Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 156 of 276
Found at i:50730420 original size:271 final size:271
Alignment explanation
Indices: 50729937--50730483 Score: 1031
Period size: 271 Copynumber: 2.0 Consensus size: 271
50729927 CTATACGTCC
50729937 CTAAAAACTATGGTGTTTTCGGCTTTTGGAACTGTGAAGAGGAAGATGATTTGGTATGGTGGTTT
1 CTAAAAACTATGGTGTTTTCGGCTTTTGGAACTGTGAAGAGGAAGATGATTTGGTATGGTGGTTT
* * *
50730002 TTGCAGTGGTATTGCCGACAGGGGTTGAGGTTTAGAGGATGTGAAAATCGACGAAAAGAGATGAA
66 TTGCAGTGATACTGCCGACAGGGGTTGAGGTTTAGAGGATGTGAAAATCGACCAAAAGAGATGAA
50730067 GAAAATAGGAGGATTTTGGCTAGAAGAAATCGGCACAAGAAACAACTTTTGGGAATTCGGCTTTT
131 GAAAATAGGAGGATTTTGGCTAGAAGAAATCGGCACAAGAAACAACTTTTGGGAATTCGGCTTTT
* *
50730132 ATGGTAATCGGCTATAGAGGTTTAGAAAAGAATGGGAATGAAAGAGGAGATGAGTAGAATGGTAG
196 ATGGTAATCGGCTATAGAGGTTTAGAAAAGAATGGGAATGAAAGAGAAGATGAGTAAAATGGTAG
50730197 GAATGTTTCGG
261 GAATGTTTCGG
50730208 CTAAAAACTATGGTGTTTTCGGCTTTTGGAACTGTGAAGAGGAAGATGATTTGGTATGGTGGTTT
1 CTAAAAACTATGGTGTTTTCGGCTTTTGGAACTGTGAAGAGGAAGATGATTTGGTATGGTGGTTT
* *
50730273 TTGCAGTGATACTGTCGACAGGGGTTGAGGTTTAGAGGATGTGAAAATTGACCAAAAGAGATGAA
66 TTGCAGTGATACTGCCGACAGGGGTTGAGGTTTAGAGGATGTGAAAATCGACCAAAAGAGATGAA
50730338 GAAAATAGGAGGATTTTGGCTAGAAGAAATCGGCACAAGAAACAACTTTTGGGAATTCGGCTTTT
131 GAAAATAGGAGGATTTTGGCTAGAAGAAATCGGCACAAGAAACAACTTTTGGGAATTCGGCTTTT
50730403 ATGGTAATCGGCTATAGAGGTTTAGAAAAGAATGGGAATGAAAGAGAAGATGAGTAAAATGGTAG
196 ATGGTAATCGGCTATAGAGGTTTAGAAAAGAATGGGAATGAAAGAGAAGATGAGTAAAATGGTAG
50730468 GAATGTTTCGG
261 GAATGTTTCGG
50730479 CTAAA
1 CTAAA
50730484 GAAGAAAAGA
Statistics
Matches: 269, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
271 269 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.27
Consensus pattern (271 bp):
CTAAAAACTATGGTGTTTTCGGCTTTTGGAACTGTGAAGAGGAAGATGATTTGGTATGGTGGTTT
TTGCAGTGATACTGCCGACAGGGGTTGAGGTTTAGAGGATGTGAAAATCGACCAAAAGAGATGAA
GAAAATAGGAGGATTTTGGCTAGAAGAAATCGGCACAAGAAACAACTTTTGGGAATTCGGCTTTT
ATGGTAATCGGCTATAGAGGTTTAGAAAAGAATGGGAATGAAAGAGAAGATGAGTAAAATGGTAG
GAATGTTTCGG
Found at i:50735712 original size:42 final size:43
Alignment explanation
Indices: 50735620--50735783 Score: 153
Period size: 42 Copynumber: 3.8 Consensus size: 43
50735610 CAACGCCAAC
*
50735620 GTCCCAGAC-GTGGTCTTACATGTAATCACATATCGATGCCACT
1 GTCCCAGACAG-GGTCTTACACGTAATCACATATCGATGCCACT
* *
50735663 GTTCCAGACAGGGTCTTACACG-AA-CTCATATACGATGCCGA-T
1 GTCCCAGACAGGGTCTTACACGTAATCACATAT-CGATGCC-ACT
* * * *
50735705 GTCCCAGACATGGTCTTATACGTAAATCACAAATCAATGCCAAC-
1 GTCCCAGACAGGGTCTTACACGT-AATCACATATCGATGCC-ACT
*
50735749 ATCCCAGAC-GTGGTCTTACACG-AATCACATATCGA
1 GTCCCAGACAG-GGTCTTACACGTAATCACATATCGA
50735784 AATCCTATGT
Statistics
Matches: 98, Mismatches: 15, Indels: 17
0.75 0.12 0.13
Matches are distributed among these distances:
41 6 0.06
42 40 0.41
43 19 0.19
44 28 0.29
45 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTACACGTAATCACATATCGATGCCACT
Found at i:50740415 original size:42 final size:42
Alignment explanation
Indices: 50740369--50740517 Score: 144
Period size: 42 Copynumber: 3.5 Consensus size: 42
50740359 ACAATGCCAA
*
50740369 TGTCCCAGACGTGGTCTTACATGTAACCAAATGTCGATGCAT
1 TGTCCCAGACGTGGTCTTACATGTAATCAAATGTCGATGCAT
* * * *
50740411 TGTCCCAGACAG-GGTCTTGCACGAAATCAAAT-ACGATGC-T
1 TGTCCCAGAC-GTGGTCTTACATGTAATCAAATGTCGATGCAT
* * *
50740451 GATGTCCCAGACATGGTTTTACATGTAAATCATAA-GTCGATGCCAA
1 --TGTCCCAGACGTGGTCTTACATGT-AATCA-AATGTCGATG-CAT
50740497 TGTCCCAGACGTGGTCTTACA
1 TGTCCCAGACGTGGTCTTACA
50740518 CGAAAACACA
Statistics
Matches: 84, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
40 1 0.01
41 6 0.07
42 44 0.52
43 6 0.07
44 26 0.31
45 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (42 bp):
TGTCCCAGACGTGGTCTTACATGTAATCAAATGTCGATGCAT
Found at i:50740550 original size:86 final size:83
Alignment explanation
Indices: 50740368--50740543 Score: 187
Period size: 86 Copynumber: 2.1 Consensus size: 83
50740358 TACAATGCCA
* * *
50740368 ATGTCCCAGACGTGGTCTTACATGTAACCAAATGTCGATGCATTGTCCCAGACAGGGTCTTGCAC
1 ATGT-CCAGACATGGTCTTACATGTAACCAAATGTCGATGCAATGTCCCAGACAGGGTCTTACAC
* *
50740433 GAAATCAAATACGATGCTG
65 GAAAACAAATACGATCCTG
* *
50740452 ATGTCCCAGACATGGTTTTACATGTAAATCATAA-GTCGATGCCAATGTCCCAGAC-GTGGTCTT
1 ATGT-CCAGACATGGTCTTACATGT-AACCA-AATGTCGATG-CAATGTCCCAGACAG-GGTCTT
*
50740515 ACACGAAAACACATATCAGATCCT-
61 ACACGAAAACAAATA-C-GATCCTG
50740539 ATGTC
1 ATGTC
50740544 ATGACATATG
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
84 23 0.29
85 12 0.15
86 33 0.42
87 5 0.06
88 5 0.06
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (83 bp):
ATGTCCAGACATGGTCTTACATGTAACCAAATGTCGATGCAATGTCCCAGACAGGGTCTTACACG
AAAACAAATACGATCCTG
Found at i:50747249 original size:14 final size:15
Alignment explanation
Indices: 50747230--50747258 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50747220 AATGTTCATA
50747230 TGGATT-TTCTTGTC
1 TGGATTATTCTTGTC
50747244 TGGATTATTCTTGTC
1 TGGATTATTCTTGTC
50747259 CTTGAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.10, C:0.14, G:0.21, T:0.55
Consensus pattern (15 bp):
TGGATTATTCTTGTC
Found at i:50749272 original size:35 final size:35
Alignment explanation
Indices: 50749203--50749272 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
50749193 TGTGCATTAA
* *
50749203 GAATTTAGCCTGGACGGGTAATCCGATTAGGATCT
1 GAATTTAGCCTGGACGGGTAATCAGATTACGATCT
*
50749238 GAATTTAGCCTGGACTGGTAATTCAGATT-CGATCT
1 GAATTTAGCCTGGACGGGTAA-TCAGATTACGATCT
50749273 CATTTGAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 25 0.81
36 6 0.19
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (35 bp):
GAATTTAGCCTGGACGGGTAATCAGATTACGATCT
Found at i:50752137 original size:40 final size:40
Alignment explanation
Indices: 50752039--50752341 Score: 389
Period size: 40 Copynumber: 7.6 Consensus size: 40
50752029 TCCTCGTTCA
* * * ** *
50752039 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
50752078 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
50752118 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
50752158 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
50752198 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
50752238 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
50752278 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
50752318 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50752342 CAGCATTCAA
Statistics
Matches: 239, Mismatches: 20, Indels: 9
0.89 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 194 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:50761574 original size:40 final size:40
Alignment explanation
Indices: 50761476--50761778 Score: 344
Period size: 40 Copynumber: 7.6 Consensus size: 40
50761466 TCCTCGTTCA
* * * * *
50761476 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
50761515 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
50761555 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
50761595 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
50761635 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
50761675 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
50761715 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
50761755 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
50761779 CAGCATTCAA
Statistics
Matches: 235, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
39 39 0.17
40 184 0.78
41 12 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:50761787 original size:41 final size:41
Alignment explanation
Indices: 50761710--50761787 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
50761700 TTTGTATCTC
* * *
50761710 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
50761751 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
50761788 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:50767534 original size:42 final size:42
Alignment explanation
Indices: 50767429--50767595 Score: 178
Period size: 43 Copynumber: 3.9 Consensus size: 42
50767419 CGGAAAGCTC
* * * *
50767429 ATACAATGCCAACATCCCAGATGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACATCCCAGACGTGGTCTTACACGAAATCAA
50767471 ATATCGATGCC-ACTATCCCAGACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-ATCCCAGAC-GTGGTCTTACACGAAATCAA
* *
50767514 ATACGATGCCAACATCCCAGACGTGGTCTTGCACATAAATCATA
1 ATACGATGCCAACATCCCAGACGTGGTCTTACAC-GAAATCA-A
** *
50767558 AGT-CGATGCCAATGTCCCAGACGTGCTCTTACACGAAA
1 A-TACGATGCCAACATCCCAGACGTGGTCTTACACGAAA
50767596 ACACATATCG
Statistics
Matches: 106, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.28
43 44 0.42
44 30 0.28
45 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
ATACGATGCCAACATCCCAGACGTGGTCTTACACGAAATCAA
Found at i:50767588 original size:86 final size:85
Alignment explanation
Indices: 50767429--50767595 Score: 214
Period size: 86 Copynumber: 2.0 Consensus size: 85
50767419 CGGAAAGCTC
* * *
50767429 ATACAATGCCAACATCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGAC
1 ATACAATGCCAACATCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCCAATATCCCAGAC
*
50767494 AGGGTCTTACACGAAATCAA
66 AGGCTCTTACACGAAATCAA
* * *
50767514 ATACGATGCCAACATCCCAGACGTGGTCTTGCACAT-AAATCATAA-GTCGATGCCAATGTCCCA
1 ATACAATGCCAACATCCCAGACGTGGTCTT--ACATGAAATCA-AATATCGATGCCAATATCCCA
50767577 GAC-GTGCTCTTACACGAAA
63 GACAG-GCTCTTACACGAAA
50767596 ACACATATCG
Statistics
Matches: 71, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
85 29 0.41
86 36 0.51
87 6 0.08
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.23
Consensus pattern (85 bp):
ATACAATGCCAACATCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCCAATATCCCAGAC
AGGCTCTTACACGAAATCAA
Found at i:50772239 original size:27 final size:27
Alignment explanation
Indices: 50771343--50772228 Score: 1682
Period size: 27 Copynumber: 32.8 Consensus size: 27
50771333 ATTATCAAAG
*
50771343 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
50771370 TACCCTTGATTTACAGAATTGCCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* ** * *
50771397 TACCTTTAATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
