Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005876.1 Hibiscus syriacus cultivar Beakdansim tig00013808_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: 777889
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:372166 original size:22 final size:22
Alignment explanation
Indices: 372141--372184 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
372131 GATTTAGATA
372141 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
372163 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
372185 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:372397 original size:20 final size:20
Alignment explanation
Indices: 372372--372465 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
372362 GATTATGTAT
372372 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
372392 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
372412 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
372433 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
372453 TATCGCATTGCGA
1 TATCGCGTTGCGA
372466 TTTTCTCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:372466 original size:20 final size:20
Alignment explanation
Indices: 372352--372466 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
372342 CGCTTTGAAA
*
372352 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
372373 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
372393 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
372413 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
372434 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
372454 ATCGCATTGCGAT
1 ATCGCATTGCGAT
372467 TTTCTCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:372487 original size:41 final size:41
Alignment explanation
Indices: 372392--372487 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
372382 CGAAAGTCAG
* * * * *
372392 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTTCAA
* *
372433 TATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCTCAA
1 TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTT-TCAA
372475 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
372488 TTACTTATTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 43 0.93
42 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (41 bp):
TATCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTTCAA
Found at i:372499 original size:20 final size:21
Alignment explanation
Indices: 372455--372506 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
372445 ATAGTCAGTA
*
372455 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACTCAAT
* *
372476 TCGCGTTGCGATTTACT-TAT
1 TCGCATTGCGATTTACTCAAT
372496 TCGCATTGCGA
1 TCGCATTGCGA
372507 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 12 0.44
21 15 0.56
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTACTCAAT
Found at i:372890 original size:20 final size:20
Alignment explanation
Indices: 372867--372969 Score: 152
Period size: 20 Copynumber: 5.1 Consensus size: 20
372857 ATTCGCGTTG
372867 CATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
* *
372887 CATTTCGCGTTGCGATAGTTG
1 CATTTCGCGTTGCGAT-TTTC
* **
372908 AAAATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
372928 CATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
372948 CATTTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATTTTC
372968 CA
1 CA
372970 AATTCGTTGC
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 57 0.79
21 15 0.21
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (20 bp):
CATTTCGCGTTGCGATTTTC
Found at i:372918 original size:41 final size:41
Alignment explanation
Indices: 372871--372986 Score: 148
Period size: 41 Copynumber: 2.9 Consensus size: 41
372861 GCGTTGCATT
*
372871 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAA
* * **
372912 TCGCGTTGCGATTTTCCATTTCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAA
*
372952 TCGCGTTGCGATTTTCCAAATT--CGTTGCGATAGTT
1 TCGCGTTGCGATTTTCC-ATTTCGCGTTGCGATAGTT
372987 TACAGTTGTC
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 9 0.14
40 22 0.33
41 35 0.53
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.41
Consensus pattern (41 bp):
TCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAA
Found at i:373005 original size:61 final size:61
Alignment explanation
Indices: 372870--373010 Score: 171
Period size: 61 Copynumber: 2.3 Consensus size: 61
372860 CGCGTTGCAT
* * *
372870 TTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTACAG
* * *
372931 TTCGCGTTGCGATTTTCCATTTCGCGTTGCGAT-TTTCCAAAT-TCGTTGCGATAGTTTACAG
1 TTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAATCGCGTTGCGAT--TTTACAG
*
372992 TT-GTCGTTACGATTTTCCA
1 TTCG-CGTTGCGATTTTCCA
373011 AATTCGTTGT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
59 9 0.13
60 7 0.10
61 54 0.77
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.41
Consensus pattern (61 bp):
TTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTTCAAAATCGCGTTGCGATTTTACAG
Found at i:373124 original size:6 final size:6
Alignment explanation
Indices: 373115--373165 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
373105 CATTACCATT
373115 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
373163 ACC
1 ACC
373166 CTACCCGAGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:373820 original size:19 final size:19
Alignment explanation
Indices: 373761--373845 Score: 98
Period size: 19 Copynumber: 4.3 Consensus size: 19
373751 TCTTTTTTTT
373761 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
* * * **
373780 CAACAACAACTGTAGACTATCG
1 CAAC--GAA-TTTGGAAAATCG
373802 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
373821 CAACGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCG
373840 CAACGA
1 CAACGA
373846 CAACTGTAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
19 37 0.70
20 2 0.04
21 2 0.04
22 12 0.23
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (19 bp):
CAACGAATTTGGAAAATCG
Found at i:373854 original size:60 final size:60
Alignment explanation
Indices: 373761--373885 Score: 191
Period size: 60 Copynumber: 2.1 Consensus size: 60
373751 TCTTTTTTTT
*
373761 CAACGAATTTGGAAAATCGCAACAACAACTGTAGACT-ATCGCAA-CGAATTTGGAAAATCG
1 CAACGAATTTGGAAAATCGCAACAACAACTGTAGA-TGATCGCAACCGAA-ATGGAAAATCG
*
373821 CAACGAATTTGGAAAATCGCAACGACAACTGTAGATGATCGCAACGCGAAATGGAAAATCG
1 CAACGAATTTGGAAAATCGCAACAACAACTGTAGATGATCGCAAC-CGAAATGGAAAATCG
373882 CAAC
1 CAAC
373886 ACGAATTTCA
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
59 1 0.02
60 41 0.68
61 14 0.23
62 4 0.07
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.18
Consensus pattern (60 bp):
CAACGAATTTGGAAAATCGCAACAACAACTGTAGATGATCGCAACCGAAATGGAAAATCG
Found at i:373985 original size:41 final size:41
Alignment explanation
Indices: 373858--374037 Score: 209
Period size: 41 Copynumber: 4.4 Consensus size: 41
373848 ACTGTAGATG
*
373858 ATCGCAACGCGAAATGGAAAATCGCAACACGAATTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
* ** ** * * * ** *
373899 ATCGTAACGCGATTTTCAACTATCGCAACGTGAAATGGAA-A
1 ATCGCAACGCGAAATGGAA-AATCGCAACGCGAATTTCAACT
*
373940 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
* *
373981 ATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
374022 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
374038 CAACGCGAAT
Statistics
Matches: 112, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
40 14 0.12
41 84 0.75
42 14 0.12
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACT
Found at i:373986 original size:21 final size:21
Alignment explanation
Indices: 373878--374034 Score: 122
Period size: 21 Copynumber: 7.6 Consensus size: 21
373868 GAAATGGAAA
*
373878 ATCGCAACACGAATTTCAACT
1 ATCGCAACGCGAATTTCAACT
* *
373899 ATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGAATTTCAACT
* * ** *
373920 ATCGCAACGTGAAATGGAA-A
1 ATCGCAACGCGAATTTCAACT
* ** *
373940 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAATTTCAACT
*
373960 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAATTTCAACT
* ** *
373981 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGAATTTCAACT
* *
374001 AACGCAACGCGATTTTCAACT
1 ATCGCAACGCGAATTTCAACT
374022 ATCGCAACGCGAA
1 ATCGCAACGCGAA
374035 ATGCAACGCG
Statistics
Matches: 105, Mismatches: 29, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
20 48 0.46
21 57 0.54
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAATTTCAACT
Found at i:373995 original size:61 final size:62
Alignment explanation
Indices: 373858--374033 Score: 237
Period size: 61 Copynumber: 2.9 Consensus size: 62
373848 ACTGTAGATG
* * * * *
373858 ATCGCAACGCGAAATGGAAAATCGCAACACGAATTTCAACTATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGCAACAATCGCAACGCGATTTTCAACT
* *
373920 ATCGCAACGTGAAATGGAAAATCGCAACGCGAAATGGAA-AATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGCAACAATCGCAACGCGATTTTCAACT
* ** * *
373981 ATCGCAACGCGAAATGGAAAAACGCAACGCGATTTTCAACTATCGCAACGCGA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGCAACAATCGCAACGCGA
374034 AATGCAACGC
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
61 53 0.54
62 46 0.46
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (62 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGCAACAATCGCAACGCGATTTTCAACT
Found at i:374962 original size:60 final size:60
Alignment explanation
Indices: 374846--374963 Score: 182
Period size: 60 Copynumber: 2.0 Consensus size: 60
374836 TTTTATAACG
* * * *
374846 ACGACTCACATTTTAAATTGATCTTTAAATTTTAAAATATTCGATTTTAGTTTTTAAATT
1 ACGACTCACATTTTAAATTGATCTCTAAATTTTAAAATATTCGATTTCAATATTTAAATT
* *
374906 ACGACTCACGTTTTAAATTGATCTCTAAATTTTAAAATATTCTATTTCAATATTTAAA
1 ACGACTCACATTTTAAATTGATCTCTAAATTTTAAAATATTCGATTTCAATATTTAAA
374964 ACATTAGTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
60 52 1.00
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (60 bp):
ACGACTCACATTTTAAATTGATCTCTAAATTTTAAAATATTCGATTTCAATATTTAAATT
Found at i:375648 original size:20 final size:21
Alignment explanation
Indices: 375612--375654 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
375602 ACATACAATT
*
375612 ATAAATTATATAAAATTTTCA
1 ATAAATTATATAAAATTTCCA
375633 ATAAATTATA-AAAATTTCCA
1 ATAAATTATATAAAATTTCCA
375653 AT
1 AT
375655 TTCTTTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAATTATATAAAATTTCCA
