Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 151 of 325
Found at i:48352198 original size:62 final size:62
Alignment explanation
Indices: 48352117--48352258 Score: 194
Period size: 62 Copynumber: 2.3 Consensus size: 62
48352107 GAATCAGAAT
* * * * * * *
48352117 CAGAATCAGACTCAGAATCAGAATTAGGTGATAGAATCAGAATTAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAAGTAATAGAATCAAAATCAGAATCAGTATCAGGTAA
* *
48352179 CCGAATCAAAATCAGAATCAGGATCAAGTAATAGAATCAAAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAAGTAATAGAATCAAAATCAGAATCAGTATCAGGTAA
*
48352241 CAGAATCAAAATTAGAAT
1 CAGAATCAAAATCAGAAT
48352259 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.21
Consensus pattern (62 bp):
CAGAATCAAAATCAGAATCAGAATCAAGTAATAGAATCAAAATCAGAATCAGTATCAGGTAA
Found at i:48352453 original size:26 final size:27
Alignment explanation
Indices: 48352390--48352463 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
48352380 GCTCAGTTAT
* *
48352390 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
48352417 CAGATGTTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
48352443 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
48352464 TTAACAGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
26 19 0.46
27 22 0.54
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:48352650 original size:22 final size:22
Alignment explanation
Indices: 48352622--48352686 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
48352612 GCAAATACAT
*
48352622 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
48352644 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
**
48352666 TTAACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
48352687 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:48353170 original size:27 final size:27
Alignment explanation
Indices: 48353131--48353361 Score: 345
Period size: 27 Copynumber: 8.6 Consensus size: 27
48353121 TACCCCATAA
*
48353131 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
**
48353158 GGTATTTTAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
48353185 GGTATTTCGGTAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * * *
48353212 GGTATTGCGATAATTCTACCTTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
48353239 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
48353266 GGTATTCCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* * *
48353293 GGTGTTCCGGTACTTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
48353320 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
48353347 GGAATTTCGGTAATT
1 GGTATTTCGGTAATT
48353362 TTTTAAATCG
Statistics
Matches: 182, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 182 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Found at i:48353385 original size:81 final size:81
Alignment explanation
Indices: 48353138--48353391 Score: 255
Period size: 81 Copynumber: 3.1 Consensus size: 81
48353128 TAAGGTATCT
** *
48353138 CGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATT-TT
*** * *
48353203 CCCTATAG-GGGTATTG
65 CTAAATCGAGGGTATTA
* * * *
48353219 CGATAATTCTACCTTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAA--TTC
1 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTC
** * *
48353282 TACCCTAC-AGGGGTGTTC
66 TA-AAT-CGA-GGGTATTA
* * *
48353300 CGGTACTTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGAATTTCGGTAATTTTT
1 CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTC
**
48353365 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTATTA
48353381 CGGTAATTCTA
1 CGGTAATTCTA
48353392 TAAATTAGGG
Statistics
Matches: 138, Mismatches: 28, Indels: 14
0.77 0.16 0.08
Matches are distributed among these distances:
78 2 0.01
79 1 0.01
81 129 0.93
82 2 0.01
83 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (81 bp):
CGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTTTC
TAAATCGAGGGTATTA
Found at i:48353530 original size:27 final size:27
Alignment explanation
Indices: 48353397--48353625 Score: 178
Period size: 27 Copynumber: 8.5 Consensus size: 27
48353387 TTCTATAAAT
* * *
48353397 TAGGGGTACTTTGGTAATTTTAC-AAG
1 TAGGGGTATTTTGATAATTTTACAAAC
* ** **
48353423 TCGAGGGTATTTCAATAATTTTAC-AGG
1 TAG-GGGTATTTTGATAATTTTACAAAC
* ** *
48353450 TCGAGGGTATTTCAATAATTTCACAAA-
1 TAG-GGGTATTTTGATAATTTTACAAAC
* *
48353477 TCAGGGATATTTTGGTAATTTTACAAAC
1 T-AGGGGTATTTTGATAATTTTACAAAC
48353505 TAGGGGTATTTTGATAATTTTACAAAC
1 TAGGGGTATTTTGATAATTTTACAAAC
* *
48353532 CAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGATAATTTTACAAAC
* * *
48353559 CAGGGGTATTTTGGTAATTTTATAAAC
1 TAGGGGTATTTTGATAATTTTACAAAC
* * * *
48353586 CAAGGGTATTCT-AGTAATTTTAAAAAC
1 TAGGGGTATTTTGA-TAATTTTACAAAC
*
48353613 CAGGGGTATTTTG
1 TAGGGGTATTTTG
48353626 GTAAACTAAA
Statistics
Matches: 172, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 167 0.97
28 3 0.02
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (27 bp):
TAGGGGTATTTTGATAATTTTACAAAC
Found at i:48353539 original size:81 final size:80
Alignment explanation
Indices: 48353406--48353623 Score: 224
Period size: 81 Copynumber: 2.7 Consensus size: 80
48353396 TTAGGGGTAC
* * * ***
48353406 TTTGGTAATTTTAC-AAGTCGAGGGTATTTCAATAATTTTACAGGTC-GAGGGTATTTCAATAAT
1 TTTGGTAATTTTACAAACTAG-GGGTATTT-TATAATTTTACAAACCAG-GGGTATTTCAATAAT
*
48353469 TTCACAAATCAGGGATAT
63 TTCACAAACCAGGGATAT
***
48353487 TTTGGTAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAACTAGGGGTATTTT-ATAATTTTACAAACCAGGGGTATTTCAATAATTT
* *
48353552 TACAAACCAGGGGTAT
65 CACAAACCAGGGATAT
* * * * *
48353568 TTTGGTAATTTTATAAACCAAGGGTATTCTAGTAATTTTAAAAACCAGGGGTATTT
1 TTTGGTAATTTTACAAACTAGGGGTATTTTA-TAATTTTACAAACCAGGGGTATTT
48353624 TGGTAAACTA
Statistics
Matches: 116, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
80 1 0.01
81 110 0.95
82 5 0.04
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (80 bp):
TTTGGTAATTTTACAAACTAGGGGTATTTTATAATTTTACAAACCAGGGGTATTTCAATAATTTC
ACAAACCAGGGATAT
Found at i:48353624 original size:54 final size:54
Alignment explanation
Indices: 48353398--48353629 Score: 218
Period size: 54 Copynumber: 4.3 Consensus size: 54
48353388 TCTATAAATT
* ** * * ***
48353398 AGGGGTACTTTGGTAATTTTACAAGTCGAGGGTATT-TCAATAATTTTACAGGTC
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTCT-AGTAATTTTACAAACC
*** * * * * *
48353452 -GAGGGTATTTCAATAATTTCACAAATC-AGGGATATTTTGGTAATTTTACAAACT
1 AG-GGGTATTTTGGTAATTTTACAAACCAAGGG-TATTCTAGTAATTTTACAAACC
* * * *
48353506 AGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTCTAGTAATTTTACAAACC
* *
48353560 AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTCTAGTAATTTTAAAAACC
1 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTCTAGTAATTTTACAAACC
48353614 AGGGGTATTTTGGTAA
1 AGGGGTATTTTGGTAA
48353630 ACTAAAGTAT
Statistics
Matches: 149, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
53 5 0.03
54 139 0.93
55 5 0.03
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (54 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTCTAGTAATTTTACAAACC
Found at i:48353629 original size:27 final size:27
Alignment explanation
Indices: 48353465--48353629 Score: 240
Period size: 27 Copynumber: 6.1 Consensus size: 27
48353455 GGTATTTCAA
* * *
48353465 TAATTTCACAAATCAGGGATATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
48353492 TAATTTTACAAACTAGGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
48353519 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
48353546 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
48353573 TAATTTTATAAACCAAGGGTATTCTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
48353600 TAATTTTAAAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
48353627 TAA
1 TAA
48353630 ACTAAAGTAT
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:48357099 original size:38 final size:38
Alignment explanation
Indices: 48357014--48357212 Score: 220
Period size: 38 Copynumber: 5.2 Consensus size: 38
48357004 GAATCCAGTC
* * * * *
48357014 ACCAGCACAAAACTTGCGGGACTTTAAGCTTGAATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTTAA-CTCGGATATAAT
* * *
48357054 ACTAGCACTAAGCCTGCGGGATTTAACTCGGATATAGT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
* * *
48357092 TCCAGCACGAAGCCTACAGGATTTAACTCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
* *
48357130 ACCAACACGAAGCCTGCGGGATTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
* *
48357168 ACCAACACAAAGCCTGCGGGATTTAAC-CTGGATATAAT
1 ACCAGCACGAAGCCTGCGGGATTTAACTC-GGATATAAT
*
48357206 TCCAGCA
1 ACCAGCA
48357213 TATAGCCTAC
Statistics
Matches: 137, Mismatches: 21, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
37 1 0.01
38 114 0.83
39 5 0.04
40 17 0.12
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACTCGGATATAAT
Found at i:48363174 original size:45 final size:45
Alignment explanation
Indices: 48363110--48363328 Score: 286
Period size: 45 Copynumber: 4.9 Consensus size: 45
48363100 TATTGTACGG
*
48363110 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* **
48363155 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGTTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
48363200 TACTATTTGGGCCTTTGAGCCTAACAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
48363245 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
** *
48363289 -A-TGATGTCGGG-CTTCAAGCCTAGCAGGCGA-AATGCCGGTG
1 TACT-AT-TCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTG
48363329 GATGAATTCG
Statistics
Matches: 158, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
42 11 0.07
43 20 0.13
44 6 0.04
45 121 0.77
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:48363352 original size:41 final size:42
Alignment explanation
Indices: 48363264--48363362 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 42
48363254 GGCCTTCGAG
* *
48363264 CCTAGCAGGCTATAATGCCGGTGAAATGATGTCGGGCTTCAAG
1 CCTAGCAGGCTA-AATGCCGGTGAAATGATGTCGGGCTTAAAA
* * *
48363307 CCTAGCAGGCGAAATGCCGGTG-GATGAAT-TCGGGTTTAAAA
1 CCTAGCAGGCTAAATGCCGGTGAAATG-ATGTCGGGCTTAAAA
48363348 CCTAGCAGGCTAAAT
1 CCTAGCAGGCTAAAT
48363363 ACTGGTGATT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
41 26 0.53
42 12 0.24
43 11 0.22
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (42 bp):
CCTAGCAGGCTAAATGCCGGTGAAATGATGTCGGGCTTAAAA
Found at i:48369532 original size:49 final size:49
Alignment explanation
Indices: 48369476--48369603 Score: 159
Period size: 49 Copynumber: 2.6 Consensus size: 49
48369466 TGTGTGTCAG
*
48369476 TGTAAGACCTGTCTAGGACATGGCATCGACAC-CGATAGATGAGAGCCAC
1 TGTAAGACCTGTCTAGGACATGGCATCGAC-CTCGATAGATGAAAGCCAC
* * * * *
48369525 TGTAAGACCTGTCTAGGACATGGTATCGGCCTCGATATATGAAAGTCAG
1 TGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGCCAC
* * *
48369574 TGTAAGACCTATCTAGAACACGGCATCGAC
1 TGTAAGACCTGTCTAGGACATGGCATCGAC
48369604 TTTAATGTGC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 66 0.99
