Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 100 of 410
Found at i:29436618 original size:25 final size:24
Alignment explanation
Indices: 29436355--29436622 Score: 412
Period size: 24 Copynumber: 11.0 Consensus size: 24
29436345 GGAGGAAGTG
29436355 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
29436379 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
*
29436404 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
29436428 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
* *
29436452 CAAAAGGGCTTATGCCTCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
29436476 CAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
29436500 TAAAAAGGGCTTACGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
29436525 TAAAAAGGGCTTATGCCCCAGTTAT
1 T-AAAAGGGCTTATGCCCCAGTTAT
29436550 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
29436574 TAAAAGGGCTTTTGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
29436598 TAAAAGAGGC-TACGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
29436623 ATGATAAAGC
Statistics
Matches: 227, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
24 147 0.65
25 80 0.35
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:29438174 original size:43 final size:43
Alignment explanation
Indices: 29438077--29438222 Score: 188
Period size: 43 Copynumber: 3.4 Consensus size: 43
29438067 TATCCCAAAT
* * * * *
29438077 ATGGTCTTACATGTTATCACATATCAATACCACTGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGAC
* *
29438120 A-GGTCTTACATGAAATCATATAACGATGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGAC
* *
29438162 ATGGTCTTACATGTAAT-AGCATAATGAAGCCAATGTCCCAGAC
1 ATGGTCTTACATGTAATCA-CATAACGATGCCAATGTCCCAGAC
29438205 ATGGTCTTACATGTAATC
1 ATGGTCTTACATGTAATC
29438223 TCATCTCGGT
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 36 0.40
43 53 0.60
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGGTCTTACATGTAATCACATAACGATGCCAATGTCCCAGAC
Found at i:29438573 original size:18 final size:18
Alignment explanation
Indices: 29438546--29438580 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
29438536 TTCAATTTAA
29438546 CAAAATTTACACATTTTGG
1 CAAAATTTACAC-TTTTGG
29438565 CAAAA-TTACACTTTTG
1 CAAAATTTACACTTTTG
29438581 CCCTTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 6 0.38
19 5 0.31
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (18 bp):
CAAAATTTACACTTTTGG
Found at i:29440816 original size:23 final size:23
Alignment explanation
Indices: 29440787--29440864 Score: 104
Period size: 23 Copynumber: 3.3 Consensus size: 23
29440777 TGATGGACAA
*
29440787 TAAGCTCTATTAAGCTGAAATAG
1 TAAGCTCTATTGAGCTGAAATAG
* *
29440810 TAAGCTCTAATGAGCTGAAACAG
1 TAAGCTCTATTGAGCTGAAATAG
29440833 TAAGCTC-ATATGAGCTGAGAATAG
1 TAAGCTCTAT-TGAGCTGA-AATAG
29440857 TAAGCTCT
1 TAAGCTCT
29440865 TACGAGCTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
22 1 0.02
23 35 0.74
24 11 0.23
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (23 bp):
TAAGCTCTATTGAGCTGAAATAG
Found at i:29440872 original size:47 final size:48
Alignment explanation
Indices: 29440755--29440872 Score: 125
Period size: 47 Copynumber: 2.5 Consensus size: 48
29440745 TTCGAGCTAT
* * *
29440755 GAATAGTAAGCTCCTCCTGAGCTGATGGACAATAAGCTCTATTAAGCTGA
1 GAATAGTAAGCTCTTAC-GAGCTGA-GAACAATAAGCTCTATTAAGCTGA
* * * *
29440805 -AATAGTAAGCTCTAATGAGCTGA-AACAGTAAGCTC-ATATGAGCTGA
1 GAATAGTAAGCTCTTACGAGCTGAGAACAATAAGCTCTAT-TAAGCTGA
29440851 GAATAGTAAGCTCTTACGAGCT
1 GAATAGTAAGCTCTTACGAGCT
29440873 AATATATAGG
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.04
46 17 0.30
47 19 0.33
48 7 0.12
49 12 0.21
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (48 bp):
GAATAGTAAGCTCTTACGAGCTGAGAACAATAAGCTCTATTAAGCTGA
Found at i:29442034 original size:12 final size:12
Alignment explanation
Indices: 29442019--29442043 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29442009 ATGAAGAAGG
29442019 ACAAAAAGAAAA
1 ACAAAAAGAAAA
29442031 ACAAAAAGAAAA
1 ACAAAAAGAAAA
29442043 A
1 A
29442044 GTAATTAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (12 bp):
ACAAAAAGAAAA
Found at i:29450357 original size:29 final size:29
Alignment explanation
Indices: 29450316--29450446 Score: 192
Period size: 29 Copynumber: 4.6 Consensus size: 29
29450306 CCTCCGAACT
** * * *
29450316 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
29450345 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
29450374 CGCACA-TTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
29450402 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
29450431 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
29450447 ATCTCGTCAC
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
28 27 0.29
29 65 0.71
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:29450407 original size:57 final size:58
Alignment explanation
Indices: 29450316--29450446 Score: 192
Period size: 57 Copynumber: 2.3 Consensus size: 58
29450306 CCTCCGAACT
** * * **
29450316 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAAATATTTCCAGCA
*
29450374 CGCACA-TTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAAATATTTCCAGCA
29450431 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
29450447 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 50 0.77
58 15 0.23
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (58 bp):
CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCAAATATTTCCAGCA
Found at i:29451742 original size:13 final size:13
Alignment explanation
Indices: 29451720--29451753 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
29451710 AAGATGAGCA
29451720 TTCTT-TTTTTTT
1 TTCTTCTTTTTTT
29451732 TT-TTCTTTTTTT
1 TTCTTCTTTTTTT
29451744 TTCTTCTTTT
1 TTCTTCTTTT
29451754 ACTAACATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.10
12 11 0.55
13 7 0.35
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTCTTCTTTTTTT
Found at i:29458408 original size:29 final size:29
Alignment explanation
Indices: 29458375--29458477 Score: 143
Period size: 29 Copynumber: 3.6 Consensus size: 29
29458365 CCTCCGAACT
** * * *
29458375 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
29458404 TGCACACTTAGTGCCAAATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
29458433 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
29458462 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
29458478 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 65 1.00
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:29463176 original size:40 final size:40
Alignment explanation
Indices: 29463120--29463203 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
29463110 GAAATTAATG
*
29463120 AAGTATAAATAAGGGCACGTATGTGCAATTAGGGGTACCA
1 AAGTACAAATAAGGGCACGTATGTGCAATTAGGGGTACCA
* * *
29463160 AAGTACAAATAGGGGCACGTATGTGTAATTAGGGGTACCG
1 AAGTACAAATAAGGGCACGTATGTGCAATTAGGGGTACCA
29463200 AAGT
1 AAGT
29463204 TCGAAGTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.23
Consensus pattern (40 bp):
AAGTACAAATAAGGGCACGTATGTGCAATTAGGGGTACCA
Found at i:29463192 original size:20 final size:20
Alignment explanation
Indices: 29463132--29463194 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
29463122 GTATAAATAA
29463132 GGGCACGTATGTGCAATTAG
1 GGGCACGTATGTGCAATTAG
* ** * * *
29463152 GGGTACCAAAGTACAAATAG
1 GGGCACGTATGTGCAATTAG
*
29463172 GGGCACGTATGTGTAATTAG
1 GGGCACGTATGTGCAATTAG
29463192 GGG
1 GGG
29463195 TACCGAAGTT
Statistics
Matches: 30, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGCACGTATGTGCAATTAG
Found at i:29464348 original size:30 final size:30
Alignment explanation
Indices: 29464314--29464372 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
29464304 ATTTTCGAGC
* *
29464314 CTAGGGGTAAAATGGTCATTTTGTCAAAGT
1 CTAGGGGCAAAATGGTCATTTTATCAAAGT
29464344 CTAGGGGCAAAATGGTCATTTTATCAAAG
1 CTAGGGGCAAAATGGTCATTTTATCAAAG
29464373 ATATGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTATCAAAGT
Found at i:29464766 original size:46 final size:46
Alignment explanation
Indices: 29464713--29465020 Score: 181
Period size: 46 Copynumber: 6.6 Consensus size: 46
29464703 TGTGAGCTAC
*
29464713 TGTAAGACATGTCTGGGACATGCATCATCCACATTATGAGAGCCAA
1 TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAA
*
29464759 TGTAAGACCATGTCTGGGACATGGCATC-G--GCATTGA-GACGAGTGCC-A
1 TGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATT-ATGA-GA--GCCAA
* * * * * *
29464806 T-T--GACATGTCTGGGACATGCATCGGCCTCGA-GACGCA-AGTCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCAC-ATTATG-AGAGCCAA
* *
29464849 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAA
* * * * ***
29464895 TGTAAGACCATGTCTGGGACACGGTATC-GGCACAAATATGCTAGAGCTTG
1 TGTAAGA-CATGTCTGGGACA-TGCATCAGCCAC-ATTATG--AGAGCCAA
* * *** *
29464945 TGTAAGACCATGTCTGGGACATGCATTAGCCTCGGGATGTA-AGTCAA
1 TGTAAGA-CATGTCTGGGACATGCATCAGCCACATTATG-AGAGCCAA
*
29464992 TGTAAGACATGCCTGGGACATGCATCAGC
1 TGTAAGACATGTCTGGGACATGCATCAGC
29465021 TACGAGATGT
Statistics
Matches: 208, Mismatches: 30, Indels: 48
0.73 0.10 0.17
Matches are distributed among these distances:
42 7 0.03
43 16 0.08
44 5 0.02
45 10 0.05
46 73 0.35
47 42 0.20
48 19 0.09
49 6 0.03
50 30 0.14
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAA
Found at i:29464951 original size:50 final size:47
Alignment explanation
Indices: 29464713--29464970 Score: 187
Period size: 46 Copynumber: 5.6 Consensus size: 47
29464703 TGTGAGCTAC
* ** * *
29464713 TGTAAGA-CATGTCTGGGACATGCATCATCCACATTATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACAGGCATCGGCCACAATATGAGAGCCAG
*
29464759 TGTAAGACCATGTCTGGGACATGGCATCGG---C-AT-TGAGA-CGAG
1 TGTAAGACCATGTCTGGGACA-GGCATCGGCCACAATATGAGAGCCAG
* * * * * * * *
29464801 TGCCATTGA-CATGTCTGGGACATGCATCGGCCTCGAGACGCA-AGTCAG
1 TG-TA-AGACCATGTCTGGGACAGGCATCGGCCACAATATG-AGAGCCAG
* *
29464849 TGTAAGA-CATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACAGGCATCGGCCACAATATGAGAGCCAG
* **
29464895 TGTAAGACCATGTCTGGGACACGGTATCGG-CACAAATATGCTAGAGCTTG
1 TGTAAGACCATGTCTGGGACA-GGCATCGGCCAC-AATATG--AGAGCCAG
*
29464945 TGTAAGACCATGTCTGGGACATGCAT
1 TGTAAGACCATGTCTGGGACAGGCAT
29464971 TAGCCTCGGG
Statistics
Matches: 167, Mismatches: 28, Indels: 31
0.74 0.12 0.14
Matches are distributed among these distances:
42 11 0.07
43 19 0.11
44 3 0.02
45 3 0.02
46 48 0.29
47 32 0.19
48 21 0.13
49 3 0.02
50 27 0.16
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACAGGCATCGGCCACAATATGAGAGCCAG
Found at i:29465010 original size:143 final size:141
Alignment explanation
Indices: 29464713--29465108 Score: 452
Period size: 141 Copynumber: 2.8 Consensus size: 141
29464703 TGTGAGCTAC
* *
29464713 TGTAAGACATGTCTGGGACATGCATCATCCACATTATGAGAGCCAATGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
* ** * * *
29464778 CATGGCATCGG--C-AT-TG--AGACGAGTGCCATTGA-CATGTCTGGGACATGCATCGGCCTCG
66 CACGGCATCGGCACAATATGCTAGACTTGTG-TA-AGACCATGTCTGGGACATGCATCAGCCTCG
*
29464836 AGACGCAAGTCAG
129 AGACGCAAGTCAA
*
29464849 TGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
1 TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
* *
29464914 CACGGTATCGGCACAAATATGCTAGAGCTTGTGTAAGACCATGTCTGGGACATGCATTAGCCTCG
66 CACGGCATCGGCAC-AATATGCTAGA-CTTGTGTAAGACCATGTCTGGGACATGCATCAGCCTCG
* * *
29464979 GGATGTAAGTCAA
129 AGACGCAAGTCAA
* * * * *
29464992 TGTAAGACATGCCTGGGACATGCATCAGCTAC--GA-GATGTGTCAGTGTAAGACCATGTCTGGG
1 TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-GAGCCAGTGTAAGACCATGTCTGGG
