Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 96 of 103
Found at i:35335192 original size:24 final size:24
Alignment explanation
Indices: 35335165--35335226 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 24
35335155 AAAAAATTTT
35335165 AAAATTTTAATTATAAATTATAA-A
1 AAAATTTTAATTATAAATTA-AATA
*
35335189 AAAA--TTAA--A-AAATTAAATT
1 AAAATTTTAATTATAAATTAAATA
35335208 AAAATTTTAATTATAAATT
1 AAAATTTTAATTATAAATT
35335227 TTTAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
18 2 0.06
19 10 0.32
20 1 0.03
21 4 0.13
22 4 0.13
23 1 0.03
24 9 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AAAATTTTAATTATAAATTAAATA
Found at i:35335213 original size:30 final size:31
Alignment explanation
Indices: 35335153--35335213 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
35335143 AAAATTTAAA
* * * *
35335153 ATAAAAAATTTTAAAATTTTAATTATAAATT
1 ATAAAAAAATTAAAAAATTAAATTATAAATT
35335184 ATAAAAAAATTAAAAAATTAAATTA-AAATT
1 ATAAAAAAATTAAAAAATTAAATTATAAATT
35335214 TTAATTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
ATAAAAAAATTAAAAAATTAAATTATAAATT
Found at i:35335404 original size:20 final size:19
Alignment explanation
Indices: 35335379--35335427 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
35335369 TTTATAAATT
*
35335379 ATTAAAAATAAATATTTTAA
1 ATTAAAAATAAATATTAT-A
35335399 ATTAAAAATTAAATATTATA
1 ATTAAAAA-TAAATATTATA
35335419 A-TAAAAATA
1 ATTAAAAATA
35335428 TCTTTTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 6 0.22
20 10 0.37
21 9 0.33
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
ATTAAAAATAAATATTATA
Found at i:35340865 original size:24 final size:23
Alignment explanation
Indices: 35340815--35340867 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
35340805 AAATAAAAAA
* *
35340815 TTTTAAAATTTTAATTATAAATT
1 TTTTAAAATTATAATTATAAATG
35340838 TTTTAAAATTAATAATTA-ATAATG
1 TTTTAAAATT-ATAATTATA-AATG
35340862 TTTTAA
1 TTTTAA
35340868 TCCTAATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TTTTAAAATTATAATTATAAATG
Found at i:35341348 original size:11 final size:11
Alignment explanation
Indices: 35341334--35341364 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
35341324 ATAATAACTA
35341334 TTTTATTTTAT
1 TTTTATTTTAT
35341345 TTTTATTTTAT
1 TTTTATTTTAT
35341356 TTTT-TTTTA
1 TTTTATTTTA
35341365 CAAAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:35341353 original size:16 final size:15
Alignment explanation
Indices: 35341332--35341364 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
35341322 ATATAATAAC
35341332 TATTTTATTTTATTTT
1 TATTTTATTTT-TTTT
35341348 TATTTTATTTTTTTT
1 TATTTTATTTTTTTT
35341363 TA
1 TA
35341365 CAAAATAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TATTTTATTTTTTTT
Found at i:35342389 original size:19 final size:19
Alignment explanation
Indices: 35342338--35342391 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
35342328 TCTCGGAGTA
*
35342338 AAAAAAATATACAA-TATTT
1 AAAAAAATTTA-AATTATTT
35342357 AAAAAAACTCTTAAATTATTT
1 AAAAAAA-T-TTAAATTATTT
*
35342378 TAAAAAATTTAAAT
1 AAAAAAATTTAAAT
35342392 GAATTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAAAATTTAAATTATTT
Found at i:35353769 original size:22 final size:22
Alignment explanation
Indices: 35353728--35353769 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
35353718 TACTTAATGC
* * *
35353728 TCTCTCTGTCTCAATCTGTTTG
1 TCTCTCTCTCTAAATATGTTTG
35353750 TCTCTCTCTCTAAATATGTT
1 TCTCTCTCTCTAAATATGTT
35353770 GTTGAACTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.26, G:0.10, T:0.50
Consensus pattern (22 bp):
TCTCTCTCTCTAAATATGTTTG
Found at i:35368594 original size:12 final size:12
Alignment explanation
Indices: 35368577--35368610 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
35368567 CTGACCATGG
35368577 TCGTGGTCGTAA
1 TCGTGGTCGTAA
35368589 TCGTGGTCGTAA
1 TCGTGGTCGTAA
35368601 TCGTGGTCGT
1 TCGTGGTCGT
35368611 GGAAAAGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.12, C:0.18, G:0.35, T:0.35
Consensus pattern (12 bp):
TCGTGGTCGTAA
Found at i:35376275 original size:2 final size:2
Alignment explanation
Indices: 35376268--35376292 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35376258 AACGGCAAAT
35376268 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
35376293 GCCTAATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35378464 original size:22 final size:23
Alignment explanation
Indices: 35378380--35378624 Score: 167
Period size: 23 Copynumber: 10.7 Consensus size: 23
35378370 ATGTGTTAGC
* *
35378380 ACATGGTGTGTAACAATTTTATTTA
1 ACATGGCGTGTAACAA-TTT-TTGA
* * *
35378405 ACATGGCATGTAAC-ATGTTTGGT
1 ACATGGCGTGTAACAAT-TTTTGA
*
35378428 ACATGGTGTGTAACAATTTTTGA
1 ACATGGCGTGTAACAATTTTTGA
* *
35378451 A-ATTGCATGTAAC-ATTTTTGA
1 ACATGGCGTGTAACAATTTTTGA
* * *
35378472 ACATGGCGTGCAACATTTTTTAA
1 ACATGGCGTGTAACAATTTTTGA
* * *
35378495 ACATAGTGTGTAACAATTTTTAA
1 ACATGGCGTGTAACAATTTTTGA
* *
35378518 ACATGGCGTGTAATATTTTTTTGA
1 ACATGGCGTGTAACA-ATTTTTGA
* * *
35378542 AC-TTGCATGTAA-TATTTTTGA
1 ACATGGCGTGTAACAATTTTTGA
* * * *
35378563 ACATGACGCGTAACATTTTTTAA
1 ACATGGCGTGTAACAATTTTTGA
* *
35378586 ACATGGCGTGTAATATTTTTTGA
1 ACATGGCGTGTAACAATTTTTGA
* **
35378609 AAATAACGTGTAACAA
1 ACATGGCGTGTAACAA
35378625 CATAACTGAC
Statistics
Matches: 167, Mismatches: 46, Indels: 16
0.73 0.20 0.07
Matches are distributed among these distances:
21 18 0.11
22 24 0.14
23 100 0.60
24 13 0.08
25 12 0.07
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (23 bp):
ACATGGCGTGTAACAATTTTTGA
Found at i:35378507 original size:45 final size:45
Alignment explanation
Indices: 35378380--35378623 Score: 186
Period size: 45 Copynumber: 5.3 Consensus size: 45
35378370 ATGTGTTAGC
* * * * * *
35378380 ACATGGTGTGTAACAATTTTATTTAACATGGCATGTAACATGTTTGGT
1 ACATGGCGTGTAAC-ATTTT-TTAAACATAGCGTGTAACAT-TTTTGA
* * * * *
35378428 ACATGGTGTGTAACAATTTTTGAA-ATTGCATGTAACATTTTTGA
1 ACATGGCGTGTAACATTTTTTAAACATAGCGTGTAACATTTTTGA
* * *
35378472 ACATGGCGTGCAACATTTTTTAAACATAGTGTGTAACAATTTTTAA
1 ACATGGCGTGTAACATTTTTTAAACATAGCGTGTAAC-ATTTTTGA
* * * * *
35378518 ACATGGCGTGTAATATTTTTTTGAAC-TTGCATGTAATATTTTTGA
1 ACATGGCGTGTAACA-TTTTTTAAACATAGCGTGTAACATTTTTGA
* * * *
35378563 ACATGACGCGTAACATTTTTTAAACATGGCGTGTAATATTTTTTGA
1 ACATGGCGTGTAACATTTTTTAAACATAGCGTGTAACA-TTTTTGA
* **
35378609 AAATAACGTGTAACA
1 ACATGGCGTGTAACA
35378624 ACATAACTGA
Statistics
Matches: 161, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
44 33 0.20
45 51 0.32
46 50 0.31
47 13 0.08
48 14 0.09
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (45 bp):
ACATGGCGTGTAACATTTTTTAAACATAGCGTGTAACATTTTTGA
Found at i:35378560 original size:68 final size:69
Alignment explanation
Indices: 35378380--35378606 Score: 196
Period size: 68 Copynumber: 3.3 Consensus size: 69
35378370 ATGTGTTAGC
* * * * ***
35378380 ACATGGTGTGTAACAATTTTATTT-AACATGGCATGTAACATGTTTGGTACATGGTGTGTAACAA
1 ACATGGCGTGTAA-TATTTT-TTTGAACATGGCATGCAACATTTTTTAAACAT-GTGTGTAACAA
*
35378444 TTTTTGA
63 TTTTTAA
* * * *
35378451 A-ATTGCATGTAACA--TTTTTGAACATGGCGTGCAACATTTTTTAAACATAGTGTGTAACAATT
1 ACATGGCGTGTAATATTTTTTTGAACATGGCATGCAACATTTTTTAAACAT-GTGTGTAACAATT
35378513 TTTAA
65 TTTAA
* * * * * * *
35378518 ACATGGCGTGTAATATTTTTTTGAAC-TTGCATGTAATA-TTTTTGAACATGACGCGTAACATTT
1 ACATGGCGTGTAATATTTTTTTGAACATGGCATGCAACATTTTTTAAACATG-TGTGTAACAATT
35378581 TTTAA
65 TTTAA
35378586 ACATGGCGTGTAATATTTTTT
1 ACATGGCGTGTAATATTTTTT
35378607 GAAAATAACG
Statistics
Matches: 128, Mismatches: 23, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
66 3 0.02
67 43 0.34
68 55 0.43
69 9 0.07
70 17 0.13
71 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (69 bp):
ACATGGCGTGTAATATTTTTTTGAACATGGCATGCAACATTTTTTAAACATGTGTGTAACAATTT
TTAA
Found at i:35378619 original size:91 final size:91
Alignment explanation
Indices: 35378444--35378621 Score: 241
Period size: 91 Copynumber: 2.0 Consensus size: 91
35378434 TGTGTAACAA
* * *
35378444 TTTTTGAAATTGCATGTAACATTTTTGAACATGGCGTGCAACATTTTTTAAACATAGTGTGTAAC
1 TTTTTGAAATTGCATGTAACATTTTTGAACATGACGCGCAACATTTTTTAAACATAGCGTGTAAC
**
35378509 AATTTTTAAACATGGCGTGTAATATT
66 AATTTTTAAACATAACGTGTAATATT
* * * * *
35378535 TTTTTGAACTTGCATGTAATATTTTTGAACATGACGCGTAACATTTTTTAAACATGGCGTGTAAT
1 TTTTTGAAATTGCATGTAACATTTTTGAACATGACGCGCAACATTTTTTAAACATAGCGTGTAAC
*
35378600 ATTTTTTGAAA-ATAACGTGTAA
66 AATTTTT-AAACATAACGTGTAA
35378622 CAACATAACT
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
91 72 0.96
92 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (91 bp):
TTTTTGAAATTGCATGTAACATTTTTGAACATGACGCGCAACATTTTTTAAACATAGCGTGTAAC
AATTTTTAAACATAACGTGTAATATT
Found at i:35385532 original size:21 final size:21
Alignment explanation
Indices: 35385506--35385546 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
35385496 TATTGAGTTA
* *
35385506 TTTAATTTTATATTTATTTAC
