Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003783.1 Hibiscus syriacus cultivar Beakdansim tig00008098_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 76338
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Found at i:323 original size:12 final size:12
Alignment explanation
Indices: 306--369 Score: 67
Period size: 12 Copynumber: 5.4 Consensus size: 12
296 CGTCGCAGAA
*
306 GATGAAGCTGAC
1 GATGAAGATGAC
318 GATGAAGATGAC
1 GATGAAGATGAC
*
330 GATGAAGATGAT
1 GATGAAGATGAC
* * *
342 GACGATGATGAT
1 GATGAAGATGAC
*
354 GATGATGATGA-
1 GATGAAGATGAC
365 GATGA
1 GATGA
370 TGATCCAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
11 5 0.11
12 42 0.89
ACGTcount: A:0.38, C:0.06, G:0.34, T:0.22
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:327 original size:6 final size:6
Alignment explanation
Indices: 303--369 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
293 AAGCGTCGCA
* * * * * *
303 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GAAGAT GATGAC GATGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* *
351 GATGAT GATGAT G-AGAT GA
1 GAAGAT GAAGAT GAAGAT GA
370 TGATCCAAAC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
5 4 0.08
6 46 0.92
ACGTcount: A:0.39, C:0.06, G:0.34, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:351 original size:3 final size:3
Alignment explanation
Indices: 318--373 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
308 TGAAGCTGAC
* * * *
318 GAT GAA GAT GAC GAT GAA GAT GAT GAC GAT GAT GAT GAT GAT GAT GA-
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
365 GAT GAT GAT
1 GAT GAT GAT
374 CCAAACAAGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.38, C:0.04, G:0.34, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:1577 original size:16 final size:16
Alignment explanation
Indices: 1545--1578 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1535 ATCCACCAAC
* *
1545 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
1561 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
1577 AA
1 AA
1579 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:2337 original size:179 final size:179
Alignment explanation
Indices: 1955--2434 Score: 738
Period size: 179 Copynumber: 2.7 Consensus size: 179
1945 GCAATGCTAT
*
1955 CGGTAT-AATATACCGG-TTTATGCGCGAATAGGTCTACGAACTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTA--ACCTATATCGACAC-TTTTAATATT
*
2018 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGACA
63 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
* *
2083 TTTACACATTGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
127 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
2136 CGGTATAAATATACCGGTTTTATGCGTGAATAGGTCTAACCTATATCGACACTTTTAATATTGTG
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTAACCTATATCGACACTTTTAATATTGTG
2201 TCGGTAC-TT-TGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACATTT
* *
2264 ACACATCGGAAACCCAGATTTATAATGTAATATATAATTTTGTAATATAAC
130 ACACATCGG-AACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
2315 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTTTACAACCTATATCGACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCT--AACCTATATCGACACTTT-TAATATT
* *
2380 GTGTCGATACTTTATGTCCAGATTGGAAGAAAAA--TGTCGATCCATTTAAAAAAGT
63 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGT
2435 CGGTAATTTT
Statistics
Matches: 278, Mismatches: 12, Indels: 18
0.90 0.04 0.06
Matches are distributed among these distances:
178 57 0.21
179 77 0.28
180 20 0.07
181 49 0.18
182 34 0.12
183 21 0.08
184 20 0.07
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (179 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTAACCTATATCGACACTTTTAATATTGTG
TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACATTTA
CACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:5313 original size:23 final size:23
Alignment explanation
Indices: 5282--5354 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
5272 ATAGGTAAAC
*
5282 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
5305 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
5328 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
5351 ATAT
1 ATAT
5355 TGTAAAGTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:6067 original size:18 final size:18
Alignment explanation
Indices: 6046--6082 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6036 GTAATTGGAG
6046 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
6064 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
6082 T
1 T
6083 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:6090 original size:24 final size:24
Alignment explanation
Indices: 6038--6084 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6028 TTTCATATGT
* *
6038 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
6062 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
6085 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:6379 original size:39 final size:39
Alignment explanation
Indices: 6336--6422 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
6326 TCCGATGCTC
* *
6336 ATCAAAATTCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
6375 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
6414 ATCAAAATC
1 ATCAAAATC
6423 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:6871 original size:23 final size:23
Alignment explanation
Indices: 6840--6898 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
