Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 56 of 125
Found at i:17196686 original size:68 final size:69
Alignment explanation
Indices: 17196556--17196712 Score: 182
Period size: 68 Copynumber: 2.3 Consensus size: 69
17196546 TTTATCAAGA
* *
17196556 TAAATATTAGATTAAAT-TTAAGATTA-CA-TTT--TATTAAATTAATAGAATATTTATCTACAA
1 TAAAT-TTA-ATTTAATATTAAGATTATCACTTTAATATTAAATTAATAAAATATTTAT-T--AA
*
17196616 GATAAACAT
61 GATAAATAT
*
17196625 TAAATTTAATTTAATATTAAGATTATCACTTTAATATTAAATTAATAAAATA-CTATTAAGATAA
1 TAAATTTAATTTAATATTAAGATTATCACTTTAATATTAAATTAATAAAATATTTATTAAGATAA
17196689 ATAT
66 ATAT
*
17196693 TTAATTTAATTTAATATTAA
1 TAAATTTAATTTAATATTAA
17196713 ATCTATTAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
67 6 0.08
68 41 0.53
69 7 0.09
70 4 0.05
71 3 0.04
72 17 0.22
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (69 bp):
TAAATTTAATTTAATATTAAGATTATCACTTTAATATTAAATTAATAAAATATTTATTAAGATAA
ATAT
Found at i:17196728 original size:68 final size:71
Alignment explanation
Indices: 17196587--17196731 Score: 172
Period size: 68 Copynumber: 2.1 Consensus size: 71
17196577 GATTACATTT
* *
17196587 TATTAAATTAATAGAATATTTATCTACAAGATAAACATTAAATTTAATTTAATATTAAGATTATC
1 TATTAAATTAATAAAATATCTATCTA-AAGATAAACATTAAATTTAATTTAATATTAAGATTATC
***
17196652 ACTTTAA
65 AAAATAA
* * *
17196659 TATTAAATTAATAAAATA-CTAT-T-AAGATAAATATTTAATTTAATTTAATATTAA-ATCTATT
1 TATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTTAATTTAATATTAAGAT-TATC
17196720 AAAATAA
65 AAAATAA
17196727 TATTA
1 TATTA
17196732 TTTTTGGAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
67 2 0.03
68 41 0.64
70 1 0.02
71 3 0.05
72 17 0.27
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (71 bp):
TATTAAATTAATAAAATATCTATCTAAAGATAAACATTAAATTTAATTTAATATTAAGATTATCA
AAATAA
Found at i:17202917 original size:20 final size:21
Alignment explanation
Indices: 17202880--17202923 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
17202870 CCAATTGTAA
*
17202880 TATATTTAATATTGTTAACTT
1 TATATTTAATATTGTTAAATT
17202901 TATATTT-ATA-TGTTTAAATT
1 TATATTTAATATTG-TTAAATT
17202921 TAT
1 TAT
17202924 TCTAATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (21 bp):
TATATTTAATATTGTTAAATT
Found at i:17208296 original size:2 final size:2
Alignment explanation
Indices: 17208289--17208315 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
17208279 GTTCTAGTCC
17208289 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
17208316 GTCTGTTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17211367 original size:13 final size:13
Alignment explanation
Indices: 17211349--17211375 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17211339 CATTTTCCTG
17211349 TTCCTTCATTTTC
1 TTCCTTCATTTTC
17211362 TTCCTTCATTTTC
1 TTCCTTCATTTTC
17211375 T
1 T
17211376 ATGATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.30, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCCTTCATTTTC
Found at i:17212130 original size:3 final size:3
Alignment explanation
Indices: 17212122--17212157 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
17212112 CATTTGTTAT
* *
17212122 TTC TTC TTC TTC TTC TTC TTT TTC TTT TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
17212158 CCCCTTAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (3 bp):
TTC
Found at i:17213798 original size:14 final size:15
Alignment explanation
Indices: 17213771--17213808 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
17213761 ATACCTATGT
17213771 TTTTTTGTGCTTTAAA
1 TTTTTT-TGCTTTAAA
17213787 TTTTTTTG-TTTAAA
1 TTTTTTTGCTTTAAA
17213801 TTGTTTTT
1 TT-TTTTT
17213809 ATTCTTCAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 7 0.33
16 6 0.29
ACGTcount: A:0.16, C:0.03, G:0.11, T:0.71
Consensus pattern (15 bp):
TTTTTTTGCTTTAAA
Found at i:17217391 original size:22 final size:21
Alignment explanation
Indices: 17217365--17217411 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
17217355 TTTCTATTTC
17217365 TTTTAATTCTATCTACTTTTAT
1 TTTTAATTCTAT-TACTTTTAT
* *
17217387 TTTTAATTCTGTTTCTTTTAT
1 TTTTAATTCTATTACTTTTAT
17217408 TTTT
1 TTTT
17217412 CCTTAGATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTAATTCTATTACTTTTAT
Found at i:17218972 original size:21 final size:21
Alignment explanation
Indices: 17218948--17218997 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
17218938 GAATTTCAGC
*
17218948 AGCAATCTATAGATTTTCAAA
1 AGCAAACTATAGATTTTCAAA
* *
17218969 AGCAAACTGTGGATTTTCAAA
1 AGCAAACTATAGATTTTCAAA
*
17218990 AGAAAACT
1 AGCAAACT
17218998 GAGACATCTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (21 bp):
AGCAAACTATAGATTTTCAAA
Found at i:17218998 original size:21 final size:21
Alignment explanation
Indices: 17218959--17218998 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
17218949 GCAATCTATA
*
17218959 GATTTTCAAAAGCAAACTGTG
1 GATTTTCAAAAGAAAACTGTG
17218980 GATTTTCAAAAGAAAACTG
1 GATTTTCAAAAGAAAACTG
17218999 AGACATCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
GATTTTCAAAAGAAAACTGTG
Found at i:17223016 original size:6 final size:6
Alignment explanation
Indices: 17223005--17223030 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
17222995 GGCAACCCAA
17223005 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
17223031 CTATCTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:17224025 original size:106 final size:103
Alignment explanation
Indices: 17223855--17224051 Score: 229
Period size: 106 Copynumber: 1.9 Consensus size: 103
17223845 ATGTGTTAGA
* * * *
17223855 CTGAGTAACCGGAGTGGAGTGCTTAGTTGTCATTTCACTTCGCGTCAAAAAGGCTAACACATTCT
1 CTGAGTAACCGGAGTGAAGTACTTAGGTGTCATTTCACTTCGCGTCAAAAAGGCCAACACATTCT
17223920 ACAAAAAAAAAAGAGAAGAAAAAAATTGAGAGCATGTTGGG
66 -CAAAAAAAAAA-A-AAGAAAAAAATTGAGAGCATGTTGGG
* * *
17223961 CTGAGTAACCGG-GATGAAGTACTTGGGTGTCATTTCATTTCGCGTC-AAAAGGTCCAA-AGTAT
1 CTGAGTAACCGGAG-TGAAGTACTTAGGTGTCATTTCACTTCGCGTCAAAAAGG-CCAACA-CAT
* * *
17224023 TCTTAAAGAAAAAAAAAGGAAAAAATTGA
63 TCTCAAAAAAAAAAAAAGAAAAAAATTGA
17224052 CAAAATAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
103 13 0.17
104 1 0.01
105 17 0.22
106 47 0.60
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (103 bp):
CTGAGTAACCGGAGTGAAGTACTTAGGTGTCATTTCACTTCGCGTCAAAAAGGCCAACACATTCT
CAAAAAAAAAAAAAGAAAAAAATTGAGAGCATGTTGGG
Found at i:17224633 original size:19 final size:19
Alignment explanation
Indices: 17224611--17224655 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
17224601 TTATATTAGG
17224611 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
17224630 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
17224649 ATTTAAT
1 ATTTAAT
17224656 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:17226788 original size:22 final size:21
Alignment explanation
Indices: 17226754--17226798 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
17226744 GTCCATTAGG
17226754 TTAGTTAAGTTAATAAATTTAA
1 TTAGTTAAGTTAAT-AATTTAA
*
17226776 TTAGTTTAA-TTAATATTTTAA
1 TTAG-TTAAGTTAATAATTTAA
17226797 TT
1 TT
17226799 TGAATTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 9 0.43
23 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
TTAGTTAAGTTAATAATTTAA
Found at i:17228885 original size:25 final size:25
Alignment explanation
Indices: 17228826--17228885 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 25
17228816 ATTTATTTTA
**
17228826 AACATAAAACTTTTTAATTTAATGG
1 AACATAAAACTTTTTAAAATAATGG
* *
17228851 AAAATAAAAACTTTTTAAAAATAAT-T
1 AACAT-AAAACTTTTT-AAAATAATGG
17228877 AACATAAAA
1 AACATAAAA
17228886 AATACACTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
25 8 0.29
26 14 0.50
27 6 0.21
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (25 bp):
AACATAAAACTTTTTAAAATAATGG
Found at i:17231613 original size:29 final size:28
Alignment explanation
Indices: 17231574--17231966 Score: 220
Period size: 29 Copynumber: 13.4 Consensus size: 28
17231564 AATTTTCTAG
*
17231574 AAATTATATTTTGACCCCAAACTTTTTCA
1 AAATTACATTTTGACCCCAAAC-TTTTCA
*
17231603 AAATTACATTTTGACCCCTAAGCTTTTCCA
1 AAATTACATTTTGACCCC-AAACTTTT-CA
** * *
17231633 AAATTACATTTTGAACCTTAAAATTTTTTA
1 AAATTACATTTTG-ACC-CCAAACTTTTCA
*
17231663 AAATTACATTTTGACCCTCAAACTTCTCAAA
1 AAATTACATTTTGACCC-CAAACTTTTC--A
* * *
17231694 AAAATACCTTTTTACCCCTAAACTTCTT-A
1 AAATTACATTTTGACCCC-AAACTT-TTCA
* ***
17231723 AAATTACATTTTTGCCCCCAAACTTCAAA
1 AAATTACA-TTTTGACCCCAAACTTTTCA