1 TTTAATTTGATAATTATTTAC
35385527 TTTAATTTGATAATTATTTA
1 TTTAATTTGATAATTATTTA
35385547 TTAGTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
TTTAATTTGATAATTATTTAC
Found at i:35394196 original size:18 final size:19
Alignment explanation
Indices: 35394160--35394197 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
35394150 ACTTGATTTC
35394160 AAATGATTAATTAAACTAA
1 AAATGATTAATTAAACTAA
35394179 AAATGATTAATT-AACTAA
1 AAATGATTAATTAAACTAA
35394197 A
1 A
35394198 TAATTAACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
AAATGATTAATTAAACTAA
Found at i:35394691 original size:34 final size:34
Alignment explanation
Indices: 35394648--35394716 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
35394638 AATAAACCAT
35394648 ACATCATCCATTAATACCAAGCAAGGAAAAATCA
1 ACATCATCCATTAATACCAAGCAAGGAAAAATCA
* *
35394682 ACATCATCCATTAATACCAAGTACGGAAAAATCA
1 ACATCATCCATTAATACCAAGCAAGGAAAAATCA
35394716 A
1 A
35394717 ATATTCAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.23, G:0.09, T:0.19
Consensus pattern (34 bp):
ACATCATCCATTAATACCAAGCAAGGAAAAATCA
Found at i:35399873 original size:26 final size:26
Alignment explanation
Indices: 35399839--35399919 Score: 153
Period size: 26 Copynumber: 3.1 Consensus size: 26
35399829 CAATACTAGA
35399839 AAGATAATTTAGGTCATAATAACTAAT
1 AAGA-AATTTAGGTCATAATAACTAAT
35399866 AAGAAATTTAGGTCATAATAACTAAT
1 AAGAAATTTAGGTCATAATAACTAAT
35399892 AAGAAATTTAGGTCATAATAACTAAT
1 AAGAAATTTAGGTCATAATAACTAAT
35399918 AA
1 AA
35399920 AAACAACATC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 50 0.93
27 4 0.07
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (26 bp):
AAGAAATTTAGGTCATAATAACTAAT
Found at i:35403150 original size:20 final size:20
Alignment explanation
Indices: 35403125--35403197 Score: 56
Period size: 20 Copynumber: 3.3 Consensus size: 20
35403115 TTAGGTCACG
35403125 AATAAAATAAAAATTAGAAT
1 AATAAAATAAAAATTAGAAT
* * *
35403145 AATAAATAATGATTAAGGAAATACAAG
1 AAT-AA-AAT-A--AA--AATTAGAAT
35403172 AATAAAATAAAAATTAGAAT
1 AATAAAATAAAAATTAGAAT
35403192 AATAAA
1 AATAAA
35403198 TAATGATTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
20 15 0.38
21 2 0.05
22 5 0.12
23 1 0.03
24 1 0.03
25 5 0.12
26 2 0.05
27 9 0.22
ACGTcount: A:0.67, C:0.01, G:0.08, T:0.23
Consensus pattern (20 bp):
AATAAAATAAAAATTAGAAT
Found at i:35403178 original size:47 final size:47
Alignment explanation
Indices: 35403124--35403235 Score: 215
Period size: 47 Copynumber: 2.4 Consensus size: 47
35403114 TTTAGGTCAC
35403124 GAATAAAATAAAAATTAGAATAATAAATAATGATTAAGGAAATACAA
1 GAATAAAATAAAAATTAGAATAATAAATAATGATTAAGGAAATACAA
35403171 GAATAAAATAAAAATTAGAATAATAAATAATGATTAAGGAAATACAA
1 GAATAAAATAAAAATTAGAATAATAAATAATGATTAAGGAAATACAA
35403218 GAATAAAATTAAAAATTA
1 GAATAAAA-TAAAAATTA
35403236 AGTTCTAAAC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 55 0.86
48 9 0.14
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (47 bp):
GAATAAAATAAAAATTAGAATAATAAATAATGATTAAGGAAATACAA
Found at i:35403179 original size:28 final size:28
Alignment explanation
Indices: 35403148--35403226 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
35403138 TTAGAATAAT
35403148 AAATAATGATTAAGGAAATACAAGAATA
1 AAATAATGATTAAGGAAATACAAGAATA
**
35403176 AAATAAAAATT-A-G-AAT-----AAT-
1 AAATAATGATTAAGGAAATACAAGAATA
35403195 AAATAATGATTAAGGAAATACAAGAATA
1 AAATAATGATTAAGGAAATACAAGAATA
35403223 AAAT
1 AAAT
35403227 TAAAAATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
19 9 0.24
20 4 0.11
21 1 0.03
22 3 0.08
25 3 0.08
26 1 0.03
27 4 0.11
28 13 0.34
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (28 bp):
AAATAATGATTAAGGAAATACAAGAATA
Found at i:35403943 original size:14 final size:14
Alignment explanation
Indices: 35403924--35403953 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35403914 TCTTTTTCTG
35403924 CATCACCACATCAT
1 CATCACCACATCAT
*
35403938 CATCACCACGTCAT
1 CATCACCACATCAT
35403952 CA
1 CA
35403954 CCATATCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.43, G:0.03, T:0.20
Consensus pattern (14 bp):
CATCACCACATCAT
Found at i:35406447 original size:125 final size:125
Alignment explanation
Indices: 35406285--35406520 Score: 305
Period size: 125 Copynumber: 1.9 Consensus size: 125
35406275 ACAAAAATTT
** * * *
35406285 AAATTTAAATTTTTATTATAATTAATTGACACATGAACTTAATTTAGA-TTATTAACATGTGAAC
1 AAATTTAAATTTTTACAATAATTAATTGACACATGAACTCAATCTA-ACTTATTAACATGTAAAC
* * * * *
35406349 AAAAT-ATTTATTCTAGATCGAATTTGTTTTTCGTTAAAGGTTGATATGATCATTCAGTATA
65 AAAATAACTTATTC-ACATCAAATTCGTTTTTCGTTAAAAGTTGATATGATCATTCAGTATA
** *
35406410 AAATTTAAATTTTTACAATAATTAATTGACATGTGAACTCAATCTAACTTATTAATATGTAAACA
1 AAATTTAAATTTTTACAATAATTAATTGACACATGAACTCAATCTAACTTATTAACATGTAAACA
* *
35406475 AAATAACTTCTTCACATCAAATTCGTTTTTTGTTAAAAGTTGATAT
66 AAATAACTTATTCACATCAAATTCGTTTTTCGTTAAAAGTTGATAT
35406521 ATCTAAACTA
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
124 1 0.01
125 87 0.93
126 6 0.06
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.42
Consensus pattern (125 bp):
AAATTTAAATTTTTACAATAATTAATTGACACATGAACTCAATCTAACTTATTAACATGTAAACA
AAATAACTTATTCACATCAAATTCGTTTTTCGTTAAAAGTTGATATGATCATTCAGTATA
Found at i:35409507 original size:36 final size:36
Alignment explanation
Indices: 35409467--35409538 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
35409457 TGAAGCTATA
35409467 ACGGTTGATGGATTCATGGAGTTGTGGGTTAGCTTC
1 ACGGTTGATGGATTCATGGAGTTGTGGGTTAGCTTC
* *
35409503 ACGGTTGATGGATTCTTGGAGTTGTGGGTTATCTTC
1 ACGGTTGATGGATTCATGGAGTTGTGGGTTAGCTTC
35409539 TTCTTGGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.15, C:0.11, G:0.35, T:0.39
Consensus pattern (36 bp):
ACGGTTGATGGATTCATGGAGTTGTGGGTTAGCTTC
Found at i:35416635 original size:21 final size:21
Alignment explanation
Indices: 35416597--35416666 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
35416587 TCTGTAACTA
*
35416597 GTTTCTAGACATTACGTGATTG
1 GTTT-TAGACATTGCGTGATTG
* *
35416619 GTTTTAGGCATTGCGTGACTG
1 GTTTTAGACATTGCGTGATTG
*
35416640 GTTTTTAGATATTGCGTGATTG
1 G-TTTTAGACATTGCGTGATTG
*
35416662 ATTTT
1 GTTTT
35416667 TAAGCAATGC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 19 0.47
22 21 0.52
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTTTAGACATTGCGTGATTG
Found at i:35416742 original size:23 final size:22
Alignment explanation
Indices: 35416687--35416742 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
35416677 CTTACTAACA
* *
35416687 AGTCACACGATGCCTATCAACT
1 AGTCACACAATGCCTATCAACC
* * *
35416709 GGTTACGCAATGCCATATCAACC
1 AGTCACACAATGCC-TATCAACC
35416732 AGTCACACAAT
1 AGTCACACAAT
35416743 ACTTAAAAAC
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.21
Consensus pattern (22 bp):
AGTCACACAATGCCTATCAACC
Found at i:35416780 original size:21 final size:21
Alignment explanation
Indices: 35416731--35416786 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
35416721 CCATATCAAC
35416731 CAGTCACACAATACTTAAAAA
1 CAGTCACACAATACTTAAAAA
* * **
35416752 CTAGTCACGCAATGCTTAAAGT
1 C-AGTCACACAATACTTAAAAA
35416774 CAGTCACACAATA
1 CAGTCACACAATA
35416787 TCCAAAGTCA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.21
Consensus pattern (21 bp):
CAGTCACACAATACTTAAAAA
Found at i:35418070 original size:2 final size:2
Alignment explanation
Indices: 35418063--35418097 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
35418053 ATACTTAGCA
35418063 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
35418098 AAAATATCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:35418839 original size:34 final size:34
Alignment explanation
Indices: 35418791--35418859 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
35418781 AATAAACCAT
**
35418791 ACATCATCTGTTAATACCAAGCAAGGAAAAATCA
1 ACATCATCCATTAATACCAAGCAAGGAAAAATCA
35418825 ACATCATCCATTAATACCAAGCAAGGAAAAATCA
1 ACATCATCCATTAATACCAAGCAAGGAAAAATCA
35418859 A
1 A
35418860 ATATTCAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.49, C:0.22, G:0.10, T:0.19
Consensus pattern (34 bp):
ACATCATCCATTAATACCAAGCAAGGAAAAATCA
Found at i:35429323 original size:33 final size:33
Alignment explanation
Indices: 35429281--35429343 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
35429271 GTGATCATTA
*
35429281 CTAACTATTATATCCCGTTAGTAAGGCCGTGTG
1 CTAACTATTATATCCCGTTAGCAAGGCCGTGTG
*
35429314 CTAACTATTATATCCTGTTAGCAAGGCCGT
1 CTAACTATTATATCCCGTTAGCAAGGCCGT
35429344 AGAACTAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (33 bp):
CTAACTATTATATCCCGTTAGCAAGGCCGTGTG
Found at i:35443112 original size:20 final size:20
Alignment explanation
Indices: 35443087--35443125 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
35443077 ATGTCTCAAG
*
35443087 TTTTCTTCTATATTATTTTC
1 TTTTCTTCTATACTATTTTC
35443107 TTTTCTTCTATACTATTTT
1 TTTTCTTCTATACTATTTT
35443126 TTTGTAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTCTTCTATACTATTTTC
Found at i:35451836 original size:19 final size:20
Alignment explanation
Indices: 35451814--35451859 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
35451804 CAGACGTAAC
*
35451814 TTTTTTTCTTA-TTTATTTA
1 TTTTTTTCTAATTTTATTTA
35451833 TTTTTTT-TAATTTTATTTA
1 TTTTTTTCTAATTTTATTTA
*
35451852 TTTATTTC
1 TTTTTTTC
35451860 CAACAGACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTCTAATTTTATTTA
Found at i:35456848 original size:18 final size:19
Alignment explanation
Indices: 35456827--35456870 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
35456817 AGATGTAACT
*
35456827 TTTTTTCTTA-TTTATTTA
1 TTTTTTCTAATTTTATTTA
35456845 TTTTTT-TAATTTTATTTA
1 TTTTTTCTAATTTTATTTA
35456863 TTTATTTC
1 TTT-TTTC
35456871 CAACAGACAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 17 0.77
19 3 0.14
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTCTAATTTTATTTA
Found at i:35465052 original size:27 final size:27
Alignment explanation
Indices: 35465014--35465068 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
35465004 ATGTTCTCTC
35465014 TCTTTGAATAGCATATATATTTGTTGT
1 TCTTTGAATAGCATATATATTTGTTGT
35465041 TCTTTGAATAGCATATATATTTGTTGT
1 TCTTTGAATAGCATATATATTTGTTGT
35465068 T
1 T
35465069 AAAATGAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (27 bp):
TCTTTGAATAGCATATATATTTGTTGT
Found at i:35468623 original size:64 final size:64
Alignment explanation
Indices: 35468554--35468683 Score: 251
Period size: 64 Copynumber: 2.0 Consensus size: 64
35468544 TATCGGTTCC
*
35468554 ACTAGATTTCTATCATACAACTAATAGGACCTTTTTCAAATCTTTATGGTACATTTTACTCTAA
1 ACTAGATTTCTATCATACAACTAATAGGACCTTTTTCAAATCTTTATAGTACATTTTACTCTAA
35468618 ACTAGATTTCTATCATACAACTAATAGGACCTTTTTCAAATCTTTATAGTACATTTTACTCTAA
1 ACTAGATTTCTATCATACAACTAATAGGACCTTTTTCAAATCTTTATAGTACATTTTACTCTAA
35468682 AC
1 AC
35468684 AATCATCTGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.34, C:0.19, G:0.07, T:0.40
Consensus pattern (64 bp):
ACTAGATTTCTATCATACAACTAATAGGACCTTTTTCAAATCTTTATAGTACATTTTACTCTAA
Found at i:35473911 original size:16 final size:17
Alignment explanation
Indices: 35473887--35473922 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
35473877 TATTTTGTGT
35473887 TAACATTATAAAAATTA
1 TAACATTATAAAAATTA
35473904 TAAC-TTATAAAAATTA
1 TAACATTATAAAAATTA
35473920 TAA
1 TAA
35473923 TTTTTGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
TAACATTATAAAAATTA
Found at i:35474011 original size:40 final size:40
Alignment explanation
Indices: 35473928--35474063 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 40
35473918 TATAATTTTT
* * * *
35473928 GTTATTTAAGTTTATGTTATTTGTTTGGATCTTTGTGTTTA
1 GTTATTTAAGTTTATATT-GTTGTTTGGATATTTATGTTTA
* *
35473969 GTTATTTAAGTTTATATTGTTATTTGGATATTTATGTATA
1 GTTATTTAAGTTTATATTGTTGTTTGGATATTTATGTTTA
* * *
35474009 GTTATTTAAGTTTATATCGTTGTATGGATATTTATTTTTA
1 GTTATTTAAGTTTATATTGTTGTTTGGATATTTATGTTTA
35474049 GTTATTTAAGTTTAT
1 GTTATTTAAGTTTAT
35474064 GTTTAAGATC
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 67 0.80
41 17 0.20
ACGTcount: A:0.24, C:0.01, G:0.16, T:0.59
Consensus pattern (40 bp):
GTTATTTAAGTTTATATTGTTGTTTGGATATTTATGTTTA
Found at i:35479645 original size:17 final size:17
Alignment explanation
Indices: 35479623--35479657 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
35479613 GGAGGTTTTC
*
35479623 CTCCCCCTAAGTGTGTG
1 CTCCCCATAAGTGTGTG
*
35479640 CTCCCCATTAGTGTGTG
1 CTCCCCATAAGTGTGTG
35479657 C
1 C
35479658 ATAGTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.11, C:0.34, G:0.23, T:0.31
Consensus pattern (17 bp):
CTCCCCATAAGTGTGTG
Found at i:35480565 original size:20 final size:21
Alignment explanation
Indices: 35480540--35480578 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
35480530 GAGCTGCAGT
35480540 AGCTTTTT-TTTCCCCTTAGC
1 AGCTTTTTCTTTCCCCTTAGC
*
35480560 AGCTTTTTCTTTCTCCTTA
1 AGCTTTTTCTTTCCCCTTA
35480579 CCCGATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.10, C:0.28, G:0.08, T:0.54
Consensus pattern (21 bp):
AGCTTTTTCTTTCCCCTTAGC
Found at i:35488266 original size:73 final size:73
Alignment explanation
Indices: 35488132--35488267 Score: 161
Period size: 73 Copynumber: 1.9 Consensus size: 73
35488122 GCAAAATGCT
* * * **
35488132 CTTAGTCGACTAACTTATGTCTTAGTTGACTAAGTTGTCTTTGTTTTCTGTTTCCAGTTTCTGGC
1 CTTAGTCAACTAACTTATGTCTTAGTCGACTAAGTTGTCTTTGTTCTCTGAGTCCAGTTTCTGGC
35488197 AGTTTGCA
66 AGTTTGCA
* *
35488205 CTTAGTCAACTAACTTATTTCTTGGTCGACTAAGTTGGT-TTTG-TCT-TGAAGTCCAGATTTCT
1 CTTAGTCAACTAACTTATGTCTTAGTCGACTAAGTT-GTCTTTGTTCTCTG-AGTCCAG-TTTCT
35488267 G
63 G
35488268 ACAATAGCTT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
71 2 0.04
72 7 0.13
73 42 0.79
74 2 0.04
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (73 bp):
CTTAGTCAACTAACTTATGTCTTAGTCGACTAAGTTGTCTTTGTTCTCTGAGTCCAGTTTCTGGC
AGTTTGCA
Found at i:35495150 original size:22 final size:22
Alignment explanation
Indices: 35495119--35495160 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
35495109 GAAATTGATT
* *
35495119 AGATTGGTTTTTAAGTATTGTG
1 AGATTAGTTTTCAAGTATTGTG
*
35495141 AGATTAGTTTTCAGGTATTG
1 AGATTAGTTTTCAAGTATTG
35495161 CGTGACTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.02, G:0.26, T:0.48
Consensus pattern (22 bp):
AGATTAGTTTTCAAGTATTGTG
Found at i:35495416 original size:22 final size:22
Alignment explanation
Indices: 35495287--35495571 Score: 154
Period size: 22 Copynumber: 12.5 Consensus size: 22
35495277 ATGCCTTACT
35495287 AACTAGTCACGCAATGCCT-TAC
1 AACTAGTCACGCAATGCCTAT-C
* * *
35495309 TAACAAATCACGCAATACCTATC
1 -AACTAGTCACGCAATGCCTATC
* *
35495332 AACTAGTCATGTAATGCCTTATC
1 AACTAGTCACGCAATGCC-TATC
* *
35495355 AAAAACTAGTCACGCAATACCCA--
1 ---AACTAGTCACGCAATGCCTATC
* * *
35495378 AAGTTAGTCATGTAATGCCTATC
1 AA-CTAGTCACGCAATGCCTATC
*
35495401 AACTAGTCACACAATGCCTATC
1 AACTAGTCACGCAATGCCTATC
*
35495423 AATTAGTCACGCAATGCCTTATC
1 AACTAGTCACGCAATGCC-TATC
*
35495446 AGAAACTAGTCACGCAATGCTTTATC
1 ---AACTAGTCACGCAATGC-CTATC
* *
35495472 AAAAACTAGTCACGAAATAACC-A--
1 ---AACTAGTCACGCAAT-GCCTATC
* *
35495495 AAGTCAGTCACGTAATGCCTATC
1 AACT-AGTCACGCAATGCCTATC
*
35495518 AACTAGTCACGCAATGCCCA--
1 AACTAGTCACGCAATGCCTATC
* * **
35495538 AAGTCAGTCACGCAATCCCTAAA
1 AACT-AGTCACGCAATGCCTATC
35495561 AACTAGTCACG
1 AACTAGTCACG
35495572 TAATTCTCAA
Statistics
Matches: 202, Mismatches: 39, Indels: 43
0.71 0.14 0.15
Matches are distributed among these distances:
20 10 0.05
21 38 0.19
22 66 0.33
23 33 0.16
24 1 0.00
25 2 0.01
26 51 0.25
27 1 0.00
ACGTcount: A:0.37, C:0.27, G:0.13, T:0.23
Consensus pattern (22 bp):
AACTAGTCACGCAATGCCTATC
Found at i:35495523 original size:43 final size:43
Alignment explanation
Indices: 35495472--35495571 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
35495462 ATGCTTTATC
* *
35495472 AAAAACTAGTCACGAAATAACCAAAGTCAGTCACGTAATGCCT
1 AAAAACTAGTCACGAAATAACCAAAGTCAGTCACGCAATCCCT
** * **
35495515 ATCAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAATCCCT
1 AAAAACTAGTCACGAAATAACCAAAGTCAGTCACGCAATCCCT
35495558 AAAAACTAGTCACG
1 AAAAACTAGTCACG
35495572 TAATTCTCAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.40, C:0.28, G:0.14, T:0.18
Consensus pattern (43 bp):
AAAAACTAGTCACGAAATAACCAAAGTCAGTCACGCAATCCCT
Found at i:35495596 original size:117 final size:115
Alignment explanation
Indices: 35495352--35495571 Score: 295
Period size: 117 Copynumber: 1.9 Consensus size: 115
35495342 GTAATGCCTT
* * * *
35495352 ATCAAAAACTAGTCACGCAATACCCAAAGTTAGTCATGTAATGCCTATCAACTAGTCACACAATG
1 ATCAAAAACTAGTCACGAAATAACCAAAGTCAGTCACGTAATGCCTATCAACTAGTCACACAATG
* * * **
35495417 CCTATCAATTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCTTT
66 CCCA-CAATCAGTCACGCAATGCCCTA-CAGAAACTAGTCACGCAATGCTAA
*
35495469 ATCAAAAACTAGTCACGAAATAACCAAAGTCAGTCACGTAATGCCTATCAACTAGTCACGCAATG
1 ATCAAAAACTAGTCACGAAATAACCAAAGTCAGTCACGTAATGCCTATCAACTAGTCACACAATG
35495534 CCCA-AAGTCAGTCACGCAAT-CCCTA-A-AAACTAGTCACG
66 CCCACAA-TCAGTCACGCAATGCCCTACAGAAACTAGTCACG
35495572 TAATTCTCAA
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
112 12 0.13
113 1 0.01
115 6 0.06
116 12 0.13
117 63 0.67
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.22
Consensus pattern (115 bp):
ATCAAAAACTAGTCACGAAATAACCAAAGTCAGTCACGTAATGCCTATCAACTAGTCACACAATG
CCCACAATCAGTCACGCAATGCCCTACAGAAACTAGTCACGCAATGCTAA
Found at i:35495785 original size:60 final size:61
Alignment explanation
Indices: 35495671--35495797 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 61
35495661 TAACGAATAT
* * * *
35495671 AAATGCTCAAAACGTTCAAAAGTTTTTCTTCATATATCAAAAATCACTCTAAAATGCTTAA
1 AAATGCTCAAAACGCTCAAAAGGTTTTCTTCATATATCAAAAATCACTCAAAAATGCTCAA
* * * *
35495732 AAATGTTCAAAACGCTC-ACAGGTTTTCTTCGTGTATCAAAAA-CTACTCAAAAATGCTC-A
1 AAATGCTCAAAACGCTCAAAAGGTTTTCTTCATATATCAAAAATC-ACTCAAAAATGCTCAA