6830 ATAGGTAAAA
*
6840 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
6863 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
6886 ATATAATGTAATA
1 ATATAATGTAATA
6899 TGTAAACTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:7286 original size:23 final size:23
Alignment explanation
Indices: 7255--7313 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
7245 ATAGGTAAAA
*
7255 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
7278 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
7301 ATATAATGTAATA
1 ATATAATGTAATA
7314 TGTAAAGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:7700 original size:23 final size:23
Alignment explanation
Indices: 7669--7727 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
7659 ATAGGTAAAA
*
7669 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
7692 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
7715 ATATAATGTAATA
1 ATATAATGTAATA
7728 TGTAAAGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:7787 original size:414 final size:416
Alignment explanation
Indices: 6638--8505 Score: 3277
Period size: 415 Copynumber: 4.5 Consensus size: 416
6628 GTTAATGTTG
*
6638 TTAAATT-TAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
6702 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
* *
6767 AATGACATAACTTTAAAAGAAGTATCAATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
6832 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
* *
6897 TATGTAAACTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATTAATT
261 TATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATT
6962 TAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
326 TAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
7027 TTTTTACGTTACGATATATATTATTA
391 TTTTTACGTTACGATATATATTATTA
7053 TTAAATT-AAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
7117 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
7182 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
7247 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
7312 TATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATT
261 TATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATT
*
7377 TAAGGTTATCCTTTGAGTCAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
326 TAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
7442 TTTTTACGTTACGATATATATTATTA
391 TTTTTACGTTACGATATATATTATTA
7468 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
7533 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
7597 AATTACATAACTTTAAAAGAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
7661 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
7726 TATGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATT
261 TATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATT
*
7791 TAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-
326 TAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
7855 TTTTTACGTTACG--ATATATTATTA
391 TTTTTACGTTACGATATATATTATTA
* *
7879 TTAAATTAAAAATTCTAAATATTATTTTAT-AAATATTAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
7943 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG-AACACTATTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
* *
8007 AATTACTTAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTCTGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
*
8072 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAA
196 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCG-TT-TAT-A--TAA
* * * * *
8137 TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAACGTTTCCATACTTTTTTGACTGT
256 T--GTA------ATA-TGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGT
* * *
8202 GGAAAACATTAATTTAAGGTTATCTTTTGACTGAGTTTTAAGATATTAATTTAGTAATTATAGGT
312 GGAAAACATTAATTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGC
8267 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
377 GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
8307 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
8372 ATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAATACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
* *
8437 AAATTACATAACTTTAAAAGAATTATCGATCTTTTTTATAAAAAGTATGGACACTATTTCAATAT
130 AAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACAC--TTTCAATAT
8502 AATA
193 AATA
8506 TAATGTAATA
Statistics
Matches: 1400, Mismatches: 28, Indels: 32
0.96 0.02 0.02
Matches are distributed among these distances:
409 9 0.01
410 117 0.08
411 122 0.09
412 2 0.00
413 16 0.01
414 225 0.16
415 462 0.33
416 109 0.08
418 3 0.00
424 3 0.00
425 121 0.09
426 13 0.01
428 41 0.03
429 70 0.05
430 8 0.01
431 66 0.05
433 13 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (416 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATT
TAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
TTTTTACGTTACGATATATATTATTA
Found at i:8111 original size:23 final size:23
Alignment explanation
Indices: 8080--8152 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
8070 ATAGGTAAAA
*
8080 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
8103 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
8126 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
8149 ATAT
1 ATAT
8153 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:8420 original size:839 final size:829
Alignment explanation
Indices: 6638--8505 Score: 3262
Period size: 839 Copynumber: 2.2 Consensus size: 829
