Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167960.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_22, 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: 19587844
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 68000 characters in sequence are not A, C, G, or T
File 85 of 105
Found at i:14918734 original size:33 final size:31
Alignment explanation
Indices: 14918667--14918750 Score: 114
Period size: 33 Copynumber: 2.6 Consensus size: 31
14918657 ACATGCAAGC
*
14918667 TAAATTGGGCTTAAATTTTTCTTAGTACTTGT
1 TAAATTGGGCTTAAA-TTTTCTTAGTACTAGT
* *
14918699 TAAACTGGACTTAAATTTTCATTGAGTACTAGT
1 TAAATTGGGCTTAAATTTTC-TT-AGTACTAGT
14918732 TAAATTGGGCTTAAATTTT
1 TAAATTGGGCTTAAATTTT
14918751 TTCTTGGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 5 0.11
32 15 0.33
33 25 0.56
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (31 bp):
TAAATTGGGCTTAAATTTTCTTAGTACTAGT
Found at i:14919070 original size:32 final size:32
Alignment explanation
Indices: 14918936--14919190 Score: 151
Period size: 32 Copynumber: 7.8 Consensus size: 32
14918926 CTTAAACCTA
*
14918936 GGTGCCAACTAAACTACGCTTAAA-TTTCTATT
1 GGTGCCAACTAAACTAAGCTTAAATTTTC-ATT
* * ** *
14918968 GATGCCAACTAGACT-AGACTTAAAACTTCATA
1 GGTGCCAACTAAACTAAG-CTTAAATTTTCATT
* * * **
14919000 GGTACTAGCTAAACT-AGCCTTAAATCTTTTCAAA
1 GGTGCCAACTAAACTAAG-CTTAAA--TTTTCATT
*
14919034 GGTGCCAACTAAATTAAGCTTAAATTTTCATT
1 GGTGCCAACTAAACTAAGCTTAAATTTTCATT
* * *
14919066 GGTGCTAGCTAAAATAAGCTTAAATTTTTC-TT
1 GGTGCCAACTAAACTAAGCTTAAA-TTTTCATT
* * **
14919098 GGCTACCAACTAAATTGGGCTTAAA-TTTCATT
1 GG-TGCCAACTAAACTAAGCTTAAATTTTCATT
* ** *
14919130 GGGTGCCAACTAAGCTGGGCTTAAATCTTTTCATG
1 -GGTGCCAACTAAACTAAGCTTAAA--TTTTCATT
* *
14919165 GGATGCTAGCTAAACTAAGCTTAAAT
1 GG-TGCCAACTAAACTAAGCTTAAAT
14919191 CTTATTCATG
Statistics
Matches: 172, Mismatches: 38, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
31 5 0.03
32 91 0.53
33 27 0.16
34 24 0.14
35 25 0.15
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (32 bp):
GGTGCCAACTAAACTAAGCTTAAATTTTCATT
Found at i:14919152 original size:65 final size:66
Alignment explanation
Indices: 14919038--14919161 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 66
14919028 TTCAAAGGTG
* *
14919038 CCAACTAAATTAAGCTTAAATTTTCATTGGTGCTAGCTAAAATAAGCTTAAAT-TTTTCTTGGCT
1 CCAACTAAATTAAGCTTAAATTTTCATTGGTGCCAACTAAAATAAGCTTAAATCTTTTCTTGGCT
14919102 A
66 A
** ** **
14919103 CCAACTAAATTGGGCTTAAA-TTTCATTGGGTGCCAACTAAGCTGGGCTTAAATCTTTTC
1 CCAACTAAATTAAGCTTAAATTTTCATT-GGTGCCAACTAAAATAAGCTTAAATCTTTTC
14919162 ATGGGATGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
64 7 0.14
65 37 0.76
66 5 0.10
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (66 bp):
CCAACTAAATTAAGCTTAAATTTTCATTGGTGCCAACTAAAATAAGCTTAAATCTTTTCTTGGCT
A
Found at i:14919252 original size:32 final size:32
Alignment explanation
Indices: 14919216--14919301 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 32
14919206 CAAATTGGGT
14919216 TTAAAACTTCATTGGTGCTAGCTAATCTAGGC
1 TTAAAACTTCATTGGTGCTAGCTAATCTAGGC
* * * *
14919248 TT-AAA-TT--TGGGTGCTTGCTAAACTGGGC
1 TTAAAACTTCATTGGTGCTAGCTAATCTAGGC
* * *
14919276 TTAAGACTTCATTGGTACTAGATAAT
1 TTAAAACTTCATTGGTGCTAGCTAAT
14919302 TTGGACTTAA
Statistics
Matches: 40, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
28 19 0.47
29 2 0.05
30 4 0.10
31 3 0.08
32 12 0.30
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (32 bp):
TTAAAACTTCATTGGTGCTAGCTAATCTAGGC
Found at i:14919855 original size:18 final size:18
Alignment explanation
Indices: 14919819--14919856 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14919809 CCACATTCAT
*
14919819 TTTTTTTATTTTATTTTA
1 TTTTTTTATTTTATATTA
14919837 TTTTTTTATCTTT-TATTA
1 TTTTTTTAT-TTTATATTA
14919855 TT
1 TT
14919857 ACACCATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTTTATTTTATATTA
Found at i:14920573 original size:94 final size:95
Alignment explanation
Indices: 14920461--14920644 Score: 343
Period size: 94 Copynumber: 1.9 Consensus size: 95
14920451 TTTGTAATGA
*
14920461 ATGATGAAAGATGGCCATTTGTCATTTCAAGCATAATCACTTAAATTGAAAAGTAATTCCC-TTT
1 ATGATGAAAGATGACCATTTGTCATTTCAAGCATAATCACTTAAATTGAAAAGTAATTCCCTTTT
14920525 GAAAAAATGAATTTAAAGAAAGTTTAATTG
66 GAAAAAATGAATTTAAAGAAAGTTTAATTG
14920555 ATGATGAAAGATGACCATTTGTCATTTCAAGCATAATCACTTAAATTGAAAAGTAATTCCCTTTT
1 ATGATGAAAGATGACCATTTGTCATTTCAAGCATAATCACTTAAATTGAAAAGTAATTCCCTTTT
*
14920620 GGAAAAATGAATTTAAAGAAAGTTT
66 GAAAAAATGAATTTAAAGAAAGTTT
14920645 TCATTTCAAA
Statistics
Matches: 87, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
94 60 0.69
95 27 0.31
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (95 bp):
ATGATGAAAGATGACCATTTGTCATTTCAAGCATAATCACTTAAATTGAAAAGTAATTCCCTTTT
GAAAAAATGAATTTAAAGAAAGTTTAATTG
Found at i:14926399 original size:25 final size:25
Alignment explanation
Indices: 14926353--14926401 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
14926343 GTTTAACATA
* *
14926353 ATTATGATTTTTGAAATGTTTTGAC
1 ATTATGATTTATGAAATATTTTGAC
14926378 ATTATGATTTGATG-AATATTTTGA
1 ATTATGATTT-ATGAAATATTTTGA
14926402 ATGATCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.31, C:0.02, G:0.16, T:0.51
Consensus pattern (25 bp):
ATTATGATTTATGAAATATTTTGAC
Found at i:14930164 original size:3 final size:3
Alignment explanation
Indices: 14930156--14930208 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
14930146 TTTAATAAAA
14930156 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14930204 ATT AT
1 ATT AT
14930209 ACTTTCCTCT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14930328 original size:3 final size:3
Alignment explanation
Indices: 14930320--14930384 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
14930310 TTCTAAAATT
14930320 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14930368 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
14930385 TTGTCTTCTT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:14932245 original size:26 final size:27
Alignment explanation
Indices: 14932194--14932245 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
14932184 ATCATCATTT
*
14932194 TTTTTTTTGCTTATTATTATTTTTTAA
1 TTTTTTTTGCTTATTATTATGTTTTAA
14932221 TTTTTTTTG-TTATTAATTA-GTTTTA
1 TTTTTTTTGCTTATT-ATTATGTTTTA
14932246 GTATTACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (27 bp):
TTTTTTTTGCTTATTATTATGTTTTAA
Found at i:14934673 original size:13 final size:13
Alignment explanation
Indices: 14934651--14934689 Score: 55
Period size: 12 Copynumber: 3.2 Consensus size: 13
14934641 TTATTTGTAT
14934651 GTTT-ATTTTTTA
1 GTTTAATTTTTTA
*
14934663 GTTTAA-TTTTTG
1 GTTTAATTTTTTA
14934675 GTTTAATTTTTTA
1 GTTTAATTTTTTA
14934688 GT
1 GT
14934690 CAAAAGAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.69
Consensus pattern (13 bp):
GTTTAATTTTTTA
Found at i:14935343 original size:20 final size:20
Alignment explanation
Indices: 14935318--14935404 Score: 69
Period size: 20 Copynumber: 4.6 Consensus size: 20
14935308 GTATTATTGT
14935318 TTGCATGATTATATATTTAA
1 TTGCATGATTATATATTTAA
**
14935338 TTGCATG-TT-TAT-TTGCA
1 TTGCATGATTATATATTTAA
* *
14935355 -TG-AT-TTATATATATTTAT
1 TTGCATGAT-TATATATTTAA
*
14935373 TTGCATGATTATATATTTGA
1 TTGCATGATTATATATTTAA
*
14935393 TTGCATGTTTAT
1 TTGCATGATTAT
14935405 TTGGATAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
15 3 0.06
16 3 0.06
17 6 0.12
18 5 0.10
19 4 0.08
20 29 0.57
21 1 0.02
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.54
Consensus pattern (20 bp):
TTGCATGATTATATATTTAA
Found at i:14935352 original size:55 final size:55
Alignment explanation
Indices: 14935293--14935437 Score: 188
Period size: 55 Copynumber: 2.7 Consensus size: 55
14935283 TTTTGCATGA
* *
14935293 ATTTGCATGATTTATGTAT-TATTGTTTGCATGATTATATATTTAATTGCATGTTT
1 ATTTGCATGATTTATATATAT-TTATTTGCATGATTATATATTTAATTGCATGTTT
*
14935348 ATTTGCATGATTTATATATATTTATTTGCATGATTATATATTTGATTGCATGTTT
1 ATTTGCATGATTTATATATATTTATTTGCATGATTATATATTTAATTGCATGTTT
* * * * *
14935403 ATTTGGATAATTTACAT-T-GTTACTTGCATGATTAT
1 ATTTGCATGATTTATATATATTTATTTGCATGATTAT
14935438 TAATTTATTT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 15 0.19
54 1 0.01
55 64 0.79
56 1 0.01
ACGTcount: A:0.27, C:0.06, G:0.14, T:0.53
Consensus pattern (55 bp):
ATTTGCATGATTTATATATATTTATTTGCATGATTATATATTTAATTGCATGTTT
Found at i:14935372 original size:23 final size:22
Alignment explanation
Indices: 14935345--14935404 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
14935335 TAATTGCATG
14935345 TTTATTTGCATGATTTATATAT
1 TTTATTTGCATGATTTATATAT
14935367 ATTTATTTGCATGA-TTATATAT
1 -TTTATTTGCATGATTTATATAT
*
14935389 TTGA-TTGCATG-TTTAT
1 TTTATTTGCATGATTTAT
14935405 TTGGATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
20 11 0.31
21 3 0.09
22 8 0.23
23 13 0.37
ACGTcount: A:0.27, C:0.05, G:0.12, T:0.57
Consensus pattern (22 bp):
TTTATTTGCATGATTTATATAT
Found at i:14935549 original size:24 final size:23
Alignment explanation
Indices: 14935517--14935578 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
14935507 TATTATTGCA
*
14935517 TAATTTTATATTTATTACATGAT
1 TAATATTATATTTATTACATGAT
* *
14935540 ATGATATTATATGTTATTGCATGAT
1 -TAATATTATAT-TTATTACATGAT
14935565 TAATATTATATTTA
1 TAATATTATATTTA
14935579 AATGACATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 3 0.09
24 19 0.58
25 11 0.33
ACGTcount: A:0.35, C:0.03, G:0.08, T:0.53
Consensus pattern (23 bp):
TAATATTATATTTATTACATGAT
Found at i:14935743 original size:18 final size:18
Alignment explanation
Indices: 14935722--14935774 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
14935712 GCATGGTGTT
14935722 TTATATTATTGCATGATA
1 TTATATTATTGCATGATA
*
14935740 TTATA-TATTTACATGAT-
1 TTATATTA-TTGCATGATA
**
14935757 TGCTATTATTGCATGATA
1 TTATATTATTGCATGATA
14935775 ATTAATATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (18 bp):
TTATATTATTGCATGATA
Found at i:14936396 original size:20 final size:20
Alignment explanation
Indices: 14936351--14936395 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
