Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 83 of 97
Found at i:32768086 original size:28 final size:28
Alignment explanation
Indices: 32768025--32768089 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
32768015 TATCATTATT
*
32768025 CATCCACTTCTAGTAGGTTAAAAATATT
1 CATCCACTTCTAGTAGGTTAAAAATATC
* *
32768053 CATCCACTTCT-GATAGGTTACAAGTATC
1 CATCCACTTCTAG-TAGGTTAAAAATATC
*
32768081 CTTCCACTT
1 CATCCACTT
32768090 TTGGTGGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (28 bp):
CATCCACTTCTAGTAGGTTAAAAATATC
Found at i:32768135 original size:18 final size:19
Alignment explanation
Indices: 32768112--32768151 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
32768102 CTATGATTAG
*
32768112 TTATCCA-CTTTTGGTGGA
1 TTATCCATCTTTTAGTGGA
*
32768130 TTATCCATTTTTTAGTGGA
1 TTATCCATCTTTTAGTGGA
32768149 TTA
1 TTA
32768152 CTGGGTTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.50
Consensus pattern (19 bp):
TTATCCATCTTTTAGTGGA
Found at i:32768225 original size:25 final size:26
Alignment explanation
Indices: 32768168--32768225 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
32768158 TTAGGCATAG
* *
32768168 ATCCACTTTTGATGGTAAAATTATTC
1 ATCCACTTTTGAAGGTAAAATTATCC
*
32768194 ATACACTTTTGAAGGT-AAATTATCC
1 ATCCACTTTTGAAGGTAAAATTATCC
32768219 ATCCACT
1 ATCCACT
32768226 CCTTGTGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 14 0.50
26 14 0.50
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (26 bp):
ATCCACTTTTGAAGGTAAAATTATCC
Found at i:32769000 original size:17 final size:18
Alignment explanation
Indices: 32768967--32769001 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
32768957 ATTCATAACA
*
32768967 TTTTTTATATATTTTTAT
1 TTTTTTATATATATTTAT
32768985 TTTTTTA-ATATATTTAT
1 TTTTTTATATATATTTAT
32769002 CTAAATTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTATATATATTTAT
Found at i:32773572 original size:17 final size:17
Alignment explanation
Indices: 32773539--32773572 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32773529 GCAATAGAAC
*
32773539 AATTGTTAATGAGAAGA
1 AATTGTTAATGACAAGA
*
32773556 AATTGTTAATTACAAGA
1 AATTGTTAATGACAAGA
32773573 GAAGTGCACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.03, G:0.18, T:0.32
Consensus pattern (17 bp):
AATTGTTAATGACAAGA
Found at i:32775715 original size:6 final size:6
Alignment explanation
Indices: 32775706--32775789 Score: 105
Period size: 6 Copynumber: 13.7 Consensus size: 6
32775696 TTATTCTTAT
* *
32775706 ATATAC ATATAC ATATTC ATATAC ATATATAT ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC --ATATAC ATATAC ATATAC ATATAC
* * *
32775756 ATATAT ATATAT AAATAC ATATAC ATATAC ATAT
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATAT
32775790 GTATAGGAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
6 63 0.93
8 5 0.07
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (6 bp):
ATATAC
Found at i:32775733 original size:26 final size:26
Alignment explanation
Indices: 32775704--32775789 Score: 131
Period size: 26 Copynumber: 3.4 Consensus size: 26
32775694 ACTTATTCTT
* *
32775704 ATATATACATATACATATTCATATAC
1 ATATATATATATACATATACATATAC
32775730 ATATATATATATACATATACATATAC
1 ATATATATATATACATATACATATAC
32775756 ATATATATATATA-A-ATACATATAC
1 ATATATATATATACATATACATATAC
*
32775780 ATATACATAT
1 ATATATATAT
32775790 GTATAGGAAC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
24 19 0.33
25 1 0.02
26 37 0.65
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (26 bp):
ATATATATATATACATATACATATAC
Found at i:32782778 original size:2 final size:2
Alignment explanation
Indices: 32782771--32782852 Score: 73
Period size: 2 Copynumber: 42.5 Consensus size: 2
32782761 TCGTAAAAGA
* * *
32782771 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AN A- AA AT CGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * *
32782812 A- AA AG A- AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32782852 A
1 A
32782853 AACAAGCACT
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
1 4 0.06
2 65 0.93
3 1 0.01
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.40
Consensus pattern (2 bp):
AT
Found at i:32782811 original size:47 final size:46
Alignment explanation
Indices: 32782756--32782848 Score: 168
Period size: 47 Copynumber: 2.0 Consensus size: 46
32782746 AGAAAAGAAG
*
32782756 AAAAATCGTAAAAGAATATATATATATATATATATATATATATATA
1 AAAAATCGTAAAAGAAAATATATATATATATATATATATATATATA
32782802 ANAAAATCGTAAAAGAAAATATATATATATATATATATATATATATA
1 A-AAAATCGTAAAAGAAAATATATATATATATATATATATATATATA
32782849 TATAAACAAG
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 1 0.02
47 44 0.98
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.35
Consensus pattern (46 bp):
AAAAATCGTAAAAGAAAATATATATATATATATATATATATATATA
Found at i:32786394 original size:18 final size:21
Alignment explanation
Indices: 32786373--32786414 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 21
32786363 CAAATGATAG
32786373 AAATATGTAA-AA-TAA-AAT
1 AAATATGTAATAATTAAGAAT
*
32786391 AAATTTGTAATAATTAAGAAT
1 AAATATGTAATAATTAAGAAT
32786412 AAA
1 AAA
32786415 AATAAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
19 2 0.10
20 3 0.15
21 6 0.30
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (21 bp):
AAATATGTAATAATTAAGAAT
Found at i:32787073 original size:21 final size:21
Alignment explanation
Indices: 32787044--32787083 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
32787034 ATCGTACTTA
32787044 ACTTAATTTTTTAATATTTAT
1 ACTTAATTTTTTAATATTTAT
* *
32787065 ACTTTATTTTTTATTATTT
1 ACTTAATTTTTTAATATTT
32787084 TCACTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
ACTTAATTTTTTAATATTTAT
Found at i:32791727 original size:18 final size:18
Alignment explanation
Indices: 32791704--32791756 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
32791694 TTTTTTTTAT
32791704 TTAAATTTATATTATTAA
1 TTAAATTTATATTATTAA
*
32791722 TTAAATTAAT-TTA-TAA
1 TTAAATTTATATTATTAA
*
32791738 --AAATATA-ATTATTAA
1 TTAAATTTATATTATTAA
32791753 TTAA
1 TTAA
32791757 CTTATAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 9
0.70 0.08 0.22
Matches are distributed among these distances:
14 8 0.29
15 3 0.11
16 3 0.11
17 5 0.18
18 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAATTTATATTATTAA
Found at i:32791947 original size:16 final size:17
Alignment explanation
Indices: 32791919--32791964 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 17
32791909 TTTTTATTTT
32791919 TTATTAATGTTATAAAAA
1 TTATTAAT-TTATAAAAA
32791937 TTA-TAATTTAT-AAAA
1 TTATTAATTTATAAAAA
32791952 TTATTAA-TTATAA
1 TTATTAATTTATAA
32791965 TATACATACT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 11 0.42
16 8 0.31
17 4 0.15
18 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
TTATTAATTTATAAAAA
Found at i:32792171 original size:34 final size:35
Alignment explanation
Indices: 32792123--32792196 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
32792113 ACTTATAATG
* * *
32792123 TTTAAGTTGTTATTTGA-ATATTTATTTTTAGTTA
1 TTTAAGTCGATATTTGAGATATTTATTTTTAATTA
32792157 TTTAAGTCGATATTTGAGATATTTATTTTTAATTA
1 TTTAAGTCGATATTTGAGATATTTATTTTTAATTA
32792192 TTTAA
1 TTTAA
32792197 ATTTTGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
34 15 0.42
35 21 0.58
ACGTcount: A:0.30, C:0.01, G:0.11, T:0.58
Consensus pattern (35 bp):
TTTAAGTCGATATTTGAGATATTTATTTTTAATTA
Found at i:32792600 original size:2 final size:2
Alignment explanation
Indices: 32792591--32792620 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
32792581 TTTGAATTAT
32792591 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32792621 TACCTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32799731 original size:45 final size:45
Alignment explanation
Indices: 32799674--32799813 Score: 167
Period size: 45 Copynumber: 3.1 Consensus size: 45
32799664 TTTTTTTTCA
* * * **
32799674 ACATGATGTGTAACGACCTAATCAT-GACTTGTCACAGGTTTTTGT
1 ACATGACGTGTAACAAGCTAATCATAG-CTTGTCACAAATTTTTGT
* *
32799719 ACATTACGTGTAACAAGCTAATCATAGCTTG-CTACATATTTTTGT
1 ACATGACGTGTAACAAGCTAATCATAGCTTGTC-ACAAATTTTTGT
* *
32799764 ATATGACGTGTAACAAGCTAACCATAGCTTGTCACAAATTTTTGT
1 ACATGACGTGTAACAAGCTAATCATAGCTTGTCACAAATTTTTGT
32799809 ACATG
1 ACATG
32799814 GCTTGTCACA
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
44 1 0.01
45 78 0.96
46 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (45 bp):
ACATGACGTGTAACAAGCTAATCATAGCTTGTCACAAATTTTTGT
Found at i:32799817 original size:24 final size:24
Alignment explanation
Indices: 32799790--32799881 Score: 91
Period size: 24 Copynumber: 4.0 Consensus size: 24
32799780 GCTAACCATA
32799790 GCTTGTCACAAATTTTTGTACATG
1 GCTTGTCACAAATTTTTGTACATG
*
32799814 GCTTGTCACATATTTTTGTACATG
1 GCTTGTCACAAATTTTTGTACATG
* * * **
32799838 GCATGTAAC-AA-GTTAAT-CATG
1 GCTTGTCACAAATTTTTGTACATG
* *
32799859 ACTTGTCACATATTTTTGTACAT
1 GCTTGTCACAAATTTTTGTACAT
32799882 AGCGTGTAAC
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
21 10 0.20
22 4 0.08
23 4 0.08
24 33 0.65
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.41
Consensus pattern (24 bp):
GCTTGTCACAAATTTTTGTACATG
Found at i:32799845 original size:114 final size:113
Alignment explanation
Indices: 32799696--32799982 Score: 328
Period size: 114 Copynumber: 2.5 Consensus size: 113
32799686 ACGACCTAAT
* ** *
32799696 CATGACTTGTCACAGGTTTTTGTACATTA-CGTGTAACAAGCTAATCATAGCTTG-CTACATATT
1 CATGGCTTGTCACATATTTTTGTACA-TAGCGTGTAACAAGTTAATCAT-GCTTGTC-ACATATT
* *
32799759 TTTGTATAT-GACGTGTAACAAGCTAACCATAGCTTGTCACAAATTTTTGTA
63 TTTGTACATAG-CGTGTAACAAGCTAACCATAGCTTGCCACAAATTTTTGTA
* *
32799810 CATGGCTTGTCACATATTTTTGTACATGGCATGTAACAAGTTAATCATGACTTGTCACATATTTT
1 CATGGCTTGTCACATATTTTTGTACATAGCGTGTAACAAGTTAATCATG-CTTGTCACATATTTT
** * * **
32799875 TGTACATAGCGTGTAACCTGCTAACCATGGCTTGCCATAGGTTTTTGTA