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (49 bp):
TGTAAGACCTGTCTAGGACATGGCATCGACCTCGATAGATGAAAGCCAC
Found at i:48373481 original size:47 final size:47
Alignment explanation
Indices: 48373415--48373945 Score: 810
Period size: 47 Copynumber: 11.1 Consensus size: 47
48373405 GAAATGATAG
48373415 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
48373462 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
48373511 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
48373558 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
48373607 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
48373654 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* *
48373703 TAGGGCCTCATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
48373750 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * *
48373799 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
48373846 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
48373895 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
48373942 TAAG
1 TAAG
48373946 TCCCGAAGGG
Statistics
Matches: 444, Mismatches: 30, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
47 226 0.51
49 218 0.49
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:48373579 original size:96 final size:96
Alignment explanation
Indices: 48373415--48373945 Score: 900
Period size: 96 Copynumber: 5.5 Consensus size: 96
48373405 GAAATGATAG
48373415 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
48373480 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
48373511 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
48373576 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
48373607 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
48373672 GTGATGAATGTGAAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* *
48373703 TAGGGCCTCATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
48373768 GTGATGAATGTGGAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
48373799 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
*
48373864 GTGATGAATGTGGAAGTGTATATATATGTGA
66 GTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * * *
48373895 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
48373946 TCCCGAAGGG
Statistics
Matches: 424, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 424 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:48377681 original size:32 final size:33
Alignment explanation
Indices: 48377644--48377713 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 33
48377634 ATTGTAGGGA
*
48377644 TATTTTAGTATAATTAGAGCTCTAATCTAAGCC
1 TATTTTAGTATAATTAGAACTCTAATCTAAGCC
48377677 -ATTTTAGTATAATTAGAACTCTAATCTAAGCC
1 TATTTTAGTATAATTAGAACTCTAATCTAAGCC
48377709 TATTT
1 TATTT
48377714 AAAAGGGTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
32 31 0.89
33 4 0.11
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.41
Consensus pattern (33 bp):
TATTTTAGTATAATTAGAACTCTAATCTAAGCC
Found at i:48383889 original size:29 final size:30
Alignment explanation
Indices: 48383856--48383913 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
48383846 CGAATTTCTC
48383856 TTATTAC-CATAGTAGCC-CAAAATTTTCAT
1 TTATTACACAT-GTAGCCACAAAATTTTCAT
* *
48383885 TTATTTCACATTTAGCCACAAAATTTTCA
1 TTATTACACATGTAGCCACAAAATTTTCA
48383914 CATTTCACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (30 bp):
TTATTACACATGTAGCCACAAAATTTTCAT
Found at i:48386086 original size:126 final size:124
Alignment explanation
Indices: 48385703--48386086 Score: 436
Period size: 126 Copynumber: 3.0 Consensus size: 124
48385693 ACTACTATAA
* * *
48385703 AAAAAGAGCGTCCACGT-GAGAGCTTTTTTCAGTACTTTTACTGATAGTGCATCCTACTTCAAGC
1 AAAAA-AGCGTCCACGTGGA-AGCTTTTTTCAGTACTTTTGCTGATAGTGCATCCTGCTTGAAGC
* * *
48385767 ATTCTTTTACACTATTTTTTTATAAC-ATTCTTCTTAAAATTATTTTTTCAGAAACTACCGTAG
64 ATT-TTTTACACTATTTTTTTAAAACTA-TCTTCTCAAAATTATTTTTCCAGAAACTA-CGTAG
* * * * *
48385830 AAAAAAAG-GTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTAATAATGCATCCTGCTTGAAACA
1 -AAAAAAGCGTCCACGTGGAAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCCTGCTTGAAGCA
* * * * *
48385894 TTTTTTACACTATTTTTATAATATTGTCTTCTCAAAATTA-TTTTCTCAAAAACTACTGTAG
65 TTTTTTACACTATTTTTTTAAAACTATCTTCTCAAAATTATTTTTC-CAGAAACTAC-GTAG
* * * *
48385955 AAAAAAGCGTCCACGTGGAAGCTTTTTTTCGGTACTTTTGCTGACAGTGCATCCTGGTTGACGCA
1 AAAAAAGCGTCCACGTGGAAGC-TTTTTTCAGTACTTTTGCTGATAGTGCATCCTGCTTGAAGCA
* *
48386020 TTTTTGACACTATTTTTTTCAAAACTATCTTCTCAAAATTATTTTTCCAGAAATTAC-TAG
65 TTTTTTACACTATTTTTTT-AAAACTATCTTCTCAAAATTATTTTTCCAGAAACTACGTAG
48386080 ACAAAAA
1 A-AAAAA
48386087 AAATCCATCT
Statistics
Matches: 215, Mismatches: 32, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
124 12 0.06
125 60 0.28
126 104 0.48
127 29 0.13
128 10 0.05
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (124 bp):
AAAAAAGCGTCCACGTGGAAGCTTTTTTCAGTACTTTTGCTGATAGTGCATCCTGCTTGAAGCAT
TTTTTACACTATTTTTTTAAAACTATCTTCTCAAAATTATTTTTCCAGAAACTACGTAG
Found at i:48386219 original size:34 final size:32
Alignment explanation
Indices: 48386169--48386273 Score: 126
Period size: 31 Copynumber: 3.3 Consensus size: 32
48386159 CACAAAATTA
*
48386169 TTTTT-AAAAACTCTAAACCATAATTTAATTTAT
1 TTTTTAAAAAACCCTAAACCATAATTT-ATTT-T
48386202 TTTTTAAAAAACCCTAAA-CATTAATTTA-TTT
1 TTTTTAAAAAACCCTAAACCA-TAATTTATTTT
* * *
48386233 TATTTAAAAAACCCTAAACCTTGATTTATTTT
1 TTTTTAAAAAACCCTAAACCATAATTTATTTT
48386265 TTTTTAAAA
1 TTTTTAAAA
48386274 TCCCAAACCC
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
31 24 0.38
32 14 0.22
33 8 0.13
34 17 0.27
ACGTcount: A:0.41, C:0.12, G:0.01, T:0.46
Consensus pattern (32 bp):
TTTTTAAAAAACCCTAAACCATAATTTATTTT
Found at i:48399923 original size:12 final size:12
Alignment explanation
Indices: 48399906--48399932 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
48399896 ATTCCGAAGT
48399906 ATATATATATAC
1 ATATATATATAC
48399918 ATATATATATAC
1 ATATATATATAC
48399930 ATA
1 ATA
48399933 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:48400463 original size:27 final size:28
Alignment explanation
Indices: 48400379--48400476 Score: 144
Period size: 27 Copynumber: 3.5 Consensus size: 28
48400369 CATGAGATTG
* * *
48400379 GCACTAAGTGTGCGAGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
48400408 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
48400436 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
48400463 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
48400477 GACTTAATAT
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
27 24 0.37
28 22 0.34
29 19 0.29
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:48400487 original size:27 final size:27
Alignment explanation
Indices: 48400379--48400489 Score: 98
Period size: 27 Copynumber: 4.0 Consensus size: 27
48400369 CATGAGATTG
* * * *
48400379 GCACTAAGTGTGCGAGTTTAAATTGTACA
1 GCACTAAGTGTGCGA-CTTGAA-TATATA
* *
48400408 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTGAATATATA
* *
48400436 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTGAATATATA
*
48400463 GCACTGAGTGTGCGGACTT-AATATATA
1 GCACTAAGTGTGC-GACTTGAATATATA
48400490 CTTTTGAATC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.41
28 23 0.32
29 20 0.27
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTGAATATATA
Found at i:48413649 original size:50 final size:50
Alignment explanation
Indices: 48413585--48413755 Score: 245
Period size: 50 Copynumber: 3.4 Consensus size: 50
48413575 GCCACGTGTA
* *
48413585 TAGTACTAAATGCAGGCTACTACATCTACCAGATAGTTAGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTG
* * * * *
48413635 TAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTG
* * *
48413685 TAGTACTAAGTGTAGGCTACTACATGTACCAGATTGTT-GGTTGCATGTG
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTG
48413734 TAGTACTAAGTGCAGGCTACTA
1 TAGTACTAAGTGCAGGCTACTA
48413756 TGCATACCAG
Statistics
Matches: 106, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 29 0.27
50 77 0.73
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTACATGTACCAGATAGTTAGGTCGCATGTG
Found at i:48413717 original size:100 final size:100
Alignment explanation
Indices: 48413527--48413755 Score: 334
Period size: 100 Copynumber: 2.3 Consensus size: 100
48413517 TGTGAGAACA
* * *
48413527 CATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGCCACGTGTATAGTACT
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGG-TTTAGGCCACGTGTATAGTACT
48413592 AAATGCAGGCTACTACATCTACCAGATAGTTAGGTCG
65 AAATGCAGGCTACTACATCTACCAGATAGTT-GGTCG
* * *
48413629 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTTAGGCCACGTGTATAGTACTA
* * * * *
48413693 AGTGTAGGCTACTACATGTACCAGATTGTTGGTTG
66 AATGCAGGCTACTACATCTACCAGATAGTTGGTCG
48413728 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
48413756 TGCATACCAG
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
99 32 0.28
100 46 0.40
102 38 0.33
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (100 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATAAGATGGTTTAGGCCACGTGTATAGTACTA
AATGCAGGCTACTACATCTACCAGATAGTTGGTCG
Found at i:48420412 original size:50 final size:50
Alignment explanation
Indices: 48420325--48420568 Score: 217
Period size: 50 Copynumber: 4.9 Consensus size: 50
48420315 ATTGTGAGAA
48420325 CACATGTGTAGTACTATA-TGCAGGCTACTACT-TGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTA-AGTGCAGGCTACTA-TGTGTACCAGATAGTTAGGT
** * * * * * *
48420375 TTCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * * * * * *
48420426 CACGTGTATAGTATTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGCT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * ** *
48420476 CACGTGTATAGTACTAAGTGTAGGCTACTACATGTACCAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* *
48420525 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
48420569 CTTCGATTAC
Statistics
Matches: 153, Mismatches: 36, Indels: 11
0.76 0.18 0.05
Matches are distributed among these distances:
49 41 0.27
50 76 0.50
51 35 0.23
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:48424515 original size:26 final size:26
Alignment explanation
Indices: 48424479--48424530 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
48424469 AAATCAAATA
48424479 TAGAACTACTAGAAACAGGAGACTCC
1 TAGAACTACTAGAAACAGGAGACTCC
48424505 TAGAACTACTAGAAACAGGAGACTCC
1 TAGAACTACTAGAAACAGGAGACTCC
48424531 AGATGAGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.15
Consensus pattern (26 bp):
TAGAACTACTAGAAACAGGAGACTCC
Found at i:48426940 original size:21 final size:23
Alignment explanation
Indices: 48426912--48426968 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
48426902 TATATATAAT
48426912 ATTATATATTTAAATTTTTATTG
1 ATTATATATTTAAATTTTTATTG
48426935 ATTATATATTTAAATTTTTATTG
1 ATTATATATTTAAATTTTTATTG
