Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold18
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: 4432388
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 63034 characters in sequence are not A, C, G, or T
File 2 of 27
Found at i:124161 original size:5 final size:5
Alignment explanation
Indices: 124145--124189 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
124135 TCAAAAAAAC
*
124145 AACAA AAC-- AACAA AACAA AACAAA AAAAA AACAA AACAA AACAA A
1 AACAA AACAA AACAA AACAA AAC-AA AACAA AACAA AACAA AACAA A
124190 GAAAAAGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
3 3 0.09
5 28 0.80
6 4 0.11
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (5 bp):
AACAA
Found at i:124165 original size:21 final size:21
Alignment explanation
Indices: 124140--124195 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
124130 CATTTTCAAA
* *
124140 AAAACAACAAAACAACAAAAC
1 AAAACAAAAAAAAAACAAAAC
124161 AAAACAAAAAAAAAACAAAAC
1 AAAACAAAAAAAAAACAAAAC
*
124182 AAAACAAAGAAAAA
1 AAAACAAAAAAAAA
124196 GAGAGAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.82, C:0.16, G:0.02, T:0.00
Consensus pattern (21 bp):
AAAACAAAAAAAAAACAAAAC
Found at i:124184 original size:16 final size:17
Alignment explanation
Indices: 124136--124189 Score: 76
Period size: 16 Copynumber: 3.2 Consensus size: 17
124126 CATTCATTTT
*
124136 CAAAAAA-ACAACAAAA
1 CAAAAAACAAAACAAAA
124152 CAACAAAACAAAACAAAA
1 CAA-AAAACAAAACAAAA
124170 -AAAAAACAAAACAAAA
1 CAAAAAACAAAACAAAA
124186 CAAA
1 CAAA
124190 GAAAAAGAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
16 17 0.50
17 9 0.26
18 8 0.24
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAAACAAAACAAAA
Found at i:125447 original size:61 final size:57
Alignment explanation
Indices: 125210--125436 Score: 268
Period size: 55 Copynumber: 4.0 Consensus size: 57
125200 GGACGCCTTT
125210 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CTAGTCCTCAAAGAGCAGGACG
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAGAGCAGGACG
* * **
125266 T-CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAATAGGACG
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAGAGCAGGACG
* * * * *
125321 -CCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAATCCTCAAAGAGTAGGACACCTTC
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAGAGCAGG--A-C--G
* *
125381 TCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTAAAATAGCAGGACG
1 TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAGAGCAGGACG
125437 CTCTCTCCTT
Statistics
Matches: 146, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
54 3 0.02
55 91 0.62
56 2 0.01
57 1 0.01
58 2 0.01
59 1 0.01
61 46 0.32
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.24
Consensus pattern (57 bp):
TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAGAGCAGGACG
Found at i:125593 original size:156 final size:156
Alignment explanation
Indices: 125295--125593 Score: 449
Period size: 156 Copynumber: 1.9 Consensus size: 156
125285 GTTGGTGGCA
* *
125295 CCTTTCAGTCCTCAAAGAATAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAATC
1 CCTTTCAGTCCTCAAAGAACAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAATC
*
125360 CTCAAAGAGTAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTAA
66 CTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTAA
* *
125425 AATAGCAGGACGCTCTCTCCTTTCGC
131 AATAACAAGACGCTCTCTCCTTTCGC
* * * *
125451 CCTTT-AGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
1 CCTTTCAGTCCTCAAAGAACAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCCCAAT
** * *
125515 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCTAGTCCTC
65 CCTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCT-
125580 AAAA-AACAAGACGC
129 AAAATAACAAGACGC
125594 CTTTCAAAGC
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
155 46 0.36
156 78 0.61
157 4 0.03
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (156 bp):
CCTTTCAGTCCTCAAAGAACAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAATC
CTCAAAGAGCAGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTAA
AATAACAAGACGCTCTCTCCTTTCGC
Found at i:125645 original size:211 final size:209
Alignment explanation
Indices: 125240--125654 Score: 509
Period size: 211 Copynumber: 2.0 Consensus size: 209
125230 GTTGGTGGCA
* *
125240 CCTTCTAGTCCTCAAAGAGCAGGACGTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCTTCTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
*
125305 CTCAAAGAATAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAATCCTCAAAGAGT
66 CTCAAAGAACAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAATCCTCAAAGAG-
*** * * * *
125370 AGGACACCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTAAAATAGCAGGA
130 A-GACACAGACGCCTTTCAAAGCACACACAAGTTGGTGGCACTTCCTAGTCCTAAAAGAGCAGGA
125435 CGCTCTCTCCTTTCGC
194 CGCTCTCTCCTTTCGC
* *
125451 CCTT-TAGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGT
1 CCTTCTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGT
* * * *
125515 CCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCTAGTCCTC
65 CCTCAAAGAACAGGA---C---GCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAATCCTC
** *
125580 AAA-A-A-ACA-AGACGCCTTTCAAAGCACACACAAGTTGGTGGCA-TTTTTCAGTCCTCAAAGA
124 AAAGAGAGACACAGACGCCTTTCAAAGCACACACAAGTTGGTGGCACTTCCT-AGTCCTAAAAGA
* *
125640 GCAGGATGCTTTCTC
188 GCAGGACGCTCTCTC
125655 TTTTTAAAGA
Statistics
Matches: 175, Mismatches: 21, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
210 55 0.31
211 71 0.41
212 3 0.02
214 2 0.01
216 1 0.01
217 43 0.25
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (209 bp):
CCTTCTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTC
CTCAAAGAACAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTCCCAATCCTCAAAGAGA
GACACAGACGCCTTTCAAAGCACACACAAGTTGGTGGCACTTCCTAGTCCTAAAAGAGCAGGACG
CTCTCTCCTTTCGC
Found at i:125764 original size:122 final size:117
Alignment explanation
Indices: 125455--125805 Score: 429
Period size: 122 Copynumber: 3.0 Consensus size: 117
125445 TTTCGCCCTT
* * * *
125455 TAGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCA
1 TAGTCCTCAAAAAACAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGTCCTCA
* * *
125520 AAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTCC
65 AAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTCC
* * *
125572 TAGTCCTCAAAAAACAAGACGCCTTTCAAAGCACACACAAGTTGGTGGCATTTTTCAGTCCTCAA
1 TAGTCCTCAAAAAACAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAA
* *
125637 AGAGCAGGATG-CTTTCTCTTTTTAAAGACCACTCGAGTTGGTGGCACCTTCC
66 AGAGCAGGATGCCTTT-TCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTCC
** * * *
125689 -AGTCCTCAAAAGGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
1 TAGTCCTCAAAAAACAAGA--C--GC-CTTT-CAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* * *
125753 CCTCAAAGAGCATGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCAC
60 CCTCAAAGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCAC
125806 TTTTTAGTCC
Statistics
Matches: 200, Mismatches: 25, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
115 4 0.02
116 64 0.32
117 50 0.25
118 1 0.00
120 1 0.00
121 4 0.02
122 72 0.36
123 4 0.02
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (117 bp):
TAGTCCTCAAAAAACAAGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAA
AGAGCAGGATGCCTTTTCTTTTTAAAGCCCACACGAGTTGGTGGCACCTTCC
Found at i:125836 original size:61 final size:60
Alignment explanation
Indices: 125455--125843 Score: 383
Period size: 61 Copynumber: 6.5 Consensus size: 60
125445 TTTCGCCCTT
*
125455 TAGTCCTCAAAGAGCAAGACGC----CTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGACGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTC
*
125511 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTCC
1 TAGTCCTCAAAGAGCAGGACG-CTTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTT-C
* * * * *
125572 TAGTCCTCAAAAAACAAGACGC----C-TTTCAAAGCACACACAAGTTGGTGGCA-TTTT
1 TAGTCCTCAAAGAGCAGGACGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * * *
125626 TCAGTCCTCAAAGAGCAGGATGCTTTCTCTTTTTAAAGACCACTCGAGTTGGTGGCACCTTC
1 T-AGTCCTCAAAGAGCAGGACGCTTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * *
125688 CAGTCCTCAAA-AGGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGA-GCAGGACGCTTT-TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
* * * *
125749 CAGTCCTCAAAGAGCATGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT
1 TAGTCCTCAAAGAGCAGGACG-CTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
*
125810 TAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTC
1 TAGTCCTCAAAGAGCAGGACG-CTTTT-CTTTTC
125844 TCTTTTATCC
Statistics
Matches: 278, Mismatches: 35, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
54 4 0.01
55 43 0.15
56 19 0.07
57 1 0.00
60 6 0.02
61 164 0.59
62 41 0.15
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
TAGTCCTCAAAGAGCAGGACGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:125860 original size:38 final size:39
Alignment explanation
Indices: 125807--125950 Score: 141
Period size: 38 Copynumber: 3.6 Consensus size: 39
125797 TGGTGGCACT
*
125807 TTTTAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTCTC
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTCTC
* * *
125846 TTTTA-TCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTTCC
1 TTTTAGTCCTCAAAGAGCAGG--AC--GTCTTTTCC-T-TTTCT-C
* * *
125891 TTTT-GTCTTTAAAGAGCAGGACGCCTTTTCCTTTTCT-
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTCTC
125928 TTTTAGTCCTCAAAGAGCAGGAC
1 TTTTAGTCCTCAAAGAGCAGGAC
125951 ACACTTCATT
Statistics
Matches: 84, Mismatches: 12, Indels: 19
0.73 0.10 0.17
Matches are distributed among these distances:
37 4 0.05
38 30 0.36
39 9 0.11
40 3 0.04
41 6 0.07
42 7 0.08
43 3 0.04
44 4 0.05
45 18 0.21
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (39 bp):
TTTTAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTCTC
Found at i:125905 original size:45 final size:45
Alignment explanation
Indices: 125839--126068 Score: 218
Period size: 45 Copynumber: 5.4 Consensus size: 45
125829 CGTCTTTTCC
*
125839 TTTTCTCTTTTATCCTCAAAGAGCAGGACACATTTCATTTCCTTCT
1 TTTTC-CTTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCT
* * * *
125885 TTTTCCTTTTGTCTTTAAAGAGCAGGACGC----CTTTTCCTT-T
1 TTTTCCTTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCT
* * * *
125925 TCTT--TTTAGTCCTCAAAGAGCAGGACACACTTCATTCCCTTCT
1 TTTTCCTTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCT
* *
125968 TTTTCCTTTTGTCCTCAAAGAGCAGGACGCATTTTATTTTCC-TC-
1 TTTTCCTTTTGTCCTCAAAGAGCAGGACACATTTCA-TTTCCTTCT
* *
126012 -TTT-CTTTTGTCCTCAAAGAGCAAGACACATTTCGTTTTCC-T-T
1 TTTTCCTTTTGTCCTCAAAGAGCAGGACACATTTC-ATTTCCTTCT
126054 TTTTCC-TTTGTCCTC
