Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007328.1 Hibiscus syriacus cultivar Beakdansim tig00019586_pilon, whole genome shotgun sequence
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: 106281
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Found at i:617 original size:17 final size:17
Alignment explanation
Indices: 592--625 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
582 ATGAGAGAAA
*
592 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
609 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
626 TGGGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:1323 original size:72 final size:74
Alignment explanation
Indices: 1211--1425 Score: 321
Period size: 72 Copynumber: 2.9 Consensus size: 74
1201 AAGCTAAAAC
* * * * *
1211 ATCCTAAATCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATAACTAAAACAAAGATAAAA
1 ATCCTAAAACTTAATT-AAATAC-TAAAACCTATTAAAACTAAAATACCTAAAACAAAGATAAAA
1275 TATAAAATAAT
64 TATAAAATAAT
1286 ATCCTAAAACTTAATTAAATAC-AAAACCT-TTAAAACTAAAATACCTAAAAC-AAGATAAAATA
1 ATCCTAAAACTTAATTAAATACTAAAACCTATTAAAACTAAAATACCTAAAACAAAGATAAAATA
1348 TAAAAATAAT
66 T-AAAATAAT
*
1358 ATCCTAAAACTTAATTAAATACTAAAACCTATTTAAACTAAAATACCTAAAACAAAGATAAAATA
1 ATCCTAAAACTTAATTAAATACTAAAACCTATTAAAACTAAAATACCTAAAACAAAGATAAAATA
1423 TAA
66 TAA
1426 TATTTAAAAT
Statistics
Matches: 129, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
71 12 0.09
72 54 0.42
73 9 0.07
74 28 0.22
75 26 0.20
ACGTcount: A:0.59, C:0.14, G:0.01, T:0.26
Consensus pattern (74 bp):
ATCCTAAAACTTAATTAAATACTAAAACCTATTAAAACTAAAATACCTAAAACAAAGATAAAATA
TAAAATAAT
Found at i:3756 original size:17 final size:17
Alignment explanation
Indices: 3734--3774 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
3724 GTTATAGTTA
3734 AAATAAAAATAATAATT
1 AAATAAAAATAATAATT
3751 AAATAAAAATAATAATT
1 AAATAAAAATAATAATT
3768 AAATAAA
1 AAATAAA
3775 CAAATTAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAAAATAATAATT
Found at i:4509 original size:73 final size:72
Alignment explanation
Indices: 4406--4552 Score: 215
Period size: 74 Copynumber: 2.0 Consensus size: 72
4396 AATACCTACA
* * * *
4406 AAAATATATATAATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAATTAAAATACAAAGA
1 AAAATATAAATAATTCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAAGA
4470 TAAAGAT
66 TAAAGAT
*
4477 AAAATATAAATAATATCCTAAAACGTAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAA
1 AAAATATAAATAAT-T-CTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAA
*
4542 GATAAATAT
64 GATAAAGAT
4551 AA
1 AA
4553 TGTTTAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 13 0.19
72 1 0.01
73 19 0.28
74 34 0.51
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.29
Consensus pattern (72 bp):
AAAATATAAATAATTCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATAAAAAGA
TAAAGAT
Found at i:6164 original size:17 final size:17
Alignment explanation
Indices: 6139--6174 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
6129 CGAACCAAAT
6139 CTGTTTTTTTTT-TGCA
1 CTGTTTTTTTTTATGCA
6155 CTGTTTTTTTTTATGCA
1 CTGTTTTTTTTTATGCA
6172 CTG
1 CTG
6175 CATTGTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.08, C:0.14, G:0.14, T:0.64
Consensus pattern (17 bp):
CTGTTTTTTTTTATGCA
Found at i:6395 original size:11 final size:11
Alignment explanation
Indices: 6379--6424 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
6369 AGTTCGCTAA
6379 AAAATAAAACG
1 AAAATAAAACG
6390 AAAATAAAA--
1 AAAATAAAACG
*
6399 AAAATAAAAACA
1 AAAAT-AAAACG
*
6411 AAAATATAACG
1 AAAATAAAACG
6422 AAA
1 AAA
6425 TGGGTTGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
9 5 0.17
10 4 0.13
11 16 0.53
12 5 0.17
ACGTcount: A:0.78, C:0.07, G:0.04, T:0.11
Consensus pattern (11 bp):
AAAATAAAACG
Found at i:6408 original size:21 final size:20
Alignment explanation
Indices: 6377--6416 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
6367 AAAGTTCGCT
*
6377 AAAAAATAAAACGAAAATAA
1 AAAAAATAAAACAAAAATAA
6397 AAAAAATAAAAACAAAAATA
1 AAAAAAT-AAAACAAAAATA
6417 TAACGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (20 bp):
AAAAAATAAAACAAAAATAA
Found at i:9699 original size:15 final size:15
Alignment explanation
Indices: 9679--9712 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
9669 TTCCTCTTGT
9679 TCTTCCTGACGTGCG
1 TCTTCCTGACGTGCG
*
9694 TCTTCCTGATGTGCG
1 TCTTCCTGACGTGCG
9709 TCTT
1 TCTT
9713 TTTCTGCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.24, T:0.41
Consensus pattern (15 bp):
TCTTCCTGACGTGCG
Found at i:11385 original size:15 final size:15
Alignment explanation
Indices: 11362--11412 Score: 84
Period size: 15 Copynumber: 3.4 Consensus size: 15
11352 ATATATTAAA
* *
11362 ATAAAATAATGTAAT
1 ATAATATAATATAAT
11377 ATAATATAATATAAT
1 ATAATATAATATAAT
11392 ATAATATAATATAAT
1 ATAATATAATATAAT
11407 ATAATA
1 ATAATA
11413 ATAAATATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
ATAATATAATATAAT
Found at i:11425 original size:10 final size:10
Alignment explanation
Indices: 11362--11412 Score: 84
Period size: 10 Copynumber: 5.1 Consensus size: 10
11352 ATATATTAAA
*
11362 ATAAAATAAT
1 ATAATATAAT
*
11372 GTAATATAAT
1 ATAATATAAT
11382 ATAATATAAT
1 ATAATATAAT
11392 ATAATATAAT
1 ATAATATAAT
11402 ATAATATAAT
1 ATAATATAAT
11412 A
1 A
11413 ATAAATATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 38 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (10 bp):
ATAATATAAT
Found at i:11500 original size:15 final size:16
Alignment explanation
Indices: 11482--11512 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
11472 AAAAAATAAG
11482 AATTAAATAAA-AAAT
1 AATTAAATAAACAAAT
11497 AATTAAATAAACAAAT
1 AATTAAATAAACAAAT
11513 TAAAGAGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AATTAAATAAACAAAT
Found at i:12182 original size:19 final size:19
Alignment explanation
Indices: 12160--12197 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12150 ATAATATAAT
*
12160 ATTCTAAATCCTAATTAAA
1 ATTCTAAAACCTAATTAAA
*
12179 ATTCTAAAACCTATTTAAA
1 ATTCTAAAACCTAATTAAA
12198 CTAAATACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTCTAAAACCTAATTAAA
Found at i:12199 original size:75 final size:75
Alignment explanation
Indices: 12142--12290 Score: 219
Period size: 74 Copynumber: 2.0 Consensus size: 75
12132 CTAAAATACC
* * * *
12142 TAAAAAATATAATATAATATTCTAAATCCTAATTAAAATTCT-AAAACCTATTTAAACTAAATAC
1 TAAAAAATA-AAAATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAATAC
12206 AAATATAAAGA
65 AAATATAAAGA
* *
12217 TAAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATAC
1 TAAAAAATAAAAATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACT-AAATAC
12282 AAATATAAA
65 AAATATAAA
12291 ATATAATGTT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
74 27 0.41
75 24 0.36
76 15 0.23
ACGTcount: A:0.58, C:0.11, G:0.01, T:0.30
Consensus pattern (75 bp):
TAAAAAATAAAAATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAATACA
AATATAAAGA
Found at i:12233 original size:74 final size:75
Alignment explanation
Indices: 12145--12317 Score: 226
Period size: 76 Copynumber: 2.3 Consensus size: 75
12135 AAATACCTAA
* * * *
12145 AAAATATAATATAATATTCTAAATCCTAATTAAAATTCT-AAAACCTATTTAAACT-AAATACAA
1 AAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAA
12208 ATATAAAGAT
66 ATATAAAGAT
*
12218 AAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACA
1 AAAATAT-AAAATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACA
12283 AATATAAA-AT
65 AATATAAAGAT
* * *
12293 ATAATGTTTAAAATATTATCCTAAA
1 A-AA-ATATAAAATAATATCCTAAA
12318 TTTGAGTTTA
Statistics
Matches: 87, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
73 7 0.08
74 27 0.31
75 19 0.22
76 32 0.37
77 2 0.02
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.32
Consensus pattern (75 bp):
AAAATATAAAATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAA
ATATAAAGAT
Found at i:14411 original size:158 final size:155
Alignment explanation
Indices: 14084--14619 Score: 594
Period size: 158 Copynumber: 3.4 Consensus size: 155
14074 CTTGATTTCA
* * *
14084 TTATTTCTTCAATTCCA-CCATCATTTAAAGTCCATTTTTTTACCAAA-TTGAATCACATGCTTC
1 TTATTTCTTCAATT-CATCCTTTATTT-AAGTCCA-TTTTTTACCAAATTTGAA-CACATGCTCC
* * * * * * * * * * * *
14147 TAAGCTATCGTATAATATATGTATACTTTCAATTTCTCTTGTTGATAATAAATTTTCTATTTTTC
