Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 54 of 182
Found at i:18122741 original size:29 final size:30
Alignment explanation
Indices: 18122546--18122762 Score: 104
Period size: 29 Copynumber: 7.4 Consensus size: 30
18122536 ACCTGGGGGC
* * *
18122546 AAAATGGTAATTTTGGTGAA-ATTGGGGTTA
1 AAAATGGTAATTTTTG-GAAGTTTGGGGGTA
* * *
18122576 AAAATGG-AATTTTT-AAGAGTTCGAGGGT-
1 AAAATGGTAATTTTTGGA-AGTTTGGGGGTA
*
18122604 AAAATGGTAATTTTTGGTGAA-ATT-GGGGTCA
1 AAAATGGTAATTTTT-G-GAAGTTTGGGGGT-A
* * *
18122635 AAAATAG-AA-TTTTGGAAAGTTTAGAGGT-
1 AAAATGGTAATTTTTGG-AAGTTTGGGGGTA
* * *
18122663 AAAATGGTAA-TTTTGATGAA-ATCGGGGTTA
1 AAAATGGTAATTTTTG--GAAGTTTGGGGGTA
18122693 AAAATGG-AA-TTTTGGAAAGTTTGGGGGT-
1 AAAATGGTAATTTTTGG-AAGTTTGGGGGTA
* *
18122721 AAAATGGTAATTTTTGGAAGTTTCGGGGTC
1 AAAATGGTAATTTTTGGAAGTTTGGGGGTA
*
18122751 AGAAT-GTAATTT
1 AAAATGGTAATTT
18122763 CTTAAAATTT
Statistics
Matches: 143, Mismatches: 24, Indels: 41
0.69 0.12 0.20
Matches are distributed among these distances:
27 3 0.02
28 26 0.18
29 72 0.50
30 33 0.23
31 8 0.06
32 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.29, T:0.35
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGAAGTTTGGGGGTA
Found at i:18122762 original size:58 final size:56
Alignment explanation
Indices: 18122541--18122762 Score: 177
Period size: 58 Copynumber: 3.8 Consensus size: 56
18122531 TGGATACCTG
* * * * *
18122541 GGGGCAAAATGGTAATTTTGGTGAAATT-GGGGTTAAAAATGGAATTTT-TAAGAG-TTC
1 GGGGTAAAATGGTAATTTTTGTG-AATTCGGGG-TCAAAAT-GAATTTTGGAA-AGTTTA
18122598 GAGGGTAAAATGGTAATTTTTGGTGAAATT-GGGGTCAAAAATAGAATTTTGGAAAGTTTA
1 G-GGGTAAAATGGTAATTTTT-GTG-AATTCGGGGTC-AAAAT-GAATTTTGGAAAGTTTA
* * * *
18122658 GAGGTAAAATGGTAA-TTTTGATGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTG
1 GGGGTAAAATGGTAATTTTTG-TGAATTCGGGG-TCAAAAT-GAATTTTGGAAAGTTTA
*
18122716 GGGGTAAAATGGTAATTTTTG-GAAGTTTCGGGGTCAGAATGTAATTT
1 GGGGTAAAATGGTAATTTTTGTGAA--TTCGGGGTCAAAATG-AATTT
18122763 CTTAAAATTT
Statistics
Matches: 138, Mismatches: 15, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
57 9 0.07
58 73 0.53
59 51 0.37
60 5 0.04
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.34
Consensus pattern (56 bp):
GGGGTAAAATGGTAATTTTTGTGAATTCGGGGTCAAAATGAATTTTGGAAAGTTTA
Found at i:18124633 original size:6 final size:6
Alignment explanation
Indices: 18124624--18124712 Score: 76
Period size: 6 Copynumber: 14.8 Consensus size: 6
18124614 TTGAATTTGA
* * *
18124624 TTAAAT TTAAAT CTAAA- ATAAAT TTAAAT AAGTAAAT TTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT --TTAAAT TTAAAT TTAAAT
** *
18124673 TTAAAT TTAAA- ACAAAT TTAAAA TT-AAT TTAAACT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA-T TTAAA
18124713 AGCCCAAGCC
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
5 11 0.17
6 44 0.67
7 6 0.09
8 5 0.08
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.40
Consensus pattern (6 bp):
TTAAAT
Found at i:18124651 original size:11 final size:11
Alignment explanation
Indices: 18124631--18124705 Score: 57
Period size: 11 Copynumber: 6.9 Consensus size: 11
18124621 TGATTAAATT
*
18124631 TAAATCTAAAA
1 TAAATTTAAAA
18124642 TAAATTT-AAA
1 TAAATTTAAAA
* *
18124652 T-AA-GTAAATT
1 TAAATTTAAA-A
*
18124662 TAAATTTAAATT
1 TAAATTTAAA-A
18124674 TAAATTTAAAA
1 TAAATTTAAAA
*
18124685 CAAATTTAAAA
1 TAAATTTAAAA
*
18124696 TTAATTTAAA
1 TAAATTTAAA
18124706 CTTTAAAAGC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
8 1 0.02
9 4 0.08
10 5 0.10
11 26 0.50
12 16 0.31
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:18124693 original size:23 final size:22
Alignment explanation
Indices: 18124663--18124705 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
18124653 AAGTAAATTT
*
18124663 AAATTTAAATTTAAATTTAAAAC
1 AAATTTAAAATT-AATTTAAAAC
18124686 AAATTTAAAATTAATTTAAA
1 AAATTTAAAATTAATTTAAA
18124706 CTTTAAAAGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATTTAAAATTAATTTAAAAC
Found at i:18124699 original size:29 final size:29
Alignment explanation
Indices: 18124657--18124713 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
18124647 TTAAATAAGT
*
18124657 AAATTTAAATTTAAATTTAAA-TTTAAAAC
1 AAATTTAAAATT-AATTTAAACTTTAAAAC
18124686 AAATTTAAAATTAATTTAAACTTTAAAA
1 AAATTTAAAATTAATTTAAACTTTAAAA
18124714 GCCCAAGCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATTTAAAATTAATTTAAACTTTAAAAC
Found at i:18127797 original size:17 final size:17
Alignment explanation
Indices: 18127709--18127798 Score: 71
Period size: 17 Copynumber: 5.3 Consensus size: 17
18127699 AATATGAAAA
18127709 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
* * *
18127726 GTTAAAGACAAAAGG-AG
1 GTTAAGGA-AGATGGAAG
*
18127743 GTTAAGGAAAATGGAAG
1 GTTAAGGAAGATGGAAG
*
18127760 GTTAA--AAGTCAAGGGAA-
1 GTTAAGGAAG---ATGGAAG
18127777 GTTAAGGAAGATGGAAG
1 GTTAAGGAAGATGGAAG
18127794 GTTAA
1 GTTAA
18127799 AAGTCAAGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
15 2 0.04
16 10 0.18
17 33 0.58
18 9 0.16
19 3 0.05
ACGTcount: A:0.46, C:0.02, G:0.34, T:0.18
Consensus pattern (17 bp):
GTTAAGGAAGATGGAAG
Found at i:18127800 original size:34 final size:34
Alignment explanation
Indices: 18127707--18127806 Score: 148
Period size: 34 Copynumber: 2.9 Consensus size: 34
18127697 AGAATATGAA
* *
18127707 AAGTTAAGGAAGATGGAAGGTT-AAAGACAAAAGG
1 AAGTTAAGGAAGATGGAAGGTTAAAAGTC-AAGGG
* *
18127741 AGGTTAAGGAAAATGGAAGGTTAAAAGTCAAGGG
1 AAGTTAAGGAAGATGGAAGGTTAAAAGTCAAGGG
18127775 AAGTTAAGGAAGATGGAAGGTTAAAAGTCAAG
1 AAGTTAAGGAAGATGGAAGGTTAAAAGTCAAG
18127807 AGAGATGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
34 54 0.92
35 5 0.08
ACGTcount: A:0.47, C:0.03, G:0.33, T:0.17
Consensus pattern (34 bp):
AAGTTAAGGAAGATGGAAGGTTAAAAGTCAAGGG
Found at i:18128625 original size:6 final size:6
Alignment explanation
Indices: 18128616--18128701 Score: 70
Period size: 6 Copynumber: 14.7 Consensus size: 6
18128606 ATTTGATATG
** * *
18128616 AATTTA AATTTA TTTTTA AATTTA AA-TTA AACTTTA AATTTG AATTTG
1 AATTTA AATTTA AATTTA AATTTA AATTTA AA-TTTA AATTTA AATTTA
* * * *
18128664 AGTCTA AATTT- ATTTTA AATTTA AAATT- AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATT
18128702 AAAGTCCAAA
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
5 13 0.21
6 44 0.71
7 5 0.08
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:18128651 original size:12 final size:11
Alignment explanation
Indices: 18128631--18128704 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
18128621 AAATTTATTT
18128631 TTAAATTTAAA
1 TTAAATTTAAA
18128642 TTAAACTTTAAA
1 TTAAA-TTTAAA
* * *
18128654 TTTGAATTTGAG
1 -TTAAATTTAAA
**
18128666 TCTAAATTTATT
1 T-TAAATTTAAA
18128678 TTAAATTTAAAA
1 TTAAATTT-AAA
18128690 TT-AATTTAAA
1 TTAAATTTAAA
18128700 TTAAA
1 TTAAA
18128705 GTCCAAAGTC
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
10 5 0.10
11 20 0.41
12 20 0.41
13 4 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:18130528 original size:161 final size:162
Alignment explanation
Indices: 18130249--18130563 Score: 490
Period size: 161 Copynumber: 2.0 Consensus size: 162
18130239 CTCAATTTAA
* * * *
18130249 TCCTTTGACTGTTTGACCACACCAGAGGTTGCCACGTGTCATTTTTTGGCTTATTTTTGCATTCG
1 TCCTTTGACTGTTTGACCACACCAGAGGCTGCCACGTGTCATTTTTTGGCATATTTATGCATTCA
* *
18130314 GTCCCTGACATTTTTAACTTATTTTAATTGAATCCCTAAATCAACTTTTATTTAATTATAAAATT
66 GTCCCTGACATTTTTAACTTATTTTAATTGAATCCCCAAATCAACTCTTATTTAATTATAAAATT
* *
18130379 GGCCCGAGAATTTTTTAAGGTTTATAAATTAG
131 GGCCCAAGAATTTTTCAAGGTTTATAAATTAG
*
18130411 TCCTTTGACTGTTTGACCGCACCAGAGGCTGCCACGTGTCA-TTTTTGGCATATTTATGCACTT-
1 TCCTTTGACTGTTTGACCACACCAGAGGCTGCCACGTGTCATTTTTTGGCATATTTATGCA-TTC
* * * *
18130474 AGTCCCTGATATTTTTAATTTGTTTTAATTTAATCCCCAAATCAACTCTTATTTAATTATAAAAT
65 AGTCCCTGACATTTTTAACTTATTTTAATTGAATCCCCAAATCAACTCTTATTTAATTATAAAAT
18130539 TGGCCCAAGAATTTTTCAAGGTTTA
130 TGGCCCAAGAATTTTTCAAGGTTTA
18130564 CAATTTAATC
Statistics
Matches: 139, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
161 98 0.71
162 41 0.29
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (162 bp):
TCCTTTGACTGTTTGACCACACCAGAGGCTGCCACGTGTCATTTTTTGGCATATTTATGCATTCA
GTCCCTGACATTTTTAACTTATTTTAATTGAATCCCCAAATCAACTCTTATTTAATTATAAAATT
GGCCCAAGAATTTTTCAAGGTTTATAAATTAG
Found at i:18130746 original size:29 final size:29
Alignment explanation
Indices: 18130654--18130872 Score: 136
Period size: 29 Copynumber: 7.5 Consensus size: 29
18130644 CAAACAGTCC
*
18130654 AAAAATTA-CATTTTGACCCCAAAATTTC-
1 AAAAATTACCATTTT-ACCCCCAAATTTCT
* *
18130682 AAGAAATTA-CATTTTGACCCCAAAACTTCT
1 AA-AAATTACCATTTT-ACCCCCAAATTTCT
*
18130712 AAAAATTACCATTTTACCCCCAAATTTTT
1 AAAAATTACCATTTTACCCCCAAATTTCT
** *
18130741 GGAAATT-CCATTTTTATCCCC-AATTTC-
1 AAAAATTACCA-TTTTACCCCCAAATTTCT
**
18130768 ACCGAAAATTACCATTTTACCCCCGAACCTTCT
1 A---AAAATTACCATTTTACCCCC-AAATTTCT
* *
18130801 -AAAATT-CCATTTTTAACCCC-GATTTCAT
1 AAAAATTACCA-TTTTACCCCCAAATTTC-T
*
18130829 CAAAAATTACCATTTTACCCCCGAACTTTC-
1 -AAAAATTACCATTTTACCCCC-AAATTTCT
*
18130859 CAAAATT-CCATTTT
1 AAAAATTACCATTTT
18130873 TAACCTCGGT
Statistics
Matches: 152, Mismatches: 21, Indels: 36
0.73 0.10 0.17
Matches are distributed among these distances:
27 3 0.02
28 21 0.14
29 77 0.51
30 37 0.24
31 6 0.04
32 8 0.05
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAAATTACCATTTTACCCCCAAATTTCT
Found at i:18130763 original size:59 final size:55
Alignment explanation
Indices: 18130654--18130874 Score: 185
Period size: 59 Copynumber: 3.8 Consensus size: 55
18130644 CAAACAGTCC
* * * * * *
18130654 AAAAATTA-CATTTTGACCCCAAAATTTCAAGAAATTACATTTTGACCCCAAAACTTCT
1 AAAAATTACCATTTT-ACCCCCAAACTTCTA-AAATTCCATTTTTACCCC--AATTTCT
* * *
18130712 AAAAATTACCATTTTACCCCCAAATTTTTGGAAATTCCATTTTTATCCCCAATTTC-
1 AAAAATTACCATTTTACCCCCAAACTTCT-AAAATTCCATTTTTA-CCCCAATTTCT
* *
18130768 ACCGAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCAT
1 A---AAAATTACCATTTTACCCCC-AAACTTCTAAAATTCCATTTTT-ACCCCAATTTC-T
* *
18130829 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTA
1 -AAAAATTACCATTTTACCCCCAAAC-TTCTAAAATTCCATTTTTA
18130875 ACCTCGGTTT
Statistics
Matches: 136, Mismatches: 15, Indels: 24
0.78 0.09 0.14
Matches are distributed among these distances:
56 1 0.01
57 5 0.04
58 34 0.25
59 89 0.65
60 6 0.04
62 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (55 bp):
AAAAATTACCATTTTACCCCCAAACTTCTAAAATTCCATTTTTACCCCAATTTCT
Found at i:18130875 original size:59 final size:58
Alignment explanation
Indices: 18130712--18130908 Score: 250
Period size: 59 Copynumber: 3.3 Consensus size: 58
18130702 CAAAACTTCT
* * *** * *
18130712 AAAAATTACCATTTTACCCCCAAATTTTTGGAAATTCCATTTTTATCCCCAATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA-C
* * *
18130771 GAAAATTACCATTTTACCCCCGAACCTTCTAAAATTCCATTTTTAACCCCGATTTCATC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA-C
* *
18130830 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCAC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
*
18130888 CAAAATTACCATTTTGACCCC
1 AAAAATTACCATTTT-ACCCC
18130909 GGGTATCCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
58 15 0.12
59 106 0.88
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (58 bp):
AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAC
Found at i:18130890 original size:29 final size:30
Alignment explanation
Indices: 18130743--18130902 Score: 122
Period size: 29 Copynumber: 5.4 Consensus size: 30
18130733 AAATTTTTGG
* *
18130743 AAATT-CCATTTTTATCCCCAATTTCACCGA
1 AAATTACCATTTTTAACCCCGATTTCACC-A
* * *
18130773 AAATTACCA-TTTTACCCCCGAACCTT--CTA
1 AAATTACCATTTTTAACCCCG-A-TTTCACCA
*
18130802 AAATT-CCATTTTTAACCCCGATTTCATCAA
1 AAATTACCATTTTTAACCCCGATTTCA-CCA
*
18130832 AAATTACCA-TTTTACCCCCGAACTTT--CCA
1 AAATTACCATTTTTAACCCCG-A-TTTCACCA
* *
18130861 AAATT-CCATTTTTAACCTCGGTTTCACCA
1 AAATTACCATTTTTAACCCCGATTTCACCA
18130890 AAATTACCATTTT
1 AAATTACCATTTT
18130903 GACCCCGGGT
Statistics
Matches: 104, Mismatches: 12, Indels: 28
0.72 0.08 0.19
Matches are distributed among these distances:
27 5 0.05
28 7 0.07
29 40 0.38
30 39 0.38
31 8 0.08
32 5 0.05
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.36
Consensus pattern (30 bp):
AAATTACCATTTTTAACCCCGATTTCACCA
Found at i:18130928 original size:58 final size:59
Alignment explanation
Indices: 18130712--18130930 Score: 203
Period size: 59 Copynumber: 3.7 Consensus size: 59
18130702 CAAAACTTCT
* * * *** * * * *
18130712 AAAAATTACCATTTTACCCCCAAATTTTTGGAAATTCCATTTTTATCCCCAATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTATCCAAAATCCCATTTTTAACCCCGATTTCATC
* * *
18130771 GAAAATTACCATTTTACCCCCGAACCT-TCTAAAATTCCATTTTTAACCCCGATTTCATC
1 AAAAATTACCATTTTACCCCCGAA-CTATCCAAAATCCCATTTTTAACCCCGATTTCATC
* * * *
18130830 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCTCGGTTTCA-C
1 AAAAATTACCATTTTACCCCCGAACTATCCAAAATCCCATTTTTAACCCCGATTTCATC
* **
18130888 CAAAATTACCATTTTGA-CCCCG-GGTATCCAAAAGTCCCATTTT
1 AAAAATTACCATTTT-ACCCCCGAACTATCCAAAA-TCCCATTTT
18130931 CCACCCCAAT
Statistics
Matches: 138, Mismatches: 18, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
57 8 0.06
58 30 0.22
59 99 0.72
60 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACTATCCAAAATCCCATTTTTAACCCCGATTTCATC
Found at i:18143249 original size:68 final size:68
Alignment explanation
Indices: 18143140--18143948 Score: 1384
Period size: 68 Copynumber: 11.9 Consensus size: 68
18143130 TTCCTGACTG
* * *
18143140 CTTGAAATTGAAGTAGAGTGGATAACATGCCTTTTTCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18143205 CCT
66 CCT
*
18143208 CTTGAAATTGAGGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18143273 CCT
66 CCT
* * *
18143276 CTTGAAATTGAGGTAGAGTGAATAACACGTCTTTATCTCCGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
18143341 CCC
66 CCT
*
18143344 CTTGAAATCGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18143409 CCT
66 CCT
*
18143412 CTTGAAATTGAGGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18143477 CCT
66 CCT
* *
18143480 CTTGAAATTGAGGTAAAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
18143545 CCC
66 CCT
*
18143548 CTTGAAATCGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18143613 CCT
66 CCT
* *
18143616 CTTGAAATTGAGGTAGAGTGGATAACACGTCTTTATCTCCGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
18143681 CCC
66 CCT
*
18143684 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCCGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
*
18143749 CCC
66 CCT
*
18143752 CTTGAAGTTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
18143817 CCT
66 CCT
* *
18143820 CTTGAAATTGAAGTAAAGATTGGACAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
1 CTTGAAATTGAAGT--AGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTC
*
18143885 ATCCC
64 ATCCT
*
18143890 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTTTCTCTGAAATTGAAGTAAGAGCAA
1 CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
18143949 GATCATTTCC
Statistics
Matches: 704, Mismatches: 35, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
68 639 0.91
70 65 0.09
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (68 bp):
CTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAACGTCAT
CCT
