Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 78 of 147
Found at i:14402635 original size:8 final size:8
Alignment explanation
Indices: 14402632--14402670 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
14402622 AAAAAAATAA
14402632 AAAAAAAC
1 AAAAAAAC
*
14402640 AAAAAAAT
1 AAAAAAAC
14402648 AAAAAAAC
1 AAAAAAAC
14402656 AAAAAAAC
1 AAAAAAAC
14402664 AAAAAAA
1 AAAAAAA
14402671 AATGAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:14402644 original size:18 final size:18
Alignment explanation
Indices: 14402621--14402672 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
14402611 GAGCTTTGGT
14402621 CAAAAAAATAAAAAAAAA
1 CAAAAAAATAAAAAAAAA
14402639 CAAAAAAAT--AAAAAAA
1 CAAAAAAATAAAAAAAAA
*
14402655 CAAAAAAACAAAAAAAAA
1 CAAAAAAATAAAAAAAAA
14402673 TGAAAATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 15 0.48
18 16 0.52
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (18 bp):
CAAAAAAATAAAAAAAAA
Found at i:14402651 original size:16 final size:16
Alignment explanation
Indices: 14402621--14402670 Score: 73
Period size: 16 Copynumber: 3.0 Consensus size: 16
14402611 GAGCTTTGGT
14402621 CAAAAAAATAAAAAAAAA
1 CAAAAAAAT--AAAAAAA
14402639 CAAAAAAATAAAAAAA
1 CAAAAAAATAAAAAAA
*
14402655 CAAAAAAACAAAAAAA
1 CAAAAAAATAAAAAAA
14402671 AATGAAAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 22 0.71
18 9 0.29
ACGTcount: A:0.88, C:0.08, G:0.00, T:0.04
Consensus pattern (16 bp):
CAAAAAAATAAAAAAA
Found at i:14402659 original size:26 final size:26
Alignment explanation
Indices: 14402622--14402678 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
14402612 AGCTTTGGTC
* * *
14402622 AAAAAAATAAAAAAAAACAAAAAAAT
1 AAAAAAACAAAAAAACAAAAAAAAAT
14402648 AAAAAAACAAAAAAACAAAAAAAAAT
1 AAAAAAACAAAAAAACAAAAAAAAAT
*
14402674 GAAAA
1 AAAAA
14402679 TGTTGAGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.88, C:0.05, G:0.02, T:0.05
Consensus pattern (26 bp):
AAAAAAACAAAAAAACAAAAAAAAAT
Found at i:14402678 original size:24 final size:24
Alignment explanation
Indices: 14402623--14402670 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
14402613 GCTTTGGTCA
*
14402623 AAAAAATAAAAAAAAACAAAAAAAT
1 AAAAAA-ACAAAAAAACAAAAAAAT
14402648 AAAAAAACAAAAAAACAAAAAAA
1 AAAAAAACAAAAAAACAAAAAAA
14402671 AATGAAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.73
25 6 0.27
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.04
Consensus pattern (24 bp):
AAAAAAACAAAAAAACAAAAAAAT
Found at i:14402836 original size:5 final size:5
Alignment explanation
Indices: 14402821--14402936 Score: 67
Period size: 5 Copynumber: 22.0 Consensus size: 5
14402811 TAGGTATATG
* * *
14402821 TTTTA -TTTA TTTTA TTTTCA TTTTTA TTTTA ATTTA -GTTA GTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA
* * * *
14402872 TTCTA TTTCTA TTTTA TTTTTA TTATTA TTATTA TATATA TTTT- TCTTC
1 TTTTA TTT-TA TTTTA -TTTTA TT-TTA TT-TTA T-TTTA TTTTA TTTTA
14402921 TTTTA TTTTTA TTTTA
1 TTTTA -TTTTA TTTTA
14402937 GCTATTTACT
Statistics
Matches: 89, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
4 10 0.11
5 40 0.45
6 34 0.38
7 5 0.06
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (5 bp):
TTTTA
Found at i:14402849 original size:6 final size:6
Alignment explanation
Indices: 14402826--14402935 Score: 66
Period size: 6 Copynumber: 18.3 Consensus size: 6
14402816 ATATGTTTTA
* * *
14402826 TTTA-T TTTATT TTCATT TTTATT TTAATT TAGTTA-G TTTATT TTTA-T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T--TTATT TTTATT TTTATT
* * * * * * *
14402873 TCTATT TCTA-T TTTATT TTTATT ATTATT ATTATA TATATT TTTCTTCT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTT-AT-T
14402922 TTTATT TTTATT TT
1 TTTATT TTTATT TT
14402936 AGCTATTTAC
Statistics
Matches: 81, Mismatches: 16, Indels: 15
0.72 0.14 0.13
Matches are distributed among these distances:
5 15 0.19
6 57 0.70
7 3 0.04
8 6 0.07
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTATT
Found at i:14403557 original size:20 final size:19
Alignment explanation
Indices: 14403510--14403557 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
14403500 TCAGTCAACT
* *
14403510 TCCGACGAAAAACCCAGAT
1 TCCGATGAAAAACCCAGAA
*
14403529 TTCGATGAAAAATCCCAGAA
1 TCCGATGAAAAA-CCCAGAA
*
14403549 TCCGGTGAA
1 TCCGATGAA
14403558 TATTCAACCA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.17
Consensus pattern (19 bp):
TCCGATGAAAAACCCAGAA
Found at i:14403902 original size:5 final size:5
Alignment explanation
Indices: 14403892--14404038 Score: 61
Period size: 5 Copynumber: 27.8 Consensus size: 5
14403882 CTCTAGGTTT
* *
14403892 TTTTA TTTTA TTTTA TTTTA TTTTT TATTTA -TTTA TTTTG TATTTA TTAGATTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA T-TTTA TT---TTA
* * * *
14403946 GGTTTA TTTAGTA TTCT- TTTTA CCTTTA TTTTA TTTTTG TTTTA CTTTT-
1 -TTTTA TTT--TA TTTTA TTTTA -TTTTA TTTTA -TTTTA TTTTA -TTTTA
* * *
14403995 CTTTA TTTTA -TTT- TTTTA TTTTCA CATTTA TTTTG TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT-A -TTTTA TTTTA TTTTA TTTT
14404039 CTTTAAATAA
Statistics
Matches: 106, Mismatches: 18, Indels: 36
0.66 0.11 0.22
Matches are distributed among these distances:
4 16 0.15
5 55 0.52
6 24 0.23
7 7 0.07
8 3 0.03
9 1 0.01
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:14403918 original size:22 final size:22
Alignment explanation
Indices: 14403890--14404016 Score: 73
Period size: 22 Copynumber: 5.5 Consensus size: 22
14403880 CGCTCTAGGT
14403890 TTTTTTATTTTATTTTATTTTA
1 TTTTTTATTTTATTTTATTTTA
14403912 TTTTTTA-TTTA-TTTATTTTGTA
1 TTTTTTATTTTATTTTA-TTT-TA
* ** *
14403934 TTTATTAGATTAGGTTTATTTAGTA
1 TTTTTTATTTTA-TTTTATTT--TA
*
14403959 TTCTTTTTACCTTTATTTTATTTT-
1 -T-TTTTTA-TTTTATTTTATTTTA
* *
14403983 TGTTTTACTTTT-CTTTATTTTA
1 TTTTTTA-TTTTATTTTATTTTA
14404005 TTTTTTTATTTT
1 -TTTTTTATTTT
14404017 CACATTTATT
Statistics
Matches: 84, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.05
21 15 0.18
22 28 0.33
23 10 0.12
24 3 0.04
25 8 0.10
26 1 0.01
27 12 0.14
28 3 0.04
ACGTcount: A:0.17, C:0.04, G:0.05, T:0.74
Consensus pattern (22 bp):
TTTTTTATTTTATTTTATTTTA
Found at i:14404297 original size:59 final size:57
Alignment explanation
Indices: 14404055--14404506 Score: 475
Period size: 59 Copynumber: 7.7 Consensus size: 57
14404045 ATAAAAATAA
* *
14404055 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AATTTCC
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATACAATTT-C
* * * * * *
14404112 AACAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAAAATTTT
1 AAAAAAGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAATACAATTTC
* * *
14404169 AAAAAGGGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAAATACAATTTC
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTAAAAATACAATTTC
*
14404227 AAAAACAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATACAATTTC
1 AAAAA-A-GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATACAATTTC
* * *
14404286 AAAAAAGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAAT-CAAAGTTTCC
1 AAAAAA--GATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAC-AA-TTT-C
* * ** *
14404347 AAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTTTTTGAAAAT-CAAAGTTTCC
1 AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTAAAAATAC-AA-TTT-C
* *
14404407 AAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AATTTTC
1 AAAAAAGATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATACAA-TTTC
* *
14404464 AAAAAAAATACTTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
1 --AAAAAAGA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
14404507 AGTGCACAAG
Statistics
Matches: 350, Mismatches: 28, Indels: 31
0.86 0.07 0.08
Matches are distributed among these distances:
56 2 0.01
57 72 0.21
58 37 0.11
59 117 0.33
60 114 0.33
61 8 0.02
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (57 bp):
AAAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATACAATTTC
Found at i:14404506 original size:60 final size:57
Alignment explanation
Indices: 14404054--14404506 Score: 507
Period size: 60 Copynumber: 7.7 Consensus size: 57
14404044 AATAAAAATA
*
14404054 AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
* * * *
14404111 CAACAAATATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTTCTTTAAAATAAAATTT-
1 AAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTC
* *** *
14404168 TAAAAAGGGTTTTTAAGGAAAAGTTGAAAGTATCAATTTTTCCTTAAAAATACAATTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTAAAAATA-AATTTC
***
14404227 AAAAACAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATACAATTTC
1 AAAAA-AATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATA-AATTTC
*** * *
14404286 AAAAAAGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAGTTTC
1 AAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA-TTTC
* * ** *
14404346 CAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTTTTTTGAAAATCAAAGTTTC
1 AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTAAAAAT-AAA-TTTC
* *
14404406 CAAAAAATATTTTTG-GAAAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC
1 AAAAAAATATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTC
*
14404464 AAAAAAAATACTTTTTGGGGAAAAGTTGAAAGTATCAATTTTC
1 -AAAAAAATA-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTC
14404507 AGTGCACAAG
Statistics
Matches: 351, Mismatches: 30, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
56 2 0.01
57 71 0.20
58 33 0.09
59 121 0.34
60 123 0.35
61 1 0.00
ACGTcount: A:0.43, C:0.08, G:0.13, T:0.35
Consensus pattern (57 bp):
AAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
Found at i:14407436 original size:3 final size:3
Alignment explanation
Indices: 14407428--14407511 Score: 150
Period size: 3 Copynumber: 28.0 Consensus size: 3
14407418 ATAAATAATT
* *
14407428 TTA TTA TTA TTA TTA TTA TTA TTC TAA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14407476 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14407512 CAATTAAGCA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:14407557 original size:16 final size:16
