Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 1 of 290
Found at i:1665 original size:40 final size:40
Alignment explanation
Indices: 1274--1656 Score: 550
Period size: 40 Copynumber: 9.6 Consensus size: 40
1264 CCAGCATGAT
* * * * *
1274 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * * *
1314 TGCTCTTCGGGGTTTAGCACGAATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
1354 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1394 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1434 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
1474 TGCTCTTTGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
1514 TGCTCTTCGGAACTTAGTCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
1554 TGCTCTTCGAAACTTTGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
1594 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
1634 TGCTCTTCGGGATTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
1657 CATTTCACTC
Statistics
Matches: 311, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 311 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:1823 original size:23 final size:23
Alignment explanation
Indices: 1797--1842 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1787 AAATCACATT
*
1797 TATAGTCATAACACTCTTTCAAA
1 TATAGTCATAACACGCTTTCAAA
*
1820 TATAGTCATAACCCGCTTTCAAA
1 TATAGTCATAACACGCTTTCAAA
1843 ATTGCATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (23 bp):
TATAGTCATAACACGCTTTCAAA
Found at i:2996 original size:47 final size:47
Alignment explanation
Indices: 2918--3095 Score: 257
Period size: 47 Copynumber: 3.7 Consensus size: 47
2908 CCCTTCGGGA
* * * * *
2918 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
2965 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
3012 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
3061 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
3096 CGAATCCTAA
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 72 0.62
49 45 0.38
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:3080 original size:96 final size:94
Alignment explanation
Indices: 2918--3097 Score: 279
Period size: 96 Copynumber: 1.9 Consensus size: 94
2908 CCCTTCGGGA
* * *
2918 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTAGGCCCTATCACATATATACAC
2983 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * * *
3012 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATTGGCCACTAGGCCCTATCACATATATAC
3077 ACTTTCACATTCATCACATCG
64 ACTTTCACATTCATCACATCG
3098 AATCCTAAAT
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
94 10 0.13
95 1 0.01
96 66 0.86
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:6037 original size:43 final size:43
Alignment explanation
Indices: 5963--6140 Score: 184
Period size: 43 Copynumber: 4.2 Consensus size: 43
5953 ATATCACATA
* *
5963 AATCTCATA-CAATGCC-ATATCCCAGATATGGTCTTACATGT
1 AATCTCATATCAATGCCAATGTCCCAGACATGGTCTTACATGT
* * * *
6004 TATCTCATATCGATGCCAATGTCCCAGTCATGGTCTTACATGA
1 AATCTCATATCAATGCCAATGTCCCAGACATGGTCTTACATGT
* * * * *
6047 AATCAT-ATAACGATGCCAATGTCCAAAACATGGTCTTACACGT
1 AATC-TCATATCAATGCCAATGTCCCAGACATGGTCTTACATGT
* * *
6090 AATCACA-ATACAATGCCAATGTCCCAGACATGGTTTTAGATGT
1 AATCTCATAT-CAATGCCAATGTCCCAGACATGGTCTTACATGT
6133 AATCTCAT
1 AATCTCAT
6141 CTCGGCAATC
Statistics
Matches: 109, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
41 8 0.07
42 7 0.06
43 93 0.85
44 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.30
Consensus pattern (43 bp):
AATCTCATATCAATGCCAATGTCCCAGACATGGTCTTACATGT
Found at i:8300 original size:21 final size:21
Alignment explanation
Indices: 8266--8311 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
8256 GTTTAGGCCA
* * *
8266 TGTG-AAGAGTCACATGGCTG
1 TGTGAAAGAGGCACACGACTG
8286 TGTGAAAGAGGCACACGACTG
1 TGTGAAAGAGGCACACGACTG
8307 TGTGA
1 TGTGA
8312 CCAAGTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.28, C:0.15, G:0.35, T:0.22
Consensus pattern (21 bp):
TGTGAAAGAGGCACACGACTG
Found at i:10008 original size:48 final size:50
Alignment explanation
Indices: 9953--10171 Score: 176
Period size: 49 Copynumber: 4.5 Consensus size: 50
9943 TGTGTCAGTT
* * **
9953 TAAGACCATGTCTAGGACATGGCATCGACACGTATA-GAG-GTGTCTA-TG
1 TAAGACCATGTCTGGGACATGGCATCGACACATATATGAGAAAG-CTAGTG
* *
10001 TAAGACCATGTCTGGGACATGGCATCAACACATATATGTGAAAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACACATATATGAGAAAGCTAGTG
* ** *
10051 TAAGACCATGTCTGGGACATGGCATCGGC-C-TCGAT-TTTGATAG-TCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACACAT--ATATGAGAAAGCT-AGTG
* *
10100 TAAGACCATGTCTGGGA-ATTGGCATC-A-AC-T-TGATG-GATGAGCCAGTG
1 TAAGACCATGTCTGGGACA-TGGCATCGACACATAT-ATGAGA-AAGCTAGTG
10147 TAAGACCATGTCTGGGACATGGCAT
1 TAAGACCATGTCTGGGACATGGCAT
10172 TGGTATTGCA
Statistics
Matches: 144, Mismatches: 14, Indels: 27
0.78 0.08 0.15
Matches are distributed among these distances:
45 1 0.01
46 2 0.01
47 30 0.21
48 39 0.27
49 40 0.28
50 32 0.22
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGACACATATATGAGAAAGCTAGTG
Found at i:10123 original size:49 final size:47
Alignment explanation
Indices: 9806--10171 Score: 195
Period size: 48 Copynumber: 7.7 Consensus size: 47
9796 CACATTATGA
* * * *
9806 GAGCAAGTGTAAGACCATGTCTGGGACCTGGCATCAGCATTGA-GACGA-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-TCGATG--GAT
* * *
9854 GAGCTAGTG-AATGA-AATGTTTGGGACAT-GCATCAACCTCAAGAT-G-T
1 GAGCCAGTGTAA-GACCATGTCTGGGACATGGCATCAA-CTC--GATGGAT
* * **
9900 AAGCCAGTGTAAGA-CATGTCTGGGACAT-TCATCGGCTACGA--GAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACT-CGATGGAT
* * * * * * * *
9944 GTGTCAGTTTAAGACCATGTCTAGGACATGGCATCGACACGTATAGAG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCG-ATGGAT
* * **
9992 GTGTCTA-TGTAAGACCATGTCTGGGACATGGCATCAACACATATATGTGA-
1 GAG-CCAGTGTAAGACCATGTCTGGGACATGGCATC-A-AC-TCGATG-GAT
* * ** *
10042 AAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATTTTGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-AACTCGA--TGGAT
* *
10092 -AGTCAGTGTAAGACCATGTCTGGGA-ATTGGCATCAACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTGGGACA-TGGCATCAACTCGATGGAT
10138 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
10172 TGGTATTGCA
Statistics
Matches: 246, Mismatches: 46, Indels: 53
0.71 0.13 0.15
Matches are distributed among these distances:
43 1 0.00
44 13 0.05
45 17 0.07
46 45 0.18
47 46 0.19
48 51 0.21
49 37 0.15
50 34 0.14
51 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAACTCGATGGAT
Found at i:16266 original size:40 final size:40
Alignment explanation
Indices: 16222--16337 Score: 133
Period size: 40 Copynumber: 2.9 Consensus size: 40
16212 GAATACATGT
* * *
16222 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* * ***
16262 CACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
* **
16302 CACTAGCACGAATGCTCTTCGGAATTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGAT
16338 TTAGTAACTC
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGAACCTAGCCCGGATATAA
Found at i:16362 original size:40 final size:40
Alignment explanation
Indices: 16238--16499 Score: 207
Period size: 40 Copynumber: 6.5 Consensus size: 40
16228 CATGATTGCT
* * * *
16238 CTTCGGGACCTAGCCCGGATATAAC-AC-CAGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTC-GCACCAATGC
** * ** * *
16277 TCTTCGGAACTTAGTCCGGATACCTC-ACTAGCACGAATGC
1 -CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
* *
16317 TCTTCGGAAT-TTAGCCCGGATTTAGT-AACTCGCACCAATGC
1 -CTTCGG-GTCTTAGCCCGGATATA-TCAACTCGCACCAATGC
* *
16358 CTTCGGGTCTTAGCCCGAATATATCAACTTGCA-CAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAA-TGC
* * *
16398 CTTCGGGTCTTAGCCCAGATATATCAATTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
* *
16438 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGC-TCAATTGC
1 CTTCGGGTCTTAGCCCGGATAT-ATCAACTCGCACCAA-TGC
*
16478 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
16500 CATTCAAATG
Statistics
Matches: 183, Mismatches: 29, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
39 7 0.04
40 157 0.86
41 19 0.10
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATATCAACTCGCACCAATGC
Found at i:16370 original size:80 final size:78
Alignment explanation
Indices: 16248--16499 Score: 233
Period size: 80 Copynumber: 3.2 Consensus size: 78
16238 CTTCGGGACC
* * ** * **
16248 TAGCCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTCACTAGCAC
1 TAGCCCGGATATATCAACTC-GCACAAATGC-CTTCGGGTCTTAGCCCGGATAAATCACTAGCAC
16311 GAA-TGCTCTTCGGAATT
64 -AATTGC-CTTCGG-ATT
* * * * *
16328 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCGGGTCTTAGCCCGAATATATCAACTTGCAC
1 TAGCCCGGATATA-TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATC-ACTAGCAC
*
16392 AATTGCCTTCGGGTCT
64 AATTGCCTTCGGAT-T
* * *
16408 TAGCCCAGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCTCA
1 TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AATCACTAGCACA
*
16473 ATTGCCTTCGGGACT
65 ATTGCCTTC-GGATT
16488 TAGCCCGGATAT
1 TAGCCCGGATAT
16500 CATTCAAATG
Statistics
Matches: 141, Mismatches: 22, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
79 2 0.01
80 112 0.79
81 26 0.18
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (78 bp):
TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCACTAGCACAA
TTGCCTTCGGATT
Found at i:16828 original size:29 final size:29
Alignment explanation
Indices: 16789--16867 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
16779 CTTAATAATC
*
16789 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
16819 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
16848 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
16868 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:16910 original size:43 final size:43
Alignment explanation
Indices: 16849--16951 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
16839 TGCATTTCAA
16849 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
16892 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
16935 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
16952 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:18865 original size:37 final size:37
Alignment explanation
Indices: 18805--18880 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
18795 TATTACGAAA
* * *
18805 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
18842 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
18879 TC
1 TC
18881 CTTAGAACTC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.22
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:19079 original size:47 final size:47
Alignment explanation
Indices: 19001--19455 Score: 685
Period size: 47 Copynumber: 9.6 Consensus size: 47
18991 CCCTTCGGGA
* * * * * *
19001 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
19048 CCTGTCACATATATACACTTTCACATTCATCACATCAGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
19095 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19142 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
19191 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19238 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19287 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
19334 CTTATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19381 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
19428 CTTATCACGCATATATACACTTTCACAT
1 CTTATCA--CATATATACACTTTCACAT
19456 ATGGGTTTAA