* *
17231752 AAATCACATTTTGACCCCAAACTTCTTAA
1 AAATTACATTTTGACCCCAAACTT-TTCA
* *
17231781 AAATTATATTTTTG-CCCTTAAAC-TTTCA
1 AAATTACA-TTTTGACCC-CAAACTTTTCA
* * * *
17231809 GAAATCATATTTTGACCCTCAAAATTTTAA
1 -AAATTACATTTTGACCC-CAAACTTTTCA
* * *
17231839 AAATCACATTTTGACCCCTGAAC-TTCCAA
1 AAATTACATTTTGACCCC-AAACTTTTC-A
* * * * * *
17231868 AAATCATATTTTTATCCCGAACTTTCCTA
1 AAATTACATTTTGACCCCAAACTTTTC-A
* * *
17231897 AAATGACATTTTTACCCCTAAAACTTTCCA
1 AAATTACATTTTGACCCC--AAACTTTTCA
* *
17231927 AAATTACATTTTAACCCCAAACTCTTCGA
1 AAATTACATTTTGACCCCAAACTTTTC-A
*
17231956 AACTT-CATTTT
1 AAATTACATTTT
17231967 AACATTTTTT
Statistics
Matches: 289, Mismatches: 52, Indels: 47
0.74 0.13 0.12
Matches are distributed among these distances:
28 43 0.15
29 136 0.47
30 71 0.25
31 38 0.13
32 1 0.00
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.37
Consensus pattern (28 bp):
AAATTACATTTTGACCCCAAACTTTTCA
Found at i:17231784 original size:58 final size:57
Alignment explanation
Indices: 17231581--17231949 Score: 282
Period size: 58 Copynumber: 6.3 Consensus size: 57
17231571 TAGAAATTAT
* * * *
17231581 ATTTTGACCCCAAACTTTTTCAAAATTACATTTTGACCCCTAAGCTTTTCCAAAATTAC
1 ATTTTGACCCCAAACTTCTT-AAAATTACATTTTGACCCCTAAAC-TTTCAAAAATCAC
** * *
17231640 ATTTTGAACCTTAAAATTTTTTAAAATTACATTTTGA-CCCTCAAACTTCTCAAAAAAAT-AC
1 ATTTTG-ACC-CCAAACTTCTTAAAATTACATTTTGACCCCT-AAACTT-TC--AAAAATCAC
* * *
17231701 CTTTTTACCCCTAAACTTCTTAAAATTACATTTTTG-CCCCCAAAC-TTCAAAAAATCAC
1 ATTTTGACCCC-AAACTTCTTAAAATTACA-TTTTGACCCCTAAACTTTC-AAAAATCAC
* * * *
17231759 ATTTTGACCCCAAACTTCTTAAAAATTATATTTTTG-CCCTTAAACTTTCAGAAATCAT
1 ATTTTGACCCCAAACTTCTT-AAAATTACA-TTTTGACCCCTAAACTTTCAAAAATCAC
* * * * *
17231817 ATTTTGACCCTCAAAATT-TTAAAAATCACATTTTGACCCCTGAACTTCCAAAAATCAT
1 ATTTTGACCC-CAAACTTCTT-AAAATTACATTTTGACCCCTAAACTTTCAAAAATCAC
* * * * * * * *
17231875 ATTTTTATCCCGAACTTTCCTAAAATGACATTTTTACCCCTAAAACTTTCCAAAATTAC
1 ATTTTGACCCCAAAC-TTCTTAAAATTACATTTTGACCCCT-AAACTTTCAAAAATCAC
*
17231934 ATTTTAACCCCAAACT
1 ATTTTGACCCCAAACT
17231950 CTTCGAAACT
Statistics
Matches: 252, Mismatches: 41, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
57 24 0.10
58 108 0.43
59 47 0.19
60 46 0.18
61 22 0.09
62 5 0.02
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (57 bp):
ATTTTGACCCCAAACTTCTTAAAATTACATTTTGACCCCTAAACTTTCAAAAATCAC
Found at i:17231922 original size:31 final size:30
Alignment explanation
Indices: 17231887--17231944 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
17231877 TTTTATCCCG
*
17231887 AACTTTCCTAAAATGACATTTTTACCCCTAA
1 AACTTTCC-AAAATGACATTTTAACCCCTAA
*
17231918 AACTTTCCAAAATTACATTTTAACCCC
1 AACTTTCCAAAATGACATTTTAACCCC
17231945 AAACTCTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.36, C:0.28, G:0.02, T:0.34
Consensus pattern (30 bp):
AACTTTCCAAAATGACATTTTAACCCCTAA
Found at i:17232034 original size:14 final size:14
Alignment explanation
Indices: 17232015--17232072 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
17232005 TTTATTTTGA
17232015 TTTATTATTCGTAT
1 TTTATTATTCGTAT
* *
17232029 TTTATTTTTCTTAT
1 TTTATTATTCGTAT
*
17232043 ATTTATT-TTCGTACA
1 -TTTATTATTCGTA-T
17232058 TTTATTAATTCGTAT
1 TTTATT-ATTCGTAT
17232073 AATTGTTCGT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 23 0.66
15 6 0.17
16 6 0.17
ACGTcount: A:0.22, C:0.09, G:0.05, T:0.64
Consensus pattern (14 bp):
TTTATTATTCGTAT
Found at i:17234301 original size:29 final size:30
Alignment explanation
Indices: 17234227--17234308 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
17234217 AAATTTTATA
* *
17234227 TTAATAAATATAAAATTATACTTTGATCCTC
1 TTAA-AAATATAAAATTATAATTTAATCCTC
*
17234258 TTAAAAATATAAAAATT-TAATTTAAT-CTT
1 TTAAAAATAT-AAAATTATAATTTAATCCTC
*
17234287 TTAAAAATTATAAAAATATAAT
1 TTAAAAA-TATAAAATTATAAT
17234309 ATATTAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
29 14 0.32
30 20 0.45
31 10 0.23
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAATATAAAATTATAATTTAATCCTC
Found at i:17243008 original size:15 final size:15
Alignment explanation
Indices: 17242982--17243020 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
17242972 TTTTAAAATT
17242982 ATAAAAATATTCAAAA
