Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 166 of 221
Found at i:49701581 original size:198 final size:198
Alignment explanation
Indices: 49701241--49701652 Score: 664
Period size: 198 Copynumber: 2.1 Consensus size: 198
49701231 TAATTAACCC
*
49701241 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGT
* ** * * * *
49701306 TAACTCTAAGTCATTGCGTTTTAGAGAAAACGACATCGTCTCCATAAAAATTAAAACATTTTTGC
66 AAACTAAAACTCATGGCGTTTTAGACAAAACGACATCGTCTCCATAAAAATTAAAACAATTTTGC
*
49701371 GGCGTTTACTAAAAGCGCCACTAAA-AGTAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
131 GGCGTGTACTAAAAGCGCCACTAAAGA-TAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTC
49701435 TGTA
195 TGTA
* * *
49701439 CTTTGCGGCGTTTATATACTAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATTAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGT
*
49701504 AAACTAAAACTCATGGCGTTTTAGACAAAACGGCATCGTCTCCATAAAAATTAAAACAATTTTGC
66 AAACTAAAACTCATGGCGTTTTAGACAAAACGACATCGTCTCCATAAAAATTAAAACAATTTTGC
* *
49701569 GGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGGAGCCGTTTTCGTAAACAATTTCT
131 GGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCT
49701634 GTA
196 GTA
*
49701637 AATTGCGGCGTTTATA
1 ATTTGCGGCGTTTATA
49701653 CATAAACGCC
Statistics
Matches: 196, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
198 195 0.99
199 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (198 bp):
ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTCCCCGATCAGT
AAACTAAAACTCATGGCGTTTTAGACAAAACGACATCGTCTCCATAAAAATTAAAACAATTTTGC
GGCGTGTACTAAAAGCGCCACTAAAGATAAATAAGAAAACGAAGCCGTTTTCCTAAACAATTTCT
GTA
Found at i:49702128 original size:47 final size:47
Alignment explanation
Indices: 49702040--49702131 Score: 121
Period size: 47 Copynumber: 2.0 Consensus size: 47
49702030 GTTAATTTCG
* **
49702040 GTAATATTTAAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * * *
49702087 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
49702132 TATTTCTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
47 38 1.00
ACGTcount: A:0.47, C:0.03, G:0.08, T:0.42
Consensus pattern (47 bp):
GTAATATTTAAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:49702147 original size:18 final size:20
Alignment explanation
Indices: 49702119--49702167 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
49702109 AAAAATAAAA
*
49702119 ATTTTAGTTTTTTTA-TTTC
1 ATTTTACTTTTTTTATTTTC
*
49702138 TTTTTA--TTTTTTATTTTC
1 ATTTTACTTTTTTTATTTTC
49702156 ATTTTACTTTTT
1 ATTTTACTTTTT
49702168 GTAATTTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 7 0.28
18 9 0.36
19 5 0.20
20 4 0.16
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (20 bp):
ATTTTACTTTTTTTATTTTC
Found at i:49702233 original size:16 final size:14
Alignment explanation
Indices: 49702204--49702230 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49702194 TTTACAATTC
49702204 CAAATTATTATATT
1 CAAATTATTATATT
49702218 CAAATTATTATAT
1 CAAATTATTATAT
49702231 ATTGCATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CAAATTATTATATT
Found at i:49702468 original size:7 final size:7
Alignment explanation
Indices: 49702456--49702545 Score: 101
Period size: 7 Copynumber: 12.9 Consensus size: 7
49702446 ATAACCCAAT
49702456 CCCTAAC
1 CCCTAAC
49702463 CCCTAAC
1 CCCTAAC
*
49702470 CCATAAC
1 CCCTAAC
49702477 CCCTAAC
1 CCCTAAC
49702484 CCCTAAC
1 CCCTAAC
*
49702491 CCTTAAC
1 CCCTAAC
*
49702498 CCTTAA-
1 CCCTAAC
49702504 CCCTAAAC
1 CCCT-AAC
*
49702512 CCTTAAC
1 CCCTAAC
* *
49702519 CCATGAC
1 CCCTAAC
*
49702526 CTCTAAC
1 CCCTAAC
49702533 CCCTAAC
1 CCCTAAC
49702540 CCCTAA
1 CCCTAA
49702546 AACTTATTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
6 3 0.04
7 64 0.91
8 3 0.04
ACGTcount: A:0.31, C:0.49, G:0.01, T:0.19
Consensus pattern (7 bp):
CCCTAAC
Found at i:49702661 original size:12 final size:12
Alignment explanation
Indices: 49702644--49702668 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49702634 CTCTTAACAT
49702644 CTAACCCCTAAC
1 CTAACCCCTAAC
49702656 CTAACCCCTAAC
1 CTAACCCCTAAC
49702668 C
1 C
49702669 CCTAATCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:49703187 original size:114 final size:113
Alignment explanation
Indices: 49703061--49703278 Score: 255
Period size: 114 Copynumber: 1.9 Consensus size: 113
49703051 GCTTTACCGA
* *
49703061 AAACGCCGCTAA-TACTATTC-TTTAGCAGCGTTTTACCATAAACGCCACTAAT-TCTAATATAC
1 AAACGCCACTAATTA-TATTCTTTTA-CAGCGTTTTACCAAAAACGCCACTAATAT-TAATATAC
* *
49703123 ATCAAAACCAAACGTTGCGTTTTGGTTAAGGCAT-TTTGCGGCGCTTCCAAAT
63 ATCAAAACCAAACGGTGCGTTTTCGTTAA-G-ATATTTGCGGCGCTTCCAAAT
* * *** * *
49703175 AAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAACGCCACTAATATTAATCTACCTC
1 AAACGCCACTAATTATATTCTTTTACAGCGTTTTACCAAAAACGCCACTAATATTAATATACATC
*
49703240 AAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCGGCG
66 AAAACCAAACGGTGCGTTTTCGTTAAGATATTTGCGGCG
49703279 TTTTATCGTA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
112 2 0.02
113 10 0.11
114 69 0.78
115 7 0.08
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (113 bp):
AAACGCCACTAATTATATTCTTTTACAGCGTTTTACCAAAAACGCCACTAATATTAATATACATC
AAAACCAAACGGTGCGTTTTCGTTAAGATATTTGCGGCGCTTCCAAAT
Found at i:49703292 original size:74 final size:75
Alignment explanation
Indices: 49703214--49703353 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 75
49703204 GTTTTTTTAA
* * *
49703214 AAACGCCACTAATAT-TAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATA-TTTGCGG
1 AAACGCCACTAAT-TCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGG
49703277 CGTTTTATCGT
65 CGTTTTATCGT
* *
49703288 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGC
49703353 G
66 G
49703354 CATAAAAATA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
73 1 0.02
74 49 0.83
75 9 0.15
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (75 bp):
AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTCGTTAAGATATTTTGCGGC
GTTTTATCGT
Found at i:49703405 original size:188 final size:188
Alignment explanation
Indices: 49703088--49703488 Score: 667
Period size: 188 Copynumber: 2.1 Consensus size: 188
49703078 TTCTTTAGCA
* *
49703088 GCGTTTTACCATAAACGCCACTAATTCTAATATACATCAAAACCAAACGTTGCGTTTTGGTTAAG
1 GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACGCTGCGTTTTGGTTAAG
* ** *
49703153 GCATTTTGCGGCGCTTCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTTAAAAAC
66 GCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
* *
49703218 GCCACTAATATTAATCTACCTCAAGACCAAACGGTGCGTTTTCGTTAAGATATTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACGGTGCGTTTTCATTAAGATATTTGCG
* *
49703276 GCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAG
1 GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACGCTGCGTTTTGGTTAAG
*
49703341 GTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
66 GCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
*
49703406 GCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATTAAGATATTTGCG
131 GCCACTAATACTAATCTACCTCAAGACCAAACGGTGCGTTTTCATTAAGATATTTGCG
* * *
49703464 GCGCTTTACCGAAAACGCCGCTAAT
1 GCGTTTTACCGTAAACGCCACTAAT
49703489 ACTATTCTTT
Statistics
Matches: 197, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
188 197 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (188 bp):
GCGTTTTACCGTAAACGCCACTAATTCTAATATACATCAAAACCAAACGCTGCGTTTTGGTTAAG
GCATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAAAAAC
GCCACTAATACTAATCTACCTCAAGACCAAACGGTGCGTTTTCATTAAGATATTTGCG
Found at i:49703570 original size:227 final size:226
Alignment explanation
Indices: 49703270--49703863 Score: 885
Period size: 227 Copynumber: 2.6 Consensus size: 226
49703260 CGTTAAGATA
* * * * **
49703270 TTTGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATAC-CTCAAAACCAAACGCTGCGTTTT
1 TTTGCGGCGTTTTATAGAAAACGCCACGAATTCTAATATACAAT-TGAACCAAACGCTGCGTTTT
49703334 GGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTC
65 GGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT-
*
49703399 TAAAAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATTAAGATATTTGCG
129 TAAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCG
49703464 GCGCTTTACCG-AAAACGCCGCTAATACTATTCT
194 GCGCTTT-CCGTAAAACGCCGCTAATACTATTCT
* *
49703497 TTTGCAGCGTTTTATAGAAAACGCCAC-AATGTCTAATATACAATTGAACCAAACGCTGTGTTTT
1 TTTGCGGCGTTTTATAGAAAACGCCACGAAT-TCTAATATACAATTGAACCAAACGCTGCGTTTT
* **
49703561 GGTTAAGGTATTTTGCGACGCATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
65 GGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTT
* * *
49703626 AAAAACGCCACTAATATTAATCTACCTCAAGACAAAATGGTGCGTTTTCCTTAAGATATTTGCGG
130 AAAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCGG
** *
49703691 CGCTTTTTGTTAAACGCCGCTAATACTATTCT
195 CGCTTTCCGTAAAACGCCGCTAATACTATTCT
49703723 TTTGCGGCGTTTTTTATA-AAAACGCCACGAATTCTAATATACAATTGAACC-AACGCTGCGTTT
1 TTTGCGGCG--TTTTATAGAAAACGCCACGAATTCTAATATACAATTGAACCAAACGCTGCGTTT
* * *
49703786 TGGTTAAGGTATTTTGCGGTGC-TTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT
64 TGGTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT
* *
49703850 TAGAATCGCCACTA
129 TAAAAACGCCACTA
49703864 GTTCTTTAGG
Statistics
Matches: 335, Mismatches: 26, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
225 52 0.16
226 131 0.39
227 141 0.42
228 11 0.03
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (226 bp):
TTTGCGGCGTTTTATAGAAAACGCCACGAATTCTAATATACAATTGAACCAAACGCTGCGTTTTG
GTTAAGGTATTTTGCGGCGCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTTA
AAAACGCCACTAATACTAATCTACCTCAAGACAAAACGGTGCGTTTTCATTAAGATATTTGCGGC
GCTTTCCGTAAAACGCCGCTAATACTATTCT
Found at i:49703820 original size:113 final size:112
Alignment explanation
Indices: 49703288--49703868 Score: 520
Period size: 113 Copynumber: 5.1 Consensus size: 112
49703278 GTTTTATCGT
49703288 AAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
1 AAACGCCACTAATTCTAATATACCTC-AAACC-AACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* * * *
49703353 GCATAAAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTCTAA
64 GCTTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
* * * * ** *
49703402 AAACGCCACTAATACTAATCTACCTCAAGACGAAACGGTGCGTTTTCATTAAGATA-TTTGCGGC
1 AAACGCCACTAATTCTAATATACCTCAA-AC-CAACGCTGCGTTTTGGTTAAGGTATTTTGCGGC
* * * * *