1 TTTTCCTTTTGTCCTC
126069 GAAATGTAGG
Statistics
Matches: 150, Mismatches: 22, Indels: 27
0.75 0.11 0.14
Matches are distributed among these distances:
38 20 0.13
40 4 0.03
41 8 0.05
42 40 0.27
43 19 0.13
44 1 0.01
45 49 0.33
46 9 0.06
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.43
Consensus pattern (45 bp):
TTTTCCTTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCT
Found at i:125959 original size:83 final size:83
Alignment explanation
Indices: 125807--126067 Score: 332
Period size: 83 Copynumber: 3.1 Consensus size: 83
125797 TGGTGGCACT
*
125807 TTTTAGTCCTTAAAGAGCAGGACGTCTTTTCCTTTTCTCTTTTA-TCCTCAAAGAGCAGGACACA
1 TTTT-GTCCTTAAAGAGCAGGACGCCTTTTCCTTTTCT-TTTTAGTCCTCAAAGAGCAGGACACA
125871 TTTCATTTCCTTCTTTTTCC
64 TTTCATTTCCTTCTTTTTCC
* *
125891 TTTTGTCTTTAAAGAGCAGGACGCCTTTTCCTTTTCTTTTTAGTCCTCAAAGAGCAGGACACACT
1 TTTTGTCCTTAAAGAGCAGGACGCCTTTTCCTTTTCTTTTTAGTCCTCAAAGAGCAGGACACATT
*
125956 TCATTCCCTTCTTTTTCC
66 TCATTTCCTTCTTTTTCC
* * ** * *
125974 TTTTGTCCTCAAAGAGCAGGACGCATTTTATTTTCCTCTTTCTTTTGTCCTCAAAGAGCAAGACA
1 TTTTGTCCTTAAAGAGCAGGACGCCTTTTCCTTT--TC-TT-TTTAGTCCTCAAAGAGCAGGACA
*
126039 CATTTCGTTTTCC-T-TTTTTCC
62 CATTTC-ATTTCCTTCTTTTTCC
126060 -TTTGTCCT
1 TTTTGTCCT
126068 CGAAATGTAG
Statistics
Matches: 157, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
82 5 0.03
83 98 0.62
84 4 0.03
85 10 0.06
86 9 0.06
87 27 0.17
88 4 0.03
ACGTcount: A:0.19, C:0.25, G:0.13, T:0.43
Consensus pattern (83 bp):
TTTTGTCCTTAAAGAGCAGGACGCCTTTTCCTTTTCTTTTTAGTCCTCAAAGAGCAGGACACATT
TCATTTCCTTCTTTTTCC
Found at i:126129 original size:41 final size:41
Alignment explanation
Indices: 126084--126186 Score: 122
Period size: 41 Copynumber: 2.5 Consensus size: 41
126074 GTAGGACGTA
*
126084 CTCTTTTTCACTTTGTCCTCAAGAAGCAAGA-C-ATGTTCCTT
1 CTCTTTTTC-CTTTGTCCTCAAGAAGCAAGACCTAT-TTCATT
* *
126125 CTCTTTTTTCCTTTGTCCTTAAGGAGCAAGACCTATTTCATT
1 CTC-TTTTTCCTTTGTCCTCAAGAAGCAAGACCTATTTCATT
*
126167 CTC-TTTTCCTTTGTCTTCAA
1 CTCTTTTTCCTTTGTCCTCAA
126187 AAAGTGGGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
40 15 0.28
41 22 0.41
42 15 0.28
43 2 0.04
ACGTcount: A:0.18, C:0.26, G:0.11, T:0.45
Consensus pattern (41 bp):
CTCTTTTTCCTTTGTCCTCAAGAAGCAAGACCTATTTCATT
Found at i:126784 original size:13 final size:13
Alignment explanation
Indices: 126766--126793 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
126756 TTTTCACAAT
126766 TTGTATCGATACA
1 TTGTATCGATACA
126779 TTGTATCGATACA
1 TTGTATCGATACA
126792 TT
1 TT
126794 CTAGGTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:126838 original size:20 final size:20
Alignment explanation
Indices: 126809--126902 Score: 104
Period size: 20 Copynumber: 4.7 Consensus size: 20
126799 TTTACCCAGA
*
126809 TGTATTGATACATTTTGCAT
1 TGTATCGATACATTTTGCAT
*
126829 TGTATCGATACATTTCT-TAT
1 TGTATCGATACATTT-TGCAT
* *
126849 TGTGTTGATACATTTTGCAT
1 TGTATCGATACATTTTGCAT
126869 TGTATCGATACATTGCTTG--T
1 TGTATCGATACATT--TTGCAT
126889 TGTATCGATACATT
1 TGTATCGATACATT
126903 GCTTGTTGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
19 1 0.02
20 58 0.92
21 1 0.02
22 3 0.05
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.48
Consensus pattern (20 bp):
TGTATCGATACATTTTGCAT
Found at i:126860 original size:40 final size:40
Alignment explanation
Indices: 126809--126923 Score: 153
Period size: 40 Copynumber: 2.9 Consensus size: 40
126799 TTTACCCAGA
*
126809 TGTATTGATACATTTTGCATTGTATCGATACATTTCTTAT
1 TGTATTGATACATTTTGCATTGTATCGATACATTGCTTAT
* *
126849 TGTGTTGATACATTTTGCATTGTATCGATACATTGCTTGT
1 TGTATTGATACATTTTGCATTGTATCGATACATTGCTTAT
* *
126889 TGTATCGATACATTGCTTG--TTGTATGGATACATTG
1 TGTATTGATACATT--TTGCATTGTATCGATACATTG
126924 TATCGATACA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
40 64 0.96
42 3 0.04
ACGTcount: A:0.23, C:0.12, G:0.18, T:0.47
Consensus pattern (40 bp):
TGTATTGATACATTTTGCATTGTATCGATACATTGCTTAT
Found at i:126903 original size:20 final size:20
Alignment explanation
Indices: 126828--126923 Score: 115
Period size: 20 Copynumber: 4.8 Consensus size: 20
126818 ACATTTTGCA
* *
126828 TTGTATCGATACATTTCTTA
1 TTGTATCGATACATTGCTTG
* *
126848 TTGTGTTGATACATT--TTG
1 TTGTATCGATACATTGCTTG
126866 CATTGTATCGATACATTGCTTG
1 --TTGTATCGATACATTGCTTG
126888 TTGTATCGATACATTGCTTG
1 TTGTATCGATACATTGCTTG
*
126908 TTGTATGGATACATTG
1 TTGTATCGATACATTG
126924 TATCGATACA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
18 2 0.03
20 61 0.92
22 3 0.05
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (20 bp):
TTGTATCGATACATTGCTTG
Found at i:126925 original size:33 final size:33
Alignment explanation
Indices: 126888--126968 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
126878 ACATTGCTTG
** * *
126888 TTGTATCGATACATTGCTTGTTGTATGGATACA
1 TTGTATCGATACATTGCTCATTGTATCGAAACA
126921 TTGTATCGATACATTGCTCATTGTATCGAAACA
1 TTGTATCGATACATTGCTCATTGTATCGAAACA
126954 TTGTATCGATACATT
1 TTGTATCGATACATT
126969 CTAGATTCAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (33 bp):
TTGTATCGATACATTGCTCATTGTATCGAAACA
Found at i:126926 original size:13 final size:13
Alignment explanation
Indices: 126908--126968 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
126898 ACATTGCTTG
*
126908 TTGTATGGATACA
1 TTGTATCGATACA
126921 TTGTATCGATACA
1 TTGTATCGATACA
126934 TTG---C--T-CA
1 TTGTATCGATACA
*
126941 TTGTATCGAAACA
1 TTGTATCGATACA
126954 TTGTATCGATACA
1 TTGTATCGATACA
126967 TT
1 TT
126969 CTAGATTCAC
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
7 5 0.13
8 1 0.03
10 2 0.05
13 31 0.79
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:126942 original size:20 final size:20
Alignment explanation
Indices: 126826--126956 Score: 98
Period size: 20 Copynumber: 6.9 Consensus size: 20
126816 ATACATTTTG
*
126826 CATTGTATCGATACATTTCT
1 CATTGTATCGATACATTGCT
* * * *
126846 TATTGTGTTGATACATT-TT
1 CATTGTATCGATACATTGCT
126865 GCATTGTATCGATACATTGCT
1 -CATTGTATCGATACATTGCT
**
126886 TGTTGTATCGATACATTGCT
1 CATTGTATCGATACATTGCT
** *
126906 TGTTGTATGGAT--A-----
1 CATTGTATCGATACATTGCT
126919 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATTGCT
*
126939 CATTGTATCGAAACATTG
1 CATTGTATCGATACATTG
126957 TATCGATACA
Statistics
Matches: 87, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
13 9 0.10
15 1 0.01
18 1 0.01
19 1 0.01
20 74 0.85
21 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (20 bp):
CATTGTATCGATACATTGCT
Found at i:129403 original size:51 final size:51
Alignment explanation
Indices: 129323--129491 Score: 171
Period size: 51 Copynumber: 3.3 Consensus size: 51
129313 ATTTTTCATC
* **
129323 TCGGGGATACTCCAA-TCCCGGTTCCATTTCCAAAACATCAATTTTTCTTAA
1 TCGGGGATACTCCAACT-CCGATTTTATTTCCAAAACATCAATTTTTCTTAA
* * ** * *
129374 TCGGGGATACTCCAACTCCGATTTTATTTCTAAAGCATTGA-TTTACTGCAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCT-TAA
* * *
129425 TCGGGGATACTTCAACTTCGATTTTATTTCCAAAATATCAATTTTTCTTAA
1 TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCTTAA
* **
129476 TTGAAGATACTCCAAC
1 TCGGGGATACTCCAAC
129492 CTCGTTACGT
Statistics
Matches: 93, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
50 5 0.05
51 82 0.88
52 6 0.06
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (51 bp):
TCGGGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCTTAA
Found at i:129685 original size:109 final size:107
Alignment explanation
Indices: 129427--129693 Score: 273
Period size: 109 Copynumber: 2.5 Consensus size: 107
129417 TACTGCAATC
* ** * * * * * * ** *
129427 GGGGATACTTCAACTTCGATTTTATTTCCAAAATATCAATTTTTCTTAATTGAAGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATGTCTAAAATACCAATTTTTCATAATCGTGGGTACTCCAAC
* * **
129492 CTCGTTACGTCATCGGGGATACTCCAATCACGTTATTTCTGA
66 CCCGTTACGTCATCAGGGATACTCCAATCACGTTATTTCCAA
* ** * *
129534 GGGGATACTCCAACCCCGGCTTTATGTCTAAAATATTGATTTTTTTCATAATCGTGGGTACTCCG
1 GGGGATACTCCAACCCCGACTTTATGTCTAAAATA-CCA-ATTTTTCATAATCGTGGGTACTCCA
* * *
129599 ACCCCGTTATGTCATCAGGGATAGTCCAATCCCGTTATTTCCAA
64 ACCCCGTTACGTCATCAGGGATACTCCAATCACGTTATTTCCAA
* * *
129643 GGGGATACTCCAACCCCGATTTTATTTTTAAAATACCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGACTTTATGTCTAAAATACCAATTTTTCATAATC
129694 TCTCCAACTC
Statistics
Matches: 129, Mismatches: 29, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
107 40 0.31
108 3 0.02
109 86 0.67
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATGTCTAAAATACCAATTTTTCATAATCGTGGGTACTCCAAC
CCCGTTACGTCATCAGGGATACTCCAATCACGTTATTTCCAA
Found at i:129714 original size:45 final size:45
Alignment explanation
Indices: 129650--129738 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
129640 CAAGGGGATA
** * * *
129650 CTCCAACCCCGATTTTATTTTTAAAATACCAATTTTTCATAATCT
1 CTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCT
*
129695 CTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
1 CTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
129739 GGGGATACTC
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:0.31, C:0.29, G:0.02, T:0.37
Consensus pattern (45 bp):
CTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATCT
Found at i:129967 original size:79 final size:79
Alignment explanation
Indices: 129820--129985 Score: 226
Period size: 79 Copynumber: 2.1 Consensus size: 79
129810 TCACAATCGG
* * * *
129820 GGATACTCCAACCTTGCTATTTTTGAGGGGATATTCCAACCCTGATTTTATTTTCAAAACACCAA
1 GGATACTCAAACCCTGCTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAA
*
129885 TTTTCTATAATCA-
66 TTTTCCATAATCAT
* * ** *
129898 GAGATACTCAAACCCTGTTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTTCAGAGTACCG
1 G-GATACTCAAACCCTGCTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCA
129963 ATTTTCCATAATCAT
65 ATTTTCCATAATCAT
129978 GGATACTC
1 GGATACTC
129986 CACCCCCGTT
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
78 1 0.01
79 74 0.97
80 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (79 bp):
GGATACTCAAACCCTGCTATTTTCGAGGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAA
TTTTCCATAATCAT
Found at i:139970 original size:13 final size:13
Alignment explanation
Indices: 139952--139977 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139942 CTATTTATGA
139952 TGTATCGATACAC
1 TGTATCGATACAC
139965 TGTATCGATACAC
1 TGTATCGATACAC
139978 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:140122 original size:22 final size:22
Alignment explanation
Indices: 140067--140122 Score: 105
Period size: 21 Copynumber: 2.6 Consensus size: 22
140057 ACAGTAACCT
140067 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
140089 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
140110 ATGAACAGTGATG
1 ATGAACAGTGATG
140123 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.64
22 12 0.36
ACGTcount: A:0.38, C:0.11, G:0.25, T:0.27