Statistics
Matches: 372, Mismatches: 30, Indels: 10
0.90 0.07 0.02
Matches are distributed among these distances:
47 266 0.72
49 106 0.28
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:19196 original size:96 final size:94
Alignment explanation
Indices: 19001--19455 Score: 694
Period size: 96 Copynumber: 4.8 Consensus size: 94
18991 CCCTTCGGGA
** * * * * * * *
19001 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
19066 TTTCACATTCATCACATCAGCCATTAAGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
19095 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
19160 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
19191 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
19256 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
19287 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
19352 TTTCACATTCATCACATCGGCCGTTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
19381 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACGCATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA--CATATATAC
19446 ACTTTCACAT
64 ACTTTCACAT
19456 ATGGGTTTAA
Statistics
Matches: 338, Mismatches: 19, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
94 134 0.40
96 204 0.60
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:19212 original size:143 final size:143
Alignment explanation
Indices: 19001--19455 Score: 693
Period size: 143 Copynumber: 3.2 Consensus size: 143
18991 CCCTTCGGGA
* * * * * * *
19001 CTTATCACAT-T-TATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* **
19064 ACTTTCACATTCATCACATCAGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
*
19129 TCGGCCATTAAGC
131 TCGGCCATTAGGC
* *
19142 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
19207 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATCA
*
19272 CATCGGCTATTAGGC
129 CATCGGCCATTAGGC
*
19287 CTTATCAC--ACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
19350 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
19415 TCGGCCATTAGGC
131 TCGGCCATTAGGC
**
19428 CTTATCACGCATATATACACTTTCACAT
1 CTTATCACATATATATACACTTTCACAT
19456 ATGGGTTTAA
Statistics
Matches: 287, Mismatches: 21, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
141 56 0.20
142 1 0.00
143 187 0.65
145 43 0.15
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:22630 original size:22 final size:22
Alignment explanation
Indices: 22605--22649 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
22595 GTGGAGAAGA
22605 TCAATGATAAAAGACGAAGTCC
1 TCAATGATAAAAGACGAAGTCC
*
22627 TCAATGATAAAAGATGAAGTCC
1 TCAATGATAAAAGACGAAGTCC
22649 T
1 T
22650 TTTTGTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (22 bp):
TCAATGATAAAAGACGAAGTCC
Found at i:29371 original size:48 final size:46
Alignment explanation
Indices: 29302--29571 Score: 254
Period size: 48 Copynumber: 5.7 Consensus size: 46
29292 GGTAAATTGT
* *
29302 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCACATATCGAGG
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAT-GAGG
** * * * * * *
29349 TCGATGCCATGTTTTATACATGGTCTTATACTAGCTCTCGTCTTAGTG
1 -CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATGAG-G
* *
29397 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGG
1 -CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT-ATGAGG
* * * *
29445 CTGATGCCATGTCCTAGACATGGTCTTACACTAG-TGCACATATCAACG
1 C-GATGCCATGTCCTAGACATGGTCTTACACTGGCT-CTCATAT-GAGG
* * *
29493 CGATGCCATGTCCTAGACATGGTTTTACATTGGCTCTCATAATGTGG
1 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT-ATGAGG
* *
29540 CCGATGCCATGTCCCAGTCATGGTCTTACACT
1 -CGATGCCATGTCCTAGACATGGTCTTACACT
29572 AGTGCACATA
Statistics
Matches: 176, Mismatches: 38, Indels: 16
0.77 0.17 0.07
Matches are distributed among these distances:
47 40 0.23
48 134 0.76
49 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.30
Consensus pattern (46 bp):
CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATGAGG
Found at i:29529 original size:95 final size:96
Alignment explanation
Indices: 29302--29584 Score: 340
Period size: 95 Copynumber: 3.0 Consensus size: 96
29292 GGTAAATTGT
* * **
29302 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCACAT-ATCGAGG-TCGATGCCATGTTTTA
1 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCT-GATGCCATGTCCTA
* * * * * * **
29365 TACATGGTCTTATACTAGCT-CTCGTCTTAGTGC
64 GACATGGTCTTACACTAG-TGCACATATCAACGC
*
29398 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCTAGA
1 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCTAGA
29463 CATGGTCTTACACTAGTGCACATATCAACG-
66 CATGGTCTTACACTAGTGCACATATCAACGC
* * * * * *
29493 CGATGCCATGTCCTAGACATGGTTTTACATTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGT
1 CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCTAGA
29558 CATGGTCTTACACTAGTGCACATATCA
66 CATGGTCTTACACTAGTGCACATATCA
29585 CCCAAATGTC
Statistics
Matches: 165, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
95 87 0.53
96 75 0.45
97 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (96 bp):
CGATGCCATGTCCAAGACATGGTCTTACACTGGCTCTCATAATGTGGCTGATGCCATGTCCTAGA
CATGGTCTTACACTAGTGCACATATCAACGC
Found at i:51999 original size:29 final size:29
Alignment explanation
Indices: 51966--52039 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
51956 GTTGTGAGAT
* *
51966 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
51995 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
52024 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
52040 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:58024 original size:37 final size:34
Alignment explanation
Indices: 57974--58045 Score: 81
Period size: 37 Copynumber: 2.0 Consensus size: 34
57964 AAGTGTGCCG
*
57974 TTTTTCTAACCATCTTTCCTCCTCCTCCTTTCTTTTC
1 TTTTTCTAACCATC-TACCTCCTCCT-C-TTCTTTTC
** *
58011 TTTTTCTTTCCATCTACCTTCTCCTCTTCTTTTC
1 TTTTTCTAACCATCTACCTCCTCCTCTTCTTTTC
58045 T
1 T
58046 CCATAGCCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
34 9 0.29
35 1 0.03
36 9 0.29
37 12 0.39
ACGTcount: A:0.07, C:0.36, G:0.00, T:0.57
Consensus pattern (34 bp):
TTTTTCTAACCATCTACCTCCTCCTCTTCTTTTC
Found at i:58072 original size:34 final size:34
Alignment explanation
Indices: 58046--58116 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
58036 CTTCTTTTCT
*
58046 CCATAGCCGAATCCTTCTACCACTCTTCCCTACA
1 CCATAGCCGAATCCTTCTACCACTCTTCTCTACA
*
58080 CCATAGCTGAATCCTTCTACCACTCTTCTCTACA
1 CCATAGCCGAATCCTTCTACCACTCTTCTCTACA
58114 CCA
1 CCA
58117 CTTCCTTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.24, C:0.42, G:0.06, T:0.28
Consensus pattern (34 bp):
CCATAGCCGAATCCTTCTACCACTCTTCTCTACA
Found at i:65486 original size:17 final size:17
Alignment explanation
Indices: 65464--65500 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
65454 CCCACTCATG
65464 CCATGAAAAACCTACCT
1 CCATGAAAAACCTACCT
*
65481 CCATGAAAAATCTACCT
1 CCATGAAAAACCTACCT
65498 CCA
1 CCA
65501 CGATTAACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.41, C:0.35, G:0.05, T:0.19
Consensus pattern (17 bp):
CCATGAAAAACCTACCT
Found at i:71330 original size:24 final size:23
Alignment explanation
Indices: 71285--71330 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
71275 AATATAAAAA
**
71285 AAATTATATTAAGAATTGTTATT
1 AAATTATATTAAGAATAATTATT
*
71308 AAATTATATTTAATAATAATTAT
1 AAATTATA-TTAAGAATAATTAT
71331 ATTAAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (23 bp):
AAATTATATTAAGAATAATTATT
Found at i:71580 original size:16 final size:16
Alignment explanation
Indices: 71559--71609 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
71549 TGAATTACTT
*
71559 ATTACAACCCTATTCC
1 ATTACAGCCCTATTCC
*
71575 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCC
71591 ATTACAGCCCTATTCC
1 ATTACAGCCCTATTCC
71607 ATT
1 ATT
71610 CCAATGAACC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.27, C:0.33, G:0.04, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:73243 original size:684 final size:684
Alignment explanation
Indices: 71937--73849 Score: 3330
Period size: 684 Copynumber: 2.8 Consensus size: 684
71927 TATAACTGAT
** * * * ** *
71937 GGTCACTAAACTAATTATAAATACGACAAAGGCAAGCGCACCTAT-AGAACAATAGTATAAATAT
1 GGTCACTAAACTACCTATAAATACGACAAAGGCAAGTGCACCTATCA-AACAGTATTATAGCTGT
* * * *
72001 GGTGAGTAGGGAATATCATATCCACGAGGACTAAATGTACTAGTTATTACCATCTTCTTATTATT
65 GGTGAGTAGGGAATATCGTATCCACGAGGACTAAAAGTACTAGTAATTACCCTCTTCTTATTATT
** * * *
72066 TAGCCAAAAAGTTGGGGAGATTGTTTTTAATCTAAAATTAACTAAACTAATTTACTTAGAATGCA
130 TAGCCAAAAAACTGGAGAGATTGTTTTTAACCTAAAATTAACTAAACTAATTTACTTAGAACGCA
* * * * *
72131 ATAGAG-AATATAATAGGAAAATAATCA-AAGATAACCAATGAGATAGACAATACCCAGGAAAGA
195 ACAGAGAAAAAAAATAAGAAAATAAT-AGAAGATAACCAATGAGATAGACAATACCCAGGAATGA
72194 ATCCACCTAGACTTCACCTATTATTATGAATCTAAATTAAACGATTTATTCACTTGTGACTTGAT
259 ATCCACCTAGACTTCACCTATTATTATGAATCTAAATTAAACGATTTATTCACTTGTGACTTGAT
72259 CCGTAAAAATCCCTAAATTATGTTAATATTTTTTTCGAGAGTAAGAACAACTGACTCTAGGTTGA
324 CCGTAAAAATCCCTAAATTATGTTAATATTTTTTTCGAGAGTAAGAACAACTGACTCTAGGTTGA
72324 TTAATTGAAATCTCTTTCTAATTAAAATCCCTATCGTCGCATTAACTCGATATATAGATTCCCGT
389 TTAATTGAAATCTCTTTCTAATTAAAATCCCTATCGTCGCATTAACTCGATATATAGATTCCCGT
72389 ATTAGATTTGACTCTAATCCGGTAGATTTATATCGTCCTATTTCTAGGATTTCAAGCAACTCCAC
454 ATTAGATTTGACTCTAATCCGGTAGATTTATATCGTCCTATTTCTAGGATTTCAAGCAACTCCAC
72454 TCAATTATGTTAGATCTACTATTAAACATGGAATTTTACTCCACTGAAAGAAAATAAAAATTAGA
519 TCAATTATGTTAGATCTACTATTAAACATGGAATTTTACTCCACTGAAAGAAAATAAAAATTAGA
72519 ATACAAAAATTAAACTAAAAATAAAAATAAAAATGGCTAAATTAATAAAAATTGAATGTTACTAA
584 ATACAAAAATTAAACTAAAAATAAAAATAAAAATGGCTAAATTAATAAAAATTGAATGTTACTAA
72584 TATTTTGGTCCCCGACAACAGCACCAAAAACATGAC
649 TATTTTGGTCCCCGACAACAGCACCAAAAACATGAC
72620 GGTCACTAAACTACCTATAAATACGACAAAGGCAAGTGCACCTATCAAACAGTATTATAGCTGTG
1 GGTCACTAAACTACCTATAAATACGACAAAGGCAAGTGCACCTATCAAACAGTATTATAGCTGTG
72685 GTGAGTAGGGAATATCGTATCCACGAGGACTAAAAGTACTAGTAATTACCCTCTTCTTATTATTT
66 GTGAGTAGGGAATATCGTATCCACGAGGACTAAAAGTACTAGTAATTACCCTCTTCTTATTATTT
72750 AGCCAAAAAACTGGAGAGATTGTTTTTAACCTAAAATTAACTAAACTAATTTACTTAGAACGCAA
131 AGCCAAAAAACTGGAGAGATTGTTTTTAACCTAAAATTAACTAAACTAATTTACTTAGAACGCAA
72815 CAGAGAAAAAAAATAAGAAAATAATAGAAGATAACCAATGAGATAGACAATACCCAGGAATGAAT
196 CAGAGAAAAAAAATAAGAAAATAATAGAAGATAACCAATGAGATAGACAATACCCAGGAATGAAT
72880 CCACCTAGACTTCACCTATTATTATGAATCTAAATTAAACGATTTATTCACTTGTGACTTGATCC
261 CCACCTAGACTTCACCTATTATTATGAATCTAAATTAAACGATTTATTCACTTGTGACTTGATCC
72945 GTAAAAATCCCTAAATTATGTTAATATTTTTTTCGAGAGTAAGAACAACTGACTCTAGGTTGATT
326 GTAAAAATCCCTAAATTATGTTAATATTTTTTTCGAGAGTAAGAACAACTGACTCTAGGTTGATT
73010 AATTGAAATCTCTTTCTAATTAAAATCCCTATCGTCGCATTAACTCGATATATAGATTCCCGTAT
391 AATTGAAATCTCTTTCTAATTAAAATCCCTATCGTCGCATTAACTCGATATATAGATTCCCGTAT
73075 TAGATTTGACTCTAATCCGGTAGATTTATATCGTCCTATTTCTAGGATTTCAAGCAACTCCACTC
456 TAGATTTGACTCTAATCCGGTAGATTTATATCGTCCTATTTCTAGGATTTCAAGCAACTCCACTC
73140 AATTATGTTAGATCTACTATTAAACATGGAATTTTACTCCACTGAAAGAAAATAAAAATTAGAAT
521 AATTATGTTAGATCTACTATTAAACATGGAATTTTACTCCACTGAAAGAAAATAAAAATTAGAAT
73205 ACAAAAATTAAACTAAAAATAAAAATAAAAATGGCTAAATTAATAAAAATTGAATGTTACTAATA
586 ACAAAAATTAAACTAAAAATAAAAATAAAAATGGCTAAATTAATAAAAATTGAATGTTACTAATA
73270 TTTTGGTCCCCGACAACAGCACCAAAAACATGAC
651 TTTTGGTCCCCGACAACAGCACCAAAAACATGAC
73304 GGTCACTAAACTACCTATAAATACGACAAAGGCAAGTGCACCTATCAAACAGTATTATAGCTGTG
1 GGTCACTAAACTACCTATAAATACGACAAAGGCAAGTGCACCTATCAAACAGTATTATAGCTGTG