Alignment explanation
Indices: 14407538--14407571 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14407528 AAGAGGAAAC
14407538 AAACAAAAATAAAAGG
1 AAACAAAAATAAAAGG
* *
14407554 AAACTAAAATCAAAGG
1 AAACAAAAATAAAAGG
14407570 AA
1 AA
14407572 GTGGTCGGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.09, G:0.12, T:0.09
Consensus pattern (16 bp):
AAACAAAAATAAAAGG
Found at i:14408588 original size:19 final size:18
Alignment explanation
Indices: 14408560--14408598 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
14408550 TAGGTATTTC
*
14408560 TATTTTTTTCCATTTATT
1 TATTTTTTTCAATTTATT
*
14408578 TATTATTTTTCAATTTTTT
1 TATT-TTTTTCAATTTATT
14408597 TA
1 TA
14408599 ATGCTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.72
Consensus pattern (18 bp):
TATTTTTTTCAATTTATT
Found at i:14408631 original size:3 final size:3
Alignment explanation
Indices: 14408623--14408658 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
14408613 TCAATTACAA
*
14408623 AAT AAT AAT AAT AAT AAT AAG AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14408659 GTTCAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14410892 original size:35 final size:36
Alignment explanation
Indices: 14410845--14411006 Score: 139
Period size: 37 Copynumber: 4.4 Consensus size: 36
14410835 TAATAAAAAA
* *
14410845 ATACATGTATTCCATTTCATCCA-CATCAATAGAT-
1 ATACATGCATTCCATTTCATCCAGCATCAATAAATG
* **
14410879 AGTACATGCATTCCATTTCATGCATGCATTGATAAATG
1 A-TACATGCATTCCATTTCATCCA-GCATCAATAAATG
* **
14410917 ATACATGCATTCCATTTCATGCATGCATTGATAAATG
1 ATACATGCATTCCATTTCATCCA-GCATCAATAAATG
* * ** **
14410954 ATACACGCATTCCTTTTCATGTATGCATTGATAAAATG
1 ATACATGCATTCCATTTCATCCA-GCATCAAT-AAATG
14410992 ATACATGCATTCCAT
1 ATACATGCATTCCAT
14411007 ACATATCTTA
Statistics
Matches: 113, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
34 1 0.01
35 20 0.18
37 73 0.65
38 19 0.17
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (36 bp):
ATACATGCATTCCATTTCATCCAGCATCAATAAATG
Found at i:14410906 original size:18 final size:18
Alignment explanation
Indices: 14410883--14410945 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
14410873 ATAGATAGTA
14410883 CATGCATTCCATTTCATG
1 CATGCATTCCATTTCATG
* * * *
14410901 CATGCATT-GATAAATGATA
1 CATGCATTCCAT--TTCATG
14410920 CATGCATTCCATTTCATG
1 CATGCATTCCATTTCATG
14410938 CATGCATT
1 CATGCATT
14410946 GATAAATGAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
17 2 0.06
18 19 0.56
19 11 0.32
20 2 0.06
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (18 bp):
CATGCATTCCATTTCATG
Found at i:14410925 original size:19 final size:19
Alignment explanation
Indices: 14410901--14410964 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 19
14410891 CCATTTCATG
14410901 CATGCATTGATAAATGATA
1 CATGCATTGATAAATGATA
* * * *
14410920 CATGCATTCCAT--TTCATG
1 CATGCATT-GATAAATGATA
14410938 CATGCATTGATAAATGATA
1 CATGCATTGATAAATGATA
*
14410957 CACGCATT
1 CATGCATT
14410965 CCTTTTCATG
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
17 2 0.06
18 11 0.33
19 18 0.55
20 2 0.06
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (19 bp):
CATGCATTGATAAATGATA
Found at i:14410929 original size:37 final size:37
Alignment explanation
Indices: 14410881--14411006 Score: 216
Period size: 37 Copynumber: 3.4 Consensus size: 37
14410871 CAATAGATAG
14410881 TACATGCATTCCATTTCATGCATGCATTGATAAATGA
1 TACATGCATTCCATTTCATGCATGCATTGATAAATGA
14410918 TACATGCATTCCATTTCATGCATGCATTGATAAATGA
1 TACATGCATTCCATTTCATGCATGCATTGATAAATGA
* * *
14410955 TACACGCATTCCTTTTCATGTATGCATTGATAAAATGA
1 TACATGCATTCCATTTCATGCATGCATTGAT-AAATGA
14410993 TACATGCATTCCAT
1 TACATGCATTCCAT
14411007 ACATATCTTA
Statistics
Matches: 83, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
37 65 0.78
38 18 0.22
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (37 bp):
TACATGCATTCCATTTCATGCATGCATTGATAAATGA
Found at i:14418397 original size:105 final size:102
Alignment explanation
Indices: 14418209--14418591 Score: 358
Period size: 105 Copynumber: 3.7 Consensus size: 102
14418199 GATTTGTAAA
* * * *
14418209 ACCTTTGGGCAAAACATTTTAAATTTTTAAAGTTTCAATGCCTTTGATTAGGAGAAGCATGCAAA
1 ACCTTTGGGCAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATTAGGAG-AGCATTCAAA
14418274 GATGTCAAGATTTATAAGA-CATTCGGACATAATTTCCAAG
65 GATGTCAAGATTT-TAAGATC-TTCGG-CATAATTTCCAAG
* * *
14418314 ACCTATGGGCAAACCATTTTAAATTTTCAAAGTTTCAATGCCTCTAATTGGGATGAGCATTCAAA
1 ACCTTTGGGCAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATTAGGA-GAGCATTCAAA
* * *
14418379 GATGTCAAGATTTGTAAGATCTTTAGGCATAATCTCTAAG
65 GATGTCAAGATTT-TAAGATC-TTCGGCATAATTTCCAAG
** * * ** * * * *
14418419 AAGTTTGGGTAAAATATTTTAAATTTTTGAAGTTTTAATGCCTAT-GTTTGGAAGGAGCATTCAA
1 ACCTTTGGGCAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATTAGG-A-GAGCATTCAA
* ** *
14418483 AGATTTTGTA-ATCTTTAAGATCTTCAGGCATAATTTTCAAG
64 AGA-TGTCAAGAT-TTTAAGATCTTC-GGCATAATTTCCAAG
* * * * * *
14418524 ACCTCTGAGCAAAACATTCTAAATTTTCAAAATTTTAATGCCTCTAATTAGGAAGAACATTCAAA
1 ACCTTTGGGCAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATTAGG-AGAGCATTCAAA
14418589 GAT
65 GAT
14418592 TTTGAAATCT
Statistics
Matches: 225, Mismatches: 46, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
104 7 0.03
105 201 0.89
106 17 0.08
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (102 bp):
ACCTTTGGGCAAAACATTTTAAATTTTCAAAGTTTCAATGCCTCTAATTAGGAGAGCATTCAAAG
ATGTCAAGATTTTAAGATCTTCGGCATAATTTCCAAG
Found at i:14418592 original size:105 final size:105
Alignment explanation
Indices: 14418217--14418655 Score: 351
Period size: 105 Copynumber: 4.2 Consensus size: 105
14418207 AAACCTTTGG
* * * * * * *
14418217 GCAAAACATTTTAAATTTTTAAAGTTTCAATGCCTTTGATTAGG-AGAAGCATGCAAAGA-TGTC
1 GCAAAACATTTTAAATTTTCAAAGTTTTAATGCCTCTAATTAGGAAG-AGCATTCAAAGATTTTG
* * *
14418280 AAGAT-TTATAAGA-CATTC-GGACATAATTTCCAAGACCTATGG
65 AA-ATCTT-TAAGATC-TTCAGG-CATAATTTTCAAGACCTCTGA
* * * * * *
14418322 GCAAACCATTTTAAATTTTCAAAGTTTCAATGCCTCTAATTGGGATGAGCATTCAAAGA-TGTCA
1 GCAAAACATTTTAAATTTTCAAAGTTTTAATGCCTCTAATTAGGAAGAGCATTCAAAGATTTTGA
* * ** * *
14418386 AGAT-TTGTAAGATCTTTAGGCATAA-TCTCTAAGAAGTTTGG
66 A-ATCTT-TAAGATCTTCAGGCATAATTTTC-AAGACCTCTGA
* * ** * * *
14418427 GTAAAATATTTTAAATTTTTGAAGTTTTAATGCCTAT-GTTTGGAAGGAGCATTCAAAGATTTTG
1 GCAAAACATTTTAAATTTTCAAAGTTTTAATGCCTCTAATTAGGAA-GAGCATTCAAAGATTTTG
*
14418491 TAATCTTTAAGATCTTCAGGCATAATTTTCAAGACCTCTGA
65 AAATCTTTAAGATCTTCAGGCATAATTTTCAAGACCTCTGA
* * *
14418532 GCAAAACATTCTAAATTTTCAAAATTTTAATGCCTCTAATTAGGAAGAACATTCAAAGATTTTGA
1 GCAAAACATTTTAAATTTTCAAAGTTTTAATGCCTCTAATTAGGAAGAGCATTCAAAGATTTTGA
* * * *
14418597 AATCTATAA-AACTTCCAGCCATAATTTTTAAGACCTCT-A
66 AATCTTTAAGATCTT-CAGGCATAATTTTCAAGACCTCTGA
* *
14418636 GGCAAAATATTTTAGATTTT
1 -GCAAAACATTTTAAATTTT
14418656 TAAGTTTCAA
Statistics
Matches: 272, Mismatches: 51, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
104 12 0.04
105 242 0.89
106 18 0.07
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (105 bp):
GCAAAACATTTTAAATTTTCAAAGTTTTAATGCCTCTAATTAGGAAGAGCATTCAAAGATTTTGA
AATCTTTAAGATCTTCAGGCATAATTTTCAAGACCTCTGA
Found at i:14418645 original size:210 final size:209
Alignment explanation
Indices: 14418216--14418665 Score: 464
Period size: 210 Copynumber: 2.1 Consensus size: 209
14418206 AAAACCTTTG
* *
14418216 GGCAAAACATTTTAAATTTTTAAAGTTTCAATGCCTTTGATTAGGAGAAGCATGCAAAGATGTCA
1 GGCAAAATATTTTAAATTTTT-AAGTTTCAATGCCTATGATTAGGAGAAGCATGCAAAGATGTCA
* * * *
14418281 AGATTTATAAGACATTCGGACATAATTTCCAAGACCTATGGGCAAACCATTTTAAATTTTCAAAG
65 AGATTTATAAGACATTCGGACATAATTTCCAAGACCTATGAGCAAAACATTCTAAATTTTCAAAA
* * * * * * * *
14418346 TTTCAATGCCTCTAATTGGGATGAGCATTCAAAGATGTCAAGATTTGTAAGATCTTTAGGCATAA
130 TTTCAATGCCTCTAATTAGGAAGAACATTCAAAGATGTCAAGATCTATAAGAACTTCAGCCATAA
* * *
14418411 TCTCTAAGAAGTTTG
195 TCTCTAAGAACTCTA
* * * * * *
14418426 GGTAAAATATTTTAAATTTTTGAAGTTTTAATGCCTATG-TTTGGAAGGAGCATTCAAAGATTTT
1 GGCAAAATATTTTAAATTTTT-AAGTTTCAATGCCTATGATTAGG-AGAAGCATGCAAAGA-TGT
** * *
14418490 GTA-ATCTT-TAAGATC-TTCAGG-CATAATTTTCAAGACCTCTGAGCAAAACATTCTAAATTTT
63 CAAGAT-TTATAAGA-CATTC-GGACATAATTTCCAAGACCTATGAGCAAAACATTCTAAATTTT
* * *
14418551 CAAAATTTTAATGCCTCTAATTAGGAAGAACATTCAAAGATTTTGAA-ATCTATAA-AACTTCCA
125 CAAAATTTCAATGCCTCTAATTAGGAAGAACATTCAAAGA-TGTCAAGATCTATAAGAACTT-CA
* * *
14418614 GCCATAATTTTTAAGACCTCTA
188 GCCATAATCTCTAAGAACTCTA
*
14418636 GGCAAAATATTTTAGATTTTTAAGTTTCAA
1 GGCAAAATATTTTAAATTTTTAAGTTTCAA
14418666 AGCTCTGTTC
Statistics
Matches: 196, Mismatches: 37, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
209 16 0.08
210 168 0.86
211 12 0.06
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (209 bp):
GGCAAAATATTTTAAATTTTTAAGTTTCAATGCCTATGATTAGGAGAAGCATGCAAAGATGTCAA
GATTTATAAGACATTCGGACATAATTTCCAAGACCTATGAGCAAAACATTCTAAATTTTCAAAAT
TTCAATGCCTCTAATTAGGAAGAACATTCAAAGATGTCAAGATCTATAAGAACTTCAGCCATAAT
CTCTAAGAACTCTA
Found at i:14419219 original size:3 final size:3
Alignment explanation
Indices: 14419211--14419263 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
14419201 TAAATAAATA
14419211 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14419259 TAT TA
1 TAT TA
14419264 CTACTACTAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14419268 original size:3 final size:3
Alignment explanation
Indices: 14419262--14419288 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14419252 TTATTATTAT
14419262 TAC TAC TAC TAC TAC TAC TAC TAC TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC
14419289 AATTAAGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TAC
Found at i:14420364 original size:18 final size:18
Alignment explanation
Indices: 14420323--14420366 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14420313 CTGATTTAGG
*
14420323 TATTTTTATTTTTCCCATT
1 TATTTTTATTTTT-CCAAT
14420342 TATTTATTATTTTT-CAAT
1 TATTT-TTATTTTTCCAAT
14420360 TATTTTT
1 TATTTTT
14420367 TTAATTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 2 0.09