Found at i:380995 original size:41 final size:41
Alignment explanation
Indices: 380927--381007 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
380917 CCAACGGTGT
380927 TGAAAATTGATACACGAATATACCAAAGATGAACTGATAAC
1 TGAAAATTGATACACGAATATACCAAAGATGAACTGATAAC
* * * *
380968 TGAACATTGATACACGAATGTATCAAAGCTGAACTGATAA
1 TGAAAATTGATACACGAATATACCAAAGATGAACTGATAA
381008 GTACTCACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.46, C:0.15, G:0.16, T:0.23
Consensus pattern (41 bp):
TGAAAATTGATACACGAATATACCAAAGATGAACTGATAAC
Found at i:381085 original size:16 final size:16
Alignment explanation
Indices: 381064--381094 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
381054 ATATACAATG
381064 GACTTATATTTATCAA
1 GACTTATATTTATCAA
381080 GACTTATATTTATCA
1 GACTTATATTTATCA
381095 TCATAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (16 bp):
GACTTATATTTATCAA
Found at i:381173 original size:17 final size:17
Alignment explanation
Indices: 381122--381174 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
381112 AATATGTATC
381122 TGATAACTGTAAAATATT
1 TGATAACTGT-AAATATT
* *
381140 TGAT-ATTGATAATTATT
1 TGATAACTG-TAAATATT
381157 TGATAACTGTAAATATT
1 TGATAACTGTAAATATT
381174 T
1 T
381175 AGAATTCATC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (17 bp):
TGATAACTGTAAATATT
Found at i:390121 original size:21 final size:21
Alignment explanation
Indices: 390095--390134 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
390085 TGTCAGGAAC
390095 CTACTGAAGTA-CTTAATGATT
1 CTACTGAAG-AGCTTAATGATT
390116 CTACTGAAGAGCTTAATGA
1 CTACTGAAGAGCTTAATGA
390135 CTCTGTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (21 bp):
CTACTGAAGAGCTTAATGATT
Found at i:396968 original size:24 final size:23
Alignment explanation
Indices: 396936--397010 Score: 68
Period size: 24 Copynumber: 3.3 Consensus size: 23
396926 CATGGCCATG
396936 TGCATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AAGGGA
*
396960 TGCATCGAT--ACA-TCGATGGG-
1 TGCATCGATGCACATTC-AAGGGA
* *
396980 TGTATCGATGCATATTCAAGAGGA
1 TGCATCGATGCACATTCAAG-GGA
397004 TGCATCG
1 TGCATCG
397011 GTACACTCTC
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
20 8 0.20
21 6 0.15
22 7 0.17
23 4 0.10
24 15 0.38
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGGA
Found at i:397027 original size:44 final size:44
Alignment explanation
Indices: 396939--397036 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
396929 GGCCATGTGC
* *
396939 ATCGATGCACATTCAAAGGGATGCATCGATACATCGATGGGTGT
1 ATCGATGCATATTCAAAGGGATGCATCGATACATCGATGAGTGT
* **
396983 ATCGATGCATATTC-AAGAGGATGCATCGGTACACTCTCT-AGTGT
1 ATCGATGCATATTCAAAG-GGATGCATCGATACA-TCGATGAGTGT
397027 ATCGATGCAT
1 ATCGATGCAT
397037 TATGCACAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
43 3 0.06
44 41 0.87
45 3 0.06
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCGATGCATATTCAAAGGGATGCATCGATACATCGATGAGTGT
Found at i:400877 original size:22 final size:21
Alignment explanation
Indices: 400835--400874 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
400825 AAGACTATTT
400835 TCATTTTTTAATTTTGAAATA
1 TCATTTTTTAATTTTGAAATA
400856 TCATTTTTGT-ATTTTGAAA
1 TCATTTTT-TAATTTTGAAA
400875 ATAAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (21 bp):
TCATTTTTTAATTTTGAAATA
Found at i:402861 original size:65 final size:62
Alignment explanation
Indices: 402782--402906 Score: 153
Period size: 65 Copynumber: 1.9 Consensus size: 62
402772 TTCGACCGTT
* * *
402782 TGAACACTTAGTGCATCGGTGCACTAAGG-GTGCATCGATGCATAAAATGCATTCGATGTTTTCA
1 TGAAAACTTAGTGCATCGATGCA-T--GGTGTGCATCGATGCATAAAATGCATCCGATGTTTTCA
*
402846 TGAAAACTTGAGTGCATCGATGCATGGTATGTGTATCGATGCATAAAATGCATCCGATGTT
1 TGAAAACTT-AGTGCATCGATGCATGG--TGTGCATCGATGCATAAAATGCATCCGATGTT
402907 CAATTTATTC
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
62 2 0.04
64 9 0.17
65 42 0.79
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (62 bp):
TGAAAACTTAGTGCATCGATGCATGGTGTGCATCGATGCATAAAATGCATCCGATGTTTTCA
Found at i:403781 original size:17 final size:17
Alignment explanation
Indices: 403739--403801 Score: 56
Period size: 16 Copynumber: 3.6 Consensus size: 17
403729 GCACGCCAAC
*
403739 TATCAGTTTTTATCGGT
1 TATCAGTTTTTATCGAT
*
403756 T-TCAGTTTTTTTCGAT
1 TATCAGTTTTTATCGAT
*
403772 TATCATTTTTTGGATCGAT
1 TATCAGTTTTT--ATCGAT
* *
403791 TTTCGGTTTTT
1 TATCAGTTTTT
403802 TTTTATCGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
16 14 0.39
17 9 0.25
19 13 0.36
ACGTcount: A:0.14, C:0.11, G:0.16, T:0.59
Consensus pattern (17 bp):
TATCAGTTTTTATCGAT
Found at i:404908 original size:26 final size:27
Alignment explanation
Indices: 404872--404923 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
404862 TGTGTTTTCT
404872 TTTTTTAAAAAATATATAT-AATTTTA
1 TTTTTTAAAAAATATATATAAATTTTA
* *
404898 TTTTTTAAAAATTTTATATAAATTTT
1 TTTTTTAAAAAATATATATAAATTTT
404924 TTAAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTTTAAAAAATATATATAAATTTTA
Found at i:405640 original size:87 final size:87
Alignment explanation
Indices: 405494--405666 Score: 251
Period size: 87 Copynumber: 2.0 Consensus size: 87
405484 CACTTCACAA
* * * * * *
405494 TACTGACGTGACAATTAACGGTGGTTGGTGACGTGACTGATAACGTGGCAGATAGACTAAATTAG
1 TACTGACGTGACAATCAACAGTGGTTAGTGACGTGACTGATAACATGACAAATAGACTAAATT-G
*
405559 TTTTTTTAG-TTGAGTTT-AAAGG
65 ATTTTTT-GTTTGAGTTTGAAAGG
405581 TACTGACGTGACAATCAACAGTGGTTAGTGACGTGACTGATAACATGACAAATAGACTAAATTGA
1 TACTGACGTGACAATCAACAGTGGTTAGTGACGTGACTGATAACATGACAAATAGACTAAATTGA
405646 TTTTTTGTTTGAGTTTGAAAG
66 TTTTTTGTTTGAGTTTGAAAG
405667 TTAAATTGGC
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
85 1 0.01
86 15 0.19
87 61 0.79
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (87 bp):
TACTGACGTGACAATCAACAGTGGTTAGTGACGTGACTGATAACATGACAAATAGACTAAATTGA
TTTTTTGTTTGAGTTTGAAAGG
Found at i:409169 original size:2 final size:2
Alignment explanation
Indices: 409113--409155 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
409103 TGTTTTCATT
409113 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
409155 T
1 T
409156 TAAATTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:409436 original size:24 final size:23
Alignment explanation
Indices: 409401--409446 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
409391 AATTTCTAAT
* *
409401 TTAAAATAAAAATTATTAAAAAA
1 TTAAAATAAAAAATATCAAAAAA
*
409424 TTAAATATCAAAAATATCAAAAA
1 TTAAA-ATAAAAAATATCAAAAA
409447 TAAAATTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
TTAAAATAAAAAATATCAAAAAA
Found at i:409669 original size:24 final size:22
Alignment explanation
Indices: 409642--409690 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 22
409632 TTAAACAGAT
409642 ATTTTAAAGTGTAATAAAAATAAA
1 ATTTTAAAGT-T-ATAAAAATAAA
*
409666 ATTTTAAAGTTATAAAATTAAA
1 ATTTTAAAGTTATAAAAATAAA
409688 ATT
1 ATT
409691 AGGTATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 13 0.54
23 1 0.04
24 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (22 bp):
ATTTTAAAGTTATAAAAATAAA
Found at i:410103 original size:2 final size:2
Alignment explanation
Indices: 410098--410139 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
410088 ACCTTTTTTA
410098 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
410140 TTGTATAGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:411479 original size:2 final size:2
Alignment explanation
Indices: 411472--411526 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
411462 CACAACAAAT
411472 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
411514 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
411527 TAACTACATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:411733 original size:25 final size:25
Alignment explanation
Indices: 411690--411740 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
411680 TGGTTTTAAA
*
411690 ATAAATATTTTAAAGATATAGAATT
1 ATAAATATTTTAAAGATATAAAATT
*
411715 ATAAA-ATTTTAAGATATATAAAATT
1 ATAAATATTTTAA-AGATATAAAATT
411740 A
1 A
411741 AATTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (25 bp):
ATAAATATTTTAAAGATATAAAATT
Found at i:411742 original size:23 final size:25
Alignment explanation
Indices: 411686--411743 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
411676 TAGTTGGTTT
411686 TAAAA-TAAATATTTTAAAG--ATA
1 TAAAATTAAATATTTTAAAGATATA
* *
411708 TAGAATTATAAAATTTT-AAGATATA
1 TAAAATTA-AATATTTTAAAGATATA
411733 TAAAATTAAAT
1 TAAAATTAAAT
411744 TATAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
22 4 0.14
23 5 0.18
24 9 0.32
25 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (25 bp):
TAAAATTAAATATTTTAAAGATATA
Found at i:416723 original size:9 final size:9
Alignment explanation
Indices: 416701--416734 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
416691 AAAGAGAGAA
416701 AAAT-AAAT
1 AAATAAAAT
416709 AAATAAAAT
1 AAATAAAAT
*
416718 AGATAAAAT
1 AAATAAAAT
416727 AAATAAAA
1 AAATAAAA
416735 CAAAAGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:416946 original size:3 final size:3
Alignment explanation
Indices: 416940--416965 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
416930 TAATATACCA
416940 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
416966 CAAAACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:417290 original size:8 final size:9
Alignment explanation
Indices: 417223--417290 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
417213 AAAATAACGT
417223 ATAAAAA-A
1 ATAAAAATA
* *
417231 ATAATAGTA
1 ATAAAAATA
417240 ATAAGAAATA
1 ATAA-AAATA
*
417250 AGAAAAA-A
1 ATAAAAATA
* *
417258 AGTGAACA-A
1 A-TAAAAATA
417267 ATAAAAATA
1 ATAAAAATA
417276 ATAAAAATA
1 ATAAAAATA
417285 ATAAAA
1 ATAAAA
417291 GGACTAAATT
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
8 11 0.24
9 29 0.63
10 6 0.13
ACGTcount: A:0.74, C:0.01, G:0.07, T:0.18
Consensus pattern (9 bp):
ATAAAAATA
Found at i:417713 original size:21 final size:21
Alignment explanation
Indices: 417689--417731 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
417679 CGAAAGCTTT
417689 TCAAAAC-CACTTTTTTAAAAA
1 TCAAAACGCA-TTTTTTAAAAA
*
417710 TCAAAACGTATTTTTTAAAAA
1 TCAAAACGCATTTTTTAAAAA
417731 T
1 T
417732 ATAAACCTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (21 bp):
TCAAAACGCATTTTTTAAAAA
Found at i:418428 original size:21 final size:21
Alignment explanation