73369 GTGAGTAGGGAATATCGTATCCACGAGGACTAAAAGTACTAGTAATTACCCTCTTCTTATTATTT
66 GTGAGTAGGGAATATCGTATCCACGAGGACTAAAAGTACTAGTAATTACCCTCTTCTTATTATTT
73434 AGCCAAAAAACTGGAGAGATTGTTTTTAACCTAAAATTAACTAAACTAATTTACTTAGAACGCAA
131 AGCCAAAAAACTGGAGAGATTGTTTTTAACCTAAAATTAACTAAACTAATTTACTTAGAACGCAA
73499 CAGAGAAAAAAAATAAGAAAATAATAGAAGATAACCAATGAGATAGACAATACCCAGGAATGAAT
196 CAGAGAAAAAAAATAAGAAAATAATAGAAGATAACCAATGAGATAGACAATACCCAGGAATGAAT
* * * *
73564 CCACCTAGACTTCACCAATTATTATGAATCTGAATTAAATGATTTATTCACTTATGACTTGA-CT
261 CCACCTAGACTTCACCTATTATTATGAATCTAAATTAAACGATTTATTCACTTGTGACTTGATC-
* * * * **
73628 AGTAGAAATCCCTAAATTATGTTAATATCTCTTTCGAGTTTAAGAACAACTGACTCTAGGTTGAT
325 CGTAAAAATCCCTAAATTATGTTAATATTTTTTTCGAGAGTAAGAACAACTGACTCTAGGTTGAT
* * * * * * * *
73693 TAATTAAAATCTCTTTCTAATTAAAACCCCTATCATCGTATTAACTTGATCTATGGATTCCCTTA
390 TAATTGAAATCTCTTTCTAATTAAAATCCCTATCGTCGCATTAACTCGATATATAGATTCCCGTA
* * * * * * *
73758 TTAGATTTGACTCTAATCTGGTAAATTTATGTTGTCCTATTTCTAGAATTGCATGCAACTCCACT
455 TTAGATTTGACTCTAATCCGGTAGATTTATATCGTCCTATTTCTAGGATTTCAAGCAACTCCACT
* *
73823 CAATTATGCTAGATCTACTCTTAAACA
520 CAATTATGTTAGATCTACTATTAAACA
73850 GAAGCTTTTA
Statistics
Matches: 1177, Mismatches: 49, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
683 182 0.15
684 995 0.85
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (684 bp):
GGTCACTAAACTACCTATAAATACGACAAAGGCAAGTGCACCTATCAAACAGTATTATAGCTGTG
GTGAGTAGGGAATATCGTATCCACGAGGACTAAAAGTACTAGTAATTACCCTCTTCTTATTATTT
AGCCAAAAAACTGGAGAGATTGTTTTTAACCTAAAATTAACTAAACTAATTTACTTAGAACGCAA
CAGAGAAAAAAAATAAGAAAATAATAGAAGATAACCAATGAGATAGACAATACCCAGGAATGAAT
CCACCTAGACTTCACCTATTATTATGAATCTAAATTAAACGATTTATTCACTTGTGACTTGATCC
GTAAAAATCCCTAAATTATGTTAATATTTTTTTCGAGAGTAAGAACAACTGACTCTAGGTTGATT
AATTGAAATCTCTTTCTAATTAAAATCCCTATCGTCGCATTAACTCGATATATAGATTCCCGTAT
TAGATTTGACTCTAATCCGGTAGATTTATATCGTCCTATTTCTAGGATTTCAAGCAACTCCACTC
AATTATGTTAGATCTACTATTAAACATGGAATTTTACTCCACTGAAAGAAAATAAAAATTAGAAT
ACAAAAATTAAACTAAAAATAAAAATAAAAATGGCTAAATTAATAAAAATTGAATGTTACTAATA
TTTTGGTCCCCGACAACAGCACCAAAAACATGAC
Found at i:76780 original size:277 final size:277
Alignment explanation
Indices: 76286--77116 Score: 1653
Period size: 277 Copynumber: 3.0 Consensus size: 277
76276 AAACTAATCT
76286 ATGATCTAGCTAATAAGGAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
1 ATGATCTAGCTAATAAGGAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
*
76351 AAGCAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
66 AAACAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
76416 ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
131 ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
76481 TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
196 TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
76546 CCTTAGAGTTGCTAGTC
261 CCTTAGAGTTGCTAGTC
76563 ATGATCTAGCTAATAAGGAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
1 ATGATCTAGCTAATAAGGAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
76628 AAACAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
66 AAACAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
76693 ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
131 ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
76758 TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
196 TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
76823 CCTTAGAGTTGCTAGTC
261 CCTTAGAGTTGCTAGTC
76840 ATGATCTAGCTAATAAGGAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
1 ATGATCTAGCTAATAAGGAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
76905 AAACAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
66 AAACAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
76970 ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
131 ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
77035 TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
196 TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
77100 CCTTAGAGTTGCTAGTC
261 CCTTAGAGTTGCTAGTC
77117 CTAAGTTTTT
Statistics
Matches: 553, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
277 553 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (277 bp):
ATGATCTAGCTAATAAGGAGTAAATTGTAAAATGGGCAAAATTACGAAATTGACAATTAATTAAC
AAACAGTGGTCAATTGATCTTGGTTTGGTTTACCAATCTTCAAATTAGGGATCCAAACCACTTAA
ACTCCAAAAATGGCTCCATTTTACCTCTCGATCTCAATTTTTTCAAGTTAGACAATTTTACAGGT
TAACTTAGGACTAATGCATTGGTGCCCAACAAGATCACTTCTTGGTCTCACTTGTCTAGATGTTC
CCTTAGAGTTGCTAGTC
Found at i:80287 original size:43 final size:42
Alignment explanation
Indices: 80152--80288 Score: 184
Period size: 42 Copynumber: 3.2 Consensus size: 42
80142 TAAGTCTATG
* *
80152 TGTAAGATCATATCTGGGATATGGTATCAATATGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGTATCAATATGAGATTTCA
* **
80194 TGTAAGACCATATCTGGGATATGGAATTGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGTATCAATATGAGATTTCA
* * * *
80236 TGTAAGACCATAGCTGGGCTATTGGTATCAATACGAGATTACA
1 TGTAAGACCATATCTGGGATA-TGGTATCAATATGAGATTTCA
80279 TGTAAGACCA
1 TGTAAGACCA
80289 AATGTAATAG
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
42 56 0.68
43 26 0.32
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGTATCAATATGAGATTTCA
Found at i:81535 original size:43 final size:42
Alignment explanation
Indices: 81436--81557 Score: 172
Period size: 43 Copynumber: 2.9 Consensus size: 42
81426 CTGGGTTAGT
*
81436 TGAGATTTCGTGTAAGACCATATCTGGGATATGACATCGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
81478 TGAGATTTTGTGTAAGACCATAGCTGGGTTATTGGCATCGATA
1 TGAGATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
81521 TGAGATCTCATGTAAGACTATATCTGGGATATGGCAT
1 TGAGATTTCGTGTAAGACCATATCTGGGATATGGCAT
81558 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 34 0.49
43 35 0.51
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:83426 original size:46 final size:46
Alignment explanation
Indices: 83373--83546 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
83363 TGTTTGGGCA
* *
83373 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTAAACG
* * * *
83419 TCCGAACTCGTTGAGTTTAGTCCGAGTT--C-GAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTAA--A--CG
* * * *
83466 TCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTAAACG
* * * *
83512 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
83547 GGGCAGGTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 8 0.08
44 1 0.01
45 1 0.01
46 59 0.57
47 26 0.25
48 1 0.01
49 1 0.01
50 7 0.07
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTAAACG
Found at i:83528 original size:93 final size:93
Alignment explanation
Indices: 83369--83540 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
83359 AGGATGTTTG
* * *
83369 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCATTGAG
*
83434 TTTAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * ** *
83462 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGTGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCATTGAG
*
83527 TTGAGTCTGAGTTC
66 TTGAGTCCGAGTTC
83541 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:86521 original size:15 final size:15
Alignment explanation
Indices: 86482--86531 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
86472 GTATCTTGGG
*
86482 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
* *
86497 TCTCTTTATTGTGGA
1 TTTCTTTATTCTGGA
*
86512 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
86526 TTTCTT
1 TTTCTT
86532 GTTATCTTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
14 8 0.28
15 21 0.72
ACGTcount: A:0.10, C:0.16, G:0.14, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:93774 original size:19 final size:19
Alignment explanation
Indices: 93739--93819 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
93729 AGATTACAAG
*
93739 ATCATATCTTCAAGATTGTAT
1 ATCATATC-T-AAGATTGCAT
93760 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
93779 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
93798 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
93817 ATC
1 ATC
93820 CTTAAAGATT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
19 50 0.85
20 1 0.02
21 8 0.14
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:94532 original size:87 final size:89
Alignment explanation
Indices: 94410--94614 Score: 247
Period size: 87 Copynumber: 2.3 Consensus size: 89
94400 GCACAGGAAT
* * * *
94410 GTCAGATTTGCTATGTATTCAATATGTTCCCTGTAAACACAGGGATGCCAAATCATCTTGGATCT
1 GTCAGATTTGCTATGTCTTCGATATGCTCCCTGTAAACACAAGGATGCCAAATCATCTTGGATCT
94475 ACTTC-A-G-CATAAACA-CCTGAAG
66 ACTTCAATGTCA-AAACATCC-GAAG
* * *
94497 GTCAGATTTGCTATGTCTTCGATTTGCTCCTTGTAAACACAAGGATGCTAAATCATCTTGGATCT
1 GTCAGATTTGCTATGTCTTCGATATGCTCCCTGTAAACACAAGGATGCCAAATCATCTTGGATCT
** * *
94562 GTTTCAATGTGAAAATATCCGAAG
66 ACTTCAATGTCAAAACATCCGAAG
* *
94586 GTCAGATCTGCTATGTCTTCGATCTGCTC
1 GTCAGATTTGCTATGTCTTCGATATGCTC
94615 TCCGTCGAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
87 61 0.60
88 1 0.01
89 36 0.36
90 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (89 bp):
GTCAGATTTGCTATGTCTTCGATATGCTCCCTGTAAACACAAGGATGCCAAATCATCTTGGATCT
ACTTCAATGTCAAAACATCCGAAG
Found at i:95041 original size:83 final size:84
Alignment explanation
Indices: 94733--95521 Score: 1159
Period size: 84 Copynumber: 9.4 Consensus size: 84
94723 TCTGCTATAC
* * *
94733 TTTAACCCGTTACCCTACTGCTTAGGGGGTTAAGGCGTA-TCTTCGATCTGTTCCACTACTGCTT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG-AGTCTTCGATCTGCTCCACTACTGCTT
*
94797 AGGGAGATAAGATCTGTAAA
65 AGGGAGATAAGATCTGCAAA
* * * *
94817 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCGTCGTTGATCTGCTTCGCTACTGT
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTC-T--TCGATCTGCTCCACTACTGC
94882 TTAGGGAGATAAGATCTGC---
63 TTAGGGAGATAAGATCTGCAAA
* *
94901 --GAACCTGTTACCCTACTGCTTAGGGGATTAATGCGAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
94964 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAA
** * *
94983 TTTAACCCATTACCCTA-TCGCTTA-GGGATTAAGGCGGGTCTTCGATCTGCTCCCCTACTGCTT
1 TTTAACCTGTTACCCTACT-GCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTT
95046 AGGGAGATAAGATCTGCAAA
65 AGGGAGATAAGATCTGCAAA
** * *
95066 TTTAACCCATTACCCTA-TCGCTTA-GGGATTAAGGCGGGTCTTCGATCTGCTCCCCTACTGCTT
1 TTTAACCTGTTACCCTACT-GCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTT
95129 AGGGAGATAAGATCTGCAAA
65 AGGGAGATAAGATCTGCAAA
*
95149 TTTAAGCC-GTTACCCTACTGCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCCACTACTGCTT
1 TTTAA-CCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTT
95213 AGGGAGATAAGATCTGCAAA
65 AGGGAGATAAGATCTGCAAA
* * *
95233 TTTAACCTGTTACCCTACCGCTTAAGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
95298 GGGAGATAAGATCTGCAAA
66 GGGAGATAAGATCTGCAAA
* * *
95317 TTTAACCTGTTACCCTACCGCTTAAGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
*
95382 GGGAGATAAGATCTACAAA
66 GGGAGATAAGATCTGCAAA
* *
95401 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGTGAATCTTCGATCTGCTCCACTACTGCTTA
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
* *
95466 GGGAGATAATATCTGTAAA
66 GGGAGATAAGATCTGCAAA
*
95485 TTTAACCTGTTATCCTACTGCTTAGGGGATTAAGGCG
1 TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCG
95522 CTGAATTTTG
Statistics
Matches: 652, Mismatches: 39, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
79 35 0.05
81 1 0.00
82 37 0.06
83 161 0.25
84 384 0.59
85 1 0.00
87 33 0.05