18 8 0.35
19 5 0.22
20 8 0.35
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (18 bp):
TATTTTTATTTTTCCAAT
Found at i:14420546 original size:11 final size:11
Alignment explanation
Indices: 14420520--14420611 Score: 62
Period size: 11 Copynumber: 8.0 Consensus size: 11
14420510 GGTAAGCTTA
*
14420520 TTTTCTTTTA-
1 TTTTATTTTAT
14420530 TTTTATTTTAT
1 TTTTATTTTAT
14420541 TTTTATTTTAT
1 TTTTATTTTAT
*
14420552 TTACATTTTTATTAT
1 TT---TTATT-TTAT
*
14420567 TGTTATTGTT-T
1 TTTTATT-TTAT
*
14420578 TTTTATATATAT
1 TTTTAT-TTTAT
*
14420590 TTTTCTTTTAT
1 TTTTATTTTAT
*
14420601 TTTTATCTTAT
1 TTTTATTTTAT
14420612 GTATTTATTA
Statistics
Matches: 64, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
10 9 0.14
11 33 0.52
12 13 0.20
14 4 0.06
15 5 0.08
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.75
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:14420633 original size:15 final size:16
Alignment explanation
Indices: 14420596--14420636 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
14420586 ATATTTTTCT
14420596 TTTATTT-TTATCTTA
1 TTTATTTATTATCTTA
*
14420611 TGTATTTATTAT-TTA
1 TTTATTTATTATCTTA
14420626 TTTATTTATTA
1 TTTATTTATTA
14420637 CTACTATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTATTTATTATCTTA
Found at i:14421370 original size:21 final size:21
Alignment explanation
Indices: 14421346--14421383 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14421336 AGAGAGAAGG
14421346 GAGAG-AAGA-AAAAAGGGAA
1 GAGAGAAAGAGAAAAAGGGAA
*
14421365 GAGAGAAAGAGAAGAAGGG
1 GAGAGAAAGAGAAAAAGGG
14421384 TTCTGCTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 4 0.25
21 7 0.44
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (21 bp):
GAGAGAAAGAGAAAAAGGGAA
Found at i:14421667 original size:12 final size:11
Alignment explanation
Indices: 14421650--14421697 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 11
14421640 GTTCTCAGGT
14421650 TTTTTTTTTTCA
1 TTTTTTTTTT-A
14421662 TTTTTTTTTTA
1 TTTTTTTTTTA
*
14421673 TTTTTATTTTA
1 TTTTTTTTTTA
*
14421684 TTTATTTATTTA
1 TTT-TTTTTTTA
14421696 TT
1 TT
14421698 ATTATTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
11 14 0.44
12 18 0.56
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:14421699 original size:11 final size:11
Alignment explanation
Indices: 14421669--14421759 Score: 50
Period size: 11 Copynumber: 8.3 Consensus size: 11
14421659 TCATTTTTTT
14421669 TTTATT-TTTA
1 TTTATTATTTA
14421679 TTTTATTTATTTA
1 -TTTA-TTATTTA
14421692 TTTATTA-TTA
1 TTTATTATTTA
**
14421702 TTATATTA-GGA
1 TT-TATTATTTA
*
14421713 TTTTTTATTTA
1 TTTATTATTTA
*
14421724 TTT-TCATTT-
1 TTTATTATTTA
14421733 TTTAATTATTT-
1 TTT-ATTATTTA
14421744 TTTAATTATTTTA
1 TTT-ATTA-TTTA
14421757 TTT
1 TTT
14421760 TCTTTAAATA
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
9 3 0.05
10 14 0.22
11 32 0.49
12 9 0.14
13 7 0.11
ACGTcount: A:0.24, C:0.01, G:0.02, T:0.73
Consensus pattern (11 bp):
TTTATTATTTA
Found at i:14421732 original size:17 final size:17
Alignment explanation
Indices: 14421656--14421744 Score: 67
Period size: 17 Copynumber: 5.2 Consensus size: 17
14421646 AGGTTTTTTT
*
14421656 TTTTCATTTTTTTTTTA
1 TTTTCATTTTTTATTTA
*
14421673 TTTTTATTTTATTTATTTA
1 TTTTCA-TTT-TTTATTTA
*
14421692 -TTT-A-TTATTATTATA
1 TTTTCATTTTTTATT-TA
***
14421707 TTAGGATTTTTTATTTA
1 TTTTCATTTTTTATTTA
*
14421724 TTTTCATTTTTTAATTA
1 TTTTCATTTTTTATTTA
14421741 TTTT
1 TTTT
14421745 TTAATTATTT
Statistics
Matches: 56, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 5 0.09
15 4 0.07
16 1 0.02
17 26 0.46
18 13 0.23
19 7 0.12
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTCATTTTTTATTTA
Found at i:14421744 original size:10 final size:11
Alignment explanation
Indices: 14421729--14421755 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
14421719 ATTTATTTTC
14421729 ATTTTTTAATT
1 ATTTTTTAATT
14421740 ATTTTTTAATT
1 ATTTTTTAATT
14421751 ATTTT
1 ATTTT
14421756 ATTTTCTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTTTTAATT
Found at i:14421988 original size:60 final size:60
Alignment explanation
Indices: 14421786--14422185 Score: 391
Period size: 60 Copynumber: 6.6 Consensus size: 60
14421776 AATAAAAATA
* * * * *
14421786 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA-ATTAAAAGTTTCCAAAAAA--TAT
1 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAAT-AAATTTTCAAAAAAAGGTTT
* *
14421845 TTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAAGATTTT
1 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC-AAAAAAAG-GTTT
* * *
14421907 TTTTGAGGAAAGGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAAGGTTT
1 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAGGTTT
*
14421967 TTTTAAGAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAGGTTTTTTTT
1 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAGG-----TTT
* * * * **
14422032 TTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCCAAAAAAAAGG-GG
1 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAT-AAATTTTC-AAAAAAAGGTTT
* * * * * * **
14422093 TTTTGAGGGAAAGTTGAAAGTATCAATTTTCCTCGAA-ATTAAAGTTTCAAAAGAATATTT
1 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCT-TAAGAATAAATTTTCAAAAAAAGGTTT
**
14422153 TTGGAA--AAAAGTTGAAAGTATCAATTTTTCCTT
1 TTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCCTT
14422186 GTACAAAAGC
Statistics
Matches: 289, Mismatches: 37, Indels: 31
0.81 0.10 0.09
Matches are distributed among these distances:
58 26 0.09
59 55 0.19
60 65 0.22
61 40 0.14
62 48 0.17
65 39 0.13
66 7 0.02
67 9 0.03
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.37
Consensus pattern (60 bp):
TTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAGGTTT
Found at i:14422001 original size:122 final size:123
Alignment explanation
Indices: 14421792--14422182 Score: 444
Period size: 122 Copynumber: 3.2 Consensus size: 123
14421782 AATATTTTAG
* * * * *
14421792 GGAAAAGTTGAAAGTATCAATTTTCCTTGAAATTAAAAGTTTCCAAAAAA--TATTTTTAGGGAA
1 GGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAATTTTCAAAAAAAGGTATTTTTAAGGAA
14421855 AAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAAG-ATTTTTTTTGA
65 AAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAAGTATTTTTTTTGA
* * *
14421913 GGAAAGGTTGAAAGTATCAATTTTTCTTAAGAAT-AAATTTTCAAAAAAAGGTTTTTTTAAGAAA
1 GGAAAAGTTGAAAGTATCAATTTTTCTTAA-AATAAAATTTTCAAAAAAAGGTATTTTTAAGGAA
* * *
14421977 AAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAGGTTTTTTTTTTTTTA
65 AAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAAG--TATTTTTTTTGA
* ** * *
14422038 GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCCAAAAAAAAGG-GGTTTTGAGGG
1 GGAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAATTTTC-AAAAAAAGGTATTTTTAAGGA
* * * * *
14422102 AAAGTTGAAAGTATCAATTTTCCTCGAA-ATTAAAGTTTC-AAAAGAA-TA--TTTTTGGA
64 AAAGTTGAAAGTATCAATTTTCCT-TAAGAATAAATTTTCAAAAAAAAGTATTTTTTTTGA
*
14422158 -AAAAAGTTGAAAGTATCAATTTTTC
1 GGAAAAGTTGAAAGTATCAATTTTTC
14422183 CTTGTACAAA
Statistics
Matches: 233, Mismatches: 27, Indels: 22
0.83 0.10 0.08
Matches are distributed among these distances:
119 24 0.10
120 21 0.09
121 28 0.12
122 57 0.24
125 44 0.19
126 48 0.21
127 11 0.05
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (123 bp):
GGAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAATTTTCAAAAAAAGGTATTTTTAAGGAAA
AGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAAGTATTTTTTTTGA
Found at i:14430570 original size:8 final size:8
Alignment explanation
Indices: 14430557--14430620 Score: 101
Period size: 8 Copynumber: 8.0 Consensus size: 8
14430547 ATACTATGCT
14430557 TAAAAAAA
1 TAAAAAAA
14430565 TAAAAAAA
1 TAAAAAAA
14430573 TAAAAAAA
1 TAAAAAAA
14430581 TAAAAAAA
1 TAAAAAAA
14430589 TAAAAAAA
1 TAAAAAAA
*
14430597 TGAAAAAA
1 TAAAAAAA
*
14430605 TGAAAAAA
1 TAAAAAAA
*
14430613 GAAAAAAA
1 TAAAAAAA
14430621 AAGTGAATGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 53 1.00
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (8 bp):
TAAAAAAA
Found at i:14431740 original size:41 final size:41
Alignment explanation
Indices: 14431615--14431743 Score: 170
Period size: 41 Copynumber: 3.1 Consensus size: 41
14431605 ATGATTGTCA
14431615 AGGAGCAATTTACTTTTCAAAGTT-TTGTTGCCTCTATTTAG
1 AGGAGCAATTTACTTTTCAAAGTTGTTG-TGCCTCTATTTAG
* * * *
14431656 AGAAGCAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCAAAGTTGTTGTGCCTCTATTTAG
* * * *
14431697 AGGAGCCATTTATTTTTCAAAGTTGTTGAGCCTCTACTTAG
1 AGGAGCAATTTACTTTTCAAAGTTGTTGTGCCTCTATTTAG
14431738 AGGAGC
1 AGGAGC
14431744 TTTGATCAAA
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
41 73 0.97
42 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCAAAGTTGTTGTGCCTCTATTTAG
Found at i:14431780 original size:11 final size:11
Alignment explanation
Indices: 14431756--14431809 Score: 71
Period size: 11 Copynumber: 5.3 Consensus size: 11
14431746 TGATCAAATT
14431756 AAAA-AAAA-A
1 AAAACAAAACA
*
14431765 AAAACAAATCA
1 AAAACAAAACA
14431776 AAAACAAAAC-
1 AAAACAAAACA
14431786 AAAACAAAACA
1 AAAACAAAACA
14431797 AAAACAAAA-A
1 AAAACAAAACA
14431807 AAA
1 AAA
14431810 TTGCCTCTGT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
9 4 0.10
10 17 0.43
11 19 0.47
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAACAAAACA
Found at i:14431784 original size:16 final size:16
Alignment explanation
Indices: 14431756--14431809 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
14431746 TGATCAAATT
14431756 AAAA-AAAA-AAAAAC
1 AAAACAAAACAAAAAC
*
14431770 AAATCAAAA-ACAAAAC
1 AAAACAAAACA-AAAAC
14431786 AAAACAAAACAAAAAC
1 AAAACAAAACAAAAAC
14431802 AAAA-AAAA
1 AAAACAAAA
14431810 TTGCCTCTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 3 0.09
15 9 0.26
16 22 0.63
17 1 0.03
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAACAAAACAAAAAC
Found at i:14431789 original size:21 final size:20
Alignment explanation
Indices: 14431750--14431809 Score: 86
Period size: 21 Copynumber: 3.0 Consensus size: 20
14431740 GAGCTTTGAT
*
