Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 102 of 211
Found at i:31926907 original size:14 final size:15
Alignment explanation
Indices: 31926878--31926911 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
31926868 AAATTTTAAA
31926878 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
31926893 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
31926907 TTTTA
1 TTTTA
31926912 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:31929109 original size:51 final size:51
Alignment explanation
Indices: 31929049--31930212 Score: 1262
Period size: 51 Copynumber: 23.6 Consensus size: 51
31929039 ACATTATTTG
* *
31929049 ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACTTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
31929100 ATTAAAAACCCTAA-CT----TAATTGAATTAAAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
*
31929146 ATTAAAAA-CC---CC-AACTTAATTGAATTAAAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
* *
31929192 ATTAAAAACCCTAACCTAACTTAATTGAATTATAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
* * *
31929243 ATTAAAAACCCTAACCTAACTTAATTTAATTATAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
* *
31929294 ATTAAAAACCCTAACCTAACCTAATTTACTTAAAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
31929345 ATTAAAAACCCTAA-CT----TAATTGAATTAAAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
* *
31929391 ATTAAAAACCCTAACCTAACTTAATTTAATTAAAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
*
31929442 ATTAAAAACCCTAA-CT----TAATTGAATTAAAAACTCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
31929488 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAACTT-A
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAA-TTGA
*
31929539 ATTGAATTAAA----AACCCTGACCTAATTGAATTAAAAACCCTAACCTAACTT-A
1 ATT-AA--AAACCCTAA-CCTAACCTAATTGAATTAAAAACCCTAACCTAA-TTGA
**
31929590 ATTTAATTA---TAAACCCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
1 A-TTAAAAACCCT-AA-CCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
31929641 ATTAAAAACCCTAA-CT----TAATTGAATTAAAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
* * *
31929687 ATTAAAAACCCTAACCTAACTTAATTTAATTATAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
* *
31929738 ATTAAAAA--C---CCTAACCTAATCGAATTAAAAACCCTAACCTGGCCTAATTTA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAA-----CCTAATTGA
*
31929789 ATTAAAAACCCTAA-CT----TAATTGAATTAAAAACCCTAACTTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
31929835 ATTAAAAA--C---CCTAACCTAATTGAATTAAAAACCCTAACCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAA--C---CCTAACCTAATTGA
31929886 ATTAAAAACCCTAA-CT----TAATTGAATTAAAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
* * *
31929932 ATTAAAAACCCTAACCTAACTTAATTTAATTATAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
*
31929983 ATTAAAAA--C---CCTAACCTAATTGAATTAAAAACCCTAGCCTAACCTAATTTA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAA--C---CCTAACCTAATTGA
* *
31930034 ATTAAAAACCCTAA-CT----TAATTGAATTAAAAACTCTAACTTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
*
31930080 ATTAAAAA--C---CCTAACCTAATTGAATTAAAAACCCTAACCTAACCTAATTTA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAA--C---CCTAACCTAATTGA
* * *
31930131 ATTAAAAACCCTAACCTAACTTAATTTAATTATAAACCCTAACCTAATTGA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
* *
31930182 ATTAAAAACCCGT-ACCTAACTTAATTTAATT
1 ATTAAAAACCC-TAACCTAACCTAATTGAATT
31930213 TAATTAAAAA
Statistics
Matches: 974, Mismatches: 46, Indels: 186
0.81 0.04 0.15
Matches are distributed among these distances:
42 4 0.00
43 1 0.00
44 2 0.00
45 2 0.00
46 337 0.35
47 10 0.01
48 3 0.00
49 5 0.01
50 19 0.02
51 548 0.56
52 9 0.01
53 5 0.01
54 4 0.00
55 6 0.01
56 19 0.02
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.29
Consensus pattern (51 bp):
ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGA
Found at i:31929210 original size:74 final size:74
Alignment explanation
Indices: 31929049--31930200 Score: 1355
Period size: 74 Copynumber: 15.6 Consensus size: 74
31929039 ACATTATTTG
* *
31929049 ATTAAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACTTAATTGAATTAAAAACCCTAA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
*
31929114 CTTAATTGA
66 CCTAATTGA
* *
31929123 ATTAAAAA--C---CCTAACCTAATTGAATTAAAAACCCCAACTTAATTGAATTAAAAACCCTAA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
31929183 CCTAATTGA
66 CCTAATTGA
* *
31929192 ATTAAAAACCCTAACCTAACTTAATTGAATTATAAACCCTAACCTAATTGAATTAAAAACCCTAA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
31929257 CCTAACTT-A
66 CCTAA-TTGA
** * *
31929266 ATTTAATTA---TAAACCCTAACCTAATTGAATTAAAAACCCTAACCTAACCTAATTTACTTAAA
1 A-TTAAAAACCCT-AA-CCTAACCTAATTGAATTAAAAA--C---CCTAACCTAATTGAATTAAA
31929328 AACCCTAACCTAATTGA
58 AACCCTAACCTAATTGA
31929345 ATTAAAAACCCTAA-CT----TAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
31929405 CCTAACTT-A
66 CCTAA-TTGA
* *
31929414 ATTTAATTAAA----AACCCTAACCTAATTGAATTAAAAACCCTAACTTAATTGAATTAAAAACT
1 A-TTAA--AAACCCTAA-CCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACC
31929475 CTAACCTAATTGA
62 CTAACCTAATTGA
31929488 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAACTTAATTGAATTAAAAAC
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAA-C---C-TAATTGAATTAAAAAC
*
31929553 CCTGACCTAATTGA
61 CCTAACCTAATTGA
* * *
31929567 ATTAAAAACCCTAACCTAACTTAATTTAATTATAAACCCTAACCTAATTGAATTAAAAACCCTAA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
31929632 CCTAATTGA
66 CCTAATTGA
31929641 ATTAAAAACCCTAA-CT----TAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
31929701 CCTAACTT-A
66 CCTAA-TTGA
** *
31929710 ATTTAATTA---TAAACCCTAACCTAATTGAATTAAAAACCCTAACCTAATCGAATTAAAAACCC
1 A-TTAAAAACCCT-AA-CCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCC
*
31929772 TAACCTGGCCTAATTTA
63 TAA-----CCTAATTGA
*
31929789 ATTAAAAACCCTAA-CT----TAATTGAATTAAAAACCCTAACTTAATTGAATTAAAAACCCTAA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
31929849 CCTAATTGA
66 CCTAATTGA
*
31929858 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACTTAATTGAATTAAAAACCCTAA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
31929923 CCTAATTGA
66 CCTAATTGA
* * *
31929932 ATTAAAAACCCTAACCTAACTTAATTTAATTATAAACCCTAACCTAATTGAATTAAAAACCCTAA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
31929997 CCTAATTGA
66 CCTAATTGA
* * * *
31930006 ATTAAAAACCCTAGCCTAACCTAATTTAATTAAAAACCCTAACTTAATTGAATTAAAAACTCTAA
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
*
31930071 CTTAATTGA
66 CCTAATTGA
*
31930080 ATTAAAAA--C---CCTAACCTAATTGAATTAAAAACCCTAACCTAACCTAATTTAATTAAAAAC
1 ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAA--C---CCTAACCTAATTGAATTAAAAAC
31930140 CCTAACCTAACTT-A
61 CCTAACCTAA-TTGA
**
31930154 ATTTAATTA---TAAACCCTAACCTAATTGAATTAAAAACCCGT-ACCTAA
1 A-TTAAAAACCCT-AA-CCTAACCTAATTGAATTAAAAACCC-TAACCTAA
31930201 CTTAATTTAA
Statistics
Matches: 951, Mismatches: 53, Indels: 148
0.83 0.05 0.13
Matches are distributed among these distances:
67 1 0.00
68 4 0.00
69 190 0.20
70 19 0.02
71 5 0.01
72 7 0.01
73 10 0.01
74 540 0.57
75 19 0.02
76 1 0.00
77 1 0.00
78 19 0.02
79 129 0.14
80 4 0.00
81 2 0.00
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.29
Consensus pattern (74 bp):
ATTAAAAACCCTAACCTAACCTAATTGAATTAAAAACCCTAACCTAATTGAATTAAAAACCCTAA
CCTAATTGA
Found at i:31930207 original size:23 final size:23
Alignment explanation
Indices: 31929063--31930200 Score: 1334
Period size: 23 Copynumber: 46.4 Consensus size: 23
31929053 AAAACCCTAA
*
31929063 CCTAACCTAATTTAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929086 CCTAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929109 CCTAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929132 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
* *
31929155 CCCAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929178 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929201 CCTAACCTAACTTAATTGAATTATAAAC
1 CCTAA-C---C-TAATTGAATTAAAAAC
31929229 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929252 CCTAACCTAACTT-AATTTAATTATAAAC
1 CCTAACCTAA-TTGAA-TT-A--A-AAAC
31929280 CCTAACCTAATTGAATTAAAAACCC
1 CCTAACCTAATTGAATTAAAAA--C
* *
31929305 TAACCTAACCTAATTTACTTAAAAAC
1 ---CCTAACCTAATTGAATTAAAAAC
31929331 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929354 CCTAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929377 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929400 CCTAACCTAACTTAATTTAATTAAAAAC
1 CCTAA-C---C-TAATTGAATTAAAAAC
31929428 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929451 CCTAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929474 TCTAACCTAATTGAATTAAAAACCC
1 CCTAACCTAATTGAATTAAAAA--C
31929499 TAACCTAACCTAATTGAATTAAAAAC
1 ---CCTAACCTAATTGAATTAAAAAC
31929525 CCTAACCTAACTTAATTGAATTAAAAAC
1 CCTAA-C---C-TAATTGAATTAAAAAC
*
31929553 CCTGACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929576 CCTAACCTAACTT-AATTTAATTATAAAC
1 CCTAACCTAA-TTGAA-TT-A--A-AAAC
31929604 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929627 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929650 CCTAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929673 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929696 CCTAACCTAACTT-AATTTAATTATAAAC
1 CCTAACCTAA-TTGAA-TT-A--A-AAAC
31929724 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929747 CCTAACCTAATCGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929770 CCTAACCTGGCCTAATTTAATTAAAAAC
1 CCTAA-----CCTAATTGAATTAAAAAC
*
31929798 CCTAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
*
31929821 CCTAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929844 CCTAACCTAATTGAATTAAAAACCC
1 CCTAACCTAATTGAATTAAAAA--C
31929869 TAACCTAACCTAATTGAATTAAAAAC
1 ---CCTAACCTAATTGAATTAAAAAC
*
31929895 CCTAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929918 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929941 CCTAACCTAACTT-AATTTAATTATAAAC
1 CCTAACCTAA-TTGAA-TT-A--A-AAAC
31929969 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31929992 CCTAACCTAATTGAATTAAAAACCC
1 CCTAACCTAATTGAATTAAAAA--C
*
31930017 TAGCCTAACCTAATTTAATTAAAAAC
1 ---CCTAACCTAATTGAATTAAAAAC
*
31930043 CCTAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
* *
31930066 TCTAACTTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31930089 CCTAACCTAATTGAATTAAAAACCC
1 CCTAACCTAATTGAATTAAAAA--C
*
31930114 TAACCTAACCTAATTTAATTAAAAAC
1 ---CCTAACCTAATTGAATTAAAAAC
31930140 CCTAACCTAACTT-AATTTAATTATAAAC
1 CCTAACCTAA-TTGAA-TT-A--A-AAAC
31930168 CCTAACCTAATTGAATTAAAAAC
1 CCTAACCTAATTGAATTAAAAAC
31930191 CCGT-ACCTAA
1 CC-TAACCTAA
31930201 CTTAATTTAA
Statistics
Matches: 994, Mismatches: 40, Indels: 162
0.83 0.03 0.14
Matches are distributed among these distances:
23 645 0.65
24 32 0.03
25 10 0.01
26 10 0.01
27 31 0.03
28 266 0.27
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (23 bp):
CCTAACCTAATTGAATTAAAAAC
Found at i:31932507 original size:126 final size:124
Alignment explanation
Indices: 31932283--31932550 Score: 342
Period size: 126 Copynumber: 2.1 Consensus size: 124
31932273 CCACGAGGCC
31932283 GCGATTTGACACTATTTGCTCAGAAACGTAAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAACGTAAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
* *
31932348 AAATCGCGTCCACGAGGGCGCGATTTAACAATTTCTGCCCAATATAGCATCCTTGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTAACAATTTCTGCCCAA-ATAGCATCCTTGTATCA
* * * **
31932408 GCGATTTTATACTATTTGCTCAGAAAACGTCAAAAAAAATTTATTTCTTACATGACC-ACTGTAG
1 GCGATTTGACACTATTTGCTCAG-AAACGT-AAAAAAAAATTATTTCCAACATGACCAACTGTAG
* * * * * **
31932472 TGAAATCGTGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCAT-CTTAGTAGAA
