Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01020852.1 Corchorus olitorius cultivar O-4 contig20885, 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: 248770
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:33979 original size:22 final size:22
Alignment explanation
Indices: 33951--33994 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
33941 GACAACATAT
33951 ATATAAGAAAACTTATTGTAAG
1 ATATAAGAAAACTTATTGTAAG
33973 ATATAAGAAAACTTATTGTAAG
1 ATATAAGAAAACTTATTGTAAG
33995 CTGTCAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.14, T:0.32
Consensus pattern (22 bp):
ATATAAGAAAACTTATTGTAAG
Found at i:39766 original size:27 final size:26
Alignment explanation
Indices: 39735--39807 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
39725 CTTGCTGCAA
* * *
39735 CAATTTTGGTTAGTTGCGGCAATTTTG
1 CAATTTTGGTT-GCTGCGGCAACTTCG
39762 CAATTTTGGGTTGCTGCGGCAACTTCG
1 CAATTTT-GGTTGCTGCGGCAACTTCG
* *
39789 CGATTTTGGGTTGATGCGG
1 CAATTTT-GGTTGCTGCGG
39808 AATCTTTGGC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 36 0.90
28 4 0.10
ACGTcount: A:0.15, C:0.15, G:0.32, T:0.38
Consensus pattern (26 bp):
CAATTTTGGTTGCTGCGGCAACTTCG
Found at i:39834 original size:19 final size:19
Alignment explanation
Indices: 39812--39879 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 19
39802 ATGCGGAATC
39812 TTTGGCTAGTTGTGGCAAT
1 TTTGGCTAGTTGTGGCAAT
*
39831 TTTGGCTATTTTGGGATGCGGC-AT
1 TTTGGCTA-GTT--G-T--GGCAAT
39855 CTTTGGCTAGTTGTGGCAAT
1 -TTTGGCTAGTTGTGGCAAT
39875 TTTGG
1 TTTGG
39880 GTTGCGCGGC
Statistics
Matches: 39, Mismatches: 2, Indels: 16
0.68 0.04 0.28
Matches are distributed among these distances:
19 16 0.41
20 4 0.10
21 1 0.03
22 2 0.05
23 1 0.03
24 4 0.10
25 11 0.28
ACGTcount: A:0.13, C:0.12, G:0.32, T:0.43
Consensus pattern (19 bp):
TTTGGCTAGTTGTGGCAAT
Found at i:40037 original size:38 final size:37
Alignment explanation
Indices: 39962--40044 Score: 105
Period size: 38 Copynumber: 2.2 Consensus size: 37
39952 ACAGTTAGGT
* *
39962 GTTGCTGC-ATTTTTCTTTTTTGACACGCTTTACTTG
1 GTTGCCGCAATTTTTCTTTTTTGACACGCTTCACTTG
* * *
39998 GTTGCCGCAATTTTTCTTTGTTTGCCGCGCTTCATTTG
1 GTTGCCGCAATTTTTCTTT-TTTGACACGCTTCACTTG
40036 GTTGCCGCA
1 GTTGCCGCA
40045 TTTCACTTGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 7 0.17
37 10 0.25
38 23 0.57
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.47
Consensus pattern (37 bp):
GTTGCCGCAATTTTTCTTTTTTGACACGCTTCACTTG
Found at i:40063 original size:18 final size:18
Alignment explanation
Indices: 39993--40065 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
39983 GACACGCTTT
*
39993 ACTTGGTTGCCGCAATTTT
1 ACTTGGTTGCCGC-ATTTC
* * **
40012 TCTTTGTTTGCCGCGCTTC
1 AC-TTGGTTGCCGCATTTC
*
40031 ATTTGGTTGCCGCATTTC
1 ACTTGGTTGCCGCATTTC
*
40049 ACTTGGTTGCTGCATTT
1 ACTTGGTTGCCGCATTT
40066 TTTTTTGTTT
Statistics
Matches: 41, Mismatches: 12, Indels: 3
0.73 0.21 0.05
Matches are distributed among these distances:
18 28 0.68
19 3 0.07
20 10 0.24
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.45
Consensus pattern (18 bp):
ACTTGGTTGCCGCATTTC
Found at i:43202 original size:30 final size:30
Alignment explanation
Indices: 43150--43207 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
43140 GTGTTCAAGA
* *
43150 TTTGGGGTTACTAACTCCCTTTTATTTTAT
1 TTTGAGGTTACTAACACCCTTTTATTTTAT
* * *
43180 TTTGAGGTTATTAACACTCTTTTTTTTT
1 TTTGAGGTTACTAACACCCTTTTATTTT
43208 CAGAGGGACA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.17, C:0.14, G:0.12, T:0.57
Consensus pattern (30 bp):
TTTGAGGTTACTAACACCCTTTTATTTTAT
Found at i:52331 original size:8 final size:8
Alignment explanation
Indices: 52318--52343 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
52308 TTCTTCAATG
52318 ATCTTCAA
1 ATCTTCAA
52326 ATCTTCAA
1 ATCTTCAA
52334 ATCTTCAA
1 ATCTTCAA
52342 AT
1 AT
52344 TATCTTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (8 bp):
ATCTTCAA
Found at i:56298 original size:30 final size:30
Alignment explanation
Indices: 56264--56324 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
56254 CGAAGTTCGT
* *
56264 ATTTGAAGACTTATTGAAG-ACAATTTTAAG
1 ATTTGAAGAC-CATTGAAGAACAATTTCAAG
56294 ATTTGAAGACCATTGAAGAACAATTTCAAG
1 ATTTGAAGACCATTGAAGAACAATTTCAAG
56324 A
1 A
56325 GCAAGAATTG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.31
Consensus pattern (30 bp):
ATTTGAAGACCATTGAAGAACAATTTCAAG
Found at i:62393 original size:8 final size:8
Alignment explanation
Indices: 62380--62413 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
62370 TTCTTCAATG
62380 ATCTTCAA
1 ATCTTCAA
62388 ATCTTCAA
1 ATCTTCAA
62396 ATCTTCAA
1 ATCTTCAA
62404 ATCTTCAA
1 ATCTTCAA
62412 AT
1 AT
62414 TATCTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (8 bp):
ATCTTCAA
Found at i:66483 original size:6 final size:6
Alignment explanation
Indices: 66437--66468 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
66427 ATCAAAGCAC
66437 AATTGA AATTGA AATTGA AATTGA AATTGA AA
1 AATTGA AATTGA AATTGA AATTGA AATTGA AA
66469 GTAAAGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (6 bp):
AATTGA
Found at i:70863 original size:19 final size:18
Alignment explanation
Indices: 70830--70865 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
