Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 171 of 226
Found at i:52593470 original size:17 final size:18
Alignment explanation
Indices: 52593431--52593472 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
52593421 TTTCAAATGT
52593431 ATTTTTTGATTTCACTTA
1 ATTTTTTGATTTCACTTA
* * *
52593449 TTTTTTTG-TTTGATTTA
1 ATTTTTTGATTTCACTTA
52593466 ATTTTTT
1 ATTTTTT
52593473 TAAAAGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.17, C:0.05, G:0.07, T:0.71
Consensus pattern (18 bp):
ATTTTTTGATTTCACTTA
Found at i:52593945 original size:31 final size:32
Alignment explanation
Indices: 52593882--52593946 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
52593872 GGCAAATTAC
*
52593882 AAGAGTAATTGAATCTTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
*
52593914 AAGAGTAATTGAATCCTAAT-AAAACTTTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
52593945 AA
1 AA
52593947 ATTATCTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.39
32 19 0.61
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:52600118 original size:31 final size:32
Alignment explanation
Indices: 52600059--52600123 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
52600049 GGCAAATTAC
52600059 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
*
52600091 AAGAGTACTTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
52600122 AA
1 AA
52600124 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:52601245 original size:58 final size:58
Alignment explanation
Indices: 52601172--52601282 Score: 136
Period size: 58 Copynumber: 1.9 Consensus size: 58
52601162 TGATTATTTC
* * *
52601172 TATTTGATTTATTTA-TCATTCTCTTACT-TTCAAAATATTTAAATTTAATATTAGGTAT
1 TATTTGATCTATTTATTCATT-TCTTACTCTT-AAAATATTTAAACTTAACATTAGGTAT
* * *
52601230 TATTTTATCTATTTATTTATTTTTTACTCTTAAAATATTTAAACTTAACATTA
1 TATTTGATCTATTTATTCATTTCTTACTCTTAAAATATTTAAACTTAACATTA
52601283 TGTAAACATA
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
58 39 0.87
59 6 0.13
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (58 bp):
TATTTGATCTATTTATTCATTTCTTACTCTTAAAATATTTAAACTTAACATTAGGTAT
Found at i:52601327 original size:3 final size:3
Alignment explanation
Indices: 52601319--52601374 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
52601309 TTCTATCTTC
52601319 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
52601367 TAT GTAT T
1 TAT -TAT T
52601375 TATTCACAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:52601444 original size:13 final size:13
Alignment explanation
Indices: 52601426--52601450 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52601416 GAACTGTATC
52601426 ATTTATTTATTTT
1 ATTTATTTATTTT
52601439 ATTTATTTATTT
1 ATTTATTTATTT
52601451 AGTTTCAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:52604025 original size:24 final size:24
Alignment explanation
Indices: 52603998--52604044 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
52603988 TTTATATTTT
52603998 TAATACTTTTTAATTTTTTAAAAA
1 TAATACTTTTTAATTTTTTAAAAA
**
52604022 TAATTTTTTTTAATTTTTTAAAA
1 TAATACTTTTTAATTTTTTAAAA
52604045 TATTTATTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TAATACTTTTTAATTTTTTAAAAA
Found at i:52604522 original size:27 final size:25
Alignment explanation
Indices: 52604491--52604547 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
52604481 AAAGTATACA
*
52604491 ATTTTTT-TTCAGAAAACAAGATTCAC
1 ATTTTTTATTCACAAAA-AA-ATTCAC
*
52604517 ATTTTTTATTCACAAGAAAATTCAC
1 ATTTTTTATTCACAAAAAAATTCAC
52604542 ATTTTT
1 ATTTTT
52604548 GTATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 12 0.43
26 9 0.32
27 7 0.25
ACGTcount: A:0.37, C:0.14, G:0.05, T:0.44
Consensus pattern (25 bp):
ATTTTTTATTCACAAAAAAATTCAC
Found at i:52604847 original size:13 final size:13
Alignment explanation
Indices: 52604831--52604855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52604821 ATTAAGATTC
52604831 TTTTAGTTGGGTT
1 TTTTAGTTGGGTT
52604844 TTTTAGTTGGGT
1 TTTTAGTTGGGT
52604856 CATTTTAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.60
Consensus pattern (13 bp):
TTTTAGTTGGGTT
Found at i:52607455 original size:3 final size:3
Alignment explanation
Indices: 52607447--52607523 Score: 86
Period size: 3 Copynumber: 25.3 Consensus size: 3
52607437 GTATTATCAT
52607447 TTA TTA TTA TTA TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * *
52607492 TGTA -TA TTA CTG TTA CTTA TCA TTA TTA TTA T
1 T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T
52607524 GTGATAGCTT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
2 3 0.05
3 54 0.86
4 6 0.10
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:52609628 original size:19 final size:20
Alignment explanation
Indices: 52609588--52609631 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
52609578 ATCTCTTTAG
* *
52609588 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
52609607 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
52609626 GCATTA
1 GCATTA
52609632 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:52611732 original size:9 final size:9
Alignment explanation
Indices: 52611718--52611772 Score: 96
Period size: 9 Copynumber: 6.3 Consensus size: 9
52611708 TGAATTCAAA
52611718 AAAAAAATC
1 AAAAAAATC
52611727 -AAAAAATC
1 AAAAAAATC
52611735 AAAAAAATC
1 AAAAAAATC
52611744 AAAAAAATC
1 AAAAAAATC
52611753 -AAAAAATC
1 AAAAAAATC
52611761 AAAAAAATC
1 AAAAAAATC
52611770 AAA
1 AAA
52611773 GTCAAAATAG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.36
9 28 0.64
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:52611740 original size:17 final size:17
Alignment explanation
Indices: 52611719--52611772 Score: 92
Period size: 17 Copynumber: 3.2 Consensus size: 17
52611709 GAATTCAAAA
52611719 AAAAAATC-AAAAAATC
1 AAAAAATCAAAAAAATC
52611735 AAAAAAATCAAAAAAATC
1 -AAAAAATCAAAAAAATC
52611753 AAAAAATCAAAAAAATC
1 AAAAAATCAAAAAAATC
52611770 AAA
1 AAA
52611773 GTCAAAATAG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
17 28 0.78
18 8 0.22
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAAATCAAAAAAATC
Found at i:52611752 original size:26 final size:26
Alignment explanation
Indices: 52611718--52611772 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
52611708 TGAATTCAAA
52611718 AAAAAAATCAAAAAATCAAAAAAATC
1 AAAAAAATCAAAAAATCAAAAAAATC
52611744 AAAAAAATCAAAAAATCAAAAAAATC
1 AAAAAAATCAAAAAATCAAAAAAATC
52611770 AAA
1 AAA
52611773 GTCAAAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.78, C:0.11, G:0.00, T:0.11
Consensus pattern (26 bp):
AAAAAAATCAAAAAATCAAAAAAATC
Found at i:52612782 original size:21 final size:21
Alignment explanation
Indices: 52612756--52612802 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
52612746 GCTCAAATAT
52612756 TGATCAGAATGGGGCATGAAG
1 TGATCAGAATGGGGCATGAAG
* *
52612777 TGATCAGATTGGGGCATGTAG
1 TGATCAGAATGGGGCATGAAG
52612798 TGATC
1 TGATC
52612803 CTGCTATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.28, C:0.11, G:0.36, T:0.26
Consensus pattern (21 bp):
TGATCAGAATGGGGCATGAAG
Found at i:52614036 original size:88 final size:88
Alignment explanation
Indices: 52613887--52614484 Score: 860
Period size: 88 Copynumber: 6.7 Consensus size: 88
52613877 ACGAAGTTAT
*
52613887 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCGTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
52613952 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGATAAA
* *
52613975 AGATCTTGCCTTCCGGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTA
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
52614040 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGATAAA
* * *
52614063 AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCAAAGACACAAACCTTAACCTTGCCTCTCT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC--A----AACCTTGCCTCTCT
*
52614128 CGGTTGTGATGGAGCTGGTTGAAGACAAA
60 CGGTTGTGATGGAGCTGGTTGAAGATAAA
* *
52614157 AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
52614222 TGATGGAGCTGGTTGAAGATAAA
66 TGATGGAGCTGGTTGAAGATAAA
* *
52614245 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCCCTCAGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
52614310 TGATGGAGCTGGTTGAAGACAAC
66 TGATGGAGCTGGTTGAAGATAAA
* * *
52614333 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCAAAGACACAAACCTTGCCTCTCTCAGTTA
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
* * * **
52614398 TGGTGGAGCTGATTAAAGATAGC
66 TGATGGAGCTGGTTGAAGATAAA
* * ** * *
52614421 AGATCTTGCCTTCCTGCGTTAACAATGAAGCAGATTGAA-A-ACAAAGCCTTGCCTC-CATCGGT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAA-CCTTGCCTCTC-TCGGT
52614483 TG
64 TG
52614485 CAGTGAAGCT
Statistics
Matches: 468, Mismatches: 34, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
86 6 0.01
87 15 0.03
88 361 0.77
90 1 0.00
92 1 0.00
94 84 0.18
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGATAAA
Found at i:52614372 original size:270 final size:270
Alignment explanation
Indices: 52613887--52614383 Score: 895
Period size: 270 Copynumber: 1.8 Consensus size: 270
52613877 ACGAAGTTAT
* *
52613887 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCGTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCGAAGACACAAACCGTGCCTCTCTCGGTTG
52613952 TGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCGGCATTGACAGCGAAGCAGGTCGAAGAC
66 TGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCGGCATTGACAGCGAAGCAGGTCGAAGAC
* * *
52614017 ACAAACCTTGCCTCTCTCGGTTATGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCTGCAT
131 ACAAACCTTGCCTCCCTCAGTTATGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
52614082 TGACAGCAAAGCAAGTCAAAGACACAAACCTTAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
196 TGACAGCAAAGCAAGTCAAAGACACAAACCTTAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
52614147 TGAAGACAAA
261 TGAAGACAAA
*
52614157 AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCGAAGACACAAACCGTGCCTCTCTCGGTTG
*
52614222 TGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGAC
66 TGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCGGCATTGACAGCGAAGCAGGTCGAAGAC
* *
52614287 ACAAACCTTGCCTCCCTCAGTTGTGATGGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCAT
131 ACAAACCTTGCCTCCCTCAGTTATGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
* *
52614352 TGACAGCGAAGCAGGTCAAAGACACAAACCTT
196 TGACAGCAAAGCAAGTCAAAGACACAAACCTT
52614384 GCCTCTCTCA
Statistics
Matches: 216, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
270 216 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (270 bp):
AGATCTTGCCTTCCTGCATTGACAGCAAAGCAAGTCGAAGACACAAACCGTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGATAAAAGATCTTGCCTTCCGGCATTGACAGCGAAGCAGGTCGAAGAC
ACAAACCTTGCCTCCCTCAGTTATGATGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCAT
TGACAGCAAAGCAAGTCAAAGACACAAACCTTAACCTTGCCTCTCTCGGTTGTGATGGAGCTGGT
TGAAGACAAA
Found at i:52614709 original size:175 final size:175
Alignment explanation
Indices: 52614485--52615106 Score: 983
Period size: 175 Copynumber: 3.6 Consensus size: 175
52614475 CCATCGGTTG
* * * *
52614485 CAGTGAAGCTGATTAAAATAAATGATCTTATCTCTCTAAAGTTATAGTAGAGTAGATCGCACCAG
1 CAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
* *
52614550 GTCTTATTTCCCTGATATTACAGTGGAACAAACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
*
52614615 ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCTCTGAGATTA
131 ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
* * *
52614660 CAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTAAAGTTATAGTAGACTAGATCGCACCAG
1 CAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
52614725 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
*
52614790 ACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
131 ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
* * * ** *
52614835 CAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAA
1 CAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
52614900 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
*
52614965 ACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTA
131 ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
* * * * ***
52615010 CAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTGTCAG
1 CAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
* * * *
52615075 ATCTTATCTCCCTGAGATTACAGCGGAGCAGA
66 GTCTTATTTCCCTGAGATTACAGTGGAACAGA
52615107 TTGAAGTTAG
Statistics
Matches: 418, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 418 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (175 bp):
CAGTGGAGCGGATTAAAACAAATGATCTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCACCAG
GTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATT
ACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGATTA
Found at i:52614746 original size:85 final size:84
Alignment explanation
Indices: 52614651--52615108 Score: 255
Period size: 85 Copynumber: 5.3 Consensus size: 84
52614641 TCCTATCTCT
*
52614651 CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTAAAGTTATAGTAGACTAGA
1 CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCT-AAGTTACAGTAGACTAGA
*
52614716 TCGCACCAGGTCTTATTTCC
65 TCGCAACAGGTCTTATTTCC
* * ** * * * *
52614736 CTGAGATTACAGTGGAACAGACCGAAGAATTTC-A-GATCTTATCTCCCTGAGATTACAGTGGAG
1 CTGAGATTACAGTGGAGCGGA-TTAA-AA--CCAATGATCTTATCTCTCTAAG-TTACAGTAGA-
* * * * * *
52614799 C-AGATTGAAGATAGTAATCCTATCTCC
60 CTAGATCGCA-ACAG--GTCTTATTTCC
* *
52614826 CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGA
1 CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCT-AAGTTACAGTAGACTAGA
** *
52614891 TCGCGTCAAGTCTTATTTCC
65 TCGCAACAGGTCTTATTTCC
* * ** * * * **
52614911 CTGAGATTACAGTGGAACAGACCGAAGAATTTC-A-GATCTTATCTCCCTGAGATTACAGCGGAG
1 CTGAGATTACAGTGGAGCGGA-TTAA-AA--CCAATGATCTTATCTCTCTAAG-TTACAGTAGA-
* * * *
52614974 C-AGATTG-AAGCTAGTAATCCTATCTCC
60 CTAGATCGCAA-C-AG--GTCTTATTTCC
** * * *
52615001 CTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGA
1 CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCT-AAGTTACAGTAGACTAGA
*** * *
52615066 TCGTGTCAGATCTTATCTCC
65 TCGCAACAGGTCTTATTTCC
* *
52615086 CTGAGATTACAGCGGAGCAGATT
1 CTGAGATTACAGTGGAGCGGATT
52615109 GAAGTTAGTA
Statistics
Matches: 277, Mismatches: 68, Indels: 56
0.69 0.17 0.14
Matches are distributed among these distances:
85 77 0.28
86 10 0.04
87 64 0.23
88 62 0.22
89 10 0.04
90 54 0.19
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (84 bp):
CTGAGATTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTAAGTTACAGTAGACTAGAT
CGCAACAGGTCTTATTTCC
Found at i:52615099 original size:129 final size:129
Alignment explanation
Indices: 52614942--52615235 Score: 498
Period size: 129 Copynumber: 2.3 Consensus size: 129
52614932 CCGAAGAATT
52614942 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
52615007 TTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
*
52615071 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
52615136 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
66 TTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
* * * * *
52615200 TTAGGTCTTATTTCCCTGAGATTACAGTGGAACAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA
52615236 CCGAAGAATT
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 155 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAGGATCCTATCTCTCTGAAGTTACAGCAGAGTAGATCGCG
Found at i:52615222 original size:85 final size:84
Alignment explanation
Indices: 52615073--52615415 Score: 294
Period size: 88 Copynumber: 4.0 Consensus size: 84
52615063 AGATCGTGTC
* * * * *
52615073 AGATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGAT
1 AGATCTTATCTCTCTGAAG-TTACAGCAGAGTAGATCG-AGTTAG--ATCTTATCTCCCTGAGAT
**
52615137 TACAGTGGAGTGGATTAAAATAA
62 TACAGTGGAGCAGATTAAAATAA
* * *
52615160 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTTAGGTCTTATTTCCCTGAGATTAC
1 A-GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGAGTTAGATCTTATCTCCCTGAGATTAC
* ** **
52615225 AGTGGAACAGACCGAAGAATTTC
65 AGTGGAGCAGA-TTAA-AA-TAA