14431750 CAAATTAAAAA-AAAAAAAA
1 CAAATCAAAAACAAAAAAAA
14431769 CAAATCAAAAACAAAACAAAA
1 CAAATCAAAAACAAAA-AAAA
*
14431790 CAAAACAAAAACAAAAAAAA
1 CAAATCAAAAACAAAAAAAA
14431810 TTGCCTCTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 10 0.27
20 8 0.22
21 19 0.51
ACGTcount: A:0.82, C:0.13, G:0.00, T:0.05
Consensus pattern (20 bp):
CAAATCAAAAACAAAAAAAA
Found at i:14431860 original size:43 final size:43
Alignment explanation
Indices: 14431812--14431999 Score: 279
Period size: 43 Copynumber: 4.3 Consensus size: 43
14431802 AAAAAAAATT
* * *
14431812 GCCTCTGTTTAGAGAAGCTTTGTTTA-TTTTCAAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTC-AAAGTCGTTGA
14431855 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
14431898 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
* *
14431941 GCCTCTGATTAAAGGAGCTTTGTTTATGTTTTTCAAAAGTCGTTGA
1 GCCTCTGATTAGAGGAGCTTTATTTA--TTTTTC-AAAGTCGTTGA
*
14431987 GCCTCTGCTTAGA
1 GCCTCTGATTAGA
14432000 AGAGTTTTGA
Statistics
Matches: 134, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
43 101 0.75
44 5 0.04
45 6 0.04
46 22 0.16
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.41
Consensus pattern (43 bp):
GCCTCTGATTAGAGGAGCTTTATTTATTTTTCAAAGTCGTTGA
Found at i:14432182 original size:18 final size:18
Alignment explanation
Indices: 14432154--14432208 Score: 62
Period size: 17 Copynumber: 3.2 Consensus size: 18
14432144 GGGTAAACCC
14432154 ATTTT-TTTTTC-TTTTT
1 ATTTTATTTTTCATTTTT
*
14432170 TTTTGTATTTTTCATTTTT
1 ATTT-TATTTTTCATTTTT
*
14432189 ATTTTA-TTTACATTTTT
1 ATTTTATTTTTCATTTTT
14432206 ATT
1 ATT
14432209 ATTGTTATTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
16 3 0.09
17 14 0.42
18 8 0.24
19 8 0.24
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.78
Consensus pattern (18 bp):
ATTTTATTTTTCATTTTT
Found at i:14432969 original size:9 final size:9
Alignment explanation
Indices: 14432957--14433003 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
14432947 TTCATATTCT
14432957 AGAGAGAAG
1 AGAGAGAAG
14432966 AGAGAGAAG
1 AGAGAGAAG
*
14432975 AAAGAAGGGAAG
1 --AG-AGAGAAG
14432987 AGAGAGAAG
1 AGAGAGAAG
14432996 AGA-AGAAG
1 AGAGAGAAG
14433004 GGTTCTGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
8 5 0.15
9 18 0.55
10 2 0.06
11 2 0.06
12 6 0.18
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (9 bp):
AGAGAGAAG
Found at i:14432986 original size:12 final size:13
Alignment explanation
Indices: 14432957--14433003 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
14432947 TTCATATTCT
14432957 AGAG-AGAAGAG-
1 AGAGAAGAAGAGA
14432968 AGAGAAGAA-AGA
1 AGAGAAGAAGAGA
*
14432980 AGGGAAGAGAGAGA
1 AGAGAAGA-AGAGA
14432994 AGAGAAGAAG
1 AGAGAAGAAG
14433004 GGTTCTGTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 6 0.20
12 11 0.37
13 3 0.10
14 10 0.33
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (13 bp):
AGAGAAGAAGAGA
Found at i:14432986 original size:21 final size:22
Alignment explanation
Indices: 14432962--14433005 Score: 81
Period size: 21 Copynumber: 2.0 Consensus size: 22
14432952 ATTCTAGAGA
14432962 GAAGAGAGAGAAGA-AAGAAGG
1 GAAGAGAGAGAAGAGAAGAAGG
14432983 GAAGAGAGAGAAGAGAAGAAGG
1 GAAGAGAGAGAAGAGAAGAAGG
14433005 G
1 G
14433006 TTCTGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (22 bp):
GAAGAGAGAGAAGAGAAGAAGG
Found at i:14433300 original size:4 final size:4
Alignment explanation
Indices: 14433286--14433363 Score: 59
Period size: 4 Copynumber: 17.8 Consensus size: 4
14433276 TATTTTTATT
* *
14433286 TTTA TTTTA TTTA TTT- GTTA TTATA TTATGA TTTT TTTA TTTA TTTTCA
1 TTTA -TTTA TTTA TTTA TTTA TT-TA TT-T-A TTTA TTTA TTTA -TTT-A
14433335 TTTTA TTTA TTTA TTTA TTTA TTTTA TTT
1 -TTTA TTTA TTTA TTTA TTTA -TTTA TTT
14433364 TCTTGAAATA
Statistics
Matches: 63, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
3 2 0.03
4 34 0.54
5 19 0.30
6 8 0.13
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:14433504 original size:61 final size:60
Alignment explanation
Indices: 14433388--14433844 Score: 552
Period size: 61 Copynumber: 7.5 Consensus size: 60
14433378 AAAAAAAACA
* *
14433388 TTTT-AGGAAAAAGTTGAAAATATCAATTTTCCTTAAGAATAAATTTTCAAAAAAAGATTT
1 TTTTGAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAAGATTT
14433448 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAAAGATTTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTC-AAAAAAAGA--TTT
* * *
14433511 TTTTTAAGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAAGTTTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAAG-ATTT
* * * * *
14433572 TTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAA-ATTAAAAGTTTTC-AAAAAATA-TT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT-TAAGAAT-AAA-TTTTCAAAAAAAGATTT
* *
14433632 TTTAG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAAGGTTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAA-GATTT
* * *
14433692 TTTTGAGGAAAAGTTGAAGGTATCAATTTTTCTTGAA-ATTAAAAGTTTTCAAAAAAA-ATAT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTT-AAGAAT-AAA-TTTTCAAAAAAAGATTT
* **
14433753 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCGAAAAAAAGGA-GG
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAAT-AAATTTTC-AAAAAAA-GATTT
*
14433815 TTTTGAGGGAAAGTTGAAAGTATCAATTTT
1 TTTTGAGGAAAAGTTGAAAGTATCAATTTT
14433845 CTCGAAATTA
Statistics
Matches: 347, Mismatches: 30, Indels: 38
0.84 0.07 0.09
Matches are distributed among these distances:
57 5 0.01
58 11 0.03
59 27 0.08
60 61 0.18
61 123 0.35
62 53 0.15
63 67 0.19
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.38
Consensus pattern (60 bp):
TTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAAGATTT
Found at i:14433676 original size:120 final size:119
Alignment explanation
Indices: 14433379--14433902 Score: 634
Period size: 120 Copynumber: 4.3 Consensus size: 119
14433369 AAATAAAATA
* * * *
14433379 AAAAAAACA-TTTTAGGAAAAAGTTGAAAATATCAATTTTCCTTAAGAATAAATTTTCAAAAAAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAA
* * *
14433443 GATTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCT-TAAGAATAAA-TTTTC
66 GTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAA-ATTAAAGTTTTC
* *
14433496 AAAAAAAAGATTTTTTTTTTA-AGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCA
1 --AAAAAA-A---TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCA
* *
14433560 AAAAAAGTTTTTTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTCGAAATTAAAAGTTTTC
60 AAAAAAG-TTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAAGTTTTC
14433622 -AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAA
* *
14433686 GGTTTTTTTTGAGGAAAAGTTGAAGGTATCAATTTTTCTTGAAATTAAAAGTTTTC
66 -GTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATT-AAAGTTTTC
*
14433742 AAAAAAAATATTTTT-GAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTTCGAAA
1 -AAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAGAAT-AAATTTTC-AAA
**** *
14433806 AAAAGGAGGTTTTGAGGGAAAGTTGAAAGTATCAA-TTTTCTCGAAATTAAAG-TTTC
62 AAAAGTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC
* * * *
14433862 AAAAGAATATTTTT-GGGAAAAAATTTAAAATATCAATTTTT
1 AAAAAAATATTTTTAGGG-AAAAGTTGAAAGTATCAATTTTT
14433903 TCTTGTACAA
Statistics
Matches: 359, Mismatches: 29, Indels: 34
0.85 0.07 0.08
Matches are distributed among these distances:
118 2 0.01
119 47 0.13
120 103 0.29
121 6 0.02
122 59 0.16
123 84 0.23
124 48 0.13
125 5 0.01
126 5 0.01
ACGTcount: A:0.44, C:0.06, G:0.13, T:0.37
Consensus pattern (119 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAAGAATAAATTTTCAAAAAAA
GTTTTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTCGAAATTAAAGTTTTC
Found at i:14443651 original size:10 final size:10
Alignment explanation
Indices: 14443625--14443658 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
14443615 TGTTTTTGAA
14443625 TATATTATATT
1 TATATT-TATT
*
14443636 TTTATTTATT
1 TATATTTATT
14443646 TATATTTATT
1 TATATTTATT
14443656 TAT
1 TAT
14443659 TAAATTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 16 0.76
11 5 0.24
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATATTTATT
Found at i:14444292 original size:2 final size:2
Alignment explanation
Indices: 14444285--14444322 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
14444275 TTTGGGGGTA
*
14444285 AT AT AT AT AT AT AT AT AT AC 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
14444323 CTTGGTTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14445615 original size:13 final size:14
Alignment explanation
Indices: 14445597--14445628 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
14445587 ATTTTTTTAA
14445597 AAAAATAAC-AAAT
1 AAAAATAACAAAAT
14445610 AAAAATAACAAAAT
1 AAAAATAACAAAAT
14445624 AAAAA
1 AAAAA
14445629 GTTTTAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAATAACAAAAT
Found at i:14446195 original size:55 final size:54
Alignment explanation
Indices: 14446118--14446222 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 54
14446108 AGAAAATTTT
* * * * *
14446118 AATAGTAATAAAATATATCTTGGAAAGAAAGTTGTC-AATCAAATAAATAAATTGC
1 AATAGAAACAAAATATAACTTGGAAA-AAAGTTG-CAAACCAAAAAAATAAATTGC
*
14446173 AATAGAAACAAAATATAACTTGGTAAAAAGTTGCAAACCAAAAAAATAAA
1 AATAGAAACAAAATATAACTTGGAAAAAAGTTGCAAACCAAAAAAATAAA
14446223 AAACTGATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
53 1 0.02
54 20 0.47
55 22 0.51
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (54 bp):
AATAGAAACAAAATATAACTTGGAAAAAAGTTGCAAACCAAAAAAATAAATTGC
Found at i:14446883 original size:2 final size:2
Alignment explanation
Indices: 14446871--14446906 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
14446861 TTCTGATGCA
*
14446871 AT AT CT 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
14446907 TTATGTTGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14449773 original size:22 final size:22
Alignment explanation
Indices: 14449748--14449794 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14449738 AATGAAAGAT
*
14449748 AAATAGACAGACAGATAGATTA
1 AAATAGACAGACAAATAGATTA
