Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007886.1 Hibiscus syriacus cultivar Beakdansim tig00110266_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: 1254954
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 7
Found at i:404560 original size:13 final size:13
Alignment explanation
Indices: 404542--404570 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
404532 CTTATAGTTT
404542 AGAGGAAATGTTC
1 AGAGGAAATGTTC
404555 AGAGGAAATGTTC
1 AGAGGAAATGTTC
404568 AGA
1 AGA
404571 AGACCAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.07, G:0.31, T:0.21
Consensus pattern (13 bp):
AGAGGAAATGTTC
Found at i:408371 original size:12 final size:12
Alignment explanation
Indices: 408350--408382 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
408340 ACCTACAATT
408350 AAAA-TAATAAA
1 AAAATTAATAAA
*
408361 AATATTAATAAA
1 AAAATTAATAAA
408373 AAAATTAATA
1 AAAATTAATA
408383 TTATAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 3 0.16
12 16 0.84
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAATTAATAAA
Found at i:408732 original size:2 final size:2
Alignment explanation
Indices: 408727--408769 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
408717 TTTTTTATTT
408727 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
408768 TA
1 TA
408770 ATGAATTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:409575 original size:21 final size:21
Alignment explanation
Indices: 409551--409624 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
409541 ATTCGCGAAA
409551 TGTCGTTGCGATAGTCTACAG
1 TGTCGTTGCGATAGTCTACAG
* *
409572 TGTCGTTGCGAT--TTTCCA-
1 TGTCGTTGCGATAGTCTACAG
*
409590 TTTCGCGTTGCGATAGTCTACAG
1 TGT--CGTTGCGATAGTCTACAG
409613 TGTCGTTGCGAT
1 TGTCGTTGCGAT
409625 TTTCCATTTC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
18 2 0.05
19 4 0.10
20 9 0.21
21 21 0.50
22 4 0.10
23 2 0.05
ACGTcount: A:0.15, C:0.20, G:0.27, T:0.38
Consensus pattern (21 bp):
TGTCGTTGCGATAGTCTACAG
Found at i:409600 original size:20 final size:20
Alignment explanation
Indices: 409575--409644 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
409565 TCTACAGTGT
409575 CGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCCATTTCG
* * *
409595 CGTTGCGATAGTCTACA-GT-G
1 CGTTGCGAT--TTTCCATTTCG
409615 TCGTTGCGATTTTCCATTTCG
1 -CGTTGCGATTTTCCATTTCG
409636 CGTTGCGAT
1 CGTTGCGAT
409645 AGTTGAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
19 4 0.10
20 20 0.51
21 11 0.28
22 4 0.10
ACGTcount: A:0.13, C:0.23, G:0.24, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTTCCATTTCG
Found at i:409611 original size:41 final size:41
Alignment explanation
Indices: 409554--409647 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
409544 CGCGAAATGT
409554 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
1 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
409595 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
1 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
409636 CGTTGCGATAGT
1 CGTTGCGATAGT
409648 TGAAAATCGC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
Found at i:409661 original size:41 final size:41
Alignment explanation
Indices: 409554--409665 Score: 156
Period size: 41 Copynumber: 2.7 Consensus size: 41
409544 CGCGAAATGT
* *
409554 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
1 CGTTGCGATAGTCTAAAATGTCGTTGCGATTTTCCATTTCG
* *
409595 CGTTGCGATAGTCTACAGTGTCGTTGCGATTTTCCATTTCG
1 CGTTGCGATAGTCTAAAATGTCGTTGCGATTTTCCATTTCG
409636 CGTTGCGATAGT-TGAAAATCG-CGTTGCGAT
1 CGTTGCGATAGTCT-AAAAT-GTCGTTGCGAT
409666 AGTGTACAGT
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
40 1 0.01
41 65 0.97
42 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.37
Consensus pattern (41 bp):
CGTTGCGATAGTCTAAAATGTCGTTGCGATTTTCCATTTCG
Found at i:409803 original size:6 final size:6
Alignment explanation
Indices: 409792--409822 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
409782 GAAGACACGT
409792 ATTACC ATTACC ATTACC ATTACC ATTACC A
1 ATTACC ATTACC ATTACC ATTACC ATTACC A
409823 CGACCACGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTACC
Found at i:409828 original size:6 final size:6
Alignment explanation
Indices: 409819--409867 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
409809 CATTACCATT
409819 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
409867 A
1 A
409868 GACGGCGGCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.35, C:0.49, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:409828 original size:18 final size:18
Alignment explanation
Indices: 409792--409828 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
409782 GAAGACACGT
**
409792 ATTACCATTACCATTACC
1 ATTACCATTACCACGACC
409810 ATTACCATTACCACGACC
1 ATTACCATTACCACGACC
409828 A
1 A
409829 CGACCACGAC
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:0.35, C:0.35, G:0.03, T:0.27
Consensus pattern (18 bp):
ATTACCATTACCACGACC
Found at i:410365 original size:6 final size:6
Alignment explanation
Indices: 410356--410392 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
410346 CGCCGCCGTC
410356 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
410393 AATACGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.16, G:0.49, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:410527 original size:41 final size:41
Alignment explanation
Indices: 410449--410527 Score: 131
Period size: 41 Copynumber: 1.9 Consensus size: 41
410439 AAATTATCGC
*
410449 AACGACACTGTAGACTATCGCAACGCGAAATGGAAAATTGT
1 AACGACACTGTAGACTATCGCAACGCGAAATAGAAAATTGT
* *
410490 AACGACACTGTAGATTATCGCAACGCGAAATATAAAAT
1 AACGACACTGTAGACTATCGCAACGCGAAATAGAAAAT
410528 CGCCATCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (41 bp):
AACGACACTGTAGACTATCGCAACGCGAAATAGAAAATTGT
Found at i:411357 original size:20 final size:20
Alignment explanation
Indices: 411309--411571 Score: 233
Period size: 20 Copynumber: 13.2 Consensus size: 20
411299 AAATGACCAA
* *
411309 CAAATTCGTAACGCGAT-CT
1 CAAATTCGCAACGCGATAGT
*
411328 CAAATTCGCAACGCGA-ACT
1 CAAATTCGCAACGCGATAGT
* * **
411347 CCAATTTCGCAAC-CCATTTT
1 -CAAATTCGCAACGCGATAGT
*
411367 CCAATTTCGCAACGCGAATTTA-T
1 -CAAATTCGCAACGCG-A--TAGT
*
411390 -AAATT-GCAACACAGA-AGT
1 CAAATTCGCAACGC-GATAGT
411408 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
411428 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
411448 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
411468 CAAATTCGCAACGCGATAGT
1 CAAATTCGCAACGCGATAGT
*
411488 CAAATTCGCAACAC-ATAAGT
1 CAAATTCGCAACGCGAT-AGT
* *
411508 CAAATTCGCAACGTGAATTTGT
1 CAAATTCGCAACGCG-A-TAGT
*
411530 -AAA-TCGCAACACAGA-AGT
1 CAAATTCGCAACGC-GATAGT
*
411548 CAAATTCGCAACGCGAAAGT
1 CAAATTCGCAACGCGATAGT
411568 CAAA
1 CAAA
411572 CGTTTTTACG
Statistics
Matches: 206, Mismatches: 18, Indels: 39
0.78 0.07 0.15
Matches are distributed among these distances:
17 1 0.00
18 3 0.01
19 33 0.16
20 152 0.74
21 10 0.05
22 4 0.02
23 2 0.01
24 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACGCGATAGT
Found at i:412454 original size:21 final size:21
Alignment explanation
Indices: 412428--412472 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
412418 GATTTCTGGG
* *
412428 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
412449 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
412470 CAA
1 CAA
412473 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:412846 original size:18 final size:16
Alignment explanation
Indices: 412825--412864 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
412815 TGATTATACG
412825 TATATGAATGACATGAAT
1 TATATGAATG-CATG-AT
*
412843 TATATGTATGCATGAT
1 TATATGAATGCATGAT
412859 TATATG
1 TATATG
412865 TGTTAACATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 4 0.19
18 9 0.43
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (16 bp):
TATATGAATGCATGAT
Found at i:412862 original size:16 final size:18
Alignment explanation
Indices: 412825--412865 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
412815 TGATTATACG
*
412825 TATATGAATGACATGAAT
1 TATATGTATGACATGAAT
412843 TATATGTATG-CATG-AT
1 TATATGTATGACATGAAT
412859 TATATGT
1 TATATGT
412866 GTTAACATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 4 0.18
18 9 0.41
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (18 bp):
TATATGTATGACATGAAT
Found at i:413117 original size:23 final size:24
Alignment explanation
Indices: 413074--413120 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
413064 ATATGGCATG
*
413074 TGATATGAAAGTTTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
413098 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
413121 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:413336 original size:31 final size:31
Alignment explanation
Indices: 413298--413484 Score: 313
Period size: 31 Copynumber: 6.0 Consensus size: 31
413288 AGGGTCGAGG
413298 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
413329 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
413360 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
413391 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
413422 GTTTACCTATGTCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
413453 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
413484 G
1 G
413485 GTCCTTCGGG
Statistics
Matches: 147, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
31 146 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:416354 original size:21 final size:21
Alignment explanation
Indices: 416328--416372 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
416318 GATTTCTGGG
* *
416328 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