70820 TCGAGATAAT
70830 TCTTCAATGATCTTCAAG
1 TCTTCAATGATCTTCAAG
*
70848 TCTTCACATTATCTTCAA
1 TCTTCA-ATGATCTTCAA
70866 TAAGTCTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.42
Consensus pattern (18 bp):
TCTTCAATGATCTTCAAG
Found at i:74218 original size:20 final size:20
Alignment explanation
Indices: 74193--74230 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
74183 GGCTAAAGAC
74193 ATCATATTTGTCTCAAAAGT
1 ATCATATTTGTCTCAAAAGT
*
74213 ATCATATTTTTCTCAAAA
1 ATCATATTTGTCTCAAAA
74231 CCATTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.42
Consensus pattern (20 bp):
ATCATATTTGTCTCAAAAGT
Found at i:75233 original size:16 final size:16
Alignment explanation
Indices: 75212--75247 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
75202 ACAACATGCC
75212 TTAACATTCAAAAAAT
1 TTAACATTCAAAAAAT
75228 TTAACATTCAAAAAAT
1 TTAACATTCAAAAAAT
75244 TTAA
1 TTAA
75248 AGGTTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAACATTCAAAAAAT
Found at i:76366 original size:23 final size:23
Alignment explanation
Indices: 76336--76379 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
76326 CAATTAATAC
76336 CCAAGAAAAATTAAAATAAACAA
1 CCAAGAAAAATTAAAATAAACAA
76359 CCAAGAAAAATTAAAATAAAC
1 CCAAGAAAAATTAAAATAAAC
76380 CCCTTACCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.68, C:0.14, G:0.05, T:0.14
Consensus pattern (23 bp):
CCAAGAAAAATTAAAATAAACAA
Found at i:76984 original size:36 final size:36
Alignment explanation
Indices: 76937--77012 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
76927 AATGGGCTGT
76937 GGTTGTGGTGGTTTCAGCTCAAGCTGGGGTACTTCG
1 GGTTGTGGTGGTTTCAGCTCAAGCTGGGGTACTTCG
76973 GGTTGTGGTGGTTTCAGCTCAAGCTGGGGTACTTCG
1 GGTTGTGGTGGTTTCAGCTCAAGCTGGGGTACTTCG
77009 GGTT
1 GGTT
77013 TCAGGTCTTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.11, C:0.16, G:0.39, T:0.34
Consensus pattern (36 bp):
GGTTGTGGTGGTTTCAGCTCAAGCTGGGGTACTTCG
Found at i:77040 original size:24 final size:24
Alignment explanation
Indices: 77009--77073 Score: 130
Period size: 24 Copynumber: 2.7 Consensus size: 24
76999 GGGTACTTCG
77009 GGTTTCAGGTCTTGAGGTTGTGGT
1 GGTTTCAGGTCTTGAGGTTGTGGT
77033 GGTTTCAGGTCTTGAGGTTGTGGT
1 GGTTTCAGGTCTTGAGGTTGTGGT
77057 GGTTTCAGGTCTTGAGG
1 GGTTTCAGGTCTTGAGG
77074 GGATACTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.09, C:0.09, G:0.42, T:0.40
Consensus pattern (24 bp):
GGTTTCAGGTCTTGAGGTTGTGGT
Found at i:77098 original size:15 final size:15
Alignment explanation
Indices: 77080--77127 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
77070 GAGGGGATAC
*
77080 TTCTTCGGGTTGTGT
1 TTCTTCGGGTTGTGG
77095 TTCTTCGGGTTGTGG
1 TTCTTCGGGTTGTGG
**
77110 TTCGGCGGGTTGTGG
1 TTCTTCGGGTTGTGG
77125 TTC
1 TTC
77128 GGGTTGGGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.00, C:0.15, G:0.40, T:0.46
Consensus pattern (15 bp):
TTCTTCGGGTTGTGG
Found at i:78127 original size:27 final size:28
Alignment explanation
Indices: 78068--78128 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
78058 GAAACTAGAT
*
78068 ATAAAATTGTAGAAATTTTTTAAAAAAAA
1 ATAAAATTGTAGAAA-TTTTAAAAAAAAA
78097 ATAAAATTGTAGAAA-TTTAAAAAAAAA
1 ATAAAATTGTAGAAATTTTAAAAAAAAA
78124 ATAAA
1 ATAAA
78129 GGCAGATCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 16 0.52
29 15 0.48
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.30
Consensus pattern (28 bp):
ATAAAATTGTAGAAATTTTAAAAAAAAA
Found at i:78206 original size:30 final size:31
Alignment explanation
Indices: 78163--78228 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 31
78153 GAAAATAAAA
*
78163 ATATCATAGGTAGAAAGAGGGGAA-TCATAG
1 ATATGATAGGTAGAAAGAGGGGAACTCATAG
*
78193 ATATGATATGTAGAAAGAGGGGAACTCATAG
1 ATATGATAGGTAGAAAGAGGGGAACTCATAG
78224 ATATG
1 ATATG
78229 CACTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 22 0.67
31 11 0.33
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (31 bp):
ATATGATAGGTAGAAAGAGGGGAACTCATAG
Found at i:78756 original size:12 final size:12
Alignment explanation
Indices: 78739--78784 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
78729 TATCATCTTT
78739 TAATTTTTTTAA
1 TAATTTTTTTAA
**
78751 TAATTTTTTTGC
1 TAATTTTTTTAA
78763 TAATTTTTTTAA
1 TAATTTTTTTAA
78775 TAATTTTTTT
1 TAATTTTTTT
78785 TAGCAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (12 bp):
TAATTTTTTTAA
Found at i:78767 original size:24 final size:24
Alignment explanation
Indices: 78739--78784 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
78729 TATCATCTTT
78739 TAATTTTTTTAATAATTTTTTTGC
1 TAATTTTTTTAATAATTTTTTTGC
78763 TAATTTTTTTAATAATTTTTTT
1 TAATTTTTTTAATAATTTTTTT
78785 TAGCAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (24 bp):
TAATTTTTTTAATAATTTTTTTGC
Found at i:78953 original size:2 final size:2
Alignment explanation
Indices: 78948--78994 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
78938 ACCGTGTGTG
78948 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78990 TA TA T
1 TA TA T
78995 GAGATAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:79550 original size:24 final size:24
Alignment explanation
Indices: 79521--79581 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 24