49703466 GCTTTACCGA-AAACGCCGCTAA-TACTATTCTTTTGCAGCG-TTTTATAGA
64 GCTTTA-CAATAAACGCCACTAATTA-TGTTCTTTTACGGCGTTTTTATA-A
* ** * *
49703515 AAACGCCAC-AATGTCTAATATACAATTGAACCAAACGCTGTGTTTTGGTTAAGGTATTTTGCGA
1 AAACGCCACTAAT-TCTAATATAC-CTCAAACC-AACGCTGCGTTTTGGTTAAGGTATTTTGCGG
* *
49703579 CGC-ATCCAAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT-TAA
63 CGCTTTAC-AATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
* * * * ** *
49703628 AAACGCCACTAATAT-TAATCTACCTCAAGACAAAATGGTGCGTTTTCCTTAAGATA-TTTGCGG
1 AAACGCCACTAAT-TCTAATATACCTCAA-AC-CAACGCTGCGTTTTGGTTAAGGTATTTTGCGG
**** * * *
49703691 CGCTTTTTGTTAAACGCCGCTAA-TACTATTCTTTTGCGGCGTTTTTTATAA
63 CGCTTTACAATAAACGCCACTAATTA-TGTTCTTTTACGGCG-TTTTTATAA
* * ** *
49703742 AAACGCCACGAATTCTAATATACAATTGAACCAACGCTGCGTTTTGGTTAAGGTATTTTGCGGTG
1 AAACGCCACTAATTCTAATATAC-CTCAAACCAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCG
*
49703807 C-TTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTT-TAG
65 CTTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
* *
49703853 AATCGCCACTAGTTCT
1 AAACGCCACTAATTCT
49703869 TTAGGTTTTA
Statistics
Matches: 364, Mismatches: 79, Indels: 51
0.74 0.16 0.10
Matches are distributed among these distances:
111 17 0.05
112 53 0.15
113 165 0.45
114 121 0.33
115 8 0.02
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (112 bp):
AAACGCCACTAATTCTAATATACCTCAAACCAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGC
TTTACAATAAACGCCACTAATTATGTTCTTTTACGGCGTTTTTATAA
Found at i:49711523 original size:42 final size:43
Alignment explanation
Indices: 49711380--49711625 Score: 278
Period size: 43 Copynumber: 5.6 Consensus size: 43
49711370 AAATAAGCGT
* * * *
49711380 CGCTAAAGATCATGACCTTTAGCGGCACTTTTCCCAAAAACGC
1 CGCTAAAGAACAAGACCTTTAGCGGCGCTTTCCCCAAAAACGC
* ** **
49711423 CGCTAAAGAACAAGAACAAGAACTTTAACAACGCTTTCCATAAAAACGC
1 CGCTAAAGAACAAG-AC-----CTTTAGCGGCGCTTTCCCCAAAAACGC
49711472 CGCTAAAGAACAAGACCTTTAGCGGCGC-TTCCCCAAAAACGC
1 CGCTAAAGAACAAGACCTTTAGCGGCGCTTTCCCCAAAAACGC
* *
49711514 CGCTAAAGAACAAGACCTTTAGCGGCGCTTTCCCCGAAAACGT
1 CGCTAAAGAACAAGACCTTTAGCGGCGCTTTCCCCAAAAACGC
* * * **
49711557 CGTTAAAGAACAAGACTTTTAGCGGCGCTTTACCTGAAAACGC
1 CGCTAAAGAACAAGACCTTTAGCGGCGCTTTCCCCAAAAACGC
*
49711600 CGCTAAAGAGCAAGACCTTTAGCGGC
1 CGCTAAAGAACAAGACCTTTAGCGGC
49711626 ATGTTTAGAG
Statistics
Matches: 172, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
42 40 0.23
43 94 0.55
44 2 0.01
48 2 0.01
49 34 0.20
ACGTcount: A:0.35, C:0.28, G:0.19, T:0.19
Consensus pattern (43 bp):
CGCTAAAGAACAAGACCTTTAGCGGCGCTTTCCCCAAAAACGC
Found at i:49711564 original size:85 final size:86
Alignment explanation
Indices: 49711377--49711625 Score: 284
Period size: 85 Copynumber: 2.8 Consensus size: 86
49711367 TAGAAATAAG
* * * *
49711377 CGTCGCTAAAGATCATGACCTTTAGCGGCACTTTTCCCAAAAACGCCGCTAAAGAACAAGAACAA
1 CGTCGCTAAAGAACAAGACCTTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGAACAAG-AC--
* ** *
49711442 GAACTTTAACAACGCTTTCCATAAAAA
63 ---CTTTAGCGGCGCTTTCCACAAAAA
* *
49711469 CGCCGCTAAAGAACAAGACCTTTAGCGGCGC-TTCCCCAAAAACGCCGCTAAAGAACAAGACCTT
1 CGTCGCTAAAGAACAAGACCTTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGAACAAGACCTT
* *
49711533 TAGCGGCGCTTTCCCCGAAAA
66 TAGCGGCGCTTTCCACAAAAA
* * ** *
49711554 CGTCGTTAAAGAACAAGACTTTTAGCGGCGCTTTACCTGAAAACGCCGCTAAAGAGCAAGACCTT
1 CGTCGCTAAAGAACAAGACCTTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGAACAAGACCTT
49711619 TAGCGGC
66 TAGCGGC
49711626 ATGTTTAGAG
Statistics
Matches: 138, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
85 46 0.33
86 36 0.26
90 2 0.01
91 27 0.20
92 27 0.20
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (86 bp):
CGTCGCTAAAGAACAAGACCTTTAGCGGCGCTTTACCCAAAAACGCCGCTAAAGAACAAGACCTT
TAGCGGCGCTTTCCACAAAAA
Found at i:49712352 original size:2 final size:2
Alignment explanation
Indices: 49712345--49712369 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49712335 CATAAAACTG
49712345 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
49712370 TGACAATCCA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:49714240 original size:26 final size:27
Alignment explanation
Indices: 49714198--49714248 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
49714188 AACTTATAGT
*
49714198 TTCTGGTCATTGTCGATTTCTAGCTTC
1 TTCTGGTCATCGTCGATTTCTAGCTTC
49714225 TTCTGG-CATCGTCGATTTCTAGCT
1 TTCTGGTCATCGTCGATTTCTAGCT
49714249 AAAATACAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.45
Consensus pattern (27 bp):
TTCTGGTCATCGTCGATTTCTAGCTTC
Found at i:49715090 original size:108 final size:109
Alignment explanation
Indices: 49714815--49715271 Score: 835
Period size: 109 Copynumber: 4.2 Consensus size: 109
49714805 AAGCAATAGC
* *
49714815 GGCGTTTTTACGAAAAACGCCACAAACTAATAATTTTTAGCAGATAAAATAAAAGATTTTTAGCA
1 GGCGTTTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAGGATTTTTAGCA
*
49714880 TAACAAAACGACTTCGTTTTGTTCAAAATGAAATGATTTTTTGT
66 TAACAAAACGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGT
*
49714924 GGCGTTTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAAATAAAATAAAGGATTTTTAGCA
1 GGCGTTTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAGGATTTTTAGCA
*
49714989 TAACAAAATGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGT
66 TAACAAAACGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGT
49715033 GGCG-TTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAGGATTTTTAGCA
1 GGCGTTTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAGGATTTTTAGCA
*
49715097 TAACAAAACGACATCGTTTTGTTCAAAATGAAATGATTTTTTGT
66 TAACAAAACGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGT
*
49715141 AGCGTTTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAGGATTTTTAGCA
1 GGCGTTTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAGGATTTTTAGCA
49715206 TAACAAAACGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGT
66 TAACAAAACGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGT
*
49715250 GGCGTTTTTATGAAAAACGCCG
1 GGCGTTTTTACGAAAAACGCCG
49715272 GAAAAGGTAA
Statistics
Matches: 335, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
108 104 0.31
109 231 0.69
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (109 bp):
GGCGTTTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAGGATTTTTAGCA
TAACAAAACGACGTCGTTTTGTTCAAAATGAAATGATTTTTTGT
Found at i:49715195 original size:217 final size:218
Alignment explanation
Indices: 49714815--49715271 Score: 844
Period size: 217 Copynumber: 2.1 Consensus size: 218
49714805 AAGCAATAGC
*
49714815 GGCGTTTTTACGAAAAACGCCACAAACTAATAATTTTTAGCAGATAAAATAAAAGATTTTTAGCA
1 GGCGTTTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAAGATTTTTAGCA
* *
49714880 TAACAAAACGACTTCGTTTTGTTCAAAATGAAATGATTTTTTGTGGCGTTTTTACGAAAAACGCC
66 TAACAAAACGACATCGTTTTGTTCAAAATGAAATGATTTTTTGTAGCGTTTTTACGAAAAACGCC
*
49714945 GCAAACTAATAATTTTTAGCAAATAAAATAAAGGATTTTTAGCATAACAAAATGACGTCGTTTTG
131 GCAAACTAATAATTTTTAGCAAATAAAATAAAGGATTTTTAGCATAACAAAACGACGTCGTTTTG
49715010 TTCAAAATGAAATGATTTTTTGT
196 TTCAAAATGAAATGATTTTTTGT
*
49715033 GGCG-TTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAGGATTTTTAGCA
1 GGCGTTTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAAGATTTTTAGCA
49715097 TAACAAAACGACATCGTTTTGTTCAAAATGAAATGATTTTTTGTAGCGTTTTTACGAAAAACGCC
66 TAACAAAACGACATCGTTTTGTTCAAAATGAAATGATTTTTTGTAGCGTTTTTACGAAAAACGCC
*
49715162 GCAAACTAATAATTTTTAGCAGATAAAATAAAGGATTTTTAGCATAACAAAACGACGTCGTTTTG
131 GCAAACTAATAATTTTTAGCAAATAAAATAAAGGATTTTTAGCATAACAAAACGACGTCGTTTTG
49715227 TTCAAAATGAAATGATTTTTTGT
196 TTCAAAATGAAATGATTTTTTGT
*
49715250 GGCGTTTTTATGAAAAACGCCG
1 GGCGTTTTTACGAAAAACGCCG
49715272 GAAAAGGTAA
Statistics
Matches: 231, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
217 211 0.91
218 20 0.09
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (218 bp):
GGCGTTTTTACGAAAAACGCCGCAAACTAATAATTTTTAGCAGATAAAATAAAAGATTTTTAGCA
TAACAAAACGACATCGTTTTGTTCAAAATGAAATGATTTTTTGTAGCGTTTTTACGAAAAACGCC
GCAAACTAATAATTTTTAGCAAATAAAATAAAGGATTTTTAGCATAACAAAACGACGTCGTTTTG
TTCAAAATGAAATGATTTTTTGT
Found at i:49715733 original size:31 final size:29
Alignment explanation
Indices: 49715668--49715773 Score: 95
Period size: 31 Copynumber: 3.2 Consensus size: 29
49715658 ATAAAATTTA
*
49715668 ATAACCCATAAATCCCCCTAACCCTAAACGC
1 ATAACCCCTAAATCCCCCTAACCCTAAA--C
49715699 ATAACCCCTAAATCCCCCTAACCCTTGAAAC
1 ATAACCCCTAAATCCCCCTAACCC-T-AAAC
49715730 ATAACCCTAACCCCTAAATCCCCCTAACCCCTAAAAC
1 ---A---TAACCCCTAAATCCCCCTAA-CCCT-AAAC
49715767 ATAACCC
1 ATAACCC
49715774 TAACCCCTAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
31 30 0.47
32 1 0.02
33 3 0.05
34 2 0.03
37 25 0.39
38 3 0.05
ACGTcount: A:0.38, C:0.43, G:0.02, T:0.17
Consensus pattern (29 bp):
ATAACCCCTAAATCCCCCTAACCCTAAAC
Found at i:49715739 original size:20 final size:19
Alignment explanation
Indices: 49715714--49715784 Score: 83
Period size: 20 Copynumber: 3.7 Consensus size: 19
49715704 CCCTAAATCC
*
49715714 CCCTAACCCTTGAAACATAA
1 CCCTAACCCCT-AAACATAA
**
49715734 CCCTAACCCCT-AA-ATCC
1 CCCTAACCCCTAAACATAA
49715751 CCCTAACCCCTAAAACATAA
1 CCCTAACCCCT-AAACATAA
49715771 CCCTAACCCCTAAA
1 CCCTAACCCCTAAA
49715785 TCCCCTTAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 13 0.30
18 2 0.05
19 5 0.12
20 23 0.53
ACGTcount: A:0.38, C:0.44, G:0.01, T:0.17
Consensus pattern (19 bp):
CCCTAACCCCTAAACATAA
Found at i:49715750 original size:37 final size:37
Alignment explanation
Indices: 49715700--49715811 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
49715690 CCTAAACGCA
* *
49715700 TAACCCCTAAATCCCCCTAACCCTTGAAACATAACCC
1 TAACCCCTAAATCCCCCTAACCCCTAAAACATAACCC
49715737 TAACCCCTAAATCCCCCTAACCCCTAAAACATAACCC
1 TAACCCCTAAATCCCCCTAACCCCTAAAACATAACCC
* **
49715774 TAACCCCTAAATCCCCTTAACCCCTAACGCATAACCC
1 TAACCCCTAAATCCCCCTAACCCCTAAAACATAACCC
49715811 T
1 T
49715812 TAAACCACAA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 70 1.00
ACGTcount: A:0.35, C:0.45, G:0.02, T:0.19
Consensus pattern (37 bp):
TAACCCCTAAATCCCCCTAACCCCTAAAACATAACCC
Found at i:49716088 original size:20 final size:18
Alignment explanation
Indices: 49716053--49716095 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
49716043 TAAAACTAAT
*
49716053 TAACCTAAACATAAACTC
1 TAACCTAAACATAAACCC
*
49716071 TAACCTAACCATTAAAACCC