64 CGAAATCGCGTCCACGAGGCCACGATTTAACAATTTCTGCCCAAATAGCATCCTT-GTATCA
**
31932533 GCGATTTCCCACTATTTG
1 GCGATTTGACACTATTTG
31932551 ACCGGATACG
Statistics
Matches: 123, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
124 3 0.02
125 47 0.38
126 50 0.41
127 23 0.19
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACGTAAAAAAAAATTATTTCCAACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTAACAATTTCTGCCCAAATAGCATCCTTGTATCA
Found at i:31936015 original size:18 final size:18
Alignment explanation
Indices: 31935994--31936035 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
31935984 TTCGGAAATA
*
31935994 TTTTAATGT-TTTTAGTAT
1 TTTTAATGTATTATA-TAT
*
31936012 TTTTGATGTATTATATAT
1 TTTTAATGTATTATATAT
31936030 TTTTAA
1 TTTTAA
31936036 AAATTATGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (18 bp):
TTTTAATGTATTATATAT
Found at i:31937452 original size:29 final size:29
Alignment explanation
Indices: 31937420--31937475 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
31937410 CGCATTGAAA
* *
31937420 ATTTTCAAGGTACAAGTATCACATTGGGC
1 ATTTTCAAAGTACAAGTACCACATTGGGC
* *
31937449 ATTTTCAAATTATAAGTACCACATTGG
1 ATTTTCAAAGTACAAGTACCACATTGG
31937476 AAATATTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (29 bp):
ATTTTCAAAGTACAAGTACCACATTGGGC
Found at i:31938841 original size:42 final size:40
Alignment explanation
Indices: 31938743--31938841 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 40
31938733 TTGATATATT
*
31938743 ATTCGCATGTTAAGCATGCTCACTGTACTGATTAAATTCG
1 ATTCGCATGTTAAGCATGCTCACTGTACTGATTAAAATCG
** ** *
31938783 ATTCAAATGTTAAGCATGCTGGCTGTATTGATTAGAAATCTG
1 ATTCGCATGTTAAGCATGCTCACTGTACTGATTA-AAATC-G
31938825 ATTCGCATGTTAAGCAT
1 ATTCGCATGTTAAGCAT
31938842 ACCCACTGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 29 0.59
41 4 0.08
42 16 0.33
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (40 bp):
ATTCGCATGTTAAGCATGCTCACTGTACTGATTAAAATCG
Found at i:31939760 original size:14 final size:14
Alignment explanation
Indices: 31939741--31939770 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
31939731 CTGCGACATT
31939741 TTCAAAGTAAAATG
1 TTCAAAGTAAAATG
31939755 TTCAAAGTAAAATG
1 TTCAAAGTAAAATG
31939769 TT
1 TT
31939771 TTCTTCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (14 bp):
TTCAAAGTAAAATG
Found at i:31940213 original size:15 final size:15
Alignment explanation
Indices: 31940195--31940235 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
31940185 TTTTATATAC
*
31940195 TGAAACTTTAGACT-G
1 TGAAACTATAGA-TAG
31940210 TGAAACTATAGATAG
1 TGAAACTATAGATAG
31940225 TGAAACTATAG
1 TGAAACTATAG
31940236 CTAAACTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 1 0.04
15 23 0.96
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (15 bp):
TGAAACTATAGATAG
Found at i:31943849 original size:20 final size:20
Alignment explanation
Indices: 31943824--31943872 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
31943814 AGAACTCATG
31943824 AAATTTTTCGCAAAATTTCA
1 AAATTTTTCGCAAAATTTCA
31943844 AAATTTTTCGCAAAATTTCA
1 AAATTTTTCGCAAAATTTCA
31943864 AAATTTTTC
1 AAATTTTTC
31943873 CTAGGTACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.14, G:0.04, T:0.43
Consensus pattern (20 bp):
AAATTTTTCGCAAAATTTCA
Found at i:31945631 original size:25 final size:25
Alignment explanation
Indices: 31945601--31945648 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
31945591 TCAAGCGACC
31945601 ATATCAGGAAGCTCACAAAGAGCCT
1 ATATCAGGAAGCTCACAAAGAGCCT
*
31945626 ATATCAGGACGCTCACAAAGAGC
1 ATATCAGGAAGCTCACAAAGAGC
31945649 TGCATTTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (25 bp):
ATATCAGGAAGCTCACAAAGAGCCT
Found at i:31949122 original size:38 final size:39
Alignment explanation
Indices: 31949029--31949122 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 39
31949019 TATAGAATGG
* * *
31949029 TATCAACTGGCTCGCTAGAGCAACACTGTGATGACAATC
1 TATCGACTGGCTTGCTAGAGCAACACTGCGATGACAATC
* * * *
31949068 TATCGAAT---TT-ATAGAGCGACACTGCGATGGCAAT-
1 TATCGACTGGCTTGCTAGAGCAACACTGCGATGACAATC
31949102 TATCGACTGGCTTGCTAGAGC
1 TATCGACTGGCTTGCTAGAGC
31949123 CAGACCATGT
Statistics
Matches: 42, Mismatches: 9, Indels: 9
0.70 0.15 0.15
Matches are distributed among these distances:
34 7 0.17
35 20 0.48
36 1 0.02
37 2 0.05
38 6 0.14
39 6 0.14
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (39 bp):
TATCGACTGGCTTGCTAGAGCAACACTGCGATGACAATC
Found at i:31949258 original size:22 final size:22
Alignment explanation
Indices: 31949233--31949280 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
31949223 TTCAAGGTGA
*
31949233 CCTCGGAAGAGGTTTATTGATT
1 CCTCGAAAGAGGTTTATTGATT
*
31949255 CCTCGAAATAGGTTTATTGATT
1 CCTCGAAAGAGGTTTATTGATT
31949277 CCTC
1 CCTC
31949281 AGAATCATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.38
Consensus pattern (22 bp):
CCTCGAAAGAGGTTTATTGATT
Found at i:31951528 original size:25 final size:25
Alignment explanation
Indices: 31951494--31951544 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
31951484 CCAGAGCATC
*
31951494 TGAGGCATCTTGAGGATCTAATCAA
1 TGAGGCATCTTGAGGATCCAATCAA
31951519 TGAGGCATCTTGAGGATCCAATCAA
1 TGAGGCATCTTGAGGATCCAATCAA
31951544 T
1 T
31951545 CTTTTATAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (25 bp):
TGAGGCATCTTGAGGATCCAATCAA
Found at i:31958164 original size:3 final size:3
Alignment explanation
Indices: 31958158--31958182 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
31958148 TTTGAAGAGA
31958158 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
31958183 ATGTTTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:31958572 original size:31 final size:31
Alignment explanation
Indices: 31958537--31958600 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
31958527 ATTAGTTTTA
* * *
31958537 AAATTATTTGAAAGTTTTCATTTAAGTTATT
1 AAATTATTCGAAAGTTTTCACTTAAATTATT
*
31958568 AAATTATTCGAAAGTTTTTACTTAAATTATT
1 AAATTATTCGAAAGTTTTCACTTAAATTATT
31958599 AA
1 AA
31958601 GTTGTGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (31 bp):
AAATTATTCGAAAGTTTTCACTTAAATTATT
Found at i:31962720 original size:35 final size:36
Alignment explanation
Indices: 31962630--31962770 Score: 101
Period size: 37 Copynumber: 3.9 Consensus size: 36
31962620 TTTATCAAGT
* **
31962630 TAAATCTTACCGTTATACTGAATAAAGCTCAGTTGAG
1 TAAATCTTACTGTTATACTGAAT-AAGCTCAACTGAG
* * *
31962667 CAAAT-TATACTGTTATACTGAAT-GGCTTAACTGAG
1 TAAATCT-TACTGTTATACTGAATAAGCTCAACTGAG
* * * *
31962702 TAAATCTTACTGTTATACTGCATGATGTTCAATTGAG
1 TAAATCTTACTGTTATACTGAAT-AAGCTCAACTGAG
*
31962739 TAAAT-TCTACTTTTATACT-AAGTAAAGCTCAA
1 TAAATCT-TACTGTTATACTGAA-T-AAGCTCAA
31962771 ACGAGTATAA
Statistics
Matches: 81, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
35 27 0.33
36 4 0.05
37 50 0.62
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (36 bp):
TAAATCTTACTGTTATACTGAATAAGCTCAACTGAG
Found at i:31966562 original size:16 final size:16
Alignment explanation
Indices: 31966541--31966590 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
31966531 ATATCTAATC
31966541 ATATAATAAATTATTA
1 ATATAATAAATTATTA
31966557 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
31966570 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
31966587 ATAT
1 ATAT
31966591 TTCATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:31976394 original size:94 final size:96
Alignment explanation
Indices: 31976270--31976492 Score: 288
Period size: 94 Copynumber: 2.3 Consensus size: 96
31976260 TGTTTATTGT
* *
31976270 TTTTTAAGAAAAAATCAATTAAATTAGGGTTTAGGGTTACTTGAGTAATTTAATTAAAAAATTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
*
31976335 -A-AAATTAGATTAGGGTTTAGAGTTAAAGG
66 AATAAATTAGATTAGGATTTAGAGTTAAAGG
* * * * * **
31976364 TTTTAAAGGAAAAATTAAATAAATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAATTTTTT
1 TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
* * * *
31976429 AATAAATTAGTTTAGGATTTAGTGTTTAGGG
66 AATAAATTAGATTAGGATTTAGAGTTAAAGG
*
31976460 TTTTTAAGTAAAAACTCAAATAAATTAGGGTTT
1 TTTTTAAG-AAAAAATCAAATAAATTAGGGTTT
31976493 GGCGTTTAAG
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
94 56 0.52
95 1 0.01
96 30 0.28
97 20 0.19
ACGTcount: A:0.40, C:0.03, G:0.17, T:0.40
Consensus pattern (96 bp):
TTTTTAAGAAAAAATCAAATAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAATTTT
AATAAATTAGATTAGGATTTAGAGTTAAAGG
Found at i:31976769 original size:126 final size:126
Alignment explanation
Indices: 31976532--31976959 Score: 682
Period size: 126 Copynumber: 3.4 Consensus size: 126
31976522 TTGTTAATTT
* * *
31976532 AAAGAACCTCCCACGTGGACACGCTTTTGCTACAGTAGGTCC-T-AAGAAAATAATTTTGAGTAG
1 AAAGAAGCTCCCACGTGGACACGCTTTTGCTACAGTA-GCCCTTGAA-AAAATAATTTCGAGTAG
* * *
31976595 ACGTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGAAGGATGTTTTGTTAGCAGAAGTACTG
64 ACGTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
* * * *
31976658 AAAAAAGCTCCCACGTGGACGCGCTTTTACTACTGTAGCCCTTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACACGCTTTTGCTACAGTAGCCCTTGAAAAAATAATTTCGAGTAGAC
*
31976723 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
*
31976784 AAAGAAGCTCCCACGTGGACACGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACACGCTTTTGCTACAGTAGCCCTTGAAAAAATAATTTCGAGTAGAC
31976849 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGTAA-GATGCTTTGTCAGCAGAAGTACTG
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAG-AAGGATGCTTTGTCAGCAGAAGTACTG
* *
31976910 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAACCCTTGAAAAAA
1 AAAGAAGCTCCCACGTGGACACGCTTTTGCTACAGTAGCCCTTGAAAAAA
31976960 GCTCCCACGT
Statistics
Matches: 279, Mismatches: 20, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
125 3 0.01
126 273 0.98
127 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.25
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACACGCTTTTGCTACAGTAGCCCTTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTGTCAGCAGAAGTACTG
Found at i:31977544 original size:7 final size:7
Alignment explanation
Indices: 31977534--31977559 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
31977524 CATAATACAT
31977534 AATACTA
1 AATACTA
31977541 AATACTA
1 AATACTA
31977548 AATACTA
1 AATACTA
31977555 AATAC
1 AATAC
31977560 CAATTGGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:31978555 original size:18 final size:18
Alignment explanation
Indices: 31978494--31978557 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
31978484 ATAAAAAATA
31978494 AAAAATT-AATAATTATTT
1 AAAAATTAAATAA-TATTT
* *
31978512 -AAAATTACATAA-A-TA
1 AAAAATTAAATAATATTT
31978527 AAAAATCTTAAATAATATTT
1 AAAAA--TTAAATAATATTT
31978547 AAAAATTAAAT
1 AAAAATTAAAT
31978558 TTAACACTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 6 0.17
18 17 0.47
19 1 0.03
20 6 0.17
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAAATTAAATAATATTT
Found at i:31978745 original size:11 final size:11
Alignment explanation
Indices: 31978731--31978776 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
31978721 TTTAAATAGG
31978731 AATTTGAGAGA
1 AATTTGAGAGA
*
31978742 AATTTGAGAGG
1 AATTTGAGAGA
31978753 AATTTGAGAGA
1 AATTTGAGAGA
*
31978764 ATATTAGAGAGA
1 A-ATTTGAGAGA
31978776 A
1 A
31978777 TATTAGAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
11 21 0.68
12 10 0.32
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.26
Consensus pattern (11 bp):
AATTTGAGAGA
Found at i:31978756 original size:22 final size:22
Alignment explanation
Indices: 31978728--31978787 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
31978718 TCTTTTAAAT
*
31978728 AGGAATTTGAGAGAAATTTGAG
1 AGGAATTTGAGAGAAATTAGAG
31978750 AGGAATTTGAGAGAATATTAGAG
1 AGGAATTTGAGAGAA-ATTAGAG
31978773 A-GAATATT-AGAGAAA
1 AGGAAT-TTGAGAGAAA