Indices: 418398--418508 Score: 118
Period size: 21 Copynumber: 5.4 Consensus size: 21
418388 CAACTCAGTT
418398 TCCAAATTCGCGTTGCGATAG
1 TCCAAATTCGCGTTGCGATAG
**
418419 TCGGAATTCGCGTTGCGATAG
1 TCCAAATTCGCGTTGCGATAG
* * **
418440 TCCAAAAT--CATTGCGATTT
1 TCCAAATTCGCGTTGCGATAG
* **
418459 TCTAAATTCGCGTTGCGATTT
1 TCCAAATTCGCGTTGCGATAG
418480 TCCAAATTCGCGTTGCGATAG
1 TCCAAATTCGCGTTGCGATAG
*
418501 TCCGAATT
1 TCCAAATT
418509 AAGCTTATCT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
19 14 0.19
21 59 0.81
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (21 bp):
TCCAAATTCGCGTTGCGATAG
Found at i:418621 original size:6 final size:6
Alignment explanation
Indices: 418610--418652 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
418600 GAAGACACGT
**
418610 ATTACC ATTACC ATTACC ATTACC ATTACC ACGACC ATTACC A
1 ATTACC ATTACC ATTACC ATTACC ATTACC ATTACC ATTACC A
418653 CGACCACGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.35, C:0.35, G:0.02, T:0.28
Consensus pattern (6 bp):
ATTACC
Found at i:418633 original size:18 final size:18
Alignment explanation
Indices: 418610--418664 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
418600 GAAGACACGT
**
418610 ATTACCATTACCATTACC
1 ATTACCATTACCACGACC
418628 ATTACCATTACCACGACC
1 ATTACCATTACCACGACC
**
418646 ATTACCACGACCACGACC
1 ATTACCATTACCACGACC
418664 A
1 A
418665 CGACCCCGAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.35, C:0.38, G:0.05, T:0.22
Consensus pattern (18 bp):
ATTACCATTACCACGACC
Found at i:418653 original size:12 final size:12
Alignment explanation
Indices: 418619--418669 Score: 66
Period size: 12 Copynumber: 4.2 Consensus size: 12
418609 TATTACCATT
**
418619 ACCATTACCATT
1 ACCATTACCACG
418631 ACCATTACCACG
1 ACCATTACCACG
418643 ACCATTACCACG
1 ACCATTACCACG
**
418655 ACCACGACCACG
1 ACCATTACCACG
418667 ACC
1 ACC
418670 CCGACCCGAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.33, C:0.43, G:0.08, T:0.16
Consensus pattern (12 bp):
ACCATTACCACG
Found at i:418658 original size:6 final size:6
Alignment explanation
Indices: 418637--418680 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
418627 CATTACCATT
** *
418637 ACCACG ACCATT ACCACG ACCACG ACCACG ACCCCG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
418681 CGAGACGAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
5 5 0.15
6 28 0.85
ACGTcount: A:0.30, C:0.52, G:0.14, T:0.05
Consensus pattern (6 bp):
ACCACG
Found at i:419403 original size:6 final size:6
Alignment explanation
Indices: 419358--419407 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
419348 GTCCGTCTCG
*
419358 GGTCG- GGTCG- GGTCG- GGTCGT GGTTGT GGTCGT AGAGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT -G-GTCGT GGTCGT
419405 GGT
1 GGT
419408 AATACGTGTC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
5 15 0.38
6 18 0.45
7 2 0.05
8 5 0.12
ACGTcount: A:0.04, C:0.14, G:0.52, T:0.30
Consensus pattern (6 bp):
GGTCGT
Found at i:419583 original size:21 final size:21
Alignment explanation
Indices: 419558--419597 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
419548 AATGATTTTG
419558 GACTATCGCAACGCGAATTCC
1 GACTATCGCAACGCGAATTCC
419579 GACTATCGCAACGCGAATT
1 GACTATCGCAACGCGAATT
419598 TGGAAACTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (21 bp):
GACTATCGCAACGCGAATTCC
Found at i:422749 original size:13 final size:12
Alignment explanation
Indices: 422722--422751 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
422712 CCCCTATATA
422722 TATATTTTTAAT
1 TATATTTTTAAT
422734 TATATTTTTAAT
1 TATATTTTTAAT
422746 T-TATTT
1 TATATTT
422752 ATTATATTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TATATTTTTAAT
Found at i:422784 original size:14 final size:15
Alignment explanation
Indices: 422768--422840 Score: 66
Period size: 14 Copynumber: 5.1 Consensus size: 15
422758 TTCTCTTTTT
422768 TATTTATATTATAT-
1 TATTTATATTATATA
422782 TATTT-TCATTATATA
1 TATTTAT-ATTATATA
*
422797 TATCTTATATCAT-TA
1 TAT-TTATATTATATA
*
422812 TATATATA-TATATA
1 TATTTATATTATATA
*
422826 TATATATA-TATATA
1 TATTTATATTATATA
422840 T
1 T
422841 GTATAGATGT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
13 3 0.06
14 33 0.65
15 8 0.16
16 6 0.12
17 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTATATTATATA
Found at i:422793 original size:19 final size:19
Alignment explanation
Indices: 422771--422845 Score: 82
Period size: 20 Copynumber: 3.8 Consensus size: 19
422761 TCTTTTTTAT
*
422771 TTATAT-TATATTATTTTCA
1 TTATATATATATTA-TATCA
*
422790 TTATATATATCTTATATCA
1 TTATATATATATTATATCA
422809 TTATATATATATATATAT-A
1 TTATATATATAT-TATATCA
422828 TATATATATATATGTATA
1 T-TATATATATAT-TATA
422846 GATGTATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 23 0.47
20 26 0.53
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (19 bp):
TTATATATATATTATATCA
Found at i:422798 original size:2 final size:2
Alignment explanation
Indices: 422791--422845 Score: 69
Period size: 2 Copynumber: 28.0 Consensus size: 2
422781 TTATTTTCAT
*
422791 TA TA TA TA TC T- TA TA TCA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
*
422832 TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA
422846 GATGTATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.04
2 43 0.91
3 2 0.04
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:422900 original size:41 final size:41
Alignment explanation
Indices: 422850--422967 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 41
422840 TGTATAGATG
* *
422850 TATTA-ATTTTTCTCCATTTACTATATATATATTTTT-TTAA
1 TATTATATTTTTATACATTTA-TATATATATATTTTTCTTAA
*
422890 TATTATA-TTTTATACGTTTATATATATATATATTTTCTTAA
1 TATTATATTTTTATACATTTATATATATATAT-TTTTCTTAA
* **
422931 TATTCTATTTTTATTTATTTATATATATTATATTTTT
1 TATTATATTTTTATACATTTATATATA-TATATTTTT
422968 ACTTTATTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
39 11 0.17
40 19 0.29
41 11 0.17
42 20 0.30
43 5 0.08
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.63
Consensus pattern (41 bp):
TATTATATTTTTATACATTTATATATATATATTTTTCTTAA
Found at i:422918 original size:43 final size:38
Alignment explanation
Indices: 422871--422968 Score: 124
Period size: 41 Copynumber: 2.5 Consensus size: 38
422861 CTCCATTTAC
422871 TATATATATATTTTTTTAATATTATATTTTATACGTTTATA
1 TATATATATATTTTTTTAATATTATATTTT-TA--TTTATA
* * *
422912 TATATATATATTTTCTTAATATTCTATTTTTATTTATT
1 TATATATATATTTTTTTAATATTATATTTTTATTTATA
*
422950 TATATATATTATATTTTTA
1 TATATATA-TATTTTTTTA
422969 CTTTATTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
38 13 0.25
39 8 0.16
40 2 0.04
41 28 0.55
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (38 bp):
TATATATATATTTTTTTAATATTATATTTTTATTTATA
Found at i:423020 original size:46 final size:46
Alignment explanation
Indices: 422941--423029 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 46
422931 TATTCTATTT
* * *
422941 TTATTTATTTATATATATTATATTTTTACTTTAT-TTTTTTTTCTA
1 TTATTTATTTAAATATATTATATCTTTACTTTATATTTATTTTCTA
*
422986 TTATTT-TTTAAATATCATGTATATCTTTATTTTATATTTATTTT
1 TTATTTATTTAAATAT-AT-TATATCTTTACTTTATATTTATTTT
423030 ATTTAGTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 8 0.22
45 8 0.22
46 14 0.38
47 7 0.19
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (46 bp):
TTATTTATTTAAATATATTATATCTTTACTTTATATTTATTTTCTA
Found at i:423044 original size:23 final size:23
Alignment explanation
Indices: 423013--423056 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
423003 TGTATATCTT
*
423013 TATTTTATATTTATTTTATTTAG
1 TATTATATATTTATTTTATTTAG
*
423036 TATTATATATTTTTTTTATTT
1 TATTATATATTTATTTTATTT
423057 GTTTTAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (23 bp):
TATTATATATTTATTTTATTTAG
Found at i:423128 original size:18 final size:17
Alignment explanation
Indices: 423101--423134 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
423091 TTTTTATTCC
423101 TTTTTAATTTCTTTTACA
1 TTTTTAATTT-TTTTACA
*
423119 TTTTTTATTTTTTTAC
1 TTTTTAATTTTTTTAC
423135 TCTATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTAATTTTTTTACA
Found at i:423132 original size:17 final size:17
Alignment explanation
Indices: 423088--423134 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
423078 TATGTACACA
*
423088 TTATTTTTATT-CCTTTT
1 TTATTTTT-TTACATTTT
*
423105 TAATTTCTTTTACATTTT
1 TTATTT-TTTTACATTTT
423123 TTATTTTTTTAC
1 TTATTTTTTTAC
423135 TCTATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACATTTT
Found at i:427737 original size:11 final size:11
Alignment explanation
Indices: 427718--427775 Score: 55
Period size: 11 Copynumber: 4.9 Consensus size: 11
427708 AGATTCAATC
*
427718 AGAACAAAAAG
1 AGAAAAAAAAG
427729 AGAAAAAAAAG
1 AGAAAAAAAAG
427740 AGAAAATATAAAAAG
1 AG--AA-A-AAAAAG
427755 AGAAAATAAAA-
1 AGAAAA-AAAAG
427766 AGAAAAAAAA
1 AGAAAAAAAA
427776 CAAATGAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
10 4 0.10
11 19 0.46
12 5 0.12
13 4 0.10
14 1 0.02
15 8 0.20
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.05
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:427754 original size:15 final size:14
Alignment explanation
Indices: 427733--427799 Score: 61
Period size: 15 Copynumber: 4.8 Consensus size: 14
427723 AAAAAGAGAA
427733 AAAAAAGAGAAAAT
1 AAAAAAGAGAAAAT
427747 ATAAAAAGAGAAAAT
1 A-AAAAAGAGAAAAT
427762 -AAAAAGA-AAAA-
1 AAAAAAGAGAAAAT
427773 AAACAAATGA-AAAAT
1 AAA-AAA-GAGAAAAT
*
427788 GAAAAAAAAGAA
1 -AAAAAAGAGAA
427800 GACAAGACGC
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
12 6 0.13
13 10 0.22
14 8 0.18
15 18 0.40
16 3 0.07
ACGTcount: A:0.79, C:0.01, G:0.12, T:0.07
Consensus pattern (14 bp):
AAAAAAGAGAAAAT
Found at i:427765 original size:13 final size:13
Alignment explanation
Indices: 427723--427772 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
427713 CAATCAGAAC
427723 AAAAAGAG-AAA-
1 AAAAAGAGAAAAT
427734 AAAAAGAGAAAATAT
1 AAAAAGAG-AAA-AT
427749 AAAAAGAGAAAAT
1 AAAAAGAGAAAAT
427762 AAAAAGA-AAAA
1 AAAAAGAGAAAA
427773 AAACAAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
11 8 0.23
12 4 0.11
13 11 0.31
14 4 0.11
15 8 0.23
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.06
Consensus pattern (13 bp):
AAAAAGAGAAAAT
Found at i:427772 original size:20 final size:21
Alignment explanation
Indices: 427741--427795 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 21
