Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold172
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: 1975206
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.26
Warning! 344189 characters in sequence are not A, C, G, or T
File 4 of 11
Found at i:470312 original size:28 final size:28
Alignment explanation
Indices: 470238--470312 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 28
470228 GTCTTCAAAA
* ** *
470238 AGGTGCCACTGACTTGTAGACTTCGTAG
1 AGGTGCCACTAACTAATGGACTTCGTAG
* *
470266 AGGTGCCACTGACTTATGGACTTCGTAG
1 AGGTGCCACTAACTAATGGACTTCGTAG
*
470294 AGGTGCCACTAAGTAATGG
1 AGGTGCCACTAACTAATGG
470313 CTTTGAGAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (28 bp):
AGGTGCCACTAACTAATGGACTTCGTAG
Found at i:470743 original size:52 final size:51
Alignment explanation
Indices: 470647--470848 Score: 181
Period size: 52 Copynumber: 3.9 Consensus size: 51
470637 GAAGAATGAT
* * * * *
470647 AAAGGTACCAATATGTTGATTCATGGCCAATGATC-TTGGGCTTAAAGGTGAC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAATGA-CATTGGACTT-AAGGTGAC
* *
470699 AAAGGTGCCAACGTGCTGTTTCAAGGCCAATGACATTGGACTTAAGGATGAC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTGGACTTAAGG-TGAC
* * * * * * ** *
470751 AAAGGTGCCAATATACTGATTCAAAGCCAATTATATTAGACTTAAGAAAGAA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTGGACTTAAG-GTGAC
* * **
470803 AAAGATGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTGGACTTAAG
470849 AAAGAAATGA
Statistics
Matches: 119, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
51 5 0.04
52 114 0.96
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.25
Consensus pattern (51 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTGGACTTAAGGTGAC
Found at i:471006 original size:31 final size:31
Alignment explanation
Indices: 470944--471064 Score: 145
Period size: 32 Copynumber: 3.8 Consensus size: 31
470934 CTTTTGTGAG
* * * *
470944 GGTTGCCACTAACTTTTTTGGGCTTTTGAAGA
1 GGTTGCCACCAGCTTGTGTGGGC-TTTGAAGA
470976 GGTTGCCACCAGCTTGTGTGGGCTTTGAAGAA
1 GGTTGCCACCAGCTTGTGTGGGCTTTGAAG-A
* *
471008 GGTTGCCACCGGCTT-TGTGGGCTTTGAAAAA
1 GGTTGCCACCAGCTTGTGTGGGCTTTG-AAGA
*
471039 GGTTGCCACCAGCTTGTGTGAGCTTT
1 GGTTGCCACCAGCTTGTGTGGGCTTT
471065 TGAGAAAGGT
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
31 33 0.42
32 45 0.58
ACGTcount: A:0.17, C:0.19, G:0.31, T:0.33
Consensus pattern (31 bp):
GGTTGCCACCAGCTTGTGTGGGCTTTGAAGA
Found at i:471382 original size:63 final size:62
Alignment explanation
Indices: 471302--471509 Score: 192
Period size: 61 Copynumber: 3.4 Consensus size: 62
471292 GTTTGGCAAT
* * * *
471302 GTGCCAATATGCAAATTCAAGGCCT-GCAACATTGGACTTAAAAATGATATAAGAATGAGAAGA
1 GTGCCAATATGCTAATTCAAGGCCTAGCAACATTGGACTTAAAGATGACA-AAGAATGATAA-A
* * * *
471365 GTGCTAATATGCTAATTCAAGG-TTAGCGACATTGGACTTAAGGATG-CAAAGAATGATAAA
1 GTGCCAATATGCTAATTCAAGGCCTAGCAACATTGGACTTAAAGATGACAAAGAATGATAAA
* * * * * * *
471425 GGTGCCAATATGCTGATTC-AGGGCTAGCAATATCGGGCTTGAAGATGAGAAA-AATGATAAAA
1 -GTGCCAATATGCTAATTCAAGGCCTAGCAACATTGGACTTAAAGATGACAAAGAATGAT-AAA
* *
471487 GTGCTAATATGCTGATTCAAGGC
1 GTGCCAATATGCTAATTCAAGGC
471510 TAGTGATATT
Statistics
Matches: 119, Mismatches: 20, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
60 4 0.03
61 66 0.55
62 11 0.09
63 38 0.32
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (62 bp):
GTGCCAATATGCTAATTCAAGGCCTAGCAACATTGGACTTAAAGATGACAAAGAATGATAAA
Found at i:471618 original size:54 final size:53
Alignment explanation
Indices: 471474--471627 Score: 179
Period size: 52 Copynumber: 2.9 Consensus size: 53
471464 TGAAGATGAG
* * *
471474 AAAA-ATGATAAAAGTGCTAATATGCTGATTCAAGGCTAGTGATATTGAGCTT
1 AAAAGATGACAAAAGTGCTAATATGCTGATTCAAGGCCAGTGATATTGGGCTT
* * *
471526 -AAAGGTGACAAAGGTGCTAATGTGCT-ATTTCAAGGCCAGTGATATTGGGCTT
1 AAAAGATGACAAAAGTGCTAATATGCTGA-TTCAAGGCCAGTGATATTGGGCTT
* * * *
471578 AAAAAGATGACAAAAGCGCCAATATGCTGATTCAAAGCCAGCGATATTGG
1 -AAAAGATGACAAAAGTGCTAATATGCTGATTCAAGGCCAGTGATATTGG
471628 ATTTAAGAAA
Statistics
Matches: 84, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
51 4 0.05
52 40 0.48
54 39 0.46
55 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (53 bp):
AAAAGATGACAAAAGTGCTAATATGCTGATTCAAGGCCAGTGATATTGGGCTT
Found at i:471800 original size:32 final size:32
Alignment explanation
Indices: 471762--471914 Score: 179
Period size: 32 Copynumber: 4.8 Consensus size: 32
471752 ATGCTACCAT
471762 CTTGTGTGGGCTTTTG-AGAAGGTTGCCACAGA
1 CTTGTGTGGGCTTTTGAAGAAGGTTGCCACA-A
*
471794 CTTGTGTGGGCTTTT-AAAAAGGTTGCCACAA
1 CTTGTGTGGGCTTTTGAAGAAGGTTGCCACAA
471825 GCTTGTGTGGGC-TTTGAAGAAGGTTGCCACCAA
1 -CTTGTGTGGGCTTTTGAAGAAGGTTGCCA-CAA
* *
471858 CTTGTGTAGGC-TTTGAAGAAGGTTGCCACTAG
1 CTTGTGTGGGCTTTTGAAGAAGGTTGCCAC-AA
* * * *
471890 CTTCTATGGGCTTTTAAAAAAGGTT
1 CTTGTGTGGGCTTTTGAAGAAGGTT
471915 TCTCCATTGG
Statistics
Matches: 106, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
31 5 0.05
32 87 0.82
33 14 0.13
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (32 bp):
CTTGTGTGGGCTTTTGAAGAAGGTTGCCACAA
Found at i:471837 original size:64 final size:65
Alignment explanation
Indices: 471762--471914 Score: 204
Period size: 64 Copynumber: 2.4 Consensus size: 65
471752 ATGCTACCAT
* *
471762 CTTGTGTGGGCTTTTG-AGAAGGTTGCCA-CAGACTTGTGTGGGCTTTTAAAAAGGTTGCCACAA
1 CTTGTGTGGGCTTTTGAAGAAGGTTGCCACCA-ACTTGTGTAGGCTTTGAAAAAGGTTGCCACAA
471825 G
65 G
* *
471826 CTTGTGTGGGC-TTTGAAGAAGGTTGCCACCAACTTGTGTAGGCTTTGAAGAAGGTTGCCACTAG
1 CTTGTGTGGGCTTTTGAAGAAGGTTGCCACCAACTTGTGTAGGCTTTGAAAAAGGTTGCCACAAG
* * * *
471890 CTTCTATGGGCTTTTAAAAAAGGTT
1 CTTGTGTGGGCTTTTGAAGAAGGTT
471915 TCTCCATTGG
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
63 4 0.05
64 61 0.78
65 13 0.17
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.32
Consensus pattern (65 bp):
CTTGTGTGGGCTTTTGAAGAAGGTTGCCACCAACTTGTGTAGGCTTTGAAAAAGGTTGCCACAAG
Found at i:474076 original size:13 final size:13
Alignment explanation
Indices: 474057--474095 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
474047 ACTATTTATG
474057 ATGTATCGATACA
1 ATGTATCGATACA
*
474070 CTGTATCGATACA
1 ATGTATCGATACA
474083 ATGTATCGATACA
1 ATGTATCGATACA
474096 TGAATAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:474194 original size:21 final size:22
Alignment explanation
Indices: 474168--474217 Score: 93
Period size: 21 Copynumber: 2.3 Consensus size: 22
474158 AGTGATTAAT
474168 AGTGATGTATCGATACATGAA-
1 AGTGATGTATCGATACATGAAC
474189 AGTGATGTATCGATACATGAAC
1 AGTGATGTATCGATACATGAAC
474211 AGTGATG
1 AGTGATG
474218 AATAGTGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (22 bp):
AGTGATGTATCGATACATGAAC
Found at i:474224 original size:10 final size:10
Alignment explanation
Indices: 474205--474236 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
474195 GTATCGATAC
474205 ATGAACAGTG
1 ATGAACAGTG
*
474215 ATGAATAGTG
1 ATGAACAGTG
474225 ATGAACAGTG
1 ATGAACAGTG
474235 AT
1 AT
474237 AATGAGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.41, C:0.06, G:0.28, T:0.25
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:474324 original size:53 final size:53
Alignment explanation
Indices: 474259--474395 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
474249 CTACTACCAA
474259 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
* * *
474312 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
474365 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
474396 TATGCAATGT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
53 66 0.84
54 13 0.16
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
Found at i:474390 original size:20 final size:20
Alignment explanation
Indices: 474365--474435 Score: 83
Period size: 20 Copynumber: 3.5 Consensus size: 20
474355 GCCAATGTCC
**
474365 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
*
474385 TGTATCGATAC-TATGCAATG
1 TGTATCGATACATAT-TAATG
474405 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
474425 TGTATCGATAC
1 TGTATCGATAC
474436 TTTTTAGGGT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 3 0.07
20 40 0.91
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:474501 original size:21 final size:21
Alignment explanation
Indices: 474475--474515 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
474465 GTCAACCTTG
474475 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
474496 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
474516 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:481445 original size:16 final size:17
Alignment explanation
Indices: 481426--481458 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
481416 GCTTATGATG
*
481426 AATTA-TGTTGATGAAT
1 AATTAGTGTGGATGAAT
481442 AATTAGTGTGGATGAAT
1 AATTAGTGTGGATGAAT
481459 GTGGCAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (17 bp):
AATTAGTGTGGATGAAT
Found at i:488288 original size:42 final size:42
Alignment explanation
Indices: 488242--488446 Score: 175
Period size: 42 Copynumber: 4.9 Consensus size: 42
488232 CTCGCGGGTC
* * *
488242 AAAGCCGACGAACAGACAAAAGGTGAAGAAGTCTCCCAGGTT
1 AAAGCTGACGGACAGACAAAGGGTGAAGAAGTCTCCCAGGTT
* * * *
488284 AAAGCTAAGGGACAGACAAAGGGTGAAGAAGTCT-CCTGAGTC
1 AAAGCTGACGGACAGACAAAGGGTGAAGAAGTCTCCCAG-GTT
* *
488326 AAAGTTGACGGGCAGACAAAGGGTGAAGAAGTCTCCCAGGTT
1 AAAGCTGACGGACAGACAAAGGGTGAAGAAGTCTCCCAGGTT
* * * * * * *
488368 AAAGTTGATAGGCCA-AAAAAGGGTAAAGATA-TCTCCCAAGTC
1 AAAGCTGA-CGGACAGACAAAGGGTGAAGA-AGTCTCCCAGGTT
* * *
488410 AAAGTTGACAGG-CAGACAAAGGGTAAAAAAGTCTCCC
1 AAAGCTGAC-GGACAGACAAAGGGTGAAGAAGTCTCCC
488447 GAGTCAAAAC
Statistics
Matches: 134, Mismatches: 22, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
41 6 0.04
42 120 0.90
43 8 0.06
ACGTcount: A:0.40, C:0.18, G:0.27, T:0.15
Consensus pattern (42 bp):
AAAGCTGACGGACAGACAAAGGGTGAAGAAGTCTCCCAGGTT
Found at i:488356 original size:84 final size:84
Alignment explanation
Indices: 488254--488446 Score: 248
Period size: 84 Copynumber: 2.3 Consensus size: 84
488244 AGCCGACGAA
* * *
488254 CAGACAAAAGGTGAAGAAGTCTCCCAGGTTAAAGCT-A-AGGGACAGACAAAGGGTGAAGA-AGT
1 CAGACAAAGGGTGAAGAAGTCTCCCAGGTTAAAGCTGATA-GGACA-AAAAAGGGTAAAGATA-T
** *
488316 CTCCTGAGTCAAAGTTGACGGG
63 CTCCCAAGTCAAAGTTGACAGG
* *
488338 CAGACAAAGGGTGAAGAAGTCTCCCAGGTTAAAGTTGATAGGCCAAAAAAGGGTAAAGATATCTC
1 CAGACAAAGGGTGAAGAAGTCTCCCAGGTTAAAGCTGATAGGACAAAAAAGGGTAAAGATATCTC
488403 CCAAGTCAAAGTTGACAGG
66 CCAAGTCAAAGTTGACAGG
* *
488422 CAGACAAAGGGTAAAAAAGTCTCCC
1 CAGACAAAGGGTGAAGAAGTCTCCC
488447 GAGTCAAAAC
Statistics
Matches: 96, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
84 89 0.93
85 6 0.06
86 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.16
Consensus pattern (84 bp):
CAGACAAAGGGTGAAGAAGTCTCCCAGGTTAAAGCTGATAGGACAAAAAAGGGTAAAGATATCTC
CCAAGTCAAAGTTGACAGG
Found at i:488452 original size:42 final size:42
Alignment explanation
Indices: 488296--488774 Score: 228
Period size: 42 Copynumber: 11.4 Consensus size: 42
488286 AGCTAAGGGA
* * * ** *
488296 CAGACAAAGGGTGAAGAAGTCTCCTGAGTCAAAGTTGACGGG
1 CAGACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGCCGACAGG
* * * ** *
488338 CAGACAAAGGGTGAAGAAGTCTCCC-AGGTTAAAGTTGATAGG
1 CAGACAAAGGGTAAAAAAGTCTCCCGA-GTCAAAGCCGACAGG
* * * **
488380 CCA-AAAAAGGGTAAAGATA-TCTCCCAAGTCAAAGTTGACAGG
1 -CAGACAAAGGGTAAA-AAAGTCTCCCGAGTCAAAGCCGACAGG
* * *
488422 CAGACAAAGGGTAAAAAAGTCTCCCGAGTCAAAACCAATAGG
1 CAGACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGCCGACAGG
* * * * * * * *
488464 CAAAAAAAGGGTGAAGATGTCTCTCGAGTCAAAGCCGATAAG
1 CAGACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGCCGACAGG
* * * * * *
488506 C-GAATAAAAGGTGAAGAAGTCTCTCGAGTCAAAGCCAAC-GAG
1 CAG-ACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGCCGACAG-G
* * * * *
488548 CAGACAAAGGGTGAAAAAGCCTCTC-AGGTTAACGCCGACAGG
1 CAGACAAAGGGTAAAAAAGTCTCCCGA-GTCAAAGCCGACAGG
*
488590 TAGACAAAGGGTAAAGAAGAAGTCTCCTCG-GTCAAAGCC-A-ATGG
1 CAGACAAAGGGT-AA-AA-AAGTCTCC-CGAGTCAAAGCCGACA-GG
* * * * * *
488634 CAGATAAAGGGTAGAGAAA-TCTACGGGGTCAAA-CCTGACGGG
1 CAGACAAAGGGTA-AAAAAGTCTCCCGAGTCAAAGCC-GACAGG
* * *
488676 CAGACAAAGGGTAAACAAGTCTCTCAAGTCAAAGCC-AGC-GAG
1 CAGACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGCCGA-CAG-G
* * * * * *
488718 TAGACAAAGGGTAAAGAAGTCTCCTGAGTCCAAGCTGACAAG
1 CAGACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGCCGACAGG
*
488760 TAGACAAAGGGTAAA
1 CAGACAAAGGGTAAA
488775 TAAAAAGGTT
Statistics
Matches: 340, Mismatches: 69, Indels: 56
0.73 0.15 0.12
Matches are distributed among these distances:
40 3 0.01
41 21 0.06
42 273 0.80
43 13 0.04
44 16 0.05
45 13 0.04
46 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.15
Consensus pattern (42 bp):
CAGACAAAGGGTAAAAAAGTCTCCCGAGTCAAAGCCGACAGG
Found at i:489574 original size:89 final size:90
Alignment explanation
Indices: 489463--489661 Score: 292
Period size: 89 Copynumber: 2.2 Consensus size: 90
489453 GTCTGTGCCC
* * *
489463 TTACCTTAAAGTATTAGGCTCTAGGATGCATCAATATCATCTAGCAATTGAGGGAAAAAGATATG
1 TTACCCTAAGGTATTTGGCTCTAGGATGCATCAATATCATCTAGCAATTGAGGGAAAAAGATATG
* * *
489528 ACT-AGAAACGGATGGGCTGCACCT
66 ACTGAGAAACGGATGGACTACACCG
* *
489552 TTACCCTAAGGTATTTGGCTCTAGGATGCATCAATATCATCTGGTAATTGAGGGAAAAAGATATG
1 TTACCCTAAGGTATTTGGCTCTAGGATGCATCAATATCATCTAGCAATTGAGGGAAAAAGATATG
* * *
489617 ACTGGGAAATGGATGGATTACACCG
66 ACTGAGAAACGGATGGACTACACCG
489642 TTACCCTAAGGTATTTGGCT
1 TTACCCTAAGGTATTTGGCT
489662 TTGATGCATC
Statistics
Matches: 98, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
89 63 0.64
90 35 0.36
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (90 bp):
TTACCCTAAGGTATTTGGCTCTAGGATGCATCAATATCATCTAGCAATTGAGGGAAAAAGATATG
ACTGAGAAACGGATGGACTACACCG
Found at i:492639 original size:13 final size:13
Alignment explanation
Indices: 492621--492646 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
492611 TACAGCAAGT
492621 ATGTATCGATACA
1 ATGTATCGATACA
492634 ATGTATCGATACA
1 ATGTATCGATACA
492647 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:494612 original size:13 final size:13
Alignment explanation
Indices: 494594--494619 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
494584 CAATTTTTTG
494594 TGTATCGATACAT
1 TGTATCGATACAT
494607 TGTATCGATACAT
1 TGTATCGATACAT
494620 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:494704 original size:20 final size:20
Alignment explanation
Indices: 494679--494751 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
494669 CATCCTTTTT
494679 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
494699 ATGTATCGATACAATTTTTTC
1 ATGTATCGATAC-ATTGCAAC
494720 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
494740 ATGTATCGATAC
1 ATGTATCGATAC
494752 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:494724 original size:21 final size:20
Alignment explanation
Indices: 494658--494734 Score: 84
Period size: 21 Copynumber: 3.8 Consensus size: 20
494648 CTGCCAAGAA
494658 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT--TTTTTC
****
494679 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTTTTTC
494699 ATGTATCGATACAATTTTTTC
1 ATGTATCGATAC-ATTTTTTC
494720 ATGTATCGATACATT
1 ATGTATCGATACATT
494735 GCAACATGTA
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
19 1 0.02
20 15 0.33
21 30 0.65
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTTC
Found at i:494724 original size:41 final size:40
Alignment explanation
Indices: 494658--494751 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 40
494648 CTGCCAAGAA
494658 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAT-CTTTTTATGTATCGATACATTGCAAC
494699 ATGTATCGATACAAT-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATAC-ATCTTTTT-ATGTATCGATACATTGCAAC
494740 ATGTATCGATAC
1 ATGTATCGATAC
494752 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
40 5 0.10
41 44 0.86
42 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (40 bp):
ATGTATCGATACATCTTTTTATGTATCGATACATTGCAAC
Found at i:497221 original size:13 final size:13