14936341 ATTTGTTATC
14936351 CTTTTTGAGCCTATTGAAAT
1 CTTTTTGAGCCTATTGAAAT
14936371 CTTTTTGAGCCTATTG-AAT
1 CTTTTTGAGCCTATTGAAAT
14936390 CTTTTT
1 CTTTTT
14936396 TAAGAAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.20, C:0.16, G:0.13, T:0.51
Consensus pattern (20 bp):
CTTTTTGAGCCTATTGAAAT
Found at i:14937996 original size:41 final size:41
Alignment explanation
Indices: 14937948--14938381 Score: 192
Period size: 41 Copynumber: 10.6 Consensus size: 41
14937938 CCTTTTAAGG
* *
14937948 GAAGAGCTTTTTCATTTTTAAAATTCCATAACCTCTGGTGA
1 GAAGAGCTTTTTCATTTTTAAAATTTCATAGCCTCTGGTGA
* * * * *
14937989 GAGGAGCTTCTTCATTTTTTAAATTTTATAGCCTTTGGTGA
1 GAAGAGCTTTTTCATTTTTAAAATTTCATAGCCTCTGGTGA
* * * *
14938030 G-AG-G----TGC---TCT-AAATTCCATAGCCTCTAGTGA
1 GAAGAGCTTTTTCATTTTTAAAATTTCATAGCCTCTGGTGA
* * * * * *
14938061 -AATGAGTTTTTTTATTTTTTAAAGTTTCATAACCTCAGATGA
1 GAA-GAGCTTTTTCA-TTTTTAAAATTTCATAGCCTCTGGTGA
* * * * * *
14938103 GATGAACTCTTTCATTTTCTTAAAGTTTTATAGCCTCTAGTGA
1 GAAGAGCTTTTTCA-TTT-TTAAAATTTCATAGCCTCTGGTGA
* * * * *
14938146 GAAGGAGCTCTTTCATTTTTCAAGTTTCATAGCCTTTGGTAA
1 GAA-GAGCTTTTTCATTTTTAAAATTTCATAGCCTCTGGTGA
* * * * *
14938188 GAAGAGCTTTTTCACTTTTAAAGTTCCATAGCTTTTGGT-A
1 GAAGAGCTTTTTCATTTTTAAAATTTCATAGCCTCTGGTGA
* * * * * *
14938228 GGAAAAGCTCTTTCTTTTTCTAAAATTTCAAAACCTTTGGTGA
1 -GAAGAGCTTTTTCATTTT-TAAAATTTCATAGCCTCTGGTGA
* * * * ** *
14938271 GAAGAGCTTTTTGGTTGAAAATTTTAAAGTTTCACAATCTCTAGTGA
1 GAAGAGC--TTT--TT--CATTTTTAAAATTTCATAGCCTCTGGTGA
* * *
14938318 GAAGAGCTTTTTCATTTTTATAGTTTCATAGCCTTTGGTGA
1 GAAGAGCTTTTTCATTTTTAAAATTTCATAGCCTCTGGTGA
* *
14938359 GGAGAGCTCTTTT-ATTTTCAAAA
1 GAAGAGCT-TTTTCATTTTTAAAA
14938382 CCTTTGTTAA
Statistics
Matches: 292, Mismatches: 76, Indels: 50
0.70 0.18 0.12
Matches are distributed among these distances:
31 18 0.06
32 3 0.01
33 1 0.00
35 2 0.01
37 1 0.00
39 1 0.00
40 2 0.01
41 117 0.40
42 74 0.25
43 28 0.10
44 12 0.04
45 3 0.01
46 2 0.01
47 25 0.09
48 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (41 bp):
GAAGAGCTTTTTCATTTTTAAAATTTCATAGCCTCTGGTGA
Found at i:14938458 original size:37 final size:37
Alignment explanation
Indices: 14938406--14938483 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
14938396 AGCCTTTTAA
* *
14938406 ATTTTTCAAAATTTCAAAATCTCTATTGAAGGGGAGC
1 ATTTTTCAAAATTTCAAAACCTCTATTAAAGGGGAGC
* * * *
14938443 ATTTTTCAAAGTTTCAAAGCCTTTGTTAAAGGGGAGC
1 ATTTTTCAAAATTTCAAAACCTCTATTAAAGGGGAGC
14938480 ATTT
1 ATTT
14938484 ACAATTTTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (37 bp):
ATTTTTCAAAATTTCAAAACCTCTATTAAAGGGGAGC
Found at i:14938896 original size:3 final size:3
Alignment explanation
Indices: 14938875--14938922 Score: 69
Period size: 3 Copynumber: 15.7 Consensus size: 3
14938865 TATTTTAGTT
* *
14938875 TTA TTA GTA TTA GTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
14938921 TT
1 TT
14938923 TGTGGTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:14938903 original size:25 final size:25
Alignment explanation
Indices: 14938874--14938922 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
14938864 TTATTTTAGT
14938874 TTTATTAGTATTAGTATTATTATTA
1 TTTATTAGTATTAGTATTATTATTA
* *
14938899 TTTATTATTATTATTATTATTATT
1 TTTATTAGTATTAGTATTATTATT
14938923 TGTGGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTATTAGTATTAGTATTATTATTA
Found at i:14938910 original size:19 final size:19
Alignment explanation
Indices: 14938882--14938919 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14938872 GTTTTATTAG
14938882 TATTAGTATTATTATTATT
1 TATTAGTATTATTATTATT
*
14938901 TATTATTATTATTATTATT
1 TATTAGTATTATTATTATT
14938920 ATTTGTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (19 bp):
TATTAGTATTATTATTATT
Found at i:14938913 original size:22 final size:22
Alignment explanation
Indices: 14938882--14938923 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
14938872 GTTTTATTAG
14938882 TATTAGTATTATTATTATTTAT
1 TATTAGTATTATTATTATTTAT
*
14938904 TATTATTATTATTATTATTT
1 TATTAGTATTATTATTATTT
14938924 GTGGTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (22 bp):
TATTAGTATTATTATTATTTAT
Found at i:14939493 original size:28 final size:27
Alignment explanation
Indices: 14939427--14939505 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
14939417 TTTCTTAAAA
* * *
14939427 TTTTAGGATTTTGAATTTGGATTGAAT
1 TTTTGGGATTTTGGATTTGGGTTGAAT
*
14939454 TTTTGGGATTTTGGATTTGGGTTGACTT
1 TTTTGGGATTTTGGATTTGGGTTGA-AT
*
14939482 TTTTGGGATTTTGGAATTCGGGTT
1 TTTTGGGATTTTGG-ATTTGGGTT
14939506 TGATTTCTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
27 22 0.49
28 15 0.33
29 8 0.18
ACGTcount: A:0.16, C:0.03, G:0.29, T:0.52
Consensus pattern (27 bp):
TTTTGGGATTTTGGATTTGGGTTGAAT
Found at i:14940153 original size:23 final size:23
Alignment explanation
Indices: 14940112--14940238 Score: 87
Period size: 25 Copynumber: 5.3 Consensus size: 23
14940102 AAACTTTGGT
* **
14940112 ATGATTTTTTTATTTTATTTTGC
1 ATGATTTTATTATGATATTTTGC
*
14940135 ATGATTTTGTTATGATATTTATTGC
1 ATGATTTTATTATGATA-TT-TTGC
* * * *
14940160 TTGATATCT-TTACCTGATTTTTTGT
1 ATGAT-TTTATTA--TGATATTTTGC
*
14940185 ATGATTTTTATTATAATATTTTAGC
1 ATGA-TTTTATTATGATATTTT-GC
14940210 ATGATTTTTATTATGATA-TTTGC
1 ATGA-TTTTATTATGATATTTTGC
14940233 ATGATT
1 ATGATT
14940239 GCATGTTTTA
Statistics
Matches: 83, Mismatches: 13, Indels: 17
0.73 0.12 0.15
Matches are distributed among these distances:
22 2 0.02
23 20 0.24
24 12 0.14
25 37 0.45
26 8 0.10
27 4 0.05
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (23 bp):
ATGATTTTATTATGATATTTTGC
Found at i:14940225 original size:12 final size:12
Alignment explanation
Indices: 14940174--14940226 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
14940164 TATCTTTACC
14940174 TGATTTTT-TGTA
1 TGATTTTTAT-TA
14940186 TGATTTTTATTA
1 TGATTTTTATTA
* **
14940198 TAATATTTTAGCA
1 TGAT-TTTTATTA
14940211 TGATTTTTATTA
1 TGATTTTTATTA
14940223 TGAT
1 TGAT
14940227 ATTTGCATGA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 23 0.70
13 10 0.30
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.60
Consensus pattern (12 bp):
TGATTTTTATTA
Found at i:14940253 original size:30 final size:33
Alignment explanation
Indices: 14940208--14940269 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 33
14940198 TAATATTTTA
*
14940208 GCATGATTTTTATTATGATA-T-TTGCATGATT
1 GCATGATTTTAATTATGATATTATTGCATGATT
14940239 GCATG-TTTTAATTATGATATTATTGCATGAT
1 GCATGATTTTAATTATGATATTATTGCATGAT
14940270 ATTTTTCTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 13 0.46
31 6 0.21
32 9 0.32
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.50
Consensus pattern (33 bp):
GCATGATTTTAATTATGATATTATTGCATGATT
Found at i:14950424 original size:12 final size:12
Alignment explanation
Indices: 14950407--14950440 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14950397 ACTCAGAAAC
14950407 ACCATTCAACAA
1 ACCATTCAACAA
*
14950419 ACCATTCAACAT
1 ACCATTCAACAA
*
14950431 ACGATTCAAC
1 ACCATTCAAC
14950441 CCTCAAATAT
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:0.44, C:0.32, G:0.03, T:0.21
Consensus pattern (12 bp):
ACCATTCAACAA
Found at i:14950500 original size:80 final size:82
Alignment explanation
Indices: 14950410--14950631 Score: 272
Period size: 80 Copynumber: 2.8 Consensus size: 82
14950400 CAGAAACACC
* * * *
14950410 ATTCAACAAACCATTCAACATACGATTCAACCCTCAAATATCATACAAAACCATTCAGCA-AA-A
1 ATTCAACAAACTATTCAACATATGATTCAACCCCCAAATATCATACAATACCATTCAGCATAATA
* *
14950473 TAATATTAGACAACAAG
66 CAATATCAGACAACAAG
* * * *
14950490 GTTCAACAAACTATTCAACATATGATCCAGCCCCCCAATATCATACAATACCATTC-G-ATAATA
1 ATTCAACAAACTATTCAACATATGATTCAACCCCCAAATATCATACAATACCATTCAGCATAATA
*
14950553 CAATATCATACAACAAG
66 CAATATCAGACAACAAG
* ** * *
14950570 ATTCAGCAAACTATTCAGTATATGATTCAACCCCCAAATATCATACTATACCATTTAGCATA
1 ATTCAACAAACTATTCAACATATGATTCAACCCCCAAATATCATACAATACCATTCAGCATA
14950632 TGATTCAGTC
Statistics
Matches: 118, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
78 1 0.01
79 3 0.03
80 110 0.93
81 1 0.01
82 3 0.03
ACGTcount: A:0.44, C:0.26, G:0.06, T:0.25
Consensus pattern (82 bp):
ATTCAACAAACTATTCAACATATGATTCAACCCCCAAATATCATACAATACCATTCAGCATAATA
CAATATCAGACAACAAG
Found at i:14950662 original size:119 final size:120
Alignment explanation
Indices: 14950508--14950743 Score: 420
Period size: 119 Copynumber: 2.0 Consensus size: 120
14950498 AACTATTCAA
*
14950508 CATATGATCCAGCCCCCCAATATCATACAATACCATTCGATAATACAATATCATACAACAAGATT
1 CATATGATCCAGCCCCCCAATATCATACAATACCATTCGACAATACAATATCATACAACAAGATT
14950573 CAGCAAACTATTCAGTATATGATTCAACCCCCAAATATCATACTATACCATTTAG
66 CAGCAAACTATTCAGTATATGATTCAACCCCCAAATATCATACTATACCATTTAG
* * *
14950628 CATATGATTCAG-TCCCCAATATCATACAATACCATTCGACAATACAATATCATACAACAAGGTT
1 CATATGATCCAGCCCCCCAATATCATACAATACCATTCGACAATACAATATCATACAACAAGATT
*
14950692 CAGCAAACTATTCAGTATATGATTCAACCTCCAAATATCATACTATACCATT
66 CAGCAAACTATTCAGTATATGATTCAACCCCCAAATATCATACTATACCATT
14950744 CAGTAAAAAA
Statistics
Matches: 111, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
119 100 0.90
120 11 0.10
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.28
Consensus pattern (120 bp):
CATATGATCCAGCCCCCCAATATCATACAATACCATTCGACAATACAATATCATACAACAAGATT
CAGCAAACTATTCAGTATATGATTCAACCCCCAAATATCATACTATACCATTTAG
Found at i:14950768 original size:79 final size:79
Alignment explanation
Indices: 14950629--14950778 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 79
14950619 ACCATTTAGC
* * *
14950629 ATATGATTCAGTCCCCAATATCATACAATACCATTCGACAATACAATATCATACAACAAGGTTCA
1 ATATGATTCAGACCCCAATATCATACAATACCATTCGACAATACAAAATCAAACAACAAGGTTCA
14950694 GCAAACTATTCAGT
66 GCAAACTATTCAGT
*
14950708 ATATGATTCA-ACCTCCAAATATCATACTATACCATTCAGTA-AA-A-AAAATCAAACAACAAGG
1 ATATGATTCAGACC-CC-AATATCATACAATACCATTC-G-ACAATACAAAATCAAACAACAAGG
*
14950769 TTTAGCAAAC
62 TTCAGCAAAC
14950779 CATAATATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
78 2 0.03
79 36 0.58
80 20 0.32
81 3 0.05
82 1 0.02
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (79 bp):