427731 AAAAAAAAGA
*
427741 GAAAATAT-AAAAAGAGAAAAT
1 GAAAA-ATGAAAAAAAGAAAAT
427762 -AAAAA-GAAAAAAA-ACAAAT
1 GAAAAATGAAAAAAAGA-AAAT
427781 GAAAAATGAAAAAAA
1 GAAAAATGAAAAAAA
427796 AGAAGACAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 1 0.03
19 11 0.38
20 9 0.31
21 8 0.28
ACGTcount: A:0.78, C:0.02, G:0.11, T:0.09
Consensus pattern (21 bp):
GAAAAATGAAAAAAAGAAAAT
Found at i:427773 original size:13 final size:12
Alignment explanation
Indices: 427723--427786 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 12
427713 CAATCAGAAC
427723 AAAAAGAGAAAAA
1 AAAAAGA-AAAAA
* *
427736 AAAGAGAAAATAT
1 AAAAAGAAAA-AA
*
427749 AAAAAGAGAAAAT
1 AAAAAGA-AAAAA
427762 AAAAAGAAAAAA
1 AAAAAGAAAAAA
427774 AACAAATGAAAAA
1 AA-AAA-GAAAAA
427787 TGAAAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
12 9 0.21
13 25 0.58
14 9 0.21
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:427773 original size:21 final size:22
Alignment explanation
Indices: 427749--427799 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 22
427739 GAGAAAATAT
*
427749 AAAAAGAGAAAAT-AAAAA-GA
1 AAAAAAAGAAAATGAAAAATGA
*
427769 AAAAAAA-CAAATGAAAAATGA
1 AAAAAAAGAAAATGAAAAATGA
427790 AAAAAAAGAA
1 AAAAAAAGAA
427800 GACAAGACGC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 9 0.36
22 1 0.04
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (22 bp):
AAAAAAAGAAAATGAAAAATGA
Found at i:428996 original size:32 final size:32
Alignment explanation
Indices: 428918--429029 Score: 138
Period size: 31 Copynumber: 3.5 Consensus size: 32
428908 TGAGGGTATC
428918 TTTGAAGATTCAACATCAAATGTTGGGGCATTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCATTT
*
428951 TTT-AGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
* * * *
428982 TTTGAGATCCAACATCAAATATTGAGGCA-TC
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
*
429013 TTTGGGAATTCAACATC
1 TTTGAG-ATTCAACATC
429030 CTGATTCAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
31 36 0.52
32 30 0.43
33 3 0.04
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:429733 original size:106 final size:106
Alignment explanation
Indices: 429605--429821 Score: 290
Period size: 106 Copynumber: 2.0 Consensus size: 106
429595 ATATCGTGCC
* * * *
429605 ACTCGAGGCAACACAAGTTCAACTCCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGCTCAACTCCACAACGAAGGAACGGCTGGCTGTCAACAAACAATTTCCC
*
429670 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * ** **
429711 ACTCGAGACAGCACAAGCTCAACTTCACAGTGAAGGAACGGCTGGCTGTCAACAAACAATTTCTT
1 ACTCGAGACAACACAAGCTCAACTCCACAACGAAGGAACGGCTGGCTGTCAACAAACAATTTCCC
* * ** *
429776 AGTTCCAGAGCCAATTTTAACTTCACGGCGGAGGATATTGG
66 AATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
429817 ACTCG
1 ACTCG
429822 GAACAATACA
Statistics
Matches: 95, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
106 95 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (106 bp):
ACTCGAGACAACACAAGCTCAACTCCACAACGAAGGAACGGCTGGCTGTCAACAAACAATTTCCC
AATTCCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:431097 original size:206 final size:212
Alignment explanation
Indices: 430731--431113 Score: 555
Period size: 206 Copynumber: 1.8 Consensus size: 212
430721 AGTTCCAGAA
* ** * *
430731 CCAATTTCAACTTCACAGTGAAGGATATTGGATTCGAGACAACACAAGTTCAACTTCACAACGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAACGAA
* * *
430796 GGGACGGTTGGTTGTTAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
66 GGGACGGCTGATTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
* *
430861 ATATTGGACTCAAGACAGCACAAGCTCAACTTCACAGTGAAGGGGCGGCTGATTGTCAACAAATA
131 ATATTAGACTCAAGACAACACAAGCTCAACTTCACAGTGAAGGGGCGGCTGATTGTCAACAAATA
430926 ACTTCCCAATTTCAGGG
196 ACTTCCCAATTTCAGGG
* ** *
430943 CCAATTTCAACTTCCCAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCATGATGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAACGAA
* *
431008 GGGGA-GGCTGATTGTCAAC-AA-AA-TT-TC-A-TTCAGAGTCAATTTCAACTTCACAACGAAG
66 -GGGACGGCTGATTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
*
431066 GATATTAGACTCGAGACAACACAAGCTCAACTTCACAGTGAAGGGGCG
130 GATATTAGACTCAAGACAACACAAGCTCAACTTCACAGTGAAGGGGCG
431114 AATGGCTGTC
Statistics
Matches: 153, Mismatches: 17, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
206 74 0.48
207 1 0.01
208 1 0.01
209 2 0.01
210 2 0.01
211 2 0.01
212 67 0.44
213 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (212 bp):
CCAATTTCAACTTCACAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCACAACGAA
GGGACGGCTGATTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
ATATTAGACTCAAGACAACACAAGCTCAACTTCACAGTGAAGGGGCGGCTGATTGTCAACAAATA
ACTTCCCAATTTCAGGG
Found at i:431124 original size:100 final size:106
Alignment explanation
Indices: 430726--431137 Score: 505
Period size: 106 Copynumber: 3.9 Consensus size: 106
430716 AACCCAGTTC
* ** * * *
430726 CAGAACCAATTTCAACTTCACAGTGAAGGATATTGGATTCGAGACAACACAAGTTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACA
** * * * *
430791 ACGAAGGGACGGTTGGTTGTTAACAAACAACTTCCCAATTT
66 GTGAAGGGGCGGCTGATTGTCAACAAACAACTTCCCAATTT
*
430832 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAGCACAAGCTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACA
*
430897 GTGAAGGGGCGGCTGATTGTCAACAAATAACTTCCCAATTT
66 GTGAAGGGGCGGCTGATTGTCAACAAACAACTTCCCAATTT
* * * * *
430938 CAGGGCCAATTTCAACTTCCCAGCGAAGGATATTGGACCCAAGACAACACAAGCTCAACTTCA-T
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACA
* *
431002 GATGAAGGGGAGGCTGATTGTCAAC-AA-AA-TT-TC-A-TT
66 G-TGAAGGGGCGGCTGATTGTCAACAAACAACTTCCCAATTT
* * *
431038 CAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACA
** ** *
431103 GTGAAGGGGCGAATGGCTGTCAACAAACAATTTCC
66 GTGAAGGGGCGGCTGATTGTCAACAAACAACTTCC
431138 AGAGCCAATC
Statistics
Matches: 264, Mismatches: 36, Indels: 14
0.84 0.11 0.04
Matches are distributed among these distances:
100 76 0.29
101 4 0.02
102 3 0.01
103 4 0.02
104 2 0.01
105 3 0.01
106 172 0.65
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.22
Consensus pattern (106 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCAAGACAACACAAGCTCAACTTCACA
GTGAAGGGGCGGCTGATTGTCAACAAACAACTTCCCAATTT
Found at i:431569 original size:85 final size:85
Alignment explanation
Indices: 431417--431575 Score: 196
Period size: 85 Copynumber: 1.9 Consensus size: 85
431407 CAAGACACAT
* * * * *
431417 AATTTGCAGCATATCTCAAGGCAAGAAGGGTTATCTATCATCAAAGACCTTCGAGTTTGATTACA
1 AATTTACAGCATAACTCAAGGCAAGAAGGATTATCTATCAACAAAGACCTTCGAGTTCGATTACA
431482 TTCAACTCAGAGGTAAATTA
66 TTCAACTCAGAGGTAAATTA
* * * *
431502 AATTTACAGTATAACTCAAGGCAAGAAGGATTATCTGTCAACGAAA-A-TTATCGAGTTCGATTC
1 AATTTACAGCATAACTCAAGGCAAGAAGGATTATCTATCAAC-AAAGACCT-TCGAGTTCGATTA
*
431565 CATTCAGCTCA
64 CATTCAACTCA
431576 ATGACACCTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
84 1 0.02
85 58 0.94
86 3 0.05
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (85 bp):
AATTTACAGCATAACTCAAGGCAAGAAGGATTATCTATCAACAAAGACCTTCGAGTTCGATTACA
TTCAACTCAGAGGTAAATTA
Found at i:432651 original size:21 final size:22
Alignment explanation
Indices: 432600--432651 Score: 52
Period size: 25 Copynumber: 2.3 Consensus size: 22
432590 TTTTTAATTA
432600 TATTTTTTATTTATTTATTATAT
1 TATTTTTTATTTA-TTATTATAT
* *
432623 TCCCTTTTTTATTTA-TATTGTAT
1 T--ATTTTTTATTTATTATTATAT
432646 TATTTT
1 TATTTT
432652 CATTATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
21 4 0.17
23 9 0.38
25 11 0.46
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTTTTATTTATTATTATAT
Found at i:432797 original size:36 final size:37
Alignment explanation
Indices: 432723--432799 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 37
432713 TTACTATGTG
432723 TATATATATATTTTTTAATATTCTATTTTATACGTTTT
1 TATATATATATTTTTTAATATTCTATTTTATAC-TTTT
*
432761 TATATATATTTTTTCTTAATATTCTATTTT-TA-TTTT
1 TATATATATATTTT-TTAATATTCTATTTTATACTTTT
432797 TAT
1 TAT
432800 TTATTTATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
36 7 0.19
38 15 0.41
39 15 0.41
ACGTcount: A:0.27, C:0.05, G:0.01, T:0.66
Consensus pattern (37 bp):
TATATATATATTTTTTAATATTCTATTTTATACTTTT
Found at i:432804 original size:4 final size:4
Alignment explanation
Indices: 432795--432912 Score: 51
Period size: 4 Copynumber: 27.8 Consensus size: 4
432785 TATTTTTATT
* * * *
432795 TTTA TTTA TTTA TATA TATA TTTTA CTTTA TTTA TTT- TTTC TATTA TTTT
1 TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA TTTA TTTA T-TTA TTTA
* * * *
432845 TTTAA TATCA TGTA TATC TTTA TTT- TTTA TTTA TTTTA TTTAA TATTA
1 TTT-A T-TTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTT-A T-TTA
* *
432893 TATA TTTA TTATT TTTA TTT
1 TTTA TTTA TT-TA TTTA TTT
432913 GTTTTAGTAA
Statistics
Matches: 87, Mismatches: 17, Indels: 20
0.70 0.14 0.16
Matches are distributed among these distances:
3 6 0.07
4 54 0.62
5 24 0.28
6 3 0.03
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:432816 original size:22 final size:22
Alignment explanation
Indices: 432759--432829 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
432749 TTTATACGTT
* *
432759 TTTATATATAT-TTTTTCTTAA
1 TTTATATATATATTTTTATTTA
* * *
432780 TATTCTATTTTTATTTTTATTTA
1 T-TTATATATATATTTTTATTTA
432803 TTTATATATATA-TTTTACTTTA
1 TTTATATATATATTTTTA-TTTA
432825 TTTAT
1 TTTAT
432830 TTTTTCTATT
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
21 6 0.15
22 24 0.62
23 9 0.23
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTATATATATATTTTTATTTA
Found at i:432831 original size:42 final size:42
Alignment explanation
Indices: 432759--432902 Score: 111
Period size: 42 Copynumber: 3.3 Consensus size: 42
432749 TTTATACGTT
*
432759 TTTATATATAT-TTTTTCTTAATATTCTATTTTTATTTTTATTTA
1 TTTATATATATATTTTACTT--TATT-TATTTTTATTTTTATTTA
*
432803 TTTATATATATATTTTACTTTATTTATTTTT-TCTATTATTT-
1 TTTATATATATATTTTACTTTATTTATTTTTAT-TTTTATTTA
* *
432844 TTT-TA-ATATCATGTATATCTTTATTTTTTATTTA-TTTTATTTAA
1 TTTATATATAT-AT-TTTA-CTTTATTTATT-TTTATTTTTATTT-A
*
432888 TATTATATATTTATT
1 T-TTATATATATATT
432903 ATTTTTATTT
Statistics
Matches: 82, Mismatches: 6, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
39 4 0.05
40 4 0.05
41 7 0.09
42 31 0.38
43 7 0.09
44 12 0.15
45 10 0.12
46 4 0.05
47 3 0.04
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.69
Consensus pattern (42 bp):
TTTATATATATATTTTACTTTATTTATTTTTATTTTTATTTA
