Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007860.1 Hibiscus syriacus cultivar Beakdansim tig00110223_pilon, whole genome shotgun sequence
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: 2941097
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 16
Found at i:349535 original size:19 final size:20
Alignment explanation
Indices: 349511--349567 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
349501 TCGCATTGCG
*
349511 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
* *
349531 A-TTTCGCATTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
349550 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
349568 TCAAATGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.39
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:349557 original size:20 final size:19
Alignment explanation
Indices: 349520--349570 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 19
349510 GATTTTCTCG
*
349520 TTGCGATAGCCATTTCGCA
1 TTGCGATAGTCATTTCGCA
*
349539 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCA-TTTCGCA
349559 TTGCGATAGTCA
1 TTGCGATAGTCA
349571 AATGAATGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (19 bp):
TTGCGATAGTCATTTCGCA
Found at i:350650 original size:24 final size:24
Alignment explanation
Indices: 350623--350676 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
350613 GTATTCGAAA
* *
350623 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
350647 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
350671 TTTGAT
1 TTTGAT
350677 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:350868 original size:12 final size:12
Alignment explanation
Indices: 350851--350875 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
350841 ATATAATCCT
350851 GAAGAAGAAAAA
1 GAAGAAGAAAAA
350863 GAAGAAGAAAAA
1 GAAGAAGAAAAA
350875 G
1 G
350876 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:353208 original size:33 final size:33
Alignment explanation
Indices: 353166--353292 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
353156 GGAAATTACT
353166 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
353199 ATCGCAATGCGAAATGAAAATTGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
353231 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
353265 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
353293 CGAATTCGAG
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:353273 original size:66 final size:66
Alignment explanation
Indices: 353167--353298 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
353157 GAAATTACTA
* *
353167 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
353232 T
66 T
*
353233 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
353298 T
66 T
353299 CGAGTTTCGC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:353315 original size:20 final size:20
Alignment explanation
Indices: 353292--353336 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
353282 AAATCGCAAC
353292 GCGA-ATTCGAGTTTCGCGTT
1 GCGATATTC-AGTTTCGCGTT
* *
353312 GCGATTTTCATTTTCGCGTT
1 GCGATATTCAGTTTCGCGTT
353332 GCGAT
1 GCGAT
353337 TCTCTCATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.13, C:0.20, G:0.27, T:0.40
Consensus pattern (20 bp):
GCGATATTCAGTTTCGCGTT
Found at i:353495 original size:14 final size:14
Alignment explanation
Indices: 353476--353512 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
353466 CATAAATTAA
353476 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
353490 ACAAATCACCTTTT
1 ACAAATCAACTTTT
353504 ACAAATCAA
1 ACAAATCAA
353513 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:354926 original size:21 final size:21
Alignment explanation
Indices: 354860--354926 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
354850 GTGAATCGGG
*
354860 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
354880 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
354902 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
354923 CTCT
1 CTCT
354927 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:354945 original size:42 final size:41
Alignment explanation
Indices: 354860--354982 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
354850 GTGAATCGGG
* * * * *
354860 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
354902 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
354944 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
354983 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:357066 original size:19 final size:19
Alignment explanation
Indices: 356982--357133 Score: 152
Period size: 19 Copynumber: 8.1 Consensus size: 19
356972 TCTTTTGGTT
* *
356982 GAAATGAAAATCGAAACGA
1 GAAATGAAAATCGCAACGC
*
357001 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
** *
357021 GGAAATGACTATCGCGAC-C
1 -GAAATGAAAATCGCAACGC
*
357040 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
357055 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
357075 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
357094 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
357113 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
357132 GA
1 GA
357134 TTTTTGTTTC
Statistics
Matches: 112, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
14 10 0.09
15 2 0.02
18 1 0.01
19 53 0.47
20 44 0.39
21 2 0.02
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:357087 original size:39 final size:38
Alignment explanation
Indices: 357044--357133 Score: 162
Period size: 39 Copynumber: 2.3 Consensus size: 38
357034 GCGACCAGAC
357044 AATCGCAACGCGAAATGAAAATCGCAACCGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CGCGAAATAAA
357083 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
*
357121 AATCGCAATGCGA
1 AATCGCAACGCGA
357134 TTTTTGTTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 23 0.46
39 27 0.54
ACGTcount: A:0.48, C:0.22, G:0.19, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATAAA
Found at i:357169 original size:19 final size:19
Alignment explanation
Indices: 357123--357173 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
357113 GAAATAAAAA
* *
357123 TCGCAATGCGATTTTTGTT
1 TCGCATTGCGATTTTTATT
*
357142 TCGCATTGCGTTTTTTATT
1 TCGCATTGCGATTTTTATT
*
357161 TCGCGTTGCGATT
1 TCGCATTGCGATT
357174 ATCTCGTTGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.12, C:0.18, G:0.22, T:0.49
Consensus pattern (19 bp):
TCGCATTGCGATTTTTATT
Found at i:357791 original size:20 final size:20
Alignment explanation
Indices: 357766--357819 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
357756 GATTTTGTAT
357766 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
357786 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
357806 TATCGCATTGCGAT
1 TATCGCATTGCGAT
357820 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:357930 original size:21 final size:21
Alignment explanation
Indices: 357890--357930 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
357880 ATTGTATACC
**
357890 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
357911 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
357931 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:375561 original size:24 final size:24
Alignment explanation
Indices: 375534--375737 Score: 193
Period size: 24 Copynumber: 8.5 Consensus size: 24
375524 ACCCATTGGT
*
375534 ACTAATAC-GAGAGTGCACAATTGC
1 ACTAATACAG-GAGTGCAGAATTGC
*
375558 ACTAATACAGGAGTGCA-TATTCGC
1 ACTAATACAGGAGTGCAGAATT-GC
* *
375582 ACTAATACATGAGTGCATGAA-AGC
1 ACTAATACAGGAGTGCA-GAATTGC
* *
375606 ACTAATACAGGAGTGCATATTTGC
1 ACTAATACAGGAGTGCAGAATTGC
* *
375630 ACTAATACATGAGTGCATGAA-AGC
1 ACTAATACAGGAGTGCA-GAATTGC
* *
375654 ACTAATACAGGAGTGCATATTTGC
1 ACTAATACAGGAGTGCAGAATTGC
*
375678 ACTAATACAGGAGTGCATGAA-AGC
1 ACTAATACAGGAGTGCA-GAATTGC
* * *
375702 ACTAATACAGGAGTGGATATTTGC
1 ACTAATACAGGAGTGCAGAATTGC
*
375726 ACTAATCCAGGA
1 ACTAATACAGGA
375738 TCAAATGATA
Statistics
Matches: 147, Mismatches: 24, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
23 6 0.04
24 137 0.93
25 3 0.02
26 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (24 bp):
ACTAATACAGGAGTGCAGAATTGC
Found at i:375586 original size:48 final size:48
Alignment explanation
Indices: 375556--375731 Score: 325
Period size: 48 Copynumber: 3.7 Consensus size: 48
375546 GTGCACAATT
*
375556 GCACTAATACAGGAGTGCATATTCGCACTAATACATGAGTGCATGAAA
1 GCACTAATACAGGAGTGCATATTTGCACTAATACATGAGTGCATGAAA
375604 GCACTAATACAGGAGTGCATATTTGCACTAATACATGAGTGCATGAAA
1 GCACTAATACAGGAGTGCATATTTGCACTAATACATGAGTGCATGAAA
*
375652 GCACTAATACAGGAGTGCATATTTGCACTAATACAGGAGTGCATGAAA
1 GCACTAATACAGGAGTGCATATTTGCACTAATACATGAGTGCATGAAA
*
375700 GCACTAATACAGGAGTGGATATTTGCACTAAT
1 GCACTAATACAGGAGTGCATATTTGCACTAAT
375732 CCAGGATCAA
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 125 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (48 bp):
GCACTAATACAGGAGTGCATATTTGCACTAATACATGAGTGCATGAAA
Found at i:375610 original size:72 final size:72
Alignment explanation
Indices: 375534--375737 Score: 227
Period size: 72 Copynumber: 2.8 Consensus size: 72
375524 ACCCATTGGT
* *
375534 ACTAATAC-GAGAGTGCACAATTGCACTAATACAGGAGTGCATATTCGCACTAATACATGAGTGC
1 ACTAATACAG-GAGTGCACAATTGCACTAATACAGGAGTGCATATTAGCACTAATACAGGAGTGC
375598 ATGA-AAGC
65 AT-ATAAGC
* * * *
375606 ACTAATACAGGAGTGCATATTTGCACTAATACATGAGTGCATGA-AAGCACTAATACAGGAGTGC
1 ACTAATACAGGAGTGCACAATTGCACTAATACAGGAGTGCAT-ATTAGCACTAATACAGGAGTGC
**
375670 ATATTTGC
65 ATATAAGC
* * * * *
375678 ACTAATACAGGAGTGCATGAA-AGCACTAATACAGGAGTGGATATTTGCACTAATCCAGGA
1 ACTAATACAGGAGTGCA-CAATTGCACTAATACAGGAGTGCATATTAGCACTAATACAGGA
375738 TCAAATGATA
Statistics
Matches: 111, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
71 2 0.02
72 106 0.95
73 3 0.03
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.24
Consensus pattern (72 bp):
ACTAATACAGGAGTGCACAATTGCACTAATACAGGAGTGCATATTAGCACTAATACAGGAGTGCA
TATAAGC
Found at i:378964 original size:39 final size:39
Alignment explanation
Indices: 378897--378973 Score: 95
Period size: 39 Copynumber: 1.9 Consensus size: 39
378887 AAATAATTTA
*
378897 CCTTTAAAATTTTAACTAATTTATAATT-ATATATTGAGT
1 CCTTTAAAAGTTTAACT-ATTTATAATTAATATATTGAGT
*
378936 CCTTTAAAAGTTTAACGT-TTTATAAATTAATTTATTGA
1 CCTTTAAAAGTTTAAC-TATTTAT-AATTAATATATTGA
378974 TACTCATAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
38 5 0.15
39 19 0.58
40 9 0.27
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (39 bp):
CCTTTAAAAGTTTAACTATTTATAATTAATATATTGAGT
Found at i:379655 original size:16 final size:17
Alignment explanation
Indices: 379616--379658 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
379606 ATAATTTAAC
379616 TATTTATTTT-TTTATA
1 TATTTATTTTATTTATA
*
379632 TATGTATTTTATTT-TA
1 TATTTATTTTATTTATA
*
379648 TTTTTATTTTA
1 TATTTATTTTA
379659 AATTTTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 20 0.87
17 3 0.13
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TATTTATTTTATTTATA
Found at i:381121 original size:5 final size:5
Alignment explanation
Indices: 381111--381146 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
381101 CTAAAATTTC
381111 AAATA AAATA AAATA AAATA AAACTTA AAATA AAAT
1 AAATA AAATA AAATA AAATA AAA--TA AAATA AAAT
381147 TTTGAATGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 24 0.83
7 5 0.17
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (5 bp):
AAATA
Found at i:386235 original size:9 final size:9
Alignment explanation
Indices: 386221--386249 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
386211 ATGATGCTTT
386221 AAAAAATTA
1 AAAAAATTA
386230 AAAAAATTA
1 AAAAAATTA
386239 AAAAAA-TA
1 AAAAAATTA
386247 AAA
1 AAA
386250 CTATAGGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAATTA
Found at i:387548 original size:3 final size:3
Alignment explanation
Indices: 387542--387594 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
387532 ATTATTTATT
*
387542 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
387586 TAA TAA TAA
1 TAA TAA TAA
387595 ATAAAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:387563 original size:16 final size:16
Alignment explanation
Indices: 387544--387598 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 16
387534 TATTTATTTA
387544 ATAATAATAATATAAT
1 ATAATAATAATATAAT
*
387560 ATAATAATAATATTAAA
1 ATAATAATAATA-TAAT
387577 AT-ATAATAATAATAAT
1 ATAATAATAAT-ATAAT
387593 A-AATAA
1 ATAATAA
387599 AACAAATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 28 0.82
17 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
ATAATAATAATATAAT
Found at i:387564 original size:19 final size:18