* * *
14449770 AAATAGATAGAGAAATATATTA
1 AAATAGACAGACAAATAGATTA
14449792 AAA
1 AAA
14449795 CATATTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.60, C:0.04, G:0.15, T:0.21
Consensus pattern (22 bp):
AAATAGACAGACAAATAGATTA
Found at i:14453904 original size:22 final size:21
Alignment explanation
Indices: 14453859--14453904 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
14453849 GAGAATGAGT
*
14453859 TAATTTTATAATTCTAAAATA
1 TAATTTTATAATTCTAAAAGA
* *
14453880 TAATTTTATTATTTTTAAAAGA
1 TAATTTTA-TAATTCTAAAAGA
14453902 TAA
1 TAA
14453905 AACCAACTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATTTTATAATTCTAAAAGA
Found at i:14454787 original size:22 final size:26
Alignment explanation
Indices: 14454741--14454791 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 26
14454731 TACACCGAAT
14454741 AATATTTTTATTATATTAAATTAAAA
1 AATATTTTTATTATATTAAATTAAAA
14454767 AATA-TTTTATT-T-TTAAA-TAAAA
1 AATATTTTTATTATATTAAATTAAAA
14454789 AAT
1 AAT
14454792 TTTAAAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.32
23 5 0.20
24 1 0.04
25 7 0.28
26 4 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
AATATTTTTATTATATTAAATTAAAA
Found at i:14463588 original size:3 final size:3
Alignment explanation
Indices: 14463580--14463620 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
14463570 CTTCTCATTT
14463580 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14463621 TATTATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:14463627 original size:3 final size:3
Alignment explanation
Indices: 14463621--14463662 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
14463611 AATAATAATA
14463621 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14463663 ATTTTCATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14464599 original size:21 final size:22
Alignment explanation
Indices: 14464568--14464611 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
14464558 TTATTTTCTG
14464568 TTTTGATTTTGATCTTGATTTA
1 TTTTGATTTTGATCTTGATTTA
* *
14464590 TTTTG-TTTTGATTTTTATTTA
1 TTTTGATTTTGATCTTGATTTA
14464611 T
1 T
14464612 ATATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.16, C:0.02, G:0.11, T:0.70
Consensus pattern (22 bp):
TTTTGATTTTGATCTTGATTTA
Found at i:14464644 original size:3 final size:3
Alignment explanation
Indices: 14464638--14464683 Score: 51
Period size: 3 Copynumber: 15.7 Consensus size: 3
14464628 ATTGTTGTTG
* *
14464638 TTA TTA TTA TTA TTA TTA TT- TTA -TG TTA TTA TTA ATA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
14464682 TT
1 TT
14464684 TTGGAAATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
2 3 0.08
3 31 0.86
4 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14464664 original size:25 final size:26
Alignment explanation
Indices: 14464636--14464685 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
14464626 ATATTGTTGT
*
14464636 TGTTATTATTATTA-TTATTATTTTA
1 TGTTATTATTAATATTTATTATTTTA
14464661 TGTTATTATTAATATTTATTATTTT
1 TGTTATTATTAATATTTATTATTTT
14464686 GGAAATAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (26 bp):
TGTTATTATTAATATTTATTATTTTA
Found at i:14465630 original size:3 final size:3
Alignment explanation
Indices: 14465619--14465661 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
14465609 AATAATAATA
*
14465619 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
14465662 GTTTCATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:14466203 original size:19 final size:19
Alignment explanation
Indices: 14466171--14466209 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14466161 GATGGATTCA
* *
14466171 TTTATTTTTATTATGTTAT
1 TTTATTTGTATTATATTAT
*
14466190 TTTATTTGTCTTATATTAT
1 TTTATTTGTATTATATTAT
14466209 T
1 T
14466210 GTTAATTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.72
Consensus pattern (19 bp):
TTTATTTGTATTATATTAT
Found at i:14471941 original size:31 final size:31
Alignment explanation
Indices: 14471905--14471969 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
14471895 AAATAAAATA
* *
14471905 TATAATTTGCACTTTAAACTTTTAAATAATG
1 TATAATTTACACCTTAAACTTTTAAATAATG
* *
14471936 TATAATTTACACCTTGAACTTTTAAATTATG
1 TATAATTTACACCTTAAACTTTTAAATAATG
14471967 TAT
1 TAT
14471970 CATATTAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.11, G:0.06, T:0.46
Consensus pattern (31 bp):
TATAATTTACACCTTAAACTTTTAAATAATG
Found at i:14474231 original size:20 final size:20
Alignment explanation
Indices: 14474194--14474236 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
14474184 AGAGAAAACC
14474194 AAAGGAAAAAACATGAAAGTA
1 AAAGGAAAAAACATGAAAG-A
14474215 AAAGAGAAAAAA-A-GAAAGA
1 AAAG-GAAAAAACATGAAAGA
14474234 AAA
1 AAA
14474237 AAAGTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.19
20 5 0.24
21 5 0.24
22 7 0.33
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.05
Consensus pattern (20 bp):
AAAGGAAAAAACATGAAAGA
Found at i:14474237 original size:20 final size:21
Alignment explanation
Indices: 14474194--14474237 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
14474184 AGAGAAAACC
*
14474194 AAAGGAAAAAACATGAAAGTA
1 AAAGGAAAAAACATGAAAGAA
14474215 AAAGAGAAAAAA-A-GAAAGAA
1 AAAG-GAAAAAACATGAAAGAA
14474235 AAA
1 AAA
14474238 AAGTTGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 5 0.24
22 7 0.33
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (21 bp):
AAAGGAAAAAACATGAAAGAA
Found at i:14474321 original size:11 final size:11
Alignment explanation
Indices: 14474282--14474325 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
14474272 TCTTTTCTCG
*
14474282 CATTTTCATTA
1 CATTTTCATAA
* *
14474293 CATTCTCATTA
1 CATTTTCATAA
14474304 CATTTTTCATAA
1 CA-TTTTCATAA
14474316 CATTTTCATA
1 CATTTTCATA
14474326 TTGGTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (11 bp):
CATTTTCATAA
Found at i:14474726 original size:378 final size:374
Alignment explanation
Indices: 14474012--14474752 Score: 936
Period size: 378 Copynumber: 2.0 Consensus size: 374
14474002 GATCTAATAT
* * *
14474012 TGAAAGTTGACTCCTTGAAATGAAAACAAGAAAGGATTTTTGGCCTTTAGATAAACTCCTAATCC
1 TGAAAATTGACTCCTTGAAATGAAAACAAGAAAGGATTTTTGACCATTAGATAAACTCCTAATCC
* * *
14474077 AAAGGCTAACATATAATCTTGGAAGGGTTTTTTTCTTCTTCATGATGAAGTTGGAAAAACATGAA
66 AAAGGCTAACATATAATCTTGGAAGAGTTTTTTTCTTCTTCATAAGGAAGTTGGAAAAACATGAA
* * *
14474142 AAACCAAAAAGATAAGAGGGCTGGAAGTATAAAAATAAAAGGAGAGAAAACCAAAGGAAAAAACA
131 AAACCAAAAAGATAAGAGGGCTAGAAATACAAAAATAAAAGGAGAGAAAACCAAAGGAAAAAACA
* * * *
14474207 TGAAAGTAAAAGAGAAAAAAAGAAAGAAAAAAAGTTGAAAAAAGCTTAGAAAAAGGTAGAAAATT
196 TGAAAGAAAAAAAGAAAAAAAGAAAAAAAAAAAGTTGAAAAAAGCTTAGAAAAAGATAGAAAATT
* * *
14474272 TCTTTTCTCGCATTTTCATTACATTCTCATTACATTTTTCATAACATTTTCATATTGGTTTTTTA
261 TCTTTTCTCGCATTTTCATTACATTCTCATCACATTTTTCATAACATTTTCATATTAGTTTTCTA
14474337 TTTTCTTGAAAGTTTATAGTTTCTTTTTTATTCAATCTTGATCCAATTA
326 TTTTCTTGAAAGTTTATAGTTTCTTTTTTATTCAATCTTGATCCAATTA
* * * * **
14474386 TGAAAATTGACTCCTTGAAATGAAAACAAGGGAA-GATTTTTTACCATTGGATGAACTTTTAATC
1 TGAAAATTGACTCCTTGAAATGAAAACAA-GAAAGGATTTTTGACCATTAGATAAACTCCTAATC
** * * * ** **
14474450 TGAAGGCTAA-ATATTTAATTTTGGAAGATTTTTTTTCTTCTTGATAAGGGGGTT-GAAATAATG
65 CAAAGGCTAACATA--TAATCTTGGAAGAGTTTTTTTCTTCTTCATAAGGAAGTTGGAAA-AACA
* * * * * **
14474513 TGAAAAACTAGAAAGA-AGAGAGGGCTAGAAATGCAAAAAT-AAAGTAGATAAAATGAAAGGAAA
127 TGAAAAACCAAAAAGATA-AGAGGGCTAGAAATACAAAAATAAAAGGAGAGAAAACCAAAGGAAA
* * * *
14474576 AAACATTAGAGAAAAATAAGAAAAAAGGAGAGAAAAAAAAAAGTTGAAGAAAGCTTAGAGAAAGA
191 AAACATGAAAGAAAAA-AAGAAAAAA--AGA-AAAAAAAAAAGTTGAAAAAAGCTTAGAAAAAGA
* * *
14474641 TA-AAAATTTTCTTTTTTTGCATTTTCATTATATTCTCATCACATTTTTCATAACATTTTCATAT
252 TAGAAAA-TTTCTTTTCTCGCATTTTCATTACATTCTCATCACATTTTTCATAACATTTTCATAT
*
14474705 TAGTTTTCTATTTTTTTGAAAGTTTATAGTTTCTTTTTTATTCAATCT
316 TAGTTTTCTATTTTCTTGAAAGTTTATAGTTTCTTTTTTATTCAATCT
14474753 CGTTCAAAGT
Statistics
Matches: 311, Mismatches: 46, Indels: 16
0.83 0.12 0.04
Matches are distributed among these distances:
373 3 0.01
374 96 0.31
375 76 0.24
377 7 0.02
378 129 0.41
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (374 bp):
TGAAAATTGACTCCTTGAAATGAAAACAAGAAAGGATTTTTGACCATTAGATAAACTCCTAATCC
AAAGGCTAACATATAATCTTGGAAGAGTTTTTTTCTTCTTCATAAGGAAGTTGGAAAAACATGAA
AAACCAAAAAGATAAGAGGGCTAGAAATACAAAAATAAAAGGAGAGAAAACCAAAGGAAAAAACA
TGAAAGAAAAAAAGAAAAAAAGAAAAAAAAAAAGTTGAAAAAAGCTTAGAAAAAGATAGAAAATT
TCTTTTCTCGCATTTTCATTACATTCTCATCACATTTTTCATAACATTTTCATATTAGTTTTCTA
TTTTCTTGAAAGTTTATAGTTTCTTTTTTATTCAATCTTGATCCAATTA
Found at i:14475388 original size:18 final size:18
Alignment explanation
Indices: 14475361--14475400 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
14475351 TCACATGCAT
* *
14475361 AATTCCCATGAAACCCTA
1 AATTCACATGAAACCCCA
14475379 AATTCACATGAAACCCCA
1 AATTCACATGAAACCCCA
14475397 AATT
1 AATT
14475401 TGAAATCCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.30, G:0.05, T:0.23
Consensus pattern (18 bp):
AATTCACATGAAACCCCA
Found at i:14475491 original size:26 final size:26
Alignment explanation
Indices: 14475407--14475484 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
14475397 AATTTGAAAT
* * *
14475407 CCTAAACCACCTTCCAAACCTTAAAC
1 CCTAAACTACTTTTCAAACCTTAAAC
14475433 CCTAAACTACTTTTCAAACCTTAAAC
1 CCTAAACTACTTTTCAAACCTTAAAC
14475459 CCTAAAC-A-TTTTCTTAAACCTTAAAC
1 CCTAAACTACTTTTC--AAACCTTAAAC
14475485 TTTAAACCCT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
24 5 0.11
25 1 0.02
26 41 0.87
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.28
Consensus pattern (26 bp):
CCTAAACTACTTTTCAAACCTTAAAC
Found at i:14475744 original size:14 final size:14
Alignment explanation
Indices: 14475735--14475761 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14475725 TATTTCATGG
14475735 ATATGTTTTCAAAA
1 ATATGTTTTCAAAA
14475749 ATATGTTTTCAAA
1 ATATGTTTTCAAA
14475762 GTAAAGATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (14 bp):
ATATGTTTTCAAAA
Found at i:14476987 original size:23 final size:23
Alignment explanation