62 TAAACCAGCATAGAATACATGTACACTTTTAATTCCCCTTTTTGATAATAAATTTT-AATTTTTC
*
14212 AATTTAGT-CATCAACTTTTCATATCTTCC
126 AATTTAGTCCCTCAACTTTTCATATCTTCC
* * * *
14241 TTATTTTTTTCAATTCATCATTTATTTTAAGTCCAATTTTTACTAAATTTGAACAACATGCTCCT
1 TTA-TTTCTTCAATTCATCCTTTA-TTTAAGTCCATTTTTTACCAAATTTGAAC-ACATGCTCCT
* * * *
14306 AAACCATCATAGAATACATTTGCACTTTTGATTCCCCTTTTTGATAATAAAGTTTTAATTTTTCA
63 AAACCAGCATAGAATACATGTACACTTTTAATTCCCCTTTTTGATAATAAA-TTTTAATTTTTCA
14371 ATTTAGTCCCTCAACTTTTCATATCTTCC
127 ATTTAGTCCCTCAACTTTTCATATCTTCC
* * *
14400 TTATTTCTTCAATTCATCCTTTACTTTAAG-CCTGTTTTTTACCAAATTTAAACCATATGCTCCT
1 TTATTTCTTCAATTCATCCTTTA-TTTAAGTCC-ATTTTTTACCAAATTTGAA-CACATGCTCCT
* * * *
14464 AAACTAGCATAGAATACATGTATACTTTTAATTTCTCTTTTTGATAATAAATTTTATATTTTTCA
63 AAACCAGCATAGAATACATGTACACTTTTAATTCCCCTTTTTGATAATAAATTTTA-ATTTTTCA
* *
14529 ATTTAGTCCCACAACTTTTCATTTCTTCC
127 ATTTAGTCCCTCAACTTTTCATATCTTCC
* *
14558 TTATTTCTTCAATTCATCCTGTAATTAAGTCCATTTTTTTACCAAATTTGAATCACATGCTC
1 TTATTTCTTCAATTCATCCTTTATTTAAGTCCA-TTTTTTACCAAATTTGAA-CACATGCTC
14620 ATATATCATA
Statistics
Matches: 321, Mismatches: 46, Indels: 23
0.82 0.12 0.06
Matches are distributed among these distances:
157 28 0.09
158 262 0.82
159 31 0.10
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.46
Consensus pattern (155 bp):
TTATTTCTTCAATTCATCCTTTATTTAAGTCCATTTTTTACCAAATTTGAACACATGCTCCTAAA
CCAGCATAGAATACATGTACACTTTTAATTCCCCTTTTTGATAATAAATTTTAATTTTTCAATTT
AGTCCCTCAACTTTTCATATCTTCC
Found at i:14916 original size:2 final size:2
Alignment explanation
Indices: 14904--14935 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
14894 AGCAAAAAGA
14904 AT AT A- AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14936 GGTTAAACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15034 original size:14 final size:14
Alignment explanation
Indices: 15015--15050 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
15005 TAGTATTAAA
15015 ACTTGAATAACTCG
1 ACTTGAATAACTCG
15029 ACTTGAATAACTCG
1 ACTTGAATAACTCG
*
15043 ACTCGAAT
1 ACTTGAAT
15051 TTCTTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (14 bp):
ACTTGAATAACTCG
Found at i:15686 original size:60 final size:58
Alignment explanation
Indices: 15618--15799 Score: 204
Period size: 60 Copynumber: 3.0 Consensus size: 58
15608 ATACTTGGAT
*
15618 TAATTTGGGGATGAAATTGAAAGATTTTAAAGTTTAAGGACCAATTTGGAATGAGA-TCCA
1 TAATTTGGGGATGAAATT-AAA-ATTTTAAAGTTTAAGGACTAATTTGGAATGAGAGT-CA
* *
15678 TAATTTGGGGATGAAATTTAAATTTTCAAAAGTTTAAGGACTAATTTAGAATGAGAGTCA
1 TAATTTGGGGATGAAATTAAAATTTT--AAAGTTTAAGGACTAATTTGGAATGAGAGTCA
* ** * * * *
15738 TAGTTTAAGGATGAAATTAGAATACTTAAAAGTTTAAGGACTAATTTGAAATGATAGTCA
1 TAATTTGGGGATGAAATTA-AA-ATTTTAAAGTTTAAGGACTAATTTGGAATGAGAGTCA
15798 TA
1 TA
15800 TTTTAAGGAC
Statistics
Matches: 105, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
58 5 0.05
59 2 0.02
60 92 0.88
61 3 0.03
62 3 0.03
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.34
Consensus pattern (58 bp):
TAATTTGGGGATGAAATTAAAATTTTAAAGTTTAAGGACTAATTTGGAATGAGAGTCA
Found at i:15744 original size:31 final size:30
Alignment explanation
Indices: 15708--15809 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 30
15698 AATTTTCAAA
15708 AGTTTAAGGACTAATTTAGAATGAGAGTCAT
1 AGTTTAAGGACTAATTTAGAATGA-AGTCAT
* ** * *
15739 AGTTTAAGGA-TGAAATTAGAAT-ACTTAAA
1 AGTTTAAGGACT-AATTTAGAATGAAGTCAT
15768 AGTTTAAGGACTAATTT-GAAATGATAGTCAT
1 AGTTTAAGGACTAATTTAG-AATGA-AGTCAT
*
15799 ATTTTAAGGAC
1 AGTTTAAGGAC
15810 ATACGATGCA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
28 1 0.02
29 19 0.35
30 4 0.07
31 31 0.56
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (30 bp):
AGTTTAAGGACTAATTTAGAATGAAGTCAT
Found at i:18949 original size:13 final size:13
Alignment explanation
Indices: 18923--18957 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
18913 CAATCCAGGC
18923 GACATACG-GGGT
1 GACATACGAGGGT
18935 GACATACGAGGGT
1 GACATACGAGGGT
18948 GACATACGAG
1 GACATACGAG
18958 CCATATACGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.31, C:0.17, G:0.37, T:0.14
Consensus pattern (13 bp):
GACATACGAGGGT
Found at i:19129 original size:93 final size:92
Alignment explanation
Indices: 18971--19179 Score: 357
Period size: 93 Copynumber: 2.3 Consensus size: 92
18961 TATACGAGTC
* * *
18971 ATACGAGCCAATGGGGAGGATGCAACGAGCCATACGAGGCAATGGGGAGCATGCAGGAATAGAGA
1 ATACGAGCCAATGGGGAGCATGCAACGAGCCATACGAGCCAACGGGGAGCATGCAGGAATAGAGA
19036 GCCAATGGGGAGCATGCAACGAGCCAT
66 GCCAATGGGGAGCATGCAACGAGCCAT
*
19063 ATACGAGCC-ATGGGGAGCATGCAACGAGCCATATACGAGCCCACGGGGAGCATGCAGGAATAGA
1 ATACGAGCCAATGGGGAGCATGCAACGAGCC--ATACGAGCCAACGGGGAGCATGCAGGAATAGA
19127 GAGCCAATGGGGAGCATGCAACGAGCCAT
64 GAGCCAATGGGGAGCATGCAACGAGCCAT
19156 ATACGAGCCAATGGGGAGCATGCA
1 ATACGAGCCAATGGGGAGCATGCA
19180 GGAATAGAGA
Statistics
Matches: 110, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
91 20 0.18
92 9 0.08
93 67 0.61
94 14 0.13
ACGTcount: A:0.33, C:0.22, G:0.34, T:0.11
Consensus pattern (92 bp):
ATACGAGCCAATGGGGAGCATGCAACGAGCCATACGAGCCAACGGGGAGCATGCAGGAATAGAGA
GCCAATGGGGAGCATGCAACGAGCCAT
Found at i:19149 original size:61 final size:61
Alignment explanation
Indices: 19067--19226 Score: 295
Period size: 61 Copynumber: 2.6 Consensus size: 61
19057 AGCCATATAC
*
19067 GAGCC-ATGGGGAGCATGCAACGAGCCATATACGAGCCCACGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCAACGGGGAGCATGCAGGAATAGA
*
19127 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCAATGGGGAGCATGCAGGAATAGA
1 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCAACGGGGAGCATGCAGGAATAGA
19188 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCA
1 GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCA
19227 TGCAGGAATA
Statistics
Matches: 97, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
60 5 0.05
61 92 0.95
ACGTcount: A:0.33, C:0.23, G:0.34, T:0.11
Consensus pattern (61 bp):
GAGCCAATGGGGAGCATGCAACGAGCCATATACGAGCCAACGGGGAGCATGCAGGAATAGA
Found at i:19290 original size:29 final size:29
Alignment explanation
Indices: 19240--19377 Score: 242
Period size: 29 Copynumber: 4.8 Consensus size: 29
19230 AGGAATAGAG
* *
19240 AGGTCGCCATGCAG-CCTAGGCGACCTTGT
1 AGGTCGCCATGTAGTCC-CGGCGACCTTGT
19269 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
19298 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
19327 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
19356 AGGTCGCCATGTAGTCCCGGCG
1 AGGTCGCCATGTAGTCCCGGCG
19378 CCATTCCCAT
Statistics
Matches: 106, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
29 104 0.98
30 2 0.02
ACGTcount: A:0.14, C:0.31, G:0.32, T:0.22
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:19496 original size:36 final size:37
Alignment explanation
Indices: 19428--19501 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
19418 CATAGATTCC
19428 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
1 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
19465 TTCACGTGCTCCCCGCTGCA-TGCCTACACCTCCCAA
1 TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
19501 T
1 T
19502 GCATGCACGT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 17 0.46
37 20 0.54
ACGTcount: A:0.16, C:0.46, G:0.14, T:0.24
Consensus pattern (37 bp):
TTCACGTGCTCCCCGCTGCATTGCCTACACCTCCCAA
Found at i:19655 original size:23 final size:23
Alignment explanation
Indices: 19627--19672 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
19617 AAAAGAAAGA
19627 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
19650 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGGGAGAAGAGATTGCAG
19673 CCGAGAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.04, G:0.39, T:0.09
Consensus pattern (23 bp):
AAGAAAGGGAGAAGAGATTGCAG
Found at i:19685 original size:4 final size:4
Alignment explanation
Indices: 19676--19741 Score: 55
Period size: 4 Copynumber: 16.5 Consensus size: 4
19666 ATTGCAGCCG
** **
19676 AGAA AGAA AGAA AGAA AGGG AGAA AGGAA AGAA AGAA AGGG AGAA AGGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA A-GAA AGAA AGAA AGAA AGAA A-GAA
*
19726 AGTA AG-A AG-A AGAA AG
1 AGAA AGAA AGAA AGAA AG
19742 GGAGATAAGG
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
3 6 0.12
4 36 0.72
5 8 0.16
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (4 bp):
AGAA
Found at i:19687 original size:25 final size:23
Alignment explanation