50771424 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771451 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771478 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771505 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771532 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771559 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771586 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771613 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771640 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771667 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771694 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771721 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771748 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771775 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771802 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771829 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771856 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771883 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771910 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771937 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771964 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50771991 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50772018 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50772045 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50772072 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50772099 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50772126 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50772153 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
50772180 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
50772207 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
50772229 TAAAATACCC
Statistics
Matches: 845, Mismatches: 14, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 845 1.00
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:50772246 original size:27 final size:27
Alignment explanation
Indices: 50772216--50772375 Score: 162
Period size: 27 Copynumber: 5.9 Consensus size: 27
50772206 TTACCCTCGA
*
50772216 TTTACAAAATTACTAAAATACCCTTAG
1 TTTACAAAATTACCAAAATACCCTTAG
*
50772243 TTTACAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCAAAATACCCTTAG
** *
50772270 TTTGTAAAATTACCAAAATACCAC-TGG
1 TTTACAAAATTACCAAAATACC-CTTAG
* * *
50772297 TTTGA-GAAATTACCAAAATACCCTCAA
1 TTT-ACAAAATTACCAAAATACCCTTAG
** * *
50772324 TTTGTAAAATTACCAAAATACCCCTAA
1 TTTACAAAATTACCAAAATACCCTTAG
* *
50772351 TGTACAAAATTACAAAAATACCCTT
1 TTTACAAAATTACCAAAATACCCTT
50772376 GACTTTTTTA
Statistics
Matches: 110, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.01
27 108 0.98
28 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTTAG
Found at i:50772265 original size:54 final size:53
Alignment explanation
Indices: 50772207--50772374 Score: 187
Period size: 54 Copynumber: 3.1 Consensus size: 53
50772197 ATTACCGTTT
* ** *
50772207 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCC-TAGTTTACAAAATTACCAAAA
* * *
50772261 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGA-GAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACC-CTAGTTT-ACAAAATTACCAAAA
* * *
50772315 TACCCTCAATTTGTAAAATTACCAAAATACCCCTAATGTACAAAATTACAAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATA-CCCTAGTTTACAAAATTACCAAAA
50772369 TACCCT
1 TACCCT
50772375 TGACTTTTTT
Statistics
Matches: 95, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
53 2 0.02
54 88 0.93
55 5 0.05
ACGTcount: A:0.43, C:0.23, G:0.06, T:0.28
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTAGTTTACAAAATTACCAAAA
Found at i:50772281 original size:81 final size:81
Alignment explanation
Indices: 50772221--50772372 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
50772211 CTCGATTTAC
* * *
50772221 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
*
50772286 AATACCACTGGTTTGA
66 AATACCACTGATTTGA
* ** * * ** *
50772302 GAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATGTACAAAATTACAAA
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
50772367 AATACC
66 AATACC
50772373 CTTGACTTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.27
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCACTGATTTGA
Found at i:50772411 original size:26 final size:27
Alignment explanation
Indices: 50772382--50772437 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
50772372 CCTTGACTTT
* *
50772382 TTTA-AAAATTATTGGAATACCATTGG
1 TTTACAAAATTACTGAAATACCATTGG
*
50772408 TTTACAAAATTACTGAAATACCTTTGG
1 TTTACAAAATTACTGAAATACCATTGG
50772435 TTT
1 TTT
50772438 GTAGATTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:50773441 original size:24 final size:25
Alignment explanation
Indices: 50773365--50773434 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
50773355 AGGAAGTGCT
* * * *
50773365 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
50773390 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
50773415 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
50773435 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:50773447 original size:24 final size:24
Alignment explanation
Indices: 50773390--50773461 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
50773380 TAGTTTACCG
50773390 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
50773414 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
50773438 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
50773462 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:50773690 original size:30 final size:30
Alignment explanation
Indices: 50773654--50773724 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 30
50773644 CGTTTACAGT
* *
50773654 AAAGGCTTCGATCAGTGATATGATTTATGA
1 AAAGGCTTCGACCAGTAATATGATTTATGA
*
50773684 AAAGGCTTCAGCCCAGTAATATGATTTATGA
1 AAAGGCTTC-GACCAGTAATATGATTTATGA
50773715 AAAGGCTTCG
1 AAAGGCTTCG
50773725 GCCCAGTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 10 0.27
31 27 0.73
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (30 bp):
AAAGGCTTCGACCAGTAATATGATTTATGA
Found at i:50773709 original size:31 final size:30
Alignment explanation
Indices: 50773666--50773736 Score: 115
Period size: 31 Copynumber: 2.3 Consensus size: 30
50773656 AGGCTTCGAT
50773666 CAGTGATATGATTTATGAAAAGGCTTCAGCC
1 CAGT-ATATGATTTATGAAAAGGCTTCAGCC
*
50773697 CAGTAATATGATTTATGAAAAGGCTTCGGCC
1 CAGT-ATATGATTTATGAAAAGGCTTCAGCC
50773728 CAGTATATG
1 CAGTATATG
50773737 TCGAGACTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 5 0.13
31 33 0.87
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (30 bp):
CAGTATATGATTTATGAAAAGGCTTCAGCC
Found at i:50773801 original size:28 final size:28
Alignment explanation
Indices: 50773748--50773804 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
50773738 CGAGACTGAA
* *
50773748 TTAAGGCTTAGGCCCATACTGCTACTGT
1 TTAAGGCTAAGGCCCAGACTGCTACTGT
*
50773776 TTAAGGGCTAAGGCCCAGATTG-TACTGT
1 TTAA-GGCTAAGGCCCAGACTGCTACTGT
50773804 T
1 T
50773805 ACTGAATAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (28 bp):
TTAAGGCTAAGGCCCAGACTGCTACTGT
Found at i:50773808 original size:34 final size:33
Alignment explanation
Indices: 50773764--50773835 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
50773754 CTTAGGCCCA
**
50773764 TACTGCTACTGTTTAAGGGCTAAGGCCCAGATTG
1 TACTGCTACTGAAT-AGGGCTAAGGCCCAGATTG
* **
50773798 TACTGTTACTGAATAGGGCTTTGGCCCAGATTG
1 TACTGCTACTGAATAGGGCTAAGGCCCAGATTG
50773831 TACTG
1 TACTG
50773836 ACACTGTGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 22 0.67
34 11 0.33
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.32
Consensus pattern (33 bp):
TACTGCTACTGAATAGGGCTAAGGCCCAGATTG
Found at i:50776081 original size:27 final size:27
Alignment explanation
Indices: 50776062--50776217 Score: 215
Period size: 27 Copynumber: 5.8 Consensus size: 27
50776052 ATTACCAAAG
* *
50776062 TACCCTCGATATACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
50776089 TACCCTTGATTTACAG-ATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
50776115 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
** *
50776142 TACCCTTAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
50776169 TACCTTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
50776196 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
50776218 TAAAATACCC
Statistics
Matches: 113, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
26 24 0.21
27 89 0.79
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.38
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:50776187 original size:54 final size:54
Alignment explanation
Indices: 50776062--50776217 Score: 242
Period size: 54 Copynumber: 2.9 Consensus size: 54
50776052 ATTACCAAAG
* *
50776062 TACCCTCGATATACAGAATTACCGTTTTACCCTTGATTTACAG-ATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTT
* *
50776115 TACCCTCGATTTATAGAATTACCATTTTACCCTTAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTT
* * *
50776169 TACCTTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTAC
50776218 TAAAATACCC
Statistics
Matches: 93, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 39 0.42
54 54 0.58
ACGTcount: A:0.29, C:0.24, G:0.08, T:0.38
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAGAATTACCGTTT
Found at i:50776226 original size:27 final size:27
Alignment explanation
Indices: 50776017--50776363 Score: 175
Period size: 27 Copynumber: 12.9 Consensus size: 27
50776007 AATACTTTAG
* * ** *
50776017 TTTACCAAATTACTAAAATGTCCTCAA
1 TTTACAAAATTACCAAAATACCCTCGA
** *
50776044 TTTGTAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * **** *
50776071 TATACAGAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ****
50776098 TTTAC-AGATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* * *** **
50776124 TTTATAGAATTACCATTTTACCCTTAA
1 TTTACAAAATTACCAAAATACCCTCGA
* **** *
50776151 TTTACAGAATTACCGTTTTACCTTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* ***
50776178 TTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACCAAAATACCCTCGA
* *
50776205 TTTACAAAATTACTAAAATACCCT-TA
1 TTTACAAAATTACCAAAATACCCTCGA
*
50776231 GTTTACAAAATTACCAAAATACCC-CTA
1 -TTTACAAAATTACCAAAATACCCTCGA
** *
50776258 GTTTGTAAAATTACCAAAATACCACT-GG
1 -TTTACAAAATTACCAAAATACC-CTCGA
* *
50776286 TTTGA-GAAATTACCAAAATACCCTCAA
1 TTT-ACAAAATTACCAAAATACCCTCGA
**
50776313 TTTGTAAAATTACCAAAATACCC-CTGA
1 TTTACAAAATTACCAAAATACCCTC-GA
*
50776340 TTTACAAAATTACAAAAATACCCT
1 TTTACAAAATTACCAAAATACCCT
50776364 TGTCTTTTTT
Statistics
Matches: 255, Mismatches: 55, Indels: 19
0.78 0.17 0.06
Matches are distributed among these distances:
26 26 0.10
27 228 0.89
28 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.33
Consensus pattern (27 bp):
TTTACAAAATTACCAAAATACCCTCGA
Found at i:50776270 original size:81 final size:81
Alignment explanation
Indices: 50776210--50776361 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
50776200 CTCGATTTAC
* * *
50776210 AAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
*
50776275 AATACCACTGGTTTGA
66 AATACCACTGATTTGA
* ** ** *