Indices: 14476957--14477003 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
14476947 CTAAACATGT
14476957 TATGTATTATGCCACGTTAGCTA
1 TATGTATTATGCCACGTTAGCTA
14476980 TATGTATTATGCCACGTTAGCTA
1 TATGTATTATGCCACGTTAGCTA
14477003 T
1 T
14477004 GAACTTGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (23 bp):
TATGTATTATGCCACGTTAGCTA
Found at i:14477266 original size:20 final size:18
Alignment explanation
Indices: 14477242--14477278 Score: 51
Period size: 16 Copynumber: 2.1 Consensus size: 18
14477232 AAACTTGCAA
14477242 CACTAGCTAATTGATATTT
1 CACTA-CTAATTGATATTT
14477261 CA--ACTAATTGATATTT
1 CACTACTAATTGATATTT
14477277 CA
1 CA
14477279 ACTATCATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 15 0.83
17 1 0.06
19 2 0.11
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (18 bp):
CACTACTAATTGATATTT
Found at i:14477269 original size:16 final size:16
Alignment explanation
Indices: 14477248--14477282 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
14477238 GCAACACTAG
14477248 CTAATTGATATTTCAA
1 CTAATTGATATTTCAA
14477264 CTAATTGATATTTCAA
1 CTAATTGATATTTCAA
14477280 CTA
1 CTA
14477283 TCATGTCAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (16 bp):
CTAATTGATATTTCAA
Found at i:14485693 original size:3 final size:3
Alignment explanation
Indices: 14485685--14485722 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
14485675 ATTTGTCTTA
14485685 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14485723 ACAATATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14486506 original size:133 final size:130
Alignment explanation
Indices: 14486222--14487132 Score: 748
Period size: 133 Copynumber: 7.0 Consensus size: 130
14486212 TTTTACCATA
* * * * * * * * *
14486222 TTGCAACAATAACTTTTTATCGTTATAAAAAAGATTAAAATTTTCATAACAA-TATTTTGTCATT
1 TTGCAATAATAAATTTTTATCATTACAAATATGATAAAAATTTTCGTAA-AATTTTTTTGTCATT
** * * *
14486286 GTATAAAATATT--TTAAA-AAATTAAACAACAACATTGAAAATTAATTGTTACAAATAAAATAA
65 GTATAAAATATTAAAAAAATAAATTAAGCAACAACATTGAAAAATCATTG---CAAATAAAATAA
14486348 GTTT
127 GTTT
* * ** * * * *
14486352 TAGTAATAATAGTTTTTTATCATTACAGATATAATAAAAATTTTGGTGATAATTTTTTTGTCATT
1 TTGCAATAATAAATTTTTATCATTACAAATATGATAAAAATTTTCGT-AAAATTTTTTTGTCATT
* * *
14486417 GTATAAAATATTAAAAATGAATAAATTAAGCAACGACATTGAAAAATCGTTGCAAATAAAATAAA
65 GTATAAAATATTAAAAA--AATAAATTAAGCAACAACATTGAAAAATCATTGCAAATAAAATAAG
14486482 TTT
128 TTT
* * *
14486485 TTGCAATAATAAATTTTTATCATTACGAATATGATAAAAATTTTCTTAGCAATTTTTTTTGTCAT
1 TTGCAATAATAAATTTTTATCATTACAAATATGATAAAAATTTTCGTA--AAATTTTTTTGTCAT
* * * ** * * ** *
14486550 TGCATAAAATATTTAAAAAAGAAATTAAATAACAACATTAACAAAATCGTTATAAATAAAACAAG
64 TGTATAAAATATTAAAAAAATAAATTAAGCAACAACATTGA-AAAATCATTGCAAATAAAATAAG
14486615 TTT
128 TTT
* * * * * * * *
14486618 TTACAACAATAATTTTTTATCGTTATAAATATGATAAAAATTTTCGTCACAACTTTTTTGTCGTT
1 TTGCAATAATAAATTTTTATCATTACAAATATGATAAAAATTTTCGT-AAAATTTTTTTGTCATT
* * * *
14486683 ATATAAAATATTAAAAAAATAAAATAAGCAACAACATTGAAAACTCATTGCAAATAAAACAAGTT
65 GTATAAAATATTAAAAAAATAAATTAAGCAACAACATTGAAAAATCATTGCAAATAAAATAAGTT
14486748 T
130 T
** *
14486749 TTGCAATAAT-AATTTTTATTGTTACAAATATGATAAAAA-TTTCGTAACAATTTTGTTGT-AGT
1 TTGCAATAATAAATTTTTATCATTACAAATATGATAAAAATTTTCGTAA-AATTTTTTTGTCA-T
* ** * * *
14486811 TGTATAAAATA-TATAAAAAA-AAGTTAAGCAATGACATTAAAAAATTATTGCAAATAAAATGAG
64 TGTATAAAATATTA-AAAAAATAAATTAAGCAACAACATTGAAAAATCATTGCAAATAAAATAAG
14486874 TTT
128 TTT
* * * * ** *
14486877 TTGTAATAATAATTTTTTA-CAATTACAAATATGATAAAAATTTTTGTAATACCTTTTTATCATT
1 TTGCAATAATAAATTTTTATC-ATTACAAATATGATAAAAATTTTCGTAAAATTTTTTTGTCATT
* * * *
14486941 GGATAAAATATTAAAAAAA-AAATTTA--AACAACA-TGAAAAAATCATTGTAAATAAAGA-GAG
65 GTATAAAATATTAAAAAAATAAATTAAGCAACAACATTG-AAAAATCATTGCAAATAAA-ATAAG
14487001 TTT
128 TTT
* ** * *
14487004 TTGCAACAAT-AATATTTTATTGTTACAAGTATGATAAAAA-TTT-GCACAAATTTTTTTGTCGA
1 TTGCAATAATAAAT-TTTTATCATTACAAATATGATAAAAATTTTCGTA-AAATTTTTTTGTC-A
* * * * **
14487066 -TATATAAAATATT-AAAAAATGACTTAAGTAA-AGACATTGAAAAATCATTATAAATAAAATAA
63 TTGTATAAAATATTAAAAAAATAAATTAAGCAACA-ACATTGAAAAATCATTGCAAATAAAATAA
*
14487128 ATTT
127 GTTT
14487132 T
1 T
14487133 CATTACAACT
Statistics
Matches: 625, Mismatches: 125, Indels: 64
0.77 0.15 0.08
Matches are distributed among these distances:
125 8 0.01
126 30 0.05
127 61 0.10
128 78 0.12
129 87 0.14
130 71 0.11
131 54 0.09
132 63 0.10
133 116 0.19
134 30 0.05
135 2 0.00
136 25 0.04
ACGTcount: A:0.47, C:0.08, G:0.08, T:0.37
Consensus pattern (130 bp):
TTGCAATAATAAATTTTTATCATTACAAATATGATAAAAATTTTCGTAAAATTTTTTTGTCATTG
TATAAAATATTAAAAAAATAAATTAAGCAACAACATTGAAAAATCATTGCAAATAAAATAAGTTT
Found at i:14492559 original size:15 final size:17
Alignment explanation
Indices: 14492525--14492559 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14492515 TCTCAAGATT
14492525 AAACAATCTTGATAAAG
1 AAACAATCTTGATAAAG
14492542 AAACAATCTT-AT-AAG
1 AAACAATCTTGATAAAG
14492557 AAA
1 AAA
14492560 AAATTAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.23
Consensus pattern (17 bp):
AAACAATCTTGATAAAG
Found at i:14501502 original size:23 final size:22
Alignment explanation
Indices: 14501456--14501503 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
14501446 GTCAAAAACT
**
14501456 AAAAAAAAAAAAAAGAAATTGC
1 AAAAAAAAAAAAAAGAAAAAGC
14501478 AAAAAAAAAAAGAAAGAAAAAGC
1 AAAAAAAAAAA-AAAGAAAAAGC
14501501 AAA
1 AAA
14501504 TTTAGGATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.81, C:0.04, G:0.10, T:0.04
Consensus pattern (22 bp):
AAAAAAAAAAAAAAGAAAAAGC
Found at i:14507929 original size:22 final size:23
Alignment explanation
Indices: 14507895--14507938 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
14507885 AAACAATACA
14507895 TTATATATATTTAAAT-AATATTT
1 TTATATATATTT-AATCAATATTT
*
14507918 TTAT-TATCTTTAATCAATATT
1 TTATATATATTTAATCAATATT
14507939 CATAAACACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 3 0.16
22 12 0.63
23 4 0.21
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (23 bp):
TTATATATATTTAATCAATATTT
Found at i:14510270 original size:21 final size:22
Alignment explanation
Indices: 14510220--14510271 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
14510210 TTTAAGGTGA
* *
14510220 ATTTTATTTATTGTTAAAATTT
1 ATTTTATTAATTATTAAAATTT
**
14510242 A-TAAATTAATTATT-AAATTT
1 ATTTTATTAATTATTAAAATTT
14510262 ATTTTATTAA
1 ATTTTATTAA
14510272 AGGTGGCCAA
Statistics
Matches: 23, Mismatches: 6, Indels: 3
0.72 0.19 0.09
Matches are distributed among these distances:
20 7 0.30
21 15 0.65
22 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTATTAATTATTAAAATTT
Found at i:14519072 original size:21 final size:21
Alignment explanation
Indices: 14519039--14519078 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14519029 TATTTTTTGC
14519039 ATACCAAGATAATATTGATAA
1 ATACCAAGATAATATTGATAA
* * *
14519060 ATACTAAGTTAATTTTGAT
1 ATACCAAGATAATATTGAT
14519079 TTTGATATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (21 bp):
ATACCAAGATAATATTGATAA
Found at i:14524444 original size:58 final size:58
Alignment explanation
Indices: 14524333--14524444 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
14524323 TAAAGATGTT
* * * * * * *
14524333 TGTTTCATCATTTCTGCCATTGCAGCTGGTATTGTTCTGCTTACATGGGAGGTTAAGA
1 TGTTTAATCATTTATGCCATTGCAGCTGGCACTGTTCTGCTCAAATGGAAGGTTAAGA
14524391 TGTTTAATCATTTATG-CACTTGCAGCTGGCACTGTTCTGCTCAAATGGAAGGTT
1 TGTTTAATCATTTATGCCA-TTGCAGCTGGCACTGTTCTGCTCAAATGGAAGGTT
14524445 TTGGCTAGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
57 2 0.04
58 44 0.96
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (58 bp):
TGTTTAATCATTTATGCCATTGCAGCTGGCACTGTTCTGCTCAAATGGAAGGTTAAGA
Found at i:14530754 original size:21 final size:21
Alignment explanation
Indices: 14530713--14530755 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14530703 AAATTTTTAT
**
14530713 AATAAATATTAATTATGATAA
1 AATAAATATTAATTAAAATAA
14530734 AATAAATAATTAA-TAAAATAA
1 AATAAAT-ATTAATTAAAATAA
14530755 A
1 A
14530756 GCTTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AATAAATATTAATTAAAATAA
Found at i:14532509 original size:44 final size:43
Alignment explanation
Indices: 14532356--14532514 Score: 128
Period size: 44 Copynumber: 3.7 Consensus size: 43
14532346 AAACAAAAGC
* * * * * *
14532356 AATGTAGC-TTTAAATTTT-AGAAAGCTCTTCTAACCATAGGC
1 AATGTAACTTTTAAATTTTAAAAAAACTTTTCTAACCAAAGGT
* ** * ** *
14532397 AATGTAACTTTGAAATTTTGCAAAAACTATTCTAATTAGAGGT
1 AATGTAACTTTTAAATTTTAAAAAAACTTTTCTAACCAAAGGT
14532440 AATGTAACTTTT-AATTTTACAAAAAAACTTTTCTAACCAAAGGT
1 AATGTAACTTTTAAATTTT--AAAAAAACTTTTCTAACCAAAGGT
* *
14532484 AATGAAACTTTTAAAATTTTTAAAAAA-TTTT
1 AATGTAACTTTT-AAATTTTAAAAAAACTTTT
14532515 GGTTGAAGTC
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 7 0.08
42 15 0.16
43 30 0.32
44 35 0.38
46 6 0.06
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (43 bp):
AATGTAACTTTTAAATTTTAAAAAAACTTTTCTAACCAAAGGT
Found at i:14532588 original size:33 final size:33
Alignment explanation
Indices: 14532546--14532645 Score: 128
Period size: 33 Copynumber: 3.0 Consensus size: 33
14532536 TAAGACAAAA
* *
14532546 TCCAAAAATGAAATGACTTGAATTGAGTGGGAG
1 TCCAAAAATGAAATGACTTGAATTGAGTCGAAG
* *
14532579 TCCAAAAATGAAATGACTTGAACTAAGTCGAAG
1 TCCAAAAATGAAATGACTTGAATTGAGTCGAAG
* * * *
14532612 TCTAAAAATGAAATGACCTAAATTGAATCGAAG
1 TCCAAAAATGAAATGACTTGAATTGAGTCGAAG
14532645 T
1 T
14532646 TGAAAAAAGT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.24
Consensus pattern (33 bp):
TCCAAAAATGAAATGACTTGAATTGAGTCGAAG
Found at i:14532652 original size:33 final size:32
Alignment explanation
Indices: 14532549--14532666 Score: 85
Period size: 33 Copynumber: 3.6 Consensus size: 32
14532539 GACAAAATCC
* * * * * *
14532549 AAAAATGAAATGACTTGAATTGAGTGGGAGTCC
1 AAAAATGAAATGACCTAAATTGAATCGAAGT-T
* * *
14532582 AAAAATGAAATGACTTGAACT-AAGTCGAAGTCT
1 AAAAATGAAATGACCTAAATTGAA-TCGAAGT-T
14532615 AAAAATGAAATGACCTAAATTGAATCGAAGTT
1 AAAAATGAAATGACCTAAATTGAATCGAAGTT
* * *
14532647 GAAAAAAGTAATGGCCTAAA
1 -AAAAATGAAATGACCTAAA