416349 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
416370 CAA
1 CAA
416373 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:417006 original size:23 final size:24
Alignment explanation
Indices: 416963--417009 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
416953 ATATGGCATG
*
416963 TGATATGAAAGTTTATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
416987 TGATATGAAA-TATATATGTGAAA
1 TGATATGAAAGTATATATGTGAAA
417010 ACAAGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.36
Consensus pattern (24 bp):
TGATATGAAAGTATATATGTGAAA
Found at i:417225 original size:31 final size:31
Alignment explanation
Indices: 417187--417373 Score: 304
Period size: 31 Copynumber: 6.0 Consensus size: 31
417177 AGGGTCGAGG
417187 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
417218 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
417249 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
417280 GTTTACCTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* * *
417311 GTTTACCTATATCCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
* *
417342 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGAA-CATATGGACT
417373 G
1 G
417374 GTCCTTCGGG
Statistics
Matches: 145, Mismatches: 10, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
31 144 0.99
32 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:420685 original size:21 final size:21
Alignment explanation
Indices: 420611--420686 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
420601 GACGTCTCCT
*
420611 ATCGTTCAATAGGCCCCTCTC
1 ATCGTTCAAGAGGCCCCTCTC
* * *
420632 ATC-ATCGAAGAAGCCCCTCCC
1 ATCGTTC-AAGAGGCCCCTCTC
* *
420653 ACCGTTCAAGAGGCCCCTGTC
1 ATCGTTCAAGAGGCCCCTCTC
420674 ATCGTTCAAGAGG
1 ATCGTTCAAGAGG
420687 TCTTGTCCGC
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 2 0.05
21 39 0.91
22 2 0.05
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.21
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTCTC
Found at i:421233 original size:13 final size:13
Alignment explanation
Indices: 421215--421241 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
421205 CTTACTTGAA
421215 GGATCAGAGAGAT
1 GGATCAGAGAGAT
421228 GGATCAGAGAGAT
1 GGATCAGAGAGAT
421241 G
1 G
421242 CTTCATATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.41, T:0.15
Consensus pattern (13 bp):
GGATCAGAGAGAT
Found at i:422137 original size:14 final size:14
Alignment explanation
Indices: 422118--422151 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
422108 CGATTAATTA
422118 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
*
422132 ATTTGTAAAAGTTT
1 ATTTGTAAAAGTTG
422146 ATTTGT
1 ATTTGT
422152 TTAATTTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (14 bp):
ATTTGTAAAAGTTG
Found at i:422303 original size:20 final size:20
Alignment explanation
Indices: 422277--422328 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
422267 GTTGAAGGTA
*
422277 CAAATTCGCAACGCTAAAGT
1 CAAATTCGCAACGCAAAAGT
*
422297 TAAATTCGCAACGCAAAAGT
1 CAAATTCGCAACGCAAAAGT
422317 CAAATTCGCAAC
1 CAAATTCGCAAC
422329 ACGAAATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.42, C:0.25, G:0.13, T:0.19
Consensus pattern (20 bp):
CAAATTCGCAACGCAAAAGT
Found at i:422627 original size:39 final size:39
Alignment explanation
Indices: 422573--422659 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
422563 TCAAGTTGTA
*
422573 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
1 GATTTTGATTTCCTTTTACTTGGCACCATATGAGATTTG
*
422612 GATTTTGATTTCCTTTTACTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTACTTGGCACCATATGAGATTTG
422651 GATTTTGAT
1 GATTTTGAT
422660 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.18, C:0.15, G:0.20, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTACTTGGCACCATATGAGATTTG
Found at i:422993 original size:18 final size:18
Alignment explanation
Indices: 422970--423006 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
422960 CAAAATTTAT
422970 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
422988 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
423006 A
1 A
423007 CTCCAATTAC
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:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:423459 original size:20 final size:20
Alignment explanation
Indices: 423434--423569 Score: 122
Period size: 20 Copynumber: 7.1 Consensus size: 20
423424 TGTACAACAT
* *
423434 GAAAGTTAAATTCGCAATGC
1 GAAAGTCAAATTCGCAACGC
*
423454 GAAAGTCAAATTCTCAACGC
1 GAAAGTCAAATTCGCAACGC
**
423474 GAAA-T--AA---GCATTGC
1 GAAAGTCAAATTCGCAACGC
* * *
423488 GATAGTCAAATTCACAACGA
1 GAAAGTCAAATTCGCAACGC
** *
423508 GAAAGTCAAATTCATAACGA
1 GAAAGTCAAATTCGCAACGC
423528 GAAAGTCAAATTCGCAACGC
1 GAAAGTCAAATTCGCAACGC
*
423548 GAAAGCCAAATTCGCAACGC
1 GAAAGTCAAATTCGCAACGC
423568 GA
1 GA
423570 TTTTTGCGTT
Statistics
Matches: 93, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
14 7 0.08
15 1 0.01
17 4 0.04
19 1 0.01
20 80 0.86
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (20 bp):
GAAAGTCAAATTCGCAACGC
Found at i:423909 original size:18 final size:18
Alignment explanation
Indices: 423886--423921 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
423876 AAGCCGGTTG
*
423886 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
*
423904 TGATTGCGCTTTTGATTT
1 TGATTGCGATTTTGATTT
423922 CCTTTTGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.06, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:426210 original size:24 final size:24
Alignment explanation
Indices: 426183--426236 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
426173 CCATCACATC
* *
426183 ATCAAAATCTGAGTATTCCCCAAG
1 ATCAAAATCCGAGTATTCACCAAG
* * *
426207 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTCACCAAG
426231 ATCAAA
1 ATCAAA
426237 TTTCGAATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTCACCAAG
Found at i:426383 original size:12 final size:12
Alignment explanation
Indices: 426362--426395 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
426352 GGTTGTAGGT
*
426362 TTTGAGATTGTG
1 TTTGATATTGTG
426374 TTTGATATTGTG
1 TTTGATATTGTG
*
426386 TTTGGTATTG
1 TTTGATATTG
426396 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:426970 original size:16 final size:15
Alignment explanation
Indices: 426948--426986 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
426938 GAAATCATTG
426948 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
426964 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
426979 AAAAATTA
1 AAAAATTA
426987 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:427167 original size:19 final size:21
Alignment explanation
Indices: 427143--427193 Score: 79
Period size: 19 Copynumber: 2.5 Consensus size: 21
427133 ACTAAAACCT
427143 GTTGCGAATTTGAAATT-C-A
1 GTTGCGAATTTGAAATTCCGA
*
427162 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTGAAATTCCGA
427183 GTTGCGAATTT
1 GTTGCGAATTT
427194 TACTATCGCG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 17 0.59
20 1 0.03
21 11 0.38
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (21 bp):
GTTGCGAATTTGAAATTCCGA
Found at i:427226 original size:20 final size:19
Alignment explanation
Indices: 427143--427249 Score: 81
Period size: 20 Copynumber: 5.4 Consensus size: 19
427133 ACTAAAACCT
* *
427143 GTTGCGAATTTGAAATTC-A
1 GTTGCGAATTTG-ACTTCGC
*
427162 GTTGCGAATTTGAAATTCCGC
1 GTTGCGAATTTG-ACTT-CGC
*
427183 GTTGCGAATTTTACTATCGC
1 GTTGCGAATTTGACT-TCGC
*
427203 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTC-GC
* * *
427223 GTTGCGATTTATAAATTCGC
1 GTTGCGAATT-TGACTTCGC
427243 GTTGCGA
1 GTTGCGA
427250 TTTACAAATT
Statistics
Matches: 74, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
19 19 0.26
20 38 0.51
21 17 0.23
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.38
Consensus pattern (19 bp):
GTTGCGAATTTGACTTCGC
Found at i:427250 original size:20 final size:20
Alignment explanation
Indices: 427223--427289 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
427213 TGACTTCTGT
*
427223 GTTGCGATTTATAAATTCGC
1 GTTGCGATTTACAAATTCGC
427243 GTTGCGATTTACAAATTCGC
1 GTTGCGATTTACAAATTCGC
* * *
427263 ATTGCGATTTACAGATTCAC
1 GTTGCGATTTACAAATTCGC
427283 GTTGCGA
1 GTTGCGA
427290 AATTGGAAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCGC
Found at i:429144 original size:45 final size:45
Alignment explanation
Indices: 429080--429172 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
429070 TGGAGCTCTG
429080 CCTCCACTTCCTAGCATGCCAACATTGCCTACCATGCCATCCGTC
1 CCTCCACTTCCTAGCATGCCAACATTGCCTACCATGCCATCCGTC
* *
429125 CCTCCTCTTCCTAGCATGCCAACATTGCCTACCATGCCATCCTTC
1 CCTCCACTTCCTAGCATGCCAACATTGCCTACCATGCCATCCGTC
429170 CCT
1 CCT
429173 ACAATACCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.18, C:0.45, G:0.10, T:0.27
Consensus pattern (45 bp):
CCTCCACTTCCTAGCATGCCAACATTGCCTACCATGCCATCCGTC
Found at i:432307 original size:24 final size:23
Alignment explanation
Indices: 432259--432303 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
432249 ACTATTAAGA
432259 TAAAAAAATAAAAAAATATTTAT
1 TAAAAAAATAAAAAAATATTTAT
*
432282 TAAAAATAATAAAATAAT-TTTA
1 TAAAAA-AATAAAAAAATATTTA
432304 ATTATTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAAAAAATAAAAAAATATTTAT
Found at i:433028 original size:22 final size:24
Alignment explanation
Indices: 433000--433060 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
432990 ACTATTAAAT
*
433000 TCATTAAA-TTAT-AATAAAATAA
1 TCATTAAATTTATAAAAAAAATAA
433022 TCATTAAATTTTATAAAAAAAATAA
1 TCATTAAA-TTTATAAAAAAAATAA
*
433047 ACATTAAAATTTAT
1 TCATT-AAATTTAT
433061 TGAACTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 8 0.24
24 4 0.12
25 18 0.55
26 3 0.09
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (24 bp):