*
48426958 ATCATAT-TTTA
1 ATTATATATTTA
48426969 TTGTTTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 4 0.12
23 29 0.88
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (23 bp):
ATTATATATTTAAATTTTTATTG
Found at i:48427270 original size:13 final size:13
Alignment explanation
Indices: 48427252--48427312 Score: 52
Period size: 13 Copynumber: 4.7 Consensus size: 13
48427242 ACCAAACTTT
48427252 TCAAAAGCATTTC
1 TCAAAAGCATTTC
*
48427265 TCAAAATCACTTT-
1 TCAAAAGCA-TTTC
* * *
48427278 TCCACAGCATTTT
1 TCAAAAGCATTTC
* *
48427291 TTAAAAGCACTTC
1 TCAAAAGCATTTC
48427304 TCAAAAGCA
1 TCAAAAGCA
48427313 ATGCTAAACT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
12 3 0.08
13 30 0.83
14 3 0.08
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.31
Consensus pattern (13 bp):
TCAAAAGCATTTC
Found at i:48427296 original size:26 final size:26
Alignment explanation
Indices: 48427247--48427312 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
48427237 CTTAAACCAA
*
48427247 ACTTTTCAAAAGCATTTCTCAAAATC
1 ACTTTTCAAAAGCATTTCTCAAAAGC
* * * *
48427273 ACTTTTCCACAGCATTTTTTAAAAGC
1 ACTTTTCAAAAGCATTTCTCAAAAGC
*
48427299 ACTTCTCAAAAGCA
1 ACTTTTCAAAAGCA
48427313 ATGCTAAACT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ACTTTTCAAAAGCATTTCTCAAAAGC
Found at i:48431273 original size:20 final size:20
Alignment explanation
Indices: 48431244--48431281 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48431234 AATGTTAGAA
*
48431244 ATGGAAAAATGGAGAAATAT
1 ATGGAAAAATAGAGAAATAT
*
48431264 ATGGATAAATAGAGAAAT
1 ATGGAAAAATAGAGAAAT
48431282 GGAATTCCGT
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:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (20 bp):
ATGGAAAAATAGAGAAATAT
Found at i:48442330 original size:19 final size:19
Alignment explanation
Indices: 48442278--48442323 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
48442268 TAGCCATCGA
*
48442278 ATGTTGGCCTATAATGGTT
1 ATGTTGGCCTATGATGGTT
*
48442297 ATGATGGCCTATGATGGTT
1 ATGTTGGCCTATGATGGTT
48442316 ATGTTGGC
1 ATGTTGGC
48442324 TATTGATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.11, G:0.30, T:0.39
Consensus pattern (19 bp):
ATGTTGGCCTATGATGGTT
Found at i:48446236 original size:27 final size:27
Alignment explanation
Indices: 48446206--48446407 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
48446196 ATATTGAGTC
* * * *
48446206 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48446233 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48446260 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48446288 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
48446315 CGCACACTTAGTGC-ATCATATTC--AT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
48446340 CGCACACTTAGTGC-ACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48446366 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48446393 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48446408 GTACAATTTA
Statistics
Matches: 155, Mismatches: 15, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
24 6 0.04
25 16 0.10
26 16 0.10
27 94 0.61
28 23 0.15
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48446298 original size:55 final size:53
Alignment explanation
Indices: 48446206--48446407 Score: 248
Period size: 55 Copynumber: 3.8 Consensus size: 53
48446196 ATATTGAGTC
* * * * *
48446206 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAA-TCGCACACTTAGTGCTACATAGTCAAAT
** * *
48446260 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTC-AA-TCGCACACTTAGTGCTACATAGTCAAAT
*
48446315 CGCACACTTAGTGC-ATCATATTC-ATCGCACACTTAGTGC-ACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAATCGCACACTTAGTGCTACATAGTCAAAT
48446366 CGCACACTTAGTGCTACATAGTCAAATCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTC-AATCGCACACTTAGTGCT
48446408 GTACAATTTA
Statistics
Matches: 128, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
51 29 0.23
52 16 0.12
53 17 0.13
54 21 0.16
55 45 0.35
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCTACATAGTCAATCGCACACTTAGTGCTACATAGTCAAAT
Found at i:48453911 original size:27 final size:27
Alignment explanation
Indices: 48453881--48454083 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
48453871 ATATTGAGTC
* * * *
48453881 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48453908 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48453935 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48453963 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
48453990 CGCACACTTAGTGC-ATCATATTC--AT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48454015 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48454042 CGCACACTTAGTGCTACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48454069 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48454084 GTACAATTTA
Statistics
Matches: 155, Mismatches: 16, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
25 21 0.14
26 1 0.01
27 110 0.71
28 23 0.15
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48454040 original size:107 final size:108
Alignment explanation
Indices: 48453881--48454082 Score: 320
Period size: 107 Copynumber: 1.9 Consensus size: 108
48453871 ATATTGAGTC
* *
48453881 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAG
1 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
48453946 TGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
66 TGCTACATAGTCAAA-TCGCACACTTAGTGCCGCATGGTCAATT
* * *
48453990 CGCACACTTAGTGC-ATCATATTC-A-TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTA
48454052 GTGCTACATAGTCAAATCGCACACTTAGTGC
65 GTGCTACATAGTCAAATCGCACACTTAGTGC
48454083 TGTACAATTT
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
106 15 0.17
107 51 0.59
108 3 0.03
109 18 0.21
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (108 bp):
CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCAACATAATCAAATCGCACACTTAG
TGCTACATAGTCAAATCGCACACTTAGTGCCGCATGGTCAATT
Found at i:48457641 original size:12 final size:12
Alignment explanation
Indices: 48457624--48457661 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
48457614 CACAGCGGCT
*
48457624 TCAACTTCACCC
1 TCAACTTCATCC
48457636 TCAACTTCATCC
1 TCAACTTCATCC
*
48457648 TCATCTTCATCC
1 TCAACTTCATCC
48457660 TC
1 TC
48457662 TAGGTCTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (12 bp):
TCAACTTCATCC
Found at i:48470322 original size:40 final size:40
Alignment explanation
Indices: 48470265--48470449 Score: 302
Period size: 40 Copynumber: 4.6 Consensus size: 40
48470255 CGGATGATAA
* *
48470265 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
48470305 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
48470345 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48470385 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48470425 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48470450 AGCAAGTAGT
Statistics
Matches: 139, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
40 138 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48470464 original size:80 final size:79
Alignment explanation
Indices: 48470261--48470481 Score: 295
Period size: 80 Copynumber: 2.8 Consensus size: 79
48470251 TATTCGGATG
* * *
48470261 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCTCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTATA-TCCGGGCTAAGTCCCGAAGGC
48470325 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * *
48470341 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGC
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATTATATCCGGGCTAAGTCCCGAAGGC
48470405 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* * *
48470421 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATTC-GGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTA-TTATATCCGGGCTAAGTCCCGAAG
48470482 ATGCTTGGGT
Statistics
Matches: 127, Mismatches: 9, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
79 17 0.13
80 107 0.84
81 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:48470749 original size:22 final size:21
Alignment explanation
Indices: 48470708--48470751 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
48470698 GAATGTGCAT
48470708 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
48470730 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
48470752 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:48476954 original size:40 final size:40
Alignment explanation
Indices: 48476909--48477060 Score: 198
Period size: 40 Copynumber: 3.8 Consensus size: 40
48476899 ATAACCACAA
* * *
48476909 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* *
48476949 GCACAAATGCCTTCGGGTCTTAGCCTGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
48476989 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
48477029 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
48477061 CGTTCAAATG
Statistics
Matches: 100, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 95 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:48484622 original size:40 final size:39
Alignment explanation
Indices: 48484577--48484728 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 39
48484567 ATAACCACAA
* *
48484577 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
48484617 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * * *
48484657 GCACGAATGCCTTCAGGTCTTAGCCCGGATAAAATC-ACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
48484697 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCA-CAATGCCTTCGGGTCTTAGCCCGGATAT
48484729 CATTCAAATG
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 91 0.93
41 6 0.06
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:48488047 original size:11 final size:11
Alignment explanation
Indices: 48488031--48488055 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
48488021 CCGTACCTAG
48488031 AAGAAAAAAAA
1 AAGAAAAAAAA
48488042 AAGAAAAAAAA
1 AAGAAAAAAAA
48488053 AAG
1 AAG
48488056 CTTCATCCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAAA
Found at i:48489475 original size:40 final size:40
Alignment explanation
Indices: 48489244--48489468 Score: 355
Period size: 40 Copynumber: 5.6 Consensus size: 40
48489234 CAGATGATAA
* *
48489244 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
48489284 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
48489324 TCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48489364 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48489404 CCGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48489444 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48489469 AGCAAGTAGT
Statistics
Matches: 174, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 173 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48489483 original size:80 final size:80
