Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008648.1 Hibiscus syriacus cultivar Beakdansim tig00111635_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: 367859
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 2
Found at i:219744 original size:40 final size:40
Alignment explanation
Indices: 219680--219773 Score: 154
Period size: 40 Copynumber: 2.4 Consensus size: 40
219670 GACATTCATT
219680 TGACTATCGCAACGCGAATATGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGAATATGACTATCGCAACACGGAAA
* *
219720 TGACTATCGCAATGCGGAAT-TGACTATCGCAACATGGAAA
1 TGACTATCGCAACGC-GAATATGACTATCGCAACACGGAAA
219760 TGACTATCGCAACG
1 TGACTATCGCAACG
219774 ACAGAATCGC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 46 0.92
41 4 0.08
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.20
Consensus pattern (40 bp):
TGACTATCGCAACGCGAATATGACTATCGCAACACGGAAA
Found at i:219802 original size:19 final size:19
Alignment explanation
Indices: 219778--219861 Score: 168
Period size: 19 Copynumber: 4.4 Consensus size: 19
219768 GCAACGACAG
219778 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
219797 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
219816 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
219835 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
219854 AATCGCAA
1 AATCGCAA
219862 CGAGTGAATC
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.48, C:0.17, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:220176 original size:40 final size:40
Alignment explanation
Indices: 220112--220205 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
220102 GACATTCATT
*
220112 TGACTATCGCAACGCGAATATGACTATATCAACACGGAAA
1 TGACTATCGCAACGCGAATATGACTATAGCAACACGGAAA
* * **
220152 TGACTATCGCAATGCGGAAT-TGACTATCGCAACGTGGAAA
1 TGACTATCGCAACGC-GAATATGACTATAGCAACACGGAAA
220192 TGACTATCGCAACG
1 TGACTATCGCAACG
220206 ACAGAATCGC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 43 0.91
41 4 0.09
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (40 bp):
TGACTATCGCAACGCGAATATGACTATAGCAACACGGAAA
Found at i:220234 original size:19 final size:19
Alignment explanation
Indices: 220210--220350 Score: 282
Period size: 19 Copynumber: 7.4 Consensus size: 19
220200 GCAACGACAG
220210 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
220229 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
220248 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
220267 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
220286 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
220305 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
220324 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
220343 AATCGCAA
1 AATCGCAA
220351 CGAGTGAATC
Statistics
Matches: 122, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 122 1.00
ACGTcount: A:0.48, C:0.16, G:0.21, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:220443 original size:432 final size:428
Alignment explanation
Indices: 219586--220372 Score: 1195
Period size: 432 Copynumber: 1.8 Consensus size: 428
219576 ATTATGTGTG
219586 AACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTT
1 AACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTT
*
219651 CAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAACGCGAATATGACTATCGCAACACG
66 CAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAACGCGAATATGACTATAGCAACACG
219716 GAAATGACTATCGCAATGCGGAATTGACTATCGCAACATGGAAATGACTATCGCAACGACAGAAT
131 GAAATGACTATCGCAATGCGGAATTGACTATCGCAACATGGAAATGACTATCGCAACGACAGAAT
219781 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC
196 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC
* * ** * ** * * ** *
219846 GAAATGAAAATCGCAACGAGTGAATCGCATTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTT
261 GAAATGAAAATCGCAACGAATGAATCGCAATGCGATAATCGCAATGCGAAAGTAAAATCCGCG-A
* * * ** *
219911 GCGATAGTTTGTTTTGCATTCAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCA
325 ACGATAGATCGCATTGCATTCAACATAATGCAGATTCAAATCAACAAATCAACTATTACATTT--
219976 ATCAATTAAACAATCAAAAAATAATAATGAAATCAACAAATC
388 ATCAATTAAACAATCAAAAAATAAT-ATGAAATCAACAAATC
220018 AACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTT
1 AACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTT
*
220083 CAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAACGCGAATATGACTATATCAACACG
66 CAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAACGCGAATATGACTATAGCAACACG
*
220148 GAAATGACTATCGCAATGCGGAATTGACTATCGCAACGTGGAAATGACTATCGCAACGACAGAAT
131 GAAATGACTATCGCAATGCGGAATTGACTATCGCAACATGGAAATGACTATCGCAACGACAGAAT
220213 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC
196 CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC
220278 GAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAA-TGA
261 GAAATGAAAATCGCAA--CG-AATG--AATCGCAATGCG--AT---AATCGCAATGCGAAAGT-A
220342 AAAT-CGC-AACGAGT-GAATCGCATTGCGATTC
315 AAATCCGCGAACGA-TAG-ATCGCATTGC-ATTC
220373 TCTCGTTGCG
Statistics
Matches: 321, Mismatches: 20, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
432 273 0.85
434 2 0.01
435 3 0.01
437 11 0.03
439 6 0.02
440 7 0.02
441 8 0.02
442 11 0.03
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (428 bp):
AACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGCTATGATAAGTT
CAGTTGTTATCACTTATTAGACATTCATTTGACTATCGCAACGCGAATATGACTATAGCAACACG
GAAATGACTATCGCAATGCGGAATTGACTATCGCAACATGGAAATGACTATCGCAACGACAGAAT
CGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC
GAAATGAAAATCGCAACGAATGAATCGCAATGCGATAATCGCAATGCGAAAGTAAAATCCGCGAA
CGATAGATCGCATTGCATTCAACATAATGCAGATTCAAATCAACAAATCAACTATTACATTTATC
AATTAAACAATCAAAAAATAATATGAAATCAACAAATC
Found at i:222444 original size:20 final size:20
Alignment explanation
Indices: 222386--222452 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
222376 GAAACTTAAA
* *
222386 ATCGCAACGCGAAAATGAAT
1 ATCGCAATGCGAAAATGACT
*
222406 ATCACAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
222426 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
222446 ATCGCAA
1 ATCGCAA
222453 CGAGATAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:222548 original size:19 final size:19
Alignment explanation
Indices: 222496--222568 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
222486 CGCGATTATA
* *
222496 GTTTCACGTTGCAATTTTT
1 GTTTCACGTTGCGATTTTG
*
222515 GTTTCACTTTGCGATTTTG
1 GTTTCACGTTGCGATTTTG
* *
222534 GTTTCACGTTACGATTTTC
1 GTTTCACGTTGCGATTTTG
* *
222553 ATTTCTCGTTGCGATT
1 GTTTCACGTTGCGATT
222569 CTCTCGTTGT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.14, C:0.18, G:0.18, T:0.51
Consensus pattern (19 bp):
GTTTCACGTTGCGATTTTG
Found at i:222565 original size:38 final size:38
Alignment explanation
Indices: 222487--222568 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 38
222477 AAATCGCAAC
* ** *
222487 GCGATTATAGTTTCACGTTGCAATTTTTGTTTCACTTT
1 GCGATTATAGTTTCACGTTACAATTTTCATTTCACGTT
* * * *
222525 GCGATTTTGGTTTCACGTTACGATTTTCATTTCTCGTT
1 GCGATTATAGTTTCACGTTACAATTTTCATTTCACGTT
222563 GCGATT
1 GCGATT
222569 CTCTCGTTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.16, C:0.17, G:0.18, T:0.49
Consensus pattern (38 bp):
GCGATTATAGTTTCACGTTACAATTTTCATTTCACGTT
Found at i:222629 original size:21 final size:21
Alignment explanation
Indices: 222585--222629 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
222575 TTGTGATTCA
* *
222585 TTTCGCGTTGCGATAGTCATT
1 TTTCACGTTGCGATAGTCAGT
**
222606 TTTCACGTTGCGATTTTCAGT
1 TTTCACGTTGCGATAGTCAGT
222627 TTT
1 TTT
222630 GTATTGCGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.13, C:0.18, G:0.20, T:0.49
Consensus pattern (21 bp):
TTTCACGTTGCGATAGTCAGT
Found at i:222832 original size:94 final size:94
Alignment explanation
Indices: 222686--223159 Score: 772
Period size: 94 Copynumber: 5.1 Consensus size: 94
222676 ATGGATTGCA
* * * *
222686 TTAC-TTCAACCAAAAGATAAAACAAAGACAAATACTAACTTTAGAGTATTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
222750 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
222779 TTACTTTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
222844 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* * *