65 TGTACATAGCGTGTAACAAGCTAACCATAGCTTGCCACAAATTTTTGTA
* * * * *
32799924 TATGGCGTATCACATATTTTTATACATAGCGTGTAACACGTTAATCATGGCTTGTCACA
1 CATGGCTTGTCACATATTTTTGTACATAGCGTGTAACAAGTTAATCAT-GCTTGTCACA
32799983 GGGTTTTATA
Statistics
Matches: 147, Mismatches: 21, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
113 2 0.01
114 142 0.97
115 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (113 bp):
CATGGCTTGTCACATATTTTTGTACATAGCGTGTAACAAGTTAATCATGCTTGTCACATATTTTT
GTACATAGCGTGTAACAAGCTAACCATAGCTTGCCACAAATTTTTGTA
Found at i:32799864 original size:69 final size:69
Alignment explanation
Indices: 32799752--32799881 Score: 190
Period size: 69 Copynumber: 1.9 Consensus size: 69
32799742 ATAGCTTGCT
* *
32799752 ACATATTTTTGTATATGACGTGTAACAAGCTAACCATAGCTTGTCACAAATTTTTGTACATGGCT
1 ACATATTTTTGTACATGACATGTAACAAGCTAACCATAGCTTGTCACAAATTTTTGTACATGGCT
32799817 TGTC
66 TGTC
* * * *
32799821 ACATATTTTTGTACATGGCATGTAACAAGTTAATCAT-GACTTGTCACATATTTTTGTACAT
1 ACATATTTTTGTACATGACATGTAACAAGCTAACCATAG-CTTGTCACAAATTTTTGTACAT
32799882 AGCGTGTAAC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 53 0.98
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (69 bp):
ACATATTTTTGTACATGACATGTAACAAGCTAACCATAGCTTGTCACAAATTTTTGTACATGGCT
TGTC
Found at i:32799938 original size:69 final size:68
Alignment explanation
Indices: 32799864--32800068 Score: 277
Period size: 69 Copynumber: 3.0 Consensus size: 68
32799854 TCATGACTTG
* *
32799864 TCACATATTTTTGTACATAGCGTGTAAC-CTGCTAACCATGGCTTGCCATAGGTTTTTGTATATG
1 TCACATATTTTTGTACATAGCGTGTAACAC-GCTAACCATGGCTTGTCACAGG-TTTTGTATATG
32799928 GCGTA
64 GCGTA
* * * *
32799933 TCACATATTTTTATACATAGCGTGTAACACGTTAATCATGGCTTGTCACAGGGTTTTATATATGG
1 TCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACA-GGTTTTGTATATGG
*
32799998 CGTG
65 CGTA
* * * *
32800002 TCACATATTTTTGTACATAGCGTGTAACACACTAACCATAGCTTGTCACAAGTTTTGTATAAGGC
1 TCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTGTATATGGC
32800067 GT
66 GT
32800069 GTAACATCAT
Statistics
Matches: 119, Mismatches: 15, Indels: 5
0.86 0.11 0.04
Matches are distributed among these distances:
68 14 0.12
69 102 0.86
70 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (68 bp):
TCACATATTTTTGTACATAGCGTGTAACACGCTAACCATGGCTTGTCACAGGTTTTGTATATGGC
GTA
Found at i:32800013 original size:24 final size:24
Alignment explanation
Indices: 32799916--32800013 Score: 60
Period size: 24 Copynumber: 4.2 Consensus size: 24
32799906 TTGCCATAGG
* *
32799916 TTTTTGTATATGGCGTATCACATA
1 TTTTTATATATGGCGTGTCACATA
* * *
32799940 TTTTTATACATAGCGTGT-A-ACA
1 TTTTTATATATGGCGTGTCACATA
** * **
32799962 -CGTTA-ATCATGGCTTGTCACAGG
1 TTTTTATAT-ATGGCGTGTCACATA
*
32799985 GTTTTATATATGGCGTGTCACATA
1 TTTTTATATATGGCGTGTCACATA
32800009 TTTTT
1 TTTTT
32800014 GTACATAGCG
Statistics
Matches: 51, Mismatches: 18, Indels: 10
0.65 0.23 0.13
Matches are distributed among these distances:
20 1 0.02
21 10 0.20
22 3 0.06
23 2 0.04
24 33 0.65
25 2 0.04
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (24 bp):
TTTTTATATATGGCGTGTCACATA
Found at i:32800481 original size:38 final size:38
Alignment explanation
Indices: 32800430--32800507 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
32800420 TATATTGACC
32800430 TATCAAGATTGTCTTAACCAAAAGACTTTCAATTAATA
1 TATCAAGATTGTCTTAACCAAAAGACTTTCAATTAATA
*
32800468 TATCAAGATTGTCTTAACCAAAAGACTTTCAGTTAATA
1 TATCAAGATTGTCTTAACCAAAAGACTTTCAATTAATA
32800506 TA
1 TA
32800508 AGCTATGAGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (38 bp):
TATCAAGATTGTCTTAACCAAAAGACTTTCAATTAATA
Found at i:32803342 original size:23 final size:24
Alignment explanation
Indices: 32803322--32803370 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
32803312 TTTTTAATTT
*
32803322 TAAATAAATAA-AAAATATAATAA
1 TAAAAAAATAATAAAATATAATAA
32803345 TAAAAAAATAATAAAATA-AA-AA
1 TAAAAAAATAATAAAATATAATAA
32803367 TAAA
1 TAAA
32803371 CTTCAAAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 6 0.25
23 12 0.50
24 6 0.25
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (24 bp):
TAAAAAAATAATAAAATATAATAA
Found at i:32803348 original size:19 final size:20
Alignment explanation
Indices: 32803324--32803370 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
32803314 TTTAATTTTA
*
32803324 AATAAATAAAA-AATATAAT
1 AATAAATAAAATAATAAAAT
32803343 AATAAA-AAAATAATAAAAT
1 AATAAATAAAATAATAAAAT
32803362 AA-AAATAAA
1 AATAAATAAA
32803371 CTTCAAAAGC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (20 bp):
AATAAATAAAATAATAAAAT
Found at i:32803350 original size:16 final size:16
Alignment explanation
Indices: 32803327--32803366 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
32803317 AATTTTAAAT
32803327 AAAT-AAAAAAT-ATA
1 AAATAAAAAAATAATA
32803341 ATAATAAAAAAATAATA
1 A-AATAAAAAAATAATA
32803358 AAATAAAAA
1 AAATAAAAA
32803367 TAAACTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 1 0.04
15 3 0.13
16 15 0.65
17 4 0.17
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAATAAAAAAATAATA
Found at i:32803354 original size:11 final size:12
Alignment explanation
Indices: 32803323--32803370 Score: 66
Period size: 11 Copynumber: 4.2 Consensus size: 12
32803313 TTTTAATTTT
32803323 AAATAAATAA-A
1 AAATAAATAATA
32803334 AAATATAATAATA
1 AAATA-AATAATA
32803347 AAA-AAATAATA
1 AAATAAATAATA
32803358 AAATAAA-AATA
1 AAATAAATAATA
32803369 AA
1 AA
32803371 CTTCAAAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 21 0.62
12 9 0.26
13 4 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAATAAATAATA
Found at i:32803355 original size:14 final size:14
Alignment explanation
Indices: 32803328--32803369 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
32803318 ATTTTAAATA
32803328 AATAAAAAATATAAT
1 AATAAAAAA-ATAAT
32803343 AATAAAAAAATAAT
1 AATAAAAAAATAAT
32803357 AA-AATAAAAATAA
1 AATAA-AAAAATAA
32803370 ACTTCAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.08
14 15 0.58
15 9 0.35
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAAAAAATAAT
Found at i:32804459 original size:35 final size:35
Alignment explanation
Indices: 32804420--32804497 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
32804410 CTTCGCACGA
* *
32804420 AACAACTTAAACAAGTGAAGTACCACTTCACATAG
1 AACAACTTAAAAAAGTAAAGTACCACTTCACATAG
* * * *
32804455 AACAAATAAAAAAAGTAAAGTACTACTTCTCATAG
1 AACAACTTAAAAAAGTAAAGTACCACTTCACATAG
32804490 AACAACTT
1 AACAACTT
32804498 GAATAAATGG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.50, C:0.19, G:0.09, T:0.22
Consensus pattern (35 bp):
AACAACTTAAAAAAGTAAAGTACCACTTCACATAG
Found at i:32811461 original size:307 final size:307
Alignment explanation
Indices: 32810907--32811530 Score: 1203
Period size: 307 Copynumber: 2.0 Consensus size: 307
32810897 ATTTGAGTTC
32810907 TATTTTAATTGCCTAAAGAGAAATGAATATTTGCAAGGGTTGCCGGTAGGTGATTACTAAAATCC
1 TATTTTAATTGCCTAAAGAGAAATGAATATTTGCAAGGGTTGCCGGTAGGTGATTACTAAAATCC
32810972 CTTGAAATATCCATTACATTGGGACTTAAAAAGTGAAACATAACATTAGAGAACTTTCTTGTGAA
66 CTTGAAATATCCATTACATTGGGACTTAAAAAGTGAAACATAACATTAGAGAACTTTCTTGTGAA
*
32811037 AATTTCAAGAAATGTAGTGTGTATCAGATCAACTCCTTAAGCTGCAGTCTTTAGAGAAGTAAAAC
131 AATTTCAAGAAATGTAGTGTGTATCAGATCAACTCCTTAAGCCGCAGTCTTTAGAGAAGTAAAAC
32811102 TCATGCTTTGGTAGTTGAAAGTGCAAGCTTCCCATTACTTTTTCTTTAAGAGATTCTTCCATCTA
196 TCATGCTTTGGTAGTTGAAAGTGCAAGCTTCCCATTACTTTTTCTTTAAGAGATTCTTCCATCTA
32811167 GACTTAATTTTTCTTTTAATCCAACTCGTTACATTTATTTTCTTTCT
261 GACTTAATTTTTCTTTTAATCCAACTCGTTACATTTATTTTCTTTCT
32811214 TATTTTAATTGCCTAAAGAGAAATGAATATTTGCAAGGGTTGCCGGTAGGTGATTACTAAAATCC
1 TATTTTAATTGCCTAAAGAGAAATGAATATTTGCAAGGGTTGCCGGTAGGTGATTACTAAAATCC
*
32811279 CTTGAAATATCCATTACATTGGTACTTAAAAAGTGAAACATAACATTAGAGAACTTTCTTGTGAA
66 CTTGAAATATCCATTACATTGGGACTTAAAAAGTGAAACATAACATTAGAGAACTTTCTTGTGAA
*
32811344 AATTTTAAGAAATGTAGTGTGTATCAGATCAACTCCTTAAGCCGCAGTCTTTAGAGAAGTAAAAC
131 AATTTCAAGAAATGTAGTGTGTATCAGATCAACTCCTTAAGCCGCAGTCTTTAGAGAAGTAAAAC
32811409 TCATGCTTTGGTAGTTGAAAGTGCAAGCTTCCCATTACTTTTTCTTTAAGAGATTCTTCCATCTA
196 TCATGCTTTGGTAGTTGAAAGTGCAAGCTTCCCATTACTTTTTCTTTAAGAGATTCTTCCATCTA
*
32811474 GACTTATTTTTTCTTTTAATCCAACTCGTTACATTTATTTTCTTTCT
261 GACTTAATTTTTCTTTTAATCCAACTCGTTACATTTATTTTCTTTCT
*
32811521 TATTTAAATT
1 TATTTTAATT
32811531 AATTCATAAA
Statistics
Matches: 312, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
307 312 1.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (307 bp):
TATTTTAATTGCCTAAAGAGAAATGAATATTTGCAAGGGTTGCCGGTAGGTGATTACTAAAATCC
CTTGAAATATCCATTACATTGGGACTTAAAAAGTGAAACATAACATTAGAGAACTTTCTTGTGAA
AATTTCAAGAAATGTAGTGTGTATCAGATCAACTCCTTAAGCCGCAGTCTTTAGAGAAGTAAAAC
TCATGCTTTGGTAGTTGAAAGTGCAAGCTTCCCATTACTTTTTCTTTAAGAGATTCTTCCATCTA
GACTTAATTTTTCTTTTAATCCAACTCGTTACATTTATTTTCTTTCT
Found at i:32819345 original size:31 final size:31
Alignment explanation
Indices: 32819307--32819369 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
32819297 GGAACAGCAT
32819307 AAGAATTAAGATTTAAGATAATGATACTAAA
1 AAGAATTAAGATTTAAGATAATGATACTAAA
32819338 AAGAATTAAGATTTAAGATAATGATACTAAA
1 AAGAATTAAGATTTAAGATAATGATACTAAA
32819369 A
1 A
32819370 GGAGCAGCTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.03, G:0.13, T:0.29
Consensus pattern (31 bp):
AAGAATTAAGATTTAAGATAATGATACTAAA
Found at i:32838627 original size:21 final size:24
Alignment explanation
Indices: 32838585--32838632 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
32838575 TTCCACCGCG
32838585 CCACCTCTCCTTCCTTCGCCTCCTC
1 CCACCTCTCCTTCCTTC-CCTCCTC
32838610 CCACCTCTCC-TCC-T-CCTCCTC
1 CCACCTCTCCTTCCTTCCCTCCTC
32838631 CC
1 CC
32838633 CCAAAATCGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.39
23 1 0.04
24 3 0.13
25 10 0.43
ACGTcount: A:0.04, C:0.65, G:0.02, T:0.29
Consensus pattern (24 bp):
CCACCTCTCCTTCCTTCCCTCCTC
Found at i:32855072 original size:25 final size:25
Alignment explanation
