consensus size: 24
85864932 CGCGCTATAG
85864942 ACCTGTACTTTTAGAGGCGTTTTT
1 ACCTGTACTTTTAGAGGCGTTTTT
85864966 ACCTGTACTTTTAGAGGCGTTTTT
1 ACCTGTACTTTTAGAGGCGTTTTT
85864990 ACCTGTACTTTTAGAGGCGTTTTT
1 ACCTGTACTTTTAGAGGCGTTTTT
85865014 TTCTAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.46
Consensus pattern (24 bp):
ACCTGTACTTTTAGAGGCGTTTTT
Found at i:85869188 original size:26 final size:26
Alignment explanation
Indices: 85869152--85869287 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
85869142 CATGAAATTC
85869152 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
**
85869178 TTATCATGAAACATTTACCTAATACA
1 TTATCATGAAACATTTACCTAACCCA
*
85869204 TTATCATAAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
85869230 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
*
85869256 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
85869282 TTATCA
1 TTATCA
85869288 ATTTGTATCA
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 101 1.00
ACGTcount: A:0.40, C:0.24, G:0.03, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:85879309 original size:3 final size:3
Alignment explanation
Indices: 85879301--85879354 Score: 58
Period size: 3 Copynumber: 18.0 Consensus size: 3
85879291 TTTTGTCACA
* *
85879301 ATT ATT ATT ATT ATT ATC ATT GTT ATT ATTT ATT -TT ATT ATTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT
85879347 -TT ATT ATT
1 ATT ATT ATT
85879355 TATTTTTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
2 4 0.09
3 33 0.77
4 6 0.14
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:85879338 original size:12 final size:12
Alignment explanation
Indices: 85879302--85879360 Score: 82
Period size: 12 Copynumber: 4.6 Consensus size: 12
85879292 TTTGTCACAA
85879302 TTATTATTATTAT
1 TTATT-TTATTAT
85879315 TATCATTGTTATTAT
1 T-T-ATT-TTATTAT
85879330 TTATTTTATTAT
1 TTATTTTATTAT
85879342 TTATTTTATTAT
1 TTATTTTATTAT
85879354 TTATTTT
1 TTATTTT
85879361 TTTCCTTTGA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
12 26 0.60
13 4 0.09
14 2 0.05
15 11 0.26
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (12 bp):
TTATTTTATTAT
Found at i:85883461 original size:20 final size:21
Alignment explanation
Indices: 85883438--85883511 Score: 66
Period size: 20 Copynumber: 3.7 Consensus size: 21
85883428 ATTATTAAAC
85883438 ATAT-ATTTAATAATTTATTA
1 ATATAATTTAATAATTTATTA
* * *
85883458 ATATAATTTATTATTTTAATA
1 ATATAATTTAATAATTTATTA
*
85883479 A-ATAATTTAAT-A-TTATAA
1 ATATAATTTAATAATTTATTA
* *
85883497 ATTTATTTTAATAAT
1 ATATAATTTAATAAT
85883512 AACTTTCAAC
Statistics
Matches: 41, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
18 5 0.12
19 8 0.20
20 14 0.34
21 14 0.34
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATATAATTTAATAATTTATTA
Found at i:85883513 original size:30 final size:32
Alignment explanation
Indices: 85883445--85883513 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 32
85883435 AACATATATT
* *
85883445 TAATAATTTATTAATATAATTTATTATTTTAA
1 TAATAATTTAATAATATAATATATTATTTTAA
*
85883477 TAAATAATTTAATATTATAA-AT-TTATTTTAA
1 T-AATAATTTAATAATATAATATATTATTTTAA
85883508 TAATAA
1 TAATAA
85883514 CTTTCAACAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 5 0.15
31 10 0.30
32 2 0.06
33 16 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TAATAATTTAATAATATAATATATTATTTTAA
Found at i:85888147 original size:9 final size:9
Alignment explanation
Indices: 85888133--85888219 Score: 59
Period size: 9 Copynumber: 9.0 Consensus size: 9
85888123 TTAAATGATT
85888133 TTTTTATAA
1 TTTTTATAA
85888142 TTTTTATATA
1 TTTTTATA-A
*
85888152 TTATTTTTGAA
1 TT-TTTAT-AA
*
85888163 TTTTTATAT
1 TTTTTATAA
*
85888172 TTTTTTTAA
1 TTTTTATAA
*
85888181 GTTTTTTACGAA
1 --TTTTTA-TAA
85888193 TTTTTAT-A
1 TTTTTATAA
85888201 TATTTTATAA
1 T-TTTTATAA
*
85888211 ATTTTATAA
1 TTTTTATAA
85888220 GTCTTATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
8 2 0.03
9 30 0.49
10 14 0.23
11 12 0.20
12 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (9 bp):
TTTTTATAA
Found at i:85888164 original size:21 final size:18
Alignment explanation
Indices: 85888130--85888186 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 18
85888120 GGGTTAAATG
85888130 ATTTTTTTATAATTTTTAT
1 ATTTTTTT-TAATTTTTAT
85888149 ATATTATTTTTGAATTTTTAT
1 AT-TT-TTTTT-AATTTTTAT
85888170 ATTTTTTTTAAGTTTTT
1 ATTTTTTTTAA-TTTTT
85888187 TACGAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.06
19 12 0.35
20 5 0.15
21 15 0.44
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (18 bp):
ATTTTTTTTAATTTTTAT
Found at i:85888169 original size:30 final size:30
Alignment explanation
Indices: 85888133--85888215 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 30
85888123 TTAAATGATT
*
85888133 TTTTTATAATTTTTATATA-TTATTTT-TGAA
1 TTTTTATAATTTTTATA-AGTT-TTTTACGAA
* *
85888163 TTTTTATATTTTTTTTAAGTTTTTTACGAA
1 TTTTTATAATTTTTATAAGTTTTTTACGAA
*
85888193 TTTTTAT-ATATTTTATAAATTTT
1 TTTTTATAAT-TTTTATAAGTTTT
85888216 ATAAGTCTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 6 0.14
30 38 0.86
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (30 bp):
TTTTTATAATTTTTATAAGTTTTTTACGAA
Found at i:85888187 original size:21 final size:20
Alignment explanation
Indices: 85888130--85888188 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
85888120 GGGTTAAATG
*
85888130 ATTTTTTTATAATTTTTATAT
1 ATTTTTTT-TAATTTTTTTAT
*
85888151 ATTATTTTTGAA--TTTTTAT
1 ATT-TTTTTTAATTTTTTTAT
*
85888170 ATTTTTTTTAAGTTTTTTA
1 ATTTTTTTTAATTTTTTTA
85888189 CGAATTTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 7 0.22
19 9 0.28
20 6 0.19
21 5 0.16
22 5 0.16
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.71
Consensus pattern (20 bp):
ATTTTTTTTAATTTTTTTAT
Found at i:85891744 original size:26 final size:26
Alignment explanation
Indices: 85891715--85891822 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
85891705 TGGTACAAAT
*
85891715 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
85891741 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85891767 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
85891793 TGATAATGGTTTAGGTAAATGTTCCG
1 TGATAATGGGTTAGGTAAATGTTCCA
85891819 TGAT
1 TGAT
85891823 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:85893338 original size:26 final size:26
Alignment explanation
Indices: 85893309--85893361 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
85893299 TCTACAGTTT
*
85893309 TACCCTTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
85893335 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
85893361 T
1 T
85893362 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:85897862 original size:18 final size:18
Alignment explanation
Indices: 85897839--85897879 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
85897829 AAAAATAATA
85897839 TTGGCTACTCATGTTATT
1 TTGGCTACTCATGTTATT
85897857 TTGGCTACTCATGTTATT
1 TTGGCTACTCATGTTATT
85897875 TTGGC
1 TTGGC
85897880 CATAGAGTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.15, C:0.17, G:0.20, T:0.49
Consensus pattern (18 bp):
TTGGCTACTCATGTTATT
Found at i:85898281 original size:26 final size:26
Alignment explanation
Indices: 85898248--85898300 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
85898238 AACTTTACCT
85898248 TTACCCTTTATTTTGCTCAGCTGTCC
1 TTACCCTTTATTTTGCTCAGCTGTCC
*
85898274 TTACCCTTTATTTTGCTCAGCTTTCC
1 TTACCCTTTATTTTGCTCAGCTGTCC
85898300 T
1 T
85898301 GCCTTCCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.11, C:0.30, G:0.09, T:0.49
Consensus pattern (26 bp):
TTACCCTTTATTTTGCTCAGCTGTCC
Found at i:85898738 original size:64 final size:64
Alignment explanation
Indices: 85898656--85898845 Score: 314
Period size: 64 Copynumber: 3.0 Consensus size: 64
85898646 TTCTGCTTTT
* *
85898656 GGTTTTTCTGCTATTGTGTTTATAATTTTTGTGGTTTTTCTTATTTTGGTTTTTTTTGCTATTG
1 GGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTTTTTTTGCTATTG
* *
85898720 GGTTTTTCTGCCATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTTTTCTT-CTATTG
1 GGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTTTTTTTGCTATTG
85898783 GGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGGTTTTT-TTATTCTGG-TTTTTTTGCTATTG
1 GGTTTTTCTGCTATTGTGTTTATAGTTTTTGT-GGTTTTTCTTATTCTGGTTTTTTTTGCTATTG
85898846 CAGTCTCTAG
Statistics
Matches: 118, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
62 6 0.05
63 52 0.44
64 60 0.51
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (64 bp):
GGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTTTTTTTGCTATTG
Found at i:85898786 original size:16 final size:16
Alignment explanation
Indices: 85898688--85898803 Score: 62
Period size: 16 Copynumber: 7.3 Consensus size: 16
85898678 TAATTTTTGT
* *
85898688 GGTTTTTCTTAT-TTT
1 GGTTTTTCTTCTATTG
*
85898703 GGTTTTTTTTGCTATTG
1 GGTTTTTCTT-CTATTG
* *
85898720 GGTTTTTCTGCCATTG
1 GGTTTTTCTTCTATTG
* **
85898736 TGTTTATAGTT-T-TTG
1 GGTTT-TTCTTCTATTG
*
85898751 TGGTTTTTC-T-TATTCT
1 -GGTTTTTCTTCTATT-G
85898767 GGTTTTTCTTCTATTG
1 GGTTTTTCTTCTATTG
*
85898783 GGTTTTTCTGCTATTG
1 GGTTTTTCTTCTATTG