TCATTAAATTTATAAAAAAAATAA
Found at i:434383 original size:15 final size:15
Alignment explanation
Indices: 434363--434391 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
434353 ACAAAATTAC
434363 GAACTTGAAATTTAT
1 GAACTTGAAATTTAT
434378 GAACTTGAAATTTA
1 GAACTTGAAATTTA
434392 CCTTGGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (15 bp):
GAACTTGAAATTTAT
Found at i:440226 original size:16 final size:16
Alignment explanation
Indices: 440205--440237 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
440195 TAATAAATAG
440205 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
440221 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
440237 A
1 A
440238 AAAATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:440318 original size:10 final size:10
Alignment explanation
Indices: 440303--440393 Score: 58
Period size: 10 Copynumber: 9.7 Consensus size: 10
440293 CATTTAATAA
440303 ATAAACGAAC
1 ATAAACGAAC
440313 ATAAACGAAC
1 ATAAACGAAC
440323 ----ACGAAC
1 ATAAACGAAC
440329 ATAAACGAAC
1 ATAAACGAAC
440339 ----ACGAAC
1 ATAAACGAAC
440345 ATAAACGAAC
1 ATAAACGAAC
* *
440355 ACGAATA-TAA-
1 A-TAA-ACGAAC
440365 ATGAACACGAAC
1 AT-AA-ACGAAC
440377 ATAAACGAAC
1 ATAAACGAAC
440387 ATAAACG
1 ATAAACG
440394 TTGGAGACCC
Statistics
Matches: 63, Mismatches: 5, Indels: 26
0.67 0.05 0.28
Matches are distributed among these distances:
6 12 0.19
10 40 0.63
11 8 0.13
12 3 0.05
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:440328 original size:16 final size:16
Alignment explanation
Indices: 440307--440387 Score: 144
Period size: 16 Copynumber: 5.1 Consensus size: 16
440297 TAATAAATAA
440307 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
440323 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
440339 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
440355 ACGAATATAAATGAAC
1 ACGAACATAAACGAAC
440371 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
440387 A
1 A
440388 TAAACGTTGG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 61 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:441155 original size:14 final size:14
Alignment explanation
Indices: 441138--441193 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
441128 AATGAACATA
441138 AACGAACATAATCG
1 AACGAACATAATCG
441152 AACGAACAT-A---
1 AACGAACATAATCG
* *
441162 AACAAACATAACCG
1 AACGAACATAATCG
441176 AACGAACATAATCG
1 AACGAACATAATCG
441190 AACG
1 AACG
441194 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:441158 original size:24 final size:24
Alignment explanation
Indices: 441118--441192 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
441108 GATTGAGTTA
*
441118 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
*
441142 AACATAATCGAACGAACATAAACA
1 AACATAATCGAACGAACATAAACG
* *
441166 AACATAACCGAACGAACATAATCG
1 AACATAATCGAACGAACATAAACG
441190 AAC
1 AAC
441193 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:442537 original size:21 final size:20
Alignment explanation
Indices: 442451--442608 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
442441 AAATGACCAA
**
442451 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
442470 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
442490 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
442510 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
442531 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
442552 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
442572 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
* *
442593 GAAAATTGCAACGCGA
1 CAAAATCGCAACGCGA
442609 ACACATAAAT
Statistics
Matches: 103, Mismatches: 30, Indels: 11
0.72 0.21 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 47 0.46
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:442637 original size:20 final size:20
Alignment explanation
Indices: 442614--442729 Score: 153
Period size: 20 Copynumber: 5.7 Consensus size: 20
442604 CGCGAACACA
442614 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
442634 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
*
442654 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* * *
442674 TAAATCGCAACG-ATAATACA
1 TAAATCGCAACGCGT-ATCCG
442694 TAAAAATCGCAACGCGTATCCG
1 T--AAATCGCAACGCGTATCCG
442716 TAAATCGCAACGCG
1 TAAATCGCAACGCG
442730 ATATTTAAAG
Statistics
Matches: 82, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.01
20 65 0.79
22 15 0.18
23 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:442644 original size:40 final size:40
Alignment explanation
Indices: 442575--442730 Score: 170
Period size: 40 Copynumber: 3.9 Consensus size: 40
442565 CGATTTTCCA
* ** * *
442575 AAATCGCAACGCGAATATGAAAATTGCAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
* * *
442615 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATC-CGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACACAT
* ** *
442655 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
442695 AAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 --AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
442731 TATTTAAAGC
Statistics
Matches: 95, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.64
41 2 0.02
42 31 0.33
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.19
Consensus pattern (40 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACACAT
Found at i:443151 original size:33 final size:33
Alignment explanation
Indices: 443112--443182 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
443102 TTCACTTAGA
*
443112 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
443145 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
443178 TTTCA
1 TTTCA
443183 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:443300 original size:14 final size:14
Alignment explanation
Indices: 443281--443337 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
443271 GAGAAATGAA
443281 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
443295 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
443314 AATCGCAACGAGAG
1 AATCGCAACGAGAG
443328 AATCGCAACG
1 AATCGCAACG
443338 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:443313 original size:33 final size:33
Alignment explanation
Indices: 443273--443353 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
443263 CGCAACGAGA
443273 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
443306 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
443339 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
443354 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:443371 original size:19 final size:19
Alignment explanation
Indices: 443349--443432 Score: 115
Period size: 19 Copynumber: 4.7 Consensus size: 19
443339 GAAACCAAAA
*
443349 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
443368 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
443387 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
443401 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
443420 TCGCGTTGCGATT
1 TCGCGTTGCGATT
443433 CTCTCGTTGC
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
14 10 0.18
16 3 0.05
17 3 0.05
19 41 0.72
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:443409 original size:14 final size:14
Alignment explanation
Indices: 443390--443446 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
443380 TTTCATTTCG
443390 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
443404 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
443423 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
443437 CGTTGCGATT
1 CGTTGCGATT
443447 TTCATTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:443413 original size:33 final size:33
Alignment explanation
Indices: 443371--443454 Score: 168
Period size: 33 Copynumber: 2.5 Consensus size: 33
443361 TTTCATTTCG
443371 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
443404 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
443437 CGTTGCGATTTTCATTTC
1 CGTTGCGATTTTCATTTC
443455 AACCAAAAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.10, C:0.24, G:0.20, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:445311 original size:93 final size:93
Alignment explanation
Indices: 445152--445620 Score: 913
Period size: 93 Copynumber: 5.1 Consensus size: 93
445142 TAGATTGCTT
*
445152 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
445217 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
445245 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
445310 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
445338 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
445403 TTTGTCTTTTTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
445431 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
445496 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
445524 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
445589 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
445616 AGTAA
1 AGTAA
445621 TGCATCCATT
Statistics
Matches: 373, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 367 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:445707 original size:19 final size:19
Alignment explanation
Indices: 445667--445794 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
445657 TAGTTTACTT
* *
445667 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
445687 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
445706 TCGCAACGCGAAA-TGAAA
1 TCGCAACGCGAAACCAAAA
*
445724 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
445738 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
445757 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
445771 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