Found at i:18144397 original size:6 final size:6
Alignment explanation
Indices: 18144374--18144459 Score: 61
Period size: 6 Copynumber: 14.7 Consensus size: 6
18144364 ATTTGATATG
* ** * *
18144374 AATTTA GATTTA TTTTTA AATTTA AA-TTA AACTTTA AATTTG AATTTG
1 AATTTA AATTTA AATTTA AATTTA AATTTA AA-TTTA AATTTA AATTTA
* * * *
18144422 AGTCTA AATTT- ATTTTA AATTTA AAATT- AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATT
18144460 AAAGTCCAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
5 13 0.21
6 43 0.70
7 5 0.08
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:18144409 original size:12 final size:11
Alignment explanation
Indices: 18144389--18144462 Score: 60
Period size: 11 Copynumber: 6.5 Consensus size: 11
18144379 AGATTTATTT
18144389 TTAAATTTAAA
1 TTAAATTTAAA
18144400 TTAAACTTTAAA
1 TTAAA-TTTAAA
* * *
18144412 TTTGAATTTGAG
1 -TTAAATTTAAA
**
18144424 TCTAAATTTATT
1 T-TAAATTTAAA
18144436 TTAAATTTAAAA
1 TTAAATTT-AAA
18144448 TT-AATTTAAA
1 TTAAATTTAAA
18144458 TTAAA
1 TTAAA
18144463 GTCCAAAGTC
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
10 5 0.10
11 20 0.41
12 20 0.41
13 4 0.08
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:18146190 original size:162 final size:162
Alignment explanation
Indices: 18146012--18146327 Score: 492
Period size: 162 Copynumber: 2.0 Consensus size: 162
18146002 CTCAATTTAA
* *
18146012 TCCTTTGACTGTTTGACCACACCAGAGGCTGCCACGTGTCATTTTTTGGCTTATTTCTGTA-TTC
1 TCCTTTGACTGTTTGACCACACCAGAGGCTGCCACGTGTCATTTTTTGGCTTATTTATGCACTT-
* * * *
18146076 GGTCCCTG-ACATTTTTAACTTGTTTTAATTGAATCCCTAAATCAACTTTTATTTAATTACAAAA
65 AGTCCCTGAAC-TTTTTAACTTATTTTAATTGAATCCCCAAATCAACTCTTATTTAATTACAAAA
* *
18146140 TTGGCTCGAGAATTTTTCAAGGTTTATAAATTAG
129 TTGGCCCAAGAATTTTTCAAGGTTTATAAATTAG
*
18146174 TCCTTTGACTGTTTGACCGCACCAGAGGCTGCCACGTGTCATTTTTTGGCTTATTTATGCACTTA
1 TCCTTTGACTGTTTGACCACACCAGAGGCTGCCACGTGTCATTTTTTGGCTTATTTATGCACTTA
* * *
18146239 GTCCCTGAACTTTTTAATTTATTTTAATTTAATCCCCAAATCAACTCTTATTTAATTATAAAATT
66 GTCCCTGAACTTTTTAACTTATTTTAATTGAATCCCCAAATCAACTCTTATTTAATTACAAAATT
18146304 GGCCCAAGAATTTTTCAAGGTTTA
131 GGCCCAAGAATTTTTCAAGGTTTA
18146328 CAATTTAATC
Statistics
Matches: 140, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
162 136 0.97
163 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (162 bp):
TCCTTTGACTGTTTGACCACACCAGAGGCTGCCACGTGTCATTTTTTGGCTTATTTATGCACTTA
GTCCCTGAACTTTTTAACTTATTTTAATTGAATCCCCAAATCAACTCTTATTTAATTACAAAATT
GGCCCAAGAATTTTTCAAGGTTTATAAATTAG
Found at i:18146450 original size:29 final size:29
Alignment explanation
Indices: 18146405--18146495 Score: 107
Period size: 29 Copynumber: 3.1 Consensus size: 29
18146395 GTTTATAGGT
*
18146405 CCCCAAACAGTTC-AGAAATTACATTTTAA
1 CCCCAAA-ACTTCAAGAAATTACATTTTAA
*
18146434 CCCCAAAATTTCAAGAAATTACATTTTAA
1 CCCCAAAACTTCAAGAAATTACATTTTAA
*
18146463 CCCCGAAACTTCTAA-AAATTACCATTTT-A
1 CCCCAAAACTTC-AAGAAATTA-CATTTTAA
18146492 CCCC
1 CCCC
18146496 TGAACTTTCC
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
28 4 0.07
29 44 0.79
30 8 0.14
ACGTcount: A:0.40, C:0.27, G:0.04, T:0.29
Consensus pattern (29 bp):
CCCCAAAACTTCAAGAAATTACATTTTAA
Found at i:18146491 original size:30 final size:29
Alignment explanation
Indices: 18146420--18146726 Score: 169
Period size: 29 Copynumber: 10.4 Consensus size: 29
18146410 AACAGTTCAG
*
18146420 AAATTA-CATTTTAACCCCAAAATTTC-AA
1 AAATTACCATTTTAACCCC-GAATTTCTAA
*
18146448 GAAATTA-CATTTTAACCCCGAAACTTCTAA
1 -AAATTACCATTTTAACCCCG-AATTTCTAA
*
18146478 AAATTACCATTTT-ACCCCTGAACTTTC-CA
1 AAATTACCATTTTAACCCC-GAA-TTTCTAA
* * *
18146507 AAATT-TCATTTTTAACCCTG-ATTTCACCAA
1 AAATTACCA-TTTTAACCCCGAATTT--CTAA
* *
18146537 AAATTACCATTTT-ACCCTCGAATTTTTCA
1 AAATTACCATTTTAACCC-CGAATTTCTAA
* * *
18146566 AAATT-CCATTTTTAGCCCCGATTTTATCAA
1 AAATTACCA-TTTTAACCCCGAATTTCT-AA
* *
18146596 AAATTATCATTTTACCCCCCGAATCTTCT-A
1 AAATTACCATTTTA-ACCCCGAAT-TTCTAA
18146626 AAATT-CCATTTTTAACCCCG-ATTTCATCAA
1 AAATTACCA-TTTTAACCCCGAATTTC-T-AA
* *
18146656 AAATTACCATTTTACCCCCGAACTTTC-CA
1 AAATTACCATTTTAACCCCGAA-TTTCTAA
* *
18146685 AAATT-CTATTTTTAACCTCG-ATTTC-ACCA
1 AAATTACCA-TTTTAACCCCGAATTTCTA--A
18146714 AAATTACCATTTT
1 AAATTACCATTTT
18146727 GCCCCCAGGT
Statistics
Matches: 219, Mismatches: 29, Indels: 60
0.71 0.09 0.19
Matches are distributed among these distances:
27 10 0.05
28 12 0.05
29 101 0.46
30 70 0.32
31 19 0.09
32 7 0.03
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.37
Consensus pattern (29 bp):
AAATTACCATTTTAACCCCGAATTTCTAA
Found at i:18146501 original size:29 final size:28
Alignment explanation
Indices: 18146449--18146680 Score: 111
Period size: 30 Copynumber: 7.9 Consensus size: 28
18146439 AAATTTCAAG
18146449 AAATTA-CATTTTAACCCCGAAACTTCTAA
1 AAATTACCATTTT-ACCCCG-AACTTCTAA
*
18146478 AAATTACCATTTTACCCCTGAACTT-TCCA
1 AAATTACCATTTTACCCC-GAACTTCT-AA
* * * *
18146507 AAATT-TCATTTTTAACCCTG-ATTTCACCAA
1 AAATTACCA-TTTT-ACCCCGAACTT--CTAA
* * *
18146537 AAATTACCATTTTACCCTCGAATTTTTCA
1 AAATTACCATTTTACCC-CGAACTTCTAA
** *
18146566 AAATT-CCATTTTTAGCCCCGATTTTATCAA
1 AAATTACCA-TTTTA-CCCCGAACTTCT-AA
*
18146596 AAATTATCATTTTACCCCCCGAATCTTCT-A
1 AAATTACCATTTTA--CCCCGAA-CTTCTAA
*
18146626 AAATT-CCATTTTTAACCCCG-ATTTCATCAA
1 AAATTACCA-TTTT-ACCCCGAACTTC-T-AA
18146656 AAATTACCATTTTACCCCCGAACTT
1 AAATTACCATTTTA-CCCCGAACTT
18146681 TCCAAAATTC
Statistics
Matches: 156, Mismatches: 22, Indels: 48
0.69 0.10 0.21
Matches are distributed among these distances:
27 3 0.02
28 11 0.07
29 57 0.37
30 61 0.39
31 21 0.13
32 3 0.02
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (28 bp):
AAATTACCATTTTACCCCGAACTTCTAA
Found at i:18146539 original size:59 final size:59
Alignment explanation
Indices: 18146476--18146768 Score: 349
Period size: 59 Copynumber: 5.0 Consensus size: 59
18146466 CGAAACTTCT
* * *
18146476 AAAAATTACCATTTTACCCCTGAACTTTCCAAAATTTCATTTTTAACCCTGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * * * * *
18146535 AAAAATTACCATTTTACCCTCGAATTTTTCAAAATTCCATTTTTAGCCCCGATTTTATC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * *
18146594 AAAAATTATCATTTTACCCCCCGAA-TCTTCTAAAATTCCATTTTTAACCCCGATTTCATC
1 AAAAATTACCATTTTA-CCCCCGAACT-TTCCAAAATTCCATTTTTAACCCCGATTTCACC
* *
18146654 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTTAACCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* ** * * * *
18146713 -AAAATTACCATTTTGCCCCC-AGGTATCCAAAAGTCTCATTTTTCACCCCAATTTCA
1 AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTC-CATTTTTAACCCCGATTTCA
18146769 TCGTTTCTTA
Statistics
Matches: 201, Mismatches: 29, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
57 11 0.05
58 35 0.17
59 103 0.51
60 52 0.26
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:18146658 original size:119 final size:118
Alignment explanation
Indices: 18146420--18146732 Score: 348
Period size: 119 Copynumber: 2.7 Consensus size: 118
18146410 AACAGTTCAG
* * * * * * *
18146420 AAATTA-CATTTTAACCCCAAAATTTCAAGAAATTACA-TTTTAACCCCGAAACTTC-TAAAAAT
1 AAATTACCATTTTACCCCCGAACTTTCCA-AAATTCCATTTTTAACCCCG--ATTTCACAAAAAT
* * *
18146482 TACCATTTTA-CCCCTGAACTTTCCAAAATTTCATTTTTAACCCTGATTTCACCAA
63 TACCATTTTACCCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
* * * * *
18146537 AAATTACCATTTTACCCTCGAATTTTTCAAAATTCCATTTTTAGCCCCGATTTTATCAAAAATTA
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA-CAAAAATTA
* * *
18146602 TCATTTTACCCCCCGAA-TCTTCTAAAATTCCATTTTTAACCCCGATTTCATCAA
65 CCATTTTACCCCCCGAACT-TTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
* * *
18146656 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCTATTTTTAACCTCGATTTCACCAAAATTAC
1 AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAAAAATTAC
*
18146721 CATTTTGCCCCC
66 CATTTTACCCCC
18146733 AGGTATCCAA
Statistics
Matches: 163, Mismatches: 27, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
116 3 0.02
117 13 0.08
118 61 0.37
119 86 0.53
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.36
Consensus pattern (118 bp):
AAATTACCATTTTACCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACAAAAATTAC
CATTTTACCCCCCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAA
Found at i:18159676 original size:18 final size:17
Alignment explanation
Indices: 18159655--18159689 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
18159645 ATAATAAAAA
18159655 TTAAAATTAAAATATTTT
1 TTAAAATTAAAAT-TTTT
18159673 TTAAAATTAAAATTTTT
1 TTAAAATTAAAATTTTT
18159690 GGTATCAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAAATTAAAATTTTT
Found at i:18166730 original size:6 final size:6
Alignment explanation
Indices: 18166721--18166825 Score: 67
Period size: 6 Copynumber: 18.0 Consensus size: 6
18166711 TAAAATGATT
* * *
18166721 TTTAAA TTT-AT TTCTAAA ATTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* ** * *
18166768 TTCATT TTTAAA TTTAAA TTT-AG TTTAAA TTTGAAA --TAAT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
* *
18166814 ATTAAA ATTAAA
1 TTTAAA TTTAAA
18166826 AAGCCCAAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 14
0.71 0.16 0.13
Matches are distributed among these distances:
4 2 0.03
5 12 0.16
6 56 0.75
7 5 0.07
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:18166730 original size:24 final size:24
Alignment explanation
Indices: 18166697--18166789 Score: 73
Period size: 24 Copynumber: 3.7 Consensus size: 24
18166687 TTTGGGTCAA
* *
18166697 TTTT-AATTTAAGTTTAAAATGAT
1 TTTTAAATTTAAATTTAAAATAAT
*
18166720 TTTTAAATTT-ATTTCTAAAATTAAATT
1 TTTTAAATTTAAATT-TAAAA-T-AA-T
* *
18166747 TACTTTAAATTTAAATTTAAATTCAT
1 T--TTTAAATTTAAATTTAAAATAAT
18166773 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
18166790 GTTTAAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
23 7 0.12
24 26 0.46
25 1 0.02
26 3 0.05
27 3 0.05
28 1 0.02
29 13 0.23
30 3 0.05
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (24 bp):
TTTTAAATTTAAATTTAAAATAAT
Found at i:18166754 original size:41 final size:41
Alignment explanation
Indices: 18166709--18166796 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
18166699 TTAATTTAAG
** *
18166709 TTTAAAATGATTTTTAAATTTATTTCTAAAATTAAATTTAC
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
* * * * *
18166750 TTTAAATTTAAATTTAAATTCATTTTTAAATTTAAATTTAG
1 TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
18166791 TTTAAA
1 TTTAAA
18166797 TTTGAAATAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (41 bp):
TTTAAAATGAAATTTAAATTCATTTCTAAAATTAAATTTAC
Found at i:18166760 original size:17 final size:18
Alignment explanation
Indices: 18166721--18166765 Score: 65
Period size: 17 Copynumber: 2.6 Consensus size: 18
18166711 TAAAATGATT
*
18166721 TTTAAATTTATTTCTAAA
1 TTTAAATTTACTTCTAAA
*
18166739 ATTAAATTTACTT-TAAA
1 TTTAAATTTACTTCTAAA
18166756 TTTAAATTTA
1 TTTAAATTTA
18166766 AATTCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATTTACTTCTAAA
Found at i:18166795 original size:35 final size:35
Alignment explanation
Indices: 18166756--18166822 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
18166746 TTACTTTAAA
* * *
18166756 TTTAAATTT-AAATTCATTTTTAAATTTAAATTTAG
1 TTTAAATTTGAAA-TAATTTTAAAATTAAAATTTAG
18166791 TTTAAATTTGAAATAATTTTAAAATTAAAATT
1 TTTAAATTTGAAATAATTTTAAAATTAAAATT
18166823 AAAAAGCCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 25 0.89
36 3 0.11
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (35 bp):
TTTAAATTTGAAATAATTTTAAAATTAAAATTTAG
Found at i:18166797 original size:41 final size:42
Alignment explanation
Indices: 18166721--18166804 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 42
18166711 TAAAATGATT
*
18166721 TTTAAATTTATTTCTAAAATTAAATTTACTTTAAATTT-AAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
* * *
18166762 TTTAAATTCATTTTTAAATTTAAATTTAGTTTAAATTTGAAA
1 TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
18166804 T
1 T
18166805 AATTTTAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 34 0.89
42 4 0.11
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (42 bp):
TTTAAATTCATTTCTAAAATTAAATTTACTTTAAATTTGAAA
Found at i:18166811 original size:17 final size:17
Alignment explanation
Indices: 18166740--18166824 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
18166730 ATTTCTAAAA
** *
18166740 TTAAATTTACTTTAAAT
1 TTAAATTTAAATTAATT
*
18166757 TTAAATTTAAATTCATTT
1 TTAAATTTAAATT-AATT
* *
18166775 TTAAATTTAAATTTAGT
1 TTAAATTTAAATTAATT
18166792 TTAAATTTGAAA-TAATT
1 TTAAATTT-AAATTAATT
*
18166809 TTAAAATTAAAATTAA
1 TT-AAATTTAAATTAA
18166825 AAAGCCCAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
17 28 0.52
18 26 0.48
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.49
Consensus pattern (17 bp):
TTAAATTTAAATTAATT
Found at i:18167578 original size:16 final size:14
Alignment explanation
Indices: 18167557--18167600 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
18167547 AACAAACATT
18167557 TTAATAACAATAAATA
1 TTAATAA-AATAAA-A
18167573 TTAATATTAAATAAAA
1 TTAATA--AAATAAAA
18167589 TTAATAAAATAA
1 TTAATAAAATAA
18167601 TAAAACGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.23
16 13 0.50
17 6 0.23
18 1 0.04
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (14 bp):
TTAATAAAATAAAA
Found at i:18168618 original size:162 final size:162
Alignment explanation
Indices: 18168436--18168925 Score: 725
Period size: 162 Copynumber: 3.0 Consensus size: 162
18168426 TTAATCCCCC
* * * * *
18168436 GACTGTGTGACTGCACCAGAGGCTACCACGTCTCATTTTTTCGGCTTATTT-TGCATTTAGTCCC
1 GACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTT-GGCTTATTTATGTATTTAGTCCC
* * * *
18168500 TGTTGTGTTTAATTTGTTTTAATTTATTCCTCAAATCAACTTTTGCTTAATTACAAAATTGACCC
65 TGCTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTTAATTACAAAATTGACCC
*
18168565 TGGAATCTTTTGAGATTTTTAAATTAGTCATTT
130 TAGAATCTTTTGAGATTTTTAAATTAGTCATTT
18168598 GACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATTTAGTCCCT
1 GACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATTTAGTCCCT
* *
18168663 GCCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTTAATTCCAAAATTGACCCT
66 GCTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTTAATTACAAAATTGACCCT
*
18168728 AGAATCTTTTGAGATTTTTAAATTAGTCCTTT
131 AGAATCTTTTGAGATTTTTAAATTAGTCATTT
* *
18168760 GACTGTTTGACTGCACTAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATCTAGTCCCT
1 GACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATTTAGTCCCT
* ** *
18168825 GCTATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAAAATTG-GCCT
66 GCTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTTAATTACAAAATTGACCCT
* ** *
18168889 AAGAAT-TTTTCAAGATTTACAAATTAGTCCTTT
131 -AGAATCTTTT-GAGATTTTTAAATTAGTCATTT
18168922 GACT
1 GACT
18168926 TCTGGATGCT
Statistics
Matches: 301, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
161 16 0.05
162 285 0.95
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (162 bp):
GACTGTTTGACTGCACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGTATTTAGTCCCT
GCTATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTTAATTACAAAATTGACCCT
AGAATCTTTTGAGATTTTTAAATTAGTCATTT
Found at i:18169370 original size:29 final size:29
Alignment explanation