1 ATAAAAA-ATTCAAAA
17242998 ATAAAAAATTCAAAA
1 ATAAAAAATTCAAAA
*
17243013 TTAAAAAA
1 ATAAAAAA
17243021 ATTAGCATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (15 bp):
ATAAAAAATTCAAAA
Found at i:17243021 original size:16 final size:16
Alignment explanation
Indices: 17242976--17243023 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
17242966 AAATAATTTT
17242976 AAAATTATAAAAATATTC
1 AAAATTA-AAAAA-ATTC
*
17242994 AAAAAT-AAAAAATTC
1 AAAATTAAAAAAATTC
17243009 AAAATTAAAAAAATT
1 AAAATTAAAAAAATT
17243024 AGCATAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 9 0.33
16 13 0.48
18 5 0.19
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATTAAAAAAATTC
Found at i:17251071 original size:30 final size:30
Alignment explanation
Indices: 17251035--17251392 Score: 264
Period size: 30 Copynumber: 12.1 Consensus size: 30
17251025 AGAATTTGGT
*
17251035 GTTAAAACGTAATTTTGGAAGAA-TTTAAGG
1 GTTAAAATGTAATTTTGGAA-AAGTTTAAGG
* * ** *
17251065 GTTAAAAGGTATTTTTATAAAAGTTTGA-G
1 GTTAAAATGTAATTTTGGAAAAGTTTAAGG
* ** *
17251094 GTCAAAATGGGATTTTGG-GAAGATTT-AGG
1 GTTAAAATGTAATTTTGGAAAAG-TTTAAGG
** * * **
17251123 GTTAAAACATGATTTTAGAAAAGTTTGGGG
1 GTTAAAATGTAATTTTGGAAAAGTTTAAGG
* *
17251153 GTTAAAATGTAATTTTAGAGAAGTTTAA-G
1 GTTAAAATGTAATTTTGGAAAAGTTTAAGG
* * *
17251182 GTCAAAATGTAATATTT-GAAAACTTTCAGG
1 GTTAAAATGTAAT-TTTGGAAAAGTTTAAGG
* *
17251212 GTTAAAATGTAATTTTGGAGAAGTTTAGGG
1 GTTAAAATGTAATTTTGGAAAAGTTTAAGG
*
17251242 GTTAAAATGCAATTTTGGAAAAGTTTAAGG
1 GTTAAAATGTAATTTTGGAAAAGTTTAAGG
** *
17251272 GTTAAAATG-ATATTTTGGAAAAGTTTGTGA
1 GTTAAAATGTA-ATTTTGGAAAAGTTTAAGG
* * * * *
17251302 ATGAAAATGTGATTTTGGAAAGGTTTGA-G
1 GTTAAAATGTAATTTTGGAAAAGTTTAAGG
* * *
17251331 GTCAAAATGAAATTTTGGAAAAGTTTATGG
1 GTTAAAATGTAATTTTGGAAAAGTTTAAGG
* * * * *
17251361 GTGAAAATATGATTTTGGAAAGGTTTGAGG
1 GTTAAAATGTAATTTTGGAAAAGTTTAAGG
17251391 GT
1 GT
17251393 CAAGATATAG
Statistics
Matches: 256, Mismatches: 61, Indels: 22
0.76 0.18 0.06
Matches are distributed among these distances:
28 4 0.02
29 80 0.31
30 172 0.67
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (30 bp):
GTTAAAATGTAATTTTGGAAAAGTTTAAGG
Found at i:17251160 original size:59 final size:56
Alignment explanation
Indices: 17251010--17251392 Score: 176
Period size: 59 Copynumber: 6.5 Consensus size: 56
17251000 AAATGGGGTC
* *
17251010 AAAATGAAGTTTTAGAGAA-TTT-GGTGTTAAAACGTAATTTT-GGAAGAATTTAAGGGTT-
1 AAAATG-A-TTTTAGAAAAGTTTAGG-GTTAAAATGTAATTTTGGGAAG--TTT-AGGGTTA
* * * **
17251068 AAAAGGTATTTTTATAAAAGTTT-GAGGTCAAAATGGGATTTTGGGAAGATTTAGGGTTA
1 AAAATG-A-TTTTAGAAAAGTTTAG-GGTTAAAATGTAATTTTGGGAAG-TTTAGGGTTA
* * * *
17251127 AAACATGATTTTAGAAAAGTTTGGGGGTTAAAATGTAATTTTAGAGAAGTTTAAGG-TC
1 AAA-ATGATTTTAGAAAAGTTT-AGGGTTAAAATGTAATTTT-GGGAAGTTTAGGGTTA
*
17251185 AAAATGTAATATTT-GAAAACTTTCAGGGTTAAAATGTAATTTTGGAGAAGTTTAGGGGTT-
1 AAAATG--AT-TTTAGAAAAGTTT-AGGGTTAAAATGTAATTTTGG-GAAGTTTA-GGGTTA
* * * *
17251245 AAAATGCAATTTTGGAAAAGTTTAAGGGTTAAAATG-ATATTTTGGAAAAGTTT-GTGAATGA
1 AAAATG--ATTTTAGAAAAGTTT-AGGGTTAAAATGTA-ATTTTGG-GAAGTTTAG-G-GTTA
* * * * * * *
17251306 AAATGTGATTTTGGAAAGGTTT-GAGGTCAAAATGAAATTTTGGAAAAGTTTATGGGTGA
1 AAA-ATGATTTTAGAAAAGTTTAG-GGTTAAAATGTAATTTTGG-GAAGTTTA-GGGTTA
* *
17251365 AAATATGATTTTGGAAAGGTTTGAGGGT
1 AAA-ATGATTTTAGAAAAGTTT-AGGGT
17251393 CAAGATATAG
Statistics
Matches: 266, Mismatches: 33, Indels: 50
0.76 0.09 0.14
Matches are distributed among these distances:
57 3 0.01
58 40 0.15
59 133 0.50
60 82 0.31
61 6 0.02
62 2 0.01
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (56 bp):
AAAATGATTTTAGAAAAGTTTAGGGTTAAAATGTAATTTTGGGAAGTTTAGGGTTA
Found at i:17251243 original size:89 final size:87
Alignment explanation
Indices: 17251006--17251293 Score: 280
Period size: 88 Copynumber: 3.3 Consensus size: 87
17250996 AGAAAAATGG
* * *
17251006 GGTCAAAAT-GAAGTTTTAGAGAATTT-GGTGTTAAAACGTAATTTTGGAAGAA-TTTAAGGGTT
1 GGTCAAAATGGAA-TTTTGGAAAATTTAGG-GTTAAAACGTAATTTTGG-AGAAGTTTAGGGGTT
* * * *
17251068 AAAAGGTATTTTTATAAAAGTTTGA
63 AAAATGTAATTTTAGAAAAGTTTAA
* * * * * * *
17251093 GGTCAAAATGGGATTTTGGGAAGATTTAGGGTTAAAACATGATTTTAGAAAAGTTTGGGGGTTAA
1 GGTCAAAATGGAATTTT-GGAAAATTTAGGGTTAAAACGTAATTTTGGAGAAGTTTAGGGGTTAA