445790 TCGCA
1 TCGCA
445795 TTGCGATTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
14 19 0.22
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.12
19 36 0.41
20 13 0.15
ACGTcount: A:0.45, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:445763 original size:33 final size:32
Alignment explanation
Indices: 445703--445794 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
445693 CGCGAAACCA
**
445703 AAATCGCAACGCGAAA-TGAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
445734 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
445767 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
445795 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.02
32 16 0.29
33 39 0.70
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:445812 original size:19 final size:19
Alignment explanation
Indices: 445790--445910 Score: 135
Period size: 19 Copynumber: 6.6 Consensus size: 19
445780 GAAACCAAAA
*
445790 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
445809 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
445828 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
445844 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
445861 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
445880 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
445900 TCGTGTTGCGA
1 TCGCGTTGCGA
445911 AAGTAAACTA
Statistics
Matches: 86, Mismatches: 10, Indels: 11
0.80 0.09 0.10
Matches are distributed among these distances:
14 7 0.08
16 5 0.06
17 5 0.06
19 57 0.66
20 12 0.14
ACGTcount: A:0.12, C:0.19, G:0.24, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:447855 original size:14 final size:14
Alignment explanation
Indices: 447836--447871 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
447826 ATTGTTTAAT
447836 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
447850 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
447864 TGATTTGT
1 TGATTTGT
447872 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
Found at i:448002 original size:19 final size:19
Alignment explanation
Indices: 447978--448075 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
447968 AAAATTGACT
447978 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
447997 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
448016 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
448030 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
448049 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
448069 ATCGCAA
1 ATCGCAA
448076 CGGGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:448107 original size:53 final size:53
Alignment explanation
Indices: 447978--448094 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
447968 AAAATTGACT
447978 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
*
448030 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
448083 ATCGCAATGCGA
1 ATCGCAATGCGA
448095 TTTTAATTTC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:448112 original size:19 final size:19
Alignment explanation
Indices: 448084--448284 Score: 185
Period size: 19 Copynumber: 11.7 Consensus size: 19
448074 AACGGGAGAA
* *
448084 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
448103 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
448119 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
448136 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
448155 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
448171 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
448188 TCGCATTGCGA-TTTCATT
1 TCGCATTGCGATTTTCATT
*
448206 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
448222 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
448239 TCCGCATTGCGA-TTTCA--
1 T-CGCATTGCGATTTTCATT
*
448256 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
448272 TCGCATTGCGATT
1 TCGCATTGCGATT
448285 CTCTCGTTGC
Statistics
Matches: 150, Mismatches: 10, Indels: 44
0.74 0.05 0.22
Matches are distributed among these distances:
13 5 0.03
14 23 0.15
15 1 0.01
16 22 0.15
17 20 0.13
18 20 0.13
19 53 0.35
20 6 0.04
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:448127 original size:33 final size:33
Alignment explanation
Indices: 448090--448298 Score: 214
Period size: 33 Copynumber: 6.2 Consensus size: 33
448080 AGAATCGCAA
*
448090 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
448123 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
448161 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
448194 TGCGA-TTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
448226 TGCGATTTTCATTTCCGCATTGCGATT-TCAT-GT
1 TGCGATTTTCATTT-CGCATTGCGATTCTC-TCGT
*
448259 TGGGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
448292 TGCGATT
1 TGCGATT
448299 GTAATTTCCG
Statistics
Matches: 145, Mismatches: 15, Indels: 32
0.76 0.08 0.17
Matches are distributed among these distances:
30 9 0.06
31 5 0.03
32 23 0.16
33 64 0.44
34 13 0.09
35 5 0.03
36 4 0.03
37 2 0.01
38 8 0.06
39 3 0.02
40 9 0.06
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:448147 original size:52 final size:52
Alignment explanation
Indices: 448084--448253 Score: 306
Period size: 52 Copynumber: 3.3 Consensus size: 52
448074 AACGGGAGAA
* *
448084 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
448136 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
448188 TCGCATTGCGA-TTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
448239 TCCGCATTGCGATTT
1 T-CGCATTGCGATTT
448254 CATGTTGGGA
Statistics
Matches: 114, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
51 41 0.36
52 71 0.62
53 2 0.02
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:450811 original size:24 final size:24
Alignment explanation
Indices: 450777--450823 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
450767 CTGAAACATC
450777 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
450801 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
450824 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:451532 original size:20 final size:20
Alignment explanation
Indices: 451504--451773 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
451494 AAATTTCAGT
* * *
451504 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
451524 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
451544 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
451564 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
451584 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
451604 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
451624 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
451644 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
451664 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
451684 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
451704 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
451724 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
451744 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
451764 GTTGCGATTT
1 GTTGCGATTT
451774 TGGAAAATCG
Statistics
Matches: 220, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 219 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:451790 original size:21 final size:21
Alignment explanation
Indices: 451760--451842 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
451750 ATTTTCATAT
*
451760 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
451781 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
451802 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
451823 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
451843 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:451833 original size:42 final size:43
Alignment explanation
Indices: 451740--451838 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
451730 ATTTATGTGT
* *
451740 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
451781 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
451823 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
451839 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:455248 original size:31 final size:31
Alignment explanation
Indices: 455148--455236 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 31
455138 TTTGGTATTC
*
455148 GGGTCGGATTTTTTTTAAAAAAAAATTGGGATC
1 GGGTCGGA-TTTTTTT-AAAAAAAATTGGGATA
*** **
455181 GGGTCGG-TTTTTTTTTTAAATTTTGGGATA
1 GGGTCGGATTTTTTTAAAAAAAATTGGGATA
455211 GGGTCGGATTTTTTTAAAAAAAATTG
1 GGGTCGGATTTTTTTAAAAAAAATTG
455237 AGTTTGGGTC
Statistics
Matches: 44, Mismatches: 11, Indels: 4
0.75 0.19 0.07
Matches are distributed among these distances:
30 17 0.39
31 20 0.45
33 7 0.16
ACGTcount: A:0.28, C:0.04, G:0.25, T:0.43
Consensus pattern (31 bp):
GGGTCGGATTTTTTTAAAAAAAATTGGGATA
Found at i:460448 original size:47 final size:49
Alignment explanation
Indices: 460341--460449 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 49
460331 TTATACAAAA
* *
460341 CGCGGTACATGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTGCCCCACGCTATATAAAATTATGTC--GAGTAAAGGTATGT
460392 CGCGGTACCTGCCCCACGCTATATAAAATTATG-C-AGTAAAGGTATAG-
1 CGCGGTACCTGCCCCACGCTATATAAAATTATGTCGAGTAAAGGTAT-GT
*
460439 CGTGGTACCTG
1 CGCGGTACCTG
460450 ATCCGCGCTA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
47 21 0.39
48 1 0.02
50 1 0.02
51 31 0.57
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (49 bp):
CGCGGTACCTGCCCCACGCTATATAAAATTATGTCGAGTAAAGGTATGT
Found at i:460551 original size:50 final size:51
Alignment explanation
Indices: 460473--460600 Score: 150
Period size: 51 Copynumber: 2.5 Consensus size: 51
460463 TCCTACGTGA
* * * * **
460473 CGTATAGCGCGCTGCAGGAGCCGTGCTATA-CCCACGTGGCGCCAGCTCAC