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:140129 original size:10 final size:10
Alignment explanation
Indices: 140110--140140 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
140100 GTATCGATAC
140110 ATGAACAGTG
1 ATGAACAGTG
*
140120 ATGAATAGTG
1 ATGAACAGTG
140130 ATGAACAGTG
1 ATGAACAGTG
140140 A
1 A
140141 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:140228 original size:53 final size:53
Alignment explanation
Indices: 140164--140300 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
140154 CTACTTCCAA
140164 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
140217 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
140270 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
140301 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:140406 original size:21 final size:21
Alignment explanation
Indices: 140380--140420 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
140370 GTCAACCTTG
140380 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
140401 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
140421 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:144568 original size:13 final size:13
Alignment explanation
Indices: 144550--144580 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
144540 ACATTTCTTC
144550 ATGTATCGATACA
1 ATGTATCGATACA
144563 ATGTATCGATACA
1 ATGTATCGATACA
*
144576 TTGTA
1 ATGTA
144581 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:144568 original size:33 final size:33
Alignment explanation
Indices: 144530--144596 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
144520 GTTACAAGCT
144530 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
144563 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
144596 A
1 A
144597 GTAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:144652 original size:21 final size:21
Alignment explanation
Indices: 144626--144680 Score: 78
Period size: 19 Copynumber: 2.7 Consensus size: 21
144616 TGCCAGTTTT
**
144626 ATGTATCGATACAATTTGTCC
1 ATGTATCGATACAATTTGAAC
144647 ATGTATCGATAC-A-TTGAAC
1 ATGTATCGATACAATTTGAAC
144666 ATGTATCGATACAAT
1 ATGTATCGATACAAT
144681 GTATCGATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 16 0.53
20 2 0.07
21 12 0.40
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACAATTTGAAC
Found at i:144684 original size:13 final size:13
Alignment explanation
Indices: 144666--144692 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
144656 TACATTGAAC
144666 ATGTATCGATACA
1 ATGTATCGATACA
144679 ATGTATCGATACA
1 ATGTATCGATACA
144692 A
1 A
144693 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:153323 original size:13 final size:13
Alignment explanation
Indices: 153305--153335 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
153295 ACATTTCTTC
153305 ATGTATCGATACA
1 ATGTATCGATACA
153318 ATGTATCGATACA
1 ATGTATCGATACA
*
153331 TTGTA
1 ATGTA
153336 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:153323 original size:33 final size:33
Alignment explanation
Indices: 153285--153351 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
153275 GTTACAAGCT
153285 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
153318 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
153351 A
1 A
153352 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:153426 original size:19 final size:18
Alignment explanation
Indices: 153380--153434 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 18
153370 CTGCCAGTTT
*
153380 CATGTATCGATACAATTTGT
1 CATGTATCGATAC-A-TTGA
153400 CTATGTATCGATACATTGAA
1 C-ATGTATCGATACATTG-A
153420 CATGTATCGATACAT
1 CATGTATCGATACAT
153435 CTGGGTGTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
19 17 0.53
20 3 0.09
21 12 0.38
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (18 bp):
CATGTATCGATACATTGA
Found at i:153455 original size:39 final size:40
Alignment explanation
Indices: 153380--153455 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 40
153370 CTGCCAGTTT
* *
153380 CATGTATCGATACAATTTGTCTATGTATCGATACATTGAA
1 CATGTATCGATACAATCTGGCTATGTATCGATACATTGAA
* *
153420 CATGTATCGATAC-ATCTGGGTGTGTATCGATACATT
1 CATGTATCGATACAATCTGGCTATGTATCGATACATT
153456 CAAGGGTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 19 0.59
40 13 0.41
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (40 bp):
CATGTATCGATACAATCTGGCTATGTATCGATACATTGAA
Found at i:153516 original size:20 final size:20
Alignment explanation
Indices: 153491--153543 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
153481 AGTCAACCAT
153491 AATGTATCGATACAATTACC
1 AATGTATCGATACAATTACC
153511 AATGTATCGATACAATTACC
1 AATGTATCGATACAATTACC
*
153531 TATGTATCGATAC
1 AATGTATCGATAC
153544 TTTGAGTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACAATTACC
Found at i:160102 original size:3 final size:3
Alignment explanation
Indices: 160096--160141 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
160086 GTCAACTTCT
*
160096 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
160142 TGATGGTCGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:161870 original size:32 final size:33
Alignment explanation
Indices: 161834--161896 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
161824 TAACTAAATA
161834 TGTATCGATACCAAG-AACATGTATCAATACAT
1 TGTATCGATACCAAGCAACATGTATCAATACAT
* * *
161866 TGTATCGATGCTAAGCAATATGTATCAATAC
1 TGTATCGATACCAAGCAACATGTATCAATAC
161897 TAGGCAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.48
33 14 0.52
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (33 bp):
TGTATCGATACCAAGCAACATGTATCAATACAT
Found at i:161916 original size:20 final size:20
Alignment explanation
Indices: 161866--161916 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
161856 ATCAATACAT
*
161866 TGTATCGATGCTAAGCAATA
1 TGTATCGATACTAAGCAATA
* *
161886 TGTATCAATACTAGGCAATA
1 TGTATCGATACTAAGCAATA
*
161906 TGTATTGATAC
1 TGTATCGATAC
161917 ATCTGGGTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
TGTATCGATACTAAGCAATA
Found at i:163266 original size:97 final size:98
Alignment explanation
Indices: 163060--163247 Score: 297
Period size: 97 Copynumber: 1.9 Consensus size: 98
163050 AGGAATGAGA
* * * * *
163060 TTAGAGTATCCCCAAGGATGATAATTTGAGCCAAAAATAAGATTTAAATCTTGAGAAGTTTAAAA
1 TTAGAGTATCCTCGATGATGATAATTTAAGCCAAAAATAAGATTTAAATCTTGACAAGTTTAAAA
* *
163125 GCGGGGTTGGAGTATCCCCTCAAAAGAATAGGG
66 ACAGGGTTGGAGTATCCCCTCAAAAGAATAGGG
*
163158 TTAGAGTATCCTCGATGATGATAATTTAAG-CAAAAATAAGATTTAGATCTTGACAAGTTTAAAA
1 TTAGAGTATCCTCGATGATGATAATTTAAGCCAAAAATAAGATTTAAATCTTGACAAGTTTAAAA
163222 ACAGGGTTGGAGTATCCCCTCAAAAG
66 ACAGGGTTGGAGTATCCCCTCAAAAG
163248 GTCGGGGTTG
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
97 56 0.68
98 26 0.32
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (98 bp):
TTAGAGTATCCTCGATGATGATAATTTAAGCCAAAAATAAGATTTAAATCTTGACAAGTTTAAAA
ACAGGGTTGGAGTATCCCCTCAAAAGAATAGGG
Found at i:165689 original size:20 final size:20
Alignment explanation
Indices: 165664--165719 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
165654 TCAAAAACCC
*
165664 ATAATGTATCGATATAATGA
1 ATAATGTATCGATACAATGA
165684 ATAATGTATCGATACAATGA
1 ATAATGTATCGATACAATGA
165704 ATAATGTATCGATACA
1 ATAATGTATCGATACA
165720 TTTGGATCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (20 bp):
ATAATGTATCGATACAATGA
Found at i:165834 original size:20 final size:21
Alignment explanation
Indices: 165809--165860 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
165799 ACAAGGTCCA
165809 GTATCGATACATTCACTT-AT
1 GTATCGATACATTCACTTGAT
* * *
165829 GTATCGATACATTGAGTTGTT
1 GTATCGATACATTCACTTGAT
165850 GTATCGATACA
1 GTATCGATACA
165861 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
GTATCGATACATTCACTTGAT
Found at i:167593 original size:1 final size:1
Alignment explanation
Indices: 167587--167615 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
167577 GCGGTGCATC
167587 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGG
167616 AGTACTCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:168139 original size:95 final size:96
Alignment explanation
Indices: 168012--168191 Score: 283
Period size: 95 Copynumber: 1.9 Consensus size: 96
168002 CAAAAAAAAA
* *
168012 AAAAAAATCTCAATCCCCTTCTCTACGGCCTTAATAATATAAAAGAAAACTACTA-AAAAAAATA
1 AAAAAAATCTCAATCCCCTTCTCTACGACCTTAATAATATAAAAGAAAACAACTACAAAAAAATA
168076 TTCAGTC-AGTCAAGGTCAAATTATCATCACT
66 TTCAGTCAAG-CAAGGTCAAATTATCATCACT
* * *
168107 AAAAAAATCTCAATCCCCTTCTCTATGACCTTAATAATTTAAAAGAAAACAACTACTAAATAAAT
1 AAAAAAATCTCAATCCCCTTCTCTACGACCTTAATAATATAAAAGAAAACAACTAC-AAAAAAAT
168172 ATTCAGTCAAGCAAGGTCAA
65 ATTCAGTCAAGCAAGGTCAA
168192 TCAAACCCAA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
95 51 0.66
97 24 0.31
98 2 0.03
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.26
Consensus pattern (96 bp):
AAAAAAATCTCAATCCCCTTCTCTACGACCTTAATAATATAAAAGAAAACAACTACAAAAAAATA
TTCAGTCAAGCAAGGTCAAATTATCATCACT
Found at i:178008 original size:19 final size:18
Alignment explanation
Indices: 177973--178011 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
177963 TGTTTGCTGG
*
177973 TTTTTCTTTTTCTTTTCT
1 TTTTTCTTTTTCCTTTCT
*
177991 TTTTTTTTTTTCACTTTCT
1 TTTTTCTTTTTC-CTTTCT
178010 TT
1 TT
178012 CTATGTACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTTCCTTTCT
Found at i:182251 original size:34 final size:35
Alignment explanation
Indices: 182145--182252 Score: 121
Period size: 34 Copynumber: 3.0 Consensus size: 35
182135 TTTACTTAAA
* *
182145 AAATATTATTTTAATAATTTTTAATTATTATTTAATGT
1 AAATATAATTTTAATAA-TTTTAATTATTA--TAATAT
* *
182183 AAACATAATTTT-ATATATTTTTATTATT-TAATAT
1 AAATATAATTTTAATA-ATTTTAATTATTATAATAT
182217 AAATATAATTTTAATAATTTTAATTATTATATATAT
1 AAATATAATTTTAATAATTTTAATTATTATA-ATAT
182253 TTTTTAATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
34 27 0.45
35 5 0.08
36 4 0.07
37 13 0.22
38 11 0.18
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.56
Consensus pattern (35 bp):
AAATATAATTTTAATAATTTTAATTATTATAATAT
Found at i:182280 original size:15 final size:15
Alignment explanation
Indices: 182230--182280 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
182220 TATAATTTTA
182230 ATAAT-TTTAATTATT
1 ATAATATTT-ATTATT
*
182245 ATATATATTTTTTAATT
1 ATA-ATATTTATT-ATT
182262 -TAATATTTATTATT
1 ATAATATTTATTATT
182276 ATAAT
1 ATAAT
182281 TTATTTTACA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 3 0.10
15 15 0.50
16 6 0.20
17 6 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATAATATTTATTATT
Found at i:182509 original size:34 final size:32
Alignment explanation
Indices: 182462--182563 Score: 115
Period size: 34 Copynumber: 3.3 Consensus size: 32
182452 AATTCTTTTT
*