Alignment explanation
Indices: 48489244--48489500 Score: 342
Period size: 80 Copynumber: 3.2 Consensus size: 80
48489234 CAGATGATAA
* *
48489244 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-TCCGGGCTAAGTCCCGAAGGCATTT
*
48489308 GTGCGAGTTACTA-ATT
65 GTGCGAGTTATTATA-T
* * *
48489324 TCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
48489389 TGCGAGTTACTATAT
66 TGCGAGTTATTATAT
* *
48489404 CCGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
48489469 AGCAAG-TAGTTATAT
66 TGCGAGTTA-TTATAT
* *
48489484 TC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
48489501 ATGCTTGGGT
Statistics
Matches: 160, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
79 16 0.10
80 142 0.89
81 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTATTATAT
Found at i:48489483 original size:120 final size:120
Alignment explanation
Indices: 48489244--48489500 Score: 351
Period size: 120 Copynumber: 2.1 Consensus size: 120
48489234 CAGATGATAA
* *
48489244 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGAATTTG
* ** * *
48489309 TGCGAGTTACTAATTTCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
66 TGCAAGTTACTAATACCGGGCTAAGCCCCGAAGGCATTTGAGCAAGTTACTATAT
*
48489364 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGAATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGAATTT
* *
48489428 GTGCAAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGTTATAT
65 GTGCAAGTTACTAAT-ACCGGGCTAAGCCCCGAAGGCATTTGAGCAAGTTA-CTATAT
* *
48489484 TC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
48489501 ATGCTTGGGT
Statistics
Matches: 122, Mismatches: 12, Indels: 7
0.87 0.09 0.05
Matches are distributed among these distances:
119 20 0.16
120 102 0.84
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGAATTTG
TGCAAGTTACTAATACCGGGCTAAGCCCCGAAGGCATTTGAGCAAGTTACTATAT
Found at i:48503752 original size:30 final size:30
Alignment explanation
Indices: 48503713--48503777 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
48503703 GTCTCAGCTG
* *
48503713 TGTGCGACACACGGTCACGTTACACAGCCC
1 TGTGTGACACACGGTCACATTACACAGCCC
* *
48503743 TGTGTGACACACGGTCACATTACACGGCCG
1 TGTGTGACACACGGTCACATTACACAGCCC
48503773 TGTGT
1 TGTGT
48503778 CCCTTGGGTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.31, G:0.26, T:0.22
Consensus pattern (30 bp):
TGTGTGACACACGGTCACATTACACAGCCC
Found at i:48513541 original size:6 final size:6
Alignment explanation
Indices: 48513530--48513606 Score: 52
Period size: 6 Copynumber: 12.7 Consensus size: 6
48513520 AATCCTCCTA
* * *
48513530 TTTTAT TTTTA- -TTTAT TCTTAT TTTTAT TCTTAT TTTATTT ATTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT -TTTTAT
* *
48513578 TCTTA- TTTTACT TTTGAT TTTTGAT TTTT
1 TTTTAT TTTTA-T TTTTAT TTTT-AT TTTT
48513607 CAATTTTCTT
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
4 4 0.07
5 4 0.07
6 29 0.54
7 14 0.26
8 3 0.06
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (6 bp):
TTTTAT
Found at i:48513558 original size:12 final size:11
Alignment explanation
Indices: 48513528--48513587 Score: 81
Period size: 11 Copynumber: 5.6 Consensus size: 11
48513518 TGAATCCTCC
*
48513528 TATTTTATTTT
1 TATTTTATTCT
48513539 TA-TTTATTCT
1 TATTTTATTCT
48513549 TATTTTTATTCT
1 TA-TTTTATTCT
48513561 TATTTTA-T-T
1 TATTTTATTCT
48513570 TATTTTATTCT
1 TATTTTATTCT
48513581 TATTTTA
1 TATTTTA
48513588 CTTTTGATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
9 8 0.18
10 11 0.25
11 15 0.34
12 10 0.23
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (11 bp):
TATTTTATTCT
Found at i:48513577 original size:20 final size:22
Alignment explanation
Indices: 48513528--48513587 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 22
48513518 TGAATCCTCC
*
48513528 TATTTTATTTTTA-TTTATTCT
1 TATTTTATTCTTATTTTATTCT
48513549 TATTTTTATTCTTATTTTA-T-T
1 TA-TTTTATTCTTATTTTATTCT
48513570 TATTTTATTCTTATTTTA
1 TATTTTATTCTTATTTTA
48513588 CTTTTGATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
20 16 0.44
21 5 0.14
22 11 0.31
23 4 0.11
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (22 bp):
TATTTTATTCTTATTTTATTCT
Found at i:48521994 original size:21 final size:21
Alignment explanation
Indices: 48521968--48522008 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
48521958 CTTGTATGGA
48521968 CCTATGAGGTCCAAAACATAG
1 CCTATGAGGTCCAAAACATAG
*
48521989 CCTATGAGGTCTAAAACATA
1 CCTATGAGGTCCAAAACATA
48522009 CATCGGAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (21 bp):
CCTATGAGGTCCAAAACATAG
Found at i:48522105 original size:21 final size:21
Alignment explanation
Indices: 48522079--48522133 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
48522069 ATACAGAGTC
*
48522079 ACACGCCCGTGTGAAATAG-GG
1 ACACGCTCGTGTGAAAT-GTGG
48522100 ACACGCTCGTGTGAAATGTGG
1 ACACGCTCGTGTGAAATGTGG
48522121 ACACGCTCGTGTG
1 ACACGCTCGTGTG
48522134 CTCTTGACAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 1 0.03
21 31 0.97
ACGTcount: A:0.24, C:0.24, G:0.33, T:0.20
Consensus pattern (21 bp):
ACACGCTCGTGTGAAATGTGG
Found at i:48532179 original size:35 final size:35
Alignment explanation
Indices: 48532133--48532200 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
48532123 ATACACTCTA
* *
48532133 TTTGGTGTGTTTC-GATTGGACTAGCTCTTATGAGC
1 TTTGGTATGTTTCAG-TTGGACTAACTCTTATGAGC
48532168 TTTGGTATGTTTCAGTTGGACTAACTCTTATGA
1 TTTGGTATGTTTCAGTTGGACTAACTCTTATGA
48532201 CCATTGTAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 29 0.97
36 1 0.03
ACGTcount: A:0.18, C:0.13, G:0.25, T:0.44
Consensus pattern (35 bp):
TTTGGTATGTTTCAGTTGGACTAACTCTTATGAGC
Found at i:48532214 original size:35 final size:36
Alignment explanation
Indices: 48532134--48532214 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 36
48532124 TACACTCTAT
* * *
48532134 TTGGT-GTGTTTCGATTGGACTAGCTCTTATGAGCT
1 TTGGTAGTGTTTCGATTGGACTAACTCTTATGACCA
48532169 TTGGTA-TGTTTC-AGTTGGACTAACTCTTATGACCA
1 TTGGTAGTGTTTCGA-TTGGACTAACTCTTATGACCA
48532204 TT-GTAGTGTTT
1 TTGGTAGTGTTT
48532215 TGGAGGGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
34 4 0.10
35 36 0.90
ACGTcount: A:0.17, C:0.14, G:0.25, T:0.44
Consensus pattern (36 bp):
TTGGTAGTGTTTCGATTGGACTAACTCTTATGACCA
Found at i:48534983 original size:27 final size:27
Alignment explanation
Indices: 48534780--48535001 Score: 182
Period size: 27 Copynumber: 8.3 Consensus size: 27
48534770 TTAGTTTACC
* *
48534780 AAATTACCAAAATACCC-CTAGTTTTTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * *
48534807 AAATTACTAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
48534834 AAATTACCAAAATACCATTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
48534861 AAATTACCAAAATACCC-CTAGTTTGTG
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
48534888 AAATTACCAAAATACCCT-GATTTGTG
1 AAATTACCAAAATACCCTCGATTTGTA
** * **
48534914 AAATTACTGAAATACCCTCAACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
48534941 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
48534968 AAATTACCAAAGTACCC-CTGATTTATA
1 AAATTACCAAAATACCCTC-GATTTGTA
*
48534995 GAATTAC
1 AAATTAC
48535002 TGTTTTACCC
Statistics
Matches: 161, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
26 23 0.14
27 138 0.86
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:48535037 original size:27 final size:27
Alignment explanation
Indices: 48534805--48535037 Score: 159
Period size: 27 Copynumber: 8.7 Consensus size: 27
48534795 CCCTAGTTTT
* * *
48534805 TAAAATTACTAAAATACCCTTGGTTTG
1 TAAAATTACTGAAATACCCTCGATTTG
** * * *
48534832 TAAAATTACCAAAATACCATTGGTTTG
1 TAAAATTACTGAAATACCCTCGATTTG
** *
48534859 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTG
* **
48534886 TGAAATTACCAAAATACCCT-GATTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* * **
48534912 TGAAATTACTGAAATACCCTCAACCTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
48534939 TAAAATTATTGAAATACCCTCGACTTG
1 TAAAATTACTGAAATACCCTCGATTTG
* *
48534966 TAAAATTAC-CAAAGTACCC-CTGATTTA
1 TAAAATTACTGAAA-TACCCTC-GATTTG
* *** *
48534993 TAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTG
*
48535020 CAAAATTACTGAAATACC
1 TAAAATTACTGAAATACC
48535038 ATTGTAGGGT
Statistics
Matches: 168, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
26 26 0.15
27 141 0.84
28 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTG
Found at i:48535235 original size:81 final size:80
Alignment explanation
Indices: 48535026--48535268 Score: 290
Period size: 81 Copynumber: 3.0 Consensus size: 80
48535016 TTTACAAAAT
** * ** * * * *
48535026 TACTGAAATACCATTGTAGGGTAGAAATACCGAAATACCCTTGTAGGATACAAATACTGAAATAC
1 TACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTAC-GAAATAC
*
48535091 CCCTGTAGGGTAGAAA
65 CCTTGTAGGGTAGAAA
* * *
48535107 TACCGAAATACCCCTATAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTAACGAAATAC
1 TACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATT-ACGAAATAC
48535172 CCTTGTAGGGTAGAAA
65 CCTTGTAGGGTAGAAA
* * * *
48535188 TACTGAAATACCCCTGTAAGGTAGAATTACTAAAATGCCCCTGTAGGGTAGACTTACCAAGATAC
1 TACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACGAA-ATAC
*
48535253 CCTTGTGGGGTA-AAA
65 CCTTGTAGGGTAGAAA
48535268 T
1 T
48535269 TACCTTTTTG
Statistics
Matches: 139, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
80 8 0.06
81 129 0.93
82 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (80 bp):
TACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACGAAATACC
CTTGTAGGGTAGAAA
Found at i:48535244 original size:27 final size:27
Alignment explanation
Indices: 48535023--48535271 Score: 259
Period size: 27 Copynumber: 9.2 Consensus size: 27
48535013 CGATTTACAA
**
48535023 AATTACTGAAATACCATTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
48535050 AAATACCGAAATACCCTTGTAGGATAC
1 AATTACTGAAATACCCCTGTAGGGTAG
*
48535077 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
48535104 AAATACCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48535131 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
48535158 AATTAAC-GAAATACCCTTGTAGGGTAG
1 AATT-ACTGAAATACCCCTGTAGGGTAG
* *
48535185 AAATACTGAAATACCCCTGTAAGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
48535212 AATTACTAAAATGCCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
48535239 ACTTAC-CAAGATACCCTTGTGGGGTAA
1 AATTACTGAA-ATACCCCTGTAGGGTAG
48535266 AATTAC
1 AATTAC
48535272 CTTTTTGCCC
Statistics
Matches: 188, Mismatches: 31, Indels: 6
0.84 0.14 0.03
Matches are distributed among these distances:
26 4 0.02
27 182 0.97
28 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.24
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:48535559 original size:27 final size:26
Alignment explanation
Indices: 48535515--48535565 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
48535505 CTCGCTGCAA
*
48535515 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
