Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01009645.1 Corchorus capsularis cultivar CVL-1 contig09666, 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: 174187
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:12190 original size:95 final size:95
Alignment explanation
Indices: 12015--12205 Score: 283
Period size: 95 Copynumber: 2.0 Consensus size: 95
12005 TATGTTCCCT
*
12015 GACACGAAGGGGAAGGAGGAGGAGAATTGTCCTAAATTTGGAAAGTTCAGGAAACAAATTATCCT
1 GACACGAAGGGGAAGGAGGAGGAGAATTGCCCTAAATTTGGAAAGTTCAGGAAACAAATTATCCT
** *
12080 TAATTAAAGTTATAATTCATGGGTCAAAAA
66 TAATTAAAGCCATAATTCATGGGGCAAAAA
* * * * * *
12110 GACATGAATGGGAAGGAGGAGGAGAATTGCCCTGAATTTGGGAAGTTCAGGGAATAAATTATCCT
1 GACACGAAGGGGAAGGAGGAGGAGAATTGCCCTAAATTTGGAAAGTTCAGGAAACAAATTATCCT
*
12175 TAATTAACGCCATAATTCATGGGGCAAAAA
66 TAATTAAAGCCATAATTCATGGGGCAAAAA
12205 G
1 G
12206 GCTAATAAGC
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
95 85 1.00
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.24
Consensus pattern (95 bp):
GACACGAAGGGGAAGGAGGAGGAGAATTGCCCTAAATTTGGAAAGTTCAGGAAACAAATTATCCT
TAATTAAAGCCATAATTCATGGGGCAAAAA
Found at i:23113 original size:31 final size:31
Alignment explanation
Indices: 23078--23156 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
23068 ACGGTATTCG
*
23078 ACGTGGCATGCCACGTGGATCAAAAAGTAAC
1 ACGTGGCACGCCACGTGGATCAAAAAGTAAC
* * *
23109 ACGTGGAACACCACGTGGATCAAAAAGTGAC
1 ACGTGGCACGCCACGTGGATCAAAAAGTAAC
*
23140 ACGTGGCACGCCGCGTG
1 ACGTGGCACGCCACGTG
23157 TGCCAAAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.32, C:0.25, G:0.29, T:0.14
Consensus pattern (31 bp):
ACGTGGCACGCCACGTGGATCAAAAAGTAAC
Found at i:23164 original size:31 final size:31
Alignment explanation
Indices: 23088--23174 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 31
23078 ACGTGGCATG
* *
23088 CCACGTGGATCAAAAAGTAACACGTGGAACA
1 CCACGTGGACCAAAAAGTGACACGTGGAACA
* * *
23119 CCACGTGGATCAAAAAGTGACACGTGGCACG
1 CCACGTGGACCAAAAAGTGACACGTGGAACA
* *
23150 CCGCGTGTG-CCAAAAAGTGGCACGT
1 CCACGTG-GACCAAAAAGTGACACGT
23175 CACATGTACC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
31 48 0.98
32 1 0.02
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.14
Consensus pattern (31 bp):
CCACGTGGACCAAAAAGTGACACGTGGAACA
Found at i:28011 original size:13 final size:13
Alignment explanation
Indices: 27995--28025 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27985 GTGGAAAATA
*
27995 TGTGGTCCTTTTT
1 TGTGATCCTTTTT
28008 TGTGATCCTTTTT
1 TGTGATCCTTTTT
28021 TGTGA
1 TGTGA
28026 GATTGTGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (13 bp):
TGTGATCCTTTTT
Found at i:40390 original size:24 final size:24
Alignment explanation
Indices: 40346--40391 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
40336 TTCCGAATCT
**
40346 GCTGGGCCGTCCCAGTGCAGATTC
1 GCTGGGCCGTCCCAGACCAGATTC
40370 GCTGGGCTC-TCCCAGACCAGAT
1 GCTGGGC-CGTCCCAGACCAGAT
40392 CCGTGCTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.15, C:0.35, G:0.30, T:0.20
Consensus pattern (24 bp):
GCTGGGCCGTCCCAGACCAGATTC
Found at i:40875 original size:24 final size:25
Alignment explanation
Indices: 40845--40898 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
40835 CTACGGAAGT
40845 GGAAGAACAACCTCATGAGGGA-AA
1 GGAAGAACAACCTCATGAGGGAGAA
* *
40869 GGAAGAAGAACCTCCTGAGGGAGAA
1 GGAAGAACAACCTCATGAGGGAGAA
40894 -GAAGA
1 GGAAGA
40899 TTAAGGGATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.44, C:0.15, G:0.33, T:0.07
Consensus pattern (25 bp):
GGAAGAACAACCTCATGAGGGAGAA
Found at i:41619 original size:315 final size:308
Alignment explanation
Indices: 41038--41652 Score: 1045
Period size: 315 Copynumber: 2.0 Consensus size: 308
41028 AGAAAACCGA
* * *
41038 TTCATCTTCCGGTCCGGTTTTCTAAACATTGGTTGACACATCAACTTTTTTTTTTGTTACTTATT
1 TTCATCCTCCAGTCCAGTTTTCTAAACATTGGTTGACACATCAACTTTTTTTTTTGTTACTTATT
* *
41103 TTGTCACTATTGGGCGCTTGGGTTGTTTTTTGGTTATGGGCTTGCTTTTTTTTTTTTTTGCTTTG
66 TTGTCACCATTGGGCGCTTGGGTTGCTTTTTGGTTATGGGCTTGCTTTTTTTTTTTTTTGCTTTG
41168 GTGGATTTGTAATTACCAACTCATTGACTTACATAATTATCAAATCTTTCCAAAACTTTAAAAAA
131 GTGGATTTGTAATTACCAACTCATTGACTTACATAATTATCAAATCTTTCCAAAACTTTAAAAAA
*
41233 AAAATCTTTTCAAAACATTAATCTAAAATGACTAATCACATACAACATATTCACATTCACGACCA
196 AAAATCTTTTCAAAACATTAATCTAAAATGACTAATCACATACAACATATTCACATTCACAACCA
41298 AATTAAAATTAAAATGAATATTAAAAAAACAACCATTTGGTGCTTGGG
261 AATTAAAATTAAAATGAATATTAAAAAAACAACCATTTGGTGCTTGGG
*
41346 TTCATCCTCCAGTCCAGTTTTCTAAACATTGGTTGACACATCAAC-TTTTTTTTT-TTACTTCTT
1 TTCATCCTCCAGTCCAGTTTTCTAAACATTGGTTGACACATCAACTTTTTTTTTTGTTACTTATT
*
41409 TTGTCACCATTGGGCGCTTGGGTTGCTTTTTGGTTGTGGGCTTGCTTTTTTTTTCTTTTTCTTTT
66 TTGTCACCATTGGGCGCTTGGGTTGCTTTTTGGTTATGGGCTTGC------TTT-TTTTT-TTTT
* *
41474 TTTCTTTGGTGGATTTGTAATTACCAACTCATTGACTTACATAATTGTCAAATCTTTCCAAAACT
123 TTGCTTTGGTGGATTTGTAATTACCAACTCATTGACTTACATAATTATCAAATCTTTCCAAAACT
41539 TTAAAAAAAAAAATCTTTTCAAAACATTAATCTAAAATGACTAATCACATACAACATATTCACAT
188 TT-AAAAAAAAAATCTTTTCAAAACATTAATCTAAAATGACTAATCACATACAACATATTCACAT
41604 TCACAACCAAATTAAAATTAAAATGAATATTAAAAAAACAACCATTTGG
252 TCACAACCAAATTAAAATTAAAATGAATATTAAAAAAACAACCATTTGG
41653 CGCGGGCCAA
Statistics
Matches: 288, Mismatches: 10, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
306 50 0.17
307 9 0.03
308 42 0.15
312 3 0.01
313 5 0.02
314 69 0.24
315 110 0.38
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.41
Consensus pattern (308 bp):
TTCATCCTCCAGTCCAGTTTTCTAAACATTGGTTGACACATCAACTTTTTTTTTTGTTACTTATT
TTGTCACCATTGGGCGCTTGGGTTGCTTTTTGGTTATGGGCTTGCTTTTTTTTTTTTTTGCTTTG
GTGGATTTGTAATTACCAACTCATTGACTTACATAATTATCAAATCTTTCCAAAACTTTAAAAAA
AAAATCTTTTCAAAACATTAATCTAAAATGACTAATCACATACAACATATTCACATTCACAACCA
AATTAAAATTAAAATGAATATTAAAAAAACAACCATTTGGTGCTTGGG
Found at i:43611 original size:36 final size:36
Alignment explanation
Indices: 43552--43624 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
43542 TTATGGTTAT
* *
43552 TAGGTTTACCCGTTAGACTGAGTGGAAAGAGTTTGA
1 TAGGTTTACCCATTAGACCGAGTGGAAAGAGTTTGA
*
43588 TAGGTTTACCCATTAGGCCGAGTGGAAAGAGTTTGA
1 TAGGTTTACCCATTAGACCGAGTGGAAAGAGTTTGA
43624 T
1 T
43625 GTCCTGCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.27, C:0.12, G:0.30, T:0.30
Consensus pattern (36 bp):
TAGGTTTACCCATTAGACCGAGTGGAAAGAGTTTGA
Found at i:52623 original size:14 final size:14
Alignment explanation
Indices: 52592--52628 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
52582 ATCACATTTT
52592 ATTAA-TAATAAAA