ATATGATTCAGACCCCAATATCATACAATACCATTCGACAATACAAAATCAAACAACAAGGTTCA
GCAAACTATTCAGT
Found at i:14950781 original size:119 final size:119
Alignment explanation
Indices: 14950529--14950767 Score: 343
Period size: 119 Copynumber: 2.0 Consensus size: 119
14950519 GCCCCCCAAT
*
14950529 ATCATACAATACCATTCGATAATACAATATCATACAACAAGATTCAGCAAACTATTCAGTATATG
1 ATCATACAATACCATTCGACAATACAATATCATACAACAAGATTCAGCAAACTATTCAGTATATG
* * * ** * ** ** *
14950594 ATTCAACCCCCAAATATCATACTATACCATTTAGCATATGATTCAGTCCCCAAT
66 ATTCAACCCCCAAATATCATACTATACCATTCAGAAAAAAAATCAAACAACAAG
*
14950648 ATCATACAATACCATTCGACAATACAATATCATACAACAAGGTTCAGCAAACTATTCAGTATATG
1 ATCATACAATACCATTCGACAATACAATATCATACAACAAGATTCAGCAAACTATTCAGTATATG
*
14950713 ATTCAACCTCCAAATATCATACTATACCATTCAGTAAAAAAAATCAAACAACAAG
66 ATTCAACCCCCAAATATCATACTATACCATTCAG-AAAAAAAATCAAACAACAAG
14950768 GTTTAGCAAA
Statistics
Matches: 105, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
119 95 0.90
120 10 0.10
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (119 bp):
ATCATACAATACCATTCGACAATACAATATCATACAACAAGATTCAGCAAACTATTCAGTATATG
ATTCAACCCCCAAATATCATACTATACCATTCAGAAAAAAAATCAAACAACAAG
Found at i:14959523 original size:21 final size:20
Alignment explanation
Indices: 14959498--14959545 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
14959488 AGGAGCATGC
14959498 CAAAATTGAGGAAGAATGTG
1 CAAAATTGAGGAAGAATGTG
* *
14959518 CTAAAATGGAGTAAGAATGTG
1 C-AAAATTGAGGAAGAATGTG
14959539 CAAAATT
1 CAAAATT
14959546 TCAGTAGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.46, C:0.06, G:0.25, T:0.23
Consensus pattern (20 bp):
CAAAATTGAGGAAGAATGTG
Found at i:14960433 original size:134 final size:133
Alignment explanation
Indices: 14960155--14960448 Score: 290
Period size: 134 Copynumber: 2.2 Consensus size: 133
14960145 TTTTTTTCAT
* * * *
14960155 AAAACGCCGCTAATATAGAGGTATTTTCGGATACAAACGCCTCCAAAGTAGTGACATTTTCAGTT
1 AAAACGCCACTAATATAGAGGTATTTTCAGATACAAACGCCTCCAAAGTAGCGACATTTTCAATT
** * * *
14960220 ACAAATGTCACCAAAGTAATGATGTTTTTCTCATAAAAATTACACTAAATTAGCGACGTCTCAAA
66 ACAAATACCACCAAAGCAATGA-GTTTTTCTCATAAAAAGTACACTAAATTAGCGACATCTCAAA
14960285 GAAA
130 GAAA
** * * * * ***
14960289 AAAATACCACTAATATAGAGGTATTTTTATATACAAACGTCTCTAAAGTAGCGGTGTTTTCAATT
1 AAAACGCCACTAATATAGAGGTATTTTCAGATACAAACGCCTCCAAAGTAGCGACATTTTCAATT
* * *
14960354 ACAAATACCACCAAAGCAAT-AGCATTTTTCTCATAAAAACGT-CATTAATTTAGC-AGCATCTT
66 ACAAATACCACCAAAGCAATGAG--TTTTTCTCATAAAAA-GTACACTAAATTAGCGA-CATCTC
*
14960416 AAAGATA
127 AAAGAAA
* *
14960423 CAAACGCCACTAAAATA-ATGGTATTT
1 AAAACGCCACTAATATAGA-GGTATTT
14960449 CATATATAAA
Statistics
Matches: 129, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
132 1 0.01
133 3 0.02
134 124 0.96
135 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.29
Consensus pattern (133 bp):
AAAACGCCACTAATATAGAGGTATTTTCAGATACAAACGCCTCCAAAGTAGCGACATTTTCAATT
ACAAATACCACCAAAGCAATGAGTTTTTCTCATAAAAAGTACACTAAATTAGCGACATCTCAAAG
AAA
Found at i:14963770 original size:2 final size:2
Alignment explanation
Indices: 14963763--14963795 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
14963753 GGTGGTTAAA
*
14963763 AG AG AG AG AG AG AG AG AG AG AG AG AG AG TG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14963796 ATGAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:14965848 original size:13 final size:13
Alignment explanation
Indices: 14965816--14965858 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
14965806 GATCTTCCTC
**
14965816 TTTCTTCTTTCAT
1 TTTCTTCTTTTTT
*
14965829 TTCCTTCTTTTTT
1 TTTCTTCTTTTTT
14965842 TTTCTTCTGTTTTT
1 TTTCTTCT-TTTTT
14965856 TTT
1 TTT
14965859 ATATGTCCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 17 0.68
14 8 0.32
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTCTTCTTTTTT
Found at i:14977083 original size:42 final size:42
Alignment explanation
Indices: 14976997--14977180 Score: 217
Period size: 42 Copynumber: 4.3 Consensus size: 42
14976987 CTCTTTCATT
* * * * *
14976997 TTTTAAAGTTTCATTACCTCTAGTTAGAAGAACCCTTTTAAAA
1 TTTTAAAGTTTCAATACCTTTGGTTAGATG-AGCCTTTTAAAA
* * *
14977040 TTGTAAGGTTTCAATGCCTTTGGTTAGATGAGCCTTTTAAAA
1 TTTTAAAGTTTCAATACCTTTGGTTAGATGAGCCTTTTAAAA
* **
14977082 TTTTAAAGTTTCATTACCTTTTATTAGATGAGCCTTTTTAAAA
1 TTTTAAAGTTTCAATACCTTTGGTTAGATGAGCC-TTTTAAAA
* *
14977125 TTTTAAAGTTTTAATACCTTGGGTTAGA-GAAGCCTTTTAAAA
1 TTTTAAAGTTTCAATACCTTTGGTTAGATG-AGCCTTTTAAAA
14977167 TTTTAAAGTTTCAA
1 TTTTAAAGTTTCAA
14977181 AGTCTTCTAG
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
42 61 0.51
43 58 0.49
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.43
Consensus pattern (42 bp):
TTTTAAAGTTTCAATACCTTTGGTTAGATGAGCCTTTTAAAA
Found at i:14977090 original size:85 final size:85
Alignment explanation
Indices: 14976997--14977179 Score: 253
Period size: 85 Copynumber: 2.2 Consensus size: 85
14976987 CTCTTTCATT
* * *
14976997 TTTTAAAGTTTCATTACC-TCTAGTTAGAAGAACCCTTTTAAAATTGTAAGGTTTCAATGCCTTT
1 TTTTAAAGTTTCATTACCTTCTA-TTAGAAGAACCCTTTTAAAATTGTAAAGTTTCAATACCTTG
14977061 GGTTAGATG-AGCCTTTTAAAA
65 GGTTAGA-GAAGCCTTTTAAAA
* * * * * *
14977082 TTTTAAAGTTTCATTACCTTTTATTAGATGAGCCTTTTTAAAATTTTAAAGTTTTAATACCTTGG
1 TTTTAAAGTTTCATTACCTTCTATTAGAAGAACCCTTTTAAAATTGTAAAGTTTCAATACCTTGG
14977147 GTTAGAGAAGCCTTTTAAAA
66 GTTAGAGAAGCCTTTTAAAA
14977167 TTTTAAAGTTTCA
1 TTTTAAAGTTTCA
14977180 AAGTCTTCTA
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
84 1 0.01
85 83 0.95
86 3 0.03
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (85 bp):
TTTTAAAGTTTCATTACCTTCTATTAGAAGAACCCTTTTAAAATTGTAAAGTTTCAATACCTTGG
GTTAGAGAAGCCTTTTAAAA
Found at i:14977240 original size:85 final size:84
Alignment explanation
Indices: 14976997--14977226 Score: 207
Period size: 85 Copynumber: 2.7 Consensus size: 84
14976987 CTCTTTCATT
* * * * * ** * *
14976997 TTTTAAAGTTTCATTACC-TCTAGTTAGAAGAACCCTTTTAAAATTGTAAGGTTTCAATGCCTTT
1 TTTTAAAGTTTCATAACCTTCTA-TTAGAGGAGCCTTTTTAAAATTTTAAAATTTTAATACC-TT
*
14977061 GGTTAGATG-AGCCTTTTAAAA
64 GATTAGA-GAAGCCTTTTAAAA
* * * *
14977082 TTTTAAAGTTTCATTACCTTTTATTAGATGAGCCTTTTTAAAATTTTAAAGTTTTAATACCTTGG
1 TTTTAAAGTTTCATAACCTTCTATTAGAGGAGCCTTTTTAAAATTTTAAAATTTTAATACCTT-G
*
14977147 GTTAGAGAAGCCTTTTAAAA
65 ATTAGAGAAGCCTTTTAAAA
* *
14977167 TTTTAAAGTTTCA-AAGTCTTCTAGTTATAGAGGAGCC-TTTTAAATTTTTAAAATTTTAAT
1 TTTTAAAGTTTCATAA-CCTTCTA--T-TAGAGGAGCCTTTTTAAAATTTTAAAATTTTAAT
14977227 GCCTCTATTG
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
84 4 0.03
85 86 0.69
86 3 0.02
87 22 0.18
88 9 0.07
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (84 bp):
TTTTAAAGTTTCATAACCTTCTATTAGAGGAGCCTTTTTAAAATTTTAAAATTTTAATACCTTGA
TTAGAGAAGCCTTTTAAAA
Found at i:14977444 original size:43 final size:43
Alignment explanation
Indices: 14977357--14977550 Score: 122
Period size: 43 Copynumber: 4.3 Consensus size: 43
14977347 TTTAAAGTTT
* * * * *
14977357 CTTTTAAAATTTTAAAGTTTTAAAGTCTCCAGTT-ATAAAGGAGC
1 CTTTTAAATTTTTAAAATTTTAAAGCCTCTA-TTGAGAAA-GAGC
* *
14977401 CTTTTAAATTTTTAAAATTTTAATGCCTCTATTGAGAATGAGC
1 CTTTTAAATTTTTAAAATTTTAAAGCCTCTATTGAGAAAGAGC
* *
14977444 CTTTGGTTATAGTAGCTTTTTAAAATTTTAAAACCTCTGTTGAGAAAGAGC
1 C-TT--TTA-A--A--TTTTTAAAATTTTAAAGCCTCTATTGAGAAAGAGC
* * * * * * * *
14977495 TTTTTGAATTTTTAAAGTTTCAACGCCTCTATTAAGAAAAAAC
1 CTTTTAAATTTTTAAAATTTTAAAGCCTCTATTGAGAAAGAGC
14977538 C-TTTACAATTTTT
1 CTTTTA-AATTTTT
14977551 CTTTAATAAT
Statistics
Matches: 117, Mismatches: 23, Indels: 21
0.73 0.14 0.13
Matches are distributed among these distances:
42 3 0.03
43 41 0.35
44 31 0.26
45 1 0.01
46 3 0.03
47 2 0.02
48 2 0.02
49 1 0.01
50 2 0.02
51 31 0.26
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (43 bp):
CTTTTAAATTTTTAAAATTTTAAAGCCTCTATTGAGAAAGAGC
Found at i:14978162 original size:21 final size:21
Alignment explanation
Indices: 14978136--14978182 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14978126 TTTCTCTGTT
14978136 TTTGCCATATTTCCAATCTCC
1 TTTGCCATATTTCCAATCTCC
* * *
14978157 TTTGCCCTATTTCCAATTTGC
1 TTTGCCATATTTCCAATCTCC
14978178 TTTGC
1 TTTGC
14978183 ACTTTGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.09, T:0.47
Consensus pattern (21 bp):
TTTGCCATATTTCCAATCTCC
Found at i:14978893 original size:23 final size:23
Alignment explanation
Indices: 14978861--14978905 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
14978851 TGATGTAAAT
*
14978861 AAAAATTAAAT-TATTTTTTTAG
1 AAAAATTAAATATATTATTTTAG
14978883 AAAAATGTAAATATATTATTTTA
1 AAAAAT-TAAATATATTATTTTA
14978906 TGATTAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 5 0.25
24 9 0.45
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
AAAAATTAAATATATTATTTTAG
Found at i:14978904 original size:27 final size:29
Alignment explanation
Indices: 14978870--14978929 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
14978860 TAAAAATTAA
14978870 ATTATTTT-T-TTAGAAAAATGTAAATAT
1 ATTATTTTATATTAGAAAAATGTAAATAT
**
14978897 ATTATTTTATGATTAGAAAGTTGTAAATAT
1 ATTATTTTAT-ATTAGAAAAATGTAAATAT
14978927 ATT
1 ATT
14978930 TGTATCATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.29
28 1 0.04
30 19 0.68
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (29 bp):
ATTATTTTATATTAGAAAAATGTAAATAT
Found at i:14980223 original size:14 final size:14
Alignment explanation
Indices: 14980164--14980253 Score: 56
Period size: 14 Copynumber: 6.2 Consensus size: 14
14980154 AAGTTTAAAA
14980164 TTTTGGATTTTAGGG
1 TTTTGG-TTTTAGGG
**
14980179 TTTCAGTTTTAGGG
1 TTTTGGTTTTAGGG
* * *
14980193 TTTGAGGTTTGA-AG
1 TTT-TGGTTTTAGGG
14980207 TTTTGGTTTTAGGG
1 TTTTGGTTTTAGGG
* *
14980221 TTTAAAGGATTTAGGG
1 TTT--TGGTTTTAGGG
* *
14980237 TTTTGATTTCAGGG
1 TTTTGGTTTTAGGG
14980251 TTT
1 TTT
14980254 GAGGTTTGAT
Statistics
Matches: 56, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
13 6 0.11
14 29 0.52
15 9 0.16
16 12 0.21
ACGTcount: A:0.17, C:0.02, G:0.31, T:0.50
Consensus pattern (14 bp):
TTTTGGTTTTAGGG
Found at i:14980263 original size:20 final size:21
Alignment explanation