* * ** * * * *
52615248 AGATCTTATCTCCCTG-AGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAAT
1 AGATCTTATCTCTCTGAAG-TTACAGCAGAGTAGATCG-AGTTAG--ATCTTATCTCCCTGAGAT
*
52615312 TACAGTGGAGCGGATTAAAATAA
62 TACAGTGGAGCAGATTAAAATAA
* * * *
52615335 ATGATCTTATCTCTCTGAAGTTAGAGTAGAGTAGATCGTGTCAGATCTTATCTCCCTGAGATTAC
1 A-GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGAGTTAGATCTTATCTCCCTGAGATTAC
*
52615400 AGCGGAGCAGATTAAA
65 AGTGGAGCAGATTAAA
52615416 GCTAGTAATC
Statistics
Matches: 199, Mismatches: 46, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
85 59 0.30
86 4 0.02
87 41 0.21
88 63 0.32
89 6 0.03
90 26 0.13
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (84 bp):
AGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGAGTTAGATCTTATCTCCCTGAGATTACA
GTGGAGCAGATTAAAATAA
Found at i:52615252 original size:175 final size:175
Alignment explanation
Indices: 52615071--52615410 Score: 563
Period size: 175 Copynumber: 1.9 Consensus size: 175
52615061 GTAGATCGTG
* * *
52615071 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
*
52615136 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
* * * *
52615201 TAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
131 CAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAGAATT
52615246 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
* * * *
52615311 TTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTAGAGTAGAGTAGATCGTGT
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
*
52615376 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGA
131 CAGATCTTATCTCCCTGAGATTACAGCGGAACAGA
52615411 TTAAAGCTAG
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 152 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (175 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
CAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAGAATT
Found at i:52615404 original size:129 final size:129
Alignment explanation
Indices: 52615246--52615501 Score: 449
Period size: 129 Copynumber: 2.0 Consensus size: 129
52615236 CCGAAGAATT
*
52615246 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTAAAGCTAGTAATCCTATCTCCCTGAAA
* * * *
52615311 TTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTAGAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGTG
* *
52615375 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTAAAGCTAGTAATCCTATCTCCCTGAAA
52615440 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCG
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCG
52615502 CATCAGGTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 120 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTAAAGCTAGTAATCCTATCTCCCTGAAA
TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGTG
Found at i:52615529 original size:129 final size:129
Alignment explanation
Indices: 52615246--52615566 Score: 437
Period size: 129 Copynumber: 2.5 Consensus size: 129
52615236 CCGAAGAATT
*
52615246 TCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
1 TCAGATCTTACCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
* * * * **
52615311 TTACAGTGGAGCGGATTAAAATAAATGATCTTATCTCTCTGAAGTTAGAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCA
* * * *
52615375 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTACCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
52615440 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCA
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCA
* * * * ** * * * *
52615504 TCAGGTTTTACCTCCCT-ATGGTTACAGTGGATTACATTGAAGCCAGTAATTCTCTCTCCCTGA
1 TCAGATCTTACCTCCCTGA-GATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGA
52615567 CGTTACGGAG
Statistics
Matches: 170, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
128 1 0.01
129 169 0.99
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (129 bp):
TCAGATCTTACCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAA
TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCA
Found at i:52615534 original size:304 final size:304
Alignment explanation
Indices: 52614767--52615509 Score: 1324
Period size: 304 Copynumber: 2.4 Consensus size: 304
52614757 CCGAAGAATT
*
52614767 TCAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* *
52614832 TTACAGTGGAGCGGATTAAAACCAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
*
52614897 CAAGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* *
52614962 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
196 ATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAA
52615027 ATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
261 ATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
*
52615071 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* *
52615136 TTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
*
52615201 TAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
131 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
52615266 ATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAA
196 ATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAA
* * *
52615331 ATAAATGATCTTATCTCTCTGAAGTTAGAGTAGAGTAGATCGTG
261 ATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
* *
52615375 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
* * *
52615440 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCACTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
52615505 CAGGT
131 CAGGT
52615510 TTTACCTCCC
Statistics
Matches: 418, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
304 418 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (304 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGATAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGT
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAAATTACAGTGGAGCGGATTAAA
ATAAAGGATCCTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
Found at i:52617725 original size:21 final size:21
Alignment explanation
Indices: 52617699--52617740 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
52617689 AAAGGGTCTG
52617699 TTAAAATGAATTTTTTCAGAA
1 TTAAAATGAATTTTTTCAGAA
52617720 TTAAAATGAATTTTTTCAGAA
1 TTAAAATGAATTTTTTCAGAA
52617741 AAGTGGGGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.43
Consensus pattern (21 bp):
TTAAAATGAATTTTTTCAGAA
Found at i:52618185 original size:19 final size:17
Alignment explanation
Indices: 52618163--52618222 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
52618153 ATTATCTTCT
52618163 TCATTATTTTAATGTATTA
1 TCATTATTTT-AT-TATTA
*
52618182 TCATT-TATTATTATTA
1 TCATTATTTTATTATTA
*
52618198 TTATTATTTCTATTATTA
1 TCATTATTT-TATTATTA
*
52618216 TTATTAT
1 TCATTAT
52618223 GTATATTACT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 9 0.25
17 4 0.11
18 18 0.50
19 5 0.14
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (17 bp):
TCATTATTTTATTATTA
Found at i:52618194 original size:3 final size:3
Alignment explanation
Indices: 52618186--52618253 Score: 68
Period size: 3 Copynumber: 22.3 Consensus size: 3
52618176 GTATTATCAT
52618186 TTA TTA TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA TGTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-TA TTA TTA
* * *
52618231 CTG TTA CTTA TCA TTA TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA T
52618254 GTGATAGCTT
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
2 3 0.06
3 45 0.83
4 6 0.11
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:52618318 original size:16 final size:17
Alignment explanation
Indices: 52618291--52618326 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
52618281 TTTTCTAACC
52618291 TATTTAATATATATAAA
1 TATTTAATATATATAAA
52618308 TATTT-ATATATATAAA
1 TATTTAATATATATAAA
52618324 TAT
1 TAT
52618327 CTATGTGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTTAATATATATAAA
Found at i:52622360 original size:286 final size:286
Alignment explanation
Indices: 52621843--52622414 Score: 1002
Period size: 286 Copynumber: 2.0 Consensus size: 286
52621833 TATTTAGTTG
* *
52621843 CCAAAGCTATGCACACCTTATTTTGTGCACTTGGCTTGAAAGGATATATTAAAGTATCATTTTGT
1 CCAAAGCTATGCACACCTTATTTTGTGCACTTGGCTTGAAAGAATATATTAAAGTATCATCTTGT
* * * *
52621908 TCCAATGCCAATGAGATATGGGATTAGCTTGAAGTCACACATGAACGTATTAGCCAATTAAAGAA
66 TCCAATGCCAATGAGATATGGGATAAGCTTGAAGTCACACATGAACATATCAGCCAATTAAAAAA
*
52621973 GTCTAAAGTTGGAATTCTTACTCTAAATTATGAAACCTTCAAGATGAAGCTCGAAGAAGATATCA
131 GTCTAAAGTTGGAATTCTTACTCTAAATTATGAAACCTTCAAAATGAAGCTCGAAGAAGATATCA
*
52622038 AGACGATGTTCGACCGGTTTACTATCATCATCAATGGATTAAAGTCTTAT-GAGAAGACATATCC
196 AGACGATGTTCGACCAGTTTACTATCATCATCAATGGATTAAAGTCTTATAG-GAAGACATATCC
52622102 AAATGAAAAGGTGGTAAGGAAGATGCT
260 AAATGAAAAGGTGGTAAGGAAGATGCT
* * *
52622129 CCAAGGCTATGCACACCTTATTTTGTGTACTTGGCTTGAAAGAATATATTAGAGTATCATCTTGT
1 CCAAAGCTATGCACACCTTATTTTGTGCACTTGGCTTGAAAGAATATATTAAAGTATCATCTTGT
52622194 TCCAATGCCAATGAGATATGGGATAAGCTTGAAGTCACACATGAACATATCAGCCAATTAAAAAA
66 TCCAATGCCAATGAGATATGGGATAAGCTTGAAGTCACACATGAACATATCAGCCAATTAAAAAA
* *
52622259 GTCTAAAGTTGGAATTCTTACTCTAAATTATGAAACCTTCAAAATGAAGCTCGAGGGAGATATCA
131 GTCTAAAGTTGGAATTCTTACTCTAAATTATGAAACCTTCAAAATGAAGCTCGAAGAAGATATCA
*
52622324 AGACGATGTTCGATCAGTTTACTATCATCATCAATGGATTAAAGTCTTATAGGAAGACATATCCA
196 AGACGATGTTCGACCAGTTTACTATCATCATCAATGGATTAAAGTCTTATAGGAAGACATATCCA
52622389 AATGAAAAGGTGGTAAGGAAGATGCT
261 AATGAAAAGGTGGTAAGGAAGATGCT
52622415 TCGCAGCTTG
Statistics
Matches: 271, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
286 270 1.00
287 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (286 bp):
CCAAAGCTATGCACACCTTATTTTGTGCACTTGGCTTGAAAGAATATATTAAAGTATCATCTTGT
TCCAATGCCAATGAGATATGGGATAAGCTTGAAGTCACACATGAACATATCAGCCAATTAAAAAA
GTCTAAAGTTGGAATTCTTACTCTAAATTATGAAACCTTCAAAATGAAGCTCGAAGAAGATATCA
AGACGATGTTCGACCAGTTTACTATCATCATCAATGGATTAAAGTCTTATAGGAAGACATATCCA
AATGAAAAGGTGGTAAGGAAGATGCT
Found at i:52632301 original size:6 final size:6
Alignment explanation
Indices: 52632292--52632360 Score: 59
Period size: 6 Copynumber: 10.7 Consensus size: 6
52632282 TAAGTCTAAG
*
52632292 AAAATA AAAATAA AAAATA AAACA-A AAAATA AAAATAA AACAACTA AAAACA
1 AAAATA AAAAT-A AAAATA AAA-ATA AAAATA AAAAT-A AA-AA-TA AAAATA
*
52632344 AAACATA AAAAGA AAAA
1 AAA-ATA AAAATA AAAA
52632361 AAAGAAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
5 1 0.02
6 29 0.55
7 17 0.32
8 5 0.09
9 1 0.02
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.10
Consensus pattern (6 bp):
AAAATA
Found at i:52632308 original size:13 final size:13
Alignment explanation
Indices: 52632292--52632361 Score: 79
Period size: 13 Copynumber: 5.3 Consensus size: 13
52632282 TAAGTCTAAG
*
52632292 AAAATAAAAATAA
1 AAAATAAAAACAA
52632305 AAAAT-AAAACAA
1 AAAATAAAAACAA
*
52632317 AAAATAAAAATAA
1 AAAATAAAAACAA
52632330 AACAACTAAAAACAA
1 AA-AA-TAAAAACAA
* *
52632345 AACATAAAAAGAA
1 AAAATAAAAACAA
52632358 AAAA
1 AAAA
52632362 AAGAAAAAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
12 11 0.23
13 24 0.50
14 3 0.06
15 10 0.21
ACGTcount: A:0.81, C:0.07, G:0.01, T:0.10
Consensus pattern (13 bp):
AAAATAAAAACAA
Found at i:52632309 original size:7 final size:7
Alignment explanation
Indices: 52632292--52632384 Score: 54
Period size: 7 Copynumber: 13.7 Consensus size: 7
52632282 TAAGTCTAAG
52632292 AAAAT-A
1 AAAATAA
52632298 AAAATAA
1 AAAATAA
52632305 AAAAT--
1 AAAATAA
*
52632310 AAAACAA
1 AAAATAA
52632317 AAAAT-A
1 AAAATAA
52632323 AAAATAA
1 AAAATAA
52632330 AACAACT-A
1 AA-AA-TAA
*
52632338 AAAACAA
1 AAAATAA
*
52632345 AACATAA
1 AAAATAA
*
52632352 AAAGAAAA
1 AAA-ATAA
*
52632360 AAAAGAA
1 AAAATAA
*
52632367 AAAAGAA
1 AAAATAA
*
52632374 AACA-AA
1 AAAATAA
52632380 AAAAT
1 AAAAT
52632385 CAATAATAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 17
0.72 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 16 0.24
7 36 0.53
8 11 0.16
9 1 0.01
ACGTcount: A:0.82, C:0.06, G:0.03, T:0.09
Consensus pattern (7 bp):
AAAATAA
Found at i:52632318 original size:18 final size:18
Alignment explanation
Indices: 52632297--52632334 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
52632287 CTAAGAAAAT
52632297 AAAAATAAAAAATAAAACA
1 AAAAAT-AAAAATAAAACA
52632316 AAAAATAAAAATAAAACA
1 AAAAATAAAAATAAAACA
52632334 A
1 A
52632335 CTAAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.84, C:0.05, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAATAAAAATAAAACA
Found at i:52632368 original size:28 final size:29
Alignment explanation
Indices: 52632292--52632383 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
52632282 TAAGTCTAAG
* * *
52632292 AAAATAAAAATAAAAAATAAAACAAAAAATA
1 AAAAGAAAAA-AAAGAA-AAAACAAAACATA
* * **
52632323 AAAA-TAAAACAACTAAAAACAAAACATA
1 AAAAGAAAAAAAAGAAAAAACAAAACATA
* *
52632351 AAAAGAAAAAAAAGAAAAAAGAAAACAAA
1 AAAAGAAAAAAAAGAAAAAACAAAACATA
52632380 AAAA
1 AAAA
52632384 TCAATAATAA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
28 16 0.33
29 25 0.51
30 4 0.08
31 4 0.08
ACGTcount: A:0.83, C:0.07, G:0.03, T:0.08
Consensus pattern (29 bp):
AAAAGAAAAAAAAGAAAAAACAAAACATA
Found at i:52632392 original size:3 final size:3
Alignment explanation
Indices: 52632386--52632459 Score: 53
Period size: 3 Copynumber: 24.7 Consensus size: 3
52632376 CAAAAAAATC
* * * * * *
52632386 AAT AAT AAT AAT CAT AAT CAT AAT CAT AAT AAT AAC AGT AA- AACA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
52632431 AAT AAT AAT AGT AAT GAA- AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
52632460 ACATGAAAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
2 4 0.07
3 46 0.85
4 4 0.07
ACGTcount: A:0.62, C:0.07, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:52632408 original size:12 final size:12
Alignment explanation
Indices: 52632382--52632420 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
52632372 AAAACAAAAA
52632382 AATCAATAATAAT
1 AATC-ATAATAAT
*
52632395 AATCATAATCAT
1 AATCATAATAAT
52632407 AATCATAATAAT
1 AATCATAATAAT
52632419 AA
1 AA
52632421 CAGTAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (12 bp):
AATCATAATAAT
Found at i:52632480 original size:17 final size:18
Alignment explanation
Indices: 52632430--52632480 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
52632420 ACAGTAAAAC
*
52632430 AAATAATAATAGTA-ATGA
1 AAATAATAATA-AACATGA
52632448 AAATAATAATAAACATGA
1 AAATAATAATAAACATGA
52632466 AAACTAA-AA-AAACAT
1 AAA-TAATAATAAACAT
52632481 TGATTAAATG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 20 0.67
19 3 0.10
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.22
Consensus pattern (18 bp):
AAATAATAATAAACATGA
Found at i:52632626 original size:15 final size:14
Alignment explanation
Indices: 52632604--52632657 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
52632594 TAGATCAGTA
52632604 AAATAAAAATAAAT
1 AAATAAAAATAAAT
52632618 AATATAAAAATAAAT
1 AA-ATAAAAATAAAT
52632633 AAATAATAAATTAGAAT
1 AAATAA-AAA-TA-AAT
*
52632650 AAAGAAAA
1 AAATAAAA
52632658 GGGTAAAAGG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 6 0.17
15 17 0.49
16 4 0.11
17 8 0.23
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.22
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:52634318 original size:30 final size:30
Alignment explanation
Indices: 52634243--52634324 Score: 74
Period size: 30 Copynumber: 2.7 Consensus size: 30
52634233 GGTTAGGCAG
* * *
52634243 ACGCCCGCGTAAGCCACATGGGCTAGACAT
1 ACGCCCGTGTAAGCCACACGGGCTAGACAC
* * * * *
52634273 ATGTCTGTGTCAGCCAGACGGGCTAGACAC
1 ACGCCCGTGTAAGCCACACGGGCTAGACAC
* *
52634303 ACGCCCGTGTGAGCCATACGGG
1 ACGCCCGTGTAAGCCACACGGG
52634325 TTGGAAACAT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.16
Consensus pattern (30 bp):
ACGCCCGTGTAAGCCACACGGGCTAGACAC
Found at i:52638023 original size:18 final size:18
Alignment explanation
Indices: 52637978--52638050 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
52637968 CAAATAGAAT
52637978 AGATGCAGATACA-ATAAC
1 AGATGCAGATACAGAT-AC
* ** *
52637996 TGATATAGATTCAGATAC
1 AGATGCAGATACAGATAC
*
52638014 AGATGCAGATGCAGATAC
1 AGATGCAGATACAGATAC
* * *