Alignment explanation
Indices: 387542--387597 Score: 85
Period size: 19 Copynumber: 3.0 Consensus size: 18
387532 ATTATTTATT
387542 TAATAATAATAATATAATA
1 TAATAATAATAATA-AATA
*
387561 TAATAATAATATTAAAATA
1 TAATAATAATAAT-AAATA
387580 TAATAATAATAATAAATA
1 TAATAATAATAATAAATA
387598 AAACAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 5 0.15
19 28 0.82
20 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TAATAATAATAATAAATA
Found at i:387567 original size:22 final size:21
Alignment explanation
Indices: 387520--387598 Score: 90
Period size: 22 Copynumber: 3.8 Consensus size: 21
387510 TGTAAAAATG
* * *
387520 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
387542 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
*
387564 TAATAAT-ATTAA-AATATAA
1 TAATAATAATAAATAATATAA
387583 TAATAATAATAAATAA
1 TAATAATAATAAATAA
387599 AACAAATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
19 14 0.29
20 5 0.10
21 5 0.10
22 19 0.39
23 6 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:389558 original size:23 final size:23
Alignment explanation
Indices: 389532--389582 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
389522 TAAGGTTGAA
*
389532 CGACAGGTTTTTGTTAAGCATCT
1 CGACAGGTTGTTGTTAAGCATCT
389555 CGACAGGTTGTTGTTAAGCATCT
1 CGACAGGTTGTTGTTAAGCATCT
389578 CGACA
1 CGACA
389583 TGATATGGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (23 bp):
CGACAGGTTGTTGTTAAGCATCT
Found at i:390500 original size:11 final size:10
Alignment explanation
Indices: 390486--390544 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 10
390476 TTTATGTGAC
390486 TAATATGAAAA
1 TAATAT-AAAA
390497 TAATAATAAAA
1 TAAT-ATAAAA
390508 TAATATAAAA
1 TAATATAAAA
*
390518 GTAATAACAAAA
1 -TAAT-ATAAAA
*
390530 TAATAAATAAA
1 TAATATA-AAA
390541 TAAT
1 TAAT
390545 GATTTAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 8 0.19
11 27 0.64
12 7 0.17
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (10 bp):
TAATATAAAA
Found at i:390544 original size:22 final size:22
Alignment explanation
Indices: 390486--390544 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
390476 TTTATGTGAC
* *
390486 TAATATGAAAATAATAATAAAA
1 TAATATAAAAATAATAACAAAA
*
390508 TAATATAAAAGTAATAACAAAA
1 TAATATAAAAATAATAACAAAA
390530 TAATA-AATAAATAAT
1 TAATATAA-AAATAAT
390545 GATTTAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (22 bp):
TAATATAAAAATAATAACAAAA
Found at i:391772 original size:3 final size:3
Alignment explanation
Indices: 391766--391818 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
391756 ATTATTTATT
* *
391766 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
391810 TAA TAA TAA
1 TAA TAA TAA
391819 ATAAAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:391788 original size:19 final size:18
Alignment explanation
Indices: 391766--391821 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
391756 ATTATTTATT
391766 TAATAATAATAATATAATA
1 TAATAATAATAATA-AATA
* *
391785 TAATAATAATATTAAAACA
1 TAATAATAATAAT-AAATA
*
391804 AAATAATAATAATAAATA
1 TAATAATAATAATAAATA
391822 AAACAAATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 4 0.13
19 26 0.84
20 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATAATAATAATAAATA
Found at i:391791 original size:22 final size:21
Alignment explanation
Indices: 391744--391822 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 21
391734 TGTAAAAATG
* * *
391744 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
391766 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
*
391788 TAATAATATTAAA-ACA-A-AA
1 TAATAATAATAAATA-ATATAA
391807 TAATAATAATAAATAA
1 TAATAATAATAAATAA
391823 AACAAATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.31
20 3 0.06
21 2 0.04
22 23 0.47
23 6 0.12
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:391829 original size:22 final size:22
Alignment explanation
Indices: 391766--391844 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 22
391756 ATTATTTATT
* *
391766 TAATAAT-AATAATATAATATAA
1 TAATAATAAATAAAACAA-ATAA
*
391788 TAATAATA-TTAAAACAAAATAA
1 TAATAATAAATAAAAC-AAATAA
*
391810 TAATAATAAATAAAACAAATGA
1 TAATAATAAATAAAACAAATAA
391832 -AATAA-AAA-AAAAC
1 TAATAATAAATAAAAC
391845 TAGTGTCTTC
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 5 0.10
20 3 0.06
21 5 0.10
22 28 0.57
23 8 0.16
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.25
Consensus pattern (22 bp):
TAATAATAAATAAAACAAATAA
Found at i:392370 original size:113 final size:113
Alignment explanation
Indices: 392152--392575 Score: 629
Period size: 113 Copynumber: 3.8 Consensus size: 113
392142 GATAGAGTCA
* * * * * *
392152 AGCAAAAGGTTGAACAAGTTCTTCTTATCATGAACTTCTT-TTTCTTCTTTAGATAAGTTCTTCT
1 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
392216 CATTATGAACTTTCTCTGGAAAAGTTAATCCATCGAGTGATGAATTCG
66 CATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTTG
* * *
392264 AGCAAAAGGTTAAACAAATTCTTCACATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* * * * * *
392329 CATTATGAACTCTAC-CTGGCAATGTTGATCCATCAAATGATGAATTTA
66 CATTATGAACT-TTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTTG
*
392377 AACAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
* *
392442 CATTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTG
66 CATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTTG
392490 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
1 AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
*
392555 CATTATGAACTAT-TCTGGAAA
66 CATTATGAACTTTCTCTGGAAA
392576 TGCTGATGAC
Statistics
Matches: 278, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
112 44 0.16
113 232 0.83
114 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AGCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCT
CATTATGAACTTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTTG
Found at i:392495 original size:226 final size:225
Alignment explanation
Indices: 392154--392565 Score: 698
Period size: 226 Copynumber: 1.8 Consensus size: 225
392144 TAGAGTCAAG
* * * *
392154 CAAAAGGTTGAACAAGTTCTTCTTATCATGAACTTCTTTTTCTTCTTTAGATAAGTTCTTCTCAT
1 CAAAAGGTTGAACAAATTCTTCTCATCATGAACTTCTTTTCCTTCTTCAGATAAGTTCTTCTCAT
*
392219 TATGAACTTTCTCTGGAAAAGTTAATCCATCGAGTGATGAATTCGAGCAAAAGGTTAAACAAATT
66 TATGAACTTTCTCTGGAAAAGCTAATCCATCGAGTGATGAATTCGAGCAAAAGGTTAAACAAATT
*
392284 CTTCACATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGC
131 CTTCACATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGC
392349 AATGTTGATCCATCAAATGATGAATTTAAA
196 AATGTTGATCCATCAAATGATGAATTTAAA
* *
392379 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATCATGAACTTCTT-TTCCTTCTTCAGATAAGTTCTTCTCA
* * * *
392444 TTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
65 TTATGAACTTTCTCTGGAAAAGCTAATCCATCGAGTGATGAATTCGAGCAAAAGGTTAAACAAAT
*
392509 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
130 TCTTCACATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
392566 ATTCTGGAAA
Statistics
Matches: 173, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
225 35 0.20
226 138 0.80
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (225 bp):
CAAAAGGTTGAACAAATTCTTCTCATCATGAACTTCTTTTCCTTCTTCAGATAAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTAATCCATCGAGTGATGAATTCGAGCAAAAGGTTAAACAAATT
CTTCACATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGC
AATGTTGATCCATCAAATGATGAATTTAAA
Found at i:393368 original size:76 final size:76
Alignment explanation
Indices: 392580--393341 Score: 1411
Period size: 76 Copynumber: 10.1 Consensus size: 76
392570 TGGAAATGCT
* *
392580 GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
392645 TAGGACTTACA
66 TAGGACTTACA
392656 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
392721 TAGGACTTACA
66 TAGGACTTACA
392732 G--GACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
392795 TAGGACTTACA
66 TAGGACTTACA
392806 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
392871 TAGGACTTACA
66 TAGGACTTACA
* *
392882 GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
392947 TAGGACTTACA
66 TAGGACTTACA
*
392958 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTTCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
393023 TAGGACTTACA
66 TAGGACTTACA
393034 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
393099 TAGGACTTACA
66 TAGGACTTACA
* * *
393110 GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTTCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
393175 TAGGACTTACA
66 TAGGACTTACA
393186 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
393251 TAGGACTTACA
66 TAGGACTTACA
* * *
393262 GATGACCCGAAGGTTTTGAAAACATCAAAAAGCTTCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
393327 TAGGACTTACA
66 TAGGACTTACA
393338 GATG
1 GATG
393342 TGGGGAAATA
Statistics
Matches: 667, Mismatches: 17, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
74 74 0.11
76 593 0.89
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.24
Consensus pattern (76 bp):
GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
TAGGACTTACA
Found at i:396656 original size:113 final size:114
Alignment explanation
Indices: 396491--396708 Score: 361
Period size: 113 Copynumber: 1.9 Consensus size: 114
396481 GATCATGCAG
*
396491 TTCATCTTTCAATTCCAATGATTAGTTCTGGGGTTTCTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAATTCCAATGATTAGTTCTGGGGTTTCTACCAAACCAGATCAGATAACTCAAAGA
396556 ACACTTCCAGAAGATGCTATT-GGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * *
396604 TTCATCTTTCGAA-TCTAATGATTGGTTTTGGGG-TTCATACCAAACCAGATCAGATAACTCAAA
1 TTCATCTTTC-AATTCCAATGATTAGTTCTGGGGTTTC-TACCAAACCAGATCAGATAACTCAAA
396667 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACT
64 GAACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACT
396709 GCGAGAACGT
Statistics
Matches: 98, Mismatches: 4, Indels: 5
0.92 0.04 0.05
Matches are distributed among these distances:
112 3 0.03
113 75 0.77
114 20 0.20
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAATTCCAATGATTAGTTCTGGGGTTTCTACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:398938 original size:17 final size:16
Alignment explanation
Indices: 398872--398986 Score: 96
Period size: 16 Copynumber: 7.1 Consensus size: 16
398862 ATTTCTCCCC
*
398872 TTTTTC-TTTTTCCCT
1 TTTTTCTTTTTTCTCT
*
398887 TTTTCCCTTTTTTC-CT
1 TTTT-TCTTTTTTCTCT
*
398903 TTTTCTCATTTTTC-CT
1 TTTT-TCTTTTTTCTCT
398919 TTTTCATCTTTTTTCT-T
1 TTTT--TCTTTTTTCTCT
* *
398936 TTTTCCTGTTTTTCTCA
1 TTTTTCT-TTTTTCTCT
398953 TTTTTCTTTTTTCATCT
1 TTTTTCTTTTTTC-TCT
398970 TTTTTC-TTTTTCTCT
1 TTTTTCTTTTTTCTCT
398985 TT
1 TT
398987 CTTTGCTGGA
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
15 11 0.13
16 40 0.48
17 33 0.39
ACGTcount: A:0.03, C:0.23, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTTTCTTTTTTCTCT
Found at i:398947 original size:26 final size:24
Alignment explanation
Indices: 398872--399012 Score: 115
Period size: 24 Copynumber: 5.7 Consensus size: 24
398862 ATTTCTCCCC
* *
398872 TTTTTCTTTTTCCCTTTTTCCCT-T
1 TTTTTCTTTTT-TCTTTTTTCCTGT
* *
398896 TTTTCCTTTTTCTCATTTTTCCT-T
1 TTTTTCTTTTT-TCTTTTTTCCTGT
*
398920 TTTCATCTTTTTTCTTTTTTCCTGT
1 TTT-TTCTTTTTTCTTTTTTCCTGT
* * *
398945 TTTTCTCATTTTTCTTTTTTCATCT
1 TTTT-TCTTTTTTCTTTTTTCCTGT
* *
398970 TTTTTCTTTTTCTCTTTCTTTGCTGGA
1 TTTTTCTTTTT-TCTTT-TTTCCT-GT
398997 TTTTTCTTTTTTCTTT
1 TTTTTCTTTTTTCTTT
399013 CTTTGCTCGA
Statistics
Matches: 95, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
24 39 0.41
25 36 0.38
26 9 0.09
27 11 0.12
ACGTcount: A:0.04, C:0.21, G:0.03, T:0.72
Consensus pattern (24 bp):
TTTTTCTTTTTTCTTTTTTCCTGT
Found at i:398948 original size:42 final size:40
Alignment explanation
Indices: 398872--398980 Score: 150
Period size: 42 Copynumber: 2.7 Consensus size: 40
398862 ATTTCTCCCC
* *
398872 TTTTT-CTTTTTC-CCTTTTTCCCTTTTTTCCTTTTTCTCA
1 TTTTTCCTTTTTCATCTTTTT-TCTTTTTTCCTTTTTCTCA
398911 TTTTTCCTTTTTCATCTTTTTTCTTTTTTCCTGTTTTTCTCA
1 TTTTTCCTTTTTCATCTTTTTTCTTTTTTCC--TTTTTCTCA
*
398953 TTTTTCTTTTTTCATCTTTTTTCTTTTT
1 TTTTTCCTTTTTCATCTTTTTTCTTTTT
398981 CTCTTTCTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
39 5 0.08
40 16 0.25
41 6 0.10
42 36 0.57
ACGTcount: A:0.04, C:0.22, G:0.01, T:0.73
Consensus pattern (40 bp):
TTTTTCCTTTTTCATCTTTTTTCTTTTTTCCTTTTTCTCA
Found at i:399009 original size:7 final size:7
Alignment explanation
Indices: 398872--399012 Score: 75
Period size: 8 Copynumber: 17.3 Consensus size: 7
398862 ATTTCTCCCC
398872 TTTTTCT
1 TTTTTCT
*
398879 TTTTCCCT
1 TTTT-TCT
*
398887 TTTTCCCT
1 TTTT-TCT
398895 TTTTTCCT
1 TTTTT-CT
398903 TTTTCTCAT
1 TTTT-TC-T