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (84 bp):
TTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGCGAGTCTTCGATCTGCTCCACTACTGCTTA
GGGAGATAAGATCTGCAAA
Found at i:95050 original size:40 final size:40
Alignment explanation
Indices: 95002--95133 Score: 104
Period size: 40 Copynumber: 3.2 Consensus size: 40
94992 TTACCCTATC
95002 GCTTAGGGATTAAGGCGGGTCTTCGATCTGCTCCCCTACT
1 GCTTAGGGATTAAGGCGGGTCTTCGATCTGCTCCCCTACT
* * **** ** * *** *
95042 GCTTAGGGAGATAAGATCTGCAAATTTAACCCATTACCCTA-T
1 GCTTAGGGA-TTAAG-GC-GGGTCTTCGATCTGCTCCCCTACT
95084 CGCTTAGGGATTAAGGCGGGTCTTCGATCTGCTCCCCTACT
1 -GCTTAGGGATTAAGGCGGGTCTTCGATCTGCTCCCCTACT
95125 GCTTAGGGA
1 GCTTAGGGA
95134 GATAAGATCT
Statistics
Matches: 61, Mismatches: 26, Indels: 10
0.63 0.27 0.10
Matches are distributed among these distances:
40 29 0.48
41 6 0.10
42 6 0.10
43 20 0.33
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (40 bp):
GCTTAGGGATTAAGGCGGGTCTTCGATCTGCTCCCCTACT
Found at i:95297 original size:41 final size:40
Alignment explanation
Indices: 95085--95469 Score: 148
Period size: 41 Copynumber: 9.2 Consensus size: 40
95075 TTACCCTATC
** *
95085 GCTTAGGGATTAAGGCGGGTCTTCGATCTGCTCCCCTACT
1 GCTTAGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
* * * * * *
95125 GCTTAGGGAGATAAGATCTGCAAAT-TT-AAGCCGTTACC-CTACT
1 GCTTAGGGA-TTAAG----GCAAGTCTTCGATCTGCT-CCACTACT
**
95168 GCTTAGGGGATTAAGGTGAGTCTTCGATCTGCTCCACTACT
1 GCTTA-GGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
* * * * * *
95209 GCTTAGGGAGATAAGATCTGCAAAT-TT-AACCTGTTACC-CTACC
1 GCTTAGGGA-TTAAG----GCAAGTCTTCGATCTGCT-CCACTACT
95252 GCTTAAGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
1 GCTT-AGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
* * * * * *
95293 GCTTAGGGAGATAAGATCTGCAAAT-TT-AACCTGTTACC-CTACC
1 GCTTAGGGA-TTAAG----GCAAGTCTTCGATCTGCT-CCACTACT
95336 GCTTAAGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
1 GCTT-AGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
* * * * * *
95377 GCTTAGGGAGATAAGATCTACAAAT-TT-AACCTGTTACC-CTACT
1 GCTTAGGGA-TTAAG----GCAAGTCTTCGATCTGCT-CCACTACT
*
95420 GCTTAGGGGATTAAGGTGAA-TCTTCGATCTGCTCCACTACT
1 GCTTA-GGGATTAAGG-CAAGTCTTCGATCTGCTCCACTACT
95461 GCTTAGGGA
1 GCTTAGGGA
95470 GATAATATCT
Statistics
Matches: 250, Mismatches: 54, Indels: 82
0.65 0.14 0.21
Matches are distributed among these distances:
39 14 0.06
40 45 0.18
41 71 0.28
43 71 0.28
44 34 0.14
45 15 0.06
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (40 bp):
GCTTAGGGATTAAGGCAAGTCTTCGATCTGCTCCACTACT
Found at i:102139 original size:61 final size:61
Alignment explanation
Indices: 102065--102256 Score: 348
Period size: 61 Copynumber: 3.1 Consensus size: 61
102055 CCAACGGTAC
* * *
102065 AGATCAATTACATCAACGGTTAATATTAAAAGATATCTACAAATTAAATCTCCAAGATTACA
1 AGATC-ATAACATCAGCGGTTAAGATTAAAAGATATCTACAAATTAAATCTCCAAGATTACA
102127 AGATCATAACATCAGCGGTTAAGATTAAAAGATATCTACAAATTAAATCTCCAAGATTACA
1 AGATCATAACATCAGCGGTTAAGATTAAAAGATATCTACAAATTAAATCTCCAAGATTACA
102188 AGATCATAACATCAGCGGTTAAGATTAAAAGATATCTACAAATTAAATCTCCAAGATTACA
1 AGATCATAACATCAGCGGTTAAGATTAAAAGATATCTACAAATTAAATCTCCAAGATTACA
102249 AGATCATA
1 AGATCATA
102257 TCTTCAAGAT
Statistics
Matches: 127, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
61 122 0.96
62 5 0.04
ACGTcount: A:0.46, C:0.16, G:0.10, T:0.27
Consensus pattern (61 bp):
AGATCATAACATCAGCGGTTAAGATTAAAAGATATCTACAAATTAAATCTCCAAGATTACA
Found at i:102151 original size:29 final size:29
Alignment explanation
Indices: 102118--102220 Score: 82
Period size: 29 Copynumber: 3.4 Consensus size: 29
102108 TTAAATCTCC
*
102118 AAGATTACAAGATCATAACATCAGCGGTT
1 AAGATTAAAAGATCATAACATCAGCGGTT
* * **** *
102147 AAGATTAAAAGAT-ATCTACAAATTAAATCTCC
1 AAGATTAAAAGATCA--TA-ACATCAGCGGT-T
*
102179 AAGATTACAAGATCATAACATCAGCGGTT
1 AAGATTAAAAGATCATAACATCAGCGGTT
102208 AAGATTAAAAGAT
1 AAGATTAAAAGAT
102221 ATCTACAAAT
Statistics
Matches: 52, Mismatches: 17, Indels: 10
0.66 0.22 0.13
Matches are distributed among these distances:
28 1 0.02
29 24 0.46
30 7 0.13
31 7 0.13
32 12 0.23
33 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.25
Consensus pattern (29 bp):
AAGATTAAAAGATCATAACATCAGCGGTT
Found at i:102286 original size:19 final size:19
Alignment explanation
Indices: 102251--102348 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
102241 AGATTACAAG
102251 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
*
102272 ATCATATATAAGATTGCAT
1 ATCATATCTAAGATTGCAT
102291 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
102308 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
102327 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
102346 ATC
1 ATC
102349 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.66
20 1 0.01
21 7 0.10
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:102320 original size:36 final size:37
Alignment explanation
Indices: 102251--102348 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
102241 AGATTACAAG
102251 ATCATATCTTCAAGATTGCATATCATATATAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATATAAGATTGCAT
*
102291 ATCATATCTAAGATTG-TATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATATAAGATTGCAT
102327 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
102349 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATATAAGATTGCAT
Found at i:111178 original size:55 final size:54
Alignment explanation
Indices: 111070--111313 Score: 236
Period size: 55 Copynumber: 4.6 Consensus size: 54
111060 ATTAGGGTTT
* * *
111070 AAGGATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTT-TCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACAT-GACATTGGTAA-GTTCTATAAGGC
* *
111125 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTT-CTATAAGGC
* * *
111180 ATAGG-T-CCTATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 A-AGGATACC-ATGTAAGACCATGCCAAGACATGACATTGGTAAGTTCTATAAGGC
* * * * *
111233 AAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT-T-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTCTATAAGGC
* * *
111282 AAGGATACCACGTAAGACCATGACAAGTCATG
1 AAGGATACCATGTAAGACCATGCCAAGACATG
111314 GCAATGTTAA
Statistics
Matches: 162, Mismatches: 20, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
49 28 0.17
52 5 0.03
53 43 0.27
54 14 0.09
55 69 0.43
56 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACATTGGTAAGTTCTATAAGGC
Found at i:111276 original size:108 final size:110
Alignment explanation
Indices: 111079--111277 Score: 314
Period size: 108 Copynumber: 1.8 Consensus size: 110
111069 TAAGGATACC
111079 ATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACC
1 ATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACC
*
111144 ATGTCAAGACATGACATTGATAAGTTACTATAAGGCATAGGTCCT
66 ATGTCAAGACATGACAATGATAAGTTACTATAAGGCATAGGTCCT
* *
111189 ATGTAAGACCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAGAC
1 ATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGTAAGAC
* * *
111251 CATGTCGAGACATGGCAATGGTAAGTT
65 CATGTCAAGACATGACAATGATAAGTT
111278 TCAAAAGGAT
Statistics
Matches: 82, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.59
109 7 0.09
110 24 0.29
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.24
Consensus pattern (110 bp):
ATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGACC
ATGTCAAGACATGACAATGATAAGTTACTATAAGGCATAGGTCCT
Found at i:111537 original size:16 final size:16
Alignment explanation
Indices: 111516--111546 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
111506 ATAAATTTGA
111516 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
111532 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
111547 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:114138 original size:15 final size:16
Alignment explanation
Indices: 114111--114140 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
114101 AAATCAAGCC
114111 ATAAAATTTCATTCAA
1 ATAAAATTTCATTCAA
114127 ATAAAA-TTCATTCA
1 ATAAAATTTCATTCA
114141 TACATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAAATTTCATTCAA
Found at i:121472 original size:25 final size:25
Alignment explanation
Indices: 121438--121502 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
121428 AAGGTCACAC
* *
121438 GGCTATGTCACACACCCTTGTGCTA
1 GGCTGTGTCACACACCCATGTGCTA
** *
121463 GGCTGTGTCACAGGCCCATGTGTTA
1 GGCTGTGTCACACACCCATGTGCTA
*
121488 GGCTGTGTAACACAC
1 GGCTGTGTCACACAC
121503 TGACTTTCAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.26
Consensus pattern (25 bp):
GGCTGTGTCACACACCCATGTGCTA
Found at i:124101 original size:14 final size:14
Alignment explanation
Indices: 124072--124100 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
124062 GTATTTAAAA
124072 TTGGTTTTGAACTT
1 TTGGTTTTGAACTT
124086 TTGGTTTTGAA-TT
1 TTGGTTTTGAACTT
124099 TT
1 TT
124101 TTTTCAATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.14, C:0.03, G:0.21, T:0.62
Consensus pattern (14 bp):
TTGGTTTTGAACTT
Found at i:130243 original size:42 final size:42
Alignment explanation
Indices: 130196--130287 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
130186 TGGCCCTTAG
* ** *
130196 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
130238 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
130280 GCCCATTT
1 GCCCATTT
130288 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:130459 original size:24 final size:24
Alignment explanation
Indices: 130421--130493 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 24
130411 CTAGAGGCCT
*
130421 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTCATAAACTGGGGCAA
130445 AGCCCTTTTCCATAAACTGGGGCAA
1 AGCCCTTTT-CATAAACTGGGGCAA
130470 AGCCCTTTTCAGTAAACTGGGGCA
1 AGCCCTTTTCA-TAAACTGGGGCA
130494 TAGCTCATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
23 5 0.11
24 8 0.18
25 32 0.71
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (24 bp):
AGCCCTTTTCATAAACTGGGGCAA
Found at i:130466 original size:25 final size:25
Alignment explanation
Indices: 130434--130493 Score: 104
Period size: 25 Copynumber: 2.4 Consensus size: 25
130424 CTCTTTTAAT
130434 AACTGGGGCAAAGCCCTTTTCCA-TA
1 AACTGGGGCAAAGCCCTTTT-CAGTA
130459 AACTGGGGCAAAGCCCTTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTCAGTA
130484 AACTGGGGCA
1 AACTGGGGCA
130494 TAGCTCATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 2 0.06
25 32 0.94
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAGTA
Found at i:131343 original size:27 final size:27
Alignment explanation
Indices: 131313--131377 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
131303 GGGCATATTC
131313 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
131340 GTCACTTTACCCTATAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
131367 GTCTTTTTACC
1 GTCATTTTACC
131378 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:131379 original size:26 final size:28
Alignment explanation
Indices: 131335--131386 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
131325 TACAAGGGTA
131335 TTACGGTCACTTTACCCTA-TAGGGGCT
1 TTACGGTCACTTTACCCTATTAGGGGCT
**
131362 TTACGGTCTTTTTA-CCTATTAGGGG
1 TTACGGTCACTTTACCCTATTAGGGG
131387 TATTTTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
TTACGGTCACTTTACCCTATTAGGGGCT
Found at i:131461 original size:27 final size:26
Alignment explanation
Indices: 131431--131518 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 26
131421 GTAAATCTAC