50776291 GAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACAA
1 AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
50776355 AAATACC
65 AAATACC
50776362 CTTGTCTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
80 1 0.02
81 60 0.98
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.28
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCAATTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
AATACCACTGATTTGA
Found at i:50776358 original size:54 final size:54
Alignment explanation
Indices: 50776176--50776363 Score: 202
Period size: 54 Copynumber: 3.5 Consensus size: 54
50776166 TTTTACCTTC
* *** * ** *
50776176 GATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATA-CCCT
1 GATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
* * *
50776229 TAGTTTACAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACT
1 GA-TTTACAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCT
* *
50776284 GGTTTGA-GAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 GATTT-ACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
*
50776338 GATTTACAAAATTACAAAAATACCCT
1 GATTTACAAAATTACCAAAATACCCT
50776364 TGTCTTTTTT
Statistics
Matches: 110, Mismatches: 19, Indels: 11
0.79 0.14 0.08
Matches are distributed among these distances:
53 3 0.03
54 102 0.93
55 5 0.05
ACGTcount: A:0.42, C:0.22, G:0.06, T:0.30
Consensus pattern (54 bp):
GATTTACAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCT
Found at i:50777430 original size:24 final size:25
Alignment explanation
Indices: 50777355--50777430 Score: 109
Period size: 25 Copynumber: 3.1 Consensus size: 25
50777345 GGAAGTGCTT
* ***
50777355 AAAGGGCTATGCCCCAGTTTATCGG
1 AAAGGGCTTTGCCCCAGTTTATTAA
50777380 AAAGGGCTTTGCCCCAGTTTATTAA
1 AAAGGGCTTTGCCCCAGTTTATTAA
50777405 AAAGGGCTTTGCCCCAG-TTATTAA
1 AAAGGGCTTTGCCCCAGTTTATTAA
50777429 AA
1 AA
50777431 GAGGCTAGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 9 0.19
25 38 0.81
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATTAA
Found at i:50777436 original size:24 final size:24
Alignment explanation
Indices: 50777380--50777450 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 24
50777370 AGTTTATCGG
50777380 AAAG-GGCTTTGCCCCAGTTTATTA
1 AAAGAGGCTTTGCCCCAG-TTATTA
50777404 AAA-AGGGCTTTGCCCCAGTTATTA
1 AAAGA-GGCTTTGCCCCAGTTATTA
**
50777428 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAGAGGCTTTGCC-CCAGTTAT
50777451 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGAGGCTTTGCCCCAGTTATTA
Found at i:50777446 original size:25 final size:24
Alignment explanation
Indices: 50777355--50777450 Score: 77
Period size: 25 Copynumber: 3.9 Consensus size: 24
50777345 GGAAGTGCTT
* ***
50777355 AAAGGGCTATGCCCCAGTTTATCGG
1 AAAGGGCTAGGCCCCAG-TTATTAA
**
50777380 AAAGGGCTTTGCCCCAGTTTATTAA
1 AAAGGGCTAGGCCCCAG-TTATTAA
**
50777405 AAAGGGCTTTGCCCCAGTTATT-A
1 AAAGGGCTAGGCCCCAGTTATTAA
50777428 AAAGAGGCTAGGCCTCCAGTTAT
1 AAAG-GGCTAGGCC-CCAGTTAT
50777451 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
23 5 0.08
24 12 0.19
25 46 0.73
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (24 bp):
AAAGGGCTAGGCCCCAGTTATTAA
Found at i:50777773 original size:29 final size:28
Alignment explanation
Indices: 50777739--50777793 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
50777729 AGACTGAATT
* *
50777739 AGGGCTTAGGCCCATACTGCTACTGTTTA
1 AGGGCTAAGGCCCAGACTG-TACTGTTTA
*
50777768 AGGGCTAAGGCCCGGACTGTACTGTT
1 AGGGCTAAGGCCCAGACTGTACTGTT
50777794 ACTGAATAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 7 0.30
29 16 0.70
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (28 bp):
AGGGCTAAGGCCCAGACTGTACTGTTTA
Found at i:50782227 original size:37 final size:37
Alignment explanation
Indices: 50782177--50782253 Score: 145
Period size: 37 Copynumber: 2.1 Consensus size: 37
50782167 AAGTCATACA
*
50782177 TCATTTTTCTTCATATAAATAACATACATCACAATGT
1 TCATTTTGCTTCATATAAATAACATACATCACAATGT
50782214 TCATTTTGCTTCATATAAATAACATACATCACAATGT
1 TCATTTTGCTTCATATAAATAACATACATCACAATGT
50782251 TCA
1 TCA
50782254 CTTCATTTAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (37 bp):
TCATTTTGCTTCATATAAATAACATACATCACAATGT
Found at i:50792155 original size:23 final size:23
Alignment explanation
Indices: 50792129--50792212 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
50792119 TCGTATGAGT
* *
50792129 TTACTGACTCAGCTCGTAAGAGC
1 TTACTGATTCAGCTCATAAGAGC
**
50792152 TTACT-ATTTCAGCTCATTGGAGC
1 TTACTGA-TTCAGCTCATAAGAGC
* *
50792175 TTACTGATTTAGCTCAAAAGAGC
1 TTACTGATTCAGCTCATAAGAGC
*
50792198 TTACTG-TTTAGCTCA
1 TTACTGATTCAGCTCA
50792213 ATCGTTTTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 10 0.20
23 40 0.78
24 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (23 bp):
TTACTGATTCAGCTCATAAGAGC
Found at i:50797681 original size:141 final size:140
Alignment explanation
Indices: 50797497--50797771 Score: 505
Period size: 141 Copynumber: 2.0 Consensus size: 140
50797487 TTGTATAAAG
*
50797497 TATGCGCATAATATTTGTTTGATAATTAAAATATTTTCTATTTGAATCATTCAAATGTCATCAAA
1 TATGCGCATAATATTTGTTTGATAATTAAAATATTTTATATTTGAATCATTCAAATGTCATCAAA
*
50797562 GTTAAAGTATACATATTTAATAAGTATGTGAAATGAAATGTATATAAAAAAAATTACTAGGTGAT
66 GTTAAAGTATACATATTTAATAAGTATGTGAAATGAAATGTATAT-AAAAAAATTACTAGATGAT
50797627 TAACATTGTAT
130 TAACATTGTAT
* *
50797638 TATGTGCATAATATTTGTTTGATAATTAAGATATTTTATATTTGAATCATTCAAATGTCATCAAA
1 TATGCGCATAATATTTGTTTGATAATTAAAATATTTTATATTTGAATCATTCAAATGTCATCAAA
50797703 GTTAAAGTATACATATTTAATAAGTATGTGAAATGAAATGTATATAAAAAAATTACTAGATGATT
66 GTTAAAGTATACATATTTAATAAGTATGTGAAATGAAATGTATATAAAAAAATTACTAGATGATT
50797768 AACA
131 AACA
50797772 CTATAAAAAA
Statistics
Matches: 130, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
140 23 0.18
141 107 0.82
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.39
Consensus pattern (140 bp):
TATGCGCATAATATTTGTTTGATAATTAAAATATTTTATATTTGAATCATTCAAATGTCATCAAA
GTTAAAGTATACATATTTAATAAGTATGTGAAATGAAATGTATATAAAAAAATTACTAGATGATT
AACATTGTAT
Found at i:50804815 original size:43 final size:42
Alignment explanation
Indices: 50804695--50804850 Score: 113
Period size: 43 Copynumber: 3.6 Consensus size: 42
50804685 AGTTAGTACA
*
50804695 ATGCCAACATCCCAGACGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACATCCCAGACATGGTCTTAC-TGTAAATCAAATA-CG
* * ***
50804738 ATGCC-ACTATCCCAGAGA-GCGTGTTACACAAAATCAAATACG
1 ATGCCAAC-ATCCCAGACATG-GTCTTACTGTAAATCAAATACG
**
50804780 ATGCCAATGTCCCAGACATGGTCTTACGTGTAAATCTCAAAT-CG
1 ATGCCAACATCCCAGACATGGTCTTAC-TGTAAA--TCAAATACG
* * * *
50804824 ATGCCAACGTTCCAGACGTGATCTTAC
1 ATGCCAACATCCCAGACATGGTCTTAC
50804851 ACGAAATCAC
Statistics
Matches: 88, Mismatches: 17, Indels: 15
0.73 0.14 0.12
Matches are distributed among these distances:
42 24 0.27
43 33 0.38
44 25 0.28
45 6 0.07
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
ATGCCAACATCCCAGACATGGTCTTACTGTAAATCAAATACG
Found at i:50810800 original size:27 final size:28
Alignment explanation
Indices: 50810758--50810811 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
50810748 ATTTCATTTA
* * *
50810758 TTTCACATTTTAGTCCCCAATTTCTCAT
1 TTTCACAATTTAGTCCCAAATTACTCAT
50810786 TTTCACAATTT-GTCCCAAATTACTCA
1 TTTCACAATTTAGTCCCAAATTACTCA
50810812 AATCATCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.26, C:0.28, G:0.04, T:0.43
Consensus pattern (28 bp):
TTTCACAATTTAGTCCCAAATTACTCAT
Found at i:50829747 original size:28 final size:28
Alignment explanation
Indices: 50829715--50829793 Score: 149
Period size: 28 Copynumber: 2.8 Consensus size: 28
50829705 GAATCATTCG
50829715 ATATTTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
50829743 ATATTTCGCATACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
50829771 ATATTTCGCACACTAAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
50829794 ATTTGATGTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:50837900 original size:43 final size:42
Alignment explanation
Indices: 50837839--50837947 Score: 128
Period size: 42 Copynumber: 2.6 Consensus size: 42
50837829 AAAGTCGACG
* * * *
50837839 TCCCAGACATGGCCTTACATGTAATCAAATATCAATGCTATTA
1 TCCCAGACATGGTCTTACACGTAATCAAATA-CAATGCCAATA
* * * * *
50837882 TCCCAGACAGGGTCTTACACGAAATCATATACGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCAAATACAATGCCAATA
50837924 TCCCAGACATGGTCTTACACGTAA
1 TCCCAGACATGGTCTTACACGTAA
50837948 ATCACAAATT
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 29 0.53
43 26 0.47
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAATCAAATACAATGCCAATA
Found at i:50837938 original size:42 final size:43
Alignment explanation
Indices: 50837838--50837989 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
50837828 CAAAGTCGAC
* * * * *
50837838 GTCCCAGACATGGCCTTACATGTAATCAAATATCAATGCTATT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCAATGCCAAT
* * * *
50837881 ATCCCAGACAGGGTCTTACACGAAATCATATA-CGATGCCAAT
1 GTCCCAGACATGGTCTTACACGAAATCAAATATCAATGCCAAT
* *
50837923 GTCCCAGACATGGTCTTACACGTAAATCACAA-ATTAATGCCAAC
1 GTCCCAGACATGGTCTTACACG-AAATCA-AATATCAATGCCAAT
* **
50837967 GTCCTAGATGTGGTCTTACACGA
1 GTCCCAGACATGGTCTTACACGA
50837990 TAACACATAT
Statistics
Matches: 88, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.31
43 34 0.39
44 27 0.31
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
GTCCCAGACATGGTCTTACACGAAATCAAATATCAATGCCAAT
Found at i:50840125 original size:13 final size:13
Alignment explanation
Indices: 50840109--50840141 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
50840099 TTTAATTAAA
*
50840109 TTAGTTAATTAGT
1 TTAGATAATTAGT
50840122 TTAGATAATTAGT
1 TTAGATAATTAGT
50840135 TTA-ATAA
1 TTAGATAA
50840142 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:50844575 original size:5 final size:5
Alignment explanation
Indices: 50844564--50844611 Score: 51
Period size: 6 Copynumber: 8.8 Consensus size: 5
50844554 CCTCTTATCT
*
50844564 TTTTA TTCTA TTTTA TTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA -TTTTA -TTTTA TTTT
50844612 CAGTTCAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
5 17 0.43
6 23 0.57
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:50844590 original size:6 final size:6
Alignment explanation
Indices: 50844574--50844611 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
50844564 TTTTATTCTA
50844574 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
50844612 CAGTTCAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:50853110 original size:37 final size:37
Alignment explanation
Indices: 50853060--50853138 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
50853050 TTATTACGAA
* *
50853060 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAGAATTC-CCACACGAAGTCATCGG
