Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold85
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: 1350895
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.21
Warning! 487514 characters in sequence are not A, C, G, or T
File 3 of 6
Found at i:468153 original size:21 final size:20
Alignment explanation
Indices: 468103--468155 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
468093 CATTTGAGAG
* *
468103 ATGTATTGATACATTCACTT
1 ATGTATCGATACATTCACTA
*
468123 ATGTAACGATACATTCACTA
1 ATGTATCGATACATTCACTA
468143 ATTGTATCGATAC
1 A-TGTATCGATAC
468156 GAATTATAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.34, C:0.17, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:468857 original size:68 final size:68
Alignment explanation
Indices: 468723--468957 Score: 214
Period size: 68 Copynumber: 3.5 Consensus size: 68
468713 ATATGGACTT
* * * * * * * * *
468723 GACTCGGACTTAAGTGCCACCAGCTTGTATAGGCTTTGACTTAGGTGCTGCCATCTTGTGCAGGC
1 GACTCAGACTTAGGTGCCACCAGCTTATGTGGGCTTTAACTTAGGTGCTGCCAACTCGTGCGGGC
*
468788 TTT
66 TTA
* * * *
468791 GACTCAGACTTAGGTGCCACCAGCTTATGTGGGCTTTTACTTAGGTGTTGCCAAATCGTACGGGC
1 GACTCAGACTTAGGTGCCACCAGCTTATGTGGGCTTTAACTTAGGTGCTGCCAACTCGTGCGGGC
468856 TTA
66 TTA
* * ** *
468859 GACTC-GA-GT--GTCGCCA--A-CTTATGTGGGCTTTAACTAAGGTGCCACCAACTCGTGTGGG
1 GACTCAGACTTAGGT-GCCACCAGCTTATGTGGGCTTTAACTTAGGTGCTGCCAACTCGTGCGGG
468917 CTTA
65 CTTA
* * *
468921 GATTTAGACTTAGGTGCCACCAGCTTGTGTGGGCTTT
1 GACTCAGACTTAGGTGCCACCAGCTTATGTGGGCTTT
468958 GACTCAGACT
Statistics
Matches: 133, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
62 40 0.30
63 3 0.02
64 3 0.02
65 8 0.06
66 3 0.02
67 3 0.02
68 73 0.55
ACGTcount: A:0.19, C:0.23, G:0.27, T:0.31
Consensus pattern (68 bp):
GACTCAGACTTAGGTGCCACCAGCTTATGTGGGCTTTAACTTAGGTGCTGCCAACTCGTGCGGGC
TTA
Found at i:468951 original size:37 final size:37
Alignment explanation
Indices: 468895--469200 Score: 217
Period size: 37 Copynumber: 8.6 Consensus size: 37
468885 GCTTTAACTA
* *
468895 AGGTGCCACCAACTCGTGTGGGCTTAGATTTAGACTT
1 AGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTT
* * *
468932 AGGTGCCACCAGCTTGTGTGGGCTTTGACTCAGACTT
1 AGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTT
* * * * *
468969 AAGTACCACCAGCTTATGTAGGC-T----TT-GACTT
1 AGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTT
* * ** *
469000 AGATGCCGCCAACTCAT-TCAGGCTTAGACTTAGACTT
1 AGGTGCCACCAACTTGTGT-GGGCTTAGACTTAGACTT
469037 AGGTGCCACCAACTTGTGTGGGCTTTA-ACTTAGACTT
1 AGGTGCCACCAACTTGTGTGGGC-TTAGACTTAGACTT
* *
469074 AGGTGCCACTATCTTGTGTGGGC-T----TT-GACTT
1 AGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTT
* * * ** *
469105 AAGTGCTACCAACTTATGCAGGCTTAGACATAGACTT
1 AGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTT
* * * * * * *
469142 AGGTGCGACTAGCTTGTATAGGCTTTGACTCAGACTT
1 AGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTT
*
469179 AGGTGCCACCAGCTTGTGTGGG
1 AGGTGCCACCAACTTGTGTGGG
469201 TTTTGACTCG
Statistics
Matches: 209, Mismatches: 45, Indels: 30
0.74 0.16 0.11
Matches are distributed among these distances:
30 1 0.00
31 41 0.20
32 5 0.02
35 1 0.00
36 4 0.02
37 153 0.73
38 4 0.02
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (37 bp):
AGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTT
Found at i:469104 original size:68 final size:68
Alignment explanation
Indices: 469032--469171 Score: 174
Period size: 68 Copynumber: 2.1 Consensus size: 68
469022 CTTAGACTTA
* * ** * * * *
469032 GACTTAGGTGCCACCAACTTGTGTGGGCTTTA-ACTTAGACTTAGGTGCCACTATCTTGTGTGGG
1 GACTTAAGTGCCACCAACTTATGCAGGC-TTAGACATAGACTTAGGTGCCACTAGCTTGTATAGG
469096 CTTT
65 CTTT
* *
469100 GACTTAAGTGCTACCAACTTATGCAGGCTTAGACATAGACTTAGGTGCGACTAGCTTGTATAGGC
1 GACTTAAGTGCCACCAACTTATGCAGGCTTAGACATAGACTTAGGTGCCACTAGCTTGTATAGGC
469165 TTT
66 TTT
469168 GACT
1 GACT
469172 CAGACTTAGG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
67 3 0.05
68 58 0.95
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (68 bp):
GACTTAAGTGCCACCAACTTATGCAGGCTTAGACATAGACTTAGGTGCCACTAGCTTGTATAGGC
TTT
Found at i:469141 original size:142 final size:139
Alignment explanation
Indices: 468895--469200 Score: 318
Period size: 142 Copynumber: 2.2 Consensus size: 139
468885 GCTTTAACTA
* *
468895 AGGTGCCACCAACTCGTGTGGGCTTAGATTTAGACTTAGGTGCCACCAGCTTGTGTGGGCTTTGA
1 AGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTGTGTGGGCTTT-A
* *
468960 CTCAGACTTAAGTACCACCAGCTTATGTAGGCTTTGACTTAGATGCCG-CCAACTCAT-TCAGGC
65 -T-AGACTTAAGTACCACCAACTTATGCAGGCTTTGACTTAGATG-CGACCAACTCATAT-AGGC
*
469023 TTAGACTTAGACTT
126 TTAGACTCAGACTT
* *
469037 AGGTGCCACCAACTTGTGTGGGCTTTA-ACTTAGACTTAGGTGCCACTATCTTGTGTGGGC-TT-
1 AGGTGCCACCAACTTGTGTGGGC-TTAGACTTAGACTTAGGTGCCACCAGCTTGTGTGGGCTTTA
* * * * * **
469099 T-GACTTAAGTGCTACCAACTTATGCAGGCTTAGACATAGACTTAGGTGCGACTAGCTTGTATAG
65 TAGACTTAAGTACCACCAACTTATGCAGGCTT-----T-GACTTAGATGCGACCAACTCATATAG
*
469163 GCTTTGACTCAGACTT
124 GCTTAGACTCAGACTT
*
469179 AGGTGCCACCAGCTTGTGTGGG
1 AGGTGCCACCAACTTGTGTGGG
469201 TTTTGACTCG
Statistics
Matches: 139, Mismatches: 16, Indels: 18
0.80 0.09 0.10
Matches are distributed among these distances:
136 26 0.19
138 1 0.01
141 5 0.04
142 103 0.74
143 4 0.03
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.30
Consensus pattern (139 bp):
AGGTGCCACCAACTTGTGTGGGCTTAGACTTAGACTTAGGTGCCACCAGCTTGTGTGGGCTTTAT
AGACTTAAGTACCACCAACTTATGCAGGCTTTGACTTAGATGCGACCAACTCATATAGGCTTAGA
CTCAGACTT
Found at i:469215 original size:31 final size:31
Alignment explanation
Indices: 469180--469280 Score: 87
Period size: 31 Copynumber: 3.3 Consensus size: 31
469170 CTCAGACTTA
*
469180 GGTGCCACCAGCTTGTGTGGGTTTTGACTCG
1 GGTGCCACCAGCTTGTGTGGGCTTTGACTCG
* * * * *
469211 GGTGCTACCAACTCT-TGCGAGCTTAGACTCG
1 GGTGCCACCAGCT-TGTGTGGGCTTTGACTCG
* * * * *
469242 GGTGTCGCTAGCTTGTATGGGCTTTGACTAG
1 GGTGCCACCAGCTTGTGTGGGCTTTGACTCG
469273 GGTGCCAC
1 GGTGCCAC
469281 TAACTCGTGC
Statistics
Matches: 50, Mismatches: 18, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
30 1 0.02
31 48 0.96
32 1 0.02
ACGTcount: A:0.14, C:0.24, G:0.33, T:0.30
Consensus pattern (31 bp):
GGTGCCACCAGCTTGTGTGGGCTTTGACTCG
Found at i:469216 original size:105 final size:105
Alignment explanation
Indices: 468880--469239 Score: 425
Period size: 105 Copynumber: 3.4 Consensus size: 105
468870 CGCCAACTTA
* * * * ** *
468880 TGTGGGCTTTAACTAAGGTGCCACCAACTCGTGTGGGCTTAGATTTAGACTTAGGTGCCACCAGC
1 TGTGGGCTTTGACTTAGGTGCTACCAACTCATGCAGGCTTAGACTTAGACTTAGGTGCCACCAGC
* * *
468945 TTGTGTGGGCTTTGACTCAGACTTAAGTACCACCAGCTTA
66 TTGTGTGGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
* * ** * *
468985 TGTAGGCTTTGACTTAGATGCCGCCAACTCATTCAGGCTTAGACTTAGACTTAGGTGCCACCAAC
1 TGTGGGCTTTGACTTAGGTGCTACCAACTCATGCAGGCTTAGACTTAGACTTAGGTGCCACCAGC
* * * *
469050 TTGTGTGGGCTTTAACTTAGACTTAGGTGCCACTATCTTG
66 TTGTGTGGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
* * * * *
469090 TGTGGGCTTTGACTTAAGTGCTACCAACTTATGCAGGCTTAGACATAGACTTAGGTGCGACTAGC
1 TGTGGGCTTTGACTTAGGTGCTACCAACTCATGCAGGCTTAGACTTAGACTTAGGTGCCACCAGC
* *
469155 TTGTATAGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
66 TTGTGTGGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
* ** *
469195 TGTGGGTTTTGACTCGGGTGCTACCAACTCTTGC-GAGCTTAGACT
1 TGTGGGCTTTGACTTAGGTGCTACCAACTCATGCAG-GCTTAGACT
469240 CGGGTGTCGC
Statistics
Matches: 212, Mismatches: 42, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
104 1 0.00
105 211 1.00
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (105 bp):
TGTGGGCTTTGACTTAGGTGCTACCAACTCATGCAGGCTTAGACTTAGACTTAGGTGCCACCAGC
TTGTGTGGGCTTTGACTCAGACTTAGGTGCCACCAGCTTG
Found at i:469363 original size:34 final size:34
Alignment explanation
Indices: 469325--469418 Score: 116
Period size: 34 Copynumber: 2.8 Consensus size: 34
469315 AGAAGAGGCA
* *
469325 TCCTATTCTTTGAGGATAAAGGAAAAGGAGTACG
1 TCCTATTCTTTAAGGACAAAGGAAAAGGAGTACG
* * * * *
469359 TCCTATTCTTCAAGGAGAAAAGAAAATGAGTGCG
1 TCCTATTCTTTAAGGACAAAGGAAAAGGAGTACG
*
469393 TCCTATTCTTTAAAGACAAAGGAAAA
1 TCCTATTCTTTAAGGACAAAGGAAAA
469419 AAGAGAATAA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (34 bp):
TCCTATTCTTTAAGGACAAAGGAAAAGGAGTACG
Found at i:469563 original size:43 final size:43
Alignment explanation
Indices: 469480--469582 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
469470 TCTTACTCTA
* *
469480 TAAGGATAAAGGGAAAAAAGGAAATGAAGTGCATCCTGCTCCT
1 TAAGGACAAAGGGAAAAAAGGAAATGAAGTACATCCTGCTCCT
* ** * *
469523 TAAGGACAAAGAGAAAAAAGGAAATGAAGTATGTCTTGCTCTT
1 TAAGGACAAAGGGAAAAAAGGAAATGAAGTACATCCTGCTCCT
* *
469566 TGAGGGCAAAGGGAAAA
1 TAAGGACAAAGGGAAAA
469583 GAAGTGTGTC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 50 1.00
ACGTcount: A:0.44, C:0.11, G:0.27, T:0.18
Consensus pattern (43 bp):
TAAGGACAAAGGGAAAAAAGGAAATGAAGTACATCCTGCTCCT
Found at i:469587 original size:35 final size:35
Alignment explanation
Indices: 469542--469617 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
469532 AGAGAAAAAA
* * * ** *
469542 GGAAATGAAGTATGTCTTGCTCTTTGAGGGCAAAG
1 GGAAAAGAAGTATGTCCTACTCTTAAAGGACAAAG
*
469577 GGAAAAGAAGTGTGTCCTACTCTTAAAGGACAAAG
1 GGAAAAGAAGTATGTCCTACTCTTAAAGGACAAAG
469612 GGAAAA
1 GGAAAA
469618 AAAGGAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (35 bp):
GGAAAAGAAGTATGTCCTACTCTTAAAGGACAAAG
Found at i:475155 original size:14 final size:14
Alignment explanation
Indices: 475136--475163 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
475126 TTTAAATTTT
475136 CATAGTATCACAAG
1 CATAGTATCACAAG
475150 CATAGTATCACAAG
1 CATAGTATCACAAG
475164 TACTATGCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
CATAGTATCACAAG
Found at i:477348 original size:24 final size:25
Alignment explanation
Indices: 477301--477348 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
477291 AAATAGCAGC
*
477301 AAGAAAGGAGAAAAGCAACGTGAAT
1 AAGAAAGGAGAAAAGCAACATGAAT
*
477326 AAGAAAGGA-AGAAGCAACATGAA
1 AAGAAAGGAGAAAAGCAACATGAA
477349 AAATGAACAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.58, C:0.08, G:0.27, T:0.06
Consensus pattern (25 bp):
AAGAAAGGAGAAAAGCAACATGAAT
Found at i:478803 original size:13 final size:14
Alignment explanation
Indices: 478779--478810 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
478769 TTTAAAAAAT
478779 AATAATAATAATAA
1 AATAATAATAATAA
478793 AATAA-AATAAT-A
1 AATAATAATAATAA
478805 AATAAT
1 AATAAT
478811 TTTTTTCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.35
13 6 0.35
14 5 0.29
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:478809 original size:17 final size:17
Alignment explanation
Indices: 478774--478805 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
478764 AAATTTTTAA
478774 AAAATAATAATAATAAT
1 AAAATAATAATAATAAT
478791 AAAATAA-AATAATAA
1 AAAATAATAATAATAA
478806 ATAATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATAATAATAATAAT
Found at i:481743 original size:13 final size:13
Alignment explanation
Indices: 481725--481749 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
481715 CATAAAATGT
481725 TGTATCGATACAA
1 TGTATCGATACAA
481738 TGTATCGATACA
1 TGTATCGATACA
481750 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:481747 original size:33 final size:33
Alignment explanation
Indices: 481705--481774 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
481695 TTCAACTATT
481705 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
481738 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
481771 TGTA
1 TGTA
481775 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:481833 original size:13 final size:13
Alignment explanation
Indices: 481815--481839 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
481805 ATTACTCACA
481815 TGTATCGATACAT
1 TGTATCGATACAT
481828 TGTATCGATACA
1 TGTATCGATACA
481840 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:481904 original size:52 final size:52
Alignment explanation
Indices: 481848--481972 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
481838 CACTGATCTT
481848 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
*
481900 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
* * *
481952 TGTAACAATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
481973 CTTTTTATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
Found at i:490401 original size:20 final size:20
Alignment explanation
Indices: 490376--490424 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
490366 TGTTGATGGT
* * *
490376 TGCATTTGTATTATTTTACA
1 TGCATTTGCATCATTTCACA
*
490396 TGCATTTGCATCATTTCATA
1 TGCATTTGCATCATTTCACA
490416 TGCATTTGC
1 TGCATTTGC
490425 CACCAATGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.49
Consensus pattern (20 bp):
TGCATTTGCATCATTTCACA
Found at i:491051 original size:89 final size:89
Alignment explanation
Indices: 490921--491090 Score: 259
Period size: 89 Copynumber: 1.9 Consensus size: 89
490911 ATCCCCTTTA
* * * *
490921 TCCAACCACTAGATAGTATTGATGCATCACCAAGCCTAATTTCCTTGGGGCAACGTGCAGGCCTC
1 TCCAACCACTAGATAGTATTGATGCATCACCAAGCCTAATTTCCTTAGGGCAACGTACAGCCCAC
* *
490986 ACATTCCTAATTATATTCTTTTCC
66 ACATTACTAATCATATTCTTTTCC
* * *
491010 TCCAACCACTAGATGGTATTGGTGCATCACCAAGCCTAATTTCCTTAGGGCAAGGTACAGCCCAC
1 TCCAACCACTAGATAGTATTGATGCATCACCAAGCCTAATTTCCTTAGGGCAACGTACAGCCCAC
491075 ACATTACTAATCATAT
66 ACATTACTAATCATAT
491091 CCTTCCTTGC
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (89 bp):
TCCAACCACTAGATAGTATTGATGCATCACCAAGCCTAATTTCCTTAGGGCAACGTACAGCCCAC
ACATTACTAATCATATTCTTTTCC
Found at i:491134 original size:89 final size:89
Alignment explanation
Indices: 490937--491127 Score: 224
Period size: 89 Copynumber: 2.1 Consensus size: 89
490927 CACTAGATAG
* * * * * * *
490937 TATTGATGCATCACCAAGCCTAATTTCCTTGGGGCAACGTGCAGGCCTCACATTCCTAATTATAT
1 TATTGGTGCATCACCAAGCCTAATTTCCTTAGGGCAACGTACAGCCCACACATTACTAATCATAT
* * * * *
491002 TCTTTTCCTCCAACCACTAGATGG
66 TCTCTTCCTCCAAACACCAGAAGA
*
491026 TATTGGTGCATCACCAAGCCTAATTTCCTTAGGGCAAGGTACAGCCCACACATTACTAATCATA-
1 TATTGGTGCATCACCAAGCCTAATTTCCTTAGGGCAACGTACAGCCCACACATTACTAATCATAT
*