1 TAACCTAAACA-T-AAACCC
49716091 TAACC
1 TAACC
49716096 CCTAAATCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.21
Consensus pattern (18 bp):
TAACCTAAACATAAACCC
Found at i:49716094 original size:15 final size:15
Alignment explanation
Indices: 49716074--49716131 Score: 64
Period size: 15 Copynumber: 3.8 Consensus size: 15
49716064 TAAACTCTAA
*
49716074 CCTAACCATTAAA-AC
1 CCTAACC-TTAAATCC
*
49716089 CCTAACCCCTAAATCC
1 CCTAA-CCTTAAATCC
49716105 CCTAACCTTAAATCC
1 CCTAACCTTAAATCC
*
49716120 CCTAACCCTAAA
1 CCTAACCTTAAA
49716132 GCATAACACC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 29 0.78
16 8 0.22
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (15 bp):
CCTAACCTTAAATCC
Found at i:49716109 original size:16 final size:15
Alignment explanation
Indices: 49716088--49716176 Score: 71
Period size: 15 Copynumber: 6.1 Consensus size: 15
49716078 ACCATTAAAA
49716088 CCCTAACCCCTAAATC
1 CCCTAA-CCCTAAATC
*
49716104 CCCTAACCTTAAATC
1 CCCTAACCCTAAATC
49716119 CCCTAACCCTAAA--
1 CCCTAACCCTAAATC
* *
49716132 GCATAACACCT-AA-C
1 CCCTAAC-CCTAAATC
*
49716146 CCCTAAACCTTAAAT-
1 CCCT-AACCCTAAATC
*
49716161 CCCAAACCCTAAATC
1 CCCTAACCCTAAATC
49716176 C
1 C
49716177 ATACCCCGAC
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
13 7 0.12
14 16 0.28
15 29 0.50
16 6 0.10
ACGTcount: A:0.37, C:0.43, G:0.01, T:0.19
Consensus pattern (15 bp):
CCCTAACCCTAAATC
Found at i:49716109 original size:31 final size:30
Alignment explanation
Indices: 49716074--49716131 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
49716064 TAAACTCTAA
49716074 CCTAACCATTAAA-ACCCTAACCCCTAAATCC
1 CCTAACC-TTAAATACCCTAA-CCCTAAATCC
*
49716105 CCTAACCTTAAATCCCCTAACCCTAAA
1 CCTAACCTTAAATACCCTAACCCTAAA
49716132 GCATAACACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.21
Consensus pattern (30 bp):
CCTAACCTTAAATACCCTAACCCTAAATCC
Found at i:49716130 original size:21 final size:22
Alignment explanation
Indices: 49716104--49716173 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 22
49716094 CCCCTAAATC
49716104 CCCT-AACCTTAAATCCCCTAA
1 CCCTAAACCTTAAATCCCCTAA
* * *
49716125 CCCTAAAGCAT-AA-CACCTAA
1 CCCTAAACCTTAAATCCCCTAA
*
49716145 CCCCTAAACCTTAAAT-CCCAAA
1 -CCCTAAACCTTAAATCCCCTAA
49716167 CCCTAAA
1 CCCTAAA
49716174 TCCATACCCC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
20 6 0.16
21 22 0.58
22 10 0.26
ACGTcount: A:0.40, C:0.40, G:0.01, T:0.19
Consensus pattern (22 bp):
CCCTAAACCTTAAATCCCCTAA
Found at i:49716594 original size:114 final size:113
Alignment explanation
Indices: 49716388--49716960 Score: 731
Period size: 114 Copynumber: 5.0 Consensus size: 113
49716378 TAAATTATTT
* * *
49716388 TAAATCCCTAAGCATTAGCGGCGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGC-ACAGAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCT-AATCCCCGAAAGCTA-AGAAAA
* * *
49716452 CGGCGCCGTTTGGCTTA-GTTTTTCTTGCGGCGCTTTCCCAAAAACGCCGC
64 CGGCGTCGTTGGGCTTAGGTTTTT-TTGCGGCGCTTTCTCAAAAACGCCGC
* * *
49716502 TAAATCCCTGAGCATTAGCGGCGCTTTCTGAAAAACGCCGCTAATTCCCCGAAAGCTAAGGAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAA-TCCCCGAAAGCTAAGAAAAC
* * *
49716567 GGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCCCAAAAACGCCGC
65 GGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* ** * * *
49716616 TAAAGCCCTGAGTATTAAAGCCGCTTTCTTAAAAACGCCACTAAACACCCGAAAAGCTCAA-AAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAATC-CCCG-AAAGCT-AAGAAA
49716680 ACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
63 ACGGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* * * *
49716731 TAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAATGCCGCTAAGCCCACGAAAGCTCAGAAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAATCCC-CGAAAGCTAAGAAAAC
*
49716796 AGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
65 GGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
* * * ** * *
49716845 TAAAGCCCTGAGAATTAGCGGCGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTCGGTAAAT
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC-TAATCCCCGAAAGCTAAGAAAAC
* * **
49716910 AGCGTCATTGGGCTTAGG-TTTTTTGCGGCGCTTTCTGGAAAACGCCGC
65 GGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
49716958 TAA
1 TAA
49716961 TTCTTATTTC
Statistics
Matches: 408, Mismatches: 42, Indels: 19
0.87 0.09 0.04
Matches are distributed among these distances:
113 35 0.09
114 263 0.64
115 108 0.26
116 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (113 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAATCCCCGAAAGCTAAGAAAACG
GCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGC
Found at i:49716809 original size:229 final size:228
Alignment explanation
Indices: 49716409--49716960 Score: 770
Period size: 229 Copynumber: 2.4 Consensus size: 228
49716399 GCATTAGCGG
* * * * *
49716409 CGCTTTCATAAAAACGCCGCTAAATCCCCGAAAGCACAGAAAACGGCGCCGTTTGGCTTA-GTTT
1 CGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
* * *
49716473 TTCTTGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCTGAGCATTAGCGGCGCTTTCTGAAAAAC
66 TT-TTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTGAAAAAC
* * * *
49716538 GCCGCTAATTCCCCGAAAGCTAAGGAAACGGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTCC
130 GCCGCTAATGCCCCGAAAGCTAAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTCC
*
49716603 CCAAAAACGCCGCTAAAGCCCTGAGTATTAAAGC
195 CCAAAAACGCCGCTAAAGCCCTGAGAATTAAAGC
*
49716637 CGCTTTCTTAAAAACGCCACTAAA-CACCCGAAAAGCTCAAAAAACGGCGTCGTTGGGCTTAGGT
1 CGCTTTCTTAAAAACGCCACTAAATC-CCCG-AAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGT
*
49716701 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTTAAAAA
64 TTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTGAAAAA
* *
49716766 TGCCGCTAA-GCCCACGAAAGCTCAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTT
129 CGCCGCTAATGCCC-CGAAAGCTAAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTT
* * ** *
49716830 TCTCAAAAACGCCGCTAAAGCCCTGAGAATTAGCGG
193 CCCCAAAAACGCCGCTAAAGCCCTGAGAATTAAAGC
* * * ** *
49716866 CGCTTTCTTAAAAACGCCACAAAATCCCCGAAAGCTCGGTAAATAGCGTCATTGGGCTTAGG-TT
1 CGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
**
49716930 TTTTGCGGCGCTTTCTGGAAAACGCCGCTAA
66 TTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
49716961 TTCTTATTTC
Statistics
Matches: 288, Mismatches: 31, Indels: 11
0.87 0.09 0.03
Matches are distributed among these distances:
227 32 0.11
228 55 0.19
229 194 0.67
230 7 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (228 bp):
CGCTTTCTTAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGGTTT
TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTCCTGAAAAACG
CCGCTAATGCCCCGAAAGCTAAGAAAACAGCGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTCCC
CAAAAACGCCGCTAAAGCCCTGAGAATTAAAGC
Found at i:49720156 original size:32 final size:33
Alignment explanation
Indices: 49720120--49720207 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 33
49720110 AAAAATTCCG
*
49720120 GAAAATATTTT-CAGGAAATC-TGCCAAACAACA
1 GAAAATATTTTACAGCAAATCAT-CCAAACAACA
* *
49720152 GAAAATATTTTACA-CAGATTCATCCAAACACCA
1 GAAAATATTTTACAGCA-AATCATCCAAACAACA
* *
49720185 GAAAATATTTTCCAGTAAATCAT
1 GAAAATATTTTACAGCAAATCAT
49720208 TTTACAGAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
32 12 0.26
33 32 0.70
34 2 0.04
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACAGCAAATCATCCAAACAACA
Found at i:49720240 original size:34 final size:35
Alignment explanation
Indices: 49720186--49720252 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
49720176 CAAACACCAG
*
49720186 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
49720221 AAAACATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
49720253 CATTTTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:49725377 original size:17 final size:17
Alignment explanation
Indices: 49725350--49725395 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 17
49725340 TTTTATTTGG
49725350 GGGGAAATAAAAAGTTTT
1 GGGGAAAT-AAAAGTTTT
49725368 GGGG-AATAAAAG-TTT
1 GGGGAAATAAAAGTTTT
49725383 GAGGGAAAGTAAA
1 G-GGGAAA-TAAA
49725396 TAGGGAGAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 4 0.16
16 8 0.32
17 5 0.20
18 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.22
Consensus pattern (17 bp):
GGGGAAATAAAAGTTTT
Found at i:49725515 original size:30 final size:31
Alignment explanation
Indices: 49725476--49725535 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
49725466 GGAGGTGGGA
*
49725476 TGGGAAGAGAATAAAAGTTTTAGGGG-AAAAG
1 TGGGAAGAGAATAAAAATTTT-GGGGTAAAAG
*
49725507 TGGG-AGAGAGTAAAAATTTTGGGGTAAAA
1 TGGGAAGAGAATAAAAATTTTGGGGTAAAA
49725536 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 18 0.69
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.35, T:0.22
Consensus pattern (31 bp):
TGGGAAGAGAATAAAAATTTTGGGGTAAAAG
Found at i:49725763 original size:9 final size:9
Alignment explanation
Indices: 49725749--49725794 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
49725739 TATAGTTTGA
49725749 TATTCGAAT
1 TATTCGAAT
49725758 TATTCGAAT
1 TATTCGAAT
*
49725767 TATTCGAAA
1 TATTCGAAT
*
49725776 TATTCGAGT
1 TATTCGAAT
49725785 TATTCGAAT
1 TATTCGAAT
49725794 T
1 T
49725795 CGAAAACTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:49725865 original size:9 final size:9
Alignment explanation
Indices: 49725838--49725880 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
49725828 AAAAAAAAAT
*
49725838 TCGAGTTAAT
1 TCGA-TTAAC
*
49725848 TCGAATAAC
1 TCGATTAAC
49725857 TCGATTAAC
1 TCGATTAAC
*
49725866 TCGAATAAC
1 TCGATTAAC
49725875 TCGATT
1 TCGATT
49725881 CGTTTAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
9 24 0.86
10 4 0.14
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (9 bp):
TCGATTAAC
Found at i:49725869 original size:18 final size:18
Alignment explanation
Indices: 49725838--49725880 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 18
49725828 AAAAAAAAAT
*
49725838 TCGAGTTAATTCGAATAAC
1 TCGA-TTAACTCGAATAAC
49725857 TCGATTAACTCGAATAAC
1 TCGATTAACTCGAATAAC
49725875 TCGATT
1 TCGATT
49725881 CGTTTAACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (18 bp):
TCGATTAACTCGAATAAC
Found at i:49731390 original size:23 final size:23
Alignment explanation