Indices: 32855010--32855073 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
32855000 CTAAAAAATG
*
32855010 TAATTCAATATAAATTAAAACTTTAT
1 TAATTAAATA-AAATTAAAACTTTAT
*
32855036 TAATTAATTAAAATTAAAA-TTTA-
1 TAATTAAATAAAATTAAAACTTTAT
32855059 TAATTTATAATAAAA
1 TAA-TTA-AATAAAA
32855074 GATGCTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 3 0.09
24 7 0.21
25 15 0.45
26 8 0.24
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (25 bp):
TAATTAAATAAAATTAAAACTTTAT
Found at i:32863748 original size:24 final size:24
Alignment explanation
Indices: 32863686--32863758 Score: 67
Period size: 26 Copynumber: 2.9 Consensus size: 24
32863676 AATAATAATA
*
32863686 TTTTTTCAACATGGCATGTAACAATC
1 TTTTTT-AACATGGCGTGTAAC-ATC
*
32863712 TTTTTTAACCATGGCGTGTAACATG
1 TTTTTTAA-CATGGCGTGTAACATC
* *
32863737 TTTTTGT-ACATGACGTGGAACA
1 TTTTT-TAACATGGCGTGTAACA
32863759 ACAGTTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
24 12 0.29
25 10 0.24
26 19 0.46
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.38
Consensus pattern (24 bp):
TTTTTTAACATGGCGTGTAACATC
Found at i:32863844 original size:24 final size:24
Alignment explanation
Indices: 32863804--32863854 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
32863794 AACAATGACA
*
32863804 TGTCACATATTTTTGTACATGGCG
1 TGTCACATATTTCTGTACATGGCG
* *
32863828 TGTCACATGTTTCTGTACATGGTG
1 TGTCACATATTTCTGTACATGGCG
32863852 TGT
1 TGT
32863855 AACAACCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.16, G:0.24, T:0.43
Consensus pattern (24 bp):
TGTCACATATTTCTGTACATGGCG
Found at i:32863881 original size:45 final size:45
Alignment explanation
Indices: 32863830--32863948 Score: 139
Period size: 45 Copynumber: 2.6 Consensus size: 45
32863820 ACATGGCGTG
* ** *
32863830 TCACATGTTTCTGTACATGGTGTGTAACAACCTAACCATAACGTA
1 TCACATGTTTTTGTACATGACGTGTAACAACCTAACCATAACATA
* * * * *
32863875 TCACATGTTTTTGCACATGACATGTAATAACCTAATCATAACATG
1 TCACATGTTTTTGTACATGACGTGTAACAACCTAACCATAACATA
* *
32863920 TAACATATTTTTGTACATGACGTGTAACA
1 TCACATGTTTTTGTACATGACGTGTAACA
32863949 TCATAACGTG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (45 bp):
TCACATGTTTTTGTACATGACGTGTAACAACCTAACCATAACATA
Found at i:32870149 original size:35 final size:35
Alignment explanation
Indices: 32870102--32870171 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
32870092 AAATGTATTA
* *
32870102 GAGCAGAGAGAAGATATTTATGGGATTACATGCAT
1 GAGCAGAAAGAAGAGATTTATGGGATTACATGCAT
32870137 GAGCAGAAAGAAGAGATTTATGGGATTACATGCAT
1 GAGCAGAAAGAAGAGATTTATGGGATTACATGCAT
32870172 AACTTATCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.29, T:0.24
Consensus pattern (35 bp):
GAGCAGAAAGAAGAGATTTATGGGATTACATGCAT
Found at i:32876349 original size:15 final size:15
Alignment explanation
Indices: 32876301--32876339 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
32876291 GGAGAGGGAG
32876301 CAACAGCAACAGCAA
1 CAACAGCAACAGCAA
*
32876316 CAACAGCAACATCAA
1 CAACAGCAACAGCAA
32876331 CAACAGCAA
1 CAACAGCAA
32876340 AGCCAGCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.54, C:0.33, G:0.10, T:0.03
Consensus pattern (15 bp):
CAACAGCAACAGCAA
Found at i:32899061 original size:30 final size:28
Alignment explanation
Indices: 32898990--32899064 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 28
32898980 TTAAAAAAAT
32898990 TTAAATAAGTTTTTAT-TTTTTATTACA
1 TTAAATAAGTTTTTATATTTTTATTACA
* * **
32899017 TTCAATTAAATTTTTATATTTTTATTTTGA
1 TT-AAATAAGTTTTTATATTTTTA-TTACA
32899047 GTTAAATAAGTTTTTATA
1 -TTAAATAAGTTTTTATA
32899065 ATTAATAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.05
28 12 0.32
29 6 0.16
30 16 0.42
31 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (28 bp):
TTAAATAAGTTTTTATATTTTTATTACA
Found at i:32899852 original size:4 final size:4
Alignment explanation
Indices: 32899843--32899871 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
32899833 CCACATCAAA
32899843 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
32899872 CAATGGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:32900766 original size:18 final size:17
Alignment explanation
Indices: 32900726--32900778 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
32900716 TGTGTAGGGC
*
32900726 ATAGAAAAAAAGAGAAA
1 ATAGAAAAAAAAAGAAA
*
32900743 AAAGAAAAAAAAAGAAA
1 ATAGAAAAAAAAAGAAA
* * *
32900760 GGTAGAAAGAAAAATAAA
1 -ATAGAAAAAAAAAGAAA
32900778 A
1 A
32900779 AAACAGATAG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (17 bp):
ATAGAAAAAAAAAGAAA
Found at i:32900880 original size:20 final size:20
Alignment explanation
Indices: 32900855--32900895 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
32900845 ATTCGTTATA
*
32900855 TTTTTTTTTGAAAGTACCAT
1 TTTTTTTTTGAAAATACCAT
32900875 TTTTTTTTTGAAAATACCAT
1 TTTTTTTTTGAAAATACCAT
32900895 T
1 T
32900896 AGTTATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTTTTTTTGAAAATACCAT
Found at i:32903976 original size:17 final size:17
Alignment explanation
Indices: 32903946--32903978 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
32903936 CTTCTCTTTT
32903946 TTTTGTGTTAACGTGTG
1 TTTTGTGTTAACGTGTG
32903963 TTTTG-GTTACACGTGT
1 TTTTGTGTTA-ACGTGT
32903979 CAATTTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.12, C:0.09, G:0.27, T:0.52
Consensus pattern (17 bp):
TTTTGTGTTAACGTGTG
Found at i:32905701 original size:2 final size:2
Alignment explanation
Indices: 32905696--32905727 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
32905686 ATGAGAGAGA
*
32905696 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32905728 GTATGTGTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:32910316 original size:54 final size:55
Alignment explanation
Indices: 32910258--32910364 Score: 175
Period size: 56 Copynumber: 2.0 Consensus size: 55
32910248 CACACACAAA
32910258 GAAAGAAGAGTAGGTTAA-TAATT-AAA-AAGAGAGAGAGAGAGAGAGAGAGAAGG
1 GAAAGAAGAGTAGGTTAAGT-ATTAAAAGAAGAGAGAGAGAGAGAGAGAGAGAAGG
32910311 NGAAAGAAGAGTAGGTTAAGTATTAAAAGAAGAGAGAGAGAGAGAGAGAGAGAA
1 -GAAAGAAGAGTAGGTTAAGTATTAAAAGAAGAGAGAGAGAGAGAGAGAGAGAA
32910365 AGTCAAAGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
54 21 0.42
55 4 0.08
56 25 0.50
ACGTcount: A:0.52, C:0.00, G:0.36, T:0.11
Consensus pattern (55 bp):
GAAAGAAGAGTAGGTTAAGTATTAAAAGAAGAGAGAGAGAGAGAGAGAGAGAAGG
Found at i:32915942 original size:16 final size:16
Alignment explanation
Indices: 32915888--32915954 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
32915878 AAATATTCTG
32915888 AATC-AAAATAATTTA
1 AATCTAAAATAATTTA
* * **
32915903 AATTTAAAATGATCAA
1 AATCTAAAATAATTTA
* *
32915919 AATTTAAAATAATTTG
1 AATCTAAAATAATTTA
*
32915935 AATCTAAAAGTGATTTA
1 AATCTAAAA-TAATTTA
32915952 AAT
1 AAT
32915955 AATTTTTTAT
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
15 3 0.08
16 28 0.72
17 8 0.21
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (16 bp):
AATCTAAAATAATTTA
Found at i:32924262 original size:10 final size:10
Alignment explanation
Indices: 32924247--32924335 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 10
32924237 GTGTAGACAT
32924247 ATAAATTAAA
1 ATAAATTAAA
32924257 ATAAATATAAA
1 ATAAAT-TAAA
*
32924268 TTAAATT-AA
1 ATAAATTAAA
*
32924277 ATAAAGT-AA
1 ATAAATTAAA
32924286 ATAAATTAAATA
1 ATAAATT-AA-A
*
32924298 ATAATAATAAAA
1 AT-A-AATTAAA
*
32924310 AAAAATTAAA
1 ATAAATTAAA
*
32924320 A-AAAATAAA
1 ATAAATTAAA
*
32924329 AAAAATT
1 ATAAATT
32924336 CNNNNNNNNN
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
9 23 0.37
10 18 0.29
11 11 0.17
12 5 0.08
13 3 0.05
14 3 0.05
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (10 bp):
ATAAATTAAA
Found at i:32924286 original size:9 final size:9
Alignment explanation
Indices: 32924247--32924298 Score: 68
Period size: 9 Copynumber: 5.4 Consensus size: 9
32924237 GTGTAGACAT
32924247 ATAAATTAAA
1 ATAAATT-AA
32924257 ATAAATATAA
1 ATAAAT-TAA
32924267 ATTAAATTAA
1 A-TAAATTAA
*
32924277 ATAAAGTAA
1 ATAAATTAA
32924286 ATAAATTAA
1 ATAAATTAA
32924295 ATAA
1 ATAA
32924299 TAATAATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 19 0.50
10 13 0.34
11 6 0.16
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (9 bp):
ATAAATTAA
Found at i:32984469 original size:18 final size:19
Alignment explanation
Indices: 32984428--32984470 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
32984418 ATAAAAACAC
32984428 TTTTTATTATTTATATGAT
1 TTTTTATTATTTATATGAT
*
32984447 ATTTTATT-TTTAT-TAGAT
1 TTTTTATTATTTATAT-GAT
32984465 TTTTTA
1 TTTTTA
32984471 AATATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 13 0.62
19 7 0.33
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTTATTATTTATATGAT
Found at i:32984515 original size:21 final size:23
Alignment explanation
Indices: 32984491--32984549 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 23
32984481 ATCTAGAATT
32984491 TAATTAAAATATTAATA-TTA-A
1 TAATTAAAATATTAATATTTATA
* *
32984512 TAATTTAAATATTAATATTTTATT
1 TAATTAAAATATTAATA-TTTATA
32984536 TAATTAAAATATTA
1 TAATTAAAATATTA
32984550 TTATGATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 16 0.50
23 3 0.09
24 13 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATTAAAATATTAATATTTATA
Found at i:32984546 original size:45 final size:43
Alignment explanation
Indices: 32984488--32984604 Score: 132
Period size: 45 Copynumber: 2.7 Consensus size: 43
32984478 ATAATCTAGA
32984488 ATTTAATTAAAATATTAATATTAATAATTTAAATATTAATATTTT
1 ATTTAATTAAAATATTAATATTAATAATTT-AATATT-ATATTTT
* * * * *
32984533 ATTTAATTAAAATATTATTATGATTAATTT-TTATTTTATTTT
1 ATTTAATTAAAATATTAATATTAATAATTTAATATTATATTTT
*
32984575 ATTT--TTAAAATATTAATAATTGATAATTTA
1 ATTTAATTAAAATATTAAT-ATTAATAATTTA
32984605 TTTAAAATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
40 12 0.20
41 8 0.13
42 10 0.16
43 4 0.07
45 27 0.44
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (43 bp):
ATTTAATTAAAATATTAATATTAATAATTTAATATTATATTTT