* * *
29465054 ACACAGCATTGGCACAGATATGCTAGAACTTGTGTAAGACCATGTCTAGGACATG
65 ACACGGCATCGGCACA-ATATGCTAG-ACTTGTGTAAGACCATGTCTGGGACATG
29465109 ACACCGGCAC
Statistics
Matches: 223, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
136 71 0.32
138 1 0.00
140 5 0.02
141 73 0.33
142 3 0.01
143 66 0.30
144 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (141 bp):
TGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGA
CACGGCATCGGCACAATATGCTAGACTTGTGTAAGACCATGTCTGGGACATGCATCAGCCTCGAG
ACGCAAGTCAA
Found at i:29465030 original size:46 final size:45
Alignment explanation
Indices: 29464945--29465056 Score: 147
Period size: 46 Copynumber: 2.5 Consensus size: 45
29464935 CTAGAGCTTG
* *
29464945 TGTAAGACCATGTCTGGGACATGCATTAGCCTCGGGATGTAAGTCAA
1 TGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGATGT--GTCAA
* *
29464992 TGTAAGA-CATGCCTGGGACATGCATCAG-CTACGAGATGTGTCAG
1 TGTAAGACCATGTCTGGGACATGCATCAGCCT-CGAGATGTGTCAA
29465036 TGTAAGACCATGTCTGGGACA
1 TGTAAGACCATGTCTGGGACA
29465057 CAGCATTGGC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
44 11 0.19
45 14 0.24
46 26 0.45
47 7 0.12
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (45 bp):
TGTAAGACCATGTCTGGGACATGCATCAGCCTCGAGATGTGTCAA
Found at i:29465898 original size:21 final size:20
Alignment explanation
Indices: 29465872--29465910 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
29465862 GGATTAAACC
*
29465872 GAAAACTTTGAAAACTTTTGG
1 GAAAACTTAGAAAA-TTTTGG
29465893 GAAAACTTAGAAAATTTT
1 GAAAACTTAGAAAATTTT
29465911 ATCACGAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (20 bp):
GAAAACTTAGAAAATTTTGG
Found at i:29467601 original size:23 final size:24
Alignment explanation
Indices: 29467526--29467690 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
29467516 GCTTTATCAT
*
29467526 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
29467551 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
29467575 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
29467598 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
29467622 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
29467646 ATAACT-GGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
29467668 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
29467691 GCACTTCCTC
Statistics
Matches: 131, Mismatches: 5, Indels: 9
0.90 0.03 0.06
Matches are distributed among these distances:
22 9 0.07
23 47 0.36
24 63 0.48
25 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:29467601 original size:47 final size:47
Alignment explanation
Indices: 29467547--29467689 Score: 236
Period size: 47 Copynumber: 3.1 Consensus size: 47
29467537 CCTAGCCTCT
*
29467547 TTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
29467594 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
29467641 TTTTGATAACT-GGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
29467687 TTT
1 TTT
29467690 TGCACTTCCT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
45 3 0.03
46 22 0.24
47 57 0.63
48 9 0.10
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:29467787 original size:20 final size:20
Alignment explanation
Indices: 29467736--29467805 Score: 115
Period size: 20 Copynumber: 3.5 Consensus size: 20
29467726 GCATTTATGA
*
29467736 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
29467756 ACATAT-ATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
29467775 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
29467795 ACATATCATGT
1 ACATATCATGT
29467806 TTATCAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 18 0.39
20 28 0.61
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:29467870 original size:25 final size:25
Alignment explanation
Indices: 29467842--29467889 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29467832 ATATATAAAC
* *
29467842 CCTAAGGGTATAATGGTCATTTTGA
1 CCTAAGGGCAAAATGGTCATTTTGA
*
29467867 CCTAGGGGCAAAATGGTCATTTT
1 CCTAAGGGCAAAATGGTCATTTT
29467890 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAAGGGCAAAATGGTCATTTTGA
Found at i:29469108 original size:27 final size:27
Alignment explanation
Indices: 29469064--29469149 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
29469054 TACCATACAG
* *
29469064 GGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
**
29469091 GGGTATTTCT-GTAATTTTGTAAATCGA
1 GGGTATTT-TGGTAATTTTACAAATCGA
*** * * *
29469118 GGGTAAAATGGTAATTCTATAAATCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
29469145 GGGTA
1 GGGTA
29469150 AAATAGTAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
26 1 0.02
27 45 0.96
28 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.24, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:29469150 original size:27 final size:27
Alignment explanation
Indices: 29469101--29469374 Score: 253
Period size: 27 Copynumber: 9.8 Consensus size: 27
29469091 GGGTATTTCT
* **
29469101 GTAATTTTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
29469128 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
29469155 GTAATTCTATAAATCGA-GGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
29469181 ATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
29469208 GTAATTCTGTAAGTCGAGGGTAAAACGGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAAC--------A
* * **
29469243 TGGTAATTATGTAAATCGGGGGTAAAATG
1 --GTAATTCTGTAAATCGAGGGTAAAACA
*
29469272 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
29469299 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
29469326 GTACTTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
29469353 ATAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
29469375 CTTTGGTAAT
Statistics
Matches: 206, Mismatches: 30, Indels: 22
0.80 0.12 0.09
Matches are distributed among these distances:
26 22 0.11
27 161 0.78
35 1 0.00
37 22 0.11
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:29469240 original size:37 final size:38
Alignment explanation
Indices: 29469189--29469269 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 38
29469179 CAATAATTTT
* * *
29469189 GTAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACAGTAATTATGTAAATCGAGG
** *
29469227 GTAAAACG-GGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACAGTAATTATGTAAATCGAGG
29469264 GTAAAA
1 GTAAAA
29469270 TGGTAATTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 30 0.81
38 7 0.19
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACAGTAATTATGTAAATCGAGG
Found at i:29469283 original size:91 final size:90
Alignment explanation
Indices: 29469145--29469324 Score: 243
Period size: 91 Copynumber: 2.0 Consensus size: 90
29469135 TATAAATCAA
* * *
29469145 GGGTAAAATAGTAATTCTATAAATCGAGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACAGT
1 GGGTAAAATAGTAATTATATAAATCGAGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAGT
* * *
29469210 AATTCTGTAAGTCGAGGGTAAAACG
66 AATTCTATAAATCAAGGGTAAAACG
* * * ***
29469235 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAG
1 GGGTAAAATAGTAATTATATAAATC-GAGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAG
29469300 TAATTCTATAAATCAAGGGTAAAAC
65 TAATTCTATAAATCAAGGGTAAAAC
29469325 AGTACTTCTA
Statistics
Matches: 77, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
90 22 0.29
91 55 0.71
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (90 bp):
GGGTAAAATAGTAATTATATAAATCGAGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAGT
AATTCTATAAATCAAGGGTAAAACG
Found at i:29472341 original size:24 final size:24
Alignment explanation
Indices: 29472290--29472455 Score: 257
Period size: 24 Copynumber: 7.0 Consensus size: 24
29472280 GCTTTATCAT
*
29472290 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
29472315 ATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
29472339 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
29472362 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
29472386 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
29472410 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
29472433 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
29472456 GCACTTCCTC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 45 0.34
24 76 0.57
25 12 0.09
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:29472390 original size:71 final size:71
Alignment explanation
Indices: 29472290--29472456 Score: 273
Period size: 71 Copynumber: 2.3 Consensus size: 71
29472280 GCTTTATCAT
* *
29472290 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
29472354 GCCCTTTA
64 GCCCTTTA
* *
29472362 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
29472427 CCTTTA
66 CCTTTA
29472433 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
29472457 CACTTCCTCC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
71 78 0.87
72 12 0.13
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATAAGC
CCTTTA
Found at i:29472456 original size:47 final size:48
Alignment explanation
Indices: 29472290--29472455 Score: 257
Period size: 47 Copynumber: 3.5 Consensus size: 48
29472280 GCTTTATCAT
* *
29472290 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTA
*
29472339 ATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
*
29472386 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
29472433 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
29472456 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
47 71 0.65
48 27 0.25
49 12 0.11
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
Found at i:29472527 original size:9 final size:9
Alignment explanation
Indices: 29472513--29472569 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
29472503 ATCTCATGTG
29472513 CATATCATA
1 CATATCATA
*
29472522 CATATCATGTG
1 CATATCA--TA
29472533 CATATCATA
1 CATATCATA
* *
29472542 CATGTCATGTG
1 CATATCA--TA
29472553 CATATCATA
1 CATATCATA
29472562 CATATCAT
1 CATATCAT
29472570 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:29472529 original size:20 final size:20
Alignment explanation
Indices: 29472501--29472571 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
29472491 GCATTTATGA
*
29472501 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
29472521 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
29472541 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
29472561 ACATATCATGT
1 ACATATCATGT
29472572 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:29472536 original size:11 final size:11
Alignment explanation
Indices: 29472506--29472560 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
29472496 TATGAACATC
29472506 TCATGTGCATA
1 TCATGTGCATA
*
29472517 TCA--TACATA
1 TCATGTGCATA
29472526 TCATGTGCATA
1 TCATGTGCATA
* *
29472537 TCA--TACATG
1 TCATGTGCATA
29472546 TCATGTGCATA
1 TCATGTGCATA
29472557 TCAT
1 TCAT
29472561 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:29473862 original size:27 final size:27
Alignment explanation
Indices: 29473818--29473876 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
29473808 TACCATACAG
* *
29473818 GGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
**
29473845 GGGTATTTCT-GTAATTTTGTAAATCGA
1 GGGTATTT-TGGTAATTTTACAAATCGA
29473872 GGGTA
1 GGGTA
29473877 AAATAGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.05, G:0.27, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:29473885 original size:27 final size:27
Alignment explanation
Indices: 29473855--29474129 Score: 248
Period size: 27 Copynumber: 9.8 Consensus size: 27
29473845 GGGTATTTCT
* *