6628 GTTAATGTTG
*
6638 TTAAATT-TAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
*
6702 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
* *
6767 AATGACATAACTTTAAAAGAAGTATCAATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCC-TTTTATAAAAAGTATGGACACTTTCAATATAAT
6832 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
195 AGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAA
*
6897 TATGTAAACTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAATATTAATT
260 TATGTAAACTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATT
6962 TAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
325 TAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTAT
7027 TTTTTACGTTACGATATATATTATTATTAAATTAAAATTCTAAATAATATTTTATAAAATATCAA
390 TTTTTACGTTACGA-ATATATTATTATTAAATTAAAATTCTAAATAATATTTTATAAAATATCAA
7092 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
454 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
7157 ACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAA
519 ACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAA
7222 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
584 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
* *
7287 AATAGGTATCGTTTATATAATGTAATATGTAAAGTGTCTATCATTTTTATAAAAGTGTCCATACT
649 AATAGGTAGCGTTTATATAATGTAATATGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACT
*
7352 TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGAGTCAGTTTTAAGATATTAATTTAG
714 TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGACTCAGTTTTAAGATATTAATTTAG
7417 TAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
779 TAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
7468 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
7533 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAATTGAAACATA
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
7597 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAATATAATA
7662 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
196 GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
* *
7727 ATGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
261 ATGTAAACTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
*
7792 AAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-T
326 AAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
* *
7856 TTTTACGTTACG-ATATATTATTATTAAATTAAAAATTCTAAATATTATTTTAT-AAATATTAAA
391 TTTTACGTTACGAATATATTATTATTAAATT-AAAATTCTAAATAATATTTTATAAAATATCAAA
7919 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATG-AA
455 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
7983 CACTATTAAAAAAATTGAAACATAAATTACTTAACTTTAAAAGAAGTATCGATCCTTTTTATAAA
520 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAA
*
8048 AAGTCTGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
585 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
*
8113 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAA
650 ATAGGTAGCG-TT-TAT-A--TAAT--GTA------ATA-TGTAAAGTATCTATCATTTTTATAA
* * * * *
8178 ACGTTTCCATACTTTTTTGACTGTGGAAAACATTAATTTAAGGTTATCTTTTGACTGAGTTTTAA
701 AAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGACTCAGTTTTAA
*
8243 GATATTAATTTAGTAATTATAGGTGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
766 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
8307 TTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
* *
8372 ATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAATACTATTAAAAAAAATTGAAACAT
66 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACAT
* *
8437 AAATTACATAACTTTAAAAGAATTATCGATCTTTTTTATAAAAAGTATGGACACTATTTCAATAT
130 AAATTACATAACTTTAAAAGAAGTATCGATC-CTTTTATAAAAAGTATGGACAC--TTTCAATAT
8502 AATA
192 AATA
8506 TAATGTAATA
Statistics
Matches: 990, Mismatches: 27, Indels: 28
0.95 0.03 0.03
Matches are distributed among these distances:
825 139 0.14
826 91 0.09
827 24 0.02
828 14 0.01
829 223 0.23
830 56 0.06
831 103 0.10
832 3 0.00
838 3 0.00
839 255 0.26
841 45 0.05
842 21 0.02
844 13 0.01
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (829 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCCTTTTATAAAAAGTATGGACACTTTCAATATAATA
GGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
ATGTAAACTGTCTATCATTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTT
AAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATT
TTTTACGTTACGAATATATTATTATTAAATTAAAATTCTAAATAATATTTTATAAAATATCAAAA
CAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAAC
ACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAA
AGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAA
TAGGTAGCGTTTATATAATGTAATATGTAAAGTATCTATCATTTTTATAAAAGTGTCCATACTTT
TTTCACTGTGGAAAACATTAATTTAAGGTTATCCTTTGACTCAGTTTTAAGATATTAATTTAGTA
ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:10309 original size:22 final size:22
Alignment explanation
Indices: 10284--10331 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
10274 AAAATTTAGA
10284 CATTGGTGAAGAAACACTTCCT
1 CATTGGTGAAGAAACACTTCCT
*
10306 CATTGGTGAAGAAATACTTCCT
1 CATTGGTGAAGAAACACTTCCT
10328 CATT
1 CATT
10332 TAATGATCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (22 bp):
CATTGGTGAAGAAACACTTCCT
Found at i:11523 original size:22 final size:22
Alignment explanation
Indices: 11495--11541 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
11485 AAGAACAACA
*
11495 TTAACCTGTTTCTGAAGTGCCT
1 TTAACCTGTTTCTGAAGTCCCT
11517 TTAACCTGTTTCTGAAGTCCCT
1 TTAACCTGTTTCTGAAGTCCCT