Found at i:32984559 original size:21 final size:21
Alignment explanation
Indices: 32984490--32984561 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
32984480 AATCTAGAAT
*
32984490 TTAATTAAAATATTAATATTA
1 TTAATTAAAATATTATTATTA
* * *
32984511 ATAATTTAAATATTAATATTTTA
1 TTAATTAAAATATT-AT-TATTA
*
32984534 TTTAATTAAAATATTATTATGA
1 -TTAATTAAAATATTATTATTA
32984556 TTAATT
1 TTAATT
32984562 TTTATTTTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
21 18 0.45
22 4 0.10
23 6 0.15
24 12 0.30
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
TTAATTAAAATATTATTATTA
Found at i:32984611 original size:27 final size:27
Alignment explanation
Indices: 32984578--32984630 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
32984568 TTATTTTATT
32984578 TTTAAAATATTAATAATTGATAATTTA
1 TTTAAAATATTAATAATTGATAATTTA
32984605 TTTAAAATATTAATAATTGATAATTT
1 TTTAAAATATTAATAATTGATAATTT
32984631 TAATATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (27 bp):
TTTAAAATATTAATAATTGATAATTTA
Found at i:32984961 original size:19 final size:20
Alignment explanation
Indices: 32984933--32984994 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 20
32984923 TTAATAATTA
32984933 AATATTAATATTTTATTTAT
1 AATATTAATATTTTATTTAT
* *
32984953 AAT-TTAATATTAATATTTTAA
1 AATATTAATATT-TTA-TTTAT
32984974 AATATTAATATTTTA-TTAT
1 AATATTAATATTTTATTTAT
32984993 AA
1 AA
32984995 AATTGGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
19 13 0.37
20 5 0.14
21 9 0.26
22 8 0.23
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATTAATATTTTATTTAT
Found at i:32984979 original size:16 final size:16
Alignment explanation
Indices: 32984958--32984988 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
32984948 TTTATAATTT
32984958 AATATTAATATTTTAA
1 AATATTAATATTTTAA
32984974 AATATTAATATTTTA
1 AATATTAATATTTTA
32984989 TTATAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AATATTAATATTTTAA
Found at i:32987091 original size:31 final size:30
Alignment explanation
Indices: 32987027--32987123 Score: 108
Period size: 31 Copynumber: 3.3 Consensus size: 30
32987017 AAAAATTCCT
* * *
32987027 TTGGAAATGAATTTTCAATGGATTTTTTCG
1 TTGGAAATGCATTTCCAACGGATTTTTTCG
* *
32987057 TTGGAAATGCCTTTCCAACGGATGTTTTTTG
1 TTGGAAATGCATTTCCAACGGAT-TTTTTCG
* *
32987088 TTGGAAACGCATTTCCAACGGA--ATTTCG
1 TTGGAAATGCATTTCCAACGGATTTTTTCG
32987116 TTGGAAAT
1 TTGGAAAT
32987124 TTCCAATAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 11 0.20
30 19 0.34
31 26 0.46
ACGTcount: A:0.26, C:0.13, G:0.22, T:0.39
Consensus pattern (30 bp):
TTGGAAATGCATTTCCAACGGATTTTTTCG
Found at i:32987135 original size:24 final size:26
Alignment explanation
Indices: 32987098--32987145 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 26
32987088 TTGGAAACGC
*
32987098 ATTTCCAACGGAAT-TT-CGTTGGAA
1 ATTTCCAACAGAATATTCCGTTGGAA
*
32987122 ATTTCCAATAGAATATTCCGTTGG
1 ATTTCCAACAGAATATTCCGTTGG
32987146 TGATGTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 12 0.60
25 2 0.10
26 6 0.30
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (26 bp):
ATTTCCAACAGAATATTCCGTTGGAA
Found at i:32989636 original size:30 final size:30
Alignment explanation
Indices: 32989600--32989665 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
32989590 TTCTTCTTCA
*
32989600 TCTTCATTTTCATCTCTTTCCAGGTCATCT
1 TCTTCATCTTCATCTCTTTCCAGGTCATCT
* *
32989630 TCTTCATCTTCATCTCTTTGCATGTCATCT
1 TCTTCATCTTCATCTCTTTCCAGGTCATCT
32989660 TCTTCA
1 TCTTCA
32989666 CCCCCAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.14, C:0.30, G:0.06, T:0.50
Consensus pattern (30 bp):
TCTTCATCTTCATCTCTTTCCAGGTCATCT
Found at i:32990094 original size:34 final size:34
Alignment explanation
Indices: 32990051--32990119 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
32990041 AAGGCTAGGG
*
32990051 TCAAGGTATGATAAAAGATATATTTAGGCTCAGA
1 TCAAAGTATGATAAAAGATATATTTAGGCTCAGA
32990085 TCAAAGTATGATAAAAGATATATTTAGGCTCAGA
1 TCAAAGTATGATAAAAGATATATTTAGGCTCAGA
32990119 T
1 T
32990120 TCACCCTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.42, C:0.09, G:0.19, T:0.30
Consensus pattern (34 bp):
TCAAAGTATGATAAAAGATATATTTAGGCTCAGA
Found at i:32993164 original size:28 final size:27
Alignment explanation
Indices: 32993128--32993180 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
32993118 ATGTCCTGGT
* **
32993128 GGTGGAAAATTAGTATTTTACCCCTGA
1 GGTGGAAAAATACCATTTTACCCCTGA
32993155 GGTGGCAAAAATACCATTTTACCCCT
1 GGTGG-AAAAATACCATTTTACCCCT
32993181 ATGCTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAAATACCATTTTACCCCTGA
Found at i:33001011 original size:25 final size:23
Alignment explanation
Indices: 33000983--33001031 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
33000973 AATTTCCCAA
33000983 AAAAAACATACATAGTAAATTTTTT
1 AAAAAACATACATA-T-AATTTTTT
**
33001008 AAAAATGATACATATAATTTTTT
1 AAAAAACATACATATAATTTTTT
33001031 A
1 A
33001032 TTTTTTCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 9 0.41
24 1 0.05
25 12 0.55
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAAAACATACATATAATTTTTT
Found at i:33001451 original size:3 final size:3
Alignment explanation
Indices: 33001443--33001475 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
33001433 GCAAAAGAAT
33001443 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
33001476 AAGACTCCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:33003178 original size:92 final size:92
Alignment explanation
Indices: 33003019--33003282 Score: 422
Period size: 92 Copynumber: 2.9 Consensus size: 92
33003009 GATTAACTTA
* * *
33003019 TCGGGAAAGTGACGAGTCAGCCAGCAAATTGGTTTCAGCCAAGGGTTTCGGCACAAGAAGGGGAT
1 TCGGGAAAGTGACGAGTCAGCCAGCAAATCGGTTTCAGCCAAGGGTCTCGACACAAGAAGGGGAT
*
33003084 CCACCAAATGGGTTTCACCCTCTGCTC
66 CCACCAAATGGGTTTCACCCTCTACTC
* *
33003111 TTGGGAAAGTGACGAGTCAGCCAGCAAATCGGTTTCAGCTAAGGGTCTCGACACAAGAAGGGGAT
1 TCGGGAAAGTGACGAGTCAGCCAGCAAATCGGTTTCAGCCAAGGGTCTCGACACAAGAAGGGGAT
* *
33003176 CCAACAAATGGGTTTCACCTTCTACTC
66 CCACCAAATGGGTTTCACCCTCTACTC
*
33003203 TCGGGAAAGTGACGAGTCAGCCAGCAAATCGGTTTCAGCCAAGGGTCTC-AGCACAAGAAAGGGA
1 TCGGGAAAGTGACGAGTCAGCCAGCAAATCGGTTTCAGCCAAGGGTCTCGA-CACAAGAAGGGGA
33003267 TCCACCAAATGAGGTT
65 TCCACCAAATG-GGTT
33003283 CAACTTTGCT
Statistics
Matches: 158, Mismatches: 12, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
91 1 0.01
92 153 0.97
93 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.28, T:0.20
Consensus pattern (92 bp):
TCGGGAAAGTGACGAGTCAGCCAGCAAATCGGTTTCAGCCAAGGGTCTCGACACAAGAAGGGGAT
CCACCAAATGGGTTTCACCCTCTACTC
Found at i:33003237 original size:47 final size:47
Alignment explanation
Indices: 33003088--33003239 Score: 121
Period size: 47 Copynumber: 3.3 Consensus size: 47
33003078 GGGGATCCAC
* * *
33003088 CAAATGGGTTTCACCCTCTGCTCTTGGGAAAGTGACGAGTCAGCCAG
1 CAAATCGGTTTCACCTTCTGCTCTCGGGAAAGTGACGAGTCAGCCAG
* *** * ** * ** * *
33003135 CAAATCGGTTTCAGCTAAGGGTCTCGACACAA--GAAG-GGGATCCAA
1 CAAATCGGTTTCACCTTCTGCTCTCGGGA-AAGTGACGAGTCAGCCAG
* *
33003180 CAAATGGGTTTCACCTTCTACTCTCGGGAAAGTGACGAGTCAGCCAG
1 CAAATCGGTTTCACCTTCTGCTCTCGGGAAAGTGACGAGTCAGCCAG
33003227 CAAATCGGTTTCA
1 CAAATCGGTTTCA
33003240 GCCAAGGGTC
Statistics
Matches: 71, Mismatches: 30, Indels: 8
0.65 0.28 0.07
Matches are distributed among these distances:
44 2 0.03
45 25 0.35
46 6 0.08
47 36 0.51
48 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (47 bp):
CAAATCGGTTTCACCTTCTGCTCTCGGGAAAGTGACGAGTCAGCCAG
Found at i:33005399 original size:13 final size:13
Alignment explanation
Indices: 33005381--33005405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33005371 GGAGAAATTG
33005381 TGATTTTATAAAA
1 TGATTTTATAAAA
33005394 TGATTTTATAAA
1 TGATTTTATAAA
33005406 TTTTTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:33006977 original size:28 final size:28
Alignment explanation
Indices: 33006932--33006985 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
33006922 CATCGCATTA
* *
33006932 ATTATTTAACTAATTATATTTTAAATAT
1 ATTATTTAACTAACTATATTATAAATAT
33006960 ATTATATTAA-TAACTATATTATAAAT
1 ATTAT-TTAACTAACTATATTATAAAT
33006986 CTATCTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTATTTAACTAACTATATTATAAATAT
Found at i:33006979 original size:17 final size:16
Alignment explanation
Indices: 33006934--33006982 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
33006924 TCGCATTAAT
33006934 TATT-TAACTA-ATTA
1 TATTATAACTATATTA
* *
33006948 TATTTTAAATATATTA
1 TATTATAACTATATTA
33006964 TATTAATAACTATATTA
1 TATT-ATAACTATATTA
33006981 TA
1 TA
33006983 AATCTATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 4 0.14
15 5 0.17
16 8 0.28
17 12 0.41
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTATAACTATATTA
Found at i:33007568 original size:11 final size:11
Alignment explanation
Indices: 33007552--33007576 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33007542 TTGTTGTTGG
33007552 AAATCCATCGA
1 AAATCCATCGA
33007563 AAATCCATCGA
1 AAATCCATCGA
33007574 AAA
1 AAA
33007577 AATTAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.24, G:0.08, T:0.16
Consensus pattern (11 bp):
AAATCCATCGA
Found at i:33011241 original size:2 final size:2
Alignment explanation
Indices: 33011234--33011268 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
33011224 AGCTAAGCTT
33011234 TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33011269 AGAAACATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33018800 original size:2 final size:2
Alignment explanation
Indices: 33018793--33018819 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33018783 TAAAAGAAAT
33018793 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
33018820 TGTGGTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:33020621 original size:2 final size:2
Alignment explanation
Indices: 33020614--33020647 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