Indices: 14980238--14980295 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
14980228 GATTTAGGGT
*
14980238 TTTGATTTCAGGGTTTGA-GG
1 TTTGATTTCAGGGTTTAATGG
*
14980258 TTTGATTTCAAGGTTTAATGG
1 TTTGATTTCAGGGTTTAATGG
14980279 TTTGGAGTTT-AGGGTTT
1 TTT-GA-TTTCAGGGTTT
14980296 CAATTTGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 16 0.50
21 5 0.16
22 8 0.25
23 3 0.09
ACGTcount: A:0.17, C:0.03, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTGATTTCAGGGTTTAATGG
Found at i:14980843 original size:14 final size:15
Alignment explanation
Indices: 14980808--14980844 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
14980798 ATCATGCATA
14980808 AATATATAAAAAAATC
1 AATA-ATAAAAAAATC
14980824 AA-AATAAAAAAAT-
1 AATAATAAAAAAATC
14980837 AATAATAA
1 AATAATAA
14980845 TATATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 2 0.10
14 15 0.75
15 1 0.05
16 2 0.10
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (15 bp):
AATAATAAAAAAATC
Found at i:14981766 original size:16 final size:16
Alignment explanation
Indices: 14981742--14981772 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14981732 GGTCATAAAG
*
14981742 GTGGTTGTCTGGTCTA
1 GTGGCTGTCTGGTCTA
14981758 GTGGCTGTCTGGTCT
1 GTGGCTGTCTGGTCT
14981773 GGTCACATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.16, G:0.39, T:0.42
Consensus pattern (16 bp):
GTGGCTGTCTGGTCTA
Found at i:14982550 original size:135 final size:133
Alignment explanation
Indices: 14982303--14982794 Score: 549
Period size: 135 Copynumber: 3.6 Consensus size: 133
14982293 ATCAAGATTG
* ** *
14982303 AACTTAGATTGAATCACAAGTCAAAAAATAAAGAGACTGAAACTAAACCACGAGTCAGAGAATAA
1 AACTTGGATTGAATCACAAGTCAAAAAATAAAGAGACTGGGATTAAACCACGAGTCAGAGAATAA
* ** * * * *
14982368 CAACGATTAAGATTAAACCGTAACTTGGAAGTAAAGAAATCGAGATTGAACCACGAGTTAGAATA
66 CAACAATCGAGATTAAATCGTAACTT-GAAGTAAAGAATTAG-GATTGAACCACGAGTCAGAATA
*
14982433 ATGTC
129 ACGTC
* * *
14982438 AACTTGGATTGAATCACAAGTCAGAAAATAAGGAGACTGGGATTAAACCATGAGTCAGAGAATAA
1 AACTTGGATTGAATCACAAGTCAAAAAATAAAGAGACTGGGATTAAACCACGAGTCAGAGAATAA
* *
14982503 CAACAATCGAGATTAAATCGTAACTTGAAAGTAAAGATATTAGGATTGAACCGCGAGTCAAAATA
66 CAACAATCGAGATTAAATCGTAACTTG-AAGTAAAGA-ATTAGGATTGAACCACGAGTCAGAATA
14982568 ACGTC
129 ACGTC
* * *
14982573 AACTTGGATTGAATCACAAATCAAAAAAT-AAGAAAACTGGGATTAAACCACGAGTCCA-AAAAT
1 AACTTGGATTGAATCACAAGTCAAAAAATAAAG-AGACTGGGATTAAACCACGAGT-CAGAGAAT
** * * ** *
14982636 AACAACAATCGAGATTAAACTGCG-ATTTTGAATTAAAGAGATCAGGAACGAACCATGAGTCAGA
64 AACAACAATCGAGATTAAA-T-CGTAACTTGAAGTAAAGA-ATTAGGATTGAACCACGAGTC--A
*
14982700 GAATAACATC
124 GAATAACGTC
* * *
14982710 AACTTGGATTGAATCATAAGTTAAAAAATAAAGAGACTAGGATTAAACCACGACGAGTCAGAGAA
1 AACTTGGATTGAATCACAAGTCAAAAAATAAAGAGACTGGGATTAAA-C-C-ACGAGTCAGAGAA
*
14982775 TAACAACAATTGAGATTAAA
63 TAACAACAATCGAGATTAAA
14982795 CTACAATTTT
Statistics
Matches: 303, Mismatches: 41, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
134 3 0.01
135 206 0.68
136 10 0.03
137 49 0.16
138 4 0.01
139 3 0.01
140 28 0.09
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (133 bp):
AACTTGGATTGAATCACAAGTCAAAAAATAAAGAGACTGGGATTAAACCACGAGTCAGAGAATAA
CAACAATCGAGATTAAATCGTAACTTGAAGTAAAGAATTAGGATTGAACCACGAGTCAGAATAAC
GTC
Found at i:14982759 original size:69 final size:69
Alignment explanation
Indices: 14982303--14982779 Score: 212
Period size: 68 Copynumber: 7.0 Consensus size: 69
14982293 ATCAAGATTG
* * * * *
14982303 AACTTAGATTGAATCACAAGTCAAAAAATAAAGAGACT-GAAACTAAACCACGAGTCAGAGAATA
1 AACTTGGATTGAATCATAAGTTAAAAAATAAAGAGACTAG-GATTAAACCACGAGTCAGAGAATA
*
14982367 ACAAC
65 ACATC
* * * * * * ** * * * * *
14982372 GA-TTAAGATTAAACCGTAACTT-GGAAGTAAAGA-AATCGAGATTGAACCACGAGT--TAGAAT
1 AACTT-GGATTGAATCATAAGTTAAAAAATAAAGAGACTAG-GATTAAACCACGAGTCAGAGAAT
**
14982432 AATGTC
64 AACATC
* * * * * *
14982438 AACTTGGATTGAATCACAAGTCAGAAAATAAGGAGACTGGGATTAAACCATGAGTCAGAGAATAA
1 AACTTGGATTGAATCATAAGTTAAAAAATAAAGAGACTAGGATTAAACCACGAGTCAGAGAATAA
*
14982503 CAAC
66 CATC
* * * * * * * * * *
14982507 AA-TCGAGATTAAATCGTAACTT-GAAAGTAAAGATATTAGGATTGAACCGCGAGTCA-A-AATA
1 AACTTG-GATTGAATCATAAGTTAAAAAATAAAGAGACTAGGATTAAACCACGAGTCAGAGAATA
*
14982568 ACGTC
65 ACATC
* * * * * *
14982573 AACTTGGATTGAATCACAAATCAAAAAAT-AAGAAAACTGGGATTAAACCACGAGTCCA-AAAAT
1 AACTTGGATTGAATCATAAGTTAAAAAATAAAG-AGACTAGGATTAAACCACGAGT-CAGAGAAT
*
14982636 AACAAC
64 AACATC
* * ** *** * *** *
14982642 AA-TCGAGATT-AAAC-TGCGATTTTGAATTAAAGAGA-TCAGGAACGAACCATGAGTCAGAGAA
1 AACTTG-GATTGAATCATAAG-TTAAAAAATAAAGAGACT-AGGATTAAACCACGAGTCAGAGAA
14982703 TAACATC
63 TAACATC
14982710 AACTTGGATTGAATCATAAGTTAAAAAATAAAGAGACTAGGATTAAACCACGACGAGTCAGAGAA
1 AACTTGGATTGAATCATAAGTTAAAAAATAAAGAGACTAGGATTAAA-C-C-ACGAGTCAGAGAA
14982775 TAACA
63 TAACA
14982780 ACAATTGAGA
Statistics
Matches: 284, Mismatches: 99, Indels: 47
0.66 0.23 0.11
Matches are distributed among these distances:
66 42 0.15
67 52 0.18
68 96 0.34
69 72 0.25
70 4 0.01
71 1 0.00
72 17 0.06
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (69 bp):
AACTTGGATTGAATCATAAGTTAAAAAATAAAGAGACTAGGATTAAACCACGAGTCAGAGAATAA
CATC
Found at i:14982980 original size:100 final size:102
Alignment explanation
Indices: 14982846--14983063 Score: 223
Period size: 105 Copynumber: 2.1 Consensus size: 102
14982836 GAATCACAAG
* *
14982846 TAAAAAAAAAAAGACTAGGCTTAAACCATGAGTTAAAG-AACA-ACGATCGAGATTAAACC-CGA
1 TAAAAATAAAAAGACTAGGATTAAACCA-GAGTTAAAGAAACATACGATCGAGATTAAACCACGA
* * *
14982908 CTTAGAAGTAAAGAGATCGGGATT-AATCTGCGAGTTAA
65 CTTAAAAGTAAAGAGATCGAGATTGAATC-ACGAGTTAA
* * * * *
14982946 TAAAAATAAAAAGACTGGGATTAAACTGCA-AGTTAGAGAAAGATTGAGGATCGGGATTAAACCA
1 TAAAAATAAAAAGACTAGGATTAAAC--CAGAGTTAAAGAAACA-T-ACGATCGAGATTAAACCA
*
14983010 TGACTTAAAAGTAAAGAGATCGAGATTGAATCACGAGTTAA
62 CGACTTAAAAGTAAAGAGATCGAGATTGAATCACGAGTTAA
* *
14983051 -GACAATAAAAAGA
1 TAAAAATAAAAAGA
14983064 TCGAGATTAA
Statistics
Matches: 97, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
100 30 0.31
101 3 0.03
102 2 0.02
104 26 0.27
105 32 0.33
106 4 0.04
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.20
Consensus pattern (102 bp):
TAAAAATAAAAAGACTAGGATTAAACCAGAGTTAAAGAAACATACGATCGAGATTAAACCACGAC
TTAAAAGTAAAGAGATCGAGATTGAATCACGAGTTAA
Found at i:14983062 original size:104 final size:104
Alignment explanation
Indices: 14982890--14983111 Score: 261
Period size: 104 Copynumber: 2.1 Consensus size: 104
14982880 AAAGAACAAC
* * *
14982890 GATCGAGATTAAACCCGACTTAGAAGTAAAGAGATCGGGATTAATCTGCGAGTTAATAAAAATAA
1 GATCGAGATTAAACCCGACTTAAAAGTAAAGAGATCGAGATTAATCTACGAGTTAATAAAAATAA
* *
14982955 AAAGA-CTGGGATTAAACTGCAAGTTAGAGAAAGATTGAG
66 AAAGATC-GAGATTAAACTGCAAGTCAGAGAAAGATTGAG
* * * *
14982994 GATCGGGATTAAACCATGACTTAAAAGTAAAGAGATCGAGATTGAATC-ACGAGTTAA-GACAAT
1 GATCGAGATTAAACC-CGACTTAAAAGTAAAGAGATCGAGATT-AATCTACGAGTTAATAAAAAT
* * * * *
14983057 AAAAAGATCGAGATTAAATTGTAAGTCAGAGAAATAATAAG
64 AAAAAGATCGAGATTAAACTGCAAGTCAGAGAAAGATTGAG
*
14983098 GATCGATATTAAAC
1 GATCGAGATTAAAC
14983112 AGTGAGTCAA
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
104 62 0.63
105 33 0.33
106 4 0.04
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (104 bp):
GATCGAGATTAAACCCGACTTAAAAGTAAAGAGATCGAGATTAATCTACGAGTTAATAAAAATAA
AAAGATCGAGATTAAACTGCAAGTCAGAGAAAGATTGAG
Found at i:14983093 original size:35 final size:35
Alignment explanation
Indices: 14983049--14983195 Score: 120
Period size: 35 Copynumber: 4.2 Consensus size: 35
14983039 ATCACGAGTT
**
14983049 AAGACAATAAAAA-GATCGAGATTAAATTGTAAGTC
1 AAGA-AATAAAAACGATCGAGATTAAACCGTAAGTC
* * * * *
14983084 AGAGAAATAATAAGGATCGATATTAAACAGTGAGTC
1 A-AGAAATAAAAACGATCGAGATTAAACCGTAAGTC
* *
14983120 AA-ATATTAAAAACGACTC-AGACTAAACCGTAAGTC
1 AAGA-AATAAAAACGA-TCGAGATTAAACCGTAAGTC
* * * *
14983155 AAAAAATAAAAATGATCGAGATTAAATCGCAAGTC
1 AAGAAATAAAAACGATCGAGATTAAACCGTAAGTC
14983190 AAGAAA
1 AAGAAA
14983196 CTATAAAAAT
Statistics
Matches: 88, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
34 3 0.03
35 60 0.68
36 25 0.28
ACGTcount: A:0.52, C:0.12, G:0.16, T:0.20
Consensus pattern (35 bp):
AAGAAATAAAAACGATCGAGATTAAACCGTAAGTC
Found at i:14983472 original size:216 final size:219
Alignment explanation
Indices: 14983139--14983690 Score: 656
Period size: 216 Copynumber: 2.5 Consensus size: 219
14983129 AAACGACTCA
* *
14983139 GACTAAACCGTAAGTC-AAAAAATAAAAATGA-TCGAGATTAAATCGCAAGTCAAGAAACTATAA
1 GACTAAACCGTAAGTCAAAAAAATAAAAGTGACT-GAGATTAAATCGCAAGTCAAAAAACTATAA
* * * * *
14983202 AAATGATCAGGATCGAACCACGAGTCAAAGATTAATGACGACTGGGACTGAACCACAAATCAAAA
65 AAATGATCGGGATTGAACCATGAGTCAAATATTAATGACGACTGGGATTGAACCACAAATCAAAA
* ** * * * * *
14983267 AAATAAAAGCGACTGAGATTAAACCGTAAGTTA-AGAAATTATAGAAATGATCGGGGTTTAA-C-
130 AAATAAAAGAGACTGAGATTAAACAATAAGTCAGAGAAACTATAGAAATGATCGAGATTAAATCA
14983329 C-A-CTCAAAGATTAACGATGACTGG
195 CAAGC-CAAAGATTAACGATGACTGG
* * *
14983353 GACTAAACCATAAATCAAAAAAATAAAAGTGACTGGGATTAAATCGCAAGTCAAAAAAACTATAA
1 GACTAAACCGTAAGTCAAAAAAATAAAAGTGACTGAGATTAAATCGCAAGTC-AAAAAACTATAA
* * *
14983418 AAAT-AACTGGGATTGAACCATGAGTCAAATATTAATGACGACTGGTG-TTGAACCACAAGTCAG
65 AAATGATC-GGGATTGAACCATGAGTCAAATATTAATGACGACTGG-GATTGAACCACAAATCAA
* *
14983481 AAAAATAAAAGAGACTGGGATTAAACAATAAGTCAGGGAAACTATAGAAATGATCGAGATTAAAT
128 AAAAATAAAAGAGACTGAGATTAAACAATAAGTCAGAGAAACTATAGAAATGATCGAGATTAAAT
* *
14983546 CACAAGCCAAATATTAATGATGACTGG
193 CACAAGCCAAAGATTAACGATGACTGG
* * * * ** *
14983573 GACTGAACCGTAAGTCAGAAAGATAAAAGAGACTGAGATTAAATCATAAGTCAAAAATC-ATAAA
1 GACTAAACCGTAAGTCAAAAAAATAAAAGTGACTGAGATTAAATCGCAAGTCAAAAAACTATAAA
* * * * *
14983637 AATGATCGAGATTAAACCATGAGTCAAATATTGACGATGACTGGGATTGAACCA
66 AATGATCGGGATTGAACCATGAGTCAAATATTAATGACGACTGGGATTGAACCA
14983691 TAAGTCAGGG
Statistics
Matches: 285, Mismatches: 41, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
214 14 0.05
215 33 0.12
216 92 0.32
217 25 0.09
218 49 0.17
219 9 0.03
220 62 0.22
221 1 0.00
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (219 bp):
GACTAAACCGTAAGTCAAAAAAATAAAAGTGACTGAGATTAAATCGCAAGTCAAAAAACTATAAA
AATGATCGGGATTGAACCATGAGTCAAATATTAATGACGACTGGGATTGAACCACAAATCAAAAA