Indices: 19627--19687 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
19617 AAAAGAAAGA
**
19627 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
**
19650 AAGAAAGGGAGAAGAGATTGCAG
1 AAGAAAGAAAGAAGAGATTGCAG
*
19673 CCGAGAAAGAAAGAA
1 --AAGAAAGAAAGAA
19688 AGAAAGGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 23 0.70
25 10 0.30
ACGTcount: A:0.51, C:0.07, G:0.36, T:0.07
Consensus pattern (23 bp):
AAGAAAGAAAGAAGAGATTGCAG
Found at i:19707 original size:21 final size:21
Alignment explanation
Indices: 19675--19733 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
19665 GATTGCAGCC
19675 GAGAAA-GAAAGAAAGAAAGG
1 GAGAAAGGAAAGAAAGAAAGG
19695 GAGAAAGGAAAGAAAGAAAGG
1 GAGAAAGGAAAGAAAGAAAGG
*
19716 GAGAAAGGAAAGTAAGAA
1 GAGAAAGGAAAGAAAGAA
19734 GAAGAAAGGG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 6 0.16
21 31 0.84
ACGTcount: A:0.63, C:0.00, G:0.36, T:0.02
Consensus pattern (21 bp):
GAGAAAGGAAAGAAAGAAAGG
Found at i:20000 original size:44 final size:42
Alignment explanation
Indices: 19895--20024 Score: 117
Period size: 44 Copynumber: 3.0 Consensus size: 42
19885 TACATAAATT
*
19895 AAAAATTATTTAATTAGTATATGTTTG--ATAGTTA--TATAGTT
1 AAAAATTATTTAATTAGT-T-TGTTTGTTATAGTTAGTTATA-TA
*
19936 AAAAA-TAATTAATTAGTTTGTATTGTTATAGTTAGTTATATAA
1 AAAAATTATTTAATTAGTTTGT-TTGTTATAGTTAGTTATAT-A
19979 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTATTTAATTAGTTTGT-TT-GTT--ATAGTT-AGTTATAT
20025 TTGTTTGTTG
Statistics
Matches: 74, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
38 3 0.04
39 4 0.05
40 11 0.15
41 12 0.16
42 1 0.01
43 9 0.12
44 17 0.23
45 3 0.04
47 6 0.08
48 8 0.11
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (42 bp):
AAAAATTATTTAATTAGTTTGTTTGTTATAGTTAGTTATATA
Found at i:20219 original size:16 final size:16
Alignment explanation
Indices: 20187--20233 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
20177 TTTAAAAAGT
*
20187 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
20203 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
20219 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
20234 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:20228 original size:15 final size:14
Alignment explanation
Indices: 20208--20238 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
20198 GTTTATTAGT
20208 TTATTATATTATAAG
1 TTATTATATTA-AAG
20223 TTATTATATTAAAG
1 TTATTATATTAAAG
20237 TT
1 TT
20239 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:22405 original size:17 final size:17
Alignment explanation
Indices: 22383--22415 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
22373 CAATGATTTT
*
22383 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
22400 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
22416 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:22544 original size:26 final size:26
Alignment explanation
Indices: 22513--22871 Score: 203
Period size: 26 Copynumber: 13.4 Consensus size: 26
22503 TTGTTAGTAT
22513 TAAATCATTATTATAAATCATTATTA
1 TAAATCATTATTATAAATCATTATTA
22539 TAAATCATTATTATAAAT-A--ATTA
1 TAAATCATTATTATAAATCATTATTA
* *
22562 CTAAAT-A--ATAACTAAATAATTATTA
1 -TAAATCATTATTA-TAAATCATTATTA
*
22587 TAAAATCATTATTAT-AATGATTATTA
1 T-AAATCATTATTATAAATCATTATTA
*
22613 TCAAATCATTACTAAATCATCAAATCATTAAATATT
1 T-AAATCATTA-T---T-AT-AAATCATT--AT-TA
*
22649 TAAATCATTA-T-TAAATCATTTTTA
1 TAAATCATTATTATAAATCATTATTA
* *
22673 T-AATGATTATTACTAAATTATTATTA
1 TAAATCATTATTA-TAAATCATTATTA
* *
22699 T-AATGATTATTATCAAATCATTACTA
1 TAAATCATTATTAT-AAATCATTATTA
*
22725 T-AATGATTATTATCAAATCATTACTAAATCA
1 TAAATCATTATTAT-AAATCATTA-T---T-A
*
22756 TCAAATCATTAAATATTTAAATCATTA-T-
1 T-AAATCATT--AT-TATAAATCATTATTA
* *
22784 TAAATCATTTTTAT-AATGATTATTA
1 TAAATCATTATTATAAATCATTATTA
*
22809 CTAAATCATTATTAT-AATGATTATTA
1 -TAAATCATTATTATAAATCATTATTA
* *
22835 TCAAATCATTACTAT-AATGATTATTA
1 T-AAATCATTATTATAAATCATTATTA
22861 TCAAATCATTA
1 T-AAATCATTA
22872 CTAAATCATC
Statistics
Matches: 275, Mismatches: 21, Indels: 74
0.74 0.06 0.20
Matches are distributed among these distances:
21 3 0.01
22 5 0.02
23 20 0.07
24 12 0.04
25 13 0.05
26 153 0.56
27 18 0.07
28 5 0.02
30 4 0.01
31 4 0.01
33 12 0.04
35 22 0.08
36 4 0.01
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (26 bp):
TAAATCATTATTATAAATCATTATTA
Found at i:22568 original size:11 final size:11
Alignment explanation
Indices: 22548--22583 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
22538 ATAAATCATT
22548 ATTA-TAAATA
1 ATTACTAAATA
22558 ATTACTAAATA
1 ATTACTAAATA
*
22569 ATAACTAAATA
1 ATTACTAAATA
22580 ATTA
1 ATTA
22584 TTATAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (11 bp):
ATTACTAAATA
Found at i:22730 original size:124 final size:124
Alignment explanation
Indices: 22521--22929 Score: 689
Period size: 124 Copynumber: 3.3 Consensus size: 124
22511 ATTAAATCAT
* * * * *
22521 TATTATAAATCATTATTATAAATCATTATTATAA--ATAATTACTAAATAATAACTA-AATAATT
1 TATT-TAAATCATTA-T-TAAATCATTTTTATAATGATTATTACTAAATAATTATTATAATGATT
* *
22583 ATTATAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
63 ATTATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
*
22645 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATTATTATTATAATGATTATT
1 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATAATTATTATAATGATTATT
22710 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
66 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
*
22769 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATCATTATTATAATGATTATT
1 TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATAATTATTATAATGATTATT
22834 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
66 ATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
22893 TATTTAAATCATTATTAAATCATTTTTATAATGATTA
1 TATTTAAATCATTATTAAATCATTTTTATAATGATTA
22930 ATAAATACAT
Statistics
Matches: 273, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
121 15 0.05
122 1 0.00
123 27 0.10
124 230 0.84
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (124 bp):
TATTTAAATCATTATTAAATCATTTTTATAATGATTATTACTAAATAATTATTATAATGATTATT
ATCAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATCATTAAA
Found at i:25813 original size:26 final size:24
Alignment explanation
Indices: 25755--25813 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
25745 CTAATAAACC
*
25755 TAATAATGATTTGATAATTACTAT
1 TAATAATGATTTGATAATTAATAT
*
25779 TAATCTAATGATTTGATATTTAATGATT
1 TAA--TAATGATTTGATAATTAAT-A-T
25807 TAATAAT
1 TAATAAT
25814 AATATGATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 3 0.10
26 21 0.72
27 1 0.03
28 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.47
Consensus pattern (24 bp):
TAATAATGATTTGATAATTAATAT
Found at i:26662 original size:28 final size:30
Alignment explanation
Indices: 26622--26684 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
26612 ATTTTTTATA
*
26622 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
26652 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
26680 TAATA
1 TAATA
26685 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:26691 original size:28 final size:28
Alignment explanation
Indices: 26626--26691 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
26616 TTTATATAAT
*
26626 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
26654 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
26682 ATAATTTATA
1 ATAATATATA
26692 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:26694 original size:21 final size:21
Alignment explanation
Indices: 26661--26709 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
26651 CTAATATAAT
26661 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
26682 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
26703 ATTAACT
1 A-TAACT
26710 AGATTTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:27254 original size:25 final size:25
Alignment explanation
Indices: 27200--27257 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
27190 GTTCCCACGT
* *
27200 CCCATGCACAGCATGCATCTGCATG
1 CCCATGCACAGCATGCATCTCCATC
* *
27225 ACCATGCACAGCATGCATC-CCCTCC
1 CCCATGCACAGCATGCATCTCCAT-C
27250 CCCATGCA
1 CCCATGCA
27258 TTCCCACGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.07
25 25 0.93
ACGTcount: A:0.24, C:0.43, G:0.16, T:0.17
Consensus pattern (25 bp):
CCCATGCACAGCATGCATCTCCATC