29473855 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
29473882 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
29473909 GTAATTCTATAAATCGACGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
29473936 ATAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
29473963 GTAATTCTGTAAGTCGAGGGTAAAACGGGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAAC---------A
* * **
29473999 TGGTAATTATGTAAATCGGGGGTAAAATG
1 --GTAATTCTGTAAATCGAGGGTAAAACA
*
29474028 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
29474055 GTAATTCTATAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
29474082 GTACTTCTATAAATCGAGGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
29474108 GATAATTATGTAAATCG-GGGTA
1 G-TAATTCTGTAAATCGAGGGTA
29474130 CTTTGGTAAT
Statistics
Matches: 207, Mismatches: 29, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
26 6 0.03
27 178 0.86
36 1 0.00
38 22 0.11
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:29473995 original size:38 final size:38
Alignment explanation
Indices: 29473944--29474025 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 38
29473934 CAATAATTTT
* * *
29473944 GTAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAGG
1 GTAAAACGAGGGTAAAACAGTAATTATGTAAATCGAGG
* ** *
29473982 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGG
1 GTAAAACGAGGGTAAAACAGTAATTATGTAAATCGAGG
29474020 GTAAAA
1 GTAAAA
29474026 TGGTAATTCT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.39, C:0.07, G:0.30, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACAGTAATTATGTAAATCGAGG
Found at i:29474023 original size:92 final size:92
Alignment explanation
Indices: 29473899--29474080 Score: 247
Period size: 92 Copynumber: 2.0 Consensus size: 92
29473889 TATAAATCAA
* * *
29473899 GGGTAAAATAGTAATTCTATAAATCGACGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACAG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAG
* * *
29473964 TAATTCTGTAAGTCGAGGGTAAAACGG
66 TAATTCTATAAATCAAGGGTAAAACGG
* * ** ***
29473991 GGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAG
1 GGGTAAAATAGTAATTATATAAATCGACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAG
29474056 TAATTCTATAAATCAAGGGTAAAAC
66 TAATTCTATAAATCAAGGGTAAAAC
29474081 AGTACTTCTA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
92 77 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (92 bp):
GGGTAAAATAGTAATTATATAAATCGACGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACAG
TAATTCTATAAATCAAGGGTAAAACGG
Found at i:29474075 original size:119 final size:119
Alignment explanation
Indices: 29473863--29474109 Score: 332
Period size: 119 Copynumber: 2.1 Consensus size: 119
29473853 CTGTAATTTT
* * *
29473863 GTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCGACG
1 GTAAAACGAGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* * * * *
29473928 GTAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAGG
66 GTAAAACAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGG
* * * ** * * *
29473982 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGG
1 GTAAAACGAGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
* *
29474047 GTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGTACTTCTATAAATCGAGG
66 GTAAAACAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGG
29474101 GTAAAACGA
1 GTAAAACGA
29474110 TAATTATGTA
Statistics
Matches: 109, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
119 109 1.00
ACGTcount: A:0.43, C:0.09, G:0.22, T:0.26
Consensus pattern (119 bp):
GTAAAACGAGGGTAAAATAGTAATTATATAAATCAAGGGTAAAATAGTAATTCTATAAATCAACG
GTAAAACAATAATTCTATAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGG
Found at i:29474114 original size:146 final size:145
Alignment explanation
Indices: 29473855--29474129 Score: 408
Period size: 146 Copynumber: 1.9 Consensus size: 145
29473845 GGGTATTTCT
* *
29473855 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATA
* * * * *
29473920 AATCGACGGTAAAACAATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAGTCGAGGGTA
66 AATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACAGTAATTATGTAAATCG-GGGTA
29473985 AAACGGGGGTAAAATG
130 AAACGGGGGTAAAATG
* * *
29474001 GTAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATA
* * *
29474066 AATCAAGGGTAAAACAGTACTTCTATAAATCGAGGGTAAAAC-GATAATTATGTAAATCGGGGTA
66 AATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACAG-TAATTATGTAAATCGGGGTA
29474130 CTTTGGTAAT
Statistics
Matches: 115, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
145 6 0.05
146 109 0.95
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (145 bp):
GTAATTATGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTAAAACAGTAATTCTATA
AATCAACGGTAAAACAATAATTCTATAAATCGAGGGTAAAACAGTAATTATGTAAATCGGGGTAA
AACGGGGGTAAAATG
Found at i:29480147 original size:73 final size:74
Alignment explanation
Indices: 29480059--29480197 Score: 192
Period size: 74 Copynumber: 1.9 Consensus size: 74
29480049 AGTCTCACAT
** * *
29480059 CGATGCCATGTCCCAGAC-ATGGTCTTACATG-TATCACAATGCCATAGCCCAGCTATGGTCTTA
1 CGATGCCATAACCCAG-CTATGGTCATACACGCTATCACAATGCCATAGCCCAGCTATGGTCTTA
29480122 CATCTCATCG
65 CATCTCATCG
* * *
29480132 CGATGCCATAACCCAGCTATGGTCATACACGCTATTACCATGCCATAGCCTAGCTATGGTCTTAC
1 CGATGCCATAACCCAGCTATGGTCATACACGCTATCACAATGCCATAGCCCAGCTATGGTCTTAC
29480197 A
66 A
29480198 CGTACTCACA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
72 1 0.02
73 25 0.44
74 31 0.54
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (74 bp):
CGATGCCATAACCCAGCTATGGTCATACACGCTATCACAATGCCATAGCCCAGCTATGGTCTTAC
ATCTCATCG
Found at i:29480198 original size:37 final size:37
Alignment explanation
Indices: 29480061--29480207 Score: 142
Period size: 37 Copynumber: 4.0 Consensus size: 37
29480051 TCTCACATCG
*
29480061 ATGCCAT-GTCCCAGAC-ATGGTCTTACATG-TATCACA
1 ATGCCATAG-CCCAG-CTATGGTCTTACACGCTATCACA
* * *
29480097 ATGCCATAGCCCAGCTATGGTCTTACA-TCTCATCGCG
1 ATGCCATAGCCCAGCTATGGTCTTACACGCT-ATCACA
* * * *
29480134 ATGCCATAACCCAGCTATGGTCATACACGCTATTACC
1 ATGCCATAGCCCAGCTATGGTCTTACACGCTATCACA
*
29480171 ATGCCATAGCCTAGCTATGGTCTTACACG-TACTCACA
1 ATGCCATAGCCCAGCTATGGTCTTACACGCTA-TCACA
29480208 TGTATTGCCA
Statistics
Matches: 91, Mismatches: 14, Indels: 11
0.78 0.12 0.09
Matches are distributed among these distances:
35 1 0.01
36 26 0.29
37 62 0.68
38 2 0.02
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (37 bp):
ATGCCATAGCCCAGCTATGGTCTTACACGCTATCACA
Found at i:29481182 original size:32 final size:31
Alignment explanation
Indices: 29481133--29481198 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 31
29481123 CACATGCCTA
*
29481133 TGTGGGTAGGTCGTGTGGTCACACACACCCG
1 TGTGGGTAGGCCGTGTGGTCACACACACCCG
29481164 TGTGGGTTAGGCCGTGTGGTCACACACACCCG
1 TGTGGG-TAGGCCGTGTGGTCACACACACCCG
29481196 TGT
1 TGT
29481199 CCTCAACCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 6 0.18
32 27 0.82
ACGTcount: A:0.15, C:0.26, G:0.35, T:0.24
Consensus pattern (31 bp):
TGTGGGTAGGCCGTGTGGTCACACACACCCG
Found at i:29482926 original size:28 final size:28
Alignment explanation
Indices: 29482895--29482948 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
29482885 AAGTTCCAGA
29482895 CTCAATATCTCGCACACCAAGGGCCATT
1 CTCAATATCTCGCACACCAAGGGCCATT
* * * *
29482923 CTCAATATTTCGTACACTAAGTGCCA
1 CTCAATATCTCGCACACCAAGGGCCA
29482949 CATATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.30, C:0.31, G:0.13, T:0.26
Consensus pattern (28 bp):
CTCAATATCTCGCACACCAAGGGCCATT
Found at i:29484472 original size:39 final size:39
Alignment explanation
Indices: 29484418--29484592 Score: 176
Period size: 39 Copynumber: 4.5 Consensus size: 39
29484408 GAGTCACGTA
* * *
29484418 CCTTCGGGAT-TTAACCGGATATAACCACAAGCACAATTG
1 CCTTCGGG-TCTTAACCCGATATAACAACTAGCACAATTG
* ** *
29484457 CCTTCGGGTCTTAACCCGATTTAGTAACTTGCACAATTG
1 CCTTCGGGTCTTAACCCGATATAACAACTAGCACAATTG
*
29484496 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAACCC-GATATAACAACTAGCAC-AATTG
* * *
29484536 CCTTCGGGTCTTAGCCCGATATAATC-ACTAGCATAAATG
1 CCTTCGGGTCTTAACCCGATATAA-CAACTAGCACAATTG
* *
29484575 CCTTCGGGACTTAGCCCG
1 CCTTCGGGTCTTAACCCG
29484593 GGTATCATTC
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
38 3 0.03
39 79 0.68
40 32 0.28
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (39 bp):
CCTTCGGGTCTTAACCCGATATAACAACTAGCACAATTG
Found at i:29484548 original size:79 final size:79
Alignment explanation
Indices: 29484418--29484593 Score: 205
Period size: 79 Copynumber: 2.2 Consensus size: 79
29484408 GAGTCACGTA
* * *
29484418 CCTTCGGGAT-TTAA-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGATTTAG
1 CCTTCGGG-TCTTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGATATAA
* *
29484481 TAACTTGCACAATTG
65 TAACTAGCACAAATG
** *
29484496 CCTTCGGGTCTTAACCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGATATAA
1 CCTTCGGGTCTTAACCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGATATAA
* *
29484560 TCACTAGCATAAATG
65 TAACTAGCACAAATG
* *
29484575 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAACCCGG
29484594 GTATCATTCA
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
77 1 0.01
78 12 0.14
79 68 0.82
80 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (79 bp):
CCTTCGGGTCTTAACCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGATATAAT
AACTAGCACAAATG
Found at i:29487905 original size:28 final size:28
Alignment explanation
Indices: 29487863--29487920 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
29487853 CACACGGGCT
* *
29487863 AGGACACGGGTGTGT-CATGGCCGTGTGA
1 AGGACACGAGCGTGTCCA-GGCCGTGTGA
29487891 AGGACACGAGCGTGTGCCAGGCCGTGTGA
1 AGGACACGAGCGTGT-CCAGGCCGTGTGA
29487920 A
1 A
29487921 AACCCCTGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 13 0.50
29 11 0.42
30 2 0.08
ACGTcount: A:0.21, C:0.21, G:0.41, T:0.17
Consensus pattern (28 bp):
AGGACACGAGCGTGTCCAGGCCGTGTGA
Found at i:29490341 original size:18 final size:19
Alignment explanation
Indices: 29490306--29490345 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
29490296 TATACAATGT
*
29490306 TATAAAATTTATAATAATA
1 TATAAAATTTAAAATAATA
29490325 TATAAAA-TTAAAATAATA
1 TATAAAATTTAAAATAATA
29490343 TAT
1 TAT
29490346 TTTTCTAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATAAAATTTAAAATAATA
Found at i:29498803 original size:25 final size:26
Alignment explanation
Indices: 29498755--29498803 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
29498745 TGTTCAGCTA
*
29498755 ATTTGAATAAGTATTTATTCAAATTC
1 ATTTGAATAAGTATTTATTAAAATTC
* *
29498781 ATTTGAA-ACGTATTTTTTAAAAT
1 ATTTGAATAAGTATTTATTAAAAT
29498804 AATTTTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (26 bp):
ATTTGAATAAGTATTTATTAAAATTC
Found at i:29503310 original size:17 final size:17
Alignment explanation
Indices: 29503288--29503320 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
29503278 ATCTGACAAA
*
29503288 GCCCGATCAATGATAAT
1 GCCCGATAAATGATAAT
29503305 GCCCGATAAATGATAA
1 GCCCGATAAATGATAA
29503321 ATGATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (17 bp):
GCCCGATAAATGATAAT
Found at i:29504289 original size:26 final size:26
Alignment explanation
Indices: 29504253--29504305 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
29504243 ATGTTTATCT
29504253 TGCAATACAAGGAATGGTAAGTTAAG
1 TGCAATACAAGGAATGGTAAGTTAAG
29504279 TGCAATACAAGGAATGGTAAGTTAAG
1 TGCAATACAAGGAATGGTAAGTTAAG
29504305 T
1 T
29504306 ACCATGTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.25