52638032 GGATTCAGACACAGATAC
1 AGATGCAGATACAGATAC
52638050 A
1 A
52638051 AATATAGTGT
Statistics
Matches: 41, Mismatches: 13, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
18 39 0.95
19 2 0.05
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (18 bp):
AGATGCAGATACAGATAC
Found at i:52645728 original size:47 final size:43
Alignment explanation
Indices: 52645647--52645748 Score: 123
Period size: 47 Copynumber: 2.3 Consensus size: 43
52645637 AAAACAATTT
** *
52645647 AAAATAAATAATAATTTAAAATAAATGATTTATAGGAACAACTC
1 AAAATAAATAATAATTTAAAATAAACAATATATAGGAA-AACTC
* *
52645691 AAAATAAATAATAAAAGTTTCAAATAAACAATATATAGGAAAACTT
1 AAAATAAATAAT--AA-TTTAAAATAAACAATATATAGGAAAACTC
52645737 AAAATAAATAAT
1 AAAATAAATAAT
52645749 GATAAAACAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 12 0.24
46 18 0.36
47 20 0.40
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (43 bp):
AAAATAAATAATAATTTAAAATAAACAATATATAGGAAAACTC
Found at i:52645849 original size:15 final size:15
Alignment explanation
Indices: 52645829--52645861 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
52645819 AAAGATATAT
52645829 ATATAATAGTTTACA
1 ATATAATAGTTTACA
52645844 ATATAATAGTTTACA
1 ATATAATAGTTTACA
52645859 ATA
1 ATA
52645862 AATGATATAT
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:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (15 bp):
ATATAATAGTTTACA
Found at i:52645938 original size:20 final size:20
Alignment explanation
Indices: 52645913--52645952 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
52645903 AACGGTTTAA
52645913 AATTAATGATGATAAAAGAG
1 AATTAATGATGATAAAAGAG
52645933 AATTAATGATGATAAAAGAG
1 AATTAATGATGATAAAAGAG
52645953 CTTTCTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (20 bp):
AATTAATGATGATAAAAGAG
Found at i:52653375 original size:16 final size:17
Alignment explanation
Indices: 52653347--52653391 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
52653337 ATAAGTTTAA
52653347 AAAAAATTAAAAATATTT
1 AAAAAA-TAAAAATATTT
52653365 AAAAAATAAAAATATTT
1 AAAAAATAAAAATATTT
52653382 -AAAAATAAAA
1 AAAAAATAAAA
52653392 GATTAAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 10 0.37
17 11 0.41
18 6 0.22
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAAATAAAAATATTT
Found at i:52653384 original size:10 final size:10
Alignment explanation
Indices: 52653342--52653388 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
52653332 TATATATAAG
*
52653342 TTTAAAAAAA
1 TTTAAAAATA
*
52653352 ATTAAAAATA
1 TTTAAAAATA
52653362 TTTAAAAA-A
1 TTTAAAAATA
52653371 --TAAAAATA
1 TTTAAAAATA
52653379 TTTAAAAATA
1 TTTAAAAATA
52653389 AAAGATTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
7 6 0.19
8 1 0.03
9 1 0.03
10 23 0.74
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:52657256 original size:171 final size:170
Alignment explanation
Indices: 52656968--52657414 Score: 725
Period size: 171 Copynumber: 2.6 Consensus size: 170
52656958 CGGTATGGAG
* * * *
52656968 TACAATTTATTTTTAATTTGAAGTTTGGATTTCGGACCTTCGTTTAGGGAAATAAATGAATTACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCACT
* *
52657033 GGAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTATTCCAATACTTGTTGTAACCTC
66 -GAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTATTCCAATACTTATTGTAACCTC
* * *
52657098 TAGTAATATTATTTTCGTCATATGATATGGCGTCTTGCAAT
130 TAGTAATATTATTTTCATCATAAGATATGGAGTCTTGCAAT
*
52657139 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTTGGGAAATGAATGAATCACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCACT
* *
52657204 AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTTCAATACTTATTGTAACCTC
66 -GAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTATTCCAATACTTATTGTAACCTC
*
52657269 TCGTAATATTATTTTCATCATAAGATATGGAGTCTTGCAAT
130 TAGTAATATTATTTTCATCATAAGATATGGAGTCTTGCAAT
*
52657310 TACAATTTATTTTTAGTTCT-AAGTTTAGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCAC
1 TACAATTTATTTTTAGTT-TGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCAC
52657374 TGCAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAA
65 TG-AACGTTTTCAAATATTTATAGTGTTCCAATAACTATAA
52657415 ATGAATGGGT
Statistics
Matches: 258, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
170 1 0.00
171 256 0.99
172 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.42
Consensus pattern (170 bp):
TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCACT
GAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTATTCCAATACTTATTGTAACCTCT
AGTAATATTATTTTCATCATAAGATATGGAGTCTTGCAAT
Found at i:52659811 original size:14 final size:14
Alignment explanation
Indices: 52659775--52659814 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
52659765 ATGAATATTG
52659775 ATAT-GATAGG-AA
1 ATATCGATAGGAAA
52659787 A-ATCG-TAGGAAA
1 ATATCGATAGGAAA
52659799 ATATCGATAGGAAA
1 ATATCGATAGGAAA
52659813 AT
1 AT
52659815 TTTACCGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.25
12 5 0.21
13 4 0.17
14 9 0.38
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.23
Consensus pattern (14 bp):
ATATCGATAGGAAA
Found at i:52663596 original size:356 final size:356
Alignment explanation
Indices: 52662943--52663658 Score: 1351
Period size: 356 Copynumber: 2.0 Consensus size: 356
52662933 CGTCACCTAA
*
52662943 AGGCACAACCTTGAAATACAAGCCACTTAACAACACCTATTGACACCTTGAGCTATAGACGATTT
1 AGGCACAACCTTGAAATACAAGCCACTTAACAACACCTATTGACACCCTGAGCTATAGACGATTT
*
52663008 CTTGCAACTCGCTCAAAATTTTATTTCTCAATAATCCTCTCAATATTTTGCAATGAGTTATAAAG
66 CTTGCAACTCGCTCAAAATTTTATTTCTCAATAATCCTCTCAATATTTTGCAAGGAGTTATAAAG
*
52663073 ATCAAGATAATTTTTCATAGCATTCTTATGTAAAGAATTTGCATCCTTACCCACATGAGTAACAA
131 ATCAAGATAATTTTTCATAGCATTCTTATGTAAAGAATTTGCATCCTTAACCACATGAGTAACAA
52663138 AAGGACATTTAGATCCTTCATTGACCTTCTTTCATGATCGAAATCCTTGGCTTGTAAAAGTATTT
196 AAGGACATTTAGATCCTTCATTGACCTTCTTTCATGATCGAAATCCTTGGCTTGTAAAAGTATTT
*
52663203 CAATGATCCCAAATGGCTTGTTGAAGAGAAAACAAAGAACGAAATTCCAAAATAACATTCTAGAA
261 CAATGATCCCAAATGGCTTGTTGAAGAGAAAACAAAGAACGAAATACCAAAATAACATTCTAGAA
52663268 ATTCAAATTTTGATGAAGGTATCAATACCTT
326 ATTCAAATTTTGATGAAGGTATCAATACCTT
*
52663299 AGGCACAACCTTGAAATACAAGCCACTTAACAACACCTATTGACACCCTGAGCTATAGCCGATTT
1 AGGCACAACCTTGAAATACAAGCCACTTAACAACACCTATTGACACCCTGAGCTATAGACGATTT
* *
52663364 CTTGCAACTCGCTCAGAATTTTGTTTCTCAATAATCCTCTCAATATTTTGCAAGGAGTTATAAAG
66 CTTGCAACTCGCTCAAAATTTTATTTCTCAATAATCCTCTCAATATTTTGCAAGGAGTTATAAAG
52663429 ATCAAGATAATTTTTCATAGCATTCTTATGTAAAGAATTTGCATCCTTAACCACATGAGTAACAA
131 ATCAAGATAATTTTTCATAGCATTCTTATGTAAAGAATTTGCATCCTTAACCACATGAGTAACAA
52663494 AAGGACATTTAGATCCTTCATTGACCTTCTTTCATGATCGAAATCCTTGGCTTGTAAAAGTATTT
196 AAGGACATTTAGATCCTTCATTGACCTTCTTTCATGATCGAAATCCTTGGCTTGTAAAAGTATTT
* *
52663559 CAATGATCCCAAATGGCTTTTTGAAGAGAAAACAAAGAACGAAATACCAAAATAACATTCTAGTA
261 CAATGATCCCAAATGGCTTGTTGAAGAGAAAACAAAGAACGAAATACCAAAATAACATTCTAGAA
52663624 ATTCAAATTTTGATGAAGGTATCAATACCTT
326 ATTCAAATTTTGATGAAGGTATCAATACCTT
52663655 AGGC
1 AGGC
52663659 CTAGGTATCG
Statistics
Matches: 351, Mismatches: 9, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
356 351 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (356 bp):
AGGCACAACCTTGAAATACAAGCCACTTAACAACACCTATTGACACCCTGAGCTATAGACGATTT
CTTGCAACTCGCTCAAAATTTTATTTCTCAATAATCCTCTCAATATTTTGCAAGGAGTTATAAAG
ATCAAGATAATTTTTCATAGCATTCTTATGTAAAGAATTTGCATCCTTAACCACATGAGTAACAA
AAGGACATTTAGATCCTTCATTGACCTTCTTTCATGATCGAAATCCTTGGCTTGTAAAAGTATTT
CAATGATCCCAAATGGCTTGTTGAAGAGAAAACAAAGAACGAAATACCAAAATAACATTCTAGAA
ATTCAAATTTTGATGAAGGTATCAATACCTT
Found at i:52668993 original size:182 final size:180
Alignment explanation
Indices: 52668753--52669091 Score: 466
Period size: 182 Copynumber: 1.9 Consensus size: 180
52668743 TATGGCAAAT
* *
52668753 CTTATCTCCCTAAAGTTGCAGCGAAGCAGATTAAGTCACTAATCTTACCCCCTGAAGTTAT-AGT
1 CTTATCTCCCTAAAGTTGCAGCGAAGCAGATTAAGTCACCAATCTTACCCCCTGAAGTT-TCACT
* **
52668817 GGGGTAGATTGCAGTTACAAGT-TTGATCTCCCTGAAGATGAAGTGGAGCAGACTGAAGATAGCA
65 AGGGTAGATTAAAGTTACAAGTCTT-ATCTCCCTGAAGATGAAGTGGAGCAGACTGAAGATAGCA
* *
52668881 AGTCTCATTTCCCTGAAGTTGCAGTGGAATAGATTAAGGCTAAATTACAGAC
129 AATCTCATGTCCCTGAAGTTGCAGTGGAATAGATTAAGGCTAAATTACAGAC
* * * * * * *
52668933 CTTATCTCCCTGAATTTGTAGTGGAGCAGGTTAAAGTCACCAATCTTATTCCCCTGAAGTTTCAC
1 CTTATCTCCCTAAAGTTGCAGCGAAGCAGATT-AAGTCACCAATCTTA-CCCCCTGAAGTTTCAC
* * *
52668998 TAGGGTAGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
64 TAGGGTAGATTAAAGTTACAAGTCTTATCTCCCTGAAGATGAAGTGGAGCAGACTGAAGATAGCA
*
52669063 AATCTTATGTCCCTGAAGTTGCAGTGGAA
129 AATCTCATGTCCCTGAAGTTGCAGTGGAA
52669092 CAAATTGAAG
Statistics
Matches: 137, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
180 26 0.19
181 15 0.11
182 94 0.69
183 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (180 bp):
CTTATCTCCCTAAAGTTGCAGCGAAGCAGATTAAGTCACCAATCTTACCCCCTGAAGTTTCACTA
GGGTAGATTAAAGTTACAAGTCTTATCTCCCTGAAGATGAAGTGGAGCAGACTGAAGATAGCAAA
TCTCATGTCCCTGAAGTTGCAGTGGAATAGATTAAGGCTAAATTACAGAC
Found at i:52669050 original size:44 final size:44
Alignment explanation
Indices: 52668752--52669410 Score: 335
Period size: 44 Copynumber: 14.8 Consensus size: 44
52668742 TTATGGCAAA
* * * *
52668752 TCTTATCTCCCTAAAGTTGCAGCGAAGCAGATT-AAGTCACTAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AAG
* ** * * *
52668795 TCTTA-CCCCCTGAAGTTATAGTGGGGTAGATTGCAGTTACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
* * * *
52668838 T-TTGATCTCCCTGAAGATGAAGTGGAGCAGACTGAAGATAGCAAG
1 TCTT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAG
* * ** *
52668883 TCTCATTTCCCTGAAGTTGCAGTGGAATAGATTAAGGCTAAATTAC-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--AAGTTACAAG
* * * * * *
52668931 ACCTTATCTCCCTGAATTTGTAGTGGAGCAGGTTAAAGTCACCAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAG
* * * *
52668976 TCTTAT-TCCCCTGAAGTTTCACTAGG-GTAGATTAAAGTTACAAG
1 TCTTATCT-CCCTGAAGTTGCAGT-GGAGCAGATTGAAGTTACAAG
* * * *
52669020 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAAG
* * * *
52669065 TCTTATGTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAATTACAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T-T--A-CA-AG
* ** ** * *
52669115 ATCTTATATCTTTGAAGTTTTAGTAGAGC-G-TAT-CA--TATCAA-
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TGAAGTTA-CAAG
* * *
52669156 ACATTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAAGTTACAAG
1 TC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
* * * * * *
52669201 TCTTATCTCCCTGAAGTTGTAGTGGAGTAAACTGAAGATACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
* * * * *
52669245 TCTTATCCCCCTAAATTTGCAATAGG-GCAGATTGAAGCTACAAG
1 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGTTACAAG
* * *
52669289 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGATATCTAAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C-AAG
* * * * *
52669335 T-TTATCTCTCTGAAGTTACAGTGGAGCAGGTTAAAGTTTCTAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AAG
* * *
52669378 TCCTATCTCCCTGAAGTTGCACTGGAACAGATT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
52669411 AAAATGATGA
Statistics
Matches: 463, Mismatches: 114, Indels: 77
0.71 0.17 0.12
Matches are distributed among these distances:
40 1 0.00
41 21 0.05
42 26 0.06
43 26 0.06
44 218 0.47
45 105 0.23
46 5 0.01
47 1 0.00
48 3 0.01
49 30 0.06
50 6 0.01
51 21 0.05
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAAG
Found at i:52670597 original size:5 final size:5
Alignment explanation
Indices: 52670587--52670621 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
52670577 TTGGCCCTTC
52670587 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
52670622 TTCTTGTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:52670831 original size:26 final size:26
Alignment explanation
Indices: 52670802--52670880 Score: 97
Period size: 26 Copynumber: 3.1 Consensus size: 26
52670792 GTCATGGAGG
*
52670802 TTATTTATTTTAAATTGTTGTGTATA
1 TTATTTATTTTAAATTGTTGTGCATA
* * *
52670828 TTATTCATTTTAATTTGTTTTGCATA
1 TTATTTATTTTAAATTGTTGTGCATA
**
52670854 TTATTTACCTTAAATTGTTGTGC-TA
1 TTATTTATTTTAAATTGTTGTGCATA
52670879 TT
1 TT
52670881 TACTTTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 4 0.09
26 40 0.91
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTGTGCATA
Found at i:52676165 original size:82 final size:82
Alignment explanation
Indices: 52676077--52676929 Score: 1185
Period size: 82 Copynumber: 10.4 Consensus size: 82
52676067 TGTGTTTTTA
* * * * *
52676077 GTCTGCTCCACTACTGCGTAGGGAGATAAGACTGGATGTGATCTACTCCACTACTGCTTAGGG-G
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52676141 AATAAGATCTGTGGTTCT
66 -ATAAGATCTGTGGTTCT
52676159 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52676224 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
52676241 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
*
52676306 ATAAGATCCGTGGTTCT
66 ATAAGATCTGTGGTTCT
*
52676323 GTCTGCTCCACTATTGCTTAGGGAGGTAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52676388 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
* * *
52676405 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGCTACGATCTGCTCCACTATTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52676470 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
* *
52676487 ATCTGTTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52676552 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
*
52676569 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52676634 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
* * *
52676651 GTCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTGGTTCTG-TCTGCTCCACTATTGCTTAGG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGA-CT-TGATGC-GATCTGCTCCACTACTGCTTAGG
* * *
52676715 GAGGTAAGA-CT-TGATGC-
63 GAGATAAGATCTGTGGTTCT
* *
52676732 GATCTGCTCCACTATTGCTTAGGGAGATAAGA-TCTGTAGTTCTG-TCTGCTCCACTATTGCTTA
1 G-TCTGCTCCACTATTGCTTAGGGAGATAAGACT-TG-A-TGC-GATCTGCTCCACTACTGCTTA
* * *
52676795 GGGAGATACGA-CT-TGATGC-
61 GGGAGATAAGATCTGTGGTTCT
* * *
52676814 GATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTTTCTTTTG-TCTGCTCCACTACTGCTT
1 G-TCTGCTCCACTATTGCTTAGGGAGATAAGA-CTTGATGC----GATCTGCTCCACTACTGCTT
* *
52676878 AGGGAGATAAGA-CT-T-GATGT
60 AGGGAGATAAGATCTGTGGTTCT
* *
52676898 GACCTGCTCCACTACTGCTTAGGGAGATAAGA
1 G-TCTGCTCCACTATTGCTTAGGGAGATAAGA
52676930 TCTGGTTTCT
Statistics
Matches: 719, Mismatches: 39, Indels: 24
0.92 0.05 0.03
Matches are distributed among these distances:
80 3 0.00
81 4 0.01
82 608 0.85
83 6 0.01
84 97 0.13
85 1 0.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (82 bp):
GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTGTGGTTCT
Found at i:52677258 original size:99 final size:99
Alignment explanation
Indices: 52676951--52677743 Score: 929
Period size: 99 Copynumber: 8.0 Consensus size: 99
52676941 TCTGCTAGAG
* * * * *
52676951 AAGTGAGATTCGCCGTTGTGGCTTCAATCTGATTAATTGCAATGTCGGGGAA-CAAGATTCGCCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCT-TTTAATTGCAATATCAGGGAAGCAAGATTCGCCG
* *
52677015 TTGTAGCTTCAATCTGATCCACTGCATCGCCAAGA
65 TCGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
* *
52677050 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCAAGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTT-AATTGCAATATCAGGGAAGCAAGATTCGCCG
* * * *
52677115 TCGTAGCTTTAATCTGCTGCACTGTA-CTGCCA-GA
65 TCGTAGCTTCAATCTGATCCACTGCATC-GCCAGGA
* * * * * *
52677149 GAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTC-GGGGACCAAGATTTGCC
1 -AAGTAAGATTCGCCGTTGCGGCTTCAATCT-TTTAATTGCAATATCAGGGAAGCAAGATTCGCC
*
52677213 GTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
64 GTCGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
* *
52677249 AAGTAAGATTCACCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTT-TTAATTGCAATATCAGGGAAGCAAGATTCGCCG
* * * * **
52677314 TCGTAGCTTTAATCTGCTCTACTGTA-CTGCCAAAA
65 TCGTAGCTTCAATCTGATCCACTGCATC-GCCAGGA
* * * * * *
52677349 AAGT-AGATTTGCCATTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAA-CAAGATTCACCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCT-TTTAATTGCAATATCAGGGAAGCAAGATTCGCCG