Indices: 49731364--49731409 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
49731354 TGAAAACCCT
*
49731364 AGAAAAAGTAAAAAAAAACTAAG
1 AGAAAAACTAAAAAAAAACTAAG
** *
49731387 AGAAACTCTAAAACAAAACTAAG
1 AGAAAAACTAAAAAAAAACTAAG
49731410 GCTAAAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.67, C:0.11, G:0.11, T:0.11
Consensus pattern (23 bp):
AGAAAAACTAAAAAAAAACTAAG
Found at i:49735810 original size:3 final size:3
Alignment explanation
Indices: 49735802--49735836 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
49735792 TATATAAAAG
49735802 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
49735837 TGAAATTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:49744717 original size:26 final size:26
Alignment explanation
Indices: 49744678--49744753 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 26
49744668 TGGTTCACAC
* * **
49744678 ATTGATCTCGCACATTAGGCTTGTGT
1 ATTGAGCTCGCACATTAGGCTCGCAT
* *
49744704 ATTGAGCTCACACATTGGGCTCGCAT
1 ATTGAGCTCGCACATTAGGCTCGCAT
49744730 ATTGAGCTCGCACA-TAGGGCTCGC
1 ATTGAGCTCGCACATTA-GGCTCGC
49744754 GTAGAGAGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
25 1 0.02
26 40 0.98
ACGTcount: A:0.21, C:0.25, G:0.25, T:0.29
Consensus pattern (26 bp):
ATTGAGCTCGCACATTAGGCTCGCAT
Found at i:49744751 original size:13 final size:13
Alignment explanation
Indices: 49744704--49744753 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
49744694 AGGCTTGTGT
* *
49744704 ATTGAGCTCACAC
1 ATTGGGCTCGCAC
*
49744717 ATTGGGCTCGCAT
1 ATTGGGCTCGCAC
*
49744730 ATTGAGCTCGCAC
1 ATTGGGCTCGCAC
*
49744743 ATAGGGCTCGC
1 ATTGGGCTCGC
49744754 GTAGAGAGCT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.22, C:0.28, G:0.26, T:0.24
Consensus pattern (13 bp):
ATTGGGCTCGCAC
Found at i:49744762 original size:26 final size:26
Alignment explanation
Indices: 49744707--49744767 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
49744697 CTTGTGTATT
* **
49744707 GAGCTCACACATTGGGCTCGCATATT
1 GAGCTCACACATAGGGCTCGCATAGA
* *
49744733 GAGCTCGCACATAGGGCTCGCGTAGA
1 GAGCTCACACATAGGGCTCGCATAGA
49744759 GAGCTCACA
1 GAGCTCACA
49744768 TGACGCTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.28, G:0.28, T:0.20
Consensus pattern (26 bp):
GAGCTCACACATAGGGCTCGCATAGA
Found at i:49747915 original size:37 final size:37
Alignment explanation
Indices: 49747865--49747940 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
49747855 TCAACTTAGT
49747865 TCATTTTCATCATGCTTACAATGCTCTGGAAAAGTAA
1 TCATTTTCATCATGCTTACAATGCTCTGGAAAAGTAA
49747902 TCATTTTCATCATGCTTACAATGCTCTGGAAAAGTAA
1 TCATTTTCATCATGCTTACAATGCTCTGGAAAAGTAA
49747939 TC
1 TC
49747941 CAAGGCAACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (37 bp):
TCATTTTCATCATGCTTACAATGCTCTGGAAAAGTAA
Found at i:49755254 original size:16 final size:17
Alignment explanation
Indices: 49755229--49755261 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
49755219 TTCCATGATA
49755229 GATTAAATTG-AATGAG
1 GATTAAATTGAAATGAG
*
49755245 GATTATATTGAAATGAG
1 GATTAAATTGAAATGAG
49755262 TTAAATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.33
Consensus pattern (17 bp):
GATTAAATTGAAATGAG
Found at i:49755565 original size:25 final size:25
Alignment explanation
Indices: 49755537--49755618 Score: 137
Period size: 25 Copynumber: 3.3 Consensus size: 25
49755527 GTTACCGATT
* * *
49755537 TCAGCTCTTATGAGCTTACTGATAC
1 TCAGCTCATATGAGCTTACCGTTAC
49755562 TCAGCTCATATGAGCTTACCGTTAC
1 TCAGCTCATATGAGCTTACCGTTAC
49755587 TCAGCTCATATGAGCTTACCGTTAC
1 TCAGCTCATATGAGCTTACCGTTAC
49755612 TCAGCTC
1 TCAGCTC
49755619 GGTGGAGCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 54 1.00
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (25 bp):
TCAGCTCATATGAGCTTACCGTTAC
Found at i:49755626 original size:25 final size:25
Alignment explanation
Indices: 49755537--49755634 Score: 117
Period size: 25 Copynumber: 3.9 Consensus size: 25
49755527 GTTACCGATT
* * * *
49755537 TCAGCTCTTATGAGCTTACTGATAC
1 TCAGCTCATAGGAGCTTACCGTTAC
*
49755562 TCAGCTCATATGAGCTTACCGTTAC
1 TCAGCTCATAGGAGCTTACCGTTAC
*
49755587 TCAGCTCATATGAGCTTACCGTTAC
1 TCAGCTCATAGGAGCTTACCGTTAC
*
49755612 TCAGCTCGGT-GGAGCTTACCGTT
1 TCAGCTC-ATAGGAGCTTACCGTT
49755635 TATAGCTTGT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
25 66 0.99
26 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (25 bp):
TCAGCTCATAGGAGCTTACCGTTAC
Found at i:49755627 original size:50 final size:50
Alignment explanation
Indices: 49755537--49755634 Score: 135
Period size: 50 Copynumber: 2.0 Consensus size: 50
49755527 GTTACCGATT
* * *
49755537 TCAGCTCTTATGAGCTTACTGATACTCAGCTCATATGAGCTTACCGTTAC
1 TCAGCTCATATGAGCTTACCGATACTCAGCTCATAGGAGCTTACCGTTAC
* *
49755587 TCAGCTCATATGAGCTTACCGTTACTCAGCTCGGT-GGAGCTTACCGTT
1 TCAGCTCATATGAGCTTACCGATACTCAGCTC-ATAGGAGCTTACCGTT
49755635 TATAGCTTGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 41 0.98
51 1 0.02
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (50 bp):
TCAGCTCATATGAGCTTACCGATACTCAGCTCATAGGAGCTTACCGTTAC
Found at i:49760908 original size:14 final size:14
Alignment explanation
Indices: 49760872--49760908 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
49760862 TGATGTCATT
*
49760872 TTACTATTATATTG
1 TTACTATTTTATTG
49760886 TTACTATTTTATTG
1 TTACTATTTTATTG
*
49760900 TTATTATTT
1 TTACTATTT
49760909 GGATATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (14 bp):
TTACTATTTTATTG
Found at i:49761723 original size:13 final size:13
Alignment explanation
Indices: 49761705--49761739 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
49761695 ATTATTTTCT
49761705 ATATTCTTTTAAA
1 ATATTCTTTTAAA
*
49761718 ATATTCTTATAAA
1 ATATTCTTTTAAA
49761731 ATATT-TTTT
1 ATATTCTTTT
49761740 TCCTTTTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (13 bp):
ATATTCTTTTAAA
Found at i:49761873 original size:15 final size:16
Alignment explanation
Indices: 49761846--49761876 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
49761836 TTATTTATTC
49761846 ATTTTCATTATTAAAA
1 ATTTTCATTATTAAAA
49761862 ATTTTC-TTATTAAAA
1 ATTTTCATTATTAAAA
49761877 TTTAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTTTCATTATTAAAA
Found at i:49766197 original size:16 final size:16
Alignment explanation
Indices: 49766176--49766206 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49766166 CCAATATCCA
*
49766176 ATTATCATATTTACAC
1 ATTATCACATTTACAC
49766192 ATTATCACATTTACA
1 ATTATCACATTTACA
49766207 AAAATATATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.19, G:0.00, T:0.42
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:49766991 original size:12 final size:12
Alignment explanation
Indices: 49766974--49767025 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 12
49766964 CGTGCGTTTC
*
49766974 TTCTTTCTCCCT
1 TTCTTTCTCCTT
49766986 TTCTTTCT--TT
1 TTCTTTCTCCTT
*
49766996 TTCTTTTTCCTT
1 TTCTTTCTCCTT
49767008 TTCTTTCT--TT
1 TTCTTTCTCCTT
49767018 TTCTTTCT
1 TTCTTTCT
49767026 TTCTAATTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 18 0.51
12 17 0.49
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (12 bp):
TTCTTTCTCCTT
Found at i:49767000 original size:10 final size:10
Alignment explanation
Indices: 49766985--49767027 Score: 59
Period size: 10 Copynumber: 4.1 Consensus size: 10
49766975 TCTTTCTCCC
49766985 TTTCTTTCTT
1 TTTCTTTCTT
*
49766995 TTTCTTTTTCCT
1 TTTC--TTTCTT
49767007 TTTCTTTCTT
1 TTTCTTTCTT
49767017 TTTCTTTCTT
1 TTTCTTTCTT
49767027 T
1 T
49767028 CTAATTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 20 0.69
12 9 0.31
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:49767001 original size:22 final size:22
Alignment explanation
Indices: 49766974--49767025 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
49766964 CGTGCGTTTC
49766974 TTCTTTCTCCCTTTCTTTCTTT
1 TTCTTTCTCCCTTTCTTTCTTT
* *
49766996 TTCTTTTTCCTTTTCTTTCTTT
1 TTCTTTCTCCCTTTCTTTCTTT
49767018 TTCTTTCT
1 TTCTTTCT
49767026 TTCTAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
TTCTTTCTCCCTTTCTTTCTTT
Found at i:49769500 original size:21 final size:21
Alignment explanation
Indices: 49769453--49769500 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
49769443 TGTGAACTAC
49769453 ATAAGAAATTGGATGAAGAAA
1 ATAAGAAATTGGATGAAGAAA
* *
49769474 ACAAGAAATTGG-TGGAGTAAA
1 ATAAGAAATTGGATGAAG-AAA
49769495 ATAAGA
1 ATAAGA
49769501 GGTTACAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.54, C:0.02, G:0.25, T:0.19
Consensus pattern (21 bp):
ATAAGAAATTGGATGAAGAAA
Found at i:49770576 original size:12 final size:12
Alignment explanation
Indices: 49770559--49770587 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
49770549 TCAAGCTGTT
49770559 ACACGACCTAGC
1 ACACGACCTAGC
49770571 ACACGACCTAGC
1 ACACGACCTAGC
49770583 ACACG
1 ACACG
49770588 GGTGTGTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.41, G:0.17, T:0.07
Consensus pattern (12 bp):
ACACGACCTAGC
Found at i:49771930 original size:130 final size:130
Alignment explanation
Indices: 49771697--49772047 Score: 422
Period size: 130 Copynumber: 2.7 Consensus size: 130
49771687 CAACTTGGGA
* * *
49771697 AAGATTGTTCATGATAGTAAATCAATAAACTTAGGCTGTGATCGTAAATCAAC-AATCCTTAATA
1 AAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAACGAA-CCTTAATA
* * * * * * * *
49771761 ACATCAATTGTGATATTAAATCAGTGAGTTGTTTGAAGTAGCAATAGTAGATCAGCTAACTCAGA
65 ATATCAGTTGTGACATTAAATCAGTGAGTTATTTAAAGTAACAATAGTAAATCAACTAACTCAGA
49771826 G
130 G
* * *
49771827 AAGATTATTCATGATAGTAAATTAATGAATTTAGGTTGTGATCATAAATCAACGAACCTTAATAA
1 AAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAACGAACCTTAATAA
* * *
49771892 TATCAGCTGTGACCTTAAATCAGCT-A-TCTATTTAAAGTAACAATAGTAAATCAACTAACTTAG
66 TATCAGTTGTGACATTAAATCAG-TGAGT-TATTTAAAGTAACAATAGTAAATCAACTAACTCAG
49771955 AG
129 AG
* * * * *
49771957 AAGATTTTTCATGATAGTAAATCAATGAACTTAGTTTGTGATCGTAAATTAGA-GAGCATTAATA
1 AAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAATCA-ACGAACCTTAATA
* *
49772021 ATATCAGTTGTGACTTTAAATTAGTGA
65 ATATCAGTTGTGACATTAAATCAGTGA
49772048 TTTGTTTTAC
Statistics
Matches: 188, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
129 2 0.01
130 182 0.97
131 4 0.02
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (130 bp):
AAGATTATTCATGATAGTAAATCAATGAACTTAGGTTGTGATCGTAAATCAACGAACCTTAATAA