Found at i:432984 original size:18 final size:18
Alignment explanation
Indices: 432957--432991 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
432947 TTTTTATTCA
432957 TTTTTAATTTCTTTTACC
1 TTTTTAATTTCTTTTACC
* *
432975 TTTTTTATTTTTTTTAC
1 TTTTTAATTTCTTTTAC
432992 TCCATTAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTAATTTCTTTTACC
Found at i:433499 original size:2 final size:2
Alignment explanation
Indices: 433488--433531 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
433478 CGACACTAAC
433488 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
433529 TA T
1 TA T
433532 TATTCTTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:434215 original size:156 final size:155
Alignment explanation
Indices: 433827--434339 Score: 652
Period size: 157 Copynumber: 3.3 Consensus size: 155
433817 TTGGTAAAAA
* * * * * *
433827 AAAAAAGTGGCTTAAAATAAATCACAAATTAAAGGAATAAGGATATTATGAAAAAAATGAATGAC
1 AAAAAA-TGACTTAAAATAAATGACAAATTGAAGAAATAAGGAGATTATG-AAAAAATGAAGGAC
* * *
433892 TGAATAGAAAA-ATAAAAAATGTGTTATCAAAAAGAGGAATTGAAAGTACACATGTATTTTACTA
64 TAAATTGAAAATA-AAAAAAT-TGTTATCAAAAAGAGGAATTGAAAGTACACATGTATTCTACTA
* *
433956 TGATTTAGGAGCATGTGGCTTAAATTTGGT
127 TGGTTTAGGAGCATGTGGCTCAAATTT-GT
* * * * *
433986 AAAAAAAAGACTTAAAATAAATGACGAATTGAATAAATAAGGAGATTACGAAAAATTGAAGGACT
1 -AAAAAATGACTTAAAATAAATGACAAATTGAAGAAATAAGGAGATTATGAAAAAATGAAGGACT
*
434051 AAAATGAAAATAAAAAAATTGTTATCAAAAAGAGGAATTGAAAGTACACATGTATTCTACTATGG
65 AAATTGAAAATAAAAAAATTGTTATCAAAAAGAGGAATTGAAAGTACACATGTATTCTACTATGG
*
434116 TTTAGGAGCATGTGACTCAAATTTGCT
130 TTTAGGAGCATGTGGCTCAAATTTG-T
*
434143 AAAAAATGACTTAAAATAAATGACAAATTGAAGAAATAAGGAGATTATGAAAAAATGAAGGAATA
1 AAAAAATGACTTAAAATAAATGACAAATTGAAGAAATAAGGAGATTATGAAAAAATGAAGGACTA
* * *
434208 AATTGAAAAATATAAAATTTGTTATCAAAAAGAGGAATTGAAAGTACACATGTACTCTACTATGG
66 AATTG-AAAATAAAAAAATTGTTATCAAAAAGAGGAATTGAAAGTACACATGTATTCTACTATGG
* * *
434273 TTTAGGAGTATGCGGTTCAAATTTAGT
130 TTTAGGAGCATGTGGCTCAAATTT-GT
* ** *
434300 -AAAAATGGACTTAAAAATGAATGAGGAATTGAATAAATAA
1 AAAAAAT-GACTT-AAAATAAATGACAAATTGAAGAAATAA
434340 TGAAATCAGG
Statistics
Matches: 311, Mismatches: 36, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
156 70 0.23
157 149 0.48
158 51 0.16
159 35 0.11
160 6 0.02
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.27
Consensus pattern (155 bp):
AAAAAATGACTTAAAATAAATGACAAATTGAAGAAATAAGGAGATTATGAAAAAATGAAGGACTA
AATTGAAAATAAAAAAATTGTTATCAAAAAGAGGAATTGAAAGTACACATGTATTCTACTATGGT
TTAGGAGCATGTGGCTCAAATTTGT
Found at i:441894 original size:45 final size:46
Alignment explanation
Indices: 441777--441948 Score: 220
Period size: 46 Copynumber: 3.8 Consensus size: 46
441767 AATTTTGCAT
*
441777 TAAATGACCTCTGAAAAGTAAATGAAACAGTGCATTATTGCTGTAA
1 TAAATGACCTCTGAAAAGTAGATGAAACAGTGCATTATTGCTGTAA
* * * *
441823 TAAATGACATCTGAAAAATAGATGAAACAATGCATTATTGTTGTAA
1 TAAATGACCTCTGAAAAGTAGATGAAACAGTGCATTATTGCTGTAA
* * **
441869 T-AATGACCTCTGAAAAGTAGCTGAAACGGTGCATTATTGCTACAA
1 TAAATGACCTCTGAAAAGTAGATGAAACAGTGCATTATTGCTGTAA
* * * *
441914 TAAATGACCTCTGAAATGTAGCTAAAACGGTGCAT
1 TAAATGACCTCTGAAAAGTAGATGAAACAGTGCAT
441949 AATTTGGCCT
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
45 37 0.34
46 73 0.66
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (46 bp):
TAAATGACCTCTGAAAAGTAGATGAAACAGTGCATTATTGCTGTAA
Found at i:443344 original size:23 final size:21
Alignment explanation
Indices: 443291--443330 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
443281 CAAAAATATA
443291 AAATATATTA-TGTTTTTTTTT
1 AAATA-ATTATTGTTTTTTTTT
443312 AAATAATTATTGTTTTTTT
1 AAATAATTATTGTTTTTTT
443331 ACTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (21 bp):
AAATAATTATTGTTTTTTTTT
Found at i:450259 original size:15 final size:15
Alignment explanation
Indices: 450239--450275 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
450229 AGCAACCACA
450239 GCTGGTCTCCTTCCC
1 GCTGGTCTCCTTCCC
450254 GCTGGTCTCCTTCCC
1 GCTGGTCTCCTTCCC
450269 GCTGGTC
1 GCTGGTC
450276 CCACCAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.43, G:0.24, T:0.32
Consensus pattern (15 bp):
GCTGGTCTCCTTCCC
Found at i:454668 original size:11 final size:11
Alignment explanation
Indices: 454652--454686 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
454642 TCGAAGCTGA
454652 ATTTAATTTTT
1 ATTTAATTTTT
*
454663 ATTTAATTTGT
1 ATTTAATTTTT
*
454674 AATTAATTTTT
1 ATTTAATTTTT
454685 AT
1 AT
454687 CTTATACTAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (11 bp):
ATTTAATTTTT
Found at i:455018 original size:36 final size:37
Alignment explanation
Indices: 454971--455043 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
454961 AAAATTGTAC
454971 TTACCCAGCCTAATAAAAAAA-TCAAACTAAAGTAAA
1 TTACCCAGCCTAATAAAAAAATTCAAACTAAAGTAAA
* *
455007 TTACCCAGCCTATTAAAAAAATTCAAACTAAATTAAA
1 TTACCCAGCCTAATAAAAAAATTCAAACTAAAGTAAA
455044 AAGAACAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 20 0.59
37 14 0.41
ACGTcount: A:0.53, C:0.19, G:0.04, T:0.23
Consensus pattern (37 bp):
TTACCCAGCCTAATAAAAAAATTCAAACTAAAGTAAA
Found at i:458433 original size:17 final size:18
Alignment explanation
Indices: 458408--458441 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
458398 TATTTTATAC
458408 TTATAAAAT-TATAATTT
1 TTATAAAATATATAATTT
*
458425 TTATTAAATATATAATT
1 TTATAAAATATATAATT
458442 ATATGAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATAAAATATATAATTT
Found at i:458475 original size:15 final size:15
Alignment explanation
Indices: 458455--458484 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
458445 TGAGTAAAAT
458455 AAATTTTAGATTTTA
1 AAATTTTAGATTTTA
*
458470 AAATTTTATATTTTA
1 AAATTTTAGATTTTA
458485 CCTTTTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
AAATTTTAGATTTTA
Found at i:463322 original size:186 final size:185
Alignment explanation
Indices: 462705--463279 Score: 940
Period size: 186 Copynumber: 3.1 Consensus size: 185
462695 AAATTTTAAT
* **
462705 TATTAAATATATTATATATAACATATGGG-TTCAGTTCAAACCATTT-AAACCTCAATTAATAAT
1 TATTAAATATATTATATATAACATACGGGCTT-AGCCCAAACCATTTAAAACC-CAATTAATAAT
*
462768 TTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAAATTATATAAAATTT
64 TTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATT-AAAAAATTTATATAAAATTT
* * *
462833 TTATTTTATAATTATATATTATTTAAATTAATTGTAAATTGTTTTCTAAATTAAAAAA
128 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTGAATTAAAAAA
*
462891 TACTAAATATATTATATATAACATACGGGCTTAGCCCAAACCATTTAAAACCCAATTAATAATTT
1 TATTAAATATATTATATATAACATACGGGCTTAGCCCAAACCATTTAAAACCCAATTAATAATTT
* *
462956 AAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATAAAAAAATTTTA
66 AAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTA
463021 TTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTCTGAATTAAAAAA
131 TTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTT-TGAATTAAAAAA
463077 TATTAAATATATTATATATAACATACGGGCTTAGCCCAAACCATTTAAAACCCAATTAATAATTT
1 TATTAAATATATTATATATAACATACGGGCTTAGCCCAAACCATTTAAAACCCAATTAATAATTT
* *
463142 AAAATCCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTA
66 AAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTA
* *
463207 TTTTATAATTATATATTATTTAAATTAATTATAAACTGTATTTTTGAATTATAAAA
131 TTTTATAATTATATATTATTTAAATTAATTGTAAACTGT-TTTTTGAATTAAAAAA
* *
463263 TATTTAAT-TTTTATATA
1 TATTAAATATATTATATA
463280 AATTAGAAAA
Statistics
Matches: 366, Mismatches: 19, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
185 69 0.19
186 286 0.78
187 11 0.03
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (185 bp):
TATTAAATATATTATATATAACATACGGGCTTAGCCCAAACCATTTAAAACCCAATTAATAATTT
AAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATATAAAATTTTTA
TTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTGAATTAAAAAA
Found at i:467893 original size:18 final size:19
Alignment explanation
Indices: 467866--467931 Score: 75
Period size: 18 Copynumber: 3.6 Consensus size: 19
467856 ATATTTGTCC
*
467866 CGAATAACCACTATGGT-A
1 CGAATGACCACTATGGTCA
*
467884 CGAATGACCACTAT-GTCC
1 CGAATGACCACTATGGTCA
*
467902 CGAATGACCACTAT-GTCC
1 CGAATGACCACTATGGTCA
*
467920 CGAAGGACCACT
1 CGAATGACCACT
467932 GGTAATCCCT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
17 2 0.05
18 42 0.95
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.20
Consensus pattern (19 bp):
CGAATGACCACTATGGTCA
Found at i:467929 original size:36 final size:36
Alignment explanation
Indices: 467861--467931 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
467851 ACTGAATATT
*
467861 TGTCCCGAATAACCACTATGGTACGAATGACCACTA
1 TGTCCCGAATAACCACTATGGTACGAAGGACCACTA
* *
467897 TGTCCCGAATGACCACTAT-GTCCCGAAGGACCACT
1 TGTCCCGAATAACCACTATGGT-ACGAAGGACCACT
467932 GGTAATCCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 2 0.06
36 29 0.94
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (36 bp):
TGTCCCGAATAACCACTATGGTACGAAGGACCACTA
Found at i:476980 original size:11 final size:11
Alignment explanation
Indices: 476964--477002 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
476954 ATTATCTGTC
476964 AAATTTTGCTG
1 AAATTTTGCTG
**
476975 AAATTTACCTG
1 AAATTTTGCTG
476986 AAATTTTGCTG
1 AAATTTTGCTG
476997 AAATTT
1 AAATTT
477003 ACATATACTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (11 bp):
AAATTTTGCTG
Found at i:487762 original size:13 final size:13
Alignment explanation
Indices: 487744--487768 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
487734 ACATTGTACA
487744 TAAATATTAAAAT
1 TAAATATTAAAAT
487757 TAAATATTAAAA
1 TAAATATTAAAA
487769 ATATATTTAC
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAAATATTAAAAT
Found at i:491340 original size:24 final size:24
Alignment explanation
Indices: 491308--491355 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
491298 AGAATATGCA
491308 GGAAACTTGTCACCTTTAAAGTTT
1 GGAAACTTGTCACCTTTAAAGTTT
491332 GGAAACTTGTCACCTTTAAAGTTT
1 GGAAACTTGTCACCTTTAAAGTTT
491356 AACTTACTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (24 bp):
GGAAACTTGTCACCTTTAAAGTTT
Found at i:494337 original size:4 final size:4
Alignment explanation
Indices: 494325--494358 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
494315 TGTTTATATA
*
494325 TATG CATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TA
494359 ATGTTGCATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (4 bp):
TATG