222873 TTACTTTCAACCAAAAGAAAAAACAAAGACAAATACTAACTTCATAGTGTTAAAGAATACACATT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
222938 TTAGCAGAATTGGCAGCAACCGAACAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
* *
222967 TTACTTTCAACCAAAAGACAAAACAAAGACAAATATTAACTTTACAGTGTTAAAGAATACACAGT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
* * *
223032 TTAGCAGAATTGGCAGCAAACAAATAAAT
66 TTAGCAGAATTGGCAGCAACCGAACAAAT
*
223061 TTAC-TTCAACCAAAAGACAAAACAAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAACAG
1 TTACTTTCAACCAAAAGACAAAAC-AAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAG
* * *
223125 TTTAGCAGTATTGTCAGCAACCGAATAAAT
65 TTTAGCAGAATTGGCAGCAACCGAACAAAT
223155 TTACT
1 TTACT
223160 AAGCAATCTA
Statistics
Matches: 357, Mismatches: 21, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
93 23 0.06
94 334 0.94
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.23
Consensus pattern (94 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGT
TTAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:224877 original size:20 final size:19
Alignment explanation
Indices: 224854--224895 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
224844 GCAACGAGAG
224854 AATGACTATCACAATGCGGA
1 AATGACTATCACAATGC-GA
*
224874 AATGACTATCGCAATGCGA
1 AATGACTATCACAATGCGA
224893 AAT
1 AAT
224896 TAAAATCGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (19 bp):
AATGACTATCACAATGCGA
Found at i:224903 original size:19 final size:19
Alignment explanation
Indices: 224881--224930 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
224871 GGAAATGACT
**
224881 ATCGCAATGCGAAATTAAA
1 ATCGCAATGCGAAACGAAA
* *
224900 ATCGCAACGCAAAACGAAA
1 ATCGCAATGCGAAACGAAA
224919 ATCGCAATGCGA
1 ATCGCAATGCGA
224931 TTTTGGTTTC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.18, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAACGAAA
Found at i:224965 original size:21 final size:20
Alignment explanation
Indices: 224937--225014 Score: 88
Period size: 20 Copynumber: 3.9 Consensus size: 20
224927 GCGATTTTGG
224937 TTTCTCGTTGCGATTTTCAT
1 TTTCTCGTTGCGATTTTCAT
**
224957 TTCTCTCGTTGCGATAGTCAT
1 TT-TCTCGTTGCGATTTTCAT
224978 TTTCGT-GTTGCGATTTTCAT
1 TTTC-TCGTTGCGATTTTCAT
*
224998 TTTCAT-GTTGCGCTTTT
1 TTTC-TCGTTGCGATTTT
225015 AAGTTTAGAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 31 0.62
21 19 0.38
ACGTcount: A:0.10, C:0.19, G:0.18, T:0.53
Consensus pattern (20 bp):
TTTCTCGTTGCGATTTTCAT
Found at i:225611 original size:20 final size:20
Alignment explanation
Indices: 225552--225677 Score: 110
Period size: 20 Copynumber: 6.2 Consensus size: 20
225542 TCACGTTATG
225552 ATTTACGGATACGCGTTGCGA
1 ATTTACGGATACGCGTTGC-A
* * *
225573 GTTTACGTAT-TGTCGTTGCA
1 ATTTACGGATACG-CGTTGCA
* *
225593 ATTTACGGATACGCATTGCG
1 ATTTACGGATACGCGTTGCA
225613 ATTTACGGATACGCGTTGCGA
1 ATTTACGGATACGCGTTGC-A
* * * * *
225634 TTTTACGTATTCTCGTTGCG
1 ATTTACGGATACGCGTTGCA
* *
225654 ATTTACAGATACGCGTTGCG
1 ATTTACGGATACGCGTTGCA
225674 ATTT
1 ATTT
225678 TCATATTTGC
Statistics
Matches: 82, Mismatches: 20, Indels: 7
0.75 0.18 0.06
Matches are distributed among these distances:
20 52 0.63
21 30 0.37
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
ATTTACGGATACGCGTTGCA
Found at i:225639 original size:41 final size:41
Alignment explanation
Indices: 225553--225678 Score: 148
Period size: 41 Copynumber: 3.1 Consensus size: 41
225543 CACGTTATGA
* * *
225553 TTTACGGATACGCGTTGCGAGTTTACGTAT-TGTCGTTGC-AA
1 TTTACGGATACGCGTTGCGA-TTTACGGATACG-CGTTGCGAT
*
225594 TTTACGGATACGCATTGCGATTTACGGATACGCGTTGCGAT
1 TTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGAT
* * * *
225635 TTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGCGAT
1 TTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGAT
225676 TTT
1 TTT
225679 CATATTTGCG
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 14 0.19
41 60 0.81
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (41 bp):
TTTACGGATACGCGTTGCGATTTACGGATACGCGTTGCGAT
Found at i:225650 original size:61 final size:61
Alignment explanation
Indices: 225551--225677 Score: 209
Period size: 61 Copynumber: 2.1 Consensus size: 61
225541 ATCACGTTAT
* *
225551 GATTTACGGATACGCGTTGCGAGTTTACGTATTGTCGTTGCAATTTACGGATACGCATTGC
1 GATTTACGGATACGCGTTGCGAGTTTACGTATTCTCGTTGCAATTTACAGATACGCATTGC
* * *
225612 GATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGC
1 GATTTACGGATACGCGTTGCGAGTTTACGTATTCTCGTTGCAATTTACAGATACGCATTGC
225673 GATTT
1 GATTT
225678 TCATATTTGC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.36
Consensus pattern (61 bp):
GATTTACGGATACGCGTTGCGAGTTTACGTATTCTCGTTGCAATTTACAGATACGCATTGC
Found at i:225689 original size:20 final size:20
Alignment explanation
Indices: 225625--225698 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
225615 TTACGGATAC
*
225625 GCGTTGCGATTTTACGTATTCT
1 GCGTTGCGATTTT-CATATT-T
* * **
225647 -CGTTGCGATTTACAGATAC
1 GCGTTGCGATTTTCATATTT
225666 GCGTTGCGATTTTCATATTT
1 GCGTTGCGATTTTCATATTT
225686 GCGTTGCGATTTT
1 GCGTTGCGATTTT
225699 TCATCGCAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
20 31 0.74
21 11 0.26
ACGTcount: A:0.16, C:0.18, G:0.23, T:0.43
Consensus pattern (20 bp):
GCGTTGCGATTTTCATATTT
Found at i:225690 original size:61 final size:61
Alignment explanation
Indices: 225551--225698 Score: 197
Period size: 61 Copynumber: 2.4 Consensus size: 61
225541 ATCACGTTAT
* * * *
225551 GATTTACGGATACGCGTTGCGAGTTTACGTATTGTCGTTGCAATTTACGGATACGCATTGC
1 GATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCAATTTACAGATACGCATTGC
* * *
225612 GATTTACGGATACGCGTTGCGATTTTACGTATTCTCGTTGCGATTTACAGATACGCGTTGC
1 GATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCAATTTACAGATACGCATTGC
* * **
225673 GATTTTCATATTTGCGTTGCGATTTT
1 GATTTACAGATACGCGTTGCGATTTT
225699 TCATCGCAAT
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 77 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.39
Consensus pattern (61 bp):
GATTTACAGATACGCGTTGCGATTTTACGTATTCTCGTTGCAATTTACAGATACGCATTGC
Found at i:225774 original size:41 final size:40
Alignment explanation
Indices: 225728--225836 Score: 137
Period size: 40 Copynumber: 2.7 Consensus size: 40
225718 TACTATCGCA
*
225728 TTGCGATTCTTCATAATCGCGTTACGATTCTGGGAACTGAT
1 TTGCGATTCTGCA-AATCGCGTTACGATTCTGGGAACTGAT
* * * *
225769 TTGCGATTCTGGAGATCGCGTTGCGATTTTGGGAACTGAT
1 TTGCGATTCTGCAAATCGCGTTACGATTCTGGGAACTGAT
* * *
225809 TTGCGATTCTGGAGATCGCGTTGCGATT
1 TTGCGATTCTGCAAATCGCGTTACGATT
225837 TTTATTTCGC
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 52 0.83
41 11 0.17
ACGTcount: A:0.18, C:0.17, G:0.28, T:0.36
Consensus pattern (40 bp):
TTGCGATTCTGCAAATCGCGTTACGATTCTGGGAACTGAT
Found at i:225777 original size:20 final size:20
Alignment explanation
Indices: 225752--225820 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
225742 AATCGCGTTA
225752 CGATTCTGGGAACTGATTTG
1 CGATTCTGGGAACTGATTTG
* **
225772 CGATTCTGGAGATC-GCGTTG
1 CGATTCTGG-GAACTGATTTG
*
225792 CGATTTTGGGAACTGATTTG
1 CGATTCTGGGAACTGATTTG
225812 CGATTCTGG
1 CGATTCTGG
225821 AGATCGCGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.08
20 33 0.85
21 3 0.08
ACGTcount: A:0.17, C:0.16, G:0.32, T:0.35
Consensus pattern (20 bp):
CGATTCTGGGAACTGATTTG
Found at i:225832 original size:20 final size:20
Alignment explanation
Indices: 225769--225836 Score: 84
Period size: 20 Copynumber: 3.4 Consensus size: 20
225759 GGGAACTGAT
225769 TTGCGATTCTGGAGATCGCG
1 TTGCGATTCTGGAGATCGCG
* * **
225789 TTGCGATTTTGG-GAACTGAT
1 TTGCGATTCTGGAGATC-GCG
225809 TTGCGATTCTGGAGATCGCG
1 TTGCGATTCTGGAGATCGCG
225829 TTGCGATT
1 TTGCGATT
225837 TTTATTTCGC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.08
20 32 0.84
21 3 0.08
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.35
Consensus pattern (20 bp):
TTGCGATTCTGGAGATCGCG
Found at i:225837 original size:40 final size:40
Alignment explanation
Indices: 225743--225838 Score: 174
Period size: 40 Copynumber: 2.4 Consensus size: 40
225733 ATTCTTCATA
* *
225743 ATCGCGTTACGATTCTGGGAACTGATTTGCGATTCTGGAG
1 ATCGCGTTGCGATTTTGGGAACTGATTTGCGATTCTGGAG
225783 ATCGCGTTGCGATTTTGGGAACTGATTTGCGATTCTGGAG