*
398912 TTTTCCT
1 TTTTTCT
398919 TTTTCATCT
1 TTTT--TCT
398928 TTTTTCT
1 TTTTTCT
398935 TTTTTCCT
1 TTTTT-CT
398943 GTTTTTCT
1 -TTTTTCT
398951 CATTTTTCTT
1 --TTTTTC-T
398961 TTTTCATCT
1 TTTT--TCT
398970 TTTTTCT
1 TTTTTCT
398977 TTTTCTCT
1 TTTT-TCT
398985 TTCTTTGCT
1 TT-TTT-CT
398994 GGATTTTTCT
1 ---TTTTTCT
399004 TTTTTCT
1 TTTTTCT
399011 TT
1 TT
399013 CTTTGCTCGA
Statistics
Matches: 111, Mismatches: 5, Indels: 36
0.73 0.03 0.24
Matches are distributed among these distances:
7 33 0.30
8 36 0.32
9 32 0.29
10 5 0.05
11 3 0.03
12 2 0.02
ACGTcount: A:0.04, C:0.21, G:0.03, T:0.72
Consensus pattern (7 bp):
TTTTTCT
Found at i:401861 original size:12 final size:13
Alignment explanation
Indices: 401837--401865 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
401827 AAAATGAAAA
401837 AAATGCTAAATGT
1 AAATGCTAAATGT
401850 AAATGC-AAATGT
1 AAATGCTAAATGT
401862 AAAT
1 AAAT
401866 ATGTGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.52, C:0.07, G:0.14, T:0.28
Consensus pattern (13 bp):
AAATGCTAAATGT
Found at i:401957 original size:14 final size:14
Alignment explanation
Indices: 401938--401976 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
401928 GCAAAGATTC
401938 CAAATGTAAATATG
1 CAAATGTAAATATG
*
401952 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
401966 TAAATGTAAAT
1 CAAATGTAAAT
401977 TATTTAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.28
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:404590 original size:11 final size:10
Alignment explanation
Indices: 404576--404634 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 10
404566 TTTATGTGAC
404576 TAATATGAAAA
1 TAATAT-AAAA
404587 TAATAATAAAA
1 TAAT-ATAAAA
404598 TAATATAAAA
1 TAATATAAAA
*
404608 GTAATAACAAAA
1 -TAAT-ATAAAA
*
404620 TAATAAATAAA
1 TAATATA-AAA
404631 TAAT
1 TAAT
404635 GATTTAAAAG
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
10 8 0.19
11 27 0.64
12 7 0.17
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (10 bp):
TAATATAAAA
Found at i:404634 original size:22 final size:22
Alignment explanation
Indices: 404576--404634 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
404566 TTTATGTGAC
* *
404576 TAATATGAAAATAATAATAAAA
1 TAATATAAAAATAATAACAAAA
*
404598 TAATATAAAAGTAATAACAAAA
1 TAATATAAAAATAATAACAAAA
404620 TAATA-AATAAATAAT
1 TAATATAA-AAATAAT
404635 GATTTAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (22 bp):
TAATATAAAAATAATAACAAAA
Found at i:405861 original size:3 final size:3
Alignment explanation
Indices: 405855--405916 Score: 78
Period size: 3 Copynumber: 22.0 Consensus size: 3
405845 ATTATTTATT
* *
405855 TAA TAA TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
405900 -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
405917 ATAAAACAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
2 8 0.15
3 45 0.85
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:405867 original size:25 final size:26
Alignment explanation
Indices: 405833--405920 Score: 89
Period size: 25 Copynumber: 3.6 Consensus size: 26
405823 TATAAAAATG
* * *
405833 TAATAATAATAAATTAT-TTATTTAA
1 TAATAATAATAAATAATATAATATAA
405858 TAATAATAAT-AATAATATAATATAA
1 TAATAATAATAAATAATATAATATAA
* *
405883 TAATAAT-ATTAA-AACA-AA-ATAA
1 TAATAATAATAAATAATATAATATAA
405905 TAATAATAATAAATAA
1 TAATAATAATAAATAA
405921 AACAAATGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
22 11 0.20
23 6 0.11
24 12 0.22
25 25 0.46
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (26 bp):
TAATAATAATAAATAATATAATATAA
Found at i:405882 original size:22 final size:21
Alignment explanation
Indices: 405856--405922 Score: 89
Period size: 22 Copynumber: 3.1 Consensus size: 21
405846 TTATTTATTT
405856 AATAATAATAATAATAATATAA
1 AATAATAATAATAATAA-ATAA
* * *
405878 TATAATAATAATATTAAAACAA
1 AATAATAATAATAAT-AAATAA
405900 AATAATAATAATAATAAATAA
1 AATAATAATAATAATAAATAA
405921 AA
1 AA
405923 CAAATGAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 7 0.18
22 29 0.76
23 2 0.05
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (21 bp):
AATAATAATAATAATAAATAA
Found at i:410520 original size:3 final size:3
Alignment explanation
Indices: 410501--410553 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
410491 ATGTAAAATG
*
410501 TAA TAT TAA TAA T-A TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
410546 TAA -AA TAA
1 TAA TAA TAA
410554 CGATAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:411135 original size:129 final size:129
Alignment explanation
Indices: 410761--411220 Score: 690
Period size: 129 Copynumber: 3.6 Consensus size: 129
410751 GTGACAAGGT
* * * * * * *
410761 TCCTACATAATGAGGAAATCTGATC-GAGGGATGACAC-TTCTCCTACGTGATGAAGAGTTCTTG
1 TCCTACGTGATGAGGAGATCTGGTCTG-GGGATGACACGGT-TCCTACGTGATGAAGACTAC-TG
* *
410824 GCCATCTTTAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTGACACG
63 GCCATCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCCATGGTTGACACG
*
410889 GC
128 AC
* * * * *
410891 TCCTACGTGATGAGGAGATCTGGTCTGGGGAATGGCACGGCTCATACGTGATGAAGAGTTCTGGC
1 TCCTACGTGATGAGGAGATCTGGTCTGGGG-ATGACACGGTTCCTACGTGATGAAGACTACTGGC
*
410956 CATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCCATGGTTGACACGAC
65 CATCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCCATGGTTGACACGAC
* *
411021 TCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTATGTGATGAGGACTACTGGCC
1 TCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACGTGATGAAGACTACTGGCC
411086 ATCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCCATGGTTGACACGAC
66 ATCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCCATGGTTGACACGAC
* *
411150 TCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTATGTGATGAGGACTACTGGCC
1 TCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACGTGATGAAGACTACTGGCC
411215 ATCTTA
66 ATCTTA
411221 GGAATAATGG
Statistics
Matches: 307, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
129 162 0.53
130 119 0.39
131 26 0.08
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (129 bp):
TCCTACGTGATGAGGAGATCTGGTCTGGGGATGACACGGTTCCTACGTGATGAAGACTACTGGCC
ATCTTAAGGTGATAACACGGTTCCTACGTGATGAGGACGGCTGGTTATCCATGGTTGACACGAC
Found at i:411173 original size:43 final size:42
Alignment explanation
Indices: 410841--411173 Score: 219
Period size: 43 Copynumber: 7.7 Consensus size: 42
410831 TTAGGTGATA
* *
410841 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
1 ACACGGCTCCTACGTGATGAGGA-GTCTGGTTATCTATGGTTG
** *
410884 ACACGGCTCCTACGTGATGAGGAGATCTGG---TCTGGGGAATG
1 ACACGGCTCCTACGTGATGAGGAG-TCTGGTTATCTATGG-TTG
* * * ** * *
410925 GCACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAG-TCTGGTTATCT-ATGGT--TG
* * *
410971 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCCATGGTTG
1 ACACGGCTCCTACGTGATGAGGA-GTCTGGTTATCTATGGTTG
* ** *
411014 ACACGACTCCTACGTGATGAGGAGATCTGG---TCTGGGGATG
1 ACACGGCTCCTACGTGATGAGGAG-TCTGGTTATCTATGGTTG
* * * ** * *
411054 ACACGGTTCCTATGTGATGAGGACTACTGGCCATCTTAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGT-CTGGTTATC-TATGGT--TG
* * *
411100 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCCATGGTTG
1 ACACGGCTCCTACGTGATGAGGA-GTCTGGTTATCTATGGTTG
*
411143 ACACGACTCCTACGTGATGAGGAGATCTGGT
1 ACACGGCTCCTACGTGATGAGGAG-TCTGGT
411174 CTGGGGATGA
Statistics
Matches: 222, Mismatches: 49, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
39 1 0.00
40 35 0.16
41 28 0.13
42 3 0.01
43 81 0.36
44 6 0.03
45 10 0.05
46 57 0.26
47 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.26
Consensus pattern (42 bp):
ACACGGCTCCTACGTGATGAGGAGTCTGGTTATCTATGGTTG
Found at i:411535 original size:35 final size:36
Alignment explanation
Indices: 411484--411563 Score: 92
Period size: 35 Copynumber: 2.2 Consensus size: 36
411474 TGAGACAAAA
* * * *
411484 TTTGTTTTTAAGGGAAAC-GTTCTCAAAGATGTTTA-T
1 TTTG-TTTCAAGGGAAACAGAT-TCAAAGATGGTAATT
411520 TTTGTTTCAAGGGAAACAGATTCAAAGATGGTAATT
1 TTTGTTTCAAGGGAAACAGATTCAAAGATGGTAATT
411556 TTTGTTTC
1 TTTGTTTC
411564 CAAAGAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
35 23 0.61
36 15 0.39
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACAGATTCAAAGATGGTAATT
Found at i:411572 original size:36 final size:35
Alignment explanation
Indices: 411505--411584 Score: 90
Period size: 36 Copynumber: 2.3 Consensus size: 35
411495 GGGAAACGTT
* * * *
411505 CTCAAAGATGTTTATTTTGTTTCAAGGGAAACAGA
1 CTCAAAGATGGTAATTTTGTTTCAAGAGAAACAAA
*
411540 TTCAAAGATGGTAATTTTTGTTTCCAA-AGAAACAAA
1 CTCAAAGATGGTAA-TTTTGTTT-CAAGAGAAACAAA
411576 CTCAAAGAT
1 CTCAAAGAT
411585 TTTTCTCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
35 11 0.30
36 23 0.62
37 3 0.08
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (35 bp):
CTCAAAGATGGTAATTTTGTTTCAAGAGAAACAAA
Found at i:412009 original size:40 final size:40
Alignment explanation
Indices: 411960--412039 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
411950 GTTTTAATAA
*
411960 AAACAATCTCCAAGGTGGGTAGTTTT-AAAAGAAATTGTCT
1 AAACAATCTCAAAGGTGGGTA-TTTTCAAAAGAAATTGTCT
* * *
412000 AAACGATCTCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
412040 CGAGAGACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.31
Consensus pattern (40 bp):
AAACAATCTCAAAGGTGGGTATTTTCAAAAGAAATTGTCT
Found at i:412447 original size:36 final size:36
Alignment explanation
Indices: 412336--412454 Score: 113
Period size: 36 Copynumber: 3.4 Consensus size: 36
412326 AAAAAATGAT
* *
412336 GTCTCAAGCGAGACGAAA-TTTG-CTTTA-AGATATA-
1 GTCTCAAGCGAGAC-AAAGTTTGTTTTTAGAGA-AAAC
** **
412370 GTCTCAAATGAGACAAAGTTTGTTTTTAGAGAAATT
1 GTCTCAAGCGAGACAAAGTTTGTTTTTAGAGAAAAC
412406 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGCGAGACAAAGTTTGTTTTTAGAGAAAAC
*
412441 GATCTCAAGTGAGA
1 G-TCTCAAGCGAGA
412455 TCAACTTTGT
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
33 3 0.04
34 16 0.23
35 12 0.17
36 39 0.56
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (36 bp):
GTCTCAAGCGAGACAAAGTTTGTTTTTAGAGAAAAC
Found at i:412466 original size:36 final size:36
Alignment explanation
Indices: 412370--412454 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
412360 TTAAGATATA
* **
412370 GTCTCAAATGAGACAAAGTTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAAC
*
412406 GTCTCAAGCGAGACAAAGTTTGTTTTT-GAGAAAAC
1 GTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAAC
412441 GATCTCAAGTGAGA
1 G-TCTCAAGTGAGA
412455 TCAACTTTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
35 7 0.16
36 36 0.84
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (36 bp):
GTCTCAAGTGAGACAAAGTTTGTTTTTAGAGAAAAC
Found at i:412586 original size:105 final size:103
Alignment explanation
Indices: 412406--412642 Score: 300
Period size: 105 Copynumber: 2.3 Consensus size: 103
412396 TAGAGAAATT
* ** *
412406 GTCTCAAGCGAGACAAAGTTTGTTTT-TGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAAT
1 GTCTCAAGCGAGACAAAATTTGTTTTAAAAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
* *
412470 GTGAAACAAATTCGAAATTTGGATCTCAAAGGGAAAAG
66 GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
* *
412508 GTCTCAAGCGAGACAAAATTTGTTTTAAAAGAAACAACAATCT-AAGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACAAAATTTGTTTTAAAAG-AA-AACAATCTCAA-GTGAGATCAACTTTG-TT
* * *
412572 TAA-GTGAATCAAATTCAAAATTTGTATCTCAAAGGAAAAAT
62 TAATGTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
**
412613 GTCTCAAGCGAGACGCAATTTGTTTTAAAA
1 GTCTCAAGCGAGACAAAATTTGTTTTAAAA
412643 TTTTCAAAAT
Statistics
Matches: 117, Mismatches: 13, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
102 25 0.21
103 2 0.02
104 4 0.03
105 81 0.69
106 5 0.04
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (103 bp):
GTCTCAAGCGAGACAAAATTTGTTTTAAAAGAAAACAATCTCAAGTGAGATCAACTTTGTTTAAT
GTGAAACAAATTCAAAATTTGGATCTCAAAGGAAAAAG
Found at i:412742 original size:36 final size:37
Alignment explanation
Indices: 412658--412766 Score: 114
Period size: 38 Copynumber: 2.9 Consensus size: 37
412648 AAAATTTGTG
*
412658 GAAAAATGTCTCAAGCGAGACATAATTTG-TTTTAGA
1 GAAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAGA
* *
412694 GAGAAAGTTGTCTCAAGCGAGATAAAATTTGTTTTTA-A
1 GA-AAA-ATGTCTCAAGCGAGACAAAATTTGTTTTTAGA
* * * *
412732 GAAAACTGTCTCTAGTGAGACGAAACTTTGTTTTT
1 GAAAAATGTCTCAAGCGAGAC-AAAATTTGTTTTT
412767 TTAATAAGAT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
36 14 0.23
37 18 0.30
38 24 0.39
39 5 0.08
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (37 bp):
GAAAAATGTCTCAAGCGAGACAAAATTTGTTTTTAGA
Found at i:413126 original size:12 final size:12
Alignment explanation
Indices: 413109--413156 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