33020604 CCATATTTAA
*
33020614 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33020648 GAATATACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33020653 original size:8 final size:10
Alignment explanation
Indices: 33020614--33020654 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
33020604 CCATATTTAA
*
33020614 ATATATATAT
1 ATATGTATAT
*
33020624 ATATATATAT
1 ATATGTATAT
33020634 ATATGTATAT
1 ATATGTATAT
*
33020644 ATATGAATAT
1 ATATGTATAT
33020654 A
1 A
33020655 CCAAGTTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (10 bp):
ATATGTATAT
Found at i:33027103 original size:20 final size:22
Alignment explanation
Indices: 33027064--33027109 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 22
33027054 TATTTAACAA
*
33027064 TTTATATTTTATGCATTATAAT
1 TTTATATTTTATGCATTATAAG
*
33027086 TTTATA-TTTA-GTATTATAAG
1 TTTATATTTTATGCATTATAAG
33027106 TTTA
1 TTTA
33027110 AATAGAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.55
21 4 0.18
22 6 0.27
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (22 bp):
TTTATATTTTATGCATTATAAG
Found at i:33028867 original size:19 final size:20
Alignment explanation
Indices: 33028843--33028880 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33028833 ACACTATATT
33028843 TAAAAA-AAAAAGAAAAAAA
1 TAAAAAGAAAAAGAAAAAAA
*
33028862 TAAAAAGAAAATGAAAAAA
1 TAAAAAGAAAAAGAAAAAA
33028881 TGTGTACAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (20 bp):
TAAAAAGAAAAAGAAAAAAA
Found at i:33029046 original size:11 final size:12
Alignment explanation
Indices: 33029023--33029058 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
33029013 GGAGGAACCG
*
33029023 AGCAATCAAAAA
1 AGCAATAAAAAA
33029035 AGCAA-AAAAAA
1 AGCAATAAAAAA
33029046 AGCAATAAAAAA
1 AGCAATAAAAAA
33029058 A
1 A
33029059 AATCCCTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.75, C:0.11, G:0.08, T:0.06
Consensus pattern (12 bp):
AGCAATAAAAAA
Found at i:33029245 original size:20 final size:20
Alignment explanation
Indices: 33029218--33029255 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33029208 GAGTGTGGGT
33029218 TTTAATTTTTAGG-GGGAGA
1 TTTAATTTTTAGGAGGGAGA
33029237 TTTAGATTTTTAGGAGGGA
1 TTTA-ATTTTTAGGAGGGA
33029256 TTTTGGGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (20 bp):
TTTAATTTTTAGGAGGGAGA
Found at i:33030286 original size:15 final size:15
Alignment explanation
Indices: 33030224--33030287 Score: 51
Period size: 15 Copynumber: 4.1 Consensus size: 15
33030214 AAATCATTCA
*
33030224 AAAAAAAATAATAAAT
1 AAAAATAATAAT-AAT
33030240 AAGTAAATAATAGATAA-
1 AA--AAATAATA-ATAAT
* *
33030257 AAAAAGAAGAA-AAT
1 AAAAATAATAATAAT
33030271 AAAAATAATAATAAT
1 AAAAATAATAATAAT
33030286 AA
1 AA
33030288 TAATTCAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
13 2 0.05
14 10 0.26
15 11 0.29
16 2 0.05
17 2 0.05
18 9 0.24
19 2 0.05
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAATAATAATAAT
Found at i:33030517 original size:20 final size:21
Alignment explanation
Indices: 33030486--33030544 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
33030476 GGAAAAGCTT
33030486 AGAATAAAAATAAAATAT-AAA
1 AGAAT-AAAATAAAATATGAAA
*
33030507 AGAATAAAATAGAAGATATGATA
1 AGAATAAAATA-AA-ATATGAAA
*
33030530 ATAA-AAAATAAAATA
1 AGAATAAAATAAAATA
33030545 AAATAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
20 9 0.27
21 9 0.27
22 10 0.30
23 5 0.15
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.20
Consensus pattern (21 bp):
AGAATAAAATAAAATATGAAA
Found at i:33030550 original size:20 final size:20
Alignment explanation
Indices: 33030491--33030553 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
33030481 AGCTTAGAAT
*
33030491 AAAAATAAAATATAA-AAGA
1 AAAAATAAAATATAATAATA
*
33030510 ATAAAATAGAAGATATGATAATA
1 A-AAAATA-AA-ATATAATAATA
*
33030533 AAAAATAAAATAAAATAATA
1 AAAAATAAAATATAATAATA
33030553 A
1 A
33030554 TGATAAAGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
19 1 0.03
20 16 0.44
21 4 0.11
22 11 0.31
23 4 0.11
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (20 bp):
AAAAATAAAATATAATAATA
Found at i:33030621 original size:16 final size:17
Alignment explanation
Indices: 33030580--33030621 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
33030570 TTGCATTTAG
33030580 CATAGCATATATTGCAT
1 CATAGCATATATTGCAT
33030597 CAT-GCATATCATTGCAT
1 CATAGCATAT-ATTGCAT
33030614 -ATAG-ATAT
1 CATAGCATAT
33030622 TTTTATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (17 bp):
CATAGCATATATTGCAT
Found at i:33036469 original size:2 final size:2
Alignment explanation
Indices: 33036462--33036513 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
33036452 TAATTAGCAC
33036462 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
33036503 TA TA TA TA TA T
1 TA TA TA TA TA T
33036514 TTAACTCCCA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 48 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33041846 original size:55 final size:55
Alignment explanation
Indices: 33041725--33041903 Score: 155
Period size: 55 Copynumber: 3.3 Consensus size: 55
33041715 TGAAGAGTTA
* ** * * * *
33041725 TTTTAGCGTGTCAGGGCTGTTA-CTGATGTGTTGTGGGTTAACT-AGTTATTTGGAT
1 TTTTAGCGTGTCACGGCTG-TACCTGGCGTGTCGTGGGTTAACTGAATT-TATGGGT
* * *
33041780 TGTTAGCGTGTCACGGCTGTACCTGGGGTGTGGTGGGTTAACTGAATTTATGGGT
1 TTTTAGCGTGTCACGGCTGTACCTGGCGTGTCGTGGGTTAACTGAATTTATGGGT
* * ** * * ** *
33041835 TTTTGGTGTGTCATTGTTGTTCCTGGCGTGTCGTGGGTTAACTGGTTTTTTGGGT
1 TTTTAGCGTGTCACGGCTGTACCTGGCGTGTCGTGGGTTAACTGAATTTATGGGT
33041890 TTTTAGCGTGTCAC
1 TTTTAGCGTGTCAC
33041904 AGATGTTGGT
Statistics
Matches: 99, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
54 2 0.02
55 94 0.95
56 3 0.03
ACGTcount: A:0.12, C:0.12, G:0.34, T:0.42
Consensus pattern (55 bp):
TTTTAGCGTGTCACGGCTGTACCTGGCGTGTCGTGGGTTAACTGAATTTATGGGT
Found at i:33041972 original size:31 final size:31
Alignment explanation
Indices: 33041937--33042018 Score: 112
Period size: 31 Copynumber: 2.6 Consensus size: 31
33041927 AATTATAGTG
*
33041937 ATGCATGGCGTGTCACGACATTTGAC-TTGAT
1 ATGCATGGCGTGTCACAACATTTGACGTT-AT
* *
33041968 ATGCATGGCGTGTTACAACATTTTACGTTAT
1 ATGCATGGCGTGTCACAACATTTGACGTTAT
*
33041999 ATGCATGGCGTGTGACAACA
1 ATGCATGGCGTGTCACAACA
33042019 CGACTAACAA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 44 0.96
32 2 0.04
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (31 bp):
ATGCATGGCGTGTCACAACATTTGACGTTAT
Found at i:33045534 original size:31 final size:31
Alignment explanation
Indices: 33045482--33045789 Score: 296
Period size: 31 Copynumber: 10.0 Consensus size: 31
33045472 AATAAGGAAT
*
33045482 AAATG-TGAGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
33045512 AAATGTTGTGACACGTCGTGCATATCAAATA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * * *
33045543 AAATATTGTAACACGTCATTCATAACAAGAA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
***
33045574 AAATGAAATGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
33045605 AAATGTTGTGACACGCCATGCATAACAAGATA
1 AAATGTTGTGACACGCCATGCATAACAAG-TA
* * * * *
33045637 AACT-TGGTGACACGCCAAGGATAACAAGCA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
33045667 AAATGTTCTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
33045698 AAAGGTTGTAACACGCCATGCAAAACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*** * * *
33045729 AGGCGTTGTAACACGTCATGCATAACAATTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
33045760 AATTGTTCTGACTCACCATGCATAACAAGT
1 AAATGTTGTGACACGCCATGCATAACAAGT
33045790 TCTGGTGTGT
Statistics
Matches: 220, Mismatches: 55, Indels: 5
0.79 0.20 0.02
Matches are distributed among these distances:
30 9 0.04
31 206 0.94
32 5 0.02
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:33045743 original size:93 final size:92
Alignment explanation
Indices: 33045490--33045789 Score: 339
Period size: 93 Copynumber: 3.2 Consensus size: 92
33045480 ATAAATGTGA
* * * * * *
33045490 GACACGCCATGCATAACAAGTAAAATGTTGTGACACGTCGTGCATATCAAATAAAATATTGTAAC
1 GACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAACAAGTTAAA-CTTGTAAC
* ***
33045555 ACGTCATTCATAACAAGAAAAATGAAAT
65 ACGTCATGCATAACAAGAAAAATGTTCT
* *
33045583 GACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGAC
1 GACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAACAAGTTAAACTT-GTAAC
* * * *
33045648 ACGCCAAGGATAACAAGCAAAATGTTCT
65 ACGTCATGCATAACAAGAAAAATGTTCT
* * * **
33045676 GACACGCCATGCATAACAAGTAAAAGGTTGTAACACGCCATGCAAAACAAGTTAGGCGTTGTAAC
1 GACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAACAAGTTAAAC-TTGTAAC
** *
33045741 ACGTCATGCATAACAATTAAATTGTTCT
65 ACGTCATGCATAACAAGAAAAATGTTCT
* *
33045769 GACTCACCATGCATAACAAGT
1 GACACGCCATGCATAACAAGT
33045790 TCTGGTGTGT
Statistics
Matches: 174, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
92 2 0.01
93 170 0.98
94 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (92 bp):
GACACGCCATGCATAACAAGTAAAATGTTGTGACACGCCATGCATAACAAGTTAAACTTGTAACA
CGTCATGCATAACAAGAAAAATGTTCT
Found at i:33046477 original size:14 final size:15
Alignment explanation
Indices: 33046461--33046518 Score: 59
Period size: 14 Copynumber: 3.9 Consensus size: 15
33046451 TAGAATGAAT
*
33046461 TGTATACAATAAATTG
1 TGTATAAAATAAA-TG
33046477 TGTATAGAAA-AAATG
1 TGTATA-AAATAAATG
*
33046492 TGTATAAAATGAAT-
1 TGTATAAAATAAATG
33046506 TGTATAAAA-AAAT
1 TGTATAAAATAAAT
33046519 TTATGTGTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
13 3 0.08
14 12 0.32
15 11 0.30
16 9 0.24
17 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.33
Consensus pattern (15 bp):
TGTATAAAATAAATG
Found at i:33047984 original size:31 final size:31
Alignment explanation
Indices: 33047942--33048307 Score: 267
Period size: 31 Copynumber: 11.8 Consensus size: 31
33047932 CACAAATCAT
*
33047942 AAAC-AGTAAAATGTTGTGACACG-CAGTGTA