AATAAAAGAGACTGAGATTAAACAATAAGTCAGAGAAACTATAGAAATGATCGAGATTAAATCAC
AAGCCAAAGATTAACGATGACTGG
Found at i:14983487 original size:110 final size:109
Alignment explanation
Indices: 14983115--14983707 Score: 533
Period size: 110 Copynumber: 5.5 Consensus size: 109
14983105 ATTAAACAGT
** * ** * *
14983115 GAGTCAAATATTAAAAACGACTCAGACTAAACCGTAAGTCA-AAAAATAAAA-ATGA-TCGAGAT
1 GAGTCAAATATTAATGATGACTGGGACTGAACCATAAGTCAGAAAAATAAAAGA-GACT-GAGAT
* * **
14983177 TAAATCGCAAGTCAAGAAACTATAAAAATGATCAGGATCGAACCAC
64 TAAATCGTAAGTCAAGAAACTATAAAAATGATCGGGATTAAACCAC
* * * * * *
14983223 GAGTCAAAGATTAATGACGACTGGGACTGAACCACAAATCAAAAAAATAAAAGCGACTGAGATTA
1 GAGTCAAATATTAATGATGACTGGGACTGAACCATAAGTCAGAAAAATAAAAGAGACTGAGATTA
* * * * * *
14983288 AACCGTAAGTTAAGAAATTATAGAAATGATCGGGGTTTAACCAC
66 AATCGTAAGTCAAGAAACTATAAAAATGATCGGGATTAAACCAC
* * * * * * *
14983332 ---TCAAAGATTAACGATGACTGGGACTAAACCATAAATCAAAAAAATAAAAGTGACTGGGATTA
1 GAGTCAAATATTAATGATGACTGGGACTGAACCATAAGTCAGAAAAATAAAAGAGACTGAGATTA
* * * * *
14983394 AATCGCAAGTCAAAAAAACTATAAAAAT-AACTGGGATTGAACCAT
66 AATCGTAAGTC-AAGAAACTATAAAAATGATC-GGGATTAAACCAC
* * * *
14983439 GAGTCAAATATTAATGACGACTGGTG-TTGAACCACAAGTCAGAAAAATAAAAGAGACTGGGATT
1 GAGTCAAATATTAATGATGACTGG-GACTGAACCATAAGTCAGAAAAATAAAAGAGACTGAGATT
* * * * *
14983503 AAA-CAATAAGTCAGGGAAACTATAGAAATGATCGAGATTAAATCAC
65 AAATC-GTAAGTCA-AGAAACTATAAAAATGATCGGGATTAAACCAC
* * * *
14983549 AAGCCAAATATTAATGATGACTGGGACTGAACCGTAAGTCAGAAAGATAAAAGAGACTGAGATTA
1 GAGTCAAATATTAATGATGACTGGGACTGAACCATAAGTCAGAAAAATAAAAGAGACTGAGATTA
* * *
14983614 AATCATAAGTCAA-AAA-TCATAAAAATGATCGAGATTAAACCAT
66 AATCGTAAGTCAAGAAACT-ATAAAAATGATCGGGATTAAACCAC
* * * **
14983657 GAGTCAAATATTGACGATGACTGGGATTGAACCATAAGTCAGGGAAATAAA
1 GAGTCAAATATTAATGATGACTGGGACTGAACCATAAGTCAGAAAAATAAA
14983708 TAAGACTAAG
Statistics
Matches: 395, Mismatches: 75, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
106 66 0.17
107 24 0.06
108 99 0.25
109 57 0.14
110 145 0.37
111 4 0.01
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.20
Consensus pattern (109 bp):
GAGTCAAATATTAATGATGACTGGGACTGAACCATAAGTCAGAAAAATAAAAGAGACTGAGATTA
AATCGTAAGTCAAGAAACTATAAAAATGATCGGGATTAAACCAC
Found at i:14983516 original size:36 final size:37
Alignment explanation
Indices: 14983347--14983515 Score: 114
Period size: 36 Copynumber: 4.6 Consensus size: 37
14983337 GATTAACGAT
* * *
14983347 GACTGGGACTAAACCATAAATCAAAAAAATAAAAG-T
1 GACTGGGATTAAACCATAAGTCAAAAAAATAAAAGAC
* ** * *
14983383 GACTGGGATTAAATCGCAAGTCAAAAAAACTATAAAAAT
1 GACTGGGATTAAACCATAAGTCAAAAAAA-TA-AAAGAC
* * * * * *
14983422 AACTGGGATTGAACCATGAGTC--AAATATTAATGAC
1 GACTGGGATTAAACCATAAGTCAAAAAAATAAAAGAC
* * *
14983457 GACTGGTG-TTGAACCACAAGTCAGAAAAATAAAAGA-
1 GACTGG-GATTAAACCATAAGTCAAAAAAATAAAAGAC
*
14983493 GACTGGGATTAAACAATAAGTCA
1 GACTGGGATTAAACCATAAGTCA
14983516 GGGAAACTAT
Statistics
Matches: 100, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
35 21 0.21
36 44 0.44
37 15 0.15
38 3 0.03
39 17 0.17
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (37 bp):
GACTGGGATTAAACCATAAGTCAAAAAAATAAAAGAC
Found at i:14996185 original size:16 final size:15
Alignment explanation
Indices: 14996156--14996213 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
14996146 ATTTTGTACC
* *
14996156 AAATTTGGGGTTTTA
1 AAATTTTGGATTTTA
14996171 AGAATTTTGGATTTTA
1 A-AATTTTGGATTTTA
* *
14996187 AAGTTTTGGATTTCA
1 AAATTTTGGATTTTA
* *
14996202 AAGTTTAGGATT
1 AAATTTTGGATT
14996214 ATGGATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 24 0.65
16 13 0.35
ACGTcount: A:0.29, C:0.02, G:0.22, T:0.47
Consensus pattern (15 bp):
AAATTTTGGATTTTA
Found at i:14996195 original size:15 final size:15
Alignment explanation
Indices: 14996175--14996213 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
14996165 GTTTTAAGAA
*
14996175 TTTTGGATTTTAAAG
1 TTTTGGATTTCAAAG
14996190 TTTTGGATTTCAAAG
1 TTTTGGATTTCAAAG
*
14996205 TTTAGGATT
1 TTTTGGATT
14996214 ATGGATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.26, C:0.03, G:0.21, T:0.51
Consensus pattern (15 bp):
TTTTGGATTTCAAAG
Found at i:14996252 original size:15 final size:15
Alignment explanation
Indices: 14996232--14996294 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
14996222 TAGGGCTTCA
*
14996232 GTTTTAAGGTTTAAG
1 GTTTTAAGGTTTAGG
*
14996247 GTTTTAA-GTTT-TG
1 GTTTTAAGGTTTAGG
*
14996260 GTTTT-AGGGTTAGG
1 GTTTTAAGGTTTAGG
*
14996274 GTTTAAAGGATTTAGG
1 GTTTTAAGG-TTTAGG
14996290 GTTTT
1 GTTTT
14996295 GATTTCAAGG
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
12 1 0.03
13 9 0.24
14 9 0.24
15 10 0.26
16 9 0.24
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (15 bp):
GTTTTAAGGTTTAGG
Found at i:14996336 original size:21 final size:21
Alignment explanation
Indices: 14996284--14996349 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 21
14996274 GTTTAAAGGA
*
14996284 TTTAG-GGTTTTGATTTCAAGG
1 TTTAGAGG-TTTGATTTCAGGG
14996305 TTT-GAGGTTTGATTTCAGGG
1 TTTAGAGGTTTGATTTCAGGG
14996325 TTTAGAGGTTTGGAGTTT-AGGG
1 TTTAGAGGTTT-GA-TTTCAGGG
14996347 TTT
1 TTT
14996350 CAATTTGGTG
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 16 0.40
21 12 0.30
22 9 0.22
23 3 0.08
ACGTcount: A:0.17, C:0.03, G:0.33, T:0.47
Consensus pattern (21 bp):
TTTAGAGGTTTGATTTCAGGG
Found at i:14996913 original size:9 final size:8
Alignment explanation
Indices: 14996900--14996931 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
14996890 TAATAATATA
14996900 TAAAAAAT
1 TAAAAAAT
14996908 TAAAAAAT
1 TAAAAAAT
14996916 TAAAAAAT
1 TAAAAAAT
14996924 CTAAAAAA
1 -TAAAAAA
14996932 AAATACATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (8 bp):
TAAAAAAT
Found at i:14997970 original size:9 final size:9
Alignment explanation
Indices: 14997956--14997981 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
14997946 TTTAATGATT
14997956 ATTTTAATG
1 ATTTTAATG
14997965 ATTTTAATG
1 ATTTTAATG
14997974 ATTTTAAT
1 ATTTTAAT
14997982 TTTTAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (9 bp):
ATTTTAATG
Found at i:15005007 original size:2 final size:2
Alignment explanation
Indices: 15005000--15005028 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
15004990 ATAATGAGGG
15005000 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15005029 TTTATTGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15006612 original size:33 final size:33
Alignment explanation
Indices: 15006570--15006634 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
15006560 AATTTATCTC
*
15006570 ACAGAATCCATTACCTTTGTAACTAAGGACCAT
1 ACAGAATCCATTACCTTTGTAACCAAGGACCAT
15006603 ACAGAATCCATTACCTTTGTAACCAAGGACCA
1 ACAGAATCCATTACCTTTGTAACCAAGGACCA
15006635 AAGCAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (33 bp):
ACAGAATCCATTACCTTTGTAACCAAGGACCAT
Found at i:15007683 original size:36 final size:36
Alignment explanation
Indices: 15007643--15007712 Score: 131
Period size: 36 Copynumber: 1.9 Consensus size: 36
15007633 TATCATTATT
15007643 GTGTTTAGATAATAATTTTTCAATACTTCATTGCTA
1 GTGTTTAGATAATAATTTTTCAATACTTCATTGCTA
*
15007679 GTGTTTAGATAATAATTTTTCAATACTTCGTTGC
1 GTGTTTAGATAATAATTTTTCAATACTTCATTGC
15007713 ACTGCAGCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (36 bp):
GTGTTTAGATAATAATTTTTCAATACTTCATTGCTA
Found at i:15009036 original size:25 final size:25
Alignment explanation
Indices: 15008998--15009046 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
15008988 TAATCAATAC
*
15008998 AGTAAAAAGATTA-TTATAATTTTT
1 AGTAAAAAGATTATTTAAAATTTTT
*
15009022 AGTAAAAATATTTATTTAAAATTTT
1 AGTAAAAAGA-TTATTTAAAATTTT
15009047 AAAATATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 3 0.14
26 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (25 bp):
AGTAAAAAGATTATTTAAAATTTTT
Found at i:15012649 original size:15 final size:16
Alignment explanation
Indices: 15012629--15012662 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
15012619 AAAAAATTAA
15012629 AAATTAAGTTAAG-TT
1 AAATTAAGTTAAGATT
15012644 AAATTAAGTTAAGATT
1 AAATTAAGTTAAGATT
15012660 AAA
1 AAA
15012663 ATATAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (16 bp):
AAATTAAGTTAAGATT
Found at i:15013002 original size:25 final size:25
Alignment explanation
Indices: 15012974--15013036 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 25
15012964 AAAAACCTCG
*
15012974 AAAAACCTAAAACCTTGAAACCCAA
1 AAAAACCTAAAACCTGGAAACCCAA
* *
15012999 AAAAACCTTAAAATCTGGAAACCCTA
1 AAAAACC-TAAAACCTGGAAACCCAA
*
15013025 AAAACCCTAAAA
1 AAAAACCTAAAA
15013037 TTCCAGAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.56, C:0.25, G:0.05, T:0.14
Consensus pattern (25 bp):
AAAAACCTAAAACCTGGAAACCCAA
Found at i:15013037 original size:25 final size:26
Alignment explanation
Indices: 15012974--15013037 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
15012964 AAAAACCTCG
* *
15012974 AAAAA-CCTAAAACCTTGAAACCCAA
1 AAAAACCCTAAAATCTGGAAACCCAA
* *
15012999 AAAAACCTTAAAATCTGGAAACCC-T
1 AAAAACCCTAAAATCTGGAAACCCAA
15013024 AAAAACCCTAAAAT
1 AAAAACCCTAAAAT
15013038 TCCAGAACCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
25 18 0.55
26 15 0.45
ACGTcount: A:0.55, C:0.25, G:0.05, T:0.16
Consensus pattern (26 bp):
AAAAACCCTAAAATCTGGAAACCCAA
Found at i:15013151 original size:17 final size:17
Alignment explanation
Indices: 15013125--15013169 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
15013115 AAAGCTTGCC
15013125 AAACCCTAAATCCAACT
1 AAACCCTAAATCCAACT
* *
15013142 AAACCTTAAATCTAACT
1 AAACCCTAAATCCAACT
15013159 AACACCC-AAAT
1 AA-ACCCTAAAT
15013170 TGCCTAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 21 0.88
18 3 0.12
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (17 bp):
AAACCCTAAATCCAACT
Found at i:15014465 original size:27 final size:26
Alignment explanation
Indices: 15014417--15014469 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
15014407 TGATTTTGAC
15014417 ATTTATTTATTATTATTATTGTTTTT
1 ATTTATTTATTATTATTATTGTTTTT
*
15014443 ATTTATATTATT-TTAATTGTTGTTTTT
1 ATTTAT-TTATTATT-ATTATTGTTTTT