*
85898799 TGTTT
1 GGTTT
85898804 ATAGTTTTTG
Statistics
Matches: 75, Mismatches: 18, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
14 2 0.03
15 23 0.31
16 34 0.45
17 16 0.21
ACGTcount: A:0.07, C:0.09, G:0.20, T:0.64
Consensus pattern (16 bp):
GGTTTTTCTTCTATTG
Found at i:85898788 original size:15 final size:16
Alignment explanation
Indices: 85898701--85898803 Score: 68
Period size: 16 Copynumber: 6.5 Consensus size: 16
85898691 TTTTCTTATT
* *
85898701 TTGGTTTTTTTTGCTA
1 TTGGGTTTTTCTGCTA
*
85898717 TTGGGTTTTTCTGCCA
1 TTGGGTTTTTCTGCTA
* * * * *
85898733 TTGTGTTTAT-AGTTT
1 TTGGGTTTTTCTGCTA
85898748 TTGTGGTTTTTCT--TA
1 TTG-GGTTTTTCTGCTA
* *
85898763 TTCTGGTTTTTCTTCTA
1 TT-GGGTTTTTCTGCTA
85898780 TTGGGTTTTTCTGCTA
1 TTGGGTTTTTCTGCTA
*
85898796 TTGTGTTT
1 TTGGGTTT
85898804 ATAGTTTTTG
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
15 16 0.25
16 45 0.69
17 4 0.06
ACGTcount: A:0.07, C:0.10, G:0.20, T:0.63
Consensus pattern (16 bp):
TTGGGTTTTTCTGCTA
Found at i:85898805 original size:63 final size:63
Alignment explanation
Indices: 85898656--85898845 Score: 312
Period size: 63 Copynumber: 3.0 Consensus size: 63
85898646 TTCTGCTTTT
* *
85898656 GGTTTTTCTGCTATTGTGTTTATAATTTTTGTGGTTTTTCTTATTTTGGTTTTTTTTGCTATTG
1 GGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGG-TTTTTTTGCTATTG
*
85898720 GGTTTTTCTGCCATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTTTTCTT-CTATTG
1 GGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTTTT-TTGCTATTG
85898783 GGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGGTTTTT-TTATTCTGGTTTTTTTGCTATTG
1 GGTTTTTCTGCTATTGTGTTTATAGTTTTTGT-GGTTTTTCTTATTCTGGTTTTTTTGCTATTG
85898846 CAGTCTCTAG
Statistics
Matches: 119, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
62 2 0.02
63 62 0.52
64 55 0.46
ACGTcount: A:0.08, C:0.08, G:0.20, T:0.64
Consensus pattern (63 bp):
GGTTTTTCTGCTATTGTGTTTATAGTTTTTGTGGTTTTTCTTATTCTGGTTTTTTTGCTATTG
Found at i:85903797 original size:16 final size:17
Alignment explanation
Indices: 85903764--85903804 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
85903754 TCAAGTTTAT
*
85903764 ACCAGAATAAATCAATAC
1 ACCAAAATAAAT-AATAC
85903782 ACCAAAATAAAT-ATAC
1 ACCAAAATAAATAATAC
85903798 ACCAAAA
1 ACCAAAA
85903805 AATTATTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.50
18 11 0.50
ACGTcount: A:0.61, C:0.22, G:0.02, T:0.15
Consensus pattern (17 bp):
ACCAAAATAAATAATAC
Found at i:85909323 original size:127 final size:127
Alignment explanation
Indices: 85909168--85909464 Score: 416
Period size: 127 Copynumber: 2.3 Consensus size: 127
85909158 AATATTTGAT
* * * *
85909168 GTTTGGAAATTTGGGGAATCGTGCCCTATAGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAATAA
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAACAA
*
85909233 TCGCATATTCCTTTAGAATTTCACTCGTGCTTTT-CAAATTCTAAAACAAAGCAATGTTCAAC
66 TCGAATATTCCTTTAGAATTTCACTCGTG-TTTTACAAATTCTAAAACAAAGCAATGTTCAAC
* * * *
85909295 GTTTGGAAATTCGAGGAATTGTGCCCTATCGTGTTGAGTTTCGATTTCCGGTTTGTTCAAAACAA
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAACAA
* * * * * *
85909360 TTGAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTCTAAAATAAGGCAATTTTCAAT
66 TCGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAAGCAATGTTCAAC
* * *
85909422 GTTTAGAAATTCGAGGAATCGCGCCCTACCGTGCTGGGTTTCG
1 GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
85909465 GTTTTTTGTT
Statistics
Matches: 148, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
126 4 0.03
127 144 0.97
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (127 bp):
GTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGATTTCCCGTTTGTTCAAAACAA
TCGAATATTCCTTTAGAATTTCACTCGTGTTTTACAAATTCTAAAACAAAGCAATGTTCAAC
Found at i:85911982 original size:45 final size:44
Alignment explanation
Indices: 85911866--85912294 Score: 325
Period size: 45 Copynumber: 9.6 Consensus size: 44
85911856 CATAACAAAC
* * *
85911866 CTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTGAAG-TAGCAAGT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATTGCAA-T
*
85911910 CTTATCTCCCTGAAGTTGTAGTAGAGCAGATTGAAGATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATTGCA-AT
* * * * * ***
85911955 CTTGTCCCCCTGAAGTTGTAGTGGAGCAGATCGAAG-CCACAAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATTGCAAT
* * * *
85911998 CCATATCTCTCTGAAGTTGCAGTAGAGCAGGA-T-AAAATTACCCAAGT
1 -CTTATCTCCCTGAAGTTGCAGTAGAGCA-GATTGAAGATT--GCAA-T
* *
85912045 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATTGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATTGCA-AT
* * * * ***
85912090 CTTGTCTCCCTGAAGTTGCAATGGAGCAGATCGAAG-CCACAAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATTGCAAT
* * * *
85912133 CCTTATCTCTCTGAAGTTGCAGTAGAGCAAGA-TAAAGTTATCCAAGT
1 -CTTATCTCCCTGAAGTTGCAGTAGAGC-AGATTGAAGAT-TGCAA-T
* * *
85912180 CTTATCTCTCTGAAGTTGCAGTAGAGTAGACTGAAG-TTAGCAGAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATT-GCA-AT
* * * *
85912225 CTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAG-TTACAAT
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATTGCAAT
* *
85912268 CCTTATCTCTCTGAAGTTGTAGTAGAG
1 -CTTATCTCCCTGAAGTTGCAGTAGAG
85912295 TAGGATAAAA
Statistics
Matches: 308, Mismatches: 57, Indels: 40
0.76 0.14 0.10
Matches are distributed among these distances:
43 8 0.03
44 110 0.36
45 118 0.38
46 65 0.21
47 7 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGATTGCAAT
Found at i:85912072 original size:135 final size:135
Alignment explanation
Indices: 85911860--85912336 Score: 665
Period size: 135 Copynumber: 3.5 Consensus size: 135
85911850 AGTCATCATA
* ** * *
85911860 ACAAACCTTATCTCTCTGAAGTTGCAGTAGAGCAGG-TTGAAGTA-GCAAGTCTTATCTCCCTGA
1 ACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGA
* * * *
85911923 AGTTGTAGTAGAGCAGATTGAAGATTGCAGATCTTGTCCCCCTGAAGTTGTAGTGGAGCAGATCG
66 AGTTGCAGTAGAGCAGACTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCG
85911988 AAGCC
131 AAGCC
*
85911993 ACAATCCATATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGA
1 ACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGA
* *
85912058 AGTTGCAGTGGAGCAGACTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAATGGAGCAGATCG
66 AGTTGCAGTAGAGCAGACTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCG
85912123 AAGCC
131 AAGCC
* * * *
85912128 ACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAAGATAAAGTTATCCAAGTCTTATCTCTCTGA
1 ACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGA
* * *
85912193 AGTTGCAGTAGAGTAGACTGAAG-TTAGCAGATCTTATCTCCCTGAAGTTACAGTGGAGCAGATC
66 AGTTGCAGTAGAGCAGACTGAAGATT-GCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC
**
85912257 GAAGTT
130 GAAGCC
* * * * * *
85912263 ACAATCCTTATCTCTCTGAAGTTGTAGTAGAGTAGGATAAAAATACACGAA-CCGTATCTCCCTG
1 ACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTAC-CCAAGTCTTATCTCCCTG
85912327 AAGTTGCAGT
65 AAGTTGCAGT
85912337 GGAGTAGTTG
Statistics
Matches: 306, Mismatches: 34, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
133 34 0.11
134 7 0.02
135 262 0.86
136 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (135 bp):
ACAATCCTTATCTCTCTGAAGTTGCAGTAGAGCAGGATAAAATTACCCAAGTCTTATCTCCCTGA
AGTTGCAGTAGAGCAGACTGAAGATTGCAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCG
AAGCC
Found at i:85914395 original size:7 final size:7
Alignment explanation
Indices: 85914383--85914412 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
85914373 TCATCAATTC
85914383 ATATATT
1 ATATATT
85914390 ATATATT
1 ATATATT
85914397 ATATATT
1 ATATATT
85914404 ATATATT
1 ATATATT
85914411 AT
1 AT
85914413 GTGTTCATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATATT
Found at i:85915080 original size:127 final size:127
Alignment explanation
Indices: 85914842--85915160 Score: 478
Period size: 127 Copynumber: 2.5 Consensus size: 127
85914832 GAAAATTCCT
* **
85914842 TAAAACGAAGGTAATGTTTGATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
* *
85914907 ATTTCCCGTTTGTTTAAAATAATCGAATATTCCTTGAGAATTTCACTCGTGTTTT-TCAAATTC
65 ATTTCCCGTTTGTTCAAAACAATCGAATATTCCTTGAGAATTTCACTCGTGTTTTAT-AAATTC
*
85914970 TAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
1 TAAAACAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
** * * *
85915035 TTTCTGGTTTGTTCAAAACGATTGAATATTCCTTTAGAATTTCACTCGTGTTTTATAAATTC
66 TTTCCCGTTTGTTCAAAACAATCGAATATTCCTTGAGAATTTCACTCGTGTTTTATAAATTC
* * * *
85915097 TAAAATAAGGCAATGTTCAATGTTTGAAAATTCAAGGAATCATGCCCTACCGTGCTGGGTTTCG
1 TAAAACAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
85915161 GTTTTTTGTT
Statistics
Matches: 174, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
127 167 0.96
128 7 0.04
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (127 bp):
TAAAACAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
TTTCCCGTTTGTTCAAAACAATCGAATATTCCTTGAGAATTTCACTCGTGTTTTATAAATTC
Found at i:85918479 original size:27 final size:26
Alignment explanation
Indices: 85918449--85918510 Score: 97
Period size: 28 Copynumber: 2.3 Consensus size: 26
85918439 TTTAAAACCC
85918449 TAGGGGTATATCGGTAATTTTGCTCTT