1 ATCGCGTTGCGATTTTGGGAACTGATTTGCGATTCTGGAG
225823 ATCGCGTTGCGATTTT
1 ATCGCGTTGCGATTTT
225839 TATTTCGCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (40 bp):
ATCGCGTTGCGATTTTGGGAACTGATTTGCGATTCTGGAG
Found at i:235136 original size:229 final size:227
Alignment explanation
Indices: 234731--235179 Score: 785
Period size: 229 Copynumber: 2.0 Consensus size: 227
234721 GTAAATTATC
* * *
234731 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
234796 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
234861 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATTT
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-TT
234925 GAAACATAAATTACATAACTTTCAAAAAAGTATA
195 GAAACATAAATTACATAACTTT-AAAAAAGTATA
*
234959 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
235024 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
*
235088 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
235153 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
235180 GCAGTTTTAA
Statistics
Matches: 211, Mismatches: 7, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
228 44 0.21
229 164 0.78
230 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:235274 original size:20 final size:20
Alignment explanation
Indices: 235249--235287 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
235239 ATACCAGGTA
235249 AAAATGATAAAACCGGTAAC
1 AAAATGATAAAACCGGTAAC
235269 AAAATGATAAAACCGGTAA
1 AAAATGATAAAACCGGTAA
235288 ATTTAAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.13, G:0.15, T:0.15
Consensus pattern (20 bp):
AAAATGATAAAACCGGTAAC
Found at i:235432 original size:20 final size:19
Alignment explanation
Indices: 235409--235455 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
235399 CGATATAACA
*
235409 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
235429 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
235449 GGTAAAA
1 GGTAAAA
235456 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:237799 original size:33 final size:33
Alignment explanation
Indices: 237757--237822 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
237747 AAATAGATGG
*
237757 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
237790 AGTGGTGAAAGAAGTTTTGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
237823 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:239656 original size:19 final size:19
Alignment explanation
Indices: 239612--239655 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
239602 AATGTCGAGT
239612 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
239631 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
239650 T-ATTTT
1 TAATTTT
239656 TTTATGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:240333 original size:199 final size:199
Alignment explanation
Indices: 239738--241536 Score: 3153
Period size: 199 Copynumber: 9.1 Consensus size: 199
239728 TTAAGGGTCA
*
239738 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
239803 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
239868 GTAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
239932 TAATG
195 TAATG
*
239937 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
240001 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
240066 TAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
240131 AATG
196 AATG
240135 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
240200 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
240265 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT-AA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
240329 TAATG
195 TAATG
*
240334 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAT
1 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAATTAAAAACAAGGTGCAC
*
240399 CAATAAAGTCTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
240464 GTAATCTGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
240528 TAATG
195 TAATG
*
240533 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
240598 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
240663 TAATCTGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
240728 AATG
196 AATG
*
240732 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
240797 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
240862 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
240927 TAATG
195 TAATG
240932 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
* * *
240997 AATAAAGTGTCGATCC------CAAAA---TC-AT--C--GA--A-C---CCAAAA-GTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
241041 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
241106 AATG
196 AATG
*
241110 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
241175 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* * *
241240 TAATATGTAATTTTTCAATCTAACCGGTATAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
241305 AATG
196 AATG
* *
241309 TGTCGACACTAATATAGTTTGTTTCGATATTTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
241374 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
241439 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
241504 AATG
196 AATG
*
241508 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
241537 CTAATTTAAA
Statistics
Matches: 1535, Mismatches: 37, Indels: 56
0.94 0.02 0.03
Matches are distributed among these distances:
178 155 0.10
179 5 0.00
182 1 0.00
183 1 0.00
184 4 0.00
185 1 0.00
187 3 0.00
188 2 0.00
189 2 0.00
190 3 0.00
192 1 0.00
193 4 0.00
194 1 0.00
195 1 0.00
197 57 0.04
198 301 0.20
199 647 0.42
200 346 0.23
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATG
Found at i:243017 original size:18 final size:18
Alignment explanation
Indices: 242994--243061 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
242984 ATCGGTCGCA
242994 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
243012 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
243033 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
243054 GAAGATGA
1 GAAGATGA
243062 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:243018 original size:6 final size:6
Alignment explanation
Indices: 242994--243091 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
242984 ATCGGTCGCA
* * * * * *
242994 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
243042 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
243090 GA
1 GA
243092 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:243029 original size:3 final size:3
Alignment explanation
Indices: 243009--243095 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
242999 TGAAGCTGAC
* * * * * ** *
243009 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
243057 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
243096 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:243044 original size:42 final size:42
Alignment explanation
Indices: 242997--243087 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
242987 GGTCGCAGAA
*
242997 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
243039 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
243081 GATGAAG
1 GATGAAG
243088 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:243095 original size:18 final size:18
Alignment explanation
Indices: 242994--243091 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
242984 ATCGGTCGCA
* *
242994 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
243012 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
243030 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
243048 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
243066 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
243084 GAAGATGA
1 GAAGATGA
243092 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:244872 original size:184 final size:184
Alignment explanation
Indices: 244563--245234 Score: 1263
Period size: 184 Copynumber: 3.7 Consensus size: 184
244553 CTTTCAACAT
** *
244563 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
244628 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
244693 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
* *
244747 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCCAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