Alignment explanation
Indices: 497203--497241 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
497193 ATAATCACCC
*
497203 TGTATCGATACAG
1 TGTATCGATACAA
497216 TGTATCGATACAA
1 TGTATCGATACAA
497229 TGTATCGATACAA
1 TGTATCGATACAA
497242 GGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:499340 original size:15 final size:15
Alignment explanation
Indices: 499320--499350 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
499310 ATTTCGTTTG
*
499320 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
499335 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
499350 G
1 G
499351 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:503429 original size:13 final size:13
Alignment explanation
Indices: 503411--503436 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
503401 CAATTTTTTG
503411 TGTATCGATACAT
1 TGTATCGATACAT
503424 TGTATCGATACAT
1 TGTATCGATACAT
503437 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:503525 original size:20 final size:20
Alignment explanation
Indices: 503500--503568 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
503490 CTTTTTATGC
503500 ATCGATACATTGCAACATGT
1 ATCGATACATTGCAACATGT
****
503520 ATCGATACAATTTTTTCATGT
1 ATCGATAC-ATTGCAACATGT
503541 ATCGATACATTGCAACATGT
1 ATCGATACATTGCAACATGT
503561 ATCGATAC
1 ATCGATAC
503569 TTTGAATTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (20 bp):
ATCGATACATTGCAACATGT
Found at i:503545 original size:41 final size:40
Alignment explanation
Indices: 503475--503568 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 40
503465 CTGCCAAGAA
503475 ATGTATCGATACATCCTTTTTATGCATCGATACATTGCAAC
1 ATGTATCGATACAT-CTTTTTATGCATCGATACATTGCAAC
*
503516 ATGTATCGATACAAT-TTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATAC-ATCTTTTT-ATGCATCGATACATTGCAAC
503557 ATGTATCGATAC
1 ATGTATCGATAC
503569 TTTGAATTGT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
40 5 0.10
41 43 0.86
42 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (40 bp):
ATGTATCGATACATCTTTTTATGCATCGATACATTGCAAC
Found at i:505067 original size:13 final size:13
Alignment explanation
Indices: 505049--505075 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
505039 AAGACAATAT
505049 ATATTAACATTTA
1 ATATTAACATTTA
505062 ATATTAACATTTA
1 ATATTAACATTTA
505075 A
1 A
505076 AGTTTTTGCG
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:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTAACATTTA
Found at i:505189 original size:19 final size:21
Alignment explanation
Indices: 505151--505190 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
505141 AAACACTATG
*
505151 TTCCTCTAGATACATGTCCAA
1 TTCCTCTAGATACATATCCAA
505172 TTCCT-TAGA-ACATATCCAA
1 TTCCTCTAGATACATATCCAA
505191 AAGGACATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 4 0.22
21 5 0.28
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.33
Consensus pattern (21 bp):
TTCCTCTAGATACATATCCAA
Found at i:508286 original size:13 final size:13
Alignment explanation
Indices: 508268--508293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
508258 CTGGAATAGG
508268 GATAGCTTTTGTA
1 GATAGCTTTTGTA
508281 GATAGCTTTTGTA
1 GATAGCTTTTGTA
508294 TTTGTTTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (13 bp):
GATAGCTTTTGTA
Found at i:511903 original size:52 final size:51
Alignment explanation
Indices: 511836--511954 Score: 186
Period size: 52 Copynumber: 2.3 Consensus size: 51
511826 AAAAGTTGCT
*
511836 TGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGAAAATTTACC
1 TGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGAAAA-TTACC
* *
511888 TGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGCAAATTGCC
1 TGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGAAAATTACC
511939 TGCATGTATCGATACA
1 TGCATGTATCGATACA
511955 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
51 20 0.32
52 38 0.60
53 5 0.08
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGAAAATTACC
Found at i:511981 original size:13 final size:13
Alignment explanation
Indices: 511963--511987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
511953 CAAAGATCAG
511963 TGTATCGATACAA
1 TGTATCGATACAA
511976 TGTATCGATACA
1 TGTATCGATACA
511988 TTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:512794 original size:49 final size:49
Alignment explanation
Indices: 512647--513032 Score: 408
Period size: 49 Copynumber: 7.9 Consensus size: 49
512637 AAAAGTGATA
** * * * *
512647 AAGATGCCAATATATTGATTCACGGCCAACGATATTGGGCTTAAAGATGAG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G
* * * * *
512698 AAAAAGGATGTCAATGTGCTGATTCAAGGCTAGCTACATTGAACTTAAAGATG
1 ---AA-GATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * *
512751 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTT-AA-A-G
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * *
512797 --G-TGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
*
512843 AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-AGTG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA-TG
* * *
512892 AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * * *
512941 AAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATG
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
* * *
512990 AAGGTGCCAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
513033 GAAGGGTTGC
Statistics
Matches: 280, Mismatches: 43, Indels: 23
0.81 0.12 0.07
Matches are distributed among these distances:
43 32 0.11
44 3 0.01
45 1 0.00
46 2 0.01
47 1 0.00
48 4 0.01
49 197 0.70
50 2 0.01
53 1 0.00
54 2 0.01
55 35 0.12
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
AAGATGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG
Found at i:513076 original size:33 final size:34
Alignment explanation
Indices: 513032--513237 Score: 309
Period size: 33 Copynumber: 6.2 Consensus size: 34
513022 TATTGGGCTT
513032 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* *
513065 AGAATGG-TTGCCACCAACTTGTGTGGGCTTT-G
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
* * *
513097 GGAAGGGATTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
513131 AGGAA-GG-TTGCCACCGACTTGTGTGGGCTTTAG
1 A-GAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
513164 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
513198 AGAA-GGTTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
513231 A-AAGGGT
1 AGAAGGGT
513238 GAAAGATGCC
Statistics
Matches: 161, Mismatches: 6, Indels: 12
0.90 0.03 0.07
Matches are distributed among these distances:
32 11 0.07
33 114 0.71
34 33 0.20
35 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28
Consensus pattern (34 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:513198 original size:67 final size:66
Alignment explanation
Indices: 513032--513237 Score: 328
Period size: 67 Copynumber: 3.1 Consensus size: 66
513022 TATTGGGCTT
*
513032 AGAAGGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAATGGTTGCCACCAACTTGTGTGGGCTTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGGCTTT
513096 -G
65 AG
* * *
513097 GGAAGGGATTGCCACCAACTTGTGTGGGCTTTAGAGGAAGGTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGA-GAAGGTTGCCACCGACTTGTGTGGGCTTT
513162 AG
65 AG
513164 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGG-TTGCCACCGACTTGTGTGGGCTTT
513229 AG
65 AG
513231 A-AAGGGT
1 AGAAGGGT
513238 GAAAGATGCC
Statistics
Matches: 131, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
65 6 0.05
66 62 0.47
67 63 0.48
ACGTcount: A:0.19, C:0.17, G:0.35, T:0.28
Consensus pattern (66 bp):
AGAAGGGTTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTTGCCACCGACTTGTGTGGGCTTTA
G
Found at i:513281 original size:33 final size:34
Alignment explanation
Indices: 513239--513607 Score: 350
Period size: 34 Copynumber: 11.4 Consensus size: 34
513229 AGAAAGGGTG
* *
513239 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
*
513272 CAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAA-G-AA
* *
513308 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
* *
513342 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
* *
513376 AAAGAGTGCCACGGAGTTGTGGGCTT-AGAAGGA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
** *
513409 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
* *
513443 GAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAAGAA
* *
513477 GAAG-GTGCCACGGAGTTGTGGGCTT-AAACG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
* *
513507 ---GA-TGCCACGGAGTTGTGGACTTAAAGATGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAA-AAGAA
* *
513538 AAA-AGTGCCACGGAATTGTGGGCTTTAAAAG--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
*
513569 ---G-GTGCCACGGAGTTGTGGGCTT-TAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
513598 AAA-A-TGCCAC
1 AAAGAGTGCCAC
513608 TAAGTCGTGG
Statistics
Matches: 286, Mismatches: 27, Indels: 48
0.79 0.07 0.13
Matches are distributed among these distances:
27 24 0.08
28 22 0.08
29 2 0.01
31 6 0.02
32 4 0.01
33 68 0.24
34 129 0.45
35 2 0.01
36 10 0.03
37 19 0.07
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAAGAA
Found at i:513450 original size:171 final size:159
Alignment explanation
Indices: 513239--513562 Score: 434
Period size: 171 Copynumber: 2.0 Consensus size: 159
513229 AGAAAGGGTG
*
513239 AAAGATGCCACGAAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAGATGCCACAAAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAA-
* *
513304 GAAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTA
65 G-AAAAAG-GTGCCACGGAGTTGTGGGCTTA-AACG-----GA-TGCCACGGAGTTGTGGACTTA
*
513369 GAAG-GAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGA
121 -AAGAGAAAAA-AGTGCCACGGAATTGTGGGCTTAGAAGGA
* * * *
513409 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAAGA-TGCCACAAAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
*
513474 GAAGAAGGTGCCACGGAGTTGTGGGCTTAAACGGATGCCACGGAGTTGTGGACTTAAAGATGAAA
65 GAAAAAGGTGCCACGGAGTTGTGGGCTTAAACGGATGCCACGGAGTTGTGGACTTAAAGA-GAAA
513539 AAAGTGCCACGGAATTGTGGGCTT
129 AAAGTGCCACGGAATTGTGGGCTT
513563 TAAAAGGGTG
Statistics
Matches: 142, Mismatches: 9, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
160 3 0.02
161 41 0.29
162 8 0.06
167 3 0.02
168 22 0.15
169 5 0.04
170 6 0.04
171 54 0.38
ACGTcount: A:0.33, C:0.13, G:0.34, T:0.20
Consensus pattern (159 bp):
AAAGATGCCACAAAGTTGTGGACTTAAAAAGAACAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
AAAAAGGTGCCACGGAGTTGTGGGCTTAAACGGATGCCACGGAGTTGTGGACTTAAAGAGAAAAA
AGTGCCACGGAATTGTGGGCTTAGAAGGA
Found at i:513520 original size:27 final size:26
Alignment explanation
Indices: 513478--513595 Score: 94
Period size: 27 Copynumber: 4.1 Consensus size: 26
513468 TGAAAAGAAG
513478 AAGG-TGCCACGGAGTTGTGGGCTTA
1 AAGGATGCCACGGAGTTGTGGGCTTA
*
513503 AACGGATGCCACGGAGTTGTGGACTTA
1 AA-GGATGCCACGGAGTTGTGGGCTTA
*
513530 AAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAA
1 AAG--G-----A-TGCCACGGAGTTGTGGGC-TT-A
*
513566 AAGGGTGCCACGGAGTTGTGGGCTTTA
1 AAGGATGCCACGGAGTTGTGGGC-TTA
513593 AAG
1 AAG
513596 AAAAAATGCC
Statistics
Matches: 76, Mismatches: 5, Indels: 22
0.74 0.05 0.21
Matches are distributed among these distances:
25 2 0.03
26 3 0.04
27 26 0.34
28 21 0.28
33 1 0.01
34 17 0.22
35 2 0.03
36 4 0.05
ACGTcount: A:0.28, C:0.14, G:0.35, T:0.23
Consensus pattern (26 bp):
AAGGATGCCACGGAGTTGTGGGCTTA
Found at i:513546 original size:61 final size:60
Alignment explanation
Indices: 513314--513607 Score: 286
Period size: 67 Copynumber: 4.6 Consensus size: 60
513304 GAAAAAAGAG
* * *
513314 TGCCACGGAGTTGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAAAAA
1 TGCCACGGAGTTGTGGGCTTA-AAAGAAAAA-AGTGCCACGGAGTTGTGGGCTT-----TAAAAG
513379 GA
59 GA
* * **
513381 GTGCCACGGAGTTGTGGGCTTAGAAGGAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAGAA
1 -TGCCACGGAGTTGTGGGCTTA-AAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAG--G-A
* * *
513446 GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGC-TTAAACGGA
1 --TGCCACGGAGTTGTGGGC-TT-AAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGA
* * *
513509 TGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAAAAGGG
1 TGCCACGGAGTTGTGGGCTTAAA-A-GAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGA
*
513571 TGCCACGGAGTTGTGGGCTTTAAAGAAAAAA-TGCCAC
1 TGCCACGGAGTTGTGGGCTTAAAAGAAAAAAGTGCCAC
513608 TAAGTCGTGG
Statistics
Matches: 197, Mismatches: 20, Indels: 27
0.81 0.08 0.11
Matches are distributed among these distances:
59 9 0.05
60 10 0.05
61 41 0.21
62 32 0.16
63 1 0.01
64 2 0.01
65 1 0.01
66 25 0.13
67 45 0.23
68 31 0.16
ACGTcount: A:0.31, C:0.14, G:0.35, T:0.20
Consensus pattern (60 bp):
TGCCACGGAGTTGTGGGCTTAAAAGAAAAAAGTGCCACGGAGTTGTGGGCTTTAAAAGGA
Found at i:513692 original size:31 final size:31
Alignment explanation
Indices: 513602--513712 Score: 167
Period size: 31 Copynumber: 3.7 Consensus size: 31
513592 AAAGAAAAAA
* *
513602 TGCCACTAAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
513632 TGCCACTGAGTCGTGGACTTT-A-AAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
513661 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
513692 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
513713 TTTTTTTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
27 1 0.01
28 2 0.03
29 23 0.31
30 21 0.28
31 28 0.37
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:514721 original size:16 final size:17
Alignment explanation
Indices: 514675--514726 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
514665 GGGGTTGTTC
514675 TTTT-TTTCT-TTTCTT
1 TTTTGTTTCTGTTTCTT
**
514690 TTTT-TTTCTGCATCTT
1 TTTTGTTTCTGTTTCTT
514706 TTTTGTTT-TGTTTCTT
1 TTTTGTTTCTGTTTCTT
514722 TTTTG
1 TTTTG
514727 GAAAAGAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 9 0.29
16 19 0.61
17 3 0.10
ACGTcount: A:0.02, C:0.12, G:0.08, T:0.79
Consensus pattern (17 bp):
TTTTGTTTCTGTTTCTT
Found at i:521972 original size:52 final size:51
Alignment explanation
Indices: 521905--522023 Score: 186
Period size: 52 Copynumber: 2.3 Consensus size: 51
521895 AAAAGTTGCT
*
521905 TGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGAAAATTTACC
1 TGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGAAAA-TTACC
* *
521957 TGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGCAAATTGCC
1 TGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGAAAATTACC
522008 TGCATGTATCGATACA
1 TGCATGTATCGATACA
522024 AAGATCAGTG
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
51 20 0.32
52 38 0.60
53 5 0.08
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
TGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGAAAATTACC
Found at i:522050 original size:13 final size:13
Alignment explanation
Indices: 522032--522056 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
522022 CAAAGATCAG
522032 TGTATCGATACAA
1 TGTATCGATACAA
522045 TGTATCGATACA
1 TGTATCGATACA
522057 TTTTTTGGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:528095 original size:22 final size:21
Alignment explanation
Indices: 528047--528095 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
528037 GGGATTCATA
* * *
528047 TTTTATTTATTATTATTTTAT
1 TTTTAATTATGATTATTATAT
528068 TATTTAATTATGATTATATATAT
1 T-TTTAATTATGATTAT-TATAT
528091 TTTTA
1 TTTTA
528096 TTTTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 17 0.74
23 5 0.22
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTAATTATGATTATTATAT
Found at i:529418 original size:65 final size:65
Alignment explanation
Indices: 529197--530049 Score: 555
Period size: 65 Copynumber: 13.2 Consensus size: 65
529187 TCATCTTGGC
* * * * *
529197 CAACTCTTTTTTGAC-TCGGTTTTGTCCTAATCA-CTCTTAGTTGACTATTTTGGTTTTACCCTA
1 CAAC-CTTTTTTGACTTAGGTTTTATCCTAATCACCT-TTAGCTGACTATTCTGGTTTCACCCTA
529260 GT
64 GT
* * * * * * * * **** *
529262 TAACCTTGTTCGATTTAGGTTTCATCCTAGTCACCTTT-GTTGACTATTCTGGCTTCGTAGTGGT
1 CAACCTTTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTATTCTGGTTTCACCCTAGT
* * * * * * * * * *
529326 TAAACTTTTTTGACTTATGTTTCATCCTAACCACCTTTAGTTTATTATTCTCGTTTCGCCCTAG-
1 CAACCTTTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTATTCTGGTTTCACCCTAGT
* * * * * * ** *
529390 CTAACCTTTTTTAACTTAGGCTTTATCCTAGTCACCTTTGGTTGACTATTCTAGTTTTGCCAT-G
1 C-AACCTTTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTATTCTGGTTTCACCCTAG
529454 AT
65 -T
* * *
529456 CAATCCTTTTTT-ACTTAGGTTTTATCCTAATAACCCTTAGCTGACTATTTTGGTTTCACCCTAG
1 CAA-CCTTTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTATTCTGGTTTCACCCTAG
529520 T
65 T
* ** * * * *
529521 TAACCCATTTTGACTTAGATTTCATCCTAGTCACCTTTAGCTAACTATTCTGGTTTCACCCTAGT
1 CAACCTTTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTATTCTGGTTTCACCCTAGT
* * * * * *
529586 CAACCTCTTTTGACTTAGGTTTTGTCCTAGTCACCCTTAGCTGACTACTT-T-GTTTCACCTTGG
1 CAACCTTTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTA-TTCTGGTTTCACCCTAG
529649 T
65 T
* * * * * *
529650 CAACCTTTTTCGACTTAAGTTTCATCCTAGTCACCCTTAGCTGACTATTCTGGTTTCA-CCTTGA
1 CAACCTTTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTATTCTGGTTTCACCCTAG-
529714 T
65 T
* * * * *
529715 TAACCCTTTTTT-ACTTAGGTTTCATCTTAGA-CACCTTTAGCTGACTATTCTAGTTTCACCCTG
1 CAA-CCTTTTTTGACTTAGGTTTTATCCTA-ATCACCTTTAGCTGACTATTCTGGTTTCACCCTA
529778 GT
64 GT
* * * * * * * * * *
529780 CAACCCTTTTTGACTTAAGTTTCATCTTAAACACCCTTAGTTGACTATTATGGTTTCATCCTTGT
1 CAACCTTTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTATTCTGGTTTCACCCTAGT
* * * * * * * * * * * * *
529845 CAA-CTCTTTTCGATTTAGGTTTTGTCTTAGTCACCCTAAGTTGAGTATTTTGATTTAATCCTAG
1 CAACCT-TTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTATTCTGGTTTCACCCTAG
529909 T
65 T
* ** * * ** *
529910 CAACAC-TTTTCGACTTAAATTTCATCCTAGTCACCTTTAATTCACTATTCTGGTTTCACCCTAG
1 CAAC-CTTTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTATTCTGGTTTCACCCTAG
529974 T
65 T
* * * *** * * *
529975 TAACCCTTTTTGACTTAGGTTTCAT-CTTGGCTACCTTTAGTTGACTATTCTAGTTTCACCCGAG
1 CAACCTTTTTTGACTTAGGTTTTATCCTAATC-ACCTTTAGCTGACTATTCTGGTTTCACCCTAG
530039 T
65 T
*
530040 CAACCCTTTT
1 CAACCTTTTT
530050 CCCTTAGTTG
Statistics
Matches: 625, Mismatches: 140, Indels: 46
0.77 0.17 0.06
Matches are distributed among these distances:
63 2 0.00
64 134 0.21
65 463 0.74
66 25 0.04
67 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (65 bp):
CAACCTTTTTTGACTTAGGTTTTATCCTAATCACCTTTAGCTGACTATTCTGGTTTCACCCTAGT
Found at i:529546 original size:195 final size:190
Alignment explanation
Indices: 529204--530030 Score: 650
Period size: 195 Copynumber: 4.3 Consensus size: 190
529194 GGCCAACTCT
* ** * * * * * *
529204 TTTTTGAC-TCGGTTTTGTCCTAATCACTCTTAGTTGACTATTTTGGTTTTACCCTAGTTAACCT
1 TTTTTGACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTT--CCTTGTCAACCT
* * * * * * * * *
529268 TGTTCGATTTAGGTTTCATCCTAGTCA-CCTTTGTTGACTATTCTGGCTTCGTA-GTGGTTAAAC
64 T-TTTGACTTAGGTTTTATCCTAGTCACCCTTAGCTGACTATTTTGGTTTC--ACCTAGTT-AAC
** * * * * * *
529331 TTTTTTGACTTATG-TTTCATCCTAACCACCTTTAGTTTATTATTCTCGTTTCGCCCTAG-CTAA
125 CCTTTTGACTTA-GATTTCATCCTAATCACCTTTAGCTAACTATTCTGGTTTCACCCTAGTC-AA
*
529394 CCT
188 CCC
* * * *
529397 TTTTTAACTTAGGCTTT-ATCCTAGTCACCTTTGGTTGACTATTCTAGTTTTGCCATGATCAATC
1 TTTTTGACTTAGG-TTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTT-CCTTG-TCAA-C
* * *
529461 CTTTTTTACTTAGGTTTTATCCTAATAACCCTTAGCTGACTATTTTGGTTTCACCCTAGTTAACC
62 CTTTTTGACTTAGGTTTTATCCTAGTCACCCTTAGCTGACTATTTTGGTTTCA-CCTAGTTAACC
*
529526 CATTTTGACTTAGATTTCATCCTAGTCACCTTTAGCTAACTATTCTGGTTTCACCCTAGTCAA-C
126 C-TTTTGACTTAGATTTCATCCTAATCACCTTTAGCTAACTATTCTGGTTTCACCCTAGTCAACC
529590 C
190 C
** * *
529591 TCTTTTGACTTAGGTTTTGTCCTAGTCACCCTTAGCTGACTACTT-T-GTTTCACCTTGGTCAAC
1 T-TTTTGACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTA-TTCTAGTTT-TCCTT-GTCAAC
* * * *
529654 CTTTTTCGACTTAAGTTTCATCCTAGTCACCCTTAGCTGACTATTCTGGTTTCACCTTGATTAAC
62 CTTTTT-GACTTAGGTTTTATCCTAGTCACCCTTAGCTGACTATTTTGGTTTCACCTAG-TTAAC
* * * * * *
529719 CCTTTTTTACTTAGGTTTCATCTTAGA-CACCTTTAGCTGACTATTCTAGTTTCACCCTGGTCAA
125 CC-TTTTGACTTAGATTTCATCCTA-ATCACCTTTAGCTAACTATTCTGGTTTCACCCTAGTCAA
529783 CCC
188 CCC
* * ** * *
529786 TTTTTGACTTAAGTTTCATCTTAAACACCCTTAGTTGACTATTATGGTTTCATCCTTGTCAACTC
1 TTTTTGACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTT--TCCTTGTCAAC-C
* * * * * * * * * * *
529851 TTTTCGATTTAGGTTTTGTCTTAGTCACCCTAAGTTGAGTATTTTGATTTAATCCTAGTCAACAC
63 TTTTTGACTTAGGTTTTATCCTAGTCACCCTTAGCTGACTATTTTGGTTTCA-CCTAGTTAACCC
* * ** * *
529916 TTTTCGACTTAAATTTCATCCTAGTCACCTTTAATTCACTATTCTGGTTTCACCCTAGTTAACCC
127 TTTT-GACTTAGATTTCATCCTAATCACCTTTAGCTAACTATTCTGGTTTCACCCTAGTCAACCC
* * *
529981 TTTTTGACTTAGGTTTCAT-CTTGGCTACCTTTAGTTGACTATTCTAGTTT
1 TTTTTGACTTAGGTTTCATCCTAGTC-ACCCTTAGTTGACTATTCTAGTTT
530031 CACCCGAGTC
Statistics
Matches: 507, Mismatches: 100, Indels: 52
0.77 0.15 0.08
Matches are distributed among these distances:
193 24 0.05
194 213 0.42
195 254 0.50
196 16 0.03
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.44
Consensus pattern (190 bp):
TTTTTGACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTTCCTTGTCAACCTTT
TTGACTTAGGTTTTATCCTAGTCACCCTTAGCTGACTATTTTGGTTTCACCTAGTTAACCCTTTT
GACTTAGATTTCATCCTAATCACCTTTAGCTAACTATTCTGGTTTCACCCTAGTCAACCC
Found at i:529657 original size:259 final size:258
Alignment explanation
Indices: 529197--530049 Score: 690
Period size: 259 Copynumber: 3.3 Consensus size: 258
529187 TCATCTTGGC
* * * * * *
529197 CAACTCTTTTTTGAC-TCGGTTTTGTCCTAATCACTCTTAGTTGACTATTTTGGTTTTACCCTAG
1 CAACCCTTTTTT-ACTTAGGTTTTATCCTAATCACCCTTAGCTGACTATTTTGGTTTCACCCTAG
* * * * ** *
529261 TTAA-CCTTGTTCGATTTAGGTTTCATCCTAGTCACCTTT-GTTGACTATTCTGGCTTCGTAGTG
65 TTAACCCTT-TT-GACTTAGATTTCATCCTAGTCACCTTTAGTTGACTATTCTGGTTTCATCCTA
* * * ** ** * * * * *
529324 GTTAAACTTTTTTGACTTATGTTTCATCCTAACCACCTTTAGTTTATTATTCTCGTTTCGCCCTA
128 G-TCAACTCTTTTGACTTAGGTTTTGTCCTAGTCACCCTTAGCTGACTATTCTCGTTTCACCCTA
* * * * * **
529389 GCTAACCTTTTTTAACTTAGGCTTT-ATCCTAGTCACCTTTGGTTGACTATTCTAGTTTTGCCAT
192 GCTAACCTTTTTCAACTTAAG-TTTCATCCTAGTCACCCTTAGCTGACTATTCTAGTTTCACCAT
529453 GAT
256 GAT
* *
529456 CAATCCTTTTTTACTTAGGTTTTATCCTAATAACCCTTAGCTGACTATTTTGGTTTCACCCTAGT
1 CAACCCTTTTTTACTTAGGTTTTATCCTAATCACCCTTAGCTGACTATTTTGGTTTCACCCTAGT
* * *
529521 TAACCCATTTTGACTTAGATTTCATCCTAGTCACCTTTAGCTAACTATTCTGGTTTCACCCTAGT
66 TAACCC-TTTTGACTTAGATTTCATCCTAGTCACCTTTAGTTGACTATTCTGGTTTCATCCTAGT
*
529586 CAACCTCTTTTGACTTAGGTTTTGTCCTAGTCACCCTTAGCTGACTACTT-T-GTTTCA-CCTTG
130 CAA-CTCTTTTGACTTAGGTTTTGTCCTAGTCACCCTTAGCTGACTA-TTCTCGTTTCACCCTAG
* * * *
529648 GTCAACCTTTTTCGACTTAAGTTTCATCCTAGTCACCCTTAGCTGACTATTCTGGTTTCACCTTG
193 CT-AACCTTTTTCAACTTAAGTTTCATCCTAGTCACCCTTAGCTGACTATTCTAGTTTCACCATG
529713 AT
257 AT
* * * * * * *
529715 TAACCCTTTTTTACTTAGGTTTCATCTTAGA-CACCTTTAGCTGACTATTCTAGTTTCACCCTGG
1 CAACCCTTTTTTACTTAGGTTTTATCCTA-ATCACCCTTAGCTGACTATTTTGGTTTCACCCTAG
* * ** * * *
529779 TCAACCCTTTTTGACTTA-AGTTTCATCTTAAACACCCTTAGTTGACTATTATGGTTTCATCCTT
65 TTAACCC-TTTTGACTTAGA-TTTCATCCTAGTCACCTTTAGTTGACTATTCTGGTTTCATCCTA
* * * * * * * *
529843 GTCAACTCTTTTCGATTTAGGTTTTGTCTTAGTCACCCTAAGTTGAGTATT-TTGATTTAATCCT
128 GTCAACTCTTTT-GACTTAGGTTTTGTCCTAGTCACCCTTAGCTGACTATTCTCG-TTTCACCCT
* * * ** * *
529907 AG-TCAACAC-TTTTCGACTTAAATTTCATCCTAGTCACCTTTAATTCACTATTCTGGTTTCACC
191 AGCT-AAC-CTTTTTCAACTTAAGTTTCATCCTAGTCACCCTTAGCTGACTATTCTAGTTTCACC
*
529970 CT-AGT
254 ATGA-T
* * * *** * * * * *
529975 TAACCCTTTTTGACTTAGGTTTCAT-CTTGGCTACCTTTAGTTGACTATTCTAGTTTCACCCGAG
1 CAACCCTTTTTTACTTAGGTTTTATCCTAATC-ACCCTTAGCTGACTATTTTGGTTTCACCCTAG
*
530039 TCAACCCTTTT
65 TTAACCCTTTT
530050 CCCTTAGTTG
Statistics
Matches: 494, Mismatches: 82, Indels: 36
0.81 0.13 0.06
Matches are distributed among these distances:
258 21 0.04
259 288 0.58
260 176 0.36
261 9 0.02
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (258 bp):
CAACCCTTTTTTACTTAGGTTTTATCCTAATCACCCTTAGCTGACTATTTTGGTTTCACCCTAGT
TAACCCTTTTGACTTAGATTTCATCCTAGTCACCTTTAGTTGACTATTCTGGTTTCATCCTAGTC
AACTCTTTTGACTTAGGTTTTGTCCTAGTCACCCTTAGCTGACTATTCTCGTTTCACCCTAGCTA
ACCTTTTTCAACTTAAGTTTCATCCTAGTCACCCTTAGCTGACTATTCTAGTTTCACCATGAT
Found at i:530070 original size:42 final size:42
Alignment explanation
Indices: 530011--530107 Score: 176
Period size: 42 Copynumber: 2.3 Consensus size: 42
530001 TTGGCTACCT
530011 TTAGTTGACTATTCTAGTTTCACCCGAGTCAACCCTTTTCCC
1 TTAGTTGACTATTCTAGTTTCACCCGAGTCAACCCTTTTCCC
**
530053 TTAGTTGACTATTCTAGTTTCACCTTAGTCAACCCTTTTCCC
1 TTAGTTGACTATTCTAGTTTCACCCGAGTCAACCCTTTTCCC
530095 TTAGTTGACTATT
1 TTAGTTGACTATT
530108 ATGGTTTTAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.20, C:0.27, G:0.11, T:0.42
Consensus pattern (42 bp):
TTAGTTGACTATTCTAGTTTCACCCGAGTCAACCCTTTTCCC
Found at i:531096 original size:50 final size:50
Alignment explanation
Indices: 531042--531168 Score: 157
Period size: 50 Copynumber: 2.5 Consensus size: 50
531032 CCCAATTTGT
* * *
531042 ATCGATATATTCTTCATTGTATCGATAAATTCTGGGTTTAACCCAGATGA
1 ATCGATACATTCTTCATTGTATCGATAAATTCTAGATTTAACCCAGATGA
* * ** *
531092 ATCGATACATTCTTCATTGTATCGATATATTCTAGATTTTACTTAGATGT
1 ATCGATACATTCTTCATTGTATCGATAAATTCTAGATTTAACCCAGATGA
*
531142 ATCGATACATT-TCTCAATGTATCGATA
1 ATCGATACATTCT-TCATTGTATCGATA
531169 CATTTAGGCA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
49 1 0.01
50 66 0.99
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (50 bp):
ATCGATACATTCTTCATTGTATCGATAAATTCTAGATTTAACCCAGATGA
Found at i:533955 original size:237 final size:236
Alignment explanation
Indices: 533540--534066 Score: 573
Period size: 237 Copynumber: 2.2 Consensus size: 236
533530 CAAAACATTG
* * * * *
533540 ATTTTTCACAATCGGGGATACTCCAACCCTGTTA-TTTCTGAGGGGATACTACAATCTCAATTTT
1 ATTTTTCACAATTGAGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCTCAATTTT
* * * * **
533604 ATTTCCAAAATACCTATTTTCCACAATCGGGGATACTTCAACCCCGTTATTTCGAGAGGACACTC
65 ATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAACCCAGTTATTTAAAGAGGACACTC
** * * *
533669 CAACCCTGGTTTTATTTTCAAAACACCTATTTTTCATAATCGGGGATACTCCAACCCCGTT-TTT
130 CAACCCCAGCTTTATTTTCAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTT
* * * *
533733 TCCAAGGGGATACTCCAACCCCAATTTTTATTTTTAAAATACCA
195 T-CAAGGAGATACTCCAACCCC-AGTTTTATTTTGAAAACACCA
* *
533777 ATTTTTCACAATTGAGAATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACC-CTAGTTTT
1 ATTTTTCACAATTGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTC-AATTTT
* * * * *
533841 ATTTCTAAAACACCGATTTTCCATAATCGGGGATACTCCAACCTCATTTTTTTAAAG-GGATACT
65 ATTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAACC-CAGTTATTTAAAGAGGACACT
* **
533905 CCAACCCCAGCTTTA-TTTCTAAAACATCGA-TTTTCTACAATCGGGGATACTCCAACCTTGTTA
129 CCAACCCCAGCTTTATTTTC-AAAACACCGATTTTTC-ACAATCGGGGATACTCCAACCCCGTTA
** * * * **
533968 TTTTTGAGGAGATAGTCCAACCCCGGTTTTATTTTGGAAACATTA
192 TTTTCAAGGAGATACTCCAACCCCAGTTTTATTTTGAAAACACCA
* * *
534013 ATTTTCCACCATT-AGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAA
1 ATTTTTCACAATTGA-GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA
534067 TCCCATTTTT
Statistics
Matches: 242, Mismatches: 41, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
235 1 0.00
236 72 0.30
237 153 0.63
238 16 0.07
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (236 bp):
ATTTTTCACAATTGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCAATTTTA
TTTCCAAAACACCGATTTTCCACAATCGGGGATACTCCAACCCAGTTATTTAAAGAGGACACTCC
AACCCCAGCTTTATTTTCAAAACACCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTT
CAAGGAGATACTCCAACCCCAGTTTTATTTTGAAAACACCA
Found at i:534009 original size:157 final size:157
Alignment explanation
Indices: 533539--534088 Score: 554
Period size: 157 Copynumber: 3.5 Consensus size: 157
533529 CCAAAACATT
* ** * ** * * *
533539 GATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGATACTACAATCTCAATTTT
1 GATTTTCCACAATCGGGGATACTCCAACCCCATTTTTTCCAAGGGGATACTCCAACCCCAATTTT
* * * * *
533604 ATTTCCAAAATACCTATTTTCCACAATCGGGGATACTTCAACCCCGTTA-TTTCGA-GAGGACAC
66 ATTTCTAAAATACCAATTTTCTACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGA-GATAC
533667 TCCAACCCTGGTTTTATTTTCAAAACACC
130 TCCAACCCTGGTTTTATTTT-AAAACACC
* * * *
533696 TATTTTTCATAATCGGGGATACTCCAACCCCGTTTTTTCCAAGGGGATACTCCAACCCCAATTTT
1 GATTTTCCACAATCGGGGATACTCCAACCCCATTTTTTCCAAGGGGATACTCCAACCCCAA-TTT
* * * * *
533761 TATTTTTAAAATACCAATTTT-TCACAATTGAGAATACTCCAACCCCGTTATTTTCGAGGGGATA
65 TATTTCTAAAATACCAATTTTCT-ACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGAGATA
*
533825 CTCCAACCCTAGTTTTATTTCTAAAACACC
129 CTCCAACCCTGGTTTTATTT-TAAAACACC
* * * * **
533855 GATTTTCCATAATCGGGGATACTCCAACCTCATTTTTT-TAAAGGGATACTCCAACCCCAGCTTT
1 GATTTTCCACAATCGGGGATACTCCAACCCCATTTTTTCCAAGGGGATACTCCAACCCCAATTTT
* * * ** * *
533919 ATTTCTAAAACATCGATTTTCTACAATCGGGGATACTCCAACCTTGTTATTTTTGAGGAGATAGT
66 ATTTCTAAAATACCAATTTTCTACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGAGATACT
* * **
533984 CCAACCCCGGTTTTATTTTGGAAACATT
131 CCAACCCTGGTTTTATTTT-AAAACACC
* * ** * * *
534012 AATTTTCCACCATTAGGGATACTCCAACCCCATTATTTT-CGAGGGGATACTCCAATCCCATTTT
1 GATTTTCCACAATCGGGGATACTCCAACCCCATT-TTTTCCAAGGGGATACTCCAACCCCAATTT
534076 TATCTTC-AAAATA
65 TAT-TTCTAAAATA
534089 TTAAATTTTT
Statistics
Matches: 326, Mismatches: 58, Indels: 17
0.81 0.14 0.04
Matches are distributed among these distances:
156 1 0.00
157 155 0.48
158 95 0.29
159 73 0.22
160 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (157 bp):
GATTTTCCACAATCGGGGATACTCCAACCCCATTTTTTCCAAGGGGATACTCCAACCCCAATTTT
ATTTCTAAAATACCAATTTTCTACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGAGATACT
CCAACCCTGGTTTTATTTTAAAACACC
Found at i:534092 original size:79 final size:78
Alignment explanation
Indices: 533521--534086 Score: 480
Period size: 79 Copynumber: 7.2 Consensus size: 78
533511 AGGGATACGT
* * * * *
533521 TTTTTTTTCCAAAACATTGATTTTTCACAATCGGGGATACTCCAACCCTGTTA-TTTCTGAGGGG
1 TTTTATTT-CAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTC-GAGGGG
* * * *
533585 ATACTACAATCTCAA
64 ATACTCCAACCCCAG
* * *
533600 TTTTATTTCCAAAATACCT-ATTTTCCACAATCGGGGATACTTCAACCCCGTTA-TTTCGAGAGG
1 TTTTATTT-CAAAACA-CTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
* **
533663 ACACTCCAACCCTGG
64 ATACTCCAACCCCAG
* * *
533678 TTTTATTTTCAAAACACCT-ATTTTTCATAATCGGGGATACTCCAACCCCGTT-TTTTCCAAGGG
1 TTTTA-TTTCAAAACA-CTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTT-CGAGGG
*
533741 GATACTCCAACCCCAAT
63 GATACTCCAACCCC-AG
* * * * * * *
533758 TTTTATTTTTAAAATACCAATTTTTCACAATTGAGAATACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTA-TTTCAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
*
533823 TACTCCAACCCTAG
65 TACTCCAACCCCAG
** * * * ** *
533837 TTTTATTTCTAAAACACCGATTTTCCATAATCGGGGATACTCCAACCTCATT-TTTTTAAAGGGA
1 TTTTATTTC-AAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
533901 TACTCCAACCCCAG
65 TACTCCAACCCCAG
* * * ** * *
533915 CTTTATTTCTAAAACA-TCGATTTTCTACAATCGGGGATACTCCAACCTTGTTATTTTTGAGGAG
1 TTTTATTTC-AAAACACT-AATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
* *
533979 ATAGTCCAACCCCGG
64 ATACTCCAACCCCAG
** * * ** *
533994 TTTTATTTTGGAAACATTAATTTTCCACCATTAGGGATACTCCAACCCCATTATTTTCGAGGGGA
1 TTTTA-TTTCAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* *
534059 TACTCCAATCCCAT
65 TACTCCAACCCCAG
534073 TTTTATCTTCAAAA
1 TTTTAT-TTCAAAA
534087 TATTAAATTT
Statistics
Matches: 396, Mismatches: 78, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
78 131 0.33
79 195 0.49
80 66 0.17
81 4 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (78 bp):
TTTTATTTCAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
ACTCCAACCCCAG
Found at i:538315 original size:20 final size:20
Alignment explanation
Indices: 538290--538365 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
538280 TTTTACCCAG
538290 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
538310 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