1 TAGGGGTATATCGGTAATTTTGCTC-T
*
85918476 TAGGGGTAATTTCGGTAATTTTGCTCT
1 TAGGGGT-ATATCGGTAATTTTGCTCT
85918503 TAGGGGTA
1 TAGGGGTA
85918511 ATTTCGTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 1 0.03
27 15 0.45
28 17 0.52
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (26 bp):
TAGGGGTATATCGGTAATTTTGCTCT
Found at i:85918513 original size:27 final size:28
Alignment explanation
Indices: 85918449--85918516 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
85918439 TTTAAAACCC
*
85918449 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
85918476 TAGGGGTAATTTCGGTAATTTTGCTC-T
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
85918503 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
85918517 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:85920333 original size:19 final size:18
Alignment explanation
Indices: 85920296--85920339 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
85920286 ATACATACAG
85920296 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
85920313 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
85920332 TACTAATT
1 TAATAATT
85920340 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:85921489 original size:17 final size:18
Alignment explanation
Indices: 85921457--85921497 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
85921447 TTAACAAATA
85921457 GAAAAACTTGAACATTTC
1 GAAAAACTTGAACATTTC
*
85921475 GAAAAACTT-ACCATTTC
1 GAAAAACTTGAACATTTC
*
85921492 CAAAAA
1 GAAAAA
85921498 TACCCTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (18 bp):
GAAAAACTTGAACATTTC
Found at i:85922752 original size:28 final size:28
Alignment explanation
Indices: 85922706--85922774 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
85922696 TTTAAAACCC
*
85922706 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
85922733 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
85922761 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
85922775 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:85924589 original size:19 final size:18
Alignment explanation
Indices: 85924552--85924595 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
85924542 ATACATACAG
85924552 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
85924569 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
85924588 TACTAATT
1 TAATAATT
85924596 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:85925062 original size:26 final size:27
Alignment explanation
Indices: 85925028--85925079 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
85925018 ACACTCCACT
*
85925028 TATAAATCTATTT-TTTATA-TTACATA
1 TATAAATCT-TTTACTTATATTTACATA
85925054 TATAAATCTTTTACTTATATTTACAT
1 TATAAATCTTTTACTTATATTTACAT
85925080 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 14 0.61
27 6 0.26
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (27 bp):
TATAAATCTTTTACTTATATTTACATA
Found at i:85925825 original size:20 final size:20
Alignment explanation
Indices: 85925789--85925827 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
85925779 TATTATCTAA
*
85925789 AAATGTAAAAAATTTAAAAG
1 AAATGTAAAAAAGTTAAAAG
85925809 AAAT-TAAAAAAGGTTAAAA
1 AAATGTAAAAAA-GTTAAAA
85925828 AACAATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (20 bp):
AAATGTAAAAAAGTTAAAAG
Found at i:85926401 original size:18 final size:18
Alignment explanation
Indices: 85926330--85926393 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
85926320 AAAATATATC
* *
85926330 ATTATAAAATTTTA-AAA
1 ATTAAAAAATATTATAAA
*
85926347 ATCAAAATAATA-TATAAAA
1 ATTAAAA-AATATTAT-AAA
*
85926366 ATTGAAAAATATTATAAA
1 ATTAAAAAATATTATAAA
85926384 ATTAAAAAAT
1 ATTAAAAAAT
85926394 TATTTAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.19
18 19 0.51
19 11 0.30
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
ATTAAAAAATATTATAAA
Found at i:85926497 original size:22 final size:23
Alignment explanation
Indices: 85926458--85926502 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
85926448 TTTTAGAATT
*
85926458 ATATGTTTTAAAATTTTATAAAAA
1 ATATGTTTTAAAACTTTA-AAAAA
85926482 ATAT-TTTT-AAACTTTAAAAAA
1 ATATGTTTTAAAACTTTAAAAAA
85926503 TTACAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 7 0.35
23 4 0.20
24 4 0.20
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATATGTTTTAAAACTTTAAAAAA
Found at i:85932276 original size:4 final size:4
Alignment explanation
Indices: 85932267--85932300 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
85932257 GCTAGTAAAA
85932267 GGGT GGGT GGGT GGGT GGGT GGGT GGGT GGGT GG
1 GGGT GGGT GGGT GGGT GGGT GGGT GGGT GGGT GG
85932301 TGTTTTAGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.76, T:0.24
Consensus pattern (4 bp):
GGGT
Found at i:85932400 original size:33 final size:33
Alignment explanation
Indices: 85932347--85932409 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
85932337 TTCTAAAAAT
*
85932347 CTTTGTTGGCTTAGGGGTTTAATTTTGTAGTAC
1 CTTTGTTGGCTTAGGAGTTTAATTTTGTAGTAC
* *
85932380 CTTTGTTGGTTTTGGAGTTTAATTTTGTAG
1 CTTTGTTGGCTTAGGAGTTTAATTTTGTAG
85932410 AACCATTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.14, C:0.06, G:0.27, T:0.52
Consensus pattern (33 bp):
CTTTGTTGGCTTAGGAGTTTAATTTTGTAGTAC
Found at i:85932961 original size:11 final size:11
Alignment explanation
Indices: 85932947--85932989 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
85932937 TGAAAAAAAA
85932947 TTAAAATTATT
1 TTAAAATTATT
*
85932958 TTAAATTATTTTT
1 TTAAA--ATTATT
*
85932971 TTTAAATTATT
1 TTAAAATTATT
85932982 TTAAAATT
1 TTAAAATT
85932990 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 17 0.65
13 9 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTAAAATTATT
Found at i:85932975 original size:14 final size:14
Alignment explanation
Indices: 85932956--85932983 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
85932946 ATTAAAATTA
85932956 TTTTAAATTATTTT
1 TTTTAAATTATTTT
85932970 TTTTAAATTATTTT
1 TTTTAAATTATTTT
85932984 AAAATTTTTA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTAAATTATTTT
Found at i:85932996 original size:18 final size:19
Alignment explanation
Indices: 85932969--85933005 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
85932959 TAAATTATTT
85932969 TTTTTAAATTATTTT-AAAA
1 TTTTTAAATT-TTTTGAAAA
85932988 TTTTT-AATTTTTTGAAAA
1 TTTTTAAATTTTTTGAAAA
85933006 ATATGTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTTAAATTTTTTGAAAA
Found at i:85934408 original size:13 final size:13
Alignment explanation
Indices: 85934392--85934428 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
85934382 TACATAACAA
85934392 GTTCGCATATAGG
1 GTTCGCATATAGG
*
85934405 GTTCGCCTATAGG
1 GTTCGCATATAGG
*
85934418 GTTTGCATATA
1 GTTCGCATATA
85934429 TAAGGTTCGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.22, C:0.16, G:0.27, T:0.35
Consensus pattern (13 bp):
GTTCGCATATAGG
Found at i:85934435 original size:28 final size:28
Alignment explanation
Indices: 85934398--85934470 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 28
85934388 ACAAGTTCGC
* *
85934398 ATATAGGGTTCGC-CTATAGGGTTTGCAT
1 ATATAAGGTTCGCAC-ATAAGGTTTGCAT
85934426 ATATAAGGTTCGCACATAAGGTTTGCAT
1 ATATAAGGTTCGCACATAAGGTTTGCAT
85934454 AGTATATAGGGTTCGCA
1 A-TATA-A-GGTTCGCA
85934471 TGATATATAG
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
28 25 0.64
29 5 0.13
30 1 0.03
31 8 0.21
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
ATATAAGGTTCGCACATAAGGTTTGCAT
Found at i:85938198 original size:13 final size:14
Alignment explanation
Indices: 85938177--85938230 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
85938167 ACGCCTATAA
*
85938177 GGTTTGCAC-GTAG
1 GGTTCGCACAGTAG
*
85938190 GGTTCGCACATATAG
1 GGTTCGCACA-GTAG
*
85938205 GGTTCACACATGTAG
1 GGTTCGCACA-GTAG
85938220 GGTTCGCACAG
1 GGTTCGCACAG
85938231 ATAAGGTTCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
13 8 0.24
14 1 0.03
15 25 0.74
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.26
Consensus pattern (14 bp):
GGTTCGCACAGTAG
Found at i:85938207 original size:15 final size:15
Alignment explanation
Indices: 85938187--85938239 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
85938177 GGTTTGCACG
85938187 TAGGGTTCGCACATA
1 TAGGGTTCGCACATA
* *
85938202 TAGGGTTCACACATG
1 TAGGGTTCGCACATA
*
85938217 TAGGGTTCGCACAGA
1 TAGGGTTCGCACATA
*
85938232 TAAGGTTC
1 TAGGGTTC
85938240 ACATATTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (15 bp):
TAGGGTTCGCACATA
Found at i:85938222 original size:30 final size:30
Alignment explanation
Indices: 85938186--85938242 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
85938176 AGGTTTGCAC
* *
85938186 GTAGGGTTCGCACATATAGGGTTCACACAT
1 GTAGGGTTCGCACAGATAAGGTTCACACAT
85938216 GTAGGGTTCGCACAGATAAGGTTCACA
1 GTAGGGTTCGCACAGATAAGGTTCACA
85938243 TATTATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (30 bp):
GTAGGGTTCGCACAGATAAGGTTCACACAT
Found at i:85938279 original size:18 final size:18
Alignment explanation
Indices: 85938258--85938299 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