244812 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
244877 AATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
244931 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
244996 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
245061 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
245115 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
*
245180 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
245235 CCATTTAAAA
Statistics
Matches: 475, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 475 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:247824 original size:23 final size:23
Alignment explanation
Indices: 247793--247856 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
247783 ATAGGTAAAC
*
247793 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
247816 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
247839 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
247857 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:247863 original size:23 final size:23
Alignment explanation
Indices: 247793--247865 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
247783 ATAGGTAAAC
* **
247793 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
247816 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
247839 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
247862 ATAT
1 ATAT
247866 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:248252 original size:23 final size:23
Alignment explanation
Indices: 248221--248283 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
248211 ATAGGTAAAC
*
248221 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
248244 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
248267 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
248284 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:248291 original size:23 final size:23
Alignment explanation
Indices: 248221--248293 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
248211 ATAGGTAAAC
* * **
248221 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
248244 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
248267 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
248290 ATAT
1 ATAT
248294 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:248593 original size:428 final size:428
Alignment explanation
Indices: 247694--248711 Score: 1961
Period size: 428 Copynumber: 2.4 Consensus size: 428
247684 AATTCGCAGT
247694 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
247759 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
*
247824 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
247889 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
247954 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
248019 AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAAT
326 AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAAT
248084 GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
248122 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
248187 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
248252 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
*
248317 AAAAGTGTCCATACTTTTTTCACTGTGTAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
248382 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG--TATA-TATT
248446 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
323 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
248511 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
388 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
248552 ACACTGTT-AAAAAATTGAAACATAAATTACATAAG-TTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
248615 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
248680 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
248712 TCTATCTCGC
Statistics
Matches: 584, Mismatches: 3, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
427 14 0.02
428 421 0.72
429 31 0.05
430 118 0.20
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (428 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAAT
GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:248712 original size:23 final size:23
Alignment explanation
Indices: 248649--248713 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
248639 ATAGGTAAAC
* *
248649 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
248672 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
248695 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
248714 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:248938 original size:18 final size:18
Alignment explanation
Indices: 248917--248953 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
248907 GTAATTGGAG
248917 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
248935 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
248953 T
1 T
248954 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:248961 original size:24 final size:24
Alignment explanation
Indices: 248909--248955 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
248899 TTTCATATGT
* *
248909 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
248933 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
248956 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:250397 original size:18 final size:18
Alignment explanation
Indices: 250370--250412 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
250360 AAGACATCTG
*
250370 CAATCTTCACATATATCA
1 CAATCATCACATATATCA
250388 CAATCATCACATATATCA
1 CAATCATCACATATATCA
250406 CAATCAT
1 CAATCAT
250413 TACCAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (18 bp):
CAATCATCACATATATCA
Found at i:252732 original size:2 final size:2
Alignment explanation
Indices: 252725--252752 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
252715 AACATAGATT
252725 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
252753 AAAGGATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:253771 original size:37 final size:37
Alignment explanation
Indices: 253721--253796 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
253711 GAGGTTGTTT
253721 TGGGTTCCATGCCTAACTTCCCATGAAGGCAGCATTG
1 TGGGTTCCATGCCTAACTTCCCATGAAGGCAGCATTG
253758 TGGGTTCCATGCCTAACTTCCCATGAAGGCAGCATTG
1 TGGGTTCCATGCCTAACTTCCCATGAAGGCAGCATTG
253795 TG
1 TG
253797 AGACCCTCTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (37 bp):
TGGGTTCCATGCCTAACTTCCCATGAAGGCAGCATTG
Found at i:255667 original size:3 final size:3
Alignment explanation
Indices: 255659--255692 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
255649 CCTTTTACCT
255659 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
255693 GCGGGTTTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:257390 original size:2 final size:2
Alignment explanation
Indices: 257383--257409 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
257373 TATGTTTATG
257383 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 A
257410 AAACAACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:263749 original size:30 final size:30
Alignment explanation
Indices: 263713--263789 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 30
263703 TATCAACATA
* * *
263713 TGAATGTGTTCTATGTGAAAGTGATTTACG
1 TGAATGTATTCTATGTGAAAATGATCTACG
* * *
263743 TGAATGTATTCTACGTGAAAATGCTCTATG
1 TGAATGTATTCTATGTGAAAATGATCTACG
*
263773 TGAAAGTATTCTATGTG
1 TGAATGTATTCTATGTG
263790 GATAAAAGAC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (30 bp):
TGAATGTATTCTATGTGAAAATGATCTACG
Found at i:263786 original size:15 final size:15
Alignment explanation
Indices: 263721--263789 Score: 68
Period size: 15 Copynumber: 4.6 Consensus size: 15
263711 TATGAATGTG
263721 TTCTATGTGAAAGTGA
1 TTCTATGTGAAAGT-A
* *
263737 TT-TACGTGAATGTA
1 TTCTATGTGAAAGTA
* * *
263751 TTCTACGTGAAAATG
1 TTCTATGTGAAAGTA
*
263766 CTCTATGTGAAAGTA
1 TTCTATGTGAAAGTA
263781 TTCTATGTG
1 TTCTATGTG
263790 GATAAAAGAC
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
14 3 0.07
15 37 0.88
16 2 0.05
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (15 bp):
TTCTATGTGAAAGTA