1 AAACAAGTAAAATGTTGTGACACGCCA-TGCA
* * *
33047972 TACCAAGTAAAATGTTGTCACACGCCATGCA
1 AAACAAGTAAAATGTTGTGACACGCCATGCA
* *
33048003 AAACAAGTAAAATGTCGTGACACGTCATGCA
1 AAACAAGTAAAATGTTGTGACACGCCATGCA
* * * * *
33048034 TAACAAGATAAACT-TGGTGACACGCCAAGGA
1 AAACAAG-TAAAATGTTGTGACACGCCATGCA
* ** *
33048065 TAATGAGGAAAATGTTGTGACACGCCATGCA
1 AAACAAGTAAAATGTTGTGACACGCCATGCA
* * * * * *
33048096 TAACAAGATAAACT-TAGTAACACGCCAAGGA
1 AAACAAG-TAAAATGTTGTGACACGCCATGCA
* * *
33048127 TAACGAGGAAAATGTTGTGACACGCCATGCA
1 AAACAAGTAAAATGTTGTGACACGCCATGCA
*
33048158 AAACAATTAAAATGTTGTGACACGCCATGCA
1 AAACAAGTAAAATGTTGTGACACGCCATGCA
* * * * *
33048189 TAACAAGATAAACT-TGGTGACACGCCAAGGA
1 AAACAAG-TAAAATGTTGTGACACGCCATGCA
* * * *
33048220 TAACAAGCAAAATGTTCTGACACGTCATGCA
1 AAACAAGTAAAATGTTGTGACACGCCATGCA
* * * * *
33048251 TATCAAAATTAAACGTTGTGACACGCCATG-A
1 AAAC-AAGTAAAATGTTGTGACACGCCATGCA
* *
33048282 GTAACAAGTAAAATATTGTGACACGC
1 -AAACAAGTAAAATGTTGTGACACGC
33048308 TAAAGCTGAC
Statistics
Matches: 260, Mismatches: 66, Indels: 19
0.75 0.19 0.06
Matches are distributed among these distances:
30 14 0.05
31 208 0.80
32 38 0.15
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (31 bp):
AAACAAGTAAAATGTTGTGACACGCCATGCA
Found at i:33048057 original size:62 final size:63
Alignment explanation
Indices: 33047946--33048307 Score: 310
Period size: 62 Copynumber: 5.8 Consensus size: 63
33047936 AATCATAAAC
* * * * *
33047946 AGTAAAATGTTGTGACACG-CAGTGTATACCAAG-TAAAATGTTGTCACACGCCATGCAAAACA
1 AGTAAAATGTTGTGACACGCCA-TGCATAACAAGATAAAATGTTGTGACACGCCAAGCATAACA
* * * * * **
33048008 AGTAAAATGTCGTGACACGTCATGCATAACAAGATAAACT-TGGTGACACGCCAAGGATAATG
1 AGTAAAATGTTGTGACACGCCATGCATAACAAGATAAAATGTTGTGACACGCCAAGCATAACA
* * * * * *
33048070 AGGAAAATGTTGTGACACGCCATGCATAACAAGATAAACT-TAGTAACACGCCAAGGATAACG
1 AGTAAAATGTTGTGACACGCCATGCATAACAAGATAAAATGTTGTGACACGCCAAGCATAACA
* * * *
33048132 AGGAAAATGTTGTGACACGCCATGCAAAACAA-TTAAAATGTTGTGACACGCCATGCATAACA
1 AGTAAAATGTTGTGACACGCCATGCATAACAAGATAAAATGTTGTGACACGCCAAGCATAACA
* * * * * * * * *
33048194 AGATAAACT-TGGTGACACGCCAAGGATAACAAG-CAAAATGTTCTGACACGTCATGCATATCAA
1 AG-TAAAATGTTGTGACACGCCATGCATAACAAGATAAAATGTTGTGACACGCCAAGCATAAC-A
* * * *
33048257 AATTAAACGTTGTGACACGCCATG-AGTAACAAG-TAAAATATTGTGACACGC
1 AGTAAAATGTTGTGACACGCCATGCA-TAACAAGATAAAATGTTGTGACACGC
33048308 TAAAGCTGAC
Statistics
Matches: 247, Mismatches: 45, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
61 5 0.02
62 195 0.79
63 47 0.19
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (63 bp):
AGTAAAATGTTGTGACACGCCATGCATAACAAGATAAAATGTTGTGACACGCCAAGCATAACA
Found at i:33048249 original size:93 final size:94
Alignment explanation
Indices: 33048073--33048307 Score: 318
Period size: 93 Copynumber: 2.5 Consensus size: 94
33048063 GATAATGAGG
* * *
33048073 AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTAGTAACACGCCAAGGATAACGAGGAAA
1 AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTAGTGACACGCCAAGGATAACAAGCAAA
*
33048138 ATGTTGTGACACGCCATGCA-A-AACAATT
66 ATGTTCTGACACGCCATGCATACAA-AATT
*
33048166 AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTGGTGACACGCCAAGGATAACAAGCAAA
1 AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTAGTGACACGCCAAGGATAACAAGCAAA
*
33048231 ATGTTCTGACACGTCATGCATATCAAAATT
66 ATGTTCTGACACGCCATGCATA-CAAAATT
* * *
33048261 -AAACGTTGTGACACGCCATG-AGTAACAAG-TAAAATATTGTGACACGC
1 AAAATGTTGTGACACGCCATGCA-TAACAAGATAAACT-TAGTGACACGC
33048308 TAAAGCTGAC
Statistics
Matches: 128, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
93 85 0.66
94 37 0.29
95 4 0.03
96 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (94 bp):
AAAATGTTGTGACACGCCATGCATAACAAGATAAACTTAGTGACACGCCAAGGATAACAAGCAAA
ATGTTCTGACACGCCATGCATACAAAATT
Found at i:33049106 original size:156 final size:156
Alignment explanation
Indices: 33048675--33049172 Score: 565
Period size: 156 Copynumber: 3.2 Consensus size: 156
33048665 CTACAATAAT
* *
33048675 ATATATAGCTGTGTTATTCAATAATCATATATGGAATTGTTGAACATTAACCGTTACAACTTTAA
1 ATATATAACTGTGTTATTCAATAATCATGTAT-GAATTGTTGAACATTAACCGTTACAACTTTAA
* * * ** * * * *
33048740 TATCCTAACCG-GTGGCTCGTTACCAATTTGCG-GTGGAGCCGGACCGATCGGTGCTTCAAGACC
65 TATCCTTACCGCCT-GCTCGTTAGCTGTCTGCGAGTGGAGCTGGATCGATCGGTGCTTCAGGACC
* * * * *
33048803 TGCCATCACTTTCGCATACTGCAATTAC
129 TGTCGTCGCTTTCGTAAACTGCAATTAC
* * *
33048831 ATATTTAATTGTGTTATTCAATAATCATGTATGAAATTGTTGAACATTAACTGTTACAACTTTAA
1 ATATATAACTGTGTTATTCAATAATCATGTATG-AATTGTTGAACATTAACCGTTACAACTTTAA
* * * *
33048896 TATCCTTATCGCCGGCTCGTTAGCTGTCTGC-AGTGGAG-TCAGATCGATCTGTGCTTCAGGACC
65 TATCCTTACCGCCTGCTCGTTAGCTGTCTGCGAGTGGAGCT-GGATCGATCGGTGCTTCAGGACC
* *
33048959 TATCGTCGTTTTCGTAAACTGCAATTAC
129 TGTCGTCGCTTTCGTAAACTGCAATTAC
*
33048987 ATATATAACTGTGTTATTCAATAATCATGTTTAGAATTGTTGAACATTAACCGTTACAACTTTAA
1 ATATATAACTGTGTTATTCAATAATCATGTAT-GAATTGTTGAACATTAACCGTTACAACTTTAA
* * * *
33049052 TATCCTTACCGCCTGCTCGTTAGCTGTCTGCGATTGG-GCTGGATAGATCGGTGCTTGAGGACTT
65 TATCCTTACCGCCTGCTCGTTAGCTGTCTGCGAGTGGAGCTGGATCGATCGGTGCTTCAGGACCT
* * *
33049116 GTCGTCGCTTCCGTTAACTACAATTAC
130 GTCGTCGCTTTCGTAAACTGCAATTAC
* * * * * *
33049143 ATAAATTATTGTGTTACTCGATAAACATGT
1 ATATATAACTGTGTTATTCAATAATCATGT
33049173 GGGAATGTAG
Statistics
Matches: 287, Mismatches: 48, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
155 1 0.00
156 280 0.98
157 6 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (156 bp):
ATATATAACTGTGTTATTCAATAATCATGTATGAATTGTTGAACATTAACCGTTACAACTTTAAT
ATCCTTACCGCCTGCTCGTTAGCTGTCTGCGAGTGGAGCTGGATCGATCGGTGCTTCAGGACCTG
TCGTCGCTTTCGTAAACTGCAATTAC
Found at i:33050820 original size:31 final size:31
Alignment explanation
Indices: 33050782--33051064 Score: 338
Period size: 31 Copynumber: 9.1 Consensus size: 31
33050772 AATAAGGAAT
* **
33050782 AAATGTTGGGACACGCCATGCATTGCAA-TCA
1 AAATGTTGTGACACGCCATGCATAACAAGT-A
33050813 AAATGTTGTGACACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* *
33050844 AAATGTTGTGACATGCCATGCATAACAAGTT
1 AAATGTTGTGACACGCCATGCATAACAAGTA
*
33050875 AAATGTTGTGACACGCCATGCATATCAAGTTA
1 AAATGTTGTGACACGCCATGCATAACAAG-TA
* *
33050907 AAA-GTTATGACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * *
33050937 AAATGCTGTCAAACGCCATGCATAACAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
** *
33050968 AAAT-TCTGTGACACAACATGCATATCAAGTA
1 AAATGT-TGTGACACGCCATGCATAACAAGTA
* *
33050999 AAATGTTGTCACACGCCATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
* * * *
33051030 AAATGCTGTCACACGCTATGCATATCAAGTA
1 AAATGTTGTGACACGCCATGCATAACAAGTA
33051061 AAAT
1 AAAT
33051065 ACTGTCACAT
Statistics
Matches: 222, Mismatches: 25, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
30 5 0.02
31 211 0.95
32 6 0.03
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (31 bp):
AAATGTTGTGACACGCCATGCATAACAAGTA
Found at i:33050940 original size:93 final size:94
Alignment explanation
Indices: 33050782--33051064 Score: 387
Period size: 93 Copynumber: 3.0 Consensus size: 94
33050772 AATAAGGAAT
* * *
33050782 AAATGTTGGGACACGCCATGCAT-TGCAA-TCAAAATGTTGTGACACGCCATGCATAACAAGTAA
1 AAATGTTGTGACACGCCATGCATAT-CAAGTTAAAATGTTGTGACACGCCATGCATATCAAGTAA
* * * *
33050845 AATGTTGTGACATGCCATGCATAACAAGTT
65 AATGCTGTCACACGCCATGCATAACAAGTA
*
33050875 AAATGTTGTGACACGCCATGCATATCAAGTTAAAA-GTTATGACACGCCATGCATATCAAGTAAA
1 AAATGTTGTGACACGCCATGCATATCAAGTTAAAATGTTGTGACACGCCATGCATATCAAGTAAA
*
33050939 ATGCTGTCAAACGCCATGCATAACAAGTA
66 ATGCTGTCACACGCCATGCATAACAAGTA
** *
33050968 AAAT-TCTGTGACACAACATGCATATCAAG-TAAAATGTTGTCACACGCCATGCATATCAAGTAA
1 AAATGT-TGTGACACGCCATGCATATCAAGTTAAAATGTTGTGACACGCCATGCATATCAAGTAA
* *
33051031 AATGCTGTCACACGCTATGCATATCAAGTA
65 AATGCTGTCACACGCCATGCATAACAAGTA
33051061 AAAT
1 AAAT
33051065 ACTGTCACAT
Statistics
Matches: 170, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
92 6 0.04
93 158 0.93
94 6 0.04
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (94 bp):
AAATGTTGTGACACGCCATGCATATCAAGTTAAAATGTTGTGACACGCCATGCATATCAAGTAAA
ATGCTGTCACACGCCATGCATAACAAGTA
Found at i:33051660 original size:47 final size:47
Alignment explanation
Indices: 33051603--33051901 Score: 350
Period size: 47 Copynumber: 6.4 Consensus size: 47
33051593 CTAAACATGA
*
33051603 CCATGACGTGTCACCAACTCTGAACTCT-GTCGTGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTAG-CGTGTCACAGATTCCCT
* * **
33051650 CCATGGCGTGTCACCAACTCTTAACTCTAGCGTCTCACAGATTCAAT
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
* * * *
33051697 CCATGGCGTCTCACCAACCCTGAACACTAGCATGTCACAGATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
* * * * * *
33051744 CCATGTCGTGTCACTAACTCTTAA-TCTGGTGTGTCACAAATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
* * * * *
33051790 CCATGGCGTCTCACCAACTCTGAACGCTATCGTGTCACACATTCCCA
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
* * * *
33051837 CCATGACGTGTCACCAACTCTTAACTCTAGCGTCTCACAAATTCCCT
1 CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
*
33051884 CCATGGCGTCTCACCAAC
1 CCATGGCGTGTCACCAAC
33051902 CTTGAGGGGT
Statistics
Matches: 207, Mismatches: 43, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
46 37 0.18
47 169 0.82
48 1 0.00
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (47 bp):
CCATGGCGTGTCACCAACTCTGAACTCTAGCGTGTCACAGATTCCCT
Found at i:33051793 original size:140 final size:141
Alignment explanation
Indices: 33051603--33051901 Score: 370
Period size: 140 Copynumber: 2.1 Consensus size: 141
33051593 CTAAACATGA
* *
33051603 CCATGACGTGTCACCAACTCTGAACTCTGTCGTGTCACAGATTCCCTCCATGGCGTGTCACCAAC
1 CCATGACGTGTCACCAACTCTGAACTCTGTCGTGTCACAAATTCCCTCCATGGCGTCTCACCAAC
* * * * *
33051668 TCTTAACTCTAGCGTCTCACAGATT-CAATCCATGGCGTCTCACCAACCCTGAACACTAGCATGT
66 TCTGAACGCTAGCGTCTCACACATTCCAA-CCATGACGTCTCACCAACCCTGAACACTAGCATCT
*
33051732 CACAGATTCCCT
130 CACAAATTCCCT
* * *