Consensus pattern (26 bp):
TGCAATACAAGGAATGGTAAGTTAAG
Found at i:29508954 original size:42 final size:42
Alignment explanation
Indices: 29508842--29508961 Score: 161
Period size: 43 Copynumber: 2.8 Consensus size: 42
29508832 TACCGTACCA
* *
29508842 ATGCCATATCCTAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCTCATATCG
* * *
29508884 ATGCCAATAGCCCAGCTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATATCCTAGATATGGTCTTACACGTAA-TCTCATATCG
*
29508927 ATGCCATATCCTAGATATGGTCTTACACATAATCT
1 ATGCCATATCCTAGATATGGTCTTACACGTAATCT
29508962 TAGTAACTCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
42 30 0.45
43 36 0.55
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACACGTAATCTCATATCG
Found at i:29515354 original size:29 final size:29
Alignment explanation
Indices: 29515343--29515473 Score: 253
Period size: 29 Copynumber: 4.5 Consensus size: 29
29515333 TTTCCATCTT
*
29515343 GCACACTTAGTGCCAAATATTTCCAGCAC
1 GCACACTTAGTGCCATATATTTCCAGCAC
29515372 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCATATATTTCCAGCAC
29515401 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCATATATTTCCAGCAC
29515430 GCACACTTAGTGCCATATATTTCCAGCAC
1 GCACACTTAGTGCCATATATTTCCAGCAC
29515459 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
29515474 ATCTCGTCAC
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 101 1.00
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAC
Found at i:29515375 original size:87 final size:87
Alignment explanation
Indices: 29515255--29515473 Score: 235
Period size: 87 Copynumber: 2.5 Consensus size: 87
29515245 TACTCGATTT
** * * ** * *
29515255 CGCACACTTAGTGCCACGTAATTT-AAGCTCGCACACACAGTGCCATA-CCCTCCGAACTCGCAC
1 CGCACACTTAGTGCCAAAT-ATTTCCAGCACGCACACTTAGTGCCATATACCTCC-AACACGCAC
* * * *
29515318 ACCCAGTGCCGTATTTTTCCATCT
64 ACCCAGTGCCATATATTTCCAGCA
* ** *
29515342 TGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATACCTCCAACACGCACAC
**
29515407 TTAGTGCCATATATTTCCAGCA
66 CCAGTGCCATATATTTCCAGCA
*
29515429 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCA
29515474 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
86 4 0.04
87 103 0.94
88 3 0.03
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (87 bp):
CGCACACTTAGTGCCAAATATTTCCAGCACGCACACTTAGTGCCATATACCTCCAACACGCACAC
CCAGTGCCATATATTTCCAGCA
Found at i:29517560 original size:48 final size:48
Alignment explanation
Indices: 29517486--29517766 Score: 264
Period size: 48 Copynumber: 5.9 Consensus size: 48
29517476 TAAATTACGA
* *
29517486 ATGCCATGTCCCAGACACGGTCTTACACTAGCTCACATGTCAAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCCG
* * * * * *
29517534 ATGCCATGTCCCAAACATGGTTTTACACTAGCTCACGTCTCAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCCG
* * * * **
29517582 ATTCCATGTACCAGGCATGGTCTTACACTAGCTCTCATAATGTA-GCTC-
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGC-CG
* * * *
29517630 ATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCCG
* * * ** *
29517678 ATGCCATG-CCCAGACATGGTCTTACATTGGCTCTCATAAT-GTGGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCCG
* * *
29517725 ATGCCATGGCCCAGACATGGTCTTACACTAGCACATATATCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
29517767 CCCAATTTTC
Statistics
Matches: 183, Mismatches: 43, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
47 39 0.21
48 141 0.77
49 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCCG
Found at i:29517746 original size:95 final size:97
Alignment explanation
Indices: 29517486--29517766 Score: 331
Period size: 96 Copynumber: 2.9 Consensus size: 97
29517476 TAAATTACGA
* * * * **
29517486 ATGCCATGTCCCAGACACGGTCTTACACTAGCTCACAT-GTCAAGGC-CGATGCCATGTCCCAAA
1 ATGCCATGTACCAGACATGGTCTTACACTAGCTCTCATAATGTA-GCTCGATGCCATGTCCCAAA
* * * *
29517549 CATGGTTTTACACTAGCTCACGTCTCAATGTCG
65 CATGGTCTTACACTAGCACACATATCAATGTCG
* *
29517582 ATTCCATGTACCAGGCATGGTCTTACACTAGCTCTCATAATGTAGCTC-ATGCCATGTCCCAAAC
1 ATGCCATGTACCAGACATGGTCTTACACTAGCTCTCATAATGTAGCTCGATGCCATGTCCCAAAC
29517646 ATGGTCTTACACTAGCACACATATCAATG-CTG
66 ATGGTCTTACACTAGCACACATATCAATGTC-G
* * * * * *
29517678 ATGCCATG-CCCAGACATGGTCTTACATTGGCTCTCATAATGT-GGTCGATGCCATGGCCCAGAC
1 ATGCCATGTACCAGACATGGTCTTACACTAGCTCTCATAATGTAGCTCGATGCCATGTCCCAAAC
*
29517741 ATGGTCTTACACTAGCACATATATCA
66 ATGGTCTTACACTAGCACACATATCA
29517767 CCCAATTTTC
Statistics
Matches: 160, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
94 3 0.02
95 70 0.44
96 84 0.52
97 3 0.02
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (97 bp):
ATGCCATGTACCAGACATGGTCTTACACTAGCTCTCATAATGTAGCTCGATGCCATGTCCCAAAC
ATGGTCTTACACTAGCACACATATCAATGTCG
Found at i:29520563 original size:10 final size:10
Alignment explanation
Indices: 29520547--29520600 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
29520537 TTTCATCTCC
29520547 ATTTATCTTT
1 ATTTATCTTT
*
29520557 ATGTATCTTT
1 ATTTATCTTT
**
29520567 AAATATCTTT
1 ATTTATCTTT
*
29520577 ATTTATCTGT
1 ATTTATCTTT
29520587 ATTTATCTTT
1 ATTTATCTTT
29520597 -TTTA
1 ATTTA
29520601 AATTTAAGTA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
9 4 0.11
10 33 0.89
ACGTcount: A:0.24, C:0.09, G:0.04, T:0.63
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:29523057 original size:33 final size:33
Alignment explanation
Indices: 29523019--29523213 Score: 191
Period size: 33 Copynumber: 6.0 Consensus size: 33
29523009 TTCTTTCTGA
*
29523019 ATGGTACACACAAAGTATACCCTTCCTTTTCAT
1 ATGGTACACACAAAGTATACCTTTCCTTTTCAT
*
29523052 ATGGTATACACAAAGTATACCTTTCCTTTTCAT
1 ATGGTACACACAAAGTATACCTTTCCTTTTCAT
*
29523085 ATGGTATACACAAAGTATACCTTTCCTTTTCA-
1 ATGGTACACACAAAGTATACCTTTCCTTTTCAT
** * **
29523117 A-GTGTACACACAAAGTGCACATAACCTTTTCA-
1 ATG-GTACACACAAAGTATACCTTTCCTTTTCAT
* * * **
29523149 A-GTGTACATACAAAGTGTACATAACCTTTTCAT
1 ATG-GTACACACAAAGTATACCTTTCCTTTTCAT
* * **
29523182 GTGGTATACACAAAGTATACCTAACCTTTTCA
1 ATGGTACACACAAAGTATACCTTTCCTTTTCA
29523214 CATTCGATAG
Statistics
Matches: 144, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
31 1 0.01
32 54 0.38
33 88 0.61
34 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (33 bp):
ATGGTACACACAAAGTATACCTTTCCTTTTCAT
Found at i:29523145 original size:32 final size:32
Alignment explanation
Indices: 29523109--29523213 Score: 147
Period size: 32 Copynumber: 3.2 Consensus size: 32
29523099 GTATACCTTT
*
29523109 CCTTTTCAAGTGTACACACAAAGTGCACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
*
29523141 CCTTTTCAAGTGTACATACAAAGTGTACATAA
1 CCTTTTCAAGTGTACACACAAAGTGTACATAA
* * * *
29523173 CCTTTTCATGTGGTATACACAAAGTATACCTAA
1 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
29523206 CCTTTTCA
1 CCTTTTCA
29523214 CATTCGATAG
Statistics
Matches: 65, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
32 40 0.62
33 25 0.38
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.31
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACACAAAGTGTACATAA
Found at i:29523248 original size:29 final size:29
Alignment explanation
Indices: 29523206--29523281 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
29523196 GTATACCTAA
29523206 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
*
29523235 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
29523264 CCTTTTCACATTCGATAG
1 CCTTTTCACATTCGATAG
29523282 GTGAAGCTAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCAAAGCTATC
Found at i:29523287 original size:29 final size:29
Alignment explanation
Indices: 29523206--29523490 Score: 149
Period size: 31 Copynumber: 9.4 Consensus size: 29
29523196 GTATACCTAA
*
29523206 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
29523235 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCGAAGCTATC
**
29523264 CCTTTTCACATTCGATAGGTGAAGCTA-C
1 CCTTTTCACATTCGATAGCCGAAGCTATC
* * * * *
29523292 CACTATTCACTGATTAGGTAGCTGGAGCTA-C
1 C-CTTTTCAC--ATTCGATAGCCGAAGCTATC
* * *
29523323 CAGTTTTCACTAATCAGGTAGCCGAAGCTA-C
1 C-CTTTTCAC-ATTC-GATAGCCGAAGCTATC
* * *
29523354 CACTTTTCACTAATCAGGTAGCTGAAGCTA-C
1 C-CTTTTCAC-ATTC-GATAGCCGAAGCTATC
*
29523385 CACTTTTCAC-TGATCAGGTAGCCGAAGCTA-C
1 C-CTTTTCACAT--TC-GATAGCCGAAGCTATC
*
29523416 CACTTTTCAC-TGATCAGGTAGCCGAAGCTA-C
1 C-CTTTTCACAT--TC-GATAGCCGAAGCTATC
*
29523447 CACTTTTCAC-TGATCAGGTAGCCGAAGCTA-C
1 C-CTTTTCACAT--TC-GATAGCCGAAGCTATC
29523478 CACTTTTCACATT
1 C-CTTTTCACATT
29523491 GCACACACAA
Statistics
Matches: 230, Mismatches: 19, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
28 2 0.01
29 60 0.26
30 3 0.01
31 164 0.71
32 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCGAAGCTATC
Found at i:29523321 original size:31 final size:31
Alignment explanation
Indices: 29523284--29523487 Score: 336
Period size: 31 Copynumber: 6.6 Consensus size: 31
29523274 TTCGATAGGT
* * *
29523284 GAAGCTACCACTATTCACTGATTAGGTAGCT
1 GAAGCTACCACTTTTCACTGATCAGGTAGCC
* * *
29523315 GGAGCTACCAGTTTTCACTAATCAGGTAGCC
1 GAAGCTACCACTTTTCACTGATCAGGTAGCC
* *
29523346 GAAGCTACCACTTTTCACTAATCAGGTAGCT
1 GAAGCTACCACTTTTCACTGATCAGGTAGCC
29523377 GAAGCTACCACTTTTCACTGATCAGGTAGCC
1 GAAGCTACCACTTTTCACTGATCAGGTAGCC
29523408 GAAGCTACCACTTTTCACTGATCAGGTAGCC
1 GAAGCTACCACTTTTCACTGATCAGGTAGCC
29523439 GAAGCTACCACTTTTCACTGATCAGGTAGCC
1 GAAGCTACCACTTTTCACTGATCAGGTAGCC
29523470 GAAGCTACCACTTTTCAC
1 GAAGCTACCACTTTTCAC
29523488 ATTGCACACA
Statistics
Matches: 162, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 162 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GAAGCTACCACTTTTCACTGATCAGGTAGCC
Found at i:29523396 original size:93 final size:93
Alignment explanation
Indices: 29523221--29523487 Score: 348
Period size: 93 Copynumber: 2.9 Consensus size: 93
29523211 TCACATTCGA
* * * * *
29523221 TAGCCAAAGCTATCC-CTTTTCAC-ATTC-GATAGCCGAAGCTATCC-CTTTTCAC-ATTC-GAT
1 TAGCCGAAGCTA-CCACTTTTCACTAATCAGGTAGCCGAAGCTA-CCACTTTTCACTAATCAGGT
* * *
29523280 AGGTGAAGCTACCACTATTCACTGATTAGG
64 AGCTGAAGCTACCACTTTTCACTGATCAGG
* * *
29523310 TAGCTGGAGCTACCAGTTTTCACTAATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAGGTAG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAGGTAG
29523375 CTGAAGCTACCACTTTTCACTGATCAGG
66 CTGAAGCTACCACTTTTCACTGATCAGG
* *
29523403 TAGCCGAAGCTACCACTTTTCACTGATCAGGTAGCCGAAGCTACCACTTTTCACTGATCAGGTAG
1 TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAGGTAG
*
29523468 CCGAAGCTACCACTTTTCAC
66 CTGAAGCTACCACTTTTCAC
29523488 ATTGCACACA
Statistics
Matches: 155, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
88 2 0.01
89 16 0.10
90 5 0.03
91 21 0.14
92 3 0.02
93 108 0.70
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (93 bp):
TAGCCGAAGCTACCACTTTTCACTAATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAGGTAG
CTGAAGCTACCACTTTTCACTGATCAGG
Found at i:29525182 original size:42 final size:41
Alignment explanation
Indices: 29525074--29525191 Score: 130
Period size: 43 Copynumber: 2.8 Consensus size: 41
29525064 GTACCAATCT
* * **
29525074 CATATCCCAAATATAGTCTTACATGTAATCTTGTATCAATGC
1 CATATCCC-AATATGGTCTTACACGTAATCTCATATCAATGC
* *
29525116 CAATAGCCCAACTATGGTCTTACACG-AAGTCTCATATCGATGC
1 C-ATATCCCAA-TATGGTCTTACACGTAA-TCTCATATCAATGC
29525159 CATATCCCAGATATGGTCTTACACGTAATCTCA
1 CATATCCCA-ATATGGTCTTACACGTAATCTCA
29525192 GTAACCCTAA
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 31 0.48
43 33 0.52
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (41 bp):
CATATCCCAATATGGTCTTACACGTAATCTCATATCAATGC
Found at i:29528052 original size:42 final size:42
Alignment explanation
Indices: 29527966--29528069 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