Indices: 18169050--18169399 Score: 185
Period size: 29 Copynumber: 11.9 Consensus size: 29
18169040 TTAACCCCAG
**
18169050 TTTCATCAAAAATTACCATTTTACCCTTAAA
1 TTTCATCAAAAATTACCATTTTACCC--CGA
*
18169081 CTTTC--C-AAAACT-CCATTTTTATCCCCGA
1 -TTTCATCAAAAATTACCA-TTTTA-CCCCGA
* * *
18169109 TTTCACCAAAAATTACCATATTACCCCTA
1 TTTCATCAAAAATTACCATTTTACCCCGA
*** * * *
18169138 AACCTTCCAAAATT-CCATTTTTAACCCCGG
1 TTTCATCAAAAATTACCA-TTTT-ACCCCGA
*
18169168 TGTCATCAAAAATTACCATTTTACCCCTGAA
1 TTTCATCAAAAATTACCATTTTACCCC-G-A
*
18169199 CTTTC--CAAAACTT--CATTTTTAACCCCGA
1 -TTTCATCAAAAATTACCA-TTTT-ACCCCGA
*
18169227 TTTCATCAAAAATTACCATTTTACCCCTAAA
1 TTTCATCAAAAATTACCATTTTACCCC--GA
18169258 CTTTC--C-AAAATT-CCATTTTTAACCCCGA
1 -TTTCATCAAAAATTACCA-TTTT-ACCCCGA
*
18169286 TGTCATCAAAAATTACCATTTTACCCCTGAA
1 TTTCATCAAAAATTACCATTTTACCCC-G-A
18169317 CTTTC-T--AAAATT-CCATTTTAACCCCGA
1 -TTTCATCAAAAATTACCATTTT-ACCCCGA
* **
18169344 TTTCATCAAAAATTACCATTTTGCCCCTC
1 TTTCATCAAAAATTACCATTTTACCCCGA
* * * *
18169373 GTGCGTCCAAAATTACCATTTTACCCC
1 TTTCATCAAAAATTACCATTTTACCCC
18169400 CGAGTATCCA
Statistics
Matches: 247, Mismatches: 36, Indels: 73
0.69 0.10 0.21
Matches are distributed among these distances:
26 4 0.02
27 13 0.05
28 22 0.09
29 108 0.44
30 72 0.29
31 14 0.06
32 14 0.06
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (29 bp):
TTTCATCAAAAATTACCATTTTACCCCGA
Found at i:18169393 original size:59 final size:59
Alignment explanation
Indices: 18168997--18169371 Score: 585
Period size: 59 Copynumber: 6.4 Consensus size: 59
18168987 CTGGATGGTC
*
18168997 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCCC-AGTTTCAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCAT
* * * *
18169056 CAAAAATTACCATTTTACCCTTAAACTTTCCAAAACTCCATTTTTATCCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
* * * *
18169115 CAAAAATTACCATATTACCCCTAAACCTTCCAAAATTCCATTTTTAACCCCGGTGTCAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
*
18169174 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAACTT-CATTTTTAACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAA-TTCCATTTTTAACCCCGATTTCAT
*
18169233 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATGTCAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
* *
18169292 CAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCA-TTTTAACCCCGATTTCAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
*
18169350 CAAAAATTACCATTTTGCCCCT
1 CAAAAATTACCATTTTACCCCT
18169372 CGTGCGTCCA
Statistics
Matches: 291, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
58 40 0.14
59 248 0.85
60 3 0.01
ACGTcount: A:0.33, C:0.30, G:0.03, T:0.34
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCAT
Found at i:18169412 original size:58 final size:57
Alignment explanation
Indices: 18168995--18169412 Score: 368
Period size: 59 Copynumber: 7.1 Consensus size: 57
18168985 CTCTGGATGG
* * * *
18168995 TCCAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCCC-AGTT
1 TCCAAAAATTACCATTTTACCCCTGAACTGTCCAAAATTCCA-TTTTAACCCCGAGTA
* * * * * *
18169052 TCATCAAAAATTACCATTTTACCCTTAAACTTTCCAAAACTCCATTTTTATCCCCGA-TT
1 TC--CAAAAATTACCATTTTACCCCTGAACTGTCCAAAATTCCA-TTTTAACCCCGAGTA
* * *
18169111 TCACCAAAAATTACCATATTACCCCTAAACCT-TCCAAAATTCCATTTTTAACCCCG-GTG
1 T--CCAAAAATTACCATTTTACCCCTGAA-CTGTCCAAAATTCCA-TTTTAACCCCGAGTA
* *
18169170 TCATCAAAAATTACCATTTTACCCCTGAACTTTCCAAAACTT-CATTTTTAACCCCGA-TT
1 TC--CAAAAATTACCATTTTACCCCTGAACTGTCCAAAA-TTCCA-TTTTAACCCCGAGTA
* *
18169229 TCATCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATGTCA
1 TC--CAAAAATTACCATTTTACCCCTGAACTGTCCAAAATTCCA-TTTTAACCCCGA-GT-A
* * *
18169291 T-CAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTAACCCCGA-TT
1 TCCAAAAATTACCATTTTACCCCTGAACTGTCCAAAATTCCATTTTAACCCCGAGTA
* ** *
18169346 TCATCAAAAATTACCATTTTGCCCCTCGTGC-GTCCAAAATTACCATTTTACCCCCGAGTA
1 TC--CAAAAATTACCATTTTACCCCT-GAACTGTCCAAAATT-CCATTTTAACCCCGAGTA
18169406 TCCAAAA
1 TCCAAAA
18169413 GTCCCATTTT
Statistics
Matches: 317, Mismatches: 22, Indels: 43
0.83 0.06 0.11
Matches are distributed among these distances:
55 1 0.00
56 1 0.00
57 3 0.01
58 50 0.16
59 251 0.79
60 8 0.03
61 2 0.01
62 1 0.00
ACGTcount: A:0.33, C:0.30, G:0.04, T:0.33
Consensus pattern (57 bp):
TCCAAAAATTACCATTTTACCCCTGAACTGTCCAAAATTCCATTTTAACCCCGAGTA
Found at i:18181123 original size:91 final size:90
Alignment explanation
Indices: 18181007--18181176 Score: 261
Period size: 91 Copynumber: 1.9 Consensus size: 90
18180997 ATCAGATCAA
*
18181007 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCA
1 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTT--TACCTCA
18181072 GAAATTGAAGTAAGAGTAAAATGAAGC
64 GAAATTGAAGTAAGAGTAAAATGAAGC
* * * * *
18181099 ACCAACATCA-TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
1 ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTTACCTCAGA
18181163 AATTGAAGTAAGAG
66 AATTGAAGTAAGAG
18181177 CAAGATCATT
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
89 20 0.28
91 42 0.58
92 10 0.14
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (90 bp):
ACCAACATCATTTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTTACCTCAGA
AATTGAAGTAAGAGTAAAATGAAGC
Found at i:18181231 original size:76 final size:76
Alignment explanation
Indices: 18181105--18181642 Score: 887
Period size: 76 Copynumber: 7.0 Consensus size: 76
18181095 AAGCACCAAC
18181105 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
18181170 GTAAGAGCAAG
66 GTAAGAGCAAG
* *
18181181 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
18181246 GTAAGAGCAAG
66 GTAAGAGCAAG
* * * * *
18181257 ATCATTTCCTATCCTCTTGAAATTGAAGTAAAGATGGATATCAAATCTTTATCTCTGAAATTAAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
18181322 GTAAGAGCAAG
66 GTAAGAGCAAG
18181333 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
18181398 GTAAGAGCAAC
66 GTAAGAGCAAG
* * *
18181409 ATCATTTCTTATCCTCTTGAAATTGGAGTAGAGTTGGATAACAAGTCTTTATCCCTGAAATTGAA
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
*
18181474 GTAAGAGCAAC
66 GTAAGAGCAAG
18181485 ATCATTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTG
1 ATCA--TTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTG
*
18181550 AAGTAAGAGCAAC
64 AAGTAAGAGCAAG
* * * *
18181563 ATCATTTTCTATCCTCTTGAAATTGAAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAAATTG
1 ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTGAAATTG
18181628 AAGTAAGAGCAAG
64 AAGTAAGAGCAAG
18181641 AT
1 AT
18181643 GAAGCCTCGA
Statistics
Matches: 435, Mismatches: 23, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
76 337 0.77
78 98 0.23
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (76 bp):
ATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAAATTGAA
GTAAGAGCAAG
Found at i:18181936 original size:6 final size:6
Alignment explanation
Indices: 18181927--18182030 Score: 76
Period size: 6 Copynumber: 18.0 Consensus size: 6
18181917 TAAAATGATT
* * *
18181927 TTTAAA TTT-AT TTCTAAA ATTAAA TTT-AC TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
18181974 TTT-AT TTTAAA TTTAAA TTT-AG TTTAAA TTTGAAA --TAAT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA
* *
18182019 ATTAAA ATTAAA
1 TTTAAA TTTAAA
18182031 AAGCCCAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
4 2 0.03
5 16 0.21
6 54 0.70
7 5 0.06
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:18181949 original size:18 final size:17
Alignment explanation
Indices: 18181928--18181971 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
18181918 AAAATGATTT
*
18181928 TTAAATTTATTTCTAAAA
1 TTAAATTTACTT-TAAAA
*
18181946 TTAAATTTACTTTAAAT
1 TTAAATTTACTTTAAAA
18181963 TTAAATTTA
1 TTAAATTTA
18181972 AATTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAATTTACTTTAAAA
Found at i:18181991 original size:23 final size:23
Alignment explanation
Indices: 18181941--18181994 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
18181931 AATTTATTTC
*
18181941 TAAAATTAAATTTACTTTAAATT
1 TAAATTTAAATTTACTTTAAATT
*
18181964 TAAATTTAAATTTATTTTAAATT
1 TAAATTTAAATTTACTTTAAATT
18181987 TAAATTTA
1 TAAATTTA
18181995 GTTTAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TAAATTTAAATTTACTTTAAATT
Found at i:18182004 original size:11 final size:11
Alignment explanation
Indices: 18181946--18181994 Score: 62
Period size: 11 Copynumber: 4.3 Consensus size: 11
18181936 ATTTCTAAAA
*
18181946 TTAAATTTACT
1 TTAAATTTAAT
18181957 TTAAATTTAAAT
1 TTAAATTT-AAT
*
18181969 TTAAATTTATT
1 TTAAATTTAAT
18181980 TTAAATTTAAAT
1 TTAAATTT-AAT
18181992 TTA
1 TTA
18181995 GTTTAAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 18 0.55
12 15 0.45
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:18182016 original size:17 final size:17
Alignment explanation
Indices: 18181962--18182024 Score: 83
Period size: 17 Copynumber: 3.7 Consensus size: 17
18181952 TTACTTTAAA
18181962 TTTAAATTTAAATTTAT
1 TTTAAATTTAAATTTAT
*
18181979 TTTAAATTTAAATTTAG
1 TTTAAATTTAAATTTAT
*
18181996 TTTAAATTTGAAA-TAAT
1 TTTAAATTT-AAATTTAT
*
18182013 TTTAAAATTAAA
1 TTTAAATTTAAA
18182025 ATTAAAAAGC
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
16 3 0.07
17 35 0.85
18 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TTTAAATTTAAATTTAT
Found at i:18183784 original size:161 final size:162
Alignment explanation
Indices: 18183492--18183794 Score: 450
Period size: 161 Copynumber: 1.9 Consensus size: 162
18183482 ATATAAATAG
**
18183492 GCCACGTGTCACTTTTTGACTTATTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTT
1 GCCACGTGTCACTTTTTGACTTATTTATGTATCTAGTCCCTACCATTTTTAATTTGTTTTAATTT
* * * * **
18183557 AATCCTCAAATCAACTTTTGCTTAATTCCAAAATTGACCCTGGAATCTTTTGAGATTTTTAAATT
66 AATCCTCAAATCAACTTTTACTTAATTACAAAATTGACCCTAGAATCTTTTAAGATTTACAAATT
18183622 AGTCCTTTGACTGTTTGACTGCACCAGAGGCT
131 AGTCCTTTGACTGTTTGACTGCACCAGAGGCT
* *
18183654 GCCATGTGTCAC-TTTTGGCTTATTTATGTATCTAGTCCCTACCATTTTTAATTTGTTTTAATTT
1 GCCACGTGTCACTTTTTGACTTATTTATGTATCTAGTCCCTACCATTTTTAATTTGTTTTAATTT
* * *
18183718 AATCCTTAAATCAACTTTTATTTAATTACAAAATTG-GCCTAAGAAT-TTTTCAAGATTTACAAA
66 AATCCTCAAATCAACTTTTACTTAATTACAAAATTGACCCT-AGAATCTTTT-AAGATTTACAAA
18183781 TTAGTCCTTTGACT
129 TTAGTCCTTTGACT
18183795 TCTGGATGCT
Statistics
Matches: 126, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
160 7 0.06
161 108 0.86
162 11 0.09
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (162 bp):
GCCACGTGTCACTTTTTGACTTATTTATGTATCTAGTCCCTACCATTTTTAATTTGTTTTAATTT
AATCCTCAAATCAACTTTTACTTAATTACAAAATTGACCCTAGAATCTTTTAAGATTTACAAATT
AGTCCTTTGACTGTTTGACTGCACCAGAGGCT
Found at i:18183958 original size:59 final size:58
Alignment explanation
Indices: 18183866--18184241 Score: 493
Period size: 59 Copynumber: 6.4 Consensus size: 58
18183856 CTGGATGGTC
*
18183866 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCACGATTTCAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACC-CAATTTCAT
*
18183925 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTCAACCCCAATTTCAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAA-CCCAATTTCAT
* * *
18183984 CAAAAATTACCATTTTACCCTTGAACTTTCCAAAACTCCATTTTTAACCCTAATTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCC-AATTTCAT
* * * *
18184043 CAAAAATTACCATATTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAGTGTCAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAA-CCCAATTTCAT
* * * * *
18184102 CAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACCCCGATTTAAT
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAA-CCCAATTTCAT
** * * * *
18184161 CAAAAATTACCATTTTACCCCCGAACTTTCCAAAATTCCAATTTCAA-CCATAGTTTCAC
1 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCCA-A-TTTCAT
*
18184220 CAAAAATTACCATTTTGCCCCT
1 CAAAAATTACCATTTTACCCCT
18184242 CGCGCGTCCA
Statistics
Matches: 283, Mismatches: 29, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
57 2 0.01
58 4 0.01
59 272 0.96
60 5 0.02
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCCAATTTCAT
Found at i:18184074 original size:118 final size:117
Alignment explanation
Indices: 18183866--18184241 Score: 554
Period size: 118 Copynumber: 3.2 Consensus size: 117
18183856 CTGGATGGTC
*
18183866 CAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCACGATTTCATCAAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAACTCCATTTTTAACC-CGATTTCATCAAAAA
* *
18183931 TTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTCAACCCCAATTTCAT
65 TTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCAGTTTCAT
* * *
18183984 CAAAAATTACCATTTTACCCTTGAACTTTCCAAAACTCCATTTTTAACCCTAATTTCACCAAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAACTCCATTTTTAACCC-GATTTCATCAAAAA
* * *
18184049 TTACCATATTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCAGTGTCAT
65 TTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCAGTTTCAT
* * *
18184102 CAAAAATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACCCCGATTTAATCAAAAA
1 CAAAAATTACCATTTTACCCCTGAACTTTCCAAAACTCCATTTTTAA-CCCGATTTCATCAAAAA
** * ** *
18184167 TTACCATTTTACCCCCGAACTTTCCAAAATTCCAATTTCAACCATAGTTTCAC
65 TTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCAGTTTCAT
*
18184220 CAAAAATTACCATTTTGCCCCT
1 CAAAAATTACCATTTTACCCCT
18184242 CGCGCGTCCA
Statistics
Matches: 231, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
117 1 0.00
118 227 0.98
119 3 0.01
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (117 bp):
CAAAAATTACCATTTTACCCCTGAACTTTCCAAAACTCCATTTTTAACCCGATTTCATCAAAAAT
TACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCCAGTTTCAT
Found at i:18184121 original size:29 final size:29
Alignment explanation
Indices: 18184074--18184176 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 29
18184064 TAAACTTTCC
18184074 AAAATTCCATTTTTAACCCCAGTGTCATCA
1 AAAATTCCATTTTTAACCCC-GTGTCATCA
* * *
18184104 AAAATTACCA-TTTT-ACCCC-TGAACTTTCT
1 AAAATT-CCATTTTTAACCCCGTG-TC-ATCA
* *
18184133 AAAATTCCATTTTTAACCCCGATTTAATCA
1 AAAATTCCATTTTTAACCCCG-TGTCATCA
18184163 AAAATTACCATTTT
1 AAAATT-CCATTTT
18184177 ACCCCCGAAC
Statistics
Matches: 57, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
27 2 0.04
28 4 0.07
29 17 0.30
30 23 0.40
31 10 0.18
32 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAATTCCATTTTTAACCCCGTGTCATCA
Found at i:18184165 original size:177 final size:177
Alignment explanation
Indices: 18183865--18184241 Score: 576
Period size: 177 Copynumber: 2.1 Consensus size: 177
18183855 TCTGGATGGT
*
18183865 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCACGATTTCATCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCACGATGTCATCAAAA
*
18183930 ATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTCAACCCCAATTTCATCAAAAATTACC
66 ATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTCAACCCCAATTTAATCAAAAATTACC
** * * *
18183995 ATTTTACCCTTGAACTTTCCAAAACTCCATTTTTAACCCTAATTTCA
131 ATTTTACCCCCGAACTTTCCAAAACTCCAATTTCAACCATAATTTCA
* * *
18184042 CCAAAAATTACCATATTACCCCTAAACTTTCCAAAATTCCATTTTTAACC-CCAGTGTCATCAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCACGA-TGTCATCAAA
* * * * *
18184106 AATTACCATTTTACCCCTGAACTTTCTAAAATTCCATTTTTAACCCCGATTTAATCAAAAATTAC
65 AATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTCAACCCCAATTTAATCAAAAATTAC
