Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold93
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: 1685797
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 216 characters in sequence are not A, C, G, or T
File 1 of 14
Found at i:274 original size:78 final size:79
Alignment explanation
Indices: 171--334 Score: 206
Period size: 78 Copynumber: 2.1 Consensus size: 79
161 GACAATCGAT
** * * * *
171 GATACTCCAAACCCGTTATTTTCGAGGGGATACTCCAACTCTGA-TTTATTTTTAAAATACCGAT
1 GATACTCCAAACCCGTTATTTTCGAGGAAATACTCCAACCCCGATTTTATTTCTAAAACACCGAT
*
235 TTTTTATAATCAGG
66 TTTTCATAATCAGG
*
249 GATACTCC-AACCCTGTTATTTTCGAGGAAATACTCCAACCCCGATTTTTATTTCTAGAACACCG
1 GATACTCCAAACCC-GTTATTTTCGAGGAAATACTCCAACCCCGA-TTTTATTTCTAAAACACCG
* *
313 ATTTTTCGTAATCGGG
64 ATTTTTCATAATCAGG
329 GATACT
1 GATACT
335 TCAGCCCCGT
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 5 0.07
78 34 0.47
80 34 0.47
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (79 bp):
GATACTCCAAACCCGTTATTTTCGAGGAAATACTCCAACCCCGATTTTATTTCTAAAACACCGAT
TTTTCATAATCAGG
Found at i:9300 original size:13 final size:13
Alignment explanation
Indices: 9282--9307 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9272 TGAACAGTGA
9282 TGTATCGATACAC
1 TGTATCGATACAC
9295 TGTATCGATACAC
1 TGTATCGATACAC
9308 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:9358 original size:21 final size:22
Alignment explanation
Indices: 9314--9402 Score: 155
Period size: 21 Copynumber: 4.1 Consensus size: 22
9304 ACACACAAAT
*
9314 ATGTATCGATACATGAATAGTG
1 ATGTATCGATACATGAACAGTG
9336 ATGTATCGATACATGAA-AGTG
1 ATGTATCGATACATGAACAGTG
9357 ATGTATCGATACATGAA-AGTG
1 ATGTATCGATACATGAACAGTG
9378 ATGTATCGATACATGAACAGTG
1 ATGTATCGATACATGAACAGTG
9400 ATG
1 ATG
9403 AATAGTGATG
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
21 42 0.64
22 24 0.36
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (22 bp):
ATGTATCGATACATGAACAGTG
Found at i:9368 original size:43 final size:43
Alignment explanation
Indices: 9314--9402 Score: 162
Period size: 43 Copynumber: 2.1 Consensus size: 43
9304 ACACACAAAT
9314 ATGTATCGATACATGAATAGTGATGTATCGATACATGAA-AGTG
1 ATGTATCGATACATGAA-AGTGATGTATCGATACATGAACAGTG
9357 ATGTATCGATACATGAAAGTGATGTATCGATACATGAACAGTG
1 ATGTATCGATACATGAAAGTGATGTATCGATACATGAACAGTG
9400 ATG
1 ATG
9403 AATAGTGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 21 0.47
43 24 0.53
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (43 bp):
ATGTATCGATACATGAAAGTGATGTATCGATACATGAACAGTG
Found at i:9409 original size:10 final size:10
Alignment explanation
Indices: 9390--9420 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9380 GTATCGATAC
9390 ATGAACAGTG
1 ATGAACAGTG
*
9400 ATGAATAGTG
1 ATGAACAGTG
9410 ATGAACAGTG
1 ATGAACAGTG
9420 A
1 A
9421 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:9560 original size:20 final size:20
Alignment explanation
Indices: 9497--9567 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
9487 GCCAATGACC
**
9497 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
9517 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
9537 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
9557 TGTATCGATAC
1 TGTATCGATAC
9568 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:9633 original size:21 final size:21
Alignment explanation
Indices: 9607--9647 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9597 GTCAACCTTG
9607 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
9628 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
9648 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:11296 original size:13 final size:13
Alignment explanation
Indices: 11278--11302 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11268 ACTGAAGCAA
11278 TGTATCGATACAT
1 TGTATCGATACAT
11291 TGTATCGATACA
1 TGTATCGATACA
11303 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:15046 original size:13 final size:13
Alignment explanation
Indices: 15028--15053 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15018 CTATTTATGA
15028 TGTATCGATACAC
1 TGTATCGATACAC
15041 TGTATCGATACAC
1 TGTATCGATACAC
15054 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:15104 original size:21 final size:22
Alignment explanation
Indices: 15060--15127 Score: 120
Period size: 22 Copynumber: 3.1 Consensus size: 22
15050 ACACACAAAT
*
15060 ATGTATCGATACATGAATAGTG
1 ATGTATCGATACATGAACAGTG
15082 ATGTATCGATACATGAA-AGTG
1 ATGTATCGATACATGAACAGTG
15103 ATGTATCGATACATGAACAGTG
1 ATGTATCGATACATGAACAGTG
15125 ATG
1 ATG
15128 AATAGTGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 21 0.47
22 24 0.53
ACGTcount: A:0.37, C:0.10, G:0.24, T:0.29
Consensus pattern (22 bp):
ATGTATCGATACATGAACAGTG
Found at i:15134 original size:10 final size:10
Alignment explanation
Indices: 15115--15145 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
15105 GTATCGATAC
15115 ATGAACAGTG
1 ATGAACAGTG
*
15125 ATGAATAGTG
1 ATGAACAGTG
15135 ATGAACAGTG
1 ATGAACAGTG
15145 A
1 A
15146 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:15285 original size:20 final size:20
Alignment explanation
Indices: 15222--15292 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
15212 GCCAATGACC
**
15222 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
15242 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
15262 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
15282 TGTATCGATAC
1 TGTATCGATAC
15293 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:15358 original size:21 final size:21
Alignment explanation
Indices: 15332--15372 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
15322 GTCAACCTTG
15332 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
15353 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
15373 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:19785 original size:16 final size:16
Alignment explanation
Indices: 19766--19798 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19756 TAAAAACAAT
19766 AAAAAGAAAAAAGAAA
1 AAAAAGAAAAAAGAAA
*
19782 AAAAAGAGAAAAGAAA
1 AAAAAGAAAAAAGAAA
19798 A
1 A
19799 GAACTTGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAAAAGAAA
Found at i:20844 original size:43 final size:40
Alignment explanation
Indices: 20755--20866 Score: 113
Period size: 43 Copynumber: 2.8 Consensus size: 40
20745 TATCTAAACT
* * * *
20755 TTCTCCTTTCACTTTTC-AGTCCTTAAAGAGTAGGACGCA
1 TTCTCCTTTAACCTTTCTAGTCCTCAAAGAGTAGGACACA
*
20794 TTTTCCTTTTAAAGCCTTTCTAGTCCTCAAAGAGTAGGACAC-
1 TTCTCC-TTT-AA-CCTTTCTAGTCCTCAAAGAGTAGGACACA
*
20836 TCTCTCCTTTCACCTTT-TAGTCCTCAAAGAG
1 T-TCTCCTTTAACCTTTCTAGTCCTCAAAGAG
20867 CAAGACGCCT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
39 19 0.31
40 8 0.13
41 2 0.03
42 9 0.15
43 23 0.38
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (40 bp):
TTCTCCTTTAACCTTTCTAGTCCTCAAAGAGTAGGACACA
Found at i:20914 original size:55 final size:55
Alignment explanation
Indices: 20854--21042 Score: 263
Period size: 55 Copynumber: 3.3 Consensus size: 55
20844 TTCACCTTTT
* * **
20854 AGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAATTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
*
20909 AGTCCTCAAAGAGCAGGACGCCGTTT-AAAGCCCACACAAGTTTGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCC-TTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
20964 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCACTTCCC
21025 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
21043 TGCTCTCTCC
Statistics
Matches: 120, Mismatches: 6, Indels: 10
0.88 0.04 0.07
Matches are distributed among these distances:
54 2 0.02
55 69 0.57
56 3 0.03
61 46 0.38
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCC
Found at i:21027 original size:61 final size:60
Alignment explanation
Indices: 20874--21055 Score: 248
Period size: 61 Copynumber: 3.1 Consensus size: 60
20864 GAGCAAGACG
* * **
20874 CCTTTCAAAGCCCACACAAATTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG-----
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTTCT
* *
20929 CCGTTTAAAGCCCACACAAGTTTGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACG-CTTCT
*
20990 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCTCTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCT-TCT
21051 CCTTT
1 CCTTT
21056 CGCCCTTTAG
Statistics
Matches: 111, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
55 49 0.44
60 2 0.02
61 60 0.54
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.24
Consensus pattern (60 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCTTCT
Found at i:21178 original size:27 final size:27
Alignment explanation
Indices: 21148--21233 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
21138 TGCCTTTTCC
21148 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * ** *
21175 TTTTCTAGTCCTCAAAGAGCAGGAT-GCC
1 TTTTAAAGCCCACACA-AGTTGG-TGGCA
*
21203 TTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
21230 TTTT
1 TTTT
21234 CCAGTCCTCA
Statistics
Matches: 38, Mismatches: 18, Indels: 6
0.61 0.29 0.10
Matches are distributed among these distances:
26 1 0.03
27 20 0.53
28 16 0.42
29 1 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:21192 original size:156 final size:155
Alignment explanation
Indices: 20909--21201 Score: 451
Period size: 156 Copynumber: 1.9 Consensus size: 155
20899 GGCACTTTTC
* *
20909 AGTCCTCAAAGAGCAGGACGCCGTTTAAAGCCCACACAAGTTTGTGGCACTTCCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCGTTTAAAGCCCACACAAGTTGGTGGCACTTCCCACTCCTCAAA
20974 GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGC
66 GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGC
21039 AGGATGCTCTCTCCTTTCGCCCTTT
131 AGGATGCTCTCTCCTTTCGCCCTTT
* * * * * *
21064 AGTCCTCAAAGAGCAGGATGTCTTTTATAGCCCACACAAGTTGGTGGCACTTTTCTACTCCTCAA
1 AGTCCTCAAAGAGCAGGACGCCGTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCCACTCCTCAA
* * * * * *
21129 AGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAG
65 AGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAG
21194 CAGGATGC
130 CAGGATGC
21202 CTTTCAAAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
155 45 0.37
156 78 0.63
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (155 bp):
AGTCCTCAAAGAGCAGGACGCCGTTTAAAGCCCACACAAGTTGGTGGCACTTCCCACTCCTCAAA
GAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGC
AGGATGCTCTCTCCTTTCGCCCTTT
Found at i:21203 original size:61 final size:61
Alignment explanation
Indices: 21063--21450 Score: 425
Period size: 61 Copynumber: 6.5 Consensus size: 61
21053 TTTCGCCCTT
*
21063 TAGTCCTCAAAGAGCAGGATG-----T-CTTTTATAGCCCACACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTC
* *
21119 TACTCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
21180 TAGTCCTCAAAGAGCAGGATGCC-TTT-C----AAAGCCCACACAAGTTGGTGGCATTTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
* * * * * **
21235 CAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTTAAAGACCACTCGAGTTAGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
* * * **
21296 CAATCCTCAAAGAGCAGGATG-C-TTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTC
1 TAGTCCTCAAAGAGCAGGATGCCTTTTC-CTTT-TAAAGCCCACACAAGTTGGTGGCATTTTC
* * *
21357 CAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-
1 TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA-TTTTC
21418 TAGTCCTCAAAGAGCAGGACT-CCTTTTCCTTTT
1 TAGTCCTCAAAGAGCAGGA-TGCCTTTTCCTTTT
21451 CTCCTTTGTC
Statistics
Matches: 285, Mismatches: 26, Indels: 36
0.82 0.07 0.10
Matches are distributed among these distances:
54 1 0.00
55 50 0.18
56 20 0.07
57 1 0.00
59 3 0.01
60 9 0.03
61 163 0.57
62 35 0.12
63 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (61 bp):
TAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
Found at i:21364 original size:177 final size:180
Alignment explanation
Indices: 21122--21450 Score: 465
Period size: 177 Copynumber: 1.8 Consensus size: 180
21112 ACTTTTCTAC
* * ** *
21122 TCCTCAAAGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCT
1 TCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCT
*
21187 CAAAGAGCAGGATG-C-C-TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGA
66 CAAAGAGCAGGACGCCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGA
*
21248 GCAGGA-TGCTTTCTCCTTTTAAAGACCACTCGAGTTAGTGGCACCTTCCAA
130 GCAGGACTCCTTT-TCCTTTTAAAGACCACTCGAGTTAGTGGCACCTTCCAA
21299 TCCTCAAAGAGCAGGATG-C-TTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
1 TCCTCAAAGAGCAGGATGCCTTTTC-CTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCCAGTC
* *
21362 CTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCA
64 CTCAAAGAGCAGGACGCC---TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCA
21427 AAGAGCAGGACTCCTTTTCCTTTT
126 AAGAGCAGGACTCCTTTTCCTTTT
21451 CTCCTTTGTC
Statistics