85938248 TATAAGGTTT
85938258 GCATAATATGTAGGATTC
1 GCATAATATGTAGGATTC
* * *
85938276 GCATGATATGTAGGGTTT
1 GCATAATATGTAGGATTC
85938294 GCATAA
1 GCATAA
85938300 ATATATTTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (18 bp):
GCATAATATGTAGGATTC
Found at i:85939849 original size:15 final size:16
Alignment explanation
Indices: 85939824--85939853 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
85939814 ATTATTTATC
85939824 TTATTATTTAAATTTG
1 TTATTATTTAAATTTG
85939840 TTATTA-TTAAATTT
1 TTATTATTTAAATTT
85939854 TTTAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTATTATTTAAATTTG
Found at i:85947142 original size:16 final size:17
Alignment explanation
Indices: 85947121--85947152 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
85947111 TTAATGGTAC
85947121 ATTTTTATTT-TTTGTA
1 ATTTTTATTTATTTGTA
85947137 ATTTTTATTTATTTGT
1 ATTTTTATTTATTTGT
85947153 TTGTTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (17 bp):
ATTTTTATTTATTTGTA
Found at i:85947949 original size:29 final size:29
Alignment explanation
Indices: 85947916--85947977 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
85947906 ATATTATTAT
*
85947916 AAAATTTTTAAAAAAATT-TAAAAATTTAA
1 AAAATTCTTAAAAAAATTCT-AAAATTTAA
* *
85947945 AAAATTCTTAATATAATTCTAAAATTTAA
1 AAAATTCTTAAAAAAATTCTAAAATTTAA
85947974 AAAA
1 AAAA
85947978 AATAAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 28 0.97
30 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (29 bp):
AAAATTCTTAAAAAAATTCTAAAATTTAA
Found at i:85948351 original size:20 final size:18
Alignment explanation
Indices: 85948326--85948376 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
85948316 TTATTAATTT
*
85948326 TAAAAATTCAAAATAATATA
1 TAAAAATT-AAAA-AAGATA
85948346 TAAAAATTAAAAAAGATA
1 TAAAAATTAAAAAAGATA
*
85948364 -AAAAATGAAAAAA
1 TAAAAATTAAAAAA
85948377 TAAGTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 12 0.41
18 5 0.17
19 4 0.14
20 8 0.28
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
TAAAAATTAAAAAAGATA
Found at i:85950743 original size:7 final size:7
Alignment explanation
Indices: 85950733--85950759 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
85950723 GTATTGTTTG
85950733 TTAATTT
1 TTAATTT
85950740 TTAATTT
1 TTAATTT
85950747 TTAATTT
1 TTAATTT
85950754 TTAATT
1 TTAATT
85950760 AATTAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTAATTT
Found at i:85951046 original size:99 final size:99
Alignment explanation
Indices: 85950872--85951069 Score: 351
Period size: 99 Copynumber: 2.0 Consensus size: 99
85950862 CTTGTATCTA
* *
85950872 TTTCAATATTTTTGGAATCAAATCGGCTGACTGATTGGATCGATTAGACTGAAAATCGATTGGTG
1 TTTCAATATTTTTGCAATCAAATCGACTGACTGATTGGATCGATTAGACTGAAAATCGATTGGTG
85950937 CATCAATTCAATTGCTTGAACCAAAAACTGAATT
66 CATCAATTCAATTGCTTGAACCAAAAACTGAATT
* *
85950971 TTTCAATATTTTTGCAATCAAATCGACTGATTGATTGGATCGATTAGACTGACAATCGATTGGTG
1 TTTCAATATTTTTGCAATCAAATCGACTGACTGATTGGATCGATTAGACTGAAAATCGATTGGTG
*
85951036 CATCAGTTCAATTGCTTGAACCAAAAACTGAATT
66 CATCAATTCAATTGCTTGAACCAAAAACTGAATT
85951070 GAACCGCTTT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 94 1.00
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Consensus pattern (99 bp):
TTTCAATATTTTTGCAATCAAATCGACTGACTGATTGGATCGATTAGACTGAAAATCGATTGGTG
CATCAATTCAATTGCTTGAACCAAAAACTGAATT
Found at i:85952221 original size:2 final size:2
Alignment explanation
Indices: 85952214--85952249 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
85952204 TGCTAAAACC
85952214 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
85952250 GAAAATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85953043 original size:51 final size:52
Alignment explanation
Indices: 85952983--85953100 Score: 186
Period size: 52 Copynumber: 2.3 Consensus size: 52
85952973 AAAAATATGA
*
85952983 TGGAGGACTTATTATGGAATATTGAATA-ACTATAGAATTCTTT-AAACATGT
1 TGGAGGACTTATTATGAAATATTGAATATACTATAGAATT-TTTGAAACATGT
* *
85953034 TGGAGGACTTACTATGAAATATTGAATATATTATAGAATTTTTGAAACATGT
1 TGGAGGACTTATTATGAAATATTGAATATACTATAGAATTTTTGAAACATGT
85953086 TGGAGGACTTATTAT
1 TGGAGGACTTATTAT
85953101 TGAACAAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
51 29 0.48
52 32 0.52
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (52 bp):
TGGAGGACTTATTATGAAATATTGAATATACTATAGAATTTTTGAAACATGT
Found at i:85953090 original size:52 final size:51
Alignment explanation
Indices: 85952983--85953096 Score: 176
Period size: 51 Copynumber: 2.2 Consensus size: 51
85952973 AAAAATATGA
* *
85952983 TGGAGGACTTATTATGGAATATTGAATAACTATAGAATTCTTTAAACATGT
1 TGGAGGACTTACTATGAAATATTGAATAACTATAGAATTCTTTAAACATGT
*
85953034 TGGAGGACTTACTATGAAATATTGAATATATTATAGAATT-TTTGAAACATGT
1 TGGAGGACTTACTATGAAATATTGAATA-ACTATAGAATTCTTT-AAACATGT
85953086 TGGAGGACTTA
1 TGGAGGACTTA
85953097 TTATTGAACA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
51 29 0.50
52 29 0.50
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (51 bp):
TGGAGGACTTACTATGAAATATTGAATAACTATAGAATTCTTTAAACATGT
Found at i:85954556 original size:27 final size:27
Alignment explanation
Indices: 85954537--85954702 Score: 235
Period size: 27 Copynumber: 6.1 Consensus size: 27
85954527 ATTACCAAAG
*
85954537 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* * *
85954564 CACCTTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCATTT
* *
85954591 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
* **
85954618 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTT
85954645 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACCATTT
85954672 TACCCTC-AGTTTACAAAATTACCATTT
1 TACCCTCGA-TTTACAAAATTACCATTT
85954699 TACC
1 TACC
85954703 TTTGATTATG
Statistics
Matches: 123, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.01
27 122 0.99
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCATTT
Found at i:85954742 original size:26 final size:26
Alignment explanation
Indices: 85954713--85954863 Score: 110
Period size: 27 Copynumber: 5.7 Consensus size: 26
85954703 TTTGATTATG
*
85954713 AAATTACTAAAATACCTCCAG-TTGTA
1 AAATTACCAAAATACC-CCAGTTTGTA
* * *
85954739 AAATTACCAAAGTACCCCGGTTTATA
1 AAATTACCAAAATACCCCAGTTTGTA
* *
85954765 AAATTACCCAAATATCCTC-GATTTGTA
1 AAATTACCAAAATA-CCCCAG-TTTGTA
* *
85954792 AAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACCAAAATACCC-CAGTTTGTA
** ***
85954819 AAATTACTGAAATACCCTC-GATCAATA
1 AAATTACCAAAATACCC-CAG-TTTGTA
85954846 AAATTACCAAAATACCCC
1 AAATTACCAAAATACCCC
85954864 TGCAGGGTAG
Statistics
Matches: 101, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
25 3 0.03
26 35 0.35
27 62 0.61
28 1 0.01
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (26 bp):
AAATTACCAAAATACCCCAGTTTGTA
Found at i:85954793 original size:27 final size:27
Alignment explanation
Indices: 85954734--85954862 Score: 120
Period size: 27 Copynumber: 4.8 Consensus size: 27
85954724 ATACCTCCAG
*
85954734 TTGTAAAATTA-CCAAAGTACCC-CGGT
1 TTGTAAAATTACCCAAA-TACCCTCGAT
* *
85954760 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCCAAATACCCTCGAT
*
85954787 TTGTAAAATTACCGAAATACCCTC-AGT
1 TTGTAAAATTACCCAAATACCCTCGA-T
* **
85954814 TTGCAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACCCAAATACCCTCGAT
*** *
85954841 CAATAAAATTACCAAAATACCC
1 TTGTAAAATTACCCAAATACCC
85954863 CTGCAGGGTA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 15 0.18
27 69 0.81
28 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (27 bp):
TTGTAAAATTACCCAAATACCCTCGAT
Found at i:85954838 original size:54 final size:51
Alignment explanation
Indices: 85954713--85954863 Score: 149
Period size: 54 Copynumber: 2.8 Consensus size: 51
85954703 TTTGATTATG
* * * *
85954713 AAATTACTAAAATACCTCCAGTTGTAAAATTACCAAAGTACCCCGGTTTATA
1 AAATTACTAAAATACCTCGATTTGTAAAATTACCAAA-TACCCCAGTTTACA
** *
85954765 AAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATACCCTCAGTTTGCA
1 AAATTACTAAAATA-CCTCGATTTGTAAAATTACC-AAATACCC-CAGTTTACA
* ***
85954819 AAATTACTGAAATACCCTCGATCAATAAAATTACCAAAATACCCC
1 AAATTACTAAAATA-CCTCGATTTGTAAAATTACC-AAATACCCC
85954864 TGCAGGGTAG
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 12 0.15
53 24 0.29
54 46 0.56
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (51 bp):
AAATTACTAAAATACCTCGATTTGTAAAATTACCAAATACCCCAGTTTACA
Found at i:85954877 original size:27 final size:27
Alignment explanation
Indices: 85954847--85955156 Score: 331
Period size: 27 Copynumber: 11.3 Consensus size: 27
85954837 CGATCAATAA
* *
85954847 AATTACCAAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
85954874 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
85954901 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
85954928 AATTATCGCAATA-CCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
85954954 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
85954981 AAATACAGAAATACAGAAATACCCCTGTAGGGTAG
1 -AAT-------TACCGAAATACCCCTGTAGGGTAG
* * *
85955016 AATTATCGCAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
85955043 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
85955070 AATTACTAAAATACCCCTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
85955097 AATTACTAAAATACCCCTGTAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
85955123 ATATTACC-AAGATA-CCTTGTGGGGTAA
1 A-ATTACCGAA-ATACCCCTGTAGGGTAG
85955150 AATTACC
1 AATTACC
85955157 ATTTTGCCCT
Statistics
Matches: 243, Mismatches: 28, Indels: 25
0.82 0.09 0.08
Matches are distributed among these distances:
26 43 0.18
27 171 0.70
28 3 0.01
34 3 0.01
35 23 0.09
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:85955023 original size:142 final size:143
Alignment explanation
Indices: 85954855--85955121 Score: 421
Period size: 142 Copynumber: 1.9 Consensus size: 143
85954845 AAAATTACCA
* *
85954855 AAATACCCCTGCAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTG
1 AAATACCCCTGCAGGGTAGAATTATCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCTG
** * * *
85954920 TAGGGTAGAATTA-TCGCAATA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAA
66 TAGGGTAGAATTACT-AAAATACCCCTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAA
85954983 ATACAGAAATACAG
130 ATACAGAAATACAG
* *
85954997 AAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAAAATTACCGAAATACCCCTG
1 AAATACCCCTGCAGGGTAGAATTATCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCTG
*
85955062 TAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACTAAAATACCCCTGTAGGGT
66 TAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCAAAATACCCCTGTAGGGT
85955122 GATATTACCA
Statistics
Matches: 113, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
142 78 0.69
143 35 0.31
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (143 bp):
AAATACCCCTGCAGGGTAGAATTATCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCTG
TAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAATTACCAAAATACCCCTGTAGGGTAGAAA
TACAGAAATACAG
Found at i:85955033 original size:62 final size:61
Alignment explanation
Indices: 85954937--85955056 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 61
85954927 GAATTATCGC
85954937 AATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAA-TACAGAAATACAGA
1 AATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTA-AAATTACAGAAATACAGA
* * *
85954998 AATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAAAATTACCGAAATAC
1 AATA-CCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTACAGAAATAC
85955057 CCCTGTAGGG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
61 7 0.13
62 47 0.87
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (61 bp):
AATACCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTACAGAAATACAGA
Found at i:85955033 original size:115 final size:116
Alignment explanation
Indices: 85954881--85955098 Score: 339
Period size: 115 Copynumber: 1.9 Consensus size: 116
85954871 TAGAATTATC
* * * *
85954881 GAAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATA-CCCT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCT
* * *
85954945 GTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATACAGAAATACA
66 GTAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAAATACAGAAATACA
* *
85954996 GAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAAAATTACCGAAATACCCCT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCT
*
85955061 GTAGGGTAGAATTACTAAAATACCCCTATAAGGTAGAA
66 GTAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAA
85955099 TTACTAAAAT
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
115 54 0.59
116 38 0.41
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.23
Consensus pattern (116 bp):
GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAAAATTACCGAAATACCCCT
GTAGGGTAGAATTACCAAAATACCCCTATAAGGTAGAAATACAGAAATACA
Found at i:85955083 original size:89 final size:88
Alignment explanation
Indices: 85954899--85955071 Score: 310
Period size: 89 Copynumber: 2.0 Consensus size: 88
85954889 CTTGTAGGGT
* * *
85954899 AGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCTGTAGGGTAGAATTACCGAA
1 AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCTGTAGGGTAAAATTACCGAA
85954964 ATACCCCTGTAGGGTAGAAATAC
66 ATACCCCTGTAGGGTAGAAATAC
85954987 AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCCTGTAGGGTAAAATTACCGA
1 AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATA-CCCTGTAGGGTAAAATTACCGA
85955052 AATACCCCTGTAGGGTAGAA
65 AATACCCCTGTAGGGTAGAA
85955072 TTACTAAAAT
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 40 0.49
89 41 0.51
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.22
Consensus pattern (88 bp):
AGAAATACAGAAATACCCCTGTAGGGTAGAATTATCGCAATACCCTGTAGGGTAAAATTACCGAA
ATACCCCTGTAGGGTAGAAATAC
Found at i:85955634 original size:22 final size:22
Alignment explanation
Indices: 85955582--85955646 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
85955572 TTAAAGCCTT
* *
85955582 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
85955604 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
85955626 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
85955647 AAGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:85955834 original size:27 final size:27
Alignment explanation
Indices: 85955804--85955905 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
85955794 ATTCTGTTAA
* *
85955804 GTGGCTTTGCCACATTATATGTTTCTG
1 GTGGCTCTGCCACAATATATGTTTCTG
* *
85955831 GTGGCTATGCCACAA-ATATCTGTTCTG
1 GTGGCTCTGCCACAATATATGT-TTCTG
* *
85955858 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATATGTTTCTG
* *
85955885 GTGACTCTGTCACAATATATG
1 GTGGCTCTGCCACAATATATG
85955906 ATAACTGAGC
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 5 0.08
27 54 0.86
28 4 0.06
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATATGTTTCTG
Found at i:85956071 original size:6 final size:6
Alignment explanation
Indices: 85956062--85956211 Score: 166
Period size: 6 Copynumber: 24.8 Consensus size: 6
85956052 CTGTCACGTA
* *
85956062 ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
85956110 ATTCTG ATTCTG ATTCT- ATCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
*
85956159 -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
85956207 ATTCT
1 ATTCT
85956212 CATTTTGGTT
Statistics
Matches: 124, Mismatches: 9, Indels: 22
0.80 0.06 0.14
Matches are distributed among these distances:
5 9 0.07
6 106 0.85
7 6 0.05
8 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:85956150 original size:73 final size:72
Alignment explanation
Indices: 85956037--85956199 Score: 272
Period size: 73 Copynumber: 2.2 Consensus size: 72
85956027 TTGCATTCAC
* *
85956037 ATTCTGGTTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCT-GTTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
85956102 TGATTCTG
65 TGATTCTG
*
85956110 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTG-TTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
85956175 TGATTCTG
65 TGATTCTG
85956183 ATTCTGTTACTGATTCT
1 ATTCTGTT-CTGATTCT
85956200 GATTCTGATT
Statistics
Matches: 85, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
72 3 0.04
73 82 0.96
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (72 bp):
ATTCTGTTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTCT
GATTCTG
Found at i:85959196 original size:137 final size:138
Alignment explanation
Indices: 85958959--85959274 Score: 384
Period size: 137 Copynumber: 2.3 Consensus size: 138
85958949 TTATCTTCGA
* * * * **
85958959 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCAGGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACATTGCCATGGTATCTT
*** * * **
85959024 TCAACCATGATCTTGTTCATTTCATGTTACATTGCCATGATATCTTTCAACCATGGTCTTATTCA
66 TCAACCATGATCTTACACATTTCATATCACATTGCCATGATATCTTTCAACCATGGTCTTACACA
* *
85959089 -TTCCCGT
131 TTTCACAT
* *
85959096 CATGTTGCCATGGTATCTTTAAACCATGGTCTTATTC-TTTTCATGTCACATTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCACATTGCCATGGTATCT
* * ** *
85959160 TTCAACCATGGTCTTACACATTTTATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
65 TTCAACCATGATCTTACACATTTCATATCACATTGCCATGATATCTTTCAACCATGGTCTTACAC
*
85959225 ATTTCATAT
130 ATTTCACAT
* *
85959234 CATGTTGCCATGGTTTCTTTCAACCATGGTCTTACACATTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTT
85959275 CATTTCAGAA
Statistics
Matches: 149, Mismatches: 27, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
136 5 0.03
137 104 0.70
138 37 0.25
139 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (138 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCACATTGCCATGGTATCTT
TCAACCATGATCTTACACATTTCATATCACATTGCCATGATATCTTTCAACCATGGTCTTACACA
TTTCACAT
Found at i:85959275 original size:46 final size:46
Alignment explanation
Indices: 85958959--85959277 Score: 372
Period size: 46 Copynumber: 7.0 Consensus size: 46
85958949 TTATCTTCGA
* * * *
85958959 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* * **
85959005 CAGGTTGCCATGGTATCTTTCAACCATGATCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* ** * * **
85959051 TACATTGCCATGATATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
85959096 CATGTTGCCATGGTATCTTTAAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