182462 ATTTTAATA-ATTTATTTTTAAAATAAACATA
1 ATTTTAATATATTTATTTTTAATATAAACATA
* *
182493 ATTTTAATA-A-TTA--TTTAATATAGATATA
1 ATTTTAATATATTTATTTTTAATATAAACATA
*
182521 ATTTTAATATTTTTTATTATTTAATATAAACATA
1 ATTTTAATA-TATTTATT-TTTAATATAAACATA
182555 ATTTTAATA
1 ATTTTAATA
182564 AATGTAATTA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
28 21 0.36
30 3 0.05
31 13 0.22
34 22 0.37
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (32 bp):
ATTTTAATATATTTATTTTTAATATAAACATA
Found at i:182800 original size:16 final size:16
Alignment explanation
Indices: 182779--182809 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
182769 GATTTTATTA
*
182779 CTTTTTTAATTGAATG
1 CTTTTTCAATTGAATG
182795 CTTTTTCAATTGAAT
1 CTTTTTCAATTGAAT
182810 TTATAAGTTT
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:0.26, C:0.10, G:0.10, T:0.55
Consensus pattern (16 bp):
CTTTTTCAATTGAATG
Found at i:183269 original size:17 final size:18
Alignment explanation
Indices: 183237--183270 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
183227 CTTTGTTAAA
*
183237 ATTTTTGTGTACATAATT
1 ATTTTTGTATACATAATT
183255 ATTTTTGTATA-ATAAT
1 ATTTTTGTATACATAAT
183271 CTCTAACATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (18 bp):
ATTTTTGTATACATAATT
Found at i:184005 original size:39 final size:41
Alignment explanation
Indices: 183957--184078 Score: 121
Period size: 41 Copynumber: 3.0 Consensus size: 41
183947 ATATGATATT
*
183957 AAAAGTTAATTAATAAATAATATAAA-ATA-AAATATAATA
1 AAAATTTAATTAATAAATAATATAAATATATAAATATAATA
* * *
183996 AAAATTTAA-T-ATATATGATATAAATATATAAATAT-ATC
1 AAAATTTAATTAATAAATAATATAAATATATAAATATAATA
* *
184034 AAAATTTATATTATTATAATAAT-TAAATATATATATATATATA
1 AAAATTTA-ATTAATA-AATAATATAAATATATAAATATA-ATA
184077 AA
1 AA
184079 TACAGTAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
37 12 0.18
38 14 0.21
39 15 0.23
40 1 0.02
41 16 0.24
42 4 0.06
43 4 0.06
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.39
Consensus pattern (41 bp):
AAAATTTAATTAATAAATAATATAAATATATAAATATAATA
Found at i:184018 original size:37 final size:34
Alignment explanation
Indices: 183976--184064 Score: 92
Period size: 38 Copynumber: 2.5 Consensus size: 34
183966 TTAATAAATA
183976 ATATAAAATAAAATATAATAAAAATTTAATATATAT
1 ATATAAAATAAAATATAATAAAAATTT-ATAT-TAT
*
184012 GATATAAATATATAAATAT-ATCAAAATTTATATTAT
1 -ATATAAA-ATA-AAATATAATAAAAATTTATATTAT
*
184048 -TATAATAATTAAATATA
1 ATATAA-AATAAAATATA
184065 TATATATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
33 6 0.13
34 7 0.15
35 1 0.02
36 3 0.07
37 11 0.24
38 12 0.26
39 6 0.13
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (34 bp):
ATATAAAATAAAATATAATAAAAATTTATATTAT
Found at i:184038 original size:10 final size:8
Alignment explanation
Indices: 183969--184080 Score: 51
Period size: 8 Copynumber: 13.9 Consensus size: 8
183959 AAGTTAATTA
183969 ATAAATAAT
1 ATAAAT-AT
183978 ATAAA-AT
1 ATAAATAT
183985 A-AAATAT
1 ATAAATAT
*
183992 AATAAAAAT
1 -ATAAATAT
*
184001 -TTAATAT
1 ATAAATAT
184008 AT--ATGAT
1 ATAAAT-AT
184015 ATAAATAT
1 ATAAATAT
184023 ATAAATAT
1 ATAAATAT
184031 ATCAAA-AT
1 AT-AAATAT
* *
184039 TTATAT-T
1 ATAAATAT
184046 ATTATAATA-
1 A-TA-AATAT
184055 ATTAAATAT
1 A-TAAATAT
184064 ATATATATAT
1 ATA-A-ATAT
184074 ATAAATA
1 ATAAATA
184081 CAGTAAAACT
Statistics
Matches: 81, Mismatches: 7, Indels: 31
0.68 0.06 0.26
Matches are distributed among these distances:
6 5 0.06
7 17 0.21
8 28 0.35
9 24 0.30
10 7 0.09
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (8 bp):
ATAAATAT
Found at i:186158 original size:3 final size:3
Alignment explanation
Indices: 186150--186184 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
186140 CTTCATCCCT
186150 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GC
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GC
186185 GCCTCCCTCT
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:0.31, C:0.34, G:0.34, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:188706 original size:2 final size:2
Alignment explanation
Indices: 188699--188743 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
188689 CAATGCTCCA
*
188699 AT AT AT AT 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
188741 AT A
1 AT A
188744 ATAATCTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:191514 original size:3 final size:3
Alignment explanation
Indices: 191508--191539 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
191498 TATTATTATT
*
191508 GTC GTC GTC GTC GTC GTC GTC ATC GTC GTC GT
1 GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GT
191540 GGTAGAAAGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.03, C:0.31, G:0.31, T:0.34
Consensus pattern (3 bp):
GTC
Found at i:191680 original size:5 final size:5
Alignment explanation
Indices: 191665--191709 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
191655 ATAATACTAT
191665 TAAAA -AAAA TAAAA TAAAA TTAAAA T--AA TAAAA TAAAA TAAAA TA
1 TAAAA TAAAA TAAAA TAAAA -TAAAA TAAAA TAAAA TAAAA TAAAA TA
191710 TATTTTAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 3 0.08
4 4 0.11
5 24 0.67
6 5 0.14
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAA
Found at i:191694 original size:19 final size:18
Alignment explanation
Indices: 191667--191709 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 18
191657 AATACTATTA
*
191667 AAAAAAATAAAATAAAATT
1 AAAATAATAAAATAAAA-T
191686 AAAATAATAAAATAAAAT
1 AAAATAATAAAATAAAAT
191704 AAAATA
1 AAAATA
191710 TATTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAATAATAAAATAAAAT
Found at i:191726 original size:20 final size:20
Alignment explanation
Indices: 191703--191740 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
191693 TAAAATAAAA
191703 TAAAATATATTTTA-ATATTT
1 TAAAATAT-TTTTATATATTT
*
191723 TAAATTATTTTTATATAT
1 TAAAATATTTTTATATAT
191741 ATAAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAAATATTTTTATATATTT
Found at i:191733 original size:18 final size:19
Alignment explanation
Indices: 191705--191754 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
191695 AAATAAAATA
*
191705 AAATATATTTTAATAT-TTT
1 AAAT-TATTTTAATATATAT
*
191724 AAATTATTTTTATATATAT
1 AAATTATTTTAATATATAT
*
191743 AAATTTTTTTAA
1 AAATTATTTTAA
191755 AAAATTATCT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
AAATTATTTTAATATATAT
Found at i:192100 original size:1 final size:1
Alignment explanation
Indices: 192094--192118 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
192084 AACCCCTATT
192094 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
192119 TTTGTTTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:192978 original size:8 final size:8
Alignment explanation
Indices: 192965--192992 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
192955 TATAATATTA
192965 ATATAAAT
1 ATATAAAT
192973 ATATAAAT
1 ATATAAAT
192981 ATATAAAT
1 ATATAAAT
192989 ATAT
1 ATAT
192993 TAAAATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAAAT
Found at i:195702 original size:2 final size:2
Alignment explanation
Indices: 195695--195719 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
195685 TGATTCACGC
195695 GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT G
195720 AGAGAGAGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:195724 original size:2 final size:2
Alignment explanation
Indices: 195719--195749 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
195709 GTGTGTGTGT
195719 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
195750 TATAAGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:196929 original size:6 final size:6
Alignment explanation
Indices: 196918--196949 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
196908 TAATACATAA
*
196918 ATAAAT ATAAAT ATAACT ATAAAT ATAAAT AT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT AT
196950 TTAGGGGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (6 bp):
ATAAAT
Found at i:199792 original size:79 final size:78
Alignment explanation
Indices: 199590--199814 Score: 263
Period size: 78 Copynumber: 2.9 Consensus size: 78
199580 AGATGACCAA
* * * * *
199590 GGGGCTGGAGTATCCCCGATTATAGAAAATCGGTGTTTTGGAAATAAAATCGGGGTTAGTGTATC
1 GGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGTATC
*
199655 CCCTCGGAAAAAC
66 CCCTCGAAAAAAC
* * * * *
199668 AGGGTTGGAGTATCCCTGATTATAGAAAATCGATATTTTAAAAATAAAATCGAGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGTATC
*
199733 CCTTCGAAAATAAC
66 CCCTCGAAAA-AAC
* * * ***
199747 GGGGTTGGAGTATCCCCGATT-TTGAAAAATTGATGCTTTAGAAATAAGGCCGGGGTTGGAGTAT
1 GGGGTTGGAGTATCCCCGATTATAG-AAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGTAT
199811 CCCC
65 CCCC
199815 GATTGTGAGA
Statistics
Matches: 121, Mismatches: 24, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
78 65 0.54
79 56 0.46
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCCGATTATAGAAAATCGATGTTTTAGAAATAAAATCGGGGTTGGAGTATC
CCCTCGAAAAAAC
Found at i:199843 original size:51 final size:50
Alignment explanation
Indices: 199746--199898 Score: 166
Period size: 51 Copynumber: 3.0 Consensus size: 50
199736 TCGAAAATAA
* **
199746 CGGGGTTGGAGTATCCCCGATTTTGAAAAATTG-ATGCTTTAGAAATAAGGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGTAT--TTTAGAAATAAAAC
* * *
199797 CGGGGTTGGAGTATCCCCGATTGTGAGAAATTAGTATTTTAAAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATT-GTATTTTAGAAATAAAAC
* * *
199848 CGGAGTTGGAGTA-CTCTCGATTGTGAAAAATTGGTATTTTAGAAATGAAAC
1 CGGGGTTGGAGTATC-CCCGATTGTGAAAAATT-GTATTTTAGAAATAAAAC
199899 AAAACTACTT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
50 1 0.01
51 82 0.95
52 1 0.01
53 2 0.02
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (50 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGTATTTTAGAAATAAAAC
Found at i:202192 original size:20 final size:19
Alignment explanation
Indices: 202167--202280 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 19
202157 AAAATGCCTG
*
202167 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
** * *
202187 AATGTATTAATATAATGAGC
1 AATGTATCGATACAATGA-A
* *
202207 AATGTATCAATACAATGAGT
1 AATGTATCGATACAATGA-A
*
202227 AATGTATCGATACAA-CAA
1 AATGTATCGATACAATGAA
202245 GCAATGTATCGATACAATGCAA
1 --AATGTATCGATACAATG-AA
202267 AATGTATCGATACA
1 AATGTATCGATACA
202281 TCTGGGTAAA
Statistics
Matches: 77, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
19 2 0.03
20 73 0.95
22 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:202343 original size:13 final size:13
Alignment explanation
Indices: 202296--202325 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
202286 GTAAACCCAG
202296 AATGTATCGATAC
1 AATGTATCGATAC
202309 AATGTATCGATAC
1 AATGTATCGATAC
202322 AATG
1 AATG