Matches: 133, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
175 4 0.03
176 5 0.04
177 62 0.47
178 1 0.01
182 1 0.01
183 51 0.38
184 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (180 bp):
TCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCT
CAAAGAGCAGGACGCCTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAG
CAGGACTCCTTTTCCTTTTAAAGACCACTCGAGTTAGTGGCACCTTCCAA
Found at i:21366 original size:122 final size:118
Alignment explanation
Indices: 21063--21436 Score: 499
Period size: 122 Copynumber: 3.2 Consensus size: 118
21053 TTTCGCCCTT
* * *
21063 TAGTCCTCAAAGAGCAGGATGTCT-TTT-ATAGCCCACACAAGTTGGTGGCACTTTTCTACTCCT
1 TAGTCCTCAAAGAGCAGGATGTCTCTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGTCCT
* * *
21126 CAAAGAGCATGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
65 CAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACTTTC
*
21180 TAGTCCTCAAAGAGCAGGATG-C-CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 TAGTCCTCAAAGAGCAGGATGTCTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTC
* * * *
21243 AAAGAGCAGGATG-CTTTCTCCTTTTAAAGACCACTCGAGTTAGTGGCACCTTC
66 AAAGAGCAGGATGCCTTT-TCCTTTTAAAGCCCACACGAGTTGGTGGCACTTTC
* * *
21296 CAATCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGT
1 TAGTCCTCAAAGAGCAGGATG---TCTCTTT-CAAAGCCCACACAAGTTGGTGGCACTTTCCAGT
* *
21361 CCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT
62 CCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACGAGTTGGTGGCACTTTC
21418 TAGTCCTCAAAGAGCAGGA
1 TAGTCCTCAAAGAGCAGGA
21437 CTCCTTTTCC
Statistics
Matches: 223, Mismatches: 23, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
115 4 0.02
116 74 0.33
117 43 0.19
120 1 0.00
121 9 0.04
122 88 0.39
123 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (118 bp):
TAGTCCTCAAAGAGCAGGATGTCTCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTC
AAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACTTTC
Found at i:21557 original size:87 final size:85
Alignment explanation
Indices: 21441--21605 Score: 217
Period size: 87 Copynumber: 1.9 Consensus size: 85
21431 GCAGGACTCC
21441 TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACACTTC-ATTCCCTTCTTTTCCCTTTTGT
1 TTTTCCTTTTCT-CTTTGTCCTCAAAGAGCAGGACACACTTCGATTCCCTT-TTTT-CC-TTTGT
21505 CCACAAAAAGCAGGACGCACTATG
62 CCACAAAAAGCAGGACGCACTATG
* * * * *
21529 TTTTCCTCTTTCT-TTTGTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTTTCCTTTGTCCT
1 TTTTCCT-TTTCTCTTTGTCCTCAAAGAGCAGGACACACTTCGATTCCCTTTTTTCCTTTGTCCA
*
21593 CGAAAAGCAGGAC
65 CAAAAAGCAGGAC
21606 ATACTCTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
85 19 0.28
86 2 0.03
87 30 0.43
88 13 0.19
89 5 0.07
ACGTcount: A:0.19, C:0.28, G:0.14, T:0.38
Consensus pattern (85 bp):
TTTTCCTTTTCTCTTTGTCCTCAAAGAGCAGGACACACTTCGATTCCCTTTTTTCCTTTGTCCAC
AAAAAGCAGGACGCACTATG
Found at i:21559 original size:42 final size:42
Alignment explanation
Indices: 21415--21605 Score: 162
Period size: 42 Copynumber: 4.5 Consensus size: 42
21405 TGGTGGCACT
*
21415 TTTTAGTCCTCAAAGAGCAGGACTC-C---TTTTCCTT-TTCTC
1 TTTT-GTCCTCAAAGAGCAGGACGCACTTGTTTTCCTTCTT-TC
* * ** *
21454 CTTTGTCCTCAAAGAGCAGGACACACTTCATTCCCTTCTTTTCCC
1 TTTTGTCCTCAAAGAGCAGGACGCACTTGTTTTCCTTC-TTT--C
* *
21499 TTTTGTCCACAAAAAGCAGGACGCACTATGTTTTCC-TCTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACT-TGTTTTCCTTCTTTC
* *
21541 TTTTGTCCTCAAAGAGCAGGACGCATTTCGTTTTCCTTTTTTC
1 TTTTGTCCTCAAAGAGCAGGACGCACTT-GTTTTCCTTCTTTC
*
21584 CTTTGTCCTCGAAA-AGCAGGAC
1 TTTTGTCCTC-AAAGAGCAGGAC
21606 ATACTCTTTT
Statistics
Matches: 124, Mismatches: 16, Indels: 20
0.77 0.10 0.12
Matches are distributed among these distances:
38 19 0.15
39 4 0.03
41 1 0.01
42 38 0.31
43 23 0.19
44 8 0.06
45 26 0.21
46 5 0.04
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (42 bp):
TTTTGTCCTCAAAGAGCAGGACGCACTTGTTTTCCTTCTTTC
Found at i:21679 original size:41 final size:40
Alignment explanation
Indices: 21612--21711 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
21602 GGACATACTC
* *
21612 TTTTTCACTTTGTCCTTAAGATGCAGGA-C-ACTTTCCTTTTCT
1 TTTTTC-CTTTGTCCTCAAGATGCAGGATCTA-TTT-C-ATTCT
21654 TTTTTCCTTTGTCCTCAAGGA-GCAGGATCTATTTCATTCT
1 TTTTTCCTTTGTCCTCAA-GATGCAGGATCTATTTCATTCT
*
21694 CTTTTCCTTTGTCCTCAA
1 TTTTTCCTTTGTCCTCAA
21712 AAAGTGGGGC
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
40 21 0.40
41 18 0.35
42 12 0.23
43 1 0.02
ACGTcount: A:0.16, C:0.25, G:0.12, T:0.47
Consensus pattern (40 bp):
TTTTTCCTTTGTCCTCAAGATGCAGGATCTATTTCATTCT
Found at i:22414 original size:49 final size:50
Alignment explanation
Indices: 22291--22424 Score: 209
Period size: 49 Copynumber: 2.7 Consensus size: 50
22281 TTTCACAATT
*
22291 TGTATCGATACATTATTTATTGTATCGATACATTCTAGGTTTTACCCAGA
1 TGTATCGATACATTATTCATTGTATCGATACATTCTAGGTTTTACCCAGA
* *
22341 TGTATCGATACATTGTTCATTGTATCGATACATTCTAGG-TTTACCTAGA
1 TGTATCGATACATTATTCATTGTATCGATACATTCTAGGTTTTACCCAGA
*
22390 TGTATCGATACACTT-TTCAATGTATCGATACATTC
1 TGTATCGATACA-TTATTCATTGTATCGATACATTC
22425 AGGCATTTTT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
49 40 0.51
50 39 0.49
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTATTCATTGTATCGATACATTCTAGGTTTTACCCAGA
Found at i:24901 original size:50 final size:51
Alignment explanation
Indices: 24832--24950 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
24822 TTATTTCCAA
* *
24832 GGGGATACTCTAACCCCGATTTTATTTTCAAAA-ATCAATTTTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATC
* * * *
24882 GTGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATC
24933 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
24951 CTATTTCATC
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 29 0.48
51 31 0.52
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATC
Found at i:24966 original size:28 final size:27
Alignment explanation
Indices: 24930--25006 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 27
24920 ATTTTTCATA
24930 ATCGGGGATACTCCAACCCCGCTATTT
1 ATCGGGGATACTCCAACCCCGCTATTT
* *
24957 CATCGGGGATACTCCAACTCCGTTATTT
1 -ATCGGGGATACTCCAACCCCGCTATTT
* *
24985 TTGAGGGGATACTCCAACCCCG
1 AT-CGGGGATACTCCAACCCCG
25007 ACTTTATTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 42 0.98
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCGCTATTT
Found at i:25108 original size:158 final size:156
Alignment explanation
Indices: 24801--25134 Score: 399
Period size: 158 Copynumber: 2.1 Consensus size: 156
24791 ATTTTTTACA
* * * *
24801 ATCGAGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCTAACCCCGATTTTATTTTCAAAAA
1 ATCGGGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
* ** *
24866 TCAATTTTCCACAATCGTGGATACTCCAACTCCGATTTTATTTCCAAAACATCAATTTTTCATAA
66 TCAATTTTCCACAATCGTGGATACTCCAACCCCGACCTTATTTCCAAAACATCAATTTTTCACAA
24931 TCGGGGATACTCCAACCCCGCTATTT
131 TCGGGGATACTCCAACCCCGCTATTT
***
24957 CATCGGGGATACTCCAACTCC-GTTATTTTTGAGGGGATACTCCAACCCCGACTTTATTTCCAAA
1 -ATCGGGGATACTCCAAC-CCTGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAA
** * * * *
25021 ATAT-TGTTTTCTCACAATTG-GAGATACTCTAACCCC-AGCCTTATTTCTAAAGCATCAATTTT
64 A-ATCAATTTTC-CACAATCGTG-GATACTCCAACCCCGA-CCTTATTTCCAAAACATCAATTTT
*
25083 TCACAATCGGGGATACTCCAACCCCGTTATTT
125 TCACAATCGGGGATACTCCAACCCCGCTATTT
25115 -TCGAGGAGATACTCCAACCC
1 ATCG-GG-GATACTCCAACCC
25135 CGATTTTATT
Statistics
Matches: 152, Mismatches: 18, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
156 3 0.02
157 65 0.43
158 84 0.55
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (156 bp):
ATCGGGGATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
TCAATTTTCCACAATCGTGGATACTCCAACCCCGACCTTATTTCCAAAACATCAATTTTTCACAA
TCGGGGATACTCCAACCCCGCTATTT
Found at i:25123 original size:79 final size:78
Alignment explanation
Indices: 25040--25269 Score: 257
Period size: 79 Copynumber: 2.9 Consensus size: 78
25030 TCTCACAATT
* ** * *
25040 GGAGATACTCTAACCCCAGCCTTATTTCTAAAGCATCAATTTTTCACAATCGGGGATACTCCAAC
1 GGAGATACTCCAACCCCAGTTTTATTTCTAAA-CATCGATTTTTCATAATCGGGGATACTCCAAC
25105 CCCGTTATTTTCGA
65 CCCGTTATTTTCGA
* * *
25119 GGAGATACTCCAACCCC-GATTTTATTTTCAAAATATCGA-TTTTCTATAATCAGGGATACTCCA
1 GGAGATACTCCAACCCCAG-TTTTA-TTTCTAAACATCGATTTTTC-ATAATCGGGGATACTCCA
*
25182 ACCCTGTTATTTTCGA
63 ACCCCGTTATTTTCGA
* * * * * *
25198 GGGGATACTCCAACCCTGATTTTTATTTCTAGAACACCGATTTTTCATAATCGAGGATACTCCAG
1 GGAGATACTCCAACCC-CAGTTTTATTTCTA-AACATCGATTTTTCATAATCGGGGATACTCCAA
25263 CCCCGTT
64 CCCCGTT
25270 GTTATCTCCA
Statistics
Matches: 125, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
78 6 0.05
79 74 0.59
80 40 0.32
81 5 0.04
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (78 bp):
GGAGATACTCCAACCCCAGTTTTATTTCTAAACATCGATTTTTCATAATCGGGGATACTCCAACC
CCGTTATTTTCGA
Found at i:28378 original size:52 final size:52
Alignment explanation
Indices: 28300--28416 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
28290 TTCTGTAGCT
* *
28300 ATGTATCGATACATGCATTTGAAATTATAGTCGTTTATAGCCGTTTGAAGCA
1 ATGTATCGATACATGCATTTGAAATTATAGTCATTTATAGCCGTTCGAAGCA
*
28352 ATGTATCAATACATGCATTTGAAATTATAGTCATTTATAGCCGTTCGAAGCA
1 ATGTATCGATACATGCATTTGAAATTATAGTCATTTATAGCCGTTCGAAGCA
28404 ATGTATCGATACA
1 ATGTATCGATACA
28417 ATTCATCATG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (52 bp):
ATGTATCGATACATGCATTTGAAATTATAGTCATTTATAGCCGTTCGAAGCA
Found at i:28418 original size:13 final size:13
Alignment explanation
Indices: 28402--28453 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
28392 CCGTTCGAAG
28402 CAATGTATCGATA
1 CAATGTATCGATA
28415 CAA--T-TC-AT-
1 CAATGTATCGATA
28423 C-ATGTATCGATA
1 CAATGTATCGATA
*
28435 CATTGTATCGATA
1 CAATGTATCGATA
28448 CAATGT
1 CAATGT
28454 GCCATGTATC
Statistics
Matches: 31, Mismatches: 2, Indels: 12
0.69 0.04 0.27
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.10
10 4 0.13
11 3 0.10
12 1 0.03
13 18 0.58
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:28447 original size:33 final size:33
Alignment explanation
Indices: 28405--28469 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
28395 TTCGAAGCAA
28405 TGTATCGATACAAT-T-CATCATGTATCGATACAT
1 TGTATCGATACAATGTGC--CATGTATCGATACAT
28438 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCGATACAATGTGCCATGTATCGATACA
28470 AACAATGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:28543 original size:19 final size:19
Alignment explanation
Indices: 28500--28554 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
28490 TGTCAATTTT
**
28500 ATGTATCGATACAATTGTGC
1 ATGTATCGATACAA-TGAAC
28520 ATGTATCGATACAATGAAC
1 ATGTATCGATACAATGAAC
28539 ATGTATCGATACAATG
1 ATGTATCGATACAATG
28555 TATGGATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (19 bp):
ATGTATCGATACAATGAAC
Found at i:37236 original size:20 final size:19
Alignment explanation
Indices: 37211--37283 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
37201 CTGCCAATTT
**
37211 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
37231 CATGTATCGATGCAATGAA
1 CATGTATCGATACAATGAA
*
37250 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
37271 -ATGTATCGATACA
1 CATGTATCGATACA
37284 TTTGGGTGTA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 17 0.37
20 28 0.61
21 1 0.02
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:37255 original size:19 final size:20
Alignment explanation
Indices: 37211--37264 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
37201 CTGCCAATTT
**
37211 CATGTATCGATACAATTGTG
1 CATGTATCGATACAATTGAA
*
37231 CATGTATCGATGCAA-TGAA
1 CATGTATCGATACAATTGAA
37250 CATGTATCGATACAA
1 CATGTATCGATACAA
37265 AGCATAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:41120 original size:19 final size:20
Alignment explanation
Indices: 41096--41146 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
41086 TGTATCGATG
*
41096 TATCGATACATGTTC-ATTA
1 TATCGATACATGCTCAATTA
* *
41115 TATCGATACATACTCAATTG
1 TATCGATACATGCTCAATTA
41135 TATCGATACATG
1 TATCGATACATG
41147 AACTGGAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (20 bp):
TATCGATACATGCTCAATTA
Found at i:41140 original size:20 final size:19
Alignment explanation
Indices: 41094--41145 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
41084 ATTGTATCGA
**
41094 TGTATCGATACATGTTCAT
1 TGTATCGATACATACTCAT
*
41113 TATATCGATACATACTCAAT
1 TGTATCGATACATACTC-AT
41133 TGTATCGATACAT
1 TGTATCGATACAT
41146 GAACTGGAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATACTCAT
Found at i:45049 original size:17 final size:17
Alignment explanation
Indices: 45027--45063 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
45017 ATCTTAAATA
45027 TAAAAAATAATTTATTT
1 TAAAAAATAATTTATTT
*
45044 TAAAAAATATTTTATTT
1 TAAAAAATAATTTATTT
45061 TAA
1 TAA
45064 TTATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAAAAAATAATTTATTT
Found at i:45090 original size:25 final size:25