29527956 ACGACCTGAA
* * * * *
29527966 CACATGCCCATGTCGTTGCCCATGTGGCTCATATGAACTGGG
1 CACACGCCCATGTCGTTGCCAATGTGGCTCACACGAACTAGG
**
29528008 CACACGCCCATGTCGTTGCCAATGTGGCTCACACGGCCTAGG
1 CACACGCCCATGTCGTTGCCAATGTGGCTCACACGAACTAGG
* * *
29528050 CACACACTCATGTCCTTGCC
1 CACACGCCCATGTCGTTGCC
29528070 TGTGAGGCTC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.19, C:0.35, G:0.23, T:0.23
Consensus pattern (42 bp):
CACACGCCCATGTCGTTGCCAATGTGGCTCACACGAACTAGG
Found at i:29532318 original size:48 final size:44
Alignment explanation
Indices: 29532215--29532340 Score: 121
Period size: 48 Copynumber: 2.8 Consensus size: 44
29532205 GTGAGCCGGT
* * *
29532215 GTAAGACATGTTTGGGACATGCATCGGCTACGAGATGTGTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCTACGAGAGGTGTCAGC
* *
29532259 ATAAGATCATGTCTGGGACATGGCATTGGC-ACGTATAGAGGTGTCAGC
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCTACG---AGAGGTGTCAGC
*
29532307 GTAAGACCATGTCTGGGACATAGTATCGGC-ACGA
1 GTAAGA-CATGTCTGGGACAT-GCATCGGCTACGA
29532341 ATATGTGAGA
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
44 5 0.07
45 17 0.25
46 7 0.10
48 38 0.57
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (44 bp):
GTAAGACATGTCTGGGACATGCATCGGCTACGAGAGGTGTCAGC
Found at i:29539998 original size:94 final size:91
Alignment explanation
Indices: 29539884--29540143 Score: 262
Period size: 94 Copynumber: 2.8 Consensus size: 91
29539874 ATTTGTGTAC
* * *
29539884 CAGTGTAAGACATGTTTGGGACATGCATCGACCAT-ATTATGAGAGCCAGTGTAAGACCATGTCT
1 CAGTGTAAGACATGTCTGGGACATGCAT-GACCATGATTATGAGAGCTAGTGTAAGACCATGTTT
*
29539948 GGGACATGACATCGGC-ATTGAGATGAGAG
65 GGGACATG-CATCGGCTA-CGAGATGAG-G
* * **
29539977 CTAGTGTAAGACATGTCTGGGACATGCATTAGCC-TCAAGATGTA-AGCTAGTGTAAGA-CATGT
1 C-AGTGTAAGACATGTCTGGGACATGCATGA-CCATGATTATG-AGAGCTAGTGTAAGACCATGT
* *
29540039 TTGGGACATGCATCGGCTACGAGATGTGT
63 TTGGGACATGCATCGGCTACGAGATGAGG
* *
29540068 CAGTGTAAGACCATGTCTGGGACATGGCATTG-GCATGGATATGTGAGAGCTAGTGTAAGACCAT
1 CAGTGTAAGA-CATGTCTGGGACAT-GCA-TGACCAT-GAT-TATGAGAGCTAGTGTAAGACCAT
29540132 GTTTGGGACATG
61 GTTTGGGACATG
29540144 GCGTCGGCCT
Statistics
Matches: 139, Mismatches: 15, Indels: 24
0.78 0.08 0.13
Matches are distributed among these distances:
90 9 0.06
91 16 0.12
92 18 0.13
93 21 0.15
94 59 0.42
95 16 0.12
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (91 bp):
CAGTGTAAGACATGTCTGGGACATGCATGACCATGATTATGAGAGCTAGTGTAAGACCATGTTTG
GGACATGCATCGGCTACGAGATGAGG
Found at i:29540030 original size:46 final size:48
Alignment explanation
Indices: 29539925--29540143 Score: 238
Period size: 46 Copynumber: 4.6 Consensus size: 48
29539915 CCATATTATG
* * *
29539925 AGAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCATTGAGATG-
1 AGAGCTAGTGTAAGACCATGTCTGGGACATG-CATTGGCATCGAGATGT
* * *
29539973 AGAGCTAGTGTAAGA-CATGTCTGGGACATGCATTAGCCTCAAGATGT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGCATTGGCATCGAGATGT
* *
29540020 A-AGCTAGTGTAAGA-CATGTTTGGGACATGCATCGGC-TACGAGATGT
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGCATTGGCAT-CGAGATGT
* * *
29540066 -G-TC-AGTGTAAGACCATGTCTGGGACATGGCATTGGCATGGATATGT
1 AGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATTGGCATCGAGATGT
*
29540112 GAGAGCTAGTGTAAGACCATGTTTGGGACATG
1 -AGAGCTAGTGTAAGACCATGTCTGGGACATG
29540144 GCGTCGGCCT
Statistics
Matches: 144, Mismatches: 17, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
44 9 0.06
45 15 0.10
46 63 0.44
47 17 0.12
48 15 0.10
49 2 0.01
50 23 0.16
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (48 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGCATTGGCATCGAGATGT
Found at i:29540128 original size:50 final size:49
Alignment explanation
Indices: 29539884--29540202 Score: 203
Period size: 46 Copynumber: 6.7 Consensus size: 49
29539874 ATTTGTGTAC
* * * * *
29539884 CAGTGTAAGA-CATGTTTGGGACAT-GCATCGACCAT-ATTAT-GAGAGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCG-GCATCAATGTCGAGAGT
* **
29539930 CAGTGTAAGACCATGTCTGGGACATGACATCGGCATTGA-GAT-GAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAATG-TCGAGAGT
** *
29539977 CTAGTGTAAGA-CATGTCTGGGACAT-GCATTAGCCTCAA-GAT-GTA-AG-
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAATG-TCG-AGAGT
* * * *
29540023 CTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-T--ACG-AGATGTGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAATGTCGA-GAGT
* *
29540068 CAGTGTAAGACCATGTCTGGGACATGGCATTGGCATGGATATGT-GAGAG-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CA-ATGTCGAGAGT
* * * * *
29540117 CTAGTGTAAGACCATGTTTGGGACATGGCGTCGGCCTCAATTTCGATAGT
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAATGTCGAGAGT
29540167 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
29540203 TATACCTTAT
Statistics
Matches: 221, Mismatches: 30, Indels: 41
0.76 0.10 0.14
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 11 0.05
45 15 0.07
46 60 0.27
47 33 0.15
48 23 0.10
49 38 0.17
50 34 0.15
51 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAATGTCGAGAGT
Found at i:29540179 original size:99 final size:92
Alignment explanation
Indices: 29539979--29540202 Score: 265
Period size: 99 Copynumber: 2.4 Consensus size: 92
29539969 GATGAGAGCT
* *
29539979 AGTGTAAGA-CATGTCTGGGACAT-GCATTAGCCTCAAGATGTAAGCTAGTGTAAGACATGTTTG
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATGTAAGCTAGTGTAAGACATGTTTG
*
29540042 GGACATGCATCGGCTACGAGATGTGTC
66 GGACATGCATCGGCTACAAGATGTGTC
** *
29540069 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATGGATATGTGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATGT-A-AGCTAGTGTAAGA-CATGT
* **
29540134 TTGGGACATGGCGTCGGCCT-CAATTTCGATAGTC
63 TTGGGACAT-GCATCGG-CTACAAGAT-G-T-GTC
*
29540168 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCATTGGCAT
29540203 TATACCTTAT
Statistics
Matches: 114, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
90 9 0.08
91 14 0.12
92 13 0.11
93 1 0.01
94 13 0.11
95 14 0.12
96 9 0.08
97 3 0.03
98 1 0.01
99 37 0.32
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (92 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGATGTAAGCTAGTGTAAGACATGTTTG
GGACATGCATCGGCTACAAGATGTGTC
Found at i:29540188 original size:49 final size:50
Alignment explanation
Indices: 29540066--29540202 Score: 172
Period size: 49 Copynumber: 2.8 Consensus size: 50
29540056 TACGAGATGT
* *
29540066 GTCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATGGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGCATATGTGAGA
* * * * *
29540116 G-CTAGTGTAAGACCATGTTTGGGACATGGCGTCGGCCT-CA-ATTTCGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGCATATGT-GAGA
29540165 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
29540203 TATACCTTAT
Statistics
Matches: 74, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 3 0.04
49 38 0.51
50 33 0.45
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.26
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGCATATGTGAGA
Found at i:29542119 original size:46 final size:47
Alignment explanation
Indices: 29541972--29542335 Score: 200
Period size: 46 Copynumber: 7.7 Consensus size: 47
29541962 TTATTTGTGT
* *
29541972 GCCAGTGTAAGACATGTTTGGGACATGCATCGG-C-C-ACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATT-T-AGA
* * * * **
29542018 GCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCATTGAGA-CGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATTTAGA
* *
29542066 GCTAGTGTAAGACATGTCTGGCACATGCATCGGCCTCGAGATTTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATTTAGA
* * *
29542112 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAAATGT--A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATTTAGA
* * * *
29542157 -TCAGTGTAAGACCATGTATGGGACATGGCATCAG-CAC-AGATATGTCAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-T-T-AGA
* * * *
29542206 GCTAGTGTAAGACCATGTTTGGGACATGGCGTCGGCCTC--GATTTCGATA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATTT--AGA
* * * * * **
29542255 GTCAGTGTAAGACCATGTCTGAGACATAGCATC-GACTTGATAGAT-GA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATTTAGA
* *
29542302 GCCAGTGTAAGACCATGTTTGGGACATGTATCGG
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGG
29542336 TATTATACCC
Statistics
Matches: 246, Mismatches: 52, Indels: 39
0.73 0.15 0.12
Matches are distributed among these distances:
44 13 0.05
45 16 0.07
46 73 0.30
47 51 0.21
48 24 0.10
49 31 0.13
50 34 0.14
51 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATTTAGA
Found at i:29542249 original size:140 final size:140
Alignment explanation
Indices: 29541972--29542329 Score: 397
Period size: 140 Copynumber: 2.5 Consensus size: 140
29541962 TTATTTGTGT
* * * * *
29541972 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCA-CATTATGAGAGCCAGTGTAAGACCATTT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGATAAT--GAGCCAGTGTAAGACCATGT
* **
29542036 CTGGGACATGGCATCAGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGCACATGCATCGGCC
64 ATGGGACATGGCATCAGCACAGAGACGAGAGCTAGTGTAAGACATGTCTGGCACATGCATCGGCC
29542101 TCGAGATTT-A-A
129 TC-AGATTTCATA
*
29542112 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGA-AATGTA-TCAGTGTAAGACCATGTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGATAATG-AGCCAGTGTAAGACCATGTA
* * * * *
29542175 TGGGACATGGCATCAGCACAGATATGTCAGAGCTAGTGTAAGACCATGTTTGGGACATGGCGTCG
65 TGGGACATGGCATCAGCACAGAGACG--AGAGCTAGTGTAAGA-CATGTCTGGCACAT-GCATCG
29542240 GCCTC-GATTTCGATA
126 GCCTCAGATTTC-ATA
* * *
29542255 GTCAGTGTAAGACCATGTCTGAGACATAGCATCGACT-TGATAGATGAGCCAGTGTAAGACCATG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGATA-ATGAGCCAGTGTAAGACCATG
*
29542319 TTTGGGACATG
63 TATGGGACATG
29542330 TATCGGTATT
Statistics
Matches: 185, Mismatches: 19, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
138 38 0.21
139 1 0.01
140 56 0.30
141 13 0.07
142 11 0.06
143 12 0.06
144 16 0.09
145 10 0.05
146 28 0.15
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (140 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATGATAATGAGCCAGTGTAAGACCATGTAT
GGGACATGGCATCAGCACAGAGACGAGAGCTAGTGTAAGACATGTCTGGCACATGCATCGGCCTC
AGATTTCATA
Found at i:29544392 original size:21 final size:20
Alignment explanation
Indices: 29544366--29544405 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
29544356 GTTATAATGA
*
29544366 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTG-TGCCCTT
29544387 CCACACAGGCGTGTGCCCT
1 CCACACAGGCGTGTGCCCT
29544406 GTTTCAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCTT
Found at i:29545248 original size:6 final size:6
Alignment explanation
Indices: 29545239--29545269 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
29545229 AAATAATAAT
29545239 ATAAAC ATAAAC ATAAAC ATAAAC ATAAAC A
1 ATAAAC ATAAAC ATAAAC ATAAAC ATAAAC A
29545270 ATCATTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAC
Found at i:29562419 original size:40 final size:39
Alignment explanation
Indices: 29562328--29562438 Score: 118
Period size: 40 Copynumber: 2.8 Consensus size: 39
29562318 ATAACCATGT
* *
29562328 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
29562368 GCACGAATGCCTTCGGGTTTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
29562408 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
29562439 TAATTTCCAG
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 55 0.92
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:29576225 original size:40 final size:39
Alignment explanation