15014470 CTCCACACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.72
Consensus pattern (26 bp):
ATTTATTTATTATTATTATTGTTTTT
Found at i:15017168 original size:21 final size:22
Alignment explanation
Indices: 15017128--15017169 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
15017118 CCAATAACTA
*
15017128 TCATTTATAAAGAATTTTATGT
1 TCATTTATAAAGAATGTTATGT
*
15017150 TCATTT-TAAGGAATGTTATG
1 TCATTTATAAAGAATGTTATG
15017170 GTAAATCTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (22 bp):
TCATTTATAAAGAATGTTATGT
Found at i:15019726 original size:5 final size:5
Alignment explanation
Indices: 15019617--15019711 Score: 61
Period size: 5 Copynumber: 18.8 Consensus size: 5
15019607 AATTTTTTAA
* * *
15019617 ATTTT AATTT CTTTT ATTTT ATTTT ATTTT A-TTT ATTTT AATTTT -TCTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT -ATTTT ATTTT
* * * **
15019666 ATTATG A-TTG ATTTT AATATGT AAATT ATTTT ATTTT ATTTT ATTT
1 ATT-TT ATTTT ATTTT -AT-TTT ATTTT ATTTT ATTTT ATTTT ATTT
15019712 GTGTAAATTT
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
4 10 0.14
5 47 0.68
6 10 0.14
7 2 0.03
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.69
Consensus pattern (5 bp):
ATTTT
Found at i:15019735 original size:15 final size:15
Alignment explanation
Indices: 15019628--15019735 Score: 55
Period size: 15 Copynumber: 7.1 Consensus size: 15
15019618 TTTTAATTTC
15019628 TTTTATTTTATTTT-A
1 TTTTA-TTTATTTTAA
15019643 TTTTATTTATTTTAA
1 TTTTATTTATTTTAA
* *
15019658 TTTT-TCTTATTATGA
1 TTTTAT-TTATTTTAA
* *
15019673 TTGATT-TTAATATGTAA
1 TT--TTATTTAT-TTTAA
*
15019690 -ATTATTTTATTTT-A
1 TTTTA-TTTATTTTAA
* * *
15019704 TTTTATTTGTGTAAA
1 TTTTATTTATTTTAA
15019719 TTTTATTTATTTTAA
1 TTTTATTTATTTTAA
15019734 TT
1 TT
15019736 GATATATCTA
Statistics
Matches: 69, Mismatches: 15, Indels: 18
0.68 0.15 0.18
Matches are distributed among these distances:
14 17 0.25
15 39 0.57
16 7 0.10
17 6 0.09
ACGTcount: A:0.26, C:0.01, G:0.05, T:0.69
Consensus pattern (15 bp):
TTTTATTTATTTTAA
Found at i:15020009 original size:90 final size:90
Alignment explanation
Indices: 15019880--15020104 Score: 224
Period size: 90 Copynumber: 2.5 Consensus size: 90
15019870 TGGAAAAAAT
* * * *
15019880 AAATTATTTTCAATCTTACCAAAAGATTAAAGGATTTAAATATCGAATTAAGGTC-ATCAAACT-
1 AAATAATTTTCAATCCTACCAAAAGATTAAAGGATTTAAATATCGAAAT-AGGTCTACCAAA-TG
*
15019943 ATTAGAACACTTAATGAATTTTTATGA
64 ATTAGAACACTTAATGAATTTTTATAA
* * *
15019970 AAATAATTTTCAATCCTACTAAATGATTGAAA-GATTTAAATCTCGAAATAGGTCTTACCAAATG
1 AAATAATTTTCAATCCTACCAAAAGATT-AAAGGATTTAAATATCGAAATAGGTC-TACCAAATG
**
15020034 ATTAGAGGACTTAATGAATTTTTATAAA
64 ATTAGAACACTTAATGAATTTTTAT-AA
* ** *
15020062 AAATAAAAGTTTCAAT-CTCACCAAATTATTAGAGGATTTAAAT
1 AAAT--AATTTTCAATCCT-ACCAAAAGATTAAAGGATTTAAAT
15020105 CTTGAATTAA
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
89 5 0.04
90 40 0.36
91 31 0.28
92 5 0.04
93 4 0.04
94 27 0.24
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (90 bp):
AAATAATTTTCAATCCTACCAAAAGATTAAAGGATTTAAATATCGAAATAGGTCTACCAAATGAT
TAGAACACTTAATGAATTTTTATAA
Found at i:15020142 original size:94 final size:94
Alignment explanation
Indices: 15019873--15020151 Score: 270
Period size: 94 Copynumber: 3.0 Consensus size: 94
15019863 AATTTTGTGG
* * * *
15019873 AAAAAATAAATTATTTTCAATCTTACCAAAAGATTAAAGGATTTAAATATCGAATTAAGGTC--A
1 AAAAAATAAA--ATTTTCAATCTCACCAAATGATTAGAGGATTTAAATCTCGAATTAA-GTCTTA
*
15019936 TCAAACTATTAGAACACTTAATGAATTTTTAT
63 TCAAACTATTAGAAGACTTAATGAATTTTTAT
* * * * * *
15019968 -GAAAAT--AATTTTCAATC-CTACTAAATGATT-GAAAGATTTAAATCTCGAAATAGGTCTTAC
1 AAAAAATAAAATTTTCAATCTC-ACCAAATGATTAG-AGGATTTAAATCTCGAATTAAGTCTTAT
*
15020028 CAAA-TGATTAGAGGACTTAATGAATTTTTAT
64 CAAACT-ATTAGAAGACTTAATGAATTTTTAT
* * * *
15020059 AAAAAATAAAAGTTTCAATCTCACCAAATTATTAGAGGATTTAAATCTTGAATTAAATCTTATCA
1 AAAAAATAAAATTTTCAATCTCACCAAATGATTAGAGGATTTAAATCTCGAATTAAGTCTTATCA
*
15020124 AACTATT-GAAAGATTTAATGAAATTTTT
66 AACTATTAG-AAGACTTAATG-AATTTTT
15020152 TTTTTACATT
Statistics
Matches: 147, Mismatches: 24, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
89 3 0.02
90 37 0.25
91 28 0.19
92 6 0.04
93 1 0.01
94 62 0.42
95 10 0.07
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.35
Consensus pattern (94 bp):
AAAAAATAAAATTTTCAATCTCACCAAATGATTAGAGGATTTAAATCTCGAATTAAGTCTTATCA
AACTATTAGAAGACTTAATGAATTTTTAT
Found at i:15023293 original size:16 final size:18
Alignment explanation
Indices: 15023255--15023294 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
15023245 TGTTAGTGTC
15023255 ATTTTTTATATACATATAG
1 ATTTTTTATATA-ATATAG
15023274 -TTTTTTATAT-ATA-AG
1 ATTTTTTATATAATATAG
15023289 ATTTTT
1 ATTTTT
15023295 GCATTGCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.10
16 8 0.40
18 10 0.50
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (18 bp):
ATTTTTTATATAATATAG
Found at i:15023625 original size:12 final size:12
Alignment explanation
Indices: 15023604--15023671 Score: 59
Period size: 12 Copynumber: 5.5 Consensus size: 12
15023594 TGGTTTACTC
15023604 TTTTTT-TTTCT
1 TTTTTTCTTTCT
15023615 TTTTTTCTTTCAT
1 TTTTTTCTTTC-T
*
15023628 TTTTTCCTTT-T
1 TTTTTTCTTTCT
*
15023639 TTTTAATCTTTCTT
1 TTTT-TTCTTTC-T
*
15023653 TCTTTTTCTCTCT
1 T-TTTTTCTTTCT
15023666 TTTTTT
1 TTTTTT
15023672 TCTTCGCTCG
Statistics
Matches: 46, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
11 11 0.24
12 13 0.28
13 12 0.26
14 7 0.15
15 3 0.07
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTCTTTCT
Found at i:15029121 original size:21 final size:21
Alignment explanation
Indices: 15029097--15029151 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
15029087 TCTTTCCCTT
15029097 CTTTCTCCTTCTTTTT-TCTCC
1 CTTT-TCCTTCTTTTTCTCTCC
*
15029118 CTTTTTCTTCTTTTTCTCT-C
1 CTTTTCCTTCTTTTTCTCTCC
*
15029138 CTTTT-TTTCTTTTT
1 CTTTTCCTTCTTTTT
15029152 TGTTTTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.26
20 16 0.52
21 7 0.23
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (21 bp):
CTTTTCCTTCTTTTTCTCTCC
Found at i:15029129 original size:20 final size:21
Alignment explanation
Indices: 15029104--15029152 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
15029094 CTTCTTTCTC
15029104 CTTCTTTTTTCTC-CCTTTTT
1 CTTCTTTTTTCTCTCCTTTTT
15029124 CTTC-TTTTTCTCTCCTTTTT
1 CTTCTTTTTTCTCTCCTTTTT
15029144 -TTCTTTTTT
1 CTTCTTTTTT
15029153 GTTTTTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (21 bp):
CTTCTTTTTTCTCTCCTTTTT
Found at i:15029655 original size:17 final size:17
Alignment explanation
Indices: 15029616--15029656 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15029606 TCTTCTTTTT
*
15029616 TATTATTCATTTTTTAT
1 TATTATTCATTTTTTAG
* *
15029633 TCTTATTGATTTTTTAG
1 TATTATTCATTTTTTAG
15029650 TATTATT
1 TATTATT
15029657 TTTAAATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (17 bp):
TATTATTCATTTTTTAG
Found at i:15030868 original size:21 final size:21
Alignment explanation
Indices: 15030826--15030868 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
15030816 CTCATAATTC
* * *
15030826 TAATATTTAATTTTATTGTTA
1 TAATAATTAATATAATTGTTA
*
15030847 TAATAATTAATATAATTTTTA
1 TAATAATTAATATAATTGTTA
15030868 T
1 T
15030869 TATTATTTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TAATAATTAATATAATTGTTA
Found at i:15032144 original size:17 final size:16
Alignment explanation
Indices: 15032124--15032198 Score: 57
Period size: 17 Copynumber: 4.4 Consensus size: 16
15032114 TTTTAGTATC
15032124 TTTATTTTCTTTT-TCTT
1 TTTATTTT-TTTTAT-TT
15032141 TTTATTTATTTTTATTT
1 TTTATTT-TTTTTATTT
*
15032158 TTTA--TTTTTAATTT
1 TTTATTTTTTTTATTT
15032172 TTTATTTTCTTATTAATTTT
1 TTTATTTT-TT-TT-A-TTT
15032192 TTTATTT
1 TTTATTT
15032199 ACATACATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
14 12 0.25
15 1 0.02
16 2 0.04
17 19 0.40
18 3 0.06
19 1 0.02
20 10 0.21
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTTTTTTTATTT
Found at i:15032158 original size:21 final size:21
Alignment explanation
Indices: 15032124--15032198 Score: 68
Period size: 21 Copynumber: 3.6 Consensus size: 21
15032114 TTTTAGTATC
15032124 TTTATTTTCT-TTTTCTTTTTA
1 TTTATTTT-TATTTTCTTTTTA
15032145 TTTATTTTTATTTT-TTATTT-
1 TTTATTTTTATTTTCTT-TTTA
* *
15032165 TTAATTTTTTATTTTCTTATTA
1 TTTA-TTTTTATTTTCTTTTTA
*
15032187 ATT-TTTTTATTT
1 TTTATTTTTATTT
15032199 ACATACATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
20 15 0.33
21 27 0.60
22 3 0.07
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTATTTTTATTTTCTTTTTA
Found at i:15032172 original size:19 final size:19
Alignment explanation
Indices: 15032157--15032198 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15032147 TATTTTTATT
15032157 TTTTATTTTTAATTTTTTA
1 TTTTATTTTTAATTTTTTA
* *
15032176 TTTTCTTATTAATTTTTTTA
1 TTTTATTTTTAA-TTTTTTA
15032196 TTT
1 TTT
15032199 ACATACATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTTTAATTTTTTA
Found at i:15032192 original size:20 final size:20
Alignment explanation
Indices: 15032142--15032198 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
15032132 CTTTTTCTTT
*
15032142 TTATTTATTTTTATT-TTTTA
1 TTATTAATTTTT-TTATTTTA
* *
15032162 TTTTTAA-TTTTTTATTTTC
1 TTATTAATTTTTTTATTTTA
15032181 TTATTAATTTTTTTATTT
1 TTATTAATTTTTTTATTT
15032199 ACATACATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 2 0.06
19 14 0.45
20 15 0.48
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (20 bp):
TTATTAATTTTTTTATTTTA
Found at i:15033125 original size:15 final size:15
Alignment explanation
Indices: 15033092--15033137 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
15033082 GTAAAATATA
15033092 ATAAAAATATAATAATT
1 ATAAAAATA-AA-AATT
*
15033109 ATAAAAATAAAAGTT
1 ATAAAAATAAAAATT
15033124 ATAAAAATAAAAAT
1 ATAAAAATAAAAAT
15033138 AAAAAGTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 2 0.07
17 9 0.33
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
ATAAAAATAAAAATT
Found at i:15033374 original size:20 final size:21
Alignment explanation
Indices: 15033325--15033374 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