202326 AACAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:202904 original size:40 final size:40
Alignment explanation
Indices: 202860--202958 Score: 110
Period size: 41 Copynumber: 2.5 Consensus size: 40
202850 ATCCCACTTT
* * *
202860 TTGAGGACAAAG-GAAAAGAGAATGAAATAGGTCTTGCTCC
1 TTGAGGACAAAGAGAAAAGAAAAGGAAAT-GGTCATGCTCC
* * *
202900 TTGAGGACAAAAGAAAAAAGAAAAGGAAATTGTCATGCTTC
1 TTGAGGAC-AAAGAGAAAAGAAAAGGAAATGGTCATGCTCC
*
202941 TTGAGGACAAAGTGAAAA
1 TTGAGGACAAAGAGAAAA
202959 AGAGTAAGTC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
40 16 0.33
41 20 0.41
42 13 0.27
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.19
Consensus pattern (40 bp):
TTGAGGACAAAGAGAAAAGAAAAGGAAATGGTCATGCTCC
Found at i:203104 original size:45 final size:39
Alignment explanation
Indices: 203044--203151 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 39
203034 AGAGGAAAAT
*
203044 AAAGTGCGTCATGCTCTTTGAGGACAAATGGGAAAAGAAGGGA
1 AAAGTGTGTCATGCTCTTTGAGGACAAA---GAAAA-AAGGGA
* *
203087 ATGAAGTGTGTCCTGCTCTTTGAGGACAAAGAAGAAAGGGA
1 A--AAGTGTGTCATGCTCTTTGAGGACAAAGAAAAAAGGGA
*
203128 AAA-TGTGTCTTGCTCTTTGAGGAC
1 AAAGTGTGTCATGCTCTTTGAGGAC
203152 TAAAAAGTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
38 20 0.34
39 2 0.03
41 7 0.12
42 4 0.07
43 1 0.02
45 25 0.42
ACGTcount: A:0.32, C:0.13, G:0.31, T:0.24
Consensus pattern (39 bp):
AAAGTGTGTCATGCTCTTTGAGGACAAAGAAAAAAGGGA
Found at i:203142 original size:38 final size:42
Alignment explanation
Indices: 202966--203151 Score: 136
Period size: 41 Copynumber: 4.4 Consensus size: 42
202956 AAAAGAGTAA
* * * * *
202966 GTCCTGCT-TTTCAAGGACAAAGGAAAAAAAGGAAAACGAATTGC
1 GTCCTGCTCTTT-GAGGACAAAGGAAAAGAAGG-GAA-GAAGTGT
* * * *
203010 GTCCTGCTCTTTGAGGATAAA--AAAAG-AGGAAAATAAAGTGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAGAAGG-GAA-GAAGTGT
*
203051 GTCATGCTCTTTGAGGACAAATGGGAAAAGAAGGGAATGAAGTGT
1 GTCCTGCTCTTTGAGGACAAA--GGAAAAGAAGGGAA-GAAGTGT
*
203096 GTCCTGCTCTTTGAGGACAAA-GAAGA-AAGGGAA-AA-TGT
1 GTCCTGCTCTTTGAGGACAAAGGAAAAGAAGGGAAGAAGTGT
*
203134 GTCTTGCTCTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
203152 TAAAAAGTGC
Statistics
Matches: 122, Mismatches: 14, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
38 20 0.16
39 2 0.02
41 38 0.31
42 8 0.07
44 15 0.12
45 36 0.30
46 3 0.02
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (42 bp):
GTCCTGCTCTTTGAGGACAAAGGAAAAGAAGGGAAGAAGTGT
Found at i:203208 original size:61 final size:59
Alignment explanation
Indices: 203138--203449 Score: 383
Period size: 61 Copynumber: 5.3 Consensus size: 59
203128 AAATGTGTCT
* *
203138 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGAGCTTTGAAAAGAAAAGACGTCC
1 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG-CGTCC
*
203199 TGCTCTTTGAGGATTGAAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGACGTCC
1 TGCTCTTTGAGGACT-AAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAG-CGTCC
*
203260 TGCTCTTTGAGGACTAGAAAA-TACCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCGTCC
1 TGCTCTTTGAGGACTA-AAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAA-GCGTCC
* * * *
203321 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTTTGTGGGCTTTAAAAG----GCATCC
1 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGCGTCC
* *
203376 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAG----GCGTCC
1 TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGCGTCC
*
203431 TGCTCCTTGAGGACTAAAA
1 TGCTCTTTGAGGACTAAAA
203450 GGCCTGCTCT
Statistics
Matches: 230, Mismatches: 16, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
55 74 0.32
60 8 0.03
61 142 0.62
62 6 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (59 bp):
TGCTCTTTGAGGACTAAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGCGTCC
Found at i:203370 original size:29 final size:29
Alignment explanation
Indices: 203338--203425 Score: 69
Period size: 28 Copynumber: 3.1 Consensus size: 29
203328 TGAGGACTAG
203338 AAGGTGCCACCAACTTTTGTGGGCTTTAA
1 AAGGTGCCACCAACTTTTGTGGGCTTTAA
** * *
203367 AA-G-G-CATCCTGCTCTTTGAGGAC--TAA
1 AAGGTGCCA-CCAACT-TTTGTGGGCTTTAA
**
203393 AAGGTGCCACCAACTCGTGTGGGCTTTAA
1 AAGGTGCCACCAACTTTTGTGGGCTTTAA
203422 AAGG
1 AAGG
203426 CGTCCTGCTC
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
26 7 0.17
27 11 0.26
28 13 0.31
29 11 0.26
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (29 bp):
AAGGTGCCACCAACTTTTGTGGGCTTTAA
Found at i:203451 original size:26 final size:24
Alignment explanation
Indices: 203419--203474 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
203409 GTGTGGGCTT
203419 TAAAAGGCGTCCTGCTCCTTGAGGAC
1 TAAAAGG-G-CCTGCTCCTTGAGGAC
*
203445 TAAAA-GGCCTGCTCTTTGAGGAC
1 TAAAAGGGCCTGCTCCTTGAGGAC
203468 TAAAAGG
1 TAAAAGG
203475 TGCCACCAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 20 0.71
24 2 0.07
25 1 0.04
26 5 0.18
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (24 bp):
TAAAAGGGCCTGCTCCTTGAGGAC
Found at i:203463 original size:23 final size:23
Alignment explanation
Indices: 203429--203474 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
203419 TAAAAGGCGT
203429 CCTGCTCCTTGAGGACTAAAAGG
1 CCTGCTCCTTGAGGACTAAAAGG
*
203452 CCTGCTCTTTGAGGACTAAAAGG
1 CCTGCTCCTTGAGGACTAAAAGG
203475 TGCCACCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (23 bp):
CCTGCTCCTTGAGGACTAAAAGG
Found at i:203728 original size:121 final size:122
Alignment explanation
Indices: 203452--203810 Score: 587
Period size: 121 Copynumber: 2.9 Consensus size: 122
203442 GACTAAAAGG
* * *
203452 CCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGTGTCC
1 CCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCC
* * *
203516 TACTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGTGT
64 TGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGT
*
203576 CCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
1 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
*
203641 CTC-TTGAGGACTAGAAAATGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGT
66 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
203697 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
1 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
*
203762 CTCTTTGAGGACTAGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGG
66 CTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGG
203811 CGTCCTACTC
Statistics
Matches: 221, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
121 81 0.37
122 51 0.23
123 46 0.21
124 41 0.19
125 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (122 bp):
CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
Found at i:203734 original size:61 final size:61
Alignment explanation
Indices: 203452--203810 Score: 578
Period size: 62 Copynumber: 5.9 Consensus size: 61
203442 GACTAAAAGG
* *
203452 CCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGTGT
1 CCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGT
* * *
203514 CCTACTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAGGTGT
1 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGT
* *
203576 CCTGCTCTTTGAGGACTAGGAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
*
203637 CCTGCTC-TTGAGGACTAGAAAATGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGT
1 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
*
203697 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
*
203758 CCTGCTCTTTGAGGACTAGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGG
1 CCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGG
203811 CGTCCTACTC
Statistics
Matches: 282, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
60 57 0.20
61 94 0.33
62 129 0.46
63 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (61 bp):
CCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
Found at i:204040 original size:211 final size:208
Alignment explanation
Indices: 203633--204014 Score: 499
Period size: 211 Copynumber: 1.8 Consensus size: 208
203623 AAAGGAAAAG
*
203633 GCGTCCTGCTCTTGAGGACTAGAAAATGCCACCAACTTGTGTAGGCTTTAAAAGGAAAAGGTGTC
1 GCGTCCTGCTCTTGAGGACTAGAAAATGCCACCAACTTGTGTAGGCTTT---A--AAAAGGCGTC
* *
203698 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGC
61 CTGCTCTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTT--AAGG-AAAGGCGTCCTAC
* * * *
203763 TCTTTGAGGACTAGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGCGTCCTACTCTTTGAGG
123 TCTTTGAGGACTAGAAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTACTATTTGAGG
203828 ACCAAAGGGCGAAAGGAGAGA
188 ACCAAAGGGCGAAAGGAGAGA
* * *
203849 GCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGT-GAGCTTT-AAAAGGCGTCCTG
1 GCGTCCTGCTC-TTGAGGACTAGAAAATGCCACCAACTTGTGTAG-GCTTTAAAAAGGCGTCCTG
* *
203912 CTCTTTGAGGACTA-AAAGGTGCCACCAACTCGTGTGGGCTTT-A-G-AAGGTGTCCTACTCTTT
64 CTCTTTGAGGACTAGAAA-ATGCCACCAACTCGTGTGGGCTTTAAGGAAAGGCGTCCTACTCTTT
203973 GAGGACTA-AAAAATGCCACCAACTTATGTGGGCTTTGAAAAG
128 GAGGACTAGAAAAATGCCACCAACTTATGTGGGCTTT-AAAAG
204015 AAAAAGGTGT
Statistics
Matches: 151, Mismatches: 11, Indels: 19
0.83 0.06 0.10
Matches are distributed among these distances:
204 25 0.17
205 28 0.19
207 1 0.01
208 1 0.01
210 3 0.02
211 48 0.32
216 12 0.08
217 33 0.22
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (208 bp):
GCGTCCTGCTCTTGAGGACTAGAAAATGCCACCAACTTGTGTAGGCTTTAAAAAGGCGTCCTGCT
CTTTGAGGACTAGAAAATGCCACCAACTCGTGTGGGCTTTAAGGAAAGGCGTCCTACTCTTTGAG
GACTAGAAAAATGCCACCAACTTATGTGGGCTTTAAAAGGCGTCCTACTATTTGAGGACCAAAGG
GCGAAAGGAGAGA
Found at i:204173 original size:61 final size:61
Alignment explanation
Indices: 203849--204351 Score: 521
Period size: 62 Copynumber: 8.4 Consensus size: 61
203839 AAAGGAGAGA
** *
203849 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGAGCTTT------AAAAG
1 GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
*
203904 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT---AG---AAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* * ** *
203959 GTGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTATGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAG
* *
204021 GTGTCCTGCTATTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAG
* * * ***
204083 GTGTCATGCTCTTTTAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* ** * * *
204144 GTGTCCTGCTCTTTGAGGACTGGAGGGTGCTACCAACTTTTGTGGGCTTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAG
* * ** * * *
204206 ACGTCCTACTCTTTGAGGACTGGAAGGTGCCATCAACTTGTGTGGGCTTCAGAAGGAAAAA-
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTA-AAAGAAAAAG
* * * * * * *
204267 GCGTCCTGTTCTTTGAGGATTGAAATGTGCCACCAACTCGTATGGGCTTGAAAAGAAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
*
204328 GCATCCTGCTCTTTGAGGACTAAA
1 GCGTCCTGCTCTTTGAGGACTAAA
204352 GGACTAAAAG
Statistics
Matches: 379, Mismatches: 56, Indels: 20
0.83 0.12 0.04