Alignment explanation
Indices: 45044--45091 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45034 TAATTTATTT
* * *
45044 TAAAAAATATTTTATTTTAATTATA
1 TAAAAAATATTTAATATAAATTATA
45069 TAAAAAATATTTAATATAAATTA
1 TAAAAAATATTTAATATAAATTA
45092 AAAATTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TAAAAAATATTTAATATAAATTATA
Found at i:45095 original size:21 final size:22
Alignment explanation
Indices: 45069--45116 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
45059 TTTAATTATA
45069 TAAAAA-ATATTTAAT-ATAAAT
1 TAAAAATATATTT-ATCATAAAT
*
45090 TAAAAATTTATTTATCATAAAT
1 TAAAAATATATTTATCATAAAT
45112 TAAAA
1 TAAAA
45117 TTTAATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAATATATTTATCATAAAT
Found at i:45118 original size:21 final size:22
Alignment explanation
Indices: 45076--45120 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
45066 ATATAAAAAA
45076 TATTTAATATAAATTAAAAATT
1 TATTTAATATAAATTAAAAATT
45098 TATTT-ATCATAAATT-AAAATT
1 TATTTAAT-ATAAATTAAAAATT
45119 TA
1 TA
45121 ATATTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TATTTAATATAAATTAAAAATT
Found at i:51063 original size:12 final size:13
Alignment explanation
Indices: 51040--51064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51030 GAATATGGAT
51040 ATTTTAAAAAAAA
1 ATTTTAAAAAAAA
51053 ATTTTAAAAAAA
1 ATTTTAAAAAAA
51065 TAAGAGTTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTTTAAAAAAAA
Found at i:51595 original size:13 final size:14
Alignment explanation
Indices: 51572--51618 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 14
51562 AAAAAAATAA
51572 TAATTAAAAATATT
1 TAATTAAAAATATT
*
51586 TAATT-AAAATATG
1 TAATTAAAAATATT
51599 TATATATAATAAATATT
1 TA-AT-TAA-AAATATT
51616 TAA
1 TAA
51619 AATTTATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 9 0.33
14 7 0.26
15 1 0.04
16 2 0.07
17 8 0.30
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
TAATTAAAAATATT
Found at i:51663 original size:67 final size:67
Alignment explanation
Indices: 51592--51790 Score: 160
Period size: 73 Copynumber: 2.9 Consensus size: 67
51582 TATTTAATTA
51592 AAATATGTATATATAATAAATATTTAAAATTTATTAAAATTATATTTATATTAAAATAAT-AAAA
1 AAATAT-TATATATAATAAATA-TTAAAATTTATTAAAATTATATTTATATTAAAATAATGAAAA
51656 TA-T
64 TATT
* * *
51659 AAATAAATTATATTTATGTTGAAT-AATAATTAAAAATTATAAAAATTATATTTATATTAATA-A
1 AAAT--ATTATA--TA---T-AATAAAT-ATTAAAATTTATTAAAATTATATTTATATTAAAATA
*
51722 ATGTAAATATT
57 ATGAAAATATT
* * *
51733 AAA-ATTATATA-AATTAAACAATAAAATTATATTAAAAATTATATTTAT-TTTAAATAAT
1 AAATATTATATATAA-TAAATATTAAAATT-TATT-AAAATTATATTTATATTAAAATAAT
51791 TATTAACATA
Statistics
Matches: 106, Mismatches: 10, Indels: 32
0.72 0.07 0.22
Matches are distributed among these distances:
64 2 0.02
65 8 0.08
66 9 0.08
67 21 0.20
68 4 0.04
69 4 0.04
70 2 0.02
71 6 0.06
72 3 0.03
73 39 0.37
74 8 0.08
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.43
Consensus pattern (67 bp):
AAATATTATATATAATAAATATTAAAATTTATTAAAATTATATTTATATTAAAATAATGAAAATA
TT
Found at i:51732 original size:22 final size:22
Alignment explanation
Indices: 51691--51764 Score: 73
Period size: 22 Copynumber: 3.5 Consensus size: 22
51681 ATAATAATTA
*
51691 AAAATTATAAAAATT--ATATT
1 AAAATTATATAAATTAAATATT
* *
51711 TATATTA-ATAAATGTAAATATT
1 AAAATTATATAAAT-TAAATATT
* *
51733 AAAATTATATAAATTAAACAAT
1 AAAATTATATAAATTAAATATT
51755 AAAATTATAT
1 AAAATTATAT
51765 TAAAAATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
19 5 0.12
20 6 0.14
22 26 0.60
23 6 0.14
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (22 bp):
AAAATTATATAAATTAAATATT
Found at i:51831 original size:13 final size:14
Alignment explanation
Indices: 51813--51871 Score: 51
Period size: 13 Copynumber: 4.7 Consensus size: 14
51803 ATTTATGATA
51813 AAAAT-AAATTAAT
1 AAAATAAAATTAAT
51826 AAAATAAAATTAA-
1 AAAATAAAATTAAT
*
51839 AAATTAAAA-TAA-
1 AAAATAAAATTAAT
51851 AAAA-AAAA--AAT
1 AAAATAAAATTAAT
*
51862 AAAAAAAAAT
1 AAAATAAAAT
51872 AAGGGTTGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 2 0.05
11 8 0.20
12 10 0.25
13 13 0.32
14 7 0.17
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATAAAATTAAT
Found at i:51839 original size:6 final size:5
Alignment explanation
Indices: 51823--51873 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
51813 AAAATAAATT
*
51823 AATAA AATAA AATTAAA AATTAA AATAA AA-AA AA-AA AATAA AAAAA
1 AATAA AATAA AA-T-AA AA-TAA AATAA AATAA AATAA AATAA AATAA
51869 AATAA
1 AATAA
51874 GGGTTGGAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 8 0.20
5 22 0.54
6 5 0.12
7 6 0.15
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:51846 original size:18 final size:18
Alignment explanation
Indices: 51813--51873 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
51803 ATTTATGATA
**
51813 AAAATAAATTAATAAAAT
1 AAAATAAAAAAATAAAAT
* *
51831 AAAATTAAAAATTAAAAT
1 AAAATAAAAAAATAAAAT
* *
51849 AAAAAAAAAAAATAAAAA
1 AAAATAAAAAAATAAAAT
51867 AAAATAA
1 AAAATAA
51874 GGGTTGGAGA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAATAAAAAAATAAAAT
Found at i:55380 original size:13 final size:13
Alignment explanation
Indices: 55362--55388 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55352 ACAGAGATCA
55362 AATGTATCGATAC
1 AATGTATCGATAC
55375 AATGTATCGATAC
1 AATGTATCGATAC
55388 A
1 A
55389 TTTGAGTAAT
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):
AATGTATCGATAC
Found at i:56360 original size:52 final size:49
Alignment explanation
Indices: 56244--57040 Score: 647
Period size: 49 Copynumber: 16.8 Consensus size: 49
56234 CAAAGAATGA
* * * * * *
56244 CAATGTGCTGATTCATGGCCAACGATATTAGATTTGAAGA-AGAA--TGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATA-AAGGTGC
* * ** * * *
56291 TAATGTGCTGAGACAAGGCCAACGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTA--AA-GATAAAGGTGC
* * *
56343 CAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* *
56392 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT---AAAGGTGC
* * * *
56444 CAATATGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* * *
56492 CAATATGCTGATTCAAGGCCAATGATATTGGGC-T-----T--A--TGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* * * * * * *
56531 CAATGTGCTGATTCAAGGCCAGCGACATTCGTCTTAGAGA-CAAGCTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* *
56579 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* * * * *
56622 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* *
56670 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* * * * *
56713 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* ** * *
56762 CAATATGCTGGTTCAAGGCCAGTGATATTGGAC-T-----TAAAGGTCC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* * * * *
56805 CGATGTGCTGATT-AAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* *
56853 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACGAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT-A--AAGGTGC
* * *
56905 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* * * *
56954 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
* * *
57003 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAA
57041 AGAAAACGCC
Statistics
Matches: 617, Mismatches: 89, Indels: 86
0.78 0.11 0.11
Matches are distributed among these distances:
39 30 0.05
40 1 0.00
41 1 0.00
42 16 0.03
43 90 0.15
44 2 0.00
46 1 0.00
47 30 0.05
48 123 0.20
49 192 0.31
50 6 0.01
51 1 0.00
52 124 0.20
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATAAAGGTGC
Found at i:56405 original size:49 final size:48
Alignment explanation
Indices: 56335--57046 Score: 754
Period size: 49 Copynumber: 15.1 Consensus size: 48
56325 TAGGAATGTT
* * *
56335 AAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * *
56383 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAA
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG---A
* * *
56435 CAAAGGTGCCAATATGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* ** *
56484 CAAGGTGCCAATATGCTGATTCAAGGCCAATGATATTGGGCTT-----
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * * * *
56527 --A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTCGTCTTAGAGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* *
56571 CAAGCTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * * *
56614 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
*
56662 CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * * *
56705 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* *
56753 CAAAGGTGCCAATATGCTGGTTCAAGGCCAGTGATATTGGACTT-----
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * * * *
56797 AAAGGTCCCGATGTGCTGATT-AAGGCCAGCGACATTGGTCTTAAAGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
56844 CAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
56893 TGACGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
1 --A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
* * * *
56945 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
*
56994 CAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAAGA
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAAGA
57044 AAA
1 AAA
57047 CGCCACCAAC
Statistics
Matches: 559, Mismatches: 70, Indels: 68
0.80 0.10 0.10
Matches are distributed among these distances:
39 32 0.06
41 1 0.00
42 18 0.03
43 93 0.17
46 1 0.00
48 128 0.23
49 189 0.34
50 6 0.01
52 91 0.16
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (48 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
Found at i:56658 original size:91 final size:91
Alignment explanation
Indices: 56436--57040 Score: 797
Period size: 91 Copynumber: 6.5 Consensus size: 91
56426 TAAAGATAAC
* *
56436 AAAGGTGCCAATATGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
** *
56501 GATTCAAGGCCAATGATATTGGGCTT
66 GATTCAAGGCCAGCGATATTGGACTT
* * *
56527 --A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTCGTCTTAGAGACAAGCTGCCAATATGCT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
56588 GATTCAAGGCCAGCGATATTGGACTT
66 GATTCAAGGCCAGCGATATTGGACTT
*
56614 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
56679 GATTCAAGGCCAGCGATATTGGACTT
66 GATTCAAGGCCAGCGATATTGGACTT
*
56705 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAC-AAGGTGCCAATATGC
* *
56770 TGGTTCAAGGCCAGTGATATTGGACTT
65 TGATTCAAGGCCAGCGATATTGGACTT
* *
56797 AAAGGTCCCGATGTGCTGATT-AAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAC-AAGGTGCCAATATGC
56861 TGATTCAAGGCCAGCGATATTGGACTTAAAGAT
65 TGATTCAAGGCCAGCGATATTGGAC-T-----T
* * * * *
56894 GACGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 -A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATA
* *
56959 TGCTGATTCAAGGCCAGCGACATTGGTCTT
62 TGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
56989 AAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAA
1 ------AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
57041 AGAAAACGCC
Statistics
Matches: 463, Mismatches: 30, Indels: 35
0.88 0.06 0.07
Matches are distributed among these distances:
87 78 0.17
89 2 0.00
91 196 0.42
92 60 0.13
95 1 0.00
97 1 0.00
98 45 0.10
100 19 0.04
101 61 0.13
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (91 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTT
Found at i:57146 original size:27 final size:27
Alignment explanation
Indices: 57114--57167 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
57104 TGGAGAAAGA
* *
57114 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGAAATTGTGGACTTAAAAGGG
57141 TGCCACGAAATTGTGGACTTAAAAGGG
1 TGCCACGAAATTGTGGACTTAAAAGGG
57168 AAAAAGAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (27 bp):
TGCCACGAAATTGTGGACTTAAAAGGG
Found at i:57180 original size:35 final size:34
Alignment explanation
Indices: 57134--57281 Score: 153
Period size: 35 Copynumber: 4.4 Consensus size: 34
57124 TTGTGGACTT
* *
57134 AAAAGGGTGCCACGAAATTGTGGAC-TTAAAAGGGA
1 AAAAGAGTGCCACGAAATTGTGGGCTTTAAAA--GA
*
57169 AAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGA
1 AAAAGAGTGCCACGAAATTGTGGGCTTT-AAAAGA
* *
57204 AAAGGAGTGCCACGGAATTGTGGGCTTTGAAAAGA
1 AAAAGAGTGCCACGAAATTGTGGGCTTT-AAAAGA
* * *
57239 AAAAGA-TGCCACGGAGTTGTGGGCTTT-TAAG-
1 AAAAGAGTGCCACGAAATTGTGGGCTTTAAAAGA
57270 AAAAGA-TGCCAC
1 AAAAGAGTGCCAC
57282 TGAGTCGTGG
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
31 12 0.12
32 3 0.03
34 20 0.20
35 60 0.59
36 2 0.02
37 4 0.04
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (34 bp):
AAAAGAGTGCCACGAAATTGTGGGCTTTAAAAGA
Found at i:57241 original size:70 final size:67
Alignment explanation
Indices: 57134--57303 Score: 197
Period size: 69 Copynumber: 2.5 Consensus size: 67
57124 TTGTGGACTT
*
57134 AAAAGG-GTGCCACGAAATTGTGGAC-TT-AAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTT
1 AAAAGGAGTGCCACGGAATTGTGGACTTTGAAAA--GAAAAAGA-TGCCACGAAGTTGTGGGCTT
57196 TAAAAAG