11539 TTA
1 TTA
11542 TACGTGCCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (22 bp):
TTAACCTGTTTCTGAAGTCCCT
Found at i:21760 original size:31 final size:31
Alignment explanation
Indices: 21725--21791 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
21715 CAGTCTCGTG
*
21725 GTGACAACATCTTAATTAAATAAAAATGAAA
1 GTGACAACATCTTAATTAAATAAAAACGAAA
* * * *
21756 GTGACTATATGTTAATTAACTAAAAACGAAA
1 GTGACAACATCTTAATTAAATAAAAACGAAA
21787 GTGAC
1 GTGAC
21792 CATATATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.27
Consensus pattern (31 bp):
GTGACAACATCTTAATTAAATAAAAACGAAA
Found at i:27815 original size:34 final size:35
Alignment explanation
Indices: 27756--27822 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
27746 TTCTTTAGAG
*
27756 TTGTTTTCTCCTTTTTATCATGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTGTTATCATGAGAGAAGTTGTTA
*
27790 TTGTTTTCTCCTTGTTA-GATCGAGAGAAGTTGT
1 TTGTTTTCTCCTTGTTATCAT-GAGAGAAGTTGT
27823 AATTCCTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 2 0.07
34 23 0.79
35 4 0.14
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.49
Consensus pattern (35 bp):
TTGTTTTCTCCTTGTTATCATGAGAGAAGTTGTTA
Found at i:34736 original size:21 final size:21
Alignment explanation
Indices: 34619--34756 Score: 59
Period size: 21 Copynumber: 6.7 Consensus size: 21
34609 ACGCGAAATA
**
34619 AAAATCGCAACGCGA-TCCCC
1 AAAATCGCAACGCGATTTTCC
* ** *
34639 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGATTTTCC
*
34659 AAAATCGCAACGCGATTCTT-G
1 AAAATCGCAACGCGATT-TTCC
* * ** *
34680 AAAATCGCGATGCGATAGTAC
1 AAAATCGCAACGCGATTTTCC
* * **
34701 ATATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTTCC
* * * *
34722 ATAATCGCAACGCGAATAT-G
1 AAAATCGCAACGCGATTTTCC
34742 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
34757 ACACATAAAT
Statistics
Matches: 85, Mismatches: 29, Indels: 8
0.70 0.24 0.07
Matches are distributed among these distances:
19 1 0.01
20 38 0.45
21 44 0.52
22 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (21 bp):
AAAATCGCAACGCGATTTTCC
Found at i:34818 original size:20 final size:20
Alignment explanation
Indices: 34724--35092 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
34714 GATTTTCCAT
* ** *
34724 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
34744 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
34764 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
34784 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
34804 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
34824 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
34844 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
34864 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
34884 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
34904 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
34924 AATCGCAATGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
34944 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
34964 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
34984 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
35004 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
35024 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
35044 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
35064 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
35084 AATCACAAC
1 AATCGCAAC
35093 ACTGAAATTT
Statistics
Matches: 303, Mismatches: 38, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
19 3 0.01
20 297 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:35814 original size:24 final size:24
Alignment explanation
Indices: 35775--35821 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
35765 AAATTTGGTC
35775 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
35799 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
35822 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:38323 original size:19 final size:19
Alignment explanation
Indices: 38301--38604 Score: 349
Period size: 19 Copynumber: 17.4 Consensus size: 19
38291 CGGAAAATAC
*
38301 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
38320 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
38334 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
38354 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
38368 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
38387 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
38406 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
38420 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
38439 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
38457 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
38471 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
38490 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
38509 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
38528 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
38546 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
38560 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
38579 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
38597 AATCGCAA
1 AATCGCAA
38605 CGAGATAATC
Statistics
Matches: 249, Mismatches: 10, Indels: 53
0.80 0.03 0.17
Matches are distributed among these distances:
14 48 0.19
15 4 0.02
16 23 0.09
17 5 0.02
18 30 0.12
19 126 0.51
20 13 0.05
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:38481 original size:51 final size:52