Indices: 29576105--29576271 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 39
29576095 CAATTGAATG
* *
29576105 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTG--TT
* *
29576146 -TATCCGGGCTAATA-CCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG-TGTT
* *
29576184 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-GTT
* *
29576224 ATAACCGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-GTT
29576264 ATATCCGG
1 ATATCCGG
29576272 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
38 5 0.05
39 29 0.26
40 76 0.69
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGTT
Found at i:29576236 original size:79 final size:79
Alignment explanation
Indices: 29576105--29576271 Score: 212
Period size: 79 Copynumber: 2.1 Consensus size: 79
29576095 CAATTGAATG
* * * *
29576105 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAATA-CCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTAACCGGGCTAAGACCCGAAGGCA
*
29576169 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
29576184 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATAACCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TAACCGGGCTAAGACCCGAAGGC
**
29576248 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
29576264 ATATCCGG
1 ATATCCGG
29576272 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
78 2 0.03
79 44 0.58
80 30 0.39
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTAACCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:29588126 original size:18 final size:18
Alignment explanation
Indices: 29588103--29588144 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
29588093 TTTATTATAC
**
29588103 TCATCACAGCTCATATTT
1 TCATCACAAATCATATTT
29588121 TCATCA-AAATCATATTT
1 TCATCACAAATCATATTT
*
29588138 TTATCAC
1 TCATCAC
29588145 TAATTCTACA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.40
Consensus pattern (18 bp):
TCATCACAAATCATATTT
Found at i:29594714 original size:29 final size:30
Alignment explanation
Indices: 29594681--29594741 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
29594671 CAAATAGCCG
* *
29594681 AAGCTAG-TTAACTTGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
29594710 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
29594740 AA
1 AA
29594742 ACTTCCGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:29596658 original size:42 final size:42
Alignment explanation
Indices: 29596611--29596717 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
29596601 AATTGGTCTC
29596611 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
29596653 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
29596695 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
29596718 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:29596782 original size:27 final size:28
Alignment explanation
Indices: 29596725--29596794 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
29596715 AAAATTGTAC
**
29596725 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
* *
29596753 AGCACTATGTGTGCG-AGCTGATTTTAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
29596780 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
29596795 GATTCACTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.62
28 14 0.38
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:29604066 original size:42 final size:42
Alignment explanation
Indices: 29604019--29604125 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
29604009 TATTGGTCTC
29604019 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
29604061 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
1 GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
* *
29604103 GGCACTACGTGTGCGGGTTTAAA
1 GGCACTAAGTGTGCGGGTATAAA
29604126 ATTGTACAGC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.29, C:0.15, G:0.34, T:0.22
Consensus pattern (42 bp):
GGCACTAAGTGTGCGGGTATAAATGGACACGGTGACAAGATT
Found at i:29604165 original size:28 final size:28
Alignment explanation
Indices: 29604133--29604201 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 28
29604123 AAAATTGTAC
**
29604133 AGCACTAAGTGTGCCAATTTAATTATAT
1 AGCACTAAGTGTGCCAAGCTAATTATAT
* * * *
29604161 AGCACTATGTGTG-CGAGCTGATTTTAT
1 AGCACTAAGTGTGCCAAGCTAATTATAT
29604188 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
29604202 GGATTCACTA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
27 21 0.64
28 12 0.36
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCCAAGCTAATTATAT
Found at i:29608627 original size:40 final size:40
Alignment explanation
Indices: 29608590--29608772 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
29608580 GCTACTCGTT
*
29608590 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
29608630 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
29608670 TAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* ** * * *
29608710 CGAATGCCTTC-GGATCTTAATCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
29608751 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
29608773 AGACATCATT
Statistics
Matches: 125, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 110 0.88
41 12 0.10
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:29608702 original size:80 final size:80
Alignment explanation
Indices: 29608557--29608772 Score: 223
Period size: 80 Copynumber: 2.7 Consensus size: 80
29608547 GAATCACGTA
*
29608557 CCTTCGGAGT-TTAA-CCGGATATAGCT-ACTCG-TTCAAATGCCTTCGGGACATAGCCCGGTTA
1 CCTTCGGA-TCTTAACCCGGATATAG-TAACTCGCAT-AAATGCCTTCGGGACATAGCCCGGTTA
29608618 TAGTAACTCGCACAAATG
63 TAGTAACTCGCACAAATG
* * *
29608636 CCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCATAAATGCCTTC-GGATCTTAGTCCGGATT-
1 CCTTC-GGATCTTAACCCGGATATAGTAACTCGCATAAATGCCTTCGGGA-CATAGCCCGG-TTA
*
29608698 TAGTAACTCGCACGAATG
63 TAGTAACTCGCACAAATG
* * * * *
29608716 CCTTCGGATCTTAATCCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CCTTCGGATCTTAACCCGGATATAGTAAC-TCGCATAAATGCCTTCGGGACATAGCCC
29608773 AGACATCATT
Statistics
Matches: 116, Mismatches: 11, Indels: 19
0.79 0.08 0.13
Matches are distributed among these distances:
79 16 0.14
80 87 0.75
81 13 0.11
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (80 bp):
CCTTCGGATCTTAACCCGGATATAGTAACTCGCATAAATGCCTTCGGGACATAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:29614633 original size:20 final size:20
Alignment explanation
Indices: 29614592--29614633 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
29614582 AGCACATGTA
* *
29614592 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
29614612 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
29614632 TT
1 TT
29614634 TATTTTAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.12, G:0.02, T:0.50
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:29620183 original size:29 final size:29
Alignment explanation
Indices: 29620151--29620225 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
29620141 TCATATTCAT
*
29620151 ATGGCCCATTAGGCCCAAATCACCTGTAA
1 ATGGCCCATTAGGCCCAAATCACATGTAA
* * * *
29620180 ATGGCCCCTTAGGCCTAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATGTAA
*
29620209 ATGGCCCGTTAGGCCCA
1 ATGGCCCATTAGGCCCA
29620226 GCCACATTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.24
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATGTAA
Found at i:29625192 original size:20 final size:21
Alignment explanation
Indices: 29625154--29625192 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
29625144 GTCCATTATC
*
29625154 TGTCCAGATTACATGACCCAG
1 TGTCCAGATTACATAACCCAG
*
29625175 TGTCCA-ATTATATAACCC
1 TGTCCAGATTACATAACCC
29625193 GAGCCCAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (21 bp):
TGTCCAGATTACATAACCCAG
Found at i:29627865 original size:130 final size:132
Alignment explanation
Indices: 29627654--29627903 Score: 333
Period size: 130 Copynumber: 1.9 Consensus size: 132
29627644 AGATCTGATG
* ** *
29627654 TTTGGCAATTTGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTGCGTTTGCTCAAAATAAT
1 TTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGCTCAAAATAAT
** * * * *
29627719 TGAATCTCACTTCAAAATTTTACTCATGTCTT-TTAAAATCC-CTAAAACGAAGGCGATATGCAA
66 CAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTCTAAAACGAAGGCGATATGCAA
29627782 TA
131 TA
** * *
29627784 TTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTTAAAATAAT
1 TTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGCTCAAAATAAT
* * *
29627849 CAAATATCCCTTCAAAATTTCGCTCAGGTCTTCTAAAAATCCTTTAAAACGAAGG
66 CAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTCTAAAACGAAGG
29627904 TAATGCTCTG
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
130 82 0.81
131 8 0.08
132 11 0.11
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (132 bp):
TTTGGCAATTCGCAGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGCTCAAAATAAT
CAAATATCACTTCAAAATTTCACTCAGGTCTTCTAAAAATCCTCTAAAACGAAGGCGATATGCAA
TA
Found at i:29627986 original size:131 final size:129
Alignment explanation
Indices: 29627797--29628105 Score: 291
Period size: 130 Copynumber: 2.4 Consensus size: 129
29627787 GGCAATTCGT
* * * ** * * *
29627797 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATATCCCTTC
1 GGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCATTTGTTCAAAACAATCAAATATCCCTTC
* * *
29627862 AAAATTTCGCTCAGGTCTT-CTAAAAATCCTTTAAAACGAAGGTAATGCTCTG-TGTTTGACAAC
66 AAAATTTCACTCAGGT-TTACTAAAAA-CCTTCAAAACGAAGGCAATGCTC-GATGTTTGACAA-
29627925 TTA
127 TTA
* * * * *
29627928 GGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACAGTCGAATATTCCTTT
1 GGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCATTTGTTCAAAACAATCAAATATCCCTTC
*** * * * * * *
29627993 AGGTTTTCACTCATGTTTATTAAAAACCTTCAAAACGAAGGCAATGTTCGATGTTTGGCGATTT
66 AAAATTTCACTCAGGTTTACTAAAAACCTTCAAAACGAAGGCAATGCTCGATGTTTGACAATTA
* * *
29628057 GAGAATCGA-GCCCTATCGTGCTGGGTTGTGCTTTTTCATTTGTCCAAAA
1 G-GAATC-ATGCCCTATCGTGCTGGGTTGTGATTTCTCATTTGTTCAAAA
29628106 TAACCGAATA
Statistics
Matches: 145, Mismatches: 29, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
129 4 0.03
130 71 0.49
131 70 0.48
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (129 bp):
GGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCATTTGTTCAAAACAATCAAATATCCCTTC
AAAATTTCACTCAGGTTTACTAAAAACCTTCAAAACGAAGGCAATGCTCGATGTTTGACAATTA
Found at i:29638838 original size:11 final size:11
Alignment explanation
Indices: 29638822--29638851 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
29638812 TCTGAAATCT
29638822 AAAAAAATAAA
1 AAAAAAATAAA
29638833 AAAAAAATAAA
1 AAAAAAATAAA
29638844 AATAAAAA
1 AA-AAAAA
29638852 ATACGGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (11 bp):
AAAAAAATAAA
Found at i:29639928 original size:132 final size:132
Alignment explanation
Indices: 29639690--29640120 Score: 585
Period size: 132 Copynumber: 3.3 Consensus size: 132
29639680 GCGAATCCAG
* *
29639690 CAGATTTGGCGTCTCTGCATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATATT
1 CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATGTT
* *
29639755 GGCAGAGAGCAGATCAAAGATAGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
66 GACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
29639820 AA
131 AA
* * * * * *
29639822 TAGATTTGGCGTCTCTATATTGTCAGAG-GTTAGATCGAAGATAGCAGATTTGGCATCTTTGTGT
1 CAGATTTGGCGTCTCTGTATTGGCAGAGAG-CAGATCGAAGATAGCAGATTTGGCATCTCTATGT
* * * * * *
29639886 TGACGGAGAGCAAATCAAAGATAACAGATTTGGCGTCTCTGTATTGTCAGAGGGAAGATCGAAGA
65 TGACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGA
*
29639951 TAG
130 TAA
* * * * *
29639954 CAAATTAGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGGTAGCAGATTTGGCATCTCTATGTT
1 CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATGTT
* * * * *
29640019 GACAGAGAGCAGATCGAAGATAGTAGATTTGGCGCCTCTGTATTGGCGGATAGCAGATCGAAGAT
66 GACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
29640084 AA
131 AA
* *
29640086 CAGACTTGGCATCTCTGTATTGGCAGAGAGCAGAT
1 CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGAT
29640121 AAAAAATAAC
Statistics
Matches: 252, Mismatches: 45, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
131 1 0.00
132 250 0.99
133 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (132 bp):
CAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATGTT
GACAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGAT
AA
Found at i:29640133 original size:44 final size:44
Alignment explanation
Indices: 29639688--29640120 Score: 517
Period size: 44 Copynumber: 9.8 Consensus size: 44
29639678 TGGCGAATCC
* *
29639688 AGCAGATTTGGCGTCTCTGCATTGGCAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* *
29639732 AGCAGATTTGGCATCTCTATATTGGCAGAGAGCAGATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
29639776 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
** * * * *
29639820 AATAGATTTGGCGTCTCTATATTGTCAGAG-GTTAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAG-CAGATCGAAGAT
* * * * * *
29639864 AGCAGATTTGGCATCTTTGTGTTGACGGAGAGCAAATCAAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* * * * *
29639908 AACAGATTTGGCGTCTCTGTATTGTCAGAGGGAAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* * * * * *
29639952 AGCAAATTAGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGGT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* * *
29639996 AGCAGATTTGGCATCTCTATGTTGACAGAGAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* ** * *
29640040 AGTAGATTTGGCGCCTCTGTATTGGCGGATAGCAGATCGAAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
* *
29640084 AACAGACTTGGCATCTCTGTATTGGCAGAGAGCAGAT
1 AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGAT
29640121 AAAAAATAAC
Statistics
Matches: 321, Mismatches: 66, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
43 1 0.00
44 319 0.99
45 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
AGCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATCGAAGAT
Found at i:29640476 original size:19 final size:19
Alignment explanation
Indices: 29640462--29640505 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
29640452 ATAACCTGAG
*
29640462 CCCAATAGCTAAACCTAGA
1 CCCAATAACTAAACCTAGA
29640481 CCCAATAACTAAACCTAGA
1 CCCAATAACTAAACCTAGA
*
29640500 TCCAAT
1 CCCAAT
29640506 TTGAAAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.43, C:0.32, G:0.07, T:0.18
Consensus pattern (19 bp):
CCCAATAACTAAACCTAGA
Found at i:29643203 original size:130 final size:132
Alignment explanation
Indices: 29642984--29643220 Score: 318
Period size: 130 Copynumber: 1.8 Consensus size: 132
29642974 GGCGATTTGC
* ** * *
29642984 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTATGTTTGCTCAAAATAATCGAATCTCACTTC
1 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCACATTTGCTCAAAATAATCAAATATCACTTC
* *
29643049 AAAATGTTACTCATCTCTT-TTAAAATCC-CTAAAACGAAGGCGATATGCGATATTTGGCAATTC
66 AAAATGTTACTCAGCTCTTCTAAAAATCCTCTAAAACGAAGGCGATATGCGATATTTGGCAATTC
29643112 GT
131 GT
* * * *
29643114 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATATCCCTTC
1 GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCACATTTGCTCAAAATAATCAAATATCACTTC
* * *
29643179 AAAAT-TTCGCTCAGGTCTTCTAAAAATCCTTTAAAACGAAGG
66 AAAATGTT-ACTCAGCTCTTCTAAAAATCCTCTAAAACGAAGG
29643221 TAATGCTTTG
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
129 2 0.02
130 69 0.77
131 8 0.09
132 11 0.12
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (132 bp):
GGAATCGTGCCCTAACGTGTTGGGTTGCAATTTCACATTTGCTCAAAATAATCAAATATCACTTC
AAAATGTTACTCAGCTCTTCTAAAAATCCTCTAAAACGAAGGCGATATGCGATATTTGGCAATTC
GT
Found at i:29646759 original size:46 final size:46
Alignment explanation
Indices: 29646658--29646828 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
29646648 TTTGTGTGCT
* * * * * *
29646658 AGTGTAAGACCATGTATGGGACATGGCATC-GGCATTGAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCA-CGAGATGAGAGCC
*
29646706 AGTGTAAGACATGTTTGGGACATGCATCAGCCAC-AGTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAG-ATGAGAGCC
* * **
29646752 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTTAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCC
* * *
29646798 AATGTCAGACATGTCTGGGACATGCGTCAGC
1 AGTGTAAGACATGTCTGGGACATGCATCAGC
29646829 ACGGTTACAT
Statistics
Matches: 105, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
45 2 0.02
46 76 0.72
47 18 0.17
48 9 0.09
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACGAGATGAGAGCC
Found at i:29646809 original size:92 final size:94
Alignment explanation
Indices: 29646658--29646828 Score: 220
Period size: 92 Copynumber: 1.8 Consensus size: 94
29646648 TTTGTGTGCT
* * * * *
29646658 AGTGTAAGACCATGTATGGGACATGGCATCGGCATTGAGACGAGGGCTAGTGTAAGACATGTTTG
1 AGTGTAAGACCATGTATGGGACATGGCATCGGCATCGAGACGAGAGCCAATGTAAGACATGTCTG
29646723 GGACATGCATCAGCCACAGTATGAGAGCC
66 GGACATGCATCAGCCACAGTATGAGAGCC
* * * ** *
29646752 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGTTAGCCAATGTCAGACATGTCTG
1 AGTGTAAGACCATGTATGGGACATGGCATCGGCATCGAGACGAGAGCCAATGTAAGACATGTCTG
*
29646815 GGACATGCGTCAGC
66 GGACATGCATCAGC
29646829 ACGGTTACAT
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
92 43 0.66
93 13 0.20
94 9 0.14
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (94 bp):
AGTGTAAGACCATGTATGGGACATGGCATCGGCATCGAGACGAGAGCCAATGTAAGACATGTCTG
GGACATGCATCAGCCACAGTATGAGAGCC
Found at i:29649089 original size:17 final size:18
Alignment explanation
Indices: 29649047--29649095 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
29649037 AGTTGAAAAG
29649047 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
29649066 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
29649083 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
29649096 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:29649984 original size:40 final size:40
Alignment explanation
Indices: 29649918--29650084 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
29649908 AAATTGAATG
* * *
29649918 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
29649957 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
29649997 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
29650037 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
29650077 ATATCCGG
1 ATATCCGG
29650085 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:29657088 original size:17 final size:18
Alignment explanation
Indices: 29657046--29657094 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
29657036 AGTTGAAAAG
29657046 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
29657065 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
29657082 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
29657095 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:29657978 original size:40 final size:40
Alignment explanation
Indices: 29657912--29658078 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
29657902 AAATTGAATG
* * *
29657912 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
29657951 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
29657991 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
29658031 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
29658071 ATATCCGG
1 ATATCCGG
29658079 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:29659829 original size:27 final size:27
Alignment explanation
Indices: 29659776--29659829 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
29659766 ATATATAATT
* * *
29659776 ATTATAAAATAATTATTTTGTACTTAA
1 ATTATAAAATAATCAATTTGTAATTAA
29659803 ATTATTAAAATAATCAATTT-TAATTAA
1 ATTA-TAAAATAATCAATTTGTAATTAA
29659830 TTTTATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (27 bp):
ATTATAAAATAATCAATTTGTAATTAA
Found at i:29659837 original size:22 final size:21
Alignment explanation
Indices: 29659812--29659854 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
29659802 AATTATTAAA
29659812 ATAATCAATTTTAATTAATTTT
1 ATAATCAATTTTAATT-ATTTT
* *
29659834 ATAATTAATTTTGATTATTTT
1 ATAATCAATTTTAATTATTTT
29659855 CGATAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATAATCAATTTTAATTATTTT
Found at i:29664173 original size:30 final size:31
Alignment explanation
Indices: 29664113--29664174 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
29664103 TTTTTTCTTA
* *
29664113 TTATTCTTTCTATTTGTTTTTATTATTATGT
1 TTATTCTTTCTATTTGTTATTATTACTATGT
*
29664144 TTATTACTTT-TA-TTGTTATTATTGCTATGT
1 TTATT-CTTTCTATTTGTTATTATTACTATGT
29664174 T
1 T
29664175 ATTTAGCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.59
31 7 0.26
32 4 0.15
ACGTcount: A:0.18, C:0.06, G:0.08, T:0.68
Consensus pattern (31 bp):
TTATTCTTTCTATTTGTTATTATTACTATGT
Found at i:29669297 original size:16 final size:16
Alignment explanation
Indices: 29669278--29669309 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29669268 AATTGTTTTA
29669278 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
29669294 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
29669310 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:29671946 original size:23 final size:23
Alignment explanation
Indices: 29671916--29671963 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
29671906 ATATAGAAGT
29671916 TAAATAAAACATCACATGTAACC
1 TAAATAAAACATCACATGTAACC
29671939 TAAATAAAACATCACATGTAACC
1 TAAATAAAACATCACATGTAACC
29671962 TA
1 TA
29671964 TAGTTCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.21, G:0.04, T:0.23
Consensus pattern (23 bp):
TAAATAAAACATCACATGTAACC
Found at i:29682739 original size:71 final size:72
Alignment explanation
Indices: 29682663--29682801 Score: 226
Period size: 72 Copynumber: 1.9 Consensus size: 72
29682653 CAGTAACGGA
* *
29682663 AAATGATTAGTGGTGATTGTTTT-TTATTTTTCAAAAGTTGAGAGACTGAATTGAAACTTGAGTA
1 AAATGATTAGTGGTGACTGTTTTGTTATTTTTCAAAAGTTGAGAGACTGAATTGAAACCTGAGTA
29682727 ACTGCGG
66 ACTGCGG
* * *
29682734 AAATGATTAGTGGTGACTGTTTTGTTATTTTTCGAAAGTTGAGTGACTGAATTGAAACCTGGGTA
1 AAATGATTAGTGGTGACTGTTTTGTTATTTTTCAAAAGTTGAGAGACTGAATTGAAACCTGAGTA
29682799 ACT
66 ACT
29682802 ATTTTGTCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 22 0.35
72 40 0.65
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.38
Consensus pattern (72 bp):
AAATGATTAGTGGTGACTGTTTTGTTATTTTTCAAAAGTTGAGAGACTGAATTGAAACCTGAGTA
ACTGCGG
Found at i:29683395 original size:2 final size:2
Alignment explanation
Indices: 29683388--29683418 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
29683378 CAAAATAAAA
29683388 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
29683419 ATAAACTTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:29692993 original size:25 final size:25
Alignment explanation
Indices: 29692959--29693009 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
29692949 CAACCATTGT
29692959 TTTTTCTTATTAAGTACTCTATAGA
1 TTTTTCTTATTAAGTACTCTATAGA
29692984 TTTTTCTTATTAAGTACTCTATAGA
1 TTTTTCTTATTAAGTACTCTATAGA
29693009 T
1 T
29693010 CTTGATGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (25 bp):
TTTTTCTTATTAAGTACTCTATAGA