31978788 GGATTTAGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
21 1 0.03
22 25 0.71
23 9 0.26
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (22 bp):
AGGAATTTGAGAGAAATTAGAG
Found at i:31978775 original size:12 final size:12
Alignment explanation
Indices: 31978736--31978785 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
31978726 ATAGGAATTT
*
31978736 GAGAGAA-ATTT
1 GAGAGAATATTA
31978747 GAGAGGAAT-TT-
1 GAGA-GAATATTA
31978758 GAGAGAATATTA
1 GAGAGAATATTA
31978770 GAGAGAATATTA
1 GAGAGAATATTA
31978782 GAGA
1 GAGA
31978786 AAGGATTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.11
11 10 0.29
12 21 0.60
ACGTcount: A:0.46, C:0.00, G:0.30, T:0.24
Consensus pattern (12 bp):
GAGAGAATATTA
Found at i:31981082 original size:26 final size:27
Alignment explanation
Indices: 31981051--31981115 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
31981041 AAAAAAAATC
* *
31981051 AGCATTAACTATAGGCAAGT-AAATAT
1 AGCATTAACTATACGAAAGTAAAATAT
* * *
31981077 GGCATTAACTATTCGAAATTAAAATAT
1 AGCATTAACTATACGAAAGTAAAATAT
31981104 AGCATTAACTAT
1 AGCATTAACTAT
31981116 TTCTGTTATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 15 0.47
27 17 0.53
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (27 bp):
AGCATTAACTATACGAAAGTAAAATAT
Found at i:31982251 original size:21 final size:22
Alignment explanation
Indices: 31982221--31982272 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
31982211 TTTAAATGAC
31982221 TTTTAA-ATTATCTATAATG-T
1 TTTTAATATTATCTATAATGCT
* *
31982241 TTTTAATATTATTTTTAATGCT
1 TTTTAATATTATCTATAATGCT
31982263 TTTTAATATT
1 TTTTAATATT
31982273 TTTTAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 6 0.21
21 11 0.39
22 11 0.39
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTTAATATTATCTATAATGCT
Found at i:31986129 original size:23 final size:20
Alignment explanation
Indices: 31986099--31986151 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 20
31986089 AGGTCAATTA
*
31986099 TGTGATGCCTTTATGGTGTATT
1 TGTGATGCCTTT-TCGTG-ATT
31986121 CTGTGATG-C-TTTCGTGATT
1 -TGTGATGCCTTTTCGTGATT
31986140 TGTGATGCCTTT
1 TGTGATGCCTTT
31986152 GTGGCTTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 7 0.26
19 4 0.15
20 6 0.22
21 2 0.07
22 1 0.04
23 7 0.26
ACGTcount: A:0.11, C:0.13, G:0.26, T:0.49
Consensus pattern (20 bp):
TGTGATGCCTTTTCGTGATT
Found at i:31988229 original size:67 final size:67
Alignment explanation
Indices: 31988151--31988353 Score: 218
Period size: 67 Copynumber: 3.0 Consensus size: 67
31988141 TTTTTAATAG
* * *
31988151 ATTTAATATTAAATTAAAATTAATACTTATCTTAATAGTATT-TATTAATTTAATATTAAAGTGA
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAATAGTATTATATTAATTTAATATTAAAGTGA
31988215 TT
66 TT
* * * *
31988217 ATCTTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATA--AG
1 AT-TTAATATTAAATTTAATTTAATATTTATC-T-TA-AT-AGTATTATATTAATTTAATATTAA
* * *
31988280 ATTTAAT
61 AGTGATT
*
31988287 ATTTAAT-TT-AATTTAATTTAATATTTATCTTAACAAGTATTATATTAATTTAATATTAAAGTG
1 ATTTAATATTAAATTTAATTTAATATTTATCTTAA-TAGTATTATATTAATTTAATATTAAAGTG
31988350 ATT
65 ATT
31988353 A
1 A
31988354 AGATTAATCA
Statistics
Matches: 111, Mismatches: 17, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
64 19 0.17
65 2 0.02
66 9 0.08
67 44 0.40
68 3 0.03
69 7 0.06
70 9 0.08
71 5 0.05
72 13 0.12
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (67 bp):
ATTTAATATTAAATTTAATTTAATATTTATCTTAATAGTATTATATTAATTTAATATTAAAGTGA
TT
Found at i:31988292 original size:22 final size:22
Alignment explanation
Indices: 31988267--31988341 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
31988257 AAATATTCTA
31988267 TTAATTTAATAAGATTTAATAT
1 TTAATTTAATAAGATTTAATAT
*
31988289 TTAATTTAATTTA-ATTTAATAT
1 TTAATTTAA-TAAGATTTAATAT
*
31988311 TT-ATCTTAACAAG-TATT-ATA-
1 TTAAT-TTAATAAGAT-TTAATAT
31988331 TTAATTTAATA
1 TTAATTTAATA
31988342 TTAAAGTGAT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
20 7 0.16
21 9 0.20
22 26 0.59
23 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (22 bp):
TTAATTTAATAAGATTTAATAT
Found at i:31989805 original size:42 final size:41
Alignment explanation
Indices: 31989737--31989898 Score: 159
Period size: 43 Copynumber: 3.9 Consensus size: 41
31989727 TTTTGATATA
* *
31989737 TGTTATCGTGTAAGACCACATTTGGGACGTTGGCATCGACTTG
1 TGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-TTG
* * * *
31989780 TGTTACGTGTAAGACCATGTCTGGGACATTAGAATCGTATT-
1 TGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCG-ATTG
*
31989821 TGTTTCGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATG
1 TGTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT-TG
* *
31989863 TGATTACATGTAAGACCACGTCCGGGACGTTGGCAT
1 TG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
31989899 TGTACAAGCT
Statistics
Matches: 97, Mismatches: 14, Indels: 16
0.76 0.11 0.13
Matches are distributed among these distances:
40 2 0.02
41 31 0.32
42 31 0.32
43 32 0.33
44 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (41 bp):
TGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATTG
Found at i:31995192 original size:35 final size:34
Alignment explanation
Indices: 31995143--31995271 Score: 170
Period size: 35 Copynumber: 3.7 Consensus size: 34
31995133 TTTGTTTTAA
31995143 TGTGTTTCGAAGGGATTAGCTCTTTA-GAGCATTGG
1 TGTGTTTCG-AGGGATTAGCTC-TTACGAGCATTGG
* *
31995178 TGTGTTTTGTAGGGATTAGTTCTTACGAGCATTGG
1 TGTGTTTCG-AGGGATTAGCTCTTACGAGCATTGG
*
31995213 TGTGCTTCGGAGGGATTAGCTCTTACGAGCATTGG
1 TGTGTTTC-GAGGGATTAGCTCTTACGAGCATTGG
*
31995248 TGTGTTTCAGATGGATTAGCTCTT
1 TGTGTTTC-GAGGGATTAGCTCTT
31995272 TTGATCATCT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
34 3 0.04
35 79 0.95
36 1 0.01
ACGTcount: A:0.18, C:0.12, G:0.31, T:0.39
Consensus pattern (34 bp):
TGTGTTTCGAGGGATTAGCTCTTACGAGCATTGG
Found at i:31999260 original size:17 final size:17
Alignment explanation
Indices: 31999238--31999299 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 17
31999228 TTGAATGTTA
31999238 TGTGATTATATGAGTAT
1 TGTGATTATATGAGTAT
*
31999255 TGTGATATATGCTTGAATGT-T
1 TGTGAT-TAT--ATG-A-GTAT
31999276 ATGTGATTATATGAGTAT
1 -TGTGATTATATGAGTAT
31999294 TGTGAT
1 TGTGAT
31999300 ATAAGCCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
17 14 0.39
18 5 0.14
19 2 0.06
20 2 0.06
21 5 0.14
22 8 0.22
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (17 bp):
TGTGATTATATGAGTAT
Found at i:31999263 original size:39 final size:39
Alignment explanation
Indices: 31999209--31999388 Score: 279
Period size: 39 Copynumber: 4.6 Consensus size: 39
31999199 AACATGTTTT
* *
31999209 TGAGTATTATGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
31999248 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* *
31999287 TGAGTATTGTGATATAAGCCTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
*
31999326 TGAGTATTGTGATATATGCTTAAATGTTACGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
* * *
31999365 TGTGTAATGTGGTATATGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
31999389 AGTGAATACC
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 131 1.00
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.44
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATTATA
Found at i:32004266 original size:387 final size:387
Alignment explanation
Indices: 32003552--32004325 Score: 1548
Period size: 387 Copynumber: 2.0 Consensus size: 387
32003542 TTGATGGTAA
32003552 GTGGCATTGTAAGAACGTTTACATTGCGAGAAGGATAACTTACTTTAGTAGATAATCTAAATGAG
1 GTGGCATTGTAAGAACGTTTACATTGCGAGAAGGATAACTTACTTTAGTAGATAATCTAAATGAG
32003617 TCCATAATCCCATAAAAGAATCAAAGTGAACATTTGATTCAAATATTGAGAAGGATTATTATGTC
66 TCCATAATCCCATAAAAGAATCAAAGTGAACATTTGATTCAAATATTGAGAAGGATTATTATGTC
32003682 ATCTACAATTCCAATTGAAGAGATGGCTAGTCTTGGCTACCGAAGTAGTTGACTCCACAAGTAGA
131 ATCTACAATTCCAATTGAAGAGATGGCTAGTCTTGGCTACCGAAGTAGTTGACTCCACAAGTAGA
32003747 GACATAGATACATTCATTGAAAGAATGATACATTGGACTGGACCCAAGATTAGTTAATTCTGAAT
196 GACATAGATACATTCATTGAAAGAATGATACATTGGACTGGACCCAAGATTAGTTAATTCTGAAT
32003812 CCGTTTGTGAATTAATTCACTTGTGACGTTCATGGTGTGATTTATCTAAATCCTAAGTTAGCCAT
261 CCGTTTGTGAATTAATTCACTTGTGACGTTCATGGTGTGATTTATCTAAATCCTAAGTTAGCCAT
32003877 TGACCATGCGTATGTAACTCATGTGCTTTGATATAAGTGGAGGCTTATGCTCTAAATATGAT
326 TGACCATGCGTATGTAACTCATGTGCTTTGATATAAGTGGAGGCTTATGCTCTAAATATGAT
32003939 GTGGCATTGTAAGAACGTTTACATTGCGAGAAGGATAACTTACTTTAGTAGATAATCTAAATGAG
1 GTGGCATTGTAAGAACGTTTACATTGCGAGAAGGATAACTTACTTTAGTAGATAATCTAAATGAG
32004004 TCCATAATCCCATAAAAGAATCAAAGTGAACATTTGATTCAAATATTGAGAAGGATTATTATGTC
66 TCCATAATCCCATAAAAGAATCAAAGTGAACATTTGATTCAAATATTGAGAAGGATTATTATGTC
32004069 ATCTACAATTCCAATTGAAGAGATGGCTAGTCTTGGCTACCGAAGTAGTTGACTCCACAAGTAGA
131 ATCTACAATTCCAATTGAAGAGATGGCTAGTCTTGGCTACCGAAGTAGTTGACTCCACAAGTAGA
32004134 GACATAGATACATTCATTGAAAGAATGATACATTGGACTGGACCCAAGATTAGTTAATTCTGAAT
196 GACATAGATACATTCATTGAAAGAATGATACATTGGACTGGACCCAAGATTAGTTAATTCTGAAT
32004199 CCGTTTGTGAATTAATTCACTTGTGACGTTCATGGTGTGATTTATCTAAATCCTAAGTTAGCCAT
261 CCGTTTGTGAATTAATTCACTTGTGACGTTCATGGTGTGATTTATCTAAATCCTAAGTTAGCCAT
32004264 TGACCATGCGTATGTAACTCATGTGCTTTGATATAAGTGGAGGCTTATGCTCTAAATATGAT
326 TGACCATGCGTATGTAACTCATGTGCTTTGATATAAGTGGAGGCTTATGCTCTAAATATGAT
32004326 CGAGTCGATA
Statistics
Matches: 387, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
387 387 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (387 bp):
GTGGCATTGTAAGAACGTTTACATTGCGAGAAGGATAACTTACTTTAGTAGATAATCTAAATGAG
TCCATAATCCCATAAAAGAATCAAAGTGAACATTTGATTCAAATATTGAGAAGGATTATTATGTC
ATCTACAATTCCAATTGAAGAGATGGCTAGTCTTGGCTACCGAAGTAGTTGACTCCACAAGTAGA
GACATAGATACATTCATTGAAAGAATGATACATTGGACTGGACCCAAGATTAGTTAATTCTGAAT
CCGTTTGTGAATTAATTCACTTGTGACGTTCATGGTGTGATTTATCTAAATCCTAAGTTAGCCAT
TGACCATGCGTATGTAACTCATGTGCTTTGATATAAGTGGAGGCTTATGCTCTAAATATGAT
Found at i:32005460 original size:31 final size:29
Alignment explanation
Indices: 32005425--32005482 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
32005415 TAATAGTATT
*
32005425 TATTAATTTAATATTAAAGTGATTATCTTAA
1 TATTAAATTAA-ATTAAA-TGATTATCTTAA
* *
32005456 TATTAAATTAAATTTAATGTTTATCTT
1 TATTAAATTAAATTAAATGATTATCTT
32005483 GTAGATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 5 0.21
31 10 0.42
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (29 bp):
TATTAAATTAAATTAAATGATTATCTTAA
Found at i:32006907 original size:11 final size:11
Alignment explanation
Indices: 32006876--32006910 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
32006866 TAACATTTTC
32006876 ATAAT-AAAAT
1 ATAATAAAAAT
32006886 ATCAATAAAAAT
1 AT-AATAAAAAT
32006898 ATAATAAAAAT
1 ATAATAAAAAT
32006909 AT
1 AT
32006911 TAATGTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.09
11 14 0.61
12 7 0.30
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (11 bp):
ATAATAAAAAT
Found at i:32006914 original size:12 final size:12
Alignment explanation
Indices: 32006877--32006914 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
32006867 AACATTTTCA
32006877 TAAT-AAAATAT
1 TAATAAAAATAT
*
32006888 CAATAAAAATA-
1 TAATAAAAATAT
32006899 TAATAAAAATAT
1 TAATAAAAATAT
32006911 TAAT
1 TAAT
32006915 GTTATAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (12 bp):
TAATAAAAATAT
Found at i:32007219 original size:22 final size:23
Alignment explanation
Indices: 32007177--32007219 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
32007167 CAGCACTTAC
*
32007177 CTTTCAACTTTTCCATATTTATA
1 CTTTCAACCTTTCCATATTTATA
32007200 CTTT-AACCTTTCACAT-TTTA
1 CTTTCAACCTTTC-CATATTTA
32007220 AATATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.26, C:0.23, G:0.00, T:0.51
Consensus pattern (23 bp):
CTTTCAACCTTTCCATATTTATA
Found at i:32011377 original size:61 final size:57
Alignment explanation
Indices: 32011282--32011425 Score: 180