* *
18184171 CATTTTACCCCCGAACTTTCCAAAATTCCAATTTCAACCATAGTTTCA
130 CATTTTACCCCCGAACTTTCCAAAACTCCAATTTCAACCATAATTTCA
*
18184219 CCAAAAATTACCATTTTGCCCCT
1 CCAAAAATTACCATTTTACCCCT
18184242 CGCGCGTCCA
Statistics
Matches: 180, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
176 2 0.01
177 178 0.99
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.33
Consensus pattern (177 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTTAACCACGATGTCATCAAAA
ATTACCATTTTACCCCTAAACTTTCCAAAACTCCATTTTCAACCCCAATTTAATCAAAAATTACC
ATTTTACCCCCGAACTTTCCAAAACTCCAATTTCAACCATAATTTCA
Found at i:18184180 original size:29 final size:30
Alignment explanation
Indices: 18183866--18184197 Score: 180
Period size: 29 Copynumber: 11.3 Consensus size: 30
18183856 CTGGATGGTC
*
18183866 CAAAAATTACCATTTTACCCCTAAACTT-T
1 CAAAAATTACCATTTTACCCCTGAACTTAT
* * * *
18183895 CCAAAACT-CCATTTTTAACCAC-G-ATTTCAT
1 CAAAAATTACCA-TTTT-ACCCCTGAACTT-AT
*
18183925 CAAAAATTACCATTTTACCCCTAAACTT-T
1 CAAAAATTACCATTTTACCCCTGAACTTAT
* * *
18183954 CCAAAACT-CCATTTTCAACCCC--AATTTCAT
1 CAAAAATTACCATTTT--ACCCCTGAACTT-AT
*
18183984 CAAAAATTACCATTTTACCCTTGAACTT-T
1 CAAAAATTACCATTTTACCCCTGAACTTAT
* * * * *
18184013 CCAAAACT-CCATTTTTAACCCT-AATTTCAC
1 CAAAAATTACCA-TTTTACCCCTGAACTT-AT
* *
18184043 CAAAAATTACCATATTACCCCTAAACTT-T
1 CAAAAATTACCATTTTACCCCTGAACTTAT
* * ** *
18184072 CCAAAATT-CCATTTTTAACCCCAG-TGTCAT
1 CAAAAATTACCA-TTTT-ACCCCTGAACTTAT
18184102 CAAAAATTACCATTTTACCCCTGAACTT-T
1 CAAAAATTACCATTTTACCCCTGAACTTAT
* *
18184131 CTAAAATT-CCATTTTTAACCCC-G-ATTTAAT
1 CAAAAATTACCA-TTTT-ACCCCTGAACTT-AT
*
18184161 CAAAAATTACCATTTTACCCCCGAACTT-T
1 CAAAAATTACCATTTTACCCCTGAACTTAT
*
18184190 CCAAAATT
1 CAAAAATT
18184198 CCAATTTCAA
Statistics
Matches: 226, Mismatches: 46, Indels: 62
0.68 0.14 0.19
Matches are distributed among these distances:
28 33 0.15
29 83 0.37
30 77 0.34
31 33 0.15
ACGTcount: A:0.35, C:0.29, G:0.02, T:0.34
Consensus pattern (30 bp):
CAAAAATTACCATTTTACCCCTGAACTTAT
Found at i:18185952 original size:10 final size:10
Alignment explanation
Indices: 18185937--18185961 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
18185927 TTTTCTTGTA
18185937 ATTATATATT
1 ATTATATATT
18185947 ATTATATATT
1 ATTATATATT
18185957 ATTAT
1 ATTAT
18185962 TGTAGTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTATATATT
Found at i:18188056 original size:30 final size:29
Alignment explanation
Indices: 18188022--18188078 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
18188012 AAAAATCACA
*
18188022 TTTTGACCCTCAAACTTTATAAAAATTATG
1 TTTTGACCC-CAAAATTTATAAAAATTATG
* * *
18188052 TTTTGGCCCCAAAATTTTTCAAAATTA
1 TTTTGACCCCAAAATTTATAAAAATTA
18188079 CCATTTTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 15 0.65
30 8 0.35
ACGTcount: A:0.35, C:0.18, G:0.07, T:0.40
Consensus pattern (29 bp):
TTTTGACCCCAAAATTTATAAAAATTATG
Found at i:18188130 original size:29 final size:29
Alignment explanation
Indices: 18188072--18188347 Score: 398
Period size: 29 Copynumber: 9.6 Consensus size: 29
18188062 AAAATTTTTC
*
18188072 AAAATTACCATTTT-TCC-CGAACATCCA
1 AAAATTACCATTTTGCCCTCGAACATCCA
*
18188099 AAAATGACCATTTTGCCCTCGAACATCCA
1 AAAATTACCATTTTGCCCTCGAACATCCA
* *
18188128 AAAATTACCATTTTACCCCCGAACATCCA
1 AAAATTACCATTTTGCCCTCGAACATCCA
*
18188157 AAAATTACCATTTTGCCAC-CAAACATCCA
1 AAAATTACCATTTTGCC-CTCGAACATCCA
* *
18188186 AAAATTACCATTTTGCCCCCAAACATCCA
1 AAAATTACCATTTTGCCCTCGAACATCCA
*
18188215 AAAATTACCATTTTGCTCTCGAACATCCA
1 AAAATTACCATTTTGCCCTCGAACATCCA
*
18188244 AAAATTACCATTTTCCCCTCGAACATCCA
1 AAAATTACCATTTTGCCCTCGAACATCCA
*
18188273 AAAATTACCATTTTTCCCTCGAACATCCA
1 AAAATTACCATTTTGCCCTCGAACATCCA
* *
18188302 AAAATTACCATTTTGCCCCCAAACATCC-
1 AAAATTACCATTTTGCCCTCGAACATCCA
*
18188330 AAAATTACCCTTTTGCCC
1 AAAATTACCATTTTGCCC
18188348 CTAAATTTTC
Statistics
Matches: 228, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
27 13 0.06
28 20 0.09
29 194 0.85
30 1 0.00
ACGTcount: A:0.36, C:0.32, G:0.05, T:0.27
Consensus pattern (29 bp):
AAAATTACCATTTTGCCCTCGAACATCCA
Found at i:18188401 original size:30 final size:31
Alignment explanation
Indices: 18188350--18188431 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 31
18188340 TTTTGCCCCT
**
18188350 AAATTTT-CAAAAATCAC-ATTTTTAA-CCTC
1 AAATTTTCCAAAAATTTCGATTTTTAATCC-C
*
18188379 AAATTTTCCAAAAGTTT-GA-TTTTAATCCC
1 AAATTTTCCAAAAATTTCGATTTTTAATCCC
*
18188408 AAATTTTTCAAAAATTTCGATTTT
1 AAATTTTCCAAAAATTTCGATTTT
18188432 GATCCCCAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
29 29 0.67
30 11 0.26
31 3 0.07
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (31 bp):
AAATTTTCCAAAAATTTCGATTTTTAATCCC
Found at i:18188437 original size:30 final size:30
Alignment explanation
Indices: 18188369--18188442 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
18188359 AAAATCACAT
* *
18188369 TTTTAA-CCTCAAATTTTCCAAAAGTTTGA
1 TTTTAATCCCCAAATTTTCCAAAAATTTGA
*
18188398 TTTTAAT-CCCAAATTTTTCAAAAATTTCGA
1 TTTTAATCCCCAAATTTTCCAAAAATTT-GA
*
18188428 TTTTGATCCCCAAAT
1 TTTTAATCCCCAAAT
18188443 CCCTCGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 23 0.61
30 8 0.21
31 7 0.18
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (30 bp):
TTTTAATCCCCAAATTTTCCAAAAATTTGA
Found at i:18190988 original size:32 final size:32
Alignment explanation
Indices: 18190947--18191016 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
18190937 AACTCGAAAC
*
18190947 TCGAATTACTTATTCAACTTGACACGAATAAT
1 TCGAATTACTTATTCAACTTGACACAAATAAT
* * **
18190979 TCGAATTACTTATTCGAGTTGATTCAAATAAT
1 TCGAATTACTTATTCAACTTGACACAAATAAT
18191011 TCGAAT
1 TCGAAT
18191017 AACTCGATTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (32 bp):
TCGAATTACTTATTCAACTTGACACAAATAAT
Found at i:18192624 original size:53 final size:53
Alignment explanation
Indices: 18192557--18192658 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 53
18192547 CTTAGGTTGT
* * *
18192557 CAATTACTTGAATAAAAGAGAGTTATTGTAGAATTTAACTACTCCATTTGATC
1 CAATTACTTGAATAAAAGAGAGTTATTCTAAAATTTAACTACTCAATTTGATC
*
18192610 CAATTACATT-AATAAAAGAGAGTTCTTCTAAAATTTAACTACTCAATTT
1 CAATTAC-TTGAATAAAAGAGAGTTATTCTAAAATTTAACTACTCAATTT
18192659 AGTTGTTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
53 42 0.95
54 2 0.05
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (53 bp):
CAATTACTTGAATAAAAGAGAGTTATTCTAAAATTTAACTACTCAATTTGATC
Found at i:18196310 original size:6 final size:6
Alignment explanation
Indices: 18196299--18196334 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
18196289 ATCTTTCAAT
18196299 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC
1 CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC CCTCTC
18196335 TTTCCTTCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (6 bp):
CCTCTC
Found at i:18201969 original size:31 final size:31
Alignment explanation
Indices: 18201934--18201993 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
18201924 AACAACCTAA
*
18201934 TAACTTAAATAAAAAATTTTGAATGGTTCGG
1 TAACTTAAATAAAAAATTTTGAATAGTTCGG
* *
18201965 TAACTTAAATGAAAACTTTTGAATAGTTC
1 TAACTTAAATAAAAAATTTTGAATAGTTC
18201994 ATTGATCAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.08, G:0.13, T:0.37
Consensus pattern (31 bp):
TAACTTAAATAAAAAATTTTGAATAGTTCGG
Found at i:18206203 original size:6 final size:6
Alignment explanation
Indices: 18206192--18206301 Score: 118
Period size: 6 Copynumber: 18.2 Consensus size: 6
18206182 AGTTAAATTG
* *
18206192 ATTTAA ATTTAA ATTTAT A-GTAA ATTTAA ATTTAA TTATTTAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* *
18206240 CTTTAA ATTTAA ATTTAA TTATTTAA ATTT-A CTTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
18206289 ATTAAA ATTTAA A
1 ATTTAA ATTTAA A
18206302 CACTAAACAT
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
5 11 0.13
6 64 0.74
8 12 0.14
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (6 bp):
ATTTAA
Found at i:18206217 original size:17 final size:17
Alignment explanation
Indices: 18206184--18206301 Score: 119
Period size: 17 Copynumber: 7.3 Consensus size: 17
18206174 TAATTTGGAG
*
18206184 TTAAATTGAT-TTAAAT
1 TTAAATTTATATTAAAT
*
18206200 TTAAATTTATAGTAAAT
1 TTAAATTTATATTAAAT
18206217 TTAAATTTA-ATT--AT
1 TTAAATTTATATTAAAT
18206231 TTAAATTTACT-TTAAAT
1 TTAAATTTA-TATTAAAT
18206248 TTAAATTTA-ATT--AT
1 TTAAATTTATATTAAAT
18206262 TTAAATTTACT-TTAAAT
1 TTAAATTTA-TATTAAAT
*
18206279 TTAAATTTAAATTAAAAT
1 TTAAATTTATATT-AAAT
18206297 TTAAA
1 TTAAA
18206302 CACTAAACAT
Statistics
Matches: 86, Mismatches: 4, Indels: 22
0.77 0.04 0.20
Matches are distributed among these distances:
14 22 0.26
15 4 0.05
16 13 0.15
17 38 0.44
18 9 0.10
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTAAATTTATATTAAAT
Found at i:18206235 original size:31 final size:31
Alignment explanation
Indices: 18206198--18206288 Score: 157
Period size: 31 Copynumber: 2.9 Consensus size: 31
18206188 ATTGATTTAA
*
18206198 ATTTAAATTTA-TAGTAAATTTAAATTTAATT
1 ATTTAAATTTACT-TTAAATTTAAATTTAATT
18206229 ATTTAAATTTACTTTAAATTTAAATTTAATT
1 ATTTAAATTTACTTTAAATTTAAATTTAATT
18206260 ATTTAAATTTACTTTAAATTTAAATTTAA
1 ATTTAAATTTACTTTAAATTTAAATTTAA
18206289 ATTAAAATTT
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 57 0.98
32 1 0.02
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (31 bp):
ATTTAAATTTACTTTAAATTTAAATTTAATT
Found at i:18206235 original size:37 final size:32
Alignment explanation
Indices: 18206212--18206300 Score: 141
Period size: 31 Copynumber: 2.9 Consensus size: 32
18206202 AAATTTATAG
18206212 TAAATTTAAATTTAATTATTTAAATTT-ACTT
1 TAAATTTAAATTTAATTATTTAAATTTAACTT
18206243 TAAATTTAAATTTAATTATTTAAATTT-ACTT
1 TAAATTTAAATTTAATTATTTAAATTTAACTT
*
18206274 TAAATTTAAATTTAA--ATTAAAATTTAA
1 TAAATTTAAATTTAATTATTTAAATTTAA
18206301 ACACTAAACA
Statistics
Matches: 56, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
29 9 0.16
30 1 0.02
31 46 0.82
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (32 bp):
TAAATTTAAATTTAATTATTTAAATTTAACTT
Found at i:18207360 original size:13 final size:13
Alignment explanation
Indices: 18207342--18207375 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18207332 AACAAAAAAG
18207342 GAAGAAAAAGAAA
1 GAAGAAAAAGAAA
*
18207355 GAAGAAAAAGAGA
1 GAAGAAAAAGAAA
*
18207368 GAGGAAAA
1 GAAGAAAA
18207376 GGGACCGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAGAAA
Found at i:18207996 original size:161 final size:162
Alignment explanation
Indices: 18207800--18208114 Score: 476
Period size: 161 Copynumber: 2.0 Consensus size: 162
18207790 TTCAATTTAT
* *
18207800 TCCTTTGACTGTTTGACTGAACCAGAGGTTGCCACGTGTCACTTTTTTGGCTTATTTAT-CATTT
1 TCCTTTGACTGTGTGACTGAACCAGAGGCTGCCACGTGTCAC-TTTTTGGCTTATTTATGCATTT
* * *
18207864 AGTCCCT-AACATTTTTAATTTGTTTTAATTTAATCCTTAAATCGACTTTTACTTAATTAC-GAA
65 AGTCCCTGAA-AATTTTAATTTGTTTTAATTTAATCCCTAAATCGACTTTTACTTAATTACAAAA
18207927 TTGGCCCAACAATTTTTCAAGATTTATAAATTAG
129 TTGGCCCAACAATTTTTCAAGATTTATAAATTAG
* * *
18207961 TCCTTTGACTGTGTGGCTGCACCAG-GGACTGCCACGTGTCACTTTTTGGCTTATTTTTGCATTT
1 TCCTTTGACTGTGTGACTGAACCAGAGG-CTGCCACGTGTCACTTTTTGGCTTATTTATGCATTT
* *
18208025 AGTCCTTGAAAATTTTAATTTGTTTTAATTTAATCCCTGAATCGACTTTTACTTAATTACAAAAT
65 AGTCCCTGAAAATTTTAATTTGTTTTAATTTAATCCCTAAATCGACTTTTACTTAATTACAAAAT
*
18208090 TGGCCCAAGAATTTTTCAAGATTTA
130 TGGCCCAACAATTTTTCAAGATTTA
18208115 CAATTTGGTC
Statistics
Matches: 139, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
160 17 0.12
161 93 0.67
162 29 0.21
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.43
Consensus pattern (162 bp):
TCCTTTGACTGTGTGACTGAACCAGAGGCTGCCACGTGTCACTTTTTGGCTTATTTATGCATTTA
GTCCCTGAAAATTTTAATTTGTTTTAATTTAATCCCTAAATCGACTTTTACTTAATTACAAAATT
GGCCCAACAATTTTTCAAGATTTATAAATTAG
Found at i:18208156 original size:161 final size:161
Alignment explanation
Indices: 18207829--18208163 Score: 453
Period size: 161 Copynumber: 2.1 Consensus size: 161
18207819 AACCAGAGGT
*
18207829 TGCCACGTGTCACTTTTTTGGCTTATTTATCATTTAGTCCCTAACATTTTTAATTTGTTTTAATT
1 TGCCACGTGTCACTTTTTTGGCTTATTTATCATTTAGTCCCTAACAATTTTAATTTGTTTTAATT
* * *
18207894 TAATCCTTAAATCGACTTTTACTTAATTACGAATTGGCCCAACAATTTTTCAAGATTTATAAATT
66 TAATCCCTAAATCGACTTTTACTTAATTACAAATTGGCCCAACAATTTTTCAAGATTTACAAATT
* * * *
18207959 AGTCCTTTGACTGTGTGGCTGCACCAGGGAC
131 AGTCCCTTAACTGTCTGGATGCACCAGGGAC
* *
18207990 TGCCACGTGTCAC-TTTTTGGCTTATTTTTGCATTTAGTCCTTGAA-AATTTTAATTTGTTTTAA
1 TGCCACGTGTCACTTTTTTGGCTTATTTAT-CATTTAGTCCCT-AACAATTTTAATTTGTTTTAA
* *
18208053 TTTAATCCCTGAATCGACTTTTACTTAATTACAAAATTGGCCCAAGAATTTTTCAAGATTTACAA
64 TTTAATCCCTAAATCGACTTTTACTTAATTAC-AAATTGGCCCAACAATTTTTCAAGATTTACAA
* * ** *
18208118 TTTGGTCCCTTAACTG-CTGGATGC-CTGTGGGGC
128 ATTAGTCCCTTAACTGTCTGGATGCAC-CAGGGAC
18208151 TGCCACGTGTCAC
1 TGCCACGTGTCAC
18208164 CCACTTTTTG
Statistics
Matches: 153, Mismatches: 17, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
160 16 0.10
161 94 0.61
162 43 0.28
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.41
Consensus pattern (161 bp):
TGCCACGTGTCACTTTTTTGGCTTATTTATCATTTAGTCCCTAACAATTTTAATTTGTTTTAATT
TAATCCCTAAATCGACTTTTACTTAATTACAAATTGGCCCAACAATTTTTCAAGATTTACAAATT
AGTCCCTTAACTGTCTGGATGCACCAGGGAC
Found at i:18208421 original size:117 final size:118
Alignment explanation
Indices: 18208232--18208815 Score: 772
Period size: 117 Copynumber: 5.0 Consensus size: 118
18208222 CCCGAAACTT
* * *
18208232 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAAATCCATTTTTAACCCCGATTTCACAAAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAA
* *
18208297 ATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCA
66 ATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
18208350 CCGAAAATTACCATTTTACCCCCAAATCTTTTAAAATTTCA-TTTTAACCCTGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAA
* * *
18208414 ATTACCATTTTACCCCCAAATCTTCCAAAATTTCATTTTAAACCCCGATTTCA
66 ATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * ** *
18208467 CTAAAAATAACCATTTTACCCCTAAATCTTTTAAAATTCCATTTTTAACCCTAATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAA
* *
18208532 ATTATCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCA
66 ATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
18208585 CCGAAAATTACCA-TTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTTGATTTTACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAA
18208649 ATTACCATTTTA-CCCCGAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCA
66 ATTACCATTTTACCCCCGAATC-TTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * * * *
18208701 CCAAAAATCACCA-TTTACCCTCGAA-CTTTCCAAATTTCCA-TTTTAACCTTGATTTTATC-AA
1 CCAAAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACCCTGATTTCACCAAA
* ** * * *
18208762 AATTACCATTTTGCCCCCGGGT-ATCCAAAAGTCCCATTTTTCACCCCGATTTCA
65 AATTACCATTTTACCCCCGAATCTTCCAAAA-TTCCATTTTTAACCCCGATTTCA
18208816 TCGTTTATCA
Statistics
Matches: 416, Mismatches: 44, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
114 21 0.05
115 49 0.12
116 67 0.16
117 162 0.39
118 117 0.28
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.35
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAA
ATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:18208423 original size:58 final size:59
Alignment explanation
Indices: 18208232--18208780 Score: 718
Period size: 59 Copynumber: 9.4 Consensus size: 59
18208222 CCCGAAACTT
* *
18208232 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAAATCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCA
* *
18208291 CAAAAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCA
* * *
18208350 CCGAAAATTACCATTTTACCCCCAAATCTTTTAAAATTTCA-TTTTAACCCTGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCA
* ** * * *
18208408 CCAAAAATTACCATTTTACCCCCAAATCTTCCAAAATTTCATTTTAAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCA
* * ** *
18208467 CTAAAAATAACCATTTTACCCCTAAATCTTTTAAAATTCCATTTTTAACCCTAATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCA
* * *
18208526 CCAAAAATTATCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCA
* * *
18208585 CCGAAAATTACCA-TTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTTGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCA
* *
18208643 CCAAAAATTACCATTTTA-CCCCGAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACCCTGATTTCA
* * * * * *
18208701 CCAAAAATCACCA-TTTACCCTCGAA-CTTTCCAAATTTCCA-TTTTAACCTTGATTTTA
1 CCAAAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACCCTGATTTCA
* *
18208758 TC-AAAATTACCATTTTGCCCCCG
1 CCAAAAATTACCATTTTACCCCCG
18208781 GGTATCCAAA
Statistics
Matches: 433, Mismatches: 52, Indels: 12
0.87 0.10 0.02
Matches are distributed among these distances:
56 9 0.02
57 31 0.07
58 171 0.39
59 222 0.51
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCA
Found at i:18208526 original size:176 final size:175
Alignment explanation
Indices: 18208232--18208780 Score: 730
Period size: 176 Copynumber: 3.1 Consensus size: 175
18208222 CCCGAAACTT
*
18208232 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAAATCCATTTTTAACCCCGATTTCACAAAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACAAAAA
* *
18208297 ATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCACCGAAAATTACC
66 ATTACCATTTTA-CCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACC
*
18208362 ATTTTACCCCCAAATCTTTTAAAATTTCATTTTAACCCTGATTTCA
130 ATTTTACCCCCGAATCTTTTAAAATTTCATTTTAACCCTGATTTCA
* ** * * *
18208408 CCAAAAATTACCATTTTACCCCCAAATCTTCCAAAATTTCATTTTAAACCCCGATTTCACTAAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACAAAAA
* * * *
18208473 ATAACCATTTTACCCCTAAATCTTTTAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTATC
66 ATTACCATTTTACCCC-GAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACC
* * *
18208538 ATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCCGATTTCA
130 ATTTTACCCCCGAATCTTTTAAAATTTCA-TTTTAACCCTGATTTCA
* ** * *
18208585 CCGAAAATTACCA-TTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCTTGATTTTACCAAAA
1 CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACAAAAA
* * *
18208649 ATTACCATTTTACCCCGAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATCACC
66 ATTACCATTTTACCCCGAATCTTT-TAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACC
* ** * *
18208713 A-TTTACCCTCGAA-CTTTCCAAATTTCCATTTTAACCTTGATTTTA
130 ATTTTACCCCCGAATCTTTTAAAATTT-CATTTTAACCCTGATTTCA
* *
18208758 TC-AAAATTACCATTTTGCCCCCG
1 CCAAAAATTACCATTTTACCCCCG
18208781 GGTATCCAAA
Statistics
Matches: 324, Mismatches: 44, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
172 10 0.03
173 32 0.10
174 17 0.05
175 42 0.13
176 195 0.60
177 28 0.09
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (175 bp):
CCAAAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGATTTCACAAAAA
ATTACCATTTTACCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCA
TTTTACCCCCGAATCTTTTAAAATTTCATTTTAACCCTGATTTCA
Found at i:18208770 original size:29 final size:29
Alignment explanation
Indices: 18208274--18208773 Score: 123
Period size: 29 Copynumber: 17.1 Consensus size: 29
18208264 AAAAATCCAT
* * *
18208274 TTTTAACCCCGATTTCACAAAAAATTACCA
1 TTTTAACCTCGATTTTAC-CAAAATTACCA
* * * *
18208304 TTTTACCCCCGAATCTT-CTAAAATT-CCA
1 TTTTAACCTCG-ATTTTACCAAAATTACCA
*
18208332 TTTTTAACC-CTGATTTCACCGAAAATTACCA
1 -TTTTAACCTC-GATTTTACC-AAAATTACCA
* * * * *
18208363 TTTTACCCCCAAATCTTT--TAAAATT-TCA
1 TTTTAACCTC-GAT-TTTACCAAAATTACCA
*
18208391 TTTTAACC-CTGATTTCACCAAAAATTACCA
1 TTTTAACCTC-GATTTTACC-AAAATTACCA
* * * * *
18208421 TTTTACCCCCAAATCTT-CCAAAATT-TCA
1 TTTTAACCTC-GATTTTACCAAAATTACCA
* * * *
18208449 TTTTAAACCCCGATTTCACTAAAAATAACCA
1 TTTT-AACCTCGATTTTAC-CAAAATTACCA
* ** *
18208480 TTTTACCCCTAAATCTTT--TAAAATT-CCA
1 TTTTA-ACCTCGAT-TTTACCAAAATTACCA
* * *
18208508 TTTTTAACC-CTAATTTCACCAAAAATTATCA
1 -TTTTAACCTC-GATTTTACC-AAAATTACCA
* * * *
18208539 TTTTACCCCCGAATCTT-CTAAAATT-CCA
1 TTTTAACCTCG-ATTTTACCAAAATTACCA
* *
18208567 TTTTTAACCCCGATTTCACCGAAAATTACCA
1 -TTTTAACCTCGATTTTACC-AAAATTACCA
* * *
18208598 -TTTACCCCCGAATCTTT--TAAAATT-CCA
1 TTTTAACCTCG-AT-TTTACCAAAATTACCA
*
18208625 TTTTTAACCTTGATTTTACCAAAAATTACCA
1 -TTTTAACCTCGATTTTACC-AAAATTACCA
* *
18208656 TTTT-ACCCCGAACTTT-CCAAAATT-CCA
1 TTTTAACCTCG-ATTTTACCAAAATTACCA
* * *
18208683 TTTTTAACCCCGATTTCACCAAAAATCACCA
1 -TTTTAACCTCGATTTTACC-AAAATTACCA
* * *
18208714 -TTTACCCTCGAACTTT-CC-AAATTTCCA
1 TTTTAACCTCG-ATTTTACCAAAATTACCA
* *
18208741 TTTTAACCTTGATTTTATCAAAATTACCA
1 TTTTAACCTCGATTTTACCAAAATTACCA
18208770 TTTT
1 TTTT
18208774 GCCCCCGGGT
Statistics
Matches: 342, Mismatches: 79, Indels: 99
0.66 0.15 0.19
Matches are distributed among these distances:
26 2 0.01
27 25 0.07
28 68 0.20
29 118 0.35
30 85 0.25
31 40 0.12
32 4 0.01
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (29 bp):
TTTTAACCTCGATTTTACCAAAATTACCA
Found at i:18220781 original size:68 final size:68
Alignment explanation
Indices: 18220496--18221256 Score: 1168
Period size: 68 Copynumber: 11.1 Consensus size: 68
18220486 CAGACCAAAC
* * **
18220496 AAGATCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGA
1 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
18220561 AGT
66 AGT
*
18220564 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTT-TCTCTGAAATTGA
1 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
18220628 AGT
66 AGT
* * *
18220631 AAGAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTT-TCTCTGAAATTGA
1 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
18220695 AGT
66 AGT
*
18220698 AAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
1 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
18220763 AGT
66 AGT
* **
18220766 AAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGA
1 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
18220831 AGT
66 AGT
*
18220834 AAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
1 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
18220899 AGT
66 AGT
* *
18220902 AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTT-TCTCTGAAATTGA
1 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
18220966 AGT
66 AGT
* * *
18220969 AAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAACTGA
1 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
18221034 AGT
66 AGT
* * * *
18221037 AAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAATGGATGACACGTCTTTACCTCTGAAATTGA
1 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
18221102 AGT
66 AGT
* *
18221105 AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGA
1 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
18221170 AGT
66 AGT
* * * * *
18221173 AAGAACAGGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTCT
1 AAGAGCA--A-C--GT-C-ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCT
18221238 GAAATTGAAGT
58 GAAATTGAAGT
18221249 AAGAGCAA
1 AAGAGCAA
18221257 GGTCTTTTCC
Statistics
Matches: 641, Mismatches: 42, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
67 193 0.30
68 383 0.60
70 1 0.00
71 1 0.00
73 1 0.00
74 2 0.00
75 22 0.03
76 38 0.06
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (68 bp):
AAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
AGT
Found at i:18220959 original size:203 final size:204
Alignment explanation
Indices: 18220496--18221256 Score: 1186
Period size: 203 Copynumber: 3.7 Consensus size: 204
18220486 CAGACCAAAC
* * * **
18220496 AAGATCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGA
1 AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGA
*
18220561 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTT-TTCTCTGAAAT
66 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTCATCTCTGAAAT
* *
18220625 TGAAGTAAGAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTT-TCTCTGA
131 TGAAGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGA
18220689 AATTGAAGT
196 AATTGAAGT
* * *
18220698 AAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGA
1 AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGA
* * *
18220763 AGTAAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAAT
66 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTCATCTCTGAAAT
18220828 TGAAGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGA
131 TGAAGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGA
18220893 AATTGAAGT
196 AATTGAAGT
18220902 AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTT-TCTCTGAAATTGA
1 AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGA
* * *
18220966 AGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAAC
66 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTCATCTCTGAAAT
** * * *
18221031 TGAAGTAAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAATGGATGACACGTCTTTACCTCTGA
131 TGAAGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGA
18221096 AATTGAAGT
196 AATTGAAGT
18221105 AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGA
1 AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGA
* * * * *
18221170 AGTAAGAACAGGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATC
66 AGTAAGAGCA--A-C--GT-C-ATCCCCTTGAAATTGAAGTAGAG-TGGATAACACGCCTTCATC
18221235 TCTGAAATTGAAGTAAGAGCAA
123 TCTGAAATTGAAGTAAGAGCAA
18221257 GGTCTTTTCC
Statistics
Matches: 519, Mismatches: 29, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
202 111 0.21
203 259 0.50
204 86 0.17
206 1 0.00
207 1 0.00
209 1 0.00
210 1 0.00
211 22 0.04
212 37 0.07
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (204 bp):
AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGA
AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTCATCTCTGAAAT
TGAAGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGA
AATTGAAGT
Found at i:18221001 original size:271 final size:270
Alignment explanation
Indices: 18220496--18221256 Score: 1254
Period size: 271 Copynumber: 2.8 Consensus size: 270
18220486 CAGACCAAAC
*
18220496 AAGATCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGA
1 AAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGA
18220561 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTT-TCTCTGAAAT
66 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAAT
18220625 TGAAGTAAGAGCAACATCATTCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTTCTCTGAA
131 TGAAGTAAGAGCAACATCA-TCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTTCTCTGAA
*
18220690 ATTGAAGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCT
195 ATTGAAGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCT
*
18220755 GAAATTGAAGT
260 GAAACTGAAGT
18220766 AAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGA
1 AAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGA
* *
18220831 AGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAAT
66 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAAT
*
18220896 TGAAGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTTCTCTGAA
131 TGAAGTAAGAGCAACATCATCC-CTTGAAATTGAAGTAGAGTGGATAACACGCCTTTTCTCTGAA
18220961 ATTGAAGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCT
195 ATTGAAGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCT
18221026 GAAACTGAAGT
260 GAAACTGAAGT
* * * * ***
18221037 AAGAGCAATGTCATCCCCTTGAAATTGAAGTAGAATGGATGACACGTCTTTACCTCTGAAATTGA
1 AAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGA
*
18221102 AGTAAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAAT
66 AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAAT
* * *
18221167 TGAAGTAAGAACAGGATCTTTTCCTATCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTT
131 TGAAGTAAGAGCA--A-C--AT-C-ATCC-CTTGAAATTGAAGTAGAG-TGGATAACACGCCTTT
18221232 ATCTCTGAAATTGAAGTAAGAGCAA
187 -TCTCTGAAATTGAAGTAAGAGCAA
18221257 GGTCTTTTCC
Statistics
Matches: 460, Mismatches: 20, Indels: 12
0.93 0.04 0.02
Matches are distributed among these distances:
270 119 0.26
271 276 0.60
273 1 0.00
274 1 0.00
276 1 0.00
277 1 0.00
278 22 0.05
279 15 0.03
280 24 0.05
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (270 bp):
AAGAGCAACGTCATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCGTCTCTGAAATTGA
AGTAAGAGCAACGTCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAAT
TGAAGTAAGAGCAACATCATCCCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTTCTCTGAAA
TTGAAGTAAGAGCAACATCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTG
AAACTGAAGT
Found at i:18221241 original size:38 final size:38
Alignment explanation
Indices: 18221124--18221249 Score: 111
Period size: 38 Copynumber: 3.3 Consensus size: 38
18221114 GTCATCCTCT
*
18221124 TGAAATTGAAGTAGAG-TGGATAACACGCCTTTATCTC
1 TGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTC
* * ** *
18221161 TGAAATTGAAGTA-AGA---ACAGGATC-TTTTCCTATCCGC
1 TGAAATTGAAGTAGAGATGGATAGCA-CGCCTT--TAT-CTC
18221198 TTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTC
1 -TGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTC
18221237 TGAAATTGAAGTA
1 TGAAATTGAAGTA
18221250 AGAGCAAGGT
Statistics
Matches: 67, Mismatches: 11, Indels: 21
0.68 0.11 0.21
Matches are distributed among these distances:
34 5 0.07
35 1 0.01
36 5 0.07
37 15 0.22
38 26 0.39
39 5 0.07
40 3 0.04
41 1 0.01
42 6 0.09
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (38 bp):
TGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTC
Found at i:18221247 original size:76 final size:75
Alignment explanation
Indices: 18221117--18221287 Score: 281
Period size: 76 Copynumber: 2.3 Consensus size: 75
18221107 GAGCAACGTC
18221117 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAAC-AG
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAACAAG
18221181 GATCTTTTCCT
66 G-TCTTTTCCT
* * *
18221192 ATCCGCTTGAAATTGAAGTAGAGATGGATAGCACGCCTTTATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAACAA
18221257 GGTCTTTTCCT
65 GGTCTTTTCCT
*
18221268 ATCCTTTTGAAATTGAAGTA
1 ATCCTCTTGAAATTGAAGTA
18221288 AAGCTGAATA
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
75 22 0.25
76 64 0.72
77 3 0.03
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (75 bp):
ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAACAAG
GTCTTTTCCT
Found at i:18221685 original size:6 final size:6
Alignment explanation
Indices: 18221674--18221741 Score: 75
Period size: 6 Copynumber: 11.2 Consensus size: 6
18221664 AGTTAAATTG
* *
18221674 ATTTAA ATTTAA ATTTAT A-GTAA ATTTAA ATTTAA TTATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA
* *
18221723 ATTAAA ATTAAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
18221742 CACTAAACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
5 3 0.06
6 44 0.83
8 6 0.11
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (6 bp):
ATTTAA
Found at i:18221685 original size:16 final size:17
Alignment explanation
Indices: 18221666--18221705 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
18221656 TAATTTGGAG
*
18221666 TTAAATTGAT-TTAAAT
1 TTAAATTGATAGTAAAT
*
18221682 TTAAATTTATAGTAAAT
1 TTAAATTGATAGTAAAT
18221699 TTAAATT
1 TTAAATT
18221706 TAATTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
TTAAATTGATAGTAAAT
Found at i:18221717 original size:31 final size:32
Alignment explanation
Indices: 18221680--18221740 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
18221670 ATTGATTTAA
* *
18221680 ATTTAAATTTATAGT-AAATTTAAATTTAATT
1 ATTTAAATTTAAAGTAAAATTAAAATTTAATT
*
18221711 ATTTAAATTTAAATTAAAATTAAAATTTAA
1 ATTTAAATTTAAAGTAAAATTAAAATTTAA
18221741 ACACTAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (32 bp):
ATTTAAATTTAAAGTAAAATTAAAATTTAATT
Found at i:18222811 original size:13 final size:13
Alignment explanation
Indices: 18222793--18222826 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
18222783 AACAAAAAAG
18222793 GAAGAAAAAGAAA
1 GAAGAAAAAGAAA
*
18222806 GAAGAAAAAGAGA
1 GAAGAAAAAGAAA
*
18222819 GAGGAAAA
1 GAAGAAAA
18222827 GGGACCGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
GAAGAAAAAGAAA
Found at i:18223523 original size:160 final size:161
Alignment explanation
Indices: 18223248--18223565 Score: 489
Period size: 161 Copynumber: 2.0 Consensus size: 161
18223238 ACTTTTCAAT
* * *
18223248 TTAGTCCTTTGACTGTTTGACTGAACTAGAGGCTGCCACGTGTCACTTTTTTGGCTTATTTATGC
1 TTAGTCCTTTGACTGTGTGACTGAACCAGAGGCTGCCACGTGTCAC-TTTTTGACTTATTTATGC
* * *
18223313 ATTTAGTCCCTGACATTTTAATTTGTTTTAATTTAATCCTTAAATCGACTTTTACTTAATTAC-G
65 ATTTAGTCCCTGAAATTTTAATTTGTTTTAATTTAATCCCTAAATCGACTTTTACTTAATTACAA
18223377 AATTGGCCCAACAATTTTTCAAGATTTATAAA
130 AATTGGCCCAACAATTTTTCAAGATTTATAAA
* * *
18223409 TTAGTCCTTTGACTGTGTGGCTGCACCAG-GGACTGCCACGTGTCAC-TTTTGACTTATTTTTGC
1 TTAGTCCTTTGACTGTGTGACTGAACCAGAGG-CTGCCACGTGTCACTTTTTGACTTATTTATGC
*
18223472 ATTTAGTCCCTGAAAATTTTAATTTGTTTTAATTTAATCCCTGAATCGACTTTTACTTAATTACA
65 ATTTAGTCCCTG-AAATTTTAATTTGTTTTAATTTAATCCCTAAATCGACTTTTACTTAATTACA
*
18223537 AAATTGGCCCAAGAATTTTTCAAGATTTA
129 AAATTGGCCCAACAATTTTTCAAGATTTA
18223566 CAATTTGGTC
Statistics
Matches: 143, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
159 27 0.19
160 50 0.35
161 66 0.46
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (161 bp):
TTAGTCCTTTGACTGTGTGACTGAACCAGAGGCTGCCACGTGTCACTTTTTGACTTATTTATGCA
TTTAGTCCCTGAAATTTTAATTTGTTTTAATTTAATCCCTAAATCGACTTTTACTTAATTACAAA
ATTGGCCCAACAATTTTTCAAGATTTATAAA
Found at i:18223607 original size:160 final size:160
Alignment explanation
Indices: 18223278--18223614 Score: 464
Period size: 160 Copynumber: 2.1 Consensus size: 160
18223268 CTGAACTAGA
* *
18223278 GGCTGCCACGTGTCACTTTTTTGGCTTATTTATGCATTTAGTCCCTGACATTTTAATTTGTTTTA
1 GGCTGCCACGTGTCAC-TTTTTGACTTATTTATGCATTTAGTCCCTGAAATTTTAATTTGTTTTA
* * *
18223343 ATTTAATCCTTAAATCGACTTTTACTTAATTACGAATTGGCCCAACAATTTTTCAAGATTTATAA
65 ATTTAATCCCTAAATCGACTTTTACTTAATTACAAATTGGCCCAACAATTTTTCAAGATTTACAA
* * * *
18223408 ATTAGTCCTTTGACTGTGTGGCTGCACCAGG
130 ATTAGTCCCTTAACTGTCTGGATGCACCAGG
* *
18223439 GACTGCCACGTGTCAC-TTTTGACTTATTTTTGCATTTAGTCCCTGAAAATTTTAATTTGTTTTA
1 GGCTGCCACGTGTCACTTTTTGACTTATTTATGCATTTAGTCCCTG-AAATTTTAATTTGTTTTA
* *
18223503 ATTTAATCCCTGAATCGACTTTTACTTAATTACAAAATTGGCCCAAGAATTTTTCAAGATTTACA
65 ATTTAATCCCTAAATCGACTTTTACTTAATTAC-AAATTGGCCCAACAATTTTTCAAGATTTACA
* * **
18223568 ATTTGGTCCCTTAACTG-CTGGATGC-CTGTGG
129 AATTAGTCCCTTAACTGTCTGGATGCAC-CAGG
18223599 GGCTGCCACGTGTCAC
1 GGCTGCCACGTGTCAC
18223615 CCACTTTTTG
Statistics
Matches: 155, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
159 28 0.18
160 71 0.46
161 56 0.36
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (160 bp):
GGCTGCCACGTGTCACTTTTTGACTTATTTATGCATTTAGTCCCTGAAATTTTAATTTGTTTTAA
TTTAATCCCTAAATCGACTTTTACTTAATTACAAATTGGCCCAACAATTTTTCAAGATTTACAAA
TTAGTCCCTTAACTGTCTGGATGCACCAGG
Found at i:18223755 original size:59 final size:59
Alignment explanation
Indices: 18223686--18224233 Score: 732
Period size: 59 Copynumber: 9.4 Consensus size: 59
18223676 GAAACTTCCG
* * *
18223686 AAAATTACCATTTTACCCCCGAATCTTTTAAAAATCCATTTTT-ATCCTCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCT-GATTTCACCA
* *
18223745 AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACTCTGATTTCACCA
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCA
** *
18223804 AAAATTACCATTTTACCCCCGAATCTTCCAAAATTCCATTTTAAACCCTGATTTCACC-
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCA
* * * *
18223862 AAAATTACCATTTTACCCTCGAATATTCTAAAATTCCATTTTTAACCCTAATTTCACCA
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCA
* * *
18223921 AAAATTACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCCCCA
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCA
** * * *
18223980 AAAATTACCATTTTACCCCTAAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACCG
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCA
* *
18224039 AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCT
1 AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCA
* * *
18224098 AAAATTACCATTTTA-CCTCGAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACCCTGATTTCACCA
* * * * * *
18224156 AAAATCACCATTTTACCCCCGAA-CTTTCCAAATTTCCA-TTTTAACCCTAATTTTATC-
1 AAAATTACCATTTTACCCCCGAATCTTT-TAAAATTCCATTTTTAACCCTGATTTCACCA
*
18224213 AAAATTACCATTTTTCCCCCG
1 AAAATTACCATTTTACCCCCG
18224234 GGTATCCAAA
Statistics
Matches: 443, Mismatches: 42, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
57 23 0.05
58 117 0.26
59 300 0.68
60 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (59 bp):
AAAATTACCATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCA
Found at i:18223983 original size:176 final size:175
Alignment explanation
Indices: 18223686--18224226 Score: 777
Period size: 176 Copynumber: 3.1 Consensus size: 175
18223676 GAAACTTCCG
* * * *
18223686 AAAATTACCATTTTACCCCCGAATCTTTTAAAAATCCATTTTT-ATCCTCGATTTCACCGAAAAT
1 AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCT-GATTTCACCAAAAAT
* *
18223750 TACCATTTTA-CCCTCGAATCTTTTAAAATTCCATTTTTAACTCTGATTTCACCAAAAATTACCA
65 TACCATTTTACCCCT-GAATCTTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCA
18223814 TTTTACCCCCGAATCTTCCAAAATTCCATTTTAAACCCTGATTTCACC
129 TTTTACCCCCGAATCTTCCAAAATTCCATTTT-AACCCTGATTTCACC
* * *
18223862 AAAATTACCATTTTACCCTCGAATATTCTAAAATTCCATTTTTAACCCTAATTTCACCAAAAATT
1 AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATT
*
18223927 ACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCCCCAAAAATTACCATT
66 ACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATT
** * *
18223992 TTACCCCTAAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACC
131 TTACCCCCGAATCTTCCAAAATTCCA-TTTTAACCCTGATTTCACC
*
18224038 GAAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCTAAAAT
1 -AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAAT
* * * *
18224103 TACCATTTTACCTC-GAA-CTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATCACCA
65 TACCATTTTACCCCTGAATC-TTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCA
* * * *
18224166 TTTTACCCCCGAA-CTTTCCAAATTTCCATTTTAACCCTAATTTTATC
129 TTTTACCCCCGAATC-TTCCAAAATTCCATTTTAACCCTGATTTCACC
18224213 AAAATTACCATTTT
1 AAAATTACCATTTT
18224227 TCCCCCGGGT
Statistics
Matches: 328, Mismatches: 31, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
174 14 0.04
175 17 0.05
176 212 0.65
177 85 0.26
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.37
Consensus pattern (175 bp):
AAAATTACCATTTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATT
ACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCATT
TTACCCCCGAATCTTCCAAAATTCCATTTTAACCCTGATTTCACC
Found at i:18224119 original size:235 final size:235
Alignment explanation
Indices: 18223686--18224231 Score: 773
Period size: 235 Copynumber: 2.3 Consensus size: 235
18223676 GAAACTTCCG
* * *
18223686 AAAATTACCATTTTACCCCCGAATCTTTTAAAAATCCATTTTT-ATCCTCGATTTCACCGAAAAT
1 AAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCT-GATTTCACC-AAAAT
* * * *
18223750 TACCATTTTA-CCCTCGAATCTTTTAAAATTCCATTTTTAACTCTGATTTCACCAAAAATTACCA
64 TACCATTTTACCCCTCAAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCA
18223814 TTTTACCCCCGAATCTTCCAAAATTCCATTTTAAACCCTGATTTCACCAAAATTACCATTTTACC
129 TTTTACCCCCGAATCTTCCAAAATTCCATTTTAAACCCTGATTTCACCAAAATTACCATTTTACC
* *
18223879 CTCGAA-TATTCTAAAATTCCATTTTTAACCCTAATTTCACCA
194 CTCGAACT-TTCCAAAATTCCATTTTTAACCCCAATTTCACCA
* *
18223921 AAAATTACCATTTTACCCCTGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCCCCAAAAATT
1 AAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCACC-AAAATT
*
18223986 ACCATTTTACCCCT-AAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACCGAAAATTACCAT
65 ACCATTTTACCCCTCAAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCAT
* ** *
18224050 TTTACCCTCGAATCTTTTAAAATTCCATTTTTAACCCTGATTTCACCTAAAATTACCATTTTA-C
130 TTTACCCCCGAATCTTCCAAAATTCCATTTTAAACCCTGATTTCACC-AAAATTACCATTTTACC
*
18224114 CTCGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCA
194 CTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCA
* * * * * *
18224156 AAAATCACCATTTTACCCCCGAA-CTTTCCAAATTTCCA-TTTTAACCCTAATTTTATCAAAATT
1 AAAATTACCATTTTACCCCCGAATC-TTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAATT
*
18224219 ACCATTTTTCCCC
65 ACCATTTTACCCC
18224232 CGGGTATCCA
Statistics
Matches: 279, Mismatches: 27, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
233 18 0.06
234 16 0.06
235 221 0.79
236 24 0.09
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (235 bp):
AAAATTACCATTTTACCCCCGAATCTTCTAAAATTCCATTTTTAACCCTGATTTCACCAAAATTA
CCATTTTACCCCTCAAATCTTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATT
TTACCCCCGAATCTTCCAAAATTCCATTTTAAACCCTGATTTCACCAAAATTACCATTTTACCCT
CGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCA
Found at i:18224187 original size:30 final size:28
Alignment explanation
Indices: 18223801--18224231 Score: 87
Period size: 29 Copynumber: 14.8 Consensus size: 28
18223791 TCTGATTTCA
18223801 CCAAAAATTACCATTTTACCCCCGAA-TCTT
1 CCAAAAA-TACCATTTTA-CCCCGAACT-TT
* *
18223831 CC-AAAATTCCATTTTAAACCCTG-A-TTT
1 CCAAAAATACCATTTT--ACCCCGAACTTT
*
18223858 CACCAAAATTACCATTTTACCCTCGAA-TATT
1 --CCAAAAATACCATTTTACCC-CGAACT-TT
* * * *
18223889 -CTAAAATTCCATTTTTAACCCTAA-TTT
1 CCAAAAATACCA-TTTTACCCCGAACTTT
18223916 CACCAAAAATTACCATTTTACCCCTGAA-TCTT
1 --CCAAAAA-TACCATTTTACCCC-GAACT-TT
* * *
18223948 -CTAAAATTCCATTTTTAACCCTG-A-TTT
1 CCAAAAATACCA-TTTT-ACCCCGAACTTT
* *
18223975 CCCCAAAAATTACCATTTTACCCCTAAATCTT
1 --CCAAAAA-TACCATTTTACCCCGAACT-TT
* *
18224007 -CTAAAATTCCATTTTTAACCCCG-A-TTT
1 CCAAAAATACCA-TTTT-ACCCCGAACTTT
*
18224034 CACCGAAAATTACCATTTTACCCTCGAATCTTT
1 --CC-AAAAATACCATTTTACCC-CGAA-CTTT
* * *
18224067 --TAAAATTCCATTTTTAACCCTG-A-TTT
1 CCAAAAATACCA-TTTT-ACCCCGAACTTT
* *
18224093 CACCTAAAATTACCATTTTACCTCGAACTTT
1 --CC-AAAAATACCATTTTACCCCGAACTTT
*
18224124 CC-AAAATTCCATTTTTAACCCCG-A-TTT
1 CCAAAAATACCA-TTTT-ACCCCGAACTTT
18224151 CACCAAAAATCACCATTTTACCCCCGAACTTT
1 --CCAAAAAT-ACCATTTTA-CCCCGAACTTT
* * * * *
18224183 CC-AAATTTCCATTTTAACCCTAATTTT
1 CCAAAAATACCATTTTACCCCGAACTTT
* * *
18224210 ATCAAAATTACCATTTTTCCCC
1 -CCAAAAATACCATTTTACCCC
18224232 CGGGTATCCA
Statistics
Matches: 298, Mismatches: 49, Indels: 109
0.65 0.11 0.24
Matches are distributed among these distances:
26 3 0.01
27 26 0.09
28 59 0.20
29 84 0.28
30 80 0.27
31 36 0.12
32 7 0.02
33 3 0.01
ACGTcount: A:0.32, C:0.29, G:0.03, T:0.36
Consensus pattern (28 bp):
CCAAAAATACCATTTTACCCCGAACTTT
Found at i:18231469 original size:58 final size:59
Alignment explanation
Indices: 18231372--18231502 Score: 169
Period size: 58 Copynumber: 2.2 Consensus size: 59
18231362 ACACGGAGTC
**
18231372 AAAATGGTAATTTTTGGATGCCCGAGGGCAAAATGGTAATTTTTAGAG-ATTCG-GGGGT
1 AAAATGGTAATTTTTGGACACCCGAGGGCAAAATGGTAATTTTT-GAGCATTCGAGGGGT
* * * *
18231430 AAAACGGTAATTTTTGGACACTCGAGGGCCAAAAT-GTAATTTTTGGGCATTCGAGGGTT
1 AAAATGGTAATTTTTGGACACCCGAGGG-CAAAATGGTAATTTTTGAGCATTCGAGGGGT
18231489 AAAATGGTAATTTT
1 AAAATGGTAATTTT
18231503 GAAAAGTTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
57 2 0.03
58 38 0.60
59 23 0.37
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGACACCCGAGGGCAAAATGGTAATTTTTGAGCATTCGAGGGGT
Found at i:18231503 original size:29 final size:30
Alignment explanation
Indices: 18231372--18231560 Score: 147
Period size: 29 Copynumber: 6.5 Consensus size: 30
18231362 ACACGGAGTC
**** *
18231372 AAAATGGTAATTTTTGGATGCCCGA-GGGC
1 AAAATGGTAATTTTTGGACATTCGAGGGGT
* *
18231401 AAAATGGTAATTTTTAGAGATTCG-GGGGT
1 AAAATGGTAATTTTTGGACATTCGAGGGGT
* * **
18231430 AAAACGGTAATTTTTGGACACTCGAGGGCC
1 AAAATGGTAATTTTTGGACATTCGAGGGGT
* *
18231460 AAAAT-GTAATTTTTGGGCATTCGAGGGTT
1 AAAATGGTAATTTTTGGACATTCGAGGGGT
* * * *
18231489 AAAATGGTAA-TTTTGAAAAGTTTG-GGGTT
1 AAAATGGTAATTTTTGGACA-TTCGAGGGGT
* *
18231518 AAAATTGTAATTTTTGGACATT-TAGGGGT
1 AAAATGGTAATTTTTGGACATTCGAGGGGT
*
18231547 AAAATGATAATTTT
1 AAAATGGTAATTTT
18231561 GAAAAGTTCG
Statistics
Matches: 126, Mismatches: 28, Indels: 12
0.76 0.17 0.07
Matches are distributed among these distances:
29 105 0.83
30 21 0.17
ACGTcount: A:0.32, C:0.07, G:0.26, T:0.34
Consensus pattern (30 bp):
AAAATGGTAATTTTTGGACATTCGAGGGGT
Found at i:18231522 original size:58 final size:58
Alignment explanation
Indices: 18231460--18231861 Score: 225
Period size: 58 Copynumber: 6.9 Consensus size: 58
18231450 CTCGAGGGCC
* * * *
18231460 AAAATGTAATTTTTGGGCATTCGAGGGTTAAAATGGTAATTTTGAAAAGTTTGGGGTTA
1 AAAATGTAATTTTTGGGCATT-TAGGGGTAAAATGGTAATTTTGAAAAGTTCGAGGTTA
* * *
18231519 AAATTGTAATTTTTGGACATTTAGGGGTAAAATGATAATTTTGAAAAGTTCGAGGTTA
1 AAAATGTAATTTTTGGGCATTTAGGGGTAAAATGGTAATTTTGAAAAGTTCGAGGTTA
* * * **
18231577 AAAATG-AGATCTTTT-AGAAGTTTAGGGGTAAAATGGTAATTTTGAAAAGTTCAAGGGCA
1 AAAATGTA-AT-TTTTGGGCA-TTTAGGGGTAAAATGGTAATTTTGAAAAGTTCGAGGTTA
* * *** * * * **
18231636 AAATTGTAACTTTTGAATATTT-GGGGTAAAATAGTAATTTATG-GAAGTTTGAGG-GC
1 AAAATGTAATTTTTGGGCATTTAGGGGTAAAATGGTAATTT-TGAAAAGTTCGAGGTTA
** * * * *
18231692 AAAATGGGATTTTTTGGAAGTTT-GAGGGTAAAAAT-GTAATTTTTGAGAAGTTCGAGGGTA
1 AAAATGTAATTTTTGGGCA-TTTAG-GGGT-AAAATGGTAA-TTTTGAAAAGTTCGAGGTTA
* * * * * * * * *
18231752 AAAATATAATTTTTGAGAAGTTCA--GGTCAAAAT-ATAATTTTTGGAAAGTTCAAGGGTC
1 AAAATGTAATTTTTGGGCA-TTTAGGGGT-AAAATGGTAA-TTTTGAAAAGTTCGAGGTTA
* *
18231810 AAAATGTAA-TTTTGGGAAAGTTTAGGGGTTAAAAT-GTAATTTTTGGAAAGTT
1 AAAATGTAATTTTTGGG-CA-TTTAGGGG-TAAAATGGTAA-TTTTGAAAAGTT
18231862 TAGGGGTCAA
Statistics
Matches: 274, Mismatches: 52, Indels: 33
0.76 0.14 0.09
Matches are distributed among these distances:
56 11 0.04
57 36 0.13
58 101 0.37
59 84 0.31
60 41 0.15
61 1 0.00
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (58 bp):
AAAATGTAATTTTTGGGCATTTAGGGGTAAAATGGTAATTTTGAAAAGTTCGAGGTTA