*
17251158 AATGTAATTTTAGAGAAGTTTAA
65 AATGTAATTTTAGAAAAGTTTAA
* *
17251181 GGTCAAAATGTAATATTT-GAAAACTTTCAGGGTTAAAATGTAATTTTGGAGAAGTTTAGGGGTT
1 GGTCAAAATGGAAT-TTTGGAAAA-TTT-AGGGTTAAAACGTAATTTTGGAGAAGTTTAGGGGTT
* *
17251245 AAAATGCAATTTTGGAAAAGTTTAA
63 AAAATGTAATTTTAGAAAAGTTTAA
*
17251270 GGGTTAAAAT-GATATTTTGGAAAA
1 -GGTCAAAATGGA-ATTTTGGAAAA
17251294 GTTTGTGAAT
Statistics
Matches: 162, Mismatches: 29, Indels: 17
0.78 0.14 0.08
Matches are distributed among these distances:
87 20 0.12
88 66 0.41
89 61 0.38
90 15 0.09
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.35
Consensus pattern (87 bp):
GGTCAAAATGGAATTTTGGAAAATTTAGGGTTAAAACGTAATTTTGGAGAAGTTTAGGGGTTAAA
ATGTAATTTTAGAAAAGTTTAA
Found at i:17251338 original size:89 final size:90
Alignment explanation
Indices: 17251215--17251387 Score: 244
Period size: 89 Copynumber: 1.9 Consensus size: 90
17251205 TTTCAGGGTT
* * * *
17251215 AAAATGTAATTTTGGAGAAGTTTAGGGGTTAAAATGCAATTTTGGAAAAGTTTAAGGGTTAAAAT
1 AAAATGTAATTTTGGAGAAGTTTAGAGGTCAAAATGAAATTTTGGAAAAGTTTAAGGGTGAAAAT
17251280 GAT-ATTTTGGAAAAGTTTGTGAATG
66 -ATGATTTTGGAAAAGTTTGTGAATG
* *
17251305 AAAATGTGATTTTGGA-AAGGTTT-GAGGTCAAAATGAAATTTTGGAAAAGTTTATGGGTGAAAA
1 AAAATGTAATTTTGGAGAA-GTTTAGAGGTCAAAATGAAATTTTGGAAAAGTTTAAGGGTGAAAA
*
17251368 TATGATTTTGGAAAGGTTTG
65 TATGATTTTGGAAAAGTTTG
17251388 AGGGTCAAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
88 2 0.03
89 53 0.72
90 19 0.26
ACGTcount: A:0.37, C:0.01, G:0.27, T:0.35
Consensus pattern (90 bp):
AAAATGTAATTTTGGAGAAGTTTAGAGGTCAAAATGAAATTTTGGAAAAGTTTAAGGGTGAAAAT
ATGATTTTGGAAAAGTTTGTGAATG
Found at i:17252829 original size:7 final size:7
Alignment explanation
Indices: 17252813--17252860 Score: 53
Period size: 7 Copynumber: 6.6 Consensus size: 7
17252803 TAATTTAGAC
17252813 ATTT-AA
1 ATTTAAA
17252819 ATTTAAA
1 ATTTAAA
17252826 ATTTAAA
1 ATTTAAA
*
17252833 ATTAAAATGA
1 ATT-TAA--A
17252843 ATTTAAA
1 ATTTAAA
17252850 ATTTAAA
1 ATTTAAA
17252857 ATTT
1 ATTT
17252861 GGTTTTTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
6 4 0.11
7 24 0.67
8 2 0.06
9 2 0.06
10 4 0.11
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (7 bp):
ATTTAAA
Found at i:17252847 original size:17 final size:18
Alignment explanation
Indices: 17252825--17252858 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
17252815 TTAAATTTAA
17252825 AATTTAAAA-TTAAAATG
1 AATTTAAAATTTAAAATG
17252842 AATTTAAAATTTAAAAT
1 AATTTAAAATTTAAAAT
17252859 TTGGTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTTAAAATTTAAAATG
Found at i:17253392 original size:85 final size:85
Alignment explanation
Indices: 17253248--17253405 Score: 203
Period size: 85 Copynumber: 1.9 Consensus size: 85
17253238 CTCGTGGTCT
* * * * *
17253248 ACTTCTCTGCATCTCATCAGGAAGATGACCGCTTCATTGTTTTAATCTACTTCTCTGTATCTCAT
1 ACTTCTCTGCATCTCATCAGGAAAATGAACACTTCATTGCTTCAATCTACTTCTCTGTATCTCAT
17253313 CAAGAAGACGGATTTGGTTC
66 CAAGAAGACGGATTTGGTTC
** *
17253333 ACTTCTCTGCATCTTGTCAGGAAAATGAACACATT-ATTGCTTCAA-CTCACTTCTTTGTATCTC
1 ACTTCTCTGCATCTCATCAGGAAAATGAACAC-TTCATTGCTTCAATCT-ACTTCTCTGTATCTC
*
17253396 ATCAGGAAGA
64 ATCAAGAAGA
17253406 TAGGGTTTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
84 2 0.03
85 58 0.94
86 2 0.03
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (85 bp):
ACTTCTCTGCATCTCATCAGGAAAATGAACACTTCATTGCTTCAATCTACTTCTCTGTATCTCAT
CAAGAAGACGGATTTGGTTC
Found at i:17253590 original size:84 final size:84
Alignment explanation
Indices: 17253447--17253612 Score: 210
Period size: 84 Copynumber: 2.0 Consensus size: 84
17253437 TCGCTTCATT
* ** * * *
17253447 GATTTGGTCTACTTCTCTATATCTCGTCAAGAAGATGACAGCTTATTGTTTCAATCCACTTTTTT
1 GATTTGGTCTACTTCTCTACATCTCGTCAAGAAGATGACAGCTTATTGGCTCAACCCACTTCTTA
*
17253512 GTATCTCATCAGGAAGACA
66 ATATCTCATCAGGAAGACA
* * *
17253531 GATTTGGT-TCACTTCTCTGCATCTTGTCAGGAAGATGATCA-CTTATTGGCTCAACCCACTTCT
1 GATTTGGTCT-ACTTCTCTACATCTCGTCAAGAAGATGA-CAGCTTATTGGCTCAACCCACTTCT
17253594 TAATATCTCATCAGGAAGA
64 TAATATCTCATCAGGAAGA
17253613 TGAGGTTTGA
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
83 1 0.01
84 67 0.96
85 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (84 bp):