Alignment explanation
Indices: 38329--38604 Score: 361
Period size: 51 Copynumber: 5.2 Consensus size: 52
38319 AAATCCCAAC
*
38329 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
*
38382 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
*
38434 ATGAAAATCGCAATGCGAAATG-AAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
*
38485 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAA
38542 ATG-AAATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGAAA-G--AATCGCAATGCGAA
38593 ATG-AAATCGCAA
1 ATGAAAATCGCAA
38605 CGAGATAATC
Statistics
Matches: 213, Mismatches: 4, Indels: 14
0.92 0.02 0.06
Matches are distributed among these distances:
51 94 0.44
52 67 0.31
53 17 0.08
54 9 0.04
55 1 0.00
56 9 0.04
57 16 0.08
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
Found at i:38526 original size:89 final size:88
Alignment explanation
Indices: 38301--38626 Score: 389
Period size: 89 Copynumber: 3.8 Consensus size: 88
38291 CGGAAAATAC
* *
38301 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAAAATCGCA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCA
* * * * *
38361 ACGAGAGAATCGCAATGCGAAATGAA-
65 ATGCGA-AAT-GAAAT-CGCAACGAAG
*
38387 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
38447 TGCGAAATGAAATCGCAACGACAG
66 TGCGAAATGAAATCGCAACGA-AG
*
38471 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
38536 TGCGAAATGAAATCGCAACGAAAG
66 TGCGAAATGAAATCGCAACG-AAG
*
38560 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCGCAA--CG--A-GATAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
38619 TGCGAAAT
66 TGCGAAAT
38627 TATAAACGCA
Statistics
Matches: 219, Mismatches: 12, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
82 6 0.03
83 23 0.11
84 30 0.14
85 19 0.09
86 43 0.20
87 1 0.00
88 10 0.05
89 86 0.39
90 1 0.00
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (88 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA
TGCGAAATGAAATCGCAACGAAG
Found at i:38605 original size:51 final size:54
Alignment explanation
Indices: 38301--38626 Score: 299
Period size: 51 Copynumber: 6.3 Consensus size: 54
38291 CGGAAAATAC
* *
38301 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCGCAA-GC-GAAATG-A
*
38354 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCGCAA-GCGAAATG-A
*
38406 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATG-AAATCGCAA-GCGAAATGA
* *
38457 AATCGCAA--CGACA-G--AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAA-TGAAATCGCAA-GCGAAATG-A
38509 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAA-CGAAA-G-
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAAGCGAAATGA
*
38560 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAA-CGAGAT--
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAAGCGAAATGA
38611 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
38627 TATAAACGCA
Statistics
Matches: 252, Mismatches: 6, Indels: 32
0.87 0.02 0.11
Matches are distributed among these distances:
48 9 0.04
49 1 0.00
50 1 0.00
51 111 0.44
52 68 0.27
53 27 0.11
54 9 0.04
55 1 0.00
56 10 0.04
57 15 0.06
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.14
Consensus pattern (54 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAATCGCAAGCGAAATGA
Found at i:38742 original size:19 final size:19
Alignment explanation
Indices: 38633--38734 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
38623 AAATTATAAA
38633 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
38652 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
38672 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
38688 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
38705 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
38724 CGCATTGCGAT
1 CGCATTGCGAT
38735 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:38866 original size:14 final size:14
Alignment explanation
Indices: 38837--38876 Score: 62
Period size: 14 Copynumber: 2.8 Consensus size: 14
38827 TTCGCATCAA
38837 TTACACAATCAACTT
1 TTACA-AATCAACTT
*
38852 TTACAAATCATCTT
1 TTACAAATCAACTT
38866 TTACAAATCAA
1 TTACAAATCAA
38877 TTAAACAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (14 bp):
TTACAAATCAACTT
Found at i:40873 original size:14 final size:14
Alignment explanation
Indices: 40854--40910 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
40844 GCGAAATTAA
*
40854 AATCGCAACGACAG
1 AATCGCAACGAAAG
40868 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
40885 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
40901 AATCGCAACG
1 AATCGCAACG
40911 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:40881 original size:33 final size:33
Alignment explanation
Indices: 40835--40927 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
40825 GCGAAACCAA
* *
40835 AATCGCAACGCGAAATTAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
40868 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
40901 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
40928 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:40892 original size:19 final size:19
Alignment explanation
Indices: 40798--40932 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
40788 TAGTTTACTT
* *
40798 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
40818 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
40837 TCGCAACGCGAAATTAAAA
1 TCGCAACGCGAAATGAAAA
*
40856 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