1 ATTAATTAATAAAA
52605 ATTAATTAA-AAATA
1 ATTAATTAATAAA-A
52619 ATTAATTAAT
1 ATTAATTAAT
52629 TAATACTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATTAATTAATAAAA
Found at i:65897 original size:21 final size:21
Alignment explanation
Indices: 65873--65923 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
65863 AAATATTGTA
*
65873 TTTATTTTATAGTGGGTAGTT
1 TTTATTTTATAATGGGTAGTT
* *
65894 TTTA-TTTAAAATTGGTAGTT
1 TTTATTTTATAATGGGTAGTT
65914 TTTATTTTAT
1 TTTATTTTAT
65924 TTTGAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.61
Consensus pattern (21 bp):
TTTATTTTATAATGGGTAGTT
Found at i:74981 original size:32 final size:31
Alignment explanation
Indices: 74940--74999 Score: 102
Period size: 32 Copynumber: 1.9 Consensus size: 31
74930 TGTCGGAGGT
*
74940 AAAATGTCTTGAATTTGGAAAGTTTAGGGGCC
1 AAAATGTCTTGAATTT-GAAAGTTCAGGGGCC
74972 AAAATGTCTTGAATTTGAAAGTTCAGGG
1 AAAATGTCTTGAATTTGAAAGTTCAGGG
75000 AGCAAATTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 11 0.41
32 16 0.59
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (31 bp):
AAAATGTCTTGAATTTGAAAGTTCAGGGGCC
Found at i:87887 original size:79 final size:79
Alignment explanation
Indices: 87746--87891 Score: 222
Period size: 79 Copynumber: 1.8 Consensus size: 79
87736 GTGTTGAGAT
* * * * *
87746 AACATTTTCTTTTTAGTGTCTGATGTGGCTCAACTTTGAATTATATGGCGTGGTACGGAATTGAT
1 AACATTTTATATTTAGTATCTGATGTGGCTCAACTTTGAATTATATGACGTGGTACGAAATTGAT
87811 TTCAATCAAAGAGG
66 TTCAATCAAAGAGG
*
87825 AACATTTTATATTTAGTATCTGATGTGTCTCAACTTTGAATTATATGACGTGGTATC-AAATTGA
1 AACATTTTATATTTAGTATCTGATGTGGCTCAACTTTGAATTATATGACGTGGTA-CGAAATTGA
87889 TTT
65 TTT
87892 AACGTTCTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
79 59 0.98
80 1 0.02
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (79 bp):
AACATTTTATATTTAGTATCTGATGTGGCTCAACTTTGAATTATATGACGTGGTACGAAATTGAT
TTCAATCAAAGAGG
Found at i:95930 original size:15 final size:15
Alignment explanation
Indices: 95907--95941 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
95897 TATTCATAGA
*
95907 TTTTGCTTCTTCTTC
1 TTTTTCTTCTTCTTC
*
95922 TTTTTCTTCTTTTTC
1 TTTTTCTTCTTCTTC
95937 TTTTT
1 TTTTT
95942 TACAATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTTCTTCTTCTTC
Found at i:98631 original size:21 final size:22
Alignment explanation
Indices: 98590--98636 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
98580 AGAAAAAGAC
*
98590 TAATACTGTTGAAGCTACTATA
1 TAATACTGTTAAAGCTACTATA
*
98612 TAATAGTGTTAAAG-TACTATA
1 TAATACTGTTAAAGCTACTATA
98633 -AATA
1 TAATA
98637 TATATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 7 0.30
22 12 0.52
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.36
Consensus pattern (22 bp):
TAATACTGTTAAAGCTACTATA
Found at i:111501 original size:33 final size:35
Alignment explanation
Indices: 111459--111546 Score: 128
Period size: 33 Copynumber: 2.6 Consensus size: 35
111449 TGCTATGGTT
*
111459 TTTTTTTTGGTGAAATGTGGCCATGGTGGT-T-TA
1 TTTTTTTTGGTGAAACGTGGCCATGGTGGTATATA
*
111492 TTTTTTTTGGTGAAACGTGGCTATGGTGGTATATA
1 TTTTTTTTGGTGAAACGTGGCCATGGTGGTATATA
*
111527 TATTTTTT-GTGAAACGTGGC
1 TTTTTTTTGGTGAAACGTGGC
111547 TATGTGTTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
33 28 0.56
34 13 0.26
35 9 0.18
ACGTcount: A:0.18, C:0.07, G:0.28, T:0.47
Consensus pattern (35 bp):
TTTTTTTTGGTGAAACGTGGCCATGGTGGTATATA
Found at i:111903 original size:38 final size:38
Alignment explanation
Indices: 111861--111939 Score: 131
Period size: 38 Copynumber: 2.1 Consensus size: 38
111851 AAAATCACTT
111861 CAAAATAAAACTACAAGCATATATACCAAAATAAAGTG
1 CAAAATAAAACTACAAGCATATATACCAAAATAAAGTG
* * *
111899 CAAAATAAAATTACAAGCATATATACCAAAGTAGAGTG
1 CAAAATAAAACTACAAGCATATATACCAAAATAAAGTG
111937 CAA
1 CAA
111940 TATTAATGCT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.19
Consensus pattern (38 bp):
CAAAATAAAACTACAAGCATATATACCAAAATAAAGTG
Found at i:116834 original size:241 final size:242
Alignment explanation
Indices: 116401--116884 Score: 961
Period size: 241 Copynumber: 2.0 Consensus size: 242
116391 CTACTATATA
116401 TATCAATTTAAAAAAAAAAAGTTTCCGTTTGCTCGTTGGTTTCCTTTTTCCAAGACTAGCTAGGG
1 TATCAATTTAAAAAAAAAAAGTTTCCGTTTGCTCGTTGGTTTCCTTTTTCCAAGACTAGCTAGGG
116466 ATTTACTTTGTTCACTATATATTCCAACTCGAAATCTTACTTAAGCGGCTATTCTATATCTCCTC
66 ATTTACTTTGTTCACTATATATTCCAACTCGAAATCTTACTTAAGCGGCTATTCTATATCTCCTC
116531 CACTGAAACCAAAACAAAAAGCTACAAAAAACAAAGCAAACAATGTGTGATTATTCAGATTTACC
131 CACTGAAACCAAAACAAAAAGCTACAAAAAACAAAGCAAACAATGTGTGATTATTCAGATTTACC
116596 GCAAGGATTGGTTTTAGAAATCCTTGTGAGGCTGCCAATAGAGGACC
196 GCAAGGATTGGTTTTAGAAATCCTTGTGAGGCTGCCAATAGAGGACC
116643 TATCAATTT-AAAAAAAAAAGTTTCCGTTTGCTCGTTGGTTTCCTTTTTCCAAGACTAGCTAGGG
1 TATCAATTTAAAAAAAAAAAGTTTCCGTTTGCTCGTTGGTTTCCTTTTTCCAAGACTAGCTAGGG
116707 ATTTACTTTGTTCACTATATATTCCAACTCGAAATCTTACTTAAGCGGCTATTCTATATCTCCTC
66 ATTTACTTTGTTCACTATATATTCCAACTCGAAATCTTACTTAAGCGGCTATTCTATATCTCCTC
116772 CACTGAAACCAAAACAAAAAGCTACAAAAAACAAAGCAAACAATGTGTGATTATTCAGATTTACC
131 CACTGAAACCAAAACAAAAAGCTACAAAAAACAAAGCAAACAATGTGTGATTATTCAGATTTACC
116837 GCAAGGATTGGTTTTAGAAATCCTTGTGAGGCTGCCAATAGAGGACC
196 GCAAGGATTGGTTTTAGAAATCCTTGTGAGGCTGCCAATAGAGGACC
116884 T
1 T
116885 GGTAAAATTC
Statistics
Matches: 242, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
241 233 0.96
242 9 0.04
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (242 bp):
TATCAATTTAAAAAAAAAAAGTTTCCGTTTGCTCGTTGGTTTCCTTTTTCCAAGACTAGCTAGGG
ATTTACTTTGTTCACTATATATTCCAACTCGAAATCTTACTTAAGCGGCTATTCTATATCTCCTC
CACTGAAACCAAAACAAAAAGCTACAAAAAACAAAGCAAACAATGTGTGATTATTCAGATTTACC
GCAAGGATTGGTTTTAGAAATCCTTGTGAGGCTGCCAATAGAGGACC
Found at i:122669 original size:13 final size:13
Alignment explanation
Indices: 122636--122670 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
122626 TCTAGAATTG
*
122636 AGATTTCATTGCC
1 AGATTTCAATGCC
122649 ATGATTTCAATGCC
1 A-GATTTCAATGCC
122663 AGATTTCA
1 AGATTTCA
122671 GCAGCAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (13 bp):
AGATTTCAATGCC
Found at i:124944 original size:12 final size:12
Alignment explanation
Indices: 124927--124951 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
124917 AAAGAAATGG
124927 AAAAGAATAATA
1 AAAAGAATAATA
124939 AAAAGAATAATA
1 AAAAGAATAATA
124951 A
1 A
124952 TAATGCAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAAGAATAATA
Found at i:130383 original size:27 final size:27
Alignment explanation
Indices: 130342--130397 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