Matches are distributed among these distances:
54 2 0.01
55 90 0.24
59 2 0.01
60 8 0.02
61 113 0.30
62 164 0.43
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
Found at i:204188 original size:123 final size:123
Alignment explanation
Indices: 203849--204351 Score: 523
Period size: 123 Copynumber: 4.2 Consensus size: 123
203839 AAAGGAGAGA
* ** * *
203849 GCGTCCTGCTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGAGCTTT------AAAAGGCG
1 GCGTCCTACTCTTTGAGGACT-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTG
* *
203907 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTT----AG---AAG
65 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
* ** * *
203959 GTGTCCTACTCTTTGAGGACTAAAAAATGCCACCAACTTATGTGGGCTTTGAAAAGAAAAAGGTG
1 GCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTG
* * *
204024 TCCTGCTATTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAAG
65 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
* * * * **
204083 GTGTCATGCTCTTTTAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGTGAAGGTGT
1 GCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
* * * *
204148 CCTGCTCTTTGAGGACTGGAGGGTGCTACCAACTTTTGTGGGCTTTGAAAAGAAAAAG
66 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
* ** * * * * *
204206 ACGTCCTACTCTTTGAGGACTGGAAGGTGCCATCAACTTGTGTGGGCTTCAGAAGGAAAAAGCGT
1 GCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
* * * * *
204271 CCTGTTCTTTGAGGATTGAAATGTGCCACCAACTCGTATGGGC-TTGAAAAGAAAAAG
66 CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
* *
204328 GCATCCTGCTCTTTGAGGACTAAA
1 GCGTCCTACTCTTTGAGGACTAAA
204352 GGACTAAAAG
Statistics
Matches: 324, Mismatches: 54, Indels: 18
0.82 0.14 0.05
Matches are distributed among these distances:
109 2 0.01
110 40 0.12
117 52 0.16
121 2 0.01
122 33 0.10
123 148 0.46
124 47 0.15
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (123 bp):
GCGTCCTACTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGT
CCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAG
Found at i:209270 original size:534 final size:534
Alignment explanation
Indices: 208262--209321 Score: 2093
Period size: 534 Copynumber: 2.0 Consensus size: 534
208252 ATGGTCAAGA
208262 CAATTGGAGTCAACAATGCAAATGCAATTGACTTGCCTCTATCACCTTGATGAACAAGGCAAGTG
1 CAATTGGAGTCAACAATGCAAATGCAATTGACTTGCCTCTATCACCTTGATGAACAAGGCAAGTG
208327 ATGCAATGGGGATGAGGTTATAGCAACCTAAATAAAGGTAGGATGAGATGACCATGAGTACAGGC
66 ATGCAATGGGGATGAGGTTATAGCAACCTAAATAAAGGTAGGATGAGATGACCATGAGTACAGGC
208392 TCATGACGAACCAAAGAATGGTCATGATGTGATGATGCATGTGAAAATCACAAAAGTAAAATTTT
131 TCATGACGAACCAAAGAATGGTCATGATGTGATGATGCATGTGAAAATCACAAAAGTAAAATTTT
208457 ACAATGTCGCAATGTGCACTCGACTCCGACGATAGGGCAAATGAGGCGCGCTTGACTTAATATCC
196 ACAATGTCGCAATGTGCACTCGACTCCGACGATAGGGCAAATGAGGCGCGCTTGACTTAATATCC
208522 CTCGCGATTGGGGATTTTTTATGGCATGATGGGAAGTATGTTGATTAAAGGGGGAAGATTGGTAG
261 CTCGCGATTGGGGATTTTTTATGGCATGATGGGAAGTATGTTGATTAAAGGGGGAAGATTGGTAG
*
208587 ATGAATCGCTTATTTAATTGATCTTCAATGGTCACTACGAAGTGACCGAAATTTTGGAGTCGCCA
326 ATGAATCGCTTATTTAATTGATCTTCAATGGTCACTACGAAGTGACCAAAATTTTGGAGTCGCCA
208652 CCGATCATTTCGGCCTAGGCATGATCAGATGCCTATTGAGACCTATGTCTTGAGTTACGAAACTC
391 CCGATCATTTCGGCCTAGGCATGATCAGATGCCTATTGAGACCTATGTCTTGAGTTACGAAACTC
208717 AAAACATCGATCCCGTGGTTTACGTAATTCAGAAATTCACCAGTTGGGTTCGGGAGTTGGTTACG
456 AAAACATCGATCCCGTGGTTTACGTAATTCAGAAATTCACCAGTTGGGTTCGGGAGTTGGTTACG
208782 CGCAAATGCAAATG
521 CGCAAATGCAAATG
208796 CAATTGGAGTCAACAATGCAAATGCAATTGACTTGCCTCTATCACCTTGATGAACAAGGCAAGTG
1 CAATTGGAGTCAACAATGCAAATGCAATTGACTTGCCTCTATCACCTTGATGAACAAGGCAAGTG
*
208861 ATGCAATGGGGATGAGGTTATAGCAACCTAAATAAAGGTAGGATGATATGACCATGAGTACAGGC
66 ATGCAATGGGGATGAGGTTATAGCAACCTAAATAAAGGTAGGATGAGATGACCATGAGTACAGGC
208926 TCATGACGAACCAAAGAATGGTCATGATGTGATGATGCATGTGAAAATCACAAAAGTAAAATTTT
131 TCATGACGAACCAAAGAATGGTCATGATGTGATGATGCATGTGAAAATCACAAAAGTAAAATTTT
208991 ACAATGTCGCAATGTGCACTCGACTCCGACGATAGGGCAAATGAGGCGCGCTTGACTTAATATCC
196 ACAATGTCGCAATGTGCACTCGACTCCGACGATAGGGCAAATGAGGCGCGCTTGACTTAATATCC
209056 CTCGCGATTGGGGATTTTTTATGGCATGATGGGAAGTATGTTGATTAAAGGGGGAAGATTGGTAG
261 CTCGCGATTGGGGATTTTTTATGGCATGATGGGAAGTATGTTGATTAAAGGGGGAAGATTGGTAG
*
209121 ATGAATCGCTTATTTAATTGATCTTCAATGGTCACTATGAAGTGACCAAAATTTTGGAGTCGCCA
326 ATGAATCGCTTATTTAATTGATCTTCAATGGTCACTACGAAGTGACCAAAATTTTGGAGTCGCCA
209186 CCGATCATTTCGGCCTAGGCATGATCAGATGCCTATTGAGACCTATGTCTTGAGTTACGAAACTC
391 CCGATCATTTCGGCCTAGGCATGATCAGATGCCTATTGAGACCTATGTCTTGAGTTACGAAACTC
209251 AAAACATCGATCCCGTGGTTTACGTAATTCAGAAATTCACCAGTTGGGTTCGGGAGTTGGTTACG
456 AAAACATCGATCCCGTGGTTTACGTAATTCAGAAATTCACCAGTTGGGTTCGGGAGTTGGTTACG
209316 CGCAAA
521 CGCAAA
209322 GAGGTATGAA
Statistics
Matches: 523, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
534 523 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (534 bp):
CAATTGGAGTCAACAATGCAAATGCAATTGACTTGCCTCTATCACCTTGATGAACAAGGCAAGTG
ATGCAATGGGGATGAGGTTATAGCAACCTAAATAAAGGTAGGATGAGATGACCATGAGTACAGGC
TCATGACGAACCAAAGAATGGTCATGATGTGATGATGCATGTGAAAATCACAAAAGTAAAATTTT
ACAATGTCGCAATGTGCACTCGACTCCGACGATAGGGCAAATGAGGCGCGCTTGACTTAATATCC
CTCGCGATTGGGGATTTTTTATGGCATGATGGGAAGTATGTTGATTAAAGGGGGAAGATTGGTAG
ATGAATCGCTTATTTAATTGATCTTCAATGGTCACTACGAAGTGACCAAAATTTTGGAGTCGCCA
CCGATCATTTCGGCCTAGGCATGATCAGATGCCTATTGAGACCTATGTCTTGAGTTACGAAACTC
AAAACATCGATCCCGTGGTTTACGTAATTCAGAAATTCACCAGTTGGGTTCGGGAGTTGGTTACG
CGCAAATGCAAATG
Found at i:212153 original size:20 final size:19
Alignment explanation
Indices: 212128--212193 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
212118 ATTTGCTTGC
212128 ATGTATCGATACATTGAATA
1 ATGTATCGATACA-TGAATA
212148 ATGTATCG----AT--ATA
1 ATGTATCGATACATGAATA
212161 ATGTATCGATACAGTGAATA
1 ATGTATCGATACA-TGAATA
*
212181 ATGTCTCGATACA
1 ATGTATCGATACA
212194 CATTTCCTTG
Statistics
Matches: 38, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 11 0.29
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
20 23 0.61
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (19 bp):
ATGTATCGATACATGAATA
Found at i:212163 original size:13 final size:13
Alignment explanation
Indices: 212145--212171 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
212135 GATACATTGA
212145 ATAATGTATCGAT
1 ATAATGTATCGAT
212158 ATAATGTATCGAT
1 ATAATGTATCGAT
212171 A
1 A
212172 CAGTGAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
ATAATGTATCGAT
Found at i:212165 original size:33 final size:33
Alignment explanation
Indices: 212128--212191 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
212118 ATTTGCTTGC
*
212128 ATGTATCGATACATTGAATAATGTATCGATATA
1 ATGTATCGATACAGTGAATAATGTATCGATATA
*
212161 ATGTATCGATACAGTGAATAATGTCTCGATA
1 ATGTATCGATACAGTGAATAATGTATCGATA
212192 CACATTTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACAGTGAATAATGTATCGATATA
Found at i:212819 original size:20 final size:20
Alignment explanation
Indices: 212794--212868 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
212784 TTTTCACAAT
212794 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTGTTCA
* *
212814 TTGTATCAATACATTGCTCA
1 TTGTATCGATACATTGTTCA
**
212834 TTGTATCGATGTATT-TTACA
1 TTGTATCGATACATTGTT-CA
*
212854 ATGTATCGATACATT
1 TTGTATCGATACATT
212869 CAGGCATTTT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 1 0.02
20 44 0.98
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATTGTTCA
Found at i:215243 original size:51 final size:51
Alignment explanation
Indices: 215163--215259 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
215153 TTTTTTCATC
* ** *
215163 TCGGGGATACTCCAATCCCGGTTCCATTTCTGAAACATCAATTTTTTTTAA
1 TCGGGGATACTCCAATCCCGATTCCATTTCCAAAACACCAATTTTTTTTAA
**
215214 TCGGGGATACTCCAA-CTCCGATTTTATTTCCAAAACACCAATTTTT
1 TCGGGGATACTCCAATC-CCGATTCCATTTCCAAAACACCAATTTTT
215260 CACAATTGGG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
50 1 0.03
51 38 0.97
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (51 bp):
TCGGGGATACTCCAATCCCGATTCCATTTCCAAAACACCAATTTTTTTTAA
Found at i:215383 original size:28 final size:28
Alignment explanation
Indices: 215352--215419 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 28
215342 ATCGGGGGGC
*
215352 ACTCCAACCCCGTTATGTCAT-CGGGGAT
1 ACTCCAACCCCGTTATGTC-TGAGGGGAT
* * *
215380 ACTCCAATCCTGTTATTTCTGAGGGGAT
1 ACTCCAACCCCGTTATGTCTGAGGGGAT
215408 ACTCCAACCCCG
1 ACTCCAACCCCG
215420 ATTTTATTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 1 0.03
28 32 0.97
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.26
Consensus pattern (28 bp):
ACTCCAACCCCGTTATGTCTGAGGGGAT
Found at i:215456 original size:108 final size:107
Alignment explanation
Indices: 215267--215469 Score: 275
Period size: 108 Copynumber: 1.9 Consensus size: 107
215257 TTTCACAATT
* *
215267 GGGATACTCCAACCCCGTTATTTCTGAGGGATACTCCAACCCCGGCTTTATATCTAAAATATTGA
1 GGGATACTCCAACCCCGTTATTTCTGAGGGATACTCCAACCCCGACTTTATATCTAAAATACTGA
* * *
215332 TTTTTTCATAATCGGGGGGCACTCCAACCCCGTTATGTCATCG
66 TTTTCTCAAAATC-GGGGACACTCCAACCCCGTTATGTCATCG
* * * *
215375 GGGATACTCCAATCCTGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAATACCT
1 GGGATACTCCAACCCCGTTATTTCTGA-GGGATACTCCAACCCCGACTTTATATCTAAAATA-CT
*
215440 -A-TTTCTCAAAATCGGGGATACTCCAACCCC
64 GATTTTCTCAAAATCGGGGACACTCCAACCCC
215470 AATTTTATTT
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
107 15 0.18
108 35 0.42
109 32 0.39
110 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (107 bp):
GGGATACTCCAACCCCGTTATTTCTGAGGGATACTCCAACCCCGACTTTATATCTAAAATACTGA
TTTTCTCAAAATCGGGGACACTCCAACCCCGTTATGTCATCG
Found at i:215464 original size:51 final size:51
Alignment explanation
Indices: 215402--215519 Score: 150
Period size: 51 Copynumber: 2.3 Consensus size: 51
215392 TTATTTCTGA
* * *
215402 GGGGATACTCCAACCCCGATTTTA-TTTCTAAAATACCTA-TTTCTCAAAATC
1 GGGGATACTCCAACCCCAATTTTATTTTC-AAAACACCAATTTTCT-AAAATC
* *
215453 GGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCTATAATT
1 GGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCTAAAATC
*
215504 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
215520 TGTTATTTCC
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
51 50 0.85
52 9 0.15
ACGTcount: A:0.32, C:0.26, G:0.10, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCTAAAATC
Found at i:215586 original size:81 final size:79
Alignment explanation
Indices: 215453--215675 Score: 329
Period size: 81 Copynumber: 2.8 Consensus size: 79
215443 TCTCAAAATC
* *
215453 GGGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCTATAATTAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCTATAATTAGGGATACTCCAAC
215518 CCTGTTATTTCCGA
66 CCTGTTATTTCCGA
* *
215532 GGGGATACTCCAACCCCTCGATTTTATTTTCAAAATACCGATTTTTTATAATTAGGGATACTCCA
1 GGGGATACTCCAA-CCC-CGATTTTATTTTCAAAACACCGATTTTCTATAATTAGGGATACTCCA