*
50853097 GTCTTACCCGGACAGAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAGAATTCCCACACGAAGTCATCGG
50853134 GTCTT
1 GTCTT
50853139 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAGAATTCCCACACGAAGTCATCGG
Found at i:50853335 original size:47 final size:47
Alignment explanation
Indices: 50853315--50854309 Score: 1891
Period size: 47 Copynumber: 21.2 Consensus size: 47
50853305 CTGTCACATA
* * **
50853315 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATA
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853362 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853409 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853456 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853503 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853550 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853597 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853644 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853691 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853738 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853785 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853832 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853879 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853926 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50853973 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50854020 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50854067 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50854114 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50854161 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
* * **
50854208 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTACATA
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
* **
50854255 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATA
1 TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
50854302 TATACACT
1 TATACACT
50854310 GTCTTGGCTG
Statistics
Matches: 939, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 939 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
TATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACG
Found at i:50879729 original size:17 final size:17
Alignment explanation
Indices: 50879707--50879742 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
50879697 TCTCACCATC
*
50879707 TAGGCACTTTAATTTAA
1 TAGGCACTTCAATTTAA
50879724 TAGGCACTTCAATTTAA
1 TAGGCACTTCAATTTAA
50879741 TA
1 TA
50879743 TACTTCCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (17 bp):
TAGGCACTTCAATTTAA
Found at i:50885095 original size:18 final size:17
Alignment explanation
Indices: 50885068--50885102 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50885058 CCGAATATAC
50885068 ATATATTCAATATCAAA
1 ATATATTCAATATCAAA
*
50885085 ATATCATTCAATCTCAAA
1 ATAT-ATTCAATATCAAA
50885103 GCCATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (17 bp):
ATATATTCAATATCAAA
Found at i:50885600 original size:43 final size:43
Alignment explanation
Indices: 50885491--50885603 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 43
50885481 ATATCATACA
* * * * *
50885491 ATGCCAACGTCCCAGACGTAGTCTTACATGCAATCGCATATCG
1 ATGCCAACGTCCCAAAAGTGGTCTTACACGCAATCACATATCG
* * * *
50885534 GTGCC-ACAGTCACAGACAG-GGTCTTACACGTAATCACATATCG
1 ATGCCAAC-GTCCCA-AAAGTGGTCTTACACGCAATCACATATCG
50885577 ATGCCAACGTCCCAAAAGTGGTCTTAC
1 ATGCCAACGTCCCAAAAGTGGTCTTAC
50885604 TCGAGAACAC
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
42 5 0.09
43 46 0.85
44 3 0.06
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAAAAGTGGTCTTACACGCAATCACATATCG
Found at i:50889355 original size:63 final size:63
Alignment explanation
Indices: 50889277--50889402 Score: 243
Period size: 63 Copynumber: 2.0 Consensus size: 63
50889267 CCTAGTGTTT
*
50889277 AATAGGTTCATAATTTAAGGAGATAAATTGTTCTCTAATGATTGATTAGCCAAAAGGGAAAGA
1 AATAGGTTCATAATTTAAGGAGATAAATTGTTCTCTAATGATTGATTAGCCAAAAAGGAAAGA
50889340 AATAGGTTCATAATTTAAGGAGATAAATTGTTCTCTAATGATTGATTAGCCAAAAAGGAAAGA
1 AATAGGTTCATAATTTAAGGAGATAAATTGTTCTCTAATGATTGATTAGCCAAAAAGGAAAGA
50889403 GCAAAGACAA
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (63 bp):
AATAGGTTCATAATTTAAGGAGATAAATTGTTCTCTAATGATTGATTAGCCAAAAAGGAAAGA
Found at i:50899263 original size:28 final size:28
Alignment explanation
Indices: 50899211--50899264 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
50899201 AACTTGAGAT
* *
50899211 TCAATTTTATTTTTAAATACTGTAATAC
1 TCAATTTTATTGTTAAATACAGTAATAC
50899239 TCAATTTTATTGTTATAATA-AGTAAT
1 TCAATTTTATTGTTA-AATACAGTAAT
50899265 TAATCTCATC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.37, C:0.07, G:0.06, T:0.50
Consensus pattern (28 bp):
TCAATTTTATTGTTAAATACAGTAATAC
Found at i:50902271 original size:23 final size:23
Alignment explanation
Indices: 50902238--50902374 Score: 109
Period size: 23 Copynumber: 5.8 Consensus size: 23
50902228 GCTAATGAAT
*
50902238 AGTAAGGTCTAATGAGCTGAAAC
1 AGTAAGCTCTAATGAGCTGAAAC
*
50902261 GGTAAGCTCT-ATCGAGCT-AAAC
1 AGTAAGCTCTAAT-GAGCTGAAAC
* *
50902283 AGTAAGCTC-ATACGACCTGAAAC
1 AGTAAGCTCTA-ATGAGCTGAAAC
* *
50902306 GGTAAGCTCCAATGAGCTGAAAAC
1 AGTAAGCTCTAATGAGCTG-AAAC
* *
50902330 AGTAAGCTCTTACGAGCTGATATATC
1 AGTAAGCTCTAATGAGCTGA-A-A-C
* *
50902356 AGTAAGCTCTTACGAGCTG
1 AGTAAGCTCTAATGAGCTG
50902375 TGGTGAGTCT
Statistics
Matches: 93, Mismatches: 12, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
22 18 0.19
23 33 0.35
24 21 0.23
25 1 0.01
26 20 0.22
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (23 bp):
AGTAAGCTCTAATGAGCTGAAAC
Found at i:50902303 original size:45 final size:46
Alignment explanation
Indices: 50902254--50902349 Score: 133
Period size: 47 Copynumber: 2.1 Consensus size: 46
50902244 GTCTAATGAG
*
50902254 CTGAAACGGTAAGCT-CTATCGAGCT-AAACAGTAAGCTCATACGAC
1 CTGAAACGGTAAGCTCCAAT-GAGCTAAAACAGTAAGCTCATACGAC
* *
50902299 CTGAAACGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTTACGAG
1 CTGAAACGGTAAGCTCCAATGAGCT-AAAACAGTAAGCTCATACGAC
50902346 CTGA
1 CTGA
50902350 TATATCAGTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
45 20 0.44
46 3 0.07
47 22 0.49
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (46 bp):
CTGAAACGGTAAGCTCCAATGAGCTAAAACAGTAAGCTCATACGAC
Found at i:50929390 original size:75 final size:75
Alignment explanation
Indices: 50929262--50929413 Score: 277
Period size: 75 Copynumber: 2.0 Consensus size: 75
50929252 ATACTTTCAA
* *
50929262 CCAAAAGAACACTGCAAAATTCAACGACACTTTGTATTTAAGAATTGATGGTAAATTATCCCCCA
1 CCAAAAGAACACTGCAAAACTCAACGACACTTTGTATTTAAGAATTGAAGGTAAATTATCCCCCA
50929327 ATTCCCCCTC
66 ATTCCCCCTC
50929337 CCAAAAGAACACTGCAAAACTCAACGACACTTTGTATTTAAGAATTGAAGGTAAATTATCCCCCA
1 CCAAAAGAACACTGCAAAACTCAACGACACTTTGTATTTAAGAATTGAAGGTAAATTATCCCCCA
*
50929402 ATTCCCGCTC
66 ATTCCCCCTC
50929412 CC
1 CC
50929414 CCCCTTTTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 74 1.00
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (75 bp):
CCAAAAGAACACTGCAAAACTCAACGACACTTTGTATTTAAGAATTGAAGGTAAATTATCCCCCA
ATTCCCCCTC
Found at i:50932635 original size:38 final size:38
Alignment explanation
Indices: 50932593--50932668 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
50932583 TAGATGATTT
50932593 GATACTTTAAACATTCGCTTAATGTTTGCTTTTACCGC
1 GATACTTTAAACATTCGCTTAATGTTTGCTTTTACCGC
50932631 GATACTTTAAACATTCGCTTAATGTTTGCTTTTACCGC
1 GATACTTTAAACATTCGCTTAATGTTTGCTTTTACCGC
50932669 TAATAACTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (38 bp):
GATACTTTAAACATTCGCTTAATGTTTGCTTTTACCGC
Found at i:50934641 original size:51 final size:51
Alignment explanation
Indices: 50934584--50934685 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
50934574 CTACTAACAC
*
50934584 TAATATTTTATTGCCCATGCTCTTTATTTTGTTGTTTCCTCCCATGATGCA
1 TAATATTTTATTGCCCATGCTCTTTATTTTATTGTTTCCTCCCATGATGCA
50934635 TAATATTTTATTGCCCATGCTCTTTATTTTATTGTTTCCTCCCATGATGCA
1 TAATATTTTATTGCCCATGCTCTTTATTTTATTGTTTCCTCCCATGATGCA
50934686 CCAACACAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.49
Consensus pattern (51 bp):
TAATATTTTATTGCCCATGCTCTTTATTTTATTGTTTCCTCCCATGATGCA
Found at i:50934678 original size:27 final size:27
Alignment explanation
Indices: 50934597--50934680 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
50934587 TATTTTATTG
*
50934597 CCCATGCTCTTTATTTTGTTGTTTCCT
1 CCCATGCTCTTTATTTTATTGTTTCCT
* *
50934624 CCCATGATGCATAATATTTTATTG------
1 CCCATGCT-C-T-TTATTTTATTGTTTCCT
50934648 CCCATGCTCTTTATTTTATTGTTTCCT
1 CCCATGCTCTTTATTTTATTGTTTCCT
50934675 CCCATG
1 CCCATG
50934681 ATGCACCAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 18
0.65 0.08 0.27
Matches are distributed among these distances:
21 10 0.23
22 1 0.02
23 1 0.02
24 7 0.16
27 13 0.30
28 1 0.02
29 1 0.02
30 9 0.21
ACGTcount: A:0.15, C:0.25, G:0.11, T:0.49
Consensus pattern (27 bp):
CCCATGCTCTTTATTTTATTGTTTCCT
Found at i:50939640 original size:24 final size:24
Alignment explanation
Indices: 50939577--50939627 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
50939567 TCATACACAA
50939577 TATTATCAACCACATAGGTTTATC
1 TATTATCAACCACATAGGTTTATC
50939601 TATTATCAACCACATAGGTTTATC
1 TATTATCAACCACATAGGTTTATC
50939625 TAT
1 TAT
50939628 CTCATACACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (24 bp):
TATTATCAACCACATAGGTTTATC
Found at i:50947383 original size:40 final size:40
Alignment explanation
Indices: 50947315--50947416 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
50947305 GAAACTATCT
* *
50947315 CAATATCGCACACTTAGTGCCACATATAGCCGAAGCTATTC
1 CAAT-TCGCACACTTAGAGCCACATATAGCCAAAGCTATTC
* ** *
50947356 CAATTCGCACACTTAGAGCTATTTATAGCCAAAGCTATTT
1 CAATTCGCACACTTAGAGCCACATATAGCCAAAGCTATTC
* *
50947396 CAAATCGCACACTTAGTGCCA
1 CAATTCGCACACTTAGAGCCA
50947417 AACATTGTCT
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
40 48 0.92
41 4 0.08
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (40 bp):
CAATTCGCACACTTAGAGCCACATATAGCCAAAGCTATTC
Found at i:50949837 original size:56 final size:56
Alignment explanation
Indices: 50949742--50949848 Score: 146
Period size: 56 Copynumber: 1.9 Consensus size: 56
50949732 CATGGCATTT
* * *
50949742 ATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGGCATCAATATGTGACTCCA
1 ATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCAATATGTGACTCCA
*
50949798 ATATATGTGTGCGAGTAAGACC-CTGTCTGGGACAG-TGGCATCAATATGTGA
1 ATATATGTGTGCGAGTAAGACCAC-GTCTGAGAC-GTTGGCATCAATATGTGA
50949849 TTACATGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
55 1 0.02
56 43 0.96
57 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (56 bp):