Found at i:263952 original size:24 final size:25
Alignment explanation
Indices: 263907--263971 Score: 91
Period size: 24 Copynumber: 2.7 Consensus size: 25
263897 TACGCGGTGT
263907 TTCGGGACAAATTTCT-TCATGGTCC
1 TTCGGGACAAA-TTCTATCATGGTCC
*
263932 TTCGGAACAAATTCTAT-ATGGTCC
1 TTCGGGACAAATTCTATCATGGTCC
263956 TTCGGGACAAA-TCTAT
1 TTCGGGACAAATTCTAT
263972 GTGGCACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
23 5 0.14
24 21 0.57
25 11 0.30
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (25 bp):
TTCGGGACAAATTCTATCATGGTCC
Found at i:264001 original size:25 final size:24
Alignment explanation
Indices: 263963--264016 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
263953 TCCTTCGGGA
* *
263963 CAAA-TCTATGTGGCACTTTGGTG
1 CAAATTCTACGTGGCACTATGGTG
263986 CATAATTCTACGTGGCACTATGGTG
1 CA-AATTCTACGTGGCACTATGGTG
264011 CAAATT
1 CAAATT
264017 ATATGAGCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 6 0.22
25 19 0.70
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (24 bp):
CAAATTCTACGTGGCACTATGGTG
Found at i:270748 original size:21 final size:21
Alignment explanation
Indices: 270723--270802 Score: 99
Period size: 21 Copynumber: 3.8 Consensus size: 21
270713 ATTGTCTCGT
270723 ATGACCACATATATGTTCCAA
1 ATGACCACATATATGTTCCAA
*
270744 ATGACCAAATATATG-TCCAAGA
1 ATGACCACATATATGTTCC-A-A
*
270766 ATGACCTCATATATGTTCCAA
1 ATGACCACATATATGTTCCAA
* *
270787 AGGATCACATATATGT
1 ATGACCACATATATGT
270803 CCCGAAGGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
20 3 0.06
21 29 0.58
22 15 0.30
23 3 0.06
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (21 bp):
ATGACCACATATATGTTCCAA
Found at i:270784 original size:43 final size:43
Alignment explanation
Indices: 270723--270804 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
270713 ATTGTCTCGT
*
270723 ATGACCACATATATGTTCCAAATGACCAAATATATGTCCAAGA
1 ATGACCACATATATGTTCCAAAGGACCAAATATATGTCCAAGA
* * *
270766 ATGACCTCATATATGTTCCAAAGGATCACATATATGTCC
1 ATGACCACATATATGTTCCAAAGGACCAAATATATGTCC
270805 CGAAGGACCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (43 bp):
ATGACCACATATATGTTCCAAAGGACCAAATATATGTCCAAGA
Found at i:270810 original size:21 final size:21
Alignment explanation
Indices: 270671--270815 Score: 92
Period size: 21 Copynumber: 6.8 Consensus size: 21
270661 CCATATAAAT
* *
270671 TGTCGCAAATGACCACATATA
1 TGTCCCAAAGGACCACATATA
** * *
270692 TGTCCCTTAGGACTACATAGAA
1 TGTCCCAAAGGACCACATA-TA
* ** *
270714 TTGTCTCGTATGACCACATATA
1 -TGTCCCAAAGGACCACATATA
* * *
270736 TGTTCCAAATGACCAAATATA
1 TGTCCCAAAGGACCACATATA
* * *
270757 TGTCCAAGAATGACCTCATATA
1 TGTCCCA-AAGGACCACATATA
* *
270779 TGTTCCAAAGGATCACATATA
1 TGTCCCAAAGGACCACATATA
*
270800 TGTCCCGAAGGACCAC
1 TGTCCCAAAGGACCAC
270816 GTAGAACCAT
Statistics
Matches: 93, Mismatches: 28, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
21 59 0.63
22 19 0.20
23 15 0.16
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (21 bp):
TGTCCCAAAGGACCACATATA
Found at i:273750 original size:583 final size:583
Alignment explanation
Indices: 272644--273802 Score: 1746
Period size: 583 Copynumber: 2.0 Consensus size: 583
272634 TTTCGACCTC
* * *
272644 AGTCTAGATCTGAAACAGATACGTCCTCAAGTAGAGGATCAAACCCATTGAAAGTTAAGCAGATT
1 AGTCTAGATCTGAAACAGATACATCCTCAAGTAGAGGATCAAACCCATTGAAAGTTAAGAAGACT
* * * *
272709 TAATCTATTGAATCAAGAGCTAAAATACCAAGTGAATGTCAACATTGTGGCAAAAATCATAGTGG
66 CAATCTACTGAATCAAGAGCTAAAATACCAAGTCAATGTCAACATTGTGGAAAAAATCATAGTGG
* * *
272774 CATATGTCGAATGGTCTTTGAAGCTTGTTTCAGATGTAAGGACACTGGACATTTTATCCGGGATT
131 CATATATCGAATGGTCTTTGAAGCATGTTTCAGATGTAAGGACACTAGACATTTTATCCGGGATT
* * *
272839 ACCCATTGATGACTGGAGAGCCTGCACAGTCCGAGAGATCTGCTAATGTACCTTAGAGAGGTAGA
196 ACCCATTGATGACTGGAGAGCCTGCACAGTCCGAGAGATCTACTAATGTACCTCAGAGAGATAGA
* * * * *
272904 GGACAAGGCAGATGAAGAAATTAATCTGAGTCGTCCACTCAACCTAAAGTGCGCTCGACTACTTG
261 GGACAAGGCAGAGGAAGAAATCAATCTAAGTCGGCCACTCAACCTAAAGTGCACTCGACTACTTG
** * * * * *
272969 GGTCTACAATTGTAAGACTAATGAACATTATGATGATCCGGAAATCATTGCATGTACTTTACAGT
326 GGTCTACAACCGTAAGACTAATGAACATCATGAAGATCCGAAAATCATTGAAGGTACTTTACAGT
*
273034 TAGTAGATAAATTTGTTTTGGTTTTGATCGACCCCGGATCAACTTATTCTTATATTAGTAGTAAA
391 TAGTAGATAAACTTGTTTTGGTTTTGATCGACCCCGGATCAACTTATTCTTATATTAGTAGTAAA
* * **
273099 TTGGTGAAAGAATTAAAACTCCAATTAGAAGCTATAAGCAGTGATGTGATCGTGACTAAGTCGTT
456 TTGGTGAAAGAATTAAAACTCCAATTAGAAACTATAAGCAATGATGTGATCGTGACTAACCCGTT
*
273164 AGGGCATAGTGCTCGGGTGAATGAATTATGTCGAGGGTGTC-CTATAAGGATTCAGGGTTTTCA
521 AGGGCATAGTGCTCGGGTGAATGAATTATATCGAGGGTGTCTC-ATAAGGATTCAGGGTTTTCA
* * * ** *
273227 AGTCTAGATTTGAAACAGATGCATCTTCAAGTAGAGGATCAAACCTGTTGAAAGTTAAGAATACT
1 AGTCTAGATCTGAAACAGATACATCCTCAAGTAGAGGATCAAACCCATTGAAAGTTAAGAAGACT
* * *
273292 CAATCTACTGAATCATGAGCTAGAATACCAAGTCAATGTCAGCATTGTGGAAAAAATCATAGTGG
66 CAATCTACTGAATCAAGAGCTAAAATACCAAGTCAATGTCAACATTGTGGAAAAAATCATAGTGG
** * *
273357 TGTATATCGAATGGTCTTTGGAGCATGTTTCAGATGTGAGGACACTAGACATTTTATCCGGGATT
131 CATATATCGAATGGTCTTTGAAGCATGTTTCAGATGTAAGGACACTAGACATTTTATCCGGGATT
* * *
273422 ACCCATTGATGACTGGAGAGCCTGCACAGTCTGAGAGATCTACTATTGTACCTCGGAGAGATAGA
196 ACCCATTGATGACTGGAGAGCCTGCACAGTCCGAGAGATCTACTAATGTACCTCAGAGAGATAGA
* * *
273487 GGACAAGGTATAGGAAGAAATCAATCTAAGTCGGCCACTCAACCTGAAGTGCACTCGACTACTTG
261 GGACAAGGCAGAGGAAGAAATCAATCTAAGTCGGCCACTCAACCTAAAGTGCACTCGACTACTTG
* * *
273552 GGTCTATAACCGTAAGACTAATGAACATCGTGAAGATCCGAAAATCATTGAAGGTACTTTCCAGT
326 GGTCTACAACCGTAAGACTAATGAACATCATGAAGATCCGAAAATCATTGAAGGTACTTTACAGT
* *
273617 TAGTAGATAAACTTGTTTTGGTTTTGATTGACCCGGGATCAACTTATTCTTATATTAGTAGTAAA
391 TAGTAGATAAACTTGTTTTGGTTTTGATCGACCCCGGATCAACTTATTCTTATATTAGTAGTAAA
* * *
273682 TTGGTGAGAGAATTGAAAA-TCCAGTTAGAAACTATAAGTAATGATGTGATCGTGACTAACCCGT
456 TTGGTGAAAGAATT-AAAACTCCAATTAGAAACTATAAGCAATGATGTGATCGTGACTAACCCGT
* *
273746 TAGGGCATAGTGCTTGGGTGAATGAATTATATCGAGGGTGTTTCATAAGGATTCAGG
520 TAGGGCATAGTGCTCGGGTGAATGAATTATATCGAGGGTGTCTCATAAGGATTCAGG
273803 AAATTGAATT
Statistics
Matches: 514, Mismatches: 60, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
583 509 0.99
584 5 0.01
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (583 bp):
AGTCTAGATCTGAAACAGATACATCCTCAAGTAGAGGATCAAACCCATTGAAAGTTAAGAAGACT
CAATCTACTGAATCAAGAGCTAAAATACCAAGTCAATGTCAACATTGTGGAAAAAATCATAGTGG
CATATATCGAATGGTCTTTGAAGCATGTTTCAGATGTAAGGACACTAGACATTTTATCCGGGATT
ACCCATTGATGACTGGAGAGCCTGCACAGTCCGAGAGATCTACTAATGTACCTCAGAGAGATAGA
GGACAAGGCAGAGGAAGAAATCAATCTAAGTCGGCCACTCAACCTAAAGTGCACTCGACTACTTG
GGTCTACAACCGTAAGACTAATGAACATCATGAAGATCCGAAAATCATTGAAGGTACTTTACAGT
TAGTAGATAAACTTGTTTTGGTTTTGATCGACCCCGGATCAACTTATTCTTATATTAGTAGTAAA
TTGGTGAAAGAATTAAAACTCCAATTAGAAACTATAAGCAATGATGTGATCGTGACTAACCCGTT
AGGGCATAGTGCTCGGGTGAATGAATTATATCGAGGGTGTCTCATAAGGATTCAGGGTTTTCA
Found at i:278224 original size:15 final size:15
Alignment explanation
Indices: 278201--278277 Score: 82
Period size: 15 Copynumber: 5.1 Consensus size: 15
278191 TATTAACATA
*
278201 TGAATGTGTTCTATG
1 TGAAAGTGTTCTATG
* *
278216 TGAAAGTGTTTTATA
1 TGAAAGTGTTCTATG
* *
278231 TGAATGTGTTCTACG
1 TGAAAGTGTTCTATG
* *
278246 TGAAAATGCTCTATG
1 TGAAAGTGTTCTATG
*
278261 CGAAAGTGTTCTATG
1 TGAAAGTGTTCTATG
278276 TG
1 TG
278278 GATAAAAGAC
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.26, C:0.09, G:0.25, T:0.40
Consensus pattern (15 bp):
TGAAAGTGTTCTATG
Found at i:278232 original size:30 final size:30
Alignment explanation
Indices: 278198--278277 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 30
278188 TTTTATTAAC
* * *
278198 ATATGAATGTGTTCTATGTGAAAGTGTTTT
1 ATATGAATGTGTTCTATGTGAAAATGCTCT
*
278228 ATATGAATGTGTTCTACGTGAAAATGCTCT
1 ATATGAATGTGTTCTATGTGAAAATGCTCT
** *
278258 ATGCGAAAGTGTTCTATGTG
1 ATATGAATGTGTTCTATGTG
278278 GATAAAAGAC
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.28, C:0.09, G:0.24, T:0.40
Consensus pattern (30 bp):
ATATGAATGTGTTCTATGTGAAAATGCTCT
Found at i:278411 original size:25 final size:24
Alignment explanation
Indices: 278382--278445 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
278372 GAGTCGAGGG
*
278382 TTCTATGCGGTCCTTCAAGAA-AAA
1 TTCTACGCGGTCCTTC-AGAACAAA
* * *
278406 TTTCTACGTGGTCTTTCGGAACAAA
1 -TTCTACGCGGTCCTTCAGAACAAA
278431 TTCTACGCGGTCCTT
1 TTCTACGCGGTCCTT