63 T--AAAG
* * *
57203 AAAAGGAGTGCCACGGAATTGTGGGCTTTGAAAAGAAAAAGATGCCACGGAGTTGTGGGCTTTTA
1 AAAAGGAGTGCCACGGAATTGTGGACTTTGAAAAGAAAAAGATGCCACGAAGTTGTGGGCTTTAA
57268 AG
66 AG
* * *
57270 AAAA-GA-TGCCACTGAGTCGTGGACTTTGAAAAGA
1 AAAAGGAGTGCCACGGAATTGTGGACTTTGAAAAGA
57304 GATTGCCACT
Statistics
Matches: 90, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
65 24 0.27
66 2 0.02
67 7 0.08
69 26 0.29
70 25 0.28
71 2 0.02
72 4 0.04
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (67 bp):
AAAAGGAGTGCCACGGAATTGTGGACTTTGAAAAGAAAAAGATGCCACGAAGTTGTGGGCTTTAA
AG
Found at i:57259 original size:34 final size:35
Alignment explanation
Indices: 57167--57303 Score: 167
Period size: 35 Copynumber: 4.1 Consensus size: 35
57157 ACTTAAAAGG
* *
57167 GAAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
* *
57202 GAAAAGGAGTGCCACGGAATTGTGGGCTTTGAAAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
*
57237 GAAAAAGA-TGCCACGGAGTTGTGGGCTTT--TAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
* * *
57269 G-AAAAGA-TGCCACTGAGTCGTGGACTTTGAAAA
1 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
57302 GA
1 GA
57304 GATTGCCACT
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
31 24 0.27
32 3 0.03
33 3 0.03
34 20 0.23
35 38 0.43
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (35 bp):
GAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAA
Found at i:57277 original size:31 final size:32
Alignment explanation
Indices: 57109--57359 Score: 151
Period size: 35 Copynumber: 7.8 Consensus size: 32
57099 TGAAATGGAG
57109 AAAGA-TGCCACGGAGTTGTGGAC-TT----A
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAGA
* * * *
57135 AAAGGGTGCCACGAAATTGTGGACTTAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAA--G-A
* *
57170 AAAGAGTGCCACGAAGTTGTGGGCTTTAAAAAGA
1 AAAGAGTGCCACGGAGTTGTGGACTTT--AAAGA
* *
57204 AAAGGAGTGCCACGGAATTGTGGGCTTTGAAAAGA
1 AAA-GAGTGCCACGGAGTTGTGGACTTT--AAAGA
* *
57239 AAA-AGATGCCACGGAGTTGTGGGCTTTTAAGA
1 AAAGAG-TGCCACGGAGTTGTGGACTTTAAAGA
* * *
57271 AAAGA-TGCCACTGAGTCGTGGACTTTGAA-A
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAGA
* * ** **
57301 AGAGATTGCCACTAAGTTGTGGACTTTGGAGA
1 AAAGAGTGCCACGGAGTTGTGGACTTTAAAGA
* * * *
57333 AAAAAATGCCACTGAGTCGTGGACTTT
1 AAAGAGTGCCACGGAGTTGTGGACTTT
57360 GGGACAAAAT
Statistics
Matches: 183, Mismatches: 26, Indels: 26
0.78 0.11 0.11
Matches are distributed among these distances:
26 4 0.02
27 16 0.09
28 1 0.01
30 5 0.03
31 41 0.22
32 30 0.16
33 3 0.02
34 24 0.13
35 56 0.31
37 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.23
Consensus pattern (32 bp):
AAAGAGTGCCACGGAGTTGTGGACTTTAAAGA
Found at i:57371 original size:30 final size:30
Alignment explanation
Indices: 57237--57389 Score: 148
Period size: 31 Copynumber: 4.9 Consensus size: 30
57227 GCTTTGAAAA
* * * **
57237 GAAAAAGATGCCACGGAGTTGTGGGCTTTTAA
1 GAAAAA-ATGCCACTGAGTCGTGGAC-TTTGG
*
57269 GAAAAGATGCCACTGAGTCGTGGACTTT--
1 GAAAAAATGCCACTGAGTCGTGGACTTTGG
* *
57297 GAAAAGAGATTGCCACTAAGTTGTGGACTTTGG
1 GAAAA-A-A-TGCCACTGAGTCGTGGACTTTGG
57330 AGAAAAAAATGCCACTGAGTCGTGGACTTTGG
1 -G-AAAAAATGCCACTGAGTCGTGGACTTTGG
*
57362 GACAAAATGCCACTGAGTCGTGGACTTT
1 GAAAAAATGCCACTGAGTCGTGGACTTT
57390 AAGAAGGTAT
Statistics
Matches: 104, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
28 5 0.05
30 30 0.29
31 36 0.35
32 26 0.25
33 1 0.01
34 2 0.02
35 4 0.04
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.25
Consensus pattern (30 bp):
GAAAAAATGCCACTGAGTCGTGGACTTTGG
Found at i:57373 original size:62 final size:61
Alignment explanation
Indices: 57237--57394 Score: 180
Period size: 62 Copynumber: 2.6 Consensus size: 61
57227 GCTTTGAAAA
* * * *
57237 GAAAA-AGATGCCACGGAGTTGTGGGCTTTTAAGAAAAGATGCCACTGAGTCGTGGACTTT
1 GAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTT
* *
57297 GAAAAGAGATTGCCACTAAGTTGTGGACTTTGGAGAAAAAAATGCCACTGAGTCGTGGACTTT
1 GAAAAGAGA-TGCCACTGAGTTGTGGACTTTGAAG-AAAAAATGCCACTGAGTCGTGGACTTT
* *
57360 GGGACAA-A-ATGCCACTGAGTCGTGGACTTT-AAGAA
1 --GAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAA
57395 GGTATTTGAA
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
60 7 0.08
61 5 0.06
62 39 0.47
63 27 0.33
64 1 0.01
65 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.28, T:0.24
Consensus pattern (61 bp):
GAAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTT
Found at i:65798 original size:13 final size:13
Alignment explanation
Indices: 65780--65831 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
65770 AGCTTCGTAG
65780 CGATACATTGTAT
1 CGATACATTGTAT
65793 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
65812 CGATACATTGTAT
1 CGATACATTGTAT
65825 CGATACA
1 CGATACA
65832 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:65812 original size:19 final size:18
Alignment explanation
Indices: 65788--65848 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
65778 AGCGATACAT
65788 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
65807 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
65820 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
65839 TGTATCGATA
1 TGTATCGATA
65849 GAGTTACGGT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:65821 original size:32 final size:32
Alignment explanation
Indices: 65780--65848 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
65770 AGCTTCGTAG
65780 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
65812 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
65844 CGATA
1 CGATA
65849 GAGTTACGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.36, C:0.17, G:0.13, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:68242 original size:15 final size:17
Alignment explanation
Indices: 68222--68261 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
68212 TATACTTTTT
*
68222 ATTTAATTAAGT-C-AA
1 ATTTAATTAAATCCTAA
68237 ATTTAATTAAATCCTAA
1 ATTTAATTAAATCCTAA
68254 ATTTAATT
1 ATTTAATT
68262 CAACAAATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 1 0.05
17 10 0.45
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (17 bp):
ATTTAATTAAATCCTAA
Found at i:68782 original size:43 final size:43
Alignment explanation
Indices: 68734--69959 Score: 179
Period size: 43 Copynumber: 28.8 Consensus size: 43
68724 GAGTTCTCAT
**
68734 ATGGGCAGACGATTGACAAAAAAAGTCTCCCAAGTCTAAGCCA
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* *** *** *
68777 ATGGGCAGATGATTGA-TGGAAAAGTCTCATTGGTC-AGAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTA-AGCCA
** * ** *
68819 ACAGGTAGACGATTGACAAATGAAGTCTCCCGGGTCTAA-TCA
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * *
68861 GCTGGGCAGACGATT-A-ATGAAAAAGTCTCCCGGGTCTAAGCCG
1 -ATGGGCAGACGATTGACA-AAAAAAGTCTCCCGGGTCTAAGCCA
* ** * ** *
68904 ATGGGCAGACAATTGACAAAGGAAGTCTCCAGGGTCTTTGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * ** * ** * *
68947 ACGGGCAAACGATTGACAAAGGAAGTCTTCTAGGTCTAAGACG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * * ** ** * * ***
68990 ACGGGTAGACGGTT-A-ATGGAAAAGTCTCTTGGGTTTGAGTTG
1 ATGGGCAGACGATTGACA-AAAAAAGTCTCCCGGGTCTAAGCCA
* * * *** ** *
69032 ACGGGCAAACGAATGA-TGGAAAAGTCTCCTAGGTCTAAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
** * * * ** * * *
69074 ACAGGCTGATGATTGACCAAGGAAGTCTCTCGAGTCTAAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * ** ** * * *
69117 ACGGGTAGACGATTG-CTAAAGGAAGTCTCCCAAGTCTGAGTCG
1 ATGGGCAGACGATTGAC-AAAAAAAGTCTCCCGGGTCTAAGCCA
** ** * * *
69160 GCGGGCAGACGATTGACAAAGGAAGTCTCTCGAGTCTAAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* ** * * ** * **
69203 ACGGGCAGACGATTGA-TGAAAAGGTCTCTCGAATCTGAGCTG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * * * ** * * * *
69245 ACGAGCTGACGATTGAGAAATGAAGTCTCCTGAGTCGAAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* *** * *
69288 ATGGACAGACGATTGA-TGGAAAAGTCTCCCGAGTCTAAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * ** * **
69330 ATGAGCAGACGAGTGACAAAGGAAGTCTCTCGGGTCTAAGCTG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * * *** ** **
69373 ACGGACAGACAATTGA-TGGAAAAGTCTCGTGGGTCTAAGCTG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* ** * * *
69415 ATAGGCAGACGATTGACAAAGGAAGTCTCCCGTGTCTGAGCGA
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * * * * ** ** *
69458 ATCGGCAAATGATTAACGAAGGAAGTCTTTCGGGTCTAAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * *** * * *
69501 ATAGGTAGACGATTGA-TGGAAAAGTCTTCCGGGTCTGAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
** * *** * * *
69543 ATAAGCAAACGATTG--ATGGAAAGTTTCCTGGGTCTAAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * * * **
69584 ATAGGCAGACGATTGACAAAAGAAGTCCCCCAGGTCTAAGCTG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
** * * * * * * * * **
69627 ACAGGTAAACGATTGATAAAAGAAA-TCACTCAGGCCTGAGCTG
1 ATGGGCAGACGATTGACAAAA-AAAGTCTCCCGGGTCTAAGCCA
* ** ** *
69670 ACGGGCAGATAATTGA-TGAAAAAGTCT-CCGGGAT-TAAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGG-TCTAAGCCA
* * ** * * ***
69711 ACGGGCAAACGATTGACAAAGGAAGTCTCTCGGATCTAAGTTG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
** * ** * *
69754 ACCGGCAGATGATTGACAAAGGAAGTCTCCCCGGTCTAAGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* *** * * * *
69797 ACGGGCAGACGATTGA-TGGAAAAGTCTCCCAGGTTTAAGTCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * * ** ** * **
69839 ACGGGCAGATGATTAACAAAGGAAGTCTATCGAGTCTAAGCTG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * ** **** * *
69882 ACGGGCAGACGATTGATAAAGGAAGTCTCTTAAGTCTATGCCG
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
* * **
69925 ATGAGCAGACGATTGATAAAGGAAGTCTCCCGGGT
1 ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGT
69960 TCGAGCCGAC
Statistics
Matches: 861, Mismatches: 297, Indels: 50
0.71 0.25 0.04
Matches are distributed among these distances:
41 59 0.07
42 286 0.33
43 511 0.59
44 5 0.01
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (43 bp):
ATGGGCAGACGATTGACAAAAAAAGTCTCCCGGGTCTAAGCCA
Found at i:68885 original size:85 final size:85
Alignment explanation
Indices: 68737--69959 Score: 414
Period size: 85 Copynumber: 14.4 Consensus size: 85
68727 TTCTCATATG
* ** * * *
68737 GGCAGACGATTGACAAAAAAAGTCTCCCAAGTCTAAGCCAATGGGCAGATGATTGATGGAAAAGT
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAAAAGT
**
68802 CTCATTGGTC-AGAGCCGACA
66 CTCACGGGTCTA-AGCCGACA
* * * *
68822 GGTAGACGATTGACAAATGAAGTCTCCCGGGTCTAA-TCAGCTGGGCAGACGATTAATGAAAAAG
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCA-ATGGGCAGACGATTAATGAAAAAG
* **
68886 TCTCCCGGGTCTAAGCCGATG
65 TCTCACGGGTCTAAGCCGACA
* * * ** * * * * *
68907 GGCAGACAATTGACAAAGGAAGTCTCCAGGGTCTTTGCCGACGGGCAAACGATTGA-CAAAGGAA
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAA--AA
* *
68971 GTCTTCTA--GGTCTAAGACGACG
64 GTC-TC-ACGGGTCTAAGCCGACA
* * * *** ** * * *** * * * * *
68993 GGTAGACGGTTAATGGAA-AAGTCTCTTGGGTTTGAGTTGACGGGCAAACGAATGATGGAAAAGT
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAAAAGT
*
69057 CTC-CTAGGTCTAAGCCGACA
66 CTCAC-GGGTCTAAGCCGACA
* * * * * * * * * **
69077 GGCTGATGATTGACCAAGGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACGATTGCT-AAAGGAA
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAA--AA
* ** * * * *
69141 GTCTCCCAAGTCTGAGTCGGCG
64 GTCTCACGGGTCTAAGCCGACA
* * * * * * *
69163 GGCAGACGATTGACAAAGGAAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGATGAAAAGGT
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAAAAGT
* ** * *
69228 CTCTCGAATCTGAGCTGAC-
66 CTCACGGGTCTAAGCCGACA
* * * * * * * * * *
69247 GAGCTGACGATTGAGAAATGAAGTCTCCTGAGTCGAAGCCGATGGACAGACGATTGATGGAAAAG
1 G-GCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAAAAG
* * *
69312 TCTCCCGAGTCTAAGCCGA-T
65 TCTCACGGGTCTAAGCCGACA
* * * ** * * * * *
69332 GAGCAGACGAGTGACAAAGGAAGTCTCTCGGGTCTAAGCTGACGGACAGACAATTGATGGAAAAG
1 G-GCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAAAAG
** * *
69397 TCTCGTGGGTCTAAGCTGATA
65 TCTCACGGGTCTAAGCCGACA
* * * * * * * * *
69418 GGCAGACGATTGACAAAGGAAGTCTCCCGTGTCTGAGCGAATCGGCAAATGATTAACGAAGGAAG
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAA-AAAG
** *
69483 TCTTTCGGGTCTAAGCCGATA
65 TCTCACGGGTCTAAGCCGACA
* *** * * * ** * * *
69504 GGTAGACGATTGATGGAA-AAGTCTTCCGGGTCTGAGCCGATAAGCAAACGATTGATG-GAAAGT
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAAAAGT
* *
69567 TTC-CTGGGTCTAAGCCGATA
66 CTCAC-GGGTCTAAGCCGACA
* * ** ** * * * * *
69587 GGCAGACGATTGACAAAAGAAGTCCCCCAGGTCTAAGCTGACAGGTAAACGATTGATAAAAGAAA
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAA-AAG
* * * * * * *
69652 TCACTCAGGCCTGAGCTGACG
65 TCTCACGGGTCTAAGCCGACA
** ** * * * * *
69673 GGCAGATAATTGATGAAA-AAGTCT-CCGGGAT-TAAGCCGACGGGCAAACGATTGA-CAAAGGA
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGG-TCTAAGCCAATGGGCAGACGATTAATGAAA--A