491090 TC-CTTCCTTGCCAAATACCAGAAGA
66 TCTCTTCC-T-CCAAACACCAGAAGA
491115 TATTGGTGCATCA
1 TATTGGTGCATCA
491128 TAAAGCCAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
87 4 0.05
88 3 0.03
89 79 0.92
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (89 bp):
TATTGGTGCATCACCAAGCCTAATTTCCTTAGGGCAACGTACAGCCCACACATTACTAATCATAT
TCTCTTCCTCCAAACACCAGAAGA
Found at i:491834 original size:42 final size:42
Alignment explanation
Indices: 491708--492608 Score: 335
Period size: 43 Copynumber: 21.2 Consensus size: 42
491698 CTACTCGTCA
* * * * * **
491708 GCTTAGACCCGAGAGACTTCCTTTATCAATCGTCTACCTGTCG
1 GCTTAGACTCAAGAGACTT-TTTTGTCAATCGTCTGCCCATCG
* * * *
491751 ACTTAGACCCAAGAGACTTTCTTTGTCAATGGTCTACCCATCG
1 GCTTAGACTCAAGAGACTTT-TTTGTCAATCGTCTGCCCATCG
* *
491794 GCTTAGA-TGCAAGAGACTTTTTCGTCAATCATCTGCCCATCG
1 GCTTAGACT-CAAGAGACTTTTTTGTCAATCGTCTGCCCATCG
* * * * *
491836 ACTCAGACTCGAGAGACTTTTTTTATCAATTGTCTGCCCATCG
1 GCTTAGACTCAAGAGAC-TTTTTTGTCAATCGTCTGCCCATCG
* * * * * * *
491879 GCTTAGACCCAGGATACTTTATTTGTTAATTGTCTGCCCGTCA
1 GCTTAGACTCAAGAGACTTT-TTTGTCAATCGTCTGCCCATCG
* * * *** * *
491922 GCTTAAACCCGAGAGACTTTTCCATCAATCGTCTGCCTATGG
1 GCTTAGACTCAAGAGACTTTTTTGTCAATCGTCTGCCCATCG
* * * * * *
491964 GCTTTGAC-CTGAGAGACTTCTTTGTCAATCATTTGCTCATCG
1 GCTTAGACTC-AAGAGACTTTTTTGTCAATCGTCTGCCCATCG
* ** * *
492006 ACTTAGAC-CTTGGAGACTTCTTTTATCAATCGTTTGCCCATCG
1 GCTTAGACTC-AAGAGACTT-TTTTGTCAATCGTCTGCCCATCG
** ** * * * * * **
492049 GCTTAGAC-CGGGGAGACTTTTTCATTAATCGTTTACTCGTTA
1 GCTTAGACTC-AAGAGACTTTTTTGTCAATCGTCTGCCCATCG
* * ***
492091 GCTTAGAC-CTGAGAGACTTCTTTTGTCAATCATCTGCTTGTCG
1 GCTTAGACTC-AAGAGACTT-TTTTGTCAATCGTCTGCCCATCG
** ** *** **
492134 ATTTAGAC-CTGGGAGACTTTTCCATCAATCGTCTGCCTGTCG
1 GCTTAGACTC-AAGAGACTTTTTTGTCAATCGTCTGCCCATCG
* ** * * * *
492176 GCTTAGACCCTGGAGACTTCTTTTGTCAATCATTTGCCTATCT
1 GCTTAGACTCAAGAGACTT-TTTTGTCAATCGTCTGCCCATCG
* * * * * * * *
492219 ACTTAGAC-CTAATAGACTTCTTTTATCCA-CGTCTACTCGTCA
1 GCTTAGACTC-AAGAGACTT-TTTTGTCAATCGTCTGCCCATCG
* * * * ** *
492261 GCTTAGACCCGAGAAACTATTTTTATCAATCGTCTGCCTGTCA
1 GCTTAGACTCAAGAGACT-TTTTTGTCAATCGTCTGCCCATCG
* * * ** * * * * * *
492304 GCTCAGACCCGAGAGACTCCTTTATTATTCGTTTACCCATTG
1 GCTTAGACTCAAGAGACTTTTTTGTCAATCGTCTGCCCATCG
* * * * *
492346 GCTTTGACTTAGGAGACTTTTTTATCAATCGTTTGCCCATCG
1 GCTTAGACTCAAGAGACTTTTTTGTCAATCGTCTGCCCATCG
* * * * ** *
492388 GCTTAGACCCGAGAAACTTTTTTTATCAATCGTCTGCCTGTCA
1 GCTTAGACTCAAGAGAC-TTTTTTGTCAATCGTCTGCCCATCG
*** * * *
492431 GCTTAGACTTGGGAGACTTCTTTTATTAATCATCTGCCCATCG
1 GCTTAGACTCAAGAGACTT-TTTTGTCAATCGTCTGCCCATCG
* * * * ** **
492474 GTTTAGACCCGAGAGACTTCTTCATCAATCGTCTGCCTGTCG
1 GCTTAGACTCAAGAGACTTTTTTGTCAATCGTCTGCCCATCG
*
492516 GCTTAGAC-CTAAGAGACTTTTTTTGTCAATCGTTTGCCCATCG
1 GCTTAGACTC-AAGAGAC-TTTTTTGTCAATCGTCTGCCCATCG
* *** * **
492559 GCTTAGACTCGAGAGACTTTTCCATCAATCATCTGCCTGTCG
1 GCTTAGACTCAAGAGACTTTTTTGTCAATCGTCTGCCCATCG
492601 GCTTAGAC
1 GCTTAGAC
492609 CCGGGAGACT
Statistics
Matches: 648, Mismatches: 191, Indels: 39
0.74 0.22 0.04
Matches are distributed among these distances:
41 2 0.00
42 295 0.46
43 350 0.54
44 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.35
Consensus pattern (42 bp):
GCTTAGACTCAAGAGACTTTTTTGTCAATCGTCTGCCCATCG
Found at i:491898 original size:85 final size:85
Alignment explanation
Indices: 491748--492619 Score: 374
Period size: 85 Copynumber: 10.3 Consensus size: 85
491738 CGTCTACCTG
* * * * * ** *
491748 TCGACTTAGACCCAAGAGACTTTCTTTGTCAATGGTCTACCCATCGGCTTAGATGCAAGAGACTT
1 TCGACTTAGACCCGAGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTT
491813 TTTCGTCAATCATCTGCCCA
66 TTTCGTCAATCATCTGCCCA
* * * *
491833 TCGACTCAGACTCGAGAGACTTTTTTTATCAATTGTCTGCCCATCGGCTTAGACCCAGGATACTT
1 TCGACTTAGACCCGAGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTT
* * ** *
491898 TATTTGTTAATTGTCTGCCCG
66 T-TTCGTCAATCATCTGCCCA
* ** * * * *
491919 TC-AGCTTAAACCCGAGAGAC-TTTTCCATCAATCGTCTGCCTATGGGCTTTGA-CCTGAGAGAC
1 TCGA-CTTAGACCCGAGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAG-GAGAC
* *
491981 TTCTTT-GTCAATCATTTGCTCA
64 TT-TTTCGTCAATCATCTGCCCA
* * * **
492003 TCGACTTAGACCTTG-GAGACTTCTTTTATCAATCGTTTGCCCATCGGCTTAGACCGGGGAGACT
1 TCGACTTAGACC-CGAGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACT
* * * * * * *
492067 TTTTCATTAATCGTTTACTCG
65 TTTTCGTCAATCATCTGCCCA
* * * * * *** ** **
492088 T-TAGCTTAGACCTGAGAGACTTCTTTTGTCAATCATCTGCTTGTCGATTTAGACCTGGGAGACT
1 TCGA-CTTAGACCCGAGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACT
* * * **
492152 TTTCCATCAATCGTCTGCCTG
65 TTTTCGTCAATCATCTGCCCA
* * * * * * ** * **
492173 TCGGCTTAGACCCTG-GAGACTTCTTTTGTCAATCATTTGCCTATCTACTTAGACCTAATAGACT
1 TCGACTTAGACCC-GAGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACT
** * * * * *
492237 TCTTTTATCCA-CGTCTACTCG
65 T-TTTCGTCAATCATCTGCCCA
* * ** * *
492258 TC-AGCTTAGACCCGAGAAACTATTTTTATCAATCGTCTGCCTGTCAGCTCAGACCC-GAGAGAC
1 TCGA-CTTAGACCCGAGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAG-GAGAC
* * * * * * *
492321 TCCTTT-ATTATTCGTTTACCCA
64 T-TTTTCGTCAATCATCTGCCCA
* * * ** * *
492343 TTGGCTTTGA-CTTAGGAGAC-TTTTTTATCAATCGTTTGCCCATCGGCTTAGACCC-GAGAAAC
1 TCGACTTAGACCCGA-GAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAG-GAGAC
** * **
492405 TTTTTTTATCAATCGTCTGCCTG
64 -TTTTTCGTCAATCATCTGCCCA
** * * * * *
492428 TC-AGCTTAGACTTGGGAGACTTCTTTTATTAATCATCTGCCCATCGGTTTAGACCC-GAGAGAC
1 TCGA-CTTAGACCCGAGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAG-GAGAC
* * * **
492491 TTCTTCATCAATCGTCTGCCTG
64 TTTTTCGTCAATCATCTGCCCA
* ** * * *
492513 TCGGCTTAGACCTAAGAGACTTTTTTTGTCAATCGTTTGCCCATCGGCTTAGACTC-GAGAGACT
1 TCGACTTAGACCCGAGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAG-GAGACT
* * **
492577 TTTCCATCAATCATCTGCCTG
65 TTTTCGTCAATCATCTGCCCA
* *
492598 TCGGCTTAGACCCGGGAGACTT
1 TCGACTTAGACCCGAGAGACTT
492620 CCGTTATCTT
Statistics
Matches: 606, Mismatches: 154, Indels: 54
0.74 0.19 0.07
Matches are distributed among these distances:
84 76 0.13
85 454 0.75
86 76 0.13
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (85 bp):
TCGACTTAGACCCGAGAGACTTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCAGGAGACTT
TTTCGTCAATCATCTGCCCA
Found at i:492618 original size:255 final size:256
Alignment explanation
Indices: 491710--492619 Score: 725
Period size: 255 Copynumber: 3.6 Consensus size: 256
491700 ACTCGTCAGC
* *
491710 TTAGACCCGAGAGACTTCCTTTATCAATCGTCTACCT-GTCGACTTAGACCCAAGAGACTTTCTT
1 TTAGACCCGAGAGACTT-CTTTATCAATCGTCTGCCTCGTCGACTTAGACCCAAGAGACTTTTTT
* * * * * *
491774 TGTCAATGGTCTACCCATCGGCTTAGA-TGCAAGAGACTTTTTCGTCAATCATCTGCCCATCGAC
65 TATCAATCGTCTGCCCATCGGCTTAGACT-CGAGAGACTTTTTCATCAATCATCTGCCCATCGGC
* * * * *
491838 TCAGACTCGAGAGACTTTTTTTATCAATTGTCTGCCCATCGGCTTAGACCC-AGGATACTTTATT
129 TTAGACCCGAGAGAC-TTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCGA-GAAACTTTTTT
* * * * * * * ** * *
491902 TGTTAATTGTCTGCCCGTCAGCTTAAACCCGAGAGACTT-TTCCATCAATCGTCTGCCTATGGGC
192 TATCAATCGTCTGCCTGTCAGCTTAGACCTGGGAGACTTCTTTTATCAATCATCTGCCTATCGG-
491966 T
256 T
* * * * * *** *
491967 TT-GACCTGAGAGACTTCTTTGTCAATCATTTG-CTCATCGACTTAGACCTTGGAGACTTCTTTT
1 TTAGACCCGAGAGACTTCTTTATCAATCGTCTGCCTCGTCGACTTAGACCCAAGAGACTTTTTTT
* * * * * * * * **
492030 ATCAATCGTTTGCCCATCGGCTTAGAC-CGGGGAGACTTTTTCATTAATCGTTTACTCGTTAGCT
66 ATCAATCGTCTGCCCATCGGCTTAGACTC-GAGAGACTTTTTCATCAATCATCTGCCCATCGGCT
* * * *** ** * * * **
492094 TAGACCTGAGAGACTTCTTTTGTCAATCATCTGCTTGTCGATTTAGACCTGGGAGAC-TTTTCCA
130 TAGACCCGAGAGACTT-TTTTATCAATCGTCTGCCCATCGGCTTAGACCCGAGAAACTTTTTTTA
* * * ***
492158 TCAATCGTCTGCCTGTCGGCTTAGACCCT-GGAGACTTCTTTTGTCAATCATTTGCCTATCTAC
194 TCAATCGTCTGCCTGTCAGCTTAGA-CCTGGGAGACTTCTTTTATCAATCATCTGCCTATCGGT
** * * * * * *
492221 TTAGACCTAATAGACTTCTTTTATCCA-CGTCT-ACTCGTC-AGCTTAGACCCGAGAAACTATTT
1 TTAGACCCGAGAGACTTC-TTTATCAATCGTCTGCCTCGTCGA-CTTAGACCCAAGAGACTTTTT
** * * * * * * * * * *
492283 TTATCAATCGTCTGCCTGTCAGCTCAGACCCGAGAGACTCCTTT-ATTATTCGTTTACCCATTGG
64 TTATCAATCGTCTGCCCATCGGCTTAGACTCGAGAGACT-TTTTCATCAATCATCTGCCCATCGG
* ** *
492347 CTTTGA-CTTAGGAGACTTTTTTATCAATCGTTTGCCCATCGGCTTAGACCCGAGAAACTTTTTT
128 CTTAGACCCGA-GAGACTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCGAGAAACTTTTTT
* * *
492411 TATCAATCGTCTGCCTGTCAGCTTAGACTTGGGAGACTTCTTTTATTAATCATCTGCCCATCGGT
192 TATCAATCGTCTGCCTGTCAGCTTAGACCTGGGAGACTTCTTTTATCAATCATCTGCCTATCGGT
* * *
492476 TTAGACCCGAGAGACTTCTTCATCAATCGTCTGCCT-GTCGGCTTAGACCTAAGAGACTTTTTTT
1 TTAGACCCGAGAGACTTCTTTATCAATCGTCTGCCTCGTCGACTTAGACCCAAGAGACTTTTTTT
* * * **
492540 GTCAATCGTTTGCCCATCGGCTTAGACTCGAGAGACTTTTCCATCAATCATCTGCCTGTCGGCTT
66 ATCAATCGTCTGCCCATCGGCTTAGACTCGAGAGACTTTTTCATCAATCATCTGCCCATCGGCTT
*
492605 AGACCCGGGAGACTT
131 AGACCCGAGAGACTT
492620 CCGTTATCTT
Statistics
Matches: 491, Mismatches: 141, Indels: 44
0.73 0.21 0.07
Matches are distributed among these distances:
254 80 0.16
255 383 0.78
256 26 0.05
257 2 0.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.35
Consensus pattern (256 bp):
TTAGACCCGAGAGACTTCTTTATCAATCGTCTGCCTCGTCGACTTAGACCCAAGAGACTTTTTTT
ATCAATCGTCTGCCCATCGGCTTAGACTCGAGAGACTTTTTCATCAATCATCTGCCCATCGGCTT
AGACCCGAGAGACTTTTTTATCAATCGTCTGCCCATCGGCTTAGACCCGAGAAACTTTTTTTATC
AATCGTCTGCCTGTCAGCTTAGACCTGGGAGACTTCTTTTATCAATCATCTGCCTATCGGT
Found at i:492620 original size:170 final size:168
Alignment explanation
Indices: 491708--492619 Score: 719
Period size: 170 Copynumber: 5.4 Consensus size: 168
491698 CTACTCGTCA
* * *
491708 GCTTAGACCCGAGAGACTTCCTTTATCAATCGTCTACCTGTC-GACTTAGACCCAAGAGACTTTC
1 GCTTAGA-CCGAGAGACTT-TTTTATCAATCGTCTGCCTGTCAG-CTTAGACCCGAGAGACTTT-
* * * * * ** * * * * * *
491772 TTTGTCAATGGTCTACCCATCGGCTTAGATGCAAGAGACTTTTTCGTCAATCATCTGCCCATCGA
62 TTTATCAATCGTCTGCCTATCGGTTTAGACCCGAGAGACTTCTTCATCAATCGTCTGCCTATCGG
* * * *
491837 CTCAGA-CTCGAGAGACTTTTTTTATCAATTGTCTGCCCATCG
127 CTTAGACCTAG-GAGACTTTTTTTATCAATCGTTTGCCCATCG
* * * * * * * *
491879 GCTTAGACCCAGGATACTTTATTTGTTAATTGTCTGCCCGTCAGCTTAAACCCGAGAGACTTTTC
1 GCTTAGACCGA-GAGACTTT-TTTATCAATCGTCTGCCTGTCAGCTTAGACCCGAGAGACTTTTT
* * * ** * * *
491944 CATCAATCGTCTGCCTATGGGCTTT-GACCTGAGAGACTTCTTTGTCAATCATTTG-CTCATCGA
64 TATCAATCGTCTGCCTATCGG-TTTAGACCCGAGAGACTTCTTCATCAATCGTCTGCCT-ATCGG
* *
492007 CTTAGACCTTGGAGACTTCTTTTATCAATCGTTTGCCCATCG
127 CTTAGACCTAGGAGACTTTTTTTATCAATCGTTTGCCCATCG
* * * ** * *
492049 GCTTAGACCGGGGAGACTTTTTCATTAATCGT-TTACTCGTTAGCTTAGACCTGAGAGACTTCTT
1 GCTTAGACC-GAGAGACTTTTTTATCAATCGTCTGCCT-GTCAGCTTAGACCCGAGAGACTT-TT
* * * * * * * *
492113 TTGTCAATCATCTGCTTGTCGATTTAGACCTGGGAGACTT-TTCCATCAATCGTCTGCCTGTCGG
63 TTATCAATCGTCTGCCTATCGGTTTAGACCCGAGAGACTTCTT-CATCAATCGTCTGCCTATCGG
* * * * *
492177 CTTAGACCCT-GGAGACTTCTTTTGTCAATCATTTGCCTATCT
127 CTTAGA-CCTAGGAGACTTTTTTTATCAATCGTTTGCCCATCG
* * * * * *
492219 ACTTAGACCTAATAGACTTCTTTTATCCA-CGTCT-ACTCGTCAGCTTAGACCCGAGAAACTATT
1 GCTTAGACC-GAGAGACTT-TTTTATCAATCGTCTGCCT-GTCAGCTTAGACCCGAGAGACT-TT
* * * * * * * * * * * *
492282 TTTATCAATCGTCTGCCTGTCAGCTCAGACCCGAGAGACTCCTTTATTATTCGTTTACCCATTGG
62 TTTATCAATCGTCTGCCTATCGGTTTAGACCCGAGAGACTTCTTCATCAATCGTCTGCCTATCGG
* *
492347 CTTTGACTTAGGAGAC-TTTTTTATCAATCGTTTGCCCATCG
127 CTTAGACCTAGGAGACTTTTTTTATCAATCGTTTGCCCATCG
* ** *
492388 GCTTAGACCCGAGAAACTTTTTTTATCAATCGTCTGCCTGTCAGCTTAGACTTGGGAGACTTCTT
1 GCTTAGA-CCGAGAGAC-TTTTTTATCAATCGTCTGCCTGTCAGCTTAGACCCGAGAGACTT-TT
* * * *
492453 TTATTAATCATCTGCCCATCGGTTTAGACCCGAGAGACTTCTTCATCAATCGTCTGCCTGTCGGC
63 TTATCAATCGTCTGCCTATCGGTTTAGACCCGAGAGACTTCTTCATCAATCGTCTGCCTATCGGC
* *
492518 TTAGACCTAAGAGACTTTTTTTGTCAATCGTTTGCCCATCG
128 TTAGACCTAGGAGACTTTTTTTATCAATCGTTTGCCCATCG
** * * *
492559 GCTTAGACTCGAGAGACTTTTCCATCAATCATCTGCCTGTCGGCTTAGACCCGGGAGACTT
1 GCTTAGAC-CGAGAGACTTTTTTATCAATCGTCTGCCTGTCAGCTTAGACCCGAGAGACTT
492620 CCGTTATCTT
Statistics
Matches: 581, Mismatches: 135, Indels: 51
0.76 0.18 0.07
Matches are distributed among these distances:
168 2 0.00
169 76 0.13
170 396 0.68
171 106 0.18
172 1 0.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (168 bp):
GCTTAGACCGAGAGACTTTTTTATCAATCGTCTGCCTGTCAGCTTAGACCCGAGAGACTTTTTTA
TCAATCGTCTGCCTATCGGTTTAGACCCGAGAGACTTCTTCATCAATCGTCTGCCTATCGGCTTA
GACCTAGGAGACTTTTTTTATCAATCGTTTGCCCATCG
Found at i:492648 original size:128 final size:128
Alignment explanation
Indices: 491708--492662 Score: 459
Period size: 128 Copynumber: 7.5 Consensus size: 128
491698 CTACTCGTCA
* * *
491708 GCTTAGACCCGAGAGACTTCCTTTATCAATCGTCTACCTGTC-GACTTAGACCCAAGAGACTTTC
1 GCTTAGACCCGAGAGACTT-CTTCATCAATCGTCTACCTATCAG-CTTAGACCCAAGAGACTTTT
* * * * * * *
491772 TTTGTCAATGGTCTACCCATCGGCTTAGA-TGCAAGAGACTT-TTTCGTCAATCATCTGCCCATC
64 TTTATCAATCGTCTGCCCATCAGCTTAGACT-CGAGAGACTTCTTCCATCAATCATCTGCCCATC
491835 G
128 G
* * * * * * * * * * * *
491836 ACTCAGACTCGAGAGACTTTTTTTATCAATTGTCTGCCCATCGGCTTAGACCCAGGATACTTTAT
1 GCTTAGACCCGAGAGAC-TTCTTCATCAATCGTCTACCTATCAGCTTAGACCCAAGAGACTTTTT
* * * * * * * * *
491901 TTGTTAATTGTCTGCCCGTCAGCTTAAACCCGAGAGACTT-TTCCATCAATCGTCTGCCTATGG
65 TTATCAATCGTCTGCCCATCAGCTTAGACTCGAGAGACTTCTTCCATCAATCATCTGCCCATCG
* * ** * ** *** *
491964 GCTTTGACCTGAGAGACTTCTTTGTCAATCAT-TTGCTCATC-GACTTAGACCTTGGAGACTTCT
1 GCTTAGACCCGAGAGACTTCTTCATCAATCGTCTACCT-ATCAG-CTTAGACCCAAGAGACTTTT
* * * * * * * * * * *
492027 TTTATCAATCGTTTGCCCATCGGCTTAGAC-CGGGGAGACTT-TTTCATTAATCGTTTACTCGTT
64 TTTATCAATCGTCTGCCCATCAGCTTAGACTC-GAGAGACTTCTTCCATCAATCATCTGCCCATC
*
492090 A
128 G
* ** * * * * * ***
492091 GCTTAGACCTGAGAGACTTCTTTTGTCAATCATCTGCTTGTC-GATTTAGACCTGGGAGAC-TTT
1 GCTTAGACCCGAGAGACTTC-TTCATCAATCGTCTACCTATCAG-CTTAGACCCAAGAGACTTTT
** ** * * *** * *
492154 TCCATCAATCGTCTGCCTGTCGGCTTAGACCCTG-GAGACTTCTTTTGTCAATCATTTGCCTATC
64 TTTATCAATCGTCTGCCCATCAGCTTAGACTC-GAGAGACTTCTTCCATCAATCATCTGCCCATC
*
492218 T
128 G
* ** * * * * * * *
492219 ACTTAGACCTAATAGACTTCTTTTATCCA-CGTCTA-CTCGTCAGCTTAGACCCGAGAAACTATT
1 GCTTAGACCCGAGAGACTTC-TTCATCAATCGTCTACCT-ATCAGCTTAGACCCAAGAGACTTTT
** * * * * * * * * * *
492282 TTTATCAATCGTCTGCCTGTCAGCTCAGACCCGAGAGACTCCTT-TATTATTCGTTTACCCATTG
64 TTTATCAATCGTCTGCCCATCAGCTTAGACTCGAGAGACTTCTTCCATCAATCATCTGCCCATCG
* ** * * * * * * * *