ATATATGTGTGCGAGTAAGACCACGTCTGAGACGTTGGCATCAATATGTGACTCCA
Found at i:50952254 original size:13 final size:13
Alignment explanation
Indices: 50952236--50952261 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
50952226 GCTCGACAGG
50952236 GACACGCTCGTGT
1 GACACGCTCGTGT
50952249 GACACGCTCGTGT
1 GACACGCTCGTGT
50952262 TCGATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACACGCTCGTGT
Found at i:50954415 original size:17 final size:18
Alignment explanation
Indices: 50954393--50954429 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
50954383 TTTACCTGTG
50954393 TGGGGCCCACA-GGCTCA
1 TGGGGCCCACACGGCTCA
50954410 TGGGGCCCACACGGCTCA
1 TGGGGCCCACACGGCTCA
50954428 TG
1 TG
50954430 TCAGCCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.16, C:0.35, G:0.35, T:0.14
Consensus pattern (18 bp):
TGGGGCCCACACGGCTCA
Found at i:50956299 original size:27 final size:27
Alignment explanation
Indices: 50956240--50956299 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
50956230 CCTAGACCCT
50956240 CCTT-TGTGGTAAAATGACTCTATTGC
1 CCTTATGTGGTAAAATGACTCTATTGC
* *
50956266 CCCTATGTGGTAAAATGACTAT-TATGC
1 CCTTATGTGGTAAAATGACTCTAT-TGC
50956293 CCTTATG
1 CCTTATG
50956300 AGATGTATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 25 0.86
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
CCTTATGTGGTAAAATGACTCTATTGC
Found at i:50957267 original size:79 final size:79
Alignment explanation
Indices: 50957178--50957332 Score: 215
Period size: 79 Copynumber: 2.0 Consensus size: 79
50957168 TTCAACGATG
*
50957178 TTATACTTTGCGAAAAACACTTCAATATGACATCGCTAGATTCA-ACCATAACGTCCGGGCC-AG
1 TTATACTTTGCAAAAAACACTTCAATATGACATCGCTAGATT-AGACCATAACGTCCGGGCCGA-
50957241 GTTTGGGGTGTTATAT
64 GTTTGGGGTGTTATAT
* * * * * *
50957257 TTATACTTTGCAAAAAACACTTCAATGTGACATCGCTGGATTAGCCCATAATGTCTGGGCCGATT
1 TTATACTTTGCAAAAAACACTTCAATATGACATCGCTAGATTAGACCATAACGTCCGGGCCGAGT
50957322 TTGGGGTGTTA
66 TTGGGGTGTTA
50957333 CAGTCTTACA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 65 0.97
80 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (79 bp):
TTATACTTTGCAAAAAACACTTCAATATGACATCGCTAGATTAGACCATAACGTCCGGGCCGAGT
TTGGGGTGTTATAT
Found at i:50960680 original size:25 final size:25
Alignment explanation
Indices: 50960592--50960714 Score: 97
Period size: 25 Copynumber: 4.9 Consensus size: 25
50960582 GTATGCTCAT
** * *
50960592 ACGAGCTATGAATCAGTATGCTCTC
1 ACGAGCTACAAATTAGTAAGCTCTC
* * *
50960617 ACGAGCTATAAATCAATAAGCTCAT-
1 ACGAGCTACAAATTAGTAAGCTC-TC
* *
50960642 TCGAGCTGA-GAATTAGTAAGCTCTC
1 ACGAGCT-ACAAATTAGTAAGCTCTC
* *
50960667 ACGAGCTACAAATTGGAAAGCTCTC
1 ACGAGCTACAAATTAGTAAGCTCTC
* *
50960692 ACGAGCTACAAGTTGGTAAGCTC
1 ACGAGCTACAAATTAGTAAGCTC
50960715 ATACGTGCTA
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
24 2 0.02
25 77 0.95
26 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (25 bp):
ACGAGCTACAAATTAGTAAGCTCTC
Found at i:50960724 original size:25 final size:25
Alignment explanation
Indices: 50960652--50960714 Score: 99
Period size: 25 Copynumber: 2.5 Consensus size: 25
50960642 TCGAGCTGAG
*
50960652 AATTAGTAAGCTCTCACGAGCTACA
1 AATTGGTAAGCTCTCACGAGCTACA
*
50960677 AATTGGAAAGCTCTCACGAGCTACA
1 AATTGGTAAGCTCTCACGAGCTACA
*
50960702 AGTTGGTAAGCTC
1 AATTGGTAAGCTC
50960715 ATACGTGCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (25 bp):
AATTGGTAAGCTCTCACGAGCTACA
Found at i:50963977 original size:50 final size:47
Alignment explanation
Indices: 50963871--50963994 Score: 135
Period size: 47 Copynumber: 2.5 Consensus size: 47
50963861 CAAATTAATA
* *
50963871 GTGGCTTGTCCACTAAGTGTTTCAGTGGCAGTATATTTGCATATATG
1 GTGGCTTGTCCACAAAGTGTTTCAGTGGCAGTATATCTGCATATATG
* *
50963918 GTGGCTTGTCCACAAAGT-TATATCAGTGGTAGTTTATCTGCA-AGTCATTG
1 GTGGCTTGTCCACAAAGTGT-T-TCAGTGGCAGTATATCTGCATA-T-A-TG
50963968 GTGGCTTGTCCACAAATGGTGTTTCAG
1 GTGGCTTGTCCACAAA--GTGTTTCAG
50963995 ATGGACAAGT
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
46 1 0.02
47 19 0.29
48 18 0.28
49 1 0.02
50 18 0.28
51 4 0.06
52 3 0.05
53 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.26, T:0.36
Consensus pattern (47 bp):
GTGGCTTGTCCACAAAGTGTTTCAGTGGCAGTATATCTGCATATATG
Found at i:50967016 original size:34 final size:34
Alignment explanation
Indices: 50966956--50967062 Score: 137
Period size: 34 Copynumber: 3.2 Consensus size: 34
50966946 GTTTGCATCT
50966956 CTGATACTG-TACTG-AATTGGGCTAAGGCCCACA
1 CTGATACTGTTACTGTAA-TGGGCTAAGGCCCACA
* *
50966989 CTGATACTGTTATTGTAATGGGCTAAGGGCCACA
1 CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
* * * *
50967023 CTAATGCTGTTACCGTAATAGGCTAAGGCCCACA
1 CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
50967057 CTGATA
1 CTGATA
50967063 TTGCTACTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
33 9 0.15
34 51 0.82
35 2 0.03
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (34 bp):
CTGATACTGTTACTGTAATGGGCTAAGGCCCACA
Found at i:50976348 original size:22 final size:22
Alignment explanation
Indices: 50976323--50976371 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
50976313 GGTTGAATAA
*
50976323 TGGTGATA-TGTTGGTTGTTGGG
1 TGGTGATATTG-TGATTGTTGGG
*
50976345 TGGTGATATTGTGATTTTTGGG
1 TGGTGATATTGTGATTGTTGGG
50976367 TGGTG
1 TGGTG
50976372 TTTTGGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.10, C:0.00, G:0.43, T:0.47
Consensus pattern (22 bp):
TGGTGATATTGTGATTGTTGGG
Found at i:50977045 original size:16 final size:15
Alignment explanation
Indices: 50977024--50977055 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
50977014 CTACTCTTGG
50977024 TTTTCTAACTCTAATT
1 TTTTCTAAC-CTAATT
50977040 TTTTCTAACCTAATT
1 TTTTCTAACCTAATT
50977055 T
1 T
50977056 CATGGATGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTTCTAACCTAATT
Found at i:50978346 original size:52 final size:51
Alignment explanation
Indices: 50978280--50978382 Score: 134
Period size: 52 Copynumber: 2.0 Consensus size: 51
50978270 GACACTAAAG
** * * * *
50978280 GACCATATTGTGTAAGACCGTAATTGGTTGGTTATGGCATCATATGGAAAAA
1 GACCATATCATGTAAGACCGTAACTAGTGGGTTATGACATCATAT-GAAAAA
*
50978332 GACCATATCATGTAAGACTGTAACTAGTGGGTTATGACATCATATGAAAAA
1 GACCATATCATGTAAGACCGTAACTAGTGGGTTATGACATCATATGAAAAA
50978383 TTTTAAGAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 6 0.14
52 38 0.86
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (51 bp):
GACCATATCATGTAAGACCGTAACTAGTGGGTTATGACATCATATGAAAAA
Found at i:50978943 original size:23 final size:23
Alignment explanation
Indices: 50978917--50978965 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
50978907 ACCGAATAAC
*
50978917 ACACCTCATTCACATACATTTAT
1 ACACATCATTCACATACATTTAT
*
50978940 ACACATCATTTACATACATTTAT
1 ACACATCATTCACATACATTTAT
50978963 ACA
1 ACA
50978966 TTCATACTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.35
Consensus pattern (23 bp):
ACACATCATTCACATACATTTAT
Found at i:50980930 original size:33 final size:33
Alignment explanation
Indices: 50980888--50980986 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
50980878 ACATATAGTA
* *
50980888 ACAGTCTGGGCTCGAGCCCTATCCAGTATCAGT
1 ACAGTCTGGGCTCTAGCCCTATCCAGTAACAGT
* *
50980921 ACAGTCTGGGC-CTTAGCCCTATCTAGTAACAGA
1 ACAGTCTGGGCTC-TAGCCCTATCCAGTAACAGT
* * *
50980954 ACAGTCTGAGCTTTAGCCCTATACAGTAACAGT
1 ACAGTCTGGGCTCTAGCCCTATCCAGTAACAGT
50980987 GTGGGCCTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
32 1 0.02
33 54 0.98
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (33 bp):
ACAGTCTGGGCTCTAGCCCTATCCAGTAACAGT
Found at i:50981202 original size:26 final size:26
Alignment explanation
Indices: 50981173--50981255 Score: 78
Period size: 27 Copynumber: 3.2 Consensus size: 26
50981163 TTCCAGAAAA
50981173 AGTAAATGTGGCA-AGCCACCAGTATC
1 AGTAAATGTGGCATAGCCACCAGTA-C
* * * *
50981199 AGTAATTATGGCATAGCCACTAATAAC
1 AGTAAATGTGGCATAGCCACCAGT-AC
* * *
50981226 AGTGAATGTGACATAGTCACCAGTAC
1 AGTAAATGTGGCATAGCCACCAGTAC
50981252 AGTA
1 AGTA
50981256 CTTCCTCCAT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
26 16 0.37
27 26 0.60
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.23
Consensus pattern (26 bp):
AGTAAATGTGGCATAGCCACCAGTAC
Found at i:50981421 original size:27 final size:27
Alignment explanation
Indices: 50981391--50981480 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
50981381 GGGCATAATC
50981391 GTCATTTTACCAC-ATAGGGGTATTACG
1 GTCATTTTACC-CTATAGGGGTATTACG
*
50981418 GTCATTTTACCCTATAGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTACG
** * * *
50981445 ACCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTACG
*
50981472 GTTATTTTA
1 GTCATTTTA
50981481 TAAACAGGGG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTACG
Found at i:50981505 original size:27 final size:27
Alignment explanation
Indices: 50981475--50981594 Score: 91
Period size: 27 Copynumber: 4.4 Consensus size: 27
50981465 CATTACGGTT
* *
50981475 ATTTTATAAA-CAGGGGGTATTTTAATA
1 ATTTTACAAATCA-GGGGTATTTCAATA
*
50981502 ATTTTACAAATCAGGGGTATTTCAGTA
1 ATTTTACAAATCAGGGGTATTTCAATA
* * **
50981529 ATTTTAC-AACCCGTGGGTATTTCGGTA
1 ATTTTACAAATCAG-GGGTATTTCAATA
* * * ***
50981556 ATTTCATAAATTAGGGGTATTTTGGTA
1 ATTTTACAAATCAGGGGTATTTCAATA
50981583 ATTTTACAAATC
1 ATTTTACAAATC
50981595 GAGGTCTTAA
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
26 4 0.05
27 66 0.88
28 5 0.07
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (27 bp):
ATTTTACAAATCAGGGGTATTTCAATA
Found at i:50981533 original size:54 final size:54
Alignment explanation
Indices: 50981475--50981592 Score: 128
Period size: 54 Copynumber: 2.2 Consensus size: 54
50981465 CATTACGGTT
* * *
50981475 ATTTTATAAACAGGGGGTATTTTAATAATTTTACAAATCAGGGGTATTTCAGTA
1 ATTTTACAAACAGGGGGTATTTCAATAATTTCACAAATCAGGGGTATTTCAGTA
* * * ** * * **
50981529 ATTTTACAACCCGTGGGTATTTCGGTAATTTCATAAATTAGGGGTATTTTGGTA
1 ATTTTACAAACAGGGGGTATTTCAATAATTTCACAAATCAGGGGTATTTCAGTA
50981583 ATTTTACAAA
1 ATTTTACAAA
50981593 TCGAGGTCTT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (54 bp):
ATTTTACAAACAGGGGGTATTTCAATAATTTCACAAATCAGGGGTATTTCAGTA
Found at i:50985609 original size:33 final size:33
Alignment explanation
Indices: 50985517--50985612 Score: 113
Period size: 33 Copynumber: 2.9 Consensus size: 33
50985507 ATGCATGTAG
* ** * *
50985517 GAACAATCTGGGCTCGAGCCCTATCCAGTATCA
1 GAACAGTCTGGGCTTTAGCCCTATACAGTAACA
* *
50985550 GTACAGTCTGGGC-TTAACCCTATACAGTAACA
1 GAACAGTCTGGGCTTTAGCCCTATACAGTAACA
*
50985582 GAATAGTCTGGGCTTTAGCCCTATACAGTAA
1 GAACAGTCTGGGCTTTAGCCCTATACAGTAA
50985613 TAGTGTGGGC
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 25 0.48
33 27 0.52
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (33 bp):
GAACAGTCTGGGCTTTAGCCCTATACAGTAACA