*
52677412 TTGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
65 TCGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
* *
52677447 AAGTAAGATTCGTCGTTGCGGCTTCAATCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTT-TTAATTGCAATATCAGGGAAGCAAGATTCGCCG
* * * * **
52677512 TCGTAGCTTTAATCTGCTCTACTGTA-CTGCCAAAA
65 TCGTAGCTTCAATCTGATCCACTGCATC-GCCAGGA
* * * * *
52677547 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAA-CAAGATTCGCCA
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCT-TTTAATTGCAATATCAGGGAAGCAAGATTCGCCG
* *
52677611 TTGTAGCTTCAATCTGATCCACTGCATTGCCAGGA
65 TCGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
* *
52677646 AAGTAAGATTCGCCGTTGCGACTTCAATCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCG
1 AAGTAAGATTCGCCGTTGCGGCTTCAATCTT-TTAATTGCAATATCAGGGAAGCAAGATTCGCCG
* *
52677711 TCGTAGCTTTAATCTGCTCCACTGCATCGCCAG
65 TCGTAGCTTCAATCTGATCCACTGCATCGCCAG
52677744 AGAGATAATG
Statistics
Matches: 578, Mismatches: 96, Indels: 39
0.81 0.13 0.05
Matches are distributed among these distances:
98 46 0.08
99 284 0.49
100 244 0.42
101 4 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (99 bp):
AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAATTGCAATATCAGGGAAGCAAGATTCGCCGT
CGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
Found at i:52677289 original size:199 final size:199
Alignment explanation
Indices: 52676951--52677734 Score: 1360
Period size: 199 Copynumber: 3.9 Consensus size: 199
52676941 TCTGCTAGAG
**
52676951 AAGTGAGATTCGCCGTTGTGGCTTCAATCTGATTAATTGCAATGTCGGGGAACAAGATTCGCCGT
1 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGT
*
52677016 TGTAGCTTCAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTT
66 TGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTT
*
52677081 -TTAAATTGCAATATCA-AGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTGC-ACTGTACT
131 CTT-AATTGCAATATCAGA-GAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT-CTACTGTACT
* *
52677143 GCCAGAG
193 GCCAAAA
* *
52677150 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGACCAAGATTTGCCGT
1 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGT
*
52677215 TGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAATCTT
66 TGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTT
52677280 CTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTACTGCC
131 CTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTACTGCC
52677345 AAAA
196 AAAA
* * *
52677349 AAGT-AGATTTGCCATTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCGT
1 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGT
*
52677413 TGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGTCGTTGCGGCTTCAATCTT
66 TGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTT
52677478 CTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTACTGCC
131 CTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTACTGCC
52677543 AAAA
196 AAAA
*
52677547 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCAT
1 AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGT
* *
52677612 TGTAGCTTCAATCTGATCCACTGCATTGCCAGGAAAGTAAGATTCGCCGTTGCGACTTCAATCTT
66 TGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTT
*
52677677 CTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTG
131 CTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTG
52677735 CATCGCCAGA
Statistics
Matches: 557, Mismatches: 24, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
198 192 0.34
199 362 0.65
200 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (199 bp):
AAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGCCGT
TGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTT
CTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTACTGCC
AAAA
Found at i:52677699 original size:397 final size:398
Alignment explanation
Indices: 52676951--52677734 Score: 1360
Period size: 397 Copynumber: 2.0 Consensus size: 398
52676941 TCTGCTAGAG
* * *
52676951 AAGTGAGATTCGCCGTTGTGGCTTCAATCTGATTAATTGCAATGTCGGGGAACAAGATTCGCCGT
1 AAGTGAGATTCGCCATTGTGGCTTCAATCTCATTAATTGCAATGTCGGGGAACAAGATTCACCGT
52677016 TGTAGCTTCAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTT
66 TGTAGCTTCAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTT
52677081 TTAAATTGCAATATCAAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTGCACTGTACTGCC
131 TTAAATTGCAATATCAAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTGCACTGTACTGCC
* * * *
52677146 AGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGACCAAGATTTG
196 AAAAAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCG
* *
52677211 CCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCACCGTTGCGGCTTCAA
261 CCATTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCACCGTTGCGACTTCAA
*
52677276 TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTAC
326 TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTAC
52677341 TGCCAAAA
391 TGCCAAAA
* *
52677349 AAGT-AGATTTGCCATTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCACCGT
1 AAGTGAGATTCGCCATTGTGGCTTCAATCTCATTAATTGCAATGTCGGGGAACAAGATTCACCGT
* *
52677413 TGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGTCGTTGCGGCTTCAATCTT
66 TGTAGCTTCAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTT
*
52677478 CTT-AATTGCAATATC-AGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT-CTACTGTACT
131 -TTAAATTGCAATATCAAG-GAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTGC-ACTGTACT
52677540 GCCAAAAAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGAT
193 GCCAAAAAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGAT
* *
52677605 TCGCCATTGTAGCTTCAATCTGATCCACTGCATTGCCAGGAAAGTAAGATTCGCCGTTGCGACTT
258 TCGCCATTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCACCGTTGCGACTT
52677670 CAATCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTG
323 CAATCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTG
52677735 CATCGCCAGA
Statistics
Matches: 366, Mismatches: 17, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
396 3 0.01
397 357 0.98
398 6 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (398 bp):
AAGTGAGATTCGCCATTGTGGCTTCAATCTCATTAATTGCAATGTCGGGGAACAAGATTCACCGT
TGTAGCTTCAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTT
TTAAATTGCAATATCAAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTGCACTGTACTGCC
AAAAAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCG
CCATTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCACCGTTGCGACTTCAA
TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTAC
TGCCAAAA
Found at i:52677745 original size:50 final size:50
Alignment explanation
Indices: 52676947--52677746 Score: 336
Period size: 50 Copynumber: 16.1 Consensus size: 50
52676937 TCTGTCTGCT
** * * * * *
52676947 AGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCTGATTAATTGCAAT-GTC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGC-ATCGCC
* * * *
52676997 GGGGAA-CAAGATTCGCCGTTGTAGCTTCAATCTGATCCACTGCATCGCC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGCATCGCC
* ** ** * * ** *
52677046 A-AGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATATCA
1 AGAG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGC-ATCGCC
* * * *
52677097 AG-GAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTGC-ACTGTA-CTGCC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCT-CAACTGCATC-GCC
** * * * *
52677146 AGAGAAGTGAGATTCGCCGTTGTGGCTTCAATCT-CTTTAATTGCAAT-GTC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGC-TCAACTGC-ATCGCC
* * * * * *
52677196 -GGGGACCAAGATTTGCCGTTGTAGCTTCAATCTGATCCACTGCATCGCC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGCATCGCC
* * ** * * * **
52677245 AG-GAAAGTAAGATTCACCGTTGCGGCTTCAATCTTCTTAATTGCAAT-ATC
1 AGAG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGC-ATCGCC
* * * *
52677295 AGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTA-CTGCC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGCATC-GCC
* * * * * * * * *
52677345 AAAAAAG-TAGATTTGCCATTGTGGCTTCAATCT-CTTTAATTGCAAT-GTC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGC-TCAACTGC-ATCGCC
* * * * *
52677394 GGGGAA-CAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCATCGCC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGCATCGCC
* * ** * * * **
52677443 AG-GAAAGTAAGATTCGTCGTTGCGGCTTCAATCTTCTTAATTGCAAT-ATC
1 AGAG-AAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGC-ATCGCC
* * * *
52677493 AGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTA-CTGCC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGCATC-GCC
* * ** * * * *
52677543 AAAAAAGTGAGATTCGCCGTTGTGGCTTCAATCT-CTTTAATTGCAAT-GTC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGC-TCAACTGC-ATCGCC
* * * * * *
52677593 GGGGAA-CAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCATTGCC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGCATCGCC
* * * * * **
52677642 AG-GAAAGTAAGATTCGCCGTTG-CGACTTCAATCTTCTTAATTGCAAT-ATC
1 AGAG-AAGCAAGATTCGCCGTTGTAG-CTTCAATCTGCTCAACTGC-ATCGCC
* * *
52677692 AGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGCATCGCC
1 AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGCATCGCC
52677742 AGAGA
1 AGAGA
52677747 GATAATGTTT
Statistics
Matches: 522, Mismatches: 184, Indels: 88
0.66 0.23 0.11
Matches are distributed among these distances:
48 12 0.02
49 172 0.33
50 321 0.61
51 17 0.03
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (50 bp):
AGAGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGCTCAACTGCATCGCC
Found at i:52677914 original size:44 final size:44
Alignment explanation
Indices: 52677791--52678196 Score: 401
Period size: 44 Copynumber: 9.2 Consensus size: 44
52677781 TCAGAGAGAT
* * *
52677791 AAGATCTGTTTTCTTCGATCCACTTC-CTACCAATATAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGAC
* * * * *
52677835 -AGAACCTGCTAATCTACGATCTACTTCACGCCAATACATGAAGAC
1 AAG-ATCTGCT-ATCTTCGATCTACTTCACACCAATATAGGAAGAC
* *
52677880 AAGATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGAC
* * * *
52677924 AGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
* * *
52677968 AAGATCTGCT-TCTTCAATCCACTTC-CTACTAATATAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGAC
* * * * *
52678011 AGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
* * * * *
52678055 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGAC
* **
52678100 AAGATCTGC-ATCTTCGATCCACTTCTTACCAATATAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
* * * * *
52678143 AGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
52678187 AAGATCTGCT
1 AAGATCTGCT
52678197 TTAATGACTT
Statistics
Matches: 288, Mismatches: 63, Indels: 22
0.77 0.17 0.06
Matches are distributed among these distances:
42 1 0.00
43 57 0.20
44 173 0.60
45 54 0.19
46 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (44 bp):
AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
Found at i:52678141 original size:88 final size:88
Alignment explanation
Indices: 52677791--52678196 Score: 505
Period size: 88 Copynumber: 4.6 Consensus size: 88
52677781 TCAGAGAGAT
* *
52677791 AAGATCTGTTTTCTTCGATCCACTTCCTACCAATATAGGAAGAC-AGAACCTGCTAATCTACGAT
1 AAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGGAAGACAAG-ACCTGCT-ATCTTCGAT
52677855 CTACTTCACGCCAATACATGAAGAC
64 CTACTTCACGCCAATACATGAAGAC
* *
52677880 AAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCT
1 AAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTGCTATCTTCGATCT
52677945 ACTTCACGCCAATACATGAAGAC
66 ACTTCACGCCAATACATGAAGAC
* * *
52677968 AAGATCTGC-TTCTTCAATCCACTTCCTACTAATATAGGAAGACAGGACCTGCTATCTTCGATCT
1 AAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTGCTATCTTCGATCT
52678032 ACTTCACGCCAATACATGAAGAC
66 ACTTCACGCCAATACATGAAGAC
* * * * * *
52678055 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATC
1 AAGATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGACCTGCTATCTTCGATC
* *** * *
52678119 CACTTCTTACCAATATAGGAAGAC
65 TACTTCACGCCAATACATGAAGAC
* * * * * * * *
52678143 AGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCT
1 AAGATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGGAAGACAAGACCTGCT
52678197 TTAATGACTT
Statistics
Matches: 281, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
87 103 0.37
88 107 0.38
89 70 0.25
90 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (88 bp):
AAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTGCTATCTTCGATCT
ACTTCACGCCAATACATGAAGAC
Found at i:52678143 original size:175 final size:176
Alignment explanation
Indices: 52677791--52678168 Score: 535
Period size: 175 Copynumber: 2.1 Consensus size: 176
52677781 TCAGAGAGAT
*
52677791 AAGATCTGTTTTCTTCGATCCACTTCCTACCAATATAGGAAGACAGAACCTGCTAATCTACGATC
1 AAGATCTG-CTTCTTCGATCCACTTCCTACCAATATAGGAAGACAGAACCTGCTAATCTACGATC
*
52677856 TACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGGAA
65 TACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTCCCACCAATATAGGAA
* * * *
52677921 GACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
130 GACAAGATCTGCTATCTTCGATCCACTTCACACCAATACAGGAAGAC
* * * *
52677968 AAGATCTGCTTCTTCAATCCACTTCCTACTAATATAGGAAGACAGGACCTGCT-ATCTTCGATCT
1 AAGATCTGCTTCTTCGATCCACTTCCTACCAATATAGGAAGACAGAACCTGCTAATCTACGATCT
* * * *
52678032 ACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAA
66 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTC-CCACCAATATAGGAA
** *
52678097 GACAAGATCTGC-ATCTTCGATCCACTTCTTACCAATATAGGAAGAC
130 GACAAGATCTGCTATCTTCGATCCACTTCACACCAATACAGGAAGAC
* * *
52678143 AGGACCTGCTATCTTCGATCTACTTC
1 AAGATCTGCT-TCTTCGATCCACTTC
52678169 ACGCCAATAC
Statistics
Matches: 178, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
175 93 0.52
176 77 0.43
177 8 0.04
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (176 bp):
AAGATCTGCTTCTTCGATCCACTTCCTACCAATATAGGAAGACAGAACCTGCTAATCTACGATCT
ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTCCCACCAATATAGGAAG
ACAAGATCTGCTATCTTCGATCCACTTCACACCAATACAGGAAGAC
Found at i:52678151 original size:132 final size:131
Alignment explanation
Indices: 52677791--52678194 Score: 479
Period size: 132 Copynumber: 3.1 Consensus size: 131
52677781 TCAGAGAGAT
* * * *
52677791 AAGATCTGTTTTCTTCGATCCACTTCCTACCAATATAGGAAGAC-AGAACCTGCTAATCTACGAT
1 AAGATCTGTTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAG-ATCTGC--ATCTTCGAT
* ** * * * * * * * * *
52677855 CTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGG
63 CCACTTCATACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATG
52677919 AAGAC
127 AAGAC
* * * * * * * * *
52677924 AGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTCTTCAATCCA
1 AAGATCTGTTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCA
* *
52677989 CTTCCTACTAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCATACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
52678054 C
131 C
* *
52678055 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCC
1 AAGATCTGTTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCC
*
52678120 ACTTCTTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
65 ACTTCATACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
52678185 AC
130 AC
52678187 AAGATCTG
1 AAGATCTG
52678195 CTTTAATGAC
Statistics
Matches: 228, Mismatches: 40, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
131 82 0.36
132 104 0.46
133 40 0.18
134 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (131 bp):
AAGATCTGTTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCCA
CTTCATACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
C
Found at i:52681137 original size:62 final size:62
Alignment explanation
Indices: 52681035--52681221 Score: 284
Period size: 62 Copynumber: 3.0 Consensus size: 62
52681025 CTAAACTTGA
* * * * * *
52681035 CGTACTTTTGGATTTTAGGAAACTTACTGTATGCAATGAAACGTAATGTTGATGCATGAATG
1 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
*
52681097 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATTTAATGTTGATGCATGAATG
1 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
* * *
52681159 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCGATGAAATGTAATGTTGTTGCATAAATG
1 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
52681221 C
1 C
52681222 AAAAAAAAGA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 114 1.00
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
Found at i:52685419 original size:82 final size:82
Alignment explanation
Indices: 52685319--52686142 Score: 1368
Period size: 82 Copynumber: 10.0 Consensus size: 82
52685309 TGTGTTTTTA
* * * * *
52685319 GTCTGCTCTACTACTGCTTAGGGAGATAAGACTGGATGTGATCTACTCCACTACTGCTTAGGG-G
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52685383 AATAAGATCTGTGGTTCT
66 -ATAAGATCTGTGGTTCT
*
52685401 GTCTGCTCCACTATTGCTTAGGAAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52685466 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
* * *
52685483 GTCTGCTCCACTATTGCTTAGAGAGATAAGAGTTGATGCGATCTGCTCCACTGCTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52685548 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
*
52685565 GTCTGCTCCACTATTGCTTAGGGAGGTAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52685630 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
*
52685647 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
*
52685712 ATAAGATATGTGGTTCT
66 ATAAGATCTGTGGTTCT
** *
52685729 GTCTATTCCACTATTGCTTAGAGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52685794 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
*
52685811 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52685876 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
* *
52685893 GTCTGCTCCACTATTGCTTAGGGAGGTAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
52685958 ATAAGATCTGT-GTTCT
66 ATAAGATCTGTGGTTCT
*
52685974 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTATTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
*
52686039 ATAAGATCTG-GTTTCTTTT
66 ATAAGATCTGTGGTTC---T
* * *
52686058 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTGCTGCTTAGGGAG
1 GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
*
52686123 ATAAGATCTG-GTTTCT
66 ATAAGATCTGTGGTTCT
52686139 GTCT
1 GTCT
52686143 ACTAGAGAAG
Statistics
Matches: 704, Mismatches: 33, Indels: 11
0.94 0.04 0.01
Matches are distributed among these distances:
81 87 0.12
82 539 0.77
83 1 0.00
84 77 0.11
ACGTcount: A:0.22, C:0.20, G:0.25, T:0.33
Consensus pattern (82 bp):
GTCTGCTCCACTATTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTGTGGTTCT
Found at i:52686488 original size:199 final size:199
Alignment explanation
Indices: 52686146--52686945 Score: 1268
Period size: 199 Copynumber: 4.0 Consensus size: 199
52686136 TCTGTCTACT
** *
52686146 AGAGAAGTGAGATTCACCGTTGTGGCTTCAATCTGATTAATTGCAATGTCGGGGAACAAGATCCG
1 AGAGAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCG
* *
52686211 TCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTTGCGGCTTCAA
66 CCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAA
* * * *
52686276 TATT-TTAAATTGCAATGTCA-AGGAAGCAAGATTCACCGTCGTAGCTTTAATCTACTGC-ACTG
131 TCTTCTT-AATTGCAATATCAGA-GAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT-CTACTG
52686338 TACTGCC
193 TACTGCC
*
52686345 AGAGAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTTG
1 AGAGAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCG
*
52686410 CTGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAA
66 CCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAA
*
52686475 TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCTACTGTAC
131 TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTAC
52686540 TGCC
196 TGCC
* * ** *
52686544 AAAAAAGTGAGATTTGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATT-A
1 AGAGAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCG
* * * *
52686608 CCGTTGTAGCTTCAATCTGATCCACTGCATCGCTAGGAAAGTAAGATTCGTCGTTGCAGTTTCAA
66 CCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAA
52686673 TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTAC
131 TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTAC
52686738 TGCC
196 TGCC
* * *
52686742 AAAAAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCG
1 AGAGAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCG
* * *
52686807 CCGTTGTAGCTTCAATCTGATCCACTGCATTGCTAGGAAAGTAAGATTCGCCGTTGCGACTTCAA
66 CCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAA
* *
52686872 TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTTGCTTTAATCTGCTCCACTGTA-
131 TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTAC
52686936 TCGCC
196 T-GCC
52686941 AGAGA
1 AGAGA
52686946 GATAATGTTT
Statistics
Matches: 562, Mismatches: 34, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
198 192 0.34
199 367 0.65
200 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (199 bp):
AGAGAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCG
CCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAA
TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCTACTGTAC
TGCC
Found at i:52686884 original size:397 final size:397
Alignment explanation
Indices: 52686150--52686935 Score: 1274
Period size: 397 Copynumber: 2.0 Consensus size: 397
52686140 TCTACTAGAG
* *
52686150 AAGTGAGATTCACCGTTGTGGCTTCAATCTGATTAATTGCAATGTCGGGGAACAAGATCCGTCGT
1 AAGTGAGATTCACCGTTGTGGCTTCAATCTCATTAATTGCAATGTCGGGGAACAAGATACG-CGT
*
52686215 TGTAGCTTCAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTTGCGGCTTCAATATT
65 TGTAGCTTCAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTTGCAGCTTCAATATT
*
52686280 TTAAATTGCAATGTCAAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTACTGCACTGTACTGCC
130 TTAAATTGCAATATCAAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTACTGCACTGTACTGCC
* * *
52686345 AGAGAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTTG
195 AAAAAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCG
* *
52686410 CTGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAA
260 CCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGACTTCAA
*
52686475 TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCTACTGTAC
325 TCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGTAC
52686540 TGCCAAAA
390 TGCCAAAA
** *
52686548 AAGTGAGATTTGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTAC-CGT
1 AAGTGAGATTCACCGTTGTGGCTTCAATCTCATTAATTGCAATGTCGGGGAACAAGA-TACGCGT
* * * * *
52686612 TGTAGCTTCAATCTGATCCACTGCATCGCTAGGAAAGTAAGATTCGTCGTTGCAGTTTCAATCTT
65 TGTAGCTTCAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTTGCAGCTTCAATATT
* *
52686677 CTT-AATTGCAATATC-AGAGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCT-CTACTGTACT
130 -TTAAATTGCAATATCAAG-GAAGCAAGATTCACCGTCGTAGCTTTAATCTACTGC-ACTGTACT
*
52686739 GCCAAAAAAGTGAGATTCGCCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGAT
192 GCCAAAAAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGAT
* *
52686804 TCGCCGTTGTAGCTTCAATCTGATCCACTGCATTGCTAGGAAAGTAAGATTCGCCGTTGCGACTT
257 TCGCCGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGACTT
* *
52686869 CAATCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCGTCGTTGCTTTAATCTGCTCCACTG
322 CAATCTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTG
52686934 TA
387 TA
52686936 TCGCCAGAGA
Statistics
Matches: 359, Mismatches: 25, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
396 3 0.01
397 299 0.83
398 55 0.15
399 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (397 bp):
AAGTGAGATTCACCGTTGTGGCTTCAATCTCATTAATTGCAATGTCGGGGAACAAGATACGCGTT
GTAGCTTCAATCTGATCCACTGCATCGCCAAGAAAGTAAGATTCGCCGTTGCAGCTTCAATATTT
TAAATTGCAATATCAAGGAAGCAAGATTCACCGTCGTAGCTTTAATCTACTGCACTGTACTGCCA
AAAAAGTGAGATTCACCGTTGTGGCTTCAATCTCTTTAATTGCAATGTCGGGGAACAAGATTCGC
CGTTGTAGCTTCAATCTGATCCACTGCATCGCCAGGAAAGTAAGATTCGCCGTTGCGACTTCAAT
CTTCTTAATTGCAATATCAGAGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGTACT
GCCAAAA
Found at i:52686903 original size:50 final size:51
Alignment explanation
Indices: 52686253--52686910 Score: 250
Period size: 50 Copynumber: 13.2 Consensus size: 51
52686243 CCAAGAAAGT
*
52686253 AAGATTCGCCGTTGCG-GCTTCAATATT-TTAAATTGCAATGTCA-AGGAAGC
1 AAGATTCGCCGTTGCGAGCTTCAATCTTCTT-AATTGCAATGTCAGA-GAAGC
* * * ** * * * * *
52686303 AAGATTCACCG-T-CGTAGCTTTAATCTACTGCACTGTACTGCCAGAGAAGT
1 AAGATTCGCCGTTGCG-AGCTTCAATCTTCTTAATTGCAATGTCAGAGAAGC
* * * * *
52686353 GAGATTCACCGTTGTG-GCTTCAATC-TCTTTAATTGCAATGTCGGGGAA-C
1 AAGATTCGCCGTTGCGAGCTTCAATCTTC-TTAATTGCAATGTCAGAGAAGC
* * * ** ** * * *
52686402 AAGATTTGCTGTTG-TAGCTTCAATCTGATCCACTGC-ATCGCCAG-GAAAGT
1 AAGATTCGCCGTTGCGAGCTTCAATCTTCTTAATTGCAAT-GTCAGAG-AAGC
*
52686452 AAGATTCGCCGTTGCG-GCTTCAATCTTCTTAATTGCAATATCAGAGAAGC
1 AAGATTCGCCGTTGCGAGCTTCAATCTTCTTAATTGCAATGTCAGAGAAGC
* * * * * * * * * *
52686502 AAGATTCGCC-AT-CGTAGCTTTAATCTGCTCT-ACTGTACTGCCAAAAAAGT
1 AAGATTCGCCGTTGCG-AGCTTCAATCTTCT-TAATTGCAATGTCAGAGAAGC
* * * * *
52686552 GAGATTTGCCGTTGTG-GCTTCAATC-TCTTTAATTGCAATGTCGGGGAA-C
1 AAGATTCGCCGTTGCGAGCTTCAATCTTC-TTAATTGCAATGTCAGAGAAGC
* * ** ** * *
52686601 AAGATT-ACCGTTG-TAGCTTCAATCTGATCCACTGC-ATCG-CTAG-GAAAGT
1 AAGATTCGCCGTTGCGAGCTTCAATCTTCTTAATTGCAAT-GTC-AGAG-AAGC
* * *
52686650 AAGATTCGTCGTTGC-AGTTTCAATCTTCTTAATTGCAATATCAGAGAAGC
1 AAGATTCGCCGTTGCGAGCTTCAATCTTCTTAATTGCAATGTCAGAGAAGC
* * * * * * * * *
52686700 AAGATTCGCCG-T-CGTAGCTTTAATCTGCTCT-ACTGTACTGCCAAAAAAGT
1 AAGATTCGCCGTTGCG-AGCTTCAATCTTCT-TAATTGCAATGTCAGAGAAGC
* * * *
52686750 GAGATTCGCCGTTGTG-GCTTCAATC-TCTTTAATTGCAATGTCGGGGAA-C
1 AAGATTCGCCGTTGCGAGCTTCAATCTTC-TTAATTGCAATGTCAGAGAAGC
* ** ** * * *
52686799 AAGATTCGCCGTTG-TAGCTTCAATCTGATCCACTGCATTG-CTAG-GAAAGT
1 AAGATTCGCCGTTGCGAGCTTCAATCTTCTTAATTGCAATGTC-AGAG-AAGC
*
52686849 AAGATTCGCCGTTGCGA-CTTCAATCTTCTTAATTGCAATATCAGAGAAGC
1 AAGATTCGCCGTTGCGAGCTTCAATCTTCTTAATTGCAATGTCAGAGAAGC
52686899 AAGATTCGCCGT
1 AAGATTCGCCGT
52686911 CGTTGCTTTA
Statistics
Matches: 422, Mismatches: 138, Indels: 96
0.64 0.21 0.15
Matches are distributed among these distances:
47 4 0.01
48 34 0.08
49 81 0.19
50 283 0.67
51 17 0.04
52 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (51 bp):
AAGATTCGCCGTTGCGAGCTTCAATCTTCTTAATTGCAATGTCAGAGAAGC
Found at i:52687113 original size:44 final size:44
Alignment explanation
Indices: 52686990--52687395 Score: 410
Period size: 44 Copynumber: 9.2 Consensus size: 44
52686980 TCAGAGAGAT
* * *
52686990 AAGATCTGTTTTCTTCGATCCACTTC-CTACCAATATAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGAC
* * * * *
52687034 -AGAACCTGCTAATCTACGATCTACTTCACGCCAATACATGAAGAC
1 AAG-ATCTGCT-ATCTTCGATCTACTTCACACCAATATAGGAAGAC
* *
52687079 AAGATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGAC
* * * *
52687123 AGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
* *
52687167 AAGATCTGCT-TCTTCAATCTACTTC-CTACTAATATAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCAC-ACCAATATAGGAAGAC
* * * * *
52687210 AGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
* * * * *
52687254 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTC-ACACCAATATAGGAAGAC
* **
52687299 AAGATCTGC-ATCTTCGATCCACTTCTTACCAATATAGGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
* * * * *
52687342 AGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
1 AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
52687386 AAGATCTGCT
1 AAGATCTGCT
52687396 TTAATGACTT
Statistics
Matches: 290, Mismatches: 61, Indels: 22
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.00
43 58 0.20
44 174 0.60
45 54 0.19
46 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (44 bp):
AAGATCTGCTATCTTCGATCTACTTCACACCAATATAGGAAGAC
Found at i:52687314 original size:175 final size:176
Alignment explanation
Indices: 52686990--52687367 Score: 535
Period size: 175 Copynumber: 2.1 Consensus size: 176
52686980 TCAGAGAGAT
* *
52686990 AAGATCTGTTTTCTTCGATCCACTTCCTACCAATATAGGAAGACAGAACCTGCTAATCTACGATC
1 AAGATCTG-CTTCTTCGATCTACTTCCTACCAATATAGGAAGACAGAACCTGCTAATCTACGATC
*
52687055 TACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGGAA
65 TACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTCCCACCAATATAGGAA
* * * *
52687120 GACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGAC
130 GACAAGATCTGCTATCTTCGATCCACTTCACACCAATACAGGAAGAC
* * * *
52687167 AAGATCTGCTTCTTCAATCTACTTCCTACTAATATAGGAAGACAGGACCTGCT-ATCTTCGATCT
1 AAGATCTGCTTCTTCGATCTACTTCCTACCAATATAGGAAGACAGAACCTGCTAATCTACGATCT
* * * *
52687231 ACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAA
66 ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTC-CCACCAATATAGGAA
** *
52687296 GACAAGATCTGC-ATCTTCGATCCACTTCTTACCAATATAGGAAGAC
130 GACAAGATCTGCTATCTTCGATCCACTTCACACCAATACAGGAAGAC
* *
52687342 AGGACCTGCTATCTTCGATCTACTTC
1 AAGATCTGCT-TCTTCGATCTACTTC
52687368 ACGCCAATAC
Statistics
Matches: 178, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
175 93 0.52
176 77 0.43
177 8 0.04
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (176 bp):
AAGATCTGCTTCTTCGATCTACTTCCTACCAATATAGGAAGACAGAACCTGCTAATCTACGATCT
ACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTCCCACCAATATAGGAAG
ACAAGATCTGCTATCTTCGATCCACTTCACACCAATACAGGAAGAC
Found at i:52687331 original size:88 final size:88
Alignment explanation
Indices: 52686990--52687395 Score: 505
Period size: 88 Copynumber: 4.6 Consensus size: 88
52686980 TCAGAGAGAT
* * *
52686990 AAGATCTGTTTTCTTCGATCCACTTCCTACCAATATAGGAAGAC-AGAACCTGCTAATCTACGAT
1 AAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAG-ACCTGCT-ATCTTCGAT
52687054 CTACTTCACGCCAATACATGAAGAC
64 CTACTTCACGCCAATACATGAAGAC
* * *
52687079 AAGATCTGCTTTCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCT
1 AAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAGACCTGCTATCTTCGATCT
52687144 ACTTCACGCCAATACATGAAGAC
66 ACTTCACGCCAATACATGAAGAC
* * *
52687167 AAGATCTGC-TTCTTCAATCTACTTCCTACTAATATAGGAAGACAGGACCTGCTATCTTCGATCT
1 AAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAGACCTGCTATCTTCGATCT
52687231 ACTTCACGCCAATACATGAAGAC
66 ACTTCACGCCAATACATGAAGAC
* * * * *
52687254 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGC-ATCTTCGATC
1 AAGATCTGCTTTCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGACCTGCTATCTTCGATC
* *** * *
52687318 CACTTCTTACCAATATAGGAAGAC
65 TACTTCACGCCAATACATGAAGAC
* * * * * * *
52687342 AGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCT
1 AAGATCTGCTTTCTTCGATCTACTTC-CTACCAATATAGGAAGACAAGACCTGCT
52687396 TTAATGACTT
Statistics
Matches: 281, Mismatches: 32, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
87 102 0.36
88 108 0.38
89 70 0.25
90 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (88 bp):
AAGATCTGCTTTCTTCGATCTACTTCCTACCAATATAGGAAGACAAGACCTGCTATCTTCGATCT
ACTTCACGCCAATACATGAAGAC
Found at i:52687351 original size:132 final size:131
Alignment explanation
Indices: 52686990--52687393 Score: 479
Period size: 132 Copynumber: 3.1 Consensus size: 131
52686980 TCAGAGAGAT
* * * *
52686990 AAGATCTGTTTTCTTCGATCCACTTCCTACCAATATAGGAAGAC-AGAACCTGCTAATCTACGAT
1 AAGATCTGTTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAG-ATCTGC--ATCTTCGAT
** * * * * * * * * *
52687054 CTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCCACTTC-CTACCAATATAGG
63 CTACTTCATACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATG
52687118 AAGAC
127 AAGAC
* * * * * * * * *
52687123 AGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTCTTCAATCTA
1 AAGATCTGTTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTA
* *
52687188 CTTCCTACTAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCATACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
52687253 C
131 C
* * *
52687254 AAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCC
1 AAGATCTGTTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCT
*
52687319 ACTTCTTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
65 ACTTCATACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAG
52687384 AC
130 AC
52687386 AAGATCTG