492346 GCTTTGA-CTTAGGAGACTTTTTTATCAATCGTTTGCCCATCGGCTTAGACCCGAGAAACTTTTT
1 GCTTAGACCCGA-GAGACTTCTTCATCAATCGTCTACCTATCAGCTTAGACCCAAGAGACTTTTT
** * * ** *
492410 TTATCAATCGTCTGCCTGTCAGCTTAGACTTGGGAGACTTCTTTTATTAATCATCTGCCCATCG
65 TTATCAATCGTCTGCCCATCAGCTTAGACTCGAGAGACTTCTTCCATCAATCATCTGCCCATCG
* * * * *
492474 GTTTAGACCCGAGAGACTTCTTCATCAATCGTCTGCCTGTCGGCTTAGACCTAAGAGACTTTTTT
1 GCTTAGACCCGAGAGACTTCTTCATCAATCGTCTACCTATCAGCTTAGACCCAAGAGACTTTTTT
* * * **
492539 TGTCAATCGTTTGCCCATCGGCTTAGACTCGAGAGACTT-TTCCATCAATCATCTGCCTGTCG
66 TATCAATCGTCTGCCCATCAGCTTAGACTCGAGAGACTTCTTCCATCAATCATCTGCCCATCG
* ** * * *
492601 GCTTAGACCCGGGAGACTTCCGTT-ATCTTTTGTCTATCTATCAGCTTAGACCCAGGAGACTT
1 GCTTAGACCCGAGAGACTT-C-TTCATCAATCGTCTACCTATCAGCTTAGACCCAAGAGACTT
492663 CTTCATCCTT
Statistics
Matches: 641, Mismatches: 165, Indels: 42
0.76 0.19 0.05
Matches are distributed among these distances:
126 15 0.02
127 270 0.42
128 347 0.54
129 9 0.01
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.35
Consensus pattern (128 bp):
GCTTAGACCCGAGAGACTTCTTCATCAATCGTCTACCTATCAGCTTAGACCCAAGAGACTTTTTT
TATCAATCGTCTGCCCATCAGCTTAGACTCGAGAGACTTCTTCCATCAATCATCTGCCCATCG
Found at i:492704 original size:170 final size:171
Alignment explanation
Indices: 492348--492704 Score: 375
Period size: 170 Copynumber: 2.1 Consensus size: 171
492338 ACCCATTGGC
* * **
492348 TTTGACTTAGGAGAC-TTTTTTATCAATCGTTTGCCCATCGGCTTAGACCCGAGAAACTTTTTTT
1 TTTGACTCAAGAGACTTTTTTTATCAATCGTTTGCCCATCGGCTTAGACCCGAGAAACTTTTTCC
* ** ** * * *
492412 ATCAATCGTCTGCCTGTCAGCTTAGACTTGGGAGACTTCTTTTATTAATCATCTGCCCATCGGTT
66 ATCAATCATCTGCCTGTCAGCTTAGACCCGGGAGACTTCCGTTATTAATCATCTACCCATCAGCT
* ***
492477 TAGACCCGAGAGACTTCTTCATCAATCGTCTGCCTGTCGGC
131 TAGACCCGAGAGACTTCTTCATCAATCATCTGCCTGTCAAA
* * * *
492518 TTAGAC-CTAAGAGACTTTTTTTGTCAATCGTTTGCCCATCGGCTTAGACTCGAGAGAC-TTTTC
1 TTTGACTC-AAGAGACTTTTTTTATCAATCGTTTGCCCATCGGCTTAGACCCGAGAAACTTTTTC
* * ** * *
492581 CATCAATCATCTGCCTGTCGGCTTAGACCCGGGAGACTTCCGTTATCT-TTTGTCTATCTATCAG
65 CATCAATCATCTGCCTGTCAGCTTAGACCCGGGAGACTTCCGTTAT-TAATCATCTACCCATCAG
**
492645 CTTAGACCC-AGGAGACTTCTTCATCCTTCATCTGCCCT-TCAAA
129 CTTAGACCCGA-GAGACTTCTTCATCAATCATCTG-CCTGTCAAA
*
492688 TTTGACTCATGAGACTT
1 TTTGACTCAAGAGACTT
492705 CTTTATCCTT
Statistics
Matches: 151, Mismatches: 30, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
169 1 0.01
170 106 0.70
171 44 0.29
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (171 bp):
TTTGACTCAAGAGACTTTTTTTATCAATCGTTTGCCCATCGGCTTAGACCCGAGAAACTTTTTCC
ATCAATCATCTGCCTGTCAGCTTAGACCCGGGAGACTTCCGTTATTAATCATCTACCCATCAGCT
TAGACCCGAGAGACTTCTTCATCAATCATCTGCCTGTCAAA
Found at i:492852 original size:43 final size:42
Alignment explanation
Indices: 492798--493060 Score: 257
Period size: 43 Copynumber: 6.1 Consensus size: 42
492788 GCTTCATCTC
*
492798 AAGTCTACCTGTCGCCTTTGACCCTAGAGACTTTCTCACCCTT
1 AAGTCTACCTGTCGACTTTGACCCTAGAGACTTTCTC-CCCTT
* * * *
492841 AAGTCTGCCTGTC-AGCTTTGA-CCTTGAAGACTTTTTCCCTTTT
1 AAGTCTACCTGTCGA-CTTTGACCCTAG-AGACTTTCTCCC-CTT
* *
492884 AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCACCCTT
1 AAGTCTACCTGTCGACTTTGACCCTAGAGACTTTCTC-CCCTT
* * *
492927 AAGTCTACTTGTCAACTTTGACCTTAGAGACTTT-TCCCCTTT
1 AAGTCTACCTGTCGACTTTGACCCTAGAGACTTTCTCCCC-TT
492969 AAGTCTACCTGTCGACTTTGACCCTAGAGAC-TTCTTCACCCTT
1 AAGTCTACCTGTCGACTTTGACCCTAGAGACTTTC-TC-CCCTT
* * * * * *
493012 AAGTCTGCCTATTGGCCTTGACCTTAGAGAC-TTCTTCCCCTTT
1 AAGTCTACCTGTCGACTTTGACCCTAGAGACTTTC-TCCCC-TT
493055 AAGTCT
1 AAGTCT
493061 TTCTTTTTAA
Statistics
Matches: 186, Mismatches: 23, Indels: 22
0.81 0.10 0.10
Matches are distributed among these distances:
41 5 0.03
42 41 0.22
43 130 0.70
44 10 0.05
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (42 bp):
AAGTCTACCTGTCGACTTTGACCCTAGAGACTTTCTCCCCTT
Found at i:492903 original size:86 final size:86
Alignment explanation
Indices: 492798--493060 Score: 379
Period size: 86 Copynumber: 3.1 Consensus size: 86
492788 GCTTCATCTC
*
492798 AAGTCTACCTGTCGCCTTTGACCCTAGAGACTTTCTCACCCTTAAGTCTGCCTGTCAGCTTTGAC
1 AAGTCTACCTGTCGACTTTGACCCTAGAGACTTTCTCACCCTTAAGTCTGCCTGTCAGCTTTGAC
*
492863 CTT-GAAGACTTTTTCCCTTTT
66 CTTAG-AGACTTTTTCCCCTTT
* * * * *
492884 AAGTCTGCCTGTCGACTTTGACCCTAGAGACTTCCTCACCCTTAAGTCTACTTGTCAACTTTGAC
1 AAGTCTACCTGTCGACTTTGACCCTAGAGACTTTCTCACCCTTAAGTCTGCCTGTCAGCTTTGAC
492949 CTTAGAGAC-TTTTCCCCTTT
66 CTTAGAGACTTTTTCCCCTTT
* ** *
492969 AAGTCTACCTGTCGACTTTGACCCTAGAGAC-TTCTTCACCCTTAAGTCTGCCTATTGGCCTTGA
1 AAGTCTACCTGTCGACTTTGACCCTAGAGACTTTC-TCACCCTTAAGTCTGCCTGTCAGCTTTGA
*
493033 CCTTAGAGACTTCTTCCCCTTT
65 CCTTAGAGACTTTTTCCCCTTT
493055 AAGTCT
1 AAGTCT
493061 TTCTTTTTAA
Statistics
Matches: 157, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
84 2 0.01
85 72 0.46
86 82 0.52
87 1 0.01
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (86 bp):
AAGTCTACCTGTCGACTTTGACCCTAGAGACTTTCTCACCCTTAAGTCTGCCTGTCAGCTTTGAC
CTTAGAGACTTTTTCCCCTTT
Found at i:493226 original size:42 final size:42
Alignment explanation
Indices: 493179--493312 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
493169 TTTGACCTTG
*
493179 GAGACTTCTTCACCCTTTATCTGCCCGTCAACTTAGACTCGA
1 GAGACTTCTTCACCCTTTATCTGCCCATCAACTTAGACTCGA
* * * * ** *
493221 GAGACTTCTTTATCCTTTTTTCTGCACATCAGTTTAGACCTGGA
1 GAGACTTCTTCA-CCCTTTATCTGCCCATCAACTTAGA-CTCGA
* * * *
493265 -AGACTTCTTCA-TCTTTCATCTGCCCATCGACTTAGTCCCGA
1 GAGACTTCTTCACCCTTT-ATCTGCCCATCAACTTAGACTCGA
493306 GAGACTT
1 GAGACTT
493313 TCTTTATCAA
Statistics
Matches: 69, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
41 6 0.09
42 30 0.43
43 29 0.42
44 4 0.06
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (42 bp):
GAGACTTCTTCACCCTTTATCTGCCCATCAACTTAGACTCGA
Found at i:493330 original size:85 final size:85
Alignment explanation
Indices: 493172--493341 Score: 184
Period size: 85 Copynumber: 2.0 Consensus size: 85
493162 TGTCGACTTT
* * *
493172 GACCTTGGAGACTTCTTCACCCTTTATCTGCCCGTCAACTTAGACTCGAGAGACTTCTTTATCCT
1 GACCTTGGAGACTTCTTCACCCTTTATCTGCCCATCAACTTAGACCCGAGAGACTTCTTTATCCA
****
493237 TTTTTCTGCACATCAGTTTA
66 ACCATCTGCACATCAGTTTA
* * *
493257 GACC-TGGAAGACTTCTTCA-TCTTTCATCTGCCCATCGACTTAGTCCCGAGAGACTTTCTTTAT
1 GACCTTGG-AGACTTCTTCACCCTTT-ATCTGCCCATCAACTTAGACCCGAGAGAC-TTCTTTAT
* *
493320 -CAACCATCTGCCCATCGGTTTA
63 CCAACCATCTGCACATCAGTTTA
493342 AACTCGGGAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
84 7 0.10
85 55 0.79
86 8 0.11
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (85 bp):
GACCTTGGAGACTTCTTCACCCTTTATCTGCCCATCAACTTAGACCCGAGAGACTTCTTTATCCA
ACCATCTGCACATCAGTTTA
Found at i:493834 original size:83 final size:83
Alignment explanation
Indices: 493568--493877 Score: 356
Period size: 84 Copynumber: 3.7 Consensus size: 83
493558 AGAAATAACT
* * *
493568 TTCATCCA-TAGTTTACCTGTCGGCTTAGT-CCTAGGTAAACCTATTACCTTTATGGTGACCTGT
1 TTCATCCATTA-TTTACCTGTCGGCTTAGTCCCCA-GTAAACCCATTACCCTTATGGTGACCTG-
* *
493631 TAGCTCAGTCTCCGGTCAACC
63 TCGCTAAGTCTCCGGTCAACC
* * * * * *
493652 TTCATCTATTATTTAACTGTCGACTTTA-TCCTCAGTAAACCCATTACCCTTATGGTGACTTATC
1 TTCATCCATTATTTACCTGTCGGC-TTAGTCCCCAGTAAACCCATTACCCTTATGGTGACCTGTC
*
493716 AGCTAAGTCTTCGGTCAACC
65 -GCTAAGTCTCCGGTCAACC
* * **
493736 TTCATCCATTGTTTACCTATCGGCTTAGTCCCCAACAAACCCATTACCCTTATGGTGACCTGTCG
1 TTCATCCATTATTTACCTGTCGGCTTAGTCCCCAGTAAACCCATTACCCTTATGGTGACCTGTCG
* * *
493801 TTTAGTCTCCGATCAACC
66 CTAAGTCTCCGGTCAACC
* * *
493819 TTCATCCATTATTTACTTGTCAGCTTGGTCCCCAGTAAACCCATTACCCTTATGGTGAC
1 TTCATCCATTATTTACCTGTCGGCTTAGTCCCCAGTAAACCCATTACCCTTATGGTGAC
493878 TGTAGACACC
Statistics
Matches: 188, Mismatches: 33, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
83 71 0.38
84 110 0.59
85 7 0.04
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (83 bp):
TTCATCCATTATTTACCTGTCGGCTTAGTCCCCAGTAAACCCATTACCCTTATGGTGACCTGTCG
CTAAGTCTCCGGTCAACC
Found at i:493865 original size:167 final size:168
Alignment explanation
Indices: 493568--493878 Score: 432
Period size: 167 Copynumber: 1.9 Consensus size: 168
493558 AGAAATAACT
* * ** * *
493568 TTCATCCATAGTTTACCTGTCGGCTTAGTCCTAGGTAAACCTATTACCTTTATGGTGACCTGTTA
1 TTCATCCATAGTTTACCTATCGGCTTAGTCCCAGACAAACCCATTACCCTTATGGTGACCTGTTA
* * * *
493633 GCTCAGTCTCCGGTCAACCTTCATCTATTATTTAACTGTCGACTTTATCCTCAGTAAACCCATTA
66 GCTCAGTCTCCGATCAACCTTCATCCATTATTTAACTGTCGACTTGATCCCCAGTAAACCCATTA
493698 CCCTTATGGTGACTTATCAGCTAAGTCTTCGGTCAACC
131 CCCTTATGGTGACTTATCAGCTAAGTCTTCGGTCAACC
*
493736 TTCATCCATTGTTTACCTATCGGCTTAGTCCCCA-ACAAACCCATTACCCTTATGGTGACCTG-T
1 TTCATCCATAGTTTACCTATCGGCTTAGT-CCCAGACAAACCCATTACCCTTATGGTGACCTGTT
* * * *
493799 CGTTTAGTCTCCGATCAACCTTCATCCATTATTT-ACTTGTC-AGCTTGGTCCCCAGTAAACCCA
65 AGCTCAGTCTCCGATCAACCTTCATCCATTATTTAAC-TGTCGA-CTTGATCCCCAGTAAACCCA
493862 TTACCCTTATGGTGACT
128 TTACCCTTATGGTGACT
493879 GTAGACACCT
Statistics
Matches: 125, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
166 3 0.02
167 68 0.54
168 51 0.41
169 3 0.02
ACGTcount: A:0.22, C:0.29, G:0.14, T:0.35
Consensus pattern (168 bp):
TTCATCCATAGTTTACCTATCGGCTTAGTCCCAGACAAACCCATTACCCTTATGGTGACCTGTTA
GCTCAGTCTCCGATCAACCTTCATCCATTATTTAACTGTCGACTTGATCCCCAGTAAACCCATTA
CCCTTATGGTGACTTATCAGCTAAGTCTTCGGTCAACC
Found at i:494994 original size:56 final size:50
Alignment explanation
Indices: 494868--494995 Score: 139
Period size: 51 Copynumber: 2.4 Consensus size: 50
494858 CTCAATTCAC
* * * * *
494868 CACAATCGGGGATATTTCAACTCCGATTTTATTTTCAAGACACTAATTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTT
*
494918 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAAAACACCAAATTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-----AAAACA-CAAATTTT
494975 CACAATCGGGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
494996 CCCGTTATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
50 1 0.02
51 31 0.48
56 24 0.38
57 8 0.12
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTT
Found at i:495072 original size:52 final size:52
Alignment explanation
Indices: 495010--495182 Score: 199
Period size: 52 Copynumber: 3.3 Consensus size: 52
495000 TTATTTCCGA
* ** *
495010 GGGGATACTCCAACCCTGACTTTATTTCCAAAATACTGATTTTTCCACATTC
1 GGGGATACTCCAACCCTGATTTTATTTCCAAAATACCAATTTTTCCACAATC
* * * **
495062 GGGGATACTCCAA-CCTCGGTTTTATTTTCAAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAACCCT-GATTTTATTTCCAAAATACCAATTTTTCC-ACAATC
495115 GGGGATACTCCAACTCC-GATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAAC-CCTGATTTTATTTCC-AAAATACCAATTTTTCCACAATC
*
495167 GAGGATACTCCAACCC
1 GGGGATACTCCAACCC
495183 CGTTAATCAT
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
51 5 0.05
52 53 0.52
53 27 0.27
54 14 0.14
55 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACCCTGATTTTATTTCCAAAATACCAATTTTTCCACAATC
Found at i:495234 original size:28 final size:27
Alignment explanation
Indices: 495173--495239 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 27
495163 AATCGAGGAT
* *
495173 ACTCCAACCCCGTTAATCATCGGGGAT
1 ACTCCAACCCCGTTAATCATAGGGGAC
*
495200 ACTCCAACCCCGTTATTTC-TGAGGGGAC
1 ACTCCAACCCCGTTA-ATCAT-AGGGGAC
495228 ACTCCAACCCCG
1 ACTCCAACCCCG
495240 GCTTTATTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 16 0.46
28 19 0.54
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (27 bp):
ACTCCAACCCCGTTAATCATAGGGGAC
Found at i:509008 original size:119 final size:116
Alignment explanation
Indices: 508846--509364 Score: 472
Period size: 102 Copynumber: 4.7 Consensus size: 116
508836 TCCGCTTTTT
* *
508846 AGTCCTTAAAGAGCAGGACAC---CTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTC
1 AGTCCTCAAAGAGCAGGACCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTC
*
508908 AAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
66 AAAGAGCAGGACGC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * **
508960 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCA-CCTTCAGTCC
1 AGTCCTCAAAGAGCAGGAC-CC-TTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCC
* *
509024 TCAAAGAGCAGGATGCTTTTTCTTTTCAAACCCCACACAAGTTGGTGGCACCTTTC
64 TCAAAGAGCAGGACGC-TTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* ** *
509080 AGTCCCCAAAGAGCAGGACCC---CTTTCGAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCCC
1 AGTCCTCAAAGAGCAGGACCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTC
* ** **
509142 AAAGAGCAGGAC-C---CCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCC
66 AAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
*
509190 AGTCCTCAAAGAGCAGGACACCTTTC----AAAGCCCACACAAGTTGGT---A----GCA-TCCT
1 AGTCCTCAAAGAGCAGGAC-CCTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCT
* * **
509243 CAAAGAGCAGGACAC----CTCTTAAAGCCCACACAAGTTGGTGGCATTTTCC
65 CAAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* * * *
509292 AGTCCTCAAAGAACAGGATGCCTTTC----AAAGCCCACACGAGTTGGTGGCACTTTTT-AGTCA
1 AGTCCTCAAAGAGCAGGA-CCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTTCAGTCC
509352 TCAAAGAGCAGGA
64 TCAAAGAGCAGGA
509365 TACACTTTAT
Statistics
Matches: 344, Mismatches: 37, Indels: 52
0.79 0.09 0.12
Matches are distributed among these distances:
102 88 0.26
103 3 0.01
105 1 0.00
107 1 0.00
109 3 0.01
110 73 0.21
111 6 0.02
114 18 0.05
115 27 0.08
116 20 0.06
118 31 0.09
119 53 0.15
120 20 0.06
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (116 bp):
AGTCCTCAAAGAGCAGGACCCTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTC
AAAGAGCAGGACGCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:509139 original size:55 final size:55
Alignment explanation
Indices: 508841--509364 Score: 507
Period size: 55 Copynumber: 9.4 Consensus size: 55
508831 CTCCTTCCGC
* * *
508841 TTTTT-AGTCCTTAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
508895 TTTTTCAGTCCTCAAAGAGCGGGACGCATTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGAC-C----CCTTTCAAAGCCCACACAAGTTGGTGGCA
** * * *
508955 -CCTTCAGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCA
** * * *
509014 -CCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAACCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGA--C----CCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * *
509074 CCTTTCAGTCCCCAAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
509129 TTTTTCAGTCCCCAAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
509184 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGT---A
1 TTTTTCAGTCCTCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
509236 ----GCA-TCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACCCCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * ** *
509286 TTTTCCAGTCCTCAAAGAACAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 TTTTTCAGTCCTCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCA
*
509341 CTTTTT-AGTCATCAAAGAGCAGGA
1 -TTTTTCAGTCCTCAAAGAGCAGGA
509365 TACACTTTAT
Statistics
Matches: 407, Mismatches: 36, Indels: 53
0.82 0.07 0.11
Matches are distributed among these distances:
47 40 0.10
48 4 0.01
50 1 0.00
52 1 0.00
54 9 0.02
55 199 0.49
56 4 0.01
59 74 0.18
60 52 0.13
61 22 0.05
64 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (55 bp):
TTTTTCAGTCCTCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:509267 original size:47 final size:47
Alignment explanation
Indices: 509192--509286 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
509182 CATTTTCCAG
509192 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTAGCA
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTAGCA
*
509239 TCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTAGCA
509286 T
1 T
509287 TTTCCAGTCC
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 44 0.96
48 2 0.04
ACGTcount: A:0.33, C:0.29, G:0.20, T:0.18
Consensus pattern (47 bp):
TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTAGCA
Found at i:510187 original size:19 final size:19
Alignment explanation
Indices: 510163--510230 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
510153 AATTCAACAA
510163 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
510182 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
510197 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
510214 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
510231 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:510202 original size:13 final size:13
Alignment explanation
Indices: 510184--510208 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
510174 ACATAAGTTT
510184 TGTATCGATACAA
1 TGTATCGATACAA
510197 TGTATCGATACA
1 TGTATCGATACA
510209 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:510206 original size:32 final size:32
Alignment explanation
Indices: 510165--510227 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
510155 TTCAACAATT
*
510165 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
510197 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
510228 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:510293 original size:33 final size:33
Alignment explanation
Indices: 510250--510316 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
510240 GCCAAGGAAA
***
510250 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
* *
510283 TGTATGGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
510316 T
1 T
510317 TGGAAATTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:512789 original size:56 final size:50
Alignment explanation
Indices: 512663--512790 Score: 139
Period size: 51 Copynumber: 2.4 Consensus size: 50
512653 CTCAATTCTC
* * * * *
512663 CACAATCGGGGATATTTCAACTCCGATTTTATTTTCAAGACACTAATTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTT
*
512713 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAAAACACCAAATTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-----AAAACA-CAAATTTT
512770 CACAATCGGGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
512791 CCCGTTATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
50 1 0.02
51 31 0.48
56 24 0.38
57 8 0.12
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTT
Found at i:512867 original size:52 final size:52
Alignment explanation
Indices: 512805--512975 Score: 220
Period size: 52 Copynumber: 3.3 Consensus size: 52
512795 TTATTTTCGA
* **
512805 GGGGATACTCCAACTCCGACTTTATTTCCAAAATACTGATTTTTCCACAATC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAATACCAATTTTTCCACAATC
* * * **
512857 GGGGATACTCCAACCTCAG-TTTTATTTTCAAAACACCAATTTTTCCTTTAATC
1 GGGGATACTCCAA-CTCCGATTTTATTTCCAAAATACCAATTTTTCC-ACAATC
512910 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGATTTTATTTCC-AAAATACCAATTTTTCCACAATC
*
512962 GAGGATACTCCAAC
1 GGGGATACTCCAAC
512976 CCCGTTAATC
Statistics
Matches: 101, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
52 56 0.55
53 31 0.31
54 14 0.14
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (52 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAATACCAATTTTTCCACAATC
Found at i:512936 original size:136 final size:131
Alignment explanation
Indices: 512670--512923 Score: 298
Period size: 136 Copynumber: 1.9 Consensus size: 131
512660 CTCCACAATC
* * * * * * *
512670 GGGGATATTTCAACTCCGATTTTATTTTCAAGACACTAATTTTCTATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACTCCGACTTTATTTCCAAAACACTAATTTTCCACAATCGGGGATACTCCAAC
*
512735 TCCGATTTTATTTCCAAAAAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCCGTTATT
66 TCAGATTTTATTTCC----AAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCCGTTATT
512800 TTCGA
127 TTCGA
* *
512805 GGGGATACTCCAACTCCGACTTTATTTCCAAAATACTGATTTTTCCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACTCCGACTTTATTTCCAAAACACT-AATTTTCCACAATCGGGGATACTCCAA
* *
512870 CCTCAG-TTTTATTTTC-AAAACACCAATTTTTC-CTTTAATCGGGGATACTCCAAC
65 -CTCAGATTTTATTTCCAAAAACACCAAATTTTCAC---AATCGGGGATACTCCAAC
512924 TCCGATTTTA
Statistics
Matches: 102, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
130 1 0.01
131 15 0.15
133 18 0.18
135 31 0.30
136 33 0.32
137 4 0.04
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (131 bp):
GGGGATACTCCAACTCCGACTTTATTTCCAAAACACTAATTTTCCACAATCGGGGATACTCCAAC
TCAGATTTTATTTCCAAAAACACCAAATTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCG
A
Found at i:513170 original size:78 final size:79
Alignment explanation
Indices: 512988--513191 Score: 241
Period size: 79 Copynumber: 2.6 Consensus size: 79
512978 CGTTAATCAT
* *
512988 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGACACTCCAACCCCGGCTTTATTCCCAAAATAC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGACTTTATTCCCAAAATAC
* * *
513053 TGATTTCTCATAAT
66 TAATTTCTCACAAC
* * * * * * * *
513067 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGATTTTTTTTCTAATCAT-
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGACTTTATTCCCAA-AATA
513131 C-AATTTCTCACAAC
65 CTAATTTCTCACAAC
* * *
513145 CGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCG
513192 TTATTATCTC
Statistics
Matches: 105, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
78 51 0.49
79 52 0.50
80 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGACACTCCAACCCCGACTTTATTCCCAAAATAC
TAATTTCTCACAAC
Found at i:518377 original size:9 final size:10
Alignment explanation
Indices: 518359--518403 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
518349 AGTTTATTTG
518359 TTTTTATTAT
1 TTTTTATTAT
518369 TTTTT-TTAT
1 TTTTTATTAT
518378 TTTTTA-T-T
1 TTTTTATTAT
* *
518386 TTTTTATAAC
1 TTTTTATTAT
518396 TTTTTATT
1 TTTTTATT
518404 TTATTTCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
8 7 0.24
9 10 0.34
10 12 0.41
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:518389 original size:18 final size:18
Alignment explanation
Indices: 518365--518405 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
518355 TTTGTTTTTA
*
518365 TTATTTTTTT-T-ATTTT
1 TTATTTTTTTATAACTTT
518381 TTATTTTTTTATAACTTT
1 TTATTTTTTTATAACTTT
518399 TTATTTT
1 TTATTTT
518406 ATTTCTGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 1 0.05
18 11 0.50
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (18 bp):
TTATTTTTTTATAACTTT
Found at i:518399 original size:19 final size:16
Alignment explanation
Indices: 518360--518405 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
518350 GTTTATTTGT
518360 TTTTATTATTTTTTTTA
1 TTTT-TTATTTTTTTTA
518377 TTTTTTATTTTTTTATAA
1 TTTTTTATTTTTTT-T-A
*
518395 CTTTTTATTTT
1 TTTTTTATTTT
518406 ATTTCTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 10 0.38
17 5 0.19
18 11 0.42
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTATTTTTTTTA
Found at i:518671 original size:22 final size:21
Alignment explanation
Indices: 518619--518672 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
518609 TTTATTTCAT
* *
518619 TTATTTTTTTGTATTTTTTTG
1 TTATTTTTTTGTATTTTATTA
*
518640 TCTCTTTTTTTGTATTTTATTA
1 T-TATTTTTTTGTATTTTATTA
518662 TTATTATTTTT
1 TTATT-TTTTT
518673 TTAAAAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.13, C:0.04, G:0.06, T:0.78
Consensus pattern (21 bp):
TTATTTTTTTGTATTTTATTA
Found at i:519727 original size:14 final size:14
Alignment explanation
Indices: 519708--519769 Score: 76
Period size: 14 Copynumber: 4.6 Consensus size: 14
519698 AAATTTTATC
519708 TTAATTTTTA-AATT
1 TTAATTTTTATAA-T
519722 TTAATTTTTATAAT
1 TTAATTTTTATAAT
*
519736 TTAATTTTT-TTA-
1 TTAATTTTTATAAT
519748 TTAATTTTTATAAT
1 TTAATTTTTATAAT
*
519762 ATAATTTT
1 TTAATTTT
519770 ACGAATTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
12 9 0.21
13 4 0.10
14 27 0.64
15 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTAATTTTTATAAT
Found at i:520318 original size:36 final size:36
Alignment explanation
Indices: 520278--520354 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 36
520268 CTGGCAACAA
* * *
520278 AGCAACATGAGGAATAAATCTGTAACAGCTACTGGC
1 AGCAACATAAGGAATAAATCGGCAACAGCTACTGGC
* *
520314 AGCAACGTAAGGAATAAATCGGCAACAGCTACTGGT
1 AGCAACATAAGGAATAAATCGGCAACAGCTACTGGC
520350 AGCAA
1 AGCAA
520355 GGAGGAGAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (36 bp):
AGCAACATAAGGAATAAATCGGCAACAGCTACTGGC
Found at i:520792 original size:24 final size:24
Alignment explanation
Indices: 520747--520793 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
520737 AAATGGCAGC
* *
520747 AAGAAAGGAGAAAGCTATGTGAAT
1 AAGAAAGGAGAAAGCAACGTGAAT
520771 AAGAAAGGA-AGAAGCAACGTGAA
1 AAGAAAGGAGA-AAGCAACGTGAA
520794 AAATGAACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.53, C:0.06, G:0.30, T:0.11
Consensus pattern (24 bp):
AAGAAAGGAGAAAGCAACGTGAAT
Found at i:524941 original size:44 final size:43
Alignment explanation
Indices: 524806--524952 Score: 135
Period size: 44 Copynumber: 3.4 Consensus size: 43
524796 GATGACATTG
* * *
524806 GCATTTGCATCATTTCATATACC-TTGCCATTTTATTGATGCTT
1 GCATTTGCATCATTTCACAT-CCATTGCCATTTTATAGATACTT
* * *
524849 ACATTTACATTATTTCACA--CACTTG-CA-TTT-TAGATAACATT
1 GCATTTGCATCATTTCACATCCA-TTGCCATTTTATAGAT-AC-TT
*
524890 GGCATTTGCATCAGTTCACATCCATTTGCCATTTTATAGATACTT
1 -GCATTTGCATCATTTCACATCCA-TTGCCATTTTATAGATACTT
524935 GCATTTGCATCATTTCAC
1 GCATTTGCATCATTTCAC
524953 GCAAATGTGC
Statistics
Matches: 82, Mismatches: 12, Indels: 19
0.73 0.11 0.17
Matches are distributed among these distances:
39 4 0.05
40 5 0.06
41 4 0.05
42 18 0.22
43 15 0.18
44 22 0.27
45 4 0.05
46 5 0.06
47 5 0.06
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.42
Consensus pattern (43 bp):
GCATTTGCATCATTTCACATCCATTGCCATTTTATAGATACTT
Found at i:525100 original size:178 final size:173
Alignment explanation
Indices: 524793--525129 Score: 417
Period size: 178 Copynumber: 1.9 Consensus size: 173
524783 CAAATTGGGA
* * * *
524793 TTAGATGACATTGGCATTTGCATCATTTCATATACCTTGCCATTTTATTGATGCTTACATTTACA
1 TTAGATGACATTGGAATTTACATCATCTCATATACCTTGCCATTTTATTGAAGCTTACATTTACA
** *
524858 TTATTTCACACACTTGCATTTTAGATAACATTGGCATTTGCATCAGTTCACATCCATTTGCCATT
66 TTATTTCACACACTTGCACATTAGATAACATTGGCATTTGCATCAGTTCACATCCATCTGCCATT
*
524923 TTA-TAGATACTTGCATTTGCATCATTTCACGCAAATGTGCATT
131 TTATTA-ATACTTGCATTTACATCATTTCACGCAAATGTGCATT
* * * * * *
524966 TTAGATGACATTGGAATTTACATTATCTCCTATGCATTTGCCATTTTTATTGAAGCTTGCATTTG
1 TTAGATGACATTGGAATTTACATCATCTCATATAC-CTTGCCA-TTTTATTGAAGCTTACATTTA
* * * * *
525031 CATTTTTTCACACACATCTGCACCATTAGATGACATTGGTATTTGCATCA-TCTCATATGCATCT
64 CATTATTTCACACAC-T-TGCA-CATTAGATAACATTGGCATTTGCATCAGT-TCACATCCATCT
*
525095 GCCATTTTATTAATTCTTGCATTTACATCATTTCA
125 GCCATTTTATTAATACTTGCATTTACATCATTTCA
525130 TGTGCATCTG
Statistics
Matches: 137, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
173 29 0.21
174 6 0.04
175 32 0.23
176 1 0.01
177 5 0.04
178 62 0.45
179 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (173 bp):
TTAGATGACATTGGAATTTACATCATCTCATATACCTTGCCATTTTATTGAAGCTTACATTTACA
TTATTTCACACACTTGCACATTAGATAACATTGGCATTTGCATCAGTTCACATCCATCTGCCATT
TTATTAATACTTGCATTTACATCATTTCACGCAAATGTGCATT
Found at i:525116 original size:89 final size:88
Alignment explanation
Indices: 524792--525156 Score: 337
Period size: 89 Copynumber: 4.1 Consensus size: 88
524782 CCAAATTGGG
* * * * *
524792 ATTAGATGACATTGGCATTTGCATCATTTCATATAC-CTTGCCATTTTATTGATGCTTACATTTA
1 ATTAGATGACATTGGCATTTGCATCATCTCATATGCATTTGCCATTTTATTAATGCTTGCATTTA
* *
524856 CATTATTTCACACAC-T-TGCAT
66 CATCATTTCACACACATCTGCAC
* * * * *
524877 TTTAGATAACATTGGCATTTGCATCAGT-TCACATCCATTTGCCATTTTA-TAGATACTTGCATT
1 ATTAGATGACATTGGCATTTGCATCA-TCTCATATGCATTTGCCATTTTATTA-ATGCTTGCATT
* * * * *
524940 TGCATCATTTCACGCAAATGTGCAT
64 TACATCATTTCACACACATCTGCAC
* * * * *
524965 TTTAGATGACATTGGAATTTACATTATCTCCTATGCATTTGCCATTTTTATTGAA-GCTTGCATT
1 ATTAGATGACATTGGCATTTGCATCATCTCATATGCATTTGCCA-TTTTATT-AATGCTTGCATT
* **
525029 TGCATTTTTTCACACACATCTGCACC
64 TACATCATTTCACACACATCTGCA-C
* * *
525055 ATTAGATGACATTGGTATTTGCATCATCTCATATGCATCTGCCATTTTATTAATTCTTGCATTTA
1 ATTAGATGACATTGGCATTTGCATCATCTCATATGCATTTGCCATTTTATTAATGCTTGCATTTA
****
525120 CATCATTTCATGTGCATCTGCACC
66 CATCATTTCACACACATCTGCA-C
*
525144 ATTTGATGACATT
1 ATTAGATGACATT
525157 CATACTTGCC
Statistics
Matches: 228, Mismatches: 41, Indels: 18
0.79 0.14 0.06
Matches are distributed among these distances:
85 31 0.14
86 34 0.15
87 2 0.01
88 42 0.18
89 78 0.34
90 40 0.18
91 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.41