79511 GTCCTCCCCA
*
79521 ACCCCTTCC-CCTGCCTCTTCCACC
1 ACCCCTTCCACC-ACCTCTTCCACC
79545 ACCCCTTCCACCACCTCTTCCACC
1 ACCCCTTCCACCACCTCTTCCACC
79569 ACCCCTTCCACCA
1 ACCCCTTCCACCA
79582 TAAGATATAC
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
24 33 0.94
25 2 0.06
ACGTcount: A:0.15, C:0.62, G:0.02, T:0.21
Consensus pattern (24 bp):
ACCCCTTCCACCACCTCTTCCACC
Found at i:79552 original size:12 final size:12
Alignment explanation
Indices: 79537--79581 Score: 81
Period size: 12 Copynumber: 3.8 Consensus size: 12
79527 TCCCCTGCCT
79537 CTTCCACCACCC
1 CTTCCACCACCC
*
79549 CTTCCACCACCT
1 CTTCCACCACCC
79561 CTTCCACCACCC
1 CTTCCACCACCC
79573 CTTCCACCA
1 CTTCCACCA
79582 TAAGATATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.18, C:0.62, G:0.00, T:0.20
Consensus pattern (12 bp):
CTTCCACCACCC
Found at i:80087 original size:38 final size:38
Alignment explanation
Indices: 80044--80121 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
80034 AACGGCTGAA
80044 CAGGTCAATAATAAAAGATAAGTTGCTGAGAGTATGGG
1 CAGGTCAATAATAAAAGATAAGTTGCTGAGAGTATGGG
80082 CAGGTCAATAATAAAAGATAAGTTGCTGAGAGTATGGG
1 CAGGTCAATAATAAAAGATAAGTTGCTGAGAGTATGGG
80120 CA
1 CA
80122 AACGTGGCAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.40, C:0.09, G:0.28, T:0.23
Consensus pattern (38 bp):
CAGGTCAATAATAAAAGATAAGTTGCTGAGAGTATGGG
Found at i:98984 original size:20 final size:20
Alignment explanation
Indices: 98946--98984 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
98936 AAGTTCTTGA
* *
98946 ATGATATTTGATTCAAATTT
1 ATGATATTGGAATCAAATTT
*
98966 ATGATATTGGAATCCAATT
1 ATGATATTGGAATCAAATT
98985 GAAAGTGATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (20 bp):
ATGATATTGGAATCAAATTT
Found at i:102388 original size:3 final size:3
Alignment explanation
Indices: 102380--102405 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
102370 CAATAATTGG
102380 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
102406 TCCTTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:104984 original size:1 final size:1
Alignment explanation
Indices: 104980--105010 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
104970 TCCTTTTTGG
104980 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
105011 ACAATAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:106919 original size:41 final size:41
Alignment explanation
Indices: 106856--106933 Score: 122
Period size: 41 Copynumber: 1.9 Consensus size: 41
106846 ACTTGACCCT
*
106856 CCTAATAATTAAGGAAATAAATTAAATAC-AGGTTTAGTCCC
1 CCTAATAATTAAGGAAAGAAATTAAAT-CTAGGTTTAGTCCC
*
106897 CCTAATAATTAAGGTAAGAAATTAAATCTAGGTTTAG
1 CCTAATAATTAAGGAAAGAAATTAAATCTAGGTTTAG
106934 CCCATAGTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (41 bp):
CCTAATAATTAAGGAAAGAAATTAAATCTAGGTTTAGTCCC
Found at i:116396 original size:4 final size:4
Alignment explanation
Indices: 116387--116418 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
116377 GGCATTTAGA
116387 TATT TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT
116419 ATTATTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:116422 original size:3 final size:3
Alignment explanation
Indices: 116414--116447 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
116404 ATTTATTTAT
116414 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
116448 AAATTACCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:128187 original size:2 final size:2
Alignment explanation
Indices: 128180--128206 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
128170 AAGGAGTTAG
128180 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
128207 GATTGTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:132200 original size:15 final size:16
Alignment explanation
Indices: 132176--132209 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
132166 AAGAACAAGA
132176 AGAAAGAAAACAGAAG
1 AGAAAGAAAACAGAAG
*
132192 AGAAA-AAAATAGAAG
1 AGAAAGAAAACAGAAG
132207 AGA
1 AGA
132210 GAGAGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.71, C:0.03, G:0.24, T:0.03
Consensus pattern (16 bp):
AGAAAGAAAACAGAAG
Found at i:135805 original size:49 final size:49
Alignment explanation
Indices: 135708--135805 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
135698 ACCAACCTAA
* * * *
135708 CTCGAATAAGGTTAACTTGTAAATATACCAAATATATATAATAGAATGT
1 CTCGAATAAAGTTAACTAGTAAATATACCAAATATATAGAACAGAATGT
*
135757 CTCGAATAAAGTTAACTAGTAAATATACCAAATATATAGAACATAATGT
1 CTCGAATAAAGTTAACTAGTAAATATACCAAATATATAGAACAGAATGT
135806 ATTAAGTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (49 bp):
CTCGAATAAAGTTAACTAGTAAATATACCAAATATATAGAACAGAATGT
Found at i:136837 original size:1 final size:1
Alignment explanation
Indices: 136831--136862 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
136821 CAGCAACTGC
*
136831 AAAAAAAAAAAAAAAAAAAAAAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
136863 CAGAATTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.97, C:0.03, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:166070 original size:20 final size:21
Alignment explanation
Indices: 166034--166074 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
166024 TTGGTGAATT
166034 TTTTTTTTAGCATTTTAAAAC