538330 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
*
538350 ATGTATCTATACATTT
1 ATGTATCGATACATTT
538366 CATCTTTTAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:539323 original size:20 final size:22
Alignment explanation
Indices: 539283--539325 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
539273 TAGCCTTTGA
*
539283 CCATGCATTTTTTTACTATGTT
1 CCATGCATTTTTTAACTATGTT
539305 CCATGCA-TTTTTAAC-ATGTT
1 CCATGCATTTTTTAACTATGTT
539325 C
1 C
539326 AGCATCTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 7 0.35
22 7 0.35
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.49
Consensus pattern (22 bp):
CCATGCATTTTTTAACTATGTT
Found at i:542239 original size:13 final size:13
Alignment explanation
Indices: 542221--542246 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
542211 CAATTTTTTG
542221 TGTATCGATACAT
1 TGTATCGATACAT
542234 TGTATCGATACAT
1 TGTATCGATACAT
542247 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:544453 original size:19 final size:19
Alignment explanation
Indices: 544410--544465 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
544400 CTGCCAATTT
544410 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
*
544430 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
*
544449 CATGTATTGATACAATG
1 CATGTATCGATACAATG
544466 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:550748 original size:13 final size:13
Alignment explanation
Indices: 550730--550760 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
550720 TGTTAGGCAT
*
550730 AATGTATCGATAC
1 AATGTATCAATAC
550743 AATGTATCAATAC
1 AATGTATCAATAC
550756 AATGT
1 AATGT
550761 CCCATCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (13 bp):
AATGTATCAATAC
Found at i:550850 original size:19 final size:20
Alignment explanation
Indices: 550805--550858 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 20
550795 CTGCCAATTT
*
550805 CATGTATTGATACAATTAAG
1 CATGTATCGATACAATTAAG
* *
550825 TATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTAAG
550844 CATGTATCGATACAA
1 CATGTATCGATACAA
550859 AGCATAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATTAAG
Found at i:550870 original size:20 final size:19
Alignment explanation
Indices: 550826--550877 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
550816 ACAATTAAGT
* *
550826 ATGTATCGATACAATGAGC
1 ATGTATCGATACAAAGAGA
*
550845 ATGTATCGATACAAAGCATA
1 ATGTATCGATACAAAG-AGA
*
550865 ATGTATCAATACA
1 ATGTATCGATACA
550878 TCTTGGTGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (19 bp):
ATGTATCGATACAAAGAGA
Found at i:551443 original size:12 final size:12
Alignment explanation
Indices: 551426--551472 Score: 58
Period size: 13 Copynumber: 3.7 Consensus size: 12
551416 TCTCTTCTAC
551426 AAAAAAACAAAAA
1 AAAAAAAC-AAAA
551439 AAAAACAACAAAA
1 AAAAA-AACAAAA
*
551452 ACAAAAACAAAA
1 AAAAAAACAAAA
551464 ACAAAAAAC
1 A-AAAAAAC
551473 CTTGGTGAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 8 0.27
13 19 0.63
14 3 0.10
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACAAAA
Found at i:552492 original size:30 final size:30
Alignment explanation
Indices: 552425--552492 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
552415 AGTAAAGCAA
*
552425 CCTTTCTTCAAAGTCCACGACTTAGTGACAT
1 CCTTT-TTCAAAGTCCACGACTTAGTGACAC
* *
552456 CTTTTTTCAAAGTCCACGACTCT-GTGGCAC
1 CCTTTTTCAAAGTCCACGACT-TAGTGACAC
552486 CCTTTTT
1 CCTTTTT
552493 AGTCCTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.21, C:0.29, G:0.13, T:0.37
Consensus pattern (30 bp):
CCTTTTTCAAAGTCCACGACTTAGTGACAC
Found at i:552956 original size:66 final size:62
Alignment explanation
Indices: 552523--553326 Score: 786
Period size: 62 Copynumber: 12.9 Consensus size: 62
552513 ACATGACGTT
* * *
552523 TTTTTCTTTTCAAAGCCCACACGAGTTGATGGCACCCTTTAGTCCTCAAAGAGCAGGATG-CC
1 TTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGTCC
* *
552585 -TTTTCTTTTTAAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATG-CC
1 TTTTTC-TTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGTCC
* * * * * * *
552647 -TTTTCTTTTTGAAAGCCCACACGAGTTGGTGGCACCTTTTTGTCCTAAAAAAGCAAGA-CTCT
1 TTTTTC-TTTT-AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGTCC
* * * **
552709 TTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA-CTCTTTAGTCCTCAGAA-AGTAGGA-CACC
1 TTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCT-TTTAGTCCTCA-AAGAGCAGGATGTCC
* * * * *
552771 TTTTAT-TTTTAAAACCCACACAAGTTGGTGGCATCTTCTAGTCCTCAAAAAGCAGCA---CAC
1 TTTT-TCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGTC-C
* * * * *
552831 -TTTCCTTTTAAATCCTACACAAGCTGGTGGCACCCTTTTTGTCCTCAAAGAGCAGGATGCTTTC
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGATG---TC
552895 C
62 C
* * * * *
552896 TTTTTCCGTTTAAAGCCCACACGAGTTGGTGGCATCTTTTAGTCTTCAAAGAGCAAGATGCTTTC
1 TTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATG---TC
552961 C
62 C
* *
552962 TTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGT-C
1 TTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGTCC
* * * ** * *
553024 GTTCTCTTTTAAAGCACACATGAGTTGGTGGCACATTTTAGTCCTCAAAGAGTAGGATG-CC
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGTCC
* * * *
553085 TTTTTCTTTTATAGCCCACACAAGCTGGTGGTACCTTTTTAGTCCTCAAAGAGTAGGATG-CC
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTTAGTCCTCAAAGAGCAGGATGTCC
* *
553147 --TTT-TTTTAAAGCCCACACGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATG-CC
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGTCC
* * * *
553205 TTTCT-TTTTAAAGGCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTCC
1 TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA---TGTCC
553269 TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA
1 TTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGA
553327 CACTTTCCTC
Statistics
Matches: 635, Mismatches: 78, Indels: 54
0.83 0.10 0.07
Matches are distributed among these distances:
58 24 0.04
59 53 0.08
60 76 0.12
61 122 0.19
62 181 0.29
63 15 0.02
64 6 0.01
65 1 0.00
66 134 0.21
67 23 0.04
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (62 bp):
TTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGTCC
Found at i:553172 original size:373 final size:376
Alignment explanation
Indices: 552534--553346 Score: 1026
Period size: 373 Copynumber: 2.2 Consensus size: 376
552524 TTTTCTTTTC
* * *
552534 AAAGCCCACACGAGTTGATGGCACCCTTTAGTCCTCAAAGAGCAGGATG----CC-TTTTCTTTT
1 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTCCTTTTTCCTTT
* *
552594 TAAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTTGA
66 TAAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTCTCTTTTTGA
* * * *
552659 AAGCCCACACGAGTTGGTGGCACCTTTTTGTCCTAAAAAAGCAAGACTCTTTTTTCTTTTTAAAG
131 AAGCACACACGAGTTGGTGGCACATTTTAGTCCTAAAAAAGCAAGACTCCTTTTTCTTTTTAAAG
* *
552724 CCCACACGAGTTAGTGGCACTCTTTAGTCCTCAGAAAGTAGGACACCTTTTATTTTTAAAACCCA
196 CCCACACAAGCTAGTGGCACTCTTTAGTCCTCAGAAAGTAGGACACC-TTTATTTTTAAAACCCA
* *
552789 CACAAGTTGGTGGCATCTTCTAGTCCTCAAAAAGCAGCA-CACTTTCCTTTTAAA-TCCTACACA
260 CACAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGCAGCAGC-CTTTCCTTTTAAAGGCC-ACACA
* *
552852 AGCTGGTGGCACCCTTTTTGTCCTCAAAGAGCAGGATGCTTTCCTTTTTCCGTTT
323 AGCTGGTGGCA-CCTTTTAGTCCTCAAAGAGCAGGACGCTTTCCTTTTTCCGTTT
* * *
552907 AAAGCCCACACGAGTTGGTGGCATCTTTTAGTCTTCAAAGAGCAAGATGCTTTCCTTTTTCCTTT
1 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTCCTTTTTCCTTT
* * * *
552972 T-AAAGCCTACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGTCGTTCTC-TTTT-
66 TAAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATG-CCTTCTCTTTTTG
* * * * * *
553034 AAAGCACACATGAGTTGGTGGCACATTTTAGTCCTCAAAGAGTAGGA-TGCCTTTTTC-TTTTAT
130 AAAGCACACACGAGTTGGTGGCACATTTTAGTCCTAAAAAAGCAAGACT-CCTTTTTCTTTTTAA
* * * ** *
553097 AGCCCACACAAGCTGGTGGTACCTTTTTAGTCCTCA-AAGAGTAGGATGCC-TT-TTTTTAAAGC
194 AGCCCACACAAGCTAGTGGCA-CTCTTTAGTCCTCAGAA-AGTAGGACACCTTTATTTTTAAAAC
* * * *
553159 CCACACGAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTCTTTTTAAAGGCCACA
257 CCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGCAGCA-GCCTTTCCTTTTAAAGGCCACA
* * *
553224 CGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTCCTTTTTCCTTTT
321 CAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTCCTTTTTCCGTTT
* ** *
553280 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACACTTTCCTCATTTCCTT
1 AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTCCT-TTTTCCTT
553345 TT
65 TT
553347 TTCCTTTGTC
Statistics
Matches: 379, Mismatches: 48, Indels: 25
0.84 0.11 0.06
Matches are distributed among these distances:
373 181 0.48
374 37 0.10
375 28 0.07
376 68 0.18
377 51 0.13
378 14 0.04
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (376 bp):
AAAGCCCACACGAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATGCTTTCCTTTTTCCTTT
TAAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTTCTCTTTTTGA
AAGCACACACGAGTTGGTGGCACATTTTAGTCCTAAAAAAGCAAGACTCCTTTTTCTTTTTAAAG
CCCACACAAGCTAGTGGCACTCTTTAGTCCTCAGAAAGTAGGACACCTTTATTTTTAAAACCCAC
ACAAGTTGGTGGCACCTTCTAGTCCTCAAAAAGCAGCAGCCTTTCCTTTTAAAGGCCACACAAGC
TGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGCTTTCCTTTTTCCGTTT
Found at i:553593 original size:42 final size:39
Alignment explanation
Indices: 553508--553617 Score: 96
Period size: 40 Copynumber: 2.7 Consensus size: 39
553498 GACGTACTCG
* * * *
553508 TTTTCACTTTATCATCAAGGAGTAGGATACCTTCTTTTTTC
1 TTTTCA-TTTGTCCTCAAGGAGTAGGA-CCCTTCTTTTCTC
553549 TTTCTTCATTTGTCCTCAAGGAGTAGGACCCTT-TTCATTCTC
1 -TT-TTCATTTGTCCTCAAGGAGTAGGACCCTTCTT--TTCTC
* * *
553591 TTTTCCTTTGTCCTCAAAGAGCAGGAC
1 TTTTCATTTGTCCTCAAGGAGTAGGAC
553618 ACCCCTTCCA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
40 24 0.41
41 6 0.10
42 24 0.41
43 4 0.07
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.42
Consensus pattern (39 bp):
TTTTCATTTGTCCTCAAGGAGTAGGACCCTTCTTTTCTC
Found at i:553636 original size:40 final size:38
Alignment explanation
Indices: 553549--553636 Score: 88
Period size: 40 Copynumber: 2.2 Consensus size: 38
553539 TTCTTTTTTC
* * * * *
553549 TTTC-TTCATTTGTCCTCAAGGAGTAGGACCCTTTTCA
1 TTTCTTTCCTTTGTCCTCAAAGAGCAGGACCCCTTCCA
553586 TTCTCTTTTCCTTTGTCCTCAAAGAGCAGGACACCCCTTCCA
1 TT-TC-TTTCCTTTGTCCTCAAAGAGCAGG--ACCCCTTCCA
553628 TTTCTTTCC
1 TTTCTTTCC
553637 CCTTTTAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
37 2 0.05
38 2 0.05
40 25 0.61
41 2 0.05
42 10 0.24
ACGTcount: A:0.17, C:0.31, G:0.12, T:0.40
Consensus pattern (38 bp):
TTTCTTTCCTTTGTCCTCAAAGAGCAGGACCCCTTCCA
Found at i:554305 original size:50 final size:50
Alignment explanation
Indices: 554225--554408 Score: 262
Period size: 50 Copynumber: 3.7 Consensus size: 50
554215 TTCCACAATT
* * *
554225 TGTATCGATACATTCTTTATTGTATCGATACATTTTGGGTTTAACCCAAA
1 TGTATCGATACATTCTTCATTGTATCGATACATTTTGGGTTTTACCCAGA
* * *
554275 TGTACCGATACATTATTCATTGTATCGATACATTTTAGGTTTTACCCAGA
1 TGTATCGATACATTCTTCATTGTATCGATACATTTTGGGTTTTACCCAGA
* * *
554325 TGTATCGATACATTCTTCATTGTATCGATGCATTCTGGGTTTTACCTAGA
1 TGTATCGATACATTCTTCATTGTATCGATACATTTTGGGTTTTACCCAGA
*
554375 TGTATCGATACATT-TCTCAATGTATCGATACATT
1 TGTATCGATACATTCT-TCATTGTATCGATACATT
554409 CAGGCATTTT
Statistics
Matches: 119, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
49 1 0.01
50 118 0.99
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (50 bp):
TGTATCGATACATTCTTCATTGTATCGATACATTTTGGGTTTTACCCAGA
Found at i:556919 original size:79 final size:79
Alignment explanation
Indices: 556748--557622 Score: 717
Period size: 79 Copynumber: 11.1 Consensus size: 79
556738 TCATTCATGT
* ** *
556748 TTTTATTTCTAAAATACCGATTTTCCACCATCGGGGATACTCCAACCC-GTTATTTCTGAGGGGA
1 TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGA
* *
556812 TACTTCAACCCCGA
66 TACTCCAACCCTGA
* * *
556826 TTTTATTT-TCAAAACACTAATTTTCCATAATTGGGGATACACCAACCCTGTTATTTCTGAGGGG
1 TTTTATTTCT-AAAACACTAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGG
*
556890 ATATTCCAACCCTGA
65 ATACTCCAACCCTGA
* * * * * * **
556905 TTTTTTTTTTAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTT-TCGAAAGG
1 TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCT-GAGGGG
*
556969 ATACTTCAACCCTGA
65 ATACTCCAACCCTGA
* * ** * * *
556984 TTTTATTTCTAAAACACTGATTTTCTACAATAAGGGATACTCCAACCCTGTTATTTTTGAAGGCA
1 TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGA
*
557049 TACTCCAA-CCTCA
66 TACTCCAACCCTGA
* * * ** * *
557062 GTTTTATTTCTAAAACACAAATTTTTCACAATCGGGGGATACTCTAACCCCATTATTTTTGAAGG
1 -TTTTATTTCTAAAACACTAATTTTCCACAATC-GGGGATACTCCAACCCTGTTATTTCTGAGGG
* * *
557127 GATATTCTAA-CCTCGG
64 GATACTCCAACCCT-GA
* * * * * *
557143 TTTTATTTCTAAAATACCAATTTTTCACAAT-TGGGATATTCCAACCCCGTTATTTACTGAGGGG
1 TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTT-CTGAGGGG
* *
557207 ATACTCTAACCCCGA
65 ATACTCCAACCCTGA
* * * * ** * *
557222 TTTTATTTCTAAAACATTTATTTTTCATAATCGAAGATACTCTAACTCC-GTTATTT-TCGAGAG
1 TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAAC-CCTGTTATTTCT-GAGGG
*
557285 GATACTCCAA-CCTCGG
64 GATACTCCAACCCT-GA
* * * * * *
557301 TTTTATTTCCAAGACA-TCGATTTTCCACAATTAGGGGATACTCTAACCCTGTTATTT-TCGAGA
1 TTTTATTTCTAAAACACT-AATTTTCCACAA-TCGGGGATACTCCAACCCTGTTATTTCT-GAGG
* *
557364 GGATATTCCAACCC-CA
63 GGATACTCCAACCCTGA
* ** * * *
557380 GTTTTATTTCTAAAACACCAATTTTCCACAATCAAGAATACTCCAATCCTGTTATTTTTGAGGGG
1 -TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGG
*
557445 ATACTCCAACCCCGA
65 ATACTCCAACCCTGA
* *
557460 TTTTATTTCTAAAACA-TCAATTTTCCATAATCGGGGATACTCCAA-CCTCATTATGTTC-GAGG
1 TTTTATTTCTAAAACACT-AATTTTCCACAATCGGGGATACTCCAACCCT-GTTAT-TTCTGAGG
* **
557522 GGATACTCTAACCCCAA
63 GGATACTCCAACCCTGA
* * * * * **
557539 TTTT-TTT-TGAAAACACCAATTTTTCACAATCGGGGGATACTCTAA-TCTCGTTATTTTTGACA
1 TTTTATTTCT-AAAACACTAATTTTCCACAATC-GGGGATACTCCAACCCT-GTTATTTCTGAGG
557601 GGATACTCCAACCCTG-
63 GGATACTCCAACCCTGA
557617 TTTTAT
1 TTTTAT
557623 CTCCAAAATA
Statistics
Matches: 649, Mismatches: 118, Indels: 59
0.79 0.14 0.07
Matches are distributed among these distances:
77 2 0.00
78 98 0.15
79 394 0.61
80 151 0.23
81 4 0.01
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (79 bp):
TTTTATTTCTAAAACACTAATTTTCCACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGA
TACTCCAACCCTGA
Found at i:557211 original size:238 final size:235
Alignment explanation
Indices: 556748--557622 Score: 851
Period size: 238 Copynumber: 3.7 Consensus size: 235
556738 TCATTCATGT
* * * ** *
556748 TTTTATTTCTAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCGTTA-TTTCTGAGGGGA
1 TTTTATTTCTAAAACACTGATTTTCCACAATAAGGGATACTCCAACCCGTTATTTTC-GAAGGGA
* * * * * * *
556812 TACTTCAACC-CCGATTTTATTTTCAAAACACTAATTTTCCATAAT-TGGGGATACACCAACCCT
65 TACTCCAACCTCAG-TTTTATTTTCAAAACAC-AATTTTCCACAATCGGGGGATACTCTAACCCC
* * * * *
556875 GTTATTTCTGAGGGGATATTCCAACCCTGATTTTTTTTTTAAAACACCAATTTTTCACAATCAGG
128 GTTATTTTTGAAGGGATATTCCAACCC-GGTTTTATTTCTAAAACACCAATTTTTCACAATCAGG
** *
556940 GATACTCCAACCCCGTTATTT-TCGAAAGGATACTTCAACCCTGA
192 GATACTCCAACCCCGTTATTTCT-GAGGGGATACTTCAACCCCGA
* * *
556984 TTTTATTTCTAAAACACTGATTTTCTACAATAAGGGATACTCCAACCCTGTTATTTTTGAAGGCA
1 TTTTATTTCTAAAACACTGATTTTCCACAATAAGGGATACTCCAACCC-GTTATTTTCGAAGGGA
*
557049 TACTCCAACCTCAGTTTTA-TTTCTAAAACACAAATTTTTCACAATCGGGGGATACTCTAACCCC
65 TACTCCAACCTCAGTTTTATTTTC-AAAACAC-AATTTTCCACAATCGGGGGATACTCTAACCCC
* * * *
557113 ATTATTTTTGAAGGGATATTCTAACCTCGGTTTTATTTCTAAAATACCAATTTTTCACAAT-TGG
128 GTTATTTTTGAAGGGATATTCCAACC-CGGTTTTATTTCTAAAACACCAATTTTTCACAATCAGG
*
557177 GATATTCCAACCCCGTTATTTACTGAGGGGATAC-TCTAACCCCGA
192 GATACTCCAACCCCGTTATTT-CTGAGGGGATACTTC-AACCCCGA
* * * * *
557222 TTTTATTTCTAAAACATTTATTTTTCATAATCGAA--GATACTCTAACTCCGTTATTTTCG-AGA
1 TTTTATTTCTAAAACACTGATTTTCCACAAT--AAGGGATACTCCAAC-CCGTTATTTTCGAAG-
* * * * **
557284 GGATACTCCAACCTCGGTTTTATTTCCAAGACATCGATTTTCCACAATTAGGGGATACTCTAACC
62 GGATACTCCAACCTCAGTTTTATTTTCAAAACA-CAATTTTCCACAATCGGGGGATACTCTAACC
* * * *
557349 CTGTTATTTTCG-AGAGGATATTCCAACCCCAGTTTTATTTCTAAAACACCAATTTTCCACAATC