Found at i:50985621 original size:28 final size:28
Alignment explanation
Indices: 50985579--50985639 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
50985569 CTATACAGTA
* * *
50985579 ACAG-AATAGTCTGGGCTTTAGCCCTAT
1 ACAGTAATAGTCTGGGCCTAAGCCCAAT
*
50985606 ACAGTAATAGTGTGGGCCTAAGCCCAAT
1 ACAGTAATAGTCTGGGCCTAAGCCCAAT
50985634 ACAGTA
1 ACAGTA
50985640 TCAGTACAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 4 0.14
28 25 0.86
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (28 bp):
ACAGTAATAGTCTGGGCCTAAGCCCAAT
Found at i:50985651 original size:33 final size:33
Alignment explanation
Indices: 50985523--50985649 Score: 122
Period size: 32 Copynumber: 4.0 Consensus size: 33
50985513 GTAGGAACAA
** *
50985523 TCTGGGCTCGAGCCCTATCCAGTATCAGTACAG
1 TCTGGGCTTAAGCCCTATACAGTATCAGTACAG
* * *
50985556 TCTGGGCTTAA-CCCTATACAGTAACAGAATAG
1 TCTGGGCTTAAGCCCTATACAGTATCAGTACAG
*
50985588 TCTGGGCTTTAGCCCTATACAGTA--A-T--AG
1 TCTGGGCTTAAGCCCTATACAGTATCAGTACAG
* * *
50985616 TGTGGGCCTAAGCCCAATACAGTATCAGTACAG
1 TCTGGGCTTAAGCCCTATACAGTATCAGTACAG
50985649 T
1 T
50985650 GTAAAGCAAT
Statistics
Matches: 76, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
28 22 0.29
30 1 0.01
31 2 0.03
32 27 0.36
33 24 0.32
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (33 bp):
TCTGGGCTTAAGCCCTATACAGTATCAGTACAG
Found at i:50985831 original size:26 final size:27
Alignment explanation
Indices: 50985780--50985880 Score: 98
Period size: 27 Copynumber: 3.8 Consensus size: 27
50985770 CAGTAATAAT
* ** *
50985780 AATGCAGCATAGCTGCTAGAAACAGTA
1 AATGTAGCATAGCCACTAGTAACAGTA
*
50985807 AATGTAGCA-AGCCACTAGTATCAGTA
1 AATGTAGCATAGCCACTAGTAACAGTA
* * *
50985833 ATTGTGGCATAGCCACTAGTAACAGTG
1 AATGTAGCATAGCCACTAGTAACAGTA
*
50985860 AATGT-GACATAGTCACTAGTA
1 AATGTAG-CATAGCCACTAGTA
50985881 CAATACTTCC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 21 0.34
27 40 0.66
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (27 bp):
AATGTAGCATAGCCACTAGTAACAGTA
Found at i:50986037 original size:27 final size:26
Alignment explanation
Indices: 50985994--50986096 Score: 80
Period size: 27 Copynumber: 3.8 Consensus size: 26
50985984 TAAGCACATC
*
50985994 AATTTTACCATATAGGGGTATTACGGT
1 AATTTTACC-TACAGGGGTATTACGGT
* *
50986021 AATTTTAGCCTACAGGGGCATTATGGT
1 AATTTTA-CCTACAGGGGTATTACGGT
* ** * *
50986048 CATTTTACAAATCAGGGGTATTTCAGT
1 AATTTTACCTA-CAGGGGTATTACGGT
**
50986075 AATTTTACAAACTAGGGGTATT
1 AATTTTACCTAC-AGGGGTATT
50986097 TCTATAATTT
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.05
27 57 0.92
28 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (26 bp):
AATTTTACCTACAGGGGTATTACGGT
Found at i:50986097 original size:27 final size:27
Alignment explanation
Indices: 50986049--50986199 Score: 114
Period size: 27 Copynumber: 5.6 Consensus size: 27
50986039 CATTATGGTC
50986049 ATTTTACAAA-TCAGGGGTATTTCAGTA
1 ATTTTACAAACT-AGGGGTATTTCAGTA
50986076 ATTTTACAAACTAGGGGTATTTCTA-TA
1 ATTTTACAAACTAGGGGTATTTC-AGTA
** * **
50986103 ATTTTAC-AACCCGAGTGTATTTCAAAA
1 ATTTTACAAACTAG-GGGTATTTCAGTA
* *
50986130 ATTTTACAAA-TCGGGGGTATTT-TGATA
1 ATTTTACAAACT-AGGGGTATTTCAG-TA
* * * **
50986157 ATTTCACAAATTAAGGGTATTTTGGTA
1 ATTTTACAAACTAGGGGTATTTCAGTA
50986184 ATTTTACAAACTAGGG
1 ATTTTACAAACTAGGG
50986200 TCTTAACGAC
Statistics
Matches: 98, Mismatches: 17, Indels: 18
0.74 0.13 0.14
Matches are distributed among these distances:
26 5 0.05
27 86 0.88
28 7 0.07
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (27 bp):
ATTTTACAAACTAGGGGTATTTCAGTA
Found at i:50986107 original size:54 final size:54
Alignment explanation
Indices: 50986049--50986199 Score: 155
Period size: 54 Copynumber: 2.8 Consensus size: 54
50986039 CATTATGGTC
50986049 ATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTCT-ATA
1 ATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAACTAGGGGTATTT-TGATA
* * * ** *
50986103 ATTTTAC-AACCCGAGTGTATTTCAAAAATTTTACAAA-TCGGGGGTATTTTGATA
1 ATTTTACAAATCAG-GGGTATTTCAGTAATTTTACAAACT-AGGGGTATTTTGATA
* * * **
50986157 ATTTCACAAATTAAGGGTATTTTGGTAATTTTACAAACTAGGG
1 ATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAACTAGGG
50986200 TCTTAACGAC
Statistics
Matches: 75, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
53 6 0.08
54 66 0.88
55 3 0.04
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (54 bp):
ATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGATA
Found at i:50988653 original size:43 final size:43
Alignment explanation
Indices: 50988487--50988656 Score: 143
Period size: 43 Copynumber: 4.0 Consensus size: 43
50988477 ATATAGCTTG
* * * *
50988487 TACAATGCC-ATATCCCTGATATGGTCTTACATGTTATCAC-A
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* * * * * * *
50988528 TATCAATGCCACTGTCCCAGACAGGGTCTTTCACGAAATC-GAT
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
* *
50988571 TAACGATGCCAATGTCCCAAACATGGTCTTTTACA--TAATCACAA
1 T-ACAATGCCAATGTCCCAGACATGGTC--TTACATGTAATCACAA
*
50988615 TACAATTCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
50988657 TCTCGGTAAC
Statistics
Matches: 98, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
41 7 0.07
42 7 0.07
43 77 0.79
44 3 0.03
45 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.29
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
Found at i:50991731 original size:79 final size:81
Alignment explanation
Indices: 50991631--50991815 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 81
50991621 GCTCCTCGTT
* *
50991631 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
50991693 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
* **
50991711 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
50991775 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
50991791 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50991816 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
78 5 0.06
79 52 0.58
80 33 0.37
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:50991815 original size:40 final size:40
Alignment explanation
Indices: 50991631--50991815 Score: 202
Period size: 40 Copynumber: 4.7 Consensus size: 40
50991621 GCTCCTCGTT
* * *
50991631 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
50991671 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
*
50991711 CAAATGCCTTTGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
50991750 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
50991791 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50991816 CATCATTCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
38 3 0.02
39 29 0.24
40 75 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:50992478 original size:59 final size:59
Alignment explanation
Indices: 50992413--50992529 Score: 216
Period size: 59 Copynumber: 2.0 Consensus size: 59
50992403 ATCAATTTAA
*
50992413 CACATGCATTACTCATTAATATACAAAAATTATATTCGGCCTTAGCACACAACTTGCTG
1 CACATGCATTACTCATTAACATACAAAAATTATATTCGGCCTTAGCACACAACTTGCTG
*
50992472 CACATGCATTACTCATTAACCTACAAAAATTATATTCGGCCTTAGCACACAACTTGCT
1 CACATGCATTACTCATTAACATACAAAAATTATATTCGGCCTTAGCACACAACTTGCT
50992530 AGCCGATTCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (59 bp):
CACATGCATTACTCATTAACATACAAAAATTATATTCGGCCTTAGCACACAACTTGCTG
Found at i:50994204 original size:29 final size:29
Alignment explanation
Indices: 50994171--50994244 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
50994161 GTTGTGAGAT
* *
50994171 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
50994200 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
50994229 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
50994245 CGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:50996424 original size:20 final size:20
Alignment explanation
Indices: 50996401--50996439 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
50996391 TAAACATGGT
50996401 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
50996421 ATGTATGCTATGCACATGA
1 ATGTATGATATGCACATGA
50996440 TGTATTCATA
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:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:50996521 original size:23 final size:23
Alignment explanation
Indices: 50996491--50996563 Score: 119
Period size: 23 Copynumber: 3.1 Consensus size: 23
50996481 AGGAAGTGCA
50996491 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
50996514 AAAGGGCTTATGCCCCGGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
50996537 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
50996561 AAA
1 AAA
50996564 AGAGGCTAGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 25 0.54
24 21 0.46
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:50996546 original size:24 final size:24
Alignment explanation
Indices: 50996490--50996570 Score: 128
Period size: 24 Copynumber: 3.4 Consensus size: 24
50996480 GAGGAAGTGC
50996490 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50996514 -AAAGGGCTTATGCCCCGGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
50996537 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
50996561 AAAAGAGGCT
1 AAAAG-GGCT
50996571 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
23 22 0.42
24 26 0.50
25 4 0.08
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:50996813 original size:31 final size:31
Alignment explanation
Indices: 50996778--50996837 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
50996768 CATTTACAGT
*
50996778 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGACCCAGTAATATGAAATATAA
* **
50996809 AAAGGCTTCGACCGAGTGTTATGAAATAT
1 AAAGGCTTCGACCCAGTAATATGAAATAT
50996838 GAAATATGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATAA
Found at i:50999632 original size:40 final size:40
Alignment explanation
Indices: 50999570--50999711 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
50999560 AACCCAAGTA
* * *
50999570 CCTTCGGGATTTAG-TCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
50999609 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
50999649 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
50999689 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
50999712 CATTCGAATA
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 12 0.13
40 82 0.86
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:51003357 original size:30 final size:31
Alignment explanation
Indices: 51003281--51003363 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
51003271 TCAGTCTCGA
51003281 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
51003311 CATACCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
51003342 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