15033315 ATTTTTTCAA
*
15033325 TTTTAAATTTTTATAATATTT
1 TTTTATATTTTTATAATATTT
*
15033346 TTGTT-TATTTTTAT-TTATTT
1 TT-TTATATTTTTATAATATTT
15033366 TTTTATATT
1 TTTTATATT
15033375 AAAATAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.08
20 11 0.44
21 10 0.40
22 2 0.08
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTATATTTTTATAATATTT
Found at i:15037523 original size:27 final size:27
Alignment explanation
Indices: 15037492--15037600 Score: 87
Period size: 27 Copynumber: 3.9 Consensus size: 27
15037482 CCTTTCCAAG
* * *
15037492 TCTCAATTCAAGCAGCTCAATTCCAGC
1 TCTCAACTCAAGAAACTCAATTCCAGC
*
15037519 TCTCAACTGAAGAAACTCAATTCCA-C
1 TCTCAACTCAAGAAACTCAATTCCAGC
** *
15037545 TTCTCTCCTGAAGAAGAATCTCAATTCC-GC
1 -TCTCAACTCAAG-A-AA-CTCAATTCCAGC
*
15037575 TTCTCAACTGAAGAAACTCAATTCCA
1 -TCTCAACTCAAGAAACTCAATTCCA
15037601 CTTCTATCCT
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
26 1 0.01
27 40 0.59
28 3 0.04
29 3 0.04
30 21 0.31
ACGTcount: A:0.33, C:0.30, G:0.10, T:0.27
Consensus pattern (27 bp):
TCTCAACTCAAGAAACTCAATTCCAGC
Found at i:15037568 original size:30 final size:30
Alignment explanation
Indices: 15037527--15037634 Score: 150
Period size: 30 Copynumber: 3.7 Consensus size: 30
15037517 GCTCTCAACT
*
15037527 GAAGAAACTCAATTCCACTTCTCTCCTGAA
1 GAAGAATCTCAATTCCACTTCTCTCCTGAA
* **
15037557 GAAGAATCTCAATTCCGCTTCTCAACTGAA
1 GAAGAATCTCAATTCCACTTCTCTCCTGAA
*
15037587 G-A-AA-CTCAATTCCACTTCTATCCTGAA
1 GAAGAATCTCAATTCCACTTCTCTCCTGAA
15037614 GAAGAATCTCAATTCCACTTC
1 GAAGAATCTCAATTCCACTTC
15037635 CCTGTTAAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
27 20 0.30
28 3 0.04
29 3 0.04
30 41 0.61
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.28
Consensus pattern (30 bp):
GAAGAATCTCAATTCCACTTCTCTCCTGAA
Found at i:15037580 original size:57 final size:57
Alignment explanation
Indices: 15037507--15037634 Score: 222
Period size: 57 Copynumber: 2.2 Consensus size: 57
15037497 ATTCAAGCAG
*
15037507 CTCAATTCCAGC-TCTCAACTGAAGAAACTCAATTCCACTTCTCTCCTGAAGAAGAAT
1 CTCAATTCC-GCTTCTCAACTGAAGAAACTCAATTCCACTTCTATCCTGAAGAAGAAT
15037564 CTCAATTCCGCTTCTCAACTGAAGAAACTCAATTCCACTTCTATCCTGAAGAAGAAT
1 CTCAATTCCGCTTCTCAACTGAAGAAACTCAATTCCACTTCTATCCTGAAGAAGAAT
*
15037621 CTCAATTCCACTTC
1 CTCAATTCCGCTTC
15037635 CCTGTTAAAG
Statistics
Matches: 68, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
56 2 0.03
57 66 0.97
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.28
Consensus pattern (57 bp):
CTCAATTCCGCTTCTCAACTGAAGAAACTCAATTCCACTTCTATCCTGAAGAAGAAT
Found at i:15037604 original size:27 final size:30
Alignment explanation
Indices: 15037507--15037634 Score: 146
Period size: 27 Copynumber: 4.5 Consensus size: 30
15037497 ATTCAAGCAG
15037507 CTCAATTCCAGC-TCTCAACTGAAG-A-AA-
1 CTCAATTCCA-CTTCTCAACTGAAGAAGAAT
**
15037534 CTCAATTCCACTTCTCTCCTGAAGAAGAAT
1 CTCAATTCCACTTCTCAACTGAAGAAGAAT
*
15037564 CTCAATTCCGCTTCTCAACTGAAG-A-AA-
1 CTCAATTCCACTTCTCAACTGAAGAAGAAT
*
15037591 CTCAATTCCACTTCT-ATCCTGAAGAAGAAT
1 CTCAATTCCACTTCTCA-ACTGAAGAAGAAT
15037621 CTCAATTCCACTTC
1 CTCAATTCCACTTC
15037635 CCTGTTAAAG
Statistics
Matches: 86, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.02
27 40 0.47
28 4 0.05
29 5 0.06
30 35 0.41
ACGTcount: A:0.32, C:0.30, G:0.09, T:0.28
Consensus pattern (30 bp):
CTCAATTCCACTTCTCAACTGAAGAAGAAT
Found at i:15040797 original size:21 final size:20
Alignment explanation
Indices: 15040771--15040851 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 20
15040761 CTATTAAAAA
15040771 TTATCAAAATTTTATCAATAG
1 TTATCAAAATTTTATCAA-AG
* *
15040792 TTATCAAAATTATATTAAATG
1 TTATCAAAATTTTATCAAA-G
* *
15040813 TTATCAAAATCTTATTCAAGG
1 TTATCAAAATTTTA-TCAAAG
*
15040834 ATT-TCAAAATTGTATCAA
1 -TTATCAAAATTTTATCAA
15040852 TGGATTAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
20 5 0.10
21 39 0.80
22 5 0.10
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (20 bp):
TTATCAAAATTTTATCAAAG
Found at i:15040856 original size:21 final size:20
Alignment explanation
Indices: 15040828--15040871 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
15040818 AAAATCTTAT
** *
15040828 TCAAGGATTTCAAAATTGTA
1 TCAAGGATTAAAAAATTCTA
15040848 TCAATGGATTAAAAAATTCTA
1 TCAA-GGATTAAAAAATTCTA
15040869 TCA
1 TCA
15040872 TAAGTTAGTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (20 bp):
TCAAGGATTAAAAAATTCTA
Found at i:15041126 original size:21 final size:21
Alignment explanation
Indices: 15041051--15041216 Score: 104
Period size: 21 Copynumber: 8.0 Consensus size: 21
15041041 TATATATATA
* * *
15041051 TATATATAA-GTTACCATAAT
1 TATATAAAAGGTTATCAAAAT
* * * *
15041071 TTTATTAAAGGTTACCAAAAG
1 TATATAAAAGGTTATCAAAAT
* * *
15041092 TGTATAAATGATTATCAAAAT
1 TATATAAAAGGTTATCAAAAT
** * *
15041113 TATATAAAAAATTATTAGAAT
1 TATATAAAAGGTTATCAAAAT
* * * *
15041134 AATATCAAATGTTATTAAAAT
1 TATATAAAAGGTTATCAAAAT
* *
15041155 TGTATCAAAGGTTATCAAAAT
1 TATATAAAAGGTTATCAAAAT
* *
15041176 TGTA-ACAAAGGTTA-CCAAAT
1 TATATA-AAAGGTTATCAAAAT
15041196 TATATAAAAGGTTATCAAAAT
1 TATATAAAAGGTTATCAAAAT
15041217 CAAAGTAATA
Statistics
Matches: 113, Mismatches: 29, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
20 22 0.19
21 91 0.81
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.35
Consensus pattern (21 bp):
TATATAAAAGGTTATCAAAAT
Found at i:15041255 original size:27 final size:27
Alignment explanation
Indices: 15041207--15041270 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
15041197 ATATAAAAGG
*
15041207 TTATCAAAATCAAAGTAATATC-ATAGA
1 TTATCAAAATCAAAATAATATCAAT-GA
** *
15041234 TTATCAAAATCAAAATTGTATCAATGG
1 TTATCAAAATCAAAATAATATCAATGA
15041261 TTATCAAAAT
1 TTATCAAAAT
15041271 TATTTCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (27 bp):
TTATCAAAATCAAAATAATATCAATGA
Found at i:15041310 original size:20 final size:20
Alignment explanation
Indices: 15041264--15041313 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
15041254 TCAATGGTTA
* *
15041264 TCAAAATTATTTCAAAACTT
1 TCAAAATTATATAAAAACTT
* * *
15041284 ACCAAATTATATAAAAATTT
1 TCAAAATTATATAAAAACTT
15041304 TCAAAATTAT
1 TCAAAATTAT
15041314 TCAAGATTAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (20 bp):
TCAAAATTATATAAAAACTT
Found at i:15041316 original size:10 final size:10
Alignment explanation
Indices: 15041264--15041330 Score: 52
Period size: 9 Copynumber: 6.8 Consensus size: 10
15041254 TCAATGGTTA
15041264 TCAAAATTATT
1 TCAAAATTA-T
15041275 TCAAAACTTA-
1 TCAAAA-TTAT
*
15041285 -CCAAATTAT
1 TCAAAATTAT
*
15041294 ATAAAAATT-T
1 -TCAAAATTAT
15041304 TCAAAATTAT
1 TCAAAATTAT
*
15041314 TCAAGATTA-
1 TCAAAATTAT
15041323 TCAAAATT
1 TCAAAATT
15041331 TCATTAAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
8 3 0.07
9 18 0.40
10 10 0.22
11 11 0.24
12 3 0.07
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.37
Consensus pattern (10 bp):
TCAAAATTAT
Found at i:15042970 original size:21 final size:21
Alignment explanation
Indices: 15042931--15042971 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
15042921 TTCATAATTT
* **
15042931 AACTACATATATATGTCATAG
1 AACTACATATAAAAATCATAG
15042952 AACTACATATAAAAATCATA
1 AACTACATATAAAAATCATA
15042972 TTAGTAGAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (21 bp):
AACTACATATAAAAATCATAG
Found at i:15047848 original size:30 final size:30
Alignment explanation
Indices: 15047814--15047876 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
15047804 GAGAGAAGGT
* *
15047814 TTTGCAAGAAAAACTCAAGAAAGATGTTGA
1 TTTGCAAAAAAAACTCAAGAAAGATGCTGA
15047844 TTTGCAAAAAAAACTCAAGAAAGATGCTGA
1 TTTGCAAAAAAAACTCAAGAAAGATGCTGA
15047874 TTT
1 TTT
15047877 TGCCTGGACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.25
Consensus pattern (30 bp):
TTTGCAAAAAAAACTCAAGAAAGATGCTGA
Found at i:15052897 original size:19 final size:19
Alignment explanation
Indices: 15052873--15052942 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
15052863 ATAATACATA
15052873 AAAATATAATAAAAAATAT
1 AAAATATAATAAAAAATAT
* *
15052892 AAAATATAAT--ATAATTT
1 AAAATATAATAAAAAATAT
* *
15052909 AAAATATTAATAATTATATAT
1 AAAATA-TAATAA-AAAATAT
15052930 AAAAT-TAATAAAA
1 AAAATATAATAAAA
15052943 TTAAAAAATA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
17 11 0.28
18 5 0.12
19 16 0.40
21 8 0.20
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAATATAATAAAAAATAT
Found at i:15056814 original size:121 final size:122
Alignment explanation
Indices: 15056613--15056857 Score: 350
Period size: 121 Copynumber: 2.0 Consensus size: 122
15056603 ACATGCAGCC
* *
15056613 ATCTAGATTGCTTTTGACAAAACGTCATTGGAGAATGAAAAGAAACAAGTTGAATTCTGAAATAT
1 ATCTAGATTGCTTTTGACAAAACGTCATTGGAGAATGAAAAGAAACAAGATGAATTCTGAAACAT
* * *
15056678 TTGGGAAATAGTCCTTTCTTTTTTTGTTATAGAAC-ATGTCTTTAAGCTTGATCTAA
66 TTGGGAAATACTCCTTCCTTTTTCTGTTATAGAACAATGTCTTTAAGCTTGATCTAA
* * * * *
15056734 ATCTAGGTTGCTTTTGACAAAAATGTCATTGGAGAATGAAAAGTAATAA-ATGAATTCTGCAACA
1 ATCTAGATTGCTTTTGAC-AAAACGTCATTGGAGAATGAAAAGAAACAAGATGAATTCTGAAACA
* *
15056798 TTTGGGAAATCCTCCTTCCTTTTTCTGTTATCGAACATATGTCTTTAAGCTTGATCTAA
65 TTTGGGAAATACTCCTTCCTTTTTCTGTTATAGAACA-ATGTCTTTAAGCTTGATCTAA
15056857 A
1 A
15056858 GTGTCAGGGA
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
121 60 0.55
122 27 0.25
123 22 0.20
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (122 bp):
ATCTAGATTGCTTTTGACAAAACGTCATTGGAGAATGAAAAGAAACAAGATGAATTCTGAAACAT
TTGGGAAATACTCCTTCCTTTTTCTGTTATAGAACAATGTCTTTAAGCTTGATCTAA
Found at i:15060217 original size:20 final size:20
Alignment explanation
Indices: 15060192--15060232 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
15060182 TCACCTTGAG
15060192 CTATGATGAGTAGTTTGCAT
1 CTATGATGAGTAGTTTGCAT
15060212 CTATGATGAGTAGTTTGCAT
1 CTATGATGAGTAGTTTGCAT
15060232 C
1 C
15060233 ATTCTCGCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.39
Consensus pattern (20 bp):
CTATGATGAGTAGTTTGCAT
Found at i:15062616 original size:20 final size:20
Alignment explanation
Indices: 15062591--15062629 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15062581 TCACGACTTG