* * ** *
69734 AGTCTCTCGGATCTAAGTTGACC
63 AGTCTCACGGGTCTAAGCCGACA
* * * * * * *
69757 GGCAGATGATTGACAAAGGAAGTCTCCCCGGTCTAAGCCGACGGGCAGACGATTGATGGAAAAGT
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAAAAGT
* * * * *
69822 CTCCCAGGTTTAAGTCGACG
66 CTCACGGGTCTAAGCCGACA
* * * ** * ** * *
69842 GGCAGATGATTAACAAAGGAAGTCTATCGAGTCTAAGCTGACGGGCAGACGATTGAT-AAAGGAA
1 GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAA--AA
**** * *
69906 GTCTCTTAAGTCTATGCCGA-T
64 GTCTCACGGGTCTAAGCCGACA
* *
69927 GAGCAGACGATTGATAAAGGAAGTCTCCCGGGT
1 G-GCAGACGATTGACAAAAGAAGTCTCCCGGGT
69960 TCGAGCCGAC
Statistics
Matches: 873, Mismatches: 231, Indels: 67
0.75 0.20 0.06
Matches are distributed among these distances:
82 1 0.00
83 39 0.04
84 121 0.14
85 475 0.54
86 228 0.26
87 9 0.01
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (85 bp):
GGCAGACGATTGACAAAAGAAGTCTCCCGGGTCTAAGCCAATGGGCAGACGATTAATGAAAAAGT
CTCACGGGTCTAAGCCGACA
Found at i:69000 original size:128 final size:128
Alignment explanation
Indices: 68740--69972 Score: 648
Period size: 128 Copynumber: 9.7 Consensus size: 128
68730 TCATATGGGC
** * ** * * *
68740 AGACGATTGACAAAAAAAGTCTCCCAAGTCTAAGCCAATGGGCAGATGATTGATGGAA--AAGTC
1 AGACGATTGATGAAAGAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGA-GAAAGGAAGTC
* * * * ** * *
68803 T-CATTGGTC-AGAGCCGACAGGTAGACGATTGACAAATGAAGTCTCCCGGGTCTAATCAG-CTG
65 TCCA-GGGTCTA-AGCCGACGGGCAGACGATTGACAAAGGAAGTCT-CTAGGTCTAAGCTGAC-G
*
68865 GGC
126 GGT
* * *
68868 AGACGATTAATGAAA-AAGTCTCCCGGGTCTAAGCCGATGGGCAGACAATTGACAAAGGAAGTCT
1 AGACGATTGATGAAAGAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGAGAAAGGAAGTCT
** *
68932 CCAGGGTCTTTGCCGACGGGCAAACGATTGACAAAGGAAGTCTTCTAGGTCTAAGAC-GACGGGT
66 CCAGGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGTC-TCTAGGTCTAAG-CTGACGGGT
* * * ** * * ** * * * *
68996 AGACGGTTAATGGAA-AAGTCTCTTGGGTTTGAGTTGACGGGCAAACGAATGATGGAA--AAGTC
1 AGACGATTGATGAAAGAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGA-GAAAGGAAGTC
* * * * * *
69058 TCCTA-GGTCTAAGCCGACAGGCTGATGATTGACCAAGGAAGTCTCTCGAGTCTAAGCCGACGGG
65 TCC-AGGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGTCTCTAG-GTCTAAGCTGACGGG
69122 T
128 T
* ** * * ** *
69123 AGACGATTGCT-AAAGGAAGTCTCCCAAGTCTGAGTCGGCGGGCAGACGATTGACAAAGGAAGTC
1 AGACGATTGATGAAA-GAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGAGAAAGGAAGTC
* * * * * *
69187 TCTC-GAGTCTAAGCCGACGGGCAGACGATTGATGAAA--AGGTCTCTCGAATCTGAGCTGACGA
65 TC-CAGGGTCTAAGCCGACGGGCAGACGATTGA-CAAAGGAAGTCTCTAG-GTCTAAGCTGACG-
*
69249 GCT
126 GGT
* * * * *
69252 -GACGATTGA-GAAATGAAGTCTCCTGAGTCGAAGCCGATGGACAGACGATTGATGGAA--AAGT
1 AGACGATTGATGAAA-GAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGA-GAAAGGAAGT
* * * * * * *
69313 CTCCCGAGTCTAAGCCGATGAGCAGACGAGTGACAAAGGAAGTCTCTCGGGTCTAAGCTGACGGA
64 CTCCAGGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGTCTCT-AGGTCTAAGCTGACGGG
*
69378 C
128 T
* * ** * * *
69379 AGACAATTGATGGAA-AAGTCTCGTGGGTCTAAGCTGATAGGCAGACGATTGACAAAGGAAGTCT
1 AGACGATTGATGAAAGAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGAGAAAGGAAGTCT
* * * * * * * * * * **
69443 CCCGTGTCTGAG-CGAATC-GGCAAATGATTAACGAAGGAAGTCTTTCGGGTCTAAGCCGATAGG
66 CCAGGGTCTAAGCCG-A-CGGGCAGACGATTGACAAAGGAAGTCTCT-AGGTCTAAGCTGACGGG
69506 T
128 T
* * * ** * * *
69507 AGACGATTGATGGAA-AAGTCTTCCGGGTCTGAGCCGATAAGCAAACGATTGATG---GAAAGTT
1 AGACGATTGATGAAAGAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGA-GAAAGGAAGTC
* ** * * * *
69568 TCCTGGGTCTAAGCCGATAGGCAGACGATTGACAAAAGAAGTCCCCCAGGTCTAAGCTGACAGGT
65 TCCAGGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGT-CTCTAGGTCTAAGCTGACGGGT
* * * * * * * * * * **
69633 AAACGATTGATAAAAGAAATCACTCAGGCCTGAGCTGACGGGCAGATAATTGATGAAA--AAGTC
1 AGACGATTGATGAAAGAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGA-GAAAGGAAGTC
* * * *
69696 TCC-GGGAT-TAAGCCGACGGGCAAACGATTGACAAAGGAAGTCTCTCGGATCTAAGTTGACCGG
65 TCCAGGG-TCTAAGCCGACGGGCAGACGATTGACAAAGGAAGTCTCTAGG-TCTAAGCTGACGGG
*
69759 C
128 T
* * * * *
69760 AGATGATTGA-CAAAGGAAGTCTCCCCGGTCTAAGCCGACGGGCAGACGATTGATGGAA--AAGT
1 AGACGATTGATGAAA-GAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGA-GAAAGGAAGT
* * * * * *
69822 CTCCCA-GGTTTAAGTCGACGGGCAGATGATTAACAAAGGAAGTCTATCGAGTCTAAGCTGACGG
64 CT-CCAGGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGTCTCTAG-GTCTAAGCTGACGG
*
69886 GC
127 GT
**** * * *
69888 AGACGATTGAT-AAAGGAAGTCTCTTAAGTCTATGCCGATGAGCAGACGATTGATAAAGGAAGTC
1 AGACGATTGATGAAA-GAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGAGAAAGGAAGTC
* *
69952 TCCCGGGT-TCGAGCCGACGGG
65 TCCAGGGTCT-AAGCCGACGGG
69973 TAGATAAAAT
Statistics
Matches: 852, Mismatches: 202, Indels: 101
0.74 0.17 0.09
Matches are distributed among these distances:
126 83 0.10
127 284 0.33
128 418 0.49
129 64 0.08
130 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.20
Consensus pattern (128 bp):
AGACGATTGATGAAAGAAGTCTCCCGGGTCTAAGCCGATGGGCAGACGATTGAGAAAGGAAGTCT
CCAGGGTCTAAGCCGACGGGCAGACGATTGACAAAGGAAGTCTCTAGGTCTAAGCTGACGGGT
Found at i:69256 original size:42 final size:41
Alignment explanation
Indices: 69164--69341 Score: 128
Period size: 42 Copynumber: 4.2 Consensus size: 41
69154 GAGTCGGCGG
* * * *
69164 GCAGACGATTGACAAAGGAAGTCTCTCGAGTCTAAGCCGACGG
1 GCAGACGATTGAGAAA--AGGTCTCTCGAATCTAAGCCGACGA
* *
69207 GCAGACGATTGATGAAAAGGTCTCTCGAATCTGAGCTGACGA
1 GCAGACGATTGA-GAAAAGGTCTCTCGAATCTAAGCCGACGA
* * * * *
69249 GCTGACGATTGAGAAATGAAGTCTC-CTGAGTCGAAGCCGATG-
1 GCAGACGATTGAGAAA--AGGTCTCTC-GAATCTAAGCCGACGA
* * *
69291 GACAGACGATTGATGGAAAA-GTCTCCCGAGTCTAAGCCGATGA
1 G-CAGACGATTGA--GAAAAGGTCTCTCGAATCTAAGCCGACGA
69334 GCAGACGA
1 GCAGACGA
69342 GTGACAAAGG
Statistics
Matches: 111, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
41 4 0.04
42 59 0.53
43 41 0.37
44 3 0.03
45 4 0.04
ACGTcount: A:0.31, C:0.21, G:0.30, T:0.19
Consensus pattern (41 bp):
GCAGACGATTGAGAAAAGGTCTCTCGAATCTAAGCCGACGA
Found at i:69315 original size:213 final size:212
Alignment explanation
Indices: 68736--69358 Score: 598
Period size: 213 Copynumber: 2.9 Consensus size: 212
68726 GTTCTCATAT
** * * * *
68736 GGGCAGACGATTGACAAAAAAAGTCTCCCAAGTCTAAGCCAATGGGCAGATGATTGATGGAAAAG
1 GGGCAGACGATTGACAAAGGAAGTCTCTCAAGTCTAAGCCGACGGGCAGACGATTGATGGAAAAG
* * * * * * * * *
68801 TCTCATTGGTCAGAGCCGAC-AGGTAGACGATTGACAAATGAAGTCTCCCGGGTCTAATCAGCTG
66 TCTC-TTGGTCTGAGCTGACGAGCT-GACGATTGAGAAATGAAGTCTCCTGAGTCTAAGCCGAT-
* * *
68865 GGCAGACGATTAATGAAAAAGTCTCCCGGGTCTAAGCCGATGGGCAGACAATTGACAAAGGAAGT
128 GGCAGACGATTGATGAAAAAGTCTCCCGAGTCTAAGCCGATGGGCAGACGATTGACAAAGGAAGT
* **
68930 CT-CCAGGGTCTTTGCCGAC
193 CTCCCAGAGTCTGAGCCGAC
* * * * * *
68949 GGGCAAACGATTGACAAAGGAAGTCT-TCTAGGTCTAAGACGACGGGTAGACGGTTAATGGAAAA
1 GGGCAGACGATTGACAAAGGAAGTCTCTC-AAGTCTAAGCCGACGGGCAGACGATTGATGGAAAA
* * * ** * *
69013 GTCTCTTGGGTTTGAGTTGACGGGCAAACGAATGATGGAA--AAGTCTCCT-AGGTCTAAGCCGA
65 GTCTCTT-GGTCTGAGCTGACGAGCTGACGATTGA-GAAATGAAGTCTCCTGA-GTCTAAGCCGA
* * * ** * * * *
69075 CAGGCTGATGATTGACCAAGGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACGATTG-CTAAAGG
127 -TGGCAGACGATTGATGAA-AAAGTCTCCCGAGTCTAAGCCGATGGGCAGACGATTGAC-AAAGG
* *
69139 AAGTCTCCCA-AGTCTGAGTCGGC
189 AAGTCTCCCAGAGTCTGAGCCGAC
*
69162 GGGCAGACGATTGACAAAGGAAGTCTCTCGAGTCTAAGCCGACGGGCAGACGATTGAT-GAAAAG
1 GGGCAGACGATTGACAAAGGAAGTCTCTCAAGTCTAAGCCGACGGGCAGACGATTGATGGAAAA-
* * *
69226 GTCTCTCGAATCTGAGCTGACGAGCTGACGATTGAGAAATGAAGTCTCCTGAGTCGAAGCCGATG
65 GTCTCTTG-GTCTGAGCTGACGAGCTGACGATTGAGAAATGAAGTCTCCTGAGTCTAAGCCGATG
* * *
69291 GACAGACGATTGATGGAAAAGTCTCCCGAGTCTAAGCCGATGAGCAGACGAGTGACAAAGGAAGT
129 G-CAGACGATTGATGAAAAAGTCTCCCGAGTCTAAGCCGATGGGCAGACGATTGACAAAGGAAGT
69356 CTC
193 CTC
69359 TCGGGTCTAA
Statistics
Matches: 319, Mismatches: 74, Indels: 34
0.75 0.17 0.08
Matches are distributed among these distances:
212 41 0.13
213 239 0.75
214 38 0.12
215 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (212 bp):
GGGCAGACGATTGACAAAGGAAGTCTCTCAAGTCTAAGCCGACGGGCAGACGATTGATGGAAAAG
TCTCTTGGTCTGAGCTGACGAGCTGACGATTGAGAAATGAAGTCTCCTGAGTCTAAGCCGATGGC
AGACGATTGATGAAAAAGTCTCCCGAGTCTAAGCCGATGGGCAGACGATTGACAAAGGAAGTCTC
CCAGAGTCTGAGCCGAC
Found at i:69583 original size:41 final size:42
Alignment explanation
Indices: 69282--69599 Score: 217
Period size: 42 Copynumber: 7.5 Consensus size: 42
69272 TCCTGAGTCG
* *
69282 AAGCCGAT-GGACAGACGATTGATGGAAAAGTCTCCCGAGTCT
1 AAGCCGATAGG-CAGACGATTGATGGAAAAGTCTTCCGGGTCT
* **
69324 AAGCCGAT-GAGCAGACGAGTGA-CAAAGGAAGTC-TCTCGGGTCT
1 AAGCCGATAG-GCAGACGATTGATGGAA--AAGTCTTC-CGGGTCT
* * * *
69367 AAGCTGA-CGGACAGACAATTGATGGAAAAGTC-TCGTGGGTCT
1 AAGCCGATAGG-CAGACGATTGATGGAAAAGTCTTC-CGGGTCT
* ** * *
69409 AAGCTGATAGGCAGACGATTGA-CAAAGGAAGTCTCCCGTGTCT
1 AAGCCGATAGGCAGACGATTGATGGAA--AAGTCTTCCGGGTCT
* * * * ** *
69452 GAG-CGAATCGGCAAATGATT-AACGAAGGAAGTCTTTCGGGTCT
1 AAGCCG-ATAGGCAGACGATTGATGGAA--AAGTCTTCCGGGTCT
*
69495 AAGCCGATAGGTAGACGATTGATGGAAAAGTCTTCCGGGTCT
1 AAGCCGATAGGCAGACGATTGATGGAAAAGTCTTCCGGGTCT
* * *
69537 GAGCCGATAAGCAAACGATTGATGG-AAAGT-TTCCTGGGTCT
1 AAGCCGATAGGCAGACGATTGATGGAAAAGTCTTCC-GGGTCT
69578 AAGCCGATAGGCAGACGATTGA
1 AAGCCGATAGGCAGACGATTGA
69600 CAAAAGAAGT
Statistics
Matches: 217, Mismatches: 43, Indels: 33
0.74 0.15 0.11
Matches are distributed among these distances:
40 4 0.02
41 34 0.16
42 88 0.41
43 82 0.38
44 9 0.04
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.21
Consensus pattern (42 bp):
AAGCCGATAGGCAGACGATTGATGGAAAAGTCTTCCGGGTCT
Found at i:71357 original size:79 final size:80
Alignment explanation
Indices: 71243--71397 Score: 226
Period size: 79 Copynumber: 1.9 Consensus size: 80
71233 ATATTTCCCG
* *
71243 ATGAGAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTGTCCCCTCAAAAATAACGGGGTT
1 ATGAGAAATTCAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTT
71308 GGAGTATCCCCAATT
66 GGAGTATCCCCAATT
* * *
71323 ATGAGAAA-TCAATATTTTGG-GAATAA-AGTCGGGGTTGGAGTATCCCCTCGAAAGTAACGGGG
1 ATGAGAAATTCAATATTTTGGAG-ATAATA-ACGGGGTTGGAGTATCCCCTCAAAAATAACGGGG
71385 TTGGAGTATCCCC
64 TTGGAGTATCCCC
71398 GATGAAATAG
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
78 2 0.03
79 58 0.85
80 8 0.12
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (80 bp):
ATGAGAAATTCAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTT
GGAGTATCCCCAATT
Found at i:71385 original size:28 final size:27
Alignment explanation
Indices: 71352--71423 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
71342 GGAATAAAGT
71352 CGGGGTTGGAGTATCCCC-TCGAAAGTAA
1 CGGGGTTGGAGTATCCCCAT-GAAA-TAA
*
71380 CGGGGTTGGAGTATCCCCGATGAAATAG
1 CGGGGTTGGAGTATCCCC-ATGAAATAA
*
71408 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
71424 TCGATTGTGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 35 0.88
29 4 0.10
30 1 0.03
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCATGAAATAA
Found at i:71564 original size:54 final size:53
Alignment explanation
Indices: 71411--71633 Score: 212
Period size: 54 Copynumber: 4.3 Consensus size: 53
71401 GAAATAGCGA
* * *
71411 GGTTGGAGTATCCTCGATTGTG---AAAAATTGGTGTTTTTGGAAATGAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAAAATTAGTG-TTTT-GAAATAAAATCGG
* *
71463 AGTTGGAGTATCCCCGA-T-T-AAAGGAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAA-AAAAATTAGTGTTTTG-AAATAAAATCGG
* * *
71515 GGTTAGAGTATCCCCGATTGTGAAAAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAAAAATTAGTGTTTT-GAAATAAAATCGG
* * * * *
71569 GGTTGGAGTATCCCCGATTATGAAAAATCAA-TA-T-TTTGGAAATAAAGTCGA
1 GGTTGGAGTATCCCCGATTGTGAAAAA-AAATTAGTGTTTTGAAATAAAATCGG
71620 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
71634 TTCGGAAATA
Statistics
Matches: 143, Mismatches: 18, Indels: 21
0.79 0.10 0.12
Matches are distributed among these distances:
50 1 0.01
51 25 0.17
52 48 0.34
53 11 0.08
54 52 0.36
55 6 0.04
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (53 bp):
GGTTGGAGTATCCCCGATTGTGAAAAAAAATTAGTGTTTTGAAATAAAATCGG
Found at i:71655 original size:28 final size:27
Alignment explanation
Indices: 71620--71687 Score: 86
Period size: 26 Copynumber: 2.5 Consensus size: 27
71610 ATAAAGTCGA
71620 GGTTGGAGTATCCCTTCGG-AAATAACGG
1 GGTTGGAGTATCCC--CGGTAAATAACGG
* *
71648 GGTTGGAGTAT-CCCGGTGATTAACGG
1 GGTTGGAGTATCCCCGGTAAATAACGG
71674 GGTTGGAGTATCCC
1 GGTTGGAGTATCCC
71688 GATTGTGAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 3 0.08
26 18 0.50
27 4 0.11
28 11 0.31
ACGTcount: A:0.21, C:0.18, G:0.35, T:0.26
Consensus pattern (27 bp):
GGTTGGAGTATCCCCGGTAAATAACGG
Found at i:74215 original size:19 final size:18
Alignment explanation
Indices: 74191--74258 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
74181 CAGTAGCTAA
74191 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
74210 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