Found at i:27348 original size:29 final size:29
Alignment explanation
Indices: 27316--27395 Score: 151
Period size: 29 Copynumber: 2.8 Consensus size: 29
27306 TCCACCTTGG
*
27316 AGGTCGCCCGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
27345 AGGTCGCCTGGATTGCATGGCGACCTCCA
1 AGGTCGCCTGGATTGCATGGCGACCTCCA
27374 AGGTCGCCTGGATTGCATGGCG
1 AGGTCGCCTGGATTGCATGGCG
27396 TCCTATGGCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.16, C:0.30, G:0.34, T:0.20
Consensus pattern (29 bp):
AGGTCGCCTGGATTGCATGGCGACCTCCA
Found at i:29587 original size:13 final size:13
Alignment explanation
Indices: 29543--29589 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
29533 CTTTTCTTTG
*
29543 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
29557 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
29569 TTTATTTAAAATAA
1 -ATATTTAAAATAA
29583 ATATTTA
1 ATATTTA
29590 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:31058 original size:3 final size:3
Alignment explanation
Indices: 31050--31102 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
31040 AATATATATT
*
31050 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
31098 TAA TA
1 TAA TA
31103 TGGGTAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:31701 original size:113 final size:113
Alignment explanation
Indices: 31419--32194 Score: 1200
Period size: 113 Copynumber: 6.9 Consensus size: 113
31409 GATAGAATTA
* * *
31419 TTGAACAAGTTCTTTTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
31484 CTTTCTCTGGAAAAGATAATCCATCAATTTGATGAATTCAGGCAAAAGG
66 CTTTCTCTGGAAAAGATAATCCATCAA-GTGATGAATTCAAGTAAAAGG
*
31533 TTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * *
31598 CTTTCTCTGGAAAAGCTGATCCATCAAGTAATGAATTCAGGTAAAAGG
66 CTTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAAGTAAAAGG
31646 TTGAACAAATTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 TTGAACAAATTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * * *
31710 ACTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAGG
65 ACTTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAAGTAAAAGG
31759 TTGAACAAATTCTTCTCATTATGAACTT-TCTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 TTGAACAAATTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGA
* * * *
31823 ACTTTCTCTGGAAATGATGATCCATCAAATGATGGATTCAAGTAAAAGG
65 ACTTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAAGTAAAAGG
* *
31872 TGGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
31937 CTTTCTCTGGAAAAAATAATCCATCAAGTGATGGATTCAAGTAAAAGT
66 CTTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAAGTAAAAGG
31985 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* *
32050 CTTTCTCTGGAAAAAATAATCCATCAAGTGATGAATTC-AGACAAAAGG
66 CTTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAAG-TAAAAGG
*
32098 TTAAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
1 TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
* * * *
32163 CCTTCTCTAGAAATG-TAAATCCATCAAATGAT
66 CTTTCTCTGGAAAAGAT-AATCCATCAAGTGAT
32195 AGATTTGAAT
Statistics
Matches: 624, Mismatches: 34, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
112 4 0.01
113 533 0.85
114 87 0.14
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (113 bp):
TTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTCTCTGGAAAAGATAATCCATCAAGTGATGAATTCAAGTAAAAGG
Found at i:33065 original size:83 final size:83
Alignment explanation
Indices: 32926--33661 Score: 1384
Period size: 83 Copynumber: 8.9 Consensus size: 83
32916 GTAGTTCCTA
*
32926 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCGA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
32991 ATTCAAAT-ATTGGTTCTG
66 ATTC-AATGATTGGTTCTG
*
33009 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATACTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
33074 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
33092 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
33157 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
33175 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
33240 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
33258 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTTATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
33323 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
33341 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
33406 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
33424 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
33489 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
33507 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
33572 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
33590 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
33655 ATTCAAT
66 ATTCAAT
33662 TAATTGTTTG
Statistics
Matches: 638, Mismatches: 14, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
82 3 0.00
83 635 1.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.26
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAACACATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:34806 original size:6 final size:6
Alignment explanation
Indices: 34795--34843 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
34785 CTTAACCCTC
* *
34795 CTTTTT CTTTTT CTTTTT CTCTCTTT TTTTCTT TTTTTT CTTTTT CTTT
1 CTTTTT CTTTTT CTTTTT CT-T-TTT CTTT-TT CTTTTT CTTTTT CTTT
34844 CTTTTCTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
6 26 0.68
7 8 0.21
8 4 0.11
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:34821 original size:10 final size:9
Alignment explanation
Indices: 34802--34848 Score: 60
Period size: 10 Copynumber: 5.1 Consensus size: 9
34792 CTCCTTTTTC
34802 TTTTTC-TT
1 TTTTTCTTT
*
34810 TTTCTCTCTT
1 TTTTTCT-TT
34820 TTTTTCTTT
1 TTTTTCTTT
34829 TTTTTCTTT
1 TTTTTCTTT
34838 TTCTTTCTTT
1 TT-TTTCTTT
34848 T
1 T
34849 CTTCAAGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 5 0.15
9 13 0.38
10 16 0.47
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:34823 original size:24 final size:23
Alignment explanation
Indices: 34796--34851 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 23
34786 TTAACCCTCC
34796 TTTTTCTTTTTCTTT-TTCTCTCTT
1 TTTTTCTTTTT-TTTCTT-TCTCTT
*
34820 TTTTTCTTTTTTTTCTTTTTCTT
1 TTTTTCTTTTTTTTCTTTCTCTT
34843 TCTTTTCTT
1 T-TTTTCTT
34852 CAAGCATAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 9 0.31
24 20 0.69
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTCTTTTTTTTCTTTCTCTT
Found at i:34830 original size:19 final size:18
Alignment explanation
Indices: 34802--34848 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
34792 CTCCTTTTTC
34802 TTTTTC-TTTTTCTCTCTT
1 TTTTTCTTTTTTCTCT-TT
*
34820 TTTTTCTTTTTTTTCTTT
1 TTTTTCTTTTTTCTCTTT
34838 TTCTTTCTTTT
1 TT-TTTCTTTT
34849 CTTCAAGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTTCTCTTT
Found at i:34849 original size:9 final size:9
Alignment explanation
Indices: 34804--34851 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
34794 CCTTTTTCTT
34804 TTTCTTTTTC
1 TTTC-TTTTC
*
34814 TCTCTTTT-
1 TTTCTTTTC
*
34822 TTTCTTTTT
1 TTTCTTTTC
34831 TTTCTTTTTC
1 TTTC-TTTTC
34841 TTTCTTTTC
1 TTTCTTTTC
34850 TT
1 TT
34852 CAAGCATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
8 7 0.21
9 15 0.45
10 11 0.33
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:44473 original size:17 final size:17
Alignment explanation
Indices: 44451--44492 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
44441 AAAATAAAAC
*
44451 ATATAAATATTATGAAA
1 ATATAAAAATTATGAAA
*
44468 ATATAAAAATTTTGAAA
1 ATATAAAAATTATGAAA
44485 ATA-AAAAA
1 ATATAAAAA
44493 AAATTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (17 bp):
ATATAAAAATTATGAAA
Found at i:44477 original size:19 final size:19
Alignment explanation
Indices: 44455--44498 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
44445 TAAAACATAT
*
44455 AAATATTATGAAAATATAA
1 AAATATTATGAAAATAAAA
44474 AAAT-TT-TGAAAATAAAA
1 AAATATTATGAAAATAAAA
*
44491 AAAAATTA
1 AAATATTA
44499 AAATTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 13 0.62
18 4 0.19
19 4 0.19
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (19 bp):
AAATATTATGAAAATAAAA
Found at i:45165 original size:13 final size:13
Alignment explanation
Indices: 45121--45167 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