Found at i:496578 original size:17 final size:17
Alignment explanation
Indices: 496556--496589 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
496546 GTATAAATTC
*
496556 TTTTATTAGTATAGAGT
1 TTTTATTAATATAGAGT
496573 TTTTATTAATATAGAGT
1 TTTTATTAATATAGAGT
496590 GAATATAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (17 bp):
TTTTATTAATATAGAGT
Found at i:496929 original size:27 final size:27
Alignment explanation
Indices: 496898--496963 Score: 114
Period size: 27 Copynumber: 2.4 Consensus size: 27
496888 AAAACAGTGC
496898 TGAATGATTCAGCACAAAAGTACATTA
1 TGAATGATTCAGCACAAAAGTACATTA
* *
496925 TGAATGATTCAGCACAGAAGTACATTC
1 TGAATGATTCAGCACAAAAGTACATTA
496952 TGAATGATTCAG
1 TGAATGATTCAG
496964 AACCATTATC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (27 bp):
TGAATGATTCAGCACAAAAGTACATTA
Found at i:497296 original size:16 final size:16
Alignment explanation
Indices: 497269--497316 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
497259 AATATTGCTC
497269 AACTCG-TGCTCGTTA
1 AACTCGTTGCTCGTTA
497284 AACTCGTTGCTCGTTA
1 AACTCGTTGCTCGTTA
** *
497300 AGTTCATTGCTCGTTA
1 AACTCGTTGCTCGTTA
497316 A
1 A
497317 GCTTGCCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
15 6 0.21
16 23 0.79
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (16 bp):
AACTCGTTGCTCGTTA
Found at i:497317 original size:16 final size:16
Alignment explanation
Indices: 497275--497319 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
497265 GCTCAACTCG
* *
497275 TGCTCGTTAAACTCGT
1 TGCTCGTTAAGCTCAT
*
497291 TGCTCGTTAAGTTCAT
1 TGCTCGTTAAGCTCAT
497307 TGCTCGTTAAGCT
1 TGCTCGTTAAGCT
497320 TGCCAAAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.18, C:0.22, G:0.20, T:0.40
Consensus pattern (16 bp):
TGCTCGTTAAGCTCAT
Found at i:505790 original size:13 final size:13
Alignment explanation
Indices: 505772--505803 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
505762 CAACCGCGAA
*
505772 ATTCCATTCATCT
1 ATTCCATTCAGCT
505785 ATTCCATTCAGCT
1 ATTCCATTCAGCT
505798 ATTCCA
1 ATTCCA
505804 ACTATAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.31, G:0.03, T:0.41
Consensus pattern (13 bp):
ATTCCATTCAGCT
Found at i:517205 original size:4 final size:4
Alignment explanation
Indices: 517196--522197 Score: 9024
Period size: 4 Copynumber: 1276.0 Consensus size: 4
517186 AGGGACAAGT
517196 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517244 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
517292 TAGA TAGA TAGA TAG- -AGA TAGA TAGA TAGA T-CA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517337 TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517383 TAGA TAGA TAGGA TAGA TAGA TAGA TAGA TAGA TAGA TAG- TAGA TAGA
1 TAGA TAGA TA-GA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517431 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517479 TAGA TAGA TAGA TAGA TAGA TAGA TAGA T-GA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517526 TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517572 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517620 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517668 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA -AGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
517715 TAGA TAGA TAGA TAGA TAGA TAGA GAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517763 TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
517809 TAGA TCGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAG- -AGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
* * *
517855 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TATA GATA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517903 T-GA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517950 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
517998 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518046 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518092 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518140 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518188 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518236 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAG- -AGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518282 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAG- -AGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518328 TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAG- -AGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518372 TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
518416 TAGA TAGA TAGA TAGA TAGA TAGA TATA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
518464 TAGA TAGA TAGA TATA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518512 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
* *
518558 TATA TATA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518606 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518654 T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
518700 TAGA TAGA T--A TAGA TAGA TAGA T--A TATA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518744 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518792 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGTA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAG-A TAGA
518841 TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAG- -AGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518885 TAGA TAGA TAGA TAGA TAGA TAG- -AGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
518931 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
518979 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGC TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
* * *
519027 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TATA GATA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519075 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T-GA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519122 TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519168 TAGA TAGA TAGA TAGA TAGA TAGA TAG- -AGA TAGA TAGA TAGA T--A
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519212 TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519258 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519306 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519354 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519402 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519450 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519498 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
519546 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TATA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
519594 TAGA TAGA TAGA TAGA TAGA TATA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519642 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
* * *
519690 TAGA TAGA TATA GATA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519738 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519786 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519834 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519882 TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519928 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TA-A TAGA T--A TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
519973 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520021 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520069 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
* *
520117 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TATA TATA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520165 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
520213 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TATA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520261 TAGA TAGA TAGA TAGA TAGA TAGA TAGA T-GA TAGA TAG- TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520307 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520355 TAG- -AGA TAGA TAGA TAGA TAG- TAGA TAG- -AGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520398 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520444 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520492 T--A TAGA TAGA TAGA TAGA TAG- -AGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520536 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520582 TAGA TAG- TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520629 T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520675 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAG- -AGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
520721 TAGA GAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520769 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520817 T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520863 TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520909 TAGA TAGA TAGA TAGA TAGA TAGA TAGA T-GA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
520956 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521004 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521052 TAGA TAG- -AGA TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521096 TAGA T--A TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521142 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521188 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521236 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521284 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521332 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521378 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
521426 GAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521474 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521522 TAGA TAG- -AGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521568 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA T--A TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521614 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521662 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521710 TAGA TAGA TAGA TAGA TAGA TAGA TA-A TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521757 TAGA TAG- -AGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521803 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521851 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521899 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TA-A