130332 ATCATGCAAT
*
130342 AATGAAAGTCGGTCATTAAGGAAAAAA
1 AATGAAAGTCAGTCATTAAGGAAAAAA
130369 AATGAAAGTCAGTCATTAAGGAAAAAA
1 AATGAAAGTCAGTCATTAAGGAAAAAA
130396 AA
1 AA
130398 ACTATTTTGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.55, C:0.07, G:0.20, T:0.18
Consensus pattern (27 bp):
AATGAAAGTCAGTCATTAAGGAAAAAA
Found at i:140781 original size:30 final size:31
Alignment explanation
Indices: 140725--140784 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
140715 CATTAGGTTG
140725 AGGGGACAAAACGTCCCAAAATTGAAGTTCA
1 AGGGGACAAAACGTCCCAAAATTGAAGTTCA
* * *
140756 AGGGGGCAAAATGT-CCAAGATTGAAGTTC
1 AGGGGACAAAACGTCCCAAAATTGAAGTTC
140785 CCAAAATTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.38, C:0.17, G:0.27, T:0.18
Consensus pattern (31 bp):
AGGGGACAAAACGTCCCAAAATTGAAGTTCA
Found at i:140793 original size:15 final size:15
Alignment explanation
Indices: 140770--140799 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
140760 GGCAAAATGT
*
140770 CCAAGATTGAAGTTC
1 CCAAAATTGAAGTTC
140785 CCAAAATTGAAGTTC
1 CCAAAATTGAAGTTC
140800 GGGAGGTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (15 bp):
CCAAAATTGAAGTTC
Found at i:140823 original size:44 final size:44
Alignment explanation
Indices: 140738--140828 Score: 148
Period size: 44 Copynumber: 2.0 Consensus size: 44
140728 GGACAAAACG
140738 TCCCAAAATTGAAGTTCAAGGGGGCAAAATGTCCAAGATTGAAGT
1 TCCCAAAATTGAAGTTC-AGGGGGCAAAATGTCCAAGATTGAAGT
*
140783 TCCCAAAATTGAAGTTC-GGGAGGTAAAATGTCCAAGATTGAAGT
1 TCCCAAAATTGAAGTTCAGGG-GGCAAAATGTCCAAGATTGAAGT
140827 TC
1 TC
140829 AGGGGACAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
43 3 0.07
44 24 0.55
45 17 0.39
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (44 bp):
TCCCAAAATTGAAGTTCAGGGGGCAAAATGTCCAAGATTGAAGT
Found at i:140839 original size:29 final size:29
Alignment explanation
Indices: 140785--140847 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
140775 ATTGAAGTTC
** *
140785 CCAAAATTGAAGTTCGGGAGGTAAAATGT
1 CCAAAATTGAAGTTCGGGAGACAAAACGT
*
140814 CCAAGATTGAAGTTCAGGG-GACAAAACGT
1 CCAAAATTGAAGTTC-GGGAGACAAAACGT
140843 CCAAA
1 CCAAA
140848 CACTACAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 25 0.89
30 3 0.11
ACGTcount: A:0.40, C:0.16, G:0.25, T:0.19
Consensus pattern (29 bp):
CCAAAATTGAAGTTCGGGAGACAAAACGT
Found at i:142740 original size:17 final size:17
Alignment explanation
Indices: 142720--142753 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
142710 GAGTCAAGAG
*
142720 GGAATCCAATTATTCTC
1 GGAATCAAATTATTCTC
142737 GGAATCAAATTATTCTC
1 GGAATCAAATTATTCTC
142754 TTCAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (17 bp):
GGAATCAAATTATTCTC
Found at i:146156 original size:5 final size:5
Alignment explanation
Indices: 146146--146172 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
146136 TATAAACAGT
146146 ATAAA ATAAA ATAAA ATAAA ATAAA AT
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT
146173 GAAACTAGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:150742 original size:29 final size:29
Alignment explanation
Indices: 150700--150757 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
150690 GCCATGGAGA
150700 TCATCCAACAATCAAGATCAAGTCCCGGG
1 TCATCCAACAATCAAGATCAAGTCCCGGG
150729 TCATCCAACAATCAAGATCAAGTCCCGGG
1 TCATCCAACAATCAAGATCAAGTCCCGGG
150758 AAGACCTTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.17, T:0.17
Consensus pattern (29 bp):
TCATCCAACAATCAAGATCAAGTCCCGGG
Found at i:165367 original size:30 final size:30
Alignment explanation
Indices: 165331--165480 Score: 110
Period size: 30 Copynumber: 5.0 Consensus size: 30
165321 TATAGTTCAT
* *
165331 TTTAGGTCTATCATTAACATGTCATATAGC
1 TTTAGGTCTATCATTAACATGGCATATAGA
* *
165361 TTTAGGTCTATCATT---ATAGCATTTAGTTCA
1 TTTAGGTCTATCATTAACATGGCATATAG---A
*
165391 TTTTAGGTCTATCCTTAACATGGCATATAGA
1 -TTTAGGTCTATCATTAACATGGCATATAGA
* * ** *
165422 TTTATGTC-ATTCGTTAACGCGACATATAGA
1 TTTAGGTCTA-TCATTAACATGGCATATAGA
* **
165452 TTTATGTCTATTGTTAACATGGCATATAG
1 TTTAGGTCTATCATTAACATGGCATATAG
165481 CTTGGGATTT
Statistics
Matches: 95, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
27 8 0.08
29 1 0.01
30 61 0.64
31 16 0.17
34 9 0.09
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (30 bp):
TTTAGGTCTATCATTAACATGGCATATAGA
Found at i:165388 original size:61 final size:61
Alignment explanation
Indices: 165308--165425 Score: 191
Period size: 61 Copynumber: 1.9 Consensus size: 61
165298 TTTTTAAGTG
* * *
165308 TATCGTTATAGCATATAGTTCATTTTAGGTCTATCATTAACATGTCATATAGCTTTAGGTC
1 TATCATTATAGCATATAGTTCATTTTAGGTCTATCATTAACATGGCATATAGATTTAGGTC
* *
165369 TATCATTATAGCATTTAGTTCATTTTAGGTCTATCCTTAACATGGCATATAGATTTA
1 TATCATTATAGCATATAGTTCATTTTAGGTCTATCATTAACATGGCATATAGATTTA
165426 TGTCATTCGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (61 bp):
TATCATTATAGCATATAGTTCATTTTAGGTCTATCATTAACATGGCATATAGATTTAGGTC
Found at i:165399 original size:31 final size:33
Alignment explanation
Indices: 165272--165403 Score: 100
Period size: 31 Copynumber: 4.1 Consensus size: 33
165262 TGCATGGGTT
* * * *
165272 TATCATTATAGCATATATATAGTTAATTTTTAAGTG
1 TATCATTATAGC--ATAT-TAGTTCAGTTTTAGGTC
*
165308 TATCGTTATAGCATA-TAGTTCA-TTTTAGGTC
1 TATCATTATAGCATATTAGTTCAGTTTTAGGTC
* * *
165339 TATCATTA-A-CATGTCA-TAT-AGCTTTAGGTC
1 TATCATTATAGCATATTAGT-TCAGTTTTAGGTC
165369 TATCATTATAGCAT-TTAGTTCA-TTTTAGGTC
1 TATCATTATAGCATATTAGTTCAGTTTTAGGTC
165400 TATC
1 TATC
165404 CTTAACATGG
Statistics
Matches: 79, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
29 5 0.06
30 19 0.24
31 30 0.38
32 11 0.14
34 3 0.04
36 11 0.14
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (33 bp):
TATCATTATAGCATATTAGTTCAGTTTTAGGTC
Found at i:166611 original size:95 final size:95
Alignment explanation
Indices: 166512--166693 Score: 224
Period size: 95 Copynumber: 1.9 Consensus size: 95
166502 AAAAAATCTG
* * * **
166512 TGATGTCATCATCCTACCTTAATTATAATATT-TTTCATTTAGTACAAT-ATATTGTAATTATTT
1 TGATGTCATCATACTACCTTAATTATAAT-TTATTTCATTTAGCAC-ATCAAATCATAATTATTT
** *
166575 TGGATACTCCACACTTGTAAAAATATGAGGAA
64 TGGATACTAAACACTTATAAAAATATGAGGAA
* * * *
166607 TGATGTCATCATATTTCCTTAATTATTATTTATTTCGTTTAGCACATCAAATCATAATTATTTTG
1 TGATGTCATCATACTACCTTAATTATAATTTATTTCATTTAGCACATCAAATCATAATTATTTTG
166672 GATACTAAACACTTATAAAAAT
66 GATACTAAACACTTATAAAAAT
166694 GGGACACATC
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
94 4 0.05
95 69 0.95