Period size: 61 Copynumber: 2.4 Consensus size: 57
32011272 TTGTTATTAA
* * * *
32011282 ATTTTAATAAAATTATTATTAAATATAATTTAATAAAAGTAATAATAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATACAATTTAATAAAA-TAAT-AT--ATAATTTAATAAC
* *
32011343 ATTTTAACATAATTATTGTTAAATACAATTTAATAAAATAATATATAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAAC
*
32011400 ATTCTTAATATAATTATTATAAAATA
1 ATT-TTAATATAATTATTATTAAATA
32011426 TGAAATAATA
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 14 0.19
58 19 0.26
59 2 0.03
60 4 0.05
61 34 0.47
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (57 bp):
ATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTAATAAC
Found at i:32016571 original size:38 final size:38
Alignment explanation
Indices: 32016518--32016892 Score: 395
Period size: 38 Copynumber: 9.9 Consensus size: 38
32016508 TTGGAGTTCC
* *
32016518 GGTTGGATCAACTCTTATGAGCTTCTATTTGGTGATTT
1 GGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGATTT
* * * * * **
32016556 GATTGTATTAGCTCTTATGAGCTTCTATTTGGCGATCC
1 GGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGATTT
* * *
32016594 GATTGGATCAGCTCTTATGAGCTTCTGTTTGACT-ATTC
1 GGTTGGATCAGCTCTTATGAGCTTCTGTTTG-GTGATTT
* * *
32016632 GGTTGGATCAGCCCTTATGAGCTTTTGTTTGGTGTTTT
1 GGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGATTT
* * *
32016670 GGTTGGATTAGCTCTTATGAGCTTCTTTTTGGCGATTAT
1 GGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGATT-T
* * *
32016709 -GTTGGATCAGCTCTTATGAGCTTTTGTTT-G-GCTTC
1 GGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGATTT
* *
32016744 GGTTGGATCAACTCTTATGACCTTCTGTTTGGTGATTCT
1 GGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGATT-T
* * *
32016783 -GTTGGATCAACTCTTATGAGCTTCTATTTGGCG-TTT
1 GGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGATTT
*
32016819 CAGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTG-TGTT
1 -GGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGAT-TT
*
32016858 CGGTTGGATCAGCTCTTATGAGCTTCTATTTGGTG
1 -GGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTG
32016893 TGTTCGGTTG
Statistics
Matches: 284, Mismatches: 43, Indels: 19
0.82 0.12 0.05
Matches are distributed among these distances:
36 30 0.11
37 5 0.02
38 213 0.75
39 36 0.13
ACGTcount: A:0.15, C:0.16, G:0.25, T:0.44
Consensus pattern (38 bp):
GGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGATTT
Found at i:32016649 original size:76 final size:75
Alignment explanation
Indices: 32016502--32016902 Score: 437
Period size: 76 Copynumber: 5.3 Consensus size: 75
32016492 ATGTTATACT
* * * * * * * * *
32016502 TTCTGTTTGGAGTTCCGGTTGGATCAACTCTTATGAGCTTCTATTTGGTGATTTGATTGTATTAG
1 TTCTATTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGGT-ATTCGGTTGGATCAG
32016567 CTCTTATGAGC
65 CTCTTATGAGC
* * * *
32016578 TTCTATTTGGCGATCCGATTGGATCAGCTCTTATGAGCTTCTGTTTGACTATTCGGTTGGATCAG
1 TTCTATTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTG-GTATTCGGTTGGATCAG
*
32016643 CCCTTATGAGC
65 CTCTTATGAGC
* * * * * * * **
32016654 TTTTGTTTGGTGTTTTGGTTGGATTAGCTCTTATGAGCTTCTTTTTGGCGATTATGTTGGATCAG
1 TTCTATTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGG-TATTCGGTTGGATCAG
32016719 CTCTTATGAGC
65 CTCTTATGAGC
* * * * * *
32016730 TTTTGTTTGGC--TTCGGTTGGATCAACTCTTATGACCTTCTGTTTGGTGATTCTGTTGGATCAA
1 TTCTATTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGGT-ATTCGGTTGGATCAG
32016793 CTCTTATGAGC
65 CTCTTATGAGC
* *
32016804 TTCTATTTGGCGTTTCAGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTGTGTTCGGTTGGATCA
1 TTCTATTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTT-G-GTATTCGGTTGGATCA
32016869 GCTCTTATGAGC
64 GCTCTTATGAGC
*
32016881 TTCTATTTGGTGTGTTCGGTTG
1 TTCTATTTGGCGT-TTCGGTTG
32016903 ATCTAACGAC
Statistics
Matches: 272, Mismatches: 45, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
74 63 0.23
76 163 0.60
77 37 0.14
78 9 0.03
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.44
Consensus pattern (75 bp):
TTCTATTTGGCGTTTCGGTTGGATCAGCTCTTATGAGCTTCTGTTTGGTATTCGGTTGGATCAGC
TCTTATGAGC
Found at i:32018657 original size:42 final size:42
Alignment explanation
Indices: 32018610--32018719 Score: 159
Period size: 42 Copynumber: 2.6 Consensus size: 42
32018600 CACGGCCAAG
* *
32018610 TCACACGTC-CATGTGCTAGGCTGTGTAACTCTCGAAATGGCT
1 TCACAC-TCTCATGTGCCAGGCTGTGTAACTCTCGAAATGACT
*
32018652 TCACACTCTCGTGTGCCAGGCTGTGTAACTCTCGAAATGACT
1 TCACACTCTCATGTGCCAGGCTGTGTAACTCTCGAAATGACT
* *
32018694 TCACACTCTCGTGTGCCAGGCCGTGT
1 TCACACTCTCATGTGCCAGGCTGTGT
32018720 GTTAGGCTCT
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
41 2 0.03
42 61 0.97
ACGTcount: A:0.19, C:0.29, G:0.24, T:0.28
Consensus pattern (42 bp):
TCACACTCTCATGTGCCAGGCTGTGTAACTCTCGAAATGACT
Found at i:32024687 original size:34 final size:34
Alignment explanation
Indices: 32024647--32024716 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
32024637 TTCTCATATC
32024647 AAATCAACCATGTGGAGCCTTTTCTCACTGAGCT
1 AAATCAACCATGTGGAGCCTTTTCTCACTGAGCT
32024681 AAATCAACCATGTGGAGCCTTTTCTCACTGAGCT
1 AAATCAACCATGTGGAGCCTTTTCTCACTGAGCT
32024715 AA
1 AA
32024717 GTCCAATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (34 bp):
AAATCAACCATGTGGAGCCTTTTCTCACTGAGCT
Found at i:32033749 original size:20 final size:18
Alignment explanation
Indices: 32033704--32033750 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 18
32033694 ATCTGAGTAA
*
32033704 AAATGAAT-ATAATTGAT
1 AAATGAATAATAAATGAT
*
32033721 AAATAAATAAGTAAATGAGT
1 AAATGAATAA-TAAATGA-T
32033741 AAATGAATAA
1 AAATGAATAA
32033751 ATGAATCAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 7 0.29
18 1 0.04
19 6 0.25
20 10 0.42
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.28
Consensus pattern (18 bp):
AAATGAATAATAAATGAT
Found at i:32040908 original size:40 final size:40
Alignment explanation
Indices: 32040839--32040985 Score: 134
Period size: 40 Copynumber: 3.6 Consensus size: 40
32040829 GTGCTTTTGG
* * *
32040839 CAGTACTTTCATACTCCTCTGATATCATAAT-GATACTTCTGA
1 CAGTACTTTCATACT--TCTGATAGCATAATAG-CACTCCTGA
* *
32040881 CAGTACTTTCAAACTTCTGATAGCATAATAGCGCTCCTGA
1 CAGTACTTTCATACTTCTGATAGCATAATAGCACTCCTGA
* * * * * * *
32040921 CAGTACTTTCGTACTCCTGATAGCACAACAACGCTCCTAA
1 CAGTACTTTCATACTTCTGATAGCATAATAGCACTCCTGA
* *
32040961 CAATACTTTCATACTTTTGATAGCA
1 CAGTACTTTCATACTTCTGATAGCA
32040986 CAACGGTGCT
Statistics
Matches: 88, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 73 0.83
41 1 0.01
42 14 0.16
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (40 bp):
CAGTACTTTCATACTTCTGATAGCATAATAGCACTCCTGA
Found at i:32040997 original size:40 final size:40
Alignment explanation
Indices: 32040880--32041009 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 40
32040870 GATACTTCTG
* * * *
32040880 ACAGTACTTTCAAACTTCTGATAGCATAATAGCGCTCCTG
1 ACAGTACTTTCATACTTCTGATAGCACAACAGCGCTCCTA
* * *
32040920 ACAGTACTTTCGTACTCCTGATAGCACAACAACGCTCCTA
1 ACAGTACTTTCATACTTCTGATAGCACAACAGCGCTCCTA
* * * *
32040960 ACAATACTTTCATACTTTTGATAGCACAACGGTGCTCCTA
1 ACAGTACTTTCATACTTCTGATAGCACAACAGCGCTCCTA
*
32041000 ATAGTACTTT
1 ACAGTACTTT
32041010 TGTACTCTTC
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (40 bp):
ACAGTACTTTCATACTTCTGATAGCACAACAGCGCTCCTA
Found at i:32044675 original size:3 final size:3
Alignment explanation
Indices: 32044667--32044717 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
32044657 TCCTTATCTT
32044667 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32044715 TTA
1 TTA
32044718 AAGACAAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32044760 original size:18 final size:18
Alignment explanation
Indices: 32044737--32044775 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
32044727 AAATCATATG
*
32044737 TAAAATTTAATTTAAAAA
1 TAAAATTCAATTTAAAAA
* *
32044755 TAAAATTCACTTTAAATA
1 TAAAATTCAATTTAAAAA
32044773 TAA
1 TAA
32044776 TTAAAAAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATTCAATTTAAAAA
Found at i:32045146 original size:3 final size:3
Alignment explanation
Indices: 32045123--32045161 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
32045113 TCCGTACCTT
* * *
32045123 TTA TTT TTA TTT TTG TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32045162 ATGACAAGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:32046203 original size:23 final size:22
Alignment explanation
Indices: 32046155--32046204 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
32046145 ACACAACAAA
* * *
32046155 TAGTAATTTGCGGGTGAACTGC
1 TAGTAATATGCGGATGAACCGC
*
32046177 TAGTAGATATGCGGATGAACCGT
1 TAGTA-ATATGCGGATGAACCGC
32046200 TAGTA
1 TAGTA
32046205 TAATAGTAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (22 bp):
TAGTAATATGCGGATGAACCGC
Found at i:32046903 original size:10 final size:10
Alignment explanation
Indices: 32046890--32046928 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
32046880 GAAAGAAGGA
32046890 GAAAAGAAAG
1 GAAAAGAAAG
32046900 GAAAAGGGAAAG
1 GAAAA--GAAAG
*
32046912 GGAAAGAAAG
1 GAAAAGAAAG
32046922 GAAAAGA
1 GAAAAGA
32046929 GGGAGGGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 16 0.64
12 9 0.36
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (10 bp):
GAAAAGAAAG
Found at i:32047697 original size:22 final size:22
Alignment explanation
Indices: 32047672--32047714 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
32047662 TCTTTTCTAT
* *
32047672 TTTTCAATTCTATATTTTTAAC
1 TTTTAAATTCTAAATTTTTAAC
32047694 TTTTAAATTCTAAATTTTTAA
1 TTTTAAATTCTAAATTTTTAA
32047715 ATTTATCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTAAATTCTAAATTTTTAAC
Found at i:32049727 original size:11 final size:11
Alignment explanation
Indices: 32049705--32049740 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
32049695 AACAAATGCT
32049705 CTCTCAAATTTC
1 CTCTC-AATTTC
32049717 CTCTCAATTTC
1 CTCTCAATTTC
32049728 CTCTCAATTTC
1 CTCTCAATTTC
32049739 CT
1 CT
32049741 TCCAAATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 19 0.79
12 5 0.21
ACGTcount: A:0.19, C:0.36, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:32049731 original size:23 final size:23
Alignment explanation
Indices: 32049704--32049759 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
32049694 AAACAAATGC
32049704 TCTCTCAAATTTCC-TCTC-AATT
1 TCTCTCAAATTTCCTTC-CAAATT
32049726 TCCTCTC-AATTTCCTTCCAAATT
1 T-CTCTCAAATTTCCTTCCAAATT
32049749 TCTCTCAAATT
1 TCTCTCAAATT
32049760 CATATTTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (23 bp):
TCTCTCAAATTTCCTTCCAAATT
Found at i:32049739 original size:22 final size:22
Alignment explanation
Indices: 32049704--32049756 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
32049694 AAACAAATGC
32049704 TCTCTCAAATTTCC-TCTC-AATT
1 TCTCTC-AATTTCCTTC-CAAATT
32049726 TCCTCTCAATTTCCTTCCAAATT
1 T-CTCTCAATTTCCTTCCAAATT
32049749 TCTCTCAA
1 TCTCTCAA
32049757 ATTCATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (22 bp):
TCTCTCAATTTCCTTCCAAATT
Found at i:32049757 original size:11 final size:11
Alignment explanation
Indices: 32049704--32049759 Score: 55
Period size: 11 Copynumber: 5.0 Consensus size: 11
32049694 AAACAAATGC
32049704 TCTCTCAAATT
1 TCTCTCAAATT
32049715 TCCTCTC-AATT
1 T-CTCTCAAATT
32049726 TCCTCTC-AATT
1 T-CTCTCAAATT
32049737 TC-CTTCCAAATT
1 TCTC-T-CAAATT
32049749 TCTCTCAAATT
1 TCTCTCAAATT
32049760 CATATTTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
9 1 0.03
10 2 0.05
11 24 0.60
12 12 0.30
13 1 0.03
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.45
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:32049817 original size:51 final size:51
Alignment explanation
Indices: 32049718--32049817 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
32049708 TCAAATTTCC
* *
32049718 TCTCAATTTCCTCTCAATTTCCTTCCAAATTTCTCTCAAATTCATATTTAA