131431 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACCAAGGGTATTTTA-TAATTTTGT
* * *
131458 AAACCAATGGTATTCCTATAATTTTTT
1 AAACCAAGGGTATT-TTATAATTTTGT
*
131485 AAAAAGTCAAAGGGTATTTCTATAATTTTGT
1 --AAA--CCAAGGGTATTT-TATAATTTTGT
131516 AAA
1 AAA
131519 TTAGGGGTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
27 21 0.44
28 2 0.04
29 6 0.12
31 19 0.40
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.40
Consensus pattern (26 bp):
AAACCAAGGGTATTTTATAATTTTGT
Found at i:131537 original size:27 final size:27
Alignment explanation
Indices: 131495--131566 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 27
131485 AAAAAGTCAA
** **
131495 AGGGTATTTCTATAATTTTGTAAATT-
1 AGGGTATTTCGGTAATTTTACAAATTG
*
131521 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTCGGTAATTTTACAAATTG
131549 AGGGTATTTCGGTAATTT
1 AGGGTATTTCGGTAATTT
131567 CTAAAACCAG
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.03
27 36 0.95
28 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATTG
Found at i:131658 original size:27 final size:27
Alignment explanation
Indices: 131624--131715 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
131614 GTAATTTCAC
131624 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
131651 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTATA
* *
131678 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
131705 AATCGAGGGTA
1 AATCGAGGGTA
131716 CTTTGTTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 55 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:131726 original size:54 final size:54
Alignment explanation
Indices: 131614--131742 Score: 145
Period size: 54 Copynumber: 2.4 Consensus size: 54
131604 GGATATTTCA
* * *
131614 GTAATTTCAC-AATCGAGGGTAAAACGGTAATTTTATAAACTGAGGGTAAAATG
1 GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
** ***
131667 GTAATTTTGTAAATCGAGGGTAAAACGATAATTCTATAAA-TCGAGGGTACTTTG
1 GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAACT-GAGGGTAAAATG
* *
131721 TTAATTTTACAAGTCGAGGGTA
1 GTAATTTTACAAATCGAGGGTA
131743 TTTCAGTAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
53 8 0.13
54 54 0.87
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.32
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
Found at i:135475 original size:21 final size:21
Alignment explanation
Indices: 135451--135510 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
135441 TGCTGCCATC
*
135451 GCTATTGCCTCTACCTCCTTT
1 GCTATTGCCGCTACCTCCTTT
* *
135472 GCTATTGCCGCTGCCTCCTTC
1 GCTATTGCCGCTACCTCCTTT
** *
135493 GCTGCTGCCGCTGCCTCC
1 GCTATTGCCGCTACCTCC
135511 CTCTCTGCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.05, C:0.43, G:0.18, T:0.33
Consensus pattern (21 bp):
GCTATTGCCGCTACCTCCTTT
Found at i:135518 original size:21 final size:21
Alignment explanation
Indices: 135477--135522 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
135467 CCTTTGCTAT
*
135477 TGCCGCTGCCTCCTTCGCTGC
1 TGCCGCTGCCTCCCTCGCTGC
*
135498 TGCCGCTGCCTCCCTCTCTGC
1 TGCCGCTGCCTCCCTCGCTGC
135519 TGCC
1 TGCC
135523 TCCGCTCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.00, C:0.50, G:0.22, T:0.28
Consensus pattern (21 bp):
TGCCGCTGCCTCCCTCGCTGC
Found at i:135962 original size:13 final size:14
Alignment explanation
Indices: 135935--135963 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
135925 ACTAATGACG
135935 AATTAAACAATTAT
1 AATTAAACAATTAT
135949 AATTAAAC-ATTAT
1 AATTAAACAATTAT
135962 AA
1 AA
135964 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:140132 original size:9 final size:9
Alignment explanation
Indices: 140118--140302 Score: 135
Period size: 9 Copynumber: 20.8 Consensus size: 9
140108 TAAGTATAAT
140118 TAAGTTATG
1 TAAGTTATG
140127 TAAGTTATG
1 TAAGTTATG
* ** *
140136 ATATGAAATA
1 -TAAGTTATG
*
140146 T-ATTTATG
1 TAAGTTATG
140154 T-A-TTATG
1 TAAGTTATG
140161 TAAGTTATG
1 TAAGTTATG
*
140170 TAAATTATG
1 TAAGTTATG
***
140179 TAAAAAATG
1 TAAGTTATG
*
140188 TAAGTTACG
1 TAAGTTATG
* *
140197 AAAATTATG
1 TAAGTTATG
*
140206 TAAATTATG
1 TAAGTTATG
*
140215 TAAATTATG
1 TAAGTTATG
140224 TAAGTTATG
1 TAAGTTATG
*
140233 TAAATTATG
1 TAAGTTATG
140242 TAAGTTATG
1 TAAGTTATG
140251 TAAGTTATG
1 TAAGTTATG
* * *
140260 ATATGATATA
1 -TAAGTTATG
* *
140270 T-ATTTATA
1 TAAGTTATG
140278 TAAGTTATG
1 TAAGTTATG
140287 TAAGTTATG
1 TAAGTTATG
*
140296 TATGTTA
1 TAAGTTA
140303 NNNNNNNNNN
Statistics
Matches: 139, Mismatches: 32, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
7 6 0.04
8 10 0.07
9 112 0.81
10 11 0.08
ACGTcount: A:0.40, C:0.01, G:0.16, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:142644 original size:14 final size:14
Alignment explanation
Indices: 142609--142645 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
142599 TATTATCTCT
142609 TAAATAATTTAATC
1 TAAATAATTTAATC
142623 TAAA-AATTTAATC
1 TAAATAATTTAATC
142636 TAAATAATTT
1 TAAATAATTT
142646 CATTTTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (14 bp):
TAAATAATTTAATC
Found at i:142793 original size:7 final size:7
Alignment explanation
Indices: 142783--142830 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
142773 CCTCTAATCT
142783 CTAAACC
1 CTAAACC
142790 CTAAAACC
1 CT-AAACC
142798 CTAAACC
1 CTAAACC
*
142805 CTACA-C
1 CTAAACC
*
142811 ATAAACC
1 CTAAACC
*
142818 TTAAACC
1 CTAAACC
142825 CTAAAC
1 CTAAAC
142831 TATAATGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
6 4 0.12
7 23 0.68
8 7 0.21
ACGTcount: A:0.46, C:0.38, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:143626 original size:39 final size:40
Alignment explanation
Indices: 143543--143643 Score: 114
Period size: 39 Copynumber: 2.5 Consensus size: 40
143533 ATAGTGGCAT
* * *
143543 TTTTTTTGAAAGCGCCGCTAATTCTCGATCTTTAGCAGCA
1 TTTTTTTAAAAACGCCGCTAATGCTCGATCTTTAGCAGCA
** **
143583 -TTTTTTAAAAACGCCGCTAATGCTCGATCTTTAGTGGTG
1 TTTTTTTAAAAACGCCGCTAATGCTCGATCTTTAGCAGCA
*
143622 TTTTTCTTTAAAACGCCGCTAA
1 TTTTT-TTAAAAACGCCGCTAA
143644 AAACCTATTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
39 32 0.63
40 4 0.08
41 15 0.29
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (40 bp):
TTTTTTTAAAAACGCCGCTAATGCTCGATCTTTAGCAGCA
Found at i:150607 original size:39 final size:39
Alignment explanation
Indices: 150553--150639 Score: 140
Period size: 39 Copynumber: 2.2 Consensus size: 39
150543 CCGGCAATTA
150553 GCCTGCTAGGTATAAACCTGAACTTATCA-CTGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCATC-GGCACGAG
* *
150592 GCCTGCTAGGTATAAACCTGAATTTATCATCGGCAGGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCATCGGCACGAG
150631 GCCTGCTAG
1 GCCTGCTAG
150640 ACATTAAGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 44 0.98
40 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.24
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCATCGGCACGAG
Found at i:153415 original size:17 final size:18
Alignment explanation
Indices: 153382--153417 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
153372 TACGGGCCAA
153382 AATGGGCTAAATGGGCCC
1 AATGGGCTAAATGGGCCC
*
153400 AATGGGCT-ATTGGGCCC
1 AATGGGCTAAATGGGCCC
153417 A
1 A
153418 TAATAGGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.19
Consensus pattern (18 bp):
AATGGGCTAAATGGGCCC
Found at i:153515 original size:28 final size:29
Alignment explanation
Indices: 153481--153595 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
153471 ATGAATATGA
*
153481 ATGTGA-TTGGGCCTAACGGGCCATATAC
1 ATGTGATTTGGGCCTAATGGGCCATATAC
* *
153509 ATGTGATTTGGGCCTAATGGACCGTATAC
1 ATGTGATTTGGGCCTAATGGGCCATATAC
*
153538 AGGTGATTTGGGCCTAATGGGCCATATGA-
1 ATGTGATTTGGGCCTAATGGGCCATAT-AC
* * * *
153567 ATATGA-TTGGACTTAATGGGCCAGATAC
1 ATGTGATTTGGGCCTAATGGGCCATATAC
153595 A
1 A
153596 GGTATGTGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 1 0.01
28 24 0.33
29 47 0.64
30 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (29 bp):
ATGTGATTTGGGCCTAATGGGCCATATAC
Found at i:153596 original size:57 final size:57
Alignment explanation
Indices: 153483--153598 Score: 139
Period size: 57 Copynumber: 2.0 Consensus size: 57
153473 GAATATGAAT
* *
153483 GTGATTGGGCCTAACGGGCCATATACATGTGATTTGGGCCTAATGGACCGTATACAG
1 GTGATTGGGCCTAACGGGCCATATACATATGATTTGGACCTAATGGACCGTATACAG
* * *
153540 GTGATTTGGGCCTAATGGGCCATATGA-ATATGA-TTGGACTTAATGGGCCAG-ATACAG
1 GTGA-TTGGGCCTAACGGGCCATAT-ACATATGATTTGGACCTAATGGACC-GTATACAG
153597 GT
1 GT
153599 ATGTGAATTT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
57 25 0.49
58 25 0.49
59 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (57 bp):
GTGATTGGGCCTAACGGGCCATATACATATGATTTGGACCTAATGGACCGTATACAG
Found at i:174245 original size:37 final size:37
Alignment explanation
Indices: 174186--174294 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
174176 AGCTCTGATG
* * *
174186 AAATCTCCACACGAAGTTATCGGGTCTTACGCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
174223 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
174260 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
174295 ATATATTTCC
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:174498 original size:50 final size:50
Alignment explanation
Indices: 174444--174836 Score: 589
Period size: 50 Copynumber: 7.9 Consensus size: 50
174434 CGCTGCGTAC
*
174444 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
174494 ATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC--ATAC
1 ATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATATAT
174542 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCGTATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATAT
* *
174594 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATATAT
* *
174646 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* * *
174696 ATATTTCACATTAACCATTCAGCTTTACCACATATACATATTTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
* *
174746 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTC--ATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
*
174794 AGATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
174837 TATGCATCAA
Statistics
Matches: 313, Mismatches: 24, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
48 88 0.28
49 2 0.01
50 130 0.42
52 93 0.30
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:178543 original size:40 final size:40
Alignment explanation
Indices: 178392--178543 Score: 178
Period size: 40 Copynumber: 3.8 Consensus size: 40
178382 CCAGCATGAT
* * * *
178392 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** * *
178432 TGCTCTTCGGGGTTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
178472 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
178512 TGCTCTTCGGGATTTAGCCCGGACATTTCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
178544 CTCAATTCTC
Statistics
Matches: 91, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 91 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:178770 original size:55 final size:55
Alignment explanation
Indices: 178686--178797 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
178676 ATAGTCATAA
178686 CACTCCTTCAAAATTGCATCACTTATACCCTTATAATTCAATCCAAATCGAAATT
1 CACTCCTTCAAAATTGCATCACTTATACCCTTATAATTCAATCCAAATCGAAATT
*
178741 CACTCTTTCAAAATTGCATCACTTATACCCTTATAATTCAATCCAAATCGAAATT
1 CACTCCTTCAAAATTGCATCACTTATACCCTTATAATTCAATCCAAATCGAAATT
178796 CA
1 CA
178798 AATACGAGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.33