ACGTcount: A:0.35, C:0.14, G:0.09, T:0.42
Consensus pattern (95 bp):
TGATGTCATCATACTACCTTAATTATAATTTATTTCATTTAGCACATCAAATCATAATTATTTTG
GATACTAAACACTTATAAAAATATGAGGAA
Found at i:166861 original size:85 final size:85
Alignment explanation
Indices: 166770--166929 Score: 218
Period size: 85 Copynumber: 1.9 Consensus size: 85
166760 TGTATGTTTC
* *
166770 ACACTTATTTGT-AAAATCCGGGGTTCAGCATTAATTGA-AATATTTTTAGTTTAGCACACTAAG
1 ACACTTATTTGTAAAAAT-CGGGATTCAGCATTAATT-ACAATATTTCTAGTTTAGCACACTAAG
166833 CTT-TGATTATTTTCAACACTCT
64 -TTCTGATTATTTTCAACACTCT
* * * *
166855 ACACTTATTTGTAAAAATCTGGATTCTGCCTTAGTTACAATATTTCTAGTTTAGCACACTAAGTT
1 ACACTTATTTGTAAAAATCGGGATTCAGCATTAATTACAATATTTCTAGTTTAGCACACTAAGTT
166920 CTGATTATTT
66 CTGATTATTT
166930 ACAATATTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
84 3 0.05
85 58 0.88
86 5 0.08
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (85 bp):
ACACTTATTTGTAAAAATCGGGATTCAGCATTAATTACAATATTTCTAGTTTAGCACACTAAGTT
CTGATTATTTTCAACACTCT
Found at i:168651 original size:333 final size:326
Alignment explanation
Indices: 167829--169241 Score: 1290
Period size: 327 Copynumber: 4.3 Consensus size: 326
167819 CTACATTACT
* * ** *
167829 ACGATACTCATAAAAAATATATAATTCAATGTCAAAAAGATTGAAAGGTTTTTCACGCCTCTAAT
1 ACGATACTCATAAAAAATATATAATTCAAT-CCAAAAAAATT-AAAATTTTTTCACGCTTCTAAT
* * * * * *
167894 ATCGATTTTCCTA-TTTTTTCGAATTAATTTCTAATTAAATCTAAACATGATAT-AGATGCCCAT
64 ATCGTTTTTCCTATTTTTTTCAAATTAATTTCTAATTAAATCGAAACATGAT-TCAAATGCTCGT
* * * *
167957 -AAAACAAATCTTTAAAT-ACAATGT-AGCTGAGACTTGCTTAAATGAATATAGATATTCCAATA
128 AAAAACAAATCCTTAAATCA-AATGTGA-CTGAGATTTGCTTAGATGAATATAGATATTTC-A-A
* * *** * *
168019 AGACT--TGGTGCCATAAATCATGCAAAA-TAGGGGCGGGGCCCCAGAACGCATTTTTAGCCAAA
189 AGA-TAATCGTGCCAAAAATCATGCAAAACT-GAACCGGGGCCCCGGAACGCGTTTTTAGCCAAA
* * *
168081 AATC--G-T-G--AT---C-ATTTCGGCTAAAA-TTTGCAAAAACGGACCCGAAAATTTTGTTTT
252 AATCGTGATAGTTATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAA--AT-TTTC
* *
168135 CTCAATTTGTGGC
314 CTCAATTTTTGTC
* * * *
168148 -CAATACTTATAAAAAATATATAATTCAA-CACAAAAAAAATAAAAAATTGAAGGGCTTTACACG
1 ACGATACTCATAAAAAATATATAATTCAATC-C-AAAAAAAT-TAAAATT-------TTTTCACG
* * *
168211 CTTCTAAAATCTTTTTTCCTATTTTTTTTCCAAATAAATTTCTAATTAAATCGAAACATGATTCA
56 CTTCTAATATCGTTTTTCCTA-TTTTTTT-CAAATTAATTTCTAATTAAATCGAAACATGATTCA
* * *
168276 AATGTTCGTAAGAACAAATCCTTAAATCCAATGTGACTGAGATTTGCTTAGATGAATATAGATAT
119 AATGCTCGTAAAAACAAATCCTTAAATCAAATGTGACTGAGATTTGCTTAGATGAATATAGATAT
* * * * *
168341 TTCAAGGAGT-ATCGACGCCAAAAATCATTCAAAACTGAACCGGGGTCACGGAACGCGTTTTTAG
184 TTCAAAGA-TAATCG-TGCCAAAAATCATGCAAAACTGAACCGGGGCCCCGGAACGCGTTTTTAG
* * *
168405 ACAAAAATCGTGATAGTTAAGTACAAGATTTCGGCTAAAATTTTGCAAAAATTGACCC-AACAGA
247 CCAAAAATCGTGATAGTT-A-TACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAA-A-A
168469 ATTTTCCTCAATTTTTGATC
308 ATTTTCCTCAATTTTTG-TC
168489 ACGATACTCATAAAAAATATATAATTCAATGCCAAAAAAATTAAAATTTTTTCACGCTTCTAATA
1 ACGATACTCATAAAAAATATATAATTCAAT-CCAAAAAAATTAAAATTTTTTCACGCTTCTAATA
* * * * *
168554 TCGTTTTTTTCTATTTTTTTCAAACTAATTTCTCATTAAATCGAAACATGATTTAGATGCTCGTA
65 TCG-TTTTTCCTATTTTTTTCAAATTAATTTCTAATTAAATCGAAACATGATTCAAATGCTCGTA
* * * *
168619 AAAACAAATCCTTAAATCAAATATGGCTGAGATTTGGTTAGATGAATGTAGATATTTCAAAGATA
129 AAAACAAATCCTTAAATCAAATGTGACTGAGATTTGCTTAGATGAATATAGATATTTCAAAGATA
* * * * *
168684 ATATGTGTCAAAAATCATGCAAAACT-AAGCCGGAGCCCCGGAACGCGATTTTAGTCAAAAA-CT
194 AT-CGTGCCAAAAATCATGCAAAACTGAA-CCGGGGCCCCGGAACGCGTTTTTAGCCAAAAATC-
* * * ** * *
168747 GTGATGGGTAATACACGATTTTGGCTAAAATTTCACAAAAATTGACCCGGAAAATTATTCCTCAA
256 GTGAT-AGTTATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATT-TTCCTCAA
168812 TTTTT-TCC
319 TTTTTGT-C
* ** *
168820 ATGATACTCATAAAAAATATATAATTCAATATAAAAAAGATTAAGATGTTTTTCACGCTTCTAAT
1 ACGATACTCATAAAAAATATATAATTCAATCCAAAAAA-ATTAAAAT-TTTTTCACGCTTCTAAT
* *
168885 ATTGTTTTTCCTA-TTTTTCCAGAATTAATTTCTAA-T---TCGAAACATGATTCAAATGCTCGT
64 ATCGTTTTTCCTATTTTTTTCA-AATTAATTTCTAATTAAATCGAAACATGATTCAAATGCTCGT
* ** * * * * *
168945 TAAAACAAATTTTTAAATCCAACGTGACTGAGATTTGGTTAGATGAATATTGATATTTCAACGAT
128 AAAAACAAATCCTTAAATCAAATGTGACTGAGATTTGCTTAGATGAATATAGATATTTCAAAGAT
* * * * *
169010 AATCTGTGCCAAAAATCATGCAAAACTGAGCAGAGGCCCCGAAACGCGTTTTTAGCCAAAAACCG
193 AATC-GTGCCAAAAATCATGCAAAACTGAACCGGGGCCCCGGAACGCGTTTTTAGCCAAAAATCG
*
169075 TGATAATTAGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTGCCTCAAT
257 TGATAGTTA-TACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTT-CCTCAAT
169140 TTTT-TACC
320 TTTTGT--C
* * * * * * * *
169148 ACAATACTCATTAGAATTATATAATTCAATTCAAAAAATTTAAGAACTTTAT-ACGCTTCTAATA
1 ACGATACTCATAAAAAATATATAATTCAATCCAAAAAAATTAA-AATTTTTTCACGCTTCTAATA
* * *
169212 TCATTTTCCCTATTTTTTCCAAATTAATTT
65 TCGTTTTTCCTATTTTTTTCAAATTAATTT
169242 TTTATTAAGT
Statistics
Matches: 901, Mismatches: 134, Indels: 111
0.79 0.12 0.10
Matches are distributed among these distances:
317 1 0.00
318 37 0.04
325 24 0.03
326 34 0.04
327 211 0.23
328 74 0.08
329 94 0.10
330 17 0.02
331 61 0.07
332 72 0.08
333 150 0.17
334 27 0.03
335 8 0.01
336 1 0.00
337 1 0.00
340 13 0.01
341 23 0.03
342 50 0.06
343 2 0.00
344 1 0.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (326 bp):
ACGATACTCATAAAAAATATATAATTCAATCCAAAAAAATTAAAATTTTTTCACGCTTCTAATAT
CGTTTTTCCTATTTTTTTCAAATTAATTTCTAATTAAATCGAAACATGATTCAAATGCTCGTAAA
AACAAATCCTTAAATCAAATGTGACTGAGATTTGCTTAGATGAATATAGATATTTCAAAGATAAT
CGTGCCAAAAATCATGCAAAACTGAACCGGGGCCCCGGAACGCGTTTTTAGCCAAAAATCGTGAT
AGTTATACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTCCTCAATTTTTGT
C
Found at i:169375 original size:166 final size:165
Alignment explanation
Indices: 169083--169384 Score: 367
Period size: 166 Copynumber: 1.8 Consensus size: 165
169073 CGTGATAATT
*
169083 AGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTGCCTCAATTTTTTACC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTGCCTCAATTTTTGACC
* * * * * * *
169148 ACAATACTCATTAGAATTATATAATTCAATTCAAAAAATTTAAGAACTTTATACGCTTCTAATAT
66 ACAATACTCATAAAAAATATATAATTCAATCCAAAAAATTGAAG-ACTTTACACACTTCTAATAT
169213 CATTTTCCCTATTTTTTCCAAATTAATTTTTTATTA
130 CATTTTCCCTATTTTTTCCAAATTAATTTTTTATTA
* * * * * *
169249 AGTACACGATTTCGGCTAACATTTTG-AAAAGATTGACCTGAAAGGATTTT-CCTCAGTTTTTGG
1 AGTACACGATTTCGGCTAAAATTTTGCAAAA-ACTGACCCGAAA-AATTTTGCCTCAATTTTTGA
* * * * *
169312 CCACGATACTCGTAAAAAATATATAATTCAATGCCTAAAAGATTGAAG-GTTTCCACACTTCTAA
64 CCACAATACTCATAAAAAATATATAATTCAAT-CC-AAAAAATTGAAGACTTTACACACTTCTAA