45111 CTTTTCTTTG
*
45121 ATATTGAAAACTAA
1 ATATTTAAAA-TAA
45135 ATA-TTAAAATAA
1 ATATTTAAAATAA
*
45147 TTTATTTAAAATAA
1 -ATATTTAAAATAA
45161 ATATTTA
1 ATATTTA
45168 TTTATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 13 0.46
14 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (13 bp):
ATATTTAAAATAA
Found at i:46541 original size:3 final size:3
Alignment explanation
Indices: 46533--46583 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
46523 TTTATATATG
46533 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
46581 ATA
1 ATA
46584 TGGGTAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:47491 original size:36 final size:35
Alignment explanation
Indices: 47411--47551 Score: 167
Period size: 35 Copynumber: 4.0 Consensus size: 35
47401 AAAAGATGAA
* *
47411 CACTTGAATCGAAAGTGT-AACGCCTCCTTCCGTT
1 CACTTGAATCGAAAGTGTCGATGCCTCCTTCCGTT
* *
47445 CAACTTGAATCGAAAGTGTCGATGCGTCCTTTCGTT
1 C-ACTTGAATCGAAAGTGTCGATGCCTCCTTCCGTT
* * *
47481 CTTCTAGAATCGAAAGTGTCGATGCTTCCTTCCGTT
1 C-ACTTGAATCGAAAGTGTCGATGCCTCCTTCCGTT
* * *
47517 CACTTGAATCGAAAGTGACGATACTTCCTTCCGTT
1 CACTTGAATCGAAAGTGTCGATGCCTCCTTCCGTT
47552 TGACGTATTC
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
34 1 0.01
35 47 0.51
36 44 0.48
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (35 bp):
CACTTGAATCGAAAGTGTCGATGCCTCCTTCCGTT
Found at i:47546 original size:71 final size:71
Alignment explanation
Indices: 47416--47551 Score: 193
Period size: 71 Copynumber: 1.9 Consensus size: 71
47406 ATGAACACTT
* * *
47416 GAATCGAAAGTGTAACGCCTCCTTCCGTTCAACTTGAATCGAAAGTGTCGATGCGTCCTTTCGTT
1 GAATCGAAAGTGTAACGCCTCCTTCCGTTCAACTTGAATCGAAAGTGACGATACGTCCTTCCGTT
47481 CTTCTA
66 CTTCTA
* * * *
47487 GAATCGAAAGTGTCGATGCTTCCTTCCGTTC-ACTTGAATCGAAAGTGACGATACTTCCTTCCGT
1 GAATCGAAAGTGT-AACGCCTCCTTCCGTTCAACTTGAATCGAAAGTGACGATACGTCCTTCCGT
47551 T
65 T
47552 TGACGTATTC
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
71 43 0.75
72 14 0.25
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (71 bp):
GAATCGAAAGTGTAACGCCTCCTTCCGTTCAACTTGAATCGAAAGTGACGATACGTCCTTCCGTT
CTTCTA
Found at i:50267 original size:29 final size:29
Alignment explanation
Indices: 50224--50306 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
50214 CTCACCTAAC
50224 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
50254 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
50283 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
50307 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:55035 original size:29 final size:29
Alignment explanation
Indices: 54992--55074 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
54982 CTCACCTAAC
54992 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
55022 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
55051 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
55075 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:57495 original size:16 final size:16
Alignment explanation
Indices: 57470--57505 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
57460 AAAAAACGGT
57470 GTGATAGGTTAAACAA
1 GTGATAGGTTAAACAA
* *
57486 GTGATTGGTTAAATAA
1 GTGATAGGTTAAACAA
57502 GTGA
1 GTGA
57506 CCGGTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.28, T:0.31
Consensus pattern (16 bp):
GTGATAGGTTAAACAA
Found at i:57584 original size:23 final size:23
Alignment explanation
Indices: 57549--57607 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
57539 ATCAAATACA
* *
57549 ATAACATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
57572 ATAATATAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
*
57595 ATAATAAAATAGG
1 ATAATATAATAGG
57608 CATTTAATCG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.32
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:58286 original size:202 final size:198
Alignment explanation
Indices: 57665--58378 Score: 710
Period size: 202 Copynumber: 3.5 Consensus size: 198
57655 TTATATAATG
* * *
57665 TAATAAACTGGTATATTTATACCGGTAACATTGAAAATTTACCTATTACATTATTATTATCGGTT
1 TAATAAACCGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTT
** ** *
57730 TCGATGTTTTTTAGATTTATACAATTT--TAAATGTATTGACACTTTATGCTTGCACCTCG-TTG
66 TCGATGTTTTTGGGATCGATAC--TTTAATAAATGTATCGACACTTTATGCTTGCACCTCGTTTG
* * * *
57792 GACATTCATATTTCATTCTGAAAAAAAGTATCGACACAAACTAACAAAGTGTCGGTACATGT-T-
129 GGCATTC--A-TTC---CTGAACAAAAGTATCGACACAAATTAAC-AAGTGTCGATACAT-TATG
*
57855 TTAACCTATTCTC
186 TTAACCTATTTTC
* * * *
57868 TCATAAAACCGGTATATTTATACCGATTACATTGAAAATTTACCTATTACATTATACTTATGGGT
1 TAAT-AAACCGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGT
** * * * *
57933 TTCGATGTTTCCGGGATCGATATTTTTTATAAATATATCGACACTTTATAG-TTGCACC-CTTTT
65 TTCGATGTTTTTGGGATCGATA-CTTTAATAAATGTATCGACACTTTAT-GCTTGCACCTCGTTT
** * * *
57996 TAGCATTCATTCCGGACCAAAAGTATCGACACAAATTTAACAAGTGTCGATACTTTATGTTAACC
128 GGGCATTCATTCCTGAACAAAAGTATCGACACAAA-TTAACAAGTGTCGATACATTATGTTAACC
*
58061 TATTTTA
192 TATTTTC
** ** * * * *
58068 GCATAAAATTGGTATATTTATATCGGTTACATTGTAAATTTATCTAATACATTATATATATATCG
1 TAAT-AAACCGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATA-AT-TATCG
*
58133 GTTTCGATGTTTTTGGGATCGATATCTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTT
63 GTTTCGATGTTTTTGGGATCGATA-CTTTAATAAATGTATCGACACTTTATGCTTGCACCTCGTT
* * *
58198 TGGGCATTCA-TCCTGAACAATAAGTATCGATACAAATTACACAAGTGTTGATACATTATGTTGA
127 TGGGCATTCATTCCTGAACAA-AAGTATCGACACAAATTA-ACAAGTGTCGATACATTATGTTAA
*
58262 CCTGTTTTC
190 CCTATTTTC
* ** ** *
58271 TAATTAACCGGTATATTTATACTAGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTT
1 TAATAAACCGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTT
*
58336 TTGATGTTTTTTGGG-TCGATACTTGTAGA-AAATGTATCGACAC
66 TCGATG-TTTTTGGGATCGATACTT-TA-ATAAATGTATCGACAC
58379 ATATTTAGGT
Statistics
Matches: 425, Mismatches: 68, Indels: 39
0.80 0.13 0.07
Matches are distributed among these distances:
198 1 0.00
199 36 0.08
200 97 0.23
201 13 0.03
202 112 0.26
203 62 0.15
204 71 0.17
205 32 0.08
206 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (198 bp):
TAATAAACCGGTATATTTATACCGGTTACATTGAAAATTTACCTATTACATTATAATTATCGGTT
TCGATGTTTTTGGGATCGATACTTTAATAAATGTATCGACACTTTATGCTTGCACCTCGTTTGGG
CATTCATTCCTGAACAAAAGTATCGACACAAATTAACAAGTGTCGATACATTATGTTAACCTATT
TTC
Found at i:60809 original size:17 final size:17
Alignment explanation
Indices: 60784--60817 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60774 TTTCTCTTCT
* *
60784 CATCTCATACATAATTA
1 CATCACATACAAAATTA
60801 CATCACATACAAAATTA
1 CATCACATACAAAATTA
60818 TAAATCGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (17 bp):
CATCACATACAAAATTA
Found at i:61301 original size:184 final size:184
Alignment explanation
Indices: 60976--61704 Score: 696
Period size: 200 Copynumber: 3.8 Consensus size: 184
60966 TGCGTTATTT
* * * * * * *
60976 AAAAGTATCGACACAAAATAAAAATGTGTCGCTACATGTTGTAGACATATTCTCTTATAAAACCG
1 AAAATTATCGACACAAATTAAAAA-GTGTCGATACATATTATAGACCTATTCTCTCATAAAACC-
*
61041 GTATATTTGTACCGGTTATATTA-AAAAGTTACCTATTACATTATAATTATGGGTTTCGATGTTT
64 GTATATTTATACCGGTTATATTACAAAA-TTACCTATTACATTATAATTATGGGTTTCGATGTTT
****
61105 TTTCAATCAACACTTTTTGAAAAGTTATCG-ACA-CTTTTT-GCATCCATTCTGGACA
128 TCGGGATCAACACTTTTT-AAAAGTTATCGTACACCTTTTTGGCATCCATTCTGGACA
* * * *
61160 TAAATTATCGACACAATATTAAAAAGTGTCGATATATATTGTAGACCTATTCTCTTATAAAACCA
1 AAAATTATCGACACAA-ATTAAAAAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACC-
61225 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
64 GTATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* * *
61290 CGGGTTCAACACTTTTAATAAATATATCGACACTTTGTGCGTTCATCCTTTTTGGCATCCATTCT
129 CGGGATCAACACTTTT--T-AA-A-A--G-----TTAT-CGTACA-CCTTTTTGGCATCCATTCT
61355 GGACA
180 GGACA
* ** *
61360 AAAAGTATCGACACAAATTTAACCAGTGTCGATACATGTTATAGACCTATTCTCTCATAAAACCC
1 AAAATTATCGACACAAA-TTAAAAAGTGTCGATACATATTATAGACCTATTCTCTCATAAAA-CC
* * * ** * *
61425 GTAT-TGATATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGGGTTTCAATGTTT
64 GTATAT-TTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTT
* * *
61489 TCGGGATCGATACTTTTTAAAAATGTATCGGCACTTTATGCTTTCACCCTTTTTGGCATCCATTC
128 TCGGGATCAACACTTTTTAAAAGT-TATC-G-----TA------CA-CCTTTTTGGCATCCATTC
61554 TGGACA
179 TGGACA
* *
61560 AAAATTATCGACACAATATTAATAAGTGTCGATACATATTATAAACCTATTCTCTCATAAAACCG