*
215597 ACCCTGTTATTTCTGA
64 ACCCTGTTATTTCCGA
* * * * **
215613 GGAGATACTCTAACCCCGATTTTATTTCCAAAACACCGATTTTCCATAATCGGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCTATAATTAGGGATACTCCA
215676 CCCCCGTTGT
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
79 54 0.42
80 6 0.05
81 69 0.53
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTCTATAATTAGGGATACTCCAAC
CCTGTTATTTCCGA
Found at i:227615 original size:78 final size:79
Alignment explanation
Indices: 227506--227652 Score: 208
Period size: 78 Copynumber: 1.9 Consensus size: 79
227496 GGAGATGACC
* * *
227506 ACGGGGCTAGAGTATCCTCGATTATGGAAAATTAG-TGTTTTAGAAATAAAATCGGAGTTGGAGT
1 ACGGGGATAGAGTATCCTCGATTATGGAAAA-TAGATGCTTTAGAAATAAAACCGGAGTTGGAGT
227570 ATCCCTTCGAAAATA
65 ATCCCTTCGAAAATA
* * * *
227585 ACGGGGATGGAGTATCC-CGATTATGGAAAATCGATGCTTTAGAAATAAGACCGGGGTTGGAGTA
1 ACGGGGATAGAGTATCCTCGATTATGGAAAATAGATGCTTTAGAAATAAAACCGGAGTTGGAGTA
227649 TCCC
66 TCCC
227653 CGATTGTGAG
Statistics
Matches: 60, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
77 2 0.03
78 43 0.72
79 15 0.25
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (79 bp):
ACGGGGATAGAGTATCCTCGATTATGGAAAATAGATGCTTTAGAAATAAAACCGGAGTTGGAGTA
TCCCTTCGAAAATA
Found at i:230028 original size:20 final size:20
Alignment explanation
Indices: 230003--230096 Score: 113
Period size: 20 Copynumber: 4.7 Consensus size: 20
229993 AAAATGTCTG
* *
230003 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATGCAA
*
230023 AATGTATCGATACAATG-AGC
1 AATGTATCGATACAATGCA-A
230043 AATGTATCGATACAA--CAA
1 AATGTATCGATACAATGCAA
230061 GCAATGTATCGATACAATGCAA
1 --AATGTATCGATACAATGCAA
230083 AATGTATCGATACA
1 AATGTATCGATACA
230097 TCTGGATAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
19 2 0.03
20 60 0.92
22 3 0.05
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:244405 original size:22 final size:22
Alignment explanation
Indices: 244359--244405 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
244349 TTAAAAAAAT
* *
244359 TATTTTTATATTAACATTTATA
1 TATTTTTATATTAACAATTAAA
244381 TATTTTTATGATTAA-AATTAAA
1 TATTTTTAT-ATTAACAATTAAA
244403 TAT
1 TAT
244406 AAAGTTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTTTTATATTAACAATTAAA
Found at i:249230 original size:54 final size:54
Alignment explanation
Indices: 249172--249277 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 54
249162 TGTGGTCTTC
* * *
249172 GCACTCAGATAGCTTAATACGGCATTTGCGCTTAGATAGCTTAACATGGCCTCG
1 GCACTCAGATAGCTTAACACGGCATTGGCACTTAGATAGCTTAACATGGCCTCG
** * * * *
249226 GCACTTGGATTGCTTAACATGGCCTTGGCACTTAGATTGCTTAACATGGCCT
1 GCACTCAGATAGCTTAACACGGCATTGGCACTTAGATAGCTTAACATGGCCT
249278 TCACATGCAT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (54 bp):
GCACTCAGATAGCTTAACACGGCATTGGCACTTAGATAGCTTAACATGGCCTCG
Found at i:249278 original size:27 final size:27
Alignment explanation
Indices: 249202--249278 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
249192 GGCATTTGCG
* *
249202 CTTAGATAGCTTAACATGGCCTCGGCA
1 CTTAGATTGCTTAACATGGCCTTGGCA
*
249229 CTTGGATTGCTTAACATGGCCTTGGCA
1 CTTAGATTGCTTAACATGGCCTTGGCA
249256 CTTAGATTGCTTAACATGGCCTT
1 CTTAGATTGCTTAACATGGCCTT
249279 CACATGCATT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.32
Consensus pattern (27 bp):
CTTAGATTGCTTAACATGGCCTTGGCA
Found at i:251058 original size:60 final size:60
Alignment explanation
Indices: 250982--251537 Score: 788
Period size: 60 Copynumber: 9.3 Consensus size: 60
250972 TCAATGCTCA
* *
250982 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTACGTTTG
1 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTATGTTCG
* * *
251042 AGTTGCCACCATTTGGTAGAGTTTGAAACCTTGGGCTAACCCTTCGCTGCATTGTGTTCG
1 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTATGTTCG
* * * *
251102 AATTGCCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCTTTCGCTGCATAATGTTCG
1 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTATGTTCG
* * * * * * *
251162 AATCACGACCATTTGGTAGAGTTTGAAACCTTGGGTTAACACTTCGCTGCATTACGTTCG
1 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTATGTTCG
* * *
251222 AGTTACGACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGCATTATGCTCG
1 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTATGTTCG
* * * *
251282 AGTTAGCACCATTTGGTAGAGTTTGAAACCTTGGGCTAACTCTTCGCTGCATTATGATCG
1 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTATGTTCG
** *
251342 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAAATCTTCGCTGCATTATGCTCG
1 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTATGTTCG
* * * *
251402 AGTTACCACCATTTGGTAGCTTTTGAAACCTTGGGCTAACTCTTTGCTGCATTATGCTCG
1 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTATGTTCG
* * * * *
251462 AATTACCACCCTTTGGTAGATTTTGAAACCTTGGGCTAACCTTTCGCTGCATTACGATCG
1 AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTATGTTCG
*
251522 AGTTACCAGCATTTGG
1 AGTTACCACCATTTGG
251538 CTGCATTATG
Statistics
Matches: 448, Mismatches: 48, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 448 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (60 bp):
AGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCCTTCGCTGCATTATGTTCG
Found at i:251543 original size:30 final size:30
Alignment explanation
Indices: 251507--251567 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
251497 CTAACCTTTC
*
251507 GCTGCATTACGATCGAGTTACCAGCATTTG
1 GCTGCATTACGATCGAGTTACCACCATTTG
* *
251537 GCTGCATTATGTTCGAGTTACCACCATTTG
1 GCTGCATTACGATCGAGTTACCACCATTTG
251567 G
1 G
251568 TAGATTTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (30 bp):
GCTGCATTACGATCGAGTTACCACCATTTG
Found at i:251600 original size:90 final size:90
Alignment explanation
Indices: 251447--251618 Score: 283
Period size: 90 Copynumber: 1.9 Consensus size: 90
251437 CTAACTCTTT
*
251447 GCTGCATTATGCTCGAATTACCACCCTTTGGTAGATTTTGAAACCTTGGGCTAACCTTTCGCTGC
1 GCTGCATTATGCTCGAATTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCTTTCGCTGC
251512 ATTACGATCGAGTTACCAGCATTTG
66 ATTACGATCGAGTTACCAGCATTTG
* *
251537 GCTGCATTATGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAA-CTCTTCGCTG
1 GCTGCATTATGCTCGAATTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCT-TTCGCTG
* *
251601 CATTATGTTCGAGTTACC
65 CATTACGATCGAGTTACC
251619 TCCATGTGGT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 2 0.03
90 74 0.97
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (90 bp):
GCTGCATTATGCTCGAATTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACCTTTCGCTGC
ATTACGATCGAGTTACCAGCATTTG
Found at i:251630 original size:60 final size:60
Alignment explanation
Indices: 251537--251867 Score: 457
Period size: 60 Copynumber: 5.5 Consensus size: 60
251527 CCAGCATTTG
251537 GCTGCATTATGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTC
1 GCTGCATTATGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTC
* * * * *
251597 GCTGCATTATGTTCGAGTTACCTCCATGTGGTAGAGTTTGAAACCTTGGGCTAACTTTTT
1 GCTGCATTATGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTC
* * * * * *
251657 GCTGCATTATGTTCAAGTTACCTCCATTTTGTAGAGTTTGAAATCTTGGGCTTACTCTTC
1 GCTGCATTATGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTC
* *
251717 GCTGCATTATGCTCGAGTTACCACCATTTGGTAGATTTTGAAACCTCGGGCTAACTCTTC
1 GCTGCATTATGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTC
* * * *
251777 GTTGCATTAT-TCTTGAGTTACCACCATTCGGTAGATTTTGAAACCTTGGGCTAACCCTTC
1 GCTGCATTATGT-TCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTC
** * *
251837 AATGCATTACGTTCGAGTTACCAGCATTTGG
1 GCTGCATTATGTTCGAGTTACCACCATTTGG
251868 CTGCATTACG
Statistics
Matches: 237, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
60 236 1.00
61 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (60 bp):
GCTGCATTATGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTC
Found at i:251661 original size:150 final size:150
Alignment explanation
Indices: 251387--251665 Score: 459
Period size: 150 Copynumber: 1.9 Consensus size: 150
251377 CTAAATCTTC
* *
251387 GCTGCATTATGCTCGAGTTACCACCATTTGGTAGCTTTTGAAACCTTGGGCTAACTCTTTGCTGC
1 GCTGCATTATGCTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
* * *
251452 ATTATGCTCGAATTACCACCCTTTGGTAGATTTTGAAACCTTGGGCTAACCTTTCGCTGCATTAC
66 ATTATGCTCGAATTACCACCATGTGGTAGAGTTTGAAACCTTGGGCTAACCTTTCGCTGCATTAC
251517 GATCGAGTTACCAGCATTTG
131 GATCGAGTTACCAGCATTTG
*
251537 GCTGCATTATGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
1 GCTGCATTATGCTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
* * * * *
251602 ATTATGTTCGAGTTACCTCCATGTGGTAGAGTTTGAAACCTTGGGCTAACTTTTTGCTGCATTA
66 ATTATGCTCGAATTACCACCATGTGGTAGAGTTTGAAACCTTGGGCTAACCTTTCGCTGCATTA
251666 TGTTCAAGTT
Statistics
Matches: 118, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
150 118 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (150 bp):
GCTGCATTATGCTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
ATTATGCTCGAATTACCACCATGTGGTAGAGTTTGAAACCTTGGGCTAACCTTTCGCTGCATTAC
GATCGAGTTACCAGCATTTG
Found at i:251699 original size:210 final size:210
Alignment explanation
Indices: 251327--251747 Score: 648
Period size: 210 Copynumber: 2.0 Consensus size: 210
251317 CTAACTCTTC
251327 GCTGCATTATGATCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAAATCTTCGCTGC
1 GCTGCATTATGATCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAAATCTTCGCTGC
* **
251392 ATTATGCTCGAGTTACCACCATTTGGTAGCTTTTGAAACCTTGGGCTAACTCTTTGCTGCATTAT
66 ATTATGCTCGAGTTACCACCATGTGGTAGAGTTTGAAACCTTGGGCTAACTCTTTGCTGCATTAT
* *
251457 GCTCGAATTACCACCCTTTGGTAGATTTTGAAACCTTGGGCTAAC-CTTTCGCTGCATTACGATC
131 GCTCGAATTACCACCATTTGGTAGAGTTTGAAACCTTGGGCTAACTC-TTCGCTGCATTACGATC
*
251521 GAGTTACCAGCATTTG
195 GAGTTACCACCATTTG
* *
251537 GCTGCATTATGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
1 GCTGCATTATGATCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAAATCTTCGCTGC
* * *
251602 ATTATGTTCGAGTTACCTCCATGTGGTAGAGTTTGAAACCTTGGGCTAACTTTTTGCTGCATTAT
66 ATTATGCTCGAGTTACCACCATGTGGTAGAGTTTGAAACCTTGGGCTAACTCTTTGCTGCATTAT
* * * * * * *
251667 GTTC-AAGTTACCTCCATTTTGTAGAGTTTGAAATCTTGGGCTTACTCTTCGCTGCATTATGCTC
131 GCTCGAA-TTACCACCATTTGGTAGAGTTTGAAACCTTGGGCTAACTCTTCGCTGCATTACGATC
251731 GAGTTACCACCATTTG
195 GAGTTACCACCATTTG
251747 G
1 G
251748 TAGATTTTGA
Statistics
Matches: 191, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
209 2 0.01
210 188 0.98
211 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.36
Consensus pattern (210 bp):
GCTGCATTATGATCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAAATCTTCGCTGC
ATTATGCTCGAGTTACCACCATGTGGTAGAGTTTGAAACCTTGGGCTAACTCTTTGCTGCATTAT
GCTCGAATTACCACCATTTGGTAGAGTTTGAAACCTTGGGCTAACTCTTCGCTGCATTACGATCG
AGTTACCACCATTTG
Found at i:251812 original size:330 final size:330
Alignment explanation