169376 TATCATTTT
127 TATCATTTT
169385 TCATGTTTTT
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
165 4 0.04
166 93 0.82
167 6 0.05
168 10 0.09
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (165 bp):
AGTACACGATTTCGGCTAAAATTTTGCAAAAACTGACCCGAAAAATTTTGCCTCAATTTTTGACC
ACAATACTCATAAAAAATATATAATTCAATCCAAAAAATTGAAGACTTTACACACTTCTAATATC
ATTTTCCCTATTTTTTCCAAATTAATTTTTTATTA
Found at i:170161 original size:333 final size:332
Alignment explanation
Indices: 169249--174144 Score: 5988
Period size: 333 Copynumber: 14.8 Consensus size: 332
169239 TTTTTTATTA
* * * * *
169249 AGTACACGATTTCGGCTAACATTTTG-AAAAGATTGA-CCTGAAAGGATTTTCCTCAGTTTTTGG
1 AGTACACGATTTCGGCTAAAATTTTGCAAAA-ATTGACCCAGAAA-AATTTTCCTCAATTTTCGG
* * * * **
169312 CCACGATACTCGTAAAAAATATATAATTCAATGCCTAAAAGATTG-AAGG-TTTCCACACTTCTA
64 CCACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTA
* * * * * * * **
169375 ATATCATTTTTCATGTTTTTTTTTTCCAAATTAATTTCTGATTAAATCAAAACATGATTCGGATG
129 ATATCGTTTTTC---CTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATG
* * * * * *
169440 CTCGTAAAAATAAATTCTTAA-ATCTAATGTGGCTGAGATTTAGTTAGATGAATTTATATATTTC
191 CTCTTAAAAACAAATCCTTAATA-C-AATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTC
* * * * * * * *
169504 AATGATAATATGTGCCAAAAGTCATTCAAAATTGAGCTGAGGACCCGGAACGCGTCTTTAGCCAA
254 AACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAA
*
169569 AAACCGTGATGGTT
319 AAACCGTGATGATT
* * * * * *
169583 AATACACGATTTTCGGCTAAAATTTTCCAAAAATTGACCCGGAAAAATATTCCTTAATTTTTGGC
1 AGTACACGA-TTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGC
* ** * * *** * * * **
169648 AATGATACTCATAAGAAATATATAATTTAATATAAAAGAAGATTTAGAGGCTTTTCAAACCTTCT
65 CACAATACTCATAAAAAATATATAATTCAATGCCAAA-AAGATTGAAAGGATTTTC-ATGCTTCT
* * * * *
169713 AATATCGTATTTCCTATTTTTCT-CGAATTAATTTCTAATTAAATCGAAACATGATTAAGATGCT
128 AATATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCT
* * *
169777 CGTAAAAACGAAA-CCTTAATTCTAATGT-GCGTGAGATTTTGTTAAATGAATATAGA-ATTTTC
193 CTTAAAAAC-AAATCCTTAATAC-AATGTGGC-TGAGATTTTGTTAGATGAATATAGATA-TTTC
*
169839 AACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGTCAA
254 AACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAA
169904 AAACCGTGATGATT
319 AAACCGTGATGATT
* * *
169918 AGTAGACGATTTCGGCTAAAATTTTGCAGAAATTGACCCAGAAAAATTTTCTTCAATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
*
169983 ACAATATTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
*
170048 ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTCAGATGCTCTT
131 ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCTT
* * * * *
170113 AAAAACAAATCTTTAGATACAATGTGGCTGAGATTTGGTTGGATGAATATAAATATTTCAATGAT
196 AAAAACAAATCCTTA-ATACAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGAT
* * * * * *
170178 AATATGTGCCAAAATTCATTCAAAACTGAGCCGAGGACCCGGAACGCGTTTTTTAACCAAAATCC
260 AATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCG-TTTTTAGCCAAAAACC
* *
170243 GTGTTGGTT
324 GTGATGATT
* * * *
170252 AATACACGATTTCGGCTAAAATTTTGCAAAAATTGACCC-GAAAAATATTCCTCAATTTTTGACC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
** * * *** * * * *
170316 ATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGTTTTTCACGTTTCTAA
66 ACAATACTCATAAAAAATATATAATTCAAT-GCCAAAAAGATTGAAAGGATTTTCATGCTTCTAA
* * * * ** *
170381 TATCGTTTTTCCTA--TTCTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAGATGCTCG
130 TATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCT
* *
170444 TAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGA
195 TAAAAACAAATCCTTAATAC-AATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGA
* *
170509 TAATCTGTGCCAAAAATCATGCGAAACTGAGCCGAGGTCCCGGAACGCGTTTTTAGCCAAAAACC
259 TAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAAAAACC
170574 GTGATGATT
324 GTGATGATT
* * *
170583 AGTACACGATTTCGGCTAAAATATTGCAAAAATCGATCCAGAAAAATTTTCCT-AATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
*
170647 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCTTGCTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
*
170712 ATCGTTTTTCCTA-TTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTAAGATGCTCTT
131 ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCTT
* ** * *
170776 AAAAACAAATCCTTAAATACAATATGGCTGTCATTTGGTTAGATGAATATAGATATTTCAATGAT
196 AAAAACAAATCCTT-AATACAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGAT
* * ** * ** * * * *
170841 AATATGTGTCAAAAGCCATTCAAAACTGAGTTGAGGACCCAGCACGGGTTTTTAGCCAAAAACCG
260 AATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAAAAACCG
* *
170906 TAATGGTT
325 TGATGATT
* * * * * * ** *
170914 AATACACGATTTTGGCTAAAATTTTGCAAATATTTACCCGGAAAAATATTATTCAATTTTTGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
** * * * * * * *** * * * * *
170979 ATGATGCTCTTGAGAATTATATAATTTAATATATAAAAAAGTTTGAGAGGCTTTTCACGCTTATA
66 ACAATACTCATAAAAAATATATAA-TTCA-ATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTA
* * * *
171044 ATATCGTTTTTCCTATTTTTCT-CGAATTAATTTCTAATTAAATCGAAACATGATTAAGATGCTC
129 ATATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTC
* * *
171108 GTAAAAACAAAAT-CTTAA-ATCTTATGTGGCTGAGATTTTGTTAAATGAATATAGA-ATTTTCA
194 TTAAAAAC-AAATCCTTAATA-C-AATGTGGCTGAGATTTTGTTAGATGAATATAGATA-TTTCA
** * *
171170 ACGATAATCTGTGCCAAAAATCATGCAAAACTGAGTTGAGGCCCCGGAACACG-TTTTAGTCAAA
255 ACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAAA
171234 AACCGTGATGATT
320 AACCGTGATGATT
* *
171247 AGTAGACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCTTCAATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* * *
171312 ACAATATTCAT-AAAAATATATAATTTAATTCC-AAAAGATTGAAAGGATTTTCATGCTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
*
171375 ATCG-TTTTCCTA-TTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTAAGATGCTCTT
131 ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCTT
*
171438 AAAAACAAATCCTTAATTACAATGTGGCTGAGATTTTGTTAGATTAATATAGATATTTCAACGAT
196 AAAAACAAATCCTTAA-TACAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGAT
* *
171503 AATCTGTGCCAAAAATCATGCGAAACTGAGCCGAGGCCCCGGAATGCGTTTTTAGCCAAAAACCG
260 AATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAAAAACCG
171568 TGATGATT
325 TGATGATT
*
171576 AGTACACGATTTCGGCTAAAATATTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* *
171641 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCTTACTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
* * *
171706 ATCGTTTTTCCTATTTTTTTCCAAGCTAATTCCTAATTAAATGGAAACATGATTAAGATGCTTTT