1 AAAATTATCGACACAA-ATTAAAAAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACCG
* * * *
61625 ATATATGTATACGGGCTATATTACAAAATTACCTATTACATTATAATTATGGGTTTTGAT-TTTT
65 -TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTT
* *
61689 TGGGATCGACACTTTT
129 CGGGATCAACACTTTT
61705 AATAAATGTA
Statistics
Matches: 452, Mismatches: 56, Indels: 59
0.80 0.10 0.10
Matches are distributed among these distances:
184 119 0.26
185 11 0.02
186 3 0.01
187 1 0.00
188 3 0.01
189 3 0.01
190 1 0.00
194 1 0.00
195 4 0.01
196 3 0.01
197 4 0.01
198 1 0.00
199 29 0.06
200 265 0.59
201 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (184 bp):
AAAATTATCGACACAAATTAAAAAGTGTCGATACATATTATAGACCTATTCTCTCATAAAACCGT
ATATTTATACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTCG
GGATCAACACTTTTTAAAAGTTATCGTACACCTTTTTGGCATCCATTCTGGACA
Found at i:61489 original size:200 final size:200
Alignment explanation
Indices: 61138--61741 Score: 833
Period size: 200 Copynumber: 3.0 Consensus size: 200
61128 GTTATCGACA
* * *
61138 CTTTTT-GCATCCATTCTGGACATAAATTATCGACACAATATTAAAAAGTGTCGATATATATTGT
1 CTTTTTGGCATCCATTCTGGACAAAAATTATCGACACAATATTAAAAAGTGTCGATACATATTAT
* * *
61202 AGACCTATTCTCTTATAAAACCAGTATATTTATACCGGTTATATTACAAAATTACCTATTACATT
66 AGACCTATTCTCTCATAAAACCCGTATATGTATACCGGTTATATTACAAAATTACCTATTACATT
* * * *
61267 ATAATTATGGGTTTCGATGTTTTCGGGTTCAACACTTTTAATAAATATATCGACACTTTGTGCGT
131 ATAATTATGGGTTTCGATGTTTTCGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGT
*
61332 TCATC
196 TCACC
* ** *
61337 CTTTTTGGCATCCATTCTGGACAAAAAGTATCGACACAA-ATTTAACCAGTGTCGATACATGTTA
1 CTTTTTGGCATCCATTCTGGACAAAAATTATCGACACAATA-TTAAAAAGTGTCGATACATATTA
* * ** *
61401 TAGACCTATTCTCTCATAAAACCCGTAT-TGATATACCAGTTACATTGTAAATTTACCTATTACA
65 TAGACCTATTCTCTCATAAAACCCGTATATG-TATACCGGTTATATTACAAAATTACCTATTACA
* * *
61465 TTATAATTATGGGTTTCAATGTTTTCGGGATCGATACTTTTTAA-AAATGTATCGGCACTTTATG
129 TTATAATTATGGGTTTCGATGTTTTCGGGATCGACAC-TTTTAATAAATGTATCGACACTTTATG
*
61529 CTTTCACC
193 CGTTCACC
*
61537 CTTTTTGGCATCCATTCTGGACAAAAATTATCGACACAATATTAATAAGTGTCGATACATATTAT
1 CTTTTTGGCATCCATTCTGGACAAAAATTATCGACACAATATTAAAAAGTGTCGATACATATTAT
* * *
61602 AAACCTATTCTCTCATAAAA-CCGATATATGTATACGGGCTATATTACAAAATTACCTATTACAT
66 AGACCTATTCTCTCATAAAACCCG-TATATGTATACCGGTTATATTACAAAATTACCTATTACAT
* * *
61666 TATAATTATGGGTTTTGAT-TTTTTGGGATCGACACTTTTAATAAATGTATCGAAACTTTATGCG
130 TATAATTATGGGTTTCGATGTTTTCGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCG
*
61730 TGCAACC
195 TTC-ACC
61737 CTTTT
1 CTTTT
61742 GGATCGACAC
Statistics
Matches: 352, Mismatches: 44, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
198 6 0.02
199 46 0.13
200 291 0.83
201 9 0.03
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (200 bp):
CTTTTTGGCATCCATTCTGGACAAAAATTATCGACACAATATTAAAAAGTGTCGATACATATTAT
AGACCTATTCTCTCATAAAACCCGTATATGTATACCGGTTATATTACAAAATTACCTATTACATT
ATAATTATGGGTTTCGATGTTTTCGGGATCGACACTTTTAATAAATGTATCGACACTTTATGCGT
TCACC
Found at i:61793 original size:51 final size:52
Alignment explanation
Indices: 61685--61794 Score: 127
Period size: 51 Copynumber: 2.1 Consensus size: 52
61675 GGGTTTTGAT
* *
61685 TTTTTGGGATCGACACTTTTAATAAATGTATCGAAACTTTATGCGTGCAACCC
1 TTTTT-GGATCGACACTTTTAATAAATGAATCGAAACTTTATACGTGCAACCC
* * * *
61738 -TTTTGGATCGACACTCTTTGA-AAATGAATCGACACTTTGTACGTTC-ACCC
1 TTTTTGGATCGACACT-TTTAATAAATGAATCGAAACTTTATACGTGCAACCC
61788 TTTTTGG
1 TTTTTGG
61795 CATCCATTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
50 4 0.08
51 37 0.76
52 8 0.16
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.37
Consensus pattern (52 bp):
TTTTTGGATCGACACTTTTAATAAATGAATCGAAACTTTATACGTGCAACCC
Found at i:61941 original size:250 final size:250
Alignment explanation
Indices: 61492--61942 Score: 615
Period size: 250 Copynumber: 1.8 Consensus size: 250
61482 AATGTTTTCG
* * * * * *
61492 GGATCGATACTTTTTAAAAATGTATCGGCACTTTATGCTTTCACCCTTTTTGGCATCCATTCTGG
1 GGATCGACACTCTTTAAAAATGAATCGACACTTTATACGTTCACCCTTTTTGGCATCCATTCTGG
* *
61557 ACAAAAATTATCGACACAATATTAATAAGTGTCGATACATATTATAAACCTATTCTCTCATAAAA
66 ACAAAAAGTATCGACACAATACTAATAAGTGTCGATACATATTATAAACCTATTCTCTCATAAAA
* * * *
61622 CCGATATATGTATACGGGCTATATTACAAAATTACCTATTACATTATAATTATGGGTTTTGATTT
131 ACGATATATCTATACGGGCTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATTT
61687 TTTGGGATCGACACTTTTAATAAATGTATCGAAACTTTATGCGTGCAACCCTTTT
196 TTTGGGATCGACACTTTTAATAAATGTATCGAAACTTTATGCGTGCAACCCTTTT
* *
61742 GGATCGACACTCTTTGAAAATGAATCGACACTTTGTACGTTCACCCTTTTTGGCATCCATTCTGG
1 GGATCGACACTCTTTAAAAATGAATCGACACTTTATACGTTCACCCTTTTTGGCATCCATTCTGG
* * * * *
61807 ACAAAAAGTATCGACATAGA-ACTAATAAGTGTCGATATATATTGTAGACCTATT-TTTCATAAA
66 ACAAAAAGTATCGACACA-ATACTAATAAGTGTCGATACATATTATAAACCTATTCTCTCATAAA
* * * *
61870 AATGGTATATCTATATC-GGTTACATTGA-AAAATTA-CTCATTACATTATAATTATTGGTTTCG
130 AACGATATATCTATA-CGGGCTACATT-ACAAAATTACCT-ATTACATTATAATTATGGGTTTCG
61932 ATGTTTTTGGG
192 AT-TTTTTGGG
61943 GTCGTTATTT
Statistics
Matches: 173, Mismatches: 23, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
248 2 0.01
249 57 0.33
250 113 0.65
251 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.37
Consensus pattern (250 bp):
GGATCGACACTCTTTAAAAATGAATCGACACTTTATACGTTCACCCTTTTTGGCATCCATTCTGG
ACAAAAAGTATCGACACAATACTAATAAGTGTCGATACATATTATAAACCTATTCTCTCATAAAA
ACGATATATCTATACGGGCTACATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATTT
TTTGGGATCGACACTTTTAATAAATGTATCGAAACTTTATGCGTGCAACCCTTTT
Found at i:65042 original size:200 final size:200
Alignment explanation
Indices: 64751--66069 Score: 2149
Period size: 200 Copynumber: 6.6 Consensus size: 200
64741 TATTTAAATT
* * * * * * **
64751 AGTATCGACACAAAATTAA-AAGTGTCAATACATATTATTTACTTATTCTCTCATAAAATTGGTA
1 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
*
64815 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATTGGTTTCGATGTTTATGG
66 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATCGGTTTCGATGTTTATGG
*
64880 GATTGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
131 GATCGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
64945 CCAAA
196 CCAAA
* * **
64950 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACCTGTTCTCTTATAAAACCAATA
1 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
*
65015 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATCAGTTTCGATGTTTATGG
66 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATCGGTTTCGATGTTTATGG
65080 GATCGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
131 GATCGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
65145 CCAAA
196 CCAAA
* * *
65150 AGAATCGACACAACATTAACAAGTGTCGATACATATTGTATACCTGTTCTCTCATAAAACCGATA
1 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
* * *
65215 TATTTATACCGGTTATATTGAAAATTTACCTATTATATTATACTTATGGGTTTTGATGTTTATGG
66 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATCGGTTTCGATGTTTATGG
* * *
65280 GATCGACAATTTTTAGAATTGTATCAACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
131 GATCGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
65345 CCAAA
196 CCAAA
*
65350 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCAGTA
1 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
** *
65415 TATTTATACTAGTTACATTGAAAATTTACCTATTATATTATACTTATCGGTTTCGATATTTATGG
66 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATCGGTTTCGATGTTTATGG
* * *
65480 GATTGACACTTTTTAGAAATTTATCGACACTTTATGGTTGTACCCTTTTTGGCATTCATTCTGGA
131 GATCGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
65545 CCAAA
196 CCAAA
* * *
65550 AGTATCGACACAATATTAACAAGTATCGATACATATTGTATACATGTTCTCTCATAAAACCAGTA
1 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
* * ** *
65615 TATTTGTACCGGTTATATT-AAAAAATACCTATTATATTATACTTATCGTTTTCGATGTTTATGG
66 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATCGGTTTCGATGTTTATGG
*
65679 GATCGACACTTTTTAGAAATGTATCAACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
131 GATCGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
65744 CCAAA
196 CCAAA
* *
65749 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACCTGTTCTCTCATAAAACCGATA
1 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
* * *
65814 TATTTATACCAGTTATATTGAAAATTTACCTATTATATTATACTTATGGGTTTCGATGTTTATGG
66 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATCGGTTTCGATGTTTATGG
* * * *
65879 GATCGACACATTTTAGAAATGTATTGACACTTTATGGTTGCGCCCTTTTTGGCATTCATTCTCGA