1 TTTTTTTTAGCATTTTAAAAC
* *
166055 TTTTTTTTGGCATTTAAAAA
1 TTTTTTTTAGCATTTTAAAA
166075 AAAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTTTTTTAGCATTTTAAAAC
Found at i:184703 original size:25 final size:25
Alignment explanation
Indices: 184658--184706 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
184648 CTTGGTTTTT
*
184658 TTTAATTAATTATACAAAATATTAC
1 TTTAATTAATAATACAAAATATTAC
*
184683 TTTATATTAATAATAC-TAATATTA
1 TTTA-ATTAATAATACAAAATATTA
184707 ATTAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (25 bp):
TTTAATTAATAATACAAAATATTAC
Found at i:193137 original size:356 final size:356
Alignment explanation
Indices: 192484--193178 Score: 1345
Period size: 356 Copynumber: 2.0 Consensus size: 356
192474 AACAAAATTC
192484 TTAGGGGTCGTTTGGCATCGTTTTCGTTTTTCTATTTTTTATTTTTGTTTTGTTTTTGTTACGCT
1 TTAGGGGTCGTTTGGCATCGTTTTCGTTTTTCTATTTTTTATTTTTGTTTTGTTTTTGTTACGCT
192549 GTCAATTTTTGAAAAGAAAAATATGTTTGGATATACAATTTGGTTATATGTTTTTAAATTAAAAA
66 GTCAATTTTTGAAAAGAAAAATATGTTTGGATATACAATTTGGTTATATGTTTTTAAATTAAAAA
192614 TTTTTTTTTAAAAAAAGTTAAAAAGCATGTGAGTTACCGTTCATCATTGTGTTTCTGTGTTTTGT
131 TTTTTTTTTAAAAAAAGTTAAAAAGCATGTGAGTTACCGTTCATCATTGTGTTTCTGTGTTTTGT
192679 AAGTGTTTTGGGAAAACATGAAAACACAAAATTTTTGCTTCCACTTTTTTCCAAAACACTGCTTC
196 AAGTGTTTTGGGAAAACATGAAAACACAAAATTTTTGCTTCCACTTTTTTCCAAAACACTGCTTC
*
192744 TATTTCCAAAATTTTTTAAAACGGAAACAACTTGTCAAATATATTTTCACTGTTCTGTTTTCAAA
261 TATTTCCAAAATTTTTTAAAACGGAAACAACTTGTCAAATATATTTTCACTGTTCTGTTTCCAAA
*
192809 AACCGAAAATTGGCTTTTTCACCGTTCATCA
326 AACAGAAAATTGGCTTTTTCACCGTTCATCA
* *
192840 TTAGGGGTCGTTTGGCATCGTTTTCGTTTTTCTATTTTTTATTTTTGTTTTGTTTTTGTTGCGTT
1 TTAGGGGTCGTTTGGCATCGTTTTCGTTTTTCTATTTTTTATTTTTGTTTTGTTTTTGTTACGCT
192905 GTCAATTTTTGAAAAGAAAAATATGTTTGGATATACAATTTGGTTATATGTTTTTAAATTAAAAA
66 GTCAATTTTTGAAAAGAAAAATATGTTTGGATATACAATTTGGTTATATGTTTTTAAATTAAAAA
192970 TTTTTTTTTAAAAAAAGTTAAAAAGCATGTGAGTTACCGTTCATCATTGTGTTTCTGTGTTTTGT
131 TTTTTTTTTAAAAAAAGTTAAAAAGCATGTGAGTTACCGTTCATCATTGTGTTTCTGTGTTTTGT
193035 AAGTGTTTTGGGAAAACATGAAAACACAAAATTTTTGCTTCCACTTTTTTCCAAAACACTGCTTC
196 AAGTGTTTTGGGAAAACATGAAAACACAAAATTTTTGCTTCCACTTTTTTCCAAAACACTGCTTC
*
193100 TATTTCCAAAATTTTTTAAAACGGAAACAGCTTGTCAAATATATTTTCACTGTTCTGTTTCCAAA
261 TATTTCCAAAATTTTTTAAAACGGAAACAACTTGTCAAATATATTTTCACTGTTCTGTTTCCAAA
193165 AACAGAAAATTGGC
326 AACAGAAAATTGGC
193179 AACAGAAAAA
Statistics
Matches: 334, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
356 334 1.00
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (356 bp):
TTAGGGGTCGTTTGGCATCGTTTTCGTTTTTCTATTTTTTATTTTTGTTTTGTTTTTGTTACGCT
GTCAATTTTTGAAAAGAAAAATATGTTTGGATATACAATTTGGTTATATGTTTTTAAATTAAAAA
TTTTTTTTTAAAAAAAGTTAAAAAGCATGTGAGTTACCGTTCATCATTGTGTTTCTGTGTTTTGT
AAGTGTTTTGGGAAAACATGAAAACACAAAATTTTTGCTTCCACTTTTTTCCAAAACACTGCTTC
TATTTCCAAAATTTTTTAAAACGGAAACAACTTGTCAAATATATTTTCACTGTTCTGTTTCCAAA
AACAGAAAATTGGCTTTTTCACCGTTCATCA
Found at i:200625 original size:29 final size:28
Alignment explanation
Indices: 200593--200647 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
200583 TCCAAATTGC
*
200593 AAGTTCA-GAGGATAAAACGTCCAAAATTA
1 AAGTTCAGGAGG-CAAAACGT-CAAAATTA
*
200622 AAGTTTAGGAGGCAAAACGTCAAAAT
1 AAGTTCAGGAGGCAAAACGTCAAAAT
200648 CGTACAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 6 0.26
29 13 0.57
30 4 0.17
ACGTcount: A:0.47, C:0.13, G:0.20, T:0.20
Consensus pattern (28 bp):
AAGTTCAGGAGGCAAAACGTCAAAATTA
Found at i:210092 original size:2 final size:2
Alignment explanation
Indices: 210085--210111 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
210075 ATATTAAAAC
210085 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
210112 ATTCATCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:220850 original size:14 final size:14
Alignment explanation
Indices: 220833--220867 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
220823 CTCATAATAC
220833 AATTACATATAAGA
1 AATTACATATAAGA
220847 AATTACATATAAGA
1 AATTACATATAAGA
220861 AGATTAC
1 A-ATTAC
220868 CCCTATCGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.29
Consensus pattern (14 bp):
AATTACATATAAGA
Found at i:242504 original size:4 final size:4
Alignment explanation
Indices: 242488--242517 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
242478 TCTCTTCTTC
*
242488 TTCT TTCT GTCT TTCT TTCT TTCT TTCT TT
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TT
242518 TTTTTTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.73
Consensus pattern (4 bp):
TTCT
Found at i:243805 original size:22 final size:23
Alignment explanation
Indices: 243761--243818 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
243751 GGAACCTTGT
*
243761 ATTTTAATATTTGCCTTTTTAAAA
1 ATTTTAATATTT-CCTTTGTAAAA
*
243785 ATTTTATTATTT-CTTTGTAAAA
1 ATTTTAATATTTCCTTTGTAAAA
* *
243807 ATATTAAGATTT
1 ATTTTAATATTT
243819 TTTTATTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 18 0.62
24 11 0.38
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.55
Consensus pattern (23 bp):
ATTTTAATATTTCCTTTGTAAAA
Found at i:246105 original size:325 final size:322
Alignment explanation
Indices: 245124--248749 Score: 2321
Period size: 325 Copynumber: 11.1 Consensus size: 322