TATCAGTTGTGACATTAAATCAGTGAGTTATTTAAAGTAACAATAGTAAATCAACTAACTCAGAG
Found at i:49774567 original size:29 final size:29
Alignment explanation
Indices: 49774529--49774584 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
49774519 ACTTTGGTGC
49774529 CCTCTATTCTAACATAGCACTCCGGTGTT
1 CCTCTATTCTAACATAGCACTCCGGTGTT
* ** *
49774558 CCTCTGTTCTATTATTGCACTCCGGTG
1 CCTCTATTCTAACATAGCACTCCGGTG
49774585 CATTACTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.16, C:0.30, G:0.16, T:0.38
Consensus pattern (29 bp):
CCTCTATTCTAACATAGCACTCCGGTGTT
Found at i:49780152 original size:22 final size:23
Alignment explanation
Indices: 49780124--49780166 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
49780114 AAAAGCTATA
49780124 AAAATTTTAAAAATAA-AAAATG
1 AAAATTTTAAAAATAATAAAATG
*
49780146 AAAATTTTGAAAATAATAAAA
1 AAAATTTTAAAAATAATAAAA
49780167 GATTTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (23 bp):
AAAATTTTAAAAATAATAAAATG
Found at i:49790819 original size:19 final size:21
Alignment explanation
Indices: 49790791--49790840 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
49790781 GGTCTTTTAC
*
49790791 TAAAATAATA-TAAAAGAA-A
1 TAAAAAAATATTAAAAGAATA
*
49790810 TAAAAAAATATTAAAATAATA
1 TAAAAAAATATTAAAAGAATA
49790831 TATAAAAAAT
1 TA-AAAAAAT
49790841 TATTTATCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 9 0.35
20 7 0.27
21 3 0.12
22 7 0.27
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (21 bp):
TAAAAAAATATTAAAAGAATA
Found at i:49790931 original size:27 final size:27
Alignment explanation
Indices: 49790895--49790946 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
49790885 ATGGAATGGC
*
49790895 GGCACCGGTGGTGCCATTCTCATTGAT
1 GGCACCGGTGGTGCCATTCCCATTGAT
* *
49790922 GGCATCGGTGGTGCTATTCCCATTG
1 GGCACCGGTGGTGCCATTCCCATTG
49790947 GCGACATAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.13, C:0.25, G:0.31, T:0.31
Consensus pattern (27 bp):
GGCACCGGTGGTGCCATTCCCATTGAT
Found at i:49799588 original size:19 final size:21
Alignment explanation
Indices: 49799547--49799595 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
49799537 GGTAAATAAT
49799547 TTTTTTATATATTATTTTAGTA
1 TTTTTT-TATATTATTTTAGTA
*
49799569 TTTTTTTAT-TTCTTTT-GTA
1 TTTTTTTATATTATTTTAGTA
*
49799588 TTATTTTA
1 TTTTTTTA
49799596 GTAAAAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.40
20 6 0.24
21 3 0.12
22 6 0.24
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (21 bp):
TTTTTTTATATTATTTTAGTA
Found at i:49812652 original size:23 final size:23
Alignment explanation
Indices: 49812619--49812679 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
49812609 CACTGATACA
* *
49812619 TAGCTGAAGCTACCACTGATATG
1 TAGCCGAAGCTACCACTGAAATG
* *
49812642 TATCCGTAGCTACCACTGAAATG
1 TAGCCGAAGCTACCACTGAAATG
49812665 TAGCCGAAGCTACCA
1 TAGCCGAAGCTACCA
49812680 ATAATTAATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (23 bp):
TAGCCGAAGCTACCACTGAAATG
Found at i:49812936 original size:18 final size:17
Alignment explanation
Indices: 49812910--49812948 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
49812900 ATTTTCCTTC
49812910 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
49812927 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
49812945 CACA
1 CACA
49812949 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:49813913 original size:13 final size:15
Alignment explanation
Indices: 49813895--49813926 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
49813885 AAATTTTCAC
49813895 AAAATCAT-T-CCAT
1 AAAATCATATACCAT
49813908 AAAATCATATACCAT
1 AAAATCATATACCAT
49813923 AAAA
1 AAAA
49813927 ATATAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATCATATACCAT
Found at i:49816217 original size:26 final size:26
Alignment explanation
Indices: 49816181--49816232 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
49816171 ACTTGATGTG
*
49816181 TGTACGCTAAAGAGTGGTTAATAGTA
1 TGTACGCTAAAGAGCGGTTAATAGTA
49816207 TGTACGCTAAAGAGCGGTTAATAGTA
1 TGTACGCTAAAGAGCGGTTAATAGTA
49816233 CTTGTACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.29
Consensus pattern (26 bp):
TGTACGCTAAAGAGCGGTTAATAGTA
Found at i:49817361 original size:22 final size:23
Alignment explanation
Indices: 49817307--49817361 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
49817297 GTGTAGTATT
* *
49817307 TTAAATTATAAAAAAAAACTTTT
1 TTAAATTATTAAAAAAAACTTTA
* * *
49817330 TTAAAATATTCAACAAAA-TTTA
1 TTAAATTATTAAAAAAAACTTTA
49817352 TTAAATTATT
1 TTAAATTATT
49817362 GTACAATACT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
TTAAATTATTAAAAAAAACTTTA
Found at i:49826405 original size:78 final size:78
Alignment explanation
Indices: 49826301--49826450 Score: 185
Period size: 78 Copynumber: 1.9 Consensus size: 78
49826291 TGTTAACAAC
* ** * * *
49826301 AAAAATCGAATAAATTTTGTTGAACGACAATAA-AAGAATCCTTAAACAGAAATATTCAATTGAT
1 AAAAATCGAACAAATCCTGTTAAACGACAAGAATAA-AATCCTGAAACAGAAATATTCAATTGAT
49826365 TTCTGTTTGAAACA
65 TTCTGTTTGAAACA
* * * *
49826379 AAAAATCGAACAAATCCTGTTAAACGACAGGAATAAAATCCTGAAATAGAATTGTTCAATTGATT
1 AAAAATCGAACAAATCCTGTTAAACGACAAGAATAAAATCCTGAAACAGAAATATTCAATTGATT
*
49826444 TTTGTTT
66 TCTGTTT
49826451 ACAAACATAA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
78 58 0.97
79 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (78 bp):
AAAAATCGAACAAATCCTGTTAAACGACAAGAATAAAATCCTGAAACAGAAATATTCAATTGATT
TCTGTTTGAAACA
Found at i:49828789 original size:30 final size:30
Alignment explanation
Indices: 49828743--49828866 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
49828733 TTTTATTATG
*
49828743 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
49828774 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
49828804 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
49828834 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
49828864 CCA
1 CCA
49828867 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:49828798 original size:15 final size:15
Alignment explanation
Indices: 49828753--49828860 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
49828743 CCAATATCTC
49828753 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
49828768 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
49828783 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
49828798 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
49828813 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
49828828 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
49828843 GATACCCATATCTTT
1 GATACCCATATCTTT
49828858 GAT
1 GAT
49828861 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
14 12 0.18
15 43 0.64
16 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:49833480 original size:30 final size:30
Alignment explanation
Indices: 49833436--49833559 Score: 194
Period size: 30 Copynumber: 4.1 Consensus size: 30
49833426 TTTTATTATG
*
49833436 CCAATATCTTGATACCCATATATTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
49833467 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
49833497 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * * *
49833527 CTATTATTTGATACTCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
49833557 CCA
1 CCA
49833560 TAAATATGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
30 80 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.22, G:0.06, T:0.45
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:49833521 original size:15 final size:15
Alignment explanation
Indices: 49833439--49833553 Score: 74
Period size: 15 Copynumber: 7.6 Consensus size: 15
49833429 TATTATGCCA
49833439 ATATCTTGATACCCAT
1 ATAT-TTGATACCCAT
**
49833455 ATATTTGACTTTCCA-
1 ATATTTGA-TACCCAT
49833470 ATATTTGATACCCAT
1 ATATTTGATACCCAT
* **
49833485 ATCTTTGACTTTCCA-
1 ATATTTGA-TACCCAT
49833500 ATATTTGATACCCAT
1 ATATTTGATACCCAT
* ** *
49833515 ATCTTTGACTTTCTAT
1 ATATTTGA-TACCCAT
*
49833531 -TATTTGATACTCAT
1 ATATTTGATACCCAT
*
49833545 ATCTTTGAT
1 ATATTTGAT
49833554 TTTCCATAAA
Statistics
Matches: 73, Mismatches: 20, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
14 11 0.15
15 46 0.63
16 16 0.22
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (15 bp):
ATATTTGATACCCAT
Found at i:49837104 original size:42 final size:42
Alignment explanation
Indices: 49837050--49837158 Score: 173
Period size: 42 Copynumber: 2.6 Consensus size: 42
49837040 CACGTAAGTA
49837050 ATCGCGCTGATGTGGACGCGATTTCCTGACACATCCCCTGAC
1 ATCGCGCTGATGTGGACGCGATTTCCTGACACATCCCCTGAC
*
49837092 ATCGCGCTGATGTGGACGCGGTTTCCTGACACATCCCCTGAC
1 ATCGCGCTGATGTGGACGCGATTTCCTGACACATCCCCTGAC
* * * *
49837134 ATCGCACTGACGTGGTCGCAATTTC
1 ATCGCGCTGATGTGGACGCGATTTC
49837159 GGGAAAAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.18, C:0.32, G:0.25, T:0.25
Consensus pattern (42 bp):
ATCGCGCTGATGTGGACGCGATTTCCTGACACATCCCCTGAC
Found at i:49837363 original size:29 final size:29
Alignment explanation
Indices: 49837321--49837380 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
49837311 CCCTCACTCG
49837321 TTAAAAACCCACGTCTTTCACTTCCAACA
1 TTAAAAACCCACGTCTTTCACTTCCAACA
49837350 TTAAAAACCCACGTCTTTCACTTCCAACA
1 TTAAAAACCCACGTCTTTCACTTCCAACA
49837379 TT
1 TT
49837381 CAATTCAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (29 bp):
TTAAAAACCCACGTCTTTCACTTCCAACA
Found at i:49837798 original size:35 final size:35
Alignment explanation
Indices: 49837752--49837822 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
49837742 GACAAATGAG
49837752 AAAGTTTGTGCAATATTTACCTCTTCTAAACTCCT
1 AAAGTTTGTGCAATATTTACCTCTTCTAAACTCCT
49837787 AAAGTTTGTGCAATATTTACCTCTTCTAAACTCCT
1 AAAGTTTGTGCAATATTTACCTCTTCTAAACTCCT
49837822 A
1 A
49837823 TAAAATGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (35 bp):
AAAGTTTGTGCAATATTTACCTCTTCTAAACTCCT
Found at i:49840421 original size:126 final size:128
Alignment explanation
Indices: 49840246--49840492 Score: 313
Period size: 126 Copynumber: 1.9 Consensus size: 128
49840236 CACCGGCTTG
* * * * *
49840246 ACAGCCTGCCACCGATGTGACCTGTCGGCCACGGGTCTAGGTTCCAATACCCAATTATTTTATTT
1 ACAGCCTGCCACCGATGTGACCCGTCGACCACAGGTCGAGGTTCCAATACCCAATTATTTTATAT
**
49840311 ATCAA-CTT-TTTTACTTTCTTTTTAAA-ATATATATATAATAAAAAATAATATTATAAACGTA
66 AT-AAGCTTCTTTTACTTTCTGCTTAAATATATATATATAATAAAAAATAATATTATAAACGTA