278446 TGGGAGACAC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCAGAACAAA
Found at i:278446 original size:25 final size:26
Alignment explanation
Indices: 278382--278446 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
278372 GAGTCGAGGG
*
278382 TTCTATGCGGTCC-TTCAAGAAAAAT
1 TTCTACGCGGTCCTTTCAAGAAAAAT
* *
278407 TTCTACGTGGT-CTTTC-GGAACAAA-
1 TTCTACGCGGTCCTTTCAAGAA-AAAT
278431 TTCTACGCGGTCCTTT
1 TTCTACGCGGTCCTTT
278447 GGGAGACACT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 14 0.42
25 19 0.58
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.35
Consensus pattern (26 bp):
TTCTACGCGGTCCTTTCAAGAAAAAT
Found at i:281323 original size:39 final size:39
Alignment explanation
Indices: 281269--281354 Score: 172
Period size: 39 Copynumber: 2.2 Consensus size: 39
281259 AAGAACAAAT
281269 TAGTGGATTTGTTGGAAAATCCTAAATGATGAGCTTAGG
1 TAGTGGATTTGTTGGAAAATCCTAAATGATGAGCTTAGG
281308 TAGTGGATTTGTTGGAAAATCCTAAATGATGAGCTTAGG
1 TAGTGGATTTGTTGGAAAATCCTAAATGATGAGCTTAGG
281347 TAGTGGAT
1 TAGTGGAT
281355 GTATACTTTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.30, C:0.07, G:0.29, T:0.34
Consensus pattern (39 bp):
TAGTGGATTTGTTGGAAAATCCTAAATGATGAGCTTAGG
Found at i:281691 original size:16 final size:17
Alignment explanation
Indices: 281658--281692 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
281648 AGGGGGAGTT
*
281658 TAGTTTTTTTTTATAAA
1 TAGTTTTTTTTCATAAA
281675 TAGTTTTTTTTCA-AAA
1 TAGTTTTTTTTCATAAA
281691 TA
1 TA
281693 TATTTTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (17 bp):
TAGTTTTTTTTCATAAA
Found at i:291737 original size:44 final size:42
Alignment explanation
Indices: 291646--291741 Score: 113
Period size: 44 Copynumber: 2.2 Consensus size: 42
291636 TTTGTGCTTC
* * *
291646 ATGCAACGATACACCTAACAGTGCATCGATGCATCCTTGAAT
1 ATGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAAT
* *
291688 GTGCATCGATACACCATGA-AGATGCACCGATGCACGCCTTGAAT
1 ATGCATCGATACACC-TAACAG-TGCACCGATGCA-GCCTTGAAT
291732 ATGCATCGAT
1 ATGCATCGAT
291742 GCACAAGGCC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 15 0.33
43 13 0.29
44 17 0.38
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (42 bp):
ATGCATCGATACACCTAACAGTGCACCGATGCAGCCTTGAAT
Found at i:293981 original size:13 final size:13
Alignment explanation
Indices: 293963--294010 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
293953 TGCGTCATAA
293963 ATTTATGACGCGT
1 ATTTATGACGCGT
*
293976 ATTTATGACAC-T
1 ATTTATGACGCGT
*
293988 CATTTATGACGCGC
1 -ATTTATGACGCGT
294002 ATTTATGAC
1 ATTTATGAC
294011 TTACATTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
12 1 0.03
13 29 0.97
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (13 bp):
ATTTATGACGCGT
Found at i:298763 original size:28 final size:28
Alignment explanation
Indices: 298731--298793 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
298721 TAATCGAATA
298731 TCAAATTATTACTCCAAGTCTTTCAAGT
1 TCAAATTATTACTCCAAGTCTTTCAAGT
298759 TCAAATTATTACTCCAAGTCTTTCAAGT
1 TCAAATTATTACTCCAAGTCTTTCAAGT
*
298787 TAAAATT
1 TCAAATT
298794 CAAACCTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (28 bp):
TCAAATTATTACTCCAAGTCTTTCAAGT
Found at i:299048 original size:17 final size:17
Alignment explanation
Indices: 299020--299068 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 17
299010 TATTTTGAAA
299020 CATCGAATGCACTTAATG
1 CATCG-ATGCACTTAATG
*
299038 CATCGATGCACTCTTAGTG
1 CATCGATGCA--CTTAATG
299057 CATCGATGCACT
1 CATCGATGCACT
299069 AAGGGTCCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 7 0.25
18 5 0.18
19 16 0.57
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (17 bp):
CATCGATGCACTTAATG
Found at i:299058 original size:19 final size:19
Alignment explanation
Indices: 299031--299068 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
299021 ATCGAATGCA
299031 CTTAATGCATCGATGCACT
1 CTTAATGCATCGATGCACT
*
299050 CTTAGTGCATCGATGCACT
1 CTTAATGCATCGATGCACT
299069 AAGGGTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (19 bp):
CTTAATGCATCGATGCACT
Found at i:305696 original size:2 final size:2
Alignment explanation
Indices: 305689--305713 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
305679 TCAATCTACA
305689 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 A
305714 ATTTATGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:305906 original size:13 final size:13
Alignment explanation
Indices: 305870--305908 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
305860 AATGACGCTC
305870 AATGCGCGTCATA
1 AATGCGCGTCATA
* *
305883 AATGTGTGTCATA
1 AATGCGCGTCATA
305896 AATGCGCGTCATA
1 AATGCGCGTCATA
305909 GATTTATGAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:312744 original size:64 final size:63
Alignment explanation
Indices: 312644--312766 Score: 165
Period size: 64 Copynumber: 1.9 Consensus size: 63
312634 TTAAATAAAT
*
312644 AAACATCGAATGCAATGAGTGTATCAATACACAGGTAGTGTATCGATGCACCACCTTAAGATGA
1 AAACATCGAATGCAATGAGTGTACCAATACACAGGTAGTGTATCGATGCA-CACCTTAAGATGA
* ** * * * *
312708 AAACATCGAATGTAATTTGTGTACCGATGCATAGGTAGTGTATCGATGCACACGTTAAG
1 AAACATCGAATGCAATGAGTGTACCAATACACAGGTAGTGTATCGATGCACACCTTAAG
312767 GAAATGTACC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
63 8 0.16
64 43 0.84
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (63 bp):
AAACATCGAATGCAATGAGTGTACCAATACACAGGTAGTGTATCGATGCACACCTTAAGATGA
Found at i:313727 original size:31 final size:31
Alignment explanation
Indices: 313689--313870 Score: 283
Period size: 31 Copynumber: 5.9 Consensus size: 31
313679 GAGTCGAGGG
* *
313689 TTACCTATGTTCTGCAGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
313720 TTACCTATGTTTTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
313751 TTACCTATGTTTTTCGAGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
313782 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* * *
313813 TTACCTATGTTTTTCGGGACATATGAACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
313844 TTACCTATGTTCTTCGGAACATATGGA
1 TTACCTATGTTCTTCGGGACATATGGA
313871 TTGGTTCTTC
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 139 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.39
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:316382 original size:30 final size:30
Alignment explanation
Indices: 316348--316404 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
316338 CCTGGTACAG
*
316348 GAGATTTGATGCCTGGAATGCCGGGAACTC
1 GAGATTTGATGCCGGGAATGCCGGGAACTC
316378 GAGATTTGATGCCGGGAATGCCGGGAA
1 GAGATTTGATGCCGGGAATGCCGGGAA
316405 TGTACAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.18, G:0.37, T:0.21
Consensus pattern (30 bp):
GAGATTTGATGCCGGGAATGCCGGGAACTC
Found at i:322441 original size:36 final size:36
Alignment explanation
Indices: 322389--322460 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
322379 CGAGACAGAT
*
322389 CGTGAGTTATTAAAGATTGACTTGATAAATATTCGA
1 CGTGAGTTATTAAAGATTGACTTGAAAAATATTCGA
*
322425 CGTGAGTTATTCAAGATTGACTTGAAAAATATTCGA
1 CGTGAGTTATTAAAGATTGACTTGAAAAATATTCGA
322461 TTCGAATGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (36 bp):
CGTGAGTTATTAAAGATTGACTTGAAAAATATTCGA
Found at i:327069 original size:24 final size:25
Alignment explanation
Indices: 327020--327069 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 25
327010 TCTCCTTTTA
*
327020 AAAAAATCAAAGTTTTCAAAATTTT
1 AAAAAATCAAAGTTTTCAAAAATTT
*
327045 AAAAAAT-AAA-TTTTGAAAACATTT
1 AAAAAATCAAAGTTTTCAAAA-ATTT
327069 A
1 A
327070 TTTTAATCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 8 0.36
24 7 0.32
25 7 0.32
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (25 bp):
AAAAAATCAAAGTTTTCAAAAATTT
Found at i:333050 original size:4 final size:4
Alignment explanation
Indices: 333033--333095 Score: 81
Period size: 4 Copynumber: 15.8 Consensus size: 4
333023 GACTGGTATT
* * * * *
333033 ATAC ATAA ATAC ATAC ATAC AGAC ATAC AGAC ATAC AGAC ATAC AGAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
333081 ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATA
333096 TATCTATATT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.52, C:0.22, G:0.06, T:0.19
Consensus pattern (4 bp):
ATAC