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
* * *
460523 CGTATAGCGCGGTGCAGGGGGTGCGCTATACCCCACGTGGTGCCAAATCAT
1 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
* *
460574 CGTATAACGCGGTGCAGAGGGCGCGCT
1 CGTATAGCGCGGTGCAGGGGGCGCGCT
460601 TTACTGCTAA
Statistics
Matches: 65, Mismatches: 12, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
50 25 0.38
51 40 0.62
ACGTcount: A:0.19, C:0.30, G:0.34, T:0.17
Consensus pattern (51 bp):
CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
Found at i:462571 original size:16 final size:14
Alignment explanation
Indices: 462551--462596 Score: 58
Period size: 13 Copynumber: 3.1 Consensus size: 14
462541 TATTTTTTTC
462551 AAATAATCATAATAA
1 AAATAAT-ATAATAA
462566 ACAATAAATATAATAA
1 A-AAT-AATATAATAA
462582 AAA-AATATAATAA
1 AAATAATATAATAA
462595 AA
1 AA
462597 TTACCTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.41
15 3 0.10
16 11 0.38
17 3 0.10
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (14 bp):
AAATAATATAATAA
Found at i:462871 original size:47 final size:49
Alignment explanation
Indices: 462764--462872 Score: 143
Period size: 51 Copynumber: 2.2 Consensus size: 49
462754 TTATACAAAA
* * *
462764 CGCGGTACATGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTGCCACACGCTATATAAAATTATGTC--GAGTAAAGGTATGT
462815 CGCGGTACCTGCCACACGCTATATAAAATTATG-C-AGTAAAGGTATAG-
1 CGCGGTACCTGCCACACGCTATATAAAATTATGTCGAGTAAAGGTAT-GT
462862 CGCGGTACCTG
1 CGCGGTACCTG
462873 ATCCGCGCTA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
47 22 0.41
48 1 0.02
50 1 0.02
51 30 0.56
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (49 bp):
CGCGGTACCTGCCACACGCTATATAAAATTATGTCGAGTAAAGGTATGT
Found at i:462882 original size:47 final size:48
Alignment explanation
Indices: 462764--462884 Score: 140
Period size: 47 Copynumber: 2.5 Consensus size: 48
462754 TTATACAAAA
*
462764 CGCGGTACATGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTATGT
1 CGCGGTACCTG-CCCGCGCTATATAAAATTATGTC--GAGTAAAGGTATGT
*
462815 CGCGGTACCTGCCACACGCTATATAAAATTATG-C-AGTAAAGGTATAG-
1 CGCGGTACCTGCC-CGCGCTATATAAAATTATGTCGAGTAAAGGTAT-GT
*
462862 CGCGGTACCTGATCCGCGCTATA
1 CGCGGTACCTG-CCCGCGCTATA
462885 CTCCTACGTG
Statistics
Matches: 63, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
47 30 0.48
48 2 0.03
50 3 0.05
51 28 0.44
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (48 bp):
CGCGGTACCTGCCCGCGCTATATAAAATTATGTCGAGTAAAGGTATGT
Found at i:462974 original size:50 final size:51
Alignment explanation
Indices: 462896--463023 Score: 159
Period size: 51 Copynumber: 2.5 Consensus size: 51
462886 TCCTACGTGA
* * * * **
462896 CGTATAGCGCGCTGCAGGAGCCGTGCTATA-CCCACGTGGCGCCAGCTCAC
1 CGTATAGCGCGATGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
* * *
462946 CGTATAGCGCGGTGCAGGGGGCGCGCTATACCCCACGTGGTGCCAAATCAT
1 CGTATAGCGCGATGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
*
462997 CGTATAACGCGATGCAGGGGGCGCGCT
1 CGTATAGCGCGATGCAGGGGGCGCGCT
463024 TTACTGCTAA
Statistics
Matches: 67, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
50 26 0.39
51 41 0.61
ACGTcount: A:0.19, C:0.31, G:0.34, T:0.16
Consensus pattern (51 bp):
CGTATAGCGCGATGCAGGGGGCGCGCTATACCCCACGTGGCGCCAAATCAC
Found at i:465188 original size:2 final size:2
Alignment explanation
Indices: 465183--465288 Score: 212
Period size: 2 Copynumber: 53.0 Consensus size: 2
465173 TATATTATTA
465183 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
465225 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
465267 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
465289 TCATAGAATG
Statistics
Matches: 104, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 104 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:467034 original size:16 final size:17
Alignment explanation
Indices: 467013--467047 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
467003 TTTTATTATT
*
467013 ATTTAATATAAA-AATA
1 ATTTAAAATAAATAATA
467029 ATTTAAAATAAATAATA
1 ATTTAAAATAAATAATA
467046 AT
1 AT
467048 AAATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTTAAAATAAATAATA
Found at i:469435 original size:2 final size:2
Alignment explanation
Indices: 469428--469455 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
469418 GTCATTTCTG
469428 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
469456 GCTTAAATTT
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):
AT
Found at i:472469 original size:45 final size:45
Alignment explanation
Indices: 472405--472583 Score: 304
Period size: 45 Copynumber: 4.0 Consensus size: 45
472395 TGGTATTGTG
*
472405 GGGATGGATGGCATGGTTGGCAATGTTGGCATACTAGGAAGTGGA
1 GGGATGGATGGCATGGTAGGCAATGTTGGCATACTAGGAAGTGGA
*
472450 GGGATGGATGGCATGGTTGGCAATGTTGGCATACTAGGAAGTGGA
1 GGGATGGATGGCATGGTAGGCAATGTTGGCATACTAGGAAGTGGA
* *
472495 GGGATGGATGGCATGGTAGGCAATATTGGCATGCTAGGAAGTGGA
1 GGGATGGATGGCATGGTAGGCAATGTTGGCATACTAGGAAGTGGA
**
472540 GGGATGGATGGCATGGTAGGCAATGTTGGCATGGTAGGAAGTGG
1 GGGATGGATGGCATGGTAGGCAATGTTGGCATACTAGGAAGTGG
472584 TGGTAGAGCT
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 129 1.00
ACGTcount: A:0.25, C:0.08, G:0.44, T:0.23
Consensus pattern (45 bp):
GGGATGGATGGCATGGTAGGCAATGTTGGCATACTAGGAAGTGGA
Found at i:477594 original size:3 final size:3
Alignment explanation
Indices: 477588--477628 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
477578 TTTTTTTATT
477588 TAA TAA TAA TAA T-A TAA TAA T-A TAA TAA TTAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA
477629 AATGAACTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:477604 original size:8 final size:8
Alignment explanation
Indices: 477588--477624 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
477578 TTTTTTTATT
477588 TAATAATAA
1 TAAT-ATAA
477597 TAATATAA
1 TAATATAA
477605 TAATATAA
1 TAATATAA
477613 TAAT-TAA
1 TAATATAA
477620 TAATA
1 TAATA
477625 ATAAAATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 7 0.26
8 16 0.59
9 4 0.15
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATATAA
Found at i:477884 original size:76 final size:76
Alignment explanation
Indices: 477758--478548 Score: 1361
Period size: 76 Copynumber: 10.4 Consensus size: 76
477748 GAAATGTTGA
* *
477758 AAACATCATGCACTGAATGG-CTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCTG
1 AAACATCATGCACTGAA-GGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTG
477822 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* * * *
477834 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
477899 AGGCTTTTTGG
66 AGGCTTTTTGG
*
477910 AAACATCATGCACTGAAGGACTTACAGATGACACGAAGGATTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
477975 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
477986 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
478050 AGGCTTTTTTGG
66 AGGC-TTTTTGG
* * * **
478062 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCAA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
478127 AGGCTTTTTGG
66 AGGCTTTTTGG
478138 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
478203 AGGCTTTTTTGG
66 AGGC-TTTTTGG
* * * *
478215 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
478280 AGGCTTTTTGG
66 AGGCTTTTTGG
478291 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
478356 AGGCTTTTTGG
66 AGGCTTTTTGG
*
478367 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
478432 AGGCTTTTTGG
66 AGGCTTTTTGG
*
478443 AAACATCATGCATTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
478508 AGGCTTTTTGG
66 AGGCTTTTTGG
478519 AAACATCATGCACTGAAGGACTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
478549 TGAGAAATAG
Statistics
Matches: 679, Mismatches: 32, Indels: 8
0.94 0.04 0.01
Matches are distributed among these distances:
75 17 0.03
76 575 0.85
77 87 0.13
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (76 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
AGGCTTTTTGG
Found at i:478465 original size:381 final size:380
Alignment explanation
Indices: 477758--478548 Score: 1442
Period size: 381 Copynumber: 2.1 Consensus size: 380
477748 GAAATGTTGA
* *
477758 AAACATCATGCACTGAATGG-CTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCTG
1 AAACATCATGCACTGAA-GGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTG
477822 AAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
65 AAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
477887 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACACGAAGGATT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACACGAAGGATT
477952 TGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
195 TGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
*
478017 CCCGAAGGCTTTGAAAACATCAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGTAGGA
260 CCCGAAGGCTTTGAAAACATCAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGAAGGA
* *
478082 CTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG
325 CTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG
478138 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
1 AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
*
478203 AGGCTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCA
66 AGGC-TTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCA
*
478268 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACACGAAGGATT
478333 TGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
195 TGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGA
* *
478398 CCCGAAGGCTTTGAAAACATCAAAAAGCTCCTGAAGGC-TTTTTGGAAACATCATGCATTGAAGG
260 CCCGAAGGCTTTGAAAACATC-AAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGAAGG
**
478462 ACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGAAGGCTTTTTGG
324 ACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG
478519 AAACATCATGCACTGAAGGACTTACAGATG
1 AAACATCATGCACTGAAGGACTTACAGATG
478549 TGAGAAATAG
Statistics
Matches: 397, Mismatches: 11, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
379 2 0.01
380 64 0.16
381 316 0.80
382 15 0.04
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (380 bp):
AAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCTGA
AGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACACGAAGGATTT
GAAAACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGAC
CCGAAGGCTTTGAAAACATCAAAAGCTCCCGAAGGCTTTTTTGGAAACATCATGCACTGAAGGAC
TTACAGATGACCCGAAGGATTTGAAAACATCAAAAAGCTCCCAAAGGCTTTTTGG
Found at i:479241 original size:22 final size:22
Alignment explanation
Indices: 479216--479270 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
479206 CATAAAGCTT
479216 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
479238 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
479260 TCATCTTTGAA
1 TCATCTTTGAA
479271 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:481875 original size:83 final size:82
Alignment explanation
Indices: 481801--482431 Score: 1039
Period size: 83 Copynumber: 7.6 Consensus size: 82
481791 GGTTCTGTAT
481801 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
481866 CAATAATTGGTTTTACCA
66 CAATAATTGGTTTTA-CA
481884 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
* *
481949 CAATGATTGGTTCTGTA-T
66 CAATAATTGGTT-T-TACA
481967 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
* *
482032 CAATGATGGGTTTTACCA
66 CAATAATTGGTTTTA-CA
482050 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
*
482115 CAATGATTGGTTTTACCA
66 CAATAATTGGTTTTA-CA
482133 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
482198 CAATAATTGGTTTTACCA
66 CAATAATTGGTTTTA-CA
* *
482216 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCT-CAAAT
*
482281 TCAATAACTGGTTTTACCA
65 TCAATAATTGGTTTTA-CA
* *
482300 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCT-CAAAT
*
482365 TCAATAACTGGTTTTACCA
65 TCAATAATTGGTTTTA-CA
* * *
482384 AACCAGATCAGATAACTCAAAGAACACTTCTAGAATATGCTATGAGCA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCA
482432 TATGTCATTT
Statistics
Matches: 532, Mismatches: 11, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
81 2 0.00
82 1 0.00
83 373 0.70
84 154 0.29
85 2 0.00
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.25
Consensus pattern (82 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGACGCTATGAGCACATTCATCTCTCAAATT
CAATAATTGGTTTTACA
Found at i:491036 original size:3 final size:3
Alignment explanation
Indices: 491030--491070 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
491020 TTTTTTTATT
*
491030 TAA TAA TAA TAA T-A TAA TAA -AT TAA TAA TTAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA
491071 AATGAACTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:491532 original size:45 final size:45
Alignment explanation
Indices: 491468--491560 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
491458 TTGGTATTGT
491468 AGGGAAGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGAGG
1 AGGGAAGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGAGG
* *
491513 AGGGATGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGTGG
1 AGGGAAGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGAGG
491558 AGG
1 AGG
491561 CAGAGCTCCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.27, C:0.09, G:0.45, T:0.19
Consensus pattern (45 bp):
AGGGAAGGATGGCATGGTAGGCAATGTTGGCATGCTAGGAAGAGG
Found at i:492909 original size:72 final size:72
Alignment explanation
Indices: 492792--492936 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
492782 TGTGTTTTTC
492792 GTTGTTGGATGTATCCTTTAGATCCTGGAAGCTGATCTCTAAGAAGTGGCAACAATGATGGGACT
1 GTTGTTGGATGTATCCTTTAGATCCTGGAAGCTGATCTCTAAGAAGTGGCAACAATGATGGGACT
492857 TGAAATA
66 TGAAATA
492864 GTTGTTGGATGTATCCTTTAGATCCTGGAAGCTGATCTCTAAGAAGTGGCAACAATGATGGGACT
1 GTTGTTGGATGTATCCTTTAGATCCTGGAAGCTGATCTCTAAGAAGTGGCAACAATGATGGGACT
492929 TGAAATA
66 TGAAATA
492936 G
1 G
492937 ATGTCACTGG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (72 bp):
GTTGTTGGATGTATCCTTTAGATCCTGGAAGCTGATCTCTAAGAAGTGGCAACAATGATGGGACT
TGAAATA
Found at i:494855 original size:54 final size:54
Alignment explanation
Indices: 494773--494876 Score: 199
Period size: 54 Copynumber: 1.9 Consensus size: 54
494763 GTTCTGACCT
*
494773 AATACTTGACTCGAATCAACTTATCATAGACTTCAACTAAATTTAAACCAGGTC
1 AATACTTGACTCAAATCAACTTATCATAGACTTCAACTAAATTTAAACCAGGTC
494827 AATACTTGACTCAAATCAACTTATCATAGACTTCAACTAAATTTAAACCA
1 AATACTTGACTCAAATCAACTTATCATAGACTTCAACTAAATTTAAACCA
494877 AATTTGATTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (54 bp):
AATACTTGACTCAAATCAACTTATCATAGACTTCAACTAAATTTAAACCAGGTC
Found at i:498149 original size:19 final size:19
Alignment explanation
Indices: 498125--498170 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
498115 TTGTAGGGTA
498125 TTGTATCCATGTCACTTTC
1 TTGTATCCATGTCACTTTC
498144 TTGTATCCATGTCACTTTC
1 TTGTATCCATGTCACTTTC
*
498163 TTCTATCC
1 TTGTATCC
498171 TTTAATGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.15, C:0.28, G:0.09, T:0.48
Consensus pattern (19 bp):
TTGTATCCATGTCACTTTC
Found at i:503310 original size:23 final size:23
Alignment explanation
Indices: 503265--503313 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
503255 TATTTTCAGA
* * *
503265 GAATTTAAGAATTTAGAGTTTGT
1 GAATTTAAGAATTGAAAGCTTGT
*
503288 GAATTTGAGAATTGAAAGCTTGT
1 GAATTTAAGAATTGAAAGCTTGT
503311 GAA
1 GAA
503314 CTGAAGTTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (23 bp):
GAATTTAAGAATTGAAAGCTTGT
Found at i:503657 original size:125 final size:127
Alignment explanation
Indices: 503382--503974 Score: 994
Period size: 126 Copynumber: 4.7 Consensus size: 127
503372 ACTATTTACA
503382 TGAAGGCGCGTTCCCGGGGGAGCGCCTTCCATTATTTTGTCAGAGAATATG-T-TCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
* * *
503445 TTATGTCACTCATGTCCCTCGGGGATACTATTCATACCAGTACCTATTATTTCTCATGGGACT
65 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
503508 TGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAG-ATATGTTATCATTGCCCTAT
1 TGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
*
503572 TATGTCACTCATGTCCATCGGGGAC-CTATTCATATCAGTACCTATTATTT-TCAGGGGACT
66 TATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
503632 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA-TTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
*
503696 -T-TGTCACTCATGTCCCTCGGGGACACTATTTATATCAGTACCTA-T-TTTCTCAGGGGACT
65 TTATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
*
503755 TGAAGGCGCGTTCCCGAGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
1 TGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
*
503820 TATGTCACTCATGTCCCTCAGGGACACTATTCATATCAGTACCTATTATTTCTCA-GGGACT
66 TATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
* *
503881 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTATTTTGTCAGAAAATATG-TATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGG-GCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTA
503945 TTATGTCACTCATGTCCCTCGGGGACACTA
65 TTATGTCACTCATGTCCCTCGGGGACACTA
503975 GATGGATTGC
Statistics
Matches: 442, Mismatches: 13, Indels: 24
0.92 0.03 0.05
Matches are distributed among these distances:
122 16 0.04
123 82 0.19
124 64 0.14
125 122 0.28
126 123 0.28
127 35 0.08
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.33
Consensus pattern (127 bp):
TGAAGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTAT
TATGTCACTCATGTCCCTCGGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGGACT
Found at i:503852 original size:249 final size:251
Alignment explanation
Indices: 503382--503974 Score: 1011
Period size: 249 Copynumber: 2.4 Consensus size: 251
503372 ACTATTTACA
*
503382 TGAAGGCGCGTTCCCGGGGGAGCGCCTTCCATTATTTTGTCAGAGAATATGT-TCATTGCCCTAT
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTATCATTGCCCTAT
* *
503446 TATGTCACTCATGTCCCTCGGGGATACTATTCATACCAGTACCTATTATTTCTCATGGGACTTGA
66 TATGTCACTCATGTCCCTCGGGGACACTATTCATACCAGTACCTATTATTTCTCAGGGGACTTGA
*
503511 AGGCGCGTTCCCGGGGGGCGCCTTCCATTATTTTGTCAGAGATATGTTATCATTGCCCTATTATG
131 AGGCGCGTTCCCGAGGGGCGCCTTCCATTATTTTGTCAGAGATATGTTATCATTGCCCTATTATG
*
503576 TCACTCATGTCCATCGGGGACCTATTCATATCAGTACCTATTATTT-TCAGGGGACT
196 TCACTCATGTCCATCAGGGACCTATTCATATCAGTACCTATTATTTCTCA-GGGACT
503632 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTA-TTTGTCAGAGAATATGTTATCATTGCCCTA
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATG-TATCATTGCCCTA
* *
503696 -T-TGTCACTCATGTCCCTCGGGGACACTATTTATATCAGTACCTA-T-TTTCTCAGGGGACTTG
65 TTATGTCACTCATGTCCCTCGGGGACACTATTCATACCAGTACCTATTATTTCTCAGGGGACTTG
503757 AAGGCGCGTTCCCGAGGGGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTA
130 AAGGCGCGTTCCCGAGGGGCGCCTTCCATTATTTTGTCAGAG-ATATGTTATCATTGCCCTATTA
*
503822 TGTCACTCATGTCCCTCAGGGACACTATTCATATCAGTACCTATTATTTCTCAGGGACT
194 TGTCACTCATGTCCATCAGGGAC-CTATTCATATCAGTACCTATTATTTCTCAGGGACT
* *
503881 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCTATTATTTTGTCAGAAAATATGTATCATTGCCCTAT
1 TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTATCATTGCCCTAT
503946 TATGTCACTCATGTCCCTCGGGGACACTA
66 TATGTCACTCATGTCCCTCGGGGACACTA
503975 GATGGATTGC
Statistics
Matches: 325, Mismatches: 10, Indels: 15
0.93 0.03 0.04
Matches are distributed among these distances:
247 56 0.17
248 44 0.14
249 133 0.41
250 54 0.17
251 38 0.12
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.33
Consensus pattern (251 bp):
TGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTATCATTGCCCTAT
TATGTCACTCATGTCCCTCGGGGACACTATTCATACCAGTACCTATTATTTCTCAGGGGACTTGA
AGGCGCGTTCCCGAGGGGCGCCTTCCATTATTTTGTCAGAGATATGTTATCATTGCCCTATTATG