48535542 TCTGGTGACTTCGTCACAATATCT
1 TCTGGTGACCTCGCCACAATATCT
48535566 AGCAGCCTCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:48535634 original size:26 final size:27
Alignment explanation
Indices: 48535605--48535664 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
48535595 CCACATATAT
*
48535605 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
48535631 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
48535658 ATATCTG
1 ATATCTG
48535665 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:48535834 original size:18 final size:18
Alignment explanation
Indices: 48535784--48535846 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
48535774 TTGCATTCAC
*
48535784 ATTCTAATTTTGATTCTG
1 ATTCTGATTTTGATTCTG
**
48535802 -TTACCTGATACTGATTCTG
1 ATT--CTGATTTTGATTCTG
48535821 ATTCTGATTTTGATTCT-
1 ATTCTGATTTTGATTCTG
48535838 AGTTCTGAT
1 A-TTCTGAT
48535847 AATGTTTCTT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 3 0.08
18 19 0.53
19 12 0.33
20 2 0.06
ACGTcount: A:0.21, C:0.14, G:0.14, T:0.51
Consensus pattern (18 bp):
ATTCTGATTTTGATTCTG
Found at i:48541981 original size:35 final size:35
Alignment explanation
Indices: 48541900--48541983 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
48541890 TACACTTTTT
* * *
48541900 TTGGTGTGTTTCAGTTCGACTAGTTCTAATGAACT
1 TTGGTGTGTTTTAGTTCGACTAGCTCTAATGAACA
*
48541935 TTGGTGTGTTTTAGTTGGACTAGCTC-ATATGAACA
1 TTGGTGTGTTTTAGTTCGACTAGCTCTA-ATGAACA
*
48541970 TTGTTGTGTTTTAG
1 TTGGTGTGTTTTAG
48541984 AGGGATTAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 1 0.02
35 42 0.98
ACGTcount: A:0.19, C:0.11, G:0.25, T:0.45
Consensus pattern (35 bp):
TTGGTGTGTTTTAGTTCGACTAGCTCTAATGAACA
Found at i:48541994 original size:35 final size:35
Alignment explanation
Indices: 48541928--48541994 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
48541918 ACTAGTTCTA
* **
48541928 ATGAACTTTGGTGTGTTTTAGTTGGACTAGCTCAT
1 ATGAACATTGGTGTGTTTTAGAGGGACTAGCTCAT
* *
48541963 ATGAACATTGTTGTGTTTTAGAGGGATTAGCT
1 ATGAACATTGGTGTGTTTTAGAGGGACTAGCT
48541995 TTTGATGGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.22, C:0.09, G:0.27, T:0.42
Consensus pattern (35 bp):
ATGAACATTGGTGTGTTTTAGAGGGACTAGCTCAT
Found at i:48542838 original size:12 final size:12
Alignment explanation
Indices: 48542821--48542850 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
48542811 ACACAACGTA
48542821 GCACATAGCCTG
1 GCACATAGCCTG
48542833 GCACATAGCCTG
1 GCACATAGCCTG
48542845 GCACAT
1 GCACAT
48542851 GGGCGTGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.33, G:0.23, T:0.17
Consensus pattern (12 bp):
GCACATAGCCTG
Found at i:48547137 original size:15 final size:16
Alignment explanation
Indices: 48547114--48547151 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
48547104 AACTGGAAAG
48547114 ATGAAAA-TTAATTAA
1 ATGAAAATTTAATTAA
*
48547129 ATGACAATTTAATTAA
1 ATGAAAATTTAATTAA
48547145 ATGAAAA
1 ATGAAAA
48547152 AGAAAACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (16 bp):
ATGAAAATTTAATTAA
Found at i:48554019 original size:6 final size:6
Alignment explanation
Indices: 48553996--48554074 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
48553986 TTTCGGAACT
* * *
48553996 AGAATC AAAATG AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
48554045 AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
48554075 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 3 0.05
6 46 0.81
7 6 0.11
8 2 0.04
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (6 bp):
AGAATC
Found at i:48554043 original size:31 final size:31
Alignment explanation
Indices: 48553996--48554074 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
48553986 TTTCGGAACT
* *
48553996 AGAATCAAAATGAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
48554027 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
48554058 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
48554075 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.49, C:0.14, G:0.19, T:0.18
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:48554265 original size:33 final size:32
Alignment explanation
Indices: 48554214--48554277 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
48554204 ACAAAGTCAC
* *
48554214 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
48554246 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
48554278 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:48554341 original size:27 final size:26
Alignment explanation
Indices: 48554293--48554344 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
48554283 GCGAGGCTGC
*
48554293 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
48554319 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
48554345 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:48554609 original size:27 final size:27
Alignment explanation
Indices: 48554579--48554908 Score: 428
Period size: 27 Copynumber: 12.2 Consensus size: 27
48554569 TAACACCCTA
* * *
48554579 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
48554606 AGGGTAAAA-CGATAATTCTGTAAATCG
1 AGGGTAAAATAG-TAATTCTGTAAATCG
* *
48554633 AGGGTAAAATAGTAATTTTATAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
48554660 AGGGTAAAATAGTAATTCTATCAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
48554687 AGGGTAAAATAGTAATTCTATCAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
48554714 AGGGTAAAATAGTAATTCTTTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
48554741 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * *
48554768 AGGGTAAAACAGTAATTCTGTCAATCA
1 AGGGTAAAATAGTAATTCTGTAAATCG
* * *
48554795 AGGGTAAAACAGTAATTTTGTAAATCA
1 AGGGTAAAATAGTAATTCTGTAAATCG
** *
48554822 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
*
48554849 AGGGTAAAATAATAATTCTGTAAATCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
* *
48554876 AGGGTAAAATAGTAATTTTGTAATTCG
1 AGGGTAAAATAGTAATTCTGTAAATCG
48554903 AGGGTA
1 AGGGTA
48554909 CTTTGATAAT
Statistics
Matches: 276, Mismatches: 25, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
26 1 0.00
27 274 0.99
28 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
AGGGTAAAATAGTAATTCTGTAAATCG
Found at i:48554932 original size:27 final size:26
Alignment explanation
Indices: 48554902--48555054 Score: 121
Period size: 27 Copynumber: 5.7 Consensus size: 26
48554892 TTTGTAATTC
**
48554902 GAGGGTACTTTGATAATTTTACAAGTT
1 GAGGGTA-TTTGATAATTTTACAAACT
* *
48554929 GAGGGTATTTCAGTAATTTTGCAAACT
1 GAGGGTATTTGA-TAATTTTACAAACT
*
48554956 GAGGGTATTTCAGTAATTTTACAAA-T
1 GAGGGTATTTGA-TAATTTTACAAACT
* * *
48554982 CGAGGATATTTGGGTAATTTTATAAACT
1 -GAGGGTATTT-GATAATTTTACAAACT
* *
48555010 GGGGGTACTTTGGTAATTTTAC-AACT
1 GAGGGTA-TTTGATAATTTTACAAACT
* *
48555036 GTGGGTATTTTAGTAATTT
1 GAGGGTATTTGA-TAATTT
48555055 GGTAAACTAA
Statistics
Matches: 105, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
25 3 0.03
26 21 0.20
27 77 0.73
28 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.41
Consensus pattern (26 bp):
GAGGGTATTTGATAATTTTACAAACT
Found at i:48554944 original size:54 final size:53
Alignment explanation
Indices: 48554886--48555062 Score: 178
Period size: 54 Copynumber: 3.3 Consensus size: 53
48554876 AGGGTAAAAT
*
48554886 AGTAATTTTGT-AATTCGAGGGTACTTTGATAATTTTACAAGTTGAGGGTATTTC
1 AGTAATTTTGTAAACT-GAGGGTACTTTGATAATTTTACAA-TTGAGGGTATTTC
* * * * *
48554940 AGTAATTTTGCAAACTGAGGGTA-TTTCAGTAATTTTACAAATCGAGGATATTTG
1 AGTAATTTTGTAAACTGAGGGTACTTTGA-TAATTTTAC-AATTGAGGGTATTTC
* * * * * * *
48554994 GGTAATTTTATAAACTGGGGGTACTTTGGTAATTTTACAACTGTGGGTATTTT
1 AGTAATTTTGTAAACTGAGGGTACTTTGATAATTTTACAATTGAGGGTATTTC
*
48555047 AGTAATTTGGTAAACT
1 AGTAATTTTGTAAACT
48555063 AAAGTATTCT
Statistics
Matches: 99, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
53 27 0.27
54 64 0.65
55 8 0.08
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (53 bp):
AGTAATTTTGTAAACTGAGGGTACTTTGATAATTTTACAATTGAGGGTATTTC
Found at i:48554971 original size:81 final size:80
Alignment explanation
Indices: 48554886--48555060 Score: 183
Period size: 81 Copynumber: 2.2 Consensus size: 80
48554876 AGGGTAAAAT
* * **
48554886 AGTAATTTTGTAATTCGAGGGTACTTT-GATAATTTTACAAGTTGAGGGTA-TTTCAGTAATTTT
1 AGTAATTTTGTAAATCGAGGATA-TTTGGATAATTTTACAAACTGAGGGTACTTT-AGTAATTTT
*
48554949 GCAAACTGAGGGTATTTC
64 AC-AACTGAGGGTATTTC
** * * * *
48554967 AGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACTGGGGGTACTTTGGTAATTTTAC
1 AGTAATTTTGTAAATCGAGGATATTTGGATAATTTTACAAACTGAGGGTACTTTAGTAATTTTAC
* *
48555032 AACTGTGGGTATTTT
66 AACTGAGGGTATTTC
*
48555047 AGTAATTTGGTAAA
1 AGTAATTTTGTAAA
48555061 CTAAAGTATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
80 27 0.36
81 46 0.61
82 3 0.04
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (80 bp):
AGTAATTTTGTAAATCGAGGATATTTGGATAATTTTACAAACTGAGGGTACTTTAGTAATTTTAC
AACTGAGGGTATTTC
Found at i:48556747 original size:16 final size:17
Alignment explanation
Indices: 48556718--48556749 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
48556708 AAGGTCACTT
48556718 TCATAATGATCATGAAC
1 TCATAATGATCATGAAC
48556735 TCATAAT-ATCATGAA
1 TCATAATGATCATGAA
48556750 GCCAATGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (17 bp):
TCATAATGATCATGAAC
Found at i:48557470 original size:9 final size:9
Alignment explanation
Indices: 48557456--48557491 Score: 72
Period size: 9 Copynumber: 4.0 Consensus size: 9
48557446 TCGAAAATAA
48557456 AATTTATTC
1 AATTTATTC
48557465 AATTTATTC
1 AATTTATTC
48557474 AATTTATTC
1 AATTTATTC
48557483 AATTTATTC
1 AATTTATTC
48557492 GATTCCAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTTATTC
Found at i:48560368 original size:48 final size:46
Alignment explanation
Indices: 48560297--48560569 Score: 235
Period size: 48 Copynumber: 5.7 Consensus size: 46
48560287 TGATATGTGT
* * *
48560297 GCTAGTGTAACACTATGTCTGGGACATGGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG--ATATTATGAGA
* * * * *
48560345 GCTAGTGTAAGACCATGTTTGGGACATGGCAACGGCATTAATATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-A-TATTATGAGA
* * * *
48560393 GCTAGTGTAAGACCATGTCTGGGACATGACATCGGCAT-TGAGGCGAAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-ATATTA--TGAGA
* * * *
48560441 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGTATTAATATGTGC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-A-TATTATGAGA
* *
48560489 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-TATTGAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGATATT---ATGAGA
* * *
48560537 GCTAGTGGAAGACCATGTTTGGAACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC
48560570 AGCAGTTCAC
Statistics
Matches: 183, Mismatches: 34, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
45 3 0.02
46 1 0.01
47 3 0.02
48 174 0.95
49 1 0.01
50 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGATATTATGAGA
Found at i:48560453 original size:96 final size:95
Alignment explanation
Indices: 48560289--48560567 Score: 373
Period size: 96 Copynumber: 2.9 Consensus size: 95
48560279 CATTTGGGTG
* * *
48560289 ATATGTGTGCTAGTGTAACACTATGTCTGGGACATGGCATCGGCCACATT-A-TGAGAGCTAGTG
1 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGCGAGAGCTAGTG
48560352 TAAGACCATGTTTGGGACATGGCAACGGCATTA
63 TAAGACCATGTTTGGGACATGGCAACGGCATTA
* *
48560385 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGACATCGGCATTGAGGCGAAAGCTAGTGTA
1 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GCGAGAGCTAGTGTA
* * * *
48560450 AGACCATGTCTAGGACATGGCATCGGTATTA
65 AGACCATGTTTGGGACATGGCAACGGCATTA
* * * *
48560481 ATATGTGCGCTAGTGTAAGACCATGTCTAGGACATGGCATCGGTATTGAGACGAGAGCTAGTGGA
1 ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAG-CGAGAGCTAGTGTA
*
48560546 AGACCATGTTTGGAACATGGCA
65 AGACCATGTTTGGGACATGGCA
48560568 TCAGCAGTTC
Statistics
Matches: 161, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
93 4 0.02
94 1 0.01
95 1 0.01
96 155 0.96
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (95 bp):
ATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGCGAGAGCTAGTGTAA
GACCATGTTTGGGACATGGCAACGGCATTA
Found at i:48560564 original size:144 final size:144
Alignment explanation
Indices: 48560297--48560569 Score: 341
Period size: 144 Copynumber: 1.9 Consensus size: 144
48560287 TGATATGTGT
* * *
48560297 GCTAGTGTAACACTATGTCTGGGACATGGCATCGGCCACATTATGAGAGCTAGTGTAAGACCATG
1 GCTAGTGTAACACCATGTCTAGGACATGGCATCGGCCACAATATGAGAGCTAGTGTAAGACCATG
* * * * * * * *
48560362 TTTGGGACATGGCAACGGCATTAATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGACATCG
66 TCTAGGACATGGCAACGGCATTAAGACGAGAGCTAGTGGAAGACCATGTCTGGAACATGACATCG
48560427 GCATTGAGGCGAAA
131 GCATTGAGGCGAAA
* * * * *
48560441 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGG-TATTAATATGTGCGCTAGTGTAAGACCAT
1 GCTAGTGTAACACCATGTCTAGGACATGGCATCGGCCA-CAATATGAGAGCTAGTGTAAGACCAT
* * * * *
48560505 GTCTAGGACATGGCATCGGTATTGAGACGAGAGCTAGTGGAAGACCATGTTTGGAACATGGCATC
65 GTCTAGGACATGGCAACGGCATTAAGACGAGAGCTAGTGGAAGACCATGTCTGGAACATGACATC
48560570 AGCAGTTCAC
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
143 1 0.01
144 106 0.99
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (144 bp):
GCTAGTGTAACACCATGTCTAGGACATGGCATCGGCCACAATATGAGAGCTAGTGTAAGACCATG
TCTAGGACATGGCAACGGCATTAAGACGAGAGCTAGTGGAAGACCATGTCTGGAACATGACATCG
GCATTGAGGCGAAA
Found at i:48561893 original size:15 final size:15
Alignment explanation
Indices: 48561873--48561902 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48561863 ATTATGAAAG
48561873 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
48561888 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
48561903 GATTTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:48562601 original size:56 final size:56
Alignment explanation
Indices: 48562522--48562646 Score: 214
Period size: 56 Copynumber: 2.2 Consensus size: 56
48562512 TCAATACATA
*
48562522 TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATGTG
1 TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATATG
* * *
48562578 TGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATTTATG
1 TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATATG
48562634 TGTGCGAGTAAGA
1 TGTGCGAGTAAGA
48562647 TCCTGTCTAG
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (56 bp):
TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATATG
Found at i:48562666 original size:56 final size:56
Alignment explanation
Indices: 48562522--48562679 Score: 196
Period size: 56 Copynumber: 2.8 Consensus size: 56
48562512 TCAATACATA
* * * *
48562522 TGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCTGATATGTG
1 TGTGCAAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATTCTGATATATG
* *
48562578 TGTGCAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTCTGATTTATG
1 TGTGCAAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATTCTGATATATG
* *
48562634 TGTGCGAGTAAGATCC-TGTCTAGGATA-G-TGGCATCGATATGTGATT
1 TGTGCAAGTAAGA-CCACGTCTA--ATACGTTGGCATCGATATGTGATT
48562680 ACATGTAAGA
Statistics
Matches: 92, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
56 86 0.93
57 3 0.03
58 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (56 bp):
TGTGCAAGTAAGACCACGTCTAATACGTTGGCATCGATATGTGATTCTGATATATG
Found at i:48570102 original size:26 final size:23
Alignment explanation
Indices: 48570076--48570122 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
48570066 TATATCCACA
48570076 AAGATTGCAGCAACAAATGCCGAAC
1 AAGATT-CAG-AACAAATGCCGAAC
* *
48570101 AAGCTTTAGAACAAATGCCGAA
1 AAGATTCAGAACAAATGCCGAA
48570123 TTATGTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 13 0.65
24 2 0.10
25 5 0.25
ACGTcount: A:0.45, C:0.21, G:0.19, T:0.15
Consensus pattern (23 bp):
AAGATTCAGAACAAATGCCGAAC
Found at i:48575070 original size:38 final size:38
Alignment explanation
Indices: 48575001--48575123 Score: 165
Period size: 38 Copynumber: 3.2 Consensus size: 38
48574991 GCAAGCTATA
* *
48575001 TGCTGGAAATATATCCGGGTTAAATCCCGCAGGCTTTG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTTG
* *
48575039 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCCTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTTG
* * *
48575077 TGCTGGTATTATATCTGAGCTTAAAGTCCCGCAGGTTTTG
1 TGCTGGTATTATATCCG-GGTTAAA-TCCCGCAGGCTTTG
48575117 TGCTGGT
1 TGCTGGT
48575124 GACTGGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 50 0.68
39 6 0.08
40 18 0.24
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTTG
Found at i:48575120 original size:40 final size:38
Alignment explanation
Indices: 48574972--48575123 Score: 160
Period size: 38 Copynumber: 3.9 Consensus size: 38
48574962 ATTTGATGTG
* * * * * *
48574972 TATCCGAGCTTAAAGACCCGCAAGCTATATGCTGGAAATA
1 TATCCG-GCTTAAA-TCCCGCAGGCTTTGTGCTGGTATTA
*
48575012 TATCCGGGTTAAATCCCGCAGGCTTTGTGCTGGTATTA
1 TATCCGGCTTAAATCCCGCAGGCTTTGTGCTGGTATTA
* * *
48575050 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGCTTAAATCCCGCAGGCTTTGTGCTGGTATTA
* *
48575088 TATCTGAGCTTAAAGTCCCGCAGGTTTTGTGCTGGT
1 TATCCG-GCTTAAA-TCCCGCAGGCTTTGTGCTGGT
48575124 GACTGGATTC
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
38 60 0.62
39 12 0.12
40 24 0.25
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (38 bp):
TATCCGGCTTAAATCCCGCAGGCTTTGTGCTGGTATTA
Found at i:48575310 original size:15 final size:15
Alignment explanation
Indices: 48575290--48575322 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
48575280 GAATTATTAG
48575290 TATCAGAGAACGATA
1 TATCAGAGAACGATA
48575305 TATCAGAGAACGATA
1 TATCAGAGAACGATA
48575320 TAT
1 TAT
48575323 GTGTGTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (15 bp):
TATCAGAGAACGATA
Found at i:48584433 original size:27 final size:28
Alignment explanation
Indices: 48584382--48584436 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 28
48584372 ATAGCTGAAC
*
48584382 CTAGTTTAAATCACACATTTAGTGCCAAG
1 CTAGATTAAATCACACA-TTAGTGCCAAG
48584411 CTAGATTAAATCACAC-TTAGTGCCAA
1 CTAGATTAAATCACACATTAGTGCCAA
48584437 AACTTCCGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
29 15 0.60
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (28 bp):
CTAGATTAAATCACACATTAGTGCCAAG
Found at i:48594556 original size:27 final size:27
Alignment explanation
Indices: 48594526--48594586 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
48594516 ATTACCAAAG
* * *
48594526 TACCCTCGATTTATAGAATTACTGTCT
1 TACCCTCGATTTACAAAATTACTATCT
* *
48594553 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATCT
48594580 TACCCTC
1 TACCCTC
48594587 AATTGTGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATCT
Found at i:48594687 original size:54 final size:54
Alignment explanation
Indices: 48594620--48594749 Score: 140
Period size: 54 Copynumber: 2.4 Consensus size: 54
48594610 CTCGATTATG
** *
48594620 AAATTACTGAAATACCCCT-ATAGGGT-AGAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCCTGAT-GGGTGA-AATTATCAAAATACCCTC-AATTTGTA
* * ** *
48594674 AAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGTA
1 AAATTACCAAAATACCCCTGATGGGTGAAATTATCAAAATACCCTCAATTTGTA
48594728 AAATTACCAAAATACCCCTGAT
1 AAATTACCAAAATACCCCTGAT
48594750 TTACAAAATT
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
54 60 0.95
55 3 0.05
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGATGGGTGAAATTATCAAAATACCCTCAATTTGTA
Found at i:48594759 original size:54 final size:55
Alignment explanation
Indices: 48594648--48594772 Score: 164
Period size: 54 Copynumber: 2.3 Consensus size: 55
48594638 TATAGGGTAG
* * * ***
48594648 AATTATCAAAATACCC-CTAGTTTGTAAAATTACCAAAATACCACTGGTTTGTGA
1 AATTATCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
*
48594702 AATTATCGAAATACCCTC-AATTTGTAAAATTACCAAAATACCCCTGATTTACAA
1 AATTATCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
*
48594756 AATTATAGAAATACCCT
1 AATTATCGAAATACCCT
48594773 TGACTTTCTA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 61 0.98
55 1 0.02
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (55 bp):
AATTATCGAAATACCCTCTAATTTGTAAAATTACCAAAATACCACTGATTTACAA
Found at i:48594814 original size:56 final size:54
Alignment explanation
Indices: 48594672--48594830 Score: 167
Period size: 54 Copynumber: 2.9 Consensus size: 54
48594662 CCCTAGTTTG
* * * *
48594672 TAAAATTACCAAAATACCACTGGTTTGTGAAATTATCGAAATACCC-TCAATTTG
1 TAAAATTACCAAAATACCACTGGTTTATAAAATTAT-GAAATACCCTTGAATTTC
* * * *
48594726 TAAAATTACCAAAATACCCCTGATTTACAAAATTATAGAAATACCCTTGACTTTC
1 TAAAATTACCAAAATACCACTGGTTTATAAAATTAT-GAAATACCCTTGAATTTC
*** *
48594781 TAAAAATTATGGAAATACCATTGGTTTATAAAATTACTGAAATACCCTTG
1 T-AAAATTACCAAAATACCACTGGTTTATAAAATTA-TGAAATACCCTTG
48594831 GTTTGTAGAT
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.47
55 6 0.07
56 39 0.45
57 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (54 bp):
TAAAATTACCAAAATACCACTGGTTTATAAAATTATGAAATACCCTTGAATTTC
Found at i:48594822 original size:27 final size:27
Alignment explanation
Indices: 48594648--48594837 Score: 120
Period size: 27 Copynumber: 7.0 Consensus size: 27
48594638 TATAGGGTAG
* *
48594648 AATTATCA-AAATACCCCTAGTTTGTAA
1 AATTAT-AGAAATACCCTTGGTTTGTAA
* *
48594675 AATTACCA-AAATACCAC-TGGTTTGTGA
1 AATTA-TAGAAATACC-CTTGGTTTGTAA
* ***
48594702 AATTATCGAAATACCCTCAATTTGTAA
1 AATTATAGAAATACCCTTGGTTTGTAA
* * * **
48594729 AATTACCA-AAATACCCCTGATTTACAA
1 AATTA-TAGAAATACCCTTGGTTTGTAA
* *
48594756 AATTATAGAAATACCCTTGACTTTCTAAA
1 AATTATAGAAATACCCTTG-GTTTGT-AA
* * *
48594785 AATTATGGAAATACCATTGGTTTATAA
1 AATTATAGAAATACCCTTGGTTTGTAA
48594812 AATTACT-GAAATACCCTTGGTTTGTA
1 AATTA-TAGAAATACCCTTGGTTTGTA
48594838 GATTTACCAA
Statistics
Matches: 127, Mismatches: 27, Indels: 18
0.74 0.16 0.10