74225 -T-TGTATCGATACAACAC
1 TTATGTATCGATACAA-AC
74242 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
74259 TCGTAGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 2 0.05
19 27 0.63
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:74231 original size:13 final size:13
Alignment explanation
Indices: 74213--74237 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
74203 ACAATACTTA
74213 TGTATCGATACAT
1 TGTATCGATACAT
74226 TGTATCGATACA
1 TGTATCGATACA
74238 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:74235 original size:32 final size:32
Alignment explanation
Indices: 74194--74256 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
74184 TAGCTAATTA
*
74194 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAACACTTATGTATCGATACAT
74226 TGTATCGATACAACACTTATGTATCGATACA
1 TGTATCGATACAACACTTATGTATCGATACA
74257 AATCGTAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAACACTTATGTATCGATACAT
Found at i:76281 original size:14 final size:14
Alignment explanation
Indices: 76262--76289 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
76252 ACAAAACCAA
76262 GGCACAAACATTTT
1 GGCACAAACATTTT
76276 GGCACAAACATTTT
1 GGCACAAACATTTT
76290 AAGCATGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (14 bp):
GGCACAAACATTTT
Found at i:77606 original size:52 final size:52
Alignment explanation
Indices: 77458--77586 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
77448 CGAAATATGA
*
77458 AAATTTGCTTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCATGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
77510 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATTTGGGG
1 AAATTTGCATGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
77562 AAATTTGCATGCATGTATTGATACA
1 AAATTTGCATGCATGTATCGATACA
77587 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (52 bp):
AAATTTGCATGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:77613 original size:13 final size:13
Alignment explanation
Indices: 77595--77619 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
77585 CAAAGATCAG
77595 TGTATCGATACAA
1 TGTATCGATACAA
77608 TGTATCGATACA
1 TGTATCGATACA
77620 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:78713 original size:49 final size:48
Alignment explanation
Indices: 78641--78866 Score: 213
Period size: 49 Copynumber: 4.9 Consensus size: 48
78631 ACGGAAAAGG
*
78641 TGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTTAAAGGTGAAAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTG-AAA
* * * *
78690 TGCCAATATGCTGATTCACGGCCAACGATATTGGGCTTGAA-G-G---
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAA
* * * **
78733 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAACAT-AAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAA
*
78780 GGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-G-G---
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAA
* * * *
78825 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
78867 ATAAGGGTGC
Statistics
Matches: 149, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
43 72 0.48
47 1 0.01
48 1 0.01
49 75 0.50
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGAAA
Found at i:78753 original size:92 final size:92
Alignment explanation
Indices: 78636--78870 Score: 339
Period size: 92 Copynumber: 2.6 Consensus size: 92
78626 TCAAGACGGA
* * *
78636 AAAGGTGCCAATATGCTGATTCAAGGCCAGC-GCTATTGGACTTAAAGGTGAAA-ATGCCAATAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTAC-ATTGGACTTAAAGAT-AAAGATGCCAATAT
* *
78699 GCTGATTCACGGCCAACGATATTGGGCTT
64 GCTGATTCAAGGCCAACGATATTGGACTT
* * *
78728 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAACATAAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
* *
78793 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAACGATATTGGACTT
*
78820 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAA
78871 GGGTGCCACG
Statistics
Matches: 128, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
91 3 0.02
92 124 0.97
93 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGATGCCAATATGC
TGATTCAAGGCCAACGATATTGGACTT
Found at i:78756 original size:43 final size:43
Alignment explanation
Indices: 78636--78866 Score: 237
Period size: 43 Copynumber: 5.1 Consensus size: 43
78626 TCAAGACGGA
*
78636 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGCTATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * *
78679 AAAGGTGAAAATGCCAATATGCTGATTCACGGCCAACGATATTGGGCTT
1 AAA-G-G----TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
78728 GAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAACAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T
*
78777 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
* * * *
78820 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
78863 AAAG
1 AAAG
78867 ATAAGGGTGC
Statistics
Matches: 159, Mismatches: 17, Indels: 24
0.80 0.09 0.12
Matches are distributed among these distances:
43 78 0.49
44 2 0.01
45 1 0.01
47 1 0.01
48 2 0.01
49 75 0.47
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:78929 original size:34 final size:34
Alignment explanation
Indices: 78873--79064 Score: 269
Period size: 34 Copynumber: 5.6 Consensus size: 34
78863 AAAGATAAGG
* * * *
78873 GTGCCACGGACTTGTGGACTTAGAAGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAGA
* * *
78907 GTGCCATAGAGTTATGGGCTTAGAAGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAGA
78941 GTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAGA
78975 GTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAGA
1 GTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAGA
*
79009 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAACG-
1 GTGCCACAGAGTTGTGGGC-TTAAAAGGAAAAA-GA
* *
79044 GTGCCACGGAATTGTGGGCTT
1 GTGCCACAGAGTTGTGGGCTT
79065 CGGAAAAAGG
Statistics
Matches: 145, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
34 115 0.79
35 29 0.20
36 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (34 bp):
GTGCCACAGAGTTGTGGGCTTAAAAGGAAAAAGA
Found at i:80561 original size:15 final size:15
Alignment explanation
Indices: 80543--80604 Score: 62
Period size: 14 Copynumber: 4.3 Consensus size: 15
80533 ATCCGGACCC
80543 TTTTTGTTGTTG-TT
1 TTTTTGTTGTTGTTT
80557 TTTTTGTTTGTTTGTTT
1 TTTTTG-TTG-TTGTTT
80574 TTTTT-TTG-T-TTT
1 TTTTTGTTGTTGTTT
*
80586 TTTTTCTT-TTGTTT
1 TTTTTGTTGTTGTTT
80600 TTTTT
1 TTTTT
80605 AGAGGATGCC
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
12 8 0.19
13 4 0.10
14 14 0.33
15 6 0.14
16 3 0.07
17 7 0.17
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (15 bp):
TTTTTGTTGTTGTTT
Found at i:80563 original size:11 final size:11
Alignment explanation
Indices: 80543--80603 Score: 61
Period size: 11 Copynumber: 5.5 Consensus size: 11
80533 ATCCGGACCC
80543 TTTTTGTTGTT
1 TTTTTGTTGTT
80554 GTTTTT-TTGTT
1 -TTTTTGTTGTT
* *
80565 TGTTTGTTTTT
1 TTTTTGTTGTT
*
80576 TTTTTGTTTTT
1 TTTTTGTTGTT
*
80587 TTTTCTTTTGTT
1 TTTT-TGTTGTT
80599 TTTTT
1 TTTTT
80604 TAGAGGATGC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
10 4 0.10
11 24 0.57
12 14 0.33
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (11 bp):
TTTTTGTTGTT
Found at i:80577 original size:19 final size:18
Alignment explanation
Indices: 80545--80584 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
80535 CCGGACCCTT
80545 TTTGTTGTTGTTTTTTTG
1 TTTGTTGTTGTTTTTTTG
*
80563 TTTGTTTGTTTTTTTTTTG
1 TTTG-TTGTTGTTTTTTTG
80582 TTT
1 TTT
80585 TTTTTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.82
Consensus pattern (18 bp):
TTTGTTGTTGTTTTTTTG
Found at i:80583 original size:30 final size:29
Alignment explanation
Indices: 80544--80604 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
80534 TCCGGACCCT
80544 TTTTGTTGTTGTTTTTTT-GTTTGTTTGTTT
1 TTTTGTTGTT-TTTTTTTCGTTTGTTT-TTT
* *
80574 TTTTTTTGTTTTTTTTTCTTTTGTTTTTT
1 TTTTGTTGTTTTTTTTTCGTTTGTTTTTT
80603 TT
1 TT
80605 AGAGGATGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 12 0.43
30 16 0.57
ACGTcount: A:0.00, C:0.02, G:0.13, T:0.85
Consensus pattern (29 bp):
TTTTGTTGTTTTTTTTTCGTTTGTTTTTT
Found at i:92328 original size:27 final size:26
Alignment explanation
Indices: 92290--92341 Score: 95
Period size: 27 Copynumber: 2.0 Consensus size: 26
92280 TCTTCAAAAC
92290 GGGGTTGGAGTGTCCCCTCGGAGGAAT
1 GGGGTTGGAGTGTCCCCTCGG-GGAAT
92317 GGGGTTGGAGTGTCCCCTCGGGGAA
1 GGGGTTGGAGTGTCCCCTCGGGGAA
92342 AGGTAACTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.13, C:0.19, G:0.46, T:0.21
Consensus pattern (26 bp):
GGGGTTGGAGTGTCCCCTCGGGGAAT
Found at i:94347 original size:52 final size:52
Alignment explanation
Indices: 94199--94327 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
94189 CGAAATATGA
94199 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
** * *
94251 AAATTTGCCTATATGTACCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
94303 AAATTTGCATGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
94328 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:94354 original size:13 final size:13
Alignment explanation
Indices: 94336--94360 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94326 CAAAGATCAG
94336 TGTATCGATACAA
1 TGTATCGATACAA
94349 TGTATCGATACA
1 TGTATCGATACA
94361 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:95347 original size:89 final size:89
Alignment explanation
Indices: 95231--95431 Score: 303
Period size: 89 Copynumber: 2.2 Consensus size: 89
95221 TTTGGTAAGG
* *
95231 AAGGATATGATTAGGAATGTGTAGGCTGCACTTTGCCTCAAGGAAATTAGGCTTAGTGATGCACC
1 AAGGATATGATTAGGAATGTGTAGGCTGCACCTTGCCCCAAGGAAATTAGGCTTAGTGATGCACC
95296 AATACCATCTAGTGGTTGGAGGAA
66 AATACCATCTAGTGGTTGGAGGAA
* * * * *
95320 AAGGATATAATTAGGAATGTGTGGGCTGTACCTTGCCCCAAGGAAATTAGGCTTGGTGATGCATC
1 AAGGATATGATTAGGAATGTGTAGGCTGCACCTTGCCCCAAGGAAATTAGGCTTAGTGATGCACC
*
95385 AATACCATCTAGTGGTTGGATGAA
66 AATACCATCTAGTGGTTGGAGGAA
**
95409 GGGGATATGATTAGGAAATGTGT
1 AAGGATATGATTAGG-AATGTGT
95432 TTTCCTTGAA
Statistics
Matches: 100, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
89 93 0.93
90 7 0.07
ACGTcount: A:0.30, C:0.13, G:0.29, T:0.28
Consensus pattern (89 bp):
AAGGATATGATTAGGAATGTGTAGGCTGCACCTTGCCCCAAGGAAATTAGGCTTAGTGATGCACC
AATACCATCTAGTGGTTGGAGGAA
Found at i:96091 original size:44 final size:44
Alignment explanation
Indices: 95958--96093 Score: 116
Period size: 44 Copynumber: 3.1 Consensus size: 44
95948 GTAAAGTGGT
* * *
95958 AAATGCATATTAAATGATGCAAATGCCAATGTTATCT-AAATGC
1 AAATGCATATAAAATAATGCAAATGCCAATGTCATCTAAAATGC
* * * * * *
96001 AAATGCATGTATAATAATACAAATG-CAAGTATCAAC-AAAGAGGC
1 AAATGCATATAAAATAATGCAAATGCCAA-TGTCATCTAAA-ATGC
** * *
96045 AAATGCATATGCAATAATGCAAATACCATTGTCATCTAAAATGC
1 AAATGCATATAAAATAATGCAAATGCCAATGTCATCTAAAATGC
96089 AAATG
1 AAATG
96094 TAGGTAGGGA
Statistics
Matches: 70, Mismatches: 18, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
42 3 0.04
43 26 0.37
44 36 0.51
45 5 0.07
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.26
Consensus pattern (44 bp):
AAATGCATATAAAATAATGCAAATGCCAATGTCATCTAAAATGC
Found at i:97183 original size:18 final size:18
Alignment explanation
Indices: 97160--97224 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
97150 ATTTCCTTAT
97160 TTTTTTCTTTCATTTTTC
1 TTTTTTCTTTCATTTTTC
* *
97178 TTTTTTTTTTGCA-CTTTC
1 TTTTTTCTTT-CATTTTTC
* *
97196 -TTTTTCATTTGATTTTTT
1 TTTTTTC-TTTCATTTTTC
97214 TCTTTTTCTTT
1 T-TTTTTCTTT
97225 TTGTTTTTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 9
0.71 0.12 0.18
Matches are distributed among these distances:
17 6 0.17
18 19 0.53
19 5 0.14
20 6 0.17
ACGTcount: A:0.06, C:0.14, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTTTCTTTCATTTTTC
Found at i:97219 original size:5 final size:6
Alignment explanation
Indices: 97167--97235 Score: 52
Period size: 6 Copynumber: 11.0 Consensus size: 6
97157 TATTTTTTTC
**
97167 TTTCATT TTTCTT TTT-TT TTTGCAC TTTCTT TTTCATT TGATT-TT TTTCTT
1 TTTC-TT TTTCTT TTTCTT TTT-CTT TTTCTT TTTC-TT T--TTCTT TTTCTT
*
97218 TTTCTT TTTGTT TTTCTT
1 TTTCTT TTTCTT TTTCTT
97236 CTTTTTTGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
5 7 0.14
6 28 0.56
7 13 0.26
9 2 0.04
ACGTcount: A:0.06, C:0.13, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTCTT
Found at i:97247 original size:22 final size:20
Alignment explanation
Indices: 97192--97262 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
97182 TTTTTTGCAC
*
97192 TTTCTTTTTC-ATTTGATTTT
1 TTTCTTTTTCTTTTTG-TTTT
97212 TTTCTTTTTCTTTTTGTTTT
1 TTTCTTTTTCTTTTTGTTTT
*
97232 TCTTCTTTTTTGTTTTTGTTTT
1 T-TTC-TTTTTCTTTTTGTTTT
97254 GTTT-TTTTT
1 -TTTCTTTTT
97263 TGGGTTTGTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
20 20 0.44
21 7 0.16
22 17 0.38
23 1 0.02
ACGTcount: A:0.03, C:0.08, G:0.07, T:0.82
Consensus pattern (20 bp):
TTTCTTTTTCTTTTTGTTTT