Indices: 251207--251991 Score: 1228
Period size: 330 Copynumber: 2.4 Consensus size: 330
251197 TTAACACTTC
*
251207 GCTGCATTACGTTCGAGTTACGACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
1 GCTGCATTACGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
* * *
251272 ATTATGCTCGAGTTAGCACCATTTGGTAGAGTTTGAAACCTTGGGCTAACTCTTCGCTGCATTAT
66 ATTATGTTCGAGTTACCTCCATTTGGTAGAGTTTGAAACCTTGGGCTAACTCTTCGCTGCATTAT
* *
251337 GATCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAAATCTTCGCTGCATTATGCTCG
131 GATCAAGTTACCACCATTTGGTAGAGTTTGAAACCTTGGGCTAAATCTTCGCTGCATTATGCTCG
* * *
251402 AGTTACCACCATTTGGTAGCTTTTGAAACCTTGGGCTAACTCTTTGCTGCATTATGCTCGAATTA
196 AGTTACCACCATTTGGTAGATTTTGAAACCTCGGGCTAACTCTTCGCTGCATTATGCTCGAATTA
* * * **
251467 CCACCCTTTGGTAGATTTTGAAACCTTGGGCTAACCTTTCGCTGCATTACGATCGAGTTACCAGC
261 CCACCATTCGGTAGATTTTGAAACCTTGGGCTAACCCTTCAATGCATTACGATCGAGTTACCAGC
251532 ATTTG
326 ATTTG
*
251537 GCTGCATTATGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
1 GCTGCATTACGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
* * *
251602 ATTATGTTCGAGTTACCTCCATGTGGTAGAGTTTGAAACCTTGGGCTAACTTTTTGCTGCATTAT
66 ATTATGTTCGAGTTACCTCCATTTGGTAGAGTTTGAAACCTTGGGCTAACTCTTCGCTGCATTAT
* * * * * *
251667 GTTCAAGTTACCTCCATTTTGTAGAGTTTGAAATCTTGGGCTTACTCTTCGCTGCATTATGCTCG
131 GATCAAGTTACCACCATTTGGTAGAGTTTGAAACCTTGGGCTAAATCTTCGCTGCATTATGCTCG
* * * *
251732 AGTTACCACCATTTGGTAGATTTTGAAACCTCGGGCTAACTCTTCGTTGCATTATTCTTGAGTTA
196 AGTTACCACCATTTGGTAGATTTTGAAACCTCGGGCTAACTCTTCGCTGCATTATGCTCGAATTA
*
251797 CCACCATTCGGTAGATTTTGAAACCTTGGGCTAACCCTTCAATGCATTACGTTCGAGTTACCAGC
261 CCACCATTCGGTAGATTTTGAAACCTTGGGCTAACCCTTCAATGCATTACGATCGAGTTACCAGC
251862 ATTTG
326 ATTTG
* * * * *
251867 GCTGCATTACGTTCAAGCTACCACCATTTGGTAGATTTTAAAACCTTGGGCTAACCCTTCGCTGT
1 GCTGCATTACGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
* * * *
251932 ATTATGTTCAAGTTACCTCCATTTGGTAGATTTTGCAACTTTGGGCTAACTCTTCGCTGC
66 ATTATGTTCGAGTTACCTCCATTTGGTAGAGTTTGAAACCTTGGGCTAACTCTTCGCTGC
251992 GTTACCATTA
Statistics
Matches: 413, Mismatches: 42, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
330 413 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (330 bp):
GCTGCATTACGTTCGAGTTACCACCATTTGGTAGATTTTGAAACCTTGGGCTAACTCTTCGCTGC
ATTATGTTCGAGTTACCTCCATTTGGTAGAGTTTGAAACCTTGGGCTAACTCTTCGCTGCATTAT
GATCAAGTTACCACCATTTGGTAGAGTTTGAAACCTTGGGCTAAATCTTCGCTGCATTATGCTCG
AGTTACCACCATTTGGTAGATTTTGAAACCTCGGGCTAACTCTTCGCTGCATTATGCTCGAATTA
CCACCATTCGGTAGATTTTGAAACCTTGGGCTAACCCTTCAATGCATTACGATCGAGTTACCAGC
ATTTG
Found at i:251875 original size:30 final size:30
Alignment explanation
Indices: 251839--251897 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
251829 AACCCTTCAA
* * *
251839 TGCATTACGTTCGAGTTACCAGCATTTGGC
1 TGCATTACGTTCAAGCTACCACCATTTGGC
251869 TGCATTACGTTCAAGCTACCACCATTTGG
1 TGCATTACGTTCAAGCTACCACCATTTGG
251898 TAGATTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.32
Consensus pattern (30 bp):
TGCATTACGTTCAAGCTACCACCATTTGGC
Found at i:251976 original size:60 final size:60
Alignment explanation
Indices: 251867--251996 Score: 179
Period size: 60 Copynumber: 2.2 Consensus size: 60
251857 CCAGCATTTG
251867 GCTGCATTACGTTCAAGCTACCACCATTTGGTAGATTTTAAAACCTTGGGCTAACCCTTC
1 GCTGCATTACGTTCAAGCTACCACCATTTGGTAGATTTTAAAACCTTGGGCTAACCCTTC
* * * * ** * *
251927 GCTGTATTATGTTCAAGTTACCTCCATTTGGTAGATTTTGCAACTTTGGGCTAACTCTTC
1 GCTGCATTACGTTCAAGCTACCACCATTTGGTAGATTTTAAAACCTTGGGCTAACCCTTC
*
251987 GCTGCGTTAC
1 GCTGCATTAC
251997 CATTAGAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (60 bp):
GCTGCATTACGTTCAAGCTACCACCATTTGGTAGATTTTAAAACCTTGGGCTAACCCTTC
Found at i:253010 original size:19 final size:20
Alignment explanation
Indices: 252986--253026 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
252976 CTATTATCCT
252986 AATAAATAATATAAAT-TTA
1 AATAAATAATATAAATATTA
*
253005 AATAAATAATTTAAATATTA
1 AATAAATAATATAAATATTA
253025 AA
1 AA
253027 ATTTATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAAATAATATAAATATTA
Found at i:253017 original size:13 final size:15
Alignment explanation
Indices: 252988--253031 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 15
252978 ATTATCCTAA
252988 TAAATAATATAAATT
1 TAAATAATATAAATT
253003 TAAATAA-AT-AATT
1 TAAATAATATAAATT
*
253016 TAAATATTA-AAATT
1 TAAATAATATAAATT
253030 TA
1 TA
253032 TGTTTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 10 0.38
14 9 0.35
15 7 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATAATATAAATT
Found at i:253073 original size:18 final size:18
Alignment explanation
Indices: 252989--253065 Score: 52
Period size: 18 Copynumber: 4.3 Consensus size: 18
252979 TTATCCTAAT
252989 AAATAATATAAATT-TAAA
1 AAATAATATAAATTAT-AA
* *
253007 TAAATAATTTAAA-TATTA
1 -AAATAATATAAATTATAA
* ***
253025 AAAT-TTATGTTTTATAA
1 AAATAATATAAATTATAA
253042 AAATAATATAAATTATAA
1 AAATAATATAAATTATAA
*
253060 TAATAA
1 AAATAA
253066 ATTAAATTTT
Statistics
Matches: 42, Mismatches: 13, Indels: 7
0.68 0.21 0.11
Matches are distributed among these distances:
16 2 0.05
17 12 0.29
18 16 0.38
19 12 0.29
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (18 bp):
AAATAATATAAATTATAA
Found at i:255087 original size:20 final size:20
Alignment explanation
Indices: 255062--255115 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
255052 GTTACAAGCA
*
255062 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATCT-ACC
255082 ATGTATCGATACAATCTACC
1 ATGTATCGATACAATCTACC
255102 ATGTATCGATACAA
1 ATGTATCGATACAA
255116 ACAGTGGTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACAATCTACC
Found at i:255188 original size:19 final size:18
Alignment explanation
Indices: 255143--255200 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
255133 ACTGCCAGTT
*
255143 TCATGTTTCGATACAATTG
1 TCATGTATCGATACAA-TG
255162 TCCATGTATCGATACAATG
1 T-CATGTATCGATACAATG
255181 ATCATGTATCGATACAATG
1 -TCATGTATCGATACAATG
255200 T
1 T
255201 ATCGATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 20 0.56
20 15 0.42
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:255202 original size:13 final size:13
Alignment explanation
Indices: 255184--255210 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
255174 TACAATGATC
255184 ATGTATCGATACA
1 ATGTATCGATACA
255197 ATGTATCGATACA
1 ATGTATCGATACA
255210 A
1 A
255211 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:255226 original size:33 final size:32
Alignment explanation
Indices: 255165--255229 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
255155 ACAATTGTCC
* *
255165 ATGTATCGATACAATGATCATGTATCGATACA
1 ATGTATCGATACAAAGATAATGTATCGATACA
255197 ATGTATCGATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAG-ATAATGTATCGATACA
255230 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (32 bp):
ATGTATCGATACAAAGATAATGTATCGATACA
Found at i:255803 original size:78 final size:79
Alignment explanation
Indices: 255714--255868 Score: 231
Period size: 78 Copynumber: 2.0 Consensus size: 79
255704 AAAATGATTG
* * *
255714 AATTATTTTTATAATTTATTAAAATAATTAATTGAATCGATATCATAAGTAATTGATATTAATTT
1 AATTATTTTTATAATTTATTAAAATAATTAACTGAATCAATATCATAAATAATTGATATTAATTT
255779 AATTAA-AAAATAT
66 AATTAATAAAATAT
* * * **
255792 AATTATTTTTATAATTTATTAAAATAATTGACTGAATTAATATTATAAATTGTTGATATTAATTT
1 AATTATTTTTATAATTTATTAAAATAATTAACTGAATCAATATCATAAATAATTGATATTAATTT
255857 AATTAATAAAAT
66 AATTAATAAAAT
255869 TAACCAAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
78 63 0.93
79 5 0.07
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (79 bp):
AATTATTTTTATAATTTATTAAAATAATTAACTGAATCAATATCATAAATAATTGATATTAATTT
AATTAATAAAATAT
Found at i:257489 original size:16 final size:16
Alignment explanation
Indices: 257468--257498 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
257458 TTGGATAATT
*
257468 ATTAATTGATTATATG
1 ATTAATCGATTATATG
257484 ATTAATCGATTATAT
1 ATTAATCGATTATAT
257499 CTAATGCTAA
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:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (16 bp):
ATTAATCGATTATATG
Found at i:262088 original size:9 final size:9
Alignment explanation
Indices: 262074--262098 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
262064 TCCTAATGGC
262074 CAAAATTTT
1 CAAAATTTT
262083 CAAAATTTT
1 CAAAATTTT
262092 CAAAATT
1 CAAAATT
262099 CTACAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (9 bp):
CAAAATTTT
Found at i:262136 original size:20 final size:20
Alignment explanation
Indices: 262109--262177 Score: 104
Period size: 20 Copynumber: 3.5 Consensus size: 20
262099 CTACAATTTA
*
262109 TATCGATATATAAGTGAATG
1 TATCGATACATAAGTGAATG
*
262129 TCTCGATACATAAGTGAATG
1 TATCGATACATAAGTGAATG
262149 TATCGATACACT-AGTGAATG
1 TATCGATACA-TAAGTGAATG
262169 TATCGATAC
1 TATCGATAC
262178 TGGACCTTGT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 44 0.98
21 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
TATCGATACATAAGTGAATG
Found at i:262303 original size:51 final size:52
Alignment explanation
Indices: 262215--262352 Score: 199
Period size: 52 Copynumber: 2.7 Consensus size: 52
262205 TATGAAAAGA
* *
262215 AAATGTATCGATACATT-TTTATTGTATCAATACATTCTG-GGTTTTGATCC
1 AAATGTATCGATACATTCTTTATTGTATCGATACATTCTGAGGTTTTGACCC
* * *
262265 AAATGTATCGATATATTCTTTATTGTATCGATATATTCTGAGTTTTTGACCC
1 AAATGTATCGATACATTCTTTATTGTATCGATACATTCTGAGGTTTTGACCC
* *
262317 AAATGTATCGATACATTCTTCAATGTATCGATACAT
1 AAATGTATCGATACATTCTTTATTGTATCGATACAT
262353 CTAGTTAAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 16 0.21
51 20 0.26
52 41 0.53
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTTATTGTATCGATACATTCTGAGGTTTTGACCC
Found at i:264052 original size:11 final size:11
Alignment explanation
Indices: 264012--264060 Score: 55
Period size: 11 Copynumber: 4.3 Consensus size: 11
264002 GGGTTTTTCC
264012 TTTCTTCTTTT
1 TTTCTTCTTTT
*
264023 TTT-TGTTTGTTT
1 TTTCT-TCT-TTT
264035 GTTTCTTCTTTT
1 -TTTCTTCTTTT
264047 TTTCTTCTTTT
1 TTTCTTCTTTT
264058 TTT
1 TTT
264061 GTTTTGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
10 1 0.03
11 19 0.59
12 6 0.19
13 5 0.16
14 1 0.03
ACGTcount: A:0.00, C:0.12, G:0.06, T:0.82
Consensus pattern (11 bp):
TTTCTTCTTTT
Found at i:266641 original size:27 final size:26
Alignment explanation
Indices: 266572--266642 Score: 88
Period size: 27 Copynumber: 2.7 Consensus size: 26
266562 TTTATTTATC
* *
266572 AGGGATACTCCAACCCCATTCTTCCG
1 AGGGATACTCAAACCTCATTCTTCCG
*
266598 AGGGAGTACTCAAACCTCATTCTTTCG
1 AGGGA-TACTCAAACCTCATTCTTCCG
*
266625 AGGGGATACTCTAACCTC
1 A-GGGATACTCAAACCTC
266643 TTTTTTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
26 5 0.13
27 30 0.77
28 4 0.10
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (26 bp):
AGGGATACTCAAACCTCATTCTTCCG
Done.