413099 TGTAACATGC
413109 ATGTATGTGTTG
1 ATGTATGTGTTG
*
413121 ATGTATGTATATATG
1 ATGTATG--TGT-TG
413136 TATGTATGTGTTG
1 -ATGTATGTGTTG
413149 ATGTATGT
1 ATGTATGT
413157 TTCTCAATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 15 0.50
13 2 0.07
14 4 0.13
15 2 0.07
16 7 0.23
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (12 bp):
ATGTATGTGTTG
Found at i:413130 original size:16 final size:16
Alignment explanation
Indices: 413109--413156 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
413099 TGTAACATGC
413109 ATGTATGTGTTGATGT
1 ATGTATGTGTTGATGT
*
413125 ATGTA--T-AT-ATGT
1 ATGTATGTGTTGATGT
413137 ATGTATGTGTTGATGT
1 ATGTATGTGTTGATGT
413153 ATGT
1 ATGT
413157 TTCTCAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 9 0.35
13 1 0.04
14 2 0.08
15 1 0.04
16 13 0.50
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (16 bp):
ATGTATGTGTTGATGT
Found at i:414359 original size:12 final size:11
Alignment explanation
Indices: 414331--414403 Score: 60
Period size: 12 Copynumber: 6.5 Consensus size: 11
414321 TCCTCTTTTG
*
414331 TTCTTTGCTTT
1 TTCTTTGATTT
414342 TTCTTTGATTT
1 TTCTTTGATTT
414353 TTGCTTTGATTT
1 TT-CTTTGATTT
*
414365 TTCTCT--TTT
1 TTCTTTGATTT
* *
414374 CTCTTTGTTTTT
1 TTCTTTG-ATTT
*
414386 TTCTTTGCTTAT
1 TTCTTTGATT-T
414398 TTCTTT
1 TTCTTT
414404 TTTTCATTGG
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
9 7 0.14
11 17 0.33
12 27 0.53
ACGTcount: A:0.04, C:0.15, G:0.08, T:0.73
Consensus pattern (11 bp):
TTCTTTGATTT
Found at i:414372 original size:13 final size:12
Alignment explanation
Indices: 414326--414372 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
414316 CTTTGTCCTC
414326 TTTTGTTCTTTG-
1 TTTT-TTCTTTGA
*
414338 CTTTTTCTTTGA
1 TTTTTTCTTTGA
*
414350 TTTTTGCTTTGA
1 TTTTTTCTTTGA
414362 TTTTTCTCTTT
1 TTTTT-TCTTT
414373 TCTCTTTGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 7 0.24
12 18 0.62
13 4 0.14
ACGTcount: A:0.04, C:0.13, G:0.11, T:0.72
Consensus pattern (12 bp):
TTTTTTCTTTGA
Found at i:414392 original size:32 final size:32
Alignment explanation
Indices: 414338--414408 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
414328 TTGTTCTTTG
414338 CTTTTTCTTTGATTTTTGCTTTGATT-TTTCT
1 CTTTTTCTTTGATTTTTGCTTTGATTATTTCT
* * *
414369 CTTTTCTCTTTGTTTTTTTCTTTGCTTATTTCT
1 CTTTT-TCTTTGATTTTTGCTTTGATTATTTCT
*
414402 TTTTTTC
1 CTTTTTC
414409 ATTGGATCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 5 0.15
32 20 0.59
33 9 0.26
ACGTcount: A:0.04, C:0.15, G:0.07, T:0.73
Consensus pattern (32 bp):
CTTTTTCTTTGATTTTTGCTTTGATTATTTCT
Found at i:415082 original size:46 final size:45
Alignment explanation
Indices: 414990--415083 Score: 116
Period size: 46 Copynumber: 2.1 Consensus size: 45
414980 AAAAATGCAG
* * * * *
414990 TGTTTCAAGGTGGAAAGAATGTTTCAAGGCCTTAAAGAGAGGGAA
1 TGTTTCAAGGTGAAAAGAATATCTCAAGGCCTCAAAGAGAGAGAA
* *
415035 TGTTTCAAGGTCGAAAAGAATATCTCAAGGTCTCAAAGAGATAGAA
1 TGTTTCAAGGT-GAAAAGAATATCTCAAGGCCTCAAAGAGAGAGAA
415081 TGT
1 TGT
415084 CAAAAATTGG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
45 11 0.27
46 30 0.73
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.26
Consensus pattern (45 bp):
TGTTTCAAGGTGAAAAGAATATCTCAAGGCCTCAAAGAGAGAGAA
Found at i:416523 original size:31 final size:32
Alignment explanation
Indices: 416467--416528 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
416457 TGACAAAATG
416467 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
416499 ACACAAACAAAAGAGAA-AAATAAGTTAGTA
1 ACACAAACAAAAGAGAAGAAATAAGTTAGTA
416529 CATGTAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.61, C:0.10, G:0.15, T:0.15
Consensus pattern (32 bp):
ACACAAACAAAAGAGAAGAAATAAGTTAGTAT
Found at i:420286 original size:3 final size:3
Alignment explanation
Indices: 420267--420319 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
420257 ATGTAAAATG
*
420267 TAA TAT TAA TAA T-A TAA TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
420312 TAA -AA TAA
1 TAA TAA TAA
420320 CGATAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.84
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:421031 original size:31 final size:31
Alignment explanation
Indices: 420945--421035 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 31
420935 GAATGACCTA
* *
420945 TCCATATGTTCCGAAGAGAATAGGTAACACTG
1 TCCATATGTCCCGAA-AGAATAGGTAACAATG
* *
420977 TCCATATGTCCTGAAGGATATAGGTAA-AATG
1 TCCATATGTCCCGAAAGA-ATAGGTAACAATG
421008 TCCAT-TAGTCCCGAAAGACATAGGTAAC
1 TCCATAT-GTCCCGAAAGA-ATAGGTAAC
421036 CCTCAACTCT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
30 1 0.02
31 27 0.55
32 21 0.43
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (31 bp):
TCCATATGTCCCGAAAGAATAGGTAACAATG
Found at i:422273 original size:18 final size:19
Alignment explanation
Indices: 422252--422288 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
422242 AAGATTTCAC
*
422252 TTATT-CCTCTATTTTCTT
1 TTATTCCCTCTATTATCTT
422270 TTATTCCCTCTATTATCTT
1 TTATTCCCTCTATTATCTT
422289 CATCTTATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.14, C:0.24, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATTCCCTCTATTATCTT
Found at i:424134 original size:2 final size:2
Alignment explanation
Indices: 424129--424190 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
424119 CCAAAAAAGA
424129 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
424171 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
424191 GCATAACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:425270 original size:23 final size:18
Alignment explanation
Indices: 425243--425293 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
425233 CCAAAACTCG
425243 ATATTTTATTAAAATAAA
1 ATATTTTATTAAAATAAA
425261 ATATTTTATTAAAATAAA
1 ATATTTTATTAAAATAAA
425279 ATATTTTATTAAAAT
1 ATATTTTATTAAAAT
425294 CACCCGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATATTTTATTAAAATAAA
Found at i:430116 original size:75 final size:76
Alignment explanation
Indices: 430026--430187 Score: 247
Period size: 76 Copynumber: 2.1 Consensus size: 76
430016 ATCTCATTGG
* *
430026 AGATTGTTTTTCTTAAAAC-GGACTTTGTCTCACTTGAGACTG-TTTTACTCGAAAGAAGACATT
1 AGATTGTTTTTCTTAAAACAAGA-TTTGTCTCACTTGAGACAGTTTTTACTCGAAAGAAGACATT
*
430089 TCATTTGACTCA
65 TCATTTCACTCA
* * *
430101 AGATTGTTTTTCTTAAAACAAGATTTGTCTCTCTTGAGACAGTTTTTACTCGAAATAATACATTT
1 AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAGTTTTTACTCGAAAGAAGACATTT
430166 CATTTCACTCA
66 CATTTCACTCA
430177 AGATTGTTTTT
1 AGATTGTTTTT
430188 AAAGAATATT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
75 36 0.46
76 43 0.54
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (76 bp):
AGATTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACAGTTTTTACTCGAAAGAAGACATTT
CATTTCACTCA
Found at i:430246 original size:39 final size:39
Alignment explanation
Indices: 430199--430501 Score: 342
Period size: 39 Copynumber: 7.8 Consensus size: 39
430189 AAGAATATTG
430199 TATCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGAATT
1 TATCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGAATT
* *
430238 TATCTCGCTTGAGATAGTTTCCCTTGAAATAGAAGATTT
1 TATCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGAATT
* * *
430277 TATCTCGGTTGAGATAGTTTCCTTTG-AACAGAAGATTT
1 TATCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGAATT
* * * *
430315 TGTCTCGTTTGAGGTAGTTTCCCTCGAAACAGAAG-ATT
1 TATCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGAATT
* * *
430353 ATATCTCGCTTGAGATAGTTTCTCTCGAAACAGAAGAGTT
1 -TATCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGAATT
* * * * * *
430393 TGTCTCGTTTGAGATAATTTCCCTTCAAACAGAATATTT
1 TATCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGAATT
* *
430432 TATCTCGTTTGAGATAGTTTCCCTCGAAACAGAAG-ATCT
1 TATCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGAAT-T
* * ** *
430471 TGTCTCTCTTGAGGCAATTTCCCTTGAAACA
1 TATCTCGCTTGAGATAGTTTCCCTTGAAACA
430502 CCAATCTTTG
Statistics
Matches: 223, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
38 35 0.16
39 186 0.83
40 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (39 bp):
TATCTCGCTTGAGATAGTTTCCCTTGAAACAGAAGAATT
Found at i:430568 original size:37 final size:36
Alignment explanation
Indices: 430526--430606 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 36
430516 TGTTTCCCTT
* *
430526 AAAACAAATTTTTTCT-TTCTTGAGACAATTTTTACTC
1 AAAACAAATTTTGTCTCTT-TTGAGACAATTTCT-CTC
* *
430563 AAAACAAGTTTTGTCTCTTTTGAGACAGTTTCTCTC
1 AAAACAAATTTTGTCTCTTTTGAGACAATTTCTCTC
430599 AAAACAAA
1 AAAACAAA
430607 AGCCTGAGTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
36 10 0.26
37 26 0.68
38 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.40
Consensus pattern (36 bp):
AAAACAAATTTTGTCTCTTTTGAGACAATTTCTCTC
Found at i:430666 original size:36 final size:36
Alignment explanation
Indices: 430619--430845 Score: 197
Period size: 36 Copynumber: 6.5 Consensus size: 36
430609 CCTGAGTCAA
* *
430619 TTTCTTTTGAAACAAATTTTGTTTCCTTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCCTTTGAGACAG
* * *
430655 TTTCTCTTGAAAC--A--TAG---ACTTTGA-AAACG
1 TTTCTCTTGAAACAAATTTTGTCTCCTTTGAGACA-G
* *
430684 TTTCTCTTGAAACGAATTTTGTCT-CTCTTGAGACCG
1 TTTCTCTTGAAACAAATTTTGTCTCCT-TTGAGACAG
* * * *
430720 TTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACAT
1 TTTCTCTTGAAACAAATTTTGTCTCCTTTGAGACAG
*
430756 TTTCTCTTGAAACAAGTTTTGTCT-CTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCCT-TTGAGACAG
*
430792 TTTCTCTTGAAACAAAGTTTTATCT-CTTTAGAGACAG
1 TTTCTCTTGAAACAAA-TTTTGTCTCCTTT-GAGACAG
* *
430829 TTTCCCTCGAAACAAAT
1 TTTCTCTTGAAACAAAT
430846 CTCACTTGAG
Statistics
Matches: 157, Mismatches: 20, Indels: 28
0.77 0.10 0.14
Matches are distributed among these distances:
28 2 0.01
29 20 0.13
31 1 0.01
32 2 0.01
33 2 0.01
34 1 0.01
35 3 0.02
36 94 0.60
37 32 0.20
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCCTTTGAGACAG
Found at i:430748 original size:21 final size:20
Alignment explanation
Indices: 430722--430794 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 20
430712 TGAGACCGTT
430722 TCCCTTGAAACAAGTTTTGTC
1 TCCCTTGAAAC-AGTTTTGTC
*
430743 TCCCTTGAGACA--TTT-TC
1 TCCCTTGAAACAGTTTTGTC
430760 T--CTTGAAACAAGTTTTGTC
1 TCCCTTGAAAC-AGTTTTGTC
* *
430779 TCTCTTGAGACAGTTT
1 TCCCTTGAAACAGTTT
430795 CTCTTGAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
15 7 0.16
16 1 0.02
17 3 0.07
18 6 0.14
19 3 0.07
20 6 0.14
21 17 0.40
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (20 bp):
TCCCTTGAAACAGTTTTGTC
Found at i:430775 original size:17 final size:17
Alignment explanation
Indices: 430720--430812 Score: 50
Period size: 15 Copynumber: 5.2 Consensus size: 17
430710 CTTGAGACCG
*
430720 TTTCCCTTGAAACAAGTT
1 TTTCTCTTGAAACAAG-T
*
430738 TTGTCTCCCTTGAGAC-A-T
1 TT-TCT--CTTGAAACAAGT
430756 TTTCTCTTGAAACAAGTTT
1 TTTCTCTTGAAACAAG--T
*
430775 TGTCTCTCTTGAGAC-AG-
1 T-T-TCTCTTGAAACAAGT
430792 TTTCTCTTGAAACAAAGT
1 TTTCTCTTGAAAC-AAGT
430810 TTT
1 TTT
430813 ATCTCTTTAG
Statistics
Matches: 58, Mismatches: 5, Indels: 24
0.67 0.06 0.28
Matches are distributed among these distances:
15 17 0.29
16 2 0.03
17 6 0.10
18 8 0.14
19 4 0.07
20 4 0.07
21 17 0.29
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (17 bp):
TTTCTCTTGAAACAAGT
Found at i:430844 original size:37 final size:36
Alignment explanation
Indices: 430683--430843 Score: 218
Period size: 36 Copynumber: 4.4 Consensus size: 36
430673 CTTTGAAAAC
*
430683 GTTTCTCTTGAAACGAA-TTTTGTCTCTCTTGAGACC
1 GTTTCTCTTGAAAC-AAGTTTTGTCTCTCTTGAGACA
* *
430719 GTTTCCCTTGAAACAAGTTTTGTCTCCCTTGAGACA
1 GTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACA
*
430755 TTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACA
1 GTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACA
*
430791 GTTTCTCTTGAAACAAAGTTTTATCTCT-TTAGAGACA
1 GTTTCTCTTGAAAC-AAGTTTTGTCTCTCTT-GAGACA
* *
430828 GTTTCCCTCGAAACAA
1 GTTTCTCTTGAAACAA
430844 ATCTCACTTG
Statistics
Matches: 112, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
35 2 0.02
36 80 0.71
37 30 0.27
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (36 bp):
GTTTCTCTTGAAACAAGTTTTGTCTCTCTTGAGACA
Found at i:431439 original size:134 final size:134
Alignment explanation
Indices: 431172--434529 Score: 3977
Period size: 134 Copynumber: 25.2 Consensus size: 134
431162 AAGAGATTGT
* * * * * * *
431172 TCAACTATTT-GCTCGATTCTATCACAGAAGGAGGTAGATCAGCTA-CAACATTTCGTTTGA-TT
1 TCAACT-TTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAAC-ACCGACGTATCATTCGATTT
* *
431234 CCATCACATAATGAGGTGGATCGACATTTGTTA---T--CTCAAATCCATCGCAGAAGGAGTTGG