35495791 AAATGCT
1 AAATGCT
35495798 TAACTGTTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 8 0.14
60 33 0.59
61 15 0.27
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (61 bp):
AAATGCTCAAAACGCTCAAAAGGTTTTCTTCATATATCAAAAATCACTCAAAAATGCTCAA
Found at i:35496419 original size:15 final size:15
Alignment explanation
Indices: 35496383--35496422 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
35496373 ATAGTGACAA
*
35496383 AATATACTTTGAAGC
1 AATAAACTTTGAAGC
35496398 AAT-AACTTTGAAGC
1 AATAAACTTTGAAGC
35496412 AATAAACTTTG
1 AATAAACTTTG
35496423 TATTCTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (15 bp):
AATAAACTTTGAAGC
Found at i:35501238 original size:45 final size:44
Alignment explanation
Indices: 35501161--35501250 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 44
35501151 GATAACTTGA
* **
35501161 AGTCACACAATCAACCAAGGATGAAAAATTGAATTAATCTTCAT
1 AGTCACAAAATCAACCAAGGATGAAAAATTGAACCAATCTTCAT
* *
35501205 AGTCATCAAAATCAACCAAGGAT-AAGTAGTTGAACCAATCTTCAT
1 AGTCA-CAAAATCAACCAAGGATGAA-AAATTGAACCAATCTTCAT
35501250 A
1 A
35501251 ATCGTAACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
44 7 0.18
45 32 0.82
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.24
Consensus pattern (44 bp):
AGTCACAAAATCAACCAAGGATGAAAAATTGAACCAATCTTCAT
Found at i:35510957 original size:37 final size:37
Alignment explanation
Indices: 35510915--35510988 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
35510905 ACTAACTTAT
35510915 CCACTAACTTAAACGT-GAAATAAACTGACCTTTAATC
1 CCACTAACTTAAACGTAGAAATAAACTGA-CTTTAATC
35510952 CCACTAACTTAAACGTGAGAAATAAACTGACTTTAAT
1 CCACTAACTTAAACGT-AGAAATAAACTGACTTTAAT
35510989 TAAACTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
37 16 0.46
38 7 0.20
39 12 0.34
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (37 bp):
CCACTAACTTAAACGTAGAAATAAACTGACTTTAATC
Found at i:35511192 original size:93 final size:92
Alignment explanation
Indices: 35511084--35511270 Score: 356
Period size: 93 Copynumber: 2.0 Consensus size: 92
35511074 ACTAAAATAA
35511084 TATCTACTTATTATTTTTATAAAACTATAGCTTAATAAATTTAAATGTTTTATATTAAATACTTT
1 TATCTACTTATTATTTTTATAAAACTATAGCTTAATAAATTTAAATGTTTTATATTAAATACTTT
*
35511149 GTGAGGGGTATTACATCCTCCCTTCCT
66 GTGAGGGGTATTACATCCTCCCCTCCT
35511176 TNATCTACTTATTATTTTTATAAAACTATAGCTTAATAAATTTAAATGTTTTATATTAAATACTT
1 T-ATCTACTTATTATTTTTATAAAACTATAGCTTAATAAATTTAAATGTTTTATATTAAATACTT
35511241 TGTGAGGGGTATTACATCCTCCCCTCCT
65 TGTGAGGGGTATTACATCCTCCCCTCCT
35511269 TA
1 TA
35511271 AAAGGAGTTT
Statistics
Matches: 93, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
92 2 0.02
93 91 0.98
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (92 bp):
TATCTACTTATTATTTTTATAAAACTATAGCTTAATAAATTTAAATGTTTTATATTAAATACTTT
GTGAGGGGTATTACATCCTCCCCTCCT
Found at i:35519979 original size:26 final size:23
Alignment explanation
Indices: 35519902--35520190 Score: 183
Period size: 22 Copynumber: 12.4 Consensus size: 23
35519892 ATGCCTTACT
*
35519902 AACTAGTCACGCAATGCCT-TACT
1 AACTAGTCACGCAATGCCTAT-CA
* *
35519925 AACAAGTCACGCAATACCTATC-
1 AACTAGTCACGCAATGCCTATCA
35519947 AACTAGTCACGCAATGCCTTATCA
1 AACTAGTCACGCAATGCC-TATCA
*
35519971 GAAGCTAGTCATGCAATGCCTTATCAAA
1 -AA-CTAGTCACGCAATGCC-TATC--A
* *
35519999 AACTAGTCATGCAATACC---CA
1 AACTAGTCACGCAATGCCTATCA
* * *
35520019 AAGTTAGTCATGTAATGCCTATC-
1 AA-CTAGTCACGCAATGCCTATCA
35520042 AACTAGTCACGCAATGCCTATC-
1 AACTAGTCACGCAATGCCTATCA
*
35520064 AACTAGTCATGCAATGCCCTATCAGA
1 AACTAGTCACGCAATG-CCTATC--A
*
35520090 AACTAGTCACGCAATGCTTTATCAAA
1 AACTAGTCACGCAATGC-CTATC--A
*
35520116 AACTAGTCACGAAATGCC---CA
1 AACTAGTCACGCAATGCCTATCA
* *
35520136 AAGTCAGTCACGTAATGCC---CA
1 AACT-AGTCACGCAATGCCTATCA
* *
35520157 AAGGTCAGTCACGTAATGCCTATC-
1 AA-CT-AGTCACGCAATGCCTATCA
35520181 AACTAGTCAC
1 AACTAGTCAC
35520191 ACAAAGCTTA
Statistics
Matches: 224, Mismatches: 21, Indels: 43
0.78 0.07 0.15
Matches are distributed among these distances:
20 7 0.03
21 30 0.13
22 73 0.33
23 31 0.14
24 4 0.02
25 4 0.02
26 72 0.32
27 2 0.01
28 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (23 bp):
AACTAGTCACGCAATGCCTATCA
Found at i:35520136 original size:117 final size:115
Alignment explanation
Indices: 35519929--35520308 Score: 458
Period size: 117 Copynumber: 3.3 Consensus size: 115
35519919 CTTACTAACA
* * *
35519929 AGTCACGCAATACCTATCAACTAGTCACGCAATGCCTTATCAGAAGCTAGTCATGCAATGCCTTA
1 AGTCACGCAATGCCTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATG-CTTA
* * * *
35519994 TCAAAAACTAGTCATGCAATACCCAAAGTTAGTCATGTAATGCCTATCAACT-
65 TCAAAAACTAGTCACGCAATACCCAAAGTCAGTCACGTAATGCCTA--AAGTC
* *
35520046 AGTCACGCAATGCCTATCAACTAGTCATGCAATGCCCTATCAGAAACTAGTCACGCAATGCTTTA
1 AGTCACGCAATGCCTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGC-TTA
* * *
35520111 TCAAAAACTAGTCACGAAATGCCCAAAGTCAGTCACGTAATGCCCAAAGGTC
65 TCAAAAACTAGTCACGCAATACCCAAAGTCAGTCACGTAATGCCTAAA-GTC
* * * *
35520163 AGTCACGTAATGCCTATCAACTAGTCACACAAAG-CTTAATCAGAAACTAGTCACACAAATGACT
1 AGTCACGCAATGCCTATCAACTAGTCACGCAATGCCTT-ATCAGAAACTAGTCACGC-AATG-CT
* ** * **
35520227 TATTAAAAACTAGTCACGCAATTTCCAAAGTCAGTCACGCAATATCTAAAGTC
63 TATCAAAAACTAGTCACGCAATACCCAAAGTCAGTCACGTAATGCCTAAAGTC
**
35520280 AGTCACGCAATGCCTAAAAACTAGTCACG
1 AGTCACGCAATGCCTATCAACTAGTCACG
35520309 TAATTCTCAA
Statistics
Matches: 227, Mismatches: 30, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
115 2 0.01
116 4 0.02
117 173 0.76
118 47 0.21
119 1 0.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (115 bp):
AGTCACGCAATGCCTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCTTAT
CAAAAACTAGTCACGCAATACCCAAAGTCAGTCACGTAATGCCTAAAGTC
Found at i:35520146 original size:21 final size:22
Alignment explanation
Indices: 35520120--35520176 Score: 98
Period size: 21 Copynumber: 2.6 Consensus size: 22
35520110 ATCAAAAACT
*
35520120 AGTCACGAAATGCCCAAA-GTC
1 AGTCACGTAATGCCCAAAGGTC
35520141 AGTCACGTAATGCCCAAAGGTC
1 AGTCACGTAATGCCCAAAGGTC
35520163 AGTCACGTAATGCC
1 AGTCACGTAATGCC
35520177 TATCAACTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (22 bp):
AGTCACGTAATGCCCAAAGGTC
Found at i:35520210 original size:26 final size:27
Alignment explanation
Indices: 35520181--35520243 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
35520171 AATGCCTATC
*
35520181 AACTAGTCACACAAA-G-CTTAATCAGA
1 AACTAGTCACACAAATGACTT-ATCAAA
*
35520207 AACTAGTCACACAAATGACTTATTAAA
1 AACTAGTCACACAAATGACTTATCAAA
35520234 AACTAGTCAC
1 AACTAGTCAC
35520244 GCAATTTCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 15 0.45
27 15 0.45
28 3 0.09
ACGTcount: A:0.46, C:0.22, G:0.10, T:0.22
Consensus pattern (27 bp):
AACTAGTCACACAAATGACTTATCAAA
Found at i:35520264 original size:21 final size:21
Alignment explanation
Indices: 35520238--35520290 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
35520228 ATTAAAAACT
*
35520238 AGTCACGCAATTTCCAAAGTC
1 AGTCACGCAATATCCAAAGTC
*
35520259 AGTCACGCAATATCTAAAGTC
1 AGTCACGCAATATCCAAAGTC
35520280 AGTCACGCAAT
1 AGTCACGCAAT
35520291 GCCTAAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (21 bp):
AGTCACGCAATATCCAAAGTC
Found at i:35520296 original size:21 final size:21
Alignment explanation
Indices: 35520238--35520297 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
35520228 ATTAAAAACT
*
35520238 AGTCACGCAATTTCC-AAAGTC
1 AGTCACGCAA-TACCTAAAGTC
*
35520259 AGTCACGCAATATCTAAAGTC
1 AGTCACGCAATACCTAAAGTC
*
35520280 AGTCACGCAATGCCTAAA
1 AGTCACGCAATACCTAAA
35520298 AACTAGTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 2 0.06
21 32 0.94
ACGTcount: A:0.37, C:0.27, G:0.15, T:0.22
Consensus pattern (21 bp):
AGTCACGCAATACCTAAAGTC
Found at i:35544512 original size:22 final size:21
Alignment explanation
Indices: 35544480--35544527 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
35544470 TAATCACTGT
* *
35544480 GTGACTTGTTTTTAGGCATTAC
1 GTGA-TTGGTTTTAAGCATTAC
*
35544502 GTGATTGGTTTTAAGTATTAC
1 GTGATTGGTTTTAAGCATTAC
35544523 GTGAT
1 GTGAT
35544528 CGAATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.08, G:0.25, T:0.46
Consensus pattern (21 bp):
GTGATTGGTTTTAAGCATTAC
Found at i:35544643 original size:26 final size:24
Alignment explanation
Indices: 35544593--35544913 Score: 221
Period size: 26 Copynumber: 13.6 Consensus size: 24
35544583 CTTACTAACA
*
35544593 AGTCACGCAATACCTATC--AACT
1 AGTCACGCAATGCCTATCAAAACT
*
35544615 AGTCACGCAATGCCTTATCAGAAGCT
1 AGTCACGCAATGCC-TATCA-AAACT
*
35544641 AGTCATGCAATGCCTTATCAAAAACT
1 AGTCACGCAATGCC-TATC-AAAACT
* **
35544667 AGTCACGCAATACC---CAAAGTT
1 AGTCACGCAATGCCTATCAAAACT
* *
35544688 AGTCATGCGATGCCTATC--AACT
1 AGTCACGCAATGCCTATCAAAACT
35544710 AGTCACGCAATGCCTATC--AACT
1 AGTCACGCAATGCCTATCAAAACT
*
35544732 AGTCATGCAATGCCTTATCAGAAACT
1 AGTCACGCAATGCC-TATCA-AAACT
*
35544758 AGTCACGCAATGCTTTATCAAAAACT
1 AGTCACGCAATGC-CTATC-AAAACT
* *