Consensus pattern (88 bp):
ATTAGATGACATTGGCATTTGCATCATCTCATATGCATTTGCCATTTTATTAATGCTTGCATTTA
CATCATTTCACACACATCTGCAC
Found at i:525740 original size:14 final size:13
Alignment explanation
Indices: 525714--525785 Score: 67
Period size: 13 Copynumber: 5.3 Consensus size: 13
525704 CCATGTCCCC
525714 AAAAAAAAGTAAA
1 AAAAAAAAGTAAA
525727 AAGTAAAAAA-TAAA
1 AA--AAAAAAGTAAA
525741 TAAAAAAAAGTAAA
1 -AAAAAAAAGTAAA
* *
525755 CAAAAAAA-CAAA
1 AAAAAAAAGTAAA
525767 AAAAAGAAAGTGAAA
1 AAAAA-AAAGT-AAA
525782 AAAA
1 AAAA
525786 GAGCAAAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
12 7 0.15
13 18 0.38
14 8 0.17
15 15 0.31
ACGTcount: A:0.81, C:0.03, G:0.08, T:0.08
Consensus pattern (13 bp):
AAAAAAAAGTAAA
Found at i:525747 original size:13 final size:14
Alignment explanation
Indices: 525713--525762 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
525703 CCCATGTCCC
525713 CAAAAAAAAGTAAA
1 CAAAAAAAAGTAAA
525727 -AAGTAAAAAA-TAAA
1 CAA--AAAAAAGTAAA
*
525741 TAAAAAAAAGTAAA
1 CAAAAAAAAGTAAA
525755 CAAAAAAA
1 CAAAAAAA
525763 CAAAAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
13 8 0.26
14 15 0.48
15 8 0.26
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (14 bp):
CAAAAAAAAGTAAA
Found at i:525750 original size:21 final size:22
Alignment explanation
Indices: 525724--525772 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
525714 AAAAAAAAGT
* *
525724 AAAAAGTAAA-AAATAAATAAA
1 AAAAAGTAAACAAAAAAACAAA
525745 AAAAAGTAAACAAAAAAACAAA
1 AAAAAGTAAACAAAAAAACAAA
525767 AAAAAG
1 AAAAAG
525773 AAAGTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.82, C:0.04, G:0.06, T:0.08
Consensus pattern (22 bp):
AAAAAGTAAACAAAAAAACAAA
Found at i:525760 original size:26 final size:24
Alignment explanation
Indices: 525731--525796 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 24
525721 AGTAAAAAGT
*
525731 AAAAAATAAATAAAAAAAAGTAAACA
1 AAAAAACAAA-AAAAAAAAGTAAA-A
525757 AAAAAACAAAAAAAAGAAAGTGAAAA
1 AAAAAACAAAAAAAA-AAAGT-AAAA
* *
525783 AAAGAGCAAAAAAA
1 AAAAAACAAAAAAA
525797 CACAAAAACA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.14
26 27 0.77
27 3 0.09
ACGTcount: A:0.80, C:0.05, G:0.09, T:0.06
Consensus pattern (24 bp):
AAAAAACAAAAAAAAAAAGTAAAA
Found at i:525827 original size:11 final size:11
Alignment explanation
Indices: 525811--525835 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
525801 AAAACAAAAA
525811 AAATGAAAATG
1 AAATGAAAATG
525822 AAATGAAAATG
1 AAATGAAAATG
525833 AAA
1 AAA
525836 AACGAGGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (11 bp):
AAATGAAAATG
Found at i:526837 original size:13 final size:13
Alignment explanation
Indices: 526804--526839 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
526794 TTTATTAGAC
*
526804 TTCACATCATGCA
1 TTCACATTATGCA
526817 TTCAACATTATGCA
1 TTC-ACATTATGCA
526831 TTCACATTA
1 TTCACATTA
526840 CCATCATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (13 bp):
TTCACATTATGCA
Found at i:527652 original size:32 final size:32
Alignment explanation
Indices: 527506--527782 Score: 135
Period size: 32 Copynumber: 8.7 Consensus size: 32
527496 CACACCTCTG
* *
527506 GTGGCAA-CCCTTTCCTAAAGCCCATATAAGTC-
1 GTGGCAATCCCTTT-C-AAAGCCCACACAAGTCA
* **
527538 GATGGCAAT-CCTTTTAAAGCTTACACAAGTCA
1 G-TGGCAATCCCTTTCAAAGCCCACACAAGTCA
* *** * **
527570 GTGGCAA-CTCTTTCCTAAAATGCACAAAAGTTG
1 GTGGCAATCCCTTT-C-AAAGCCCACACAAGTCA
** *
527603 GT-GCAA-CCC-TTCAAAAGCTTACACAAGTCG
1 GTGGCAATCCCTTTC-AAAGCCCACACAAGTCA
* * *
527633 GTGGCAATCCCTTTCAAAGCCCATATATGTCA
1 GTGGCAATCCCTTTCAAAGCCCACACAAGTCA
*
527665 GTGGTAATCCCTTTCAAAGCCCACACAAGTCA
1 GTGGCAATCCCTTTCAAAGCCCACACAAGTCA
** * ** *
527697 GTGGCAA-CTTTCTTAAAAGCCCACGTAAGTTA
1 GTGGCAATCCCT-TTCAAAGCCCACACAAGTCA
* * *
527729 GTGGCAA-CCTTCTTAAAAGCCTACACAAGTCA
1 GTGGCAATCCCT-TTCAAAGCCCACACAAGTCA
*
527761 GTGGC-ATCTCC-TTCTAAGCCCA
1 GTGGCAATC-CCTTTCAAAGCCCA
527783 ATGTTGTTGT
Statistics
Matches: 185, Mismatches: 48, Indels: 25
0.72 0.19 0.10
Matches are distributed among these distances:
30 14 0.08
31 39 0.21
32 105 0.57
33 27 0.15
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (32 bp):
GTGGCAATCCCTTTCAAAGCCCACACAAGTCA
Found at i:527736 original size:127 final size:125
Alignment explanation
Indices: 527505--527782 Score: 300
Period size: 127 Copynumber: 2.2 Consensus size: 125
527495 TCACACCTCT
* **
527505 GGTGGCAA-CCCTTTCCTAAAGCCCATATAAGTCGATGGCAATCCTTTTAAAGCTTACACAAGTC
1 GGTGGCAATCCCTTT-C-AAAGCCCATATAAGTCGATGGCAATCCTTTCAAAGCCCACACAAGTC
* *
527569 AGTGGCAACTCTTTCCTAAAATGCACAAAAGTTGGTGCAACCCTTC-AAAAGCTTACACAAGTC
64 AGTGGCAAC-CTTTCCTAAAATGCACAAAAGTTAGTGCAA-CCTTCTAAAAGCCTACACAAGTC
* *
527632 GGTGGCAATCCCTTTCAAAGCCCATATATGTC-AGTGGTAATCCCTTTCAAAGCCCACACAAGTC
1 GGTGGCAATCCCTTTCAAAGCCCATATAAGTCGA-TGGCAAT-CCTTTCAAAGCCCACACAAGTC
* **
527696 AGTGGCAA-CTTTCTTAAAA-GCCCACGTAAGTTAGTGGCAACCTTCTTAAAAGCCTACACAAGT
64 AGTGGCAACCTTTCCTAAAATG--CACAAAAGTTAGT-GCAACCTTC-TAAAAGCCTACACAAGT
527759 C
125 C
* *
527760 AGTGGC-ATCTCC-TTCTAAGCCCA
1 GGTGGCAATC-CCTTTCAAAGCCCA
527783 ATGTTGTTGT
Statistics
Matches: 130, Mismatches: 12, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
124 1 0.01
125 11 0.08
126 36 0.28
127 53 0.41
128 29 0.22
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (125 bp):
GGTGGCAATCCCTTTCAAAGCCCATATAAGTCGATGGCAATCCTTTCAAAGCCCACACAAGTCAG
TGGCAACCTTTCCTAAAATGCACAAAAGTTAGTGCAACCTTCTAAAAGCCTACACAAGTC
Found at i:527913 original size:52 final size:49
Alignment explanation
Indices: 527845--527980 Score: 128
Period size: 52 Copynumber: 2.7 Consensus size: 49
527835 AAGTTCAATG
* * *
527845 TCACTGGCCTTAAATCAGCACATTGGCACTCTTCTCATCTTTAAGTCTGAAA
1 TCACTGGCCTTGAATCAGCACATTGGCACT-TTCTCATCTTTAAGCCCG--A
* * ** *
527897 TCACTGACCTTGAATCAGGATGTTGGCACTTTCATCATTTTTAAGCCCGA
1 TCACTGGCCTTGAATCAGCACATTGGCACTTTC-TCATCTTTAAGCCCGA
* *
527947 TGCTGCTGGCCTTGAATTAGCACATTGGCACTTT
1 T-C-ACTGGCCTTGAATCAGCACATTGGCACTTT
527981 TCTCGTCCTT
Statistics
Matches: 67, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
50 2 0.03
51 4 0.06
52 61 0.91
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (49 bp):
TCACTGGCCTTGAATCAGCACATTGGCACTTTCTCATCTTTAAGCCCGA
Found at i:528033 original size:61 final size:60
Alignment explanation
Indices: 527930--528150 Score: 181
Period size: 61 Copynumber: 3.8 Consensus size: 60
527920 TGGCACTTTC
* *
527930 ATCATTTTTAAGCCCGATG-CTGCTGGCCTTGAATTAGCACATTGGCACTTTTCTCGTCCTT
1 ATCATTTTTAAGCCCAATGTC-GCTGGCCTTGAATCAGCACATTGGCACTTTTCTC-TCCTT
* *
527991 ATCATTTTTAAGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCA--TTT-T-T-CTT
1 ATCATTTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTTCTCTCCTT
* * * * * * *
528046 GTC---TTCAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGAACTCTTCTCATCCTT
1 ATCATTTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTTCTC-TCCTT
* * * * * * * *
528104 ATTATCTTTAAGCCCAATATTGTTGGCCCTGAATCAGTATATTGGCA
1 ATCATTTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
528151 ACCTTCATCT
Statistics
Matches: 126, Mismatches: 24, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
52 36 0.29
54 2 0.02
55 6 0.05
56 1 0.01
57 1 0.01
58 5 0.04
59 3 0.02
61 71 0.56
62 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (60 bp):
ATCATTTTTAAGCCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACTTTTCTCTCCTT
Found at i:528735 original size:20 final size:21
Alignment explanation
Indices: 528691--528741 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
528681 TTCTATAACC
* *
528691 TGTATCGATACAATTAGTGAA
1 TGTATCGATACAATAAGTCAA
528712 TGTATCGATAC-ATAAGTCAA
1 TGTATCGATACAATAAGTCAA
528732 TGTATCGATA
1 TGTATCGATA
528742 AATGTCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (21 bp):
TGTATCGATACAATAAGTCAA
Found at i:528930 original size:52 final size:52
Alignment explanation
Indices: 528800--528935 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 52
528790 TTTGAAACAA
* *
528800 AAATGTATCGATACATT-TTTATTATATCGATACATTATGGGTTTTTAACCC
1 AAATGTATCGATACATTCTTTATTGTATCGATACATTATGAGTTTTTAACCC
* * * * *
528851 AAATGTATCGATATATTCTTCATTGTATCGATACATTCTGAGTTTTTGACCT
1 AAATGTATCGATACATTCTTTATTGTATCGATACATTATGAGTTTTTAACCC
* * * *
528903 AAATGAATCAATACATTCTTTAATGTATTGATA
1 AAATGTATCGATACATTCTTTATTGTATCGATA
528936 AATGAAGGCA
Statistics
Matches: 71, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 16 0.23
52 55 0.77
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTTATTGTATCGATACATTATGAGTTTTTAACCC
Found at i:530780 original size:18 final size:18
Alignment explanation
Indices: 530757--530805 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
530747 TATTTTTTTC
530757 AAGAATACAAAAAAAAGA
1 AAGAATACAAAAAAAAGA
530775 AAGAATACAAAAAAAAGA
1 AAGAATACAAAAAAAAGA
530793 AAGAATACAAAAA
1 AAGAATACAAAAA
530806 GAGAGGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.78, C:0.06, G:0.10, T:0.06
Consensus pattern (18 bp):
AAGAATACAAAAAAAAGA
Found at i:531597 original size:9 final size:9
Alignment explanation
Indices: 531562--531643 Score: 70
Period size: 9 Copynumber: 9.8 Consensus size: 9
531552 AAGAGAAAGA
531562 AGAGATAGG
1 AGAGATAGG
*
531571 AGGGAT--G
1 AGAGATAGG
*
531578 ATAGA-AGG
1 AGAGATAGG
531586 AGAGATAGG
1 AGAGATAGG
*
531595 AGAGATAGT
1 AGAGATAGG
531604 AGAGATAGG
1 AGAGATAGG
*
531613 AGGGAT-GG
1 AGAGATAGG
531621 TAG-G--AGG
1 -AGAGATAGG
531628 AGAGATAGG
1 AGAGATAGG
531637 AGAGATA
1 AGAGATA
531644 ATAGAGAGAG
Statistics
Matches: 58, Mismatches: 7, Indels: 16
0.72 0.09 0.20
Matches are distributed among these distances:
6 2 0.03
7 7 0.12
8 8 0.14
9 41 0.71
ACGTcount: A:0.41, C:0.00, G:0.45, T:0.13
Consensus pattern (9 bp):
AGAGATAGG
Found at i:531606 original size:24 final size:24
Alignment explanation
Indices: 531562--531648 Score: 71
Period size: 24 Copynumber: 3.9 Consensus size: 24
531552 AAGAGAAAGA
*
531562 AGAGATAGGAGGGAT-GATAGAAGG
1 AGAGATAGGAGAGATAG-TAGAAGG
531586 AGAGATAGGAGAGATAGT------
1 AGAGATAGGAGAGATAGTAGAAGG
* * *
531604 AGAGATAGGAGGGATGGTAGGAGG
1 AGAGATAGGAGAGATAGTAGAAGG
*
531628 AGAGATAGGAGAGATAATAGA
1 AGAGATAGGAGAGATAGTAGA
531649 GAGAGGAGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
18 16 0.33
24 32 0.65
25 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.44, T:0.14
Consensus pattern (24 bp):
AGAGATAGGAGAGATAGTAGAAGG
Found at i:531612 original size:42 final size:42
Alignment explanation
Indices: 531553--531671 Score: 184
Period size: 42 Copynumber: 2.8 Consensus size: 42
531543 TAGCCCTCAA
* * *
531553 AGAGAAAGAAGAGATAGGAGGGATGATAGAAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
*
531595 AGAGATAGTAGAGATAGGAGGGATGGTAGGAGGAGAGATAGG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
* *
531637 AGAGATAATAGAGAGAGGAGGGATGATAGGAGGAG
1 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAG
531672 GAGAGAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.43, C:0.00, G:0.45, T:0.12
Consensus pattern (42 bp):
AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGATAGG
Found at i:531655 original size:18 final size:18
Alignment explanation
Indices: 531628--531677 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
531618 TGGTAGGAGG
*
531628 AGAGATAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
531646 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
531664 AG-GAGGAGGAGAGA
1 AGAGA-GAGGAGAGA
531678 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.44, C:0.00, G:0.46, T:0.10
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:538082 original size:70 final size:69
Alignment explanation
Indices: 537930--538083 Score: 157
Period size: 70 Copynumber: 2.2 Consensus size: 69
537920 TATTCATCGG
* * * **
537930 GGATACTCTAACCTTATTTTTAAACTTATCAAGATTTAAACCTTATTCTTACTTAAATCATCATC
1 GGATACTCCAACCCTATTTTTAAACTTATCAAGATTTAAACCTTATTCTCACCCAAATCATCATC
537995 ATCA
66 ATCA
* * * * * **
537999 GCATTACTGCAACCCTATTTTTAAACTTGTCAAGATTTAAATCTTCATT-TCGCCCAAATTGTCA
1 GGA-TACTCCAACCCTATTTTTAAACTTATCAAGATTTAAACCTT-ATTCTCACCCAAATCATCA
*
538063 TCTTCGA
64 TCATC-A
538070 GGATACTCCAACCC
1 GGATACTCCAACCC
538084 CATTCCTCTA
Statistics
Matches: 67, Mismatches: 15, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
69 2 0.03
70 59 0.88
71 6 0.09
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.37
Consensus pattern (69 bp):
GGATACTCCAACCCTATTTTTAAACTTATCAAGATTTAAACCTTATTCTCACCCAAATCATCATC
ATCA
Found at i:543374 original size:294 final size:294
Alignment explanation
Indices: 542845--543428 Score: 1123
Period size: 294 Copynumber: 2.0 Consensus size: 294
542835 CTAGCTGATT
542845 TGATAACCCTTGATCAGAAAGAACCAAGGAAGACAAAAGGTCAAAAGTCCACCATGATTATGGAA
1 TGATAACCCTTGATCAGAAAGAACCAAGGAAGACAAAAGGTCAAAAGTCCACCATGATTATGGAA
542910 GAAGTGAATAAGTTCCAGCTATTAGAAAAATCACTCTGAGCTATTGAAGGGAGTGATTAATTCAA
66 GAAGTGAATAAGTTCCAGCTATTAGAAAAATCACTCTGAGCTATTGAAGGGAGTGATTAATTCAA
*
542975 AGCTCTTGAGACAGAGTCGTTGTCTTTGGTGTCCAACCTTGTCATTCCCCCAAACTTCAAGGTCC
131 AGCTCTTGACACAGAGTCGTTGTCTTTGGTGTCCAACCTTGTCATTCCCCCAAACTTCAAGGTCC
*
543040 CAGAGTTTGGAAAATTCAATCGAACCACCGACCTTTCTATCCATGTTCGAATGTACTTACGAAAG
196 CAGAGTTTGAAAAATTCAATCGAACCACCGACCTTTCTATCCATGTTCGAATGTACTTACGAAAG
543105 ATGGCTAGGTATGAGAAAGATGAAAAGCTGGGTA
261 ATGGCTAGGTATGAGAAAGATGAAAAGCTGGGTA
543139 TGATAACCCTTGATCAGAAAGAACCAAGGAAGACAAAAGGTCAAAAGTCCACCATGATTATGGAA
1 TGATAACCCTTGATCAGAAAGAACCAAGGAAGACAAAAGGTCAAAAGTCCACCATGATTATGGAA
*
543204 GAAGTGAATAAGTTCCAGCTATTAGAAAAATCGCTCTGAGCTATTGAAGGGAGTGATTAATTCAA
66 GAAGTGAATAAGTTCCAGCTATTAGAAAAATCACTCTGAGCTATTGAAGGGAGTGATTAATTCAA
*
543269 AGCTCTTGACACGGAGTCGTTGTCTTTGGTGTCCAACCTTGTCATTCCCCCAAACTTCAAGGTCC
131 AGCTCTTGACACAGAGTCGTTGTCTTTGGTGTCCAACCTTGTCATTCCCCCAAACTTCAAGGTCC
543334 CAGAGTTTGAAAAATTCAATCGAACCACCGACCTTTCTATCCATGTTCGAATGTACTTACGAAAG
196 CAGAGTTTGAAAAATTCAATCGAACCACCGACCTTTCTATCCATGTTCGAATGTACTTACGAAAG
*
543399 ATGGCTGGGTATGAGAAAGATGAAAAGCTG
261 ATGGCTAGGTATGAGAAAGATGAAAAGCTG
543429 TTTATCCATT
Statistics
Matches: 285, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
294 285 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (294 bp):