15062591 ATTTTTTGTGTTTTTTTTAA
1 ATTTTTTGTGTTTTTTTTAA
*
15062611 ATTTTTTTTGTTTTTTTTA
1 ATTTTTTGTGTTTTTTTTA
15062630 TTTTTCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (20 bp):
ATTTTTTGTGTTTTTTTTAA
Found at i:15063181 original size:6 final size:6
Alignment explanation
Indices: 15063161--15063193 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
15063151 TATCGAAAAT
*
15063161 TTTATA -TTATA TTTATT TTTATA TTTATA TTTA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTA
15063194 ATGAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.21
6 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (6 bp):
TTTATA
Found at i:15063190 original size:18 final size:17
Alignment explanation
Indices: 15063160--15063193 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
15063150 ATATCGAAAA
15063160 TTTTATATTATATTTAT
1 TTTTATATTATATTTAT
15063177 TTTTATATTTATATTTA
1 TTTTATA-TTATATTTA
15063194 ATGAATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTATATTATATTTAT
Found at i:15063361 original size:44 final size:41
Alignment explanation
Indices: 15063312--15063421 Score: 97
Period size: 43 Copynumber: 2.7 Consensus size: 41
15063302 ATAAATTTAG
15063312 ATAATTTTTTTATAAATATATATTAATATATATTTTAAATAAA
1 ATAATTTTTTTATAAATATATATTAATATATA-TTT-AATAAA
** *
15063355 ATTAATTAATTTA-AAATA-ATAATTTATAT-TATTTAATAAA
1 A-TAATTTTTTTATAAATATAT-ATTAATATATATTTAATAAA
* *
15063395 AT-ATATTTAT-TAAATATATA-TAATATA
1 ATAATTTTTTTATAAATATATATTAATATA
15063422 GGTATGAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
37 5 0.09
38 10 0.19
39 3 0.06
40 7 0.13
41 3 0.06
42 4 0.07
43 13 0.24
44 9 0.17
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (41 bp):
ATAATTTTTTTATAAATATATATTAATATATATTTAATAAA
Found at i:15063371 original size:20 final size:23
Alignment explanation
Indices: 15063320--15063390 Score: 71
Period size: 22 Copynumber: 3.2 Consensus size: 23
15063310 AGATAATTTT
15063320 TTTATAAAT-ATATATTAATATATA
1 TTTA-AAATAATA-ATTAATATATA
*
15063344 TTTTAAATAA-AATTAAT-TA-A
1 TTTAAAATAATAATTAATATATA
*
15063364 TTTAAAATAATAATTTATAT-TA
1 TTTAAAATAATAATTAATATATA
15063386 TTTAA
1 TTTAA
15063391 TAAAATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
20 10 0.25
21 8 0.20
22 13 0.32
23 5 0.12
24 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (23 bp):
TTTAAAATAATAATTAATATATA
Found at i:15065012 original size:2 final size:2
Alignment explanation
Indices: 15065005--15065040 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
15064995 GAGAATAATT
15065005 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
15065041 AGTTACAGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:15075135 original size:26 final size:26
Alignment explanation
Indices: 15075106--15075157 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
15075096 TTTTAGTGGT
15075106 CTATTTTATATGCAAAAGGCTGTTTG
1 CTATTTTATATGCAAAAGGCTGTTTG
* *
15075132 CTATTTTATATGCCACAGGCTGTTTG
1 CTATTTTATATGCAAAAGGCTGTTTG
15075158 TCTAACTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (26 bp):
CTATTTTATATGCAAAAGGCTGTTTG
Found at i:15091228 original size:10 final size:10
Alignment explanation
Indices: 15091139--15091415 Score: 60
Period size: 10 Copynumber: 28.2 Consensus size: 10
15091129 AATTTTTTTT
*
15091139 AAATTATAAA
1 AAATTCTAAA
*
15091149 AAAGT-TAAA
1 AAATTCTAAA
15091158 AAATT-TCAAA
1 AAATTCT-AAA
15091168 TAAATTC-AACA
1 -AAATTCTAA-A
* *
15091179 AAATTTTAAG
1 AAATTCTAAA
**
15091189 AAATTCTTTA
1 AAATTCTAAA
* **
15091199 AAATTTTTTA
1 AAATTCTAAA
15091209 AAATTC-AAA
1 AAATTCTAAA
15091218 AAATTCTAAA
1 AAATTCTAAA
*
15091228 ATAATTTTTAAA
1 A-AA-TTCTAAA
* *
15091240 AAATT-TTAT
1 AAATTCTAAA
15091249 AAATT-TAAA
1 AAATTCTAAA
***
15091258 AAAAAAT-AA
1 AAATTCTAAA
* *
15091267 AAATTTTTAA
1 AAATTCTAAA
*
15091277 AAATTATAAA
1 AAATTCTAAA
15091287 ATAA-T-TAAA
1 A-AATTCTAAA
*
15091296 AAA--ATAAA
1 AAATTCTAAA
*
15091304 AAATTCT-GA
1 AAATTCTAAA
* **
15091313 AAATTTTTTA
1 AAATTCTAAA
*
15091323 AAATTCTAAC
1 AAATTCTAAA
** * *
15091333 ATTTTTTCAA
1 AAATTCTAAA
*
15091343 ATATTCTAAA
1 AAATTCTAAA
*
15091353 ATAGTTTCT-AA
1 A-A-ATTCTAAA
* *
15091364 AAATTTTAGA
1 AAATTCTAAA
*
15091374 AAATTCAAAA
1 AAATTCTAAA
*
15091384 AAATTATGAAA
1 AAATTCT-AAA
*
15091395 AAATTCT-CA
1 AAATTCTAAA
15091404 AAATTCTAAA
1 AAATTCTAAA
15091414 AA
1 AA
15091416 CTTTTAAAAC
Statistics
Matches: 194, Mismatches: 53, Indels: 40
0.68 0.18 0.14
Matches are distributed among these distances:
8 9 0.05
9 57 0.29
10 91 0.47
11 26 0.13
12 11 0.06
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (10 bp):
AAATTCTAAA
Found at i:15091270 original size:18 final size:18
Alignment explanation
Indices: 15091234--15091308 Score: 62
Period size: 19 Copynumber: 4.1 Consensus size: 18
15091224 TAAAATAATT
* * *
15091234 TTTAAAAAATTTTATAAA
1 TTTAAAAAAATATAAAAA
*
15091252 TTTAAAAAAAAATAAAAA
1 TTTAAAAAAATATAAAAA
* *
15091270 TTTTTAAAAATTATAAAATA
1 -TTTAAAAAAATATAAAA-A
*
15091290 ATTAAAAAAATA-AAAAA
1 TTTAAAAAAATATAAAAA
15091307 TT
1 TT
15091309 CTGAAAATTT
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
17 2 0.05
18 18 0.41
19 23 0.52
20 1 0.02
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TTTAAAAAAATATAAAAA
Found at i:15091296 original size:27 final size:28
Alignment explanation
Indices: 15091236--15091298 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
15091226 AAATAATTTT
*
15091236 TAAAAAATTTTATAAATTTAAAAAAAAA
1 TAAAAAATTTTATAAAATTAAAAAAAAA
* * *
15091264 TAAAAATTTTTA-AAAATTATAAAATAAT
1 TAAAAAATTTTATAAAATTA-AAAAAAAA
15091292 TAAAAAA
1 TAAAAAA
15091299 ATAAAAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (28 bp):
TAAAAAATTTTATAAAATTAAAAAAAAA
Found at i:15091306 original size:37 final size:37
Alignment explanation
Indices: 15091224--15091308 Score: 102
Period size: 38 Copynumber: 2.2 Consensus size: 37
15091214 CAAAAAATTC
*
15091224 TAAAATAATTTTTAAAAAATTTTATAAATTTAAAAAAA
1 TAAAA-AATTTTTAAAAAATTATATAAATTTAAAAAAA
*
15091262 AATAAAAATTTTT-AAAAATTATA-AAATAATTAAAAAAA
1 TA-AAAAATTTTTAAAAAATTATATAAAT--TTAAAAAAA
15091300 TAAAAAATT
1 TAAAAAATT
15091309 CTGAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
36 4 0.10
37 16 0.39
38 18 0.44
39 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (37 bp):
TAAAAAATTTTTAAAAAATTATATAAATTTAAAAAAA
Found at i:15091325 original size:19 final size:19
Alignment explanation
Indices: 15091303--15091354 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
15091293 AAAAAAATAA
15091303 AAAATTCTGAAAATTTTTT-
1 AAAATTCT-AAAATTTTTTC
*
15091322 AAAATTCTAACATTTTTTC
1 AAAATTCTAAAATTTTTTC
15091341 AAATATTCTAAAAT
1 AAA-ATTCTAAAAT
15091355 AGTTTCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 11 0.38
20 9 0.31
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (19 bp):
AAAATTCTAAAATTTTTTC
Found at i:15091461 original size:11 final size:10
Alignment explanation
Indices: 15091445--15091529 Score: 75
Period size: 10 Copynumber: 8.4 Consensus size: 10
15091435 AAATTTTTTA
15091445 TTTTAAAAATT
1 TTTTAAAAA-T
15091456 TTTTAAAAA-
1 TTTTAAAAAT
* *
15091465 TTCTGAAAAT
1 TTTTAAAAAT
*
15091475 TTTTAAACAAA
1 TTTTAAA-AAT
15091486 TTTTAAAAGA-
1 TTTTAAAA-AT
15091496 TTTTAAAAAT
1 TTTTAAAAAT
*
15091506 TTTTTAAAAT
1 TTTTAAAAAT
* *
15091516 TTTTTAAGAT
1 TTTTAAAAAT
15091526 TTTT
1 TTTT
15091530 TTATGCTGAC
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
9 8 0.13
10 36 0.57
11 19 0.30
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (10 bp):
TTTTAAAAAT
Found at i:15093041 original size:2 final size:2
Alignment explanation
Indices: 15093034--15093065 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
15093024 CAATTGTATG
15093034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15093066 CTAGTTTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15094511 original size:15 final size:15
Alignment explanation
Indices: 15094491--15094540 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
15094481 CTCACTTCTC
15094491 CATTTTTTTATTTTT
1 CATTTTTTTATTTTT
*
15094506 CATTTTTATATTTGTT
1 CATTTTTTTATTT-TT
15094522 --TTTATTTTATTTTT
1 CATTT-TTTTATTTTT
*
15094536 AATTT
1 CATTT
15094541 AATAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
14 5 0.17
15 19 0.66
16 5 0.17
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (15 bp):
CATTTTTTTATTTTT
Found at i:15094523 original size:12 final size:12
Alignment explanation
Indices: 15094495--15094541 Score: 53
Period size: 11 Copynumber: 4.0 Consensus size: 12
15094485 CTTCTCCATT
*
15094495 TTTTTATTTTTCA
1 TTTTTATATTT-A
*
15094508 TTTTTATATTTG
1 TTTTTATATTTA
15094520 TTTTTAT-TTTA
1 TTTTTATATTTA
15094531 TTTTTA-ATTTA
1 TTTTTATATTTA
15094542 ATAAATTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 13 0.43
12 7 0.23
13 10 0.33
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.77
Consensus pattern (12 bp):
TTTTTATATTTA
Found at i:15094529 original size:6 final size:6
Alignment explanation
Indices: 15094495--15094536 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
15094485 CTTCTCCATT
* *
15094495 TTTTTA TTTTTCA TTTTTA TATTTG TTTTTA -TTTTA TTTTTA
1 TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
15094537 ATTTAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 5 0.17
6 19 0.63
7 6 0.20
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:15095012 original size:16 final size:16
Alignment explanation
Indices: 15094991--15095058 Score: 64
Period size: 16 Copynumber: 3.8 Consensus size: 16
15094981 ATTTTTAAAT
15094991 ATAAATATAAAATTAA
1 ATAAATATAAAATTAA
15095007 ATAAATATGAAAAATATTAATA
1 ATAAATAT---AAA-ATT-A-A
15095029 TATAAATATAAAATTAA
1 -ATAAATATAAAATTAA
15095046 ATAAATAATAAAA
1 ATAAAT-ATAAAA
15095059 AATATTTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 15
0.75 0.00 0.25
Matches are distributed among these distances:
16 14 0.32
17 7 0.16
18 1 0.02
19 6 0.14
20 6 0.14
21 1 0.02
22 1 0.02
23 8 0.18
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (16 bp):
ATAAATATAAAATTAA
Done.