* * * * **
49840372 ACAGCCTGTCACTGATGTGACCCGTCGATCACAGGTCCGA-GTTCTAATACCTGATTATTTTATA
1 ACAGCCTGCCACCGATGTGACCCGTCGACCACAGGT-CGAGGTTCCAATACCCAATTATTTTATA
* *
49840436 TATAAGTTTCTTTTACTTTCTGCTTAAATGTATATATATAATAAAAAATAATATTAT
65 TATAAGCTTCTTTTACTTTCTGCTTAAATATATATATATAATAAAAAATAATATTAT
49840493 GAATATTATA
Statistics
Matches: 102, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
125 2 0.02
126 55 0.54
127 18 0.18
128 27 0.26
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.38
Consensus pattern (128 bp):
ACAGCCTGCCACCGATGTGACCCGTCGACCACAGGTCGAGGTTCCAATACCCAATTATTTTATAT
ATAAGCTTCTTTTACTTTCTGCTTAAATATATATATATAATAAAAAATAATATTATAAACGTA
Found at i:49845826 original size:5 final size:5
Alignment explanation
Indices: 49845816--49845840 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49845806 ATATTGAAGA
49845816 GAAAG GAAAG GAAAG GAAAG GAAAG
1 GAAAG GAAAG GAAAG GAAAG GAAAG
49845841 TGTTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:49847184 original size:57 final size:57
Alignment explanation
Indices: 49847105--49847217 Score: 183
Period size: 57 Copynumber: 2.0 Consensus size: 57
49847095 GGGTGATCCT
*
49847105 ATCTTGATATAGCCCTCCCGAAGAATATGTGTGAAAA-AGATCTAGCCCGGACGGGTG
1 ATCTTGATATAGCCCTCACGAAGAATATGTG-GAAAATAGATCTAGCCCGGACGGGTG
* *
49847162 ATCTTGATATAGCCCTCACGAAGAATATGTGGAAAATGGATTTAGCCCGGACGGGT
1 ATCTTGATATAGCCCTCACGAAGAATATGTGGAAAATAGATCTAGCCCGGACGGGT
49847218 AATCCGAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
56 5 0.10
57 47 0.90
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (57 bp):
ATCTTGATATAGCCCTCACGAAGAATATGTGGAAAATAGATCTAGCCCGGACGGGTG
Found at i:49847758 original size:46 final size:46
Alignment explanation
Indices: 49847691--49847785 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
49847681 TTTATATTTA
49847691 AGAAGAAAGAACAAGAAAATGATATGTATCATGACATGTAAATATG
1 AGAAGAAAGAACAAGAAAATGATATGTATCATGACATGTAAATATG
49847737 AGAAGAAAGAACAAGAAAATGATATGTATCATGACATGTAAATATG
1 AGAAGAAAGAACAAGAAAATGATATGTATCATGACATGTAAATATG
49847783 AGA
1 AGA
49847786 CTATCTTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.21
Consensus pattern (46 bp):
AGAAGAAAGAACAAGAAAATGATATGTATCATGACATGTAAATATG
Found at i:49848928 original size:5 final size:5
Alignment explanation
Indices: 49848902--49848962 Score: 54
Period size: 5 Copynumber: 12.0 Consensus size: 5
49848892 TTTTACGTTA
* * *
49848902 TTTCT TTCTCT CTTTTT TTTCT TTTC- TTTC- TTTCAT TTTCC CTTCT
1 TTTCT TT-TCT -TTTCT TTTCT TTTCT TTTCT TTTC-T TTTCT TTTCT
49848948 TTTCT TTTCT TTTCT
1 TTTCT TTTCT TTTCT
49848963 GTTTTCTCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
4 8 0.17
5 27 0.59
6 9 0.20
7 2 0.04
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (5 bp):
TTTCT
Found at i:49851666 original size:23 final size:23
Alignment explanation
Indices: 49851636--49851692 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
49851626 AACCTATCTT
49851636 AATAAACATACACTACAAAATAA
1 AATAAACATACACTACAAAATAA
*
49851659 AATAAACATATACTACAAAATAA
1 AATAAACATACACTACAAAATAA
*
49851682 TATAAACATAC
1 AATAAACATAC
49851693 TTACACTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (23 bp):
AATAAACATACACTACAAAATAA
Found at i:49852979 original size:19 final size:19
Alignment explanation
Indices: 49852943--49852981 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
49852933 AAAATATAAA
*
49852943 ATAAACAATATGTTAATTT
1 ATAAACAATATGTGAATTT
49852962 ATAAACAA-ATTGTGAATTT
1 ATAAACAATA-TGTGAATTT
49852981 A
1 A
49852982 AAAAAACCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 17 0.94
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (19 bp):
ATAAACAATATGTGAATTT
Found at i:49854089 original size:40 final size:40
Alignment explanation
Indices: 49854016--49854091 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 40
49854006 TTTAGAATAC
*
49854016 TTAAATATTTTTATAATAATTAATTTTTGTTAATTTTTAT
1 TTAAATATTTTTAGAATAATTAATTTTTGTTAATTTTTAT
*
49854056 TTAAATTATTTTTAGAA-AGTTAAATTTTT-TTAATTT
1 TTAAA-TATTTTTAGAATAATT-AATTTTTGTTAATTT
49854092 GGTACAAACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
40 15 0.47
41 17 0.53
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (40 bp):
TTAAATATTTTTAGAATAATTAATTTTTGTTAATTTTTAT
Found at i:49854957 original size:16 final size:15
Alignment explanation
Indices: 49854938--49855004 Score: 55
Period size: 16 Copynumber: 4.3 Consensus size: 15
49854928 CTCTTTTCAT
49854938 TTTTCTTTCTTTTTCC
1 TTTT-TTTCTTTTTCC
* *
49854954 TTTTTCCTCTTTTTCG
1 TTTTT-TTCTTTTTCC
* *
49854970 TTTTATTCTTCTTCTC
1 TTTTTTTCTTTTTC-C
*
49854986 TTCTTTTC-TTTTCC
1 TTTTTTTCTTTTTCC
49855000 TTTTT
1 TTTTT
49855005 GCTGTCGGCT
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
14 5 0.13
15 12 0.31
16 22 0.56
ACGTcount: A:0.01, C:0.24, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTTTTTCTTTTTCC
Found at i:49854957 original size:17 final size:16
Alignment explanation
Indices: 49854925--49854973 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
49854915 TCTTCTTTCC
49854925 TTCCTC-TTTTCATTT
1 TTCCTCTTTTTCATTT
* *
49854940 TTCTTTCTTTTTCCTTT
1 TTC-CTCTTTTTCATTT
*
49854957 TTCCTCTTTTTCGTTT
1 TTCCTCTTTTTCATTT
49854973 T
1 T
49854974 ATTCTTCTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 3 0.11
16 14 0.50
17 11 0.39
ACGTcount: A:0.02, C:0.24, G:0.02, T:0.71
Consensus pattern (16 bp):
TTCCTCTTTTTCATTT
Found at i:49856315 original size:36 final size:36
Alignment explanation
Indices: 49856274--49856462 Score: 234
Period size: 36 Copynumber: 5.0 Consensus size: 36
49856264 TAGCTAAGGC
*
49856274 TAACACTTATCACTTTGTCACTTGATCAGATAAGTA
1 TAACACTTATCACTTTTTCACTTGATCAGATAAGTA
49856310 TAACACTTATCACTTTTTCACTTGATCAGATAAGTA
1 TAACACTTATCACTTTTTCACTTGATCAGATAAGTA
*
49856346 TAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTA
1 TAACACTTATCACTTTTTCACTTGATCAGATAA--GTA
* * *
49856384 GCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTG
1 --T--A---A-CACTTATCACTTTTTCACTTGATCAGATAAGTA
*
49856428 TAGCACTTATCACTTTTTCACTTGATCAGATAAGT
1 TAACACTTATCACTTTTTCACTTGATCAGATAAGT
49856463 GTAGCTAAAG
Statistics
Matches: 134, Mismatches: 9, Indels: 20
0.82 0.06 0.12
Matches are distributed among these distances:
36 97 0.72
38 3 0.02
40 2 0.01
42 2 0.01
44 2 0.01
46 28 0.21
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (36 bp):
TAACACTTATCACTTTTTCACTTGATCAGATAAGTA
Found at i:49856399 original size:82 final size:82
Alignment explanation
Indices: 49856313--49856503 Score: 346
Period size: 82 Copynumber: 2.3 Consensus size: 82
49856303 ATAAGTATAA
* *
49856313 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
49856378 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
* *
49856395 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
49856460 AGTGTAGCTAAAGCTAC
66 AGTGTAGCTAAAGCTAC
49856477 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTATCTCTTGATCAGA
49856504 AGTACTCAAA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 105 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTATCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
AGTGTAGCTAAAGCTAC
Found at i:49856403 original size:118 final size:118
Alignment explanation
Indices: 49856231--49856467 Score: 393
Period size: 118 Copynumber: 2.0 Consensus size: 118
49856221 GCTAGGCTAC
*
49856231 CACTTATCACTTCCTCACTTGATCAAATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTCCTCACTTGATCAAATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
49856296 TGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTATAG
66 TGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTATAG
** * * *
49856349 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTCCTCACTTGATCAAATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
* * *
49856414 TGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
66 TGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTATAG
49856467 C
1 C
49856468 TAAAGCTACC
Statistics
Matches: 110, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 110 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (118 bp):
CACTTATCACTTCCTCACTTGATCAAATAAGTGTAGCTAAAGCTAACACTTATCACTTTGTCACT
TGATCAGATAAGTATAACACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:49859738 original size:22 final size:22
Alignment explanation
Indices: 49859712--49859756 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
49859702 ATTATATGTA
49859712 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
49859734 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
49859756 T
1 T
49859757 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:49868899 original size:11 final size:10
Alignment explanation
Indices: 49868857--49868899 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
49868847 AAAAGCAAAT
*
49868857 AAAAGAAAGT
1 AAAAGAAAGA
49868867 AAAAGAAAGA
1 AAAAGAAAGA
*
49868877 AACAGAGAAGA
1 AAAAGA-AAGA
49868888 AAAAGAACAGA
1 AAAAGAA-AGA
49868899 A
1 A
49868900 GCTATTTCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 15 0.54
11 13 0.46
ACGTcount: A:0.72, C:0.05, G:0.21, T:0.02
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:49873207 original size:23 final size:23
Alignment explanation
Indices: 49873165--49873208 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
49873155 GTAAAACTGA
*
49873165 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
49873188 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
49873209 TTAACCTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:49875812 original size:34 final size:34
Alignment explanation
Indices: 49875769--49875834 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
49875759 AGTAAAATAT
*
49875769 TTTTCGTAAAATGATTT-CGGGAAAATGTTTTAA
1 TTTTCGTAAAATGATTTACGGGAAAATATTTTAA
*
49875802 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACGGGAAAATATTTT
49875835 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACGGGAAAATATTTTAA
Found at i:49875838 original size:14 final size:15
Alignment explanation
Indices: 49875801--49875838 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
49875791 AAATGTTTTA
*
49875801 ATTTTCTGTAAAATG
1 ATTTTCTGGAAAATG
*
49875816 ATTTACTGGAAAAT-
1 ATTTTCTGGAAAATG
49875830 ATTTTCTGG
1 ATTTTCTGG