TGATAACCCTTGATCAGAAAGAACCAAGGAAGACAAAAGGTCAAAAGTCCACCATGATTATGGAA
GAAGTGAATAAGTTCCAGCTATTAGAAAAATCACTCTGAGCTATTGAAGGGAGTGATTAATTCAA
AGCTCTTGACACAGAGTCGTTGTCTTTGGTGTCCAACCTTGTCATTCCCCCAAACTTCAAGGTCC
CAGAGTTTGAAAAATTCAATCGAACCACCGACCTTTCTATCCATGTTCGAATGTACTTACGAAAG
ATGGCTAGGTATGAGAAAGATGAAAAGCTGGGTA
Found at i:543756 original size:19 final size:19
Alignment explanation
Indices: 543732--543769 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
543722 TATGAGAAGC
543732 TCATAGGGAATGCCACTAA
1 TCATAGGGAATGCCACTAA
543751 TCATAGGGAATGCCACTAA
1 TCATAGGGAATGCCACTAA
543770 AAAATTAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (19 bp):
TCATAGGGAATGCCACTAA
Found at i:544902 original size:65 final size:65
Alignment explanation
Indices: 544793--544924 Score: 221
Period size: 65 Copynumber: 2.0 Consensus size: 65
544783 TCCTGAGGCT
* *
544793 AGTTATTCGACACCTACACTAAAATTAGTCAAGGTACTTAAACCATT-TCCATATAAGAGTAACA
1 AGTTATTCGACACCTACAATAAAATTAGTCAAGGTACCTAAACCATTCT-CATATAAGAGTAACA
544857 A
65 A
*
544858 AGTTCTTCGACACCTACAATAAAATTAGTCAAGGTACCTAAACCATTCTCATATAAGAGTAACAA
1 AGTTATTCGACACCTACAATAAAATTAGTCAAGGTACCTAAACCATTCTCATATAAGAGTAACAA
544923 AG
1 AG
544925 CTATCCCTTG
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
65 62 0.98
66 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (65 bp):
AGTTATTCGACACCTACAATAAAATTAGTCAAGGTACCTAAACCATTCTCATATAAGAGTAACAA
Found at i:551152 original size:15 final size:15
Alignment explanation
Indices: 551132--551162 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
551122 ACAAATTGCA
551132 ATCCCTAGTAGAGTC
1 ATCCCTAGTAGAGTC
551147 ATCCCTAGTAGAGTC
1 ATCCCTAGTAGAGTC
551162 A
1 A
551163 AGAAACTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (15 bp):
ATCCCTAGTAGAGTC
Found at i:551914 original size:28 final size:28
Alignment explanation
Indices: 551883--552057 Score: 190
Period size: 28 Copynumber: 6.2 Consensus size: 28
551873 CATGACTCAA
*
551883 TGGCACCCTCTCAAAGCCCAAAAGTTAG
1 TGGCACCCTCTCAAAGCCCACAAGTTAG
* * * * * *
551911 TGGCACCTTTTTAAATCCCACAAGTCAA
1 TGGCACCCTCTCAAAGCCCACAAGTTAG
*
551939 TGGCACCCTCTCAAAGCCCAAAAGTT-G
1 TGGCACCCTCTCAAAGCCCACAAGTTAG
*
551966 ATGGCATCCCCTCTCAAAGCCCACAAGTCAG
1 -TGGCA--CCCTCTCAAAGCCCACAAGTTAG
* *
551997 TGACACTCTCTCAAAGCCCACAAGTTAG
1 TGGCACCCTCTCAAAGCCCACAAGTTAG
* * *
552025 TGGCACCCTCTCAAAGGCCATAAGTTGG
1 TGGCACCCTCTCAAAGCCCACAAGTTAG
552053 TGGCA
1 TGGCA
552058 ACCTTTTTCT
Statistics
Matches: 119, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
28 95 0.80
30 23 0.19
31 1 0.01
ACGTcount: A:0.30, C:0.32, G:0.18, T:0.21
Consensus pattern (28 bp):
TGGCACCCTCTCAAAGCCCACAAGTTAG
Found at i:551945 original size:56 final size:56
Alignment explanation
Indices: 551879--552049 Score: 218
Period size: 56 Copynumber: 3.0 Consensus size: 56
551869 AGTTCATGAC
* * * *
551879 TCAATGGCACCCTCTCAAAGCCCAAAAGTTAGTGGCACCTTTTTAAATCCCACAAG
1 TCAATGGCACCCTCTCAAAGCCCAAAAGTTAGTGGCACCCTCTCAAAGCCCACAAG
551935 TCAATGGCACCCTCTCAAAGCCCAAAAGTT-GATGGCATCCCCTCTCAAAGCCCACAAG
1 TCAATGGCACCCTCTCAAAGCCCAAAAGTTAG-TGGCA--CCCTCTCAAAGCCCACAAG
* * * * * *
551993 TCAGTGACACTCTCTCAAAGCCCACAAGTTAGTGGCACCCTCTCAAAGGCCATAAG
1 TCAATGGCACCCTCTCAAAGCCCAAAAGTTAGTGGCACCCTCTCAAAGCCCACAAG
552049 T
1 T
552050 TGGTGGCAAC
Statistics
Matches: 101, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
55 1 0.01
56 53 0.52
58 46 0.46
59 1 0.01
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (56 bp):
TCAATGGCACCCTCTCAAAGCCCAAAAGTTAGTGGCACCCTCTCAAAGCCCACAAG
Found at i:552018 original size:86 final size:86
Alignment explanation
Indices: 551888--552057 Score: 225
Period size: 86 Copynumber: 2.0 Consensus size: 86
551878 CTCAATGGCA
* * * * *
551888 CCCTCTCAAAGCCCAAAAGTTAGTGGCACCTTTTTAAATCCCACAAGTCAATGGCACCCTCTCAA
1 CCCTCTCAAAGCCCAAAAGTCAGTGACACCTTCTCAAAGCCCACAAGTCAATGGCACCCTCTCAA
551953 AGCCCAAAAGTTGATGGCATC
66 AGCCCAAAAGTTGATGGCATC
* * *
551974 CCCTCTCAAAGCCCACAAGTCAGTGACA-CTCTCTCAAAGCCCACAAGTTAGTGGCACCCTCTCA
1 CCCTCTCAAAGCCCAAAAGTCAGTGACACCT-TCTCAAAGCCCACAAGTCAATGGCACCCTCTCA
* * *
552038 AAGGCCATAAGTTGGTGGCA
65 AAGCCCAAAAGTTGATGGCA
552058 ACCTTTTTCT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
85 2 0.03
86 70 0.97
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (86 bp):
CCCTCTCAAAGCCCAAAAGTCAGTGACACCTTCTCAAAGCCCACAAGTCAATGGCACCCTCTCAA
AGCCCAAAAGTTGATGGCATC
Found at i:552140 original size:32 final size:33
Alignment explanation
Indices: 552053--552146 Score: 131
Period size: 31 Copynumber: 2.9 Consensus size: 33
552043 CATAAGTTGG
552053 TGGCAACCTTTTTCTAAAGCCCACACAAGT-TAA
1 TGGCAACCTTTTTC-AAAGCCCACACAAGTCTAA
* * *
552086 AGGTAACCCTTTT-AAAGCCCACACAAGTCT-A
1 TGGCAACCTTTTTCAAAGCCCACACAAGTCTAA
552117 TGGCAACCTTTTTCAAAGCCCACACAAGTC
1 TGGCAACCTTTTTCAAAGCCCACACAAGTC
552147 GGTGGCATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
31 26 0.49
32 17 0.32
33 10 0.19
ACGTcount: A:0.33, C:0.30, G:0.13, T:0.24
Consensus pattern (33 bp):
TGGCAACCTTTTTCAAAGCCCACACAAGTCTAA
Found at i:552406 original size:103 final size:102
Alignment explanation
Indices: 552211--552563 Score: 330
Period size: 103 Copynumber: 3.4 Consensus size: 102
552201 CCCTTATCAT
* * * ** * *
552211 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTCTTCTCATCCTTAAGTCCAAT
1 TTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCCAAT
* ** * ** *
552276 GTTGCTGGCCTTGAATCATTACGTTGGCACTCATCTC
66 ATCACTAGCCTTGAATCAGCACATTGGCACTCATCTC
* * * * * * **
552313 TTTCTATGTCCAATGTCACTAGCCTTGAATCCGTACATTGGCACCTTTGTCATCTTTAAGTCTGA
1 TTT-TAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCCAA
* * * *
552378 TATCGCTAGCCTTGAATCAGCATATTGGCACCTTTATC-A
65 TATCACTAGCCTTGAATCAGCACATTGGCA-C-TCATCTC
* * * *
552417 TTTTAAGCCCAATGTCGCTAGCTTTGAATTAGCACATTGGCACCCTTATCATTTTTAAGTCCAAT
1 TTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCCAAT
* * *
552482 GTCACTAGCCTTGAATCAGCACATTGGCATTCTTCTC
66 ATCACTAGCCTTGAATCAGCACATTGGCACTCATCTC
* * *
552519 ATCTTTAAGTCCAATTTTGCTAGCCTTGAATCAGCATATTGGCAC
1 -T-TTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCAC
552564 TCTTCACATC
Statistics
Matches: 197, Mismatches: 48, Indels: 10
0.77 0.19 0.04
Matches are distributed among these distances:
101 3 0.02
102 3 0.02
103 147 0.75
104 40 0.20
105 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (102 bp):
TTTTAAGTCCAATGTCGCTAGCCTTGAATCAGCACATTGGCACCCTTATCATCTTTAAGTCCAAT
ATCACTAGCCTTGAATCAGCACATTGGCACTCATCTC
Found at i:552479 original size:155 final size:156
Alignment explanation
Indices: 552156--552576 Score: 478
Period size: 155 Copynumber: 2.7 Consensus size: 156
552146 CGGTGGCATT
* * * * *
552156 TCTTTCTAAGTCTAATGTCACT-GACCTTAAATCAATACATTGGCACCCTTATCATTTTTAAGTC
1 TCTTTCTAAGTCCAATGTCACTAG-CCTTGAATCAGTACATTGGCACCTTTATCATCTTTAAGTC
* * * * * *
552220 CAATATCGCTGGCCTTGAATCAGCATATTGGCA-TTCTTCTCATCCTTAAGTCCAATGTTGCTGG
65 CAATATCGCTAGCCTTGAATCAGCATATTGGCACCTCTTATCATCCTTAAGCCCAATGTCGCTAG
** * * *
552284 CCTTGAATCATTACGTTGGCACTCATC
130 CCTTGAATCAGCACATTGGCACCCATA
* * * *
552311 TCTTTCTATGTCCAATGTCACTAGCCTTGAATCCGTACATTGGCACCTTTGTCATCTTTAAGTCT
1 TCTTTCTAAGTCCAATGTCACTAGCCTTGAATCAGTACATTGGCACCTTTATCATCTTTAAGTCC
* *
552376 GATATCGCTAGCCTTGAATCAGCATATTGGCACCT-TTATCAT-TTTAAGCCCAATGTCGCTAGC
66 AATATCGCTAGCCTTGAATCAGCATATTGGCACCTCTTATCATCCTTAAGCCCAATGTCGCTAGC
* * *
552439 TTTGAATTAGCACATTGGCACCCTTA
131 CTTGAATCAGCACATTGGCACCCATA
* * * *
552465 TCATTTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGGCA-TTCTTCTCATCTTTAAGT
1 TC-TTTCTAAGTCCAATGTCACTAGCCTTGAATCAGTACATTGGCACCT-TTATCATCTTTAAGT
* *
552529 CCAATTTTGCTAGCCTTGAATCAGCATATTGGCA-CTCTTCA-CATCCTT
64 CCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTCTT-ATCATCCTT
552577 TTTATCATTT
Statistics
Matches: 223, Mismatches: 36, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
154 40 0.18
155 178 0.80
156 5 0.02
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.36
Consensus pattern (156 bp):
TCTTTCTAAGTCCAATGTCACTAGCCTTGAATCAGTACATTGGCACCTTTATCATCTTTAAGTCC
AATATCGCTAGCCTTGAATCAGCATATTGGCACCTCTTATCATCCTTAAGCCCAATGTCGCTAGC
CTTGAATCAGCACATTGGCACCCATA
Found at i:552568 original size:52 final size:52
Alignment explanation
Indices: 552192--552573 Score: 378
Period size: 52 Copynumber: 7.4 Consensus size: 52
552182 TTAAATCAAT
* * * * *
552192 ACATTGGCACCCTTATCATTTTTAAGTCCAATATCGCTGGCCTTGAATCAGC
1 ACATTGGCACTCTTCTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
* * * * * **
552244 ATATTGGCATTCTTCTCATCCTTAAGTCCAATGTTGCTGGCCTTGAATCATT
1 ACATTGGCACTCTTCTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
* * * * * *
552296 ACGTTGGCACTCATCTC-T-TTCTATGTCCAATGTCACTAGCCTTGAATCCGT
1 ACATTGGCACTCTTCTCATCTT-TAAGTCCAATGTCGCTAGCCTTGAATCAGC
* ** *
552347 ACATTGGCAC-CTTTGTCATCTTTAAGTCTGATATCGCTAGCCTTGAATCAGC
1 ACATTGGCACTC-TTCTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
* * * * *
552399 ATATTGGCAC-CTTTATCAT-TTTAAGCCCAATGTCGCTAGCTTTGAATTAGC
1 ACATTGGCACTC-TTCTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
* * * *
552450 ACATTGGCACCCTTATCATTTTTAAGTCCAATGTCACTAGCCTTGAATCAGC
1 ACATTGGCACTCTTCTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
* * *
552502 ACATTGGCATTCTTCTCATCTTTAAGTCCAATTTTGCTAGCCTTGAATCAGC
1 ACATTGGCACTCTTCTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
* *
552554 ATATTGGCACTCTTCACATC
1 ACATTGGCACTCTTCTCATC
552574 CTTTTTATCA
Statistics
Matches: 270, Mismatches: 54, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
50 2 0.01
51 79 0.29
52 187 0.69
53 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.36
Consensus pattern (52 bp):
ACATTGGCACTCTTCTCATCTTTAAGTCCAATGTCGCTAGCCTTGAATCAGC
Found at i:555071 original size:70 final size:70
Alignment explanation
Indices: 554933--555090 Score: 176
Period size: 70 Copynumber: 2.3 Consensus size: 70
554923 AAAATTTTAT
* * * **
554933 TCATCGGGGATATTCCAACCTCATTTTTAAACTTATCAAGATCTAAACCTTATTCTTACTTAAAT
1 TCATTGGGGATACTCCAACCTCATTTTTAAACTTATCAAGATCTAAACCTTATTCTCACCCAAAT
554998 TGTCA
66 TGTCA
* * * *
555003 TCATTGGGGATACTCCAACC-CTGTTTTTAAACTTTTCAAGATTTAAATCTTAATT-TCACCCAA
1 TCATTGGGGATACTCCAACCTC-ATTTTTAAACTTATCAAGATCTAAACCTT-ATTCTCACCCAA
*
555066 GTTGTCA
64 ATTGTCA
* *
555073 TCTTTAGGGATACTCCAA
1 TCATTGGGGATACTCCAA
555091 ATTCCTTTGA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
69 1 0.01
70 70 0.95
71 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (70 bp):
TCATTGGGGATACTCCAACCTCATTTTTAAACTTATCAAGATCTAAACCTTATTCTCACCCAAAT
TGTCA
Found at i:556494 original size:20 final size:21
Alignment explanation
Indices: 556434--556505 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
556424 TTCAGCAATT
*
556434 TGTATCGATACAATAAG-GTAA
1 TGTATCGATAC-ATAAGTGAAA
556455 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
***
556475 TGTATCGATACATGTTTGAAA
1 TGTATCGATACATAAGTGAAA
556496 TGTATCGATA
1 TGTATCGATA
556506 TAGGACCATG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
20 22 0.48
21 24 0.52
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:556505 original size:21 final size:20
Alignment explanation
Indices: 556434--556487 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 20
556424 TTCAGCAATT
556434 TGTATCGATACAATAAG-GTAA
1 TGTATCGATAC-ATAAGTG-AA
556455 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
556475 TGTATCGATACAT
1 TGTATCGATACAT
556488 GTTTGAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:556652 original size:52 final size:49
Alignment explanation
Indices: 556544--556680 Score: 161
Period size: 52 Copynumber: 2.8 Consensus size: 49
556534 TCTCGACAGA
* *
556544 AAATATATCGAAACATTTTT-ATTA-TATCGATACATTCTAGATTTATCC
1 AAATGTATCGATACATTTTTCA-TAGTATCGATACATTCTAGATTTATCC
* *
556592 AAATGTATCGATACATTTTTCATAGTATCGATACATTTTAGGTTTTTGATCC
1 AAATGTATCGATACATTTTTCATAGTATCGATACATTCTA-G-ATTT-ATCC
* * *
556644 AGATGTATCGATACATTATTCATTGTATCGATACATT
1 AAATGTATCGATACATTTTTCATAGTATCGATACATT
556681 ATTCAATGTA
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
48 20 0.26
49 15 0.19
50 1 0.01
51 3 0.04
52 38 0.49
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.42
Consensus pattern (49 bp):
AAATGTATCGATACATTTTTCATAGTATCGATACATTCTAGATTTATCC
Found at i:556672 original size:20 final size:20
Alignment explanation
Indices: 556646--556699 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
556636 TTTGATCCAG
556646 ATGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
*
556666 TTGTATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
*
556686 ATGTATCAATACAT
1 ATGTATCGATACAT
556700 CCAGTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:560364 original size:89 final size:88
Alignment explanation
Indices: 560171--560490 Score: 293
Period size: 92 Copynumber: 3.6 Consensus size: 88
560161 AATCATATAC
* ** ** * *
560171 CACTAAATGGTATTGGTGCATCACAAAGCCTAATTTCCTTTAGGCAAGGGTGTAGCCCACACATT
1 CACTAGATGGTATTAATGCATCACAAAGCCTAATTTCCTTGGGGCAA-GGTGCAACCCACACATT
* *
560236 CCTAATCATATC-CCTTTCACCCAA
65 CCCAATCATATCTCC-TTCATCCAA
* * * *
560260 CCACTAGATGGTATTAATGTATTACAAAGCTTAATTTCCTTGGGGCAAGGTGCAACCCATACATT
1 -CACTAGATGGTATTAATGCATCACAAAGCCTAATTTCCTTGGGGCAAGGTGCAACCCACACATT
*
560325 CCCAATCATATCTCCTTAATCCAA
65 CCCAATCATATCTCCTTCATCCAA
* * * * * * * * *
560349 TCGCTAGATGGTATTAATACCTCACAAAACCTGATTTTCTTAGGGCATGGATATCCAGA-CCACA
1 -CACTAGATGGTATTAATGCATCACAAAGCCTAATTTCCTTGGGGCAAGG---TGCA-ACCCACA
*
560413 CATTCTCAATCATATCTCCTTCATCCAA
61 CATTCCCAATCATATCTCCTTCATCCAA
* * * *
560441 CTACTAGATGGTATTGATGGATCATAAAGCCTAATTTTCTTGGGGCAAGG
1 C-ACTAGATGGTATTAATGCATCACAAAGCCTAATTTCCTTGGGGCAAGG
560491 ATATCCCAAC
Statistics
Matches: 184, Mismatches: 40, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
89 70 0.38
90 41 0.22
91 1 0.01
92 71 0.39
93 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (88 bp):
CACTAGATGGTATTAATGCATCACAAAGCCTAATTTCCTTGGGGCAAGGTGCAACCCACACATTC
CCAATCATATCTCCTTCATCCAA
Found at i:560439 original size:92 final size:92
Alignment explanation
Indices: 560189--560524 Score: 253
Period size: 92 Copynumber: 3.7 Consensus size: 92