Found at i:18231583 original size:30 final size:30
Alignment explanation
Indices: 18231479--18231823 Score: 149
Period size: 30 Copynumber: 11.8 Consensus size: 30
18231469 TTTTTGGGCA
* *
18231479 TTCGAGGGTTAAAATGGTAATTTTGAAAAG
1 TTCGAGGGTAAAAATGATAATTTTGAAAAG
* * * * *
18231509 TTTG-GGGTTAAAATTG-TAATTTTTGGACAT
1 TTCGAGGG-TAAAAATGATAA-TTTTGAAAAG
*
18231539 TTAG-GGGT-AAAATGATAATTTTGAAAAG
1 TTCGAGGGTAAAAATGATAATTTTGAAAAG
* * * *
18231567 TTCGAGGTTAAAAATGA-GATCTTTTAGAAG
1 TTCGAGGGTAAAAATGATAAT-TTTGAAAAG
* *
18231597 TT-TAGGGGT-AAAATGGTAATTTTGAAAAG
1 TTCGA-GGGTAAAAATGATAATTTTGAAAAG
* * * *
18231626 TTCAAGGGCAAAATTG-TAACTTTTGAATA-
1 TTCGAGGGTAAAAATGATAA-TTTTGAAAAG
* *
18231655 TTTG-GGGT-AAAAT-AGTAATTTATG-GAAG
1 TTCGAGGGTAAAAATGA-TAATTT-TGAAAAG
* * * *
18231683 TTTGAGGG-CAAAATGGGAT-TTTTTG-GAAG
1 TTCGAGGGTAAAAAT--GATAATTTTGAAAAG
* *
18231712 TTTGAGGGTAAAAATG-TAATTTTTGAGAAG
1 TTCGAGGGTAAAAATGATAA-TTTTGAAAAG
*
18231742 TTCGAGGGTAAAAAT-ATAATTTTTGAGAAG
1 TTCGAGGGTAAAAATGATAA-TTTTGAAAAG
* *
18231772 TTC-A-GGTCAAAAT-ATAATTTTTGGAAAG
1 TTCGAGGGTAAAAATGATAA-TTTTGAAAAG
* *
18231800 TTCAAGGGTCAAAATG-TAATTTTG
1 TTCGAGGGTAAAAATGATAATTTTG
18231824 GGAAAGTTTA
Statistics
Matches: 248, Mismatches: 39, Indels: 57
0.72 0.11 0.17
Matches are distributed among these distances:
27 9 0.04
28 52 0.21
29 73 0.29
30 112 0.45
31 1 0.00
32 1 0.00
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (30 bp):
TTCGAGGGTAAAAATGATAATTTTGAAAAG
Found at i:18231828 original size:30 final size:29
Alignment explanation
Indices: 18231703--18231896 Score: 160
Period size: 30 Copynumber: 6.6 Consensus size: 29
18231693 AAATGGGATT
** * *
18231703 TTTTGG-AAGTTTGAGGGTAAAAATGTAA
1 TTTTGGAAAGTTCAAGGGTCAAAATATAA
* * *
18231731 TTTTTGAGAAGTTCGAGGGTAAAAATATAA
1 TTTTGGA-AAGTTCAAGGGTCAAAATATAA
*
18231761 TTTTTGAGAAGTTC-A-GGTCAAAATATAA
1 TTTTGGA-AAGTTCAAGGGTCAAAATATAA
*
18231789 TTTTTGGAAAGTTCAAGGGTCAAAATGTAA
1 -TTTTGGAAAGTTCAAGGGTCAAAATATAA
* * * *
18231819 TTTTGGGAAAGTTTAGGGGTTAAAATGTAA
1 TTTT-GGAAAGTTCAAGGGTCAAAATATAA
* * *
18231849 TTTTTGGAAAGTTTAGGGGTCAAAATATGA
1 -TTTTGGAAAGTTCAAGGGTCAAAATATAA
*
18231879 TTTTTGAATAGTTCAAGG
1 TTTTGGAA-AGTTCAAGG
18231897 ACCTTTTAGG
Statistics
Matches: 143, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
28 23 0.16
29 19 0.13
30 97 0.68
31 4 0.03
ACGTcount: A:0.36, C:0.04, G:0.25, T:0.36
Consensus pattern (29 bp):
TTTTGGAAAGTTCAAGGGTCAAAATATAA
Found at i:18231831 original size:88 final size:87
Alignment explanation
Indices: 18231436--18231896 Score: 258
Period size: 88 Copynumber: 5.3 Consensus size: 87
18231426 GGGTAAAACG
* * * * ** * *
18231436 GTAATTTTTGGACA-CTCGAGGGCCAAAATGTAATTTTTGGGCA-TTCGAGGGTTAAAATGGTAA
1 GTAATTTTTGGAAAGTTCAAGGGTCAAAATGTAA-TTTTGGAAAGTTCGAGGGTAAAAAT-ATAA
* * *
18231499 -TTTTGAAAAGTTTGGGGTTAAAATT
64 TTTTTGAGAAG-TTGAGGTCAAAA-T
* * * * * *
18231524 GTAATTTTTGGACA-TTTAGGGGT-AAAATGATAATTTTGAAAAGTTCGAGGTTAAAAATGA-GA
1 GTAATTTTTGGAAAGTTCAAGGGTCAAAATG-TAATTTTGGAAAGTTCGAGGGTAAAAAT-ATAA
*
18231586 TCTTTT-AGAAGTTTAGGGGT-AAAAT
64 T-TTTTGAGAAG-TT-GAGGTCAAAAT
* *
18231611 GGTAA-TTTTGAAAAGTTCAAGGG-CAAAATTGTAACTTTT-GAATA-TTTG-GGGT-AAAATAG
1 -GTAATTTTTGGAAAGTTCAAGGGTCAAAA-TGTAA-TTTTGGAA-AGTTCGAGGGTAAAAATA-
* *
18231670 TAATTTATG-GAAGTTTGAGGGCAAAAT
61 TAATTTTTGAGAAG-TTGAGGTCAAAAT
* * ** * *
18231697 GGGATTTTTTGG-AAGTTTGAGGGTAAAAATGTAATTTTTGAGAAGTTCGAGGGTAAAAATATAA
1 -GTAATTTTTGGAAAGTTCAAGGGTCAAAATGTAATTTTGGA-AAGTTCGAGGGTAAAAATATAA
*
18231761 TTTTTGAGAAGTTCAGGTCAAAAT
64 TTTTTGAGAAGTTGAGGTCAAAAT
* * * *
18231785 ATAATTTTTGGAAAGTTCAAGGGTCAAAATGTAATTTTGGGAAAGTT-TAGGGGTTAAAATGTAA
1 GTAATTTTTGGAAAGTTCAAGGGTCAAAATGTAATTTT-GGAAAGTTCGA-GGGTAAAAATATAA
*
18231849 TTTTTG-GAAAGTTTAGGGGTCAAAAT
64 TTTTTGAG-AAG-TT-GAGGTCAAAAT
* *
18231875 ATGATTTTT-GAATAGTTCAAGG
1 GTAATTTTTGGAA-AGTTCAAGG
18231897 ACCTTTTAGG
Statistics
Matches: 296, Mismatches: 47, Indels: 58
0.74 0.12 0.14
Matches are distributed among these distances:
85 8 0.03
86 40 0.14
87 49 0.17
88 140 0.47
89 33 0.11
90 26 0.09
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (87 bp):
GTAATTTTTGGAAAGTTCAAGGGTCAAAATGTAATTTTGGAAAGTTCGAGGGTAAAAATATAATT
TTTGAGAAGTTGAGGTCAAAAT
Found at i:18232989 original size:12 final size:11
Alignment explanation
Indices: 18232944--18232994 Score: 54
Period size: 12 Copynumber: 4.8 Consensus size: 11
18232934 TTCCTTTTTT
*
18232944 TATTTACTAT-
1 TATTTATTATA
18232954 TA-TTATTA-A
1 TATTTATTATA
*
18232963 TATTTCTTATA
1 TATTTATTATA
18232974 TATTTATTACTA
1 TATTTATTA-TA
18232986 TATTTATTA
1 TATTTATTA
18232995 AATGCATGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.21
10 7 0.21
11 9 0.26
12 11 0.32
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTATTATA
Found at i:18233597 original size:12 final size:12
Alignment explanation
Indices: 18233580--18233664 Score: 68
Period size: 12 Copynumber: 7.2 Consensus size: 12
18233570 TTGGACTTTT
18233580 AAATTAAATTTA
1 AAATTAAATTTA
*
18233592 AAATTAAGTTTA
1 AAATTAAATTTA
**
18233604 AAA--CCATTTCA
1 AAATTAAATTT-A
* *
18233615 AATTTAAA-CTA
1 AAATTAAATTTA
*
18233626 AAAATAAATTTA
1 AAATTAAATTTA
*
18233638 AATTTAAATTTA
1 AAATTAAATTTA
*
18233650 AAAATAAATTTA
1 AAATTAAATTTA
18233662 AAA
1 AAA
18233665 CCAATTTAAG
Statistics
Matches: 54, Mismatches: 15, Indels: 8
0.70 0.19 0.10
Matches are distributed among these distances:
10 3 0.06
11 10 0.19
12 40 0.74
13 1 0.02
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (12 bp):
AAATTAAATTTA
Found at i:18233639 original size:6 final size:6
Alignment explanation
Indices: 18233630--18233663 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
18233620 AAACTAAAAA
**
18233630 TAAATT TAAATT TAAATT TAAAAA TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
18233664 ACCAATTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (6 bp):
TAAATT
Found at i:18233651 original size:24 final size:24
Alignment explanation
Indices: 18233584--18233663 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 24
18233574 ACTTTTAAAT
* *
18233584 TAAATTTAAAATTAAGTTT-AAAA
1 TAAATTTAAATTTAAATTTAAAAA
** *
18233607 -CCATTTCAAATTTAAA-CTAAAAA
1 TAAATTT-AAATTTAAATTTAAAAA
18233630 TAAATTTAAATTTAAATTTAAAAA
1 TAAATTTAAATTTAAATTTAAAAA
18233654 TAAATTTAAA
1 TAAATTTAAA
18233664 ACCAATTTAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
22 5 0.11
23 20 0.44
24 20 0.44
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (24 bp):
TAAATTTAAATTTAAATTTAAAAA
Found at i:18234462 original size:209 final size:209
Alignment explanation
Indices: 18234129--18234665 Score: 779
Period size: 209 Copynumber: 2.6 Consensus size: 209
18234119 AGATGACCAT
* * * * * * * *
18234129 TTTATTTCTTCAACCAGCTTCTCTGTATCTTATCGGGAAGCTGAGGTTTGAAGTTTTGCTCACAT
1 TTTATTGCTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTTGCTCACTT
* * * *
18234194 CGAGCTTCGGTTTTATTGATTTGGTCTACTTCTCAGTATCTCATCAGAAAGACGACCGCATCACT
66 TGAGCCTC-GTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGACGACCGCATCACT
* * *
18234259 TGTTTTGATCCATTTTTCTGTGTCTCATCAGGAAGACAGATCTGGTTCACTTCTTTATATCTCAT
130 TGTTTTGATCCACTTCTCTGTGTCTCATCAGGAAGACAGATCTGGTTCACTTCTCTATATCTCAT
18234324 CAGGAAGGTAACCGC
195 CAGGAAGGTAACCGC
* *
18234339 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTCGCTCACTT
1 TTTATTGCTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTTGCTCACTT
*
18234404 TGAGCCTCGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTT
66 TGAGCCTCGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGACGACCGCATCACTT
* * * *
18234469 GTTTTGATTCACTTCTCTGTGTTTCATCAGGAAGACGGATCTGGTTCACTTCTCTGTATCTCATC
131 GTTTTGATCCACTTCTCTGTGTCTCATCAGGAAGACAGATCTGGTTCACTTCTCTATATCTCATC
18234534 AGGAAGGTAACCGC
196 AGGAAGGTAACCGC
** * * * *
18234548 TTTATTGCTTTTACCTGGTTCTCAGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCACTT
1 TTTATTGCTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTTGCTCACTT
* * *
18234613 TGAGCCT-GGTTCATTGATTTGGTTTACTTCTCAGTGTCTCATCAGGAAGACGA
66 TGAGCCTCGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGACGA
18234666 ATCTGGTTCT
Statistics
Matches: 294, Mismatches: 33, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
208 42 0.14
209 191 0.65
210 61 0.21
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (209 bp):
TTTATTGCTTCAACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTTGCTCACTT
TGAGCCTCGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGACGACCGCATCACTT
GTTTTGATCCACTTCTCTGTGTCTCATCAGGAAGACAGATCTGGTTCACTTCTCTATATCTCATC
AGGAAGGTAACCGC
Found at i:18234686 original size:159 final size:159
Alignment explanation
Indices: 18234479--18234778 Score: 483
Period size: 159 Copynumber: 1.9 Consensus size: 159
18234469 GTTTTGATTC
* * *
18234479 ACTTCTCTGTGTTTCATCAGGAAGACGGATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAA
1 ACTTCTCAGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAA
* ** *
18234544 CCGCTTTATTGCTTTTACCTGGTTCTCAGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTC
66 CCGCTTTATTACTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTC
18234609 ACTTTGAGCCTGGTTCATTGATTTGGTTT
131 ACTTTGAGCCTGGTTCATTGATTTGGTTT
* *
18234638 ACTTCTCAGTGTCTCATCAGGAAGACGAATCTGGTTCTCTTCTCTGTATCTTATCAGGAAGGTAA
1 ACTTCTCAGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAA
* * * *
18234703 TCGCTTTATTACTTCGACCTGCTTCTCAGTGTCTTATCAGGAAGCTGGGGTTTGAAGATTTGCTC
66 CCGCTTTATTACTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTC
18234768 ACTTTGAGCCT
131 ACTTTGAGCCT
18234779 TATTTCCTTG
Statistics
Matches: 128, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
159 128 1.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (159 bp):
ACTTCTCAGTGTCTCATCAGGAAGACGAATCTGGTTCACTTCTCTGTATCTCATCAGGAAGGTAA
CCGCTTTATTACTTCGACCTGCTTCTCAGTGTCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTC
ACTTTGAGCCTGGTTCATTGATTTGGTTT
Found at i:18234963 original size:368 final size:369
Alignment explanation
Indices: 18234278--18235031 Score: 956
Period size: 368 Copynumber: 2.0 Consensus size: 369
18234268 CCATTTTTCT
*
18234278 GTGTCTCATCAGGAAGACAGATCTGGTTCACTTCTTTATATCTCATCAGGAAGGTAACCGCTTTA
1 GTGTCTCATCAGGAAGACAGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAACCGCTTTA
*
18234343 TTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTCGCTCACTTTGAG
66 TTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTCGCTCACTTTGAG
* * * *
18234408 CCTCGTTTCATTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTT
131 CCTCATTTCATTGAGTTGGTATACTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTT
** * * * ** * * *
18234473 TGATTCACTTCTCTGTGTTTCATCAGGAAGACGGATCTGGTTCACTTCTCTGTATCTCATCAGGA
196 CAATCCACTTCTCTGTATCTCATCAGGAAGACAAATCTGGTCCACTTCTCAGTATCTCATCAAGA
* * ** * ** *
18234538 AGGTAACCGCTTTATTGCTTTTACCTGGTTCTCAGTGTCTCATCAAGAAGCTGGGGTTCGAAGAT
261 AGCTAACCACTTTATTGCTTCGACATACTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAG-T
* * *
18234603 TT-GCTCACTTTGAGCCT-GGTTCATTGATTTGGTTTACTTCTCA
325 TTCGCTCACATTGAGCCTAGGTTCATTGAGTTGGTATACTTCTCA
* * * *
18234646 GTGTCTCATCAGGAAGAC-GAATCTGGTTCTCTTCTCTGTATCTTATCAGGAAGGTAATCGCTTT
1 GTGTCTCATCAGGAAGACAG-ATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAACCGCTTT
* * *
18234710 ATTACTTCGACCTGCTTCTCAGTGTCTTATCAGGAAGCTGGGGTTTGAAGATTTGCTCACTTTGA
65 ATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTCGCTCACTTTGA
* * ** ** *
18234775 GCCTTATTTCCTTGAGTTGGTATACTTCTTTGTATCTCATCAAGAAGATGGTCGCCTCACTTGTT
130 GCCTCATTTCATTGAGTTGGTATACTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTT
* * * *
18234840 TCAATCCGCTTCTCTGTATCTCATTAGGAAGACAAATTTGGTCCACTTCTCAGTTTCTCATCAAG
195 TCAATCCACTTCTCTGTATCTCATCAGGAAGACAAATCTGGTCCACTTCTCAGTATCTCATCAAG
* * * * * *
18234905 AAGCTGATCATTTTATTGCTTCGATATACTTCTCAGTATCTCATCAGGAAGTTGGGGTTCGAAGT
260 AAGCTAACCACTTTATTGCTTCGACATACTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGT
* * * *
18234970 TTCGCTCGCATTGAGCTTAGTTTCATTGAGTTGGTATACTTCTCT
325 TTCGCTCACATTGAGCCTAGGTTCATTGAGTTGGTATACTTCTCA
* *
18235015 GTATCTCATCAAGAAGA
1 GTGTCTCATCAGGAAGA
18235032 TGACCGCCTC
Statistics
Matches: 326, Mismatches: 57, Indels: 5
0.84 0.15 0.01
Matches are distributed among these distances:
367 4 0.01
368 285 0.87
369 37 0.11
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.37
Consensus pattern (369 bp):
GTGTCTCATCAGGAAGACAGATCTGGTTCACTTCTCTATATCTCATCAGGAAGGTAACCGCTTTA
TTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGATTCGCTCACTTTGAG
CCTCATTTCATTGAGTTGGTATACTTCTCAGTATCTCATCAAGAAGATGACCGCATCACTTGTTT
CAATCCACTTCTCTGTATCTCATCAGGAAGACAAATCTGGTCCACTTCTCAGTATCTCATCAAGA
AGCTAACCACTTTATTGCTTCGACATACTTCTCAGTATCTCATCAAGAAGCTGGGGTTCGAAGTT
TCGCTCACATTGAGCCTAGGTTCATTGAGTTGGTATACTTCTCA
Found at i:18235144 original size:39 final size:39
Alignment explanation
Indices: 18235060--18235148 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 39
18235050 TGGATAATTA
* * * *
18235060 CAATCCGCCCCATGATAGGGGTAAGAGATTGGATGGCTG
1 CAATCTGCCCCATGATAGGGGTAAAAGATCGAATGGCTG
** * * *
18235099 TGATCTGCCCCATGGTGGGGGTAAAAGATCGAATGGTTG
1 CAATCTGCCCCATGATAGGGGTAAAAGATCGAATGGCTG
18235138 CAATCTGCCCC
1 CAATCTGCCCC
18235149 TATCTCGAGG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
CAATCTGCCCCATGATAGGGGTAAAAGATCGAATGGCTG
Found at i:18235200 original size:39 final size:37
Alignment explanation
Indices: 18235152--18235282 Score: 97
Period size: 39 Copynumber: 3.4 Consensus size: 37
18235142 CTGCCCCTAT
*
18235152 CTCGAGGTAAGAGATTAACTGATGGTAATCTGCCTCAAG
1 CTCG-GGTAAAAGATTAACTGATGGTAATCTGCC-CAAG
* *
18235191 CTCAGGGTAAAAGATT---GGATGGCTACAATCTGCCCAGG
1 CTC-GGGTAAAAGATTAACTGATGG-T--AATCTGCCCAAG
* * **
18235229 CTCGAGGTAAGAGATTAACTTATGGTGCTCTGCCCCAAG
1 CTCG-GGTAAAAGATTAACTGATGGTAATCTG-CCCAAG
18235268 CTCGGGGTAAAAGAT
1 CTC-GGGTAAAAGAT
18235283 CGAATGGATG
Statistics
Matches: 72, Mismatches: 10, Indels: 20
0.71 0.10 0.20
Matches are distributed among these distances:
36 5 0.07
37 2 0.03
38 20 0.28
39 38 0.53
40 3 0.04
41 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (37 bp):
CTCGGGTAAAAGATTAACTGATGGTAATCTGCCCAAG
Found at i:18235261 original size:77 final size:78
Alignment explanation
Indices: 18235117--18235289 Score: 233
Period size: 77 Copynumber: 2.2 Consensus size: 78
18235107 CCCATGGTGG
* * *
18235117 GGGTAAAAGATCGAATGGTTGCAATCTGCCCCTATCTCGAGGTAAGAGATTAACTGATGGTAATC
1 GGGTAAAAGATCGAATGGCTACAATCTGCCCCTAGCTCGAGGTAAGAGATTAACTGATGGTAATC
*
18235182 TGCCTCAAGCTCA
66 TGCCCCAAGCTCA
* * * **
18235195 GGGTAAAAGATTGGATGGCTACAATCTG-CCC-AGGCTCGAGGTAAGAGATTAACTTATGGTGCT
1 GGGTAAAAGATCGAATGGCTACAATCTGCCCCTA-GCTCGAGGTAAGAGATTAACTGATGGTAAT
*
18235258 CTGCCCCAAGCTCG
65 CTGCCCCAAGCTCA
18235272 GGGTAAAAGATCGAATGG
1 GGGTAAAAGATCGAATGG
18235290 ATGGTGATTT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
76 1 0.01
77 57 0.70
78 24 0.29
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.24
Consensus pattern (78 bp):
GGGTAAAAGATCGAATGGCTACAATCTGCCCCTAGCTCGAGGTAAGAGATTAACTGATGGTAATC
TGCCCCAAGCTCA
Found at i:18235303 original size:40 final size:40
Alignment explanation
Indices: 18235250--18235329 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
18235240 AGATTAACTT
*