Found at i:339697 original size:4 final size:4
Alignment explanation
Indices: 339688--339713 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
339678 CCGACACGTT
339688 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
339714 ACAATACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:340948 original size:36 final size:36
Alignment explanation
Indices: 340901--340972 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
340891 TTTCGATCAT
*
340901 CATCAACTATGTTTAAGTTGTAATAACATTGAAAGC
1 CATCAACTATGTTTAAGTTGTAATAACATAGAAAGC
340937 CATCAACTATGTTTAAGTTGTAATAACATAGAAAGC
1 CATCAACTATGTTTAAGTTGTAATAACATAGAAAGC
340973 ATTCTTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (36 bp):
CATCAACTATGTTTAAGTTGTAATAACATAGAAAGC
Found at i:348247 original size:3 final size:3
Alignment explanation
Indices: 348239--348279 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
348229 ACAAAATTTG
*
348239 TAA TAA TAA TAT TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
348280 ATTAAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:348264 original size:20 final size:20
Alignment explanation
Indices: 348239--348276 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
348229 ACAAAATTTG
*
348239 TAATAATAATATTAATAAAA
1 TAATAATAATAATAATAAAA
348259 TAATAATAATAATAATAA
1 TAATAATAATAATAATAA
348277 TAAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAATAATAATAATAATAAAA
Found at i:348738 original size:83 final size:83
Alignment explanation
Indices: 348597--348772 Score: 264
Period size: 83 Copynumber: 2.1 Consensus size: 83
348587 ACTCGGTTCC
348597 TACGTGATGAGGACGGCTGGTTATCTAGGCGTGACACGGCTCATACGCGATGAAGAGATCTGGTC
1 TACGTGATGAGGACGGCTGGTTATCTAGGCGTGACACGGCTCATACGCGATGAAGAGATCTGGTC
* *
348662 GGGGGATGACACAGCTCA
66 AGGAGATGACACAGCTCA
* * * * *
348680 TACGTGATGAGGACGGCTTGTTATCTATGG-TTGACACGGCTCCTACGTGATGAGGAGATCTGGT
1 TACGTGATGAGGACGGCTGGTTATCTA-GGCGTGACACGGCTCATACGCGATGAAGAGATCTGGT
*
348744 CAGGAGATGACACGGCTCA
65 CAGGAGATGACACAGCTCA
348763 TACGTGATGA
1 TACGTGATGA
348773 AGAGTTCTGG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
83 82 0.98
84 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.34, T:0.23
Consensus pattern (83 bp):
TACGTGATGAGGACGGCTGGTTATCTAGGCGTGACACGGCTCATACGCGATGAAGAGATCTGGTC
AGGAGATGACACAGCTCA
Found at i:348767 original size:40 final size:39
Alignment explanation
Indices: 348628--348782 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 39
348618 TATCTAGGCG
* *
348628 TGACACGGCTCATACGCGATGAAGAGATCTGGTCGGGGGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTC-AGGGA
* * * * * *
348668 TGACACAGCTCATACGTGATGAGGACG-GCTTGTTATCTATGGT
1 TGACACGGCTCATACGTGATGAAGA-GATC-TG--GTC-AGGGA
* *
348711 TGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGGAGA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGG-GA
*
348751 TGACACGGCTCATACGTGATGAAGAGTTCTGG
1 TGACACGGCTCATACGTGATGAAGAGATCTGG
348783 CCATCTTTAG
Statistics
Matches: 91, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
39 2 0.02
40 55 0.60
41 3 0.03
42 3 0.03
43 28 0.31
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (39 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGGGA
Found at i:349220 original size:91 final size:93
Alignment explanation
Indices: 349016--349229 Score: 263
Period size: 91 Copynumber: 2.3 Consensus size: 93
349006 CTCAAAGATT
* *
349016 TTTCAAAAGGAACAGACTCAAAGATTTTTCTCAAGAAAAACTGTCTCAAGAGAGACAAAACTTTG
1 TTTCAAAAGAAACA-ACTCAAAGATTTTTCTCAAG-AAAACTGTCTCAAGAGAAACAAAACTTTG
* *
349081 TTTCAAAAGAAACAAACTCAAAAATTTTGG
64 GTTCAAAAGAAACAAACTCAAAAATTTTGA
** * * *
349111 TTTCAAAAGAAATGACTCAAAGATTTTT-TCACG-AAATTGTCTTAAGAGAAACAAAACTTTGGT
1 TTTCAAAAGAAACAACTCAAAGATTTTTCTCAAGAAAACTGTCTCAAGAGAAACAAAACTTTGGT
* *
349174 TCAAAAGAAAC-AACTCAAAGATTTTTTA
66 TCAAAAGAAACAAACTCAAA-AATTTTGA
* *
349202 TTTCAAAAGAAACAACTCACATATTTTT
1 TTTCAAAAGAAACAACTCAAAGATTTTT
349230 ATTTCAAAAG
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
90 8 0.08
91 66 0.64
93 4 0.04
94 14 0.14
95 11 0.11
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (93 bp):
TTTCAAAAGAAACAACTCAAAGATTTTTCTCAAGAAAACTGTCTCAAGAGAAACAAAACTTTGGT
TCAAAAGAAACAAACTCAAAAATTTTGA
Found at i:349238 original size:29 final size:30
Alignment explanation
Indices: 349173--349287 Score: 126
Period size: 29 Copynumber: 3.8 Consensus size: 30
349163 AAAACTTTGG
349173 TTCAAAAGAAACAACTCAAAGATTTTTTAT
1 TTCAAAAGAAACAACTCAAAGATTTTTTAT
* *
349203 TTCAAAAGAAACAACTCACATA-TTTTTAT
1 TTCAAAAGAAACAACTCAAAGATTTTTTAT
* *
349232 TTCAAAAGAGAA-AACTCAAAGATAGGTTTTGT
1 TTCAAAAGA-AACAACTCAAAGAT--TTTTTAT
**
349264 TTCAAGGGAAACAATCTCAAAGAT
1 TTCAAAAGAAACAA-CTCAAAGAT
349288 GTTTGTTTAA
Statistics
Matches: 71, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
29 24 0.34
30 22 0.31
31 2 0.03
32 14 0.20
33 9 0.13
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (30 bp):
TTCAAAAGAAACAACTCAAAGATTTTTTAT
Found at i:349375 original size:66 final size:66
Alignment explanation
Indices: 349258--349488 Score: 229
Period size: 66 Copynumber: 3.5 Consensus size: 66
349248 CAAAGATAGG
* * * * * * *
349258 TTTTG-TTTCAAGGGAAACA-ATCTCAAAGATGTTTGTTTAATAGAAATTGTCTTAAAAGAGACA
1 TTTTGTTTTCAA-AGAAACATA-CTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACA
*
349321 AAC
64 AAA
* * * * * *
349324 CTTTGTTTTCATAA-AAACAGATTTAAAGATTTTTCTTCAAAAGGAACTGTCTCAAAAGTGACAA
1 TTTTGTTTTCA-AAGAAACATACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAA
349388 AA
65 AA
* * * *
349390 TTTTGTTTCCAAAGAAACATACTCAATGA-TTCT-TTCAAAAGAAACTTTCTCAAAAGAGACAAA
1 TTTTGTTTTCAAAGAAACATACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAAA
349453 A
66 A
*
349454 TTTTGTTATCAAAGAAACATACTCAAAGATTTTTC
1 TTTTGTTTTCAAAGAAACATACTCAAAGATTTTTC
349489 ATTTTGTTAT
Statistics
Matches: 132, Mismatches: 27, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
64 54 0.41
65 8 0.06
66 63 0.48
67 6 0.05
68 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (66 bp):
TTTTGTTTTCAAAGAAACATACTCAAAGATTTTTCTTCAAAAGAAACTGTCTCAAAAGAGACAAA
A
Found at i:349451 original size:64 final size:63
Alignment explanation
Indices: 349299--349489 Score: 206
Period size: 64 Copynumber: 3.0 Consensus size: 63
349289 TTTGTTTAAT
* * ** * * * *
349299 AGAAATTGTCTTAAAAGAGACAAACCTTTGTTTTCATAA-AAACAGATTTAAAGATTTTTCTTCA
1 AGAAACTGTCTCAAAAGAGACAAAATTTTGTTATCA-AAGAAACATACTCAAAGA--TTT-TTCA
349363 AA
62 AA
* * *
349365 AGGAACTGTCTCAAAAGTGACAAAATTTTGTT-TCCAAAGAAACATACTCAATGATTCTTTCAAA
1 AGAAACTGTCTCAAAAGAGACAAAATTTTGTTAT-CAAAGAAACATACTCAAAGATT-TTTCAAA
*
349429 AGAAACTTTCTCAAAAGAGACAAAATTTTGTTATCAAAGAAACATACTCAAAGATTTTTCA
1 AGAAACTGTCTCAAAAGAGACAAAATTTTGTTATCAAAGAAACATACTCAAAGATTTTTCA
349490 TTTTGTTATA
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
63 5 0.05
64 58 0.54
65 5 0.05
66 39 0.36
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (63 bp):
AGAAACTGTCTCAAAAGAGACAAAATTTTGTTATCAAAGAAACATACTCAAAGATTTTTCAAA
Found at i:349493 original size:36 final size:36
Alignment explanation
Indices: 349453--349525 Score: 112
Period size: 36 Copynumber: 2.0 Consensus size: 36
349443 AAGAGACAAA
*
349453 ATTTTGTTATCAA-AGAAACATACTCAAAGATTTTTC
1 ATTTTGTTAT-AAGAGAAACAAACTCAAAGATTTTTC
*
349489 ATTTTGTTATAAGTGAAACAAACTCAAAGATTTTTC
1 ATTTTGTTATAAGAGAAACAAACTCAAAGATTTTTC
349525 A
1 A
349526 AGAAAATCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (36 bp):
ATTTTGTTATAAGAGAAACAAACTCAAAGATTTTTC
Found at i:349550 original size:99 final size:100
Alignment explanation
Indices: 349403--349582 Score: 249
Period size: 99 Copynumber: 1.8 Consensus size: 100
349393 TGTTTCCAAA
* * *
349403 GAAACATACTCAATGATTCTTTCAAAAGAAACTTTCTCAAAAGAGACAAAATTTTGTTATC-AAA
1 GAAACAAACTCAAAGATTCTTTCAAAAGAAACTGTCTCAAAAGAGACAAAATTTTGTT-TCAAAA
*
349467 GAAACATACTCAAAGATTTTTCATTTTGTTATAAGT
65 GAAACAAACTCAAAGATTTTTCATTTTGTTATAAGT
* * *
349503 GAAACAAACTCAAAGATT-TTTCAAGAA-AATCTGTCTCAAGAGAGACAAAGTTTTGTTTCAAAA
1 GAAACAAACTCAAAGATTCTTTCAA-AAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTCAAAA
*
349566 GAAATAAACTCAAAGAT
65 GAAACAAACTCAAAGAT
349583 CATTTGTTTC
Statistics
Matches: 70, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
98 2 0.03