TCACTCATGTCCATCAGGGACCTATTCATATCAGTACCTATTATTTCTCAGGGACT
Found at i:504401 original size:34 final size:32
Alignment explanation
Indices: 504363--504463 Score: 118
Period size: 34 Copynumber: 3.2 Consensus size: 32
504353 TTAAGTGAAA
*
504363 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAAT-TTAAATTTCGAATAATATAATTT-TAT
*
504397 TTTAATTTTAAATTTCGAATAATATTATTTT-T
1 TTTAA-TTTAAATTTCGAATAATATAATTTTAT
* *
504429 TTT--TTTTAATTTCGAACAATATAATTTTAT
1 TTTAATTTAAATTTCGAATAATATAATTTTAT
504459 TTTAA
1 TTTAA
504464 AAACATTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
29 22 0.38
30 4 0.07
32 4 0.07
33 1 0.02
34 26 0.45
35 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (32 bp):
TTTAATTTAAATTTCGAATAATATAATTTTAT
Found at i:504428 original size:29 final size:29
Alignment explanation
Indices: 504363--504464 Score: 91
Period size: 29 Copynumber: 3.4 Consensus size: 29
504353 TTAAGTGAAA
*
504363 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAATTTTAAATTTCGAATA--AT-A-TTAT-T
504397 TTTAATTTTAAATTTCGAATAATATTATT
1 TTTAATTTTAAATTTCGAATAATATTATT
** * * *
504426 TTTTTTTTTTAATTTCGAACAATA-TAAT
1 TTTAATTTTAAATTTCGAATAATATTATT
504454 TTT-ATTTTAAA
1 TTTAATTTTAAA
504465 AACATTTATC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.10
28 6 0.10
29 21 0.35
30 4 0.07
31 1 0.02
32 2 0.03
34 20 0.33
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.55
Consensus pattern (29 bp):
TTTAATTTTAAATTTCGAATAATATTATT
Found at i:505047 original size:40 final size:41
Alignment explanation
Indices: 504955--505060 Score: 160
Period size: 40 Copynumber: 2.6 Consensus size: 41
504945 TATGGTATAA
* *
504955 AACCCTGCGGGCTAGGCATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAA-CTGGCGGGCTAGGAATGT
*
504997 AACCCTGCGGGCTCGGAATGTAACTGGTGGG-TAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACTGGCGGGCTAGGAATGT
*
505037 AACCCGGCGGGCTCGGAATGTAAC
1 AACCCTGCGGGCTCGGAATGTAAC
505061 CCTACGGAGA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 32 0.53
41 7 0.12
42 21 0.35
ACGTcount: A:0.23, C:0.23, G:0.36, T:0.19
Consensus pattern (41 bp):
AACCCTGCGGGCTCGGAATGTAACTGGCGGGCTAGGAATGT
Found at i:505062 original size:21 final size:21
Alignment explanation
Indices: 504955--505062 Score: 130
Period size: 21 Copynumber: 5.2 Consensus size: 21
504945 TATGGTATAA
* *
504955 AACCCTGCGGGCTAGGCATGT
1 AACCCGGCGGGCTAGGAATGT
*
504976 AACCTGGCGGGCTAGGAATGT
1 AACCCGGCGGGCTAGGAATGT
* *
504997 AACCCTGCGGGCTCGGAATGT
1 AACCCGGCGGGCTAGGAATGT
* *
505018 AA-CTGGTGGG-TAGGAATGT
1 AACCCGGCGGGCTAGGAATGT
*
505037 AACCCGGCGGGCTCGGAATGT
1 AACCCGGCGGGCTAGGAATGT
505058 AACCC
1 AACCC
505063 TACGGAGATG
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
19 10 0.14
20 11 0.15
21 51 0.71
ACGTcount: A:0.22, C:0.24, G:0.35, T:0.19
Consensus pattern (21 bp):
AACCCGGCGGGCTAGGAATGT
Found at i:505097 original size:21 final size:21
Alignment explanation
Indices: 505071--505118 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
505061 CCTACGGAGA
*
505071 TGGCATATGAACTGGTGGGCT
1 TGGCATATGAACTGGAGGGCT
*
505092 TGGCATATGAAGTGGAGGGCT
1 TGGCATATGAACTGGAGGGCT
*
505113 GGGCAT
1 TGGCAT
505119 GTACCCCTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.42, T:0.25
Consensus pattern (21 bp):
TGGCATATGAACTGGAGGGCT
Found at i:506852 original size:31 final size:33
Alignment explanation
Indices: 506817--506885 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 33
506807 TCTAAATAAT
*
506817 AATAATTATATAAAT-ATTATTTTAATA-AAAA
1 AATAATTATATAAATAATTATATTAATATAAAA
* *
506848 AATAA-TATTTATATAATTATATTAATATAAAA
1 AATAATTATATAAATAATTATATTAATATAAAA
*
506880 TATAAT
1 AATAAT
506886 ATTTAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 7 0.23
31 16 0.52
32 8 0.26
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (33 bp):
AATAATTATATAAATAATTATATTAATATAAAA
Found at i:506860 original size:34 final size:32
Alignment explanation
Indices: 506809--506890 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 32
506799 TAATTAATTC
* * *
506809 TAAATAATAATAATTATATAAATATTATTTTAATA
1 TAAAAAATAAT-ATT-TATATA-ATTATATTAATA
506844 -AAAAAATAATATTTATATAATTATATTAATA
1 TAAAAAATAATATTTATATAATTATATTAATA
*
506875 TAAAATATAATATTTA
1 TAAAAAATAATATTTA
506891 AAAAAATACT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
31 11 0.26
32 19 0.45
33 3 0.07
34 9 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
TAAAAAATAATATTTATATAATTATATTAATA
Found at i:506889 original size:51 final size:49
Alignment explanation
Indices: 506793--506896 Score: 108
Period size: 49 Copynumber: 2.1 Consensus size: 49
506783 TAATTAGCAC
506793 AAAAAATAATTAATTCTAAATAATAATAATTATATAAATATTATTTTAATA
1 AAAAAATAATTAATTCTAAATAATAATAATTATATAAATATTA-TTTAA-A
* *
506844 AAAAAATAA-T-ATT-TATATAATTAT-ATTAATATAAAATATAATATTTAAA
1 AAAAAATAATTAATTCTAAATAATAATAATT-ATAT-AAATAT--TATTTAAA
506893 AAAA
1 AAAA
506897 TACTAATAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
47 3 0.06
48 13 0.28
49 14 0.30
50 6 0.13
51 11 0.23
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (49 bp):
AAAAAATAATTAATTCTAAATAATAATAATTATATAAATATTATTTAAA
Found at i:506904 original size:30 final size:31
Alignment explanation
Indices: 506839--506910 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 31
506829 AATATTATTT
* ** *
506839 TAATAAAAAAATAATATTTATATAATTATAT
1 TAATAAAAATATAATATTTATATAAAAATAC
506870 TAATATAAAATATAATATTTA-A-AAAAATAC
1 TAATA-AAAATATAATATTTATATAAAAATAC
506900 TAATAAAAATA
1 TAATAAAAATA
506911 AATTTCTTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 6 0.17
30 10 0.28
31 6 0.17
32 14 0.39
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (31 bp):
TAATAAAAATATAATATTTATATAAAAATAC
Found at i:508417 original size:13 final size:13
Alignment explanation
Indices: 508399--508423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
508389 TTAACATGAA
508399 ATATATATATATT
1 ATATATATATATT
508412 ATATATATATAT
1 ATATATATATAT
508424 ATGTTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATATATATT
Found at i:509706 original size:19 final size:19
Alignment explanation
Indices: 509682--509726 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
509672 AAACGTTTTT
509682 ATAGTACTATACGGTATGA
1 ATAGTACTATACGGTATGA
**
509701 ATAGTACTATATTGTATGA
1 ATAGTACTATACGGTATGA
*
509720 ACAGTAC
1 ATAGTAC
509727 CGTGAACAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (19 bp):
ATAGTACTATACGGTATGA
Found at i:509755 original size:21 final size:21
Alignment explanation
Indices: 509716--509756 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
509706 ACTATATTGT
*
509716 ATGAACAGTACCGTGAACAAA
1 ATGAACAGTACCATGAACAAA
* *
509737 ATGAATAGTACCATTAACAA
1 ATGAACAGTACCATGAACAA
509757 TAACTTCAGC
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:0.49, C:0.17, G:0.15, T:0.20
Consensus pattern (21 bp):
ATGAACAGTACCATGAACAAA
Found at i:511583 original size:15 final size:15
Alignment explanation
Indices: 511563--511600 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
511553 TGGAAAAATT
511563 CTACGTGAAAGTAAA
1 CTACGTGAAAGTAAA
511578 CTACGTGAAAGTAAA
1 CTACGTGAAAGTAAA
*
511593 CTAAGTGA
1 CTACGTGA
511601 CTATGTGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (15 bp):
CTACGTGAAAGTAAA
Found at i:512765 original size:23 final size:24
Alignment explanation
Indices: 512731--512810 Score: 92
Period size: 23 Copynumber: 3.4 Consensus size: 24
512721 CTCGTATAAT
*
512731 TTTGCAACCGAAGTACCGAGTAGAA
1 TTTGC-ACCGAAGTACCGCGTAGAA
* *
512756 TTTG-TCCGAAGAACCGCGTAGAA
1 TTTGCACCGAAGTACCGCGTAGAA
* *
512779 TTTGCACCGATGTGCCGCGTAGAA
1 TTTGCACCGAAGTACCGCGTAGAA
512803 TTT-CACCG
1 TTTGCACCG
512811 TAGTGCCATA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
23 25 0.53
24 18 0.38
25 4 0.09
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (24 bp):
TTTGCACCGAAGTACCGCGTAGAA
Found at i:512992 original size:23 final size:23
Alignment explanation
Indices: 512926--512985 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
512916 AATACATATA
512926 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
* *
512949 TGTACCGAAGGATCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
*
512972 TGTCCCGAATGACC
1 TGTCCCGAAGGACC
512986 GCCTAGACCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:515097 original size:15 final size:16
Alignment explanation
Indices: 515077--515114 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
515067 AATATGTTTA
515077 AATTTATGAATTT-TG
1 AATTTATGAATTTATG
515092 AATTTATGAATTTATG
1 AATTTATGAATTTATG
515108 AATTTAT
1 AATTTAT
515115 AGAGATTGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (16 bp):
AATTTATGAATTTATG
Found at i:515101 original size:8 final size:8
Alignment explanation
Indices: 515077--515114 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
515067 AATATGTTTA
515077 AATTTATG
1 AATTTATG
515085 AATTT-TG
1 AATTTATG
515092 AATTTATG
1 AATTTATG
515100 AATTTATG
1 AATTTATG
515108 AATTTAT
1 AATTTAT
515115 AGAGATTGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (8 bp):
AATTTATG
Found at i:515799 original size:16 final size:16
Alignment explanation
Indices: 515778--515818 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
515768 TAAAATTAAG
515778 TAATTTTTTATAT-AAT
1 TAATTTTTTA-ATGAAT
*
515794 TAATTTTTTAATGATT
1 TAATTTTTTAATGAAT
515810 TAATTTTTT
1 TAATTTTTT
515819 TTACAAAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TAATTTTTTAATGAAT
Found at i:515926 original size:2 final size:2
Alignment explanation
Indices: 515919--515970 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
515909 ATCTTCATTA
515919 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
515961 AT AT AT AT AT
1 AT AT AT AT AT