49875839 TGTTTGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.45
Consensus pattern (15 bp):
ATTTTCTGGAAAATG
Found at i:49878379 original size:17 final size:17
Alignment explanation
Indices: 49878357--49878390 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
49878347 TTTTTCAAAT
*
49878357 ATATTTTTGAGTAAAAA
1 ATATTTTTGAGCAAAAA
49878374 ATATTTTTGAGCAAAAA
1 ATATTTTTGAGCAAAAA
49878391 TTAAAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (17 bp):
ATATTTTTGAGCAAAAA
Found at i:49879021 original size:19 final size:19
Alignment explanation
Indices: 49878997--49879040 Score: 72
Period size: 19 Copynumber: 2.3 Consensus size: 19
49878987 AATTTTGAAA
49878997 AAAAATATTAAAAAAA-TTT
1 AAAAATA-TAAAAAAACTTT
49879016 AAAAATATAAAAAAACTTT
1 AAAAATATAAAAAAACTTT
49879035 AAAAAT
1 AAAAAT
49879041 TCTGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATATAAAAAAACTTT
Found at i:49880327 original size:13 final size:13
Alignment explanation
Indices: 49880309--49880339 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
49880299 CCAACCCAAA
49880309 CACATCAATATGG
1 CACATCAATATGG
49880322 CACATCAATATGG
1 CACATCAATATGG
49880335 CACAT
1 CACAT
49880340 TGTGCCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (13 bp):
CACATCAATATGG
Found at i:49880431 original size:21 final size:21
Alignment explanation
Indices: 49880373--49880459 Score: 95
Period size: 21 Copynumber: 4.1 Consensus size: 21
49880363 TCTTATCAGT
49880373 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
49880393 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
49880414 ATACGACACATAAAGTGCTTGAG
1 ATACGACACATAAAGTGCCT--G
*
49880437 ATACGACACGTAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
49880458 AT
1 AT
49880460 CAGCAAAGCC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
20 9 0.17
21 26 0.48
23 19 0.35
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:49880456 original size:44 final size:41
Alignment explanation
Indices: 49880373--49880459 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
49880363 TCTTATCAGT
* *
49880373 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
* **
49880414 ATACGACACATAAAGTGCTTGAGATACGACACGTAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCTG
49880458 AT
1 AT
49880460 CAGCAAAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 11 0.29
42 9 0.24
43 1 0.03
44 17 0.45
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:49880785 original size:16 final size:17
Alignment explanation
Indices: 49880764--49880795 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
49880754 TAATAATAAT
49880764 ACTTACCTTA-TATTTC
1 ACTTACCTTATTATTTC
49880780 ACTTACCTTATTATTT
1 ACTTACCTTATTATTT
49880796 GCTTACCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (17 bp):
ACTTACCTTATTATTTC
Found at i:49881510 original size:3 final size:3
Alignment explanation
Indices: 49881502--49881541 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
49881492 ATGTATTAGT
49881502 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
49881542 TTTAATTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:49881710 original size:30 final size:27
Alignment explanation
Indices: 49881674--49881738 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
49881664 TTTCCTATAA
*
49881674 TATAATATCTTAACTTTAATTAATATAATT
1 TATAATATCTTAA--TTAAATAATAT-ATT
* *
49881704 TATAATATTTTAATTAAATAATATTTT
1 TATAATATCTTAATTAAATAATATATT
49881731 TATAATAT
1 TATAATAT
49881739 AAATCAAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 10 0.31
30 12 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (27 bp):
TATAATATCTTAATTAAATAATATATT
Found at i:49881740 original size:16 final size:17
Alignment explanation
Indices: 49881704--49881740 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
49881694 TAATATAATT
49881704 TATAATATTTTAATTAA
1 TATAATATTTTAATTAA
*
49881721 -ATAATATTTTTA-TAA
1 TATAATATTTTAATTAA
49881736 TATAA
1 TATAA
49881741 ATCAAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATAATATTTTAATTAA
Found at i:49882279 original size:67 final size:67
Alignment explanation
Indices: 49882197--49882326 Score: 224
Period size: 67 Copynumber: 1.9 Consensus size: 67
49882187 AGTACCATTA
*
49882197 AAAAAGTTAACGGGATGATGTGAAATTTAATATGTGGAACATTTTTAATGAGATATAATCTATAC
1 AAAAAGTTAACGGGATAATGTGAAATTTAATATGTGGAACATTTTTAATGAGATATAATCTATAC
49882262 TG
66 TG
* * *
49882264 AAAAAGTTAACGGGATAATGTGGAATTTCATATGTGGAACATTTTTAATGAGATGTAATCTAT
1 AAAAAGTTAACGGGATAATGTGAAATTTAATATGTGGAACATTTTTAATGAGATATAATCTAT
49882327 TACTTAGGTA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 59 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (67 bp):
AAAAAGTTAACGGGATAATGTGAAATTTAATATGTGGAACATTTTTAATGAGATATAATCTATAC
TG
Found at i:49882973 original size:21 final size:21
Alignment explanation
Indices: 49882948--49883012 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
49882938 TTTTACATAA
49882948 TTATAATTTTAAAAAATATTT
1 TTATAATTTTAAAAAATATTT
* * * *
49882969 TTATAAATTCAAAAAATAAATA
1 TTATAATTTTAAAAAAT-ATTT
*
49882991 TTA-AATTTTCAAAAAAAATTT
1 TTATAATTTT-AAAAAATATTT
49883012 T
1 T
49883013 ATATTCTTAG
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
21 22 0.67
22 11 0.33
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (21 bp):
TTATAATTTTAAAAAATATTT
Found at i:49886929 original size:49 final size:49
Alignment explanation
Indices: 49886857--49886954 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
49886847 CCGATGTAGT
49886857 CTTTTTTGATTAGTCACGTTTCAATTAAGTCTTTAGCATAATAGTAAGC
1 CTTTTTTGATTAGTCACGTTTCAATTAAGTCTTTAGCATAATAGTAAGC
49886906 CTTTTTTGATTAGTCACGTTTCAATTAAGTCTTTAGCATAATAGTAAGC
1 CTTTTTTGATTAGTCACGTTTCAATTAAGTCTTTAGCATAATAGTAAGC
49886955 AAGTAAAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (49 bp):
CTTTTTTGATTAGTCACGTTTCAATTAAGTCTTTAGCATAATAGTAAGC
Found at i:49890339 original size:43 final size:43
Alignment explanation
Indices: 49890285--49890565 Score: 316
Period size: 43 Copynumber: 6.6 Consensus size: 43
49890275 AGAGTGACAG
* * * *
49890285 TTTATCTGCAAATATGCTGTGCATCCATAGCCCAGTGACAATT
1 TTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGACAATT
* * *
49890328 TTTAGCTGCAAATATGTTGTGCAACCACAACCTAGTGAAAATT
1 TTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGACAATT
* * *
49890371 TTTATTTGCAAATATGTTGTGCAACCACAACCTAATGACAATTT
1 TTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGACAA-TT
* * * * *
49890415 TTTTTTTGAAAATATGTTGTGCATCCACAACCTAGTGGC-A-G
1 TTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGACAATT
* * * *
49890456 TTTATCTGTAAATATGTTGTGCATCCACAACCCAGTTACAGTT
1 TTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGACAATT
* * *
49890499 TTTATCTACAAATATGTTGTACATCCACAACCTAATGGA-AATT
1 TTTATCTGCAAATATGTTGTGCATCCACAACCTAGT-GACAATT
*
49890542 TTTATTTGCAAATATGTTGTGCAT
1 TTTATCTGCAAATATGTTGTGCAT
49890566 TTGATTTGCC
Statistics
Matches: 199, Mismatches: 35, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
41 33 0.17
43 129 0.65
44 37 0.19
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.36
Consensus pattern (43 bp):
TTTATCTGCAAATATGTTGTGCATCCACAACCTAGTGACAATT
Found at i:49890527 original size:128 final size:127
Alignment explanation
Indices: 49890328--49890565 Score: 334
Period size: 128 Copynumber: 1.9 Consensus size: 127
49890318 AGTGACAATT
* * * *
49890328 TTTAGCTGCAAATATGTTGTGCAACCACAACCTAGTGAAAATTTTTATTTGCAAATATGTTGTGC
1 TTTAGCTGCAAATATGTTGTGCAACCACAACCCAGTGAAAATTTTTATCTACAAATATGTTGTAC
*
49890393 AACCACAACCTAAT-GACAATTTTTTTTTTGAAAATATGTTGTGCATCCACAACCTAGTGGCAG
66 AACCACAACCTAATGGA-AA-TTTTTATTTGAAAATATGTTGTGCATCCACAACCTAGTGGCAG
* * * * * *
49890456 TTTATCTGTAAATATGTTGTGCATCCACAACCCAGTTACAGTTTTTATCTACAAATATGTTGTAC
1 TTTAGCTGCAAATATGTTGTGCAACCACAACCCAGTGAAAATTTTTATCTACAAATATGTTGTAC
* *
49890521 ATCCACAACCTAATGGAAATTTTTATTTGCAAATATGTTGTGCAT
66 AACCACAACCTAATGGAAATTTTTATTTGAAAATATGTTGTGCAT
49890566 TTGATTTGCC
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
127 24 0.25
128 70 0.73
129 2 0.02
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (127 bp):
TTTAGCTGCAAATATGTTGTGCAACCACAACCCAGTGAAAATTTTTATCTACAAATATGTTGTAC
AACCACAACCTAATGGAAATTTTTATTTGAAAATATGTTGTGCATCCACAACCTAGTGGCAG
Found at i:49900544 original size:28 final size:28
Alignment explanation
Indices: 49900508--49900561 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
49900498 ACAAAGTGTA
*
49900508 AATAACGATAAGCACCGAAGTGCAAAAT
1 AATAACGATAAGCACCGAACTGCAAAAT
* *
49900536 AATATCGATAAGCATCGAACTGCAAA
1 AATAACGATAAGCACCGAACTGCAAA
49900562 TTTTTACAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.17
Consensus pattern (28 bp):
AATAACGATAAGCACCGAACTGCAAAAT
Found at i:49901336 original size:23 final size:23
Alignment explanation
Indices: 49901307--49901385 Score: 131
Period size: 23 Copynumber: 3.4 Consensus size: 23
49901297 ATCCAAATAG
* *
49901307 AGCCTTTGTGGTGTATTATGATT
1 AGCCTTTGTGGCGTATTCTGATT
*
49901330 AGTCTTTGTGGCGTATTCTGATT
1 AGCCTTTGTGGCGTATTCTGATT
49901353 AGCCTTTGTGGCGTATTCTGATT
1 AGCCTTTGTGGCGTATTCTGATT
49901376 AGCCTTTGTG
1 AGCCTTTGTG
49901386 TTAGCCTTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.14, C:0.14, G:0.27, T:0.46
Consensus pattern (23 bp):
AGCCTTTGTGGCGTATTCTGATT
Found at i:49901404 original size:35 final size:35
Alignment explanation
Indices: 49901351--49901420 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
49901341 CGTATTCTGA
* *
49901351 TTAGCCTTTGTGGCGTATTCTGATTAGCCTTTGTG
1 TTAGCCTTTGTAGCGTATTATGATTAGCCTTTGTG
*
49901386 TTAGCCTTTGTAGTGTATTATGATTAGCCTTTGTG
1 TTAGCCTTTGTAGCGTATTATGATTAGCCTTTGTG
49901421 GTGTATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.14, C:0.14, G:0.24, T:0.47
Consensus pattern (35 bp):
TTAGCCTTTGTAGCGTATTATGATTAGCCTTTGTG
Found at i:49901427 original size:58 final size:58
Alignment explanation
Indices: 49901328--49901443 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 58
49901318 TGTATTATGA
* * *
49901328 TTAGTCTTTGTGGCGTATTCTGATTAGCCTTTGTGGCGTATTCTGATTAGCCTTTGTG
1 TTAGCCTTTGTAGCGTATTATGATTAGCCTTTGTGGCGTATTCTGATTAGCCTTTGTG
* * * *
49901386 TTAGCCTTTGTAGTGTATTATGATTAGCCTTTGTGGTGTATTTTGATTGGCCTTTGTG
1 TTAGCCTTTGTAGCGTATTATGATTAGCCTTTGTGGCGTATTCTGATTAGCCTTTGTG
49901444 ACGTATTCGA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 51 1.00