1 AAGATCTG
52687394 CTTTAATGAC
Statistics
Matches: 228, Mismatches: 40, Indels: 7
0.83 0.15 0.03
Matches are distributed among these distances:
131 83 0.36
132 103 0.45
133 40 0.18
134 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (131 bp):
AAGATCTGTTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTA
CTTCATACCAATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
C
Found at i:52688456 original size:12 final size:13
Alignment explanation
Indices: 52688429--52688462 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
52688419 TTTCTTTTTG
*
52688429 TTCTTCTTTTATT
1 TTCTTTTTTTATT
52688442 TTCTTTTTTTA-T
1 TTCTTTTTTTATT
52688454 TTCTTTTTT
1 TTCTTTTTT
52688463 CAAGTGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (13 bp):
TTCTTTTTTTATT
Found at i:52690337 original size:62 final size:62
Alignment explanation
Indices: 52690236--52690422 Score: 259
Period size: 62 Copynumber: 3.0 Consensus size: 62
52690226 CTACACTCGA
* * * * *
52690236 CGTACTTTTT-GATTTTAGGAAACTTACTGTATGCAATGAAACGTAATGTTGATGCATGAATG
1 CGTA-TTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
* *
52690298 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATTTAATGTTGATGCATAAATG
1 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
* * * *
52690360 CGTATTTTTGTATTTTAAGAAATTTATTGCATGCGATGAAATGTAATGTTGTTGTATGAATG
1 CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
52690422 C
1 C
52690423 AAAAAAAAGA
Statistics
Matches: 111, Mismatches: 13, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
61 5 0.05
62 106 0.95
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAAGAAATTTATTGCATGCAATGAAATGTAATGTTGATGCATGAATG
Found at i:52699607 original size:171 final size:171
Alignment explanation
Indices: 52699359--52699805 Score: 727
Period size: 171 Copynumber: 2.6 Consensus size: 171
52699349 CGGTATGGAG
* * **
52699359 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATAAATAAATTTCT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCACT
* *
52699424 GGAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
66 AGAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTCTTCCAATACTTATTGTAACCTC
* * *
52699489 TCGTAATATTATTTTCGTCATACGATATGGCGTTTTGCAAT
131 TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
* *
52699530 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTTGGGAAATGAAGGAATCACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCACT
*
52699595 AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTCTTCCAATACTTATTGTAACCTC
66 AGAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTCTTCCAATACTTATTGTAACCTC
*
52699660 TTGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
131 TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
* *
52699701 TACAATTTATTTTTAGTTCT-AAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
1 TACAATTTATTTTTAGTT-TGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCAC
52699765 -AGCAACATTTTCAAATATTTATAGTGTTCCAATAACTATAA
65 TAG-AACATTTTCAAATATTTATAGTGTTCCAATAACTATAA
52699806 ATGAATGGGT
Statistics
Matches: 256, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
170 2 0.01
171 253 0.99
172 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (171 bp):
TACAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTAGGGAAATGAATGAATCACT
AGAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTCTTCCAATACTTATTGTAACCTC
TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
Found at i:52702195 original size:14 final size:14
Alignment explanation
Indices: 52702159--52702198 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
52702149 ATGAATATTG
52702159 ATAT-GATAGG-AA
1 ATATCGATAGGAAA
52702171 A-ATCG-TAGGAAA
1 ATATCGATAGGAAA
52702183 ATATCGATAGGAAA
1 ATATCGATAGGAAA
52702197 AT
1 AT
52702199 TTTACCGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
11 6 0.25
12 5 0.21
13 4 0.17
14 9 0.38
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.23
Consensus pattern (14 bp):
ATATCGATAGGAAA
Found at i:52706012 original size:21 final size:20
Alignment explanation
Indices: 52705973--52706013 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
52705963 TCAATAATTC
* *
52705973 ATTTCATATAAATCCAAAAT
1 ATTTCAAATAAAACCAAAAT
52705993 ATTTCAAATAAAAACCAAAAT
1 ATTTCAAAT-AAAACCAAAAT
52706014 TCTATAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (20 bp):
ATTTCAAATAAAACCAAAAT
Found at i:52711312 original size:44 final size:45
Alignment explanation
Indices: 52711292--52711551 Score: 129
Period size: 45 Copynumber: 5.7 Consensus size: 45
52711282 TACAAGTTTG
52711292 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGCAAGTCTC
1 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGCAAGTCTC
* * * * * ** * *
52711337 ATTTCCCTGAAGTTGCAGTGGAACAGA-TTAAGGCTAAATTATAGACCTT
1 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAA-G--ATAGCA-AG-TCTC
* * ** * * *
52711386 ATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAG-TCACCAA-TCTTA
1 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGAT-AGCAAGTC-TC
* * * * * *
52711431 ATC-CCCTGAAGTTTCATTAGG-GCAGATTGAAGTTA-CAAGTCTT
1 ATCTCCCTGAAGATGCAGT-GGAGCAGACTGAAGATAGCAAGTCTC
* * *
52711474 ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAG-CTT
1 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGC-AAGTCTC
* * * *
52711519 ATGTCCCTGAAGTTGCAGTGGAACAGATTGAAG
1 ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAG
52711552 CTATAAATTA
Statistics
Matches: 166, Mismatches: 34, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
43 9 0.05
44 52 0.31
45 65 0.39
46 4 0.02
47 5 0.03
48 2 0.01
49 26 0.16
50 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (45 bp):
ATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGCAAGTCTC
Found at i:52711508 original size:182 final size:180
Alignment explanation
Indices: 52711202--52711694 Score: 572
Period size: 181 Copynumber: 2.7 Consensus size: 180
52711192 TATGGCAAAT
* * * * *
52711202 CTTATCTCCCTAAAGTTACAGCGAAGCAGATTAAAGTCACTAATCTTACCCCCTGAAGTTAT-AG
1 CTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTCAC-AATCTTATCCCCTGAAGTT-TCAG
* * * *
52711266 TGGGGTAGATTGCAGTTACAAGT-TTGATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGC
64 T-GGGCAGATTGAAGTTACAAGTCTT-ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGC
* *
52711330 -AAGTCTCATTTCCCTGAAGTTGCAGTGGAACAGATT-AAGGC-TAAATTATAGAC
127 AAAG-CTCATGTCCCTGAAGTTGCAGTGGAACAGATTGAA-GCATAAATTACAGAC
* * *
52711383 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTCACCAATCTTAATCCCCTGAAGTTTCAT
1 CTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTCA-CAATCTT-ATCCCCTGAAGTTTCAG
52711448 TAGGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
64 T-GGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
* *
52711513 AAGCTTATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGAT
128 AAGCTCATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGC-ATAAATTACAGAC
* ** * * * * * *
52711567 CTTATATCATTGAAGTTTTAGTAGAGTAGATCATA-TCA-AA-CATTATCTCCCTGAAGTTACAG
1 CTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTCACAATC-TTATC-CCCTGAAGTTTCAG
*
52711629 TGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CA
64 TGG-GCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
52711693 AA
128 AA
52711695 TCTTATCCCC
Statistics
Matches: 272, Mismatches: 29, Indels: 23
0.84 0.09 0.07
Matches are distributed among these distances:
180 10 0.04
181 114 0.42
182 102 0.38
183 10 0.04
184 36 0.13
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (180 bp):
CTTATCTCCCTGAAGTTATAGTGGAGCAGATTAAAGTCACAATCTTATCCCCTGAAGTTTCAGTG
GGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAG
CTCATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCATAAATTACAGAC
Found at i:52711535 original size:45 final size:44
Alignment explanation
Indices: 52711252--52711810 Score: 298
Period size: 44 Copynumber: 12.4 Consensus size: 44
52711242 TAATCTTACC
** * * * *
52711252 CCCTGAAGTTATAGTGGGGTAGATTGCAGTTAC-AAGTTTGATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAGCTT-ATCT
* * * * *
52711296 CCCTGAAGATGCAGTGGAGCAGACTGAAGATAGC-AAGTCTCATTT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-CAAAG-CTTATCT
** * *
52711341 CCCTGAAGTTGCAGTGGAACAGATT-AAGGCTAAATTATAGACCTTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAA-GATACA--A-AG--CTTATCT
* * * * * *
52711390 CCCTGAAGTTGTAGTGGAGCAGGTTAAAG-TCACCAATCTTAATC-
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGAT-ACAAAGCTT-ATCT
* * * *
52711434 CCCTGAAGTTTCATTAGG-GCAGATTGAAGTTAC-AAGTCTTATCT
1 CCCTGAAGTTGCAGT-GGAGTAGATTGAAGATACAAAG-CTTATCT
* *
52711478 CCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAGCTTATGT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-CAAAGCTTATCT
** * *
52711523 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATAT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAG--ATACA--A-AG--CTTATCT
** ** * * *
52711574 CATTGAAGTTTTAGTAGAGTAGA-T-CATAT-CAAA-CATTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAGC-TTATCT
* * * *
52711615 CCCTGAAGTTACAGTGGAGCAGGTTGAAGTTAC-AAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAG-CTTATCT
* * *
52711659 CCCTGAAGTTGCAGTGGAGTAGACTGAAGATACAAATCTTATCC
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAGCTTATCT
* * * * * *
52711703 CCCTAAATTTGCAATGGGGTAGATTAAAGCTAC-AAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAG-CTTATCT
* * *
52711747 CCCTGAAGTTGCAGTGGAGCAGATTGAAGATATCTAACCTTATCT
1 CCCTGAAGTTGCAGTGGAGTAGATTGAAGATA-CAAAGCTTATCT
**
52711792 CCCTGAAGTTATAGTGGAG
1 CCCTGAAGTTGCAGTGGAG
52711811 CAGGCTAAAG
Statistics
Matches: 391, Mismatches: 89, Indels: 69
0.71 0.16 0.13
Matches are distributed among these distances:
40 1 0.00
41 21 0.05
42 1 0.00
43 14 0.04
44 178 0.46
45 99 0.25
46 9 0.02
47 7 0.02
48 4 0.01
49 32 0.08
50 3 0.01
51 22 0.06
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAGTAGATTGAAGATACAAAGCTTATCT
Found at i:52711678 original size:181 final size:180
Alignment explanation
Indices: 52711226--52711700 Score: 563
Period size: 182 Copynumber: 2.6 Consensus size: 180
52711216 GTTACAGCGA
* * * * *
52711226 AGCAGATTAAAGTCACTAATCTT-ACCCCCTGAAGTTATAGTGGGGTAGATTGCAGTTACAAGT-
1 AGCAGATCAAAGTCAC-AATCTTAATCCCCTGAAGTTACAGT-GGGCAGATTGAAGTTACAAGTC
* * * *
52711289 TTGATCTCCCTGAAGATGCAGTGGAGCAGACTGAAGATAGC-AAGTCTCATTTCCCTGAAGTTGC
64 TT-ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAG-CTTATGTCCCTGAAGTTGC
* * * *
52711353 AGTGGAACAGATTAAGGCTAAATTATAGACCTTATCTCCCTGAAGTTGTAGTGG
127 AGTGGAACAGATTAAGGCTAAATTACAGACCTTATATCACTGAAGTTGTAGTAG
* * * *
52711407 AGCAGGTTAAAGTCACCAATCTTAATCCCCTGAAGTTTCATTAGGGCAGATTGAAGTTACAAGTC
1 AGCAGATCAAAGTCA-CAATCTTAATCCCCTGAAGTTACAGT-GGGCAGATTGAAGTTACAAGTC
52711472 TTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAGCTTATGTCCCTGAAGTTGCAG
64 TTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAGCTTATGTCCCTGAAGTTGCAG
* * *
52711537 TGGAACAGATTGAA-GCTATAAATTACAGATCTTATATCATTGAAGTTTTAGTAG
129 TGGAACAGATT-AAGGC--TAAATTACAGACCTTATATCACTGAAGTTGTAGTAG
* * *
52711591 AGTAGATCATA-TCA-AA-CATT-ATCTCCCTGAAGTTACAGTGGAGCAGGTTGAAGTTACAAGT
1 AGCAGATCAAAGTCACAATC-TTAATC-CCCTGAAGTTACAGTGG-GCAGATTGAAGTTACAAGT
*
52711652 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CAAATCTTAT
63 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAGCTTAT
52711701 CCCCCTAAAT
Statistics
Matches: 257, Mismatches: 27, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
180 15 0.06
181 94 0.37
182 102 0.40
183 10 0.04
184 36 0.14
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (180 bp):
AGCAGATCAAAGTCACAATCTTAATCCCCTGAAGTTACAGTGGGCAGATTGAAGTTACAAGTCTT
ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAGCTTATGTCCCTGAAGTTGCAGTG
GAACAGATTAAGGCTAAATTACAGACCTTATATCACTGAAGTTGTAGTAG
Found at i:52713815 original size:26 final size:26
Alignment explanation
Indices: 52713786--52713864 Score: 97
Period size: 26 Copynumber: 3.1 Consensus size: 26
52713776 GTCATGGAGG
*
52713786 TTATTTATTTTAAATTGTTGTGTATA
1 TTATTTATTTTAAATTGTTGTGCATA
* * *
52713812 TTATTCATTTTAATTTGTTTTGCATA
1 TTATTTATTTTAAATTGTTGTGCATA
**
52713838 TTATTTACCTTAAATTGTTGTGC-TA
1 TTATTTATTTTAAATTGTTGTGCATA
52713863 TT
1 TT
52713865 TACTTTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 4 0.09
26 40 0.91
ACGTcount: A:0.24, C:0.06, G:0.10, T:0.59
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTGTGCATA
Found at i:52724316 original size:17 final size:17
Alignment explanation
Indices: 52724289--52724333 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
52724279 TATAAGTTTA
52724289 AAAAAATTAAAAAAATTT
1 AAAAAA-TAAAAAAATTT
**
52724307 AAAAAATAAAACTATTT
1 AAAAAATAAAAAAATTT
52724324 -AAAAATAAAA
1 AAAAAATAAAA
52724334 GATTAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
17 9 0.36
18 6 0.24
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAAATAAAAAAATTT
Found at i:52724342 original size:15 final size:16
Alignment explanation
Indices: 52724305--52724342 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
52724295 TTAAAAAAAT
*
52724305 TTAAAAAATAAAACTA
1 TTAAAAAATAAAACGA
*
52724321 TTTAAAAATAAAA-GA
1 TTAAAAAATAAAACGA
52724336 TTAAAAA
1 TTAAAAA
52724343 GATGTTTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
TTAAAAAATAAAACGA
Found at i:52738185 original size:171 final size:171
Alignment explanation
Indices: 52737937--52738554 Score: 1040
Period size: 171 Copynumber: 3.6 Consensus size: 171
52737927 CGGTATGGAG
* * * * * *
52737937 TACAATTTATTTTTAATTTGAAGTTTGGATTTCGGACGTTCGTTTAGGGAAATAAATGAATTACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
* * *
52738002 GGAACATTTTCAAATATTTATAGTGTTTCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
66 AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
**
52738067 TCGTAATATTATTTTTGTCATACGATATGGAGTCTTGCAAT
131 TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
* * *
52738108 TATAATTTATTTTTAGTTTGAAGTTTGGATTTCGGACCTTTGTTTTGGGAAATGAATGAATCACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
*
52738173 AGAACGTTTTCAAATATTTAAAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
66 AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
*
52738238 TCGTAATATTATTTTCATCATACGATATGAAGTCTTGCAAT
131 TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
*
52738279 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCAGACCTTTGTTTTGGGAAATGAATGAATCACT
1 TACAATTTATTTTTAGTTTGAAGTTTGGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
52738344 AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
66 AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
52738409 TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
131 TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
*
52738450 TACAATTTATTTTTAGTTCT-AAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
1 TACAATTTATTTTTAGTT-TGAAGTTTGGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
* *
52738514 TACAACTTTTTCAAATATTTATAGTGTTCCAATAACTATAA
65 TAGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAA
52738555 ATGAATGGGT
Statistics
Matches: 424, Mismatches: 22, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
171 423 1.00
172 1 0.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (171 bp):
TACAATTTATTTTTAGTTTGAAGTTTGGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
AGAACGTTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCCAATACTTATTGTAACCTC
TCGTAATATTATTTTCATCATACGATATGGAGTCTTGCAAT
Found at i:52749048 original size:45 final size:45
Alignment explanation
Indices: 52748983--52749673 Score: 391
Period size: 44 Copynumber: 15.3 Consensus size: 45
52748973 TACAACTTTG
* * *
52748983 ATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAGCAAGTCTC
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
* * * * * ** *
52749028 ATTTCCCTAAAGTTGTAGTGGAACAGATT-AAGGCTAAATTATAGACCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-G--ATAGCA-AG-TCTT
* * * *