** * * *
85959142 CACATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
85959188 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
85959234 CATGTTGCCATGGTTTCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
85959278 TTCAGAAAGC
Statistics
Matches: 235, Mismatches: 36, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
45 41 0.17
46 194 0.83
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:85962094 original size:21 final size:21
Alignment explanation
Indices: 85962068--85962111 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
85962058 AGAAAAGAGA
85962068 TAGACTTGAAGTCTGATTCAC
1 TAGACTTGAAGTCTGATTCAC
*
85962089 TAGACTTGAAGTGTGATTCAC
1 TAGACTTGAAGTCTGATTCAC
85962110 TA
1 TA
85962112 TCCTCAAGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (21 bp):
TAGACTTGAAGTCTGATTCAC
Found at i:85962436 original size:128 final size:127
Alignment explanation
Indices: 85962261--85962499 Score: 329
Period size: 128 Copynumber: 1.9 Consensus size: 127
85962251 GTTCCACAAG
* * *
85962261 TTACGCTTTTCCATGACATTACAACTCTCTAGAAAAGTTATGTTTATTCCTTACGAATCATTTTT
1 TTACGCTTTTCCATGACATTACAACTCTCTAGAAAAGCTATGTTTATTCATTACGAATCATTTCT
** * *
85962326 GAATGTTATATTTATTCAAATAAATTTGTTTATATGTAAATAAAAATAATAACTAAAAATAT
66 GAATGTTATATTTATTCAAATAAATTTACTTAGATGCAAATAAAAATAATAACTAAAAATAT
* * * *
85962388 TTACG-TTTTCCATGACATTACAACTTTTTTTTA-AAAAGCTATGTTTATTCATTACGAGTCCTT
1 TTACGCTTTTCCATGACATTACAAC---TCTCTAGAAAAGCTATGTTTATTCATTACGAATCATT
*
85962451 TCTGAATGTTATATTTATTCGAATAAATTTACTTAGATGCAAATAAAAA
63 TCTGAATGTTATATTTATTCAAATAAATTTACTTAGATGCAAATAAAAA
85962500 ATGATTATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
126 19 0.20
127 5 0.05
128 69 0.71
129 4 0.04
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (127 bp):
TTACGCTTTTCCATGACATTACAACTCTCTAGAAAAGCTATGTTTATTCATTACGAATCATTTCT
GAATGTTATATTTATTCAAATAAATTTACTTAGATGCAAATAAAAATAATAACTAAAAATAT
Found at i:85963816 original size:16 final size:16
Alignment explanation
Indices: 85963785--85963828 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
85963775 ATTAGAGTGT
* *
85963785 TTTTATAATTTTATAA
1 TTTTATAAATTCATAA
85963801 TTTTATAAATTCATAA
1 TTTTATAAATTCATAA
85963817 TAGTTTATAAAT
1 T--TTTATAAAT
85963829 AAAAAGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.62
18 9 0.38
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TTTTATAAATTCATAA
Found at i:85965380 original size:2 final size:2
Alignment explanation
Indices: 85965375--85965401 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
85965365 TAGTTTGTCA
85965375 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 A
85965402 CACTTTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85973824 original size:18 final size:18
Alignment explanation
Indices: 85973801--85973835 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
85973791 AAGGATTCAG
85973801 TTTGGGTCATTGTAGATT
1 TTTGGGTCATTGTAGATT
85973819 TTTGGGTCATTGTAGAT
1 TTTGGGTCATTGTAGAT
85973836 CGATTGACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.06, G:0.29, T:0.49
Consensus pattern (18 bp):
TTTGGGTCATTGTAGATT
Found at i:85975591 original size:27 final size:27
Alignment explanation
Indices: 85975559--85975610 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
85975549 AGGAGGCGTC
*
85975559 CTGGTGGTTATGCCACA-ATTATCTGAT
1 CTGGTGGCTATGCCACATA-TATCTGAT
*
85975586 CTGGTGGCTCTGCCACATATATCTG
1 CTGGTGGCTATGCCACATATATCTG
85975611 CCAAGATTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTATGCCACATATATCTGAT
Found at i:85979038 original size:83 final size:83
Alignment explanation
Indices: 85978897--85979262 Score: 516
Period size: 83 Copynumber: 4.4 Consensus size: 83
85978887 TCAATTAGCT
* * * **
85978897 ATTAGGTTGTGTGGTTCACACGGGCGTATAGGCCACACGAGCGTGTGTTAGGCTGTATGGACCAC
1 ATTAGGCTGTGTGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCAC
* ** *
85978962 ACCACATAAGCTAGGGCA
66 ACAACATGGGCTAGGCCA
* * * * * * *
85978980 ATTAGGCTGTGTGGTTCACACAAGTGTATGGGTCGCACGACCGTGTGTTAGGACGTATGGACCAC
1 ATTAGGCTGTGTGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCAC
85979045 ACAACATGGGCTAGGCCA
66 ACAACATGGGCTAGGCCA
* *
85979063 ATTAGGCTGTGTGGTTCACACGAGCGTATGGGCCGCACGAGCGTGTGTTAGGCCATATGGACCAT
1 ATTAGGCTGTGTGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCAC
*
85979128 ACAACATGGGCTAGGCTA
66 ACAACATGGGCTAGGCCA
* *
85979146 ATTAGGCTATGTGGTTCACATGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCAC
1 ATTAGGCTGTGTGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCAC
*
85979211 ACCACATGGGCTAGGCCA
66 ACAACATGGGCTAGGCCA
* *
85979229 ATTAGGCTGTATGGTTCACACGAGTGTATGGGCC
1 ATTAGGCTGTGTGGTTCACACGAGCGTATGGGCC
85979263 CAATTCTTAA
Statistics
Matches: 251, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
83 251 1.00
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (83 bp):
ATTAGGCTGTGTGGTTCACACGAGCGTATGGGCCACACGAGCGTGTGTTAGGCCATATGGACCAC
ACAACATGGGCTAGGCCA
Found at i:85989924 original size:26 final size:26
Alignment explanation
Indices: 85989895--85990015 Score: 127
Period size: 27 Copynumber: 4.6 Consensus size: 26
85989885 CCCGGTCTGC
* *
85989895 AAAATTACCGAAATACCCTAATTTAT
1 AAAATTACTGAAATACCCTAATTTGT
* ** *
85989921 AAAATTACTGAAATACCGTTGTAATGT
1 AAAATTACTGAAATACCCTAAT-TTGT
*
85989948 AAAATTATTGAAATACCTCT-ATTTGT
1 AAAATTACTGAAATACC-CTAATTTGT
85989974 AAAATTACTGAAATACCCCTAATTTGT
1 AAAATTACTGAAATA-CCCTAATTTGT
* *
85990001 AGAATTACCGAAATA
1 AAAATTACTGAAATA
85990016 TCTTTGTAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
26 37 0.47
27 40 0.51
28 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (26 bp):
AAAATTACTGAAATACCCTAATTTGT
Found at i:85990014 original size:53 final size:52
Alignment explanation
Indices: 85989895--85990015 Score: 138
Period size: 53 Copynumber: 2.3 Consensus size: 52
85989885 CCCGGTCTGC
**
85989895 AAAATTACCGAAATACCCTAATTTATAAAATTACTGAAATACCGTTGTAATGT
1 AAAATTACCGAAATACCCTAATTTATAAAATTACTGAAATACCG-CCTAATGT
** *
85989948 AAAATTATTGAAATACCTCT-ATTTGTAAAATTACTGAAATACC-CCTAATTTGT
1 AAAATTACCGAAATACC-CTAATTTATAAAATTACTGAAATACCGCCTAA--TGT
*
85990001 AGAATTACCGAAATA
1 AAAATTACCGAAATA
85990016 TCTTTGTAGC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
51 3 0.05
53 52 0.91
54 2 0.04
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (52 bp):
AAAATTACCGAAATACCCTAATTTATAAAATTACTGAAATACCGCCTAATGT
Found at i:85990030 original size:80 final size:79
Alignment explanation
Indices: 85989895--85990044 Score: 201
Period size: 80 Copynumber: 1.9 Consensus size: 79
85989885 CCCGGTCTGC
* * * *
85989895 AAAATTACCGAAATACCCTAATTTATAAAATTACTGAAATACCGTTGTAATGTAAAATTATTGAA
1 AAAATTACCGAAATACCCTAATTTATAAAATTACCGAAATACCGTTGTAACGTAAAATAATCGAA
85989960 ATACCTCTATTTGT
66 ATACCTCTATTTGT
* * * * * *
85989974 AAAATTACTGAAATACCCCTAATTTGTAGAATTACCGAAATATCTTTGTAGCGTAAAATAATCGA
1 AAAATTACCGAAATA-CCCTAATTTATAAAATTACCGAAATACCGTTGTAACGTAAAATAATCGA
85990039 AATACC
65 AATACC
85990045 CTTGTAGTGT
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (79 bp):
AAAATTACCGAAATACCCTAATTTATAAAATTACCGAAATACCGTTGTAACGTAAAATAATCGAA
ATACCTCTATTTGT
Found at i:85990070 original size:27 final size:27
Alignment explanation
Indices: 85990007--85990072 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
85989997 TTGTAGAATT
* *
85990007 ACCGAAATATCTTTGTAGCGTAAAATA
1 ACCGAAATACCCTTGTAGCGTAAAATA
* * *
85990034 ATCGAAATACCCTTGTAGTGTAAAATG
1 ACCGAAATACCCTTGTAGCGTAAAATA
*
85990061 ACCGACATACCC
1 ACCGAAATACCC
85990073 CTGAAGGGCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (27 bp):
ACCGAAATACCCTTGTAGCGTAAAATA
Found at i:85996124 original size:2 final size:2
Alignment explanation
Indices: 85996117--85996147 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
85996107 GTATGCATGA
*
85996117 AT AT AT AT CT 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 A
85996148 ATTCGTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:86015736 original size:2 final size:2
Alignment explanation
Indices: 86015695--86015720 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
86015685 TTGCTGTAGA
86015695 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
86015721 TAGATCTTCA
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:86017059 original size:38 final size:38
Alignment explanation
Indices: 86017008--86017083 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
86016998 AAATCGAGAA
86017008 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
1 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
86017046 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
1 TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
86017084 AACCTAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (38 bp):
TATCTACATGCGAAGATGTTCATAATCTTAGGCATGTT
Found at i:86017394 original size:85 final size:85
Alignment explanation
Indices: 86017290--86017447 Score: 262
Period size: 85 Copynumber: 1.9 Consensus size: 85
86017280 TATATACTTC
* *
86017290 AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGCTCATCAGAGAGAGTTAATGAATTGAAAT