1 TCTCAATTACCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
* ** * *
32049769 TCTCAATTAGCTCTCAATTTCCTTTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTACCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTT
32049818 TTAAATAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.01, T:0.47
Consensus pattern (51 bp):
TCTCAATTACCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAA
Found at i:32052302 original size:21 final size:21
Alignment explanation
Indices: 32052278--32052348 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
32052268 CCCTAACCCT
32052278 AATCCTAACCCTTAACTTAAA
1 AATCCTAACCCTTAACTTAAA
*
32052299 AATCCTAACCCTTAAATTAAA
1 AATCCTAACCCTTAACTTAAA
*
32052320 AATGCTAACCCTTAACTTAAA
1 AATCCTAACCCTTAACTTAAA
*
32052341 AACCCTAA
1 AATCCTAA
32052349 AACCTAAACC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.27
Consensus pattern (21 bp):
AATCCTAACCCTTAACTTAAA
Found at i:32052385 original size:22 final size:21
Alignment explanation
Indices: 32052347--32052443 Score: 82
Period size: 22 Copynumber: 4.8 Consensus size: 21
32052337 TAAAAACCCT
*
32052347 AAAACCTAAACCTTAAACTTA
1 AAAACCTAAACCCTAAACTTA
*
32052368 AAAACCTCAAACCCTAAACCT-
1 AAAACCT-AAACCCTAAACTTA
32052389 --AA---AAACCCTAAACTTA
1 AAAACCTAAACCCTAAACTTA
*
32052405 AAAACCACAAACCCTAAA-TCTA
1 AAAACC-TAAACCCTAAACT-TA
*
32052427 AAACCCTAAACCCTAAA
1 AAAACCTAAACCCTAAA
32052444 AACTTAACTT
Statistics
Matches: 62, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
15 12 0.19
18 2 0.03
19 2 0.03
21 18 0.29
22 28 0.45
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (21 bp):
AAAACCTAAACCCTAAACTTA
Found at i:32052388 original size:29 final size:28
Alignment explanation
Indices: 32052324--32052388 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
32052314 ATTAAAAATG
*
32052324 CTAACCCTTAACTTAAAAACCCTAAAAC
1 CTAAACCTTAACTTAAAAACCCTAAAAC
*
32052352 CTAAACCTTAAACTTAAAAA-CCTCAAACC
1 CTAAACCTT-AACTTAAAAACCCT-AAAAC
32052381 CTAAACCT
1 CTAAACCT
32052389 AAAAACCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 11 0.33
29 22 0.67
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (28 bp):
CTAAACCTTAACTTAAAAACCCTAAAAC
Found at i:32052401 original size:37 final size:36
Alignment explanation
Indices: 32052340--32052446 Score: 144
Period size: 37 Copynumber: 2.9 Consensus size: 36
32052330 CTTAACTTAA
* *
32052340 AAACCCTAAAACCT-AAACCTTAAACTTAAAAACCTC
1 AAACCCT-AAACCTAAAACCCTAAACTTAAAAACCAC
32052376 AAACCCTAAACCTAAAAACCCTAAACTTAAAAACCAC
1 AAACCCTAAACCT-AAAACCCTAAACTTAAAAACCAC
* *
32052413 AAACCCTAAATCTAAAACCCTAAACCCTAAAAAC
1 AAACCCTAAACCTAAAACCCTAAA-CTTAAAAAC
32052447 TTAACTTTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
35 6 0.09
36 18 0.28
37 40 0.62
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (36 bp):
AAACCCTAAACCTAAAACCCTAAACTTAAAAACCAC
Found at i:32052416 original size:15 final size:15
Alignment explanation
Indices: 32052376--32052410 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
32052366 TAAAAACCTC
32052376 AAACCCTAAACCTAA
1 AAACCCTAAACCTAA
*
32052391 AAACCCTAAACTTAA
1 AAACCCTAAACCTAA
32052406 AAACC
1 AAACC
32052411 ACAAACCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.14
Consensus pattern (15 bp):
AAACCCTAAACCTAA
Found at i:32052465 original size:14 final size:14
Alignment explanation
Indices: 32052413--32052465 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
32052403 TAAAAACCAC
*
32052413 AAACCCTAAATCTA
1 AAACCCTAACTCTA
*
32052427 AAACCCTAAACCCTA
1 AAACCCT-AACTCTA
* * *
32052442 AAAACTTAACTTTA
1 AAACCCTAACTCTA
32052456 AAACCCTAAC
1 AAACCCTAAC
32052466 CCTTAAGTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (14 bp):
AAACCCTAACTCTA
Found at i:32055893 original size:125 final size:125
Alignment explanation
Indices: 32055650--32056198 Score: 662
Period size: 125 Copynumber: 4.4 Consensus size: 125
32055640 TACTGTAGCA
* * *
32055650 CGTCCACGTGGGTGCAATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAGCGATTTTATAC
1 CGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAGCGATTTTATAC
* * * *
32055715 TATTTTCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCAATTGTAGCAAAAGCG
66 TATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGACCAACTGTAGCAAAAGCG
* * * *
32055775 CGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTGCTTGAAGCGTTTTTTAT
1 CGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGCTAGAAGCG-ATTTTAT
* * * * *
32055839 ACTATTTGCTCAGAAACATGAACTCGAAATAATTT-TTTCAAGACCTACTATAGCAAAAGCG
64 ACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGACCAACTGTAGCAAAAGCG
* * *
32055900 CGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGTATCCTGGTAGAAGCGATTTTATAC
1 CGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAGCGATTTTATAC
* *
32055965 TATTTGCTCAGAAATATCAACTCGAAATTATTTCTTCCAGGACCAACTGTAGCAAAAAG-G
66 TATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGACCAACTGTAGC-AAAAGCG
* * * * * *
32056025 CGTCCAGGAGGGCTCGATTTCATAAATTCTTCGT-ATATAGCATCCTGCTTGAAGC-ATTTTTTA
1 CGTCCACGTGGGCGCGATTTCACAAATTCTTC-TCATAAAGCATCCTGCTAGAAGCGA--TTTTA
* *
32056088 TACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCC-AGTACCTACTGTAGCAAAAGCG
63 TACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAG-ACCAACTGTAGCAAAAGCG
* * * * * * *
32056150 CGTACACGTGGGCGCGACTGCAAAAATCCTTCTGATAAATCATCCTGCT
1 CGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
32056199 TTGATTTTAT
Statistics
Matches: 360, Mismatches: 53, Indels: 22
0.83 0.12 0.05
Matches are distributed among these distances:
124 48 0.13
125 228 0.63
126 84 0.23
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (125 bp):
CGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTAGAAGCGATTTTATAC
TATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAAGACCAACTGTAGCAAAAGCG
Found at i:32056091 original size:250 final size:250
Alignment explanation
Indices: 32055650--32056196 Score: 830
Period size: 250 Copynumber: 2.2 Consensus size: 250
32055640 TACTGTAGCA
*
32055650 CGTCCACGTGGGTGCAATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAGCGATTTTATAC
1 CGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAGCGATTTTATAC
* * *
32055715 TATTTTCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCAATTGTAGCAAAAGCGCGTCC
66 TATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGACCAACTGTAGCAAAAGCGCGTCC
*
32055780 ACGAGGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAAGCGTTTTTTATACTATT
131 ACGAGGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAAGCATTTTTTATACTATT
*
32055845 TGCTCAGAAACATGAACTCGAAATAATTTTTTCAAG-ACCTACTATAGCAAAAGCG
196 TGCTCAGAAACATCAACTCGAAATAA-TTTTTCAAGTACCTACTATAGCAAAAGCG
*
32055900 CGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGTATCCTGGTAGAAGCGATTTTATAC
1 CGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAGCGATTTTATAC
*
32055965 TATTTGCTCAGAAATATCAACTCGAAATTATTTCTTCCAGGACCAACTGTAGCAAAAAG-GCGTC
66 TATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGACCAACTGTAGC-AAAAGCGCGTC
* * * *
32056029 CAGGAGGGCTCGATTTCATAAATTCTTCGT-ATATAGCATCCTGCTTGAAGCATTTTTTATACTA
130 CACGAGGGCGCGATTTCAGAAATTCTTC-TCAAATAGCATCCTGCTTGAAGCATTTTTTATACTA
* * * *
32056093 TTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGTACCTACTGTAGCAAAAGCG
194 TTTGCTCAGAAACATCAACTCGAAATAATTTTTCAAGTACCTACTATAGCAAAAGCG
* * * * * * * *
32056150 CGTACACGTGGGCGCGACTGCAAAAATCCTTCTGATAAATCATCCTG
1 CGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
32056197 CTTTGATTTT
Statistics
Matches: 269, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
249 8 0.03
250 255 0.95
251 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (250 bp):
CGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTAGAAGCGATTTTATAC
TATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGACCAACTGTAGCAAAAGCGCGTCC
ACGAGGGCGCGATTTCAGAAATTCTTCTCAAATAGCATCCTGCTTGAAGCATTTTTTATACTATT
TGCTCAGAAACATCAACTCGAAATAATTTTTCAAGTACCTACTATAGCAAAAGCG
Found at i:32060184 original size:21 final size:19
Alignment explanation
Indices: 32060160--32060198 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
32060150 AATTAGTAGT
32060160 TTAATTGATGATTTCAATGGA
1 TTAATT-ATG-TTTCAATGGA
*
32060181 TTAATTATGTTTGAATGG
1 TTAATTATGTTTCAATGG
32060199 CTGATTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (19 bp):
TTAATTATGTTTCAATGGA
Found at i:32060295 original size:77 final size:77
Alignment explanation
Indices: 32060213--32060369 Score: 296
Period size: 77 Copynumber: 2.0 Consensus size: 77
32060203 TTTTTGCAAG
* *
32060213 ATTGATATTATATGTACAAGAGTTGAATTTTTATTGAATAATGGTAAGTAAGCATTTAGGTGGTT
1 ATTGATATTATATGTACAAGAGTTGAATTTTTATTGAATAATGGTAAGTAAGCATTTAGATGGCT
32060278 TTGTGTAATTTA
66 TTGTGTAATTTA
32060290 ATTGATATTATATGTACAAGAGTTGAATTTTTATTGAATAATGGTAAGTAAGCATTTAGATGGCT
1 ATTGATATTATATGTACAAGAGTTGAATTTTTATTGAATAATGGTAAGTAAGCATTTAGATGGCT
32060355 TTGTGTAATTTA
66 TTGTGTAATTTA
32060367 ATT
1 ATT
32060370 AGGCTAATTA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.44
Consensus pattern (77 bp):
ATTGATATTATATGTACAAGAGTTGAATTTTTATTGAATAATGGTAAGTAAGCATTTAGATGGCT
TTGTGTAATTTA
Found at i:32061682 original size:20 final size:20
Alignment explanation
Indices: 32061647--32061720 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
32061637 CAATGGTTTT
* *
32061647 CACACGGGTGTTTGCTTGTC
1 CACACGGGCGTGTGCTTGTC
*
32061667 CACACAGGCGTGTGCTTGTC
1 CACACGGGCGTGTGCTTGTC
* * *
32061687 TACACGGGCATGTGCTTCTC
1 CACACGGGCGTGTGCTTGTC
32061707 CACACGGGCGTGTG
1 CACACGGGCGTGTG
32061721 GGTAAGTGAC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.14, C:0.28, G:0.31, T:0.27
Consensus pattern (20 bp):
CACACGGGCGTGTGCTTGTC
Found at i:32065418 original size:15 final size:15
Alignment explanation
Indices: 32065398--32065439 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
32065388 TGGAAAAAAA
32065398 TTAAAATACTATTAT
1 TTAAAATACTATTAT
32065413 TTAAAA-A-TA--AT
1 TTAAAATACTATTAT
32065424 TTAAAATACTATTAT
1 TTAAAATACTATTAT
32065439 T
1 T
32065440 ATGGTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
11 8 0.35
12 1 0.04
13 4 0.17
14 1 0.04
15 9 0.39
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAATACTATTAT
Found at i:32065431 original size:26 final size:24
Alignment explanation
Indices: 32065391--32065439 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 24
32065381 TTAAAAATGG
32065391 AAAAAAATTAAAATACTATTATTT
1 AAAAAAATTAAAATACTATTATTT
32065415 AAAAATAATTTAAAATACTATTATT
1 AAAAA-AA-TTAAAATACTATTATT
32065440 ATGGTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.22
25 2 0.09
26 16 0.70
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
AAAAAAATTAAAATACTATTATTT
Found at i:32065458 original size:14 final size:14
Alignment explanation
Indices: 32065439--32065465 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
32065429 ATACTATTAT
32065439 TATGGTTTAAGGTA
1 TATGGTTTAAGGTA
32065453 TATGGTTTAAGGT
1 TATGGTTTAAGGT
32065466 TTAAGATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.30, T:0.44
Consensus pattern (14 bp):
TATGGTTTAAGGTA
Found at i:32065468 original size:7 final size:7
Alignment explanation
Indices: 32065442--32065590 Score: 52
Period size: 7 Copynumber: 20.9 Consensus size: 7
32065432 CTATTATTAT
32065442 GGTTTAA
1 GGTTTAA
* *
32065449 GGTATAT
1 GGTTTAA
32065456 GGTTTAA
1 GGTTTAA
32065463 GGTTTAA
1 GGTTTAA
*
32065470 GATTTAA
1 GGTTTAA
*
32065477 GATTTAA
1 GGTTTAA
*
32065484 GATTT-A
1 GGTTTAA
*
32065490 GGAGTTACTA
1 GG-TTTA--A
*
32065500 -TTTTAA
1 GGTTTAA
*
32065506 GGTTTAG
1 GGTTTAA
* *
32065513 GGATTATG
1 GGTTTA-A
*
32065521 GGTTTAT
1 GGTTTAA
*
32065528 GGTTTAT
1 GGTTTAA
32065535 GGTTTAA
1 GGTTTAA
*
32065542 TGG-TTAG
1 -GGTTTAA
32065549 GGTTTAA
1 GGTTTAA