Found at i:29696587 original size:421 final size:421
Alignment explanation
Indices: 29695803--29696647 Score: 1523
Period size: 421 Copynumber: 2.0 Consensus size: 421
29695793 TTTTTGGTAG
* *
29695803 TTTAGTTTTAGTGTTTGTGAGTTTAATTGAGAAAAAGAACTAAATCACATAAAGTGCAAAAGTCC
1 TTTAGTTTTAGCGTTTGTGAGCTTAATTGAGAAAAAGAACTAAATCACATAAAGTGCAAAAGTCC
* *
29695868 CATTTTGATAGCTGAGCGTTTCAAATAGCTAAAGAACCTAAATTGGGGGTCTTTAAAGGGCAATT
66 CATTTTGATAGCTAAGCGTGTCAAATAGCTAAAGAACCTAAATTGGGGGTCTTTAAAGGGCAATT
* *
29695933 AGACCCTTTAATGAGGCATGGCTGGCCATAGGAGACAAAGATGGTCAACAAGTCAAAGTTTGGTG
131 AGACCCTTTAAAGAGGCATGGCTAGCCATAGGAGACAAAGATGGTCAACAAGTCAAAGTTTGGTG
29695998 GGTTTGGTGAATAGATTGACTAAAATAAAATAAAACAAAGAGACAATTATATCATATTTTCTCTC
196 GGTTTGGTGAATAGATTGACTAAAATAAAATAAAACAAAGAGACAATTATATCATATTTTCTCTC
29696063 ATCTTCTTCCCACCGAAAATATCAGCCATAAGAGGGGTTTTGAAGCTTGAAAAATTTCAGCCACT
261 ATCTTCTTCCCACCGAAAATATCAGCCATAAGAGGGGTTTTGAAGCTTGAAAAATTTCAGCCACT
**
29696128 TAGTCTCTCTACAAGTAAGTGATCTTGATGGTTTTTCTTGATTTTTTTTGTACTTTTAAAACCCT
326 TAGTCTCTCTACAAGTAAGTGATCTTGATGGTTTTTCTTGATGATTTTTGTACTTTTAAAACCCT
*
29696193 TGTAGCATGAGCTTTCAAATAAGGGGACTAT
391 TGTAGCATGAACTTTCAAATAAGGGGACTAT
*
29696224 TTTAGTTTTAGCGTTTGTGAGCTTAATTGAGAAAAA-AGACTAAATCGCATAAAGTGCAAAAGTC
1 TTTAGTTTTAGCGTTTGTGAGCTTAATTGAGAAAAAGA-ACTAAATCACATAAAGTGCAAAAGTC
* *
29696288 CCATTTTGATAGCTAAAG-GTGTCAAATAGCTAGAGAACCTAAATTGGGGGTCTTTAAAGGGTAA
65 CCATTTTGATAGCT-AAGCGTGTCAAATAGCTAAAGAACCTAAATTGGGGGTCTTTAAAGGGCAA
*
29696352 TTAGACCCTTTAAAGAGGCATTGCTAGCCATAGGAGACAAAGATGGTCAACAAGTCAAAGTTTGG
129 TTAGACCCTTTAAAGAGGCATGGCTAGCCATAGGAGACAAAGATGGTCAACAAGTCAAAGTTTGG
29696417 TGGGTTTGGTGAATAGATTGACTAAAATAAAATAAAACAAAGAGACAATTATATCATATTTTCTC
194 TGGGTTTGGTGAATAGATTGACTAAAATAAAATAAAACAAAGAGACAATTATATCATATTTTCTC
*
29696482 TCATCTTCTTCCCACCGAAAATATCAGCCATAAGAGGGGTTTTGAAGCTTGAAAAATTTCAGTCA
259 TCATCTTCTTCCCACCGAAAATATCAGCCATAAGAGGGGTTTTGAAGCTTGAAAAATTTCAGCCA
*
29696547 CTTAGTCTCTCTACAAGTAAGTGATCTTGATGGTTTTTCTTGATGATTTTTGTACTTTTAGAACC
324 CTTAGTCTCTCTACAAGTAAGTGATCTTGATGGTTTTTCTTGATGATTTTTGTACTTTTAAAACC
29696612 CTTGTAGCATGAACTTTCAAATAAGGGGACTAT
389 CTTGTAGCATGAACTTTCAAATAAGGGGACTAT
29696645 TTT
1 TTT
29696648 GCAAAATGGT
Statistics
Matches: 407, Mismatches: 15, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
420 1 0.00
421 404 0.99
422 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (421 bp):
TTTAGTTTTAGCGTTTGTGAGCTTAATTGAGAAAAAGAACTAAATCACATAAAGTGCAAAAGTCC
CATTTTGATAGCTAAGCGTGTCAAATAGCTAAAGAACCTAAATTGGGGGTCTTTAAAGGGCAATT
AGACCCTTTAAAGAGGCATGGCTAGCCATAGGAGACAAAGATGGTCAACAAGTCAAAGTTTGGTG
GGTTTGGTGAATAGATTGACTAAAATAAAATAAAACAAAGAGACAATTATATCATATTTTCTCTC
ATCTTCTTCCCACCGAAAATATCAGCCATAAGAGGGGTTTTGAAGCTTGAAAAATTTCAGCCACT
TAGTCTCTCTACAAGTAAGTGATCTTGATGGTTTTTCTTGATGATTTTTGTACTTTTAAAACCCT
TGTAGCATGAACTTTCAAATAAGGGGACTAT
Found at i:29697463 original size:46 final size:44
Alignment explanation
Indices: 29697284--29697462 Score: 171
Period size: 46 Copynumber: 3.9 Consensus size: 44
29697274 TTTGTGTGCT
* * *
29697284 AGTGTAAGACATGTTTGGGACATGCATCAG-TCACATTATGAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCT-AGA-GATGAAGCC
* * * *
29697329 AGTGTAAGACCATTTTTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGC-TAGAGATGA-AGCC
* * * *
29697377 ACTGTAAGGCATGTCTGAGACATGCATCGGCCTAGAGATGTAAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGG-CTAGAGATG-AAGCC
29697423 AGTGTAAGACATGTTTGGGACATGCATCGGCTATGAGATG
1 AGTGTAAGACATGTTTGGGACATGCATCGGCTA-GAGATG
29697463 TGTCAGTGTA
Statistics
Matches: 107, Mismatches: 19, Indels: 15
0.76 0.13 0.11
Matches are distributed among these distances:
45 12 0.11
46 61 0.57
47 22 0.21
48 11 0.10
49 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCTAGAGATGAAGCC
Found at i:29697541 original size:48 final size:45
Alignment explanation
Indices: 29697422--29697541 Score: 109
Period size: 48 Copynumber: 2.6 Consensus size: 45
29697412 AGATGTAAGC
* * * *
29697422 CAGTGTAAGACATGTTTGGGACAT-GCATCGGCTATGAGATGTGT
1 CAGTGTAAGCCATGTTTGGGACATGGCATCGACTATGAAAGGTGT
* * * *
29697466 CAGTGTAAAACCATGTCTAGGATATGGCATCAGCACGTAT-AAAGGTGT
1 CAGTGT-AAGCCATGTTTGGGACATGGCATC-G-AC-TATGAAAGGTGT
29697514 CAGTGTAAGGCCATGTTTGGGACATGGC
1 CAGTGTAA-GCCATGTTTGGGACATGGC
29697542 GTCGGCCTCG
Statistics
Matches: 58, Mismatches: 12, Indels: 8
0.74 0.15 0.10
Matches are distributed among these distances:
44 6 0.10
45 13 0.22
46 5 0.09
47 3 0.05
48 28 0.48
49 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.27
Consensus pattern (45 bp):
CAGTGTAAGCCATGTTTGGGACATGGCATCGACTATGAAAGGTGT
Found at i:29698562 original size:28 final size:28
Alignment explanation
Indices: 29698516--29698585 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
29698506 ACATGGGTTA
29698516 GGACACGGGCGTGTCATGG-CGATGTGAG
1 GGACACGGGCGTGTCATGGCCG-TGTGAG
* *
29698544 GGATACGGGCGTGTTATGGCCGTGTGAG
1 GGACACGGGCGTGTCATGGCCGTGTGAG
*
29698572 GGACACGGGTGTGT
1 GGACACGGGCGTGT
29698586 GTCAGGCCAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
28 35 0.95
29 2 0.05
ACGTcount: A:0.16, C:0.16, G:0.47, T:0.21
Consensus pattern (28 bp):
GGACACGGGCGTGTCATGGCCGTGTGAG
Found at i:29701698 original size:21 final size:19
Alignment explanation
Indices: 29701657--29701701 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
29701647 GTTCCAATTG
* *
29701657 AGTTAAACATTTTCAATCA
1 AGTTAAACATTTTAAAACA
29701676 AGTTACAACTATTTTAAAACA
1 AGTTA-AAC-ATTTTAAAACA
29701697 AGTTA
1 AGTTA
29701702 GTATTGCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 3 0.14
21 14 0.64
ACGTcount: A:0.44, C:0.13, G:0.07, T:0.36
Consensus pattern (19 bp):
AGTTAAACATTTTAAAACA
Found at i:29701842 original size:21 final size:22
Alignment explanation
Indices: 29701818--29701859 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
29701808 CAATAAATTA
*
29701818 CAAAAAGTATCGGTA-ATTTTT
1 CAAAAAGTATCGATACATTTTT
29701839 CAAAAAGTATCGATACATTTT
1 CAAAAAGTATCGATACATTTT
29701860 ACCAAGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (22 bp):
CAAAAAGTATCGATACATTTTT
Found at i:29704193 original size:48 final size:48
Alignment explanation
Indices: 29704132--29704410 Score: 275
Period size: 48 Copynumber: 5.8 Consensus size: 48
29704122 CAGCCACATT
* * *
29704132 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAG
* * * * * *
29704180 ATGAGAGCTAGTGTAAAACCATGTCTAGGACATGGGATCGGCCTCGAG
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAG
* *
29704228 -TTATGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TATGAG
1 ATGA-GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACAT-TGAG
* * * ** *
29704276 AT--GTGTCAGTGTAAGACCATATCTAGGACATGGCATCGACACAGAT
1 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAG
*
29704322 ATGTGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TT--G
1 A--TGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAG
* *
29704369 ATGTATGAGCCAGTGTAAGACCATGTCTGGGGCATGGCATCG
1 ATG-A-GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
29704411 GCATCCTACC
Statistics
Matches: 194, Mismatches: 27, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
45 2 0.01
46 38 0.20
47 39 0.20
48 80 0.41
49 1 0.01
50 34 0.18
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGAG
Found at i:29704248 original size:96 final size:96
Alignment explanation
Indices: 29704095--29704412 Score: 316
Period size: 96 Copynumber: 3.3 Consensus size: 96
29704085 CATGTGTGCT
* * * *
29704095 AGTGTAAGA-CATGCCTGGGACAT-TCATCAGCCAC--AT-TATGAGAGCCAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACAGATATAT-AGAGCCAGTGTAAGACCATG
* *
29704155 TTTGGGACATGGCATCGGCATTGAGATGAGAGC
65 TCTGGGACATGGCATCGAC-TTGAGATGAGAGC
* * * *
29704188 TAGTGTAAAACCATGTCTAGGACATGGGATCGGCCTC-GAGT-TAT-GAGCTAGTGTAAGACCAT
1 -AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACAGA-TATATAGAGCCAGTGTAAGACCAT
* * *
29704250 GTCTAGGACATGGCATCGACTATGAGATGTG-TC
64 GTCTGGGACATGGCATCGACT-TGAGATGAGAGC
* * *
29704283 AGTGTAAGACCATATCTAGGACATGGCATC-GACACAGATATGTGAGAGCCAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACAGATATAT-AGAGCCAGTGTAAGACCATG
*
29704347 TCTGGGACATGGCATCGACTTGATGTATGAG-CC
65 TCTGGGACATGGCATCGACTTGA-G-ATGAGAGC
* *
29704380 AGTGTAAGACCATGTCTGGGGCATGGCATCGGC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGC
29704413 ATCCTACCCT
Statistics
Matches: 185, Mismatches: 27, Indels: 20
0.80 0.12 0.09
Matches are distributed among these distances:
93 4 0.02
94 39 0.21
95 17 0.09
96 87 0.47
97 33 0.18
98 5 0.03
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACAGATATATAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCGACTTGAGATGAGAGC
Found at i:29704407 original size:143 final size:142
Alignment explanation
Indices: 29704140--29704410 Score: 357
Period size: 143 Copynumber: 1.9 Consensus size: 142
29704130 TTATGAGAGC
* * * * ** *
29704140 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGATGAGAGCTAGTGTAAAACCATGTC
1 CAGTGTAAGACCATATCTAGGACATGGCATCGACACAGAGATGAGAGCCAGTGTAAAACCATGTC
* * *
29704205 TAGGACATGGGATCGGCCTCGAGTTATGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCGAC
66 TAGGACATGGCATCGGACTCGAGTTATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
29704270 TATGAGATGTGT
131 TATGAGATGTGT
* *
29704282 CAGTGTAAGACCATATCTAGGACATGGCATCGACACAGATATGTGAGAGCCAGTGTAAGACCATG
1 CAGTGTAAGACCATATCTAGGACATGGCATCGACACAGAGA--TGAGAGCCAGTGTAAAACCATG
* * * *
29704347 TCTGGGACATGGCATC-GACTTGA-TGTATGAGCCAGTGTAAGACCATGTCTGGGGCATGGCATC
64 TCTAGGACATGGCATCGGACTCGAGT-TATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
29704410 G
128 G
29704411 GCATCCTACC
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
142 35 0.32
143 41 0.37
144 34 0.31
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (142 bp):
CAGTGTAAGACCATATCTAGGACATGGCATCGACACAGAGATGAGAGCCAGTGTAAAACCATGTC
TAGGACATGGCATCGGACTCGAGTTATGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
TATGAGATGTGT
Found at i:29710034 original size:6 final size:6
Alignment explanation
Indices: 29710011--29710045 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
29710001 TTCCAAATTA
29710011 TTTCAT TTCTCTAT TTTCAT TTTCAT TTTCAT TTT
1 TTTCAT TT-TC-AT TTTCAT TTTCAT TTTCAT TTT
29710046 GGTGAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTCAT
Found at i:29715319 original size:38 final size:38
Alignment explanation
Indices: 29715277--29715353 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
29715267 TAATTAATGT
29715277 TCAATTCATTTCTAAAGTAACTCCCAAAAATATAATAA
1 TCAATTCATTTCTAAAGTAACTCCCAAAAATATAATAA
*
29715315 TCAATTCATTTCTAAAGTAACTCCTAAAAATATAATAA
1 TCAATTCATTTCTAAAGTAACTCCCAAAAATATAATAA
29715353 T
1 T
29715354 AATATTTTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.47, C:0.17, G:0.03, T:0.34
Consensus pattern (38 bp):
TCAATTCATTTCTAAAGTAACTCCCAAAAATATAATAA
Found at i:29717857 original size:27 final size:28
Alignment explanation
Indices: 29717827--29717926 Score: 121
Period size: 27 Copynumber: 3.5 Consensus size: 28
29717817 ATAGTGAGTC
29717827 CGCACACTTAGTGCTATAAAATC-AACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* *
29717854 CGCACACCTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
29717882 CGCACACTTAGTGCTGTACAAATTTAAAACC
1 CGCACACTTAGTGCTATA-AAA--TCAAACT
29717913 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29717927 AATCTCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
27 21 0.34
28 20 0.32
29 2 0.03
31 19 0.31
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Done.