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.48
Consensus pattern (58 bp):
TTAGCCTTTGTAGCGTATTATGATTAGCCTTTGTGGCGTATTCTGATTAGCCTTTGTG
Found at i:49901443 original size:23 final size:23
Alignment explanation
Indices: 49901386--49901443 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
49901376 AGCCTTTGTG
*
49901386 TTAGCCTTTGTAGTGTATTATGA
1 TTAGCCTTTGTGGTGTATTATGA
*
49901409 TTAGCCTTTGTGGTGTATTTTGA
1 TTAGCCTTTGTGGTGTATTATGA
*
49901432 TTGGCCTTTGTG
1 TTAGCCTTTGTG
49901444 ACGTATTCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.14, C:0.10, G:0.26, T:0.50
Consensus pattern (23 bp):
TTAGCCTTTGTGGTGTATTATGA
Found at i:49901449 original size:23 final size:23
Alignment explanation
Indices: 49901386--49901450 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
49901376 AGCCTTTGTG
*
49901386 TTAGCCTTTGT-AGTGTATTATGA
1 TTAGCCTTTGTGA-CGTATTATGA
** *
49901409 TTAGCCTTTGTGGTGTATTTTGA
1 TTAGCCTTTGTGACGTATTATGA
*
49901432 TTGGCCTTTGTGACGTATT
1 TTAGCCTTTGTGACGTATT
49901451 CGACAAAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.15, C:0.11, G:0.25, T:0.49
Consensus pattern (23 bp):
TTAGCCTTTGTGACGTATTATGA
Found at i:49905072 original size:17 final size:17
Alignment explanation
Indices: 49905045--49905086 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
49905035 ATATAAATCA
**
49905045 TATAAAA-ATATTGAAT
1 TATAAAATATATAAAAT
49905061 TATAAAATATATAAAAT
1 TATAAAATATATAAAAT
*
49905078 GATAAAATA
1 TATAAAATA
49905087 ATTAGTTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
TATAAAATATATAAAAT
Found at i:49923441 original size:20 final size:21
Alignment explanation
Indices: 49923416--49923454 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49923406 GTATACCATG
49923416 CAATAC-TTTACATTTCAATC
1 CAATACTTTTACATTTCAATC
*
49923436 CAATACTTTTCCATTTCAA
1 CAATACTTTTACATTTCAA
49923455 ACTTACTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (21 bp):
CAATACTTTTACATTTCAATC
Found at i:49936998 original size:9 final size:9
Alignment explanation
Indices: 49936986--49937037 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
49936976 GCTTCCTTTG
49936986 CTTCTCCTT
1 CTTCTCCTT
49936995 CTTCTCCTT
1 CTTCTCCTT
*
49937004 CTTCTTCTT
1 CTTCTCCTT
* **
49937013 CTTGTTGTT
1 CTTCTCCTT
49937022 CTTCTCC-T
1 CTTCTCCTT
49937030 CTT-TCCTT
1 CTTCTCCTT
49937038 GTATTGTAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
7 3 0.08
8 5 0.14
9 28 0.78
ACGTcount: A:0.00, C:0.37, G:0.04, T:0.60
Consensus pattern (9 bp):
CTTCTCCTT
Found at i:49937792 original size:7 final size:7
Alignment explanation
Indices: 49937780--49937815 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
49937770 CACGGGCTTA
49937780 GGGAAAT
1 GGGAAAT
49937787 GGGAAAT
1 GGGAAAT
49937794 GGGAAAT
1 GGGAAAT
49937801 GGGAAAT
1 GGGAAAT
49937808 GGGAAAT
1 GGGAAAT
49937815 G
1 G
49937816 CATTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.44, T:0.14
Consensus pattern (7 bp):
GGGAAAT
Found at i:49939457 original size:16 final size:17
Alignment explanation
Indices: 49939431--49939467 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
49939421 TTATTTTCCA
*
49939431 ATTTAATTTAATTTTTT
1 ATTTAATTTAAATTTTT
49939448 ATTT-ATTTAAATTTTT
1 ATTTAATTTAAATTTTT
49939464 ATTT
1 ATTT
49939468 CTGCTATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTAATTTAAATTTTT
Found at i:49947668 original size:5 final size:6
Alignment explanation
Indices: 49947641--49947667 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49947631 TGTAGAAGAT
49947641 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
49947668 TGAAACAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:49948581 original size:44 final size:43
Alignment explanation
Indices: 49948533--49948736 Score: 157
Period size: 44 Copynumber: 4.7 Consensus size: 43
49948523 ATGGTTTTAA
* * *
49948533 TCTGCTCCACTGTAACTTTAGGGAGATAGGATTTATTTCTTTCG
1 TCTGCTCCACTGTAACTTTAGAGAGATAAGATTGATTT-TTTCG
* * * * *
49948577 TCTGCTCCACTGTAACCTCAAAGAGATAAGACCTGA----TGCG
1 TCTGCTCCACTGTAACTTTAGAGAGATAAGA-TTGATTTTTTCG
* * * **
49948617 ATCTACTCTACTGTAACTTTAGAGAGATAAGATCTG-TGATTTTAA
1 -TCTGCTCCACTGTAACTTTAGAGAGATAAGAT-TGAT-TTTTTCG
* * *
49948662 TCTGCTTCACTGTAACTTTAGGGAGATAGGATTGATTTCTTTCG
1 TCTGCTCCACTGTAACTTTAGAGAGATAAGATTGATTT-TTTCG
* *
49948706 TCTGCTCCACTGCAACTTCAGAGAGATAAGA
1 TCTGCTCCACTGTAACTTTAGAGAGATAAGA
49948737 CTGGATGTAA
Statistics
Matches: 120, Mismatches: 30, Indels: 20
0.71 0.18 0.12
Matches are distributed among these distances:
40 3 0.03
41 28 0.23
43 3 0.03
44 83 0.69
45 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.34
Consensus pattern (43 bp):
TCTGCTCCACTGTAACTTTAGAGAGATAAGATTGATTTTTTCG
Found at i:49948673 original size:129 final size:129
Alignment explanation
Indices: 49948506--49948824 Score: 460
Period size: 129 Copynumber: 2.5 Consensus size: 129
49948496 CCACTACTGC
* * *
49948506 TTAGGGAGATAAGATCTATGGTTTTAATCTGCTCCACTGTAACTTTAGGGAGATAGGATTTATTT
1 TTAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGTAACTTTAGGGAGATAGGATTGATTT
* * *
49948571 CTTTCGTCTGCTCCACTGTAACCTCAAAGAGATAAGACCT-GATGCGATCTACTCTACTGTAACT
66 CTTTCGTCTGCTCCACTGCAACCTCAAAGAGATAAGA-CTGGATGCAATCTACTCTACTGCAACT
* *
49948635 TTAGAGAGATAAGATCTGTGATTTTAATCTGCTTCACTGTAACTTTAGGGAGATAGGATTGATTT
1 TTAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGTAACTTTAGGGAGATAGGATTGATTT
* * * *
49948700 CTTTCGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTGGATGTAATCTGCTCTACTGCAACT
66 CTTTCGTCTGCTCCACTGCAACCTCAAAGAGATAAGACTGGATGCAATCTACTCTACTGCAACT
* * ** *
49948764 TCAGAGAGATAAGATTTGTGGTTTTAATCCACTCCACATGTAACTTTAGGGAGACAGGATT
1 TTAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCAC-TGTAACTTTAGGGAGATAGGATT
49948825 ATCGGCTTCA
Statistics
Matches: 169, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
128 2 0.01
129 145 0.86
130 22 0.13
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (129 bp):
TTAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCACTGTAACTTTAGGGAGATAGGATTGATTT
CTTTCGTCTGCTCCACTGCAACCTCAAAGAGATAAGACTGGATGCAATCTACTCTACTGCAACT
Found at i:49948998 original size:44 final size:44
Alignment explanation
Indices: 49948888--49949404 Score: 248
Period size: 44 Copynumber: 11.8 Consensus size: 44
49948878 CCTTTATTTT
* * * * *
49948888 AATCCACTCCACTGTAACTTCAGAGAGTTAGGAT-TACTAGCTTC
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCT-CTAGCTTC
* ** * * *
49948932 AATCTATTCCGTTATAATCTCAGGGAAATAAGATCTCTAGCTTC
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTAGCTTC
* * ** *
49948976 AATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAAATTCTTC
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCT-CTA-GCTTC
** * * * *
49949022 GGTCTACTCCAATTTAACCTCAGGGAGATAAGA-C-CT-GATGC
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTAGCTTC
* ** * * * * * *
49949063 GATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTA-TTTT
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTCTAGCTTC
* * * * *
49949107 AATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-TGT-GTCTTG
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTAG-CTTC
* * * * * *
49949150 GATCTGCTCCATTGTAATCTCAAGGAGATAAGATCTCTTGCTTC
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTAGCTTC
* * * ** *
49949194 AATCTGCTCCACTGTAACATCAGGGAGATAAGACCTGAAATTCTTC
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCT-CTA-GCTTC
** * * *
49949240 GGTCTACTCCACTGTAACCTTAGGGAGATAAGA-C-CT-GATGC
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTAGCTTC
* ** * * * * *
49949281 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTA-TTTT
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGAT-CTCTAGCTTC
* * * *
49949325 AATCCACCCCACTGTAATCTCAGGGAGATAAGA-CTACCAGCTTC
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCT-CTAGCTTC
* * * *
49949369 AATCTGCTCCGCTGTAATCTCAGAGAGATAAGATCT
1 AATCTACTCCACTGTAACCTCAGGGAGATAAGATCT
49949405 GAAATTTTTC
Statistics
Matches: 343, Mismatches: 110, Indels: 39
0.70 0.22 0.08
Matches are distributed among these distances:
41 56 0.16
42 4 0.01
43 35 0.10
44 178 0.52
45 7 0.02
46 63 0.18
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
AATCTACTCCACTGTAACCTCAGGGAGATAAGATCTCTAGCTTC
Found at i:49949234 original size:218 final size:219
Alignment explanation
Indices: 49948844--49949404 Score: 770
Period size: 218 Copynumber: 2.6 Consensus size: 219
49948834 AATCTAATGT
* * *
49948844 GATCTATTCTACTGTAACTTCAAAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAA-CTT
1 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATC-T
* * * * *
49948908 CAGAGAGTTAGGATTACTAGCTTCAATCTATTCCGTTATAATCTCAGGGAAATAAGATCTCTAGC
65 CAGGGAGATAGGATTACTAGCTTCAATCTACTCCATTATAATCTCAAGGAAATAAGATCTCTAGC
* * *
49948973 TTCAATCTGCTCCACTGTAACCTCAGGGAGATAAAATCTGAAATTCTTCGGTCTACTCCAATTTA
130 TTCAATCTGCTCCACTGTAACATCAGGGAGATAAAACCTGAAATTCTTCGGTCTACTCCAATGTA
49949038 ACCTCAGGGAGATAAGACCTGATGC
195 ACCTCAGGGAGATAAGACCTGATGC
* **
49949063 GATCTACTCTGCTGTAACTTTAGAGAGATAAGATCCTTTATTTTAATCTGCTCCACTGTAATCTC
1 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTC
* ** * * * *
49949128 AGGGAGATAGGATT-GT-GTCTTGGATCTGCTCCATTGTAATCTCAAGGAGATAAGATCTCTTGC
66 AGGGAGATAGGATTACTAG-CTTCAATCTACTCCATTATAATCTCAAGGAAATAAGATCTCTAGC
* *
49949191 TTCAATCTGCTCCACTGTAACATCAGGGAGATAAGACCTGAAATTCTTCGGTCTACTCCACTGTA
130 TTCAATCTGCTCCACTGTAACATCAGGGAGATAAAACCTGAAATTCTTCGGTCTACTCCAATGTA
*
49949256 ACCTTAGGGAGATAAGACCTGATGC
195 ACCTCAGGGAGATAAGACCTGATGC
*
49949281 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACCCCACTGTAATCTC
1 GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTC
* * * * ** * *
49949346 AGGGAGATAAGACTACCAGCTTCAATCTGCTCCGCTGTAATCTC-AGAGAGATAAGATCT
66 AGGGAGATAGGATTACTAGCTTCAATCTACTCCATTATAATCTCAAG-GAAATAAGATCT
49949405 GAAATTTTTC
Statistics
Matches: 301, Mismatches: 36, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
217 1 0.00
218 196 0.65
219 102 0.34
220 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (219 bp):
GATCTACTCTGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTC
AGGGAGATAGGATTACTAGCTTCAATCTACTCCATTATAATCTCAAGGAAATAAGATCTCTAGCT
TCAATCTGCTCCACTGTAACATCAGGGAGATAAAACCTGAAATTCTTCGGTCTACTCCAATGTAA
CCTCAGGGAGATAAGACCTGATGC
Done.