40870 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
40889 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
40903 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
40922 TCGCAATGCGA
1 TCGCAACGCGA
40933 TTTTGGTTTC
Statistics
Matches: 96, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
14 16 0.17
16 10 0.10
17 11 0.11
19 47 0.49
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.12
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:40950 original size:19 final size:19
Alignment explanation
Indices: 40928--41056 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
40918 AAAATCGCAA
40928 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
40947 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
40961 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
40980 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
40994 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
41013 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
41032 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
41052 TGCGA
1 TGCGA
41057 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:40970 original size:33 final size:33
Alignment explanation
Indices: 40928--41019 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
40918 AAAATCGCAA
40928 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
40961 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
40994 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
41020 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:41258 original size:92 final size:93
Alignment explanation
Indices: 41100--41663 Score: 1098
Period size: 92 Copynumber: 6.1 Consensus size: 93
41090 TTGAATGGAT
41100 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
41165 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
41193 AAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
41257 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
41285 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
41350 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
41378 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
41442 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
41470 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
41534 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
41562 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
41627 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
41655 AAATTTACT
1 AAATTTACT
41664 AAGCAATCTA
Statistics
Matches: 468, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
92 276 0.59
93 192 0.41
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:41423 original size:185 final size:186
Alignment explanation
Indices: 41100--41663 Score: 1098
Period size: 185 Copynumber: 3.0 Consensus size: 186
41090 TTGAATGGAT
41100 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
41165 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
41229 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
41285 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
41350 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
41415 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
41470 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
41534 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
41599 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
41655 AAATTTACT
1 AAATTTACT
41664 AAGCAATCTA
Statistics
Matches: 376, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
184 92 0.24
185 269 0.72
186 15 0.04
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:41595 original size:277 final size:278
Alignment explanation
Indices: 41100--41663 Score: 1096
Period size: 277 Copynumber: 2.0 Consensus size: 278
41090 TTGAATGGAT
41100 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
41165 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
41230 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
131 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
41295 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
196 TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
41360 AATTGGCAGCAACCGAAC
261 AATTGGCAGCAACCGAAC
41378 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
41442 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGAC-AAACAAAGACAAA
41507 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
130 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
41571 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
195 TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCA
*
41636 GAATTGGCAGCAACCGAAT
260 GAATTGGCAGCAACCGAAC
41655 AAATTTACT
1 AAATTTACT
41664 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
277 230 0.81
278 54 0.19
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (278 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAACAAAGACAAAT
ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTT
TCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAG
AATTGGCAGCAACCGAAC
Found at i:43236 original size:14 final size:14
Alignment explanation
Indices: 43217--43306 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
43207 TTGAAATGAA
43217 AATCGCAACGAGAG
1 AATCGCAACGAGAG
43231 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
43248 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
43264 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
43283 AATCGCAACGAGAG