33051744 CCATGTCGTGTCACTAACTCTTAA-TCTGGT-GTGTCACAAATTCCCTCCATGGCGTCTCACCAA
1 CCATGACGTGTCACCAACTCTGAACTCT-GTCGTGTCACAAATTCCCTCCATGGCGTCTCACCAA
* * * * * * * *
33051807 CTCTGAACGCTATCGTGTCACACATTCCCACCATGACGTGTCACCAACTCTTAACTCTAGCGTCT
65 CTCTGAACGCTAGCGTCTCACACATTCCAACCATGACGTCTCACCAACCCTGAACACTAGCATCT
33051872 CACAAATTCCCT
130 CACAAATTCCCT
* *
33051884 CCATGGCGTCTCACCAAC
1 CCATGACGTGTCACCAAC
33051902 CTTGAGGGGT
Statistics
Matches: 134, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
140 109 0.81
141 25 0.19
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.26
Consensus pattern (141 bp):
CCATGACGTGTCACCAACTCTGAACTCTGTCGTGTCACAAATTCCCTCCATGGCGTCTCACCAAC
TCTGAACGCTAGCGTCTCACACATTCCAACCATGACGTCTCACCAACCCTGAACACTAGCATCTC
ACAAATTCCCT
Found at i:33051917 original size:94 final size:94
Alignment explanation
Indices: 33051603--33051951 Score: 400
Period size: 94 Copynumber: 3.7 Consensus size: 94
33051593 CTAAACATGA
* * * * * *
33051603 CCATGACGTGTCACCAA-CTCTGAACTCTGTCGTGTCACAGATTCCCTCCATGGCGTGTCACCAA
1 CCATGGCGTCTCACCAACCT-TGAACGCTGTCGTGTCACACATTCCCACCATGACGTGTCACCAA
* **
33051667 CTCTTAACTCTAGCGTCTCACAGATTCAAT
65 CTCTTAACTCTAGCGTCTCACAAATTCCCT
* * * * * * *
33051697 CCATGGCGTCTCACCAACCCTGAACACTAG-CATGTCACAGATTCCCTCCATGTCGTGTCACTAA
1 CCATGGCGTCTCACCAACCTTGAACGCT-GTCGTGTCACACATTCCCACCATGACGTGTCACCAA
* * *
33051761 CTCTTAA-TCTGGTGTGTCACAAATTCCCT
65 CTCTTAACTCTAGCGTCTCACAAATTCCCT
*
33051790 CCATGGCGTCTCACCAA-CTCTGAACGCTATCGTGTCACACATTCCCACCATGACGTGTCACCAA
1 CCATGGCGTCTCACCAACCT-TGAACGCTGTCGTGTCACACATTCCCACCATGACGTGTCACCAA
33051854 CTCTTAACTCTAGCGTCTCACAAATTCCCT
65 CTCTTAACTCTAGCGTCTCACAAATTCCCT
** * * * * *
33051884 CCATGGCGTCTCACCAACCTTGAGGGGTGTCGTGTCACACATTCTCAACATGACGTTTCACAAAC
1 CCATGGCGTCTCACCAACCTTGAACGCTGTCGTGTCACACATTCCCACCATGACGTGTCACCAAC
33051949 TCT
66 TCT
33051952 AAACCCTGCC
Statistics
Matches: 217, Mismatches: 32, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
92 1 0.00
93 76 0.35
94 136 0.63
95 4 0.02
ACGTcount: A:0.24, C:0.34, G:0.15, T:0.27
Consensus pattern (94 bp):
CCATGGCGTCTCACCAACCTTGAACGCTGTCGTGTCACACATTCCCACCATGACGTGTCACCAAC
TCTTAACTCTAGCGTCTCACAAATTCCCT
Found at i:33057419 original size:19 final size:19
Alignment explanation
Indices: 33057395--33057467 Score: 139
Period size: 19 Copynumber: 3.9 Consensus size: 19
33057385 AATCAGGAAA
33057395 AATGAAATCAAAGATTCAC
1 AATGAAATCAAAGATTCAC
33057414 AATGAAATCAAAGATTCAC
1 AATGAAATCAAAGATTCAC
33057433 AATGAAATCAAAGATTCAC
1 AATGAAATCAAAGATTCAC
33057452 AATGAAATC-AAGATTC
1 AATGAAATCAAAGATTC
33057468 TAAGAATCAA
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
18 7 0.13
19 47 0.87
ACGTcount: A:0.52, C:0.15, G:0.11, T:0.22
Consensus pattern (19 bp):
AATGAAATCAAAGATTCAC
Found at i:33057438 original size:38 final size:36
Alignment explanation
Indices: 33057395--33057482 Score: 135
Period size: 38 Copynumber: 2.4 Consensus size: 36
33057385 AATCAGGAAA
33057395 AATGAAATCAAAGATTCACAATGAAATCAAAGATTCAC
1 AATGAAATCAAAGATTCACAATGAAATC-AAGATTC-C
*
33057433 AATGAAATCAAAGATTCACAATGAAATCAAGATTCT
1 AATGAAATCAAAGATTCACAATGAAATCAAGATTCC
33057469 AA-G-AATCAAAGATT
1 AATGAAATCAAAGATT
33057483 GAACGGTTGC
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
34 11 0.22
35 1 0.02
36 2 0.04
37 7 0.14
38 28 0.57
ACGTcount: A:0.52, C:0.14, G:0.11, T:0.23
Consensus pattern (36 bp):
AATGAAATCAAAGATTCACAATGAAATCAAGATTCC
Found at i:33057683 original size:13 final size:13
Alignment explanation
Indices: 33057665--33057689 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33057655 ATTTAATATT
33057665 ATTTATAGCAACC
1 ATTTATAGCAACC
33057678 ATTTATAGCAAC
1 ATTTATAGCAAC
33057690 TTTTAATCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (13 bp):
ATTTATAGCAACC
Found at i:33058235 original size:21 final size:19
Alignment explanation
Indices: 33058209--33058271 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 19
33058199 ATTTTATTTT
33058209 ATTAATATATTTCCTAAAAAA
1 ATTAATATATTT--TAAAAAA
*
33058230 ATTAATAAAATTTTAAAAAA
1 ATTAAT-ATATTTTAAAAAA
33058250 ACTTAATATATTTTAAATAAA
1 A-TTAATATATTTTAAA-AAA
33058271 A
1 A
33058272 AATTTAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
20 17 0.46
21 15 0.41
22 5 0.14
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTAATATATTTTAAAAAA
Found at i:33069531 original size:45 final size:45
Alignment explanation
Indices: 33069471--33069561 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
33069461 CACGTTATGA
* *
33069471 TGTTACATGTCATGTACAAAAACATGTGACATGCCATGGTTAGGT
1 TGTTACATGCCATGTACAAAAACATGTGACACGCCATGGTTAGGT
* *
33069516 TGTTGCATGCCATGTAGAAAAACATGTGACACGCCATGGTTAGGT
1 TGTTACATGCCATGTACAAAAACATGTGACACGCCATGGTTAGGT
33069561 T
1 T
33069562 ACTACACATC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (45 bp):
TGTTACATGCCATGTACAAAAACATGTGACACGCCATGGTTAGGT
Found at i:33069575 original size:45 final size:45
Alignment explanation
Indices: 33069480--33069582 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
33069470 ATGTTACATG
* * ** * **
33069480 TCATGTACAAAAACATGTGACATGCCATGGTTAGGTTGTTGCATG
1 TCATGTAGAAAAACATGTGACACGCCATGGTTAGGTTACTACACA
*
33069525 CCATGTAGAAAAACATGTGACACGCCATGGTTAGGTTACTACACA
1 TCATGTAGAAAAACATGTGACACGCCATGGTTAGGTTACTACACA
*
33069570 TCATGTTGAAAAA
1 TCATGTAGAAAAA
33069583 AAAAACTGTT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (45 bp):
TCATGTAGAAAAACATGTGACACGCCATGGTTAGGTTACTACACA
Found at i:33069676 original size:45 final size:45
Alignment explanation
Indices: 33069590--33069693 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 45
33069580 AAAAAAAACT
* *
33069590 GTTGTTACAAGCCAGGTACAAAAACATGTTACATGCCATGGTTAG
1 GTTGTTACAAGCCAGGTACAAAAACATGTGACACGCCATGGTTAG
* * * ** *
33069635 GTTGTTTCATGCCATGTACAAAAACATGTGACACGTTATGGTTAT
1 GTTGTTACAAGCCAGGTACAAAAACATGTGACACGCCATGGTTAG
* *
33069680 ATTGTTACACGCCA
1 GTTGTTACAAGCCA
33069694 CGTTGAAAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (45 bp):
GTTGTTACAAGCCAGGTACAAAAACATGTGACACGCCATGGTTAG
Found at i:33069778 original size:120 final size:121
Alignment explanation
Indices: 33069471--33069778 Score: 377
Period size: 121 Copynumber: 2.6 Consensus size: 121
33069461 CACGTTATGA
* * * *
33069471 TGTTACATGTCATGTACAAAAACATGTGACATGCCATGGTTAGGTTGTTGCATGCCATGTAGAAA
1 TGTTACAAGCCATGTACAAAAACATGTTACATGCCATGGTTAGGTTGTTACATGCCATGTAGAAA
* * *
33069536 AACATGTGACACGCCATGGTTAGGTTACTACACATCATGTTGAAAAAAAAAACTGT
66 AACATGTGACACGCCATGGTTAGATTACTACACACCACGTTGAAAAAAAAAACTGT
* * *
33069592 TGTTACAAGCCAGGTACAAAAACATGTTACATGCCATGGTTAGGTTGTTTCATGCCATGTACAAA
1 TGTTACAAGCCATGTACAAAAACATGTTACATGCCATGGTTAGGTTGTTACATGCCATGTAGAAA
** * ** * ***
33069657 AACATGTGACACGTTATGGTTATATTGTTACACGCCACGTTG-AAAAAAATGTTGT
66 AACATGTGACACGCCATGGTTAGATTACTACACACCACGTTGAAAAAAAAAACTGT
* * * * *
33069712 TGTTACACA-CCATGTACAAAAATATATTACACGCCATGGTTAGGTTGTTACACGCCATGTTGAA
1 TGTTACA-AGCCATGTACAAAAACATGTTACATGCCATGGTTAGGTTGTTACATGCCATGTAGAA
33069776 AAA
65 AAA
33069779 AAACACTGTT
Statistics
Matches: 160, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
120 67 0.42
121 93 0.58
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (121 bp):
TGTTACAAGCCATGTACAAAAACATGTTACATGCCATGGTTAGGTTGTTACATGCCATGTAGAAA
AACATGTGACACGCCATGGTTAGATTACTACACACCACGTTGAAAAAAAAAACTGT
Found at i:33069819 original size:76 final size:76
Alignment explanation
Indices: 33069672--33069880 Score: 240
Period size: 76 Copynumber: 2.7 Consensus size: 76
33069662 GTGACACGTT
** * * * **
33069672 ATGGTTATATTGTTACACGCCACGTTG-AAAAAAATGTTGTTGTTACACACCATGTACAAAAATA
1 ATGGTTAGGTTGTTACACGCCATGTTGAAAAAAAATATTGTTGTTACACGCCAAATACAAAAATA
* *
33069736 TATTACACGCC
66 TACTACACACC
* *
33069747 ATGGTTAGGTTGTTACACGCCATGTTGAAAAAAAACACTGTTGTTACACGCCAAATACAAAAATA
1 ATGGTTAGGTTGTTACACGCCATGTTGAAAAAAAATATTGTTGTTACACGCCAAATACAAAAATA
*
33069812 TGCTACACACC
66 TACTACACACC
* *
33069823 AAGGTTAAAAAGGTTGTTACACGCTATGTTGAAAAAAAAATATTGTTGTTACACGCCA
1 ATGGTT----AGGTTGTTACACGCCATGTTG-AAAAAAAATATTGTTGTTACACGCCA
33069881 TGTTGAAAAA
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
75 24 0.21
76 44 0.39
80 20 0.18
81 24 0.21
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (76 bp):
ATGGTTAGGTTGTTACACGCCATGTTGAAAAAAAATATTGTTGTTACACGCCAAATACAAAAATA
TACTACACACC
Found at i:33069896 original size:29 final size:29
Alignment explanation
Indices: 33069835--33069932 Score: 101
Period size: 29 Copynumber: 3.3 Consensus size: 29
33069825 GGTTAAAAAG
* *
33069835 GTTGTTACACGCTATGTTGAAAAAAAAATATT
1 GTTGTTACACGCCATGTTG--AAAAATA-ATT
33069867 GTTGTTACACGCCATGTTGAAAAATAATT
1 GTTGTTACACGCCATGTTGAAAAATAATT
* * * *
33069896 GTTGTTACATGTCATATTCAAAAATAA-T
1 GTTGTTACACGCCATGTTGAAAAATAATT
33069924 -TTGTTACAC
1 GTTGTTACAC
33069933 TTTAATGCCT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.14
28 1 0.02
29 26 0.44
30 6 0.10
32 18 0.31
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (29 bp):
GTTGTTACACGCCATGTTGAAAAATAATT
Found at i:33070869 original size:9 final size:10
Alignment explanation
Indices: 33070830--33070868 Score: 71
Period size: 10 Copynumber: 4.0 Consensus size: 10
33070820 AGAAAATCTA
33070830 TAAGC-TTTT
1 TAAGCATTTT
33070839 TAAGCATTTT
1 TAAGCATTTT
33070849 TAAGCATTTT
1 TAAGCATTTT
33070859 TAAGCATTTT
1 TAAGCATTTT
33070869 AGAGTGATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 5 0.17
10 24 0.83
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.51
Consensus pattern (10 bp):
TAAGCATTTT
Found at i:33071120 original size:26 final size:26
Alignment explanation
Indices: 33071084--33071380 Score: 221
Period size: 26 Copynumber: 12.4 Consensus size: 26
33071074 TGGGCATTAT
*
33071084 GTGACTAGTTTTTGATAAGGTATTGC
1 GTGACTAGTTTTTGATAAGGCATTGC
*
33071110 GTGACTAGTTTCTGATAAGGCATTGC
1 GTGACTAGTTTTTGATAAGGCATTGC
* * *
33071136 TTGGCTAG---TTGAT-AGGCATTGT
1 GTGACTAGTTTTTGATAAGGCATTGC