* *
32065556 GATTTAG
1 GGTTTAA
* *
32065563 GGGTTAGG
1 GGTTTA-A
*
32065571 GGTTTAT
1 GGTTTAA
*
32065578 GGTTTAT
1 GGTTTAA
32065585 GGTTTA
1 GGTTTA
32065591 TCATTTAGGG
Statistics
Matches: 110, Mismatches: 23, Indels: 18
0.73 0.15 0.12
Matches are distributed among these distances:
6 5 0.05
7 87 0.79
8 17 0.15
10 1 0.01
ACGTcount: A:0.25, C:0.01, G:0.30, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:32065576 original size:50 final size:49
Alignment explanation
Indices: 32065501--32065633 Score: 160
Period size: 50 Copynumber: 2.7 Consensus size: 49
32065491 GAGTTACTAT
* *
32065501 TTTAAGGTTTAGGGATTATGGGTTTATGGTTTATGGTTTA-ATGGTTAGGG
1 TTTAAGGTTTAGGGGTTAGGGGTTTATGGTTTATGGTTTACAT--TTAGGG
*
32065551 TTTAAGATTTAGGGGTTAGGGGTTTATGGTTTATGGTTTATCATTTAGGG
1 TTTAAGGTTTAGGGGTTAGGGGTTTATGGTTTATGGTTTA-CATTTAGGG
* ** * *
32065601 TTCAAGGGATAAGGGTTAGGGGTTTAGGGTTTA
1 TTTAAGGTTTAGGGGTTAGGGGTTTATGGTTTA
32065634 GATTAATTAG
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
50 70 0.97
52 2 0.03
ACGTcount: A:0.21, C:0.02, G:0.35, T:0.43
Consensus pattern (49 bp):
TTTAAGGTTTAGGGGTTAGGGGTTTATGGTTTATGGTTTACATTTAGGG
Found at i:32065591 original size:7 final size:7
Alignment explanation
Indices: 32065501--32065591 Score: 67
Period size: 7 Copynumber: 12.7 Consensus size: 7
32065491 GAGTTACTAT
*
32065501 TTTAAGG
1 TTTATGG
*
32065508 TTTAGGG
1 TTTATGG
*
32065515 ATTATGGG
1 TTTAT-GG
32065523 TTTATGG
1 TTTATGG
32065530 TTTATGG
1 TTTATGG
32065537 TTTAATGG
1 TTT-ATGG
*
32065545 -TTAGGG
1 TTTATGG
* *
32065551 TTTAAGA
1 TTTATGG
*
32065558 TTTAGGG
1 TTTATGG
* *
32065565 GTTAGGGG
1 TTTA-TGG
32065573 TTTATGG
1 TTTATGG
32065580 TTTATGG
1 TTTATGG
32065587 TTTAT
1 TTTAT
32065592 CATTTAGGGT
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
6 3 0.04
7 49 0.72
8 16 0.24
ACGTcount: A:0.20, C:0.00, G:0.33, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:32065907 original size:7 final size:6
Alignment explanation
Indices: 32065884--32066027 Score: 54
Period size: 7 Copynumber: 21.0 Consensus size: 6
32065874 ATATATTTGG
* *
32065884 GGTTTA GGGTGTA GGTTTA TGGTTTGA GGTTTAA GGTTTA GGATTTA TGATTTA
1 GGTTTA -GGTTTA GGTTTA -GGTTT-A GGTTT-A GGTTTA GG-TTTA -GGTTTA
* * * *
32065938 GTGTTAA GAATTTA GTGTTTA CGGTTTA AGTTGTA GGTTTA TAGTTTA
1 G-GTTTA G-GTTTA G-GTTTA -GGTTTA GGTT-TA GGTTTA -GGTTTA
* *
32065986 GTGTTTA TGATTTA GGGTTTA GGGTTTGA TGTTTA TGGTTTA
1 G-GTTTA -GGTTTA -GGTTTA -GGTTT-A GGTTTA -GGTTTA
32066028 AAGGTTAAGG
Statistics
Matches: 105, Mismatches: 20, Indels: 24
0.70 0.13 0.16
Matches are distributed among these distances:
6 15 0.14
7 85 0.81
8 5 0.05
ACGTcount: A:0.21, C:0.01, G:0.30, T:0.49
Consensus pattern (6 bp):
GGTTTA
Found at i:32065909 original size:27 final size:28
Alignment explanation
Indices: 32065879--32065932 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
32065869 GTAATATATA
* *
32065879 TTTGGGGTTTAGGGTGTAGG-TTTATGG
1 TTTGAGGTTTAAGGTGTAGGATTTATGG
*
32065906 TTTGAGGTTTAAGGTTTAGGATTTATG
1 TTTGAGGTTTAAGGTGTAGGATTTATG
32065933 ATTTAGTGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (28 bp):
TTTGAGGTTTAAGGTGTAGGATTTATGG
Found at i:32065915 original size:14 final size:13
Alignment explanation
Indices: 32065884--32066112 Score: 67
Period size: 14 Copynumber: 16.9 Consensus size: 13
32065874 ATATATTTGG
* *
32065884 GGTTTAGGGTGTA
1 GGTTTATGGTTTA
32065897 GGTTTATGGTTTGA
1 GGTTTATGGTTT-A
*
32065911 GGTTTAAGGTTTA
1 GGTTTATGGTTTA
*
32065924 GGATTTATGATTTA
1 GG-TTTATGGTTTA
* *
32065938 -GTGTTAAGAATTTA
1 GGT-TTATG-GTTTA
*
32065952 GTGTTTACGGTTTA
1 G-GTTTATGGTTTA
*
32065966 AG--T-T-G--TA
1 GGTTTATGGTTTA
*
32065973 GGTTTATAGTTTA
1 GGTTTATGGTTTA
*
32065986 GTGTTTATGATTTA
1 G-GTTTATGGTTTA
*
32066000 GGGTTTAGGGTTTGA
1 -GGTTTATGGTTT-A
*
32066015 TGTTTATGGTTTAAA
1 GGTTTATGGTTT--A
* * *
32066030 GGTTAAGGGGTTA
1 GGTTTATGGTTTA
32066043 GGGTTTATGGTTTAA
1 -GGTTTATGGTTT-A
* **
32066058 AGTTTAAAGTTTA
1 GGTTTATGGTTTA
*
32066071 GGGTTTATGGGCTTAA
1 -GGTTTAT-GG-TTTA
* *
32066087 GGATTATGATTTAA
1 GGTTTATGGTTT-A
*
32066101 GGTTTAAGGTTT
1 GGTTTATGGTTT
32066113 GATTTTAAAC
Statistics
Matches: 156, Mismatches: 38, Indels: 43
0.66 0.16 0.18
Matches are distributed among these distances:
7 3 0.02
9 2 0.01
10 1 0.01
11 2 0.01
12 1 0.01
13 26 0.17
14 93 0.60
15 23 0.15
16 5 0.03
ACGTcount: A:0.23, C:0.01, G:0.30, T:0.46
Consensus pattern (13 bp):
GGTTTATGGTTTA
Found at i:32065937 original size:21 final size:19
Alignment explanation
Indices: 32065896--32066027 Score: 61
Period size: 21 Copynumber: 6.4 Consensus size: 19
32065886 TTTAGGGTGT
*
32065896 AGGTTTATGGTTTGAGGTTTA
1 AGGTTTA-GGTTT-ATGTTTA
32065917 AGGTTTAGGATTTATGATTT-
1 AGGTTTAGG-TTTATG-TTTA
* *
32065937 AGTGTTAAGAATTTAGTGTTTA
1 AG-GTTTAG-GTTTA-TGTTTA
* * *
32065959 CGGTTTAAGTTGTAGGTTTA
1 AGGTTTAGGTT-TATGTTTA
32065979 TA-GTTTAGTGTTTATGATTTA
1 -AGGTTTAG-GTTTATG-TTTA
*
32066000 GGGTTTAGGGTTTGATGTTTA
1 AGGTTTA-GGTTT-ATGTTTA
*
32066021 TGGTTTA
1 AGGTTTA
32066028 AAGGTTAAGG
Statistics
Matches: 85, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
20 21 0.25
21 57 0.67
22 7 0.08
ACGTcount: A:0.22, C:0.01, G:0.28, T:0.49
Consensus pattern (19 bp):
AGGTTTAGGTTTATGTTTA
Found at i:32066048 original size:29 final size:28
Alignment explanation
Indices: 32066016--32066080 Score: 94
Period size: 29 Copynumber: 2.3 Consensus size: 28
32066006 AGGGTTTGAT
*
32066016 GTTTATGGTTTAAAGGTTAAGGGGTTAGG
1 GTTTATGGTTTAAAGGTTAA-AGGTTAGG
* *
32066045 GTTTATGGTTTAAAGTTTAAAGTTTAGG
1 GTTTATGGTTTAAAGGTTAAAGGTTAGG
32066073 GTTTATGG
1 GTTTATGG
32066081 GCTTAAGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 14 0.42
29 19 0.58
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (28 bp):
GTTTATGGTTTAAAGGTTAAAGGTTAGG
Found at i:32066054 original size:7 final size:7
Alignment explanation
Indices: 32065973--32066112 Score: 50
Period size: 7 Copynumber: 19.7 Consensus size: 7
32065963 TTAAGTTGTA
32065973 GGTTTAT
1 GGTTTAT
*
32065980 AGTTTA-
1 GGTTTAT
32065986 GTGTTTAT
1 G-GTTTAT
* *
32065994 GATTTAG
1 GGTTTAT
*
32066001 GGTTTAG
1 GGTTTAT
32066008 GGTTTGAT
1 GGTTT-AT
32066016 -GTTTAT
1 GGTTTAT
*
32066022 GGTTTAAA
1 GGTTT-AT
* *
32066030 GGTTAAG
1 GGTTTAT
* *
32066037 GGGTTAG
1 GGTTTAT
32066044 GGTTTAT
1 GGTTTAT
*
32066051 GGTTTAA
1 GGTTTAT
* *
32066058 AGTTTAA
1 GGTTTAT
* *
32066065 AGTTTAG
1 GGTTTAT
32066072 GGTTTAT
1 GGTTTAT
* *
32066079 GGGCTTAA
1 -GGTTTAT
*
32066087 GGATTAT
1 GGTTTAT
* *
32066094 GATTTAA
1 GGTTTAT
*
32066101 GGTTTAA
1 GGTTTAT
32066108 GGTTT
1 GGTTT
32066113 GATTTTAAAC
Statistics
Matches: 101, Mismatches: 26, Indels: 12
0.73 0.19 0.09
Matches are distributed among these distances:
6 2 0.02
7 87 0.86
8 12 0.12
ACGTcount: A:0.24, C:0.01, G:0.30, T:0.46
Consensus pattern (7 bp):
GGTTTAT
Found at i:32066056 original size:36 final size:36
Alignment explanation
Indices: 32065999--32066109 Score: 102
Period size: 36 Copynumber: 3.1 Consensus size: 36
32065989 TTTATGATTT
32065999 AGGGTTTAGGGTTTGAT-GTTTATGGTTTAAAGGTTA
1 AGGGTTTAGGGTTT-ATGGTTTATGGTTTAAAGGTTA
* ** *
32066035 AGGGGTTAGGGTTTATGGTTTAAAGTTTAAA-GTTT
1 AGGGTTTAGGGTTTATGGTTTATGGTTTAAAGGTTA
* * * *
32066070 AGGGTTTATGGGCTTAAGGATTATGATTT-AAGGTTTA
1 AGGGTTTA-GGGTTTATGGTTTATGGTTTAAAGG-TTA
32066107 AGG
1 AGG
32066110 TTTGATTTTA
Statistics
Matches: 59, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
35 14 0.24
36 40 0.68
37 5 0.08
ACGTcount: A:0.25, C:0.01, G:0.32, T:0.41
Consensus pattern (36 bp):
AGGGTTTAGGGTTTATGGTTTATGGTTTAAAGGTTA
Found at i:32066596 original size:19 final size:20
Alignment explanation
Indices: 32066569--32066635 Score: 52
Period size: 19 Copynumber: 3.5 Consensus size: 20
32066559 TTCTTACATA
32066569 AAAAATTATATAA-AATTTT
1 AAAAATTATATAATAATTTT
* * *
32066588 AAAATTTATCTAATTATTTT
1 AAAAATTATATAATAATTTT
*
32066608 AAATATTACT-T-A-AATTTT
1 AAAAATTA-TATAATAATTTT
32066626 CAAAAATTAT
1 -AAAAATTAT
32066636 TTATTTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
18 6 0.16
19 19 0.50
20 12 0.32
21 1 0.03
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
AAAAATTATATAATAATTTT
Found at i:32067311 original size:22 final size:22
Alignment explanation
Indices: 32067286--32067377 Score: 105
Period size: 22 Copynumber: 4.2 Consensus size: 22
32067276 AAATTCAATA
* *
32067286 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
32067308 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
*
32067330 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCCTTCAAAAATTCTC
* *
32067351 TTCAATTTCCTTCCAAAATTCTC
1 -TCAATTCCCTTCAAAAATTCTC
32067374 TCAA
1 TCAA
32067378 ACTCTCAAAT
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
21 1 0.02
22 60 0.97
23 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:32067343 original size:44 final size:44
Alignment explanation
Indices: 32067286--32067377 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
32067276 AAATTCAATA
* * *
32067286 TCAATTTCTTTCAAAAATT-CTCTCAA-TTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCCT-TCAATTTCCTTCCAAAA-TTCTC
*
32067330 TCAATTCCCTTCAAAATTTCCTTCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCCTTCAATTTCCTTCCAAAATTCTC
32067374 TCAA
1 TCAA
32067378 ACTCTCAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
44 29 0.69
45 13 0.31
ACGTcount: A:0.29, C:0.28, G:0.00, T:0.42
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTCCTTCAATTTCCTTCCAAAATTCTC
Found at i:32067408 original size:52 final size:50
Alignment explanation
Indices: 32067327--32067429 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 50
32067317 TTCAAAATTT
* *
32067327 CTCTCAATTCCCTTCAAAATTTCCTTCAATTTCCTTCCAAAATTCTCTCAAA
1 CTCTCAATTCCCTTCAAAA-TTCCTTCAATTTCCTTCAAAAAATCTC-CAAA
32067379 CTCTCAAATT-CCTTCCAAAA-TCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTC-AATTCCCTT-CAAAATTCCT-TCAATTTCCTTCAAAAAATCTCCAAA
32067430 TACATATTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
51 8 0.17
52 29 0.63
53 9 0.20
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (50 bp):
CTCTCAATTCCCTTCAAAATTCCTTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:32067418 original size:21 final size:22
Alignment explanation
Indices: 32067379--32067420 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
32067369 TTCTCTCAAA
32067379 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
32067401 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
32067421 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:32067507 original size:29 final size:30
Alignment explanation
Indices: 32067458--32067526 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
32067448 TTCCATTAAA
32067458 TTTAATTTTTTTAAGAAAATTTTAAAATTT
1 TTTAATTTTTTTAAGAAAATTTTAAAATTT
* *
32067488 TTTATTTTTTTTAA-ATAATTTTAAAA-TT
1 TTTAATTTTTTTAAGAAAATTTTAAAATTT
*
32067516 TTTAATATTTT
1 TTTAATTTTTT
32067527 CAACAATGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 11 0.31
29 11 0.31
30 13 0.37
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (30 bp):
TTTAATTTTTTTAAGAAAATTTTAAAATTT
Found at i:32067671 original size:24 final size:23
Alignment explanation
Indices: 32067616--32067671 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
32067606 TAAATTTTAA
*
32067616 ATTTTTTTAAGATATTTTTATTT
1 ATTTTTTTAAGATATTTTTATAT
32067639 ATGTATTTTT-AGATATTTATTAATAT
1 AT-T-TTTTTAAGATATTT-TT-ATAT
32067665 ATTTTTT
1 ATTTTTT
32067672 GTTATAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.07
24 13 0.46
25 8 0.29
26 5 0.18
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (23 bp):
ATTTTTTTAAGATATTTTTATAT
Found at i:32069794 original size:17 final size:18
Alignment explanation
Indices: 32069772--32069806 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32069762 TAAAATCCCT