1 AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGCTAATCAGAAAGAGTTAATGAATTGAAAT
86017355 ACTAAAATACTACAAAAAAG
66 ACTAAAATACTACAAAAAAG
* * *
86017375 AAATGCAAATGGAGAAGTATGAGTTCATACAGCATGTTAATCGGAAAGAGTTAATGAATTGAAAT
1 AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGCTAATCAGAAAGAGTTAATGAATTGAAAT
*
86017440 ACTGAAAT
66 ACTAAAAT
86017448 CCTAAAATAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 67 1.00
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.24
Consensus pattern (85 bp):
AAATGCAAATCGAGAAGTATGAGTTCATACAGCATGCTAATCAGAAAGAGTTAATGAATTGAAAT
ACTAAAATACTACAAAAAAG
Found at i:86017744 original size:11 final size:11
Alignment explanation
Indices: 86017728--86017780 Score: 72
Period size: 11 Copynumber: 4.8 Consensus size: 11
86017718 TCAAACTTTA
86017728 AAAAAAAAATG
1 AAAAAAAAATG
86017739 AAAAAAAAATG
1 AAAAAAAAATG
*
86017750 -AAAAAAATTG
1 AAAAAAAAATG
*
86017760 AAACAAAAATGG
1 AAAAAAAAAT-G
86017772 AAAAAAAAA
1 AAAAAAAAA
86017781 GTGCAGCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 9 0.25
11 18 0.50
12 9 0.25
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (11 bp):
AAAAAAAAATG
Found at i:86017755 original size:21 final size:22
Alignment explanation
Indices: 86017729--86017779 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 22
86017719 CAAACTTTAA
86017729 AAAAAAAATGAAAAAAAAAT-G
1 AAAAAAAATGAAAAAAAAATGG
* *
86017750 AAAAAAATTGAAACAAAAATGG
1 AAAAAAAATGAAAAAAAAATGG
86017772 AAAAAAAA
1 AAAAAAAA
86017780 AGTGCAGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (22 bp):
AAAAAAAATGAAAAAAAAATGG
Found at i:86017767 original size:13 final size:12
Alignment explanation
Indices: 86017728--86017780 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
86017718 TCAAACTTTA
86017728 AAAAAAAAAT-G
1 AAAAAAAAATGG
86017739 AAAAAAAAAT-G
1 AAAAAAAAATGG
*
86017750 --AAAAAAATTG
1 AAAAAAAAATGG
*
86017760 AAACAAAAATGG
1 AAAAAAAAATGG
86017772 AAAAAAAAA
1 AAAAAAAAA
86017781 GTGCAGCCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
9 8 0.22
10 1 0.03
11 11 0.31
12 16 0.44
ACGTcount: A:0.79, C:0.02, G:0.09, T:0.09
Consensus pattern (12 bp):
AAAAAAAAATGG
Found at i:86018913 original size:29 final size:29
Alignment explanation
Indices: 86018881--86018944 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
86018871 AATTTTCCCT
*
86018881 TTTATTAAAATAATATGAA-AATTAAATTA
1 TTTATCAAAATAATAT-AATAATTAAATTA
* * *
86018910 TTTATCCACATAATATAATATTTAAATTA
1 TTTATCAAAATAATATAATAATTAAATTA
86018939 TTTATC
1 TTTATC
86018945 TTAATTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 2 0.07
29 28 0.93
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (29 bp):
TTTATCAAAATAATATAATAATTAAATTA
Found at i:86020448 original size:27 final size:27
Alignment explanation
Indices: 86020416--86020578 Score: 204
Period size: 27 Copynumber: 6.0 Consensus size: 27
86020406 GTAGGGCAAA
*
86020416 TCAGTCATTTTACCTTATAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* *
86020443 ACAGTCATTTTACCCTACAGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
* * *
86020470 ACAGTCATTTTACCTTATAAGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
86020497 TCAGTCATTTTACCCTAT-GGGAGTATT
1 TCAGTCATTTTACCCTATAGGG-GTATT
86020524 TC-GATCATTTTACCCTATAGGGGTATT
1 TCAG-TCATTTTACCCTATAGGGGTATT
* ** *
86020551 TCGGTCATTTTATACTATGGGGGTATT
1 TCAGTCATTTTACCCTATAGGGGTATT
86020578 T
1 T
86020579 TGGTCACCAT
Statistics
Matches: 120, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
26 3 0.03
27 113 0.94
28 4 0.03
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (27 bp):
TCAGTCATTTTACCCTATAGGGGTATT
Found at i:86023731 original size:27 final size:26
Alignment explanation
Indices: 86023714--86023777 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
86023704 AAGTATTTAT
*
86023714 ACTTAAAAAACACTAAAATAGGTGTA
1 ACTTAAAAAACACTAAAATAGATGTA
* *
86023740 ACTTAACAAACACTAAAATAGGTGTA
1 ACTTAAAAAACACTAAAATAGATGTA
*
86023766 ACTTAACAAACA
1 ACTTAAAAAACA
86023778 AATGCTTCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.22
Consensus pattern (26 bp):
ACTTAAAAAACACTAAAATAGATGTA
Found at i:86026880 original size:24 final size:23
Alignment explanation
Indices: 86026852--86026913 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
86026842 AGAAAATAAG
86026852 AAATAAAAAATAAGAAATTTTAAA
1 AAATAAAAAATAA-AAATTTTAAA
* *
86026876 AAATAAAGAATAAATATTTTAAA
1 AAATAAAAAATAAAAATTTTAAA
* *
86026899 TAATAACTAAATAAA
1 AAATAA-AAAATAAA
86026914 GAAAAGATAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 14 0.44
24 18 0.56
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (23 bp):
AAATAAAAAATAAAAATTTTAAA
Found at i:86026898 original size:23 final size:24
Alignment explanation
Indices: 86026852--86026904 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
86026842 AGAAAATAAG
86026852 AAATAAAAAATAAGAAATTTTAAA
1 AAATAAAAAATAAGAAATTTTAAA
* *
86026876 AAATAAAGAATAA-ATATTTTAAA
1 AAATAAAAAATAAGAAATTTTAAA
*
86026899 TAATAA
1 AAATAA
86026905 CTAAATAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (24 bp):
AAATAAAAAATAAGAAATTTTAAA
Found at i:86029574 original size:24 final size:24
Alignment explanation
Indices: 86029547--86029607 Score: 95
Period size: 24 Copynumber: 2.5 Consensus size: 24
86029537 CACAATGTTT
* * *
86029547 ACTATCACTATCATCATAGTTTGC
1 ACTATTACTATCATCATAGCTCGC
86029571 ACTATTACTATCATCATAGCTCGC
1 ACTATTACTATCATCATAGCTCGC
86029595 ACTATTACTATCA
1 ACTATTACTATCA
86029608 AATTCTTCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (24 bp):
ACTATTACTATCATCATAGCTCGC
Found at i:86031901 original size:26 final size:28
Alignment explanation
Indices: 86031871--86031930 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 28
86031861 AATCCAGTCC
86031871 AAAAA-TTCTGCTTGCGCAGTCTTCACT
1 AAAAAGTTCTGCTTGCGCAGTCTTCACT
86031898 AAAATAGTTCTGCTTGCGCAGTCTTCACT
1 AAAA-AGTTCTGCTTGCGCAGTCTTCACT
86031927 AAAA
1 AAAA
86031931 CAGTCATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 4 0.13
28 1 0.03
29 26 0.84
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (28 bp):
AAAAAGTTCTGCTTGCGCAGTCTTCACT
Found at i:86033984 original size:25 final size:25
Alignment explanation
Indices: 86033952--86034006 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
86033942 CCCTTTCGTC
86033952 TTGTTACAAACATGTTGTCTGAGTG
1 TTGTTACAAACATGTTGTCTGAGTG
86033977 TTGTTACAAACATGTTGTCTGAGTG
1 TTGTTACAAACATGTTGTCTGAGTG
*
86034002 ATGTT
1 TTGTT
86034007 CTGTTCAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.42
Consensus pattern (25 bp):
TTGTTACAAACATGTTGTCTGAGTG
Found at i:86035290 original size:11 final size:11
Alignment explanation
Indices: 86035267--86035300 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
86035257 ATGTCAAATC
*
86035267 ATCAAGAATAA
1 ATCAAGAACAA
*
86035278 ATTAAGAACAA
1 ATCAAGAACAA
86035289 ATCAAGAACAA
1 ATCAAGAACAA
86035300 A
1 A
86035301 ACTAGAGGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.12, G:0.09, T:0.15
Consensus pattern (11 bp):
ATCAAGAACAA
Found at i:86036538 original size:23 final size:23
Alignment explanation
Indices: 86036511--86036556 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
86036501 ATTCTCAATG
86036511 TTTAGTTCTTCATACAAATGTCC
1 TTTAGTTCTTCATACAAATGTCC
86036534 TTTAGTTCTTCATACAAATGTCC
1 TTTAGTTCTTCATACAAATGTCC
86036557 CTGCTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.43
Consensus pattern (23 bp):
TTTAGTTCTTCATACAAATGTCC
Found at i:86043668 original size:1 final size:1
Alignment explanation
Indices: 86043662--86043687 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
86043652 ATGGCAAAGT
86043662 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
86043688 CTATTTTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:86044573 original size:21 final size:22
Alignment explanation
Indices: 86044549--86044590 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
86044539 TTCCATAAAT
86044549 ATTTTA-TGATTATTTTTTATA
1 ATTTTATTGATTATTTTTTATA
86044570 ATTTTATTTGATTATTTTTTA
1 ATTTTA-TTGATTATTTTTTA
86044591 AAATATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
23 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
ATTTTATTGATTATTTTTTATA
Found at i:86048892 original size:17 final size:17
Alignment explanation
Indices: 86048870--86048910 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
86048860 GCGTGTGTCT
86048870 CAGCCATGTGTGACACA
1 CAGCCATGTGTGACACA
86048887 CAGCCA-G-GTGACACA
1 CAGCCATGTGTGACACA
86048902 -A-CCATGTGT
1 CAGCCATGTGT
86048911 CCCCTGATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.14
14 2 0.09
15 10 0.45
16 1 0.05
17 6 0.27
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.17
Consensus pattern (17 bp):
CAGCCATGTGTGACACA
Found at i:86049837 original size:18 final size:18
Alignment explanation
Indices: 86049814--86049850 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
86049804 TGATTTATAC
86049814 GGTGAGATAGTATATTTT
1 GGTGAGATAGTATATTTT
86049832 GGTGAGATAGTATATTTT
1 GGTGAGATAGTATATTTT
86049850 G
1 G
86049851 ATAGGTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.30, T:0.43