52749077 ATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAG-TCAACAA-TCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AGCAAGTCTT
* * *
52749121 AT-TCCCCTGAAGTTTCAGT-AAGGCAGATTGAAGTTA-CAAGTCTT
1 ATCT-CCCTGAAGTTGCAGTGGA-GCAGATTGAAGATAGCAAGTCTT
* * *
52749165 ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
* * **
52749210 ATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--AGCA-AG-TCTT
* ** ** * * * *
52749261 ATATCTTTGAAGTTTTAGTAGAGCAGA-T---CATATCAA-ACATT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTC-TT
* *
52749302 ATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-CAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
* * *
52749346 ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
* * * * * *
52749390 ATCCCCCTAAATTTGCAATGGGGCAGATTGAAGCTA-CAAGTCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
* * *
52749434 ATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATATCCAA-CCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-GCAAGTCTT
* * * * * *
52749479 ATCTCCCTAAAGTTACAGTGGAGCAGGTTAAAGCTA-CTAA-TCCT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGC-AAGTCTT
* * *
52749523 ATCTCCCTGAAGTTGCATTGGAGCGGATT-AAAATGATG-AA-TCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-A-GCAAGTCTT
* ** * * *
52749567 ATAC-CTCTGAAGTTATAGTAGG-TCAGATTAAATCTACCATAGCAAGTCTT
1 AT-CTCCCTGAAGTTGCAGT-GGAGCAGATT-GA---A-GATAGCAAGTCTT
* * *
52749617 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATAGCAAATCTT
1 ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
*
52749662 GTCTCCCTGAAG
1 ATCTCCCTGAAG
52749674 ATTACATTGA
Statistics
Matches: 495, Mismatches: 107, Indels: 88
0.72 0.16 0.13
Matches are distributed among these distances:
40 1 0.00
41 22 0.04
42 2 0.00
43 12 0.02
44 221 0.45
45 130 0.26
46 6 0.01
47 7 0.01
48 3 0.01
49 38 0.08
50 29 0.06
51 24 0.05
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (45 bp):
ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAGTCTT
Found at i:52749197 original size:44 final size:43
Alignment explanation
Indices: 52748890--52749551 Score: 406
Period size: 44 Copynumber: 14.8 Consensus size: 43
52748880 CATTATGGCA
* * * * *
52748890 AATCTTATCTCCCTAAAGTTGCAGCGAAGCAGATTAAAGTCAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
** * * *
52748933 TAATCTTA-C-CCCTTGAAGTTATAGTGGGGTAGATTGCAGTTAC
1 -AATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * *
52748976 AA-CTTTGATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAGC
1 AATC-TT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* * * * * * *
52749021 AAGTCTCATTTCCCTAAAGTTGTAGTGGAACAGATTAAGGCTAAATTAT
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G--AAGTTAC
* * * * *
52749070 AGACCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTCAAC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TAC
* *
52749115 AATCTTAT-TCCCCTGAAGTTTCAGT-AAGGCAGATTGAAGTTAC
1 AATCTTATCT-CCCTGAAGTTGCAGTGGA-GCAGATTGAAGTTAC
* * *
52749158 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* *
52749203 AAATCTTATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-------TTAC
* ** ** * *
52749254 AGATCTTATATCTTTGAAGTTTTAGTAGAGCAGA-T-CA--TATC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-C
* *
52749295 AAACATTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTAC
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * *
52749339 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * * * * *
52749383 AAATCTTATCCCCCTAAATTTGCAATGGGGCAGATTGAAGCTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* *
52749427 AAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGATATCC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-T-TAC
* * * * * *
52749473 AACCTTATCTCCCTAAAGTTACAGTGGAGCAGGTTAAAGCTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
* * *
52749516 TAATCCTATCTCCCTGAAGTTGCATTGGAGCGGATT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
52749552 AAAATGATGA
Statistics
Matches: 472, Mismatches: 104, Indels: 84
0.72 0.16 0.13
Matches are distributed among these distances:
40 4 0.01
41 25 0.05
42 8 0.02
43 33 0.07
44 222 0.47
45 107 0.23
46 7 0.01
47 1 0.00
48 1 0.00
49 29 0.06
50 7 0.01
51 26 0.06
52 2 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC
Found at i:52749199 original size:182 final size:180
Alignment explanation
Indices: 52748893--52749545 Score: 575
Period size: 181 Copynumber: 3.6 Consensus size: 180
52748883 TATGGCAAAT
* * * *
52748893 CTTATCTCCCTAAAGTTGCAGCGAAGCAGATTAAAGTCACTAATCTTA-CCCCTTGAAGTTAT-A
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCAC-AATCTTATCCCC-TGAAGTT-TCA
* * * * * * *
52748956 GTGGGGTAGATTGCAGTTACAACT-TTGATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAG
63 GT-GGGCAGATTGAAGTTACAAGTCTT-ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAG
* * * *
52749020 CAAGTCTCATTTCCCTAAAGTTGTAGTGGAACAGATT-AAGGC-TAAATTATAGAC
126 CAAATCTCATGTCCCTAAAGTTGCAGTGGAACAGATTGAA-GCATAAATTACAGAC
*
52749074 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTAAAGTCAACAATCTTATTCCCCTGAAGTTTCAG
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTC-ACAATCTTA-TCCCCTGAAGTTTCAG
*
52749139 TAAGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
64 T-GGGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
* * *
52749204 AATCTTATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGAT
128 AATCTCATGTCCCTAAAGTTGCAGTGGAACAGATTGAAGC-ATAAATTACAGAC
* ** * * * * *
52749258 CTTATATCTTTGAAGTTTTAGTAGAGCAGATCATA-TCA-AA-CATTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCACAATC-TTATC-CCCTGAAGTTTCAG
*
52749320 TGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CA
64 TGG-GCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCA
* ** * * ** * *
52749384 AATCTTATCCCCCTAAATTTGCAATGGGGCAGATTGAAGC-T--A-CA-AG-T
128 AATCTCATGTCCCTAAAGTTGCAGTGGAACAGATTGAAGCATAAATTACAGAC
** * * * *
52749431 CTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGAT-ATCCAACCTTATCTCCCTAAAGTTAC
1 CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG-TCA--CAATCTTATC-CCCTGAAGTTTC
* * * * *
52749495 AGTGGAGCAGGTTAAAGCTACTAA-TCCTATCTCCCTGAAGTTGCATTGGAG
62 AGTGG-GCAGATTGAAGTTAC-AAGTCTTATCTCCCTGAAGTTGCAGTGGAG
52749546 CGGATTAAAA
Statistics
Matches: 399, Mismatches: 55, Indels: 40
0.81 0.11 0.08
Matches are distributed among these distances:
173 27 0.07
174 3 0.01
175 2 0.01
176 1 0.00
177 62 0.16
178 4 0.01
180 39 0.10
181 117 0.29
182 97 0.24
183 10 0.03
184 37 0.09
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (180 bp):
CTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTCACAATCTTATCCCCTGAAGTTTCAGTG
GGCAGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAAT
CTCATGTCCCTAAAGTTGCAGTGGAACAGATTGAAGCATAAATTACAGAC
Found at i:52749354 original size:181 final size:183
Alignment explanation
Indices: 52748963--52749425 Score: 532
Period size: 182 Copynumber: 2.6 Consensus size: 183
52748953 ATAGTGGGGT
* * * * * * *
52748963 AGATTGCAGTTACAACT-TTGATCTCCCTAAAGATGCAGTGGAGCAGATTGAAGATAGCAAGTCT
1 AGATTGAAGTTACAAGTCTT-ATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCT
* * * * *
52749027 CATTTCCCTAAAGTTGTAGTGGAACAGATT-AAGGC--TAAATTATAGACCTTATCTCCCTGAAG
65 TATCTCCCTAAAGTTGCAGTGGAACAGATTGAA-GCTATAAATTACAGACCTTATATCCCTGAAG
* * * *
52749089 TTGTAGTGGAGCAGGTTAAAGTCAACAATCTTATTCCCCTGAAGTTTCAGTAAGGC
129 TTGTAGTAGAGCAGATCAAAGTCAACAA-CTTATTCCCCTGAAGTTGCAGTAAGGC
52749145 AGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTT
1 AGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTT
* * * **
52749210 ATGTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATATCTTTGAAGTT
66 ATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGACCTTATATCCCTGAAGTT
* * *
52749275 TTAGTAGAGCAGATCATA-TC-A-AACATTA-TCTCCCTGAAGTTGCAGT-GGAGC
131 GTAGTAGAGCAGATCAAAGTCAACAAC-TTATTC-CCCTGAAGTTGCAGTAAG-GC
*
52749326 AGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATA-CAAATCTT
1 AGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTT
* * * **
52749390 ATCCCCCTAAATTTGCAATGGGGCAGATTGAAGCTA
66 ATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTA
52749426 CAAGTCTTAT
Statistics
Matches: 243, Mismatches: 31, Indels: 16
0.84 0.11 0.06
Matches are distributed among these distances:
180 41 0.17
181 76 0.31
182 83 0.34
183 6 0.02
184 37 0.15
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (183 bp):
AGATTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATCTT
ATCTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAGACCTTATATCCCTGAAGTT
GTAGTAGAGCAGATCAAAGTCAACAACTTATTCCCCTGAAGTTGCAGTAAGGC
Found at i:52750010 original size:15 final size:15
Alignment explanation
Indices: 52749992--52750021 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52749982 ATAAAACCCC
52749992 CCAAAAATTAAAAGT
1 CCAAAAATTAAAAGT
*
52750007 CCAATAATTAAAAGT
1 CCAAAAATTAAAAGT
52750022 TCATTTACAC
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:0.57, C:0.13, G:0.07, T:0.23
Consensus pattern (15 bp):
CCAAAAATTAAAAGT
Found at i:52750978 original size:10 final size:11
Alignment explanation
Indices: 52750960--52750988 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
52750950 ACTTTGGCCC
52750960 TTCATTTTATT
1 TTCATTTTATT
52750971 TT-ATTTTATT
1 TTCATTTTATT
52750981 TTCATTTT
1 TTCATTTT
52750989 TTCTTGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (11 bp):
TTCATTTTATT
Found at i:52751068 original size:8 final size:8
Alignment explanation
Indices: 52751055--52751083 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
52751045 CATGCTCAAT
52751055 TTATTAAA
1 TTATTAAA
52751063 TTATTAAA
1 TTATTAAA
52751071 TTATTAAA
1 TTATTAAA
52751079 TTATT
1 TTATT
52751084 TATTATTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
TTATTAAA
Found at i:52751516 original size:26 final size:26
Alignment explanation
Indices: 52751487--52751565 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 26
52751477 GTCATGGAGG
* *
52751487 TTATTTATTTTAAATTGCTGTGTATA
1 TTATTTATTTTAAATTGTTGTGCATA
* * *
52751513 TTATTCATTTTAATTTGTTTTGCATA
1 TTATTTATTTTAAATTGTTGTGCATA
**
52751539 TTATTTACCTTAAATTGTTGTGC-TA
1 TTATTTATTTTAAATTGTTGTGCATA
52751564 TT
1 TT
52751566 TACTTTAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
25 4 0.09
26 39 0.91
ACGTcount: A:0.24, C:0.08, G:0.10, T:0.58
Consensus pattern (26 bp):
TTATTTATTTTAAATTGTTGTGCATA
Found at i:52761953 original size:10 final size:11
Alignment explanation
Indices: 52761939--52761968 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
52761929 TATATATAAG
52761939 TTTAAAAAAAA
1 TTTAAAAAAAA
52761950 -TTAAAAAAAA
1 TTTAAAAAAAA
52761960 TTTAAAAAA
1 TTTAAAAAA
52761969 TAAAACTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TTTAAAAAAAA
Found at i:52761998 original size:15 final size:16
Alignment explanation
Indices: 52761961--52761998 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
52761951 TAAAAAAAAT
*
52761961 TTAAAAAATAAAACTA
1 TTAAAAAATAAAACGA
*
52761977 TTTAAAAATAAAA-GA
1 TTAAAAAATAAAACGA
52761992 TTAAAAA
1 TTAAAAA
52761999 GATGTTTTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (16 bp):
TTAAAAAATAAAACGA
Found at i:52765960 original size:169 final size:170
Alignment explanation
Indices: 52765579--52766023 Score: 664
Period size: 169 Copynumber: 2.6 Consensus size: 170
52765569 CGGTATGGAG
* * * * * *
52765579 TACAATTTATTTTTAATTTGAAGTTTGGATTTCAGACCTTCGTTTAGGAAAATAAATGAATTACT
1 TACAATTTATTTTTAGTTTGAAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
* * *
52765644 GGAATATTTTTAAATATTTATAGTGTTCCAATAACTACAAGTGTTCTAATACTTATTGTAACCTC
66 -GAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCTAATACTTATTGTAACCTC
* *
52765709 TCGTAATATTAGTTTCGTCATACGATATGAATTCTTGCAAT
130 TCGTAATATTAGTTTCATCATACGATATGAAGTCTTGCAAT
*
52765750 TACAATTTATTTTTAGTTTGAAG-TTAGGATTTCAGACCTTTGTTTTGGGAAATGAATGAATCAC
1 TACAATTTATTTTTAGTTTGAAGTTTA-GATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
* *
52765814 TAGAACGTTTTCAAATATTTATACTGTTCCAATAACTATAAGTGTTC-AATACTTATTGTAACCT
65 T-GAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCTAATACTTATTGTAACCT
* * *
52765878 CTCTTAATATTATTTTCATCATACGAT-TGGAGTCTTGCAAT
129 CTCGTAATATTAGTTTCATCATACGATATGAAGTCTTGCAAT
52765919 TACAATTTATTTTTAGTTCT-AAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
1 TACAATTTATTTTTAGTT-TGAAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCAC
52765983 TGCAACATTTTCAAATATTTATAGTGTTCCAATAACTATAA
65 TG-AACATTTTCAAATATTTATAGTGTTCCAATAACTATAA
52766024 ATGAATGGGT
Statistics
Matches: 249, Mismatches: 21, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
168 1 0.00
169 106 0.43
170 47 0.19
171 95 0.38
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (170 bp):
TACAATTTATTTTTAGTTTGAAGTTTAGATTTCAGACCTTTGTTTAGGGAAATGAATGAATCACT
GAACATTTTCAAATATTTATAGTGTTCCAATAACTATAAGTGTTCTAATACTTATTGTAACCTCT
CGTAATATTAGTTTCATCATACGATATGAAGTCTTGCAAT
Found at i:52774898 original size:13 final size:13
Alignment explanation
Indices: 52774882--52774906 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52774872 TTTACAAAAG
52774882 CAAATGGTTTTTA
1 CAAATGGTTTTTA
52774895 CAAATGGTTTTT
1 CAAATGGTTTTT
52774907 GGAAACACGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (13 bp):
CAAATGGTTTTTA
Found at i:52785151 original size:30 final size:31
Alignment explanation
Indices: 52785117--52785178 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
52785107 AAACATTTCT
* *
52785117 ACTTT-CCCCCTAAAATTTTTAC-TCCTTCCC
1 ACTTTACCCCC-AAAACTTTTACTTCCCTCCC
*
52785147 ACTTTACTCCCAAAACTTTTACTTCCCTCCC
1 ACTTTACCCCCAAAACTTTTACTTCCCTCCC
52785178 A
1 A
52785179 TCCCAACCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 15 0.56
31 12 0.44
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (31 bp):
ACTTTACCCCCAAAACTTTTACTTCCCTCCC
Found at i:52785484 original size:18 final size:18
Alignment explanation
Indices: 52785456--52785494 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
52785446 TCCCGCAAAA
52785456 TTTTACTCCCCC-AAACT
1 TTTTACTCCCCCTAAACT
52785473 TTTTATCTCCCCCTAAACT
1 TTTTA-CTCCCCCTAAACT
52785492 TTT
1 TTT
52785495 ACTTCTCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.25
18 7 0.35
19 8 0.40
ACGTcount: A:0.21, C:0.36, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTTACTCCCCCTAAACT
Found at i:52791758 original size:42 final size:41
Alignment explanation
Indices: 52791699--52791910 Score: 188
Period size: 42 Copynumber: 5.5 Consensus size: 41
52791689 ATTCATTGGT
* *
52791699 GGTTGCAAAGTGCTGATTCCACAGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGG
*
52791741 GGTTGCTAAGTGCTGATTCC-CCG-AGTC----AT-TG--GT
1 GGTTGCTAAGTGCTGATTCCACCGTA-TCTTAAATGTGAAGG
52791774 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
* * * *
52791815 GGCTTGCTAAGTGTTGATTTC-CCGAATC----AT-TG--GT
1 GG-TTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
* *
52791849 GGTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTG-AAGG
52791891 GGTTGCTAAGTGCTGATTCC
1 GGTTGCTAAGTGCTGATTCC
52791911 CCGACTCATT
Statistics
Matches: 136, Mismatches: 14, Indels: 40
0.72 0.07 0.21
Matches are distributed among these distances:
33 37 0.27
34 14 0.10
35 1 0.01
36 4 0.03
37 4 0.03
38 4 0.03
39 4 0.03
40 1 0.01
41 13 0.10
42 54 0.40
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
Found at i:52791783 original size:33 final size:32
Alignment explanation
Indices: 52791741--52791949 Score: 130
Period size: 33 Copynumber: 5.8 Consensus size: 32
52791731 ATGTGAAAGG
52791741 GGTTGCTAAGTGCTGATTCCCCGAGTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGA-TCATTGGT
*
52791774 GGTTGCTAAGTGCTGATTCCACCGTATCTTAAATGTGAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-ATC----AT-TG--GT
* *
52791815 GGCTTGCTAAGTGTTGATTTCCCGAATCATTGGT
1 GG-TTGCTAAGTGCTGATTCCCCG-ATCATTGGT
* * *
52791849 GGTTGCTAAGTGTTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-ATC----AT-TG---GT
52791891 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGA-TCATTGGT
* *
52791924 GGTTGCTAAGTGTTGAATCCACCGAT