Matches are distributed among these distances:
26 2 0.02
27 97 0.76
28 9 0.07
29 19 0.15
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (27 bp):
AATTATAGAAATACCCTTGGTTTGTAA
Found at i:48594918 original size:27 final size:27
Alignment explanation
Indices: 48594888--48594979 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
48594878 ACCCCTATTA
*
48594888 GGTAAAAAGACCATAAAGCCCCTGTAG
1 GGTAAAATGACCATAAAGCCCCTGTAG
* * *
48594915 GGTAAAGTGATCATAAAGCCCCTATAG
1 GGTAAAATGACCATAAAGCCCCTGTAG
* * *
48594942 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCATAA-AGCCCCTGTAG
48594969 GGTAAAATGAC
1 GGTAAAATGAC
48594980 GAATATGCCC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCATAAAGCCCCTGTAG
Found at i:48595863 original size:52 final size:52
Alignment explanation
Indices: 48595781--48595929 Score: 266
Period size: 52 Copynumber: 2.9 Consensus size: 52
48595771 GAGGAAGTGC
*
48595781 AAAAGGGCTTATGCCCCAGTTTACCGAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
*
48595833 AAAAGGGCTTAAGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
48595885 AAAAGGGCTT-TGCCCCAGTTTACCAAAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTT
48595930 ATTAAAGAGG
Statistics
Matches: 94, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
50 10 0.11
51 24 0.26
52 60 0.64
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTACCAAAAAGGGCTTATGCCCCAGTTTATTG
Found at i:48595904 original size:25 final size:26
Alignment explanation
Indices: 48595781--48595929 Score: 221
Period size: 26 Copynumber: 5.8 Consensus size: 26
48595771 GAGGAAGTGC
48595781 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
48595807 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* *
48595833 AAAAGGGCTTAAGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
48595859 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
48595885 AAAAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCG
48595910 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
48595930 ATTAAAGAGG
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
25 32 0.29
26 78 0.71
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:48596133 original size:42 final size:42
Alignment explanation
Indices: 48596074--48596165 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
48596064 TAGTCTCCCT
* ** *
48596074 AAATGGGCATGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCATGCATACATCCATTGACATTACATATGATATTG
* *
48596116 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCATGCATACATCCATTGACATTACATATGATATTG
*
48596158 AAGTGGGC
1 AAATGGGC
48596166 CTATGGGCCA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (42 bp):
AAATGGGCATGCATACATCCATTGACATTACATATGATATTG
Found at i:48596225 original size:31 final size:31
Alignment explanation
Indices: 48596189--48596266 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
48596179 CGTTTACAGT
*
48596189 AAGGCTTCGGCCTAGTGAAATGATTTATGAA
1 AAGGCTTCGGCCCAGTGAAATGATTTATGAA
*
48596220 AAGGCTTCGGCCCAGTGATATGATTTATGAA
1 AAGGCTTCGGCCCAGTGAAATGATTTATGAA
*
48596251 AAGGCTTCAGCCCAGT
1 AAGGCTTCGGCCCAGT
48596267 AACCGTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTGAAATGATTTATGAA
Found at i:48599788 original size:48 final size:47
Alignment explanation
Indices: 48599717--48599893 Score: 198
Period size: 48 Copynumber: 3.7 Consensus size: 47
48599707 TATGTGCGCT
*
48599717 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGACATTATGAGAGCC
1 AGTGTAAGACCATGTCTTGGACATGGCATCGGCG-CATTATGAGAGCC
* *
48599765 AGTGTAAGACCATGTCTTGGACATGGCA-CTG-GCATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCTTGGACATGGCATCGGCGCATT---ATGAGAGCC
* * * ** *
48599813 AGTGTAAGACCATGTCTAGGACATGCCATCGGCCTCAACATGTGAGCC
1 AGTGTAAGACCATGTCTTGGACATGGCATCGG-CGCATTATGAGAGCC
48599861 AGTGTAAGACCATGT-TTGGAACATGGCATCGGC
1 AGTGTAAGACCATGTCTTGG-ACATGGCATCGGC
48599894 AGTTCACCCT
Statistics
Matches: 109, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
45 4 0.04
46 1 0.01
47 6 0.06
48 94 0.86
49 2 0.02
51 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTTGGACATGGCATCGGCGCATTATGAGAGCC
Found at i:48599885 original size:96 final size:96
Alignment explanation
Indices: 48599714--48599888 Score: 271
Period size: 96 Copynumber: 1.8 Consensus size: 96
48599704 TGATATGTGC
* * * **
48599714 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCGACATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGCCATCGGCCACAACATGAGAGCCAGTGTAAGACCATG
48599779 TCTTGGACATGGCACTGGCATTGAGATGAGA
66 TCTTGGACATGGCACTGGCATTGAGATGAGA
* *
48599810 GCTAGTGTAAGACCATGTCTAGGACATGCCATCGGCCTCAACATGTGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGCCATCGGCCACAACATGAGAGCCAGTGTAAGACCATG
48599875 T-TTGGAACATGGCA
66 TCTTGG-ACATGGCA
48599889 TCGGCAGTTC
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
95 4 0.06
96 67 0.94
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTAGGACATGCCATCGGCCACAACATGAGAGCCAGTGTAAGACCATG
TCTTGGACATGGCACTGGCATTGAGATGAGA
Found at i:48603328 original size:51 final size:49
Alignment explanation
Indices: 48603198--48603493 Score: 324
Period size: 51 Copynumber: 5.9 Consensus size: 49
48603188 TCTATTGTGA
* * * * *
48603198 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCGAATTAGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-ATAATT
*
48603247 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAA-TT
* *
48603297 CGATCACATGTGTAGGACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAA--TT
* * * ** **
48603349 GATCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATT
* * * **
48603398 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATT
* * *
48603448 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATA
48603494 GCTTTGGCTA
Statistics
Matches: 209, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
49 79 0.38
50 44 0.21
51 84 0.40
52 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAATT
Found at i:48603384 original size:26 final size:26
Alignment explanation
Indices: 48603355--48603437 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 26
48603345 CTTTGATCAC
48603355 ATGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
* *
48603381 ATGTGTA-T-C-AAATGGTTAGG-TCAC-
1 ATGTGTAGTACTAAGT-G-CAGGCT-ACT
*
48603405 GTGTGTAGTACTAAGTGCAGGCTACT
1 ATGTGTAGTACTAAGTGCAGGCTACT
*
48603431 ACGTGTA
1 ATGTGTA
48603438 CTGGATAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 16
0.65 0.11 0.25
Matches are distributed among these distances:
23 3 0.07
24 9 0.21
25 12 0.29
26 15 0.36
27 3 0.07
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (26 bp):
ATGTGTAGTACTAAGTGCAGGCTACT
Found at i:48603523 original size:150 final size:152
Alignment explanation
Indices: 48603254--48603531 Score: 366
Period size: 150 Copynumber: 1.8 Consensus size: 152
48603244 AGTGGTCGCA
*
48603254 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACATGTGTAGGACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGTAGGACTAAG
* * * * *
48603319 TGCAGGCTACTATGCGTACCCGATAACTTTGATCACATGTGTAGTACTAAGTGCAGGCTACTATG
66 TGCAGGCTACTATGCGTACCAGATAACTTTGATCACAAGTGTAGAAATAAGTGCAGGCAACTATG
48603384 TGTATCAAATGGTTAGGTCACG
131 TGTATCAAATGGTTAGGTCACG
* ** * * *
48603406 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAA-TT-GGTCGCATGTGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGTAGGACTAAG
* * * *
48603469 TGTAGGCTACTATGCGTACCAGATAGCTTTG-GCTACAAGTGT-GAAAATATGTGCAGGCAACTA
66 TGCAGGCTACTATGCGTACCAGATAACTTTGATC-ACAAGTGTAG-AAATAAGTGCAGGCAACTA
48603532 AGTATCAGTT
Statistics
Matches: 108, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
149 2 0.02
150 68 0.63
151 2 0.02
152 36 0.33
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (152 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGTAGGACTAAG
TGCAGGCTACTATGCGTACCAGATAACTTTGATCACAAGTGTAGAAATAAGTGCAGGCAACTATG
TGTATCAAATGGTTAGGTCACG
Found at i:48606942 original size:56 final size:56
Alignment explanation
Indices: 48606856--48607223 Score: 479
Period size: 56 Copynumber: 6.6 Consensus size: 56
48606846 ACCTGGAAGT
* * *
48606856 ATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCG
1 ATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCG
* * *
48606912 ATATGTGATTCCGATATATGTCTGCGAGTAAGTCCAC-ATTACATACGTTGGCATCG
1 ATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTA-ATACGTTGGCATCG
* * * *
48606968 ATATGTGACTCTGATATATGTGTACGAGTAACTCCACGTTTAATATGTTGGCATCG
1 ATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCG
* * * *
48607024 ATATGTGATTCTGACATATGTGTGTGAGTAAGACCTCGTTTAATACGTTGGCATCG
1 ATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCG
* * * * *
48607080 ATATGTGATTCCGATACATGTGTGCAAGTAAGTCCAC-ATTACATATGTTGGCATCG
1 ATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTA-ATACGTTGGCATCG
* ** *
48607136 ATATGTGACTCTGATATATGTGTGCGAGTAAGTCCAAATTTAATACGTTGGCAACG
1 ATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCG
* *
48607192 ATATGTGATTCTGATATATATGTACGAGTAAG
1 ATATGTGATTCTGATATATGTGTGCGAGTAAG
48607224 ACTGTAACCA
Statistics
Matches: 267, Mismatches: 41, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
55 6 0.02
56 255 0.96
57 6 0.02
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (56 bp):
ATATGTGATTCTGATATATGTGTGCGAGTAAGTCCACGTTTAATACGTTGGCATCG
Found at i:48607134 original size:168 final size:168
Alignment explanation
Indices: 48606856--48607225 Score: 596
Period size: 168 Copynumber: 2.2 Consensus size: 168
48606846 ACCTGGAAGT
*
48606856 ATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAT
1 ATATGTGATTCTGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAT
* *
48606921 TCCGATATATGTCTGCGAGTAAGTCCACATTACATACGTTGGCATCGATATGTGACTCTGATATA
66 TCCGATACATGTCTGCAAGTAAGTCCACATTACATACGTTGGCATCGATATGTGACTCTGATATA
** * *
48606986 TGTGTACGAGTAACTCCACGTTTAATATGTTGGCATCG
131 TGTGTACGAGTAACTCCAAATTTAATACGTTGGCAACG
* *
48607024 ATATGTGATTCTGACATATGTGTGTGAGTAAGACCTCGTTTAATACGTTGGCATCGATATGTGAT
1 ATATGTGATTCTGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAT
* *
48607089 TCCGATACATGTGTGCAAGTAAGTCCACATTACATATGTTGGCATCGATATGTGACTCTGATATA
66 TCCGATACATGTCTGCAAGTAAGTCCACATTACATACGTTGGCATCGATATGTGACTCTGATATA
* *
48607154 TGTGTGCGAGTAAGTCCAAATTTAATACGTTGGCAACG
131 TGTGTACGAGTAACTCCAAATTTAATACGTTGGCAACG
* **
48607192 ATATGTGATTCTGATATATATGTACGAGTAAGAC
1 ATATGTGATTCTGATATATGTGTGTGAGTAAGAC
48607226 TGTAACCATG
Statistics
Matches: 185, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
168 185 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (168 bp):
ATATGTGATTCTGATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGAT
TCCGATACATGTCTGCAAGTAAGTCCACATTACATACGTTGGCATCGATATGTGACTCTGATATA
TGTGTACGAGTAACTCCAAATTTAATACGTTGGCAACG
Found at i:48610414 original size:59 final size:59
Alignment explanation
Indices: 48610348--48610474 Score: 238