51003364 ACTGTAAGCA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.34
31 33 0.66
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:51006127 original size:49 final size:49
Alignment explanation
Indices: 51006058--51006551 Score: 774
Period size: 49 Copynumber: 10.3 Consensus size: 49
51006048 GTGAACATGC
51006058 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
51006107 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
51006154 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
51006203 ATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
51006252 ATATATGGGATAAGGCCTAATGGCCGATGTGATCAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
51006299 ATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
51006348 ATATATGGGATAAGGCCTAATGGCCGATGTGATCAATGTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
*
51006395 ATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* *
51006444 ATATATGGGATAAGGCCTAATGGCCGATGTGATGAATCTGAAAGTG--T
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
* * * * * * *
51006491 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
51006540 A-A-ATGTGATAAG
1 ATATATGTGATAAG
51006552 TCCCGAAGGG
Statistics
Matches: 410, Mismatches: 27, Indels: 18
0.90 0.06 0.04
Matches are distributed among these distances:
47 181 0.44
48 1 0.00
49 228 0.56
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
Found at i:51006137 original size:96 final size:95
Alignment explanation
Indices: 51006037--51006551 Score: 768
Period size: 96 Copynumber: 5.4 Consensus size: 95
51006027 TTAGGATTCT
* * *
51006037 ATGTGATGGATGTGAACA-TG-CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAA-AGTGATATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
51006100 AGTGTATATATATGTGATAAGGCCTAATGGCCG
65 AGTG--TATATATGTGATAAGGCCTAATGGTCG
*
51006133 ATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAAAGTGATATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
51006197 GTGTATATATATGTGATAAGGCCTAATGGTCG
66 GTG--TATATATGTGATAAGGCCTAATGGTCG
*
51006229 ATGTGATGAATGTGAAAGTGTATATATATGGGATAAGGCCTAATGGCCGATGTGATCAATGTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51006294 AGTGTATATATGTGATAAGGCCTAATGGTCG
65 AGTGTATATATGTGATAAGGCCTAATGGTCG
*
51006325 ATGTGATGAATGTGAAAGTGTATATATATGGGATAAGGCCTAATGGCCGATGTGATCAATGTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
51006390 AGTGTATATATGTGATAAGGCCTAATGGTCG
65 AGTGTATATATGTGATAAGGCCTAATGGTCG
*
51006421 ATGTGATGAATGTGAAAGTGTATATATATGGGATAAGGCCTAATGGCCGATGTGATGAATCTGAA
1 ATGTGATGAATGTGAAAGTG-ATATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
51006486 AGTGTATATATGTGACAGGGCCGAGTGGCCA
65 AGTGTATATATGTGATAAGGCCTAATGGTCG
* * * *
51006517 ACGTGATGGATGTGAAAGTG-TATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGATATATATGGGATAAG
51006552 TCCCGAAGGG
Statistics
Matches: 399, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
94 13 0.03
95 1 0.00
96 340 0.85
98 45 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (95 bp):
ATGTGATGAATGTGAAAGTGATATATATGGGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCTAATGGTCG
Found at i:51006217 original size:145 final size:145
Alignment explanation
Indices: 51006058--51006551 Score: 784
Period size: 145 Copynumber: 3.4 Consensus size: 145
51006048 GTGAACATGC
51006058 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
51006123 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
51006188 AATGTGAAAGTGTAT
131 AATGTGAAAGTGTAT
* *
51006203 ATATATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGGGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
* *
51006268 CTAATGGCCGATGTGATCAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGTCGATGTGATG
66 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
51006333 AATGTGAAAGTGTAT
131 AATGTGAAAGTGTAT
* *
51006348 ATATATGGGATAAGGCCTAATGGCCGATGTGATCAATGTGAAAGTG--TATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
* *
51006411 CTAATGGTCGATGTGATGAATGTGAAAGTGTATATATATGGGATAAGGCCTAATGGCCGATGTGA
66 CTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGA
*
51006476 TGAATCTGAAAGTG--T
129 TGAATGTGAAAGTGTAT
* * * * * * *
51006491 ATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
51006552 TCCCGAAGGG
Statistics
Matches: 323, Mismatches: 22, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
143 92 0.28
144 1 0.00
145 230 0.71
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.30
Consensus pattern (145 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTGTAT
Found at i:51006726 original size:37 final size:37
Alignment explanation
Indices: 51006670--51006748 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
51006660 CCGAGCTCTA
* * *
51006670 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
51006707 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
51006744 AAGAC
1 AAGAC
51006749 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:51007625 original size:26 final size:26
Alignment explanation
Indices: 51007549--51007683 Score: 163
Period size: 26 Copynumber: 5.3 Consensus size: 26
51007539 CTGGAAGCCT
51007549 AGCCTCTTTT-AAT-AACT-GGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* **
51007572 AGCCTTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
51007597 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* **
51007623 AGCCCTTTCCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
51007649 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
51007675 AGCCCTTTT
1 AGCCCTTTT
51007684 TCACTTCCTC
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
22 4 0.04
23 5 0.05
24 4 0.04
25 27 0.28
26 55 0.58
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:51007658 original size:52 final size:50
Alignment explanation
Indices: 51007549--51007682 Score: 193
Period size: 52 Copynumber: 2.7 Consensus size: 50
51007539 CTGGAAGCCT
* *
51007549 AGCCTCTTTT-AAT-AACTGGGCA-AAGCCTTTTTCGGTAAACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGCATAAGCCCTTTCCGGTAAACTGGGGCAA
51007597 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTCCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACT-GGGCATAAGCCCTTTCCGGTAAACTGGGGCA-A
51007649 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTT
1 AGCCCTTTTCAATAAACT-GGGCATAAGCCCTTT
51007683 TTCACTTCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
47 5 0.06
48 7 0.09
49 4 0.05
50 5 0.06
51 23 0.29
52 34 0.44
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (50 bp):
AGCCCTTTTCAATAAACTGGGCATAAGCCCTTTCCGGTAAACTGGGGCAA
Found at i:51007761 original size:20 final size:20
Alignment explanation
Indices: 51007736--51007819 Score: 134
Period size: 20 Copynumber: 4.2 Consensus size: 20
51007726 TGAATACATT
51007736 ATGTGCATTTCATACATATC
1 ATGTGCATTTCATACATATC
51007756 ATGTGCATTTCATACATATC
1 ATGTGCATTTCATACATATC
*
51007776 ATGTGCATTTTATACATATC
1 ATGTGCATTTCATACATATC
*
51007796 ATGTGCATATCATATCA-ATC
1 ATGTGCATTTCATA-CATATC
51007816 ATGT
1 ATGT
51007820 ATATCATAAC
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (20 bp):
ATGTGCATTTCATACATATC
Found at i:51008201 original size:20 final size:21
Alignment explanation
Indices: 51008173--51008211 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
51008163 TGGGCCCGAA
*
51008173 AGCCTATTG-GGCCCAACTCT
1 AGCCCATTGAGGCCCAACTCT
51008193 AGCCCATTGAGGCCCAACT
1 AGCCCATTGAGGCCCAACT
51008212 TACCATCGTG
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:0.23, C:0.36, G:0.21, T:0.21
Consensus pattern (21 bp):
AGCCCATTGAGGCCCAACTCT
Found at i:51008557 original size:27 final size:27
Alignment explanation
Indices: 51008527--51008591 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
51008517 GGGCATATTC
*
51008527 GTCATTTTACCATAC-AAGGGTATTACG
1 GTCATTTTACCATACAAAGGCT-TTACG
* *
51008554 GTCACTTTACCCTACAAAGGCTTTACG
1 GTCATTTTACCATACAAAGGCTTTACG
*
51008581 GTCTTTTTACC
1 GTCATTTTACC
51008592 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAAGGCTTTACG
Found at i:51008652 original size:27 final size:27
Alignment explanation
Indices: 51008622--51009008 Score: 165
Period size: 27 Copynumber: 14.3 Consensus size: 27
51008612 TTTCATCCTA
* * *
51008622 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **
51008649 CAAGGGTATTTCT-ATAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
51008676 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** *
51008703 TGAGGGTATTTTGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
51008729 CTAGTGGTATTTTGGTAATTTTACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
* * * **
51008756 CTAGGGGTGTTTTGGTAATTCTACCCTAT
1 C-AAGGGTATTTTGGTAATTTTA-CAAAT
* ** *
51008785 -AGGGGTATTTCAGTAATTTCAC-AAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* **** *
51008810 CGAGGGTAAAACGGTAATTTTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
***** * **
51008837 CAAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* ****** * *
51008864 CTAGGGTAAAACAATAATTCTATAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
51008891 CGAGGGTACTTTGGTAATTTTTACAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAAT
* **
51008919 CGAGGGTATTTCAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
51008946 CAGGGGGTATTTTAGTAATTTTACAAA-
1 CA-AGGGTATTTTGGTAATTTTACAAAT
* * **
51008973 CCAGGAGTATTTTAGTAATTTTGTAAAT
1 CAAGG-GTATTTTGGTAATTTTACAAAT
*
51009001 CGAGGGTA
1 CAAGGGTA
51009009 AAATGGTAAT
Statistics
Matches: 282, Mismatches: 66, Indels: 24
0.76 0.18 0.06
Matches are distributed among these distances:
25 2 0.01
26 20 0.07
27 209 0.74
28 51 0.18
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.37
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:51008925 original size:28 final size:26
Alignment explanation
Indices: 51008878--51009008 Score: 120
Period size: 28 Copynumber: 4.8 Consensus size: 26
51008868 GGTAAAACAA
* * *
51008878 TAATTCTATAAATCGAGGGTACTTTGG
1 TAATTTTACAAATCGAGGGTA-TTTAG
*
51008905 TAATTTTTACAAGTCGAGGGTATTTCAG
1 TAA-TTTTACAAATCGAGGGTATTT-AG
*
51008933 TAATTTTACAAATCAGGGGGTATTTTAG
1 TAATTTTACAAATC-GAGGGTA-TTTAG
*
51008961 TAATTTTACAAA-CCAGGAGTATTTTAG
1 TAATTTTACAAATCGAGG-GTA-TTTAG
**
51008988 TAATTTTGTAAATCGAGGGTA
1 TAATTTTACAAATCGAGGGTA
51009009 AAATGGTAAT
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
26 2 0.02
27 39 0.45
28 43 0.49
29 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (26 bp):
TAATTTTACAAATCGAGGGTATTTAG
Found at i:51008946 original size:55 final size:54
Alignment explanation
Indices: 51008878--51009008 Score: 147
Period size: 55 Copynumber: 2.4 Consensus size: 54
51008868 GGTAAAACAA
* * * *
51008878 TAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTCGAGG-GTATTTCAG