64 CCATCACAGAAGGAGGTGGATCGACATTT-TTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
431294 ATCAGCG
128 ATCAGCG
* * * * *
431301 TCAACTTTTAGATTGATTCAATCACAGAAGGAGGTAGATCAACATCGACGTATCGTTCAATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
* *
431366 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCACAAAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
431431 AGCA
131 AGCG
* * * * * * * ** *
431435 TCAACTTTTTGCTCGTTTCTATCACAGAAAGAGGTATATCAGCACCAATATCTCATTCGA-TTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
* * * *
431499 ATCGCAGAATGAGGTGGATCGATATTTTTA-TTTCGCTCAAATCCATCGCAGAAGGATTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
431563 AGCG
131 AGCG
* *
431567 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACATCGACGTATCGTTCGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
* *
431632 ATCACAGAAGGAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGCTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
431697 AGCG
131 AGCG
* * * * * * * *
431701 TCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
* *
431766 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAAGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
431831 AGCG
131 AGCG
* * * * *
431835 TCAACCTTTT-GC-TCATTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCACTCGATTT
1 TCAA-CTTTTAGCTTGA-TTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTT
* * * * *
431898 CTATCACAGAAGGAGGTGGATCGATATTTTTATTTTTGCTCGAATCCATCACAGAAGGAGTTGGA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
*
431963 TCAGTG
129 TCAGCG
* *
431969 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCG--GTATCTTGTTCGA-TT
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATC--ATTCGATTT
* * ** *
432031 CCATTACAGAAGGAGGTGGATCGATATTTTTATTTTTACTCAAATCCATCGTAGAAGGAGTTGGA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
432096 TCAGCG
129 TCAGCG
** * * * * * * *
432102 TCAACTTTTTTCTTGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGA-CTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
* ** * *
432166 ATCACAGAAGGAGGTGAATTAACATTTTTATTTTCGCTCGAATCCATCGTAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
432231 AGCG
131 AGCG
* * ** *
432235 TCAATTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACATTG--GTATCTCGTTCGA-TT
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTA--TCATTCGATTT
* * * *
432297 CCATTACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGAAGTTGGA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
*
432362 TCAGCA
129 TCAGCG
* * * * * * * * *
432368 TCAACTTTTTGC-TCATTTCTATCACAAAAGGAAGTAGATCAGCACCAACATTTCACTCGATTTC
1 TCAACTTTTAGCTTGA-TTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTC
* *
432432 CATCACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCGAATCCATCGCAGAAGGAGTTGGAT
65 CATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
*
432497 CAACG
130 CAGCG
* * *
432502 TCAACGTTTAGCTTGATTCTATCACAAAAAGG-GGTAGATCAACACCG--GTATCTCGTTCGA-T
1 TCAACTTTTAGCTTGATTCTATCAC-AGAAGGAGGTAGATCAACACCGACGTA--TCATTCGATT
* * *
432563 TCCATTACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAATGAGTTGG
63 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGG
432628 ATCAGCG
128 ATCAGCG
* * * * * * * * *
432635 TCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCAACAACATTTCACTCGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
* * *
432700 ATCACAGAAGGAGGTGGATCGGCATTTTTATTTTCACTCGAATCCATCGCAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
432765 AACG
131 AGCG
* * *
432769 TCAACTTTTAGCTTGATTCTATCACAGAAAGAAGTAGATCAACACCG--GTATCTCGTTCGA-TT
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTA--TCATTCGATTT
* * *
432831 CCATTACAGAAGGAGGTGGATTGACATTTTTATTTTCTCTCAAATCCATCGCAGAAGGAGTTGGA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
* *
432896 TCAACA
129 TCAGCG
* * ** * * *
432902 TCAACTTTT-GCTCGTTTCTATCACAGAATTAGGTAGATCAACATCGACGTATCGTTTGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
*
432966 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
**
433031 AATG
131 AGCG
* * *
433035 TCAACTTTTAGCTTGATTCTATCGCAGAAAGAGGTAGATCAACACCG--GTATCTCGTTCGA-TT
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTA--TCATTCGATTT
* * *
433097 CCATTACAGAAGGAGGTTGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
433162 TCAGCG
129 TCAGCG
* *
433168 TTAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACATCGACGTATCATTCGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
* * * *
433233 ATCACAGAAGAAGGTGGATAGA-ATTTTTTATTTTCGCTTAAATCCATCACAGAAGGAGTTGGAT
66 ATCACAGAAGGAGGTGGATCGACA-TTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
433297 CAGCG
130 CAGCG
* * * * * * ** * *
433302 TCAACTTTTTTGCTCGTTTCTATCACATAAGGAGGTAGATCAGCACCAATATTTCACTCGATTTC
1 TCAAC-TTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTC
* *
433367 CATCACAGAATGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGAT
65 CATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGAT
433432 CAGCG
130 CAGCG
* * * * * * * *
433437 TCAAATTTTTGC-TCATTTCTATCACAGAAGAAGGTAGATCAGCACCAACATTTCACTT-GATTT
1 TCAACTTTTAGCTTGA-TTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCA-TTCGATTT
* ** * * *
433500 CTATCACAGAAGGAGGTGGATCGACATTTTTATTTTTTCTCGAATCCATCGTAGAAGAAGTTGGA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
433565 TCAGCG
129 TCAGCG
* * *
433571 TCAACTTTTAACTTGATTCTATCACAGAAAGAGGTAGATCAACACCG--GTATCTTGTTCGA-TT
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATC--ATTCGATTT
* ** *
433633 CCATTACAGAAGGAGGTGGATCGACATTTTTATTTTTACTCAAATCCATCGTAGAAGGAGTTGGA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
433698 TCAGCG
129 TCAGCG
* * * * * ** * *
433704 TCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAATATTTCACTCGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
** * *
433769 ATCACAGAAGGAGGTGGATTAACATTTTTATTTTTGCTCGAATCCATCGCAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
433834 AGCG
131 AGCG
* *
433838 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACATCG--GTATCTCATTCGA-TT
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTA--TCATTCGATTT
* * * *
433900 CCATTACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGAA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
*
433965 TCAGCA
129 TCAGCG
* * * * * * * * *
433971 TCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATTTTC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
*
434036 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
434101 AACG
131 AGCG
* *
434105 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCG--GTATCTCGTTCGA-TT
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTA--TCATTCGATTT
* *
434167 CCATTACAGAAAGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
*
434232 TCATCG
129 TCAGCG
* * * * ** * * * *
434238 TCAACTTTTTGCTCGTTTCTATCACAGAATGAGGTAGATCAGTACCAACATTTCACTCGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
* * *
434303 ATCACAAAAGGAGGTGGATTGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGGATC
66 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
*
434368 AACG
131 AGCG
* *
434372 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCG--GTATCTCGTTCGA-TT
1 TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTA--TCATTCGATTT
* * *
434434 CCATTATAGAAGGAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
64 CCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGA
434499 TCAGCG
129 TCAGCG
*
434505 TCAACTTCTT-GCTCGATTC-ATCACA
1 TCAACTT-TTAGCTTGATTCTATCACA
434530 TATTGAGTTG
Statistics
Matches: 2764, Mismatches: 397, Indels: 133
0.84 0.12 0.04
Matches are distributed among these distances:
128 4 0.00
129 48 0.02
130 29 0.01
131 1 0.00
132 148 0.05
133 1187 0.43
134 1201 0.43
135 145 0.05
136 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (134 bp):
TCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACACCGACGTATCATTCGATTTCC
ATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATC
AGCG
Found at i:431777 original size:45 final size:45
Alignment explanation
Indices: 431179--434412 Score: 782
Period size: 44 Copynumber: 72.8 Consensus size: 45
431169 TGTTCAACTA
* *
431179 TTTGCTCGA-TTCTATCACAGAAGGAGGTAGATCAGC-TACAACAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCAT-CAACAT
* * * * * *
431223 TTCGTTTGA-TTCCATCACATAATGAGGTGGATC-G-A-C-A-TT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* ** * * *
431262 TGTTATCTC-AAATCCATCGCAGAAGGAGTTGGATCAGCGTCAAC-T
1 T-TT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * * *
431307 TTTAGATTGA-TTCAATCACAGAAGGAGGTAGATCAACATCGACGT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * ****
431352 ATCGTTCAATTTCCATCACAGAAGGAGGTGGATC-GACATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
** * * *
431397 TTTCGCTC-AAATCCATCACAAAAGGAGTTGGATCAGCATCAACTT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * ** * *
431442 TTTGCTCG-TTTCTATCACAGAAAGAGGTATATCAGCACCAATAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* *** * * * ****
431486 CTCATTCGA-TTCCATCGCAGAATGAGGTGGATC-GATATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
* ** * ** *
431530 TTCGCTC-AAATCCATCGCAGAAGGATTTGGATCAGCGTCAAC-T
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * *
431573 TTTAGCTTGA-TTCTATCACAGAAGGAGGTAGATCAACATCGACGT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * ****
431618 ATCGTTCGATTTCCATCACAGAAGGAGGTGGATC-GATATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
** * * * *
431663 TTTCGCTC-AAATCCATCGCAGAAGGAGCTGGATCAGCGTCAACTT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * *
431708 TTTGCTCG-TTTCTATCACAGAAGGAGGTAGATCAGCACCAACAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
** ****
431752 TTCACTCGATTTCCATCACAGAAGGAGGTGGATC-GACATTTTTATT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-T
** * * * * *
431798 TTTGCTC-AAATCCATCGCAGAAAGAGTTGGATCAGCGTCAACCT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * *
431842 TTTGCTC-ATTTCTATCACAGAAGGAGGTAGATCAACACCAACAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
** * * ****
431886 TTCACTCGATTTCTATCACAGAAGGAGGTGGATC-GATATTTTTATT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-T
* * **
431932 TTTGCTCGA-ATCCATCACAGAAGGAGTTGGATCAGTGTCAAC-T
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * * ***
431975 TTTAGCTTGA-TTCTATCACAGAAAGAGGTAGATCAACACCGGTAT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * ****
432020 CTTGTTCGA-TTCCATTACAGAAGGAGGTGGATC-GATATTTTTATT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-T
* ** ** * * *
432065 TTTACTC-AAATCCATCGTAGAAGGAGTTGGATCAGCGTCAACTT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * *
432109 TTTTCTTG-TTTCTATCACAGAAGGAGGTAGATCAGCACCAACAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
** * * * * ****
432153 TTCACTCGA-CTCCATCACAGAAGGAGGTGAATTAACATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* ** * * *
432197 TTTCGCTCGA-ATCCATCGTAGAAGGAGTTGGATCAGCGTCAA-TT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * ****
432241 TTTAGCTTGA-TTCTATCACAGAAAGAGGTAGATCAACATTGGTAT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * ****
432286 CTCGTTCGA-TTCCATTACAGAATGAGGTGGATC-GACATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
** ** * * *
432330 TTTCGCTC-AAATCCATCGTAGAAGAAGTTGGATCAGCATCAACTT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * *
432375 TTTGCTC-ATTTCTATCACAAAAGGAAGTAGATCAGCACCAACAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
** ****
432419 TTCACTCGATTTCCATCACAGAAGGAGGTGGATC-GACATTTTTATT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-T
* * * * * *
432465 TTTGCTCGA-ATCCATCGCAGAAGGAGTTGGATCAACGTCAACGT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * * * ***
432509 TTAGCTTGA-TTCTATCACAAAAAGG-GGTAGATCAACACCGGTAT
1 TTTGCTCGATTTCCATCAC-AGAAGGAGGTGGATCAGCATCAACAT
* * * * * ****
432553 CTCGTTCGA-TTCCATTACAGAATGAGGTGGATC-GACATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
** * * * * *
432597 TTTCGCTC-AAATCCATCGCAGAATGAGTTGGATCAGCGTCAACTT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * *
432642 TTTGCTCG-TTTCTATCACAGAAGGAGGTAGATCAGCAACAACAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
** * ****
432686 TTCACTCGATTTCCATCACAGAAGGAGGTGGATCGGCATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * *
432731 TTTCACTCGA-ATCCATCGCAGAAGGAGTTGGATCAACGTCAAC-T
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * * * ***
432775 TTTAGCTTGA-TTCTATCACAGAAAGAAGTAGATCAACACCGGTAT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * ****