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
521946 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
*
521994 TAGA TAGA TAGA TAGA TAG- -AGA TAGA TAGA TAGA TAGA TAGC TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
522040 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
522088 TAGA TAG- -AGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
522134 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA TAGA
522182 TAGA TAGA TAGA TAGA
1 TAGA TAGA TAGA TAGA
522198 GAAGACATAA
Statistics
Matches: 4851, Mismatches: 41, Indels: 212
0.95 0.01 0.04
Matches are distributed among these distances:
2 90 0.02
3 41 0.01
4 4712 0.97
5 8 0.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
TAGA
Found at i:522473 original size:34 final size:34
Alignment explanation
Indices: 522430--522498 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
522420 AGAGAGAGAA
522430 CAAATTTTATTATTTCTGCATAAACGACATCGTC
1 CAAATTTTATTATTTCTGCATAAACGACATCGTC
522464 CAAATTTTATTATTTCTGCATAAACGACATCGTC
1 CAAATTTTATTATTTCTGCATAAACGACATCGTC
522498 C
1 C
522499 GCTTTAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.38
Consensus pattern (34 bp):
CAAATTTTATTATTTCTGCATAAACGACATCGTC
Found at i:524826 original size:75 final size:75
Alignment explanation
Indices: 524694--524927 Score: 326
Period size: 75 Copynumber: 3.1 Consensus size: 75
524684 GTGGCATTGG
* * * *
524694 CGGTGGAGGGGAAAATTTTGATTGAACTGGAGCTTCTATTTTCTCAACAGCTTTTAAAACAACCC
1 CGGTGGAGGGGCAGATTTTGATTGAACCGGAGCTTCTATTTTCTCAACAGCTTTTAAAACAATCC
*
524759 CTTGAGACGA
66 CATGAGACGA
* * * * *
524769 CGGTTGAGGGGCAGATTTTGATTGAACCGGAGCTTCAATTTTCTCAGCAGCTGTTAAAACAATTC
1 CGGTGGAGGGGCAGATTTTGATTGAACCGGAGCTTCTATTTTCTCAACAGCTTTTAAAACAATCC
*
524834 CGTGAGACCG-
66 CATGAGA-CGA
* * *
524844 CGGTGGAGGGCCAGATTTTGATTGAACCGGAGCTTCTCTTTTCTCAACAGCTTTTAAAGCAATCC
1 CGGTGGAGGGGCAGATTTTGATTGAACCGGAGCTTCTATTTTCTCAACAGCTTTTAAAACAATCC
524909 CATGAGACGA
66 CATGAGACGA
524919 CGGTGGAGG
1 CGGTGGAGG
524928 AGTTGAAGGA
Statistics
Matches: 138, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
74 2 0.01
75 134 0.97
76 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (75 bp):
CGGTGGAGGGGCAGATTTTGATTGAACCGGAGCTTCTATTTTCTCAACAGCTTTTAAAACAATCC
CATGAGACGA
Found at i:528225 original size:2 final size:2
Alignment explanation
Indices: 528206--528368 Score: 188
Period size: 2 Copynumber: 82.5 Consensus size: 2
528196 AAAATTACAA
* * * *
528206 AT AT AT A- AT AT TT CAT AT AT AT AC AT AT AC AT AT AC AT AT A-
1 AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT
528247 AT AT A- 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
* * * *
528288 AC AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AA AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
528330 GT AT AT GT AT AT GT AT AT AT AT AT AT AT AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
528369 AAGCAAGTGT
Statistics
Matches: 135, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
1 3 0.02
2 131 0.97
3 1 0.01
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:528676 original size:2 final size:2
Alignment explanation
Indices: 528669--528699 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
528659 TTATTTTAAT
528669 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
528700 TCAAAGAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:530453 original size:2 final size:2
Alignment explanation
Indices: 530446--530473 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
530436 TGAATATTAA
530446 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
530474 TAAACATCAA
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:531138 original size:16 final size:17
Alignment explanation
Indices: 531097--531140 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
531087 TCACGGAATG
531097 TAAGATTACCATGAGAA
1 TAAGATTACCATGAGAA
*
531114 TAAAAGATTACCA-GGGAA
1 T--AAGATTACCATGAGAA
531132 TAAGATTAC
1 TAAGATTAC
531141 TGGAAATGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 8 0.33
17 1 0.04
18 5 0.21
19 10 0.42
ACGTcount: A:0.48, C:0.11, G:0.18, T:0.23
Consensus pattern (17 bp):
TAAGATTACCATGAGAA
Found at i:542947 original size:167 final size:167
Alignment explanation
Indices: 542671--543005 Score: 654
Period size: 167 Copynumber: 2.0 Consensus size: 167
542661 GTAGTAATGT
542671 ATTACCTCGATTTTCTTGTCATACTGATCAACCATTTAAACTTTATTCAAACGCCATCGATCTTG
1 ATTACCTCGATTTTCTTGTCATACTGATCAACCATTTAAACTTTATTCAAACGCCATCGATCTTG
542736 AAATCAACTTCCAATAATTCCTCGGATATATATCTACAAAAATTTCATC-AAAATTAGAGTTTTA
66 AAATCAACTTCCAATAATTCCTCGGATATATATCTACAAAAATTTCATCAAAAATTAGAGTTTTA
542800 TTACGAAAAAACGGATTGAATCAGGTGATAAATCAAGA
131 TTACG-AAAAACGGATTGAATCAGGTGATAAATCAAGA
542838 ATTACCTCGATTTTCTTGTCATACTGATCAACCATTTAAACTTTATTCAAACGCCATCGATCTTG
1 ATTACCTCGATTTTCTTGTCATACTGATCAACCATTTAAACTTTATTCAAACGCCATCGATCTTG
542903 AAATCAACTTCCAATAATTCCTCGGATATATATCTACAAAAATTTCATCAAAAATTAGAGTTTTA
66 AAATCAACTTCCAATAATTCCTCGGATATATATCTACAAAAATTTCATCAAAAATTAGAGTTTTA
542968 TTACGAAAAACGGATTGAATCAGGTGATAAATCAAGA
131 TTACGAAAAACGGATTGAATCAGGTGATAAATCAAGA
543005 A
1 A
543006 AAATAGCTTA
Statistics
Matches: 167, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
167 147 0.88
168 20 0.12
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.33
Consensus pattern (167 bp):
ATTACCTCGATTTTCTTGTCATACTGATCAACCATTTAAACTTTATTCAAACGCCATCGATCTTG
AAATCAACTTCCAATAATTCCTCGGATATATATCTACAAAAATTTCATCAAAAATTAGAGTTTTA
TTACGAAAAACGGATTGAATCAGGTGATAAATCAAGA
Found at i:545224 original size:24 final size:24
Alignment explanation
Indices: 545197--545277 Score: 63
Period size: 24 Copynumber: 3.4 Consensus size: 24
545187 GATATTAGAA
* *
545197 ATCAAAATAGAATTCAGATCAGAT
1 ATCAAAACAGAATCCAGATCAGAT
* * *
545221 ATCAGAACAGAATCCGGATCAGAA
1 ATCAAAACAGAATCCAGATCAGAT
** * * *
545245 ATCGGAACATAATCCAGGTCAGGT
1 ATCAAAACAGAATCCAGATCAGAT
*
545269 ATCAGAACA
1 ATCAAAACA
545278 AAATTCAAAT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (24 bp):
ATCAAAACAGAATCCAGATCAGAT
Found at i:546542 original size:20 final size:20
Alignment explanation
Indices: 546517--546562 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
546507 GATTCTTTCG
546517 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
546537 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
546557 TTGCGA
1 TTGCGA
546563 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:546732 original size:18 final size:18
Alignment explanation
Indices: 546709--546758 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
546699 TTTACTAAGC
546709 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
546727 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
546745 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
546759 TACGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:548478 original size:20 final size:20
Alignment explanation
Indices: 548455--548581 Score: 141
Period size: 20 Copynumber: 6.5 Consensus size: 20
548445 TCTGAAACTT
548455 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
548475 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
548495 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** * **
548515 ACTATCGCAACGCGAATTTG
1 AAAATCGCAACACGAAAATG
** **
548535 ACTATCGCAATGCG-AAATG
1 AAAATCGCAACACGAAAATG
* *
548554 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
548573 AAAATCGCA
1 AAAATCGCA
548582 TTGCGATTCT
Statistics
Matches: 94, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
19 23 0.24
20 71 0.76
ACGTcount: A:0.47, C:0.22, G:0.17, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:549178 original size:20 final size:20
Alignment explanation
Indices: 549146--549301 Score: 134
Period size: 20 Copynumber: 7.7 Consensus size: 20
549136 GCGCTTTGAA
*
549146 AATCACATTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* *
549166 CATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* * *
549186 AATCTCGTTGCGATAGTTAG
1 AATCGCATTGCGATAGTCAG
*
549206 AATCGCATTGCGATAGTCAT
1 AATCGCATTGCGATAGTCAG
* *
549226 AATTGCATTGCGATAGTCGGAA
1 AATCGCATTGCGATAGTC--AG
* * * *
549248 AATCGCAATGCGA-ATTTGGAA
1 AATCGCATTGCGATA-GT-CAG
*
549269 AATCGCAATGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
*
549289 AATCGCGTTGCGA
1 AATCGCATTGCGA
549302 ATCTGGAAAC
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
20 79 0.72
21 17 0.15
22 14 0.13
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAG
Found at i:549301 original size:41 final size:40
Alignment explanation
Indices: 549256--549344 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
549246 AAAATCGCAA
*
549256 TGCGAATTTGGAAAATCGCA-ATGCGATAGTCAGA-ATCGCGT
1 TGCGAATTTGGAAAAT-G-ATATGCGATA-CCAGAGATCGCGT
* * *
549297 TGCGAATCTGGAAACTGATTTGCGATACCAGAGATCGCGT
1 TGCGAATTTGGAAAATGATATGCGATACCAGAGATCGCGT
549337 TGCGAATT
1 TGCGAATT
549345 ATCGCATTGC
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
39 5 0.12
40 22 0.54
41 14 0.34
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (40 bp):
TGCGAATTTGGAAAATGATATGCGATACCAGAGATCGCGT
Found at i:553172 original size:430 final size:437
Alignment explanation
Indices: 552393--553529 Score: 1715
Period size: 432 Copynumber: 2.6 Consensus size: 437
552383 GTTATTATAA
552393 ATATATTTTATTATAGTTTAAATTTATAT-A-TCATATGTAATAATAATTTCTTTTGAATTTATT
1 ATAT-TTTTATTATAGTTTAAATTTATATAATTCATATGTAATAATAATTTCTTTTGAATTTATT
552456 TATAATATATATATATATTATTT-AA-TATTAAATGG----ATATATCA-TTAAATTATA-TATT
65 TATAATATATATATATA-TATTTAAATTATTAAATGGATAAATATATCATTTAAATTATATTATT
*
552513 TTAAATTTTAAATGAGTAATTGTAGTTGATTGAAATAAATTAAACTCCATCTGTTATGAAATGGA
129 TTAAATTTTAAAT-AGTAATTGTAGTTGAATG-AA-AAATTAAACTCCATCTGTTATGAAATGGA
*
552578 ATTAATGAGAGATACCATATCTTCTAGTTTAATAAATCAGTTTAA-TTTAAGAACTAATGTGTTT
191 ATTAA-GAGAGATACCATATCTTCTAGTTTAA-AATTCAGTTTAATTTTAAGAACTAATGTGTTT
552642 TTTAATATTCTTTTGTCGAAACAAATATTTAAATTATTATTTTGTAATAATATTATATCTACAAG
254 TTTAATATTCTTTTGTCGAAACAAATATTTAAATTATTATTTTGTAATAATATTATATCTACAAG
*
552707 TTAAAATATTGATAATTTATTTTTTTAATTTATTTTAATTACTT-AAAGTAAATAAATTCATGAT
319 TTAAAATATTGATAATATATTTTTTTAATTTATTTTAATTACTTAAAAGTAAATAAATTCATGAT