131 ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCTT
*
171771 AAAAACAAATCCTTAATTACAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCTACGAT
196 AAAAACAAATCCTTAA-TACAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGAT
* * *
171836 AATCTGTGCCAAAAATCATGCGAAACTGAGCCGAGGCTCCGGAACGCGTTTTTAGTCAAAAACCG
260 AATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAAAAACCG
171901 TGATGATT
325 TGATGATT
* * *
171909 AGTACACGATTTCGGCTAAAATATTGCAGAAATTGACCCAGAAAAATTTTCCTCAAGTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* *
171974 ACAATATTCATAAACAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
* * *
172039 ATCGTTTTTCCTA-TTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATGCTATT
131 ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCTT
* * * * ** *
172103 AAAAACAAATCTTTAAATACAATGTCGCTGAGGTTTGGTTAGATGAATAGGGATATTTCAATGAT
196 AAAAACAAATCCTT-AATACAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGAT
* * ** * * * *
172168 AATATGTGCCAAAAGTCATTTAAAACTGAGTCGAGGACCCGGTACAG-GTTTTTAGTCAAAAACC
260 AATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAAC-GCGTTTTTAGCCAAAAACC
*
172232 GT-A--A-C
324 GTGATGATT
* * * * * *
172237 A-TACACGATTTTGGCTAAAATTTCGCAAAAATTGATCCGGAAAAATATTCCTCAATTTTTGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
** * * *** * * * * *
172301 ATGATACTCATAAGAAATATATAATTTAATATAAAAAATATTGAGAGGTTTTTCACGCTTATAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
* *** ** * *
172366 ATCGTTTTTCCTA--TTTTCCCGATTTTAATTTTTAATTAAATCGAAACATGATTAAGATACTCG
131 ATCGTTTTTCCTATTTTTTTCC-AAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCT
* * *
172429 TAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAAAT-TTTCAACGA
195 TAAAAACAAATCCTTAATAC-AATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGA
* *
172493 TAATCTGTGCCAAAAATCATGCGAAACTGAGCCGA-GCCCCGGAACGTGTTTTTAGCCAAAAACC
259 TAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAAAAACC
172557 GTGATGATT
324 GTGATGATT
* * * *
172566 AGTACACGATTTCGGCTAAAATATTGCAAAAATCGACCTAGAAAAATTTTCCTCAATTTTCGGTC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* *
172631 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCTTACTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
* * *
172696 ATCGTATTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATTGAAACATGATTAAGATGCTATT
131 ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCTT
* * * *
172761 AAAAACAAATCCTTAAATACAATGTCGCTGAGCTTTGGTTAGATGAATATAGATATTTCAATGAT
196 AAAAACAAATCCTT-AATACAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGAT
* * * * * * * * *
172826 AATATGTGCCAAAACTCATTCAAAACTAAGCCGAGGACTCGGAACACGTTTTTAACCAAAATCCG
260 AATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAAAAACCG
*
172891 TGATGGTT
325 TGATGATT
* * * * *
172899 AATACACGATTTCGGCTAAAATTTCGCAAAAATTGACCCGGAAAAATATTCCTCAATTTTTGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
** * * *** * * *
172964 ATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGTTTTTCACGCTTCTAA
66 ACAATACTCATAAAAAATATATAATTCAAT-GCCAAAAAGATTGAAAGGATTTTCATGCTTCTAA
* * * ** *
173029 TATCGTTTTTCCTA--TTTTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAGATGCTCG
130 TATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCT
* *
173092 TAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGA
195 TAAAAACAAATCCTTAATAC-AATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGA
* *
173157 TAATCAGTGCCAAAAATCTTGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTA-CTCAAAAAC
259 TAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGC-CAAAAAC
*
173221 TGTGATGATT
323 CGTGATGATT
*
173231 AGTACACGATTTCGGCTAAAATTTTGAAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* *
173296 ACAATACTCATAAAAAATTTATAATTCAATGCCAAAAAGATTGAAAGGATTTTCTTGCTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
* * * * * *
173361 ACCATTTTTCCTATATTTTTCCAAACTAATTCCTAATTAAATGGTAACATGATTCAGATGCTCTT
131 ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCTT
* *
173426 AAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTT-AATGAT
196 AAAAACAAATCCTT-AATACAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGAT
* * * * * * * *
173490 AATATGTGCCAAAAGTCATTCAAAACTAAGCCGAGGACCCGGAACACGTTTTTAACCAAAATCCG
260 AATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAAAAACCG
173555 TGATGATT
325 TGATGATT
* * * * *
173563 AATACACGATTTCGGCTAAAATTTCGCAAAAATTGACCCCGAAAAATATTCCTCAATTTTTGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
** * * * *** ** * * *
173628 ATGATACTTATAAGAAATATATAATTTAATATAAAAAAGATTGGGAGGTTTTTCACGTTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
* * * ** *
173693 ATCGTTTTTCCTA--TTTTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAGATGCTCGT
131 ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCTT
* ** * *
173756 AAAAACAAAACCTTAATTGTAATGTGGCTGAGATTTTGTTAGATTAATATAGATATTTGAACGAT
196 AAAAACAAATCCTTAA-TACAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGAT
* * *
173821 AATCTGTGCCGAAAATCATGCAAAATTGAGCCGAGGCCCCGGAACGCGTTTTTA-CTAAAAAACC
260 AATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGC-CAAAAACC
173885 GTGATGATT
324 GTGATGATT
*
173894 AGTATACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* *
173959 ACAATACTCATAAAAAATATATAATT-AACTGCCAAAAAGATTGAAAGGATTTTCTTACTTCTAA
66 ACAATACTCATAAAAAATATATAATTCAA-TGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAA
* * ** *
174023 TATCGTTTTTCCTATTTTTTTCAAAACTAATTCTTAATTAAAAGGAAACATGATTCAGATGCTCT
130 TATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCT
* *
174088 TAAAAACAAATCCTTAAATACAATGTGACTGAGATTTGGTTAGATGAATATAGATAT
195 TAAAAACAAATCCTT-AATACAATGTGGCTGAGATTTTGTTAGATGAATATAGATAT
174145 ATGCCAAATG
Statistics
Matches: 3888, Mismatches: 605, Indels: 139
0.84 0.13 0.03
Matches are distributed among these distances:
324 1 0.00
325 26 0.01
326 48 0.01
327 200 0.05
328 143 0.04
329 131 0.03
330 272 0.07
331 634 0.16
332 861 0.22
333 894 0.23
334 398 0.10
335 230 0.06
336 26 0.01
337 3 0.00
338 4 0.00
339 17 0.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (332 bp):
AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTAAGATGCTCTT
AAAAACAAATCCTTAATACAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTCAACGATA
ATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGCCAAAAACCGT
GATGATT
Found at i:171371 original size:663 final size:664
Alignment explanation
Indices: 169249--174144 Score: 7334