126 CCGTTATTTTTGAAG-GGATATTCCAA-CCCGGTTTTATTTCTAAAACACCAATTTTTCACAATC
* * * * * *
557413 AAGAATACTCCAATCCTGTTATTTTTGAGGGGATACTCCAACCCCGA
189 AGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTTCAACCCCGA
* * ** * * *
557460 TTTTATTTCTAAAACA-TCAATTTTCCATAATCGGGGATACTCCAACCTCATTATGTTCGAGGGG
1 TTTTATTTCTAAAACACT-GATTTTCCACAATAAGGGATACTCCAACC-CGTTATTTTCGAAGGG
* * * * * * *
557524 ATACTCTAACCCCAATTTT-TTTTGAAAACACCAATTTTTCACAATCGGGGGATACTCTAATCTC
64 ATACTCCAACCTCAGTTTTATTTTCAAAACA-CAATTTTCCACAATCGGGGGATACTCTAACCCC
* *
557588 GTTATTTTTGACA-GGATACTCCAACCCTGTTTTAT
128 GTTATTTTTGA-AGGGATATTCCAACCCGGTTTTAT
557623 CTCCAAAATA
Statistics
Matches: 526, Mismatches: 87, Indels: 52
0.79 0.13 0.08
Matches are distributed among these distances:
236 56 0.11
237 124 0.24
238 313 0.60
239 31 0.06
240 2 0.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (235 bp):
TTTTATTTCTAAAACACTGATTTTCCACAATAAGGGATACTCCAACCCGTTATTTTCGAAGGGAT
ACTCCAACCTCAGTTTTATTTTCAAAACACAATTTTCCACAATCGGGGGATACTCTAACCCCGTT
ATTTTTGAAGGGATATTCCAACCCGGTTTTATTTCTAAAACACCAATTTTTCACAATCAGGGATA
CTCCAACCCCGTTATTTCTGAGGGGATACTTCAACCCCGA
Found at i:557641 original size:158 final size:156
Alignment explanation
Indices: 556748--557630 Score: 837
Period size: 158 Copynumber: 5.6 Consensus size: 156
556738 TCATTCATGT
* * * * * *
556748 TTTTATTTCTAAAATACCGATTTTCCACCATCGGGGATACTCCAACCCGTTATTTCTGAGGGGAT
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCGTTATTTTTGAGAGGAT
* * * * *
556813 ACTTCAACCCCGATTTTATTTTCAAAACA-CTAATTTTCCATAATTGGGGATACACCAACCCTGT
66 ACTCCAACCCCGATTTTATTTCCAAAACATC-AATTTTCCACAATAGGGGATACTCCAACCCTGT
* **
556877 TATTTCTGAGGGGATATTCCAACCCTGA
130 TATTTC-GAGGGGATACTCCAACCCCAA
* * * * *
556905 TTTTTTTTTTAAAACACCAATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTTCGAAAGGA
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAA-CCCGTTATTTTTGAGAGGA
* * * * * *
556970 TACTTCAACCCTGATTTTATTTCTAAAACA-CTGATTTTCTACAATAAGGGATACTCCAACCCTG
65 TACTCCAACCCCGATTTTATTTCCAAAACATC-AATTTTCCACAATAGGGGATACTCCAACCCTG
* * * * *
557034 TTATTTTTGAAGGCATACTCCAACCTCAG
129 TTA-TTTCGAGGGGATACTCCAACCCCAA
* * *
557063 TTTTATTTCTAAAACACAAATTTTTCACAATCGGGGGATACTCTAACCCCATTATTTTTGA-AGG
1 TTTTATTTCTAAAACACCAATTTTTCACAATC-GGGGATACTCCAA-CCCGTTATTTTTGAGA-G
* * * * * * * * * * *
557127 GATATTCTAACCTCGGTTTTATTTCTAAAATACCAATTTTTCACAAT-TGGGATATTCCAACCCC
63 GATACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATAGGGGATACTCCAACCCT
* *
557191 GTTATTTACTGAGGGGATACTCTAACCCCGA
128 GTTATTT-C-GAGGGGATACTCCAACCCCAA
*** * ** * *
557222 TTTTATTTCTAAAACATTTATTTTTCATAATCGAAGATACTCTAACTCCGTTATTTTCGAGAGGA
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAAC-CCGTTATTTTTGAGAGGA
* * * * *
557287 TACTCCAACCTCGGTTTTATTTCCAAGACATCGATTTTCCACAATTAGGGGATACTCTAACCCTG
65 TACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAA-TAGGGGATACTCCAACCCTG
* * *
557352 TTATTTTCGAGAGGATATTCCAACCCCAG
129 TTA-TTTCGAGGGGATACTCCAACCCCAA
* ** * * *
557381 TTTTATTTCTAAAACACCAATTTTCCACAATCAAGAATACTCCAATCCTGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAA-CCCGTTATTTTTGAGAGGA
* * * *
557446 TACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTCCATAATCGGGGATACTCCAA-CCTCA
65 TACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATAGGGGATACTCCAACCCT-G
*
557510 TTATGTTCGAGGGGATACTCTAACCCCAA
129 TTAT-TTCGAGGGGATACTCCAACCCCAA
* * *
557539 TTTT-TTT-TGAAAACACCAATTTTTCACAATCGGGGGATACTCTAATCTCGTTATTTTTGACAG
1 TTTTATTTCT-AAAACACCAATTTTTCACAATC-GGGGATACTCCAA-CCCGTTATTTTTGAGAG
* *
557602 GATACTCCAACCCTG-TTTTATCTCCAAAA
63 GATACTCCAACCCCGATTTTATTTCCAAAA
557631 TATTAAATTT
Statistics
Matches: 592, Mismatches: 117, Indels: 34
0.80 0.16 0.05
Matches are distributed among these distances:
156 1 0.00
157 82 0.14
158 273 0.46
159 213 0.36
160 20 0.03
161 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (156 bp):
TTTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCGTTATTTTTGAGAGGAT
ACTCCAACCCCGATTTTATTTCCAAAACATCAATTTTCCACAATAGGGGATACTCCAACCCTGTT
ATTTCGAGGGGATACTCCAACCCCAA
Found at i:558409 original size:47 final size:47
Alignment explanation
Indices: 558355--558444 Score: 171
Period size: 47 Copynumber: 1.9 Consensus size: 47
558345 CTCAAGACAT
558355 AGGTTTCAATAGGCATCCGATCATGCCTAGTCCGAAATGATCGTCAC
1 AGGTTTCAATAGGCATCCGATCATGCCTAGTCCGAAATGATCGTCAC
*
558402 AGGTTTCAATAGGCATCCGATGATGCCTAGTCCGAAATGATCG
1 AGGTTTCAATAGGCATCCGATCATGCCTAGTCCGAAATGATCG
558445 GTGGCAACTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (47 bp):
AGGTTTCAATAGGCATCCGATCATGCCTAGTCCGAAATGATCGTCAC
Found at i:559065 original size:4 final size:4
Alignment explanation
Indices: 559056--559093 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
559046 GAGGTGCTGC
*
559056 TTAT TTAT TTAT TTAT TCT-T TTAT TTAT TCAT TTAT TT
1 TTAT TTAT TTAT TTAT T-TAT TTAT TTAT TTAT TTAT TT
559094 TGTTGTACAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 1 0.03
4 28 0.93
5 1 0.03
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:559078 original size:12 final size:12
Alignment explanation
Indices: 559056--559093 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
559046 GAGGTGCTGC
*
559056 TTATTTATTTAT
1 TTATTCATTTAT
*
559068 TTATTCTTTTAT
1 TTATTCATTTAT
559080 TTATTCATTTAT
1 TTATTCATTTAT
559092 TT
1 TT
559094 TGTTGTACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (12 bp):
TTATTCATTTAT
Found at i:562555 original size:13 final size:13
Alignment explanation
Indices: 562537--562563 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
562527 TCATATTTTA
562537 TTTATTATTATTT
1 TTTATTATTATTT
562550 TTTATTATTATTT
1 TTTATTATTATTT
562563 T
1 T
562564 ATCATTTAAT
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:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTATTATTT
Found at i:563635 original size:13 final size:13
Alignment explanation
Indices: 563617--563643 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
563607 AATTGAAAAG
563617 TAAGTTATGCACC
1 TAAGTTATGCACC
563630 TAAGTTATGCACC
1 TAAGTTATGCACC
563643 T
1 T
563644 TTTCATAAAC
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:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TAAGTTATGCACC
Found at i:564574 original size:65 final size:64
Alignment explanation
Indices: 563724--564573 Score: 539
Period size: 65 Copynumber: 13.1 Consensus size: 64
563714 GGCCAACTCT
* ** * * * * *
563724 TTTTTGACTCAGGTTTTGTCCTAATCACTCTTAGTTGACTATTCTGGTTTTACCCTAGTTAA-CC
1 TTTTT-ACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACCC
* * * * *** * *
563788 TTGTTCAATTTAGGTTTCATCCTAGTCACCCTT-GTTGTCTATTCTAGCTTCATAGTAGTTAAAC
1 TT-TT-TACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACC
*
563852 T
64 C
* * * * * *
563853 TTTTTGACTTAGGTTTCGTCCTAATCACCTTTAGTTTATTATTCTAGTTTCCCCCTAG-CTAACC
1 TTTTT-ACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTC-AACC
563917 C
64 C
* * * ** * *
563918 TTTTTGACTTAGGCTTT-ATCCTAGTCACCTTTGGTTGACTATTTTAGTTTTGCCATGGTCAACC
1 TTTTT-ACTTAGG-TTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACC
563982 C
64 C
* * * * * * * *
563983 TTTTTTACTTAGGTTTTATCCTAATAACCCTTAGCTAACTATTTTGGTTTCACCCTAGTTAACCC
1 -TTTTTACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACCC
* * * * *
564048 TTTTTGACTTAGATTTCATCCTAGTCACCTTTAGCTAACTATTCTGGTTTCACCCTAGTCAACCT
1 TTTTT-ACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACC-
564113 C
64 C
* ** * * * * *
564114 TTTTGACTTAGGTTTTGTCCTAGTCACCTTTAGTTGACTACTCT-GGTTCACCTTGGTCAA-CC
1 TTTTTACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACCC
* * * * * *
564176 TTTTTCGATTTAGGTTTTATCCTAGTCACCCTTAGCTGACTATTCTGGTTTCACCCTCTGATTAA
1 TTTTT--ACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCT-AG-TCAA
*
564241 CCTT
62 CC-C
* * * * *
564245 TTTTTACTTAGGTTTCGTCTTAGACACCCTTAGCTGACTATTCTAGTTTCACCCTGGTCAACCC
1 TTTTTACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACCC
* ** * * * * ** *
564309 TTTTTGACTTAAGTTTCA-CCTTAAACACCTTTAGTTGACTATTATGGTTTCATCCTCTTTAACC
1 TTTTT-ACTTAGGTTTCATCC-TAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACC
*
564373 A
64 C
* * * * * * * * *
564374 TTTTTGA-TACAGGTTTCAGTCTTAATCGCCCTAAGTTGAGTATT-TTGATTTAATCCTAGTCAA
1 TTTTT-ACT-TAGGTTTCA-TCCTAGTCACCCTTAGTTGACTATTCTAG-TTTCACCCTAGTCAA
564437 CCC
62 CCC
* ** * * * * * * * *
564440 TTTTCGACTTAAATTTCATCCCAATCACCCTTAATTCACTATTCTAGTTTCACCTTGGTTAACCT
1 TTTT-TACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACCC
* * * *
564505 TTTTCTACTTAGGTTTCATCTTGGTTACCTTTAGTTGACTATTCTAGTTTCACCCTAGTCAACCC
1 TTTT-TACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACCC
564570 TTTT
1 TTTT
564574 CCTTTAGTTG
Statistics
Matches: 608, Mismatches: 150, Indels: 55
0.75 0.18 0.07
Matches are distributed among these distances:
62 5 0.01
63 1 0.00
64 110 0.18
65 378 0.62
66 59 0.10
67 49 0.08
68 1 0.00
69 5 0.01
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (64 bp):
TTTTTACTTAGGTTTCATCCTAGTCACCCTTAGTTGACTATTCTAGTTTCACCCTAGTCAACCC
Found at i:564579 original size:42 final size:42
Alignment explanation
Indices: 564532--564631 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
564522 ATCTTGGTTA
* * *
564532 CCTTTAGTTGACTATTCTAGTTTCACCCTAGTCAACCCTTTT
1 CCTTTAGTTGACTATTCTAGTCTCACCCCAGTCAACCCATTT
*
564574 CCTTTAGTTGACTATTCTAGTCTCACCCCATTCAACCCATTT
1 CCTTTAGTTGACTATTCTAGTCTCACCCCAGTCAACCCATTT
*
564616 CCCTTAGTTGACTATT
1 CCTTTAGTTGACTATT
564632 ATGGTTTTGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.41
Consensus pattern (42 bp):
CCTTTAGTTGACTATTCTAGTCTCACCCCAGTCAACCCATTT
Found at i:564686 original size:33 final size:34
Alignment explanation
Indices: 564623--564687 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 34
564613 TTTCCCTTAG
*
564623 TTGACTATTATGGTTTTGCGCTAGTCAACCTCAA
1 TTGACTATTATGATTTTGCGCTAGTCAACCTCAA
* * *
564657 TTGACTATTTTGATTTTG-TCTAGTTAACCTC
1 TTGACTATTATGATTTTGCGCTAGTCAACCTC
564688 TTTTTGACTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.22, C:0.18, G:0.15, T:0.45
Consensus pattern (34 bp):
TTGACTATTATGATTTTGCGCTAGTCAACCTCAA
Found at i:566867 original size:38 final size:38
Alignment explanation
Indices: 566818--566909 Score: 157
Period size: 38 Copynumber: 2.4 Consensus size: 38
566808 GTTCATCGTA
566818 TTGTTGTTGTTAGTTTTGAATCTTAAACTCATTTGATC
1 TTGTTGTTGTTAGTTTTGAATCTTAAACTCATTTGATC
* * *
566856 TTGTTGCTGTTAGTTTTGAATCTTGAACTCATTTGATT
1 TTGTTGTTGTTAGTTTTGAATCTTAAACTCATTTGATC
566894 TTGTTGTTGTTAGTTT
1 TTGTTGTTGTTAGTTT
566910 GTTTTTTTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.17, C:0.09, G:0.18, T:0.55
Consensus pattern (38 bp):
TTGTTGTTGTTAGTTTTGAATCTTAAACTCATTTGATC
Found at i:567766 original size:33 final size:32
Alignment explanation
Indices: 567720--567811 Score: 87
Period size: 33 Copynumber: 2.8 Consensus size: 32
567710 TAGCCCTCAA
* * *
567720 AGAGAAAGAAGAGATAAGAGATATGATAGGACG
1 AGAGATAGGAGAGATAAGAGATA-GAAAGGACG
* *
567753 AGAGATAGGAGAGATAGTAAAGATAGAAAGGATG
1 AGAGATAGGAGAGATA--AGAGATAGAAAGGACG
* *
567787 ATAG-TAGGAGAGATAGGAGATAGAA
1 AGAGATAGGAGAGATAAGAGATAGAA
567812 GGGATTATAG
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
31 8 0.16
33 25 0.51
34 10 0.20
35 6 0.12
ACGTcount: A:0.50, C:0.01, G:0.35, T:0.14
Consensus pattern (32 bp):
AGAGATAGGAGAGATAAGAGATAGAAAGGACG
Found at i:573348 original size:20 final size:20
Alignment explanation
Indices: 573237--573354 Score: 80
Period size: 20 Copynumber: 5.8 Consensus size: 20
573227 GTTTGGGACA
* *
573237 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTGTGC
573257 ATGTATCGATAC-ATTGTGCC
1 ATGTATCGATACAATTGTG-C
* * *
573277 ATGTATTGATACAAATAGTGGT
1 ATGTATCGATAC-AATTGT-GC
* * *
573299 AGTGTAGCGACTTCCAGTT-T-C
1 A-TGTATCGA--TACAATTGTGC
*
573320 ATATATCGATACAATTGTGC
1 ATGTATCGATACAATTGTGC
573340 ATGTATCGATACAAT
1 ATGTATCGATACAAT
573355 GAATATGTAT
Statistics
Matches: 73, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
18 5 0.07
19 5 0.07
20 45 0.62
21 1 0.01
22 5 0.07
23 8 0.11
24 2 0.03
25 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACAATTGTGC
Found at i:575929 original size:20 final size:21
Alignment explanation
Indices: 575898--575937 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
575888 ATCTGGGTTT
575898 TTTCAGATGTATCGATACATC
1 TTTCAGATGTATCGATACATC
575919 TTTCA-ATGTATCGATACAT
1 TTTCAGATGTATCGATACAT
575938 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (21 bp):
TTTCAGATGTATCGATACATC
Found at i:581798 original size:11 final size:11
Alignment explanation
Indices: 581782--581809 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
581772 AATTTATGTG
581782 TTTTTTTTCTT
1 TTTTTTTTCTT
581793 TTTTTTTTCTT
1 TTTTTTTTCTT
581804 TTTTTT
1 TTTTTT
581810 CATCTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:581815 original size:23 final size:21
Alignment explanation
Indices: 581782--581826 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
581772 AATTTATGTG
* *
581782 TTTTTTTTCTTTTTTTTTTCT
1 TTTTTTTTCTTCTTTCTTTCT
581803 TTTTTTTCATCTTCTTTCTTTCT
1 TTTTTTT--TCTTCTTTCTTTCT
581826 T
1 T
581827 ACCTAACCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
23 13 0.65
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (21 bp):
TTTTTTTTCTTCTTTCTTTCT
Found at i:582921 original size:48 final size:48
Alignment explanation
Indices: 582859--582990 Score: 185
Period size: 48 Copynumber: 2.8 Consensus size: 48
582849 AGAGGAATGC
** *
582859 CAATGTGTCAATTCAAGGCCAACGACATCGAGCTAAGGGAAGAGTGGA
1 CAATGTGTTGATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGA
* *
582907 CAATGTGTTGATTCAAGGCCAACAACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGTTGATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGA
* *
582955 CAATGTGCTGATTCAAGGCCAATGACA-CTGAGCTAA
1 CAATGTGTTGATTCAAGGCCAACGACATC-GAGCTAA
582991 TAAAGGTGCC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.20
Consensus pattern (48 bp):
CAATGTGTTGATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGA
Found at i:583136 original size:25 final size:25
Alignment explanation
Indices: 583101--583150 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
583091 AAAAAAAGGT
583101 GCCACTAACTTCTGTGGGCTTTGAA
1 GCCACTAACTTCTGTGGGCTTTGAA
*
583126 GCCACTGACTTCTGTGGGCTTTGAA
1 GCCACTAACTTCTGTGGGCTTTGAA
583151 AGGATGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.32
Consensus pattern (25 bp):
GCCACTAACTTCTGTGGGCTTTGAA
Found at i:583188 original size:58 final size:56
Alignment explanation
Indices: 583126--584567 Score: 1174
Period size: 58 Copynumber: 24.6 Consensus size: 56
583116 GGGCTTTGAA
** *
583126 GCCACTGACTTCTGTGGGCTTTGAAAGGATGCCACCAACTTATGGGCTTTGAAAGGAT
1 GCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
* *
583184 GCCACTAACTTGTGGGCCTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
* * * *
583240 GCCACTAACTTGTGGGCTTTGAAAAGATGCCATTGATTTGTGTGGTCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTG-GG-CTTTGA-AAGGAT
* * * *
583299 GCCATTGACTTGTGGGCTTTGAGAACGATGCCACTAATTTGTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
* * * * *
583356 GCCATTAACTTGT---TTTTGAAAGGATGCCACTTACTTTTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
* * * * *
583409 ACCACTAATTTGTGTGGGCTTTGAGAAGAATGCCACTGACTTGTGGGCTTTGAAAAGAT
1 GCCACTGA-CT-TGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
* * ** * *
583468 GCCACTAACTTGTGGGCTTTAAGAAGGACACCACTAACGTGTGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGA-AAGGAT
* *
583526 GCCACTGACTTGTGGGCTTTGAAAGGATGCTACTGATTTGTGTGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGA-CT-TGTGGGCTTTGA-AAGGAT
*
583585 GCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTAAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGA-AAGGAT
*
583643 GCCACTGACTTGTGGGCTTTGAGAAGGATGCTACTGACTTGTGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGA-AAGGAT
* * *
583701 GCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAATGGGTT
1 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA--GGAT
* * * *
583759 GCCACCGACTTGTGTGGTCTTTGAAATGGGTTGCCA-TCGACTTATGTGGGCTTTCAAATAGGTT
1 GCCACTGACTTGTG-GG-CTTTGAAA--GGATGCCACT-GAC-T-TGTGGGCTTT-GAA-AGGAT
* * * * * *
583823 ACCACCGACTTGTGTGGGCTTTGAAATGGGTTGCC-GTCGACTTGTGTGGGCTTTCAAATGAGTT
1 GCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCACT-GAC-T-TGTGGGCTTTGAAA-G-GAT
* * * ** * *
583887 ACCACCGACTTGTGTGGGCTTTAAAATAATGCCACTAACTTATGGGCTTTGAGAAGGAT
1 GCCACTGAC-T-TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGAT
* * *
583946 GCCATTGACTTGTAGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTGGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
* * * *
584002 GACATTGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTATGGGCTTTGAGAAAGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG--TGGGCTTTGA-AAGGAT
584061 GCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGA-AAGGAT
* * *
584119 GCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTATGGGCTTTGAAATGGGTT
1 GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA--GGAT
* * * * * * *
584177 GCCACCGACTTGTGTGGGCTTTGGAATGGTTGCCACCGACTTCTATGGGCTTTCAAATGGGTT
1 GCCACTGAC-T-TGTGGGCTTT-GAAAGGATGCCACTGAC-T-TGTGGGCTTTGAAA--GGAT
** ** * * * *
584240 AACACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTATGGGCTTTCAAATGAGTT
1 GCCACTGAC-T-TGTGGGCTTTGAAA--GGATGCCACTGACTTG--TGGGCTTTGAAA-G-GAT
* * * * * **
584304 ACCCCCGACTTATGTGGGCTTTCAAATGAGTTGCCA-TCGACTTGTGTGGGCTTTGAAATAAT
1 GCCACTGAC-T-TGTGGGCTTTGAAA-G-GATGCCACT-GAC-T-TGTGGGCTTTGAAAGGAT
* ** * * *
584366 GCTACTGACTTGTGGGCTTAAAAAGGGGTGCCACTGACTTGTGGGCTTTGGAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAA-GGATGCCACTGACTTGTGGGCTTTGAAAGGAT
* * ** * * **
584423 GTCACTGAATTGTGGGCTTAAAAAAGGGTGCCACTGACTTATGGGCTTAAAAAGGAT
1 GCCACTGACTTGTGGGCTT-TGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
* * * * * **
584480 GTCAC-GAAGTTGTGGACTTTGGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGAT
1 GCCACTG-ACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
* * *
584536 GCCAC-GAAGTTGTGGAC-TTAAAAGGATGCCAC
1 GCCACTG-ACTTGTGGGCTTTGAAAGGATGCCAC
584568 GAAGTTGTGG
Statistics
Matches: 1183, Mismatches: 146, Indels: 113
0.82 0.10 0.08
Matches are distributed among these distances:
53 36 0.03
54 6 0.01
55 15 0.01
56 177 0.15
57 223 0.19
58 226 0.19
59 152 0.13
60 90 0.08
61 18 0.02
62 27 0.02
63 46 0.04
64 154 0.13
65 6 0.01
66 7 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (56 bp):
GCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGAT
Found at i:583322 original size:29 final size:28
Alignment explanation
Indices: 583126--584567 Score: 1174
Period size: 28 Copynumber: 49.2 Consensus size: 28
583116 GGGCTTTGAA
583126 GCCACTGACTTCTGTGGGCTTTGAAAGGAT
1 GCCACTGAC-T-TGTGGGCTTTGAAAGGAT
** *
583156 GCCACCAACTTATGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
583184 GCCACTAACTTGTGGGCCTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
583212 GCCACTGACTTGTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
583240 GCCACTAACTTGTGGGCTTTGAAAAGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
583268 GCCATTGATTTGTGTGGTCTTTGAGAAGGAT
1 GCCACTGACTTGTG-GG-CTTTGA-AAGGAT
* *
583299 GCCATTGACTTGTGGGCTTTGAGAACGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGAT
* *
583328 GCCACTAATTTGTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* * *
583356 GCCATTAACTTGT---TTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
583381 GCCACTTACTTTTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* * * *
583409 ACCACTAATTTGTGTGGGCTTTGAGAAGAAT
1 GCCACTGA-CT-TGTGGGCTTTGA-AAGGAT
*
583440 GCCACTGACTTGTGGGCTTTGAAAAGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* * *
583468 GCCACTAACTTGTGGGCTTTAAGAAGGAC
1 GCCACTGACTTGTGGGCTTTGA-AAGGAT
* * *
583497 ACCACTAACGTGTGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGAT
583526 GCCACTGACTTGTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
583554 GCTACTGATTTGTGTGGGCTTTGAGAAGGAT
1 GCCACTGA-CT-TGTGGGCTTTGA-AAGGAT
583585 GCCACTGACTTGTGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGAT
*
583614 GCCACTGACTTGTGGGCTTTAAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGAT
583643 GCCACTGACTTGTGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGAT
*
583672 GCTACTGACTTGTGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGAT
*
583701 GCCACTAACTTGTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
583729 GCCACTAACTTGTGGGCTTTGAAATGGGTT
1 GCCACTGACTTGTGGGCTTTGAAA--GGAT
* *
583759 GCCACCGACTTGTGTGGTCTTTGAAATGGGTT
1 GCCACTGACTTGTG-GG-CTTTGAAA--GGAT
* *
583791 GCCA-TCGACTTATGTGGGCTTTCAAATAGGTT
1 GCCACT-GAC-T-TGTGGGCTTT-GAA-AGGAT
* * *
583823 ACCACCGACTTGTGTGGGCTTTGAAATGGGTT
1 GCCACTGAC-T-TGTGGGCTTTGAAA--GGAT
* * *
583855 GCC-GTCGACTTGTGTGGGCTTTCAAATGAGTT
1 GCCACT-GAC-T-TGTGGGCTTTGAAA-G-GAT
* * * **
583887 ACCACCGACTTGTGTGGGCTTTAAAATAAT
1 GCCACTGAC-T-TGTGGGCTTTGAAAGGAT
* *
583917 GCCACTAACTTATGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGAT
* *
583946 GCCATTGACTTGTAGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
*
583974 GCCACTGACTTGTGGGCTTGGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
584002 GACATTGACTTGTGGGCTTTGAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
584030 GCCACTGATTTGTATGGGCTTTGAGAAAGAT
1 GCCACTGACTTG--TGGGCTTTGA-AAGGAT
584061 GCCACTGACTTGTGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGAT
584090 GCCACTGACTTGTGGGCTTTGAGAAGGAT
1 GCCACTGACTTGTGGGCTTTGA-AAGGAT
*
584119 GCCACTGACTTGTGGGCTTTGAAAAGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* *
584147 GCCACTGACTTATGGGCTTTGAAATGGGTT
1 GCCACTGACTTGTGGGCTTTGAAA--GGAT
* * *
584177 GCCACCGACTTGTGTGGGCTTTGGAATGGTT
1 GCCACTGAC-T-TGTGGGCTTT-GAAAGGAT
* * * *
584208 GCCACCGACTTCTATGGGCTTTCAAATGGGTT
1 GCCACTGAC-T-TGTGGGCTTTGAAA--GGAT
** ** *
584240 AACACCAACTTGTGTGGGCTTTGAAATGGGTT
1 GCCACTGAC-T-TGTGGGCTTTGAAA--GGAT
* * *
584272 GCCACCGACTTGTATGGGCTTTCAAATGAGTT
1 GCCACTGACTTG--TGGGCTTTGAAA-G-GAT
* * * * *
584304 ACCCCCGACTTATGTGGGCTTTCAAATGAGTT
1 GCCACTGAC-T-TGTGGGCTTTGAAA-G-GAT
**
584336 GCCA-TCGACTTGTGTGGGCTTTGAAATAAT
1 GCCACT-GAC-T-TGTGGGCTTTGAAAGGAT
* ** *
584366 GCTACTGACTTGTGGGCTTAAAAAGGGGT
1 GCCACTGACTTGTGGGCTTTGAAA-GGAT
* *
584395 GCCACTGACTTGTGGGCTTTGGAAGGGT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* * ** *
584423 GTCACTGAATTGTGGGCTTAAAAAAGGGT
1 GCCACTGACTTGTGGGCTT-TGAAAGGAT
* **
584452 GCCACTGACTTATGGGCTTAAAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* * * * *
584480 GTCAC-GAAGTTGTGGACTTTGGAAGGGT
1 GCCACTG-ACTTGTGGGCTTTGAAAGGAT
**
584508 GCCACTGACTTGTGGGCTTAAAAAGGAT
1 GCCACTGACTTGTGGGCTTTGAAAGGAT
* * *
584536 GCCAC-GAAGTTGTGGAC-TTAAAAGGAT
1 GCCACTG-ACTTGTGGGCTTTGAAAGGAT
584563 GCCAC
1 GCCAC
584568 GAAGTTGTGG
Statistics
Matches: 1191, Mismatches: 170, Indels: 105
0.81 0.12 0.07
Matches are distributed among these distances:
25 21 0.02
27 16 0.01
28 399 0.34
29 354 0.30
30 94 0.08
31 91 0.08
32 200 0.17
33 9 0.01
34 7 0.01
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
GCCACTGACTTGTGGGCTTTGAAAGGAT
Found at i:583781 original size:32 final size:31
Alignment explanation
Indices: 583506--584362 Score: 512
Period size: 32 Copynumber: 28.5 Consensus size: 31
583496 CACCACTAAC
* *
583506 GTGTGGGCTTTGAGAA-GGATGCCACTGAC-T
1 GTGTGGGCTTTGA-AATGGTTGCCACCGACTT
* * * *
583536 -TGTGGGCTTTGAAA-GGATGCTACTGATTT
1 GTGTGGGCTTTGAAATGGTTGCCACCGACTT
* *
583565 GTGTGGGCTTTGAGAA-GGATGCCACTGAC-T
1 GTGTGGGCTTTGA-AATGGTTGCCACCGACTT
* *
583595 -TGTGGGCTTTGAGAA-GGATGCCACTGAC-T
1 GTGTGGGCTTTGA-AATGGTTGCCACCGACTT
* * *
583624 -TGTGGGCTTT-AAGAAGGATGCCACTGAC-T
1 GTGTGGGCTTTGAA-ATGGTTGCCACCGACTT
* * *
583653 -TGTGGGCTTTGAGAA-GGATGCTACTGAC-T
1 GTGTGGGCTTTGA-AATGGTTGCCACCGACTT
* **
583682 -TGTGGGCTTTGAGAA-GGATGCCACTAAC-T
1 GTGTGGGCTTTGA-AATGGTTGCCACCGACTT
* **
583711 -TGTGGGCTTTGAAA-GGATGCCACTAAC-T
1 GTGTGGGCTTTGAAATGGTTGCCACCGACTT
583739 -TGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 GTGTGGGCTTTGAAAT-GGTTGCCACCGACTT
* *
583770 GTGTGGTCTTTGAAATGGGTTGCCATCGACTT
1 GTGTGGGCTTTGAAAT-GGTTGCCACCGACTT
* * *
583802 ATGTGGGCTTTCAAATAGGTTACCACCGACTT
1 GTGTGGGCTTTGAAAT-GGTTGCCACCGACTT
**
583834 GTGTGGGCTTTGAAATGGGTTGCCGTCGACTT
1 GTGTGGGCTTTGAAAT-GGTTGCCACCGACTT
* *
583866 GTGTGGGCTTTCAAATGAGTTACCACCGACTT
1 GTGTGGGCTTTGAAATG-GTTGCCACCGACTT
* ** **
583898 GTGTGGGCTTTAAAAT-AATGCCACTAAC-T
1 GTGTGGGCTTTGAAATGGTTGCCACCGACTT
* * **
583927 -TATGGGCTTTGAGAA-GGATGCCATTGAC-T
1 GTGTGGGCTTTGA-AATGGTTGCCACCGACTT
* * *
583956 -TGTAGGCTTTGAAA-GGATGCCACTGAC-T
1 GTGTGGGCTTTGAAATGGTTGCCACCGACTT
* * * **
583984 -TGTGGGCTTGGAAA-GGATGACATTGAC-T
1 GTGTGGGCTTTGAAATGGTTGCCACCGACTT
* * *
584012 -TGTGGGCTTTGAAA-GGATGCCACTGATTT
1 GTGTGGGCTTTGAAATGGTTGCCACCGACTT
* * * *
584041 GTATGGGCTTTGAGAA-AGATGCCACTGAC-T
1 GTGTGGGCTTTGA-AATGGTTGCCACCGACTT
* *
584071 -TGTGGGCTTTGAGAA-GGATGCCACTGAC-T
1 GTGTGGGCTTTGA-AATGGTTGCCACCGACTT
* *
584100 -TGTGGGCTTTGAGAA-GGATGCCACTGAC-T
1 GTGTGGGCTTTGA-AATGGTTGCCACCGACTT
* * *
584129 -TGTGGGCTTTGAAA-AGATGCCACTGAC-T
1 GTGTGGGCTTTGAAATGGTTGCCACCGACTT
*
584157 -TATGGGCTTTGAAATGGGTTGCCACCGACTT
1 GTGTGGGCTTTGAAAT-GGTTGCCACCGACTT
*
584188 GTGTGGGCTTTGGAATGGTTGCCACCGACTT
1 GTGTGGGCTTTGAAATGGTTGCCACCGACTT
* * * ** *
584219 CTATGGGCTTTCAAATGGGTTAACACCAACTT
1 GTGTGGGCTTTGAAAT-GGTTGCCACCGACTT
584251 GTGTGGGCTTTGAAATGGGTTGCCACCGACTT
1 GTGTGGGCTTTGAAAT-GGTTGCCACCGACTT
* * * *
584283 GTATGGGCTTTCAAATGAGTTACCCCCGACTT
1 GTGTGGGCTTTGAAATG-GTTGCCACCGACTT
* * *
584315 ATGTGGGCTTTCAAATGAGTTGCCATCGACTT
1 GTGTGGGCTTTGAAATG-GTTGCCACCGACTT
584347 GTGTGGGCTTTGAAAT
1 GTGTGGGCTTTGAAAT
584363 AATGCTACTG
Statistics
Matches: 718, Mismatches: 86, Indels: 44
0.85 0.10 0.05
Matches are distributed among these distances:
27 1 0.00
28 145 0.20
29 220 0.31
30 54 0.08
31 58 0.08
32 240 0.33
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.31
Consensus pattern (31 bp):
GTGTGGGCTTTGAAATGGTTGCCACCGACTT
Found at i:584513 original size:418 final size:421
Alignment explanation
Indices: 583138--584540 Score: 592
Period size: 418 Copynumber: 3.4 Consensus size: 421
583128 CACTGACTTC
* ** * *
583138 TGTGGGCTTTG-AAAGGATGCCACCAACTTATGGGCTTTG-AAAGGATGCCACTAACTTG-TGGG
1 TGTGGGCTTTGAAAAGGATGACACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGATGGG
* * * *
583200 CCTTG-AAAGGATGCCACTGACTTGTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCTTTGA-
66 CTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCTACTGACTTGTGGGCTTTGAG
* * * * * * * * *
583262 AAAGATGCCATTGATTTGTGTGGTCTTTGAGAAGGATGCCATTGACTTGTGGGCTTTGAGAA-CG
131 AAGGATGCCACTAACTTGTG-GG-CTTTGA-AAAGATGCCACTAACTTATGGGCTTTGA-AAGGG
* * * * *** * *
583326 ATGCCA-CTAATT-TGTG-GG-CTTTGAAA-GGATGCCATTAACTTGT-T----TTT-GAA-AGG
192 TTGCCACCGACTTGTGTGTGGTCTTTGAAATGGTTGCCACCGACTTATATGGGCTTTCAAATAGG
* ** ** * * ** * * *
583379 ATGCCACTTACTT-T-TGGGCTTTGAAA--GGATACCACTAATTTGTGTGGGCTTTGAGAA-GA-
257 TTAACACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTATGGGCTTTCA-AATGAG
* * * * * * * **
583438 ATGCCACTGAC-T-TGTGGGCTTTGAAAA-GATGCCACTAACTTGTGGGCTTTAAGAAGGACACC
321 TTACCACCGACTTATGTGGGCTTT-AAAATAATGCCACCAACTTATGGGCTTTGAGAAGGATGCC
* * * *
583500 ACTAACGTGTGGGCTTTGAGAAGGATGCCACTGA-CT-
385 ATTGACTTGTAGGCTTTGA-AAGGATGCCACTGATCTG
* *
583536 TGTGGGCTTTG-AAAGGATG-CTACTGATTTGTGTGGGCTTTGAGAAGGATGCCACTGACTTG-T
1 TGTGGGCTTTGAAAAGGATGAC-ACTGA-CT-TGTGGGCTTTGAAAAGGATGCCACTGACTTGAT
* * * *
583598 GGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTAAGAAGGATGCCACTGACTTGTGGGCTTT
63 GGGCTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCTACTGACTTGTGGGCTTT
* * * *
583663 GAGAAGGATGCTACTGACTTGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGAAA-GG
128 GAGAAGGATGCCACTAACTTGTGGGCTTTGA-AAAGATGCCACTAACTTATGGGCTTTGAAAGGG
* ** * * * * *
583727 ATGCCACTAAC-T-TGTG-GG-CTTTGAAATGGGTTGCCACCGACTTGTGTGGTCTTTGAAATGG
192 TTGCCACCGACTTGTGTGTGGTCTTTGAAAT-GGTTGCCACCGACTTATATGGGCTTTCAAATAG
** * * * * * * * * *
583788 GTTGCCATCGACTTATGTGGGCTTTCAAATAGGTTACCACCGACTTGTGTGGGCTTTGAAATGGG
256 GTTAACACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTATGGGCTTTCAAATGAG
* ** * * * * * * * **
583853 TTGCCGTCGACTTGTGTGGGCTTTCAAATGAGTTACCACCGACTTGTGTGGGCTTT-AAAATAAT
321 TTACCACCGACTTATGTGGGCTTTAAAAT-A-ATGCCACCAAC-T-TATGGGCTTTGAGAAGGAT
* * * * *
583917 GCCACTAACTTATGGGCTTTGAGAAGGATGCCATTGA-CT-
382 GCCATTGACTTGTAGGCTTTGA-AAGGATGCCACTGATCTG
* * * * *
583956 TGTAGGCTTTG-AAAGGATGCCACTGACTTGTGGGC-TTGGAAAGGATGACATTGACTTG-TGGG
1 TGTGGGCTTTGAAAAGGATGACACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGATGGG
* * * *
584018 CTTTG-AAAGGATGCCACTGATTTGTATGGGCTTTGAGAAAGATGCCACTGACTTGTGGGCTTTG
66 CTTTGAAAAAGATGCCACTGACTTG--TGGGCTTTGAGAAGGATGCTACTGACTTGTGGGCTTTG
* * * * * *
584082 AGAAGGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTGACTTGTGGGCTTTGAAA-AGA
129 AGAAGGATGCCACTAACTTGTGGGCTTTGA-AAAGATGCCACTAACTTATGGGCTTTGAAAGGGT
* * * * **
584146 TGCCACTGAC-T-TATG-GG-CTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAAT-GG
193 TGCCACCGACTTGTGTGTGGTCTTTGAAAT-GGTTGCCACCGACTTATATGGGCTTTCAAATAGG
** * * * * ** * * * *
584206 TTGCCACCGACTTCTATGGGCTTTCAAATGGGTTAACACCAACTTGTGTGGGCTTTGAAATGGGT
257 TTAACACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTATGGGCTTTCAAATGAGT
* * * * * * * * * *
584271 TGCCACCGACTTGTATGGGCTTTCAAATGAGTTACCCCCGACTTATGTGGGCTTTCA-AATGAGT
322 TACCACCGACTTATGTGGGCTTTAAAAT-A-ATGCCACCAACTTA--TGGGCTTTGAGAA-G-GA
* * ** *
584335 TGCCATCGACTTGTGTGGGCTTTGAAATAATGCTACTGA-CT-
381 TGCCATTGAC-T-TGTAGGCTTTGAAAGGATGCCACTGATCTG
* * * * * * *
584376 TGTGGGC-TTAAAAAGGGGTGCCACTGACTTGTGGGCTTTG-GAAGGGTGTCACTGAATTG-TGG
1 TGTGGGCTTTGAAAA-GGATGACACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGATGG
* * * * * * *
584438 GC-TTAAAAAAGGGTGCCACTGACTTATGGGC-TTAAAAAGGATG-TCAC-GAAGTTGTGGACTT
65 GCTTTGAAAAA-GATGCCACTGACTTGTGGGCTTTGAGAAGGATGCT-ACTG-ACTTGTGGGCTT
* * *
584499 TG-GAAGGGTGCCACTGACTTGTGGGC-TTAAAAAGGATGCCAC
127 TGAGAAGGATGCCACTAACTTGTGGGCTTTGAAAA-GATGCCAC
584541 GAAGTTGTGG
Statistics
Matches: 842, Mismatches: 115, Indels: 77
0.81 0.11 0.07
Matches are distributed among these distances:
397 1 0.00
398 22 0.03
399 1 0.00
400 10 0.01
401 49 0.06
402 61 0.07
403 42 0.05
404 17 0.02
408 3 0.00
409 2 0.00
410 11 0.01
411 1 0.00
412 11 0.01
413 2 0.00
414 25 0.03
415 8 0.01
416 24 0.03
417 158 0.19
418 183 0.22
419 40 0.05
420 92 0.11
421 64 0.08
422 15 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (421 bp):
TGTGGGCTTTGAAAAGGATGACACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGATGGG
CTTTGAAAAAGATGCCACTGACTTGTGGGCTTTGAGAAGGATGCTACTGACTTGTGGGCTTTGAG
AAGGATGCCACTAACTTGTGGGCTTTGAAAAGATGCCACTAACTTATGGGCTTTGAAAGGGTTGC
CACCGACTTGTGTGTGGTCTTTGAAATGGTTGCCACCGACTTATATGGGCTTTCAAATAGGTTAA
CACCAACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTATGGGCTTTCAAATGAGTTACC
ACCGACTTATGTGGGCTTTAAAATAATGCCACCAACTTATGGGCTTTGAGAAGGATGCCATTGAC
TTGTAGGCTTTGAAAGGATGCCACTGATCTG
Found at i:584524 original size:56 final size:57
Alignment explanation
Indices: 584375--584831 Score: 266
Period size: 55 Copynumber: 8.2 Consensus size: 57
584365 TGCTACTGAC
* * *** *
584375 TTGTGGGCTTAAAAAGGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGTCACTGAA-
1 TTGTGGACTTAAAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGTCAC-GAAG
* *
584432 TTGTGGGCTTAAAAAAGGGTGCCACTGACTTATGGGCTTAAAAAGGATGTCACGAAG
1 TTGTGGACTTAAAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGTCACGAAG
*** *
584489 TTGTGGACTT-TGGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGCCACGAAG
1 TTGTGGACTTAAAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGTCACGAAG
* * * * * *
584545 TTGTGGACTT--AAAAGGATGCCAC-GAAGTTGTGGACAT-AAAA-GAGTGCCACAAAG
1 TTGTGGACTTAAAAAAGGGTGCCACTG-ACTTGTGGGCTTAAAAAGGA-TGTCACGAAG
* * * * * * * *