Consensus pattern (18 bp):
GGTGAGATAGTATATTTT
Found at i:86051894 original size:17 final size:17
Alignment explanation
Indices: 86051872--86051907 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
86051862 TTCTTTGAAA
86051872 GGGAACGAATTACTTTT
1 GGGAACGAATTACTTTT
86051889 GGGAACGAATTACTTTT
1 GGGAACGAATTACTTTT
86051906 GG
1 GG
86051908 AGGACTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.33
Consensus pattern (17 bp):
GGGAACGAATTACTTTT
Found at i:86052368 original size:23 final size:22
Alignment explanation
Indices: 86052342--86052461 Score: 77
Period size: 23 Copynumber: 5.2 Consensus size: 22
86052332 TTTAATACAA
*
86052342 TATTCCTATTATTTTTATGTTTC
1 TATT-CTATTATTTTTATATTTC
*
86052365 TATTTATATTTATTTTGT-TA-TTC
1 TA-TTCTA-TTATTTT-TATATTTC
* *
86052388 TAATACTATTATTATTTATCTATTTA
1 T-ATTCTATTATT-TTTA--TATTTC
*
86052414 TATTTCTATTATTATTATATTTC
1 TA-TTCTATTATTTTTATATTTC
86052437 TATT-TATTATATTTT-TATTTC
1 TATTCTATTAT-TTTTATATTTC
86052458 TATT
1 TATT
86052462 TATATACTAA
Statistics
Matches: 77, Mismatches: 9, Indels: 24
0.70 0.08 0.22
Matches are distributed among these distances:
21 16 0.21
22 11 0.14
23 20 0.26
24 11 0.14
25 7 0.09
26 12 0.16
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (22 bp):
TATTCTATTATTTTTATATTTC
Found at i:86052414 original size:29 final size:28
Alignment explanation
Indices: 86052382--86052444 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
86052372 ATTTATTTTG
86052382 TTATTCTAATACTATTATTAT-TTATCTAT
1 TTATT-TAATACTATTATTATATT-TCTAT
** *
86052411 TTATATTTCTATTATTATTATATTTCTAT
1 TTAT-TTAATACTATTATTATATTTCTAT
86052440 TTATT
1 TTATT
86052445 ATATTTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 1 0.03
29 25 0.86
30 3 0.10
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (28 bp):
TTATTTAATACTATTATTATATTTCTAT
Found at i:86052431 original size:17 final size:16
Alignment explanation
Indices: 86052411--86052466 Score: 69
Period size: 15 Copynumber: 3.4 Consensus size: 16
86052401 ATTTATCTAT
86052411 TTATATTTCTATTATTA
1 TTATATTTCTATT-TTA
86052428 TTATATTTCTA-TTTA
1 TTATATTTCTATTTTA
*
86052443 TTATATTTTTATTTCTA
1 TTATATTTCTATTT-TA
86052460 TTTATAT
1 -TTATAT
86052467 ACTAATATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
15 13 0.37
16 3 0.09
17 13 0.37
18 6 0.17
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATATTTCTATTTTA
Found at i:86052446 original size:21 final size:21
Alignment explanation
Indices: 86052400--86052464 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
86052390 ATACTATTAT
*
86052400 TATTTA-TCTATTTATATTTC
1 TATTTATTATATTTATATTTC
86052420 TA-TTA-T-TA-TTATATTTC
1 TATTTATTATATTTATATTTC
*
86052437 TATTTATTATATTTTTATTTC
1 TATTTATTATATTTATATTTC
86052458 TATTTAT
1 TATTTAT
86052465 ATACTAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
17 11 0.28
18 5 0.12
19 5 0.12
20 4 0.10
21 15 0.38
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTATTATATTTATATTTC
Found at i:86052915 original size:24 final size:25
Alignment explanation
Indices: 86052887--86052989 Score: 68
Period size: 27 Copynumber: 4.1 Consensus size: 25
86052877 ATTATAACAT
86052887 TTTGTTTATGAATTATTACTTTGCA
1 TTTGTTTATGAATTATTACTTTGCA
** * * *
86052912 -TTGTACAT-AATTATTCCATCGCA
1 TTTGTTTATGAATTATTACTTTGCA
* * * *
86052935 TTTTATTTGTGATTTATTA-TTATAACA
1 -TTTGTTTATGAATTATTACTT-T-GCA
86052962 TTTTGTTTATGAATTATTACTTTGCA
1 -TTTGTTTATGAATTATTACTTTGCA
86052988 TT
1 TT
86052990 GTACATAATT
Statistics
Matches: 54, Mismatches: 18, Indels: 12
0.64 0.21 0.14
Matches are distributed among these distances:
23 12 0.22
24 6 0.11
25 7 0.13
26 8 0.15
27 19 0.35
28 2 0.04
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (25 bp):
TTTGTTTATGAATTATTACTTTGCA
Found at i:86052941 original size:76 final size:76
Alignment explanation
Indices: 86052861--86053017 Score: 314
Period size: 76 Copynumber: 2.1 Consensus size: 76
86052851 TATTTATTTG
86052861 TTATTTGTGATTTATTATTATAACATTTTGTTTATGAATTATTACTTTGCATTGTACATAATTAT
1 TTATTTGTGATTTATTATTATAACATTTTGTTTATGAATTATTACTTTGCATTGTACATAATTAT
86052926 TCCATCGCATT
66 TCCATCGCATT
86052937 TTATTTGTGATTTATTATTATAACATTTTGTTTATGAATTATTACTTTGCATTGTACATAATTAT
1 TTATTTGTGATTTATTATTATAACATTTTGTTTATGAATTATTACTTTGCATTGTACATAATTAT
86053002 TCCATCGCATT
66 TCCATCGCATT
86053013 TTATT
1 TTATT
86053018 CGCTTAAAGG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 81 1.00
ACGTcount: A:0.27, C:0.10, G:0.09, T:0.54
Consensus pattern (76 bp):
TTATTTGTGATTTATTATTATAACATTTTGTTTATGAATTATTACTTTGCATTGTACATAATTAT
TCCATCGCATT
Found at i:86055133 original size:18 final size:17
Alignment explanation
Indices: 86055111--86055153 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
86055101 AACAAAAAAA
86055111 AAAAGAGAAAAAAAGGG
1 AAAAGAGAAAAAAAGGG
* *
86055128 AGAAAGAGAAGAGAAGGG
1 A-AAAGAGAAAAAAAGGG
86055146 AAAAGAGA
1 AAAAGAGA
86055154 GGGGACAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
AAAAGAGAAAAAAAGGG
Found at i:86062029 original size:31 final size:30
Alignment explanation
Indices: 86061965--86062029 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
86061955 TATTTTTTGA
* * *
86061965 ATATGTATAATTTGATCAAAATCAAATTTC
1 ATATATATAATTTGATCAAAATAAAATTCC
86061995 ATATATATAA-TTGAATCAAAATAAAAATTCC
1 ATATATATAATTTG-ATCAAAAT-AAAATTCC
86062026 ATAT
1 ATAT
86062030 GTATCAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 3 0.10
30 17 0.57
31 10 0.33
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (30 bp):
ATATATATAATTTGATCAAAATAAAATTCC
Found at i:86068865 original size:20 final size:20
Alignment explanation
Indices: 86068842--86068879 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
86068832 GTTGGATTTT
*
86068842 GTCTGTGTTTGTTTTTTGTG
1 GTCTGTGTTTGGTTTTTGTG
86068862 GTCTGTGTTTGGTTTTTG
1 GTCTGTGTTTGGTTTTTG
86068880 GTTTTTTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.00, C:0.05, G:0.32, T:0.63
Consensus pattern (20 bp):
GTCTGTGTTTGGTTTTTGTG
Found at i:86069205 original size:18 final size:17
Alignment explanation
Indices: 86069177--86069222 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
86069167 AACATTTCAC
86069177 TTTATATATTTTTGTAAAT
1 TTTA-ATATTTTT-TAAAT
*
86069196 TTTAATATTTTTTATAT
1 TTTAATATTTTTTAAAT
86069213 TTATAATATT
1 TT-TAATATT
86069223 ATAGTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 6 0.24
18 15 0.60
19 4 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTAATATTTTTTAAAT
Found at i:86069275 original size:35 final size:33
Alignment explanation
Indices: 86069195--86069279 Score: 93
Period size: 35 Copynumber: 2.5 Consensus size: 33
86069185 TTTTTGTAAA
* *
86069195 TTTTA-ATATTTTTTATATTTATAATATTATAG
1 TTTTATATAATTTTTATATATATAATATTATAG
86069227 TTTTATATAATTTTCTATATATATATATATTAT-G
1 TTTTATATAATTTT-TATATATATA-ATATTATAG
* *
86069261 TTTTTGTATGATTTTTATA
1 -TTTTATATAATTTTTATA
86069280 ATTCTTTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 5 0.11
33 7 0.16
34 14 0.31
35 19 0.42
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (33 bp):
TTTTATATAATTTTTATATATATAATATTATAG
Found at i:86072704 original size:11 final size:12
Alignment explanation
Indices: 86072674--86072707 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
86072664 CAACCCGACC
86072674 ATATTAATTTTT
1 ATATTAATTTTT
86072686 ATATTAATTTTT
1 ATATTAATTTTT
86072698 ATA-TAATTTT
1 ATATTAATTTT
86072708 AAAATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.32
12 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:86072907 original size:35 final size:35
Alignment explanation
Indices: 86072868--86072935 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
86072858 TCACAAATGT
86072868 CTTTA-AAATA-ATAACAAAATTAACAATAAAATAAG
1 CTTTATAAATATATAA-AAAA-TAACAATAAAATAAG
* *
86072903 CTTTATAAATATCTAAACAATAACAATAAAATA
1 CTTTATAAATATATAAAAAATAACAATAAAATA
86072936 GTAGTAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 18 0.62
36 8 0.28
37 3 0.10
ACGTcount: A:0.60, C:0.10, G:0.01, T:0.28
Consensus pattern (35 bp):
CTTTATAAATATATAAAAAATAACAATAAAATAAG
Found at i:86072965 original size:11 final size:11
Alignment explanation
Indices: 86072927--86072969 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
86072917 AAACAATAAC
86072927 AATAAAATAGT
1 AATAAAATAGT
* * *
86072938 AGTAACATAAT
1 AATAAAATAGT
*
86072949 AGTAAAATAGT
1 AATAAAATAGT
86072960 AATAAAATAG
1 AATAAAATAG
86072970 AGAGGAAACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.60, C:0.02, G:0.12, T:0.26
Consensus pattern (11 bp):
AATAAAATAGT
Found at i:86073867 original size:39 final size:39
Alignment explanation
Indices: 86073824--86073901 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
86073814 ACATTAGAAG
86073824 TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
1 TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
*
86073863 TTAGTATATTGAAATGGGTAAATAAGAAAGTTAATTTCT
1 TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
86073902 AAAATACTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (39 bp):
TTAGTATATTGAAATAGGTAAATAAGAAAGTTAATTTCT
Done.