32069772 AACCCT-ACTTAATTAAA
1 AACCCTAACTTAATTAAA
*
32069789 AACCCTAATTTAATTAAA
1 AACCCTAACTTAATTAAA
32069807 TTAAAAACCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (18 bp):
AACCCTAACTTAATTAAA
Found at i:32069823 original size:28 final size:26
Alignment explanation
Indices: 32069782--32070647 Score: 724
Period size: 28 Copynumber: 33.6 Consensus size: 26
32069772 AACCCTACTT
*
32069782 AATTAAAAACCCTAA--T-TTAATTA
1 AATTAAAAACCCTAACCTAATAATTA
32069805 AATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCTAACCTAA--TAATTA
32069833 AATTAAAAACCCTAACCTAACCTAATTA
1 AATTAAAAACCCTAACCTAA--TAATTA
* *
32069861 AATTAAAAACCCTAACATTATTTTAATTA
1 AATTAAAAACCCTAAC-CTA--ATAATTA
*
32069890 AATTAAAAACCCTAACCTAACCTACTTA
1 AATTAAAAACCCTAACCTAA--TAATTA
*
32069918 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA--TAATTA
32069946 AATTAAAAACCCTAACCTAAT--TT-
1 AATTAAAAACCCTAACCTAATAATTA
*
32069969 AATTAAAAACCCTAACCTAACCTACTTA
1 AATTAAAAACCCTAACCTAA--TAATTA
32069997 AATTAAAAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCTAA--TAATTA
32070025 AATTAAAAACCCTAACCTAAT--TT-
1 AATTAAAAACCCTAACCTAATAATTA
32070048 AATTAAAAACCCTAACC---TAATTA
1 AATTAAAAACCCTAACCTAATAATTA
32070071 AATTAAAAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCTAA--TAATTA
32070099 AATTAAAAACCCTAACCTAAT--TT-
1 AATTAAAAACCCTAACCTAATAATTA
32070122 AATTAAAAACCCTAACC------TTA
1 AATTAAAAACCCTAACCTAATAATTA
*
32070142 AATTAAAAACCCTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
*
32070165 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TA-ATAATTA
32070193 AATTAAAAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCTAA--TAATTA
*
32070221 AATTAAAAACCCTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
* *
32070244 AATTAAAAATCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TA-ATAATTA
*
32070272 AATTAAAAACCCTAACCCTACCCTAACCTAATTT
1 AATTAAAAACCCT-A----A-CCTAA--TAATTA
*
32070306 AATTAAAAACCCTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
*
32070329 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TA-ATAATTA
*
32070357 AATTAAAAACCCTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
* *
32070380 AATTGAAAACCCTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
*
32070403 AATTAAAAACCCTAACCTTATTTAATTA
1 AATTAAAAACCCTAACC-TA-ATAATTA
*
32070431 AATTAAAAACCCTAACCCTACCCTAACCTAATTT
1 AATTAAAAACCCT-A----A-CCTAA--TAATTA
* *
32070465 AATTAAAAACCTTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
32070488 AATTAAAAACCCTAACCTAAT--TT-
1 AATTAAAAACCCTAACCTAATAATTA
32070511 AATTAAAAACCCTAACC------TTA
1 AATTAAAAACCCTAACCTAATAATTA
*
32070531 AATTAAAAACCCTAACCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA--TAATTA
*
32070559 AATTAAAAACCCTAACC---TACTTA
1 AATTAAAAACCCTAACCTAATAATTA
32070582 AATTAAAAACCCTAACCTAATTTAATTA
1 AATTAAAAACCCTAACCTAA--TAATTA
32070610 AATTAAAAACCCTAACCTAAT--TT-
1 AATTAAAAACCCTAACCTAATAATTA
32070633 AATTAAAAACCCTAA
1 AATTAAAAACCCTAA
32070648 TTAAATTGTA
Statistics
Matches: 725, Mismatches: 36, Indels: 164
0.78 0.04 0.18
Matches are distributed among these distances:
19 4 0.01
20 35 0.05
22 2 0.00
23 264 0.36
24 10 0.01
25 2 0.00
26 5 0.01
27 4 0.01
28 324 0.45
29 28 0.04
33 8 0.01
34 39 0.05
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (26 bp):
AATTAAAAACCCTAACCTAATAATTA
Found at i:32069845 original size:51 final size:51
Alignment explanation
Indices: 32069769--32070647 Score: 851
Period size: 51 Copynumber: 17.0 Consensus size: 51
32069759 GATTAAAATC
* **
32069769 CCTAACCCTACTT-AATTAAAAACCCTAATTTAATTAAATTAAAAACCCTAA
1 CCTAA-CCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
32069820 CCTAACCTAATTAAATTAAAAACCCTAACCTAACCTAATTAAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAA--C---CCTAACCTAATTAAATTAAAAACCCTAA
* ***
32069876 CATTATTTTAATTAAATTAAAAACCCTAACCTAACCTACTTAAATTAAAAACCCTAA
1 C-CTAACCTAATTAAATTAAAAACCCTAACCT-A---A-TTAAATTAAAAACCCTAA
* *
32069933 CCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* * *
32069984 CCTAACCTACTTAAATTAAAAACCCTAACCTAATTTAATTAAATTAA---AAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAA--AACCCTAA
*
32070034 CCCTAACCTAATTTAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
1 -CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
** *
32070086 CCTAATTTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
*
32070132 CCTAACC---TTAAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* ** * *
32070180 CCTTATTTAATTAAATTAAAAACCCTAACCTAATTTAATTAAATTAA---AAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAA--AACCCTAA
* *
32070230 CCCTAACCTACTTAAATTAAAAATCCTAACCTTATTTAATTAAATTAAAAACCCTAACCCTA
1 -CCTAACCTAATTAAATTAAAAACCCTAACC-----TAATTAAATTAAAAACCCT-A----A
* *
32070292 CCCTAACCTAATTTAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAA
1 -CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* ** * *
32070344 CCTTATTTAATTAAATTAAAAACCCTAACCTACTTAAATTGAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
32070395 CCT-A-C---TTAAATTAAAAACCCTAACCTTATTTAATTAAATTAAAAACCCTAACCCTA
1 CCTAACCTAATTAAATTAAAAACCCTAACC-----TAATTAAATTAAAAACCCT-A----A
* * *
32070451 CCCTAACCTAATTTAATTAAAAACCTTAACCTACTTAAATTAAAAACCCTAA
1 -CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
32070503 CCTAA--T--TT-AATTAAAAACCCTAACC---TTAAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
* *
32070546 CCTAACCTAATTTAATTAAAAACCCTAACCTACTTAAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
** *
32070597 CCTAATTTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
32070648 TTAAATTGTA
Statistics
Matches: 700, Mismatches: 62, Indels: 132
0.78 0.07 0.15
Matches are distributed among these distances:
43 56 0.08
45 2 0.00
46 41 0.06
47 4 0.01
48 21 0.03
49 4 0.01
50 11 0.02
51 344 0.49
52 14 0.02
53 6 0.01
54 2 0.00
55 2 0.00
56 68 0.10
57 75 0.11
58 2 0.00
59 1 0.00
62 47 0.07
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.29
Consensus pattern (51 bp):
CCTAACCTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAA
Found at i:32069982 original size:18 final size:20
Alignment explanation
Indices: 32069937--32070100 Score: 67
Period size: 23 Copynumber: 6.8 Consensus size: 20
32069927 CCCTAACCTA
32069937 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
32069958 TAACCTAATTTAATTAAAAACCC
1 --ACCTAATTTAATTAAAAA-CC
32069981 TAACCTAACCTACTTAAATTAAAAACCC
1 --ACCTAA--T--TT-AATTAAAAA-CC
32070009 TAACCTAATTTAATTAAATTAAAAACCC
1 --ACCTAA--T--TT-AATTAAAAA-CC
32070037 TAACCTAATTTAATTAAAAACCC
1 --ACCTAATTTAATTAAAAA-CC
*
32070060 TAACCTAATTAAATTAAAAACCC
1 --ACCTAATTTAATTAAAAA-CC
32070083 TAACCTAATTTAATTAAA
1 --ACCTAATTTAATTAAA
32070101 TTAAAAACCC
Statistics
Matches: 131, Mismatches: 5, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
23 80 0.61
24 2 0.02
25 1 0.01
26 1 0.01
27 2 0.02
28 45 0.34
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:32070448 original size:34 final size:34
Alignment explanation
Indices: 32070410--32070481 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
32070400 TTAAATTAAA
* **
32070410 AACCCTAACCTTATTTAATTAAATTAAAAACCCT
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
* * *
32070444 AACCCTACCCTAACCTAATTTAATTAAAAACCTT
1 AACCCTAACCTAACCTAATTAAATTAAAAACCCT
32070478 AACC
1 AACC
32070482 TACTTAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.43, C:0.28, G:0.00, T:0.29
Consensus pattern (34 bp):
AACCCTAACCTAACCTAATTAAATTAAAAACCCT
Found at i:32070654 original size:23 final size:23
Alignment explanation
Indices: 32070450--32070647 Score: 222
Period size: 23 Copynumber: 8.3 Consensus size: 23
32070440 CCCTAACCCT
*
32070450 ACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTAATTAAATTAAAA
* *
32070473 ACCTTAACCTACTTAAATTAAAA
1 ACCCTAACCTAATTAAATTAAAA
*
32070496 ACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTAATTAAATTAAAA
32070519 ACCCTAACC---TTAAATTAAAA
1 ACCCTAACCTAATTAAATTAAAA
*
32070539 ACCCTAACCTAACCTAATTTAATTAAAA
1 A--C---CCTAACCTAATTAAATTAAAA
*
32070567 ACCCTAACCTACTTAAATTAAAA
1 ACCCTAACCTAATTAAATTAAAA
32070590 ACCCTAACCTAATTTAATTAAATTAAAA
1 ACCCTAACC-----TAATTAAATTAAAA
*
32070618 ACCCTAACCTAATTTAATTAAAA
1 ACCCTAACCTAATTAAATTAAAA
32070641 ACCCTAA
1 ACCCTAA
32070648 TTAAATTGTA
Statistics
Matches: 150, Mismatches: 12, Indels: 26
0.80 0.06 0.14
Matches are distributed among these distances:
20 11 0.07
22 1 0.01
23 97 0.65
25 7 0.05
26 1 0.01
28 33 0.22
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (23 bp):
ACCCTAACCTAATTAAATTAAAA
Found at i:32073820 original size:84 final size:86
Alignment explanation
Indices: 32073619--32073823 Score: 369
Period size: 86 Copynumber: 2.4 Consensus size: 86
32073609 CAAACTTGCT
32073619 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTAAAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTAAAAAAAA
32073684 AATTTATTTCCTACATGACCA
66 AATTTATTTCCTACATGACCA
* *
32073705 ACTGTAGCGAAATCGCGTCCACGAGGACGCGATTTGACACTATTTGCTCAGAAACGT-TAAAAAA
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTAAAAAAAA
32073769 AA-TTATTTCCTACATGACCA
66 AATTTATTTCCTACATGACCA
*
32073789 ACTGTAACGAAATCGCGTCCACGAGGGCGCGATTT
1 ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTT
32073824 CACAATTTCT
Statistics
Matches: 115, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
84 51 0.44
85 8 0.07
86 56 0.49
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (86 bp):
ACTGTAGCGAAATCGCGTCCACGAGGGCGCGATTTGACACTATTTGCTCAGAAACGTAAAAAAAA
AATTTATTTCCTACATGACCA
Found at i:32073953 original size:123 final size:124
Alignment explanation
Indices: 32073733--32073986 Score: 343
Period size: 123 Copynumber: 2.1 Consensus size: 124
32073723 CCACGAGGAC
* *
32073733 GCGATTTGACACTATTTGCTCAGAAACGTTAAAAAAAATTATTTCCTACATGACCAACTGTAACG
1 GCGATTTGACACTACTTCCTCAGAAACGTTAAAAAAAATTATTTCCTACATGACCAACTGTAACG
* * * * **
32073798 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTTGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAAAA
* * * *
32073857 GCGATTTTATACTACTTCCTCAGAAAACG-TCAAAAAAATTATTT-CTCACATGACC-ACTGTAG
1 GCGATTTGACACTACTTCCTCAG-AAACGTTAAAAAAAATTATTTCCT-ACATGACCAACTGTAA
* *
32073919 CGAAATCGCGTCCACGAGGCCACTATTTCACAATTTCTTCTTAAATAGCATCCTAGTAAAA
64 CGAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAAAA
32073980 GCGATTT
1 GCGATTT
32073987 CCCACTATTT
Statistics
Matches: 114, Mismatches: 14, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
123 68 0.60
124 41 0.36
125 5 0.04
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (124 bp):
GCGATTTGACACTACTTCCTCAGAAACGTTAAAAAAAATTATTTCCTACATGACCAACTGTAACG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTAGTAAAA
Found at i:32074059 original size:23 final size:23
Alignment explanation
Indices: 32074028--32074071 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
32074018 AAAAAAATTT
*
32074028 CCTGGACCCT-AACTCCTAAAAAG
1 CCTGCACCCTAAAC-CCTAAAAAG
32074051 CCTGCACCCTAAACCCTAAAA
1 CCTGCACCCTAAACCCTAAAA
32074072 GCCATAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.36, C:0.39, G:0.09, T:0.16
Consensus pattern (23 bp):
CCTGCACCCTAAACCCTAAAAAG
Found at i:32077574 original size:43 final size:43
Alignment explanation
Indices: 32077527--32077668 Score: 169
Period size: 43 Copynumber: 3.3 Consensus size: 43
32077517 GAATTGTATT
** *
32077527 TTTAGCGGCGTTTGTGATAAAAGTGTTGTTAAAGGTTATGATC
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGTTAAAGGTTATGTTC
* * * *
32077570 TTTAGTGGCGTTTGTGATAAAAGTGCCGTTAAAAGTCATGTTT
1 TTTAGCGGCGTTTGTGATAAAAGTGCCGTTAAAGGTTATGTTC
* *
32077613 TTTAGCGGCGTTTGTGGGT-AAAGTGCCGCTAAAGGTTATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGTGCCGTTAAAGGTTATGTTC
* *
32077656 TATAGCGACGTTT
1 TTTAGCGGCGTTT
32077669 TTTCACATAA