131 GATCGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
65944 CCAAA
196 CCAAA
65949 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
1 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
* * *
66014 TATTTATACCGGTTAGATTGAAAATTTACCTATTACATTATACTTAT-GGGTTCGAT
66 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATCGGTTTCGAT
66070 ACTTTTTATA
Statistics
Matches: 1042, Mismatches: 76, Indels: 4
0.93 0.07 0.00
Matches are distributed among these distances:
199 210 0.20
200 832 0.80
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (200 bp):
AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATCGGTTTCGATGTTTATGG
GATCGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
CCAAA
Found at i:65842 original size:599 final size:599
Alignment explanation
Indices: 64751--66070 Score: 2261
Period size: 599 Copynumber: 2.2 Consensus size: 599
64741 TATTTAAATT
* * * * * * **
64751 AGTATCGACACAAAATTAA-AAGTGTCAATACATATTATTTACTTATTCTCTCATAAAATTGGTA
1 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
*
64815 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATTGGTTTCGATGTTTATGG
66 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTA-TGGTTTCGATATTTATGG
64880 GATTGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
130 GATTGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
* * *
64945 CCAAAAGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACCTGTTCTCTTATAAAAC
195 CCAAAAGTATCGACACAACATTAACAAGTATCGATACATATTGTATACATGTTCTCTCATAAAAC
**
65010 CAATATATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATCAGTTTCGATGTT
260 CAATATATTTATACCGGTTACATTGAAAAAATACCTATTATATTATACTTATCAGTTTCGATGTT
*
65075 TATGGGATCGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATT
325 TATGGGATCGACACTTTTTAGAAATGTATCAACACTTTATGGTTGCACCCTTTTTGGCATTCATT
65140 CTGGACCAAAAGAATCGACACAACATTAACAAGTGTCGATACATATTGTATACCTGTTCTCTCAT
390 CTGGACCAAAAGAATCGACACAACATTAACAAGTGTCGATACATATTGTATACCTGTTCTCTCAT
* *
65205 AAAACCGATATATTTATACCGGTTATATTGAAAATTTACCTATTATATTATACTTATGGGTTTTG
455 AAAACCGATATATTTATACCAGTTATATTGAAAATTTACCTATTATATTATACTTATGGGTTTCG
*
65270 ATGTTTATGGGATCGACA-ATTTTTAGAATTGTATCAACACTTTATGGTTGCACCCTTTTTGGCA
520 ATGTTTATGGGATCGACACA-TTTTAGAAATGTATCAACACTTTATGGTTGCACCCTTTTTGGCA
*
65334 TTCATTCTGGACCAAA
584 TTCATTCTCGACCAAA
*
65350 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCAGTA
1 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
**
65415 TATTTATACTAGTTACATTGAAAATTTACCTATTATATTATACTTATCGGTTTCGATATTTATGG
66 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTAT-GGTTTCGATATTTATGG
* *
65480 GATTGACACTTTTTAGAAATTTATCGACACTTTATGGTTGTACCCTTTTTGGCATTCATTCTGGA
130 GATTGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGA
*
65545 CCAAAAGTATCGACACAATATTAACAAGTATCGATACATATTGTATACATGTTCTCTCATAAAAC
195 CCAAAAGTATCGACACAACATTAACAAGTATCGATACATATTGTATACATGTTCTCTCATAAAAC
* * *
65610 CAGTATATTTGTACCGGTTATATT-AAAAAATACCTATTATATTATACTTATC-GTTTTCGATGT
260 CAATATATTTATACCGGTTACATTGAAAAAATACCTATTATATTATACTTATCAG-TTTCGATGT
65673 TTATGGGATCGACACTTTTTAGAAATGTATCAACACTTTATGGTTGCACCCTTTTTGGCATTCAT
324 TTATGGGATCGACACTTTTTAGAAATGTATCAACACTTTATGGTTGCACCCTTTTTGGCATTCAT
*
65738 TCTGGACCAAAAGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACCTGTTCTCTCA
389 TCTGGACCAAAAGAATCGACACAACATTAACAAGTGTCGATACATATTGTATACCTGTTCTCTCA
65803 TAAAACCGATATATTTATACCAGTTATATTGAAAATTTACCTATTATATTATACTTATGGGTTTC
454 TAAAACCGATATATTTATACCAGTTATATTGAAAATTTACCTATTATATTATACTTATGGGTTTC
** *
65868 GATGTTTATGGGATCGACACATTTTAGAAATGTATTGACACTTTATGGTTGCGCCCTTTTTGGCA
519 GATGTTTATGGGATCGACACATTTTAGAAATGTATCAACACTTTATGGTTGCACCCTTTTTGGCA
65933 TTCATTCTCGACCAAA
584 TTCATTCTCGACCAAA
65949 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
1 AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
* * *
66014 TATTTATACCGGTTAGATTGAAAATTTACCTATTACATTATACTTATGGGTTCGATA
66 TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATGGTTTCGATA
66071 CTTTTTATAT
Statistics
Matches: 679, Mismatches: 38, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
598 10 0.01
599 426 0.63
600 243 0.36
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.38
Consensus pattern (599 bp):
AGTATCGACACAACATTAACAAGTGTCGATACATATTGTATACATGTTCTCTCATAAAACCGGTA
TATTTATACCGGTTACATTGAAAATTTACCTATTATATTATACTTATGGTTTCGATATTTATGGG
ATTGACACTTTTTAGAAATGTATCGACACTTTATGGTTGCACCCTTTTTGGCATTCATTCTGGAC
CAAAAGTATCGACACAACATTAACAAGTATCGATACATATTGTATACATGTTCTCTCATAAAACC
AATATATTTATACCGGTTACATTGAAAAAATACCTATTATATTATACTTATCAGTTTCGATGTTT
ATGGGATCGACACTTTTTAGAAATGTATCAACACTTTATGGTTGCACCCTTTTTGGCATTCATTC
TGGACCAAAAGAATCGACACAACATTAACAAGTGTCGATACATATTGTATACCTGTTCTCTCATA
AAACCGATATATTTATACCAGTTATATTGAAAATTTACCTATTATATTATACTTATGGGTTTCGA
TGTTTATGGGATCGACACATTTTAGAAATGTATCAACACTTTATGGTTGCACCCTTTTTGGCATT
CATTCTCGACCAAA
Found at i:68288 original size:33 final size:33
Alignment explanation
Indices: 68251--68316 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
68241 CATCTTAAGA
*
68251 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
68284 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
68317 CCATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:68375 original size:21 final size:21
Alignment explanation
Indices: 68350--68393 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
68340 CCCTTTATGC
68350 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
68371 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
68392 CT
1 CT
68394 TAATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:70906 original size:182 final size:181
Alignment explanation
Indices: 70595--71056 Score: 623
Period size: 182 Copynumber: 2.6 Consensus size: 181
70585 ACGAATGTAT
* * * *
70595 CGACACTTTCAATATATCTTGTAGCGTTTTACCGGTTTTATCATTTTGATA-CTAGTTTTATCAT
1 CGACACTTTCAATATATCCTGTAGCGCTTTACCGGTTTTATCATTTCGATACCGA-TTTTATCAT
* ** *
70659 ATTTTTACATG-CGT-T-G--TGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCGTT
65 ATTTTTACCTGTTATATCGTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCCTT
70719 AAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTAC
130 AAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTAC
* * * *
70771 CGACACTTTAAATATATCCGGTAGCGCTTTACCGGTTTTATCATTTGGATACCGATTTTGTCATA
1 CGACACTTTCAATATATCCTGTAGCGCTTTACCGGTTTTATCATTTCGATACCGATTTTATCATA
*
70836 TTTTTACCTGTTATATCGTCATGGATCGATATATTTTTATAAAGTATCGACACTTTATAGGCCTT
66 TTTTTACCTGTTATATCGT-ATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCCTT
* * *
70901 AAAACTGCTTCTCTTTTAAATTCACAAAGTGTTGATCCTTATATTAAAGTAT
130 AAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTAC
* * * * * *
70953 CGACACATTCAATATATCCTGTAGGGCTTTACCGGTATTATCTTTTCG-TGACCGGTTTTAACAT
1 CGACACTTTCAATATATCCTGTAGCGCTTTACCGGTTTTATCATTTCGAT-ACCGATTTTATCAT
* *
71017 ATTTTTACCTGTTATATTGATATGGATTGATACATTTTTA
65 ATTTTTACCTGTTATATCG-TATGGATCGATACATTTTTA
71057 ATTTGGATCG
Statistics
Matches: 249, Mismatches: 28, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
176 64 0.26
177 3 0.01
178 1 0.00
179 1 0.00
181 1 0.00
182 178 0.71
183 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (181 bp):
CGACACTTTCAATATATCCTGTAGCGCTTTACCGGTTTTATCATTTCGATACCGATTTTATCATA
TTTTTACCTGTTATATCGTATGGATCGATACATTTTTATAAAGTATCGACACTTTATAGGCCTTA
AAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATACTTATATTAAAGTAC
Found at i:77389 original size:47 final size:47
Alignment explanation
Indices: 77338--77429 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
77328 GATGTAAACA
* *
77338 AACATAAACGAACACAATAGACAAACGTAAACGAATACAAATGAACG
1 AACATAAACGAACACAATAAACAAACGTAAACGAAAACAAATGAACG
** *
77385 AACATAAACGAACACAATAAATGAACGTAAACGAAAATAAATGAA
1 AACATAAACGAACACAATAAACAAACGTAAACGAAAACAAATGAA
77430 AATATATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.60, C:0.16, G:0.12, T:0.12
Consensus pattern (47 bp):
AACATAAACGAACACAATAAACAAACGTAAACGAAAACAAATGAACG
Found at i:77401 original size:24 final size:24
Alignment explanation
Indices: 77293--77429 Score: 100
Period size: 24 Copynumber: 5.8 Consensus size: 24
77283 CATTTAAATG
* *
77293 ATAAACGAACATAAATGAACGAAA
1 ATAAACGAACACAAATGAACGAAC
** ** * *
77317 ATAAACGAACGGATGTAAACAAAC
1 ATAAACGAACACAAATGAACGAAC
*
77341 ATAAACGAACAC-AAT-AGACAAAC
1 ATAAACGAACACAAATGA-ACGAAC
* *