560179 GGTATTGGTG
* * * * * *
560189 CATCACAAAGCCTAATTTCCTTTA-GGCAAGGGTGT--AGCCCACACATTCCTAATCATATC-CC
1 CATCACAAAACCTAATTTTC-TTAGGGCAAGGATATCCAGACCACACATTCCCAATCATATCTCC
* * * *
560250 TTTCACCCAACCACTAGATGGTATTAATG
65 -TTAATCCAACTACTAGATGGTATTAATA
* * * * * * * *
560279 TATTACAAAGCTTAATTTCCTTGGGGCAAGG---TGCA-ACCCATACATTCCCAATCATATCTCC
1 CATCACAAAACCTAATTTTCTTAGGGCAAGGATATCCAGA-CCACACATTCCCAATCATATCTCC
*
560340 TTAATCCAA-TCGCTAGATGGTATTAATA
65 TTAATCCAACT-ACTAGATGGTATTAATA
* * * *
560368 CCTCACAAAACCTGATTTTCTTAGGGCATGGATATCCAGACCACACATTCTCAATCATATCTCCT
1 CATCACAAAACCTAATTTTCTTAGGGCAAGGATATCCAGACCACACATTCCCAATCATATCTCCT
* * *
560433 TCATCCAACTACTAGATGGTATTGATG
66 TAATCCAACTACTAGATGGTATTAATA
* * * * ** *
560460 GATCATAAAGCCTAATTTTCTTGGGGCAAGGATATCCCA-ACCACTTATTCCTAATCATATC-CC
1 CATCACAAAACCTAATTTTCTTAGGGCAAGGATAT-CCAGACCACACATTCCCAATCATATCTCC
560523 TT
65 TT
560525 TCTTTTAGCC
Statistics
Matches: 195, Mismatches: 39, Indels: 23
0.76 0.15 0.09
Matches are distributed among these distances:
87 1 0.01
89 66 0.34
90 26 0.13
91 4 0.02
92 93 0.48
93 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (92 bp):
CATCACAAAACCTAATTTTCTTAGGGCAAGGATATCCAGACCACACATTCCCAATCATATCTCCT
TAATCCAACTACTAGATGGTATTAATA
Found at i:560691 original size:30 final size:29
Alignment explanation
Indices: 560657--560740 Score: 73
Period size: 30 Copynumber: 2.9 Consensus size: 29
560647 CTATACTAAT
*
560657 TCAAGTTTTTCCTCACTTGACTATATTTGA
1 TCAAGTTTTT-CTCACTTGACTATATTCGA
* * *
560687 TCAAGTCTTTCATTA-TTGGACTATACTCGA
1 TCAAGTTTTTC-TCACTT-GACTATATTCGA
* *
560717 TCAAATTTTT-TCGCTTGACTATAT
1 TCAAGTTTTTCTCACTTGACTATAT
560741 CTGGTCAAAC
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
28 8 0.19
29 5 0.12
30 29 0.69
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (29 bp):
TCAAGTTTTTCTCACTTGACTATATTCGA
Found at i:560925 original size:44 final size:43
Alignment explanation
Indices: 560850--561277 Score: 200
Period size: 44 Copynumber: 9.7 Consensus size: 43
560840 ATTCTTTTCA
* * * * * * *
560850 TTCTGATTTGATGCATGGTTACTATCTTGGTCAAATCTGCCTCC
1 TTCTTATTTGACGTATGGTTACCACCCTGGTCAAATCTG-CTCT
*
560894 TTCCTATTTGACGTATGGTTACCACCCTGGTCAAA-CT-CT-T
1 TTCTTATTTGACGTATGGTTACCACCCTGGTCAAATCTGCTCT
* * *
560934 TTCAAGTCAGTTTGATGTA-GTGTTACCACCCTGGTCAAA-C-G-TTT
1 TTC---TTA-TTTGACGTATG-GTTACCACCCTGGTCAAATCTGCTCT
* * *
560978 TTCAAGTTAATTTGACGTAAGGTTACCACCTTGGTCAAACTCTTCTCAT
1 TTC---TT-ATTTGACGTATGGTTACCACCCTGGTCAAA-TCTGCTC-T
* * * * * *
561027 TT-TGATCTGATGTATGGTTACCATCCTGGTTAGAT-T-CT-T
1 TTCTTATTTGACGTATGGTTACCACCCTGGTCAAATCTGCTCT
* * * *
561066 TTCATTATGATTGAACGTATAGTTACCACACTAGTCAAATCTGCCTCC
1 TTC-TTAT--TTG-ACGTATGGTTACCACCCTGGTCAAATCTG-CTCT
* * * *
561114 TTCTTGTCTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCAT
1 TTCTTATTTGACGTATGGTTACCACCCTGGTCAAA-TCTGCTC-T
** * * * *
561159 TTC-GGTCTGACGTATGGTTACCACCCTAGTCAGAT-TCGTTTCAT
1 TTCTTATTTGACGTATGGTTACCACCCTGGTCAAATCT-G-CTC-T
* **
561203 TT-TGATTTGACGTATGGTTACCACCCAAGTCAAATCTGCCTCT
1 TTCTTATTTGACGTATGGTTACCACCCTGGTCAAATCTG-CTCT
* *
561246 TTCTTGTTTGATGTATGGTTACCACCCTGGTC
1 TTCTTATTTGACGTATGGTTACCACCCTGGTC
561278 GAACTCTTCT
Statistics
Matches: 295, Mismatches: 59, Indels: 60
0.71 0.14 0.14
Matches are distributed among these distances:
39 3 0.01
40 3 0.01
41 7 0.02
42 2 0.01
43 12 0.04
44 242 0.82
45 13 0.04
46 1 0.00
47 5 0.02
48 4 0.01
49 3 0.01
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (43 bp):
TTCTTATTTGACGTATGGTTACCACCCTGGTCAAATCTGCTCT
Found at i:561042 original size:132 final size:131
Alignment explanation
Indices: 560902--561330 Score: 361
Period size: 132 Copynumber: 3.3 Consensus size: 131
560892 CCTTCCTATT
* * *
560902 TGACGTATGGTTACCACCCTGGTCAAACTCTTTTCAAGTCA-GTTTG-ATGTAGT-GTTACCACC
1 TGACGTATGGTTACCACCCTGGTCAAACTCTTTTC-A-TCATGATTGAACGTA-TAGTTACCACA
* ** * *
560964 CTGGTCAAA-C-G-TTTTTCAAGTTAATTTGACGTAAGGTTACCACCTTGGTCAAACTCTTCTCA
63 CTAGTCAAATCTGCTCCTTC---TT-ATCTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCA
*
561026 TTTTGATC
124 TTTCGATC
* * * * * *
561034 TGATGTATGGTTACCATCCTGGTTAGATTCTTTTCATTATGATTGAACGTATAGTTACCACACTA
1 TGACGTATGGTTACCACCCTGGTCAAACTCTTTTCATCATGATTGAACGTATAGTTACCACACTA
* *
561099 GTCAAATCTGCCTCCTTCTTGTCTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTCGG
66 GTCAAATCTG-CTCCTTCTTATCTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTCGA
561164 TC
130 TC
* * * * ** * * *
561166 TGACGTATGGTTACCACCCTAGTCAGATTCGTTTCATTTTGATTTG-ACGTATGGTTACCACCCA
1 TGACGTATGGTTACCACCCTGGTCAAACTCTTTTCATCATGA-TTGAACGTATAGTTACCACACT
* * * * * * * *
561230 AGTCAAATCTGCCTCTTTCTTGTTTGATGTATGGTTACCACCCTGGTCGAACTCTTCTTATTTTG
65 AGTCAAATCTG-CTCCTTCTTATCTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTCG
* *
561295 GTT
129 ATC
* * *
561298 TCACATATGGTTACCACCCTAGTCAAAC-CTTTT
1 TGACGTATGGTTACCACCCTGGTCAAACTCTTTT
561331 TTAAGTCAGT
Statistics
Matches: 250, Mismatches: 39, Indels: 17
0.82 0.13 0.06
Matches are distributed among these distances:
130 2 0.01
131 10 0.04
132 227 0.91
133 6 0.02
134 1 0.00
136 4 0.02
ACGTcount: A:0.22, C:0.24, G:0.17, T:0.38
Consensus pattern (131 bp):
TGACGTATGGTTACCACCCTGGTCAAACTCTTTTCATCATGATTGAACGTATAGTTACCACACTA
GTCAAATCTGCTCCTTCTTATCTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTCGAT
C
Found at i:561084 original size:88 final size:86
Alignment explanation
Indices: 560785--561325 Score: 228
Period size: 88 Copynumber: 6.2 Consensus size: 86
560775 TTAGTGTTTA
* * * * * *
560785 ACCCTAGTCAAACTCTTCTCATTTTGATCTGATGTATGGTTACCACCCTAGAT-AGATTCTTTTC
1 ACCCTGGTCAAACTCTTCTCATTTCGATCTGACGTAAGGTTACCA-CCTAG-TCA-AATCTTCTC
* * * * *
560849 ATTCTGATTTGATGCATGGTTACT
63 ATTTTGATCTGACGTATGGTTACC
* * * * * * * * * *
560873 ATCTTGGTCAAA-TCTGCCTCCTTCCTATTTGACGTATGGTTACCACCCTGGTCAAACTCTTTTC
1 ACCCTGGTCAAACTCT-TCTCATTTCGATCTGACGTAAGGTTACCA-CCTAGTCAAA-TCTTCTC
** * * *
560937 A-AGTCAGTTTGATGTA-GTGTTACC
63 ATTTTGA-TCTGACGTATG-GTTACC
* * * * *
560961 ACCCTGGTCAAACGT-TTTTCAAGTT-AATTTGACGTAAGGTTACCACCTTGGTCAAACTCTTCT
1 ACCCTGGTCAAAC-TCTTCTC-ATTTCGATCTGACGTAAGGTTACCACC-TAGTCAAA-TCTTCT
*
561024 CATTTTGATCTGATGTATGGTTACC
62 CATTTTGATCTGACGTATGGTTACC
* * * * * *
561049 ATCCTGGTTAGATTCTTTTCATTAT-GAT-TGAACGTATA-GTTACCACACTAGTCAAATCTGCC
1 ACCCTGGTCAAACTCTTCTCATT-TCGATCTG-ACGTA-AGGTTACCAC-CTAGTCAAATCT-TC
* *
561111 TCCTTCTTG-TCTGACGTAAGGTTACC
61 TCATT-TTGATCTGACGTATGGTTACC
* * *
561137 ACCCTGGTCAAACTCTTCTCATTTCGGTCTGACGTATGGTTACCACCCTAGTCAGATTCGTT-TC
1 ACCCTGGTCAAACTCTTCTCATTTCGATCTGACGTAAGGTTACCA-CCTAGTCA-AATC-TTCTC
*
561201 ATTTTGATTTGACGTATGGTTACC
63 ATTTTGATCTGACGTATGGTTACC
** * * * * * *
561225 ACCCAAGTCAAA-TCTGCCTC-TTTCTTG-TTTGATGTATGGTTACCACCCTGGTCGAACTCTTC
1 ACCCTGGTCAAACTCT-TCTCATTTC--GATCTGACGTAAGGTTACCA-CCTAGTC-AAATCTTC
* * * * *
561287 TTATTTTGGTTTCACATATGGTTACC
61 TCATTTTGATCTGACGTATGGTTACC
*
561313 ACCCTAGTCAAAC
1 ACCCTGGTCAAAC
561326 CTTTTTTAAG
Statistics
Matches: 356, Mismatches: 66, Indels: 61
0.74 0.14 0.13
Matches are distributed among these distances:
87 31 0.09
88 305 0.86
89 18 0.05
90 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (86 bp):
ACCCTGGTCAAACTCTTCTCATTTCGATCTGACGTAAGGTTACCACCTAGTCAAATCTTCTCATT
TTGATCTGACGTATGGTTACC
Found at i:561307 original size:44 final size:44
Alignment explanation
Indices: 561130--561411 Score: 216
Period size: 44 Copynumber: 6.4 Consensus size: 44
561120 TCTGACGTAA
* * * * *
561130 GGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTGACGTAT
1 GGTTACCACCCTAGTCAAACTCTTCTTATTTTGGTTTGACATAT
* * * * *
561174 GGTTACCACCCTAGTCAGATTCGTT-TCATTTTGATTTGACGTAT
1 GGTTACCACCCTAGTCAAACTC-TTCTTATTTTGGTTTGACATAT
* * * **
561218 GGTTACCACCCAAGTCAAATCTGCCTCTT-TCTT-GTTTGATGTAT
1 GGTTACCACCCTAGTCAAA-CT-CTTCTTATTTTGGTTTGACATAT
* * *
561262 GGTTACCACCCTGGTCGAACTCTTCTTATTTTGGTTTCACATAT
1 GGTTACCACCCTAGTCAAACTCTTCTTATTTTGGTTTGACATAT
* ** **
561306 GGTTACCACCCTAGTCAAAC-CTTTTTTAAGTCAGTTTGACATAT
1 GGTTACCACCCTAGTCAAACTC-TTCTTATTTTGGTTTGACATAT
* * * * *
561350 GGATACCACCCTGGTCAGACTCTT-TTCATTCTT-GCTTAACATAT
1 GGTTACCACCCTAGTCAAACTCTTCTT-ATT-TTGGTTTGACATAT
561394 GGTTACCACCCTAGTCAA
1 GGTTACCACCCTAGTCAA
561412 GCTCATTTCA
Statistics
Matches: 187, Mismatches: 41, Indels: 20
0.75 0.17 0.08
Matches are distributed among these distances:
42 5 0.03
43 8 0.04
44 163 0.87
45 9 0.05
46 2 0.01
ACGTcount: A:0.22, C:0.26, G:0.16, T:0.37
Consensus pattern (44 bp):
GGTTACCACCCTAGTCAAACTCTTCTTATTTTGGTTTGACATAT
Found at i:561344 original size:132 final size:132
Alignment explanation
Indices: 560990--561360 Score: 372
Period size: 132 Copynumber: 2.8 Consensus size: 132
560980 CAAGTTAATT
* * * * ** * *
560990 TGACGTAAGGTTACCACCTTGGTCAAACTCTTCTCATTTTGATCTGATGTATGGTTACCATCCTG
1 TGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTCACATATGGTTACCACCCTA
* * * * * * * *
561055 GTTAGATTCTTTTCA-TTATGA-TTGAACGTATAGTTACCACACTAGTCAAATCTGCCTCCTTCT
66 GTCAAATTCGTTTAAGTCA-GATTTG-ACGTATGGTTACCACCCAAGTCAAATCTGCCTCCTTCT
561118 TGTC
129 TGTC
* *
561122 TGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTGACGTATGGTTACCACCCTA
1 TGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTCACATATGGTTACCACCCTA
* * * ** *
561187 GTCAGATTCGTTTCATTTTGATTTGACGTATGGTTACCACCCAAGTCAAATCTGCCTCTTTCTTG
66 GTCAAATTCGTTTAAGTCAGATTTGACGTATGGTTACCACCCAAGTCAAATCTGCCTCCTTCTTG
*
561252 TT
131 TC
* * * * * *
561254 TGATGTATGGTTACCACCCTGGTCGAACTCTTCTTATTTTGGTTTCACATATGGTTACCACCCTA
1 TGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTCACATATGGTTACCACCCTA
* * *
561319 GTCAAACCTT-TTTTAAGTCAG-TTTGACATATGGATACCACCC
66 GTCAAA--TTCGTTTAAGTCAGATTTGACGTATGGTTACCACCC
561361 TGGTCAGACT
Statistics
Matches: 205, Mismatches: 30, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
132 192 0.94
133 11 0.05
134 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (132 bp):
TGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTCACATATGGTTACCACCCTA
GTCAAATTCGTTTAAGTCAGATTTGACGTATGGTTACCACCCAAGTCAAATCTGCCTCCTTCTTG
TC
Found at i:561382 original size:132 final size:132
Alignment explanation
Indices: 560988--561411 Score: 345
Period size: 132 Copynumber: 3.2 Consensus size: 132
560978 TTCAAGTTAA
* * * * * ** *
560988 TTTGACGTAAGGTTACCACCTTGGTCAAACTCTTCTCATTTTGATCTGATGTATGGTTACCATCC
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTCACATATGGTTACCACCC
* * * * * * * * * * * *
561053 TGGTTAGATTCTTTTCA-TTATGA-TTGAACGTATAGTTACCACACTAGTCAAATCTGCCTCCTT
66 TAGTCAAATTCGTTTAAGTCA-GATTTG-ACATATGGATACCACCCAAGTCAAATCTGCCTCATT
561116 CTTG
129 CTTG
* * * *
561120 TCTGACGTAAGGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTGACGTATGGTTACCACCC
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTCACATATGGTTACCACCC
* * * ** * * *
561185 TAGTCAGATTCGTTTCATTTTGATTTGACGTATGGTTACCACCCAAGTCAAATCTGCCTCTTTCT
66 TAGTCAAATTCGTTTAAGTCAGATTTGACATATGGATACCACCCAAGTCAAATCTGCCTCATTCT
561250 TG
131 TG
* * * * *
561252 TTTGATGTATGGTTACCACCCTGGTCGAACTCTTCTTATTTTGGTTTCACATATGGTTACCACCC
1 TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTCACATATGGTTACCACCC
* ** * **
561317 TAGTCAAACCTT-TTTTAAGTCAG-TTTGACATATGGATACCACCCTGGTCAGACTCT-TTTCAT
66 TAGTCAAA--TTCGTTTAAGTCAGATTTGACATATGGATACCACCCAAGTCA-AATCTGCCTCAT
561379 TCTTG
128 TCTTG
* * * *
561384 CTTAACATATGGTTACCACCCTAGTCAA
1 TTTGACGTATGGTTACCACCCTGGTCAA
561412 GCTCATTTCA
Statistics
Matches: 244, Mismatches: 43, Indels: 10
0.82 0.14 0.03
Matches are distributed among these distances:
132 227 0.93
133 15 0.06
134 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (132 bp):
TTTGACGTATGGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTCACATATGGTTACCACCC
TAGTCAAATTCGTTTAAGTCAGATTTGACATATGGATACCACCCAAGTCAAATCTGCCTCATTCT
TG
Found at i:561431 original size:88 final size:85
Alignment explanation
Indices: 561130--561446 Score: 262
Period size: 88 Copynumber: 3.6 Consensus size: 85
561120 TCTGACGTAA
* * * * * *
561130 GGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTGACGTATGGTTACCACCCTAGTCAGATT
1 GGTTACCACCCTAGTC-AACTCTT-TCATTCCTGTTTGACGTATGGTTACCACCCTGGTCAGACT
* * *
561195 CGTTTCATTTTGATTTGACGTAT
64 CTTTTCATTTTG-TTTAACATAT
* * * * * *
561218 GGTTACCACCCAAGTCAAATCTGCCTCTTTCTTGTTTGATGTATGGTTACCACCCTGGTC-GAAC
1 GGTTACCACCCTAGTCAACTCT--TTCATTCCTGTTTGACGTATGGTTACCACCCTGGTCAG-AC
*
561282 TCTTCTT-ATTTTGGTTTCACATAT
63 TCTT-TTCATTTT-GTTTAACATAT
* * * * * *
561306 GGTTACCACCCTAGTCAAACCTTTTTTAAGT-CAGTTTGACATATGGATACCACCCTGGTCAGAC
1 GGTTACCACCCTAGTC-AA-C-TCTTTCATTCCTGTTTGACGTATGGTTACCACCCTGGTCAGAC
*
561370 TCTTTTCATTCTTGCTTAACATAT
63 TCTTTTCATT-TTGTTTAACATAT
* *
561394 GGTTACCACCCTAGTCAAGCTCATTTCATTCCTGTTTGATGTATGATTACCAC
1 GGTTACCACCCTAGTCAA-CTC-TTTCATTCCTGTTTGACGTATGGTTACCAC
561447 TCTAGTCAAA
Statistics
Matches: 178, Mismatches: 38, Indels: 26
0.74 0.16 0.11
Matches are distributed among these distances:
86 1 0.01
87 16 0.09
88 149 0.84
89 10 0.06
91 2 0.01
ACGTcount: A:0.21, C:0.25, G:0.16, T:0.38
Consensus pattern (85 bp):
GGTTACCACCCTAGTCAACTCTTTCATTCCTGTTTGACGTATGGTTACCACCCTGGTCAGACTCT
TTTCATTTTGTTTAACATAT
Found at i:561444 original size:44 final size:42
Alignment explanation
Indices: 561130--561530 Score: 169
Period size: 44 Copynumber: 9.1 Consensus size: 42
561120 TCTGACGTAA
* * * * * *
561130 GGTTACCACCCTGGTCAAACTCTTCTCATTTCGGTCTGACGTAT
1 GGTTACCACCCTAGTCAAA-TATT-TCATTCCTGTTTGATGTAT
* * * *
561174 GGTTACCACCCTAGTCAGATTCGTTTCATT-TTGATTTGACGTAT
1 GGTTACCACCCTAGTCA-AAT-ATTTCATTCCTG-TTTGATGTAT
* * * * *
561218 GGTTACCACCCAAGTCAAATCTGCCTCTTTCTTGTTTGATGTAT
1 GGTTACCACCCTAGTCAAATAT--TTCATTCCTGTTTGATGTAT
* * * * * * **
561262 GGTTACCACCCTGGTCGAACTCTTCTTATT-TTGGTTTCACATAT
1 GGTTACCACCCTAGTC-AAATATT-TCATTCCT-GTTTGATGTAT
* * * * **
561306 GGTTACCACCCTAGTCAAACCTTTTTTAAGT-CAGTTTGACATAT
1 GGTTACCACCCTAGTCAAA---TATTTCATTCCTGTTTGATGTAT
* * * * * * * **
561350 GGATACCACCCTGGTCAGACTCTTTTCATTCTTGCTTAACATAT
1 GGTTACCACCCTAGTCA-AAT-ATTTCATTCCTGTTTGATGTAT
*
561394 GGTTACCACCCTAGTCAAGCTCATTTCATTCCTGTTTGATGTAT
1 GGTTACCACCCTAGTCAA-AT-ATTTCATTCCTGTTTGATGTAT