Consensus pattern (55 bp):
CACTCCTTCAAAATTGCATCACTTATACCCTTATAATTCAATCCAAATCGAAATT
Found at i:185947 original size:34 final size:34
Alignment explanation
Indices: 185907--186017 Score: 150
Period size: 34 Copynumber: 3.3 Consensus size: 34
185897 GAAGTACATA
*
185907 AATATATATGTATGGCTTGGCATAATTGAAGGTG
1 AATATATATGTATGGCTTGGTATAATTGAAGGTG
* * *
185941 ATTATATATGTATAGCTTGGTATAATTGAAAGTG
1 AATATATATGTATGGCTTGGTATAATTGAAGGTG
* * **
185975 AATATATATGTATGGTTTGTTATAACCGAAGGTG
1 AATATATATGTATGGCTTGGTATAATTGAAGGTG
186009 AATATATAT
1 AATATATAT
186018 ATACATTTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.39
Consensus pattern (34 bp):
AATATATATGTATGGCTTGGTATAATTGAAGGTG
Found at i:186195 original size:59 final size:60
Alignment explanation
Indices: 186090--186227 Score: 174
Period size: 59 Copynumber: 2.3 Consensus size: 60
186080 TAAGCTTGAG
* * *
186090 ATGAGCACTAAGTGTGCGAAATGAAATTGGTACTGAGTACTAAGTGTACGAAATTGGTCA
1 ATGAGCACTAAGTGTGCGAAATGAAATTGATACCGAGTACTAAGTGTACGAAATCGGTCA
* * * *
186150 TTTG-GCACTAAGTGTGC-AAATTG-AATTTATACCGAGTACTAAGTGTACGAGATCGGTTA
1 -ATGAGCACTAAGTGTGCGAAA-TGAAATTGATACCGAGTACTAAGTGTACGAAATCGGTCA
186209 ATGAGCACTAAGTGTGCGA
1 ATGAGCACTAAGTGTGCGA
186228 GTTTATCTTT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
58 2 0.03
59 46 0.70
60 16 0.24
61 2 0.03
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (60 bp):
ATGAGCACTAAGTGTGCGAAATGAAATTGATACCGAGTACTAAGTGTACGAAATCGGTCA
Found at i:189668 original size:46 final size:46
Alignment explanation
Indices: 189616--189837 Score: 243
Period size: 46 Copynumber: 4.8 Consensus size: 46
189606 TGTAACCCGC
* * * *
189616 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
189662 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
189708 ACATCTCTCGAACTCGGACTCAACTCAATGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
189755 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
189801 CCATAAGTGAACTCTGATTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
189838 TGCCCAAACA
Statistics
Matches: 149, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.01
44 2 0.01
46 111 0.74
47 30 0.20
49 4 0.03
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:195980 original size:46 final size:46
Alignment explanation
Indices: 195930--196097 Score: 173
Period size: 46 Copynumber: 3.6 Consensus size: 46
195920 TGGTTGAGCA
*
195930 TCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
195976 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
196021 CATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
196069 CCCGAGCTCGTTGAGTGGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
196098 GCTGATGGGC
Statistics
Matches: 98, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 52 0.53
47 27 0.28
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:196090 original size:93 final size:93
Alignment explanation
Indices: 195927--196098 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
195917 GGATGGTTGA
* *
195927 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
*
195992 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 GGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
196020 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
196085 GGAGTCCGAGTTCG
66 GGAGTCCGAGTTCG
196099 CTGATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
GGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:198541 original size:40 final size:40
Alignment explanation
Indices: 198491--198576 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
198481 CTTCTGCAGC
198491 CAGTGTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAG
1 CAGTGTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAG
* *
198531 CAGTGTAGGGAACTCGAGATTTGTTAAACCTGAGTGTCAG
1 CAGTGTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAG
*
198571 CGGTGT
1 CAGTGT
198577 GGTAGAAATC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (40 bp):
CAGTGTAGGGAACTCGAGATTTGTTAAACCCGAGTGCCAG
Found at i:203112 original size:46 final size:46
Alignment explanation
Indices: 203062--203226 Score: 203
Period size: 46 Copynumber: 3.6 Consensus size: 46
203052 TTGAGCATCT
203062 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
203108 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
203155 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
*
203201 GAGCTCGTTGAGTTGAGTCCGAGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTC
203227 GCTGATGGGC
Statistics
Matches: 101, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 53 0.52
47 29 0.29
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:203215 original size:93 final size:93
Alignment explanation
Indices: 203056--203227 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
203046 GGATGGTTGA
* * *
203056 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
203121 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
203149 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
203214 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
203228 CTGATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:203969 original size:29 final size:28
Alignment explanation
Indices: 203933--204023 Score: 84
Period size: 29 Copynumber: 3.3 Consensus size: 28
203923 AAAATCATAA
203933 AAATTGAACTTGGTGATGGAATACATATC
1 AAATTGAACTTGGTGATGG-ATACATATC
* * *
203962 AAATTGAAGCTT-ATTAT-G-T-C-TAGTG
1 AAATTGAA-CTTGGTGATGGATACATA-TC
203987 AAATTGAACTTGGTGATGGACTACATATC
1 AAATTGAACTTGGTGATGGA-TACATATC
204016 AAATTGAA
1 AAATTGAA
204024 GCTTATTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 16
0.69 0.09 0.23
Matches are distributed among these distances:
24 5 0.10
25 13 0.27
26 2 0.04
28 2 0.04
29 21 0.44
30 5 0.10
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (28 bp):
AAATTGAACTTGGTGATGGATACATATC
Found at i:203997 original size:54 final size:54
Alignment explanation
Indices: 203933--204039 Score: 205
Period size: 54 Copynumber: 2.0 Consensus size: 54
203923 AAAATCATAA
203933 AAATTGAACTTGGTGATGGAATACATATCAAATTGAAGCTTATTATGTCTAGTG
1 AAATTGAACTTGGTGATGGAATACATATCAAATTGAAGCTTATTATGTCTAGTG
*
203987 AAATTGAACTTGGTGATGGACTACATATCAAATTGAAGCTTATTATGTCTAGT
1 AAATTGAACTTGGTGATGGAATACATATCAAATTGAAGCTTATTATGTCTAGT
204040 TTTACATGAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.36
Consensus pattern (54 bp):
AAATTGAACTTGGTGATGGAATACATATCAAATTGAAGCTTATTATGTCTAGTG
Found at i:204952 original size:37 final size:37
Alignment explanation
Indices: 204911--204992 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
204901 ATGGTAGCCC
*
204911 ACATTTTTGATATTTTTCTCATTTCCACCACACATTT
1 ACATTTTTCATATTTTTCTCATTTCCACCACACATTT
*
204948 ACATTTTCCATATTTTTCTCATTTCCACCACACATTT
1 ACATTTTTCATATTTTTCTCATTTCCACCACACATTT
204985 ACATTTTT
1 ACATTTTT
204993 TGCATGAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.26, G:0.01, T:0.49
Consensus pattern (37 bp):
ACATTTTTCATATTTTTCTCATTTCCACCACACATTT
Found at i:206949 original size:48 final size:46
Alignment explanation
Indices: 206855--207002 Score: 138
Period size: 48 Copynumber: 3.1 Consensus size: 46
206845 TTACCAATGT
* **
206855 CATGTCCCAGACATGGTCTTA-TACTAGCTCTCGTCTCGATGTCGATGC
1 CATGTCCCAGACATGGTCTTACT-CTAGCTCTCATAAC-ATG-CGATGC
*
206903 CATGTCCCAGACATGGTCTTACTCTAGCTCTCATAACATTGCCGATGT
1 CATGTCCCAGACATGGTCTTACTCTAGCTCTCATAACA-TG-CGATGC
* * * * *
206951 CATGTTCCAAACATGGTCTTACAT-TGGTTCTCATAACAATGTGATGC
1 CATGTCCCAGACATGGTCTTAC-TCTAGCTCTCATAAC-ATGCGATGC
206998 CATGT
1 CATGT
207003 TCATGGTCTG
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
47 10 0.12
48 72 0.85
49 3 0.04
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.32
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACTCTAGCTCTCATAACATGCGATGC
Found at i:208360 original size:48 final size:47
Alignment explanation
Indices: 208302--208438 Score: 150
Period size: 48 Copynumber: 2.9 Consensus size: 47
208292 CATAGGTAAA
* * * *
208302 AATAATAGTGTCTAGTTACCTGTTTGCGTTAAACCTACATGAATAATT
1 AATAATAGTGTCTGGTTACCTGTTAG-GTTAAACCTACATAAATAATG
* *
208350 AATAATAGTGTCTGGTTA-CTCGTCAAGGTTAAACCTACACAAATAATG
1 AATAATAGTGTCTGGTTACCT-GT-TAGGTTAAACCTACATAAATAATG
* **
208398 AATAATAGTGTTTGGTTACCCCTTAGGGTTAAACCTACATA
1 AATAATAGTGTCTGGTTACCTGTTA-GGTTAAACCTACATA
208439 GTAGATAGTT
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
47 3 0.04
48 69 0.93
49 2 0.03
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (47 bp):
AATAATAGTGTCTGGTTACCTGTTAGGTTAAACCTACATAAATAATG
Found at i:216760 original size:32 final size:32
Alignment explanation
Indices: 216717--216809 Score: 159
Period size: 32 Copynumber: 2.9 Consensus size: 32
216707 TGTCAATCAT
*
216717 TTCAATTTCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
216749 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
216781 TTAAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
216810 CAATATCTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:216833 original size:27 final size:27
Alignment explanation
Indices: 216784--216836 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
216774 TAATAAATTA
*
216784 AATATCTAACAAGCTTAAAACATAATC
1 AATATCTAACAAGATTAAAACATAATC
*
216811 AATATCTAACAA-ATTCAAGACATAAT
1 AATATCTAACAAGATT-AAAACATAAT
216837 AATTTCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (27 bp):
AATATCTAACAAGATTAAAACATAATC
Found at i:216835 original size:59 final size:62
Alignment explanation
Indices: 216727--216848 Score: 144
Period size: 59 Copynumber: 2.0 Consensus size: 62
216717 TTCAATTTCC
*
216727 AACAAGCTTAAAACATAATAAATTCAATATCCAACAAGCTTAAAACATAATAAATTAAATATCT
1 AACAAGCTTAAAAC--AATAAATTCAATATCCAACAAGATTAAAACATAATAAATTAAATATCT
* * * *
216791 AACAAGCTTAAAAC-AT-AA-TCAATATCTAACAA-ATTCAAGACATAATAATTTCAATATC
1 AACAAGCTTAAAACAATAAATTCAATATCCAACAAGATT-AAAACATAATAAATTAAATATC
216849 ATTATCCAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
58 2 0.04
59 32 0.62
60 2 0.04
61 2 0.04
64 14 0.27
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.27
Consensus pattern (62 bp):
AACAAGCTTAAAACAATAAATTCAATATCCAACAAGATTAAAACATAATAAATTAAATATCT
Found at i:216845 original size:32 final size:31
Alignment explanation
Indices: 216717--216848 Score: 130
Period size: 32 Copynumber: 4.3 Consensus size: 31
216707 TGTCAATCAT
* *
216717 TTCAATTTCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTT-AAACATAATAAA
*
216749 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTT-AAACATAATAAA
* *
216781 TTAAATATCTAACAAGCTTAAA-A-CAT-AA
1 TTCAATATCTAACAAGCTTAAACATAATAAA
* *
216809 -TCAATATCTAACAA-ATTCAAGACATAATAAT
1 TTCAATATCTAACAAGCTT-AA-ACATAATAAA
216840 TTCAATATC
1 TTCAATATC
216849 ATTATCCAAC
Statistics
Matches: 86, Mismatches: 8, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
26 2 0.02
27 15 0.17
28 3 0.03
29 3 0.03
30 3 0.03
31 4 0.05
32 56 0.65
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (31 bp):
TTCAATATCTAACAAGCTTAAACATAATAAA
Found at i:223881 original size:17 final size:16
Alignment explanation
Indices: 223859--223911 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
223849 TTTTCAATAG
223859 ACAGATGCAAAATCCAA
1 ACAGATGCAAAA-CCAA
*
223876 ACAGAT--TAAA-CAA
1 ACAGATGCAAAACCAA
223889 ACAGATGCAAAACCCAA
1 ACAGATGCAAAA-CCAA
223906 ACAGAT
1 ACAGAT
223912 TCTTCAACAA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 9 0.30
15 6 0.20
17 15 0.50
ACGTcount: A:0.55, C:0.23, G:0.11, T:0.11