GATTTGGTCTACTTCTCTACATCTCGTCAAGAAGATGACAGCTTATTGGCTCAACCCACTTCTTA
ATATCTCATCAGGAAGACA
Found at i:17253704 original size:37 final size:37
Alignment explanation
Indices: 17253653--17253726 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
17253643 TCGCTTCATT
* *
17253653 GATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATG
1 GATTTGGTCTACTTCTCTATATCTCATCAGGAAGATG
*
17253690 GATTTGGT-TCACTTCTCTATATCTCATTAGGAAGATG
1 GATTTGGTCT-ACTTCTCTATATCTCATCAGGAAGATG
17253727 ACCTATTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 32 0.97
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (37 bp):
GATTTGGTCTACTTCTCTATATCTCATCAGGAAGATG
Found at i:17253810 original size:160 final size:159
Alignment explanation
Indices: 17253504--17253849 Score: 453
Period size: 160 Copynumber: 2.2 Consensus size: 159
17253494 GTTTCAATCC
* * * **
17253504 ACTTTTTTGTATCTCATCAGGAAGACAGATTTGGTTCACTTCTCTGCATCTTGTCAGGAAGATGA
1 ACTTCTTTGTATCTCATCAGGAAGATAGATTTGGTTCACTTCTCTACATCTCATCAGGAAGATGA
* * *
17253569 TCACTTATTGGCTCAACCCACTTCTTAATATCTCATCAGGAAGATGAGGTTTGAAGTCTCATTCG
66 CCACTTATTGGCTCAACCCACTTCTTAATATCTCATCAGGAAGATGAGGTTTGAAGTCTCACTCA
* * * *
17253634 TATTAATCTTCGCTTCATTGATTTGGTCT
131 CACTAAGCTTCGCTTCAATGATTTGGTCT
* * *
17253663 ACTTCTTTGTATCTCATCAGGAAGATGGATTTGGTTCACTTCTCTATATCTCATTAGGAAGATGA
1 ACTTCTTTGTATCTCATCAGGAAGATAGATTTGGTTCACTTCTCTACATCTCATCAGGAAGATGA
* * * * *
17253728 CCTATTTATT-GCTTCGACCCACTTCTCT-GTATCTCATCAGGAAGATGGGGTTTGAAGTTTCAC
66 CC-ACTTATTGGC-TCAACCCACTTCT-TAATATCTCATCAGGAAGATGAGGTTTGAAGTCTCAC
*
17253791 TCACACTGAGCTTCGCTTCAATGATTTGGTCT
128 TCACACTAAGCTTCGCTTCAATGATTTGGTCT
*
17253823 ACTTCTTTGTATCTTATCAGGAAGATA
1 ACTTCTTTGTATCTCATCAGGAAGATA
17253850 ATCGTCTCAT
Statistics
Matches: 161, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
159 60 0.37
160 100 0.62
161 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (159 bp):
ACTTCTTTGTATCTCATCAGGAAGATAGATTTGGTTCACTTCTCTACATCTCATCAGGAAGATGA
CCACTTATTGGCTCAACCCACTTCTTAATATCTCATCAGGAAGATGAGGTTTGAAGTCTCACTCA
CACTAAGCTTCGCTTCAATGATTTGGTCT
Found at i:17254199 original size:41 final size:41
Alignment explanation
Indices: 17253999--17254200 Score: 269
Period size: 41 Copynumber: 4.9 Consensus size: 41
17253989 CGAGTGGCTG
* * * * * * *
17253999 CAATCTGCCCCTCTTAATTAGGGGTAAAAGATTGAAATATC
1 CAATATGCCCCTCTTGATTAAGGGTAAAAGACTGGAATCTT
* *
17254040 CAATTTGCCCCTCTTGATTAAAGGTAAAAGACTGGAATCTT
1 CAATATGCCCCTCTTGATTAAGGGTAAAAGACTGGAATCTT
* *
17254081 CAATATGCCCCTCTTGATTAAGGGTAAAAGACTAGAATTTT
1 CAATATGCCCCTCTTGATTAAGGGTAAAAGACTGGAATCTT
*
17254122 CAATATGCCCCTCTTGATTAAGGGTAAACGACTGGAATCTT
1 CAATATGCCCCTCTTGATTAAGGGTAAAAGACTGGAATCTT
* * *
17254163 CAATTTGCCCCTCTTGATTAGGGGTAAAAGATTGGAAT
1 CAATATGCCCCTCTTGATTAAGGGTAAAAGACTGGAAT
17254201 GATGTAGTTT
Statistics
Matches: 142, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 142 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (41 bp):
CAATATGCCCCTCTTGATTAAGGGTAAAAGACTGGAATCTT
Found at i:17254728 original size:50 final size:49
Alignment explanation
Indices: 17254457--17254836 Score: 228
Period size: 49 Copynumber: 7.7 Consensus size: 49
17254447 GTCTTTGCGA
* * * * *
17254457 CCTCAACCTTTTCCTTCAACTCTTCATGGTACCGGGTTCACCGTTGCGG
1 CCTCAACCTTTCCCTTCAAATCTTCATGGTACCGAGTTCGCCGTTACGG
* * * * * * ** *
17254506 CCTCAACCTTTCTCATCATAT-TTTATGGAACCG-GATTCGCCATTGTGA
1 CCTCAACCTTTCCCTTCAAATCTTCATGGTACCGAG-TTCGCCGTTACGG
* * * * * * * * *
17254554 CCTTAATCC-TCCCCATCACATCTTCTAAGGTACCAAGTTCACCGTTGCAG
1 CCTCAA-CCTTTCCCTTCAAATCTTC-ATGGTACCGAGTTCGCCGTTACGG
** * * * *
17254604 CCT-AATTTATTTCCCTTCACAGTTTTTAAGGTACCGAGTTCGCCGTTACGG
1 CCTCAA--CCTTTCCCTTCA-AATCTTCATGGTACCGAGTTCGCCGTTACGG
* * * *
17254655 CCTCAACCTTTCTCATCACATCTTCTATGATACCGAGTTCGCCGTTACGG
1 CCTCAACCTTTCCCTTCAAATCTTC-ATGGTACCGAGTTCGCCGTTACGG
* * * * * * * *
17254705 GCTCAACCTTTCCTTTCAAATCTTAATGGTATCGGGTTCACCGTTTCAG
1 CCTCAACCTTTCCCTTCAAATCTTCATGGTACCGAGTTCGCCGTTACGG
** * * * * *
17254754 CCTCAATTTTTCCCTTCAAATCTTCATGGTATCGGGTTCGCCATTGCGA
1 CCTCAACCTTTCCCTTCAAATCTTCATGGTACCGAGTTCGCCGTTACGG
*
17254803 CCTCAACCTTTCCCTTCAAAACTTCATGGTACCG
1 CCTCAACCTTTCCCTTCAAATCTTCATGGTACCG
17254837 CGGCTCATTT