Found at i:97258 original size:16 final size:16
Alignment explanation
Indices: 97222--97264 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
97212 TTTCTTTTTC
*
97222 TTTTTGTTTTTCTTCT
1 TTTTTGTTTTTGTTCT
97238 TTTTTGTTTTTGTT-T
1 TTTTTGTTTTTGTTCT
97253 TGTTTT-TTTTTG
1 T-TTTTGTTTTTG
97265 GGTTTGTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.00, C:0.05, G:0.12, T:0.84
Consensus pattern (16 bp):
TTTTTGTTTTTGTTCT
Found at i:97263 original size:21 final size:20
Alignment explanation
Indices: 97203--97264 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 20
97193 TTCTTTTTCA
* *
97203 TTTGATTTTTTTCTTTTTCTT
1 TTTG-TTTTTTTTTTTTTGTT
97224 TTTGTTTTTCTTCTTTTTTGTT
1 TTTGTTTTT-TT-TTTTTTGTT
97246 TTTGTTTTGTTTTTTTTTG
1 TTTGTTTT-TTTTTTTTTG
97265 GGTTTGTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
20 5 0.14
21 13 0.36
22 17 0.47
23 1 0.03
ACGTcount: A:0.02, C:0.06, G:0.10, T:0.82
Consensus pattern (20 bp):
TTTGTTTTTTTTTTTTTGTT
Found at i:97270 original size:21 final size:22
Alignment explanation
Indices: 97224--97272 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
97214 TCTTTTTCTT
**
97224 TTTGTTTTTCTTCTTTTTTGTT
1 TTTGTTTTTCTTCTTTTTTGGG
97246 TTTGTTTTGT-TT-TTTTTTGGG
1 TTTGTTTT-TCTTCTTTTTTGGG
97267 TTTGTT
1 TTTGTT
97273 ATTTAGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 13 0.54
22 10 0.42
23 1 0.04
ACGTcount: A:0.00, C:0.04, G:0.16, T:0.80
Consensus pattern (22 bp):
TTTGTTTTTCTTCTTTTTTGGG
Found at i:97613 original size:8 final size:8
Alignment explanation
Indices: 97595--97651 Score: 60
Period size: 8 Copynumber: 6.6 Consensus size: 8
97585 AGCATCTGAA
97595 TTTTCTTTC
1 TTTT-TTTC
97604 TTTTTTTC
1 TTTTTTTC
*
97612 TTTTCATTC
1 TTTT-TTTC
97621 TTTTTTTC
1 TTTTTTTC
*
97629 TTGTTTCTTA
1 TT-TTT-TTC
97639 TTTTTTTC
1 TTTTTTTC
97647 TTTTT
1 TTTTT
97652 CTTTTGTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 20 0.49
9 17 0.41
10 4 0.10
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:97621 original size:17 final size:16
Alignment explanation
Indices: 97595--97650 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 16
97585 AGCATCTGAA
97595 TTTTCTTTCTTTTTTTC
1 TTTTC-TTCTTTTTTTC
97612 TTTTCATTCTTTTTTTC
1 TTTTC-TTCTTTTTTTC
*
97629 TTGTTTCTTATTTTTTTC
1 -T-TTTCTTCTTTTTTTC
97647 TTTT
1 TTTT
97651 TCTTTTGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 3 0.09
17 17 0.49
18 11 0.31
19 4 0.11
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (16 bp):
TTTTCTTCTTTTTTTC
Found at i:97652 original size:17 final size:17
Alignment explanation
Indices: 97604--97654 Score: 68
Period size: 17 Copynumber: 2.9 Consensus size: 17
97594 ATTTTCTTTC
*
97604 TTTTTTTC-TTTTCATTC
1 TTTTTTTCTTTTTC-TTA
97621 TTTTTTTCTTGTTTCTTA
1 TTTTTTTCTT-TTTCTTA
97639 TTTTTTTCTTTTTCTT
1 TTTTTTTCTTTTTCTT
97655 TTGTTATTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 14 0.45
18 13 0.42
19 4 0.13
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTTTTTCTTTTTCTTA
Found at i:101094 original size:145 final size:146
Alignment explanation
Indices: 100814--101102 Score: 386
Period size: 145 Copynumber: 2.0 Consensus size: 146
100804 CTATCCTAAA
* * * * * *
100814 TGCCCACCTTCGGCATAAAAGCGGACTCGAAAACAACTTAGGAGTTGATTCTAAAAAATTATGAA
1 TGCCCACCTTCGACATAAAAGCGGACCCGAAAACAACCTAGGAATTGATTCTAAAAAAGTACGAA
* **
100879 AATGTCCCTATGGGTACCTTCAACATAAAAGTACCCCGGTAACCCTAAAAGACCTAAAAAGACTA
66 AATGCCCCTATGGGTACCTTCAACATAAAAGTACCCCGACAACCCTAAAAGACCTAAAAAGACTA
100944 GAAAATG-GATGAACC
131 GAAAATGCGATGAACC
** * * *
100959 TGCCCACCTTCGACATAAAAGCGGACCCGATGACAGCCTAGGAATTGGTTCTAGAAAAGTACGAA
1 TGCCCACCTTCGACATAAAAGCGGACCCGAAAACAACCTAGGAATTGATTCTAAAAAAGTACGAA
* * *
101024 AATGCCCCTATGGGTATACCTTCGACGTAAAAGTACCCCGACAACCCTAAAAGA-CTTAAAAGAC
66 AATGCCCCTATGGG--TACCTTCAACATAAAAGTACCCCGACAACCCTAAAAGACCTAAAAAGAC
101088 TA-AAAATGCGATGAA
129 TAGAAAATGCGATGAA
101103 TCTATCCTAA
Statistics
Matches: 124, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
145 73 0.59
146 17 0.14
147 34 0.27
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (146 bp):
TGCCCACCTTCGACATAAAAGCGGACCCGAAAACAACCTAGGAATTGATTCTAAAAAAGTACGAA
AATGCCCCTATGGGTACCTTCAACATAAAAGTACCCCGACAACCCTAAAAGACCTAAAAAGACTA
GAAAATGCGATGAACC
Found at i:103319 original size:25 final size:25
Alignment explanation
Indices: 103285--103343 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
103275 ACTACTGTCG
103285 TGCTGCTGTTTCTTCCTCAATCAGC
1 TGCTGCTGTTTCTTCCTCAATCAGC
* * *
103310 TGCTGTTGTTTCTTCTTCCATCAGC
1 TGCTGCTGTTTCTTCCTCAATCAGC
*
103335 TGTTGCTGT
1 TGCTGCTGT
103344 GCTTTAAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.08, C:0.27, G:0.19, T:0.46
Consensus pattern (25 bp):
TGCTGCTGTTTCTTCCTCAATCAGC
Found at i:105871 original size:30 final size:30
Alignment explanation
Indices: 105827--105918 Score: 89
Period size: 31 Copynumber: 3.1 Consensus size: 30
105817 TCAAATCTTT
* *
105827 TTCCAAAAGCCCACGACTCCATGGCAACCC
1 TTCCCAAAGTCCACGACTCCATGGCAACCC
* *
105857 TTCCCAAAGTCCACGACT-CAGTAGGCATCTC
1 TTCCCAAAGTCCACGACTCCA-T-GGCAACCC
* * *
105888 TTCTCTAAGTCCACGACTCAATGGC-ACCC
1 TTCCCAAAGTCCACGACTCCATGGCAACCC
105917 TT
1 TT
105919 TTTCTTTCAA
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
29 6 0.12
30 20 0.40
31 23 0.46
32 1 0.02
ACGTcount: A:0.26, C:0.38, G:0.14, T:0.22
Consensus pattern (30 bp):
TTCCCAAAGTCCACGACTCCATGGCAACCC
Found at i:106002 original size:33 final size:33
Alignment explanation
Indices: 105894--106899 Score: 288
Period size: 34 Copynumber: 31.3 Consensus size: 33
105884 TCTCTTCTCT
* **
105894 AAGTCCACGACTCAATGGCACCCTTTTTCTTTCA
1 AAGTCCACAACTCCGTGGCA-CCTTTTTCTTTCA
* * *
105928 AAGTCCACAACTCTGTGGCACTCTTTTTTTTTTCTCC
1 AAGTCCACAACTCCGTGGCAC-C--TTTTTCTT-TCA
* *
105965 AAGTCCATAACTCCGTGGCACCTTTTTCGTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
*
105998 AAGTCCACAACTCCGTGGCACC-----CTTT-T
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
* * *
106025 AAGTCCACAACTCTGTGGCACCCATTTTTTTTTCTCC
1 AAGTCCACAACTCCGTGGCA-CC--TTTTTCTT-TCA
* * * *
106062 AAGTCTACAACTCCATGGCACCTTTTCCTTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
* * * * *
106095 AAGCCCACAAATCTGTGACACTCTTTTCCTTTTCCTTTTA
1 AAGTCCACAACTCCGTGGCAC-C---T--TTTT-CTTTCA
* * * **
106135 AAGCCCACAACTCTGTGACACTCTTTTTCTTTTT
1 AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTCA
* *
106169 AAGTCAACAACTCCGTGGCACCTTTTTCCTTT-T
1 AAGTCCACAACTCCGTGGCACCTTTTT-CTTTCA
*
106202 AAGTCCACAACTCCGTGGCACC-----CTTT-T
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
* * * *
106229 ACGTCCACAACTCCATGGCACTTTTTTCCTCTCA
1 AAGTCCACAACTCCGTGGCACCTTTTT-CTTTCA
** *
106263 AAGTCCACAACTCTATGGCACC-----CTTT-T
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
* * * * **
106290 AAGTTCACAATTTCATGGCACCTTTTTCCTTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTT-CTTTCA
* *
106324 AAGTCCACAACTCTGTGGCACC-----CTTT-T
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
** * * *
106351 AAGTCCACAACTCTTTAGCGCCTCTTTCTTTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTCA
** * *
106385 AAG-CCAACAACTTTGTGGCACCATTTTCCCTTT-T
1 AAGTCC-ACAACTCCGTGGCACC-TTTT-TCTTTCA
* *
106419 AAGTCCACAACTCCATGGCACCTGTTTCTTTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTCA
* *
106453 AAG-CTGACAACTCCGTGGCACC-----CTTT-T
1 AAGTC-CACAACTCCGTGGCACCTTTTTCTTTCA
* **
106480 AACTCCACAACTCTATGGCACC---TT-TTT--
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
* * * *
106507 AAGTCCACAATTTCGTGGTACCTTTTTCTTTTTA
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTCA
* * *
106541 AAGCCCACAACTTCGTGGAACC---TT-TTT--
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
* * ** *
106568 GAGCCCACAACTCAATGGCACCCTTTTTCCTTT-T
1 AAGTCCACAACTCCGTGGCA-CCTTTTT-CTTTCA
*
106602 AAGTCCACAACTCCGTGGCACATTTTTCTTTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTCA
* * * *
106636 AAGCCCACAACTCTGTGGCTCC-----CTTT-T
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
* * *
106663 AAGCCCACAACTCCATGGCACCCTTTTTTCTTT-T
1 AAGTCCACAACTCCGTGGCA-CC-TTTTTCTTTCA
* * *
106697 AAGTCCATAACTTCGTGGCACTTTTTTCTTTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTCA
* * ** *
106731 AAG-CCACAACTCCATGGTATTTTTTTCCTTT-T
1 AAGTCCACAACTCCGTGGCACCTTTTT-CTTTCA
** * * *
106763 AAGTCCATGACTCTGTGGTACC-----CTTT-T
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
* * * *
106790 AAGTCTACAATTCCGTGGTACCTTTTTCTTTTCG
1 AAGTCCACAACTCCGTGGCACCTTTTTC-TTTCA
* * * *
106824 AAGCCCACAACTCCATGGTACCTTTTTTCCTTT-T
1 AAGTCCACAACTCCGTGGCACC-TTTTT-CTTTCA
*
106858 AAG-CCAACAACTCCGTGGCAGCTTTTTCTTTTCA
1 AAGTCC-ACAACTCCGTGGCACCTTTTTC-TTTCA
106892 AAG-CCACA
1 AAGTCCACA
106900 GAAGTCGGTG
Statistics
Matches: 739, Mismatches: 141, Indels: 185
0.69 0.13 0.17
Matches are distributed among these distances:
27 167 0.23
28 26 0.04
29 5 0.01
30 2 0.00
31 4 0.01
32 17 0.02
33 152 0.21
34 260 0.35
35 22 0.03
36 13 0.02
37 40 0.05
39 3 0.00
40 28 0.04
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.36
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCTTTCA
Found at i:106036 original size:27 final size:28
Alignment explanation
Indices: 105998--106052 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
105988 TTTTCGTTCA
105998 AAGTCCACAACTCCGTGGCACCC-TTTT
1 AAGTCCACAACTCCGTGGCACCCATTTT
*
106025 AAGTCCACAACTCTGTGGCACCCATTTT
1 AAGTCCACAACTCCGTGGCACCCATTTT
106053 TTTTTCTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.24, C:0.35, G:0.15, T:0.27
Consensus pattern (28 bp):
AAGTCCACAACTCCGTGGCACCCATTTT
Found at i:106044 original size:97 final size:97
Alignment explanation
Indices: 105928--106255 Score: 324
Period size: 97 Copynumber: 3.3 Consensus size: 97
105918 TTTTCTTTCA
* *
105928 AAGTCCACAACTCTGTGGCACTCTTTTTTTTTTCTCCAAGTCCATAACTCCGTGGCACCTTTTTC
1 AAGTCCACAACTCTGTGGCACTCTTTTTTTTTTCTCCAAGTCAACAACTCCGTGGCACCTTTTTC
* *
105993 GTTCAAAGTCCACAACTCCGTGGCACCCTTTT
66 CTTTAAAGTCCACAACTCCGTGGCACCCTTTT
* * * *
106025 AAGTCCACAACTCTGTGGCACCCATTTTTTTTTCTCCAAGTCTACAACTCCATGGCACC-TTTTC
1 AAGTCCACAACTCTGTGGCACTCTTTTTTTTTTCTCCAAGTCAACAACTCCGTGGCACCTTTTTC
* * * *
106089 CTTTTAAAGCCCACAAATCTGTGACACTCTTTTCCTTTTCCTTTT
66 C-TTTAAAGTCCACAACTCCGTGGCA--------C----CCTTTT
* * *
106134 AAAGCCCACAACTCTGTGACACTCTTTTTCTTTT-T--AAGTCAACAACTCCGTGGCACCTTTTT
1 -AAGTCCACAACTCTGTGGCACTCTTTTTTTTTTCTCCAAGTCAACAACTCCGTGGCACCTTTTT
*
106196 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
65 CCTTTAAAGTCCACAACTCCGTGGCACCCTTTT
* **
106229 ACGTCCACAACTCCATGGCACT-TTTTT
1 AAGTCCACAACTCTGTGGCACTCTTTTT
106256 CCTCTCAAAG
Statistics
Matches: 188, Mismatches: 28, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
93 5 0.03
94 17 0.09
95 6 0.03
96 5 0.03
97 73 0.39
99 1 0.01
105 1 0.01
107 39 0.21
108 6 0.03
109 7 0.04
110 28 0.15
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (97 bp):
AAGTCCACAACTCTGTGGCACTCTTTTTTTTTTCTCCAAGTCAACAACTCCGTGGCACCTTTTTC
CTTTAAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:106137 original size:40 final size:40
Alignment explanation
Indices: 106082--106167 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
106072 CTCCATGGCA
106082 CCTTTTCCTTTTAAAGCCCACAAATCTGTGACACTCTTTT
1 CCTTTTCCTTTTAAAGCCCACAAATCTGTGACACTCTTTT
*
106122 CCTTTTCCTTTTAAAGCCCACAACTCTGTGACACTCTTTT
1 CCTTTTCCTTTTAAAGCCCACAAATCTGTGACACTCTTTT
*
106162 TCTTTT
1 CCTTTT
106168 TAAGTCAACA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.20, C:0.30, G:0.07, T:0.43
Consensus pattern (40 bp):
CCTTTTCCTTTTAAAGCCCACAAATCTGTGACACTCTTTT
Found at i:106193 original size:27 final size:27
Alignment explanation
Indices: 106163--106363 Score: 96
Period size: 27 Copynumber: 6.7 Consensus size: 27
106153 CACTCTTTTT
*
106163 CTTTTTAAGTCAACAACTCCGTGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAC
106190 CTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 C----T--TTTTAAGTCCACAACTCCGTGGCAC
* * *
106223 CCTTTTACGTCCACAACTCCATGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAC
* **
106250 TTTTTTCCTCTCAAAGTCCACAACTCTATGGCAC
1 --CTTT--T-T--AAGTCCACAACTCCGTGGCAC
* * * * *
106284 CCTTTTAAGTTCACAATTTCATGGCACCTTTTTC
1 CTTTTTAAGTCCACAACTCCGTGGCA-------C
*
106318 CTTTTTAAGTCCACAACTCTGTGGCAC
1 CTTTTTAAGTCCACAACTCCGTGGCAC
*
106345 CCTTTTAAGTCCACAACTC
1 CTTTTTAAGTCCACAACTC
106364 TTTAGCGCCT
Statistics
Matches: 133, Mismatches: 21, Indels: 40
0.69 0.11 0.21
Matches are distributed among these distances:
27 59 0.44
29 3 0.02
30 1 0.01
31 2 0.02
32 3 0.02
33 25 0.19
34 40 0.30
ACGTcount: A:0.22, C:0.32, G:0.11, T:0.34
Consensus pattern (27 bp):
CTTTTTAAGTCCACAACTCCGTGGCAC
Found at i:106282 original size:61 final size:60
Alignment explanation
Indices: 106165--106836 Score: 351
Period size: 61 Copynumber: 10.8 Consensus size: 60
106155 CTCTTTTTCT
* * *