Consensus pattern (16 bp):
ACAGATGCAAAACCAA
Found at i:225394 original size:46 final size:46
Alignment explanation
Indices: 225327--225688 Score: 331
Period size: 46 Copynumber: 7.8 Consensus size: 46
225317 TGTAACCCGC
*
225327 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
225373 CCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * *
225419 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
225466 CCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * *
225512 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * * * *
225559 CCATAAGTGAACTCAGACTCAACTCAACAAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * * *
225605 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
225652 CCAAAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
225689 TGCTCAACCA
Statistics
Matches: 244, Mismatches: 57, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
45 5 0.02
46 135 0.55
47 98 0.40
48 6 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:225446 original size:47 final size:47
Alignment explanation
Indices: 225381--225642 Score: 266
Period size: 47 Copynumber: 5.6 Consensus size: 47
225371 ATCCATAAGT
225381 GAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
* * * * * * * * *
225428 GAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA--TAAGT
1 GAACTCAGACTCAACTCAACAAGTTCGGATGCCTAG-TTACATTTCA-C
225474 GAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
* * * * * * * * *
225521 GAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCATCCA--TAAGT
1 GAACTCAGACTCAACTCAACAAGTTCGGATGCCTAG-TTACATTTCA-C
225567 GAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
1 GAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
* *
225614 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCAGACTCAACTCAACAAGTTCGGA
225643 CATTCGCATC
Statistics
Matches: 167, Mismatches: 38, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
45 4 0.02
46 66 0.40
47 93 0.56
48 4 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:225447 original size:93 final size:93
Alignment explanation
Indices: 225335--225691 Score: 687
Period size: 93 Copynumber: 3.8 Consensus size: 93
225325 GCCCATAAGT
225335 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
225400 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
225428 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
225493 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
225521 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
225586 CAAGTTCGGATGCCTAGTTACATTTCAC
66 CAAGTTCGGATGCCTAGTTACATTTCAC
* *
225614 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAAAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
225679 CGAGTTCGGATGC
66 CAAGTTCGGATGC
225692 TCAACCATCC
Statistics
Matches: 261, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 261 1.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CAAGTTCGGATGCCTAGTTACATTTCAC
Found at i:230001 original size:9 final size:9
Alignment explanation
Indices: 229987--230023 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
229977 TATAGCTTGG
229987 TATTCAATT
1 TATTCAATT
*
229996 TATTCAAAT
1 TATTCAATT
*
230005 TATTCAAGT
1 TATTCAATT
230014 TATTCAATT
1 TATTCAATT
230023 T
1 T
230024 GAAAATCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (9 bp):
TATTCAATT
Found at i:231700 original size:43 final size:43
Alignment explanation
Indices: 231620--231715 Score: 122
Period size: 43 Copynumber: 2.2 Consensus size: 43
231610 TGATTATGTA
*
231620 TAAGACCATGTTTGGGACATTGACATCATTATGTGATTACATG
1 TAAGACCATATTTGGGACATTGACATCATTATGTGATTACATG
* ** * *
231663 TAAGACCATATCTT-GGACATTGGCATTGTTATTTGATTTCATG
1 TAAGACCATAT-TTGGGACATTGACATCATTATGTGATTACATG
231706 TAAGACCATA
1 TAAGACCATA
231716 GCTGGGCTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 44 0.96
44 2 0.04
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (43 bp):
TAAGACCATATTTGGGACATTGACATCATTATGTGATTACATG
Found at i:231749 original size:43 final size:43
Alignment explanation
Indices: 231649--231754 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
231639 TTGACATCAT
* ** * *
231649 TATGTGATTACATGTAAGACCATATCTTGGACATTGGCATTGT
1 TATGTGATTACATGTAAGACCATAGCTTGGACATCAGCATCGA
* * *
231692 TATTTGATTTCATGTAAGACCATAGC-TGGGCTATCAGCATCGA
1 TATGTGATTACATGTAAGACCATAGCTTGGAC-ATCAGCATCGA
*
231735 TATGTGATAACATGTAAGAC
1 TATGTGATTACATGTAAGAC
231755 TATATATGGG
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 4 0.08
43 47 0.92
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (43 bp):
TATGTGATTACATGTAAGACCATAGCTTGGACATCAGCATCGA
Found at i:233713 original size:12 final size:12
Alignment explanation
Indices: 233696--233722 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
233686 ATACACTCTT
233696 GTGTGCTAGGCC
1 GTGTGCTAGGCC
233708 GTGTGCTAGGCC
1 GTGTGCTAGGCC
233720 GTG
1 GTG
233723 CCAAACCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.22, G:0.44, T:0.26
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:235864 original size:24 final size:24
Alignment explanation
Indices: 235820--235866 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
235810 GATGGACAGT
*
235820 AACGGTAAGCTCTGATAAGCTGAA
1 AACGGTAAGCTCTGACAAGCTGAA
* *
235844 AACGGTAAGCTCTTACGAGCTGA
1 AACGGTAAGCTCTGACAAGCTGA
235867 TATATCAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (24 bp):
AACGGTAAGCTCTGACAAGCTGAA
Found at i:244245 original size:27 final size:27
Alignment explanation
Indices: 244195--244258 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
244185 TGTGTTGACG
244195 AGCTGGGGTTCGCCAGTCCTTTTGGCA
1 AGCTGGGGTTCGCCAGTCCTTTTGGCA
* * **
244222 AGCTTGGGTTCGCTAGT-CTATTTGGTG
1 AGCTGGGGTTCGCCAGTCCT-TTTGGCA
244249 AGCTGGGGTT
1 AGCTGGGGTT
244259 TTCCATTCTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.11, C:0.19, G:0.36, T:0.34
Consensus pattern (27 bp):
AGCTGGGGTTCGCCAGTCCTTTTGGCA
Found at i:247705 original size:27 final size:27
Alignment explanation
Indices: 247657--247708 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
247647 GACTACCCCG
*
247657 TGTTTAACGTCCGATCAAACTATCTCA
1 TGTTTAACGTCCCATCAAACTATCTCA
* * *
247684 TGTTTAATGTCCCATTAGACTATCT
1 TGTTTAACGTCCCATCAAACTATCT
247709 TTGCTGTTGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (27 bp):
TGTTTAACGTCCCATCAAACTATCTCA
Found at i:258810 original size:40 final size:40
Alignment explanation
Indices: 258763--258939 Score: 273
Period size: 40 Copynumber: 4.4 Consensus size: 40
258753 GGCTCGGATG
258763 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
1 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
* * * *
258803 TATTAACCTGCACGAATGCCTTCGGGACTTAGCCCGATTA
1 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
** *
258843 TAATAACCCCCACGAATGCCTTCGGGACTTACCCCGGTTA
1 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
258883 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
1 TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
* *
258923 CAATAACCCGCACGAAT
1 TAATAACCAGCACGAAT
258940 ACTACGCACA
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.23
Consensus pattern (40 bp):
TAATAACCAGCACGAATGCCTTCGGGACTTAACCCGGTTA
Found at i:260851 original size:26 final size:26
Alignment explanation
Indices: 260822--260881 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 26
260812 TCCCTTTGAA
* * *
260822 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
260848 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
260876 TCATTC
1 TCATTC
260882 TCAATATTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 2 0.07
28 22 0.76
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:278034 original size:94 final size:94
Alignment explanation
Indices: 277873--278301 Score: 752
Period size: 94 Copynumber: 4.6 Consensus size: 94
277863 ATGCCATGTC
277873 CACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT
1 CACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT
277938 GCCGATGCCATGTCCCAGACATGGTCTTA
66 GCCGATGCCATGTCCCAGACATGGTCTTA
277967 CACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT
1 CACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT
278032 GCCGATGCCATGTCCCAGACATGGTCTTA
66 GCCGATGCCATGTCCCAGACATGGTCTTA
278061 CACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT
1 CACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT
278126 GCCGATGCCATGTCCCAGACATGGTCTTA
66 GCCGATGCCATGTCCCAGACATGGTCTTA
* * * *
278155 CACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCT-GGA
1 CACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTG-
*
278219 TGCCGATGCCATGTCCCAGACATAGTCTTA
65 TGCCGATGCCATGTCCCAGACATGGTCTTA
* * ** *
278249 CACTGGCTATCATAATGTGGCCAAAGCATGTCCCAGACATGTCTTACACTGGC
1 CACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTGGC
278302 GCACAAATCA
Statistics
Matches: 323, Mismatches: 11, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
93 1 0.00
94 322 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (94 bp):
CACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGT
GCCGATGCCATGTCCCAGACATGGTCTTA
Found at i:278682 original size:30 final size:30
Alignment explanation
Indices: 278641--278698 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
278631 AAATTTACAT
* * *
278641 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATAACCATTTTACCCCTAGA
278671 CTTTGGCAAAATAACCATTTTACCCCTA
1 CTTTGGCAAAATAACCATTTTACCCCTA
278699 TGCCCGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATAACCATTTTACCCCTAGA
Found at i:281221 original size:378 final size:377
Alignment explanation
Indices: 280488--281185 Score: 894
Period size: 378 Copynumber: 1.8 Consensus size: 377
280478 TGATAAGGTT
* * **
280488 TTGTAACAACTCGTTTTTAGGTCAAATCAAAATAGTAATTTCGGGATCAAAAATTTAAAGTAGAA
1 TTGTAACAACCCGTTTTTAGGTCAAATCAAAATAGTAATTTCGGGACCAAAAATCCAAAGTAGAA
** *
280553 ATATTTGTTTTAATATTTATTTAAGGTCTACAACATGGTAGAATAATTGTGTAAAATTTCGTTTA
66 ATATTACTTTTAATATTTATTTAAGGTCTACAACATGGTAGAATAATTGTGTAAAATTTCGTTAA
* *
280618 GAAATTTTATCGATTGAGTACGTAATTTGACTAGAAGGACTAAATTGCAATAGGTGCAAAATTTG
131 GAAATTTTATCGATAGAGTA-GTAATTTGACTAGAAGGACTAAATTGCAATAGGTGCAAAATATG
*
280683 AGTTCTATAGGCTAAAGGTAGTAAATTGTTATGAAATTCTAAATTAGAGGTCCTTAAATGGTAAT
195 AGTTCTAAAGGCTAAAGGTAGTAAATTGTTATGAAATTCTAAATTAGAGGTCCTTAAATGGTAAT
280748 TAGACCATTATACTTTACAATGGACAAAAATGGACATGGAGTAGGTAAAATTTCAAAGTTTAAGT
260 TAGACCATTATACTTTACAATGGACAAAAATGGACATGGAGTAGGTAAAATTTCAAAGTTTAAGT
* * *
280813 GTGGGGTAAATAGGTAATTTGGTAAATAAAGCCAAAATAACTAAAATAAGATG
325 GTAGGGCAAATAGGTAATTTGGTAAATAAAGACAAAATAACTAAAATAAGATG
* * ** * *
280866 TTGTAACAACCCGTTTTTTGGTCAAATCCAAATAGTGGTTTTGGGACCACAAATCCAAAGTAGAA
1 TTGTAACAACCCGTTTTTAGGTCAAATCAAAATAGTAATTTCGGGACCAAAAATCCAAAGTAGAA
* * ** *
280931 ATGTTACTTTTATTA-TTACTTTAAGGTCTACAGTATGGTTA-AATACTTGTGTGAAAATTTCGT
66 ATATTACTTTTAATATTTA-TTTAAGGTCTACAACATGG-TAGAATAATTGTGT-AAAATTTCGT
* *
280994 TAAGAAATTTTATCGATAGGGT-GTCCAATTTGACTA-ATAGGACTAAATTGCAATAGGTGTAAA
128 TAAGAAATTTTATCGATAGAGTAGT--AATTTGACTAGA-AGGACTAAATTGCAATAGGTGCAAA
* * * * * *
281057 ATATGTGTTCTAGAAGG-TAGAGGT-GTCTAATTGTTAT-AAATTTTTAAATTGGAGGTCCTTGA
190 ATATGAGTTCTA-AAGGCTAAAGGTAGT-AAATTGTTATGAAA-TTCTAAATTAGAGGTCCTTAA
* * * * *
281119 ATGGTCATTA-ACCATTATACTTTA-AGTTGGACGAAAATGGACATGG-TTAGGTGAAATTTCAA
252 ATGGTAATTAGACCATTATACTTTACA-ATGGACAAAAATGGACATGGAGTAGGTAAAATTTCAA
281181 AGTTT
316 AGTTT
281186 GGCATTAAGG
Statistics