515971 TGATGAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:516464 original size:30 final size:31
Alignment explanation
Indices: 516430--516487 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
516420 TAAACTTAAA
*
516430 AGTTTTGCAATACTG-AATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
516460 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
516488 CCATATAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:516626 original size:81 final size:79
Alignment explanation
Indices: 516508--516711 Score: 294
Period size: 80 Copynumber: 2.6 Consensus size: 79
516498 ACAATAATTA
* * *
516508 TTTAAAATAAATC-ATCTATACAAATAA--A-TTAAAATAAATCAATCCATACAACTACAATAAT
1 TTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAAATCAATCCATACAAATACAATAAT
516569 AAATCAATCCATA-
66 AAATCAATCCATAT
* *
516582 TTTAAAATAAATCAATTCATACTAATAAATTATTTAAAAAATAAATC-ATCTATACAAATACAAT
1 TTTAAAATAAATCAATCCATACTAAT-AATTATTT--AAAATAAATCAATCCATACAAATACAAT
516646 AATAAATCAATCCATAT
63 AATAAATCAATCCATAT
516663 TTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAAATCAATCC
1 TTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAAATCAATCC
516712 TATTTTAAAA
Statistics
Matches: 114, Mismatches: 7, Indels: 13
0.85 0.05 0.10
Matches are distributed among these distances:
74 13 0.11
75 9 0.08
76 2 0.02
78 11 0.10
79 5 0.04
80 39 0.34
81 35 0.31
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (79 bp):
TTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAAATCAATCCATACAAATACAATAAT
AAATCAATCCATAT
Found at i:516672 original size:47 final size:46
Alignment explanation
Indices: 516619--516772 Score: 120
Period size: 46 Copynumber: 3.2 Consensus size: 46
516609 AATTATTTAA
516619 AAAATAAATCATCTATACAAATACAATAATAAATCAATCCATATTTT
1 AAAATAAATCATCTATACAAATA-AATAATAAATCAATCCATATTTT
* *
516666 AAAATAAATCAATCCATACTAATAATTATTTAAAATAAATCAATCC-TATTTT
1 AAAATAAATC-ATCTATACAAATAA--A--T--AATAAATCAATCCATATTTT
* * *
516718 AAAATCAATCCATACTATA-ATTATTTAA-AAT-AATCAATCCATA-TTT
1 AAAATAAAT-CAT-CTATACA--AATAAATAATAAATCAATCCATATTTT
516764 AAAATAAAT
1 AAAATAAAT
516773 TAATACATAC
Statistics
Matches: 87, Mismatches: 8, Indels: 25
0.73 0.07 0.21
Matches are distributed among these distances:
46 20 0.23
47 16 0.18
48 11 0.13
49 1 0.01
51 1 0.01
52 17 0.20
53 18 0.21
54 3 0.03
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (46 bp):
AAAATAAATCATCTATACAAATAAATAATAAATCAATCCATATTTT
Found at i:516719 original size:21 final size:22
Alignment explanation
Indices: 516692--516772 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 22
516682 TACTAATAAT
516692 TATTTAAAATAAATCAATCCTA
1 TATTTAAAATAAATCAATCCTA
* * *
516714 T-TTTAAAATCAATCCATACTATAA
1 TATTTAAAATAAATCAAT-C-CT-A
516738 TTATTTAAAAT-AATCAATCC-A
1 -TATTTAAAATAAATCAATCCTA
516759 TATTTAAAATAAAT
1 TATTTAAAATAAAT
516773 TAATACATAC
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
20 10 0.21
21 18 0.38
22 2 0.04
23 1 0.02
24 2 0.04
25 7 0.15
26 8 0.17
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.38
Consensus pattern (22 bp):
TATTTAAAATAAATCAATCCTA
Found at i:516795 original size:77 final size:80
Alignment explanation
Indices: 516714--516889 Score: 184
Period size: 79 Copynumber: 2.2 Consensus size: 80
516704 ATCAATCCTA
** *
516714 TTTTAAAATCAATCCATACTATA-ATTA-TTTAA-AAT-AATCAATCCATA-TTTAAAATAAATT
1 TTTTAAAATCAATCCATACTATACA--ACTACAATAATAAATCAATCCATATTTTAAAATAAATC
516774 AATACATACTAATAAAT
64 AATACATACTAATAAAT
* * * *
516791 TTTTAAAATAAATCAAT-CTATACAACTACAATAATAAATTAATTCATATTTTAAAATAAATCAA
1 TTTTAAAATCAATCCATACTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAA
*
516855 TATATACTAATAAAT
66 TACATACTAATAAAT
**
516870 TTAAAATAAATCAATCCATA
1 TT-TTA-AAATCAATCCATA
516890 TTTAAAATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
75 1 0.01
76 8 0.10
77 19 0.24
78 10 0.13
79 30 0.38
80 1 0.01
81 10 0.13
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.36
Consensus pattern (80 bp):
TTTTAAAATCAATCCATACTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAA
TACATACTAATAAAT
Found at i:516841 original size:98 final size:99
Alignment explanation
Indices: 516646--516855 Score: 238
Period size: 98 Copynumber: 2.1 Consensus size: 99
516636 CAAATACAAT
*
516646 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAATTATTTAAAATAAATCAATC
1 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAATTATTTAAAATAAATCAATC
* *
516711 CTATTTTAAAATCAATCCATACTATAATTA-TTTAA
66 CTA--TTAAAATCAATCAATAATATAATTATTTTAA
*
516746 AAT-AATCAATCCATA-TTTAAAATAAATTAATACATACTAATAAATT-TTTAAAATAAATCAAT
1 AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAAT-AATTATTTAAAATAAATCAAT
*
516808 -CTA-TACAACTACAAT-AATAA-ATTAATTCATATTTTAA
65 CCTATTA-AAAT-CAATCAATAATA-TAA-T--TATTTTAA
516845 AATAAATCAAT
1 AATAAATCAAT
516856 ATATACTAAT
Statistics
Matches: 96, Mismatches: 5, Indels: 18
0.81 0.04 0.15
Matches are distributed among these distances:
94 3 0.03
95 9 0.09
96 5 0.05
97 3 0.03
98 42 0.44
99 24 0.25
100 10 0.10
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.36
Consensus pattern (99 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAATTATTTAAAATAAATCAATC
CTATTAAAATCAATCAATAATATAATTATTTTAA
Found at i:516852 original size:129 final size:128
Alignment explanation
Indices: 516536--516939 Score: 429
Period size: 129 Copynumber: 3.2 Consensus size: 128
516526 TACAAATAAA
* * *
516536 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTAAAATAAATCAATTC
1 TTAAAATAAATCAATCCATACAACTACAATAATAAATTAATTCATATTTTAAAATAAATCAATAC
* * * *
516600 ATACTAATAAATTATTTAAAA-AATAAAT-CATCTATACAAATACAA-TAATAAAT-C-AATCCA
66 ATACTAAT-AATTATTTAAAATAATCAATCCATATTTA-AAATA-AATTAATACATACTAAT--A
516660 TATT
126 T-TT
* * * * ** ***
516664 TTAAAATAAATCAATCCATACTAA-TA-ATTATTTAAAATAAATCA-ATCCTATTTTAAAATCAA
1 TTAAAATAAATCAATCCATAC-AACTACAATA-ATAAATTAATTCATATTTTAAAAT-AAATCAA
*
516726 TCCATACT-ATAATTATTTAAAATAATCAATCCATATTTAAAATAAATTAATACATACTAATAAA
63 TACATACTAATAATTATTTAAAATAATCAATCCATATTTAAAATAAATTAATACATACTAAT--A
516790 TTT
126 TTT
* *
516793 TTAAAATAAATCAATCTATACAACTACAATAATAAATTAATTCATATTTTAAAATAAATCAATAT
1 TTAAAATAAATCAATCCATACAACTACAATAATAAATTAATTCATATTTTAAAATAAATCAATAC
516858 ATACTAATAA--ATTTAAAATAAATCAATCCATATTTAAAATAAATT-ATACATACTAATATTAT
66 ATACTAATAATTATTTAAAAT-AATCAATCCATATTTAAAATAAATTAATACATACTAATATT-T
516920 TTAAAATAAATCAATCCATA
1 TTAAAATAAATCAATCCATA
516940 TTTTAAAATA
Statistics
Matches: 230, Mismatches: 31, Indels: 31
0.79 0.11 0.11
Matches are distributed among these distances:
126 3 0.01
127 38 0.17
128 77 0.33
129 95 0.41
130 17 0.07
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.35
Consensus pattern (128 bp):
TTAAAATAAATCAATCCATACAACTACAATAATAAATTAATTCATATTTTAAAATAAATCAATAC
ATACTAATAATTATTTAAAATAATCAATCCATATTTAAAATAAATTAATACATACTAATATTT
Found at i:516923 original size:79 final size:76
Alignment explanation
Indices: 516758--516939 Score: 192
Period size: 79 Copynumber: 2.3 Consensus size: 76
516748 TAATCAATCC
* *
516758 ATATTTAAAATAAATTAATACATACTAATAAATTTTTAAAATAAATCAATCTATACAACTACAAT
1 ATATTTAAAATAAATCAATACATACTAATAAA-TTTTAAAATAAATCAATCTATACAAATACAAT
*
516823 AATAAATTAATT
65 AATAAACTAATT
*
516835 CATATTTTAAAATAAATCAATATATACTAATAAA-TTTAAAATAAATCAATCCATATTTA-AAAT
1 -ATA-TTTAAAATAAATCAATACATACTAATAAATTTTAAAATAAATCAAT-C-TA--TACAAAT
*
516898 A-AATTATACATACTAA-T
60 ACAATAATA-A-ACTAATT
*
516915 ATTATTTAAAATAAATCAATCCATA
1 A-TATTTAAAATAAATCAATACATA
516940 TTTTAAAATA
Statistics
Matches: 89, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
77 16 0.18
78 4 0.04
79 55 0.62
80 8 0.09
81 6 0.07
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (76 bp):
ATATTTAAAATAAATCAATACATACTAATAAATTTTAAAATAAATCAATCTATACAAATACAATA
ATAAACTAATT
Found at i:516984 original size:52 final size:52
Alignment explanation
Indices: 516823--517355 Score: 315
Period size: 52 Copynumber: 10.7 Consensus size: 52
516813 CAACTACAAT
* * *
516823 AATAAATTAATTCATATTTTAAAATAAATCAATAT-ATACTAATAAATT-TAA
1 AATAAATCAATCCATATTTTAAAATAAATCAAT-TCATACTAATAAATTATTA
* *
516874 AATAAATCAATCCATA-TTTAAAATAAAT-TATACATACTAAT--ATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTA-TT-A
516924 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTA
* * ** * *
516976 AATAAATC-ATACA-ACTACAATATAAATCAA-TC-TA-T-TTAAA--A--A
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTA
** ** * * *
517018 AATTCATCTAATAAAT-TATTTAAAATAAATCAA-TCGTATTTAAAATAAATCAATTCA
1 AATAAATC-AATCCATAT-TTTAAAATAAATCAATTCATA-CT--AATAAAT-TATT-A
* * * * * *
517075 TATTAAT-AA-AC-TA-TTAAAAAT-AATCAATCCATAC-AACT--A-CA-T-
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAA-TAAATTATTA
* *
517117 AATAAATCAATCCATGTTTTAAAAT-AATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTA-TT-A
* *
517170 AATAATTCAATCTATATTTTAAAATAAATCAA-TCGATACTAAT-AATTATTTA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTC-ATACTAATAAATTA-TTA
*
517222 AA-ATAATCAATCCATATTTTAAAATAAATCAA-TC-CACTAATAAATTATTTAA
1 AATA-AATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTA-TT-A
* *
517274 AATAAATCAATCCATATTTT-AAATAAATCAATCCATACTAATAAATCATT-
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTA
*
517324 --TAAAT-AAT---TATTTTAAAATAAATCAATCCATA
1 AATAAATCAATCCATATTTTAAAATAAATCAATTCATA
517356 TTTTTAAAAT
Statistics
Matches: 389, Mismatches: 45, Indels: 102
0.73 0.08 0.19
Matches are distributed among these distances:
42 12 0.03
43 2 0.01
44 13 0.03
45 33 0.08
46 27 0.07
47 10 0.03
48 11 0.03
49 15 0.04
50 48 0.12
51 61 0.16
52 83 0.21
53 46 0.12
54 20 0.05
55 2 0.01
57 6 0.02
ACGTcount: A:0.52, C:0.12, G:0.01, T:0.36
Consensus pattern (52 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATTCATACTAATAAATTATTA
Done.