99 50 0.71
100 18 0.26
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (100 bp):
GAAACAAACTCAAAGATTCTTTCAAAAGAAACTGTCTCAAAAGAGACAAAATTTTGTTTCAAAAG
AAACAAACTCAAAGATTTTTCATTTTGTTATAAGT
Found at i:349690 original size:36 final size:36
Alignment explanation
Indices: 349650--349787 Score: 163
Period size: 36 Copynumber: 3.8 Consensus size: 36
349640 ATAATTTGGA
*
349650 AAATTGTCTCAAGTGAGACAACATTTGTTTTTAGAG
1 AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
* * * *
349686 AAATTGTCTCAAACGACACAAAATTTATTTTTAGAG
1 AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
*
349722 AAATTGTCTCAAGCGAGACAACGTTTGTTTTT-GAG
1 AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
** *
349757 AAAACGATCTCAAGTGAGATCAAC-TTTGTTT
1 AAATTG-TCTCAAGCGAGA-CAACATTTGTTT
349788 AATATGAAAA
Statistics
Matches: 87, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
35 7 0.08
36 76 0.87
37 4 0.05
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (36 bp):
AAATTGTCTCAAGCGAGACAACATTTGTTTTTAGAG
Found at i:349916 original size:107 final size:105
Alignment explanation
Indices: 349755--350071 Score: 412
Period size: 107 Copynumber: 3.0 Consensus size: 105
349745 TTTGTTTTTG
*
349755 AGAA-AACGATCTCAAGTGAGATCAACTTTGTTTAATA-TGAAAACAAATTTGAAATTTGTATTC
1 AGAATAACGATCTCAAGTGAGATCAACTTTGTTTAA-AGTG-AAACAAATTCGAAATTTGTA-TC
349818 TCAAAGGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAA
63 TCAAAGGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAA
* * * * *
349861 AGAATAACAATCTCAAGTGAGATTAATTTTTGTTTAAAGTGAATCAAATTCGAAATTTGTATATC
1 AGAATAACGATCTCAAGTGAGATCAA-CTTTGTTTAAAGTGAAACAAATTCGAAATTTGTATCTC
* * *
349926 AAAGGAAAAAAATGTCTCAAGCAAGACGAAGTTTGTTTT-AAGA
65 AAAGG--AAAAATGTCTCAAACGAGACGAAATTTGTTTTGAA-A
* *
349969 A-AAT-ACGATCTCAAATGAGATCAACTTTGTTTAATGTGAAACAAATTC-AAATTTTGTATCTC
1 AGAATAACGATCTCAAGTGAGATCAACTTTGTTTAAAGTGAAACAAATTCGAAA-TTTGTATCTC
*
350031 AAAGGAAAAATGTCTCAAATGAGACGAAATTTGTTTTGAAA
65 AAAGGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAA
350072 GAAATTGTCT
Statistics
Matches: 183, Mismatches: 20, Indels: 19
0.82 0.09 0.09
Matches are distributed among these distances:
103 29 0.16
104 5 0.03
105 35 0.19
106 29 0.16
107 43 0.23
108 42 0.23
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (105 bp):
AGAATAACGATCTCAAGTGAGATCAACTTTGTTTAAAGTGAAACAAATTCGAAATTTGTATCTCA
AAGGAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAA
Found at i:350074 original size:105 final size:105
Alignment explanation
Indices: 349759--350075 Score: 408
Period size: 105 Copynumber: 3.0 Consensus size: 105
349749 TTTTTGAGAA
* *
349759 AACGATCTCAAGTGAGATCAACTTTGTTTAATATGAAAACAAATTTGAAATTTGTATTCTCAAAG
1 AACGATCTCAAGTGAGATCAACTTTGTTTAATGTG-AAACAAA-TTCAAATTTGTA-TCTCAAAG
*
349824 GAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAA-AGAAT
63 GAAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAAAT
* * * * * *
349866 AACAATCTCAAGTGAGATTAATTTTTGTTTAAAGTGAATCAAATTCGAAATTTGTATATCAAAGG
1 AACGATCTCAAGTGAGATCAA-CTTTGTTTAATGTGAAACAAATTC-AAATTTGTATCTCAAAGG
* * *
349931 AAAAAAATGTCTCAAGCAAGACGAAGTTTGTTTT--AAGAAAAT
64 --AAAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAAAT
*
349973 -ACGATCTCAAATGAGATCAACTTTGTTTAATGTGAAACAAATTCAAATTTTGTATCTCAAAGGA
1 AACGATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAA-TTTGTATCTCAAAGGA
*
350037 AAAATGTCTCAAATGAGACGAAATTTGTTTTGAAAGAAA
65 AAAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAA
350076 TTGTCTCAAG
Statistics
Matches: 179, Mismatches: 23, Indels: 18
0.81 0.10 0.08
Matches are distributed among these distances:
103 28 0.16
104 3 0.02
105 41 0.23
106 29 0.16
107 38 0.21
108 40 0.22
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (105 bp):
AACGATCTCAAGTGAGATCAACTTTGTTTAATGTGAAACAAATTCAAATTTGTATCTCAAAGGAA
AAATGTCTCAAACGAGACGAAATTTGTTTTGAAAGAAAAT
Found at i:357362 original size:3 final size:3
Alignment explanation
Indices: 357354--357404 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
357344 ACAAAATTTG
*
357354 TAA TAA TAA TAT TAA TAA -AA TAA TAA TAA TATA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
357399 TAA TAA
1 TAA TAA
357405 ATTAAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:357414 original size:16 final size:16
Alignment explanation
Indices: 357355--357406 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
357345 CAAAATTTGT
*
357355 AATAATAATATTAATAA
1 AATAATAATAATAAT-A
357372 AATAATAATAAT-ATA
1 AATAATAATAATAATA
357387 TAATAATAATAATAATA
1 -AATAATAATAATAATA
357404 AAT
1 AAT
357407 TAAAATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
15 1 0.03
16 17 0.53
17 14 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:357710 original size:17 final size:17
Alignment explanation
Indices: 357669--357711 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
357659 AAGATTTTAC
* *
357669 ATAAAATTTTAATAAAAT
1 ATAAAA-TTGAATAAAAA
*
357687 ATCAAATTGAATAAAAA
1 ATAAAATTGAATAAAAA
357704 ATAAAATT
1 ATAAAATT
357712 TTAAATAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAAAATTGAATAAAAA
Found at i:357721 original size:15 final size:15
Alignment explanation
Indices: 357669--357726 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
357659 AAGATTTTAC
357669 ATAAAATTTTAATAAA
1 ATAAAATTTTAA-AAA
*
357685 ATATCAAATTGAATAAAAA
1 ATA--AAATT--TTAAAAA
*
357704 ATAAAATTTTAAATA
1 ATAAAATTTTAAAAA
357719 ATAAAATT
1 ATAAAATT
357727 GTTTAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
15 13 0.37
16 3 0.09
17 5 0.14
18 5 0.14
19 6 0.17
20 3 0.09
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (15 bp):
ATAAAATTTTAAAAA
Found at i:361784 original size:19 final size:20
Alignment explanation
Indices: 361748--361795 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
361738 TCTAAATCCT
*
361748 TTTTCAAAATTTCATTTTAG
1 TTTTCAAAATTCCATTTTAG
361768 TTTTCAAAA-TCCATTTTAG
1 TTTTCAAAATTCCATTTTAG
*
361787 CTTTCAAAA
1 TTTTCAAAA
361796 GAAAATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.33, C:0.15, G:0.04, T:0.48
Consensus pattern (20 bp):
TTTTCAAAATTCCATTTTAG
Found at i:365633 original size:134 final size:134
Alignment explanation
Indices: 365277--365655 Score: 448
Period size: 130 Copynumber: 2.8 Consensus size: 134
365267 GCTCATCCGC
* * * * *
365277 GATGAAGAGAATCTTGGCCATCTTTAGGAAAGATGATAACATGGTTCC-ACTCTGCTGGGGACGG
1 GATGAAGAG-TTCTTGGCCATCTTTAGG-AAGGTGATAACATGGTTCCTACGC-GATGAGGACGG
* * * * * **
365341 CTGGTTATCTGAGGTTGACACGGCTCATACGTGATGAAGAGTTCTGGTCAGGGGATGACATTACT
63 CTGGTTATCTAAGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGAGGATGACACGACT
365406 CATACAT
128 CATACAT
*
365413 GATGAAGAGTTCTTGGCCATC--TA--AAGGTGATAACATGGTTCCTACGTGATGAGGACGGCTG
1 GATGAAGAGTTCTTGGCCATCTTTAGGAAGGTGATAACATGGTTCCTACGCGATGAGGACGGCTG
* * *
365474 GTTATCTAAGGGTGACACGGTTCCTACGTGATGAGGAAATCTGGTC-GAAGGATGACACGACTCA
66 GTTATCTAAGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAG-AGGATGACACGACTCA
* *
365538 TGCGT
130 TACAT
* *
365543 GATG-AGAGTTCTTGGCCATCTTTAGGAAGGGTGATAACTTGGTTCCTACGCGATGAGGATGGCT
1 GATGAAGAGTTCTTGGCCATCTTTAGGAA-GGTGATAACATGGTTCCTACGCGATGAGGACGGCT
* ***
365607 GGTTATCTAATGTTGACGTTGCTCCTACGTGATGAGGAGATCTGGTCAG
65 GGTTATCTAAGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAG
365656 CTGATGTTGA
Statistics
Matches: 207, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
129 17 0.08
130 89 0.43
131 4 0.02
133 4 0.02
134 72 0.35
135 12 0.06
136 9 0.04
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (134 bp):
GATGAAGAGTTCTTGGCCATCTTTAGGAAGGTGATAACATGGTTCCTACGCGATGAGGACGGCTG
GTTATCTAAGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTCAGAGGATGACACGACTCAT
ACAT
Found at i:366598 original size:23 final size:22
Alignment explanation
Indices: 366547--366599 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
366537 TGAACCCTCC
366547 TTTA-TTT-ATTTTTTCTTCTT
1 TTTATTTTCATTTTTTCTTCTT
366567 TTTCATTTTCATTTTTTCATTCCTT
1 TTT-ATTTTCATTTTTTC-TT-CTT
*
366592 TTTTTTTT
1 TTTATTTT
366600 TTAAGTGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.11
21 1 0.04
22 3 0.11
23 8 0.30
24 6 0.22
25 6 0.22
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTATTTTCATTTTTTCTTCTT
Done.