35544784 AGTCACGAAATGCC---C-AAAGT
1 AGTCACGCAATGCCTATCAAAACT
* * *
35544804 CAATCACGTAATGCC---C-AAAGT
1 -AGTCACGCAATGCCTATCAAAACT
*
35544825 GAGTCACGTAATGCCTATC--AACT
1 -AGTCACGCAATGCCTATCAAAACT
*
35544848 AGTCACACAATGCCTTATCAGAAACT
1 AGTCACGCAATGCC-TATCA-AAACT
*
35544874 AGTTACGCAATGCCTTATCAAAAACT
1 AGTCACGCAATGCC-TATC-AAAACT
35544900 AGTCACGCAATGCC
1 AGTCACGCAATGCC
35544914 CAATGTCAGT
Statistics
Matches: 245, Mismatches: 31, Indels: 42
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.02
21 46 0.19
22 62 0.25
23 15 0.06
24 2 0.01
26 113 0.46
27 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (24 bp):
AGTCACGCAATGCCTATCAAAACT
Found at i:35544805 original size:91 final size:91
Alignment explanation
Indices: 35544609--35544805 Score: 197
Period size: 91 Copynumber: 2.1 Consensus size: 91
35544599 GCAATACCTA
35544609 TCAACTAGTCACGCAATGCCTTATCAGAAGCTAGTCATGCAATGCCTTATCAAAAACTAGTCACG
1 TCAAC-AGTCACGCAATGCCTTATCA-AAGCTAGTCATGCAATGCCTTATCAAAAACTAGTCACG
* ** * **
35544674 CAATACCCAAAGTTAGTCATGCGATGCC
64 CAATACCAAAAACTAGTCACGAAATGCC
*
35544702 TATCAACTAGTCACGCAATGCC-TATC-AA-CTAGTCATGCAATGCCTTATCAGAAACTAGTCAC
1 --TCAAC-AGTCACGCAATGCCTTATCAAAGCTAGTCATGCAATGCCTTATCAAAAACTAGTCAC
*
35544764 GCAATGCTTTATCAAAAACTAGTCACGAAATGCC
63 GCAA-----TACCAAAAACTAGTCACGAAATGCC
35544798 -CAA-AGTCA
1 TCAACAGTCA
35544806 ATCACGTAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
91 42 0.47
92 2 0.02
93 3 0.03
94 4 0.04
95 20 0.22
96 18 0.20
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (91 bp):
TCAACAGTCACGCAATGCCTTATCAAAGCTAGTCATGCAATGCCTTATCAAAAACTAGTCACGCA
ATACCAAAAACTAGTCACGAAATGCC
Found at i:35544816 original size:21 final size:21
Alignment explanation
Indices: 35544786--35544839 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
35544776 CAAAAACTAG
*
35544786 TCACGAAATGCCCAAAGTCAA
1 TCACGTAATGCCCAAAGTCAA
* *
35544807 TCACGTAATGCCCAAAGTGAG
1 TCACGTAATGCCCAAAGTCAA
35544828 TCACGTAATGCC
1 TCACGTAATGCC
35544840 TATCAACTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (21 bp):
TCACGTAATGCCCAAAGTCAA
Found at i:35544874 original size:116 final size:115
Alignment explanation
Indices: 35544593--35544970 Score: 513
Period size: 116 Copynumber: 3.3 Consensus size: 115
35544583 CTTACTAACA
* *
35544593 AGTCACGCAATACCTATCAACTAGTCACGCAATGCCTTATCAGAAGCTAGTCATGCAATGCCTTA
1 AGTCACGCAATACCTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTA
* * * * *
35544658 TCAAAAACTAGTCACGCAATACCCAAAGTTAGTCATGCGATGCCTATCAACT
66 TCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAATGCCTA--AAGT
* * *
35544710 AGTCACGCAATGCCTATCAACTAGTCATGCAATGCCTTATCAGAAACTAGTCACGCAATGCTTTA
1 AGTCACGCAATACCTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTA
* * * *
35544775 TCAAAAACTAGTCACGAAATGCCCAAAGTCAATCACGTAATGCCCAAAGT
66 TCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAATGCCTAAAGT
* * * *
35544825 GAGTCACGTAATGCCTATCAACTAGTCACACAATGCCTTATCAGAAACTAGTTACGCAATGCCTT
1 -AGTCACGCAATACCTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTT
* **
35544890 ATCAAAAACTAGTCACGCAATGCCCAATGTCAGTCACGCAATATCTAAAGT
65 ATCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAATGCCTAAAGT
**
35544941 CAGTCACGCAATACCTAAAAACTAGTCACG
1 -AGTCACGCAATACCTATCAACTAGTCACG
35544971 TAATTCTCAA
Statistics
Matches: 228, Mismatches: 32, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
115 3 0.01
116 127 0.56
117 98 0.43
ACGTcount: A:0.36, C:0.27, G:0.15, T:0.23
Consensus pattern (115 bp):
AGTCACGCAATACCTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTA
TCAAAAACTAGTCACGCAATGCCCAAAGTCAGTCACGCAATGCCTAAAGT
Found at i:35544958 original size:21 final size:21
Alignment explanation
Indices: 35544900--35544959 Score: 84
Period size: 21 Copynumber: 2.9 Consensus size: 21
35544890 ATCAAAAACT
* * *
35544900 AGTCACGCAATGCCCAATGTC
1 AGTCACGCAATACCTAAAGTC
*
35544921 AGTCACGCAATATCTAAAGTC
1 AGTCACGCAATACCTAAAGTC
35544942 AGTCACGCAATACCTAAA
1 AGTCACGCAATACCTAAA
35544960 AACTAGTCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.20
Consensus pattern (21 bp):
AGTCACGCAATACCTAAAGTC
Found at i:35563302 original size:36 final size:35
Alignment explanation
Indices: 35563252--35563344 Score: 93
Period size: 35 Copynumber: 2.6 Consensus size: 35
35563242 TAATTACTAA
*
35563252 TTAAATTAAT-AAAAACAAATATAATAAA-ATTTAAAT
1 TTAAA-TAATCAAAAACAAATATAATAAACA--TAAAC
* **
35563288 TTAAATAATCAAAAACAAAAATCTTAAACATAAAC
1 TTAAATAATCAAAAACAAATATAATAAACATAAAC
35563323 TTAAATAA-CTAAAAACAAATAT
1 TTAAATAATC-AAAAACAAATAT
35563345 CTGGGGAACC
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
34 1 0.02
35 27 0.55
36 20 0.41
37 1 0.02
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (35 bp):
TTAAATAATCAAAAACAAATATAATAAACATAAAC
Found at i:35563923 original size:133 final size:133
Alignment explanation
Indices: 35563685--35563946 Score: 364
Period size: 133 Copynumber: 2.0 Consensus size: 133
35563675 GCCAAAATCT
* * * *
35563685 CAGCTGGGGAAGAACAAGGGCATGGGGCTTGAGGCGACACCGAGGCAGCCGACAGGGCGTGGCTG
1 CAGCTAGGGAAGAACAAGGGCATGGGGCTTGAGGCAACACCGAGGCAGCCGACAAGGCATGGCTG
35563750 TGGCTGGACGGCTTGGGAGAAAACAAAGATGAACCGATGAAAGAGCCGAGCGTGGCGTGGTAGGC
66 TGGCTGGACGGCTTGGGAGAAAACAAAGATGAACCGATGAAAGAGCCGAGCGTGGCGTGGTAGGC
35563815 CGA
131 CGA
** * ** *
35563818 CAGCTAGGGAAGAACAAGGGTGTGGGGCTTGGGGCAACATTGAGGCAGCCGGCAAGGCATGGCTG
1 CAGCTAGGGAAGAACAAGGGCATGGGGCTTGAGGCAACACCGAGGCAGCCGACAAGGCATGGCTG
* * * * * *
35563883 TGGCTGGGCGG-TTGGAGAGAAAAGAAAGATGAATCGATGAAGGAGTCGAGCTTGGCGTGGTAGG
66 TGGCTGGACGGCTTGG-GAGAAAACAAAGATGAACCGATGAAAGAGCCGAGCGTGGCGTGGTAGG
35563947 TCGGTAGCTG
Statistics
Matches: 112, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
132 4 0.04
133 108 0.96
ACGTcount: A:0.26, C:0.17, G:0.43, T:0.14
Consensus pattern (133 bp):
CAGCTAGGGAAGAACAAGGGCATGGGGCTTGAGGCAACACCGAGGCAGCCGACAAGGCATGGCTG
TGGCTGGACGGCTTGGGAGAAAACAAAGATGAACCGATGAAAGAGCCGAGCGTGGCGTGGTAGGC
CGA
Found at i:35563971 original size:29 final size:29
Alignment explanation
Indices: 35563929--35563985 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
35563919 ATGAAGGAGT
* *
35563929 CGAGCTTGGCGTGGTAGGTCGGTAGCTGA
1 CGAGCTTGGCGTGGTAGGCCGGCAGCTGA
35563958 CGAGCGTT-GCGTGGTAGGCCGGCAGCTG
1 CGAGC-TTGGCGTGGTAGGCCGGCAGCTG
35563986 GGGTCGGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.12, C:0.21, G:0.46, T:0.21
Consensus pattern (29 bp):
CGAGCTTGGCGTGGTAGGCCGGCAGCTGA
Found at i:35566736 original size:28 final size:28
Alignment explanation
Indices: 35566696--35566763 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
35566686 CCGTTATAAA
*
35566696 TCCGTTGAAAATTTTCAACGGAATTTTT
1 TCCGTTGGAAATTTTCAACGGAATTTTT
35566724 TCCGTTGGAAATTTTCAACGGAATTTTT
1 TCCGTTGGAAATTTTCAACGGAATTTTT
*
35566752 TTCGTTGGAAAT
1 TCCGTTGGAAAT
35566764 ACAATGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (28 bp):
TCCGTTGGAAATTTTCAACGGAATTTTT
Found at i:35568941 original size:22 final size:22
Alignment explanation
Indices: 35568907--35568948 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
35568897 TACTAATAAT
35568907 AATAACAATAAATGAATAAATA
1 AATAACAATAAATGAATAAATA
35568929 AATAA-AATGAAATGAATAAA
1 AATAACAAT-AAATGAATAAA
35568949 GAAAAGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.21
Consensus pattern (22 bp):
AATAACAATAAATGAATAAATA
Found at i:35569477 original size:34 final size:34
Alignment explanation
Indices: 35569412--35569504 Score: 100
Period size: 34 Copynumber: 2.7 Consensus size: 34
35569402 GCTGATTTTG
* *
35569412 AGAGAGG-AAAGGGGGCTGATTTGCTGCCGATTTA
1 AGAGAGGAAAAAGGGGCTG-TGTGCTGCCGATTTA
* *
35569446 AG-GAGGAAAAAGGAGGCTGTGTGCTGTCGATTTT
1 AGAGAGGAAAAAGG-GGCTGTGTGCTGCCGATTTA
* *
35569480 TGAGAGGAAAAAGGGGCTTTGTGCT
1 AGAGAGGAAAAAGGGGCTGTGTGCT
35569505 ACTGGATTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
33 4 0.08
34 30 0.60
35 16 0.32
ACGTcount: A:0.27, C:0.10, G:0.39, T:0.25
Consensus pattern (34 bp):
AGAGAGGAAAAAGGGGCTGTGTGCTGCCGATTTA
Found at i:35569513 original size:35 final size:35
Alignment explanation
Indices: 35569448--35569514 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
35569438 CCGATTTAAG
*
35569448 GAGGAAAAAGGAGGCTGTGTGCTGTCGATTTTTGA
1 GAGGAAAAAGGAGGCTGTGTGCTCTCGATTTTTGA
* *
35569483 GAGGAAAAAGG-GGCTTTGTGCTACTGGATTTT
1 GAGGAAAAAGGAGGCTGTGTGCT-CTCGATTTT
35569515 GAGGAAGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.25, C:0.09, G:0.36, T:0.30
Consensus pattern (35 bp):
GAGGAAAAAGGAGGCTGTGTGCTCTCGATTTTTGA
Found at i:35569515 original size:34 final size:36
Alignment explanation
Indices: 35569446--35569526 Score: 96
Period size: 34 Copynumber: 2.3 Consensus size: 36
35569436 TGCCGATTTA
*
35569446 AGGAGGAAAAAGGAGGCTGTGTGCTGTCGATTTTTG
1 AGGAGGAAAAAGGAGGCTGTGTGCTCTCGATTTTTG
* *
35569482 A-GAGGAAAAAGG-GGCTTTGTGCTACTGGA-TTTTG
1 AGGAGGAAAAAGGAGGCTGTGTGCT-CTCGATTTTTG