1 TAATTTTATAAATCGAGGGTACTTTAGTAA-TTTTACAA-ACCAGGAGTATTTCAG
* * * *
51008933 TAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGAGTATTTTAG
1 TAATTTTATAAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGAGTATTTCAG
*
51008988 TAATTTTGTAAATCGAGGGTA
1 TAATTTTATAAATCGAGGGTA
51009009 AAATGGTAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
54 10 0.16
55 40 0.63
56 13 0.21
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
TAATTTTATAAATCGAGGGTACTTTAGTAATTTTACAAACCAGGAGTATTTCAG
Found at i:51009017 original size:27 final size:27
Alignment explanation
Indices: 51008995--51009080 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 27
51008985 TAGTAATTTT
51008995 GTAAATCGAGGGTAAAATGGTAATTCC
1 GTAAATCGAGGGTAAAATGGTAATTCC
* * * *
51009022 ATAAATCGAGGGTAGAACGGTAATTCT
1 GTAAATCGAGGGTAAAATGGTAATTCC
* *** *
51009049 GTAAATCGGGGGTACTTTGGTAATTTC
1 GTAAATCGAGGGTAAAATGGTAATTCC
51009076 GTAAA
1 GTAAA
51009081 CTAAAGTATT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (27 bp):
GTAAATCGAGGGTAAAATGGTAATTCC
Found at i:51010819 original size:12 final size:12
Alignment explanation
Indices: 51010804--51010842 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
51010794 TGAAACTAGA
*
51010804 GGTACAACAGGT
1 GGTACAACAGGG
*
51010816 GGTATAACAGGG
1 GGTACAACAGGG
*
51010828 GGTACAATAGGG
1 GGTACAACAGGG
51010840 GGT
1 GGT
51010843 GGAGGTTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.41, T:0.18
Consensus pattern (12 bp):
GGTACAACAGGG
Found at i:51012740 original size:21 final size:20
Alignment explanation
Indices: 51012715--51012754 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
51012705 ATAGGGATTA
51012715 AATTGTGAAATGTGTAAAATT
1 AATTGTGAAAT-TGTAAAATT
* *
51012736 AATTGTTAAATTGTGAAAT
1 AATTGTGAAATTGTAAAAT
51012755 AAATGAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.40
Consensus pattern (20 bp):
AATTGTGAAATTGTAAAATT
Found at i:51019132 original size:79 final size:79
Alignment explanation
Indices: 51018251--51019091 Score: 1596
Period size: 79 Copynumber: 10.6 Consensus size: 79
51018241 TACTCGTTCA
* *
51018251 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
51018315 TTTAGTAACTCGCACC
64 TTTAGTAACTCGCACC
**
51018331 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGAT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAT
*
51018395 ATAGTAACTCGCACC
65 TTAGTAACTCGCACC
51018410 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
51018475 TAGTAACTCGCACC
66 TAGTAACTCGCACC
51018489 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
51018554 TAGTAACTCGCACC
66 TAGTAACTCGCACC
51018568 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
51018633 TAGTAACTCGCACC
66 TAGTAACTCGCACC
51018647 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
51018712 TAGTAACTCGCACC
66 TAGTAACTCGCACC
51018726 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
51018791 TAGTAACTCGCACC
66 TAGTAACTCGCACC
51018805 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
51018870 TAGTAACTCGCACC
66 TAGTAACTCGCACC
51018884 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
51018949 TAGTAACTCGCACC
66 TAGTAACTCGCACC
51018963 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
51019028 TAGTAACTCGCACC
66 TAGTAACTCGCACC
51019042 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGG
1 AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGG
51019092 ATCTTAGTCC
Statistics
Matches: 750, Mismatches: 8, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
78 3 0.00
79 731 0.97
80 16 0.02
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (79 bp):
AATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
TAGTAACTCGCACC
Found at i:51024705 original size:39 final size:39
Alignment explanation
Indices: 51024651--51024916 Score: 397
Period size: 39 Copynumber: 6.8 Consensus size: 39
51024641 CAAGACACTA
* * *
51024651 GAAATGCAGCCGGGCTAAAGTCCCGCAGGCTTCGTGTTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
51024690 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * *
51024729 GAAATGTATCCGGGCTAAACTCCTGCAAGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * * *
51024768 GAAATGTATCCGGGCTAAAGTCTCACAGGCTTCCTGTTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
51024807 GAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTACTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
51024846 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCATGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
51024885 GAAATTTATCCGAGCTAAAGTCCCGCAGGCTT
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
51024917 TGTGTTGGTA
Statistics
Matches: 205, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 205 1.00
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.24
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:51028175 original size:23 final size:24
Alignment explanation
Indices: 51028125--51028179 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
51028115 CTTATCATAA
* * *
51028125 GAAGCTCACACAGAGCCATTTCGG
1 GAAGCTTACAAAGAGCCATATCGG
51028149 GAAGCTTACAAAGAGCC-TATCGG
1 GAAGCTTACAAAGAGCCATATCGG
51028172 GAAGCTTA
1 GAAGCTTA
51028180 TCTGGGCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (24 bp):
GAAGCTTACAAAGAGCCATATCGG
Found at i:51028239 original size:25 final size:23
Alignment explanation
Indices: 51028190--51028240 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
51028180 TCTGGGCTAT
* *
51028190 ATAACGGGAAGCTCATAAGAGCC
1 ATAACGGGAAGCTCAAAAGAACC
*
51028213 ATAATCGGGAAGGTCACAAAGAACC
1 ATAA-CGGGAAGCTCA-AAAGAACC
51028238 ATA
1 ATA
51028241 TTGAGAAGCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 9 0.39
ACGTcount: A:0.43, C:0.20, G:0.24, T:0.14
Consensus pattern (23 bp):
ATAACGGGAAGCTCAAAAGAACC
Found at i:51040413 original size:38 final size:38
Alignment explanation
Indices: 51040370--51040442 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
51040360 TTCATCCCTT
51040370 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
51040408 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAG
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAG
51040443 TTCTTGCNNN
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:51041141 original size:40 final size:40
Alignment explanation
Indices: 51041047--51041191 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
51041037 TACTCGAATG
*
51041047 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
51041088 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
51041128 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
51041168 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
51041192 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:51049667 original size:39 final size:38
Alignment explanation
Indices: 51049572--51049751 Score: 125
Period size: 39 Copynumber: 4.6 Consensus size: 38
51049562 ACTAGCACCC
* * *
51049572 AATTACCAGCACA-AGCCTGCAGGAATTTAAACCCGG-TAT
1 AATT-CCAGCACATAGCCTGC-GG-ACTTAAGCCCGGACAT
* ** * *
51049611 AATACCAGCTTAAAGCCTGCAGGACTTTAGCCCGGACAT
1 AATTCCAGCACATAGCCTGC-GGACTTAAGCCCGGACAT
* * **
51049650 -ATTACCAGCACGTAGCCTGCGGACCTTAAGTCCGGTTAT
1 AATT-CCAGCACATAGCCTGCGGA-CTTAAGCCCGGACAT
* *
51049689 AATTCCAGCACATAGCCTGCGGACCTTAAGTCC-GATTAT
1 AATTCCAGCACATAGCCTGCGGA-CTTAAGCCCGGA-CAT
*
51049728 AATTCTAGCACATAGCCTGCGGAC
1 AATTCCAGCACATAGCCTGCGGAC
51049752 CCTAAGTCCG
Statistics
Matches: 116, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
38 22 0.19
39 91 0.78
40 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (38 bp):
AATTCCAGCACATAGCCTGCGGACTTAAGCCCGGACAT
Found at i:51049697 original size:78 final size:77
Alignment explanation
Indices: 51049572--51049767 Score: 175
Period size: 78 Copynumber: 2.5 Consensus size: 77
51049562 ACTAGCACCC
* ** ** **
51049572 AATTACCAGCACAAGCCTGCAGGAATTTAAACCCGGTATAATACCAGCTTAAAGCCTGCAGGA-C
1 AATTACCAGCACTAGCCTGC-GGACCTTAAGTCCGGTATAATACCAGCACAAAGCCTGC-GGACC
*
51049636 TTTAGCCCGGA-CAT
64 TTAAGCCC-GATCAT
* *
51049650 -ATTACCAGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACATAGCCTGCGGACC
1 AATTACCAGCAC-TAGCCTGCGGACCTTAAGTCCGG-TATAATACCAGCACAAAGCCTGCGGACC
* *
51049714 TTAAGTCCGATTAT
64 TTAAGCCCGATCAT
* *
51049728 AATT-CTAGCACATAGCCTGCGGACCCTAAGTCCGGATATA
1 AATTACCAGCAC-TAGCCTGCGGACCTTAAGTCCGG-TATA
51049768 CATCACTGAA
Statistics
Matches: 97, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
77 27 0.28
78 67 0.69
79 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (77 bp):
AATTACCAGCACTAGCCTGCGGACCTTAAGTCCGGTATAATACCAGCACAAAGCCTGCGGACCTT
AAGCCCGATCAT
Found at i:51049752 original size:39 final size:39
Alignment explanation
Indices: 51049654--51049761 Score: 180
Period size: 39 Copynumber: 2.8 Consensus size: 39
51049644 GGACATATTA
* *
51049654 CCAGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAATT
1 CCAGCACATAGCCTGCGGACCTTAAGTCCGATTATAATT
51049693 CCAGCACATAGCCTGCGGACCTTAAGTCCGATTATAATT
1 CCAGCACATAGCCTGCGGACCTTAAGTCCGATTATAATT
* *
51049732 CTAGCACATAGCCTGCGGACCCTAAGTCCG
1 CCAGCACATAGCCTGCGGACCTTAAGTCCG
51049762 GATATACATC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 65 1.00
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.23
Consensus pattern (39 bp):
CCAGCACATAGCCTGCGGACCTTAAGTCCGATTATAATT
Found at i:51050132 original size:32 final size:32
Alignment explanation
Indices: 51050091--51050154 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
51050081 AAAACTTACC
*
51050091 TCGGATATACTTGAACGGTTGCGGAAAGGCTA
1 TCGGATATACTTGAACGGTTGCGAAAAGGCTA
51050123 TCGGATATACTTGAACGGTTGCGAAAAGGCTA
1 TCGGATATACTTGAACGGTTGCGAAAAGGCTA
51050155 ATCAATTACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.25
Consensus pattern (32 bp):
TCGGATATACTTGAACGGTTGCGAAAAGGCTA
Found at i:51054828 original size:20 final size:20
Alignment explanation
Indices: 51054793--51054830 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
51054783 TCTGTAAAAT
* *
51054793 ATTTTAGATTTCATAAGTGA
1 ATTTTAGATATAATAAGTGA
51054813 ATTTTAGATATAATAAGT
1 ATTTTAGATATAATAAGT
51054831 ATTTTGTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
ATTTTAGATATAATAAGTGA
Found at i:51057250 original size:31 final size:31
Alignment explanation
Indices: 51057215--51057277 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
51057205 GGAAGAAAGC
51057215 AATTTAGAATATTTTAGAGATATTAATATGG
1 AATTTAGAATATTTTAGAGATATTAATATGG
51057246 AATTTAGAATATTTTAGAGATATTAATATGG
1 AATTTAGAATATTTTAGAGATATTAATATGG
51057277 A
1 A
51057278 TAATGTTATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.43, C:0.00, G:0.16, T:0.41
Consensus pattern (31 bp):
AATTTAGAATATTTTAGAGATATTAATATGG
Done.