14532667 CTGAGCATAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
32 2 0.03
33 67 0.94
34 2 0.03
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (32 bp):
AAAAATGAAATGACCTAAATTGAATCGAAGTT
Found at i:14532819 original size:44 final size:45
Alignment explanation
Indices: 14532764--14532861 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 45
14532754 TACTTTAAGA
* * **
14532764 TCTTACTAATCATGCCCTGAGGTCTTTAAAGTTTATGTTCA-AAG
1 TCTTACAAATCATACCCAAAGGTCTTTAAAGTTTATGTTCAGAAG
* * *
14532808 TCTTACAAATCATACCCAAAGGTTTTTAGAGTTTATGTTCAGAGG
1 TCTTACAAATCATACCCAAAGGTCTTTAAAGTTTATGTTCAGAAG
14532853 TCTTACAAA
1 TCTTACAAA
14532862 CAAAATCCTA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 35 0.76
45 11 0.24
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (45 bp):
TCTTACAAATCATACCCAAAGGTCTTTAAAGTTTATGTTCAGAAG
Found at i:14532888 original size:44 final size:43
Alignment explanation
Indices: 14532783--14532888 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 43
14532773 TCATGCCCTG
*
14532783 AGGTCTTTAAAGTTTATGTTCAAAGTCTTACAAATCATACCCAA
1 AGGTCTTT-AAGTTTATGTTCAAAGTCTTACAAATCAAACCCAA
* * * *
14532827 AGGTTTTTAGAGTTTATGTTCAGAGGTCTTACAAA-CAAAATCCTA
1 AGGTCTTTA-AGTTTATGTTCA-AAGTCTTACAAATC-AAACCCAA
*
14532872 AGGTCTTTAAGATTATG
1 AGGTCTTTAAGTTTATG
14532889 CCCTGAGGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.02
44 27 0.52
45 24 0.46
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (43 bp):
AGGTCTTTAAGTTTATGTTCAAAGTCTTACAAATCAAACCCAA
Found at i:14537698 original size:9 final size:10
Alignment explanation
Indices: 14537679--14537724 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
14537669 TTATTTTTAT
14537679 TTTATAAAAA
1 TTTATAAAAA
14537689 TTTA-AAAAA
1 TTTATAAAAA
*
14537698 TATATAAAAA
1 TTTATAAAAA
*
14537708 TTAATAAAAA
1 TTTATAAAAA
*
14537718 TATATAA
1 TTTATAA
14537725 TTCAATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
9 8 0.27
10 22 0.73
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TTTATAAAAA
Found at i:14537707 original size:20 final size:20
Alignment explanation
Indices: 14537681--14537724 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
14537671 ATTTTTATTT
*
14537681 TATAAAAATTTA-AAAAATA
1 TATAAAAATTAATAAAAATA
14537700 TATAAAAATTAATAAAAATA
1 TATAAAAATTAATAAAAATA
14537720 TATAA
1 TATAA
14537725 TTCAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
TATAAAAATTAATAAAAATA
Found at i:14537751 original size:15 final size:16
Alignment explanation
Indices: 14537733--14537769 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
14537723 AATTCAATTT
14537733 AATTTAATT-TTTTTC
1 AATTTAATTATTTTTC
*
14537748 AATTT-TTTATTTTTC
1 AATTTAATTATTTTTC
14537763 AATTTAA
1 AATTTAA
14537770 AATTTGATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTTAATTATTTTTC
Found at i:14541097 original size:2 final size:2
Alignment explanation
Indices: 14541090--14541138 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
14541080 AGAGGCTAAC
14541090 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14541132 CT CT CT C
1 CT CT CT C
14541139 ATGTTCTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:14541369 original size:25 final size:25
Alignment explanation
Indices: 14541322--14541369 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
14541312 ATAAAATAAA
* *
14541322 ATAATTTGAAATTTTAATAAAATTT
1 ATAATTTGAAATTTAAAAAAAATTT
14541347 ATAATTT-AAATTTAAAAATAAAT
1 ATAATTTGAAATTTAAAAA-AAAT
14541370 AACTAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
ATAATTTGAAATTTAAAAAAAATTT
Found at i:14541371 original size:21 final size:25
Alignment explanation
Indices: 14541312--14541371 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 25
14541302 ATAATAAAGT
14541312 ATAAAATAAAATAATTTGAAATTTTA
1 ATAAAAT-AAATAATTTGAAATTTTA
**
14541338 ATAAAATTTATAATTT-AAA-TTT-
1 ATAAAATAAATAATTTGAAATTTTA
14541360 A-AAAATAAATAA
1 ATAAAATAAATAA
14541372 CTAATTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 9 0.30
22 1 0.03
23 3 0.10
24 3 0.10
25 7 0.23
26 7 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATAAAATAAATAATTTGAAATTTTA
Found at i:14542668 original size:46 final size:46
Alignment explanation
Indices: 14542601--14542695 Score: 154
Period size: 46 Copynumber: 2.1 Consensus size: 46
14542591 TTTTTTTCAA
* *
14542601 TTTAGAGTGATTTATTTTTGTTAATGAGCTTTGAAAATAATAATCT
1 TTTAGAGTGATTTATTTTTGTTAATGAGCCTGGAAAATAATAATCT
* *
14542647 TTTAGAGTGATTTGTTTTTGTTAATGAGCCTGGAAAATGATAATCT
1 TTTAGAGTGATTTATTTTTGTTAATGAGCCTGGAAAATAATAATCT
14542693 TTT
1 TTT
14542696 CTATTTTCTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.47
Consensus pattern (46 bp):
TTTAGAGTGATTTATTTTTGTTAATGAGCCTGGAAAATAATAATCT
Found at i:14544831 original size:18 final size:18
Alignment explanation
Indices: 14544808--14544846 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
14544798 TTGACTGTGA
*
14544808 ATGACAAACTATTAATGC
1 ATGACAAACTATGAATGC
**
14544826 ATGACAATTTATGAATGC
1 ATGACAAACTATGAATGC
14544844 ATG
1 ATG
14544847 TAACAAAGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (18 bp):
ATGACAAACTATGAATGC
Found at i:14544957 original size:31 final size:31
Alignment explanation
Indices: 14544914--14544975 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
14544904 TTTAGGTAGG
14544914 TTTAGGGCCTAAGGTAAGGTTTAGGGTTTGA
1 TTTAGGGCCTAAGGTAAGGTTTAGGGTTTGA
* * *
14544945 TTTAGGGTCTAAGTTAAGGTTTGGGGTTTGA
1 TTTAGGGCCTAAGGTAAGGTTTAGGGTTTGA
14544976 GTTTGGTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.21, C:0.05, G:0.35, T:0.39
Consensus pattern (31 bp):
TTTAGGGCCTAAGGTAAGGTTTAGGGTTTGA
Found at i:14545000 original size:12 final size:12
Alignment explanation
Indices: 14544931--14545003 Score: 51
Period size: 12 Copynumber: 5.9 Consensus size: 12
14544921 CCTAAGGTAA
14544931 GGTTTAGGGTTT
1 GGTTTAGGGTTT
* *
14544943 GATTTAGGGTCTA
1 GGTTTAGGGT-TT
* *
14544956 AG-TTAAGGTTT
1 GGTTTAGGGTTT
*
14544967 GGGGTTT-GAGTTT
1 --GGTTTAGGGTTT
14544980 GGTTTTAGGGTTT
1 GG-TTTAGGGTTT
14544993 GGTTTAGGGTT
1 GGTTTAGGGTT
14545004 AAAGGTTTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
11 3 0.07
12 27 0.60
13 13 0.29
14 2 0.04
ACGTcount: A:0.14, C:0.01, G:0.38, T:0.47
Consensus pattern (12 bp):
GGTTTAGGGTTT
Found at i:14549494 original size:19 final size:19
Alignment explanation
Indices: 14549470--14549511 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
14549460 CAACGCTTTG
*
14549470 TTATATATAAGGCATGTTA
1 TTATATATAAGGCATGTCA
14549489 TTATATATAAGGCATGTCA
1 TTATATATAAGGCATGTCA
14549508 TTAT
1 TTAT
14549512 GGTAGCCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (19 bp):
TTATATATAAGGCATGTCA
Found at i:14552042 original size:11 final size:11
Alignment explanation
Indices: 14552028--14552102 Score: 71
Period size: 11 Copynumber: 6.4 Consensus size: 11
14552018 AAATAAAATA
14552028 AAAAATATCAT
1 AAAAATATCAT
14552039 AAAAA-ATCATT
1 AAAAATATCA-T
*
14552050 AAAACATCATAAT
1 AAAA-AT-ATCAT
14552063 AAAAATATCAT
1 AAAAATATCAT
14552074 AAAAAATATCAT
1 -AAAAATATCAT
*
14552086 GCAAAAAAATCAT
1 --AAAAATATCAT
14552099 AAAA
1 AAAA
14552103 CATCATTGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
10 4 0.07
11 18 0.33
12 14 0.26
13 15 0.28
14 3 0.06
ACGTcount: A:0.65, C:0.11, G:0.01, T:0.23
Consensus pattern (11 bp):
AAAAATATCAT
Found at i:14552067 original size:25 final size:25
Alignment explanation
Indices: 14552034--14552108 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
14552024 AATAAAAAAT
14552034 ATCATAAAAAATCATTAAAACATCATA
1 ATCA-AAAAAATCA-TAAAACATCATA
* * *
14552061 AT-AAAAATATCATAAAAAAT-ATC
1 ATCAAAAAAATCATAAAACATCATA
14552084 ATGCAAAAAAATCATAAAACATCAT
1 AT-CAAAAAAATCATAAAACATCAT
14552109 TGAATAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.10
24 7 0.17
25 24 0.60
26 3 0.08
27 2 0.05
ACGTcount: A:0.61, C:0.13, G:0.01, T:0.24
Consensus pattern (25 bp):
ATCAAAAAAATCATAAAACATCATA
Found at i:14552080 original size:12 final size:12
Alignment explanation
Indices: 14552025--14552102 Score: 74
Period size: 14 Copynumber: 6.5 Consensus size: 12
14552015 CAAAAATAAA
14552025 ATAAAAAATATC
1 ATAAAAAATATC
14552037 AT-AAAAA-ATC
1 ATAAAAAATATC
* *
14552047 AT-TAAAACATC
1 ATAAAAAATATC
14552058 ATAATAAAAATATC
1 AT-A-AAAAATATC
14552072 ATAAAAAATATC
1 ATAAAAAATATC
14552084 ATGCAAAAAA-ATC
1 AT--AAAAAATATC
14552097 ATAAAA
1 ATAAAA
14552103 CATCATTGAA
Statistics
Matches: 57, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
10 9 0.16
11 14 0.25
12 13 0.23
13 6 0.11
14 15 0.26
ACGTcount: A:0.65, C:0.10, G:0.01, T:0.23
Consensus pattern (12 bp):
ATAAAAAATATC
Found at i:14552085 original size:47 final size:47
Alignment explanation
Indices: 14552016--14552108 Score: 134
Period size: 47 Copynumber: 1.9 Consensus size: 47
14552006 AATTTTATAC
14552016 AAAAATAAAATAAAAAATATCAT-AAAAAATCATTAAAACATCATAAT
1 AAAAATAAAATAAAAAATATCATAAAAAAATCA-TAAAACATCATAAT
**
14552063 AAAAATATCATAAAAAATATCATGCAAAAAAATCATAAAACATCAT
1 AAAAATAAAATAAAAAATATCAT--AAAAAAATCATAAAACATCAT
14552109 TGAATAATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
47 21 0.51
49 11 0.27
50 9 0.22
ACGTcount: A:0.66, C:0.11, G:0.01, T:0.23
Consensus pattern (47 bp):
AAAAATAAAATAAAAAATATCATAAAAAAATCATAAAACATCATAAT
Found at i:14552168 original size:24 final size:24
Alignment explanation
Indices: 14552063--14552191 Score: 127
Period size: 24 Copynumber: 5.3 Consensus size: 24
14552053 ACATCATAAT
*
14552063 AAAAATATCATAAAAAATATCATGC
1 AAAAATATCATAATAAA-ATCATGC
* *
14552088 AAAAAAATCATAA-AACATCATTG-
1 AAAAATATCATAATAAAATCA-TGC
* *
14552111 AATAATATCGTAATAAAATCATGC
1 AAAAATATCATAATAAAATCATGC
**
14552135 AATGATATCATAATAAAATCATGC
1 AAAAATATCATAATAAAATCATGC
* * *
14552159 AAAAAAATCACAATAAATATCATTC
1 AAAAATATCATAATAAA-ATCATGC
14552184 AAAAATAT
1 AAAAATAT
14552192 AAAAATTCAA
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
23 16 0.19
24 45 0.52
25 25 0.29
ACGTcount: A:0.57, C:0.12, G:0.05, T:0.26
Consensus pattern (24 bp):