1 AATCGCAACGAGAG
43297 AATCGCAACG
1 AATCGCAACG
43307 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:43254 original size:33 final size:33
Alignment explanation
Indices: 43209--43323 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
43199 TCTTTTGGTT
43209 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
43242 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
43275 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
43308 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
43324 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:43255 original size:19 final size:18
Alignment explanation
Indices: 43216--43328 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
43206 GTTGAAATGA
43216 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
43231 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
43248 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
43264 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
43281 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
43297 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
43314 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
43329 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:43359 original size:14 final size:14
Alignment explanation
Indices: 43340--43394 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
43330 TTTGGTTTCG
43340 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
43354 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
43373 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
43387 CGTTGCGA
1 CGTTGCGA
43395 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:43372 original size:33 final size:33
Alignment explanation
Indices: 43324--43394 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
43314 AAAATCGCAA
**
43324 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
43357 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
43390 TGCGA
1 TGCGA
43395 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:43402 original size:33 final size:33
Alignment explanation
Indices: 43335--43416 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
43325 GCGATTTTGG
***
43335 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
43368 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
43401 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
43417 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:43421 original size:20 final size:20
Alignment explanation
Indices: 43347--43435 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
43337 TCGCGTTGCG
43347 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
43367 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
43380 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
43400 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
43420 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
43436 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:43557 original size:32 final size:32
Alignment explanation
Indices: 43518--43586 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
43508 ACTAACTTGA
*
43518 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
* *
43550 AAATCGCAACGACAGAATCGTAACGCGAAATG
1 AAATCGCAACGACAGAATAGCAACGCGAAATG
43582 AAATC
1 AAATC
43587 TAAGTGAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (32 bp):
AAATCGCAACGACAGAATAGCAACGCGAAATG
Found at i:43560 original size:18 final size:18
Alignment explanation
Indices: 43537--43586 Score: 54
Period size: 16 Copynumber: 3.0 Consensus size: 18
43527 CGAGAGAATA
43537 GCAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
*
43555 GCAA--CGACA-G-AATC
1 GCAACGCGAAATGAAATC
*
43569 GTAACGCGAAATGAAATC
1 GCAACGCGAAATGAAATC
43587 TAAGTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 8
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.28
15 1 0.04
16 8 0.32
17 1 0.04
18 8 0.32
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (18 bp):
GCAACGCGAAATGAAATC
Found at i:43816 original size:22 final size:22
Alignment explanation
Indices: 43764--43818 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
43754 TGGTTGTGAG
**
43764 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
43786 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
43808 GGATTTCTTCG
1 GGATTTCTTCG
43819 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:43989 original size:20 final size:20
Alignment explanation
Indices: 43964--44156 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
43954 CTTTAAATAT
43964 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
43984 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
44006 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
44025 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
44045 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
44065 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
44085 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
44105 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
44125 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
44145 CGCGTTGCGATT
1 CGCGTTGCGATT
44157 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:44151 original size:60 final size:60
Alignment explanation
Indices: 43964--44156 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
43954 CTTTAAATAT
**
43964 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
44025 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