* * * * * **
561438 GATTACCACTCTAGTCAAATGTTTCATATATCGGTCGGATGTAT
1 GGTTACCACCCTAGTCAAATATTTCAT-T-CCTGTTTGATGTAT
561482 GGTTACCACCCTAGTCAAATGATTTGCATTCCTGTTTGATGTAAT
1 GGTTACCACCCTAGTCAAAT-ATTT-CATTCCTGTTTGATGT-AT
561527 GGTT
1 GGTT
561531 CAGCCTTGTT
Statistics
Matches: 275, Mismatches: 61, Indels: 41
0.73 0.16 0.11
Matches are distributed among these distances:
42 8 0.03
43 16 0.06
44 220 0.80
45 25 0.09
46 6 0.02
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (42 bp):
GGTTACCACCCTAGTCAAATATTTCATTCCTGTTTGATGTAT
Found at i:563225 original size:165 final size:160
Alignment explanation
Indices: 562927--563334 Score: 419
Period size: 165 Copynumber: 2.5 Consensus size: 160
562917 CACTGATCCA
* * * * * * *
562927 AAATTTTTAAAATTTATCAAATATTATTATTTAACTCATAATAAATCAGTTTCAAAACATTCCTT
1 AAATTTTTAAAATTTATCAAATATCATCATTTAAATCATAATAAATTAGTTTGAAAAAATTCATT
* * * * *
562992 T-TATTTCATTAATTTTTCATTTTTCCTTGAAATTTCCCTATTTTCAAAAAATTAAGTTTTTGAT
66 TAT-TTTCATGAATTTTTCATTTTTCCATGAAAATTCCCAATTTTCAAAAAACTAAGTTTTTGAT
* * * *
563056 TCCATAAAGGTTTTTGTGGGGATTTTTCTCGGTTCC
130 TCCAT--A-GTTTTCGAGGGG-GTTTTCTCAGTT-C
* * *
563092 AAATTTTTAAAATTCATCAAATATCATCATTTAAATCATATTAAATTAGTTTGAAAAAAATCATT
1 AAATTTTTAAAATTTATCAAATATCATCATTTAAATCATAATAAATTAGTTTGAAAAAATTCATT
* * ** *
563157 TATTTTCATGAGTTTTTCATTTTTCCAT-AAAATTCTCAATTTCTTGAAAAACTGAGTTTTCT-A
66 TATTTTCATGAATTTTTCATTTTTCCATGAAAATTCCCAATTT-TCAAAAAACTAAGTTTT-TGA
*
563220 TTCCATAGTTTTCGAGGGGGTTTTCTCAGTTT
129 TTCCATAGTTTTCGAGGGGGTTTTCTCAGTTC
* * * *
563252 ATAATTTTTAATATTTATAAAATATCATCATTTAATTCATAATAAATTATTTTTG-AAAAATTCA
1 A-AATTTTTAAAATTTATCAAATATCATCATTTAAATCATAATAAATTA-GTTTGAAAAAATTCA
* *
563316 TTCATTTTCATGATTTTTT
64 TTTATTTTCATGAATTTTT
563335 TTTTATTTTT
Statistics
Matches: 204, Mismatches: 34, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
160 1 0.00
161 77 0.38
162 14 0.07
163 1 0.00
164 11 0.05
165 98 0.48
166 2 0.01
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (160 bp):
AAATTTTTAAAATTTATCAAATATCATCATTTAAATCATAATAAATTAGTTTGAAAAAATTCATT
TATTTTCATGAATTTTTCATTTTTCCATGAAAATTCCCAATTTTCAAAAAACTAAGTTTTTGATT
CCATAGTTTTCGAGGGGGTTTTCTCAGTTC
Found at i:565014 original size:154 final size:155
Alignment explanation
Indices: 564591--565438 Score: 570
Period size: 154 Copynumber: 5.4 Consensus size: 155
564581 ATTGTTGGTT
* * * * *
564591 ACTTCTAAGTCG-AGGTTATCCTCT-AGAGGCA-TTTCTGTAATTTTTTTAAAATTGATTCCTAG
1 ACTTTTAAGTCGAAGG-TATCCTCTAAG-GGCATTTTC-ATAA-TTTTCTAGAATCGATTCCTAG
** * * * *
564653 GTTGTCGTCGA-TCCACTTTTATGCCAAAAGGTGGGTATTTAGGATAGGCTCAT-CTCATCAATA
62 GTTGTCACCGAGTTCACTTTTATGCCGAAA-GTGGGTATTTAGGATAGGTTCATCCT-ATCTATA
*
564716 T-CCTTTTTAAGTCCTTTAGAGGG-ATC-AGG
125 TACCTTTTTAAGTCCTTTA-AGGGTGTCAAGG
* * * * * * * *
564745 CACTTCTAAGTC-AATGATAGCCCCT-AGGGGATTTTTTTTAATAATTTTTTA-AAACTGATTCC
1 -ACTTTTAAGTCGAA-GGTATCCTCTAAGGGCA----TTTTCATAATTTTCTAGAATC-GATTCC
* * * * * *
564807 TAGGTTGTCACCG-GGTCTGCTTTCATACCGAAGGTGGGTATTTAGGATAGGTTCATCCCATCTA
59 TAGGTTGTCACCGAGTTC-ACTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATCCTATCTA
*
564871 TA-ACCTTTTTAAGTCCTTTAGGGGTGTCAAGG
123 TATACCTTTTTAAGTCCTTTAAGGGTGTCAAGG
** *
564903 ACTTTTAAGTCGAAAATATCCTCTAAGGGCATTTTCATAATTTTCTAGAATCGATTCTTAGGTTG
1 ACTTTTAAGTCGAAGGTATCCTCTAAGGGCATTTTCATAATTTTCTAGAATCGATTCCTAGGTTG
* * * * *
564968 TCACCGAGTTCACTTTTTTGTCGAAAGTGCGTATTTAGGATAGGTTCATCTTATATATATATATA
66 TCACCGAGTTCACTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATC--------CTATCTA
* * *
565033 TATATCATTTTTAAGTCTTTTAAGGGTAT-AAGG
123 TATA-CCTTTTTAAGTCCTTTAAGGGTGTCAAGG
* * * * * * * *
565066 -CATTCTAAGT-TAAGGGTATCCCCTAAGGACATTTTCGTAAGTTTTTTTAGAATTGGTTCCTAG
1 AC-TTTTAAGTCGAA-GGTATCCTCTAAGGGCATTTTCATAA--TTTTCTAGAATCGATTCCTAG
* * * * * *
565129 GTTGTCACCAAGTACGCTTTTATACCG-AAGATGGGTGTTTAAGATAGGTTCATCCTATCTATA-
62 GTTGTCACCGAGTTCACTTTTATGCCGAAAG-TGGGTATTTAGGATAGGTTCATCCTATCTATAT
* *
565192 ACCTTTTTAAGTTCTTTAAGGGTGTCAAGC
126 ACCTTTTTAAGTCCTTTAAGGGTGTCAAGG
* *
565222 ACTTTTAAGTCGAAGGTATCCTCTAAGGGCATTTTCAAAATTTTCTA-AAACTGATTCCTAGGTT
1 ACTTTTAAGTCGAAGGTATCCTCTAAGGGCATTTTCATAATTTTCTAGAATC-GATTCCTAGGTT
* *** * *
565286 GTCACCGGGTTTTGTTTTATGCCAAAAGTGGGTATTTAGGATAGGTTCATCCTATCTATATTCCT
65 GTCACCGAGTTCACTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATCCTATCTATATACCT
* * * *
565351 TTTTATGT-CTTTTAGGCATATC-AGG
130 TTTTAAGTCCTTTAAGG-GTGTCAAGG
* ** * * * * * * *
565376 TACTTCTACTTCAAAGATATCCCCTAAAGGTATTTTCATAATTTT-TAAAATCGAGTCCTAGGT
1 -ACTTTTAAGTCGAAGGTATCCTCTAAGGGCATTTTCATAATTTTCTAGAATCGATTCCTAGGT
565439 CATCACTCTT
Statistics
Matches: 541, Mismatches: 110, Indels: 85
0.74 0.15 0.12
Matches are distributed among these distances:
153 2 0.00
154 151 0.28
155 100 0.18
156 39 0.07
157 99 0.18
158 24 0.04
159 3 0.01
162 9 0.02
163 33 0.06
164 23 0.04
165 58 0.11
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.39
Consensus pattern (155 bp):
ACTTTTAAGTCGAAGGTATCCTCTAAGGGCATTTTCATAATTTTCTAGAATCGATTCCTAGGTTG
TCACCGAGTTCACTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATCCTATCTATATACCTT
TTTAAGTCCTTTAAGGGTGTCAAGG
Found at i:567676 original size:20 final size:20
Alignment explanation
Indices: 567651--567705 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
567641 CTACCAAGGA
567651 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGA-TC
567671 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
567691 TTTGTATCGATACAT
1 AATGTATCGATACAT
567706 CTGGGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:575349 original size:13 final size:13
Alignment explanation
Indices: 575331--575356 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
575321 AATTTTTTGG
575331 TGTATCGATACAT
1 TGTATCGATACAT
575344 TGTATCGATACAT
1 TGTATCGATACAT
575357 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:576193 original size:108 final size:108
Alignment explanation
Indices: 576004--576336 Score: 632
Period size: 108 Copynumber: 3.1 Consensus size: 108
575994 CAAAATAAAT
576004 TTAACAAATTCGTACATTCTCCCCCTTAATAAGGTAATTTTAGCAAATTCACGCATTCTCCCTTT
1 TTAACAAATTCGTACATTCTCCCCCTTAATAAGGTAATTTTAGCAAATTCACGCATTCTCCCTTT
576069 TTATTAAAAAATCTCCCCCTTAATAAAGTAATTTACACACATA
66 TTATTAAAAAATCTCCCCCTTAATAAAGTAATTTACACACATA
*
576112 TTAACAAATTCGTACATTCTCCCCCTTAATAAGGTAATTTTAGCAAATTCACACATTCTCCCTTT
1 TTAACAAATTCGTACATTCTCCCCCTTAATAAGGTAATTTTAGCAAATTCACGCATTCTCCCTTT
576177 TTATTAAAAAATCTCCCCCTTAATAAAGTAATTTACACACATA
66 TTATTAAAAAATCTCCCCCTTAATAAAGTAATTTACACACATA
*
576220 TTAACAAATTCGTACATTCTCCCCCTTAATAAGGTAATTTTAGCAAATTCACGCATTCTCTCTTT
1 TTAACAAATTCGTACATTCTCCCCCTTAATAAGGTAATTTTAGCAAATTCACGCATTCTCCCTTT
576285 TTATTAAAAAATCTCCCCCTTAATAAAGTAATTTACACACATA
66 TTATTAAAAAATCTCCCCCTTAATAAAGTAATTTACACACATA
*
576328 TCAA-AAATT
1 TTAACAAATT
576337 TATTTGCACA
Statistics
Matches: 221, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
107 5 0.02
108 216 0.98
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (108 bp):
TTAACAAATTCGTACATTCTCCCCCTTAATAAGGTAATTTTAGCAAATTCACGCATTCTCCCTTT
TTATTAAAAAATCTCCCCCTTAATAAAGTAATTTACACACATA
Found at i:576194 original size:59 final size:59
Alignment explanation
Indices: 576129--576318 Score: 184
Period size: 59 Copynumber: 3.4 Consensus size: 59
576119 ATTCGTACAT
* *
576129 TCTCCCCCTTAATAAGGTAATTTTAGCAAATTCACACATTCTCCCTTTTTATTAAAAAA
1 TCTCCCCCTTAATAAAGTAATTTTAGCAAATTCACACATTCTCACTTTTTATTAAAAAA
* * *** ** * *
576188 TCTCCCCCTTAATAAAGTAA-TTTA-C--A--CACATA-T-TAACAAATTCGT--ACAT
1 TCTCCCCCTTAATAAAGTAATTTTAGCAAATTCACACATTCTCACTTTTTATTAAAAAA
* * *
576237 TCTCCCCCTTAATAAGGTAATTTTAGCAAATTCACGCATTCTCTCTTTTTATTAAAAAA
1 TCTCCCCCTTAATAAAGTAATTTTAGCAAATTCACACATTCTCACTTTTTATTAAAAAA
576296 TCTCCCCCTTAATAAAGTAATTT
1 TCTCCCCCTTAATAAAGTAATTT
576319 ACACACATAT
Statistics
Matches: 97, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
49 21 0.22
50 4 0.04
51 6 0.06
52 1 0.01
53 6 0.06
55 5 0.05
56 1 0.01
57 6 0.06
58 4 0.04
59 43 0.44
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (59 bp):
TCTCCCCCTTAATAAAGTAATTTTAGCAAATTCACACATTCTCACTTTTTATTAAAAAA
Found at i:577528 original size:21 final size:20
Alignment explanation
Indices: 577499--577541 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
577489 GGCTAGTGTG
* *
577499 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCAGTCGCGACCT
*
577520 GGGAGTGCCAGTCGCGACCT
1 GGGACTGCCAGTCGCGACCT
577540 GG
1 GG
577542 TGGGTGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTGCCAGTCGCGACCT
Found at i:578002 original size:13 final size:13
Alignment explanation
Indices: 577984--578008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
577974 GTAATCCCCC
577984 TGTATCGATACAG
1 TGTATCGATACAG
577997 TGTATCGATACA
1 TGTATCGATACA
578009 AAGAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:578721 original size:13 final size:13
Alignment explanation
Indices: 578703--578728 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
578693 TACACAAAGT
578703 ATGTATCGATACA
1 ATGTATCGATACA
578716 ATGTATCGATACA
1 ATGTATCGATACA
578729 CAAAAACATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:583610 original size:12 final size:12
Alignment explanation
Indices: 583595--583628 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
583585 TCCAAGTCAC
583595 CATCTTCATCAA
1 CATCTTCATCAA
*
583607 CATCTTCATCAT
1 CATCTTCATCAA
*
583619 CTTCTTCATC
1 CATCTTCATC
583629 CTTGATGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (12 bp):
CATCTTCATCAA
Found at i:585260 original size:13 final size:13
Alignment explanation
Indices: 585242--585267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
585232 AATTTTTTGG
585242 TGTATCGATACAT
1 TGTATCGATACAT
585255 TGTATCGATACAT
1 TGTATCGATACAT
585268 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:587824 original size:13 final size:13
Alignment explanation
Indices: 587808--587853 Score: 65
Period size: 14 Copynumber: 3.4 Consensus size: 13
587798 AGTCAAAAGT
587808 AAAAACACAAAAA
1 AAAAACACAAAAA
587821 AAAAACACAAAAAA
1 AAAAACAC-AAAAA
*
587835 AACAAACACACAAA
1 AA-AAACACAAAAA
587849 AAAAA
1 AAAAA
587854 GTGCAAAGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 11 0.37
14 13 0.43
15 6 0.20
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACACAAAAA
Found at i:587834 original size:15 final size:15
Alignment explanation
Indices: 587808--587853 Score: 60
Period size: 17 Copynumber: 3.1 Consensus size: 15
587798 AGTCAAAAGT
587808 AAAAACAC--AAAAA
1 AAAAACACAAAAAAA
587821 AAAAACACAAAAAAA
1 AAAAACACAAAAAAA
587836 ACAAACACACAAAAAAA
1 A-AAA-ACACAAAAAAA
587853 A
1 A
587854 GTGCAAAGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.28
15 6 0.21
16 3 0.10
17 12 0.41
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACACAAAAAAA
Found at i:587853 original size:17 final size:15
Alignment explanation
Indices: 587808--587853 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
587798 AGTCAAAAGT
587808 AAAAACAC--AAAAA
1 AAAAACACAAAAAAA
587821 AAAAACACAAAAAAA
1 AAAAACACAAAAAAA
*
587836 ACAAACACACAAAAAA
1 AAAAACACA-AAAAAA
587852 AA
1 AA
587854 GTGCAAAGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 8 0.29
15 13 0.46
16 7 0.25
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACACAAAAAAA
Found at i:589171 original size:30 final size:31
Alignment explanation
Indices: 589125--589205 Score: 119
Period size: 30 Copynumber: 2.6 Consensus size: 31
589115 TTCTTCAAAT
*
589125 CATCTTTTCTTCAAAGTCCACGACTCGGTGG
1 CATCTTTTCTTCAAAGTCCACGACTCAGTGG
*
589156 CATCTTTTC-TCAAAGTCCACGACTTAGTGG
1 CATCTTTTCTTCAAAGTCCACGACTCAGTGG
589186 CATCGTTTTCCTTCAAAGTC
1 CATC-TTTT-CTTCAAAGTC
589206 TGTCGCAACG
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
30 23 0.51
31 13 0.29
32 1 0.02
33 8 0.18
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (31 bp):
CATCTTTTCTTCAAAGTCCACGACTCAGTGG
Found at i:590385 original size:51 final size:51
Alignment explanation
Indices: 590330--590443 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
590320 GAAAATAATG
* * *
590330 GGGTTGGAGTGTCCCCAATTATGAGAAATCAATATTTTAGAAATAAGGTCA
1 GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCA
* ** * * *
590381 GGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCCG
1 GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCA
590432 GGGTTGGAGTAT
1 GGGTTGGAGTAT
590444 ACCCTCGGAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCCA
Found at i:590470 original size:28 final size:27
Alignment explanation
Indices: 590435--590502 Score: 84
Period size: 28 Copynumber: 2.4 Consensus size: 27
590425 AAAGCCGGGG
590435 TTGGAGTATACCCTCG-GAAATAACAGAA
1 TTGGAGTAT-CCCT-GAGAAATAACAGAA
* *
590463 TTGGAGTATCCCTGATGAAATAACGGGA
1 TTGGAGTATCCCTGA-GAAATAACAGAA
590491 TTGGAGTATCCC
1 TTGGAGTATCCC
590503 CGATTGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 4 0.11
28 31 0.86
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (27 bp):
TTGGAGTATCCCTGAGAAATAACAGAA
Found at i:590546 original size:79 final size:78
Alignment explanation
Indices: 590463--590711 Score: 299
Period size: 79 Copynumber: 3.2 Consensus size: 78
590453 AATAACAGAA
* *
590463 TTGGAGTAT-CCCT-GATGAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTT
1 TTGGAGTATCCCCTCG--GAAATAACGGG-TTGGAGTATCCTCGATTATGAAAAATTAGTGTTTT
* *
590526 -GAAAATAAAATCGGAG
63 AG-AAATAAAACCGGGG
* *
590542 TTGGAATATCCCCTCGGAAATAACAGGGTTGGGGTATCCTCGATTATGAAAAATT-GATGTTTTA
1 TTGGAGTATCCCCTCGGAAATAAC-GGGTTGGAGTATCCTCGATTATGAAAAATTAG-TGTTTTA
590606 GAAATAAAACCGGGG
64 GAAATAAAACCGGGG
* ** * *
590621 TTGGAGTATCCCCTCGGGAATGATGGGGTTGGAGTATCCTCGATTATGAAAAATTAATTTTTTAG
1 TTGGAGTATCCCCTCGGAAAT-AACGGGTTGGAGTATCCTCGATTATGAAAAATTAGTGTTTTAG
*
590686 AAATAAAGCCGGGG
65 AAATAAAACCGGGG
590700 TTGGAGTATCCC
1 TTGGAGTATCCC
590712 TGATGAAAAT
Statistics
Matches: 149, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
78 1 0.01
79 138 0.93
80 9 0.06
81 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.29
Consensus pattern (78 bp):
TTGGAGTATCCCCTCGGAAATAACGGGTTGGAGTATCCTCGATTATGAAAAATTAGTGTTTTAGA
AATAAAACCGGGG
Done.