35569516 AGGAAGGAAAA
1 AGG-AGGAAAA
35569527 GAGAGGAAGC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
34 16 0.41
35 15 0.38
36 8 0.21
ACGTcount: A:0.31, C:0.07, G:0.37, T:0.25
Consensus pattern (36 bp):
AGGAGGAAAAAGGAGGCTGTGTGCTCTCGATTTTTG
Found at i:35570101 original size:2 final size:2
Alignment explanation
Indices: 35570094--35570137 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
35570084 ATCATTTTGA
35570094 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35570136 AT
1 AT
35570138 GTGTGTGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35585513 original size:2 final size:2
Alignment explanation
Indices: 35585506--35585532 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35585496 TCCATTCAAC
35585506 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
35585533 CCTTCATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35593699 original size:6 final size:5
Alignment explanation
Indices: 35593671--35593714 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
35593661 GTAATCAAGC
*
35593671 TTTCT TCTTCT TTTCT TTTCT TTTCCT TTT-T TTTCT TTTAT TTT
1 TTTCT T-TTCT TTTCT TTTCT TTT-CT TTTCT TTTCT TTTCT TTT
35593715 GTTCAGCTAG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
4 4 0.11
5 21 0.60
6 10 0.29
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:35595499 original size:29 final size:30
Alignment explanation
Indices: 35595443--35595499 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
35595433 AATTCTGTGT
* *
35595443 TTTTTTTTTCTCAATTAAATATTATATAGA
1 TTTTTTTTTCTCAATTAAACACTATATAGA
*
35595473 TTTTTTTTTCTCAA-TAAACACTCTATA
1 TTTTTTTTTCTCAATTAAACACTATATA
35595500 AATAATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.32, C:0.12, G:0.02, T:0.54
Consensus pattern (30 bp):
TTTTTTTTTCTCAATTAAACACTATATAGA
Found at i:35622585 original size:27 final size:27
Alignment explanation
Indices: 35622547--35622601 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
35622537 GCCACTTCCA
35622547 TAGAAGAAAAATGAATGTATGATTGAC
1 TAGAAGAAAAATGAATGTATGATTGAC
35622574 TAGAAGAAAAATGAATGTATGATTGAC
1 TAGAAGAAAAATGAATGTATGATTGAC
35622601 T
1 T
35622602 TGAACCAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (27 bp):
TAGAAGAAAAATGAATGTATGATTGAC
Found at i:35628186 original size:2 final size:2
Alignment explanation
Indices: 35628181--35628214 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
35628171 TGAAATATAA
35628181 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
35628215 GGAAGTACCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:35629278 original size:25 final size:25
Alignment explanation
Indices: 35629257--35629305 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
35629247 ATCAATTGTT
*
35629257 AATAAAAAAT-TTTATTTAAATTAA
1 AATAAAAAATATTAATTTAAATTAA
35629281 AATAAAAAATATTAATTT-AATTAA
1 AATAAAAAATATTAATTTAAATTAA
35629305 A
1 A
35629306 CATGATAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
AATAAAAAATATTAATTTAAATTAA
Found at i:35630018 original size:3 final size:3
Alignment explanation
Indices: 35630012--35630075 Score: 74
Period size: 3 Copynumber: 21.3 Consensus size: 3
35630002 ACCTGCTGCT
* * * * * *
35630012 ATG ATG ATG ATG ATG TTG TTG AGG ATG ATG ATG ATG ATG TTG TTG AGG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
35630060 ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG A
35630076 CACATCACCA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (3 bp):
ATG
Found at i:35630044 original size:24 final size:24
Alignment explanation
Indices: 35630012--35630074 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
35630002 ACCTGCTGCT
35630012 ATGATGATGATGATGTTGTTGAGG
1 ATGATGATGATGATGTTGTTGAGG
35630036 ATGATGATGATGATGTTGTTGAGG
1 ATGATGATGATGATGTTGTTGAGG
35630060 ATGATGATGATGATG
1 ATGATGATGATGATG
35630075 ACACATCACC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (24 bp):
ATGATGATGATGATGTTGTTGAGG
Found at i:35639524 original size:16 final size:16
Alignment explanation
Indices: 35639503--35639535 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
35639493 TTCACTTACC
35639503 AATAATATCTCATACA
1 AATAATATCTCATACA
35639519 AATAATATCTCATACA
1 AATAATATCTCATACA
35639535 A
1 A
35639536 CTCATAGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATATCTCATACA
Found at i:35668118 original size:20 final size:20
Alignment explanation
Indices: 35668076--35668118 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
35668066 TATGTTGATT
*
35668076 TAATTAAAAATTATTATTTA
1 TAATTAAAAATTATTATTCA
*
35668096 TAATTGAAAATT-TTACTTCA
1 TAATTAAAAATTATTA-TTCA
35668116 TAA
1 TAA
35668119 CCTCGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (20 bp):
TAATTAAAAATTATTATTCA
Found at i:35669235 original size:13 final size:13
Alignment explanation
Indices: 35669191--35669238 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
35669181 TGATACAAAC
*
35669191 AAATAAATTACACC
1 AAATAAATTACA-T
* *
35669205 AAATATAAATAAAT
1 AAATA-AATTACAT
35669219 AAATAAATTACAT
1 AAATAAATTACAT
35669232 AAATAAA
1 AAATAAA
35669239 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 13 0.46
14 10 0.36
15 5 0.18
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (13 bp):
AAATAAATTACAT
Found at i:35669749 original size:72 final size:71
Alignment explanation
Indices: 35669663--35669808 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 71
35669653 CCAGTTCTAA
35669663 TATGAGCTTAAATTTTCAAACCTAACACATCCCATATTCAATAAAAATAGACCAACCTAATGAGC
1 TATGAGCTTAAATTTTCAAACCTAACACATCCCATATTCAATAAAAATAGACCAACCTAATGAGC
35669728 CAGGTC
66 CAGGTC
35669734 TANTGAGCTTAAATTTTCAAACCTAACACATCCCATATTCAATAAAAATAGACCAACCTAATGAG
1 TA-TGAGCTTAAATTTTCAAACCTAACACATCCCATATTCAATAAAAATAGACCAACCTAATGAG
35669799 CCAGGTC
65 CCAGGTC
35669806 TAT
1 TAT
35669809 TTTGACAGAT
Statistics
Matches: 74, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
71 3 0.04
72 71 0.96
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.26
Consensus pattern (71 bp):
TATGAGCTTAAATTTTCAAACCTAACACATCCCATATTCAATAAAAATAGACCAACCTAATGAGC
CAGGTC
Found at i:35670316 original size:2 final size:2
Alignment explanation
Indices: 35670311--35670341 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35670301 TGTGTGTGTG
35670311 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35670342 GAATGATAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35676500 original size:2 final size:2
Alignment explanation
Indices: 35676493--35676564 Score: 92
Period size: 2 Copynumber: 35.5 Consensus size: 2
35676483 TCCCCCACCC
* * *
35676493 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT ACT ACN CC CC CT C-
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT -CT -CT CT CT CT CT
35676536 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
35676565 AGAAGAAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
1 1 0.02
2 60 0.92
3 4 0.06
ACGTcount: A:0.03, C:0.53, G:0.00, T:0.43
Consensus pattern (2 bp):
CT
Found at i:35677838 original size:67 final size:67
Alignment explanation
Indices: 35677729--35677857 Score: 215
Period size: 67 Copynumber: 1.9 Consensus size: 67
35677719 GGCCAAGATT
* *
35677729 TTCAGGCTCTTTATTTCTCACTTTCCTCAGTAGTTAATGGGAATGTACTCATTTGATTTGCTACA
1 TTCAGGCTCTTTATTTCTCACTTTCCTCAGTAGTTAAGGGGAATGTACTCACTTGATTTGCTACA
35677794 TG
66 TG
*
35677796 TTCAGGCTCTTTATTTCTCACTTTCCTCAGTA-TTAAAGGGGAATGTACTGACTTGATTTGCT
1 TTCAGGCTCTTTATTTCTCACTTTCCTCAGTAGTT-AAGGGGAATGTACTCACTTGATTTGCT
35677858 TGCTTCCAAG
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
66 2 0.03
67 56 0.97
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (67 bp):
TTCAGGCTCTTTATTTCTCACTTTCCTCAGTAGTTAAGGGGAATGTACTCACTTGATTTGCTACA
TG
Found at i:35693038 original size:29 final size:30
Alignment explanation
Indices: 35692991--35693052 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
35692981 TTTCTTTTAC
35692991 ATTTCTTCAGGTTAAGTTTGTCGATCCTCT
1 ATTTCTTCAGGTTAAGTTTGTCGATCCTCT
* *
35693021 ATTT-TTCAGGTTAAGTTTGTTGATCCTTT
1 ATTTCTTCAGGTTAAGTTTGTCGATCCTCT
35693050 ATT
1 ATT
35693053 GCGGTCACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 26 0.87
30 4 0.13
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.52
Consensus pattern (30 bp):
ATTTCTTCAGGTTAAGTTTGTCGATCCTCT
Found at i:35701015 original size:27 final size:27
Alignment explanation
Indices: 35700977--35701032 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
35700967 AGAATGCCAC
*
35700977 AGTTCTTTCTGTTATATTAAAAATTGT
1 AGTTCTTACTGTTATATTAAAAATTGT
*
35701004 AGTTCTTACTGTTATATTAAAATTTGT
1 AGTTCTTACTGTTATATTAAAAATTGT
35701031 AG
1 AG
35701033 AAAGCTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (27 bp):
AGTTCTTACTGTTATATTAAAAATTGT
Found at i:35701480 original size:2 final size:2
Alignment explanation
Indices: 35701473--35701523 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