AAAAATATCATAATAAAATCATGC
Found at i:14555826 original size:11 final size:11
Alignment explanation
Indices: 14555810--14555837 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
14555800 TCATACCTAT
14555810 GGCCATGCTTA
1 GGCCATGCTTA
14555821 GGCCATGCTTA
1 GGCCATGCTTA
14555832 GGCCAT
1 GGCCAT
14555838 CTAAAAACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.29, G:0.29, T:0.25
Consensus pattern (11 bp):
GGCCATGCTTA
Found at i:14556974 original size:15 final size:13
Alignment explanation
Indices: 14556954--14556992 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
14556944 GACTTTAACC
14556954 AAATAATAAAAATGA
1 AAATAA-AAAAAT-A
14556969 AAATAAATAAAATA
1 AAATAAA-AAAATA
14556983 AAATAAAAAA
1 AAATAAAAAA
14556993 GGTCTTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.13
14 9 0.39
15 11 0.48
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAAAAAATA
Found at i:14557354 original size:22 final size:22
Alignment explanation
Indices: 14557324--14557369 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14557314 AAAGTCTCAA
* *
14557324 AATTTAAAA-TTCAATGGTTCAC
1 AATTGAAAATTTCAA-GATTCAC
14557346 AATTGAAAATTTCAAGATTCAC
1 AATTGAAAATTTCAAGATTCAC
14557368 AA
1 AA
14557370 AATATTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (22 bp):
AATTGAAAATTTCAAGATTCAC
Found at i:14557466 original size:18 final size:18
Alignment explanation
Indices: 14557445--14557540 Score: 86
Period size: 18 Copynumber: 5.3 Consensus size: 18
14557435 TATAGATTCA
14557445 CAAGAGTTCAAAGATTTG
1 CAAGAGTTCAAAGATTTG
** * *
14557463 CAAGAAATAAAAAATTTG
1 CAAGAGTTCAAAGATTTG
* *
14557481 TAAGAGTTCAAAGATTAG
1 CAAGAGTTCAAAGATTTG
* * *
14557499 CAAAAATTCAATGATTTG
1 CAAGAGTTCAAAGATTTG
*
14557517 GAA-ATGTTCAAAGATTTG
1 CAAGA-GTTCAAAGATTTG
14557535 CAAGAG
1 CAAGAG
14557541 ATAAAAGACT
Statistics
Matches: 57, Mismatches: 19, Indels: 4
0.71 0.24 0.05
Matches are distributed among these distances:
17 1 0.02
18 55 0.96
19 1 0.02
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (18 bp):
CAAGAGTTCAAAGATTTG
Found at i:14557488 original size:36 final size:36
Alignment explanation
Indices: 14557446--14557546 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 36
14557436 ATAGATTCAC
*
14557446 AAGAGTTCAAAGATTTGCAAGAAATAAAAAATTTGT
1 AAGAGTTCAAAGATTTGCAAGAAATAAAAAATTTGG
* * **
14557482 AAGAGTTCAAAGATTAGCAA-AAATTCAATGATTTGG
1 AAGAGTTCAAAGATTTGCAAGAAA-TAAAAAATTTGG
*
14557518 AA-ATGTTCAAAGATTTGCAAGAGATAAAA
1 AAGA-GTTCAAAGATTTGCAAGAAATAAAA
14557547 GACTCATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
35 4 0.08
36 47 0.89
37 2 0.04
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.27
Consensus pattern (36 bp):
AAGAGTTCAAAGATTTGCAAGAAATAAAAAATTTGG
Found at i:14557587 original size:72 final size:72
Alignment explanation
Indices: 14557450--14557587 Score: 154
Period size: 72 Copynumber: 1.9 Consensus size: 72
14557440 ATTCACAAGA
* ** * * *
14557450 GTTCAAAGATTTGCAAGAAATAAAAAATTTGTAAGAGTTCAAAGATTAGCAAAAATTCAATGATT
1 GTTCAAAGATTTGCAAGAAATAAAAAACTCATAAGAATTCAAAAATTAGCAAAAATTCAAAGATT
14557515 TGGAAAT
66 TGGAAAT
* * * *
14557522 GTTCAAAGATTTGCAAGAGATAAAAGACTCATAA-ATATTCAAAAATTCA-CAACAATTTAAAGA
1 GTTCAAAGATTTGCAAGAAATAAAAAACTCATAAGA-ATTCAAAAATT-AGCAAAAATTCAAAGA
14557585 TTT
64 TTT
14557588 ACAAGAATTC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
71 1 0.02
72 52 0.96
73 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (72 bp):
GTTCAAAGATTTGCAAGAAATAAAAAACTCATAAGAATTCAAAAATTAGCAAAAATTCAAAGATT
TGGAAAT
Found at i:14557596 original size:18 final size:18
Alignment explanation
Indices: 14557558--14557605 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
14557548 ACTCATAAAT
* *
14557558 ATTCAAAAATTCACAACA
1 ATTCAAAGATTTACAACA
* *
14557576 ATTTAAAGATTTACAAGA
1 ATTCAAAGATTTACAACA
14557594 ATTCAAAGATTT
1 ATTCAAAGATTT
14557606 GTAAATAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (18 bp):
ATTCAAAGATTTACAACA
Found at i:14557679 original size:20 final size:20
Alignment explanation
Indices: 14557656--14557723 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 20
14557646 CTGCAATTGT
14557656 AAAGATTCACAAATAATTTC
1 AAAGATTCACAAATAATTTC
* * *
14557676 AAAG-TT-TC-ATTAATTGC
1 AAAGATTCACAAATAATTTC
*
14557693 AAAGATTCATAAATAA-TTC
1 AAAGATTCACAAATAATTTC
*
14557712 AAAGATTTACAA
1 AAAGATTCACAA
14557724 GTGAAATTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 7
0.69 0.17 0.13
Matches are distributed among these distances:
17 11 0.31
18 3 0.08
19 14 0.39
20 8 0.22
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.32
Consensus pattern (20 bp):
AAAGATTCACAAATAATTTC
Found at i:14557695 original size:17 final size:17
Alignment explanation
Indices: 14557669--14557702 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14557659 GATTCACAAA
* *
14557669 TAATTTCAAAGTTTCAT
1 TAATTGCAAAGATTCAT
14557686 TAATTGCAAAGATTCAT
1 TAATTGCAAAGATTCAT
14557703 AAATAATTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (17 bp):
TAATTGCAAAGATTCAT
Found at i:14557751 original size:21 final size:21
Alignment explanation
Indices: 14557731--14557853 Score: 99
Period size: 22 Copynumber: 5.7 Consensus size: 21
14557721 CAAGTGAAAT
*
14557731 TTTTAAGTTTCACA-TCAAAA
1 TTTTAAGATTCACATTCAAAA
**
14557751 TTCAAAGATTCACATTCAAAAA
1 TTTTAAGATTCACATTC-AAAA
* *
14557773 TTTTAAAAAATTCACATT-TAAA
1 TTTT--AAGATTCACATTCAAAA
14557795 TTTTAA-ATTCACATTCAAAA
1 TTTTAAGATTCACATTCAAAA
* **
14557815 TTTTAAAAATTCTTATTCAAAAA
1 TTTT-AAGATTCACATTC-AAAA
14557838 TTTTAGAGATTCACAT
1 TTTTA-AGATTCACAT
14557854 CTTAAACTCA
Statistics
Matches: 81, Mismatches: 13, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
19 9 0.11
20 20 0.25
21 4 0.05
22 22 0.27
23 15 0.19
24 11 0.14
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (21 bp):
TTTTAAGATTCACATTCAAAA
Found at i:14557832 original size:22 final size:23
Alignment explanation
Indices: 14557758--14557853 Score: 103
Period size: 22 Copynumber: 4.3 Consensus size: 23
14557748 AAATTCAAAG
14557758 ATTCACATTCAAAAATTTTAAAAA
1 ATTCACATTCAAAAATTTT-AAAA
*
14557782 ATTCACATT--TAAATTTT--AA
1 ATTCACATTCAAAAATTTTAAAA
14557801 ATTCACATTC-AAAATTTTAAAA
1 ATTCACATTCAAAAATTTTAAAA
** * *
14557823 ATTCTTATTCAAAAATTTTAGAG
1 ATTCACATTCAAAAATTTTAAAA
14557846 ATTCACAT
1 ATTCACAT
14557854 CTTAAACTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
19 11 0.18
20 7 0.12
22 17 0.28
23 16 0.27
24 9 0.15
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTCACATTCAAAAATTTTAAAA
Found at i:14557835 original size:65 final size:63
Alignment explanation
Indices: 14557739--14557859 Score: 154
Period size: 65 Copynumber: 1.9 Consensus size: 63
14557729 ATTTTTAAGT
*
14557739 TTCACATCAAAATTCAAAGATTCACATTCAAAAATTTTAAAAAATTCACAT-TTAAATTTTAAA
1 TTCACATCAAAATTCAAAAATTCACATTCAAAAATTTT-AAAAATTCACATCTTAAATTTTAAA
* ** * *
14557802 TTCACATTCAAAATTTTAAAAATTCTTATTCAAAAATTTTAGAGATTCACATCTTAAA
1 TTCACA-TCAAAA-TTCAAAAATTCACATTCAAAAATTTTAAAAATTCACATCTTAAA
14557860 CTCATACATT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 6 0.12
64 16 0.33
65 27 0.55
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.37
Consensus pattern (63 bp):
TTCACATCAAAATTCAAAAATTCACATTCAAAAATTTTAAAAATTCACATCTTAAATTTTAAA
Found at i:14557839 original size:43 final size:45
Alignment explanation
Indices: 14557739--14557853 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 45
14557729 ATTTTTAAGT
* * *
14557739 TTCACATCAAAA-TTCAAAGATTCACATTCAAAAATTTTAAAAAA
1 TTCACATTAAAATTTTAGAGATTCACATTCAAAAATTTTAAAAAA
*
14557783 TTCACATTTAAATTTTA-A-ATTCACATTC-AAAATTTT-AAAAA
1 TTCACATTAAAATTTTAGAGATTCACATTCAAAAATTTTAAAAAA
**
14557824 TTCTTATTCAAAAATTTTAGAGATTCACAT
1 TTCACATT--AAAATTTTAGAGATTCACAT
14557854 CTTAAACTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
41 11 0.18
42 8 0.13
43 18 0.30
44 12 0.20
45 11 0.18
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (45 bp):
TTCACATTAAAATTTTAGAGATTCACATTCAAAAATTTTAAAAAA
Found at i:14557934 original size:101 final size:101
Alignment explanation
Indices: 14557823--14558038 Score: 263
Period size: 101 Copynumber: 2.1 Consensus size: 101
14557813 AATTTTAAAA
* * * *
14557823 ATTCTTATTCAAAAATTTTAGAGATTCACATCTTAAACTCATACATTTACATTGGAAAG-TTCCA
1 ATTCTCATTCAAAAATTTTAGAGATTCACATCTAAAACTCATACATTCACATTGCAAAGATT-CA
*
14557887 CATTGAAAGATTTGCATTCAAAAGATTCACATCCAAG
65 CATTCAAAGATTTGCATTCAAAAGATTCACATCCAAG
* ** * *
14557924 ATTCTCATTCAAAAATTTTAGGGATTTGCATCTAAAACTCATACATTCGCATTGCAAAGATTTAC
1 ATTCTCATTCAAAAATTTTAGAGATTCACATCTAAAACTCATACATTCACATTGCAAAGATTCAC
* ** * *
14557989 GTTCAAATCTTTGCATTCGAAATATTCACATCCAAG
66 ATTCAAAGATTTGCATTCAAAAGATTCACATCCAAG
* *
14558025 ATTCACATTTAAAA
1 ATTCTCATTCAAAA
14558039 GATTCACATC
Statistics
Matches: 97, Mismatches: 17, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
101 95 0.98
102 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.34
Consensus pattern (101 bp):
ATTCTCATTCAAAAATTTTAGAGATTCACATCTAAAACTCATACATTCACATTGCAAAGATTCAC
ATTCAAAGATTTGCATTCAAAAGATTCACATCCAAG
Found at i:14559580 original size:20 final size:22
Alignment explanation
Indices: 14559545--14559601 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 22
14559535 TTCATCAACT
*
14559545 TTTTTTCTTTTCATATTTTTTC
1 TTTTTTCTTTTCATATTTTCTC
14559567 TTTTTTC-TTT-ATATTTTCTC
1 TTTTTTCTTTTCATATTTTCTC
*
14559587 TTCTTTTTTTTTCAT
1 TT-TTTTCTTTTCAT
14559602 TTTGCACTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 11 0.37
21 7 0.23
22 10 0.33
23 2 0.07
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTTTTCTTTTCATATTTTCTC
Found at i:14559997 original size:22 final size:22
Alignment explanation
Indices: 14559972--14560017 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
14559962 ATCCTAACAG
14559972 ATTGAGAATCTCCAAATCATCA
1 ATTGAGAATCTCCAAATCATCA
14559994 ATTGAGAATCTCCAAATCATCA
1 ATTGAGAATCTCCAAATCATCA
14560016 AT
1 AT
14560018 ATCACCATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (22 bp):
ATTGAGAATCTCCAAATCATCA
Done.