432820 CTCGTTCGA-TTCCATTACAGAAGGAGGTGGAT-TGACATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
* ** * * *
432864 TTT-CTCTCAAATCCATCGCAGAAGGAGTTGGATCAACATCAAC-T
1 TTTGCTC-GATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* ** * * * *
432908 TTTGCTCG-TTTCTATCACAGAATTAGGTAGATCAACATCGACGT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * ****
432952 ATCGTTTGATTTCCATCACAGAAGGAGGTGGATC-GACATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
* * * ***
432997 TTTCGCTCGA-ATCCATCGCAGAAGGAGTTGGATCAATGTCAAC-T
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * * * ***
433041 TTTAGCTTGA-TTCTATCGCAGAAAGAGGTAGATCAACACCGGTAT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * ****
433086 CTCGTTCGA-TTCCATTACAGAAGGAGGTTGATC-GACATTTTTATT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-T
** * * * *
433131 TTTGCTC-AAATCCATCGCAGAAGGAGTTGGATCAGCGTTAAC-T
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * *
433174 TTTAGCTTGA-TTCTATCACAGAAGGAGGTAGATCAACATCGACGT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* *** * * ****
433219 ATCATTCGATTTCCATCACAGAAGAAGGTGGAT-AGAATTTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCA-TCAACAT
* ** * * *
433264 TTTCGCT-TAAATCCATCACAGAAGGAGTTGGATCAGCGTCAACTTT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAAC-AT
* * * * *
433310 TTTGCTCG-TTTCTATCACATAAGGAGGTAGATCAGCACCAATAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
** * ****
433354 TTCACTCGATTTCCATCACAGAATGAGGTGGATC-GACATTTTTATT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-T
** * * *
433400 TTTGCTC-AAATCCATCGCAGAAGGAGTTGGATCAGCGTCAA-ATT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACA-T
* * * *
433444 TTTGCTC-ATTTCTATCACAGAAGAAGGTAGATCAGCACCAACAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
** * * ****
433488 TTCACTTGATTTCTATCACAGAAGGAGGTGGATC-GACATTTTTATT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-T
* * ** * * *
433534 TTTTCTCGA-ATCCATCGTAGAAGAAGTTGGATCAGCGTCAAC-T
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * * * ***
433577 TTTAACTTGA-TTCTATCACAGAAAGAGGTAGATCAACACCGGTAT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * ****
433622 CTTGTTCGA-TTCCATTACAGAAGGAGGTGGATC-GACATTTTTATT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACA-T
* ** ** * * *
433667 TTTACTC-AAATCCATCGTAGAAGGAGTTGGATCAGCGTCAACTT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * *
433711 TTTGCTCG-TTTCTATCACAGAAGGAGGTAGATCAGCACCAATAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
** * * ****
433755 TTCACTCGATTTCCATCACAGAAGGAGGTGGATTAACATTTTTATT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACA-T
* * * *
433801 TTTGCTCGA-ATCCATCGCAGAAGGAGTTGGATCAGCGTCAAC-T
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * ***
433844 TTTAGCTTGA-TTCTATCACAGAAAGAGGTAGATCAACATCGGTAT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* *** * * ****
433889 CTCATTCGA-TTCCATTACAGAATGAGGTGGATC-GACATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
** * * *
433933 TTTCGCTC-AAATCCATCACAGAAGGAGTTGAATCAGCATCAACTT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * *
433978 TTTGCTCG-TTTCTATCACAGAAGGAGGTAGATCAGCACCAACAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
** * ****
434022 TTCACTCGATTTTCATCACAGAAGGAGGTGGATC-GACATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
* * * * *
434067 TTTCGCTCGA-ATCCATCGCAGAAGGAGTTGGATCAACGTCAAC-T
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * * ***
434111 TTTAGCTTGA-TTCTATCACAGAAAGAGGTAGATCAACACCGGTAT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * * ****
434156 CTCGTTCGA-TTCCATTACAGAAAGAGGTGGATC-GACATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
** * * * * *
434200 TTTCGCTC-AAATCCATCGCAGAAGGAGTTGGATCATCGTCAACTT
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * * *
434245 TTTGCTCG-TTTCTATCACAGAATGAGGTAGATCAGTACCAACAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
** * * ****
434289 TTCACTCGATTTCCATCACAAAAGGAGGTGGAT-TGACATTTTTAT
1 TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAG-CATCAACAT
* * * * *
434334 TTTCGCTCGA-ATCCATCGCAGAAGGAGTTGGATCAACGTCAAC-T
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
* * * *
434378 TTTAGCTTGA-TTCTATCACAGAAAGAGGTAGATCA
1 TTT-GCTCGATTTCCATCACAGAAGGAGGTGGATCA
434413 ACACCGGTAT
Statistics
Matches: 2183, Mismatches: 880, Indels: 254
0.66 0.27 0.08
Matches are distributed among these distances:
39 2 0.00
40 3 0.00
41 21 0.01
42 1 0.00
43 53 0.02
44 1068 0.49
45 947 0.43
46 88 0.04
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (45 bp):
TTTGCTCGATTTCCATCACAGAAGGAGGTGGATCAGCATCAACAT
Found at i:432155 original size:267 final size:267
Alignment explanation
Indices: 431172--434529 Score: 4798
Period size: 267 Copynumber: 12.6 Consensus size: 267
431162 AAGAGATTGT
* * * *** * *
431172 TCAACTATTT-GCTCGATTCTATCACAGAAGGAGGTAGATCAGCTA-CAACATTTCGTTTGATTC
1 TCAACT-TTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAAC-ACCGGTATCTCGTTCGATTC
* * *
431235 CATCACATAATGAGGTGGATCGACATTTGTTA----T-CTCAAATCCATCGCAGAAGGAGTTGGA
64 CATTACAGAAGGAGGTGGATCGACATTT-TTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGA
* * * * * * * * * * ** *
431295 TCAGCGTCAACTTTTAGATTGATTCAATCACAGAAGGAGGTAGATCAACATCGACGTATCGTTCA
128 TCAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCG
* * *
431360 ATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCACAAAAGGAGT
193 ATTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGT
*
431425 TGGATCAGCA
258 TGGATCAGCG
* * * * * ** *
431435 TCAACTTTTTGCTCGTTTCTATCACAGAAAGAGGTATATCAGCACCAATATCTCATTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
** * * * *
431500 TCGCAGAATGAGGTGGATCGATATTTTTA-TTTCGCTCAAATCCATCGCAGAAGGATTTGGATCA
66 TTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
* * * * * * * * **
431564 GCGTCAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACATCGACGTATCGTTCGATT
131 GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATT
* * *
431629 TCCATCACAGAAGGAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGCTGG
196 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGG
431694 ATCAGCG
261 ATCAGCG
* * * * * *** * **
431701 TCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATTTCC
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGA-TTCC
* *
431766 ATCACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAAGAGTTGGATC
65 ATTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATC
* * *
431831 AGCGTCAACCTTTTGCTCATTTCTATCACAGAAGGAGGTAGATCAACACCAACATTTCACTCGAT
130 AGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGAT
* * * *
431896 TTCTATCACAGAAGGAGGTGGATCGATATTTTTATTTTTGCTCGAATCCATCACAGAAGGAGTTG
195 TTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTG
*
431961 GATCAGTG
260 GATCAGCG
*
431969 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTTGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
* * *
432034 TTACAGAAGGAGGTGGATCGATATTTTTATTTTTACTCAAATCCATCGTAGAAGGAGTTGGATCA
66 TTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
* * *
432099 GCGTCAACTTTTTTCTTGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGA-C
131 GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATT
* ** *
432163 TCCATCACAGAAGGAGGTGAATTAACATTTTTATTTTCGCTCGAATCCATCGTAGAAGGAGTTGG
196 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGG
432228 ATCAGCG
261 ATCAGCG
* **
432235 TCAATTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACATTGGTATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
* * * *
432300 TTACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGTAGAAGAAGTTGGATCA
66 TTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
* * * *
432365 GCATCAACTTTTTGCTCATTTCTATCACAAAAGGAAGTAGATCAGCACCAACATTTCACTCGATT
131 GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATT
*
432430 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCGAATCCATCGCAGAAGGAGTTGG
196 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGG
*
432495 ATCAACG
261 ATCAGCG
* * *
432502 TCAACGTTTAGCTTGATTCTATCACAAAAAGGGGTAGATCAACACCGGTATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
* * *
432567 TTACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAATGAGTTGGATCA
66 TTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
*
432632 GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCAACAACATTTCACTCGATT
131 GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATT
* *
432697 TCCATCACAGAAGGAGGTGGATCGGCATTTTTATTTTCACTCGAATCCATCGCAGAAGGAGTTGG
196 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGG
*
432762 ATCAACG
261 ATCAGCG
*
432769 TCAACTTTTAGCTTGATTCTATCACAGAAAGAAGTAGATCAACACCGGTATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
*
432834 TTACAGAAGGAGGTGGATTGACATTTTTATTTTCT-CTCAAATCCATCGCAGAAGGAGTTGGATC
66 TTACAGAAGGAGGTGGATCGACATTTTTATTTT-TGCTCAAATCCATCGCAGAAGGAGTTGGATC
* * ** * * * * * ** *
432898 AACATCAAC-TTTTGCTCGTTTCTATCACAGAATTAGGTAGATCAACATCGACGTATCGTTTGAT
130 AGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGAT
432962 TTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTG
195 TTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTG
**
433027 GATCAATG
260 GATCAGCG
*
433035 TCAACTTTTAGCTTGATTCTATCGCAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
*
433100 TTACAGAAGGAGGTTGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
66 TTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
* * * * * * * * * *
433165 GCGTTAACTTTTAGCTTGATTCTATCACAGAAGGAGGTAGATCAACATCGACGTATCATTCGATT
131 GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATT
* * ** *
433230 TCCATCACAGAAGAAGGTGGATAGA-ATTTTTTATTTTCGCTTAAATCCATCACAGAAGGAGTTG
196 TCCATCACAGAAGGAGGTGGATCGACA-TTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTG
433294 GATCAGCG
260 GATCAGCG
* * * * * * ** * **
433302 TCAACTTTTTTGCTCGTTTCTATCACATAAGGAGGTAGATCAGCACCAATATTTCACTCGATTTC
1 TCAAC-TTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGA-TTC
* *
433367 CATCACAGAATGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGAT
64 CATTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGAT
* * * *
433432 CAGCGTCAAATTTTTGCTCATTTCTATCACAGAAGAAGGTAGATCAGCACCAACATTTCACTTGA
129 CAGCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGA
* ** * *
433497 TTTCTATCACAGAAGGAGGTGGATCGACATTTTTATTTTTTCTCGAATCCATCGTAGAAGAAGTT
194 TTTCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTT
433562 GGATCAGCG
259 GGATCAGCG
* *
433571 TCAACTTTTAACTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTTGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
* *
433636 TTACAGAAGGAGGTGGATCGACATTTTTATTTTTACTCAAATCCATCGTAGAAGGAGTTGGATCA
66 TTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
*
433701 GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAATATTTCACTCGATT
131 GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATT
** *
433766 TCCATCACAGAAGGAGGTGGATTAACATTTTTATTTTTGCTCGAATCCATCGCAGAAGGAGTTGG
196 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGG
433831 ATCAGCG
261 ATCAGCG
* *
433838 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACATCGGTATCTCATTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
* * * *
433903 TTACAGAATGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCACAGAAGGAGTTGAATCA
66 TTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
*
433968 GCATCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATT
131 GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATT
*
434033 TTCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGG
196 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGG
*
434098 ATCAACG
261 ATCAGCG
434105 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
* *
434170 TTACAGAAAGAGGTGGATCGACATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
66 TTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
* * *
434235 TCGTCAACTTTTTGCTCGTTTCTATCACAGAATGAGGTAGATCAGTACCAACATTTCACTCGATT
131 GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATT
* *
434300 TCCATCACAAAAGGAGGTGGATTGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGG
196 TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGG
*
434365 ATCAACG
261 ATCAGCG
434372 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
1 TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
* * *
434437 TTATAGAAGGAGGTGGATCGATATTTTTATTTTCGCTCAAATCCATCGCAGAAGGAGTTGGATCA
66 TTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
* *
434502 GCGTCAACTTCTTGCTCGATTC-ATCACA
131 GCGTCAACTTTTTGCTCGTTTCTATCACA
434530 TATTGAGTTG
Statistics
Matches: 2814, Mismatches: 265, Indels: 29
0.91 0.09 0.01