35701463 AATTTTAATT
* * * * *
35701473 TC TC TC TC TC TC TC TG TC TG TC TG TC TG TC TT TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
35701515 TC TC TC TC T
1 TC TC TC TC T
35701524 ATATATATAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.39, G:0.08, T:0.53
Consensus pattern (2 bp):
TC
Found at i:35701552 original size:10 final size:10
Alignment explanation
Indices: 35701523--35701553 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
35701513 TCTCTCTCTC
*
35701523 TATATATATA
1 TATATATATG
35701533 TATATATATG
1 TATATATATG
35701543 TATATATATG
1 TATATATATG
35701553 T
1 T
35701554 CTTCCTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:35701598 original size:46 final size:46
Alignment explanation
Indices: 35701531--35701623 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
35701521 TCTATATATA
*
35701531 TATATATATATGTATATATATGTCTTCCTCTTTGTGTGTGTATGAG
1 TATATATATATATATATATATGTCTTCCTCTTTGTGTGTGTATGAG
*
35701577 TATATATATATATATATATATGTCTTTCTCTTTGTGTGTGTATGAG
1 TATATATATATATATATATATGTCTTCCTCTTTGTGTGTGTATGAG
35701623 T
1 T
35701624 GTGTTGATCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.52
Consensus pattern (46 bp):
TATATATATATATATATATATGTCTTCCTCTTTGTGTGTGTATGAG
Found at i:35712791 original size:3 final size:3
Alignment explanation
Indices: 35712777--35712807 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
35712767 CTCATCACCA
*
35712777 TCT TCC TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
35712808 TCTTTCCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:35720519 original size:30 final size:30
Alignment explanation
Indices: 35720474--35720538 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
35720464 CTTTTATACC
* *
35720474 CAGAAGAAAGAGGGCAAAACGGTGTCGTTT
1 CAGAGGAAAGAGGGCAAAACGGCGTCGTTT
*
35720504 CAGAGGAAGGAGGGCAAAACGGCGTCGTTT
1 CAGAGGAAAGAGGGCAAAACGGCGTCGTTT
35720534 CAGAG
1 CAGAG
35720539 AGGCAAGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.34, C:0.15, G:0.37, T:0.14
Consensus pattern (30 bp):
CAGAGGAAAGAGGGCAAAACGGCGTCGTTT
Found at i:35724383 original size:14 final size:15
Alignment explanation
Indices: 35724353--35724386 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
35724343 CTTCAATGTA
*
35724353 TTTCTTCTGTTTGTT
1 TTTCTTCTGTTTATT
35724368 TTTCTT-TGTTTATT
1 TTTCTTCTGTTTATT
35724382 TTTCT
1 TTTCT
35724387 CCACCGCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.03, C:0.12, G:0.09, T:0.76
Consensus pattern (15 bp):
TTTCTTCTGTTTATT
Found at i:35728974 original size:55 final size:55
Alignment explanation
Indices: 35728885--35729001 Score: 207
Period size: 55 Copynumber: 2.1 Consensus size: 55
35728875 TCAACTAGTG
* *
35728885 TATTCATCCACTATTATGTGTTTGACAACGCCTCAGCTTCTCTAATTTTTGTTGTC
1 TATT-ATCCACCATTATGTGTTTGACAACGCCTCAGCTTCTCAAATTTTTGTTGTC
35728941 TATTATCCACCATTATGTGTTTGACAACGCCTCAGCTTCTCAAATTTTTGTTGTC
1 TATTATCCACCATTATGTGTTTGACAACGCCTCAGCTTCTCAAATTTTTGTTGTC
35728996 TATTAT
1 TATTAT
35729002 AGGTGCAGCA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 55 0.93
56 4 0.07
ACGTcount: A:0.21, C:0.22, G:0.12, T:0.44
Consensus pattern (55 bp):
TATTATCCACCATTATGTGTTTGACAACGCCTCAGCTTCTCAAATTTTTGTTGTC
Found at i:35746234 original size:23 final size:23
Alignment explanation
Indices: 35746189--35746267 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 23
35746179 TAATTTTATT
35746189 TTTAAAATATTAATAATTGATAATTTA
1 TTTAAAATATTAAT-A---ATAATTTA
**
35746216 TTTAAAATATTAATAATAAATAAA
1 TTTAAAATATTAATAAT-AATTTA
*
35746240 TTT-AAATATTAAT-ATTATTTAA
1 TTTAAAATATTAATAATAATTT-A
35746262 TTTAAA
1 TTTAAA
35746268 TTTTATTATG
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
21 2 0.05
22 6 0.14
23 14 0.32
24 7 0.16
26 1 0.02
27 14 0.32
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (23 bp):
TTTAAAATATTAATAATAATTTA
Found at i:35746238 original size:27 final size:24
Alignment explanation
Indices: 35746189--35746253 Score: 78
Period size: 27 Copynumber: 2.6 Consensus size: 24
35746179 TAATTTTATT
**
35746189 TTTAAAATATTAATAATTGATAATTTA
1 TTTAAAATATTAATAA-T-A-AATAAA
35746216 TTTAAAATATTAATAATAAATAAA
1 TTTAAAATATTAATAATAAATAAA
35746240 TTT-AAATATTAATA
1 TTTAAAATATTAATA
35746254 TTATTTAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
23 11 0.31
24 7 0.19
25 1 0.03
26 1 0.03
27 16 0.44
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
TTTAAAATATTAATAATAAATAAA
Found at i:35746266 original size:22 final size:22
Alignment explanation
Indices: 35746208--35746285 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
35746198 TTAATAATTG
35746208 ATAATTT-ATTTAAAATATTAAT
1 ATAATTTAATTT-AAATATTAAT
* *
35746230 AATAAATAAATTTAAATATTAAT
1 -ATAATTTAATTTAAATATTAAT
* * *
35746253 ATTATTTAATTTAAATTTTATT
1 ATAATTTAATTTAAATATTAAT
*
35746275 ATGA-TTAATTT
1 ATAATTTAATTT
35746286 TTTATTTTAT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
21 7 0.15
22 20 0.43
23 15 0.33
24 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (22 bp):
ATAATTTAATTTAAATATTAAT
Found at i:35746351 original size:26 final size:25
Alignment explanation
Indices: 35746302--35746352 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
35746292 TTATTTTATT
*
35746302 TTTAAATATAATAATTGGTAATTTA
1 TTTAAATATAATAATTGATAATTTA
*
35746327 TTTAAATATTAATAATTGATGATTTA
1 TTTAAATA-TAATAATTGATAATTTA
35746353 ATTATTAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.35
26 15 0.65
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (25 bp):
TTTAAATATAATAATTGATAATTTA
Found at i:35746375 original size:21 final size:22
Alignment explanation
Indices: 35746323--35746376 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
35746313 TAATTGGTAA
*
35746323 TTTATTTAAATATTAATAATTG
1 TTTATTTAATTATTAATAATTG
* *
35746345 ATGATTTAATTATTAAT-ATTG
1 TTTATTTAATTATTAATAATTG
*
35746366 TTTATCTAATT
1 TTTATTTAATT
35746377 TAAATGATAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (22 bp):
TTTATTTAATTATTAATAATTG
Found at i:35746388 original size:113 final size:113
Alignment explanation
Indices: 35746172--35746481 Score: 341
Period size: 113 Copynumber: 2.7 Consensus size: 113
35746162 NNNNNNNNNN
* **
35746172 TTTATTTTAATTTTATTTTTAAAATATTAATAATTGATAATTTATTTAAAATATTAATAATAAAT
1 TTTATTTT-ATTTTATTTTT-AAATAGTAATAATTGATAATTTATTT-AAATATTAATAATTGAT
* **
35746237 AAATTTAAATATTAATA--TTATTTAATTTAAATTTTATTATGATTA-AT-TT
63 -AATTT-AATATTAATATTTTATCTAATTTAAATGATATTATGATTATATATT
* *
35746286 TTTATTTTATTTTATTTTTAAATA-TAATAATTGGTAATTTATTTAAATATTAATAATTGATGAT
1 TTTATTTTATTTTATTTTTAAATAGTAATAATTGATAATTTATTTAAATATTAATAATTGATAAT
* *
35746350 TTAATTATTAATATTGTTTATCTAATTTAAATGATATTATGTTTATTTATT
66 TTAA-TATTAATA-T-TTTATCTAATTTAAATGATATTATGATTATATATT
* * * *
35746401 TTTAATTTATTTTGTTTTTAAATAGGAATAATTTATAATTTATTT---TATTAATAATTTGA-AA
1 TTTATTTTATTTTATTTTTAAATAGTAATAATTGATAATTTATTTAAATATTAATAA-TTGATAA
35746462 TTTTAATATTAATATTTTAT
65 -TTTAATATTAATATTTTAT
35746482 TTATAATTTT
Statistics
Matches: 171, Mismatches: 15, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
108 2 0.01
109 12 0.07
110 15 0.09
111 24 0.14
112 6 0.04
113 53 0.31
114 18 0.11
115 24 0.14
116 17 0.10
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.56
Consensus pattern (113 bp):
TTTATTTTATTTTATTTTTAAATAGTAATAATTGATAATTTATTTAAATATTAATAATTGATAAT
TTAATATTAATATTTTATCTAATTTAAATGATATTATGATTATATATT
Found at i:35746501 original size:33 final size:33
Alignment explanation
Indices: 35746441--35746504 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
35746431 ATTTATAATT
*
35746441 TATTTTATTAATAATTTGAAATTTTAATATTAA
1 TATTTTATTAATAATTTGAAATATTAATATTAA
* *
35746474 TATTTTATTTATAATTT-TAATGATTAATATT
1 TATTTTATTAATAATTTGAAAT-ATTAATATT
35746505 TTATTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 3 0.11
33 24 0.89
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (33 bp):
TATTTTATTAATAATTTGAAATATTAATATTAA
Found at i:35746516 original size:27 final size:26
Alignment explanation
Indices: 35746459--35746516 Score: 89
Period size: 27 Copynumber: 2.2 Consensus size: 26
35746449 TAATAATTTG
*
35746459 AAATTTTAATATTAATATTTTATTTA
1 AAATTTTAATATTAATATTTTATTAA
*
35746485 TAATTTTAATGATTAATATTTTATTAA
1 AAATTTTAAT-ATTAATATTTTATTAA
35746512 AAATT
1 AAATT
35746517 GGAATCAAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
AAATTTTAATATTAATATTTTATTAA
Found at i:35752256 original size:8 final size:8
Alignment explanation
Indices: 35752215--35752253 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
35752205 TGCCAACGCA
*
35752215 CTCTGTCG
1 CTCTCTCG
35752223 CTCTCTCG
1 CTCTCTCG
*
35752231 CTCGCTCG
1 CTCTCTCG
*
35752239 CTCTCTCT
1 CTCTCTCG
35752247 CTCTCTC
1 CTCTCTC
35752254 TCTATCTGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.49, G:0.13, T:0.38
Consensus pattern (8 bp):
CTCTCTCG
Found at i:35758428 original size:2 final size:2