106165 TTTTAAGTCAACAACTCCGTGGCACCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
* * ** *
106225 TTTTACGTCCACAACTCCATGGCACTTTTTTCCTCTCAAAGTCCACAACTCTATGGCACCC
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCT-TTTAAGTCCACAACTCTGTGGCACCC
* * *
106286 TTTTAAGTTCACAATTTCATGGCACCTTTTTCCTTTTTAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCC-TTTTAAGTCCACAACTCTGTGGCACCC
** * * * *
106347 TTTTAAGTCCACAACTCTTTAGCGCCTCTTT-CTTTTCAAAG-CCAACAACTTTGTGGCACCATT
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTT--AAGTCC-ACAACTCTGTGG---CA--
106410 TTCCC
58 --CCC
* * *
106415 TTTTAAGTCCACAACTCCATGGCACCTGTTT-CTTTTCAAAG-CTGACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTT--AAGTC-CACAACTCTGTGGCACCC
* * * *
106476 TTTTAACTCCACAACTCTATGGCACC----T--TTTTAAGTCCACAA-TTTCGTGGTACCTTTTT
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCT-GTGGCACC-----
106534 C
60 C
* * * * * * **
106535 TTTTTAAAGCCCACAACTTCGTGGAACC----T--TTTTGAGCCCACAACTCAATGGCACCCTTT
1 -TTTT-AAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA--C---
106594 TTCC
59 --CC
* * * *
106598 TTTTAAGTCCACAACTCCGTGGCACATTTTT-CTTTTCAAAGCCCACAACTCTGTGGCTCCC
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTT--AAGTCCACAACTCTGTGGCACCC
* * *
106659 TTTTAAGCCCACAACTCCATGGCACCCTTTTTTCTTTTAAGTCCATAACT-TCGTGGCACTTTTT
1 TTTTAAGTCCACAACTCCATGGCA-CCTTTTTCCTTTTAAGTCCACAACTCT-GTGGCAC-----
*
106723 TC
59 CC
* ** ** *
106725 TTTTCAAAG-CCACAACTCCATGGTATTTTTTTCCTTTTAAGTCCATGACTCTGTGGTACCC
1 TTTT--AAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
* * * * *
106786 TTTTAAGTCTACAATTCCGTGGTACCTTTTT-CTTTTCGAAGCCCACAACTC
1 TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTT--AAGTCCACAACTC
106837 CATGGTACCT
Statistics
Matches: 480, Mismatches: 81, Indels: 101
0.73 0.12 0.15
Matches are distributed among these distances:
53 1 0.00
54 14 0.03
55 1 0.00
56 4 0.01
57 1 0.00
59 13 0.03
60 56 0.12
61 243 0.51
62 12 0.03
63 7 0.01
64 2 0.00
65 3 0.01
66 37 0.08
67 16 0.03
68 70 0.15
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.36
Consensus pattern (60 bp):
TTTTAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCC
Found at i:106343 original size:95 final size:92
Alignment explanation
Indices: 106223--106742 Score: 406
Period size: 95 Copynumber: 5.6 Consensus size: 92
106213 TCCGTGGCAC
* * * * * *
106223 CCTTTTACGTCCACAACTCCATGGCACTTTTTTCCTCTCAAAGTCCACAACTCTATGGCACCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAG-CCACAACTCTGTGGCACCCTT
**
106288 TTAAGTTCACAATTTCATGGCACCTTTTT
65 TTAAGCCCACAA-TTCATGGCACCTTTTT
* *
106317 CCTTTTTAAGTCCACAACTCTGTGGCACC-----CTTTT--AAGTCCACAACTCTTTAGCGC-CT
1 CC-TTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAG-CCACAACTCTGT-G-GCAC-
* ** *
106374 CTTTCTTTTCAAAGCCAACAACTTTGTGGCACCATTTTC
61 C---CTTTT--AAGCCCACAA-TTCATGGCACC-TTTTT
* * * *
106413 CCTTTTAAGTCCACAACTCCATGGCACCTGTTTCTTTTCAAAGCTGACAACTCCGTGGCACCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGC-CACAACTCTGTGGCACCCTT
*
106478 TTAA-CTCCACAACTCTATGGCACC----T
65 TTAAGC-CCACAATTC-ATGGCACCTTTTT
* * * * * *
106503 --TTTTAAGTCCACAATTTCGTGGTACCTTTTTCTTTTTAAAGCCCACAACT-TCGTGGAACCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAG-CCACAACTCT-GTGGCACCCT
* *
106565 TTTGAGCCCACAACTCAATGGCACCCTTTTT
64 TTTAAGCCCACAATTC-ATGGCA-CCTTTTT
* *
106596 CCTTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTTCAAAGCCCACAACTCTGTGGCTCCCTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAG-CCACAACTCTGTGGCACCCTT
*
106661 TTAAGCCCACAACTCCATGGCACCCTTTTT
65 TTAAGCCCACAA-TTCATGGCA-CCTTTTT
* * * *
106691 TCTTTTAAGTCCATAACTTCGTGGCACTTTTTTCTTTTCAAAGCCACAACTC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCACAACTC
106743 CATGGTATTT
Statistics
Matches: 342, Mismatches: 51, Indels: 66
0.75 0.11 0.14
Matches are distributed among these distances:
88 83 0.24
89 6 0.02
90 6 0.02
93 6 0.02
94 13 0.04
95 193 0.56
96 8 0.02
97 5 0.01
100 8 0.02
101 3 0.01
102 11 0.03
ACGTcount: A:0.22, C:0.31, G:0.11, T:0.35
Consensus pattern (92 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTCAAAGCCACAACTCTGTGGCACCCTTT
TAAGCCCACAATTCATGGCACCTTTTT
Found at i:106490 original size:27 final size:27
Alignment explanation
Indices: 106459--106516 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
106449 TTCAAAGCTG
*
106459 ACAACTCCGTGGCACCCTTTTAACTCC
1 ACAACTCCATGGCACCCTTTTAACTCC
* * *
106486 ACAACTCTATGGCACCTTTTTAAGTCC
1 ACAACTCCATGGCACCCTTTTAACTCC
106513 ACAA
1 ACAA
106517 TTTCGTGGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.28, C:0.34, G:0.10, T:0.28
Consensus pattern (27 bp):
ACAACTCCATGGCACCCTTTTAACTCC
Found at i:106594 original size:27 final size:27
Alignment explanation
Indices: 106542--106594 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
106532 TTCTTTTTAA
* *
106542 AGCCCACAACTTCGTGGAACCTTTTTG
1 AGCCCACAACTTCATGGAACCCTTTTG
*
106569 AGCCCACAAC-TCAATGGCACCCTTTT
1 AGCCCACAACTTC-ATGGAACCCTTTT
106595 TCCTTTTAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (27 bp):
AGCCCACAACTTCATGGAACCCTTTTG
Found at i:106669 original size:27 final size:27
Alignment explanation
Indices: 106636--106689 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
106626 TTTCTTTTCA
** *
106636 AAGCCCACAACTCTGTGGCTCCCTTTT
1 AAGCCCACAACTCCATGGCACCCTTTT
106663 AAGCCCACAACTCCATGGCACCCTTTT
1 AAGCCCACAACTCCATGGCACCCTTTT
106690 TTCTTTTAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.39, G:0.13, T:0.26
Consensus pattern (27 bp):
AAGCCCACAACTCCATGGCACCCTTTT
Found at i:106850 original size:127 final size:126
Alignment explanation
Indices: 106564--106896 Score: 318
Period size: 127 Copynumber: 2.6 Consensus size: 126
106554 CGTGGAACCT
* * *
106564 TTTTGAGCCCACAACTCAATGGCACCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACATTTTT
1 TTTTAAGCCCACAACTCCATGGCA-CCTTTTTCCTTTTAAG-CCACAACTCCATGGCACATTTTT
106629 CTTTTCAAAGCCCACAACTCTGTGGCTCCCTTTTAAGCCCACAACTCCATGGCACCCTTTTTTC
64 CTTTT-AAAGCCCACAACTCTGTGGCTCCCTTTTAAGCCCACAACTCCATGGCACCCTTTTTTC
* * * * * * **
106693 TTTTAAGTCCATAACTTCGTGGCA-CTTTTTTCTTTTCAAAGCCACAACTCCATGGTATTTTTTT
1 TTTTAAGCCCACAACTCCATGGCACCTTTTTCCTTTT--AAGCCACAACTCCATGGCACATTTTT
* ** * * * * *
106757 CCTTTT-AAGTCCATGACTCTGTGG-TACCCTTTTAAGTCTACAATTCCGTGGTA-CC-TTTTTC
64 -CTTTTAAAGCCCACAACTCTGTGGCT-CCCTTTTAAGCCCACAACTCCATGGCACCCTTTTTTC
* *
106818 TTTTCGAAGCCCACAACTCCATGGTACCTTTTTTCCTTTTAAGCCAACAACTCCGTGGCAGC-TT
1 TTTT--AAGCCCACAACTCCATGGCACC-TTTTTCCTTTTAAGCC-ACAACTCCATGGCA-CATT
106882 TTTCTTTTCAAAGCC
61 TTTCTTTT-AAAGCC
106897 ACAGAAGTCG
Statistics
Matches: 163, Mismatches: 29, Indels: 24
0.75 0.13 0.11
Matches are distributed among these distances:
125 10 0.06
126 3 0.02
127 73 0.45
128 37 0.23
129 40 0.25
ACGTcount: A:0.21, C:0.29, G:0.12, T:0.38
Consensus pattern (126 bp):
TTTTAAGCCCACAACTCCATGGCACCTTTTTCCTTTTAAGCCACAACTCCATGGCACATTTTTCT
TTTAAAGCCCACAACTCTGTGGCTCCCTTTTAAGCCCACAACTCCATGGCACCCTTTTTTC
Found at i:106883 original size:94 final size:93
Alignment explanation
Indices: 106412--106877 Score: 261
Period size: 95 Copynumber: 5.0 Consensus size: 93
106402 GCACCATTTT
* * * * * *
106412 CCCTTTTAAGTCCACAACTCCATGGCACCTGTTTCTTTTCAAAGCTGACAACTCCGTGGCAC---
1 CCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGC-CACAACTCCATGGTACTTT
* **
106474 ---CCTTTTAACTCCACAACTCTATGGCA
65 TTTCCTTTTAAGTCCACAACTCCGTGGCA
* * * * * * *
106500 CCTTTTTAAGTCCACAATTTCGTGGTACCTTTTTCTTTTTAAAGCCCACAACTTCGTGGAAC---
1 CCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAG-CCACAACTCCATGGTACTTT
* * * **
106562 ---CTTTTTGAGCCCACAACTCAATGGCA
65 TTTCCTTTTAAGTCCACAACTCCGTGGCA
* * **
106588 CCCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACATTTTTCTTTTCAAAGCCCACAACTCTGTG
1 --C-----CCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAG-CCACAACTCCATG
* * *
106653 G--C----TCCCTTTTAAGCCCACAACTCCATGGCA
58 GTACTTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
* *
106683 CCCTTTTTTCTTTTAAGTCCATAACTTCGTGGCACTTTTTTCTTTTCAAAGCCACAACTCCATGG
1 -CC------CTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCACAACTCCATGG
* ** * *
106748 TATTTTTTTCCTTTTAAGTCCATGACTCTGTGGTA
59 TACTTTTTTCCTTTTAAGTCCACAACTCCGTGGCA
* * *
106783 CCCTTTTAAGTCTACAA-TTCCGTGGTACCTTTTTCTTTTCGAAGCCCACAACTCCATGGTACCT
1 CCCTTTTAAGTCCACAACTT-CGTGGCACCTTTTTCTTTTCAAAG-CCACAACTCCATGGTA-CT
106847 TTTTTCCTTTTAAG-CCAACAACTCCGTGGCA
63 TTTTTCCTTTTAAGTCC-ACAACTCCGTGGCA
106878 GCTTTTTCTT
Statistics
Matches: 303, Mismatches: 49, Indels: 45
0.76 0.12 0.11
Matches are distributed among these distances:
88 71 0.23
89 2 0.01
90 1 0.00
92 2 0.01
93 35 0.12
94 32 0.11
95 137 0.45
99 2 0.01
100 21 0.07
ACGTcount: A:0.22, C:0.30, G:0.12, T:0.36
Consensus pattern (93 bp):
CCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTCAAAGCCACAACTCCATGGTACTTTT
TTCCTTTTAAGTCCACAACTCCGTGGCA
Found at i:106936 original size:31 final size:31
Alignment explanation
Indices: 106887--106966 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
106877 AGCTTTTTCT
*
106887 TTTC-AAAGCCACAGAAGTCGGTGGCAACCC
1 TTTCAAAAGCCACACAAGTCGGTGGCAACCC
* *
106917 -TTCTAAAGCCCACACAAGTCGGTGGCATCCC
1 TTTCAAAAG-CCACACAAGTCGGTGGCAACCC
106948 TTTCAAAAGGCCACACAAG
1 TTTCAAAA-GCCACACAAG
106967 CTAGTGGCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
29 3 0.07
30 4 0.09
31 20 0.47
32 15 0.35
33 1 0.02
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.17
Consensus pattern (31 bp):
TTTCAAAAGCCACACAAGTCGGTGGCAACCC
Found at i:106974 original size:32 final size:32
Alignment explanation
Indices: 106887--106982 Score: 92
Period size: 32 Copynumber: 3.1 Consensus size: 32
106877 AGCTTTTTCT
* * *
106887 TTTC-AAAG-CCACAGAAGTCGGTGGCAACCC
1 TTTCAAAAGCCCACACAAGTCAGTGGCATCCC
* *
106917 -TTCTAAAGCCCACACAAGTCGGTGGCATCCC
1 TTTCAAAAGCCCACACAAGTCAGTGGCATCCC
*
106948 TTTCAAAAGGCCACACAAG-CTAGTGGCATCTCC
1 TTTCAAAAGCCCACACAAGTC-AGTGGCATC-CC
106981 TT
1 TT
106983 CTAAGTCCAA
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
29 3 0.05
30 4 0.07
31 21 0.38
32 24 0.43
33 4 0.07
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (32 bp):
TTTCAAAAGCCCACACAAGTCAGTGGCATCCC
Found at i:107042 original size:49 final size:51
Alignment explanation
Indices: 106980--107684 Score: 192
Period size: 52 Copynumber: 13.6 Consensus size: 51
106970 GTGGCATCTC
*
106980 CTTC-TAAGTCCAATGTCGCTGGCCTTGAATCAACACATTAGCACCTTCAT
1 CTTCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
* * **
107030 C-T-TTAAGTCCAATGTCACTGGCCTTGAATC-A-GCATTGGCACCTTTTT
1 CTTCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
* * * * *
107077 CTTTCTTAAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-C--AAG
1 C-TTCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
* * *
107126 C--C-TAA-T---A--TCGCTAGCCTTGAATCAGCATATTGGCACCTCTCATT
1 CTTCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCT-TCA-T
* ** * * **
107170 CTTTTTCATCTTTAAGTCTAATGTCGCTGGCCTTGAATCCGCACATTGGTACATTTTT
1 C----T--TC-TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
** * * ** * **
107228 CTTTCTTAAGTTTAATATCGCTGGCCTTGAATTAGTATATTGGCACCTTGGT
1 C-TTCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
* * * * * **
107280 CATCTTTAAGTCTAATGTTGCTAGCCTTGAATCAGCACATTGGCACCTTTTT
1 CTTC-TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
* * ** * * * * **
107332 CTTTCTTAAGTCTAATATTACTGGCTTTGAATCAGCATATTGGCACTTTTGT
1 C-TTCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
* * * * * * * * * *
107384 CATCTTTAAGTCCGATATTGCTGGCCTTAAATCAGCATATCGGCATCTTTATT
1 CTTC-TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCA-T
* * * ** * * *
107437 ATTCCTAAGCCCAATGTTTCTAGCCTTGAATCAGCACATTGGCA--TTCTT
1 CTTCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
* * * * * * * *
107486 CTTATCTTCAAGTCTAATGTCGCTAGCCGTGAATTAGCAAATTAGCA--TTCTT
1 C-T-TCTT-AAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
* * * * * * *
107538 CGTATCTTTAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGACACCTTTATTATTCTT
1 C-T-TC-TTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACC-------TTCAT
* * * *
107599 CTCATCTTCAAGTCTAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTAT
1 CT--TCTT-AAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
* * * *
107653 CATCTTTAAGCCCAATATCCCTGGCCTTGAAT
1 CTTC-TTAAGTCCAATGTCGCTGGCCTTGAAT
107685 AAATATATTA
Statistics
Matches: 497, Mismatches: 111, Indels: 92
0.71 0.16 0.13
Matches are distributed among these distances:
39 25 0.05
40 1 0.00
41 1 0.00
43 1 0.00
44 1 0.00
45 3 0.01
46 1 0.00
47 13 0.03
48 1 0.00
49 30 0.06
50 29 0.06
51 8 0.02
52 287 0.58
53 11 0.02
54 7 0.01
55 3 0.01
58 3 0.01
59 1 0.00
60 29 0.06
61 42 0.08
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (51 bp):
CTTCTTAAGTCCAATGTCGCTGGCCTTGAATCAACACATTGGCACCTTCAT
Done.