** *
33071158 GTGACT-GACTTTG----GACATTGC
1 GTGACTAGTTTTTGATAAGGCATTGC
* *
33071179 CTGACTAGTTTTTGATAAGGTATTGC
1 GTGACTAGTTTTTGATAAGGCATTGC
* *
33071205 GTGACTAGTTTCTGATAAGGTATTGC
1 GTGACTAGTTTTTGATAAGGCATTGC
33071231 GTGACTAG---TTGAT-AGGCATTGC
1 GTGACTAGTTTTTGATAAGGCATTGC
* **
33071253 ATGACTA-ACTTTG----GGCATTGC
1 GTGACTAGTTTTTGATAAGGCATTGC
*
33071274 GTGACTAGTTTTTGATAAGGCATTAC
1 GTGACTAGTTTTTGATAAGGCATTGC
* *
33071300 GTGACTAGTTTCTAATAAGGCATTGC
1 GTGACTAGTTTTTGATAAGGCATTGC
*
33071326 GTGACTAG---TTGAT-AGGTATTGC
1 GTGACTAGTTTTTGATAAGGCATTGC
* * *
33071348 GTGAC--CTCTTAG-TAAGGCATTGC
1 GTGACTAGTTTTTGATAAGGCATTGC
33071371 GTGACTAGTT
1 GTGACTAGTT
33071381 AGTAAGCCAT
Statistics
Matches: 214, Mismatches: 35, Indels: 45
0.73 0.12 0.15
Matches are distributed among these distances:
21 26 0.12
22 49 0.23
23 26 0.12
24 6 0.03
25 1 0.00
26 106 0.50
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (26 bp):
GTGACTAGTTTTTGATAAGGCATTGC
Found at i:33071169 original size:95 final size:95
Alignment explanation
Indices: 33071062--33071352 Score: 456
Period size: 95 Copynumber: 3.1 Consensus size: 95
33071052 TTGAATATTT
**
33071062 CGTGACTGACTTTGGGCATTATGTGACTAGTTTTTGATAAGGTATTGCGTGACTAGTTTCTGATA
1 CGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGTATTGCGTGACTAGTTTCTGATA
* *
33071127 AGGCATTGCTTGGCTAGTTGATAGGCATTG
66 AGGCATTGCGTGACTAGTTGATAGGCATTG
* * *
33071157 TGTGACTGACTTTGGACATTGCCTGACTAGTTTTTGATAAGGTATTGCGTGACTAGTTTCTGATA
1 CGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGTATTGCGTGACTAGTTTCTGATA
*
33071222 AGGTATTGCGTGACTAGTTGATAGGCATTG
66 AGGCATTGCGTGACTAGTTGATAGGCATTG
* * * * *
33071252 CATGACTAACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGCATTACGTGACTAGTTTCTAATA
1 CGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGTATTGCGTGACTAGTTTCTGATA
*
33071317 AGGCATTGCGTGACTAGTTGATAGGTATTG
66 AGGCATTGCGTGACTAGTTGATAGGCATTG
33071347 CGTGAC
1 CGTGAC
33071353 CTCTTAGTAA
Statistics
Matches: 177, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 177 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (95 bp):
CGTGACTGACTTTGGGCATTGCGTGACTAGTTTTTGATAAGGTATTGCGTGACTAGTTTCTGATA
AGGCATTGCGTGACTAGTTGATAGGCATTG
Found at i:33071399 original size:23 final size:23
Alignment explanation
Indices: 33071268--33071399 Score: 81
Period size: 23 Copynumber: 5.5 Consensus size: 23
33071258 TAACTTTGGG
* *
33071268 CATTGCGTGACTAGTTTTTGATAAGG
1 CATTGCGTGACTAG--TTAG-TAAGC
* * *
33071294 CATTACGTGACTAGTTTCTAATAAGG
1 CATTGCGTGACTAG--T-TAGTAAGC
*
33071320 CATTGCGTGACTAGTT-G-ATAGG
1 CATTGCGTGACTAGTTAGTA-AGC
* * *
33071342 TATTGCGTGACCT-CTTAGTAAGG
1 CATTGCGTGA-CTAGTTAGTAAGC
33071365 CATTGCGTGACTAGTTAGTAAGC
1 CATTGCGTGACTAGTTAGTAAGC
*
33071388 CATTGTGTGACT
1 CATTGCGTGACT
33071400 TAGGCATTGC
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
21 1 0.01
22 16 0.18
23 35 0.39
24 2 0.02
26 34 0.38
27 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (23 bp):
CATTGCGTGACTAGTTAGTAAGC
Found at i:33071446 original size:22 final size:22
Alignment explanation
Indices: 33071411--33071481 Score: 92
Period size: 22 Copynumber: 3.3 Consensus size: 22
33071401 AGGCATTGCT
* * *
33071411 TAAAAAGCAGTCACGCAATGTC
1 TAAAAATCAATCACGTAATGTC
33071433 TAAAAATCAATCACGTAATGTC
1 TAAAAATCAATCACGTAATGTC
33071455 T-AAAATCAATCACGTAAT-TC
1 TAAAAATCAATCACGTAATGTC
33071475 TTAAAAA
1 -TAAAAA
33071482 CTAGTCACAC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 2 0.05
21 18 0.41
22 24 0.55
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.25
Consensus pattern (22 bp):
TAAAAATCAATCACGTAATGTC
Found at i:33071461 original size:21 final size:21
Alignment explanation
Indices: 33071421--33071480 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
33071411 TAAAAAGCAG
*
33071421 TCACGCAATGTCTAAAAATCAA
1 TCACGTAATGTCT-AAAATCAA
33071443 TCACGTAATGTCTAAAATCAA
1 TCACGTAATGTCTAAAATCAA
33071464 TCACGTAAT-TCTTAAAA
1 TCACGTAATGTC-TAAAA
33071481 ACTAGTCACA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 2 0.06
21 22 0.61
22 12 0.33
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.28
Consensus pattern (21 bp):
TCACGTAATGTCTAAAATCAA
Found at i:33071555 original size:23 final size:22
Alignment explanation
Indices: 33071507--33071555 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
33071497 TAAAGTCACG
*
33071507 CAATACCTAAAAACTAGTCTCA
1 CAATACCTAAAAACTAGTCTAA
*
33071529 CAATACTTAAAAA-TCAGTCTAA
1 CAATACCTAAAAACT-AGTCTAA
33071551 TCAAT
1 -CAAT
33071556 TTCAACTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.04
22 18 0.78
23 4 0.17
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.27
Consensus pattern (22 bp):
CAATACCTAAAAACTAGTCTAA
Found at i:33078383 original size:35 final size:35
Alignment explanation
Indices: 33078335--33078478 Score: 198
Period size: 35 Copynumber: 4.1 Consensus size: 35
33078325 GAGAACAACC
*
33078335 AGAACAAGTGAAGTGCTACTTCATGCAGAATAAGT
1 AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
* *
33078370 AAAACAAGTGAAGTGCTACTTCACGTAGAATAAGT
1 AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
* * * *
33078405 AGAACAAATGAAGCGCTACTTCACGCAGAACAACT
1 AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
* * *
33078440 AGAACAAGTGAAGTGCTACTTAAAGCAGAATAACT
1 AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
33078475 AGAA
1 AGAA
33078479 TAAATAGAAC
Statistics
Matches: 95, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 95 1.00
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (35 bp):
AGAACAAGTGAAGTGCTACTTCACGCAGAATAAGT
Found at i:33078518 original size:70 final size:70
Alignment explanation
Indices: 33078372--33078507 Score: 166
Period size: 70 Copynumber: 1.9 Consensus size: 70
33078362 GAATAAGTAA
* * * * * * *
33078372 AACAAGTGAAGTGCTACTTCACGTAGAATAAGTAGAACAAATGAAGCGCTACTTCACGCAGAACA
1 AACAAGTGAAGTGCTACTTAAAGCAGAATAACTAGAACAAATGAAGCACTACTACACACAGAACA
33078437 ACTAG
66 ACTAG
* * *
33078442 AACAAGTGAAGTGCTACTTAAAGCAGAATAACTAGAATAAATAGAA-CACTACTACATATAGAAC
1 AACAAGTGAAGTGCTACTTAAAGCAGAATAACTAGAACAAAT-GAAGCACTACTACACACAGAAC
33078506 AA
65 AA
33078508 TTAATGCAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
70 52 0.95
71 3 0.05
ACGTcount: A:0.46, C:0.18, G:0.17, T:0.19
Consensus pattern (70 bp):
AACAAGTGAAGTGCTACTTAAAGCAGAATAACTAGAACAAATGAAGCACTACTACACACAGAACA
ACTAG
Found at i:33078733 original size:14 final size:14
Alignment explanation
Indices: 33078714--33078765 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
33078704 ACCCTCTTAC
33078714 CTTATTCTCGTATA
1 CTTATTCTCGTATA
*
33078728 CTTATTCAT-GTACA
1 CTTATTC-TCGTATA
* *
33078742 GCTTATTCTCTTGTA
1 -CTTATTCTCGTATA
33078757 CTTATTCTC
1 CTTATTCTC
33078766 ATACAGCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 21 0.68
15 10 0.32
ACGTcount: A:0.19, C:0.23, G:0.08, T:0.50
Consensus pattern (14 bp):
CTTATTCTCGTATA
Found at i:33078758 original size:29 final size:28
Alignment explanation
Indices: 33078714--33078799 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 28
33078704 ACCCTCTTAC
* *
33078714 CTTATTCTCGTATACTTATTCATGTACAG
1 CTTATTCTCTTGTACTTATTC-TGTACAG
*
33078743 CTTATTCTCTTGTACTTATTCTCATACAG
1 CTTATTCTCTTGTACTTATTCT-GTACAG
* *
33078772 CTTCTTCTCTTGTACCTATTCTTGTACA
1 CTTATTCTCTTGTACTTATTC-TGTACA
33078800 CCTCTTTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 1 0.02
29 47 0.96
30 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.48
Consensus pattern (28 bp):
CTTATTCTCTTGTACTTATTCTGTACAG
Found at i:33079020 original size:13 final size:13
Alignment explanation
Indices: 33079002--33079026 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33078992 ACTTGAGAGC
33079002 TTCTCTCTCTAAA
1 TTCTCTCTCTAAA
33079015 TTCTCTCTCTAA
1 TTCTCTCTCTAA
33079027 TTATCTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCTCTCTCTAAA
Found at i:33084460 original size:56 final size:56
Alignment explanation
Indices: 33084373--33084487 Score: 185
Period size: 56 Copynumber: 2.1 Consensus size: 56
33084363 GTACCTTGAT
*
33084373 TATTAGACTCACTCTAGAATATTATGATAAAGAGTTAGTCTTTGATTGAATCAGTC
1 TATTAGACTCACTCTAGAATATCATGATAAAGAGTTAGTCTTTGATTGAATCAGTC
* * * *
33084429 TATTAGACTCAGTCTATAATATCGTGGTAAAGAGTTAGTCTTTGATTGAATCAGTC
1 TATTAGACTCACTCTAGAATATCATGATAAAGAGTTAGTCTTTGATTGAATCAGTC
33084485 TAT
1 TAT
33084488 CAAACTCAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (56 bp):
TATTAGACTCACTCTAGAATATCATGATAAAGAGTTAGTCTTTGATTGAATCAGTC
Found at i:33086305 original size:43 final size:43
Alignment explanation
Indices: 33086244--33086328 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
33086234 ATTGCAACAG
*
33086244 TCTAATTTAAAGAAGCAAAGTGAAATGATATATCATTAATTAT
1 TCTAATCTAAAGAAGCAAAGTGAAATGATATATCATTAATTAT
33086287 TCTAATCTAAAGAAGCAAAGTGAAATGATATATCATTAATTA
1 TCTAATCTAAAGAAGCAAAGTGAAATGATATATCATTAATTA
33086329 GCATTCAATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (43 bp):
TCTAATCTAAAGAAGCAAAGTGAAATGATATATCATTAATTAT
Found at i:33095603 original size:3 final size:3
Alignment explanation
Indices: 33095595--33095629 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
33095585 TTGTTTTGTT
33095595 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
33095630 TTTCCTGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:33103421 original size:4 final size:4
Alignment explanation
Indices: 33103412--33103486 Score: 96
Period size: 4 Copynumber: 18.8 Consensus size: 4
33103402 AGAAGGGAAT
* * * * *
33103412 TATA TATA TATA TATA TATA TGTA TATG TATG TATA TATA TGTA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
33103460 TATG TATA TATA TATA TATA TATA TAT
1 TATA TATA TATA TATA TATA TATA TAT
33103487 GTATGTATGT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 63 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (4 bp):
TATA
Done.