584599 TTGTAGACTT--AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAG
1 TTGTGGACTTAAAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGTCACGAAG
* * ** * * * * * * * *
584654 TTATGGACTT-GAAACTGATGCCACGGAGTTATGGACTT-AAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGTCACGAAG
* * ** *
584709 TTGTGGACTT--AAAAGGATGCCACAT-AGTTGTGAACTTAAAAAGG-TGCCACAGAA-
1 TTGTGGACTTAAAAAAGGGTGCCAC-TGACTTGTGGGCTTAAAAAGGATGTCAC-GAAG
* * * * * * * * * *
584763 TGGTGGACTT-TAAAAGGATGCCACGGAGTTGTGGACTT-TAAAGGGTGTCATGGAG
1 TTGTGGACTTAAAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGTCACGAAG
584818 TTGTGGACTTAAAA
1 TTGTGGACTTAAAA
584832 GGATGCCATG
Statistics
Matches: 336, Mismatches: 49, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
53 2 0.01
54 89 0.26
55 109 0.32
56 80 0.24
57 56 0.17
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.25
Consensus pattern (57 bp):
TTGTGGACTTAAAAAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGTCACGAAG
Found at i:584566 original size:27 final size:27
Alignment explanation
Indices: 584472--584889 Score: 380
Period size: 27 Copynumber: 15.2 Consensus size: 27
584462 TATGGGCTTA
*
584472 AAAAGGATGTCACGAAGTTGTGGACTTT
1 AAAAGGATGCCACGAAGTTGTGGAC-TT
** * * *
584500 GGAAGGGTGCCACTG-ACTTGTGGGCTT
1 AAAAGGATGCCAC-GAAGTTGTGGACTT
584527 AAAAAGGATGCCACGAAGTTGTGGACTT
1 -AAAAGGATGCCACGAAGTTGTGGACTT
*
584555 AAAAGGATGCCACGAAGTTGTGGACAT
1 AAAAGGATGCCACGAAGTTGTGGACTT
* *
584582 AAAA-GAGTGCCACAAAGTTGTAGACTT
1 AAAAGGA-TGCCACGAAGTTGTGGACTT
* *
584609 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGATGCCACGAAGTTGTGGAC-TT
* * *
584637 AAAAGAATGCCACGGAGTTATGGACTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
** * *
584664 GAAACTGATGCCACGGAGTTATGGACTT
1 -AAAAGGATGCCACGAAGTTGTGGACTT
* *
584692 AAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
*
584719 AAAAGGATGCCAC-ATAGTTGTGAACTT
1 AAAAGGATGCCACGA-AGTTGTGGACTT
*
584746 AAAAAGG-TGCCACAGAA-TGGTGGACTTT
1 -AAAAGGATGCCAC-GAAGTTGTGGAC-TT
*
584774 AAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
* * * * *
584801 TAAAGGGTGTCATGGAGTTGTGGACTT
1 AAAAGGATGCCACGAAGTTGTGGACTT
*
584828 AAAAGGATGCCATGAAGTTGTGGACTTT
1 AAAAGGATGCCACGAAGTTGTGGAC-TT
* *
584856 GAAAAGAAATGCCACTGAA-TCGTGGACTT
1 -AAAAG-GATGCCAC-GAAGTTGTGGACTT
*
584885 TAAAG
1 AAAAG
584890 AGGTCACAAT
Statistics
Matches: 324, Mismatches: 48, Indels: 36
0.79 0.12 0.09
Matches are distributed among these distances:
26 2 0.01
27 183 0.56
28 114 0.35
29 9 0.03
30 13 0.04
31 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (27 bp):
AAAAGGATGCCACGAAGTTGTGGACTT
Found at i:584647 original size:109 final size:109
Alignment explanation
Indices: 584429--584889 Score: 431
Period size: 109 Copynumber: 4.2 Consensus size: 109
584419 GGGTGTCACT
* * * * * * * * *
584429 GAATTGTGGGCTTAAAAAAGGGTGCCACTGACTTATGGGCTTAAAAAGGATGTCACGAAGTTGTG
1 GAATTGTGGACTT--AAAAGGATGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTG
** * * * * *
584494 GACTTTGGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATGCCAC-
63 GAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGAATGCCACA
* * * ** *
584541 GAAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGACATAAAAGAGTGCCACAAAGTTGTAGA
1 GAA-TTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* * *
584606 CTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACG
65 CTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGAATGCCACA
* * ** *
584651 GAGTTATGGACTTGAAACTGATGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGA
1 GAATTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
** * *
584716 CTTAAAAGGATGCCACATAGTTGTGAACTTAAAAAG-GTGCCACA
65 CTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGAATGCCACA
* * * *
584760 GAATGGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAGGGTGTCATGGAGTTGTGGA
1 GAATTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* * * *
584825 CTTAAAAGGATGCCATGAAGTTGTGGACTTTGAAAAGAAATGCCACT
65 CTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAAG-AATGCCACA
* *
584872 GAATCGTGGACTTTAAAG
1 GAATTGTGGACTTAAAAG
584890 AGGTCACAAT
Statistics
Matches: 286, Mismatches: 56, Indels: 15
0.80 0.16 0.04
Matches are distributed among these distances:
109 128 0.45
110 104 0.36
111 26 0.09
112 19 0.07
113 9 0.03
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (109 bp):
GAATTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGAATGCCACA
Found at i:584648 original size:137 final size:136
Alignment explanation
Indices: 584472--584852 Score: 460
Period size: 137 Copynumber: 2.8 Consensus size: 136
584462 TATGGGCTTA
* * * ** * * * *
584472 AAAAGGATGTCACGAAGTTGTGGACTTTGGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGATG
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT-AAAAGGATG
*
584537 CCACGAAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGACATAAAA-GAGTGCCACAAAGTT
65 CCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGACATAAAAGGA-TGCCACAAAGTT
584601 GT-AGACTT
129 GTGA-ACTT
* * **
584609 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAATGCCACGGAGTTATGGACTTGAAACTGATG
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT-AAAAGGATG
* * * * *
584674 CCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACATAGTTG
65 CCACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGACATAAAAGGATGCCACAAAGTTG
584739 TGAACTT
130 TGAACTT
* * * * * * *
584746 AAAAAGGTGCCACAGAATGGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAGGGTGT
1 AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGC
* *
584811 CATGGAGTTGTGGACTTAAAAGGATGCCATGAAGTTGTGGAC
66 CACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGAC
584853 TTTGAAAAGA
Statistics
Matches: 206, Mismatches: 36, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
136 42 0.20
137 161 0.78
138 3 0.01
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (136 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGC
CACGGAGTTGTGGACTTAAAAGGATGCCACGAAGTTGTGGACATAAAAGGATGCCACAAAGTTGT
GAACTT
Found at i:586491 original size:131 final size:131
Alignment explanation
Indices: 586257--586649 Score: 687
Period size: 131 Copynumber: 3.0 Consensus size: 131
586247 ATATCTACAC
* * * *
586257 TCATACTTCTTAGACAAATTTTCATTTGCCCCCAAATATAGGTAGTGATCTTTGATCAGGGTGTC
1 TCATACTTCTTAGAAAAATTTTCATTTGCCCCCAAATGTAGGTAGTGATCCTTGATCAGGGTTTC
*
586322 AAAAGAAAAAATTTGTCAGGCTTAAATAGGGTGGCAAAGGATTTTTTTTTAAGAGAGGATGATGA
66 AAAAGAAAAAATTTGTCAGGCTTAAATGGGGTGGCAAAGGATTTTTTTTTAAGAGAGGATGATGA
586387 A
131 A
586388 TCATACTTCTTAGAAAAATTTTCATTTGCCCCCAAATGTAGGTAGTGATCCTTGATCAGGGTTTC
1 TCATACTTCTTAGAAAAATTTTCATTTGCCCCCAAATGTAGGTAGTGATCCTTGATCAGGGTTTC
* * *
586453 AAAAGAAAAAATTTGTCAGGCTTAAATGGGGTAGCAAAGGATTTTTTTTTAAAAGAAGATGATGA
66 AAAAGAAAAAATTTGTCAGGCTTAAATGGGGTGGCAAAGGATTTTTTTTTAAGAGAGGATGATGA
586518 A
131 A
* *
586519 TCATACTTCTTAGATAAATTTTCATTTGCCCCCAAATGTAGGTAGTAATCCTTGATCAGGGTTTC
1 TCATACTTCTTAGAAAAATTTTCATTTGCCCCCAAATGTAGGTAGTGATCCTTGATCAGGGTTTC
*
586584 AAAAGAAAAAATTTGTTAGGCTTAAATGGGGTGGCAAAGGATTTTTTTTTAAGAGAGGATGATGA
66 AAAAGAAAAAATTTGTCAGGCTTAAATGGGGTGGCAAAGGATTTTTTTTTAAGAGAGGATGATGA
586649 A
131 A
586650 AGAAGGCCAT
Statistics
Matches: 248, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
131 248 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (131 bp):
TCATACTTCTTAGAAAAATTTTCATTTGCCCCCAAATGTAGGTAGTGATCCTTGATCAGGGTTTC
AAAAGAAAAAATTTGTCAGGCTTAAATGGGGTGGCAAAGGATTTTTTTTTAAGAGAGGATGATGA
A
Found at i:606620 original size:79 final size:79
Alignment explanation
Indices: 606445--606630 Score: 207
Period size: 79 Copynumber: 2.4 Consensus size: 79
606435 CGGTGTTCTG
* *
606445 AAAATAAAACCGGGGTTGGAGTATCCCCTCGAAAATAATAGGGTTGGAGTATCCCTGATTATAGA
1 AAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAATAGGGTTGGAGTATCCCTGATTATAGA
606510 AAATCGATATTTCA
66 AAATCGATATTTCA
* * * * * * *
606524 AAAATAAAATTGAGGTTGGAGTATCCCTTCAAAAATACTGGGGTTGGAGTAT-CATCGATTGT-G
1 AAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAATAGGGTTGGAGTATCCCT-GATTATAG
*
606587 AAAAATCGATGCTTT-A
65 -AAAATCGAT-ATTTCA
* **
606603 GAAATAAGGTCGGGGTTGGAGTATCCCC
1 AAAATAAAATCGGGGTTGGAGTATCCCC
606631 GATTGTGAGA
Statistics
Matches: 88, Mismatches: 16, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
78 3 0.03
79 82 0.93
80 3 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.27
Consensus pattern (79 bp):
AAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAATAGGGTTGGAGTATCCCTGATTATAGA
AAATCGATATTTCA
Found at i:606634 original size:51 final size:51
Alignment explanation
Indices: 606563--606681 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
606553 CAAAAATACT
** * * *
606563 GGGGTTGGAGTATCATCGATTGTGAAAAATCGATGCTTTAGAAATAAGGTC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGTC
* * *
606614 GGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGTC
1 GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGTC
606665 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
606682 TCAGAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGTC
Found at i:606698 original size:28 final size:28
Alignment explanation
Indices: 606664--606737 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 28
606654 GAAATAAAGT
*
606664 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-AATGAAATAA
*
606692 CGGGGTTGGCGTATCCCCAATGAAATAA
1 CGGGGTTGGAGTATCCCCAATGAAATAA
606720 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
606738 GATTGTGAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
27 1 0.02
28 41 0.98
ACGTcount: A:0.24, C:0.23, G:0.31, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCAATGAAATAA
Found at i:606718 original size:158 final size:158
Alignment explanation
Indices: 606563--606867 Score: 378
Period size: 158 Copynumber: 1.9 Consensus size: 158
606553 CAAAAATACT
* ** **
606563 GGGGTTGGAGTATCATCGATTGTGAAAAATCGATGCTTTAGAAATAAGGTCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCACCGATTGTGAAAAATCGATGCTTTAGAAATAAAATCGAAGTTGGAGTATC
* * ** *
606628 CCCGATTGT-GAGAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATCCCCTCAGAAATAA
66 CCCGATTATGGA-AAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATACCCTCAGAAATAA
* *
606692 CGGGGTTGGCGTATCCCCAATGAAATAAC
130 CGGGGTTAGAGTATCCCCAATGAAATAAC
* * * * *
606721 GGGGTTGGAGTATCCCCGATTGTGAACAATTGATGTTTTGGAAATAAAATCGAAGTTGGAGTATC
1 GGGGTTGGAGTATCACCGATTGTGAAAAATCGATGCTTTAGAAATAAAATCGAAGTTGGAGTATC
* ** * * * *
606786 CCTGATTATGGAAAATTGATGTTTTAGAAATAAAACCGGGGTTTGAGTATACCTTTAGAAATAAC
66 CCCGATTATGGAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATACCCTCAGAAATAAC
606851 GGGGTTAGAGTATCCCC
131 GGGGTTAGAGTATCCCC
606868 GACGGTGGAA
Statistics
Matches: 122, Mismatches: 24, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
158 120 0.98
159 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (158 bp):
GGGGTTGGAGTATCACCGATTGTGAAAAATCGATGCTTTAGAAATAAAATCGAAGTTGGAGTATC
CCCGATTATGGAAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATACCCTCAGAAATAAC
GGGGTTAGAGTATCCCCAATGAAATAAC
Found at i:606834 original size:51 final size:51
Alignment explanation
Indices: 606720--606835 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 51
606710 AATGAAATAA
* * *
606720 CGGGGTTGGAGTATCCCCGATTGTGAACAATTGATGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAACAATTGATGTTTTAGAAATAAAAC
** *
606771 CGAAGTTGGAGTATCCCTGATTATGGAA-AATTGATGTTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTAT-GAACAATTGATGTTTTAGAAATAAAAC
*
606822 CGGGGTTTGAGTAT
1 CGGGGTTGGAGTAT
606836 ACCTTTAGAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 52 0.95
52 3 0.05
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAACAATTGATGTTTTAGAAATAAAAC
Found at i:607010 original size:130 final size:130
Alignment explanation
Indices: 606713--607029 Score: 402
Period size: 130 Copynumber: 2.4 Consensus size: 130
606703 TATCCCCAAT
*
606713 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAACAATTGATGTTTTGGAAATAAAATCGAAGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGAAGTT
*** * * * * **
606778 GGAGTATCCCTGATTATGGAAAATTGATGTTTTAGAAATAAAACCGGGGTTTGAGTATACCTTTA
66 GGAGTATCCCTGATTACAAAAAAATGATGCTTTAGAAATAAAACCGAGGTTAGAGTATACCTCGA
* ** * * * **
606843 GAAATAACGGGGTTAGAGTATCCCCGACGGTGGAAAATCGATATTTTGGAAATAAAATCGGGGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGAAGTT
* * *
606908 GGAGTATCCTTGATTACAAAAAAATGATGCTTTAGAAATAAAATCGAGGTTAGAGTATCCCCTCG
66 GGAGTATCCCTGATTACAAAAAAATGATGCTTTAGAAATAAAACCGAGGTTAGAGTAT-ACCTCG
606973 A
130 A
* * *
606974 -AAATAACGGGATTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTGGAAATAAAA
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAA
607030 ACATGAATGA
Statistics
Matches: 156, Mismatches: 30, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
130 152 0.97
131 4 0.03
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (130 bp):
GAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAATCGAAGTT
GGAGTATCCCTGATTACAAAAAAATGATGCTTTAGAAATAAAACCGAGGTTAGAGTATACCTCGA
Found at i:609476 original size:13 final size:13
Alignment explanation
Indices: 609429--609458 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
609419 GTAAACCAAG
*
609429 AATGTATCGATAT
1 AATGTATCGATAC
609442 AATGTATCGATAC
1 AATGTATCGATAC
609455 AATG
1 AATG
609459 AACAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:610289 original size:46 final size:42
Alignment explanation
Indices: 610225--610323 Score: 126
Period size: 46 Copynumber: 2.2 Consensus size: 42
610215 AGGATAAAAG
*
610225 AAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGAACTAGAAGAGAA
1 AAAAAGG-AAATAAAGTGCATCCTGCTCTTTGAGAAC-A-AAG-G-A
* *
610272 AAAAAGGAAATGAAGTGCATCCTGCTCTTTGAGGACAAAGGA
1 AAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGAACAAAGGA
610314 AAAAAGGAAA
1 AAAAAGGAAA
610324 AGGCATCTTG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
42 11 0.22
43 1 0.02
44 3 0.06
45 1 0.02
46 26 0.53
47 7 0.14
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.17
Consensus pattern (42 bp):
AAAAAGGAAATAAAGTGCATCCTGCTCTTTGAGAACAAAGGA
Found at i:610425 original size:61 final size:61
Alignment explanation
Indices: 610363--610597 Score: 296
Period size: 61 Copynumber: 3.9 Consensus size: 61
610353 AAAGGAAAAG
610363 GCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGA-AAA
1 GCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAGAAA
* * * ** *
610423 GGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGCATGGGCTTTGCAAAGAGAAA
1 -GCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAGAAA
* * * * * *
610485 GCATCGTACTCTTTGAGGACTG-GAAGTTGCCGCCAACTCGAGTGGTCTTTGAAAGGAGAAA
1 GCATCCTACTCTTTGAGGACTGAAAAG-TGCCACCAACTCGTGTGGGCTTTGAAAAGAGAAA
* *
610546 GCATCGTACTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGA
1 GCATCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTTGA
610598 GAGGTGTCCA
Statistics
Matches: 149, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
60 2 0.01
61 141 0.95
62 4 0.03
63 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (61 bp):
GCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAGAAA
Found at i:610580 original size:122 final size:122
Alignment explanation
Indices: 610363--610596 Score: 328
Period size: 122 Copynumber: 1.9 Consensus size: 122
610353 AAAGGAAAAG
*
610363 GCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAGGCAT
1 GCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGAGTGGGCTTTGAAAAGAAAAGGCAT
* **
610428 CCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGCATGGGCTTTGCAAAGAGAAA
66 CCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGCATGGGCTTTGCAAAGAGAAA
* * * * *
610485 GCATCGTACTCTTTGAGGACTG-GAAGTTGCCGCCAACTCGAGTGGTCTTTGAAAGGAGAAA-GC
1 GCATCCTACTCTTTGAGGACTGAAAAG-TGCCACCAACTCGAGTGGGCTTTGAAAAGA-AAAGGC
* **
610548 ATCGTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG
64 ATCCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGCATGGGCTTTG
610597 AGAGGTGTCC
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
121 3 0.03
122 92 0.94
123 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (122 bp):
GCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGAGTGGGCTTTGAAAAGAAAAGGCAT
CCTACTCTTTGAGGACTAGAAAATGCCACCAACTTGCATGGGCTTTGCAAAGAGAAA
Found at i:610638 original size:55 final size:55
Alignment explanation
Indices: 610554--610677 Score: 178
Period size: 55 Copynumber: 2.3 Consensus size: 55
610544 AAGCATCGTA
* * * **
610554 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCAG
1 CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGCCTTTAAAAGGCATCCAG
*
610609 CTCTTTGAGGACT-GCAAAATGCCACCAACTTGTGTGGCCTTTAAAAGGCATCCTG
1 CTCTTTGAGGACTAG-AAAATGCCACCAACTTGTGTGGCCTTTAAAAGGCATCCAG
610664 CTCTTTGAGGACTA
1 CTCTTTGAGGACTA
610678 AAGGGTGAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
54 1 0.02
55 60 0.98
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (55 bp):
CTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGCCTTTAAAAGGCATCCAG
Found at i:610785 original size:55 final size:55
Alignment explanation
Indices: 610695--610922 Score: 248
Period size: 55 Copynumber: 4.1 Consensus size: 55
610685 AAAGGAGAGA
* * * *
610695 GCGTCCTGCTCTTTAAGGACTGGGAAGTGCTACCAACCTT-TGTGGGCTTT-AAGAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAA-CTTGTGTGGGCTTTCAA-AG
* * * *
610750 GCATCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTCAAAG
** ** * *
610805 GCGTCCTGCTCTTTGATCACTAAAAAATGCCACCAACTTATGTCGGCTTTCAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTCAAAG
* *
610860 GCGTCTTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGC-TTCGAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTC-AAAG
610915 GCGTCCTG
1 GCGTCCTG
610923 TTTTTTTAGG
Statistics
Matches: 144, Mismatches: 25, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
54 9 0.06
55 133 0.92
56 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (55 bp):
GCGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTCAAAG
Found at i:610812 original size:149 final size:149
Alignment explanation
Indices: 610534--610820 Score: 389
Period size: 149 Copynumber: 1.9 Consensus size: 149
610524 GAGTGGTCTT
* * *
610534 TGAAAGGAGAAAGCATCGTACTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAG
1 TGAAAGGAGAAAGCATCCTACTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAG
**
610599 AGGTGTCCAGCTCTTTGAGGACTGCAAAATGCCACCAACTTGTGTGGCCTTTAAAAGGCATCCTG
66 AGGCATCCAGCTCTTTGAGGACTGCAAAATGCCACCAACTTGTGTGGCCTTTAAAAGGCATCCTG
610664 CTCTTTGAGGACTAAAGGG
131 CTCTTTGAGGACTAAAGGG
* * * * * * *
610683 TGAAAGGAGAGAGCGTCCTGCTCTTTAAGGACTGGGAAGTGCTACCAACCTT-TGTGGGCTTTAA
1 TGAAAGGAGAAAGCATCCTACTCTTTAAGGACTAGAAAATGCCACCAA-CTTGTGTGGGCTTTAA
* * * * *
610747 GAGGCATCCTGCTTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAA-GCGTCC
65 GAGGCATCCAGCTCTTTGAGGACTGCAAAATGCCACCAACTTGTGTGGCCTTT-AAAAGGCATCC
610811 TGCTCTTTGA
129 TGCTCTTTGA
610821 TCACTAAAAA
Statistics
Matches: 119, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
149 112 0.94
150 7 0.06
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (149 bp):
TGAAAGGAGAAAGCATCCTACTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTAAG
AGGCATCCAGCTCTTTGAGGACTGCAAAATGCCACCAACTTGTGTGGCCTTTAAAAGGCATCCTG
CTCTTTGAGGACTAAAGGG
Found at i:610938 original size:110 final size:110
Alignment explanation
Indices: 610694--610922 Score: 275
Period size: 110 Copynumber: 2.1 Consensus size: 110
610684 GAAAGGAGAG
* * *** * * *
610694 AGCGTCCTGCTCTTTAAGGACTGGGAAGTGCTACCAACCTTTGTGGGCTTTAAGAGGCATCCTGC
1 AGCGTCCTGCTCTTTGAGCACTAAAAAATGCCACCAACCTTTGTCGGCTTTAAGAGGCATCCTGC
* *
610759 TTTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAA
66 TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAA
* * *
610804 AGCGTCCTGCTCTTTGATCACTAAAAAATGCCACCAA-CTTATGTCGGCTTTCAA-AGGCGTCTT
1 AGCGTCCTGCTCTTTGAGCACTAAAAAATGCCACCAACCTT-TGTCGGCTTT-AAGAGGCATCCT
*
610867 GCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTCGAAA
64 GCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTCGAAA
*
610914 GGCGTCCTG
1 AGCGTCCTG
610923 TTTTTTTAGG
Statistics
Matches: 101, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
109 7 0.07
110 92 0.91
111 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (110 bp):
AGCGTCCTGCTCTTTGAGCACTAAAAAATGCCACCAACCTTTGTCGGCTTTAAGAGGCATCCTGC
TCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTCGAAA
Found at i:611430 original size:20 final size:20
Alignment explanation
Indices: 611378--611432 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
611368 GTAAACCTAG
611378 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAAC
* * *
611398 AATGTTTTGATACAATGAAT
1 AATGTATCGATACAATGAAC
*
611418 AATGTATCAATACAA
1 AATGTATCGATACAA
611433 ATTGTGAAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:612107 original size:41 final size:42
Alignment explanation
Indices: 611989--612115 Score: 116
Period size: 41 Copynumber: 3.0 Consensus size: 42
611979 TTAGGAGGGG
** * *
611989 AAAGAAATGGAAGAGGTGTCCCACTTTTTGAGGACAAAGCAAA
1 AAAGAAATGGAAGA-GTGTCCTGCTTCTTGAGGACAAAGGAAA
* * * * * *
612032 AGAG-AATGAAATAG-GTCTTGCTCCTTAAGGACAAAGGAAA
1 AAAGAAATGGAAGAGTGTCCTGCTTCTTGAGGACAAAGGAAA
*
612072 AAAGAAAAGGAA-AGTGTCCTGCTTCTTGAGGACAAAGTGAAA
1 AAAGAAATGGAAGAGTGTCCTGCTTCTTGAGGACAAAG-GAAA
612114 AA
1 AA
612116 GAGTACGTCC
Statistics
Matches: 65, Mismatches: 16, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
40 24 0.37
41 25 0.38
42 13 0.20
43 3 0.05
ACGTcount: A:0.43, C:0.13, G:0.25, T:0.19
Consensus pattern (42 bp):
AAAGAAATGGAAGAGTGTCCTGCTTCTTGAGGACAAAGGAAA
Found at i:612382 original size:61 final size:61
Alignment explanation
Indices: 612308--612638 Score: 266
Period size: 61 Copynumber: 5.6 Consensus size: 61
612298 GGGCAAAGGA
* * *
612308 GAAAAGGAAAAGGCATCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTCGTGTGGGCCTT
1 GAAAA-GAAAAGGCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTT
* * *
612370 GAAAAGAAAAGGCATCCTACTCTTTGAGGACTGGAAGGTGCCACCAACTTGCT-TGGGCTTT
1 GAAAAGAAAAGGCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCG-TGTGGGCTTT
* ** * * * * *
612431 GCAAAGAAAAAACATCCTACTATTTGAGGACTG-GAAGTTGCCACCAACTCGAGCGGTCTTT
1 GAAAAGAAAAGGCATCCTACTCTTTGAGGACTGAAAAG-TGCCACCAACTCGTGTGGGCTTT
* * * *
612492 GAAAGGAGAAA-GCATCCTGCTCTTTAAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTT
1 GAAAAGA-AAAGGCATCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTT
** * * *
612553 G---AG---AGGTGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGGGTGGGCTTT
1 GAAAAGAAAAGGCATCCTACTCTTTGAGGACT-GAAAAGTGCCACCAACTCGTGTGGGCTTT
*
612608 ----A-AAAA-GCATCCTTCTCTTTGAGGACT-AAAAG
1 GAAAAGAAAAGGCATCCTACTCTTTGAGGACTGAAAAG
612639 GCAAAAGGAG
Statistics
Matches: 222, Mismatches: 36, Indels: 30
0.77 0.12 0.10
Matches are distributed among these distances:
53 4 0.02
54 2 0.01
55 63 0.28
56 1 0.00
58 1 0.00
60 2 0.01
61 137 0.62
62 10 0.05
63 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.24
Consensus pattern (61 bp):
GAAAAGAAAAGGCATCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTT
Found at i:612625 original size:55 final size:55
Alignment explanation
Indices: 612500--612634 Score: 189
Period size: 55 Copynumber: 2.5 Consensus size: 55
612490 TTGAAAGGAG
* * *
612500 AAAGCATCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGA
1 AAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTAA
* * ** *
612555 GAGGTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTAA
1 AAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTAA
*
612610 AAAGCATCCTTCTCTTTGAGGACTA
1 AAAGCATCCTGCTCTTTGAGGACTA
612635 AAAGGCAAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.28
Consensus pattern (55 bp):
AAAGCATCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGGGTGGGCTTTAA
Found at i:612727 original size:94 final size:95
Alignment explanation
Indices: 612561--612732 Score: 258
Period size: 94 Copynumber: 1.8 Consensus size: 95
612551 TTGAGAGGTG
* *
612561 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTAAAAAGCATCCTTCTCTT
1 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACCTGGGTGGGCTTTAAAAAGCATCCTTCTCTT
612626 TGAGGACT-AAAAGGCAAAAGGAGAGAACA
66 TGAGGACTGAAAAGGCAAAAGGAGAGAACA
* * * * *
612655 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACCTGTGTGGGCTTTAAGAGGCAT-CTTGCTCT
1 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACCTGGGTGGGCTTTAAAAAGCATCCTT-CTCT
612719 TTGAGGACTGAAAA
65 TTGAGGACTGAAAA
612733 ATGCCAGCAA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
93 3 0.04
94 62 0.90
95 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (95 bp):
TCCTACTCTTTGAGGACTGGAAAATGCCACCAACCTGGGTGGGCTTTAAAAAGCATCCTTCTCTT
TGAGGACTGAAAAGGCAAAAGGAGAGAACA
Found at i:612749 original size:55 final size:55
Alignment explanation
Indices: 612653--612892 Score: 250
Period size: 55 Copynumber: 4.4 Consensus size: 55
612643 AAGGAGAGAA
* ** * *
612653 CATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACCTGTGTGGGCTTT-AAGAGG
1 CATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGG
* *
612708 CATCTTGCTCTTTGAGGACTGAAAAATGCCAGCAACTTGTGTGGGCTTTGAAAGG
1 CATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
* * * **
612763 CATCCTGCTCTTTGAGGACTAAAAAATGCCACCAGCTTGTGTCGAATTTGAAAGG
1 CATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
* * * * ** * * *
612818 CGTCCTTCTCTGTAAGGACTGAAAGGTGCCATCAACTGGTGTAGGCTTTGAAAGG
1 CATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
*
612873 CGTCCTGCTCGTTT-AGGACT
1 CATCCTGCTC-TTTGAGGACT
612893 AAAGGGTGAA
Statistics
Matches: 154, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
55 150 0.97
56 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (55 bp):
CATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
Found at i:612766 original size:149 final size:149
Alignment explanation
Indices: 612493--612786 Score: 428
Period size: 149 Copynumber: 2.0 Consensus size: 149
612483 GCGGTCTTTG
* * *
612493 AAAGGAGAAAGCATCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAGAG
1 AAAGGAGAAAGCATCCTACTCTTTAAGGACTAGAAAATGCCACCAACCTGTGTGGGCTTTAAGAG
** * *
612558 GTGTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTAAAAAGCATCCTTCT
66 GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGGGTGGGCTTTAAAAAGCATCCTGCT
612623 CTTTGAGGACTAAAAGGCA
131 CTTTGAGGACTAAAAGGCA
* * * *
612642 AAAGGAGAGAA-CATCCTACTCTTTGAGGACTGGGAAGTGCCACCAACCTGTGTGGGCTTTAAGA
1 AAAGGAGA-AAGCATCCTACTCTTTAAGGACTAGAAAATGCCACCAACCTGTGTGGGCTTTAAGA
* * * * *
612706 GGCATCTTGCTCTTTGAGGACTGAAAAATGCCAGCAACTTGTGTGGGCTTTGAAAGGCATCCTGC
65 GGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGGGTGGGCTTTAAAAAGCATCCTGC
612771 TCTTTGAGGACTAAAA
130 TCTTTGAGGACTAAAA
612787 AATGCCACCA
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
149 126 0.98
150 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (149 bp):
AAAGGAGAAAGCATCCTACTCTTTAAGGACTAGAAAATGCCACCAACCTGTGTGGGCTTTAAGAG
GCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGGGTGGGCTTTAAAAAGCATCCTGCT
CTTTGAGGACTAAAAGGCA
Found at i:612826 original size:204 final size:207
Alignment explanation
Indices: 612441--612843 Score: 503
Period size: 204 Copynumber: 1.9 Consensus size: 207
612431 GCAAAGAAAA
*
612441 AACATCCTACTATTTGAGGACTGGAAGTTGCCACCAACTCGAGCGGTCTTTGAAAGGAGAAAGCA
1 AACATCCTACTATTTGAGGACTGGAAGTTGCCACCAACTCGAGCGGGCTTT-AAAGGAG--AGCA
* **
612506 TCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTT
63 TCCTGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
** * ** * *
612571 TGAGGACTGGAAAATGCCACCAACTTGGGTGGGCTTTAAAAAGCATCCTTCTCTTTGAGGACTAA
128 TGAGGACTAAAAAATGCCACCAACTTGGGTCGAATTTAAAAAGCATCCTTCTCTGTAAGGACTAA
612636 AAGGCAAAAGGAGAG
193 AAGGCAAAAGGAGAG
* * *
612651 AACATCCTACTCTTTGAGGACTGGGAAG-TGCCACCAAC-CTGTGTGGGCTTT-AA-GAG-GCAT
1 AACATCCTACTATTTGAGGACT-GGAAGTTGCCACCAACTC-GAGCGGGCTTTAAAGGAGAGCAT
* * *
612711 CTTGCTCTTTGAGGACT-GAAAAATGCCAGCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
64 CCTGCTCTTTAAGGACTAG-AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTT
* * * * * *
612775 TGAGGACTAAAAAATGCCACCAGCTTGTGTCGAATTTGAAAGGCGTCCTTCTCTGTAAGGACTGA
128 TGAGGACTAAAAAATGCCACCAACTTGGGTCGAATTTAAAAAGCATCCTTCTCTGTAAGGACTAA
612840 AAGG
193 AAGG
612844 TGCCATCAAC
Statistics
Matches: 167, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
203 1 0.01
204 116 0.69
207 3 0.02
208 2 0.01
209 1 0.01
210 39 0.23
211 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (207 bp):
AACATCCTACTATTTGAGGACTGGAAGTTGCCACCAACTCGAGCGGGCTTTAAAGGAGAGCATCC
TGCTCTTTAAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTCTTTGA
GGACTAAAAAATGCCACCAACTTGGGTCGAATTTAAAAAGCATCCTTCTCTGTAAGGACTAAAAG
GCAAAAGGAGAG
Found at i:614087 original size:42 final size:43
Alignment explanation
Indices: 614025--614178 Score: 109
Period size: 42 Copynumber: 3.6 Consensus size: 43
614015 CCTGCTTTTC
*
614025 GAGGACAAAGGAAAAAAGGAAAACGAAA-TGCATCCTCCTCTTT
1 GAGGACAAAAGAAAAAAGGAAAA-GAAAGTGCATCCTCCTCTTT
* * ** * *
614068 GAGGACAAAAG-AAATAGGAAAATAAAGTGTGTCTTGCTCTTT
1 GAGGACAAAAGAAAAAAGGAAAAGAAAGTGCATCCTCCTCTTT
* ** *
614110 GAGGACAAAAGGGAAAAGAA-GAGAATG-AAGTGTGTCCTGCTCTTT
1 GAGGACAAAA--GAAAA-AAGGA-AAAGAAAGTGCATCCTCCTCTTT
* * *
614155 GAGGACTAAGGAGAAAAGGAAAAG
1 GAGGACAAAAGAAAAAAGGAAAAG
614179 GCGTCCTGCT
Statistics
Matches: 89, Mismatches: 15, Indels: 15
0.75 0.13 0.13
Matches are distributed among these distances:
41 3 0.03
42 36 0.40
43 16 0.18
44 1 0.01
45 30 0.34
46 3 0.03
ACGTcount: A:0.43, C:0.12, G:0.27, T:0.18
Consensus pattern (43 bp):
GAGGACAAAAGAAAAAAGGAAAAGAAAGTGCATCCTCCTCTTT
Found at i:614154 original size:45 final size:43
Alignment explanation
Indices: 614057--614203 Score: 139
Period size: 45 Copynumber: 3.5 Consensus size: 43
614047 ACGAAATGCA
* *
614057 TCCTCCTCTTTGAGGACAAAA-GAAATAG--GAAAATAAAGTGTG
1 TCCTGCTCTTTGAGGACAAAAGGAAA-AGAAGAGAAT-AAGTGTG
*
614099 TCTTGCTCTTTGAGGACAAAAGGGAAAAGAAGAGAATGAAGTGTG
1 TCCTGCTCTTTGAGGACAAAA-GGAAAAGAAGAGAAT-AAGTGTG
* * *
614144 TCCTGCTCTTTGAGGAC-TAAGGAGAA-AAG-GAA-AAG-GCG
1 TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGAGAATAAGTGTG
614182 TCCTGCTCTTTGAGGACTAAAA
1 TCCTGCTCTTTGAGGAC-AAAA
614204 AGTGCCACCA
Statistics
Matches: 90, Mismatches: 9, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
38 19 0.21
39 3 0.03
40 2 0.02
41 3 0.03
42 22 0.24
43 7 0.08
44 6 0.07
45 28 0.31
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (43 bp):
TCCTGCTCTTTGAGGACAAAAGGAAAAGAAGAGAATAAGTGTG
Found at i:614247 original size:61 final size:59
Alignment explanation
Indices: 614168--614549 Score: 382
Period size: 61 Copynumber: 6.4 Consensus size: 59
614158 GACTAAGGAG
* *
614168 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACTAAAAA-TGCCACCAACTTGTGTGGGCTTT
* ** *
614229 GAAAAGAAAAGGCATCCTGCTCTTTGAGGACTGGAAGGTGCCACCAATTTGTGTGGGCTTT
1 -AAAAGAAAAGGCATCCTGCTCTTTGAGGACT-AAAAATGCCACCAACTTGTGTGGGCTTT
* * * ** * * * *
614290 GCAAAGAGAAA-GCTTCTTGCTCTTTGAGGACTAGAAGGTGCCACTAACTCGAGTGGTCTTT
1 -AAAAGA-AAAGGCATCCTGCTCTTTGAGGACTA-AAAATGCCACCAACTTGTGTGGGCTTT
* * *
614351 ACAAGGAGAAA-GCATCCTGCTCTTTGAGGACTGGAAAATACCACCAACTTGTGTGGGCTTT
1 A-AAAGA-AAAGGCATCCTGCTCTTTGAGGACT-AAAAATGCCACCAACTTGTGTGGGCTTT
*
614412 ----G-AAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAGGCATCCTGCTCTTTGAGGACT-AAAAATGCCACCAACTTGTGTGGGCTTT
* * *
614467 AAAAGGAAAAGGCGTCCTGCTCTTTGAGGACCAGAAAATGCTACCAACTTGTGTGGGCTTT
1 AAAA-GAAAAGGCATCCTGCTCTTTGAGGACTA-AAAATGCCACCAACTTGTGTGGGCTTT
*
614528 AAAAGGAAAAGGCATCTTGCTC
1 AAAA-GAAAAGGCATCCTGCTC
614550 CTAAGGGACT
Statistics
Matches: 273, Mismatches: 34, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
54 3 0.01
55 49 0.18
56 1 0.00
60 1 0.00
61 210 0.77
62 9 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (59 bp):
AAAAGAAAAGGCATCCTGCTCTTTGAGGACTAAAAATGCCACCAACTTGTGTGGGCTTT
Done.