Statistics
Matches: 249, Mismatches: 72, Indels: 20
0.73 0.21 0.06
Matches are distributed among these distances:
47 1 0.00
48 33 0.13
49 112 0.45
50 67 0.27
51 31 0.12
52 5 0.02
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.34
Consensus pattern (49 bp):
CCTCAACCTTTCCCTTCAAATCTTCATGGTACCGAGTTCGCCGTTACGG
Found at i:17255024 original size:7 final size:7
Alignment explanation
Indices: 17255015--17255051 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
17255005 TTAGCCGACA
*
17255015 TCGTTTA
1 TCGTTTG
17255022 TCGTTTG
1 TCGTTTG
17255029 TCGTTTG
1 TCGTTTG
17255036 TCGTTTG
1 TCGTTTG
17255043 TCGTTTG
1 TCGTTTG
17255050 TC
1 TC
17255052 TAAGTCTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.03, C:0.16, G:0.24, T:0.57
Consensus pattern (7 bp):
TCGTTTG
Found at i:17255801 original size:7 final size:7
Alignment explanation
Indices: 17255775--17255877 Score: 68
Period size: 7 Copynumber: 14.0 Consensus size: 7
17255765 CGACCTCTCC
17255775 TTTTCTT
1 TTTTCTT
*
17255782 TTTCCTGTT
1 TTT--TCTT
17255791 TTTTCTT
1 TTTTCTT
17255798 TTTTC-T
1 TTTTCTT
17255804 TTTTC-T
1 TTTTCTT
17255810 TTTTCTTT
1 TTTTC-TT
17255818 TTTTCCTT
1 TTTT-CTT
*
17255826 TTTCCTT
1 TTTTCTT
*
17255833 TTTCCTT
1 TTTTCTT
*
17255840 TTTCCTTT
1 TTTTC-TT
17255848 CTTTTCTT
1 -TTTTCTT
17255856 TCTTT-TT
1 T-TTTCTT
*
17255863 TATTTATT
1 T-TTTCTT
17255871 TTTTCTT
1 TTTTCTT
17255878 CATTGAATCT
Statistics
Matches: 81, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
6 12 0.15
7 38 0.47
8 20 0.25
9 11 0.14
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.79
Consensus pattern (7 bp):
TTTTCTT
Found at i:17255806 original size:14 final size:14
Alignment explanation
Indices: 17255775--17255877 Score: 68
Period size: 16 Copynumber: 7.0 Consensus size: 14
17255765 CGACCTCTCC
*
17255775 TTTTCTTTTTCCTGTT
1 TTTTCTTTTT--TCTT
17255791 TTTTCTTTTTTC-T
1 TTTTCTTTTTTCTT
17255804 TTTTC-TTTTTCTTT
1 TTTTCTTTTTTC-TT
*
17255818 TTTTCCTTTTTCCTT
1 TTTT-CTTTTTTCTT
* *
17255833 TTTCCTTTTTCCTTT
1 TTTTCTTTTTTC-TT
17255848 CTTTTCTTTCTTT-TT
1 -TTTTCTTT-TTTCTT
*
17255863 TATTTATTTTTTCTT
1 T-TTTCTTTTTTCTT
17255878 CATTGAATCT
Statistics
Matches: 72, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
12 6 0.08
13 6 0.08
14 18 0.25
15 18 0.25
16 22 0.31
17 2 0.03
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.79
Consensus pattern (14 bp):
TTTTCTTTTTTCTT
Found at i:17255861 original size:34 final size:35
Alignment explanation
Indices: 17255780--17255863 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 35
17255770 TCTCCTTTTC
* * *
17255780 TTTTTCCTGTTTTTTCTTTTTTCTTTTTCTTTTTCTT
1 TTTTTCC--TTTTTCCTTTTTCCTTTTTCTCTTTCTT
17255817 TTTTTCCTTTTTCCTTTTTCCTTTTTC-CTTTCTT
1 TTTTTCCTTTTTCCTTTTTCCTTTTTCTCTTTCTT
*
17255851 TTCTTTCTTTTTT
1 TT-TTTCCTTTTT
17255864 ATTTATTTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 8 0.19
35 27 0.64
37 7 0.17
ACGTcount: A:0.00, C:0.20, G:0.01, T:0.79
Consensus pattern (35 bp):
TTTTTCCTTTTTCCTTTTTCCTTTTTCTCTTTCTT
Found at i:17260753 original size:30 final size:30
Alignment explanation
Indices: 17260717--17261113 Score: 382
Period size: 30 Copynumber: 13.3 Consensus size: 30
17260707 AAGAATTTAA
*
17260717 GGTTAAAATGTAATTTTGGAAGAA-TTTGGG
1 GGTTAAAATGTAATTTTGGAA-AAGTTTAGG
* * *
17260747 GGTTAAAAGGTAATTTTATG-AAAGTTT-GA
1 GGTTAAAATGTAATTTT-GGAAAAGTTTAGG
* *
17260776 GGTTAAAATG-AGATTTTAGG-AAGGTTT-GA
1 GGTTAAAATGTA-ATTTT-GGAAAAGTTTAGG
* * *
17260805 GATCAAAATGTGATTTTGGAAAAGTTTA-G
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
* * *
17260834 GGTCAAAATGTAATTTTAGAGAAGTTTAGGGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTA--GG
*
17260866 GGTTAAAATGTAATTTTGGAAAAGTTTAAG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
* *
17260896 GGTCAAAATGTAATTTTGGAAAAGTTTAAG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
* *
17260926 GGTTAACATGTAATTTTGGATAAA-TTTAAG
1 GGTTAAAATGTAATTTTGGA-AAAGTTTAGG
*
17260956 GGTTAAAATGCAATTTTGGAAAAGTTTAGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
* * * *
17260986 GGTCAAAAAGAAATTTTGGAAAAGTTTATG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
* *