77364 GTAAACGAATACAAATGAACGAAC
1 ATAAACGAACACAAATGAACGAAC
* *
77388 ATAAACGAACAC-AATAAATGAAC
1 ATAAACGAACACAAATGAACGAAC
* * *
77411 GTAAACGAAAATAAATGAA
1 ATAAACGAACACAAATGAA
77430 AATATATTTT
Statistics
Matches: 87, Mismatches: 22, Indels: 8
0.74 0.19 0.07
Matches are distributed among these distances:
22 1 0.01
23 35 0.40
24 50 0.57
25 1 0.01
ACGTcount: A:0.59, C:0.15, G:0.13, T:0.12
Consensus pattern (24 bp):
ATAAACGAACACAAATGAACGAAC
Found at i:77415 original size:23 final size:23
Alignment explanation
Indices: 77332--77419 Score: 95
Period size: 23 Copynumber: 3.8 Consensus size: 23
77322 CGAACGGATG
* *
77332 TAAACAAACATAAACGAACACAA
1 TAAACGAACGTAAACGAACACAA
* * *
77355 TAGACAAACGTAAACGAATACAAA
1 TAAACGAACGTAAACGAACAC-AA
* *
77379 TGAACGAACATAAACGAACACAA
1 TAAACGAACGTAAACGAACACAA
*
77402 TAAATGAACGTAAACGAA
1 TAAACGAACGTAAACGAA
77420 AATAAATGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
23 35 0.66
24 18 0.34
ACGTcount: A:0.59, C:0.18, G:0.11, T:0.11
Consensus pattern (23 bp):
TAAACGAACGTAAACGAACACAA
Found at i:77634 original size:23 final size:24
Alignment explanation
Indices: 77593--77642 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
77583 TATTATGCTA
* *
77593 AACATAAATGAACGTACATAAACG
1 AACATAAACGAACGAACATAAACG
*
77617 AACAT-AACGAACGAACATAAATG
1 AACATAAACGAACGAACATAAACG
77640 AAC
1 AAC
77643 GAACATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.14
Consensus pattern (24 bp):
AACATAAACGAACGAACATAAACG
Found at i:77644 original size:14 final size:14
Alignment explanation
Indices: 77593--77649 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
77583 TATTATGCTA
77593 AACATAAATGAACG
1 AACATAAATGAACG
*
77607 TACAT--A--AACG
1 AACATAAATGAACG
*
77617 AACAT-AACGAACG
1 AACATAAATGAACG
77630 AACATAAATGAACG
1 AACATAAATGAACG
77644 AACATA
1 AACATA
77650 TTACCTAACG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 8 0.22
11 1 0.03
12 1 0.03
13 9 0.25
14 17 0.47
ACGTcount: A:0.56, C:0.18, G:0.12, T:0.14
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:81416 original size:10 final size:10
Alignment explanation
Indices: 81403--81474 Score: 54
Period size: 10 Copynumber: 6.4 Consensus size: 10
81393 GTTCGTGAAC
*
81403 GTTCTTTTAT
1 GTTCGTTTAT
81413 GTTCGTTTAT
1 GTTCGTTTAT
81423 GTTCGTTCGGTTAT
1 GTTCG-T---TTAT
81437 GTTCGTTTATGTTT
1 GTTCGTTTA----T
*
81451 GTTCGGTTAT
1 GTTCGTTTAT
81461 GTTCGTTTAT
1 GTTCGTTTAT
81471 GTTC
1 GTTC
81475 ATTCATTTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
10 31 0.61
11 1 0.02
13 1 0.02
14 18 0.35
ACGTcount: A:0.08, C:0.11, G:0.22, T:0.58
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:81430 original size:14 final size:14
Alignment explanation
Indices: 81413--81467 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
81403 GTTCTTTTAT
*
81413 GTTCGTTTATGTTC
1 GTTCGGTTATGTTC
81427 GTTCGGTTATGTTC
1 GTTCGGTTATGTTC
*
81441 G-T---TTATGTTT
1 GTTCGGTTATGTTC
81451 GTTCGGTTATGTTC
1 GTTCGGTTATGTTC
81465 GTT
1 GTT
81468 TATGTTCATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 8 0.24
11 1 0.03
13 1 0.03
14 24 0.71
ACGTcount: A:0.07, C:0.11, G:0.25, T:0.56
Consensus pattern (14 bp):
GTTCGGTTATGTTC
Found at i:81487 original size:24 final size:24
Alignment explanation
Indices: 81409--81474 Score: 123
Period size: 24 Copynumber: 2.8 Consensus size: 24
81399 GAACGTTCTT
81409 TTATGTTCGTTTATGTTCGTTCGG
1 TTATGTTCGTTTATGTTCGTTCGG
*
81433 TTATGTTCGTTTATGTTTGTTCGG
1 TTATGTTCGTTTATGTTCGTTCGG
81457 TTATGTTCGTTTATGTTC
1 TTATGTTCGTTTATGTTC
81475 ATTCATTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.09, C:0.11, G:0.23, T:0.58
Consensus pattern (24 bp):
TTATGTTCGTTTATGTTCGTTCGG
Found at i:82577 original size:10 final size:10
Alignment explanation
Indices: 82562--82603 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
82552 GGTCTCCAAA
82562 GTTTATGTTC
1 GTTTATGTTC
82572 GTTTATGTTC
1 GTTTATGTTC
82582 G--TA--TTC
1 GTTTATGTTC
82588 GTTTATGTTC
1 GTTTATGTTC
82598 GTTTAT
1 GTTTAT
82604 TTATTAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
6 4 0.14
8 4 0.14
10 20 0.71
ACGTcount: A:0.12, C:0.10, G:0.19, T:0.60
Consensus pattern (10 bp):
GTTTATGTTC
Found at i:82590 original size:16 final size:16
Alignment explanation
Indices: 82569--82599 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
82559 AAAGTTTATG
82569 TTCGTTTATGTTCGTA
1 TTCGTTTATGTTCGTA
82585 TTCGTTTATGTTCGT
1 TTCGTTTATGTTCGT
82600 TTATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.10, C:0.13, G:0.19, T:0.58
Consensus pattern (16 bp):
TTCGTTTATGTTCGTA
Found at i:85011 original size:37 final size:37
Alignment explanation
Indices: 84970--85042 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
84960 TGTATGAAGT
84970 TTATCTTTAATAACTCAATAAGTGTATGTTTAAAAAC
1 TTATCTTTAATAACTCAATAAGTGTATGTTTAAAAAC
* * *
85007 TTATCTTTAATAATTTAATGAGTGTATGTTTAAAAA
1 TTATCTTTAATAACTCAATAAGTGTATGTTTAAAAA
85043 TATTATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.44
Consensus pattern (37 bp):
TTATCTTTAATAACTCAATAAGTGTATGTTTAAAAAC
Found at i:90928 original size:24 final size:24
Alignment explanation
Indices: 90896--90943 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
90886 AGAAACTCTC
*
90896 GCTCATACTCTATCACTGAGCGAT
1 GCTCATACTCCATCACTGAGCGAT
90920 GCTCATACTCCATCACTGAGCGAT
1 GCTCATACTCCATCACTGAGCGAT
90944 CTCTCTGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (24 bp):
GCTCATACTCCATCACTGAGCGAT
Found at i:95010 original size:156 final size:160
Alignment explanation
Indices: 94782--95101 Score: 585
Period size: 157 Copynumber: 2.0 Consensus size: 160
94772 ATCACTTAAT
*
94782 AATTTTTTAACTCATCAATAGAACCTGTAGATGCCTAGGTTATTGAGAAAATTTTATGATTTCCC
1 AATTTTTCAACTCATCAATAGAACCTGTAGATGCCTAGGTTATTGAGAAAATTTTATGATTTCCC
*
94847 ATATATCTACTTGACCTTTAGCAACA-TTAGTAATTTTTATTATTGAGCTTTCCT-AAGCTCATT
66 ATATATCTACTTGACCTTTAGCAACATTTAGTAATTTATATTATTGAGCTTTCCTAAAGCTCATT
94910 TTATTATTTATTATTTCAGATT-AAAAGGA
131 TTATTATTTATTATTTCAGATTAAAAAGGA
*
94939 AATTTTTCAACTCATCAATAGAACCTGTAGATGTCTAGG-TATTGAGAAAATTTTATGATTTCCC
1 AATTTTTCAACTCATCAATAGAACCTGTAGATGCCTAGGTTATTGAGAAAATTTTATGATTTCCC
95003 ATATATCTACTTGACCTTTAGCAACATTTAGTAATTTATATTATTGAGCTTTCCTAAAGCTCATT
66 ATATATCTACTTGACCTTTAGCAACATTTAGTAATTTATATTATTGAGCTTTCCTAAAGCTCATT
95068 TTATTATTTATTATTTCAGATTAAAAAGGA
131 TTATTATTTATTATTTCAGATTAAAAAGGA
95098 AATT
1 AATT
95102 GATTTTGTGC
Statistics
Matches: 157, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
156 51 0.32
157 64 0.41
158 31 0.20
159 11 0.07
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (160 bp):
AATTTTTCAACTCATCAATAGAACCTGTAGATGCCTAGGTTATTGAGAAAATTTTATGATTTCCC
ATATATCTACTTGACCTTTAGCAACATTTAGTAATTTATATTATTGAGCTTTCCTAAAGCTCATT
TTATTATTTATTATTTCAGATTAAAAAGGA
Found at i:96065 original size:2 final size:2
Alignment explanation
Indices: 96060--96092 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
96050 TTTTTAAAAT
96060 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
96093 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:96491 original size:2 final size:2
Alignment explanation
Indices: 96484--96541 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
96474 TTTAAATTAA
* * * *
96484 AT AT AT AT AT AT AT AT AT A- AT AT TT AT AT AT TT A- AT TT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
96524 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
96542 CGGTCCGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:98565 original size:32 final size:32
Alignment explanation
Indices: 98529--98595 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
98519 GGATTGATTG
* *
98529 TTTTTGGATTGGGTCAATATCGAATCAGTCGA
1 TTTTTGCATTGGGTCAATATCAAATCAGTCGA
* * * *
98561 TTTTTTCTTTGGGTTAATATCAAATTAGTCGA
1 TTTTTGCATTGGGTCAATATCAAATCAGTCGA
98593 TTT
1 TTT
98596 CTAGATCGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.46
Consensus pattern (32 bp):
TTTTTGCATTGGGTCAATATCAAATCAGTCGA
Found at i:100440 original size:21 final size:22
Alignment explanation
Indices: 100411--100452 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
100401 AAAAATTAGT
100411 TATTAAAATATTATCATTAGAA
1 TATTAAAATATTATCATTAGAA
*
100433 TATT-AAATATTGTCATTAGA
1 TATTAAAATATTATCATTAGA
100453 TAAATAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (22 bp):
TATTAAAATATTATCATTAGAA
Done.