245114 CCCGTCTAAG
* * ** *
245124 TTTTGCATGATTTTTGGAAAAAAGCCTCCTTGATTTATC-AGTATTCATCGAACCAAATCTCAGT
1 TTTTGCATGATTTTTGGCAGAAAGCCTCCTTGAAATATCTA-TATTCATCGAACCAAATCTCAGC
* * * * * *
245188 CACATTGGATTTAAGGA-TTATTTTTATGAAGCATCTAAATTTTGTTTCAATTTAATTAAAAATA
65 CACATTGGATATAAGGATTTGTTTTTACG-AGCATCTGAATTTTGTTTCGATTTAATTAGAAATA
* * *
245252 AAATCAGAAAAAAGGTAAAAAGATTTAAGAAGCGTGAAAAGCCCTTCAATTTTTTGTTGCATTGA
129 AATTC--------GGAAAAAAGATTTAAGAAGCGTGAAAAGCCCTT-AATTTTTTTTTGCATTGA
* * * * *
245317 ATTATATATTTTTTAAGAGTACTGTGGCAAAAAAATTGAGGATAAACTTTGCGTGTCAATTTTTT
185 ATTATATATTTTTTATGAGTACTGTGGC-AAAAAATTTAGAAAAAACTTTTCGTGTCAA-TTTTT
* * * * * * *
245382 GCAAAATTCTAGCCGTAATCGTGTACTATCCATCATGGTTTTTGGCTAAAAACGCGATCCGGAGC
248 GCAAAATTTTAGCCGAAATCGTGTACAATCCATCACGTTTTTTGGCTAAAAACGCGTTCTGGAGC
***
245447 CCATACTCAA
313 CCCGGCTCAA
* * * *
245457 TTTCGCATGAGTTTTGGC-GCAAAGACTCTTTGAAATATCTATATTCATCGAACCAAATCTCAGC
1 TTTTGCATGATTTTTGGCAG-AAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGC
* * * *
245521 CACATTGCATATAA--ATTT-TTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAATTA
65 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAA-TA
* * * * *
245583 ATTTGGAAAAAAGAAAAGAAAAAAACGATATT-AGGAGCGTG-AAAGTCCCGTTAA-TCTTTTTG
129 AATT-------CG----G-AAAAAA-GAT-TTAAGAAGCGTGAAAAG-CCC-TTAATTTTTTTTT
* * * * *
245645 GCGTTGAATTATATA-TTTTTACGGAGTATTGTGGC-AAAAATTTCAGGAAAAAAATTTTCGGGT
178 GCATTGAATTATATATTTTTTA-TGAGTACTGTGGCAAAAAATTT-A-GAAAAAACTTTTCGTGT
* * * * *
245708 C-A--CTT-C------TTAGCTGAAATCGTATACTAA-CCATCACAGTTTTTAGGCTAAGAACGC
240 CAATTTTTGCAAAATTTTAGCCGAAATCGTGTAC-AATCCATCAC-GTTTTTTGGCTAAAAACGC
* * *
245762 GTT-TCGGGGCCGCGGCTCAG
303 GTTCT-GGAGCCCCGGCTCAA
* * *
245782 TTTTGCATGATTTTTAGCAGAAAGCCTCCTTGAAATATCTCTATTCATCGAATCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCAGAAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCC
* * * * * *
245847 ATATTGGATTTAACGATTTGTTTTTACAACGCATCTGAAATTTTTTTTCGATTTTATTA-AAA-A
66 ACATTGGATATAAGGATTTGTTTTTACGA-GCATCTG-AATTTTGTTTCGATTTAATTAGAAATA
* *
245910 AATTCGGAAAAAAGATTTAAGAAGCGTGAAAAGCCCTACAATTATTTTTTTACATTGAATTATAT
129 AATTCGGAAAAAAGATTTAAGAAGCGTGAAAAGCCCT-TAATT-TTTTTTTGCATTGAATTATAT
*
245975 ATTTTTTATGAGTACTGTGGCAAAAAATTTAGAAAAAACTTTTCTTGTCGAATTTTTGCAAAATT
192 ATTTTTTATGAGTACTGTGGCAAAAAATTTAGAAAAAACTTTTCGTGTC-AATTTTTGCAAAATT
* *
246040 TTAGCCGAAATCGTTTACAATCCATCACGTTTTTTGGCTAAAAATGCGTTCTGGAGCCCCGGCTC
256 TTAGCCGAAATCGTGTACAATCCATCACGTTTTTTGGCTAAAAACGCGTTCTGGAGCCCCGGCTC
246105 AA
321 AA
* * * * * *
246107 TTTTGCATGATATTTGGC-GCAAAGACTCTTTGAAATATCTATAATCATTGAACCAAATCTTAGC
1 TTTTGCATGATTTTTGGCAG-AAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGC
* * * * *
246171 CACATTGCATATAAGGATTTTTTTTATTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAG
65 CACATTGGATATAAGGA-----TTT-GTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAG
* * **
246236 AAATCAATTTCGAAAAATAAGGAAAAAAATGATATT-AGAAGCGTGAAAATCCCGTTAA-TCATT
124 AAAT-AAATTC---------GG-AAAAAA-GAT-TTAAGAAGCGTGAAAAGCCC-TTAATTTTTT
* * **
246299 TTGGCGTTGAATTATATATTTTTTCCGCA-TA-TGGTGG--AAAAATTTCAG---AAA-TTTT--
175 TTTGCATTGAATTATATATTTTTTATG-AGTACT-GTGGCAAAAAATTT-AGAAAAAACTTTTCG
* *** * * *
246354 T-T---TTTTCGGGTCACCTTTTTAGCCGAATATCATGT---A-CCATCACGGTTTTTGGGTTAA
237 TGTCAATTTT--TG-CAAAATTTTAGCCGAA-ATCGTGTACAATCCATCAC-GTTTTTTGGCTAA
* * *
246411 AAACGCGTT-TCGGGGCCCCGTCTCAG
297 AAACGCGTTCT-GGAGCCCCGGCTCAA
* * * *
246437 TTTTGCATGATTTTTGGTAGAAAGCCTCCTTAAAATATCTCTATTCATCGAACCAGATCTCAGCC
1 TTTTGCATGATTTTTGGCAGAAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCC
* * * *
246502 ACTTTGGATCTAAGGATTTGTTTTTACGAGGCATGTGAATTTTGTTTCCATTTAATTAGAAATAA
66 ACATTGGATATAAGGATTTGTTTTTACGA-GCATCTGAATTTTGTTTCGATTTAATTAGAAATAA
*
246567 ATTCGGAAAAAAAGGAAAAAAAGATTTAAGAAGCGTGAAAAGCCCTACAATTTTTTTTTGCATTG
130 ATTC---------GG-AAAAAAGATTTAAGAAGCGTGAAAAGCCCT-TAATTTTTTTTTGCATTG
* * *
246632 AATTATATATTTTTTATGAGT-CTTGTGGCAAAAAATTGT-GGAAAAACATTTCGTGTAAATTTT
184 AATTATATATTTTTTATGAGTAC-TGTGGCAAAAAATT-TAGAAAAAACTTTTCGTGTCAA--TT
* *
246695 TTTGCAAAATTTTAGTCGAAATCGTGTACAATCCATCACGGGTTTTTGGCTAAAAACGCGTTCTG
245 TTTGCAAAATTTTAGCCGAAATCGTGTACAATCCATCAC-GTTTTTTGGCTAAAAACGCGTTCTG
*
246760 GAGCCCCGACTCAA
309 GAGCCCCGGCTCAA
* ** * * *
246774 TTTTGAATGATTTTTGGC-GCAAAAACTCTTTGAAATATCTATATTCGTTGAACCAAATCTCAGC
1 TTTTGCATGATTTTTGGCAG-AAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGC
* * * *** *
246838 CACATTGCATATAA-GAATT-TTTTTACGATCATCTGAATCGCGTTTCGATTTAATTAGAAATTA
65 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAA
* * * * * *
246901 TTTTGGAAAAAAAGTTTAAACGATATTAGAAGCGTGAAAATCCCGTTAA-TCTTTTTGGCATTGA
130 ATTCGG-AAAAAAGATT------TA--AGAAGCGTGAAAAGCCC-TTAATTTTTTTTTGCATTGA
* * * * * *
246965 ATTATATA-TTTTTACGGAGTATTGTGGC-AAAAATTTCAGGAAAAATTTTTCGGGTC-A--CTT
185 ATTATATATTTTTTA-TGAGTACTGTGGCAAAAAATTT-AGAAAAAACTTTTCGTGTCAATTTTT
* * * * *
247025 -C------TTAGCCGAAAATGGTGTATAAACCATCACAGTTTTTGGGCTAAAAACGCGTT-TCGA
248 GCAAAATTTTAGCCG-AAATCGTGTACAATCCATCAC-GTTTTTTGGCTAAAAACGCGTTCTGGA
* *
247082 GGCCCCAGCTCAG
311 -GCCCCGGCTCAA
* * * *
247095 TTTTTCCTGATTTTTGACAGAAAGCCTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCAGAAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCC
* * * * *
247160 ACTTTGGATCTAAGGATTTGTTTTTACGAGGTATGTGAATTTTGTTTCGATTTAATTATAAATAA
66 ACATTGGATATAAGGATTTGTTTTTACGA-GCATCTGAATTTTGTTTCGATTTAATTAGAAATAA
*
247225 ATTCGGAAAAAAAGGAAAAAAGATTTAAGAAGCGTGAAAAGCCC-TACAGTTTTTTTTGCATTGA
130 ATTC---------GGAAAAAAGATTTAAGAAGCGTGAAAAGCCCTTA-ATTTTTTTTTGCATTGA
*
247289 ATTATATATTTTTTATGAGT-CTTGTGGCAAAAAATTGTGGAAAAAACATTTT-GTGTCAATTTT
185 ATTATATATTTTTTATGAGTAC-TGTGGCAAAAAATT-TAGAAAAAAC-TTTTCGTGTCAA---T
* *
247352 TTTTGCAAAATTTTAG-C-----C--G---AATCCATCACGGTTTTTGGCTAAAACCGCGTTCTG
244 TTTTGCAAAATTTTAGCCGAAATCGTGTACAATCCATCACGTTTTTTGGCTAAAAACGCGTTCTG
247406 GAGCCCCGGCTCAA
309 GAGCCCCGGCTCAA
* * * * *
247420 TTTTGAATGATTTTTGGC-GCAAAGACTCTTTGAAATATCTATAATCATTGAACCAAATCTCAGC
1 TTTTGCATGATTTTTGGCAG-AAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGC
* * * * * ***
247484 CACATTGCATATAAGAATTTTTTTTTACGATCATTTGAATCGCGTTTCGATTTAATTAGAAATTG
65 CACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAA---
*** * * * *
247549 TTTTGGAAAAAAAAGGAAAAAACGATATT-AGAAGCGTGAAAATCCCGTTAA-TATTTTTGGCGT
127 ---T----AAATTCGGAAAAAA-GAT-TTAAGAAGCGTGAAAAGCCC-TTAATTTTTTTTTGCAT
* * ** *
247612 TGAATTATATA-TTTTTACGGAGTATTGTGGC-AAAAATTTCAGGAAAAATTTTTTCGGGTC-A-
182 TGAATTATATATTTTTTA-TGAGTACTGTGGCAAAAAATTT-A-GAAAAAACTTTTCGTGTCAAT
* ** * * * *
247673 -CTT-C------TTAGCTAAAATCGTATACTAA-CTATCACGGTTTTTGGGTTAAAAACGCGTT-
244 TTTTGCAAAATTTTAGCCGAAATCGTGTAC-AATCCATCAC-GTTTTTTGGCTAAAAACGCGTTC
* * *
247728 TCGGGGCCCTGGCTCAG
307 T-GGAGCCCCGGCTCAA
* * * * *
247745 TTTTGCGTGATTTTTGGCAGAAAGCCTCCTTGAAACATCTCTATTCATCAAAACAAATCTCAGCC
1 TTTTGCATGATTTTTGGCAGAAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCC
* * * * * *
247810 ACATTGGATTTAACGATTTATTTTTACGACGCATCTGAATTTTTTTTTCGATTTTA-TA-AAAAA
66 ACATTGGATATAAGGATTTGTTTTTACGA-GCATCTGAA-TTTTGTTTCGATTTAATTAGAAATA
* *
247873 AATTCGGAAAAAA-AATTAAGAAGCGTGAAAAACCCTATAA-TTTTTTTTGCATTGAATTATATA
129 AATTCGGAAAAAAGATTTAAGAAGCGTGAAAAGCCCT-TAATTTTTTTTTGCATTGAATTATATA
* * ** * * *
247936 TTTTTGATGAGTAATGTGGCAAAAAATAGAGTAAAAACCTTTCTTGTCAACTTTTTGCAAAATTT
193 TTTTTTATGAGTACTGTGGCAAAAAATTTAGAAAAAACTTTTCGTGTCAA-TTTTTGCAAAATTT
* * * * *
248001 TAGCCGAAATCGTTTGCAATCCATCATTGGTTTTTGGCTAAAAACGCGTTCTGGAGTCCCGGCTC
257 TAGCCGAAATCGTGTACAATCCATCA-CGTTTTTTGGCTAAAAACGCGTTCTGGAGCCCCGGCTC
248066 AA
321 AA
* * * * *
248068 TTTTGCATGATTTTTGGTGCA-AAA-ACTCTTTGAAATATCTATAATAATTGAACCAAATCTCAG
1 TTTTGCATGATTTTT-G-GCAGAAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAG
* * * * *
248131 CCACATTGCATATAAGGATTTCTTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAAT
64 CCACATTGGATATAAGGATTT-GTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAG--A-
** * * *
248196 TAATTTTGAAAATAAGGAAAAAAAACGATATT-AGAAGCGTGAAAATCCCGTTAATCATTTTGTT
125 -AA---T--AAATTCGG--AAAAAA-GAT-TTAAGAAGCGTGAAAAGCCC-TTAAT-TTTTTTTT
** * * *
248260 G--TTGAATTATATATTTTTTCCGAGTA-TGGTGG--AAAAATTTCAGAAAAAAATTTTTTGGGT
178 GCATTGAATTATATATTTTTTATGAGTACT-GTGGCAAAAAATTT-AG-AAAAAACTTTTCGTGT
* * * * *
248320 C-A-CTTT------TTTTAGCTGAAAATCATGTACTTAA-CCATCACGATTTTTGGGTTAAAAAC
240 CAATTTTTGCAAAATTTTAGCCG-AAATCGTGTAC--AATCCATCACG-TTTTTTGGCTAAAAAC
* * * *
248376 ACGTT-TCGGGGCCCCGTCTCAG
301 GCGTTCT-GGAGCCCCGGCTCAA
* * *
248398 TTTTGCATGATTTTTGGTAGAAAGCGTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCC
1 TTTTGCATGATTTTTGGCAGAAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCC
* * * *
248463 ACTTTGGATCTAAGGTTTTGTTTTTACGAGGCATGTGAATTTTGTTTCGATTTAATTAGAAATAA
66 ACATTGGATATAAGGATTTGTTTTTACGA-GCATCTGAATTTTGTTTCGATTTAATTAGAAATAA
*
248528 ATTCGGAAAAAAAGAAAAAAGATTTAAGAAGCGTGAAAAGCCCTACAATTTTTTTTTGCATTGAA
130 ATTC-G-------GAAAAAAGATTTAAGAAGCGTGAAAAGCCCT-TAATTTTTTTTTGCATTGAA
* * *
248593 TTATAT-TTTTTTATGAGT-CTTATGGCAAAAAATTGTAG-AAAAACATTTCATGTCAATTTTTT
186 TTATATATTTTTTATGAGTAC-TGTGGCAAAAAATT-TAGAAAAAACTTTTCGTGTCAA---TTT
* ** * *
248655 TTGTAAAATTTTAGCCGAAATCGTAAACAATCCATCACGGTTTTTGGCTAAAAACGACGTTCCGG
246 TTGCAAAATTTTAGCCGAAATCGTGTACAATCCATCACGTTTTTTGGCTAAAAACG-CGTTCTGG
248720 AGCCCCGGCTCAA
310 AGCCCCGGCTCAA
*
248733 TTTTGCATAATTTTTGG
1 TTTTGCATGATTTTTGG
248750 TGCAAAGACT
Statistics
Matches: 2550, Mismatches: 462, Indels: 560
0.71 0.13 0.16
Matches are distributed among these distances:
312 15 0.01
313 60 0.02
314 27 0.01
315 37 0.01
316 33 0.01
317 16 0.01
319 4 0.00
320 13 0.01
321 114 0.04
322 25 0.01
323 154 0.06
324 206 0.08
325 519 0.20
326 171 0.07
327 44 0.02
328 35 0.01
329 67 0.03
330 281 0.11
331 48 0.02
332 76 0.03
333 109 0.04
334 75 0.03
335 114 0.04
336 38 0.01
337 179 0.07
338 8 0.00
339 15 0.01
340 3 0.00
341 32 0.01
342 8 0.00
343 21 0.01
344 3 0.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (322 bp):
TTTTGCATGATTTTTGGCAGAAAGCCTCCTTGAAATATCTATATTCATCGAACCAAATCTCAGCC
ACATTGGATATAAGGATTTGTTTTTACGAGCATCTGAATTTTGTTTCGATTTAATTAGAAATAAA
TTCGGAAAAAAGATTTAAGAAGCGTGAAAAGCCCTTAATTTTTTTTTGCATTGAATTATATATTT
TTTATGAGTACTGTGGCAAAAAATTTAGAAAAAACTTTTCGTGTCAATTTTTGCAAAATTTTAGC
CGAAATCGTGTACAATCCATCACGTTTTTTGGCTAAAAACGCGTTCTGGAGCCCCGGCTCAA
Found at i:247787 original size:650 final size:650
Alignment explanation
Indices: 245079--248770 Score: 4518