Matches are distributed among these distances:
262 7 0.00
263 75 0.03
265 1 0.00
266 705 0.25
267 1557 0.55
268 285 0.10
269 183 0.07
270 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (267 bp):
TCAACTTTTAGCTTGATTCTATCACAGAAAGAGGTAGATCAACACCGGTATCTCGTTCGATTCCA
TTACAGAAGGAGGTGGATCGACATTTTTATTTTTGCTCAAATCCATCGCAGAAGGAGTTGGATCA
GCGTCAACTTTTTGCTCGTTTCTATCACAGAAGGAGGTAGATCAGCACCAACATTTCACTCGATT
TCCATCACAGAAGGAGGTGGATCGACATTTTTATTTTCGCTCGAATCCATCGCAGAAGGAGTTGG
ATCAGCG
Found at i:432851 original size:88 final size:89
Alignment explanation
Indices: 432468--433118 Score: 210
Period size: 89 Copynumber: 7.3 Consensus size: 89
432458 TTTTATTTTT
* * * * * *
432468 GCTCGAATCCATCGCAGAAGGAGTTGGATCAACGTCAACGTTTAGCTTGATTCTATCACAAAAAG
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAACGTCAACTTTTAGCTTGATTCCATCACAGAAAG
**
432533 GGGTAGATCAACACCGGTA-TCTC
66 AAGTAGATCAACACCGGTACTCTC
* * * ** ** * ** * *
432556 GTTCGATTCCATTACAGAATGAGGTGGATCGACATTTTTA-TTTTCGCTCAAATCCATCGCAGAA
1 GCTCGATTCCATCACAGAAGGAGGTGGATC-A-ACGTCAACTTTTAGCTTGATTCCATCACAGAA
* * * ** * * *
432620 TG-AGTTGGATCAGCGTC--AACTTTTT
64 AGAAG-TAGATCAACACCGGTAC-TCTC
* * * * ** * *
432645 GCTCGTTTCTATCACAGAAGGAGGTAGATCAGCAACAACATTTCA-CTCGATTTCCATCACAGAA
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAACGTCAAC-TTTTAGCTTGA-TTCCATCACAGAA
* * * ** **** * *
432709 GGAGGTGGATCGGCATTTTTATTTTC
64 AGAAGTAGATCAACACCGGTACTCTC
* * * * *
432735 ACTCGAATCCATCGCAGAAGGAGTTGGATCAACGTCAACTTTTAGCTTGATTCTATCACAGAAAG
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAACGTCAACTTTTAGCTTGATTCCATCACAGAAAG
432800 AAGTAGATCAACACCGGTA-TCTC
66 AAGTAGATCAACACCGGTACTCTC
* * * ** ** ** ** * *
432823 GTTCGATTCCATTACAGAAGGAGGTGGATTGACATTTTTA-TTTTCTCTCAAATCCATCGCAG-A
1 GCTCGATTCCATCACAGAAGGAGGTGGA-TCA-ACGTCAACTTTTAGCTTGATTCCATCACAGAA
* * * * * *
432886 AGGAGTTGGATCAACATC--AACTTTT
64 AGAAG-TAGATCAACACCGGTACTCTC
* * ** * * * * * * * *
432911 GCTCGTTTCTATCACAGAATTAGGTAGATCAACATCGACGTATCGTTTGATTTCCATCACAGAAG
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAACGTCAACTTTTAGCTTGA-TTCCATCACAGAAA
* * * **** * *
432976 GAGGTGGATCGACATTTTTATTTTC
65 GAAGTAGATCAACACCGGTACTCTC
* * * * * *
433001 GCTCGAATCCATCGCAGAAGGAGTTGGATCAATGTCAACTTTTAGCTTGATTCTATCGCAGAAAG
1 GCTCGATTCCATCACAGAAGGAGGTGGATCAACGTCAACTTTTAGCTTGATTCCATCACAGAAAG
*
433066 AGGTAGATCAACACCGGTA-TCTC
66 AAGTAGATCAACACCGGTACTCTC
* * *
433089 GTTCGATTCCATTACAGAAGGAGGTTGATC
1 GCTCGATTCCATCACAGAAGGAGGTGGATC
433119 GACATTTTTA
Statistics
Matches: 384, Mismatches: 158, Indels: 42
0.66 0.27 0.07
Matches are distributed among these distances:
86 3 0.01
87 10 0.03
88 129 0.34
89 159 0.41
90 82 0.21
91 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (89 bp):
GCTCGATTCCATCACAGAAGGAGGTGGATCAACGTCAACTTTTAGCTTGATTCCATCACAGAAAG
AAGTAGATCAACACCGGTACTCTC
Found at i:435768 original size:2 final size:2
Alignment explanation
Indices: 435761--435791 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
435751 ATATTATGTA
435761 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
435792 GCATATACGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:446760 original size:20 final size:20
Alignment explanation
Indices: 446723--446761 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
446713 TACATTTTTC
* * *
446723 ATTTTTTTTAATTTATATAT
1 ATTTTTTTAAAATCATATAT
446743 ATTTTTTTAAAATCATATA
1 ATTTTTTTAAAATCATATA
446762 GGAAATACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTTTTTTAAAATCATATAT
Found at i:446939 original size:11 final size:11
Alignment explanation
Indices: 446923--446962 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
446913 TTCATATTGT
446923 AAACTTAATAA
1 AAACTTAATAA
* *
446934 AAACTTTATTGA
1 AAAC-TTAATAA
446946 AAACTTAATAA
1 AAACTTAATAA
446957 AAACTT
1 AAACTT
446963 TCTTGCAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.55, C:0.10, G:0.03, T:0.33
Consensus pattern (11 bp):
AAACTTAATAA
Found at i:446949 original size:23 final size:23
Alignment explanation
Indices: 446917--446963 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
446907 TCGAATTTCA
*
446917 TATTGTAAACTTAATAAAAACTT
1 TATTGAAAACTTAATAAAAACTT
446940 TATTGAAAACTTAATAAAAACTT
1 TATTGAAAACTTAATAAAAACTT
446963 T
1 T
446964 CTTGCAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (23 bp):
TATTGAAAACTTAATAAAAACTT
Found at i:447087 original size:2 final size:2
Alignment explanation
Indices: 447080--447119 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
447070 TAATTTAAAC
447080 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
447120 AATTATCAGG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:448406 original size:39 final size:39
Alignment explanation
Indices: 448363--448437 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
448353 TTTATTAAAA
* *
448363 CCATGATAAACAATATCATATATGATAGCCATATCAAAG
1 CCATGATAAACAATATCATACATAATAGCCATATCAAAG
* *
448402 CCATGATATACAATATCATACATAATAGTCATATCA
1 CCATGATAAACAATATCATACATAATAGCCATATCA
448438 CATTCTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (39 bp):
CCATGATAAACAATATCATACATAATAGCCATATCAAAG
Found at i:448576 original size:19 final size:19
Alignment explanation
Indices: 448544--448591 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
448534 ACTTTCACAT
* *
448544 TTCAGAACTCATTCTCAGA
1 TTCAGGACTTATTCTCAGA
*
448563 TTCAGGACTTATTCTCATA
1 TTCAGGACTTATTCTCAGA
448582 TTCAGGACTT
1 TTCAGGACTT
448592 GTTTCCAGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (19 bp):
TTCAGGACTTATTCTCAGA
Found at i:448625 original size:18 final size:18
Alignment explanation
Indices: 448569--448629 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
448559 CAGATTCAGG
**
448569 ACTTATTCTCATATTCAGG
1 ACTTATT-TCATATTCATA
* * *
448588 ACTTGTTTCCAGACTCATA
1 ACTTATTT-CATATTCATA
448607 ACTTATTTCATATTCATA
1 ACTTATTTCATATTCATA
448625 ACTTA
1 ACTTA
448630 AATCCAGATT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
18 14 0.42
19 19 0.58
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.43
Consensus pattern (18 bp):
ACTTATTTCATATTCATA
Found at i:450614 original size:18 final size:18
Alignment explanation
Indices: 450555--450617 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
450545 ACATATACCC
* * *
450555 TCATTATTAACATCAACA
1 TCATTATCAATATCAATA
**
450573 TCATTATC-ATGATCTCTA
1 TCATTATCAAT-ATCAATA
*
450591 TTATTATCAATATCAATA
1 TCATTATCAATATCAATA
450609 TCATTATCA
1 TCATTATCA
450618 TGTAATACAT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
17 1 0.03
18 31 0.91
19 2 0.06
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (18 bp):
TCATTATCAATATCAATA
Found at i:450898 original size:22 final size:22
Alignment explanation
Indices: 450868--450928 Score: 86
Period size: 22 Copynumber: 2.8 Consensus size: 22
450858 GGCATGCAAA
*
450868 ATTTGTCCCGAATGACCTATGT
1 ATTTGTCCCGAAGGACCTATGT
* *
450890 ATTTATCCCGAAGGACCTCTGT
1 ATTTGTCCCGAAGGACCTATGT
*
450912 ATATGTCCCGAAGGACC
1 ATTTGTCCCGAAGGACC
450929 ACGTAGAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (22 bp):
ATTTGTCCCGAAGGACCTATGT
Found at i:451097 original size:33 final size:33
Alignment explanation
Indices: 451055--451119 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
451045 ATCATGTAGC
451055 TTGTATAACATTCTTGTATGATCTCATAGATCA
1 TTGTATAACATTCTTGTATGATCTCATAGATCA
451088 TTGTATAACATTCTTGTATGATCTCATAGATC
1 TTGTATAACATTCTTGTATGATCTCATAGATC
451120 CTTTTCATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.43
Consensus pattern (33 bp):
TTGTATAACATTCTTGTATGATCTCATAGATCA
Found at i:451159 original size:20 final size:20
Alignment explanation
Indices: 451134--451184 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
451124 TCATATAACC
451134 CATATCACATAGGTTCATAT
1 CATATCACATAGGTTCATAT
451154 CATATCACATAGGTTCATAT
1 CATATCACATAGGTTCATAT
451174 CATATCACATA
1 CATATCACATA
451185 TATCACATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (20 bp):
CATATCACATAGGTTCATAT
Found at i:453192 original size:30 final size:31
Alignment explanation
Indices: 453158--453220 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
453148 TTGGTCCTTG
* *
453158 AACTTT-TCAAAGCTTATACTCTGGTCACTA
1 AACTTTATAAAAGCTTATAATCTGGTCACTA
* *
453188 AACTTTATAAAATCTTATAATTTGGTCACTA
1 AACTTTATAAAAGCTTATAATCTGGTCACTA
453219 AA
1 AA
453221 TAAATCCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (31 bp):
AACTTTATAAAAGCTTATAATCTGGTCACTA
Found at i:460296 original size:197 final size:197
Alignment explanation
Indices: 459961--460327 Score: 680
Period size: 197 Copynumber: 1.9 Consensus size: 197
459951 TAGTAAATTG
* *
459961 TATAAGCTCTGAACAGTTTGTAAAAGTTTTTGAGTTATTATATGTAAATTATTTCATATGTTTAA
1 TATAAGCTCTGAACAGTTTGTAAAAGGTTTTGAGTTATTATATATAAATTATTTCATATGTTTAA
*
460026 ACTTAAATCTGAATTTTCCTCTTATATGTATGAAAAATGATTTGAAAAGGTTGATGTGACATCTC
66 ACTTAAATCTGAATTTTCCTCTTATATGTATGAAAAATGATATGAAAAGGTTGATGTGACATCTC
460091 AAACTCGTATTCGGGTAGGATACGAGTTAGGGGTGTTACATTTAATCAATTTACTACTTTAAATA
131 AAACTCGTATTCGGGTAGGATACGAGTTAGGGGTGTTACATTTAATCAATTTACTACTTTAAATA
460156 AT
196 AT
*
460158 TATAAGCTCTGAACATTTTGTAAAAGGTTTTGAGTTATTATATATAAATTATTTCATATGTTTAA
1 TATAAGCTCTGAACAGTTTGTAAAAGGTTTTGAGTTATTATATATAAATTATTTCATATGTTTAA
*
460223 ACTTAAATCTGAATTTTCCTCTTATATGTATGAAAAATGATATGAAAAGTTTGATGTGACATCTC
66 ACTTAAATCTGAATTTTCCTCTTATATGTATGAAAAATGATATGAAAAGGTTGATGTGACATCTC
*
460288 AGACTCGTATTCGGGTAGGATACGAGTTAGGGGTGTTACA
131 AAACTCGTATTCGGGTAGGATACGAGTTAGGGGTGTTACA
460328 GAAGTGCCTT
Statistics
Matches: 164, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
197 164 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (197 bp):
TATAAGCTCTGAACAGTTTGTAAAAGGTTTTGAGTTATTATATATAAATTATTTCATATGTTTAA
ACTTAAATCTGAATTTTCCTCTTATATGTATGAAAAATGATATGAAAAGGTTGATGTGACATCTC
AAACTCGTATTCGGGTAGGATACGAGTTAGGGGTGTTACATTTAATCAATTTACTACTTTAAATA
AT
Found at i:461516 original size:23 final size:23
Alignment explanation
Indices: 461462--461516 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
461452 CACCACAGCT
*
461462 CATATAATTGCACCAAAGTGCCA
1 CATAGAATTGCACCAAAGTGCCA
* ** *
461485 CATATAATTGCACCGGAGTGCCG
1 CATAGAATTGCACCAAAGTGCCA
*
461508 CGTAGAATT
1 CATAGAATT
461517 ACACTGTAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (23 bp):
CATAGAATTGCACCAAAGTGCCA
Found at i:461672 original size:103 final size:103
Alignment explanation
Indices: 461546--461866 Score: 599
Period size: 103 Copynumber: 3.1 Consensus size: 103
461536 TACTGTCCAT
461546 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
461611 GACTTCACACATGTTCCAAAGAATACATATATGTCCC-
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
461648 AATGGACCACATATCATTCATTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACC
1 AA-GGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACC
*
461713 AGACTTCACATATGTTCCAAAGAATACATATATGTCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
461752 AAGGACCACATATCATTCCTTAACAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
461817 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
461855 AAGGACCACATA
1 AAGGACCACATA
461867 GACCCTCGAC
Statistics
Matches: 212, Mismatches: 5, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
102 2 0.01
103 208 0.98
104 2 0.01
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:467290 original size:23 final size:23
Alignment explanation
Indices: 467236--467304 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
467226 CACCACAGCT
* *
467236 CATATAATTGCACCAAAGTGCCA
1 CATAGAATTGCACCGAAGTGCCA
* * *
467259 CATATAATTGCACCGGAGTGCCG
1 CATAGAATTGCACCGAAGTGCCA
* *
467282 CGTAGAATTGTACCGTAA-TGCCA
1 CATAGAATTGCACCG-AAGTGCCA
467305 TATAATATTG
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (23 bp):
CATAGAATTGCACCGAAGTGCCA
Found at i:467441 original size:103 final size:103
Alignment explanation
Indices: 467320--467640 Score: 606
Period size: 103 Copynumber: 3.1 Consensus size: 103
467310 TATTGTCCAT
*
467320 AAGGACCACATATCATTCCTTAATAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
467385 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
467423 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
* *
467488 GACTTCGCACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
467526 AAGGACCACATATCATTCCTTAAGAATCATATACATATGACAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
467591 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
467629 AAGGACCACATA
1 AAGGACCACATA
467641 GACCCTCGAC
Statistics
Matches: 212, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 212 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:471734 original size:32 final size:32