18235250 ATGGTGCTCTGCCCCAAG-CTCGGGGTAAAAGATCGAATGG
1 ATGGTGATCTG-CCCAAGTCTCGGGGTAAAAGATCGAATGG
* * * *
18235290 ATGGTGATTTGCCCAAGTCTTGGGGTGAAAGATCGGATGG
1 ATGGTGATCTGCCCAAGTCTCGGGGTAAAAGATCGAATGG
18235330 TTGCAATCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 6 0.18
40 28 0.82
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (40 bp):
ATGGTGATCTGCCCAAGTCTCGGGGTAAAAGATCGAATGG
Found at i:18235390 original size:118 final size:117
Alignment explanation
Indices: 18235195--18235407 Score: 264
Period size: 118 Copynumber: 1.8 Consensus size: 117
18235185 CTCAAGCTCA
* * * *
18235195 GGGTAAAAGATTGGATGGCTACAATCTGCCCAGGCTCGAGGTAAGAGATTAACTTATGGTGCTCT
1 GGGTAAAAGATCGGATGGCTACAATCTGCCCAGGCTCGAGGTAAGAGATTAACTGATGATGATCT
*
18235260 GCCCCAAGCTCGGGGTAAAAGATCGAATGGATGGTGATTTGCCCAAGTCTTG
66 ACCCCAAGCTCGGGGTAAAAGATCGAATGGATGGTGATTTGCCCAAGTCTTG
* * * * * **
18235312 GGGTGAAAGATCGGATGGTTGCAATCTGTCTCAGGCTCGGGGTAAGAGATTTGCTGATGATGATC
1 GGGTAAAAGATCGGATGGCTACAATCTG-CCCAGGCTCGAGGTAAGAGATTAACTGATGATGATC
* * * * *
18235377 TACCTCAGGCTCGGTGTAAGAGATCGGATGG
65 TACCCCAAGCTCGGGGTAAAAGATCGAATGG
18235408 CTGCAATCTT
Statistics
Matches: 78, Mismatches: 17, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
117 24 0.31
118 54 0.69
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.25
Consensus pattern (117 bp):
GGGTAAAAGATCGGATGGCTACAATCTGCCCAGGCTCGAGGTAAGAGATTAACTGATGATGATCT
ACCCCAAGCTCGGGGTAAAAGATCGAATGGATGGTGATTTGCCCAAGTCTTG
Found at i:18235455 original size:79 final size:78
Alignment explanation
Indices: 18235311--18235483 Score: 199
Period size: 79 Copynumber: 2.2 Consensus size: 78
18235301 CCCAAGTCTT
* * * * *
18235311 GGGGTGAA-AGATCGGATGGTTGCAATCTGTCTCAGGCTCGGGGTAAGAGATTTGCTGATGATGA
1 GGGGT-AAGAGATCGGATGGCTGCAATCTGCCTCAGACTCGAGGTAAAAGATTTGCTGATGATGA
*
18235375 TCTACCTCAG-GCTC
65 TCTACC-CAGAGCAC
* * *
18235389 GGTGTAAGAGATCGGATGGCTGCAATCTTGCCTTAGACTCGAGGTAAAAGA-TTGACTGATGGTG
1 GGGGTAAGAGATCGGATGGCTGCAATC-TGCCTCAGACTCGAGGTAAAAGATTTG-CTGATGATG
*
18235453 ATCTACCCCGAGCAC
64 ATCTACCCAGAGCAC
18235468 GGGGTAAGAGATCGGA
1 GGGGTAAGAGATCGGA
18235484 ATCTTCAATC
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
77 2 0.03
78 27 0.34
79 51 0.64
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (78 bp):
GGGGTAAGAGATCGGATGGCTGCAATCTGCCTCAGACTCGAGGTAAAAGATTTGCTGATGATGAT
CTACCCAGAGCAC
Found at i:18235953 original size:50 final size:50
Alignment explanation
Indices: 18235863--18235990 Score: 118
Period size: 50 Copynumber: 2.5 Consensus size: 50
18235853 ATCGGATTCG
* * * * *
18235863 CCATTGCAGTCTCAATCC-TTCCCATAATATCTTTTAAGGTACC-AGGTTTA
1 CCATTGCGGCCTCAA-CCTTTCCCATCACATCTTTTAAGGTACCGA-GTTCA
* *
18235913 CCGTTGCGGCCTCAACCTTTCCCATCACATCTTCTT-AGGTACCGAGTTCG
1 CCATTGCGGCCTCAACCTTTCCCATCACATCTT-TTAAGGTACCGAGTTCA
* *
18235963 CCATTGCGGTCTCGACCTTTCCCTATCA
1 CCATTGCGGCCTCAACCTTTCCC-ATCA
18235991 AACCTGTAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
49 2 0.03
50 55 0.86
51 7 0.11
ACGTcount: A:0.20, C:0.33, G:0.15, T:0.33
Consensus pattern (50 bp):
CCATTGCGGCCTCAACCTTTCCCATCACATCTTTTAAGGTACCGAGTTCA
Found at i:18236847 original size:10 final size:9
Alignment explanation
Indices: 18236790--18236893 Score: 59
Period size: 9 Copynumber: 10.8 Consensus size: 9
18236780 TTCATGCCTC
18236790 TTTTCTCTTT
1 TTTTCT-TTT
*
18236800 TTTTC-CTT
1 TTTTCTTTT
18236808 TTTTCTTTT
1 TTTTCTTTT
*
18236817 TCCCTTTCCTTT
1 T---TTTCTTTT
*
18236829 TTTCCTTTT
1 TTTTCTTTT
*
18236838 ATTTCTTTT
1 TTTTCTTTT
18236847 TTGTTCTTTTT
1 TT-TTC-TTTT
18236858 TCTTTCTTTT
1 T-TTTCTTTT
*
18236868 CTTTCCTTTT
1 -TTTTCTTTT
*
18236878 TTATT-TATT
1 TT-TTCTTTT
18236887 TTTTCTT
1 TTTTCTT
18236894 CATTGAGTCC
Statistics
Matches: 72, Mismatches: 12, Indels: 21
0.69 0.11 0.20
Matches are distributed among these distances:
8 9 0.12
9 25 0.35
10 20 0.28
11 9 0.12
12 9 0.12
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:18236857 original size:11 final size:11
Alignment explanation
Indices: 18236834--18236893 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
18236824 CCTTTTTTCC
*
18236834 TTTTATTTCTT
1 TTTTCTTTCTT
*
18236845 TTTT-GTTCTT
1 TTTTCTTTCTT
18236855 TTTTCTTTC--
1 TTTTCTTTCTT
18236864 TTTTCTTTCCTT
1 TTTTCTTT-CTT
* *
18236876 TTTTATTTATT
1 TTTTCTTTCTT
18236887 TTTTCTT
1 TTTTCTT
18236894 CATTGAGTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
9 8 0.20
10 10 0.25
11 15 0.38
12 7 0.17
ACGTcount: A:0.05, C:0.13, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTCTTTCTT
Found at i:18236857 original size:28 final size:26
Alignment explanation
Indices: 18236795--18236871 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 26
18236785 GCCTCTTTTC
18236795 TCTTTTTTTCCTTTTTTCTTTTTCCCTT
1 TCTTTTTTTCCTTTTTTCTTTTT--CTT
*
18236823 TCCTTTTTTCCTTTTATTTCTTTTT-TGT
1 TCTTTTTTTCC-TTT-TTTCTTTTTCT-T
*
18236851 TC-TTTTTTCTTTCTTTTCTTT
1 TCTTTTTTTCCTT-TTTTCTTT
18236872 CCTTTTTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
26 9 0.21
27 9 0.21
28 13 0.30
29 3 0.07
30 9 0.21
ACGTcount: A:0.01, C:0.21, G:0.01, T:0.77
Consensus pattern (26 bp):
TCTTTTTTTCCTTTTTTCTTTTTCTT
Found at i:18236863 original size:21 final size:20
Alignment explanation
Indices: 18236821--18236890 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
18236811 TCTTTTTCCC
*
18236821 TTTCCTTTTTTCC--TTTTA
1 TTTCTTTTTTTCCTTTTTTA
* *
18236839 TTTCTTTTTTGTTCTTTTTTC
1 TTTCTTTTTT-TCCTTTTTTA
18236860 TTTCTTTTCTTTCCTTTTTTA
1 TTTCTTTT-TTTCCTTTTTTA
*
18236881 TTTATTTTTT
1 TTTCTTTTTT
18236891 CTTCATTGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
18 9 0.21
19 2 0.05
20 2 0.05
21 27 0.64
22 2 0.05
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.79
Consensus pattern (20 bp):
TTTCTTTTTTTCCTTTTTTA
Found at i:18241949 original size:29 final size:30
Alignment explanation
Indices: 18241831--18242089 Score: 132
Period size: 29 Copynumber: 8.9 Consensus size: 30
18241821 TTTTGGATGC
*
18241831 TCGGGGGTAAAATGGTAATTTTT--TAAGAT
1 TCGGGGGTAAAATGGTAATTTTTGGAAAG-T
* * *
18241860 TCGGGGGTAAAACGGTAATTTTTAGATA-T
1 TCGGGGGTAAAATGGTAATTTTTGGAAAGT
* **
18241889 T-GGAGGGCAAAAAT-GTAATTTTTGGGTA-T
1 TCGG-GGG-TAAAATGGTAATTTTTGGAAAGT
18241918 TCGGGGGTAAAATGGT-ATTTTTGGAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGAAAGT
** * *
18241947 TC-GGGGTCAAAATTATAATATTTGGACA--
1 TCGGGGGT-AAAATGGTAATTTTTGGAAAGT
* *
18241975 TCTAGGGGTAAAATGATAA-TTTTGGAAAGT
1 TC-GGGGGTAAAATGGTAATTTTTGGAAAGT
* * ** * *
18242005 TCAGGGTTAAAAAAG-AGATCTTTTAG-TAGT
1 TCGGGGGTAAAATGGTA-AT-TTTTGGAAAGT
* *
18242035 TTGGGGGTAAAATGGTAA-TTTTGAAAAGT
1 TCGGGGGTAAAATGGTAATTTTTGGAAAGT
* * **
18242064 TCGGGTGCAAAATTTTAATTTTTGGA
1 TCGGGGGTAAAATGGTAATTTTTGGA
18242090 TATCTAGGAT
Statistics
Matches: 174, Mismatches: 37, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
28 35 0.20
29 90 0.52
30 42 0.24
31 7 0.04
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (30 bp):
TCGGGGGTAAAATGGTAATTTTTGGAAAGT
Found at i:18241958 original size:58 final size:58
Alignment explanation
Indices: 18241858--18242088 Score: 177
Period size: 58 Copynumber: 4.0 Consensus size: 58
18241848 ATTTTTTAAG
* * * *
18241858 ATTCGGGGGTAAAACGGTAATTTTTAGATA-TT-GGAGGGCAAAAATGTAATTTTTGGGT
1 ATTCGGGGGTAAAATGGTAA-TTTTGGAAAGTTCGG-GGTCAAAAATGTAATTTTTGGGT
* * * * **
18241916 ATTCGGGGGTAAAATGGTATTTTTGGAAAGTTCGGGGTCAAAATTATAATATTTGGAC
1 ATTCGGGGGTAAAATGGTAATTTTGGAAAGTTCGGGGTCAAAAATGTAATTTTTGGGT
* * * * * *
18241974 A-TCTAGGGGTAAAATGATAATTTTGGAAAGTTCAGGGTTAAAAAAG-AGATCTTTT-AGT
1 ATTC-GGGGGTAAAATGGTAATTTTGGAAAGTTCGGGGTCAAAAATGTA-AT-TTTTGGGT
* * * *
18242032 AGTTTGGGGGTAAAATGGTAATTTTGAAAAGTTC-GGGTGCAAAATTTTAATTTTTGG
1 A-TTCGGGGGTAAAATGGTAATTTTGGAAAGTTCGGGGT-CAAAAATGTAATTTTTGG
18242089 ATATCTAGGA
Statistics
Matches: 132, Mismatches: 31, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
57 10 0.08
58 83 0.63
59 37 0.28
60 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (58 bp):
ATTCGGGGGTAAAATGGTAATTTTGGAAAGTTCGGGGTCAAAAATGTAATTTTTGGGT
Found at i:18242170 original size:29 final size:29
Alignment explanation
Indices: 18241819--18242205 Score: 130
Period size: 29 Copynumber: 13.3 Consensus size: 29
18241809 CAAAAATACG
* * *
18241819 ATTTTTGGATGCTCGGGGGT-AAAATGGTA
1 ATTTTTGGAAGTTCGAGGGTAAAAAT-GTA
* * **
18241848 ATTTTT-TAAGATTCGGGGGTAAAACGGTA
1 ATTTTTGGAAG-TTCGAGGGTAAAAATGTA
* * *
18241877 ATTTTTAGATA-TTGGAGGGCAAAAATGTA
1 ATTTTTGGA-AGTTCGAGGGTAAAAATGTA
* *
18241906 ATTTTTGGGTA-TTCGGGGGT-AAAATGGT-
1 ATTTTT-GGAAGTTCGAGGGTAAAAAT-GTA
* *
18241934 ATTTTTGGAAAGTTCG-GGGTCAAAATTATA
1 ATTTTTGG-AAGTTCGAGGGT-AAAAATGTA
* *
18241964 ATATTTGGACA--TCTAGGGGT-AAAATGATA
1 ATTTTTGGA-AGTTCGA-GGGTAAAAATG-TA
*
18241993 A-TTTTGGAAAGTTC-AGGGTTAAAAAAG-A
1 ATTTTTGG-AAGTTCGAGGG-TAAAAATGTA
* * * *
18242021 GATCTTTTAGTAGTTTGGGGGT-AAAATGGTA
1 -AT-TTTTGGAAGTTCGAGGGTAAAAAT-GTA
* * * *
18242052 A-TTTTGAAAAGTTCG-GGTGCAAAATTTTA
1 ATTTTTG-GAAGTTCGAGG-GTAAAAATGTA
* * *
18242081 ATTTTTGG-A-TATCTAGGAT-AAAATAATA
1 ATTTTTGGAAGT-TCGAGGGTAAAAAT-GTA
* * * **
18242109 ATTTATGGAAGTTCAAGGGCAAAAATGGG
1 ATTTTTGGAAGTTCGAGGGTAAAAATGTA
18242138 ATTTTTGGAAGTTCGAGGGTAAAAATGTA
1 ATTTTTGGAAGTTCGAGGGTAAAAATGTA
** *
18242167 ATTTCTAAGAAGTTCGAGGGTAAAAATATA
1 ATTT-TTGGAAGTTCGAGGGTAAAAATGTA
18242197 A-TTTTGGAA
1 ATTTTTGGAA
18242206 CAGTTCAGGG
Statistics
Matches: 261, Mismatches: 60, Indels: 75
0.66 0.15 0.19
Matches are distributed among these distances:
27 7 0.03
28 56 0.21
29 115 0.44
30 73 0.28
31 10 0.04
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.34
Consensus pattern (29 bp):
ATTTTTGGAAGTTCGAGGGTAAAAATGTA
Found at i:18242211 original size:30 final size:29
Alignment explanation
Indices: 18241936--18242215 Score: 88
Period size: 30 Copynumber: 9.6 Consensus size: 29
18241926 AAAATGGTAT
*
18241936 TTTTGGAAAGTTCG-GGGTCAAAATTATAA
1 TTTTGGAAAGTTCGAGGGT-AAAAATATAA
* *
18241965 TATTTGGACA--TCTAGGGGT-AAAATGATAA
1 T-TTTGGAAAGTTCGA-GGGTAAAAAT-ATAA
*
18241994 TTTTGGAAAGTTC-AGGGTTAAAAA-AGAGA
1 TTTTGGAAAGTTCGAGGG-TAAAAATATA-A
* * * * *
18242023 TCTTT-TAGTAGTTTGGGGGT-AAAATGGTAA
1 T-TTTGGA-AAGTTCGAGGGTAAAAAT-ATAA
* * * *
18242053 TTTTGAAAAGTTCG-GGTGCAAAATTTTAA
1 TTTTGGAAAGTTCGAGG-GTAAAAATATAA
* * *
18242082 TTTTTGGATA--TCTAGGAT-AAAATAATAA
1 -TTTTGGAAAGTTCGAGGGTAAAAAT-ATAA
* * ** *
18242110 TTTATGG-AAGTTCAAGGGCAAAAATGGGAT
1 TTT-TGGAAAGTTCGAGGGTAAAAAT-ATAA
*
18242140 TTTTGG-AAGTTCGAGGGTAAAAATGTAA
1 TTTTGGAAAGTTCGAGGGTAAAAATATAA
*
18242168 TTTCT-AAGAAGTTCGAGGGTAAAAATATAA
1 TTT-TGGA-AAGTTCGAGGGTAAAAATATAA
18242198 TTTTGGAACAGTTC-AGGG
1 TTTTGGAA-AGTTCGAGGG
18242216 ACCTTCTAGG
Statistics
Matches: 183, Mismatches: 39, Indels: 58
0.65 0.14 0.21
Matches are distributed among these distances:
27 8 0.04
28 33 0.18
29 60 0.33
30 78 0.43
31 4 0.02
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (29 bp):
TTTTGGAAAGTTCGAGGGTAAAAATATAA
Found at i:18245105 original size:134 final size:134
Alignment explanation
Indices: 18244865--18245265 Score: 777
Period size: 134 Copynumber: 3.0 Consensus size: 134
18244855 CTTGGAAAAG
18244865 TGTCAAACAGACACTTGTAGCTTCTTCCACTATGGAGGCAGAGTTTGTAGCATGCTATGAGGCAT
1 TGTCAAACAGACACTTGTAGCTTCTTCCACTATGGAGGCAGAGTTTGTAGCATGCTATGAGGCAT
18244930 CAAACCATGGAATATGGTTGTAAAACTGTCACTGGGTTTTGCATTTTGGAGAATGTAGAAAGACC
66 CAAACCATGGAATATGGTTGTAAAACTGTCACTGGGTTTTGCATTTTGGAGAATGTAGAAAGACC
18244995 ACTC
131 ACTC
* *
18244999 TGTCAAACAGACACTTGTAGCTTCTTCCATTATGGAGGCAAAGTTTGTAGCATGCTATGAGGCAT
1 TGTCAAACAGACACTTGTAGCTTCTTCCACTATGGAGGCAGAGTTTGTAGCATGCTATGAGGCAT
18245064 CAAACCATGGAATATGGTTGTAAAACTGTCACTGGGTTTTGCATTTTGGAGAATGTAGAAAGACC
66 CAAACCATGGAATATGGTTGTAAAACTGTCACTGGGTTTTGCATTTTGGAGAATGTAGAAAGACC
18245129 ACTC
131 ACTC
18245133 TGTCAAACAGACACTTGTAGCTTCTTCCACTATGGAGGCAGAGTTTGTAGCATGCTATG-GGCAT
1 TGTCAAACAGACACTTGTAGCTTCTTCCACTATGGAGGCAGAGTTTGTAGCATGCTATGAGGCAT
18245197 CAAACCATGGAATATGGTTGTAAAACTGTCACTGGGTTTTGCATTTTGGAGAATGTAGAAAGACC
66 CAAACCATGGAATATGGTTGTAAAACTGTCACTGGGTTTTGCATTTTGGAGAATGTAGAAAGACC
18245262 ACTC
131 ACTC
18245266 AAATTATTTT
Statistics
Matches: 263, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
133 74 0.28
134 189 0.72
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (134 bp):
TGTCAAACAGACACTTGTAGCTTCTTCCACTATGGAGGCAGAGTTTGTAGCATGCTATGAGGCAT
CAAACCATGGAATATGGTTGTAAAACTGTCACTGGGTTTTGCATTTTGGAGAATGTAGAAAGACC
ACTC
Found at i:18247859 original size:19 final size:19
Alignment explanation
Indices: 18247819--18247858 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
18247809 TTTAATTGAT
**
18247819 AATAATAAAACAAGTATAA
1 AATAATAAAACAAACATAA
18247838 AATAATAAAAACAAACATAA
1 AATAAT-AAAACAAACATAA
18247858 A
1 A
18247859 TGGAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.17
Consensus pattern (19 bp):
AATAATAAAACAAACATAA
Found at i:18253495 original size:18 final size:17
Alignment explanation
Indices: 18253472--18253505 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
18253462 GCCACTATCA
18253472 AATAGTATATAATATATT
1 AATAGTATAT-ATATATT
*
18253490 AATAGTTTATATATAT
1 AATAGTATATATATAT
18253506 ACCGATGATT
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:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
AATAGTATATATATATT
Found at i:18253637 original size:116 final size:114
Alignment explanation
Indices: 18253487--18253704 Score: 294
Period size: 116 Copynumber: 1.9 Consensus size: 114
18253477 TATATAATAT
* *
18253487 ATTAATAGTTTATATATATACCGATGATTAAACATTATAATATCATGTAATAATATATCTTTTAT
1 ATTAATAGTTTATATATACACCGATGATTAAACATTATAATATCATATAATAATATATCTTTTAT
**
18253552 AATAATTTATAA-AGTAATAATAATTATATATAATAGTAGTACATTATAC
66 AATAATCCATAATA-TAATAATAATTATATATAATAGTAGTACATTATAC
* * * * *
18253601 ATTAATAGTTTATATATACGCATCTATGATTAAACATTGTAATATCATATCATATTATATCTTTT
1 ATTAATAGTTTATATATA--CACCGATGATTAAACATTATAATATCATATAATAATATATCTTTT
* * *
18253666 ATTATAATCCATAATATAATTATAGTTATATATAATAGT
64 ATAATAATCCATAATATAATAATAATTATATATAATAGT
18253705 TTTTTTTACT
Statistics
Matches: 89, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
114 18 0.20
116 70 0.79
117 1 0.01
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (114 bp):
ATTAATAGTTTATATATACACCGATGATTAAACATTATAATATCATATAATAATATATCTTTTAT
AATAATCCATAATATAATAATAATTATATATAATAGTAGTACATTATAC
Found at i:18254403 original size:14 final size:14
Alignment explanation
Indices: 18254384--18254428 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
18254374 TTCTACAAAA
18254384 TTAATTTTACTTTT
1 TTAATTTTACTTTT
*
18254398 TTAATTATGA-TTTT
1 TTAATT-TTACTTTT
18254412 TT-ATTTT-CTTTT
1 TTAATTTTACTTTT
18254424 TTAAT
1 TTAAT
18254429 CCTAAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
12 7 0.27
13 5 0.19
14 12 0.46
15 2 0.08
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (14 bp):
TTAATTTTACTTTT
Found at i:18257533 original size:12 final size:12
Alignment explanation
Indices: 18257516--18257541 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18257506 CCACTAACTC
18257516 TTCCTTGTATAG
1 TTCCTTGTATAG
18257528 TTCCTTGTATAG
1 TTCCTTGTATAG
18257540 TT
1 TT
18257542 GGTTCCAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (12 bp):
TTCCTTGTATAG
Done.