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 81 0.98
44 2 0.02
ACGTcount: A:0.23, C:0.11, G:0.28, T:0.38
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGTGCCGTTAAAGGTTATGTTC
Found at i:32078612 original size:22 final size:24
Alignment explanation
Indices: 32078587--32078631 Score: 67
Period size: 22 Copynumber: 1.9 Consensus size: 24
32078577 TATGCAAATG
32078587 TAAATTAC-AATTTG-TAAATATA
1 TAAATTACAAATTTGTTAAATATA
32078609 TAAATTACATAATTTGTTAAATA
1 TAAATTACA-AATTTGTTAAATA
32078632 ATTATGGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
24 6 0.30
25 6 0.30
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
TAAATTACAAATTTGTTAAATATA
Found at i:32079580 original size:31 final size:31
Alignment explanation
Indices: 32079545--32079604 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
32079535 CAGCAACCCA
32079545 GTGACTTAAATAAAAACTTCTAAATAGTTTG
1 GTGACTTAAATAAAAACTTCTAAATAGTTTG
* * *
32079576 GTGACTTAAATGAAAACTTTTGAATAGTT
1 GTGACTTAAATAAAAACTTCTAAATAGTT
32079605 CAATGACCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.15, T:0.37
Consensus pattern (31 bp):
GTGACTTAAATAAAAACTTCTAAATAGTTTG
Found at i:32081125 original size:33 final size:33
Alignment explanation
Indices: 32081081--32081146 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
32081071 AAGGTATGTG
32081081 ATATATATGTGTGCGTGAATGATATACTGATAA
1 ATATATATGTGTGCGTGAATGATATACTGATAA
*
32081114 ATATATGTGTGTGCGTGAATGATATACTGATAA
1 ATATATATGTGTGCGTGAATGATATACTGATAA
32081147 TTCTGATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (33 bp):
ATATATATGTGTGCGTGAATGATATACTGATAA
Found at i:32085648 original size:126 final size:125
Alignment explanation
Indices: 32085490--32085776 Score: 441
Period size: 124 Copynumber: 2.3 Consensus size: 125
32085480 TTTAAAAAAA
* * *
32085490 CTCCCACGTGGACGTTCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGAAAACGTTTCTG
1 CTCCCACGTGGACGTGCTTTTGCTACAGTAGCTCCTG-AAAAATAATTTCGAGAAAACGTTTCTA
* *
32085555 AGCAAATCGTGTCAAAAACGCTTTAAGCAGGACGCTTTGTCAGCAAAAGTACTGAAAGAAG
65 AGCAAATAGTGTCAAAAACGCTTTAAGCAGGACGCTTTGACAGCAAAAGTACTGAAAGAAG
* * *
32085616 CTCCCACGTGGACGTGCTTTTGCTACAATAGCTCCT-AAAAATAATTTCGAGTAGACGTTTCTAA
1 CTCCCACGTGGACGTGCTTTTGCTACAGTAGCTCCTGAAAAATAATTTCGAGAAAACGTTTCTAA
* *
32085680 GCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGACAGCAAAAGTATTGAAAGAAG
66 GCAAATAGTGTCAAAAACGCTTTAAGCAGGACGCTTTGACAGCAAAAGTACTGAAAGAAG
* * *
32085740 CTCTCACGTGGACGCGTTTTTGCTACAGTAGCTCCTG
1 CTCCCACGTGGACGTGCTTTTGCTACAGTAGCTCCTG
32085777 TTTGGCCTGA
Statistics
Matches: 146, Mismatches: 14, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
124 112 0.77
126 34 0.23
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (125 bp):
CTCCCACGTGGACGTGCTTTTGCTACAGTAGCTCCTGAAAAATAATTTCGAGAAAACGTTTCTAA
GCAAATAGTGTCAAAAACGCTTTAAGCAGGACGCTTTGACAGCAAAAGTACTGAAAGAAG
Found at i:32088840 original size:116 final size:116
Alignment explanation
Indices: 32088636--32088846 Score: 316
Period size: 116 Copynumber: 1.8 Consensus size: 116
32088626 GCATTATTTG
* *
32088636 TATTTTATTAAATCAAATAATATGGAAATATTCAGAATATTGACTTATTTAAAAGAAAATTTATT
1 TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATTTATT
* *
32088701 TTATTAAAAATATTAAAGTAAATTACAATTGCTTTATTCAAAACAGCGTTT
66 ATATTAAAAATATAAAAGTAAATTACAATTGCTTTATTCAAAACAGCGTTT
* ** *
32088752 TATTTTATTAAATGAAATAATATAGAAATATTCAAAATATTGTGTTATTTAAAAG-AATTTCTAT
1 TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATT-TAT
* *
32088816 TATATTAAAAATGTAAAAGTAAATTTCAATT
65 TATATTAAAAATATAAAAGTAAATTACAATT
32088847 TTATAACATG
Statistics
Matches: 84, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
115 4 0.05
116 80 0.95
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.41
Consensus pattern (116 bp):
TATTTTATTAAATCAAATAATATAGAAATATTCAAAATATTGACTTATTTAAAAGAAAATTTATT
ATATTAAAAATATAAAAGTAAATTACAATTGCTTTATTCAAAACAGCGTTT
Found at i:32089059 original size:21 final size:21
Alignment explanation
Indices: 32089021--32089060 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
32089011 TTGTCCAGCT
* * *
32089021 TCCGGCGGGGGTTGTGGTTGC
1 TCCGGCGCGGATTCTGGTTGC
32089042 TCCGGCGCGGATTCTGGTT
1 TCCGGCGCGGATTCTGGTT
32089061 CCTTCGGTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.03, C:0.23, G:0.45, T:0.30
Consensus pattern (21 bp):
TCCGGCGCGGATTCTGGTTGC
Found at i:32089349 original size:18 final size:18
Alignment explanation
Indices: 32089323--32089365 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
32089313 GACTAGAAAA
* * *
32089323 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
32089341 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
32089359 AGGATAC
1 AGGATAC
32089366 GCACCTAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:32091178 original size:11 final size:11
Alignment explanation
Indices: 32091164--32091233 Score: 72
Period size: 11 Copynumber: 6.4 Consensus size: 11
32091154 AGCTTTTTTA
32091164 AGAGGAATTTG
1 AGAGGAATTTG
*
32091175 AGAGGAAATTG
1 AGAGGAATTTG
* *
32091186 AAAAGAATTTG
1 AGAGGAATTTG
32091197 AGAGGAATTTG
1 AGAGGAATTTG
32091208 AGA-GAATATT-
1 AGAGGAAT-TTG
*
32091218 AGAGAGAAATTG
1 AGAG-GAATTTG
32091230 AGAG
1 AGAG
32091234 AAAGGATTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
10 7 0.15
11 34 0.71
12 7 0.15
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (11 bp):
AGAGGAATTTG
Found at i:32091231 original size:33 final size:33
Alignment explanation
Indices: 32091164--32091233 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 33
32091154 AGCTTTTTTA
*
32091164 AGAGGAATTTGAGAGGAAATTGAAAAGAATTTG
1 AGAGGAATTTGAGAGGAAATTGAAAAGAAATTG
*
32091197 AGAGGAATTTGAGA-GAATATT-AGAGAGAAATTG
1 AGAGGAATTTGAGAGGAA-ATTGA-AAAGAAATTG
32091230 AGAG
1 AGAG
32091234 AAAGGATTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 4 0.12
33 29 0.88
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (33 bp):
AGAGGAATTTGAGAGGAAATTGAAAAGAAATTG
Found at i:32091233 original size:22 final size:21
Alignment explanation
Indices: 32091168--32091235 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 21
32091158 TTTTTAAGAG
*
32091168 GAATTTGAGAGGAAATTGAAAA
1 GAATTTGAGAGGAAATTG-AGA
*
32091190 GAATTTGAGAGGAATTTGAGA
1 GAATTTGAGAGGAAATTGAGA
32091211 GAATATT-AGAGAGAAATTGAGA
1 GAAT-TTGAGAG-GAAATTGAGA
32091233 GAA
1 GAA
32091236 AGGATTTAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 10 0.24
22 31 0.76
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (21 bp):
GAATTTGAGAGGAAATTGAGA
Found at i:32096916 original size:14 final size:16
Alignment explanation
Indices: 32096887--32096918 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
32096877 TTGAACTGGA
32096887 TTTGTCTTTGTTTGTT
1 TTTGTCTTTGTTTGTT
32096903 TTTGT-TTT-TTTGTT
1 TTTGTCTTTGTTTGTT
32096917 TT
1 TT
32096919 GGGCTTGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.00, C:0.03, G:0.16, T:0.81
Consensus pattern (16 bp):
TTTGTCTTTGTTTGTT
Found at i:32099757 original size:28 final size:28
Alignment explanation
Indices: 32099718--32099792 Score: 100
Period size: 28 Copynumber: 2.7 Consensus size: 28
32099708 ATATCTACCA
32099718 TTAAATATATATATATATAT-AAAAA-T
1 TTAAATATATATATATATATAAAAAATT
*
32099744 TTACAATATAATATATATAAATAAAAAATT
1 TTA-AATAT-ATATATATATATAAAAAATT
*
32099774 TTAAATTTATATATATATA
1 TTAAATATATATATATATA
32099793 AATATATAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.07
27 5 0.12
28 21 0.50
29 9 0.21
30 4 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (28 bp):
TTAAATATATATATATATATAAAAAATT
Found at i:32099758 original size:30 final size:31
Alignment explanation
Indices: 32099691--32099803 Score: 108
Period size: 30 Copynumber: 3.6 Consensus size: 31
32099681 TATTTTTAAA
* * *
32099691 ATATATA-AAATATAAAAATATCTACCATTAAAT
1 ATATATATAAATATAAAAAT-TTTA--AATATAT
*
32099724 ATATATATATATATAAAAA-TTTACAATATA-
1 ATATATATAAATATAAAAATTTTA-AATATAT
*
32099754 ATATATATAAATA-AAAAATTTTAAATTTAT
1 ATATATATAAATATAAAAATTTTAAATATAT
32099784 ATATATATAAATATATAAAA
1 ATATATATAAATATA-AAAA
32099804 GAACTAAAAA
Statistics
Matches: 69, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
29 10 0.14
30 29 0.42
31 6 0.09
32 7 0.10
33 7 0.10
34 10 0.14
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (31 bp):
ATATATATAAATATAAAAATTTTAAATATAT
Found at i:32101472 original size:21 final size:21
Alignment explanation
Indices: 32101446--32101520 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 21
32101436 TTATAACAGA
* *
32101446 TACAGATCATGCTTATCATAT
1 TACAGATCATACATATCATAT
* *
32101467 TACAGATTATACATATCGTAT
1 TACAGATCATACATATCATAT
* * * *
32101488 TACAGTTTATACTTATCACAT
1 TACAGATCATACATATCATAT
* *
32101509 TTCAAATCATAC
1 TACAGATCATAC
32101521 TGAGCGACAA
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.36, C:0.19, G:0.07, T:0.39
Consensus pattern (21 bp):
TACAGATCATACATATCATAT
Found at i:32107773 original size:21 final size:21
Alignment explanation
Indices: 32107749--32107795 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
32107739 CTGGCCAGAC
*
32107749 GTTATAACCAAATTTGGAGAT
1 GTTACAACCAAATTTGGAGAT
* *
32107770 GTTACGACCAGATTTGGAGAT
1 GTTACAACCAAATTTGGAGAT
32107791 GTTAC
1 GTTAC
32107796 CTTAGTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (21 bp):
GTTACAACCAAATTTGGAGAT
Found at i:32108670 original size:27 final size:27
Alignment explanation
Indices: 32108629--32108687 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
32108619 AAACCCGAAT
* *
32108629 TTTTTGCTTTTGGTTTTCATTTGTTTG
1 TTTTTGCTTTAGGTTTTCATTTGTTTA
*
32108656 TTTTTGCTTTAGGTTTTCATTTTTTTA
1 TTTTTGCTTTAGGTTTTCATTTGTTTA
32108683 TTTTT
1 TTTTT
32108688 ATTGTTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.07, C:0.07, G:0.14, T:0.73
Consensus pattern (27 bp):
TTTTTGCTTTAGGTTTTCATTTGTTTA
Found at i:32112104 original size:26 final size:27
Alignment explanation
Indices: 32112054--32112104 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
32112044 AGTTTATAAA
* **
32112054 TTCTCTTTGAGTTTTTTTTTTAAGAAT
1 TTCTCTTTGAGTTTCTTTTAGAAGAAT
32112081 TTCTC-TTGAGTTTCTTTTAGAAGA
1 TTCTCTTTGAGTTTCTTTTAGAAGA
32112105 GTTTTAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.20, C:0.10, G:0.14, T:0.57
Consensus pattern (27 bp):
TTCTCTTTGAGTTTCTTTTAGAAGAAT
Found at i:32113684 original size:20 final size:19
Alignment explanation
Indices: 32113659--32113709 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
32113649 ACTTTGACTT
*
32113659 ATTGTTGATCAATGTTGACC
1 ATTGTTGATCAAAG-TGACC
*
32113679 ATTGTTGATTGAAAGTGACC
1 ATTGTTGA-TCAAAGTGACC
*
32113699 ACTGTTGATCA
1 ATTGTTGATCA
32113710 TCCACGTGGT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.08
20 20 0.77
21 4 0.15
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.37
Consensus pattern (19 bp):
ATTGTTGATCAAAGTGACC
Found at i:32113830 original size:9 final size:9
Alignment explanation
Indices: 32113816--32113844 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
32113806 AATTCAAAAG
32113816 AATTTATAA
1 AATTTATAA
32113825 AATTTATAA
1 AATTTATAA
32113834 AA-TTATAA
1 AATTTATAA
32113842 AAT
1 AAT
32113845 AAATACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTTATAA
Found at i:32113885 original size:29 final size:29
Alignment explanation
Indices: 32113820--32113886 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
32113810 CAAAAGAATT
32113820 TATAAAA-TTTATAAAATTATAAAATAAA
1 TATAAAATTTTATAAAATTATAAAATAAA
*
32113848 TACATAAATTTTA-AAAATT-TAAAATAATA
1 TATA-AAATTTTATAAAATTATAAAATAA-A
32113877 TATTAAAATT
1 TA-TAAAATT
32113887 GAAAATTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 11 0.33
29 17 0.52
30 5 0.15
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
TATAAAATTTTATAAAATTATAAAATAAA
Done.