Period size: 663 Copynumber: 7.4 Consensus size: 664
169239 TTTTTTATTA
* * * * *
169249 AGTACACGATTTCGGCTAACATTTTG-AAAAGATTGA-CCTGAAAGGATTTTCCTCAGTTTTTGG
1 AGTACACGATTTCGGCTAAAATTTTGCAAAA-ATTGACCCAGAAA-AATTTTCCTCAATTTTCGG
* * * * **
169312 CCACGATACTCGTAAAAAATATATAATTCAATGCCTAAAAGATTG-AAGG-TTTCCACACTTCTA
64 CCACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTA
* * * * * * ** *
169375 ATATCATTTTTCATGTTTTTTTTTTCCAAATTAATTTCTGATTAAATCAAAACATGATTCGGATG
129 ATATCGTTTTTC----CTATTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATG
* * * * * *
169440 CTCGTAAAAATAAATTCTTAAAT-CTAATGTGGCTGAGATTTAGTTAGATGAATTTATATATTTC
190 CTCTTAAAAACAAATCCTTAAATAC-AATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTC
* * *
169504 AATGATAATATGTGCCAAAAGTCATTCAAAATTGAGCTGAGGACCCGGAACGCGTCTTTAGCCAA
254 AATGATAATATGTGCCAAAAGTCATTCAAAACTGAGCCGAGGACCCGGAACGCGTTTTTAGCCAA
*
169569 AAACCGTGATGGTTAATACACGATTTTCGGCTAAAATTTTCCAAAAATTGACCCGGAAAAATATT
319 AAACCGTGATGGTTAATACACGA-TTTCGGCTAAAATTTTGCAAAAATTGACCCGGAAAAATATT
* * * * *
169634 CCTTAATTTTTGGCAATGATACTCATAAGAAATATATAATTTAATATAAAAGAAGATTTAGAGGC
383 CCTCAATTTTTGGCCATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGT
* * *
169699 TTTTCAAAC-CTTCTAATATCGTATTTCCTATTTTTCTCGAATTAATTTCTAATTAAATCGAAAC
448 TTTTC--ACGCTTCTAATATCGTTTTTCCTA-TTTTCCCGAATTAATTTTTAATTAAATCGAAAC
* *
169763 ATGATTAAGATGCTCGTAAAAACGAAACCTTAATTCTAATGT-GCGTGAGATTTTGTTAAATGAA
510 ATGATTAAGATGCTCGTAAAAACAAAACCTTAATTCTAATGTGGC-TGAGATTTTGTTAGATGAA
169827 TATAGA-ATTTTCAACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACG
574 TATAGATA-TTTCAACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACG
169891 CGTTTTTAGTCAAAAACCGTGATGATT
638 CGTTTTTAGTCAAAAACCGTGATGATT
* * *
169918 AGTAGACGATTTCGGCTAAAATTTTGCAGAAATTGACCCAGAAAAATTTTCTTCAATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
*
169983 ACAATATTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
*
170048 ATCGTTTTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATCGAAACATGATTCAGATGCTCTT
131 ATCGTTTTTCCTA-TTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATGCTCTT
* * * *
170113 AAAAACAAATCTTTAGATACAATGTGGCTGAGATTTGGTTGGATGAATATAAATATTTCAATGAT
195 AAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAT
* * *
170178 AATATGTGCCAAAATTCATTCAAAACTGAGCCGAGGACCCGGAACGCGTTTTTTAACCAAAATCC
260 AATATGTGCCAAAAGTCATTCAAAACTGAGCCGAGGACCCGGAACGCG-TTTTTAGCCAAAAACC
*
170243 GTGTTGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAATTGACCC-GAAAAATATTCCTCAA
324 GTGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGGAAAAATATTCCTCAA
*
170307 TTTTTGACCATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGTTTTTCA
389 TTTTTGGCCATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGTTTTTCA
* *
170372 CGTTTCTAATATCGTTTTTCCTATTCTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAG
454 CGCTTCTAATATCGTTTTTCCTATTTTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAG
170437 ATGCTCGTAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAGATATT
519 ATGCTCGTAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAGATATT
* * *
170502 TCAACGATAATCTGTGCCAAAAATCATGCGAAACTGAGCCGAGGTCCCGGAACGCGTTTTTAGCC
584 TCAACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGTC
170567 AAAAACCGTGATGATT
649 AAAAACCGTGATGATT
* * *
170583 AGTACACGATTTCGGCTAAAATATTGCAAAAATCGATCCAGAAAAATTTTCCT-AATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
*
170647 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCTTGCTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
*
170712 ATCGTTTTTCCTATTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTAAGATGCTCTTA
131 ATCGTTTTTCCTATTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATGCTCTTA
* **
170777 AAAACAAATCCTTAAATACAATATGGCTGTCATTTGGTTAGATGAATATAGATATTTCAATGATA
196 AAAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGATA
* * ** * * *
170842 ATATGTGTCAAAAGCCATTCAAAACTGAGTTGAGGACCCAGCACGGGTTTTTAGCCAAAAACCGT
261 ATATGTGCCAAAAGTCATTCAAAACTGAGCCGAGGACCCGGAACGCGTTTTTAGCCAAAAACCGT
* * * * **
170907 AATGGTTAATACACGATTTTGGCTAAAATTTTGCAAATATTTACCCGGAAAAATATTATTCAATT
326 GATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGGAAAAATATTCCTCAATT
* * * * * *
170972 TTTGGCCATGATGCTCTTGAGAATTATATAATTTAATATATAAAAAAGTTTGAGAGGCTTTTCAC
391 TTTGGCCATGATACTCATAAGAAATATATAATTTAATATA-AAAAAAGATTGAGAGGTTTTTCAC
* * *
171037 GCTTATAATATCGTTTTTCCTATTTTTCTCGAATTAATTTCTAATTAAATCGAAACATGATTAAG
455 GCTTCTAATATCGTTTTTCCTA-TTTTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAG
* * * *
171102 ATGCTCGTAAAAACAAAATCTTAAATCTTATGTGGCTGAGATTTTGTTAAATGAATATAGA-ATT
519 ATGCTCGTAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAGATA-T
** *
171166 TTCAACGATAATCTGTGCCAAAAATCATGCAAAACTGAGTTGAGGCCCCGGAACACG-TTTTAGT
583 TTCAACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGT
171230 CAAAAACCGTGATGATT
648 CAAAAACCGTGATGATT
* *
171247 AGTAGACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCTTCAATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* * *
171312 ACAATATTCAT-AAAAATATATAATTTAATTCC-AAAAGATTGAAAGGATTTTCATGCTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
*
171375 ATCG-TTTTCCTATTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTAAGATGCTCTTA
131 ATCGTTTTTCCTATTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATGCTCTTA
* * * *
171439 AAAACAAATCCTTAATTACAATGTGGCTGAGATTTTGTTAGATTAATATAGATATTTCAACGATA
196 AAAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGATA
* * * * * *
171504 ATCTGTGCCAAAAATCATGCGAAACTGAGCCGAGGCCCCGGAATGCGTTTTTAGCCAAAAACCGT
261 ATATGTGCCAAAAGTCATTCAAAACTGAGCCGAGGACCCGGAACGCGTTTTTAGCCAAAAACCGT
* * * * *
171569 GATGATTAGTACACGATTTCGGCTAAAATATTGCAAAAATTGACCCAGAAAAATTTTCCTCAATT
326 GATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGGAAAAATATTCCTCAATT
* ** * * *** * * ***
171634 TTCGGCCACAATACTCATAAAAAATATATAATTCAAT-GCCAAAAAGATTGAAAGGATTTTCTTA
391 TTTGGCCATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGTTTTTCACG
* * ** *
171698 CTTCTAATATCGTTTTTCCTATTTTTTTCC-AAGCTAATTCCTAATTAAATGGAAACATGATTAA
456 CTTCTAATATCGTTTTTCCTA--TTTTCCCGAA-TTAATTTTTAATTAAATCGAAACATGATTAA
** *
171762 GATGCTTTTAAAAACAAATCCTTAATTAC-AATGTGGCTGAGATTTTGTTAGATGAATATAGATA
518 GATGCTCGTAAAAACAAAACCTTAATT-CTAATGTGGCTGAGATTTTGTTAGATGAATATAGATA
* * *
171826 TTTCTACGATAATCTGTGCCAAAAATCATGCGAAACTGAGCCGAGGCTCCGGAACGCGTTTTTAG
582 TTTCAACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAG
171891 TCAAAAACCGTGATGATT
647 TCAAAAACCGTGATGATT
* * *
171909 AGTACACGATTTCGGCTAAAATATTGCAGAAATTGACCCAGAAAAATTTTCCTCAAGTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* *
171974 ACAATATTCATAAACAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
*
172039 ATCGTTTTTCCTATTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATGCTATTA
131 ATCGTTTTTCCTATTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATGCTCTTA
* * * **
172104 AAAACAAATCTTTAAATACAATGTCGCTGAGGTTTGGTTAGATGAATAGGGATATTTCAATGATA
196 AAAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGATA
* * * *
172169 ATATGTGCCAAAAGTCATTTAAAACTGAGTCGAGGACCCGGTACAG-GTTTTTAGTCAAAAACCG
261 ATATGTGCCAAAAGTCATTCAAAACTGAGCCGAGGACCCGGAAC-GCGTTTTTAGCCAAAAACCG
* * *
172233 T-A-----ACATACACGATTTTGGCTAAAATTTCGCAAAAATTGATCCGGAAAAATATTCCTCAA
325 TGATGGTTA-ATACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGGAAAAATATTCCTCAA
*
172292 TTTTTGGCCATGATACTCATAAGAAATATATAATTTAATAT-AAAAAATATTGAGAGGTTTTTCA
389 TTTTTGGCCATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGTTTTTCA
* *
172356 CGCTTATAATATCGTTTTTCCTATTTTCCCGATTTTAATTTTTAATTAAATCGAAACATGATTAA
454 CGCTTCTAATATCGTTTTTCCTATTTTCCCGA-ATTAATTTTTAATTAAATCGAAACATGATTAA
* *
172421 GATACTCGTAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAAAT-T
518 GATGCTCGTAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAGATAT
* * *
172485 TTCAACGATAATCTGTGCCAAAAATCATGCGAAACTGAGCCGA-GCCCCGGAACGTGTTTTTAGC
583 TTCAACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGT
172549 CAAAAACCGTGATGATT
648 CAAAAACCGTGATGATT
* * * *
172566 AGTACACGATTTCGGCTAAAATATTGCAAAAATCGACCTAGAAAAATTTTCCTCAATTTTCGGTC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* *
172631 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCTTACTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
* * * *
172696 ATCGTATTTCCTATTTTTTTCCAAACTAATTCCTAATTAAATTGAAACATGATTAAGATGCTATT
131 ATCGTTTTTCCTA-TTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATGCTCTT
* *
172761 AAAAACAAATCCTTAAATACAATGTCGCTGAGCTTTGGTTAGATGAATATAGATATTTCAATGAT
195 AAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAT
* * * * * *
172826 AATATGTGCCAAAACTCATTCAAAACTAAGCCGAGGACTCGGAACACGTTTTTAACCAAAATCCG
260 AATATGTGCCAAAAGTCATTCAAAACTGAGCCGAGGACCCGGAACGCGTTTTTAGCCAAAAACCG
*
172891 TGATGGTTAATACACGATTTCGGCTAAAATTTCGCAAAAATTGACCCGGAAAAATATTCCTCAAT
325 TGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGGAAAAATATTCCTCAAT
172956 TTTTGGCCATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGTTTTTCAC
390 TTTTGGCCATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGTTTTTCAC
173021 GCTTCTAATATCGTTTTTCCTATTTTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAGA
455 GCTTCTAATATCGTTTTTCCTATTTTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAGA
173086 TGCTCGTAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTT
520 TGCTCGTAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTT
* * *
173151 CAACGATAATCAGTGCCAAAAATCTTGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTACTCA
585 CAACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGTCA
*
173216 AAAACTGTGATGATT
650 AAAACCGTGATGATT
*
173231 AGTACACGATTTCGGCTAAAATTTTGAAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* *
173296 ACAATACTCATAAAAAATTTATAATTCAATGCCAAAAAGATTGAAAGGATTTTCTTGCTTCTAAT
66 ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
* * *
173361 ACCATTTTTCCTATATTTTTCCAAACTAATTCCTAATTAAATGGTAACATGATTCAGATGCTCTT
131 ATCGTTTTTCCTAT-TTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATGCTCTT
173426 AAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTT-AATGAT
195 AAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGAT
* * * *
173490 AATATGTGCCAAAAGTCATTCAAAACTAAGCCGAGGACCCGGAACACGTTTTTAACCAAAATCCG
260 AATATGTGCCAAAAGTCATTCAAAACTGAGCCGAGGACCCGGAACGCGTTTTTAGCCAAAAACCG
* * *
173555 TGATGATTAATACACGATTTCGGCTAAAATTTCGCAAAAATTGACCCCGAAAAATATTCCTCAAT
325 TGATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGGAAAAATATTCCTCAAT
* *
173620 TTTTGGCCATGATACTTATAAGAAATATATAATTTAATAT-AAAAAAGATTGGGAGGTTTTTCAC
390 TTTTGGCCATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGTTTTTCAC
*
173684 GTTTCTAATATCGTTTTTCCTATTTTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAGA
455 GCTTCTAATATCGTTTTTCCTATTTTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAGA
* *
173749 TGCTCGTAAAAACAAAACCTTAATTGTAATGTGGCTGAGATTTTGTTAGATTAATATAGATATTT
520 TGCTCGTAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTT
* * * * *
173814 GAACGATAATCTGTGCCGAAAATCATGCAAAATTGAGCCGAGGCCCCGGAACGCGTTTTTACTAA
585 CAACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGTCA
173879 AAAACCGTGATGATT
650 AAAACCGTGATGATT
*
173894 AGTATACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
1 AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
* *
173959 ACAATACTCATAAAAAATATATAATT-AACTGCCAAAAAGATTGAAAGGATTTTCTTACTTCTAA
66 ACAATACTCATAAAAAATATATAATTCAA-TGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAA
* * *
174023 TATCGTTTTTCCTATTTTTTTCAAAACTAATTCTTAATTAAAAGGAAACATGATTCAGATGCTCT
130 TATCGTTTTTCCTA-TTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATGCTCT
*
174088 TAAAAACAAATCCTTAAATACAATGTGACTGAGATTTGGTTAGATGAATATAGATAT
194 TAAAAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATATAGATAT
174145 ATGCCAAATG
Statistics
Matches: 3847, Mismatches: 337, Indels: 92
0.90 0.08 0.02
Matches are distributed among these distances:
657 168 0.04
658 215 0.06
659 86 0.02
660 160 0.04
661 139 0.04
662 408 0.11
663 894 0.23
664 524 0.14
665 830 0.22
666 23 0.01
667 75 0.02
668 174 0.05
669 116 0.03
670 13 0.00
671 22 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (664 bp):
AGTACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCAGAAAAATTTTCCTCAATTTTCGGCC
ACAATACTCATAAAAAATATATAATTCAATGCCAAAAAGATTGAAAGGATTTTCATGCTTCTAAT
ATCGTTTTTCCTATTTTTTCCAAACTAATTCCTAATTAAATGGAAACATGATTCAGATGCTCTTA
AAAACAAATCCTTAAATACAATGTGGCTGAGATTTGGTTAGATGAATATAGATATTTCAATGATA
ATATGTGCCAAAAGTCATTCAAAACTGAGCCGAGGACCCGGAACGCGTTTTTAGCCAAAAACCGT
GATGGTTAATACACGATTTCGGCTAAAATTTTGCAAAAATTGACCCGGAAAAATATTCCTCAATT
TTTGGCCATGATACTCATAAGAAATATATAATTTAATATAAAAAAAGATTGAGAGGTTTTTCACG
CTTCTAATATCGTTTTTCCTATTTTCCCGAATTAATTTTTAATTAAATCGAAACATGATTAAGAT
GCTCGTAAAAACAAAACCTTAATTCTAATGTGGCTGAGATTTTGTTAGATGAATATAGATATTTC
AACGATAATCTGTGCCAAAAATCATGCAAAACTGAGCCGAGGCCCCGGAACGCGTTTTTAGTCAA
AAACCGTGATGATT
Done.