552771 T-TATATTAAAATATTAATTGTGAGTTATTATAAATAT-TTTTTTATTTATT-TTT
384 TATATATTAAAATATTAATTG-GAGTTATTATAAATATATTTTTTATTT-TTATTT
552824 ATATTTTTATTATAGTTTAAATTTATATAATTCATATGTAATAATAATTTCTTTTGAATTTATTT
1 ATATTTTTATTATAGTTTAAATTTATATAATTCATATGTAATAATAATTTCTTTTGAATTTATTT
552889 ATAATATATATATATATATTTAAATTATTAAATGGATAAATATATCATTTAAATTATATTATTTT
66 ATAATATATATATATATATTTAAATTATTAAATGGATAAATATATCATTTAAATTATATTATTTT
552954 AAATTTTAAAT-G-AATTGTAGTTGAATGAAAAATTAAAC-CCATCTGTT-TGAAATGGAATTAA
131 AAATTTTAAATAGTAATTGTAGTTGAATGAAAAATTAAACTCCATCTGTTATGAAATGGAATTAA
553015 -AGAGATACCATATCTTCTAGTTTAAAATTCAGTTTAATTTATAAG-ACTAATGT-TTTTTTAAT
196 GAGAGATACCATATCTTCTAGTTTAAAATTCAGTTTAATTT-TAAGAACTAATGTGTTTTTTAAT
*
553077 ATTCTTTTGTCGAAACAAATATTTAAATTATTA-TTTGTAATAATA-T-TATCTACATGTTAAAA
260 ATTCTTTTGTCGAAACAAATATTTAAATTATTATTTTGTAATAATATTATATCTACAAGTT--AA
553139 AATATTGATAATATATTTTTTTGTAATTTATTTTAATTACTTAAAAGTAAATAAATTCATGATTA
323 AATATTGATAATATA-TTTTTT-TAATTTATTTTAATTACTTAAAAGTAAATAAATTCATGATTA
553204 TATATTAAAATATTAATTGGAGTTATTATAAATATATTTTTTATTTTTATTT
386 TATATTAAAATATTAATTGGAGTTATTATAAATATATTTTTTATTTTTATTT
* *
553256 TTATTTTTATTATAGTTTAAATTTATATAATTCATATGTAAT-A-AATTTCTTTTGAATTTATAT
1 ATATTTTTATTATAGTTTAAATTTATATAATTCATATGTAATAATAATTTCTTTTGAATTTATTT
* *
553319 AT-ATATATTAATATATTATTTATTAAATTATTAAAAGGATAAATATATCATTTAAATTATATT-
66 ATAATATA-T-ATATA-TATAT-TTAAATTATTAAATGGATAAATATATCATTTAAATTATATTA
553382 TTTTAAATTTTAAATGAGTAATTGTAGTTGAATTGAAATAATTAAACACTCCATCTGTTATGAAA
127 TTTTAAATTTTAAAT-AGTAATTGTAGTTGAA-TGAAA-AATT-AA-ACTCCATCTGTTATGAAA
*
553447 TGGAATTAATGAGAGATACCATATCTTCTAGTTTAATAAATTCAGTTTAA--TTAAGCACTAATG
187 TGGAATTAA-GAGAGATACCATATCTTCTAGTTT-A-AAATTCAGTTTAATTTTAAGAACTAATG
553510 TGGTTTTTTTTAATATTCTT
249 T-G--TTTTTTAATATTCTT
553530 ATAAATTCAG
Statistics
Matches: 656, Mismatches: 8, Indels: 68
0.90 0.01 0.09
Matches are distributed among these distances:
426 11 0.02
427 1 0.00
428 28 0.04
429 64 0.10
430 100 0.15
431 59 0.09
432 158 0.24
433 59 0.09
434 10 0.02
435 15 0.02
436 19 0.03
437 13 0.02
438 12 0.02
439 19 0.03
440 9 0.01
441 14 0.02
442 4 0.01
443 32 0.05
444 1 0.00
445 13 0.02
447 15 0.02
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (437 bp):
ATATTTTTATTATAGTTTAAATTTATATAATTCATATGTAATAATAATTTCTTTTGAATTTATTT
ATAATATATATATATATATTTAAATTATTAAATGGATAAATATATCATTTAAATTATATTATTTT
AAATTTTAAATAGTAATTGTAGTTGAATGAAAAATTAAACTCCATCTGTTATGAAATGGAATTAA
GAGAGATACCATATCTTCTAGTTTAAAATTCAGTTTAATTTTAAGAACTAATGTGTTTTTTAATA
TTCTTTTGTCGAAACAAATATTTAAATTATTATTTTGTAATAATATTATATCTACAAGTTAAAAT
ATTGATAATATATTTTTTTAATTTATTTTAATTACTTAAAAGTAAATAAATTCATGATTATATAT
TAAAATATTAATTGGAGTTATTATAAATATATTTTTTATTTTTATTT
Found at i:553256 original size:5 final size:6
Alignment explanation
Indices: 553241--553266 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
553231 ATAAATATAT
553241 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
553267 ATAGTTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:553537 original size:48 final size:49
Alignment explanation
Indices: 553482--553579 Score: 164
Period size: 50 Copynumber: 2.0 Consensus size: 49
553472 TTCTAGTTTA
553482 ATAAATTCAGTTTAA-T-TAAGCACTAATGTGGTTTTTTTTAATATTCTT
1 ATAAATTCAGTTTAATTATAAGCACTAATGT-GTTTTTTTTAATATTCTT
553530 ATAAATTCAGTTTAATTTATAAGCACTAATGTGTTTTTTTTAATATTCTT
1 ATAAATTCAGTTTAA-TTATAAGCACTAATGTGTTTTTTTTAATATTCTT
553580 TTTGTCGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
48 15 0.32
50 19 0.40
51 13 0.28
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (49 bp):
ATAAATTCAGTTTAATTATAAGCACTAATGTGTTTTTTTTAATATTCTT
Found at i:553848 original size:20 final size:20
Alignment explanation
Indices: 553825--553874 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
553815 AACGCGATCC
553825 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
553845 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
553865 CCAAAATCGC
1 CCAGAATCGC
553875 GCGATTCTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:553938 original size:19 final size:19
Alignment explanation
Indices: 553926--553976 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
553916 GCGATTTTCC
*
553926 AATCGCAACGCGAATATGA
1 AATCGCAACGCGAATATCA
*
553945 AATCGCAACGCGAACA-CATA
1 AATCGCAACGCGAATATC--A
553965 AATCGCAACGCG
1 AATCGCAACGCG
553977 TATCCGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.41, C:0.27, G:0.20, T:0.12
Consensus pattern (19 bp):
AATCGCAACGCGAATATCA
Found at i:553969 original size:20 final size:20
Alignment explanation
Indices: 553926--554114 Score: 120
Period size: 20 Copynumber: 9.6 Consensus size: 20
553916 GCGATTTTCC
*
553926 AATCGCAACGCG-AA-TATGA
1 AATCGCAACGCGTAACCAT-A
553945 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTAAC-CATA
* *
553965 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTAACCATA
* * *
553985 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTAACCATA
****
554005 AATCGCAACGCGT-ATGGGA
1 AATCGCAACGCGTAACCATA
* * * *
554024 AATCGCAATGCATATCCGTA
1 AATCGCAACGCGTAACCATA
* * *
554044 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTAACCATA
* *
554064 AATCGCAACG-ATAATACA-A
1 AATCGCAACGCGTAA-CCATA
* *
554083 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTAACCATA
554103 AATCGCAACGCG
1 AATCGCAACGCG
554115 ATATTTAAAG
Statistics
Matches: 136, Mismatches: 27, Indels: 13
0.77 0.15 0.07
Matches are distributed among these distances:
19 41 0.30
20 91 0.67
21 4 0.03
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTAACCATA
Found at i:553970 original size:39 final size:39
Alignment explanation
Indices: 553926--554115 Score: 181
Period size: 39 Copynumber: 4.8 Consensus size: 39
553916 GCGATTTTCC
* **
553926 AATCGCAACGCGAATATG-AAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
553965 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* * * *
554005 AATCGCAACGCGTAT-GGGAAATCGCAATGC-ATATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA-A-CCATA
* ** *
554044 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACA-A
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCATA
554083 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
554116 TATTTAAAGC
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
37 1 0.01
39 76 0.61
40 44 0.35
41 3 0.02
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.18
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:553989 original size:59 final size:58
Alignment explanation
Indices: 553926--554115 Score: 211
Period size: 59 Copynumber: 3.2 Consensus size: 58
553916 GCGATTTTCC
**
553926 AATCGCAACGCGAATATG-AAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGAA-ACA-AAATCGCAACGCGTATCCGTA
* * **** * *
553985 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGAAATCGCAATGCATATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCG-AAACAAAATCGCAACGCGTATCCGTA
* * **
554044 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTAAATCGCAACGCGAA-ACAAAATCGCAACGCGTATCCGTA
554103 AATCGCAACGCGA
1 AATCGCAACGCGA
554116 TATTTAAAGC
Statistics
Matches: 106, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
58 1 0.01
59 91 0.86
60 13 0.12
61 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.18
Consensus pattern (58 bp):
AATCGCAACGCGAATCCGTAAATCGCAACGCGAAACAAAATCGCAACGCGTATCCGTA
Found at i:554009 original size:79 final size:79
Alignment explanation
Indices: 553926--554073 Score: 210
Period size: 79 Copynumber: 1.9 Consensus size: 79
553916 GCGATTTTCC
*
553926 AATCGCAACGCGAATATGAAATCGCAACGCGA-A-CACATAAATCGCAACGCGTATCCGTAAATC
1 AATCGCAACGCGAATAGGAAATCGCAACGC-ATATC-CATAAATCGCAACGCGTATCCGTAAATC
553989 GCAACGTGTATCCGTA
64 GCAACGTGTATCCGTA
* * * * *
554005 AATCGCAACGCGTATGGGAAATCGCAATGCATATCCGTATATCGCAACGCGTATCCGTAAATCGC
1 AATCGCAACGCGAATAGGAAATCGCAACGCATATCCATAAATCGCAACGCGTATCCGTAAATCGC
554070 AACG
66 AACG
554074 ATAATACAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
78 1 0.02
79 59 0.97
80 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.19
Consensus pattern (79 bp):
AATCGCAACGCGAATAGGAAATCGCAACGCATATCCATAAATCGCAACGCGTATCCGTAAATCGC
AACGTGTATCCGTA
Found at i:554532 original size:33 final size:33
Alignment explanation
Indices: 554493--554563 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
554483 TTCACTTAGA
*
554493 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
554526 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
554559 TTTCA
1 TTTCA
554564 AGTTATTTGT
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:554770 original size:19 final size:18
Alignment explanation
Indices: 554743--554860 Score: 80
Period size: 14 Copynumber: 7.1 Consensus size: 18
554733 GCGAACCAAA
*
554743 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
554762 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
554776 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
554795 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
* *
554809 TCTCGTTGCGATTGTCAT
1 TCGCGTTGCGATTTTCAT
554827 CTCGCGTTGCGA--TTC--
1 -TCGCGTTGCGATTTTCAT
*
554842 TCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
554860 T
1 T
554861 TCAACCAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
14 30 0.39
16 8 0.10
17 8 0.10
18 1 0.01
19 30 0.39
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:554784 original size:14 final size:14
Alignment explanation
Indices: 554765--554854 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
554755 TTTCATTTCG
554765 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
554779 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
554798 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
554812 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
554829 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
554845 CGTTGCGATT
1 CGTTGCGATT
554855 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:554790 original size:33 final size:33
Alignment explanation
Indices: 554748--554862 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
554738 CCAAATCGCA
554748 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
554781 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
554814 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
554847 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
554863 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Done.