Alignment explanation
Indices: 471587--471727 Score: 142
Period size: 32 Copynumber: 4.4 Consensus size: 32
471577 TACTCCTATT
* * * *
471587 CATTATCTGAATGTAACACTAACTCTTATGTG
1 CATTATCTGAATGCAACACTGACTCTAATATG
* * * *
471619 CATTGTTTGAATGCAACACCT-AC-CATGATGTG
1 CATTATCTGAATGCAACA-CTGACTC-TAATATG
* *
471651 CATTATCTAAATGCAACACTGACTCTATTATG
1 CATTATCTGAATGCAACACTGACTCTAATATG
* *
471683 CATTAACTGAATGCAATACTGACTCTAATATG
1 CATTATCTGAATGCAACACTGACTCTAATATG
471715 CATTATCTGAATG
1 CATTATCTGAATG
471728 TAATACTATC
Statistics
Matches: 90, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
31 3 0.03
32 84 0.93
33 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (32 bp):
CATTATCTGAATGCAACACTGACTCTAATATG
Found at i:474339 original size:30 final size:29
Alignment explanation
Indices: 474292--474354 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
474282 ATTTGATAAT
*
474292 TATTAAAAGAGGATATATCATTTATTA-AAG
1 TATTAAAAGAGAATATAT-A-TTATTAGAAG
474322 TATTAAAAGA-AATTATATATTATTAGAAG
1 TATTAAAAGAGAA-TATATATTATTAGAAG
474351 TATT
1 TATT
474355 TGATTATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.20
29 9 0.30
30 15 0.50
ACGTcount: A:0.48, C:0.02, G:0.11, T:0.40
Consensus pattern (29 bp):
TATTAAAAGAGAATATATATTATTAGAAG
Found at i:478220 original size:17 final size:18
Alignment explanation
Indices: 478195--478236 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
478185 AATTTATTTT
* *
478195 ATATAATTAACTA-TAAA
1 ATATTATTAAATATTAAA
478212 ATATTATTAAATATTAAA
1 ATATTATTAAATATTAAA
*
478230 AGATTAT
1 ATATTAT
478237 ATTCAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATTATTAAATATTAAA
Found at i:478754 original size:21 final size:20
Alignment explanation
Indices: 478668--478825 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
478658 AAATGACCAA
**
478668 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
478687 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
478707 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
478727 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
478748 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* ** *
478769 CAAATTCGCATTGTGATTTT
1 CAAAATCGCAACGCGATTTT
* *
478789 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
478810 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
478826 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 41 0.40
21 45 0.44
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:478854 original size:20 final size:20
Alignment explanation
Indices: 478792--478985 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
478782 TGATTTTCCA
* ** *
478792 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
478812 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
478832 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
478852 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
478872 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
478892 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
478912 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
478932 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
478952 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
478973 AAATCGCAACGCG
1 AAATCGCAACGCG
478986 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:478876 original size:60 final size:60
Alignment explanation
Indices: 478792--478985 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
478782 TGATTTTCCA
* ** * *
478792 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
478852 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
478912 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
478973 AAATCGCAACGCG
1 AAATCGCAACGCG
478986 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:479406 original size:33 final size:33
Alignment explanation
Indices: 479367--479437 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
479357 TTCACTTAGA
* *
479367 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
* *
479400 TTTCATTTCGCGTTGCTATTCTCTCGTTCCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
479433 TTTCA
1 TTTCA
479438 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTCCGAT
Found at i:479561 original size:20 final size:20
Alignment explanation
Indices: 479517--479626 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
479507 TGCAGAAGAG
*
479517 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
479538 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
479558 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
479579 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
479593 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
479612 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
479627 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:479574 original size:41 final size:38
Alignment explanation
Indices: 479510--479626 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
479500 TTCAATTTGC
* *
479510 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
479548 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
479589 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
479622 AGAAT
1 AGAAT
479627 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:479596 original size:14 final size:14
Alignment explanation
Indices: 479577--479633 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
479567 GAGAAATGAA
479577 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
479591 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
479610 AATCGCAACGAGAG
1 AATCGCAACGAGAG
479624 AATCGCAACG
1 AATCGCAACG
479634 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:479609 original size:33 final size:33
Alignment explanation
Indices: 479569--479638 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
479559 CGCAACGAGA
479569 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
479602 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
479635 GAAA
1 GAAA
479639 CCAAATCGCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:479671 original size:19 final size:19
Alignment explanation
Indices: 479644--479727 Score: 97
Period size: 19 Copynumber: 4.7 Consensus size: 19
479634 CGAAACCAAA
*
479644 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
479663 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
479677 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
479696 TCGCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
479715 TCGCGTTGCGATT
1 TCGCGTTGCGATT
479728 CTCTCGTTGC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 3 0.05
19 39 0.71
ACGTcount: A:0.11, C:0.24, G:0.23, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:479685 original size:14 final size:15
Alignment explanation
Indices: 479666--479741 Score: 57
Period size: 19 Copynumber: 4.7 Consensus size: 15
479656 TTTCATTTCG
479666 CGTTGCGATTC-TCT
1 CGTTGCGATTCATCT
*
479680 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTCA--TCT
479699 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TCATCT
479716 CGCGTTGCGATTC-TCT
1 --CGTTGCGATTCATCT
479732 CGTTGCGATT
1 CGTTGCGATT
479742 TTCATTTCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
14 18 0.35
16 6 0.12
17 4 0.08
18 3 0.06
19 21 0.40
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (15 bp):
CGTTGCGATTCATCT
Found at i:479727 original size:52 final size:52
Alignment explanation
Indices: 479644--479749 Score: 185
Period size: 52 Copynumber: 2.0 Consensus size: 52
479634 CGAAACCAAA
* *
479644 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
*
479696 TCGCGTTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
479748 TC
1 TC
479750 AACCAAAAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTGTCATCTCGCGTTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:481604 original size:93 final size:93
Alignment explanation
Indices: 481445--481825 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
481435 TAGATTGCTT
*
481445 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
481510 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
481538 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
481603 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
481631 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTATAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
481696 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
481724 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
481789 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
481817 AGTAAATTT
1 AGTAAATTT
481826 ATCCATTCAA
Statistics
Matches: 285, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 285 1.00
ACGTcount: A:0.23, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:481965 original size:52 final size:51
Alignment explanation
Indices: 481886--482016 Score: 226
Period size: 52 Copynumber: 2.5 Consensus size: 51
481876 ACGAAACTTA
**
481886 AAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGAC
481937 AGAATCGCAACGCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGAC
481989 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
482017 TTGCGATTTT
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
51 2 0.03
52 74 0.97
ACGTcount: A:0.47, C:0.29, G:0.18, T:0.07
Consensus pattern (51 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:482022 original size:19 final size:19
Alignment explanation
Indices: 481869--482016 Score: 163
Period size: 19 Copynumber: 8.3 Consensus size: 19
481859 TAGTTTACTT
* *
481869 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
481889 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
481908 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
481927 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
481941 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
481960 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
481979 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
481993 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
482012 TCGCA
1 TCGCA
482017 TTGCGATTTT
Statistics
Matches: 109, Mismatches: 9, Indels: 21
0.78 0.06 0.15
Matches are distributed among these distances:
14 19 0.17
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 65 0.60
20 13 0.12
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.08
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:482034 original size:19 final size:19
Alignment explanation
Indices: 482012--482146 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
482002 GAAACCAAAA
*
482012 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
482031 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
482047 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
482064 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
*
482080 T--CGTTGTGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
482097 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
482116 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
482136 TCGTGTTGCGA
1 TCGCGTTGCGA
482147 AAGTAAACTA
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
14 14 0.15
16 11 0.12
17 11 0.12
19 45 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:482053 original size:14 final size:14
Alignment explanation
Indices: 482034--482090 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
482024 TTTCATTTCG
482034 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
482048 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
482065 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
*
482081 CGTTGTGATT
1 CGTTGCGATT
482091 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 15 0.42
16 7 0.19
17 8 0.22
19 6 0.17
ACGTcount: A:0.11, C:0.19, G:0.23, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:482059 original size:33 final size:33
Alignment explanation
Indices: 482017--482109 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
482007 CAAAATCGCA
*
482017 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
482050 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
482083 TTGTGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
482110 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:484088 original size:14 final size:14
Alignment explanation
Indices: 484069--484104 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
484059 ATTGTTTAAT
484069 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
484083 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
484097 TGATTTGT
1 TGATTTGT
484105 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Done.