Matches: 276, Mismatches: 34, Indels: 21
0.83 0.10 0.06
Matches are distributed among these distances:
377 25 0.09
378 131 0.47
379 117 0.42
380 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (377 bp):
TTGTAACAACCCGTTTTTAGGTCAAATCAAAATAGTAATTTCGGGACCAAAAATCCAAAGTAGAA
ATATTACTTTTAATATTTATTTAAGGTCTACAACATGGTAGAATAATTGTGTAAAATTTCGTTAA
GAAATTTTATCGATAGAGTAGTAATTTGACTAGAAGGACTAAATTGCAATAGGTGCAAAATATGA
GTTCTAAAGGCTAAAGGTAGTAAATTGTTATGAAATTCTAAATTAGAGGTCCTTAAATGGTAATT
AGACCATTATACTTTACAATGGACAAAAATGGACATGGAGTAGGTAAAATTTCAAAGTTTAAGTG
TAGGGCAAATAGGTAATTTGGTAAATAAAGACAAAATAACTAAAATAAGATG
Found at i:287319 original size:45 final size:44
Alignment explanation
Indices: 287245--287333 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
287235 GGGAAAGTGT
* *
287245 TACTTGGGATTTCTTCCAAGAGGAATTCAGACAGAAATACATCA
1 TACTAGGGATTTCTTCCAAGAGGAATTCAGAAAGAAATACATCA
* * * *
287289 NTACTAGGGATTTCTTTCAAGGGGAGTTCAGAAAGAAGTACATCA
1 -TACTAGGGATTTCTTCCAAGAGGAATTCAGAAAGAAATACATCA
287334 GTTAGCGATT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.27
Consensus pattern (44 bp):
TACTAGGGATTTCTTCCAAGAGGAATTCAGAAAGAAATACATCA
Found at i:300196 original size:29 final size:30
Alignment explanation
Indices: 300153--300213 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
300143 ATTAAGCTAG
* *
300153 AACGGATTCATAAACA-TAAAAATATTAAA
1 AACGAATTCAAAAACATTAAAAATATTAAA
300182 AACGAATTCAAAAACATTAAAAATATTAAA
1 AACGAATTCAAAAACATTAAAAATATTAAA
300212 AA
1 AA
300214 TGGGATCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.62, C:0.10, G:0.05, T:0.23
Consensus pattern (30 bp):
AACGAATTCAAAAACATTAAAAATATTAAA
Found at i:301750 original size:22 final size:22
Alignment explanation
Indices: 301713--301755 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
301703 TACATTTGAT
301713 AAATATTAGATTAAATTTAATATA
1 AAATATTA-ATTAAA-TTAATATA
301737 AAATATT-ATTAAATTAATA
1 AAATATTAATTAAATTAATA
301756 GAATATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 6 0.32
24 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATTAATTAAATTAATATA
Found at i:307365 original size:27 final size:27
Alignment explanation
Indices: 307335--307386 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
307325 CGTCCTAGCA
*
307335 GACTACCTCATGTTTAACATCCCATTG
1 GACTACCCCATGTTTAACATCCCATTG
*
307362 GACTACCCCGTGTTTAACATCCCAT
1 GACTACCCCATGTTTAACATCCCAT
307387 CAAACTATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.33, G:0.12, T:0.31
Consensus pattern (27 bp):
GACTACCCCATGTTTAACATCCCATTG
Found at i:307393 original size:27 final size:27
Alignment explanation
Indices: 307336--307420 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
307326 GTCCTAGCAG
* ***
307336 ACTACCTCATGTTTAACATCCCATTGG
1 ACTACCCCATGTTTAACATCCCATCAA
*
307363 ACTACCCCGTGTTTAACATCCCATCAA
1 ACTACCCCATGTTTAACATCCCATCAA
* * *
307390 ACTATCCTATGTTTAACA-CCTCGTCAA
1 ACTACCCCATGTTTAACATCC-CATCAA
307417 ACTA
1 ACTA
307421 TCTTTGATAC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
26 2 0.04
27 46 0.96
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.31
Consensus pattern (27 bp):
ACTACCCCATGTTTAACATCCCATCAA
Found at i:311044 original size:48 final size:48
Alignment explanation
Indices: 310968--311196 Score: 229
Period size: 48 Copynumber: 4.9 Consensus size: 48
310958 ACACATGGTA
* * *
310968 CGATGCCAATGCCATATCCC-GGATATGGTCTTACATTGGATCACATAT
1 CGATGCCAATGCCATGTCCCAGG-CATGGTCTTACATGGGATCACATAT
*** *
311016 CGATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGATTGTAGAT
1 CGATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCACATAT
**
311064 CGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAT
1 CGATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCACATAT
* * ** *
311112 CGATGCCAAT---A-G-CCCA-GCTACGGTCTTACACGAAATTACATAT
1 CGATGCCAATGCCATGTCCCAGGC-ATGGTCTTACATGGGATCACATAT
* * * *
311155 AGATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATC
1 CGATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGATC
311197 GCACATAACC
Statistics
Matches: 145, Mismatches: 28, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
42 1 0.01
43 31 0.21
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 106 0.73
49 3 0.02
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (48 bp):
CGATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCACATAT
Found at i:311181 original size:91 final size:94
Alignment explanation
Indices: 310969--311196 Score: 266
Period size: 91 Copynumber: 2.4 Consensus size: 94
310959 CACATGGTAC
* * * *
310969 GATGCCAATGCCATATCCCGGATATGGTCTTACATTGGATCACATATCGATGCCAATGCCATGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAAT--CATGTC
* * ** ** *
311034 CCAGGCATGGTCTTACATGGGATTGTAGATC
64 CCAGGCACGGTCTTACACGAAATTACAGATA
*
311065 GATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATATCGATGCCAAT-A-G-CCC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATCATGTCCC
*
311127 A-GCTACGGTCTTACACGAAATTACATATA
66 AGGC-ACGGTCTTACACGAAATTACAGATA
* *
311156 GATGCCAAAGCCATGTCCTAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
311197 GCACATAACC
Statistics
Matches: 115, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
90 2 0.02
91 59 0.51
92 1 0.01
93 1 0.01
96 52 0.45
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (94 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCAATCATGTCCC
AGGCACGGTCTTACACGAAATTACAGATA
Found at i:312632 original size:43 final size:43
Alignment explanation
Indices: 312584--312668 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
312574 TGAACACTCA
*
312584 TTCCTTAGAGCACAAGCTTCGTATCCGGATTGGTGGAAGTGGT
1 TTCCTTAGAGCACAAGCTTCGTATCCGGATTGGTGAAAGTGGT
*
312627 TTCCTTAGAGTACAAGCTTCGTATCCGGATTGGTGAAAGTGG
1 TTCCTTAGAGCACAAGCTTCGTATCCGGATTGGTGAAAGTGG
312669 GAGCTGTGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (43 bp):
TTCCTTAGAGCACAAGCTTCGTATCCGGATTGGTGAAAGTGGT
Found at i:326117 original size:47 final size:47
Alignment explanation
Indices: 325966--326126 Score: 164
Period size: 47 Copynumber: 3.4 Consensus size: 47
325956 TGGGATATTT
* *
325966 GTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTT
1 GTTGAGTTGAGTCCGAGTTCGAGAAATGTAACTAGGCATCCGAACTC
* *** * * * * *
326013 GTTGAGTTGAGTCTGAGTTC-ACTTATGGATGCGA-ACGTCCGAACTC
1 GTTGAGTTGAGTCCGAGTTCGAGAAATGTA-ACTAGGCATCCGAACTC
* *
326059 GTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCATCCGAGCTC
1 GTTGAGTTGAGTCCGAGTTCGAGAAATGTAACTAGGCATCCGAACTC
* *
326106 ATTGAGTTGAGTCCGTGTTCG
1 GTTGAGTTGAGTCCGAGTTCG
326127 GTTATGGGCG
Statistics
Matches: 88, Mismatches: 23, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
46 34 0.39
47 54 0.61
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (47 bp):
GTTGAGTTGAGTCCGAGTTCGAGAAATGTAACTAGGCATCCGAACTC
Found at i:326569 original size:92 final size:92
Alignment explanation
Indices: 326453--326635 Score: 357
Period size: 92 Copynumber: 2.0 Consensus size: 92
326443 TTGCATGTGA
326453 ACTTATTAAGCATTTATGCTTACTCCCTCCTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGG
1 ACTTATTAAGCATTTATGCTTACTCCCTCCTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGG
326518 AAATCGGGAACGGTCGGAGGCTCGCTC
66 AAATCGGGAACGGTCGGAGGCTCGCTC
326545 ACTTATTAAGCATTTATGCTTACTCCCTCCTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGG
1 ACTTATTAAGCATTTATGCTTACTCCCTCCTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGG
*
326610 AAATCGGGAATGGTCGGAGGCTCGCT
66 AAATCGGGAACGGTCGGAGGCTCGCT
326636 TACACTATCC
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
92 90 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (92 bp):
ACTTATTAAGCATTTATGCTTACTCCCTCCTTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGG
AAATCGGGAACGGTCGGAGGCTCGCTC
Found at i:327385 original size:101 final size:101
Alignment explanation
Indices: 327210--327411 Score: 343
Period size: 101 Copynumber: 2.0 Consensus size: 101
327200 TAGGGGAGAA
327210 TTTAACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAACAATTACTAGATAGATA
1 TTTAACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAACAATTACTAGATAGATA
327275 TATAAGTCTAGTTTCAGGAAAAATTTACAGAATTGG
66 TATAAGTCTAGTTTCAGGAAAAATTTACAGAATTGG
* *
327311 TTTAACTAATAAACTGTACTAATTGGCCTGACCAAAAATTCTAG-AAACAAATTAGTAGATAGAT
1 TTTAACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAAC-AATTACTAGATAGAT
* * *
327375 ATATGAGTCTAGTTTTAGGAAAAATTTACGGAATTGG
65 ATATAAGTCTAGTTTCAGGAAAAATTTACAGAATTGG
327412 ATTTCAAGTT
Statistics
Matches: 95, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 4 0.04
101 91 0.96
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (101 bp):
TTTAACTAATAAACTGTACTAATTGGCCAGACCAAAAATTCTAGAAAACAATTACTAGATAGATA
TATAAGTCTAGTTTCAGGAAAAATTTACAGAATTGG
Found at i:327477 original size:42 final size:43
Alignment explanation
Indices: 327418--327506 Score: 153
Period size: 42 Copynumber: 2.1 Consensus size: 43
327408 TTGGATTTCA
327418 AGTTTCGGAACTCGAGATATGATTTTTAAAGCGACTGTGATG-
1 AGTTTCGGAACTCGAGATATGATTTTTAAAGCGACTGTGATGC
* *
327460 AGTTTTGGAACTCGAGATATGATTTTTACAGCGACTGTGATGC
1 AGTTTCGGAACTCGAGATATGATTTTTAAAGCGACTGTGATGC
327503 AGTT
1 AGTT
327507 AGCCAGCTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 40 0.91
43 4 0.09
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.35
Consensus pattern (43 bp):
AGTTTCGGAACTCGAGATATGATTTTTAAAGCGACTGTGATGC
Found at i:328431 original size:17 final size:17
Alignment explanation
Indices: 328409--328461 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
328399 TTGTTGAAGA
328409 ATCTGTTTGGGTTTTGC
1 ATCTGTTTGGGTTTTGC
*
328426 ATCTGTTT--G-TTT-A
1 ATCTGTTTGGGTTTTGC
*
328439 ATCTGTTTGGATTTTGC
1 ATCTGTTTGGGTTTTGC
328456 ATCTGT
1 ATCTGT
328462 CTATTGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
13 8 0.28
14 3 0.10
15 1 0.03
16 3 0.10
17 14 0.48
ACGTcount: A:0.11, C:0.11, G:0.23, T:0.55
Consensus pattern (17 bp):
ATCTGTTTGGGTTTTGC
Found at i:335547 original size:59 final size:60
Alignment explanation
Indices: 335472--335605 Score: 146
Period size: 59 Copynumber: 2.2 Consensus size: 60
335462 GTTGGATAAT
*
335472 GATATTGAAATTATTATGTCTTGAA-TTTGTTAGATATTG-ATTATGTTTTAAGCTTGTTA
1 GATATTGAAATTATTATGT-TTGAAGCTTGTTAGATATTGTATTATGTTTTAAGCTTGTTA
* * * * *
335531 GATATTTAATTTATTATGTTTTAAGCTTGTTGGATATTGAATTTATTATGTTTTAAGCTTGTTG
1 GATATTGAAATTATTATGTTTGAAGCTTGTTAGATATTG----TATTATGTTTTAAGCTTGTTA
*
335595 GAAATTGAAAT
1 GATATTGAAAT
335606 GATTGACAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
58 4 0.07
59 29 0.48
64 27 0.45
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (60 bp):
GATATTGAAATTATTATGTTTGAAGCTTGTTAGATATTGTATTATGTTTTAAGCTTGTTA
Found at i:335550 original size:32 final size:32
Alignment explanation
Indices: 335472--335603 Score: 150
Period size: 32 Copynumber: 4.3 Consensus size: 32
335462 GTTGGATAAT
* * *
335472 GATATTGAAATTATTATGTCTTGAA-TTTGTTA
1 GATATTGAATTTATTATGT-TTTAAGCTTGTTA
335504 GATATTG-----ATTATGTTTTAAGCTTGTTA
1 GATATTGAATTTATTATGTTTTAAGCTTGTTA
* *
335531 GATATTTAATTTATTATGTTTTAAGCTTGTTG
1 GATATTGAATTTATTATGTTTTAAGCTTGTTA
*
335563 GATATTGAATTTATTATGTTTTAAGCTTGTTG
1 GATATTGAATTTATTATGTTTTAAGCTTGTTA
*
335595 GAAATTGAA
1 GATATTGAA
335604 ATGATTGACA
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.05
27 19 0.22
32 65 0.74
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (32 bp):
GATATTGAATTTATTATGTTTTAAGCTTGTTA
Done.