Period size: 59 Copynumber: 2.2 Consensus size: 59
48610338 TATAGGTATG
48610348 AGTTGTTAATGTTGGAATTATGAGAATATGTATGTTAGTCTATGAGCATTTGGTTATAT
1 AGTTGTTAATGTTGGAATTATGAGAATATGTATGTTAGTCTATGAGCATTTGGTTATAT
*
48610407 AGTTGTTAAAGTTGGAATTATGAGAATATGTATGTTAGTCTATGAGCATTTGGTTATAT
1 AGTTGTTAATGTTGGAATTATGAGAATATGTATGTTAGTCTATGAGCATTTGGTTATAT
48610466 AGTT-TTAAT
1 AGTTGTTAAT
48610475 ATGCCTTTGA
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
58 4 0.06
59 62 0.94
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.44
Consensus pattern (59 bp):
AGTTGTTAATGTTGGAATTATGAGAATATGTATGTTAGTCTATGAGCATTTGGTTATAT
Found at i:48610442 original size:29 final size:29
Alignment explanation
Indices: 48610351--48610443 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
48610341 AGGTATGAGT
48610351 TGTTAATGTTGGAATTATGAGAATATGTA
1 TGTTAATGTTGGAATTATGAGAATATGTA
* * * *
48610380 TGTTAGTCTATGAGCATT-TG-GTTATATAGT-
1 TGTTAATGT-TG-GAATTATGAG-AATAT-GTA
*
48610410 TGTTAAAGTTGGAATTATGAGAATATGTA
1 TGTTAATGTTGGAATTATGAGAATATGTA
48610439 TGTTA
1 TGTTA
48610444 GTCTATGAGC
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
28 6 0.12
29 21 0.44
30 15 0.31
31 6 0.12
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (29 bp):
TGTTAATGTTGGAATTATGAGAATATGTA
Found at i:48612894 original size:21 final size:21
Alignment explanation
Indices: 48612870--48612909 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48612860 AAATTTAACA
48612870 TCAATTTAATACAATTCATAC
1 TCAATTTAATACAATTCATAC
* *
48612891 TCAATTTAGTCCAATTCAT
1 TCAATTTAATACAATTCAT
48612910 GTCTTAGGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.20, G:0.03, T:0.40
Consensus pattern (21 bp):
TCAATTTAATACAATTCATAC
Found at i:48615614 original size:17 final size:19
Alignment explanation
Indices: 48615588--48615624 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
48615578 TGTATAACTC
48615588 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
48615606 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
48615624 A
1 A
48615625 AGAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:48617291 original size:25 final size:25
Alignment explanation
Indices: 48617263--48617310 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
48617253 TTTTGGCTTG
48617263 AGAATTCTATTAGAGGATTCGATTA
1 AGAATTCTATTAGAGGATTCGATTA
*
48617288 AGAATTCTATTAGGGGATTCGAT
1 AGAATTCTATTAGAGGATTCGAT
48617311 AAGTTATCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (25 bp):
AGAATTCTATTAGAGGATTCGATTA
Found at i:48617299 original size:12 final size:13
Alignment explanation
Indices: 48617262--48617300 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
48617252 ATTTTGGCTT
48617262 GAGAATTCTATTA
1 GAGAATTCTATTA
* *
48617275 GAGGATTCGATTA
1 GAGAATTCTATTA
48617288 -AGAATTCTATTA
1 GAGAATTCTATTA
48617300 G
1 G
48617301 GGGATTCGAT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (13 bp):
GAGAATTCTATTA
Found at i:48621923 original size:17 final size:19
Alignment explanation
Indices: 48621897--48621933 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
48621887 TGTATAACTC
48621897 ATGAGTATGAACT-TTGGT
1 ATGAGTATGAACTCTTGGT
48621915 ATGAG-ATGAACTCTTGGT
1 ATGAGTATGAACTCTTGGT
48621933 A
1 A
48621934 AGAATGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (19 bp):
ATGAGTATGAACTCTTGGT
Found at i:48627534 original size:40 final size:40
Alignment explanation
Indices: 48627490--48627597 Score: 144
Period size: 41 Copynumber: 2.7 Consensus size: 40
48627480 TGACAAATCA
* *
48627490 GCTATATGTGGCACTTAGTGTACGATTCGACATAACTTCG
1 GCTATATATGGCACTTAGTGTGCGATTCGACATAACTTCG
* * *
48627530 GCTATATATGGCGCTTAGTGTGCGAGATCGAGATAACTTCG
1 GCTATATATGGCACTTAGTGTGCGA-TTCGACATAACTTCG
* *
48627571 ACTATATATAGCACTTAGTGTGCGATT
1 GCTATATATGGCACTTAGTGTGCGATT
48627598 TAAGGTAGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 23 0.40
41 35 0.60
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
GCTATATATGGCACTTAGTGTGCGATTCGACATAACTTCG
Found at i:48628664 original size:12 final size:12
Alignment explanation
Indices: 48628647--48628694 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
48628637 TTTTGGCACG
48628647 GCCTAGCACACA
1 GCCTAGCACACA
*
48628659 GCCTAGCACACG
1 GCCTAGCACACA
* *
48628671 GCCTGGCACACC
1 GCCTAGCACACA
*
48628683 GGCTAG-ACACA
1 GCCTAGCACACA
48628694 G
1 G
48628695 GCGTGTCTGG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
11 5 0.17
12 25 0.83
ACGTcount: A:0.27, C:0.40, G:0.25, T:0.08
Consensus pattern (12 bp):
GCCTAGCACACA
Found at i:48628688 original size:24 final size:25
Alignment explanation
Indices: 48628643--48628693 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
48628633 ACAGTTTTGG
48628643 CACGGCCTAGCACACAGCCTAG-CA
1 CACGGCCTAGCACACAGCCTAGACA
* * *
48628667 CACGGCCTGGCACACCGGCTAGACA
1 CACGGCCTAGCACACAGCCTAGACA
48628692 CA
1 CA
48628694 GGCGTGTCTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.27, C:0.41, G:0.24, T:0.08
Consensus pattern (25 bp):
CACGGCCTAGCACACAGCCTAGACA
Found at i:48631109 original size:6 final size:6
Alignment explanation
Indices: 48631098--48631199 Score: 95
Period size: 6 Copynumber: 16.8 Consensus size: 6
48631088 GACCAAAATG
* *
48631098 AGAATC AGAATC AGAATC AGTAA-C AGAATC AAAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
48631146 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
48631195 AGAAT
1 AGAAT
48631200 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 8, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
5 6 0.08
6 66 0.84
7 5 0.06
8 2 0.03
ACGTcount: A:0.50, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:48631113 original size:30 final size:30
Alignment explanation
Indices: 48631077--48631199 Score: 140
Period size: 30 Copynumber: 4.1 Consensus size: 30
48631067 AAGAAACATT
* * * *
48631077 ATCAGAATTGGGACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * *
48631107 ATCAGAATCAGTAACAGAATCAAAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
48631137 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
*
48631167 ATCAGAATTAGGTGACAGAATCAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
48631198 AT
1 AT
48631200 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
29 1 0.01
30 58 0.73
31 20 0.25
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:48631354 original size:27 final size:26
Alignment explanation
Indices: 48631317--48631382 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
48631307 AGCATGGCTG
*
48631317 CCAGAACAGATATCATGACAGAGTCA
1 CCAGAACAGATATCATGACAGAGCCA
** *
48631343 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCATGACAGAGCCA
48631370 CCAGAATCAGATA
1 CCAGAA-CAGATA
48631383 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCATGACAGAGCCA
Found at i:48631387 original size:27 final size:27
Alignment explanation
Indices: 48631335--48631390 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
48631325 GATATCATGA
* *
48631335 CAGAGTCACCAGATACAGATATTGTGG
1 CAGAGCCACCAGATACAGATAATGTGG
48631362 CAGAGCCACCAGA-ATCAGATAATGTGG
1 CAGAGCCACCAGATA-CAGATAATGTGG
48631389 CA
1 CA
48631391 AACCCACGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGAGCCACCAGATACAGATAATGTGG
Found at i:48631397 original size:27 final size:27
Alignment explanation
Indices: 48631341--48631397 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
48631331 ATGACAGAGT
* * *
48631341 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATAATGTGGCAAACC
48631368 CACCAGA-ATCAGATAATGTGGCAAACC
1 CACCAGATA-CAGATAATGTGGCAAACC
48631395 CAC
1 CAC
48631398 GTAACAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (27 bp):
CACCAGATACAGATAATGTGGCAAACC
Found at i:48631780 original size:27 final size:26
Alignment explanation
Indices: 48631704--48631783 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 26
48631694 ATCGGTCAAA
* *
48631704 AGATATTGTGACAGAGTCACCAAATAC
1 AGATATTGTGACAGAGCCACCAGA-AC
48631731 AGATATTGTGACAGAGCCACCAGAAC
1 AGATATTGTGACAGAGCCACCAGAAC
* *
48631757 AGATATTTGTGGCATAGCCACCAGAAC
1 AGATA-TTGTGACAGAGCCACCAGAAC
48631784 GCTTCCTCCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.15
27 41 0.85
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACAGAGCCACCAGAAC
Found at i:48632012 original size:27 final size:27
Alignment explanation
Indices: 48631982--48632176 Score: 230
Period size: 27 Copynumber: 7.3 Consensus size: 27
48631972 GGGGCAAAAT
* * *
48631982 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48632009 GGTAATTTTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48632036 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48632063 GATAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48632090 GGTAATTCTATCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
48632117 AGTAA-TCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
48632143 GGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
48632170 AGTAATT
1 GGTAATT
48632177 TCACAATCAA
Statistics
Matches: 144, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
26 22 0.15
27 122 0.85
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:48632281 original size:81 final size:82
Alignment explanation
Indices: 48632181--48632641 Score: 580
Period size: 81 Copynumber: 5.7 Consensus size: 82
48632171 GTAATTTCAC
* * * *
48632181 AATCAAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGA-TAATTTTGTAAACTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAACTGAGGGT
*
48632245 AAACCAGTAATTCTGTA
66 AAAACAGTAATTCTGTA
* * * *
48632262 AATCAAAGGTAAAACGGTAATTTTACAAATCGAGGGTAAAAC-AGTAATTCTGTAAACTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAACTGAGGGT
48632326 AAAACAGTAATTCTGTA
66 AAAACAGTAATTCTGTA
* * * * *
48632343 AA-CTGAGGGTAAAACAGTAATTTTGTAAATTGAGGGTAAAA-TAGTAATTCTGTAAACTGAGGG
1 AATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAACTGAGGG
* **
48632406 TAAAACAGTAATTTTACA
65 TAAAACAGTAATTCTGTA
48632424 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC-AGTAATTCTGTAAACTGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAACTGAGGGT
*
48632488 AAAACGGTAATTCTGTA
66 AAAACAGTAATTCTGTA
* * *
48632505 AATTGAGGGTAATATGGTAATTCTATAAA-CTGAGGGTAAAACG-GTAATTCTGTAAA-TCGAGG
1 AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAACGAGTAATTCTGTAAACT-GAGG
* * * **
48632567 GTAATATAGTAATTTTAAA
64 GTAAAACAGTAATTCTGTA
* *
48632586 AATCGAGAGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG-GTAATTCTGTAAA
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAA
48632642 TCGGGAGTAC
Statistics
Matches: 333, Mismatches: 38, Indels: 18
0.86 0.10 0.05
Matches are distributed among these distances:
80 4 0.01
81 327 0.98
82 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (82 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACGAGTAATTCTGTAAACTGAGGGT
AAAACAGTAATTCTGTA
Done.