Alignment explanation
Indices: 35758415--35758507 Score: 145
Period size: 2 Copynumber: 47.5 Consensus size: 2
35758405 CAAAATATGA
*
35758415 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
35758457 AT AT GT NT AT A- AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35758497 AT AT AT AT AT A
1 AT AT AT AT AT A
35758508 ATGGTTGCCT
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
1 2 0.02
2 82 0.98
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:35767085 original size:3 final size:3
Alignment explanation
Indices: 35767077--35767125 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
35767067 TATCTTTGAT
35767077 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
35767125 T
1 T
35767126 AATTTTTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:35771131 original size:20 final size:22
Alignment explanation
Indices: 35771106--35771157 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
35771096 AATTTTGAAC
*
35771106 ATAAATACT-ATA-TTATTCGA
1 ATAAATAATAATATTTATTCGA
35771126 ATAAATAAATAAATATTTATTCGA
1 ATAAAT-AAT-AATATTTATTCGA
35771150 ATAAATAA
1 ATAAATAA
35771158 ATATTATAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 6 0.22
21 2 0.07
23 5 0.19
24 14 0.52
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.37
Consensus pattern (22 bp):
ATAAATAATAATATTTATTCGA
Found at i:35786736 original size:2 final size:2
Alignment explanation
Indices: 35786720--35786784 Score: 93
Period size: 2 Copynumber: 34.0 Consensus size: 2
35786710 ACACAAGTAC
35786720 TA TA -A TA TA TA -A TA TA TA TA TA T- TA TA -A TA TA TA TGA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
35786759 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
35786785 ATGAAAATTA
Statistics
Matches: 58, Mismatches: 0, Indels: 10
0.85 0.00 0.15
Matches are distributed among these distances:
1 4 0.07
2 52 0.90
3 2 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:35790014 original size:39 final size:38
Alignment explanation
Indices: 35789932--35790027 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 38
35789922 TGTAAAAAAA
* * *
35789932 AATAATTAGTTTTACTAGTTTTAGGTATTATTACAAAAAT
1 AATAATTAATTTTAATAGTTTTAAGTATTATTAC--AAAT
35789972 AATAATTAATTTTAATAGCTTTCTAAGTATTATTAC-AAT
1 AATAATTAATTTTAATAG-TTT-TAAGTATTATTACAAAT
35790011 AATAATT-ATTTATAATA
1 AATAATTAATTT-TAATA
35790028 CTATCAACCA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
38 4 0.08
39 15 0.30
40 16 0.32
41 3 0.06
42 12 0.24
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.46
Consensus pattern (38 bp):
AATAATTAATTTTAATAGTTTTAAGTATTATTACAAAT
Found at i:35790015 original size:42 final size:40
Alignment explanation
Indices: 35789926--35790016 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
35789916 AATTATTGTA
* * * *
35789926 AAAAAAAATAATTAGTTTTACTAGTTTTAGGTATTATTAC
1 AAAAATAATAATTAATTTTAATAGTTTTAAGTATTATTAC
35789966 AAAAATAATAATTAATTTTAATAGCTTTCTAAGTATTATTAC
1 AAAAATAATAATTAATTTTAATAG-TTT-TAAGTATTATTAC
*
35790008 AATAATAAT
1 AAAAATAAT
35790017 TATTTATAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 21 0.48
41 3 0.07
42 20 0.45
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (40 bp):
AAAAATAATAATTAATTTTAATAGTTTTAAGTATTATTAC
Found at i:35791269 original size:23 final size:22
Alignment explanation
Indices: 35791226--35791269 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
35791216 AAATACAAAT
* **
35791226 ATATTTTTATTATAATTTAATA
1 ATATTTTTATTAAAAGATAATA
35791248 ATATTTTGTATTAAAAGATAAT
1 ATATTTT-TATTAAAAGATAAT
35791270 TGAACCTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (22 bp):
ATATTTTTATTAAAAGATAATA
Found at i:35791428 original size:45 final size:45
Alignment explanation
Indices: 35791337--35791438 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
35791327 ATTAAATTTA
* * * *
35791337 AATAATAGTAAATAATATTCTTTATTACATTTATTATATTCGAAT
1 AATAATATTAAATAATATGCTTTATAACATTTATTATATTCAAAT
*
35791382 AATAATATTAAATAATATGCTTTATAATATTTATTATAGTT-AAAT
1 AATAATATTAAATAATATGCTTTATAACATTTATTATA-TTCAAAT
35791427 AAT-AT-TTAAATA
1 AATAATATTAAATA
35791439 GTTTTATTTC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
43 7 0.14
44 2 0.04
45 40 0.78
46 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (45 bp):
AATAATATTAAATAATATGCTTTATAACATTTATTATATTCAAAT
Found at i:35796136 original size:19 final size:19
Alignment explanation
Indices: 35796101--35796139 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
35796091 GCTGTGTCTC
35796101 TTTTTGGGAATTTTTTTTTT
1 TTTTTGGG-ATTTTTTTTTT
35796121 TTTTTGGG-TTTGTTTTTTT
1 TTTTTGGGATTT-TTTTTTT
35796140 AGAGAGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 7 0.39
20 8 0.44
ACGTcount: A:0.05, C:0.00, G:0.18, T:0.77
Consensus pattern (19 bp):
TTTTTGGGATTTTTTTTTT
Found at i:35797585 original size:24 final size:24
Alignment explanation
Indices: 35797558--35797629 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
35797548 TGCTTTATGA
35797558 AAAATATAATAATAATAAAAAAGT
1 AAAATATAATAATAATAAAAAAGT
*
35797582 AAAA-ATATATAAAAATAAAAAA-T
1 AAAATATA-ATAATAATAAAAAAGT
** * *
35797605 AGTATATAAAAAATAATATAAAAGT
1 AAAATAT-AATAATAATAAAAAAGT
35797630 TTTGTTCACT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
23 6 0.16
24 30 0.79
25 2 0.05
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (24 bp):
AAAATATAATAATAATAAAAAAGT
Found at i:35797591 original size:27 final size:25
Alignment explanation
Indices: 35797557--35797608 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
35797547 TTGCTTTATG
*
35797557 AAAAATATAATAATAATAAAAAAGTA
1 AAAAATATAAAAATAA-AAAAAAGTA
*
35797583 AAAATATATAAAAATAAAAAATAGTA
1 AAAA-ATATAAAAATAAAAAAAAGTA
35797609 TATAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (25 bp):
AAAAATATAAAAATAAAAAAAAGTA
Found at i:35797602 original size:17 final size:16
Alignment explanation
Indices: 35797568--35797624 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
35797558 AAAATATAAT
35797568 AATA-ATAAAAAAGTAAA
1 AATATATAAAAAA--AAA
35797585 AATATATAAAAATAAAA
1 AATATATAAAAA-AAAA
* *
35797602 AATAGTATATAAAAAAT
1 AATA-TATAAAAAAAAA
35797619 AATATA
1 AATATA
35797625 AAAGTTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
16 2 0.06
17 18 0.51
18 14 0.40
19 1 0.03
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (16 bp):
AATATATAAAAAAAAA
Found at i:35797774 original size:13 final size:12
Alignment explanation
Indices: 35797758--35797787 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
35797748 TAAGAATAGG
35797758 AAATATGATAATA
1 AAATAT-ATAATA
35797771 AAATATATAATA
1 AAATATATAATA
35797783 AAATA
1 AAATA
35797788 AAAATAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (12 bp):
AAATATATAATA
Found at i:35802348 original size:17 final size:16
Alignment explanation
Indices: 35802319--35802355 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
35802309 GCTTTTAAAA
35802319 GAAACTGGGTTGAAGG
1 GAAACTGGGTTGAAGG
*
35802335 GAAAGCTGGTTTGAAGG
1 GAAA-CTGGGTTGAAGG
35802352 GAAA
1 GAAA
35802356 ATAGAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.35, C:0.05, G:0.41, T:0.19
Consensus pattern (16 bp):
GAAACTGGGTTGAAGG
Found at i:35807588 original size:102 final size:102
Alignment explanation
Indices: 35807412--35807615 Score: 327
Period size: 102 Copynumber: 2.0 Consensus size: 102
35807402 GAACTAATAA
*
35807412 CCCCGTCCTGCTAAGTGTTCAAGTCTTAATCTGATGTCAGAATATACGAGATTTGGCTGCAATCC
1 CCCCGTCCTGCTAAGTGTTCAAGTCTTAATCCGATGTCAGAATATACGAGATTTGGCTGCAATCC
* * * *
35807477 CACGCAAGGCTTTCTTTTTTGATAGTGAAGTTAGGGG
66 CACGCAAGGCTGTCCTTTTTGATAGTAAAGCTAGGGG
* * *
35807514 CCCCGTCCTGCTTAGTGTTCAAGTCTTAGTCCGATGTGAGAATATACGAGATTTGGCTGCAATCC
1 CCCCGTCCTGCTAAGTGTTCAAGTCTTAATCCGATGTCAGAATATACGAGATTTGGCTGCAATCC
*
35807579 TACGCAAGGCTGTCCTTTTTGATAGTAAAGCTAGGGG
66 CACGCAAGGCTGTCCTTTTTGATAGTAAAGCTAGGGG
35807616 AAGGAGGTTC
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 93 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (102 bp):
CCCCGTCCTGCTAAGTGTTCAAGTCTTAATCCGATGTCAGAATATACGAGATTTGGCTGCAATCC
CACGCAAGGCTGTCCTTTTTGATAGTAAAGCTAGGGG
Found at i:35809088 original size:17 final size:16
Alignment explanation
Indices: 35809062--35809098 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
35809052 TCAGGTATTG
*
35809062 TTTTTTTTTCTTTTTA
1 TTTTTTTTTCATTTTA
35809078 TTTTGTTTTTCATTTTA
1 TTTT-TTTTTCATTTTA
35809095 TTTT
1 TTTT
35809099 CAATCGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTTTTTCATTTTA
Found at i:35809762 original size:13 final size:13
Alignment explanation
Indices: 35809744--35809768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35809734 ACTTAATTTT
35809744 AAAAGCTATTATA
1 AAAAGCTATTATA
35809757 AAAAGCTATTAT
1 AAAAGCTATTAT
35809769 TTTTCATAAG
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
AAAAGCTATTATA
Done.