Period size: 650 Copynumber: 5.6 Consensus size: 650
245069 AAAATTCGAG
* ** * * * *
245079 CATCATGGTTTTTGGGCTAAAAACGAATTTC-GGGACCCGTCTAAGTTTTGCATGATTTTTGGAA
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCA
* ** ** * * *
245143 AAAAGCCTCCTTGATTTATCAGTATTCATCGAACCAAATCTCAGTCACATTGGATTTAAGGA-TT
66 GAAAGCCTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCCACTTTGGATCTAAGGATTT
* * * * * * * *
245207 ATTTTTATGAAGCATCTAAATTTTGTTTCAATTTAATTAAAAATAAAATCAGAAAAAAGGTAAAA
131 GTTTTTACGAGGCATCTGAATTTTGTTTCGATTTAATT-AAAATAAATTCGGAAAAAAGGAAAAA
* * *
245272 AGATTTAAGAAGCGTGAAAAGCCCTTCAATTTTTTGTTGCATTGAATTATATATTTTTTAAGAGT
195 AGATTTAAGAAGCGTGAAAAGCCCTACAATTTTTTTTTGCATTGAATTATATATTTTTTATGAGT
* *
245337 AC-TGTGGCAAAAAAATTG-AGGATAAAC-TTTGCGTGTCAATTTTTTGCAAAATTCTAGCCGTA
260 -CTTGTGGC-AAAAAATTGTA-GAAAAACATTT-CGTGTCAATTTTTTGCAAAATTTTAGCC---
* * * *** *
245399 ATCGTGTACTATCCATCA-TGGTTTTTGGCTAAAAACGCGATCCGGAGCCCATACTCAATTTCGC
318 A-C--G-A-AATCCATCACTGGTTTTTGGCTAAAAACGCGTTCTGGAGCCCCGGCTCAATTTTGC
* * *
245463 ATGAGTTTTGGCGCAAAGACTCTTTGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTG
378 ATGATTTTTGGCGCAAAGACTCTTTGAAATATCTATAATCATTGAACCAAATCTCAGCCACATTG
*
245528 CATAT-A-AA-TTTTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAATTAATTTGGA
443 CATATAAGAATTTTTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAATTATTTTGG-
* * * *
245590 AAAAAGAAAAGAAAAAAACGATATTAGGAGCGTGAAAGTCCCGTTAATCTTTTTGGCGTTGAATT
507 -AAAA-AAAAGGAAAAAACGATATTAGAAGCGTGAAAATCCCGTTAATATTTTTGGCGTTGAATT
**
245655 ATATATTTTTACGGAGTATTGTGGCAAAAATTTCAGGAAAAAAATTTTCGGGTCACTTCTTAGCT
570 ATATATTTTTACGGAGTATTGTGGCAAAAATTTCAGGAAAAATTTTTTCGGGTCACTTCTTAGCT
*
245720 GAAATCGTATACTAAC
635 AAAATCGTATACTAAC
* * * * *
245736 CATCACAGTTTTTAGGCTAAGAACGCGTTTCGGGGCCGCGGCTCAGTTTTGCATGATTTTTAGCA
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCA
* * *
245801 GAAAGCCTCCTTGAAATATCTCTATTCATCGAATCAAATCTCAGCCA-TATTGGATTTAACGATT
66 GAAAGCCTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCCACT-TTGGATCTAAGGATT
* * * *
245865 TGTTTTTACAACGCATCTGAAATTTTTTTTCGATTTTATTAAAA-AAATTC--------GGAAAA
130 TGTTTTTACGAGGCATCTG-AATTTTGTTTCGATTTAATTAAAATAAATTCGGAAAAAAGGAAAA
*
245921 AAGATTTAAGAAGCGTGAAAAGCCCTACAATTATTTTTTTACATTGAATTATATATTTTTTATGA
194 AAGATTTAAGAAGCGTGAAAAGCCCTACAATT-TTTTTTTGCATTGAATTATATATTTTTTATGA
* *
245986 GTAC-TGTGGCAAAAAATT-TAGAAAAAACTTTTCTTGTCGAA-TTTTTGCAAAATTTTAGCCGA
258 GT-CTTGTGGCAAAAAATTGTAG-AAAAACATTTCGTGTC-AATTTTTTGCAAAATTTTAGCC--
* *
246048 AATCGTTTACAATCCATCAC-GTTTTTTGGCTAAAAATGCGTTCTGGAGCCCCGGCTCAATTTTG
318 -A-CG---A-AATCCATCACTGGTTTTTGGCTAAAAACGCGTTCTGGAGCCCCGGCTCAATTTTG
* *
246112 CATGATATTTGGCGCAAAGACTCTTTGAAATATCTATAATCATTGAACCAAATCTTAGCCACATT
377 CATGATTTTTGGCGCAAAGACTCTTTGAAATATCTATAATCATTGAACCAAATCTCAGCCACATT
* *
246177 GCATATAAGGATTTTTTTTATTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAATCA
442 GCATATAA-GA----ATTT-TTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAATTA
* * * *
246242 ATTTCGAAAAATAAGGAAAAAAATGATATTAGAAGCGTGAAAATCCCGTTAATCA-TTTTGGCGT
501 TTTTGGAAAAAAAAGG-AAAAAACGATATTAGAAGCGTGAAAATCCCGTTAAT-ATTTTTGGCGT
* * * **
246306 TGAATTATATATTTTTTCCGCA-TATGGTGG-AAAAATTTCA-GAAATTTTTTTTTTCGGGTCAC
564 TGAATTATATA-TTTTTACGGAGTATTGTGGCAAAAATTTCAGGAAA--AATTTTTTCGGGTCA-
* * * *
246368 CTTTTTAGCCGAATATC--AT-GT-AC
625 CTTCTTAG-CTAAAATCGTATACTAAC
* * *
246391 CATCACGGTTTTTGGGTTAAAAACGCGTTTCGGGGCCCCGTCTCAGTTTTGCATGATTTTTGGTA
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCA
* *
246456 GAAAGCCTCCTTAAAATATCTCTATTCATCGAACCAGATCTCAGCCACTTTGGATCTAAGGATTT
66 GAAAGCCTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCCACTTTGGATCTAAGGATTT
* *
246521 GTTTTTACGAGGCATGTGAATTTTGTTTCCATTTAATTAGAAATAAATTCGGAAAAAAAGGAAAA
131 GTTTTTACGAGGCATCTGAATTTTGTTTCGATTTAATTA-AAATAAATTCGG-AAAAAAGG-AAA
246586 AAAGATTTAAGAAGCGTGAAAAGCCCTACAATTTTTTTTTGCATTGAATTATATATTTTTTATGA
193 AAAGATTTAAGAAGCGTGAAAAGCCCTACAATTTTTTTTTGCATTGAATTATATATTTTTTATGA
* * *
246651 GTCTTGTGGCAAAAAATTGTGGAAAAACATTTCGTGTAAATTTTTTTGCAAAATTTTAGTCGAAA
258 GTCTTGTGGCAAAAAATTGTAGAAAAACATTTCGTGTCAA-TTTTTTGCAAAATTTTAG-C--CA
* * *
246716 TCGTGTACAATCCATCACGGGTTTTTGGCTAAAAACGCGTTCTGGAGCCCCGACTCAATTTTGAA
319 -C--G-A-AATCCATCACTGGTTTTTGGCTAAAAACGCGTTCTGGAGCCCCGGCTCAATTTTGCA
* * *
246781 TGATTTTTGGCGCAAAAACTCTTTGAAATATCTATATTCGTTGAACCAAATCTCAGCCACATTGC
379 TGATTTTTGGCGCAAAGACTCTTTGAAATATCTATAATCATTGAACCAAATCTCAGCCACATTGC
*
246846 ATATAAGAA--TTTTTTTACGATCATCTGAATCGCGTTTCGATTTAATTAGAAATTATTTTGG-A
444 ATATAAGAATTTTTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAATTATTTTGGAA
*** * *
246908 AAAAAA-GTTTAAACGATATTAGAAGCGTGAAAATCCCGTTAATCTTTTTGGCATTGAATTATAT
509 AAAAAAGGAAAAAACGATATTAGAAGCGTGAAAATCCCGTTAATATTTTTGGCGTTGAATTATAT
*
246972 ATTTTTACGGAGTATTGTGGCAAAAATTTCAGGAAAAA-TTTTTCGGGTCACTTCTTAGCCGAAA
574 ATTTTTACGGAGTATTGTGGCAAAAATTTCAGGAAAAATTTTTTCGGGTCACTTCTTAG-CTAAA
* *
247036 ATGGTGTA-TAAAC
638 ATCGTATACT-AAC
* * * * * *
247049 CATCACAGTTTTTGGGCTAAAAACGCGTTTCGAGGCCCCAGCTCAGTTTTTCCTGATTTTTGACA
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCA
247114 GAAAGCCTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCCACTTTGGATCTAAGGATTT
66 GAAAGCCTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCCACTTTGGATCTAAGGATTT
* *
247179 GTTTTTACGAGGTATGTGAATTTTGTTTCGATTTAATTATAAATAAATTCGGAAAAAAAGGAAAA
131 GTTTTTACGAGGCATCTGAATTTTGTTTCGATTTAATTA-AAATAAATTCGG-AAAAAAGGAAAA
*
247244 AAGATTTAAGAAGCGTGAAAAGCCCTAC-AGTTTTTTTTGCATTGAATTATATATTTTTTATGAG
194 AAGATTTAAGAAGCGTGAAAAGCCCTACAATTTTTTTTTGCATTGAATTATATATTTTTTATGAG
* *
247308 TCTTGTGGCAAAAAATTGTGGAAAAAACATTTTGTGTCAATTTTTTTTGCAAAATTTTAG-C-CG
259 TCTTGTGGCAAAAAATTGTAG-AAAAACATTTCGTGTCAA--TTTTTTGCAAAATTTTAGCCACG
* *
247371 -AATCCATCAC-GGTTTTTGGCTAAAACCGCGTTCTGGAGCCCCGGCTCAATTTTGAATGATTTT
321 AAATCCATCACTGGTTTTTGGCTAAAAACGCGTTCTGGAGCCCCGGCTCAATTTTGCATGATTTT
247434 TGGCGCAAAGACTCTTTGAAATATCTATAATCATTGAACCAAATCTCAGCCACATTGCATATAAG
386 TGGCGCAAAGACTCTTTGAAATATCTATAATCATTGAACCAAATCTCAGCCACATTGCATATAAG
* * *
247499 AATTTTTTTTTACGATCATTTGAATCGCGTTTCGATTTAATTAGAAATTGTTTTGGAAAAAAAAG
451 AATTTTTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAATTATTTTGGAAAAAAAAG
247564 GAAAAAACGATATTAGAAGCGTGAAAATCCCGTTAATATTTTTGGCGTTGAATTATATATTTTTA
516 GAAAAAACGATATTAGAAGCGTGAAAATCCCGTTAATATTTTTGGCGTTGAATTATATATTTTTA
247629 CGGAGTATTGTGGCAAAAATTTCAGGAAAAATTTTTTCGGGTCACTTCTTAGCTAAAATCGTATA
581 CGGAGTATTGTGGCAAAAATTTCAGGAAAAATTTTTTCGGGTCACTTCTTAGCTAAAATCGTATA
247694 CTAAC
646 CTAAC
* * * *
247699 TATCACGGTTTTTGGGTTAAAAACGCGTTTCGGGGCCCTGGCTCAGTTTTGCGTGATTTTTGGCA
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCA
* * * * * *
247764 GAAAGCCTCCTTGAAACATCTCTATTCATCAAAACAAATCTCAGCCACATTGGATTTAACGATTT
66 GAAAGCCTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCCACTTTGGATCTAAGGATTT
* * * * *
247829 ATTTTTACGACGCATCTGAATTTTTTTTTCGATTTTA-TAAAAAAAATTCGG-----A--AAAAA
131 GTTTTTACGAGGCATCTGAA-TTTTGTTTCGATTTAATTAAAATAAATTCGGAAAAAAGGAAAAA
* * *
247886 A-A-TTAAGAAGCGTGAAAAACCCTATAA-TTTTTTTTGCATTGAATTATATATTTTTGATGAGT
195 AGATTTAAGAAGCGTGAAAAGCCCTACAATTTTTTTTTGCATTGAATTATATATTTTTTATGAGT
** * * * *
247948 AATGTGGCAAAAAATAG-AGTAAAAACCTTTCTTGTCAACTTTTTGCAAAATTTTAGCCGAAATC
260 CTTGTGGCAAAAAATTGTAG-AAAAACATTTCGTGTCAATTTTTTGCAAAATTTTAGCC---A-C
* * *
248012 GTTTGCAATCCATCATTGGTTTTTGGCTAAAAACGCGTTCTGGAGTCCCGGCTCAATTTTGCATG
320 ----GAAATCCATCACTGGTTTTTGGCTAAAAACGCGTTCTGGAGCCCCGGCTCAATTTTGCATG
* * *
248077 ATTTTTGGTGCAAAAACTCTTTGAAATATCTATAATAATTGAACCAAATCTCAGCCACATTGCAT
381 ATTTTTGGCGCAAAGACTCTTTGAAATATCTATAATCATTGAACCAAATCTCAGCCACATTGCAT
*
248142 ATAAGGATTTCTTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAATTAATTTT-G-A
446 ATAAGAATTT-TTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAATT-ATTTTGGAA
* **
248205 AAATAAGGAAAAAAAACGATATTAGAAGCGTGAAAATCCCGTTAATCA-TTTTGTTGTTGAATTA
509 AAAAAAGG--AAAAAACGATATTAGAAGCGTGAAAATCCCGTTAAT-ATTTTTGGCGTTGAATTA
* * * * *
248269 TATATTTTTTCCGAGTATGGTGG-AAAAATTTCAGAAAAAAATTTTTT-GGGTCACTTTTTTTAG
571 TATATTTTTACGGAGTATTGTGGCAAAAATTTCAG-GAAAAATTTTTTCGGGTCAC--TTCTTAG
* *
248332 CTGAAAATCATGTACTTAAC
633 CT-AAAATCGTATAC-TAAC
* * * * *
248352 CATCACGATTTTTGGGTTAAAAACACGTTTCGGGGCCCCGTCTCAGTTTTGCATGATTTTTGGTA
1 CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCA
* *
248417 GAAAGCGTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCCACTTTGGATCTAAGGTTTT
66 GAAAGCCTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCCACTTTGGATCTAAGGATTT
* *
248482 GTTTTTACGAGGCATGTGAATTTTGTTTCGATTTAATTAGAAATAAATTCGGAAAAAAAGAAAAA
131 GTTTTTACGAGGCATCTGAATTTTGTTTCGATTTAATTA-AAATAAATTCGGAAAAAAGGAAAAA
248547 AGATTTAAGAAGCGTGAAAAGCCCTACAATTTTTTTTTGCATTGAATTATAT-TTTTTTATGAGT
195 AGATTTAAGAAGCGTGAAAAGCCCTACAATTTTTTTTTGCATTGAATTATATATTTTTTATGAGT
* * *
248611 CTTATGGCAAAAAATTGTAGAAAAACATTTCATGTCAATTTTTTTTGTAAAATTTTAGCCGAAAT
260 CTTGTGGCAAAAAATTGTAGAAAAACATTTCGTGTCAA--TTTTTTGCAAAATTTTAGCC---A-
*
248676 CGTAAACAATCCATCAC-GGTTTTTGGCTAAAAACGACGTTCCGGAGCCCCGGCTCAATTTTGCA
319 CG---A-AATCCATCACTGGTTTTTGGCTAAAAACG-CGTTCTGGAGCCCCGGCTCAATTTTGCA
* *
248740 TAATTTTTGGTGCAAAGACTCTTTGAAATAT
379 TGATTTTTGGCGCAAAGACTCTTTGAAATAT
Statistics
Matches: 2668, Mismatches: 255, Indels: 216
0.85 0.08 0.07
Matches are distributed among these distances:
636 17 0.01
637 1 0.00
638 16 0.01
639 69 0.03
640 2 0.00
641 6 0.00
642 1 0.00
643 1 0.00
646 116 0.04
647 19 0.01
648 175 0.07
649 80 0.03
650 514 0.19
651 89 0.03
652 25 0.01
653 139 0.05
654 43 0.02
655 159 0.06
656 138 0.05
657 161 0.06
658 309 0.12
659 121 0.05
660 18 0.01
661 7 0.00
662 1 0.00
663 63 0.02
664 45 0.02
665 150 0.06
666 73 0.03
667 109 0.04
668 1 0.00
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (650 bp):
CATCACGGTTTTTGGGCTAAAAACGCGTTTCGGGGCCCCGGCTCAGTTTTGCATGATTTTTGGCA
GAAAGCCTCCTTGAAATATCTCTATTCATCGAACCAAATCTCAGCCACTTTGGATCTAAGGATTT
GTTTTTACGAGGCATCTGAATTTTGTTTCGATTTAATTAAAATAAATTCGGAAAAAAGGAAAAAA
GATTTAAGAAGCGTGAAAAGCCCTACAATTTTTTTTTGCATTGAATTATATATTTTTTATGAGTC
TTGTGGCAAAAAATTGTAGAAAAACATTTCGTGTCAATTTTTTGCAAAATTTTAGCCACGAAATC
CATCACTGGTTTTTGGCTAAAAACGCGTTCTGGAGCCCCGGCTCAATTTTGCATGATTTTTGGCG
CAAAGACTCTTTGAAATATCTATAATCATTGAACCAAATCTCAGCCACATTGCATATAAGAATTT
TTTTTTACGATCATCTGAATCTCGTTTCGATTTAATTAGAAATTATTTTGGAAAAAAAAGGAAAA
AACGATATTAGAAGCGTGAAAATCCCGTTAATATTTTTGGCGTTGAATTATATATTTTTACGGAG
TATTGTGGCAAAAATTTCAGGAAAAATTTTTTCGGGTCACTTCTTAGCTAAAATCGTATACTAAC
Done.