1 GGTTGCTAAGTGCTGATTCC-CCGAT
52791950 AACGGATAAC
Statistics
Matches: 141, Mismatches: 14, Indels: 42
0.72 0.07 0.21
Matches are distributed among these distances:
33 56 0.40
34 18 0.13
35 1 0.01
36 4 0.03
37 4 0.03
38 4 0.03
39 4 0.03
40 1 0.01
41 14 0.10
42 35 0.25
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (32 bp):
GGTTGCTAAGTGCTGATTCCCCGATCATTGGT
Found at i:52791785 original size:75 final size:75
Alignment explanation
Indices: 52791662--52791947 Score: 441
Period size: 75 Copynumber: 3.8 Consensus size: 75
52791652 TGATTCCCCC
* * *
52791662 AAGGGGTTGCTAAGTGCTGATT-CCCTAATTCATTGGTGGTTGCAAAGTGCTGATTCCACAGTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAA-TCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
52791726 CTTAAATGTGA
65 CTTAAATGTGA
*
52791737 AAGGGGTTGCTAAGTGCTGATTCCCCGAGTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
52791802 TTAAATGTG-
66 TTAAATGTGA
* * * *
52791811 AAGGGGCTTGCTAAGTGTTGATTTCCCGAATCATTGGTGGTTGCTAAGTGTTGATCCCACCGTAT
1 AAGGGG-TTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTAT
52791876 CTTAAATGTGA
65 CTTAAATGTGA
* * *
52791887 AAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGTGGTTGCTAAGTGTTGAATCCACCG
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCG
52791948 ATAACGGATA
Statistics
Matches: 194, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
74 6 0.03
75 178 0.92
76 10 0.05
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATC
TTAAATGTGA
Found at i:52799375 original size:102 final size:102
Alignment explanation
Indices: 52799199--52799429 Score: 401
Period size: 102 Copynumber: 2.3 Consensus size: 102
52799189 ATTGAATATA
*
52799199 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTTCTCGATTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTTCTCGAATCATTGGT
52799264 GGTTGCTAAGTGCTGATTC-CACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGA-TCGCACCGTATCTTAAATGTG
* **
52799301 AAGGGGGTTGCTAAGTGTTGATTCCCCTGAGGGGTTGCTAAGTGCTGATTTCTCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTTCTCGAATCATTGGT
52799366 GGTTGCTAAGTGCTGATCGCACCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATCGCACCGTATCTTAAATGTG
*
52799403 AAAGGGGTTGCTAAGTGCTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
52799430 AACTCATTGG
Statistics
Matches: 122, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
101 2 0.02
102 120 0.98
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTTCTCGAATCATTGGT
GGTTGCTAAGTGCTGATCGCACCGTATCTTAAATGTG
Found at i:52800620 original size:38 final size:36
Alignment explanation
Indices: 52800551--52800655 Score: 135
Period size: 38 Copynumber: 2.9 Consensus size: 36
52800541 GGCCTATTTT
*
52800551 TATTTTAAAAAT-TTTTAAAA-ATAAAAA-AAAAAG
1 TATTTTAAAAATATTTTAAAATAAAAAAATAAAAAG
52800584 TATTTTAAAAATATTTTAAAATAAAAAAATTTAAAAAG
1 TATTTTAAAAATATTTTAAAATAAAAAAA--TAAAAAG
* *
52800622 TATGTAAAAAATATTTTAAAATTAAAAAAATAAA
1 TATTTTAAAAATATTTTAAAA-TAAAAAAATAAA
52800656 TATATTTATT
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
33 12 0.19
34 8 0.13
35 6 0.10
37 4 0.06
38 25 0.40
39 8 0.13
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (36 bp):
TATTTTAAAAATATTTTAAAATAAAAAAATAAAAAG
Found at i:52800642 original size:11 final size:11
Alignment explanation
Indices: 52800551--52800604 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
52800541 GGCCTATTTT
52800551 TATTTTAAAAA
1 TATTTTAAAAA
52800562 T-TTTTAAAAA
1 TATTTTAAAAA
****
52800572 TAAAAAAAAAA
1 TATTTTAAAAA
52800583 GTATTTTAAAAA
1 -TATTTTAAAAA
52800595 TATTTTAAAA
1 TATTTTAAAA
52800605 TAAAAAAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
10 10 0.30
11 16 0.48
12 7 0.21
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:52802692 original size:18 final size:17
Alignment explanation
Indices: 52802644--52802693 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
52802634 CACTTAAAAG
52802644 AATTTTATTTTAATAAT
1 AATTTTATTTTAATAAT
* * *
52802661 GATATTAATGTTAATAAT
1 AAT-TTTATTTTAATAAT
52802679 AAATTTTATTTTAAT
1 -AATTTTATTTTAAT
52802694 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
AATTTTATTTTAATAAT
Found at i:52804074 original size:19 final size:22
Alignment explanation
Indices: 52804025--52804070 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
52804015 AATCTATAAC
52804025 CTCTATAATCATTTTACTTCTT
1 CTCTATAATCATTTTACTTCTT
52804047 CTCTATAATCATTTTACTTCTT
1 CTCTATAATCATTTTACTTCTT
52804069 CT
1 CT
52804071 TAATTCTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.24, G:0.00, T:0.54
Consensus pattern (22 bp):
CTCTATAATCATTTTACTTCTT
Found at i:52806021 original size:24 final size:24
Alignment explanation
Indices: 52805985--52806040 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
52805975 AATTTGAGTT
52805985 TTGATTTGAGTGTTGTGATGGCAA
1 TTGATTTGAGTGTTGTGATGGCAA
* *
52806009 TTGGTTTGAGTGTTGTGATGGCAG
1 TTGATTTGAGTGTTGTGATGGCAA
52806033 TTGATTTG
1 TTGATTTG
52806041 GTCCTTGATC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.16, C:0.04, G:0.36, T:0.45
Consensus pattern (24 bp):
TTGATTTGAGTGTTGTGATGGCAA
Found at i:52810769 original size:18 final size:17
Alignment explanation
Indices: 52810747--52810790 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
52810737 AAAAATTTAT
52810747 AAATTTTTAAAAAATAA
1 AAATTTTTAAAAAATAA
* *
52810764 AGAATTATGAAAAAATAA
1 A-AATTTTTAAAAAATAA
52810782 AAATTTTTA
1 AAATTTTTA
52810791 GAATTCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (17 bp):
AAATTTTTAAAAAATAA
Found at i:52830032 original size:90 final size:90
Alignment explanation
Indices: 52829879--52830043 Score: 321
Period size: 90 Copynumber: 1.8 Consensus size: 90
52829869 ATCAAGATGC
52829879 AGGAGATGTTTGAAATGTCTGATTTAGGGAAAATGTCCTATTTTCTGGGAATGGAGGTGACACAA
1 AGGAGATGTTTGAAATGTCTGATTTAGGGAAAATGTCCTATTTTCTGGGAATGGAGGTGACACAA
52829944 ACACAAGATGGGATATTCCTAAGAT
66 ACACAAGATGGGATATTCCTAAGAT
52829969 AGGAGATGTTTGAAATGTCTGATTTAGGGAAAATGTCCTATTTTCTGGGAATGGAGGTGACACAA
1 AGGAGATGTTTGAAATGTCTGATTTAGGGAAAATGTCCTATTTTCTGGGAATGGAGGTGACACAA
*
52830034 ACACAGGATG
66 ACACAAGATG
52830044 CCTCGAAGAT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (90 bp):
AGGAGATGTTTGAAATGTCTGATTTAGGGAAAATGTCCTATTTTCTGGGAATGGAGGTGACACAA
ACACAAGATGGGATATTCCTAAGAT
Found at i:52835387 original size:40 final size:40
Alignment explanation
Indices: 52835328--52835539 Score: 268
Period size: 40 Copynumber: 5.3 Consensus size: 40
52835318 CATTTGAATG
*
52835328 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
52835368 TTATCCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
52835408 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
52835448 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
52835488 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
52835528 ATATCC-GGCTAA
1 ATATCCGGGCTAA
52835540 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 16, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 7 0.05
40 143 0.93
41 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:52844405 original size:30 final size:30
Alignment explanation
Indices: 52844363--52844421 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52844353 TTCTCACTCC
52844363 CAAGCTTCTGAACG-CAATATCGAGTCTTCA
1 CAAGCTTCTGAACGAC-ATATCGAGTCTTCA
*
52844393 CAAGC-TCTTGAACGACATATCTAGTCTTC
1 CAAGCTTC-TGAACGACATATCGAGTCTTC
52844422 TCAATCCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 23 0.88
31 1 0.04
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
CAAGCTTCTGAACGACATATCGAGTCTTCA
Found at i:52844454 original size:66 final size:66
Alignment explanation
Indices: 52844327--52844456 Score: 147
Period size: 66 Copynumber: 2.0 Consensus size: 66
52844317 CAAATCTTTT
* * * * *
52844327 CAAGCTCTTAAACAAGATATCATGTATTCTCACTCCCAAGCTTCTGAACGCAATATCGAGTCTTC
1 CAAGCTCTTAAACAACATATCATGTATTCTCAATCCCAAGATCCTAAACGCAATATCGAGTCTTC
52844392 A
66 A
* * * *
52844393 CAAGCTCTTGAACGACATATC-TAGTCTTCTCAATCCCAAGATCCTAAACG-AGATATTGAGTCT
1 CAAGCTCTTAAACAACATATCAT-GTATTCTCAATCCCAAGATCCTAAACGCA-ATATCGAGTCT
52844456 T
64 T
52844457 TCCAAACTCC
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
65 2 0.04
66 51 0.96
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (66 bp):
CAAGCTCTTAAACAACATATCATGTATTCTCAATCCCAAGATCCTAAACGCAATATCGAGTCTTC
A
Found at i:52851784 original size:11 final size:10
Alignment explanation
Indices: 52851748--52851775 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
52851738 ATGATGAAGA
52851748 ACAAAAGTTC
1 ACAAAAGTTC
52851758 ACAAAAGTTC
1 ACAAAAGTTC
52851768 ACAAAAGT
1 ACAAAAGT
52851776 ATGACAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.18, G:0.11, T:0.18
Consensus pattern (10 bp):
ACAAAAGTTC
Found at i:52859468 original size:18 final size:17
Alignment explanation
Indices: 52859427--52859474 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
52859417 CTTTTTAATC
52859427 TTTTA-TTTTTAAATAG
1 TTTTATTTTTTAAATAG
**
52859443 TTTTATTTTTTAAATTT
1 TTTTATTTTTTAAATAG
52859460 TTTTAATTTTTTAAA
1 TTTT-ATTTTTTAAA
52859475 AACTTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.18
17 13 0.46
18 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTATTTTTTAAATAG
Found at i:52874437 original size:44 final size:42
Alignment explanation
Indices: 52874399--52874644 Score: 192
Period size: 44 Copynumber: 5.6 Consensus size: 42
52874389 TTTAATCCAT
* * *
52874399 TCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTTAA-CCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTCAATCC--C
* * * *
52874443 TCCACTGTAACTTCAGGGAGATAAGGTTTGATATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAA-GATTG-TAGCTTCAATC-CC
* * *
52874488 TCCACTGCAGCTTCAGGGAGATAAGACTTGTAGTTTTAATCTGCC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTCAATC--CC
* * * * *
52874533 -CCACTGCAAATTCAGGGGGATAAGATTTGTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTCAATC-CC
* *
52874576 TCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAA-CCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTCAATCC--C
52874620 TCCACTGCAACTTCAGGGAGATAAG
1 TCCACTGCAACTTCAGGGAGATAAG
52874645 GTTTGATATG
Statistics
Matches: 160, Mismatches: 33, Indels: 18
0.76 0.16 0.09
Matches are distributed among these distances:
43 2 0.01
44 120 0.75
45 37 0.23
46 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (42 bp):
TCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTCAATCCC
Found at i:52874599 original size:88 final size:89
Alignment explanation
Indices: 52874399--52874653 Score: 361
Period size: 88 Copynumber: 2.9 Consensus size: 89
52874389 TTTAATCCAT
* *
52874399 TCCACTGCAACTTCAAGGAGATAGGA-TTAGTAGCTTTAACCTGCTCCACTGTAACTTCAGGGAG
1 TCCACTGCAACTTCAAGGAGATAAGACTT-GTAGCTTTAACCTGCTCCACTGCAACTTCAGGGAG
*
52874463 ATAAGGTTTGATATCTTCAATCTGC
65 ATAAGGTTTGATATCTTCAATCTAC
* * * * * * *
52874488 TCCACTGCAGCTTCAGGGAGATAAGACTTGTAGTTTTAATCTGCCCCACTGCAAATTCAGGGGGA
1 TCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
* *
52874553 TAAGATTTG-TATCTTCAGTCTAC
66 TAAGGTTTGATATCTTCAATCTAC
* *
52874576 TCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
52874641 TAAGGTTTGATAT
66 TAAGGTTTGATAT
52874654 GATCTGCTCT
Statistics
Matches: 142, Mismatches: 22, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
88 76 0.54
89 64 0.45
90 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (89 bp):
TCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTTTAACCTGCTCCACTGCAACTTCAGGGAGA
TAAGGTTTGATATCTTCAATCTAC
Found at i:52874793 original size:181 final size:180
Alignment explanation
Indices: 52874552--52875002 Score: 493
Period size: 182 Copynumber: 2.5 Consensus size: 180
52874542 ATTCAGGGGG
* *
52874552 ATAAGATTTG-TATCTTCAGTCTACTCCACTGCAACTTCAAGGAGATAAGACTTGTAACTTCAAC
1 ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAT
* * * * * *
52874616 CTGCTCCACTGCAACTTCA-GGGAGATAAGGTT-TGA-TATGATCTGCTCTACTAAAACTTAAAA
66 CTGC-CCACTGAAACTTCAGGGGA-ATAAGATTGTGACTATAACCTACTCCACTAAAACTTAAAA
* * *
52874678 GATATAAGATCTGTAATTTATAG-CTTCAATCTGTTCCACTGCAACTTTAAGG-AC
129 GAGATAAGATCTATAA-TT-TAGCCTT-AATCTGTTCCACTGCAAC-TTAAGGAAA
* * *
52874732 ATAAGATTTGCTATCTTCAGTCTACTCCTCTGTAACTTCAGGGAGATAAGACTTTTAACTTCAAT
1 ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAT
* * * * **
52874797 CTGCCCTACTAAAACTTCAGGGGAATAAGATTGGTGACTTTAACCTACTCCACTACAACTTCAGG
66 CTGCCC-ACTGAAACTTCAGGGGAATAAGATT-GTGACTATAACCTACTCCACTAAAACTTAAAA
* * *
52874862 GAGGTAAGGTCTATAATTTAGCCTTAATCTGTTCCACTGCAACTTCAGGAAA
129 GAGATAAGATCTATAATTTAGCCTTAATCTGTTCCACTGCAACTTAAGGAAA
* * * *
52874914 ATGAGATTTGCTATCTTCAGTCTGCTCCACTGCATCTTCAGGGAGATCAA-ACTTGTAACTGCAA
1 ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGAT-AAGACTTGTAACTTCAA
* *
52874978 TCTACCCCACTGTAACTTCACGGGG
65 TCT-GCCCACTGAAACTTCA-GGGG
52875003 CAAGATTAGT
Statistics
Matches: 227, Mismatches: 33, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
180 12 0.05
181 75 0.33
182 93 0.41
183 17 0.07
184 30 0.13
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (180 bp):
ATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAAT
CTGCCCACTGAAACTTCAGGGGAATAAGATTGTGACTATAACCTACTCCACTAAAACTTAAAAGA
GATAAGATCTATAATTTAGCCTTAATCTGTTCCACTGCAACTTAAGGAAA
Found at i:52874955 original size:182 final size:179
Alignment explanation
Indices: 52874523--52874980 Score: 487
Period size: 181 Copynumber: 2.5 Consensus size: 179
52874513 ACTTGTAGTT
** * **
52874523 TTAATCTGCCCCACTGCAAATTCAGGGGGATAAGATTTG-TATCTTCAGTCTACTCCACTGCAAC
1 TTAATCTGTTCCACTGCAACTTCA-GGAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAAC
* * ** *
52874587 TTCAAGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGAT
65 TTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTAAAACTTCAGGGAGATAAGATTTGAT
* * * * * *
52874652 ATGATCTGCTCTACTAAAACTTAAAAGATATAAGATCTGTAATTTATAGC
130 ATAACCTACTCCACTAAAACTTAAAAGAGATAAGATCTATAATTTATAGC
* * * *
52874702 TTCAATCTGTTCCACTGCAACTTTAAGGACATAAGATTTGCTATCTTCAGTCTACTCCTCTGTAA
1 TT-AATCTGTTCCACTGCAAC-TTCAGGAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAA
*
52874767 CTTCAGGGAGATAAGACTTTTAACTTCAATCTGC-CCTACTAAAACTTCAGGG-GAATAAGATTG
64 CTTCAGGGAGATAAGACTTGTAACTTCAATCTGCTCC-ACTAAAACTTCAGGGAG-ATAAGATT-
* * * ** * *
52874830 GTGACTTTAACCTACTCCACTACAACTTCAGGGAGGTAAGGTCTATAA-TT-TAGCC
126 -TGA-TATAACCTACTCCACTAAAACTTAAAAGAGATAAGATCTATAATTTATAG-C
* * *
52874885 TTAATCTGTTCCACTGCAACTTCAGGAAAATGAGATTTGCTATCTTCAGTCTGCTCCACTGCATC
1 TTAATCTGTTCCACTGCAACTTCAGG-AAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAAC
*
52874950 TTCAGGGAGATCAA-ACTTGTAACTGCAATCT
65 TTCAGGGAGAT-AAGACTTGTAACTTCAATCT
52874981 ACCCCACTGT
Statistics
Matches: 232, Mismatches: 36, Indels: 19
0.81 0.13 0.07
Matches are distributed among these distances:
179 2 0.01
180 30 0.13
181 81 0.35
182 79 0.34
183 10 0.04
184 30 0.13
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (179 bp):
TTAATCTGTTCCACTGCAACTTCAGGAAATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACT
TCAGGGAGATAAGACTTGTAACTTCAATCTGCTCCACTAAAACTTCAGGGAGATAAGATTTGATA
TAACCTACTCCACTAAAACTTAAAAGAGATAAGATCTATAATTTATAGC
Found at i:52879664 original size:22 final size:21
Alignment explanation
Indices: 52879634--52879691 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
52879624 ATACAATCGT
*
52879634 AGATTTGATATGTAATCTTAG
1 AGATTTGATTTGTAATCTTAG
*
52879655 AAGATATGATTTTGTAATCTTAG
1 -AGATTTGA-TTTGTAATCTTAG
52879678 AGATTTGATTTGTA
1 AGATTTGATTTGTA
52879692 GATACCATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.33, C:0.03, G:0.19, T:0.45
Consensus pattern (21 bp):
AGATTTGATTTGTAATCTTAG
Found at i:52879674 original size:23 final size:22
Alignment explanation
Indices: 52879644--52879688 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
52879634 AGATTTGATA
52879644 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAG-AGATATGATTT
*
52879667 TGTAATCTTAGAGATTTGATTT
1 TGTAATCTTAGAGATATGATTT
52879689 GTAGATACCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGATATGATTT
Done.