44085 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
44145 CGCGTTGCGATT
1 CGCGTTGCGATT
44157 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:44237 original size:20 final size:20
Alignment explanation
Indices: 44212--44263 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
44202 AAGAATCGCG
*
44212 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
44232 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
44252 TTGCGATTCTGG
1 TTGCGATTCTGG
44264 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:46356 original size:22 final size:21
Alignment explanation
Indices: 46316--46363 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
46306 ATATTATTTG
* *
46316 AAATTTTTTTGAAATAAAATA
1 AAATTTTTTTAAAACAAAATA
46337 AAATATTTTTTAAAAC-AAA-A
1 AAAT-TTTTTTAAAACAAAATA
46357 AAATTTT
1 AAATTTT
46364 AATCATCAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 5 0.21
21 7 0.29
22 9 0.38
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AAATTTTTTTAAAACAAAATA
Found at i:46632 original size:111 final size:110
Alignment explanation
Indices: 46435--46679 Score: 384
Period size: 111 Copynumber: 2.2 Consensus size: 110
46425 ATATTTAAAG
*
46435 GAAAGAAGCTTATCGACATAGCAAGCTTGGACATTTCTCCACCTCACCTGCCTGCTTGCAACACT
1 GAAAGAAGCTTACCGACATAGCAAGCTTGGACATTTCTCCACCTCACCTGCCTGCTTGCAACACT
*
46500 AAATCTGCTATTTAGTACCCCTAAAGCAGAGAAGCGGTGCTAGAAA
66 AAATCTGCTATTTAATACCCCTAAAGCAGAGAAGCGGTGCTAG-AA
*
46546 GAAAGAAGCTTACCGACATAGTAAGCTTGGAGC-TTTCTCCACCTCACCTGCCTGCTTGCAACAC
1 GAAAGAAGCTTACCGACATAGCAAGCTTGGA-CATTTCTCCACCTCACCTGCCTGCTTGCAACAC
* *
46610 TAAATCTGCTGTTTAATTCCCCTAAAGCAGAGAAGCGGTGCTAGAA
65 TAAATCTGCTATTTAATACCCCTAAAGCAGAGAAGCGGTGCTAGAA
* * *
46656 GTAATGAAGCTGACCCACATAGCA
1 G-AAAGAAGCTTACCGACATAGCA
46680 GGTTTGACCA
Statistics
Matches: 123, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
110 3 0.02
111 119 0.97
112 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (110 bp):
GAAAGAAGCTTACCGACATAGCAAGCTTGGACATTTCTCCACCTCACCTGCCTGCTTGCAACACT
AAATCTGCTATTTAATACCCCTAAAGCAGAGAAGCGGTGCTAGAA
Found at i:51576 original size:15 final size:16
Alignment explanation
Indices: 51556--51596 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
51546 TTTATTTCAA
*
51556 AATGATT-AAGCGCTG
1 AATGATTCAAACGCTG
*
51571 AATGATTCAAATGCTG
1 AATGATTCAAACGCTG
51587 AATGATTCAA
1 AATGATTCAA
51597 CGGCTCTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.30
16 16 0.70
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (16 bp):
AATGATTCAAACGCTG
Found at i:63805 original size:24 final size:24
Alignment explanation
Indices: 63777--63825 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
63767 CATGAGTTTT
63777 AGATTCATTAAGACGTTTACGAAC
1 AGATTCATTAAGACGTTTACGAAC
63801 AGATTCATTAAGACGTTTACGAAC
1 AGATTCATTAAGACGTTTACGAAC
63825 A
1 A
63826 CTCTCTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (24 bp):
AGATTCATTAAGACGTTTACGAAC
Found at i:64701 original size:13 final size:13
Alignment explanation
Indices: 64683--64709 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
64673 GCAGATGTAC
64683 ATGACTCCGTAGG
1 ATGACTCCGTAGG
64696 ATGACTCCGTAGG
1 ATGACTCCGTAGG
64709 A
1 A
64710 GAGTCATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (13 bp):
ATGACTCCGTAGG
Found at i:67740 original size:25 final size:25
Alignment explanation
Indices: 67702--67825 Score: 216
Period size: 25 Copynumber: 5.0 Consensus size: 25
67692 AGTTAGGGGA
*
67702 TTAGGG-TTGAAACCCTAAAT-TGTT
1 TTAGGGTTTGAAACCCT-AATCTGAT
67726 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
67751 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
67776 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
67801 TTAGGGTTTGAAACCCTAATCTGAT
1 TTAGGGTTTGAAACCCTAATCTGAT
67826 GGGTTGGTTC
Statistics
Matches: 97, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
24 9 0.09
25 88 0.91
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (25 bp):
TTAGGGTTTGAAACCCTAATCTGAT
Found at i:67962 original size:3 final size:3
Alignment explanation
Indices: 67954--67999 Score: 60
Period size: 3 Copynumber: 15.7 Consensus size: 3
67944 ATATATAATT
*
67954 TAA TAA TAA TAA TAA TAA TAA TAA TAA TTAA TAA -AA TTA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
67998 TA
1 TA
68000 TAAAAAAGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 3 0.08
3 32 0.84
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:68229 original size:43 final size:44
Alignment explanation
Indices: 68172--68360 Score: 133
Period size: 43 Copynumber: 4.4 Consensus size: 44
68162 CTCATACGCA
* *
68172 ATGAAGAGGTCTGGTCGTCTAAGGG-TGACACGGCTCCTACGTG
1 ATGAAGAGATCTGGTCATCTAAGGGATGACACGGCTCCTACGTG
* * * *
68215 ATGAGGAGATCTGG---TC-AGGGGATGACACTGCTCCTACATG
1 ATGAAGAGATCTGGTCATCTAAGGGATGACACGGCTCCTACGTG
* * * *
68255 ATGAAGA-ATTCTTGGCCATCTTTAGGTGATAACACGGTTCCTACGTG
1 ATGAAGAGA-TC-TGGTCATC-TAAGG-GATGACACGGCTCCTACGTG
* * * * * *
68302 ATGAGGACG-GCTGGTTATCT-ATGGTTGACACGGCTCATACGTG
1 ATGAAGA-GATCTGGTCATCTAAGGGATGACACGGCTCCTACGTG
68345 ATGAAGAGATCTGGTC
1 ATGAAGAGATCTGGTC
68361 TGGGGATGAC
Statistics
Matches: 110, Mismatches: 24, Indels: 24
0.70 0.15 0.15
Matches are distributed among these distances:
39 5 0.05
40 26 0.24
41 3 0.03
42 1 0.01
43 39 0.35
44 4 0.04
45 1 0.01
46 8 0.07
47 23 0.21
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (44 bp):
ATGAAGAGATCTGGTCATCTAAGGGATGACACGGCTCCTACGTG
Done.