17261016 GGTGAAAATGTAATTTTGGAAAGGTTT-GG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
* * * *
17261045 GGTCAAAATGAAATTTTGAAAAAGTTTATG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAGG
* *
17261075 GGTGAAAATGTGATTTTGG-AAAGATTTAGG
1 GGTTAAAATGTAATTTTGGAAAAG-TTTAGG
17261105 GGTTAAAAT
1 GGTTAAAAT
17261114 ATAGTTTTTA
Statistics
Matches: 309, Mismatches: 45, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
28 3 0.01
29 101 0.33
30 175 0.57
31 4 0.01
32 26 0.08
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (30 bp):
GGTTAAAATGTAATTTTGGAAAAGTTTAGG
Found at i:17266025 original size:21 final size:21
Alignment explanation
Indices: 17266001--17266040 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
17265991 TCGGTGCTAC
*
17266001 AGTAGCTTCTACCAGTACTAT
1 AGTAGCTTCGACCAGTACTAT
*
17266022 AGTAGCTTCGACTAGTACT
1 AGTAGCTTCGACCAGTACT
17266041 CTTGAGACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.33
Consensus pattern (21 bp):
AGTAGCTTCGACCAGTACTAT
Found at i:17266359 original size:71 final size:70
Alignment explanation
Indices: 17266176--17266389 Score: 252
Period size: 71 Copynumber: 3.0 Consensus size: 70
17266166 ATCGAAACTT
* * * * * * *
17266176 CTCAAGTCAGTAGCCAAGTTATCTTTTCTCCTAAACATCTACCGATACTTCGTTGAGTTGTTCCG
1 CTCAAGTCAATAGCCAAGGTATCTTCTCCCCTAAACTTCTACCGGTACTT-GTAGAGTTGTTCCG
* *
17266241 TAATAA
65 AAACAA
* *
17266247 CTCAAGTC-AGAGCCATGGTATCTTCTCCCC-ACAACTTCTACCGGTACATTGTAGAGTTGTTCC
1 CTCAAGTCAATAGCCAAGGTATCTTCTCCCCTA-AACTTCTACCGGTAC-TTGTAGAGTTGTTCC
17266310 GAAACAA
64 GAAACAA
* * *
17266317 CTCAAGTCAATAGCCAAGGTATCTTCTCCCCTAAACTTCTACCTGTACTTTCTAGAGTTGTTCTG
1 CTCAAGTCAATAGCCAAGGTATCTTCTCCCCTAAACTTCTACCGGTAC-TTGTAGAGTTGTTCCG
17266382 AAACAA
65 AAACAA
17266388 CT
1 CT
17266390 TAAGGTAGTA
Statistics
Matches: 122, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
69 1 0.01
70 54 0.44
71 66 0.54
72 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (70 bp):
CTCAAGTCAATAGCCAAGGTATCTTCTCCCCTAAACTTCTACCGGTACTTGTAGAGTTGTTCCGA
AACAA
Found at i:17272358 original size:16 final size:17
Alignment explanation
Indices: 17272331--17272364 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
17272321 CTATTACAAC
17272331 ACAAAAATATAAAATTT
1 ACAAAAATATAAAATTT
*
17272348 ACAAAAA-ATAAATTTT
1 ACAAAAATATAAAATTT
17272364 A
1 A
17272365 GAATTACTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (17 bp):
ACAAAAATATAAAATTT
Found at i:17273030 original size:15 final size:15
Alignment explanation
Indices: 17273003--17273040 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
17272993 ATTTTAAAAT
17273003 ATTATAAAAATATAA
1 ATTATAAAAATATAA
17273018 ATTA-AAAATATATAA
1 ATTATAAAA-ATATAA
17273033 ATTCATAA
1 ATT-ATAA
17273041 TTTAATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 1 0.05
17 2 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTATAAAAATATAA
Found at i:17274738 original size:1 final size:1
Alignment explanation
Indices: 17274734--17274761 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
17274724 TTAAAAACTT
17274734 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGG
17274762 AGAGAGAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:17279216 original size:20 final size:20
Alignment explanation
Indices: 17279191--17279241 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
17279181 AAATATCACA
*
17279191 TTAGAAAATTATCAT-ATTTT
1 TTAGAAAATCAT-ATCATTTT
*
17279211 TTAGAAAGTCATATCATTTT
1 TTAGAAAATCATATCATTTT
17279231 TTA-AAAATCAT
1 TTAGAAAATCAT
17279242 TTTTGAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (20 bp):
TTAGAAAATCATATCATTTT
Found at i:17290253 original size:22 final size:22
Alignment explanation
Indices: 17290228--17290272 Score: 56
Period size: 25 Copynumber: 2.0 Consensus size: 22
17290218 TACAACACAT
17290228 TCAC-AACCATATTCTAACTAGG
1 TCACAAACCATATT-TAACTAGG
17290250 TCACAATAACCATATTTAACTAG
1 TCAC-A-AACCATATTTAACTAG
17290273 CTTCATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (22 bp):
TCACAAACCATATTTAACTAGG
Found at i:17291743 original size:5 final size:5
Alignment explanation
Indices: 17291733--17291758 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17291723 CATCGAATTT
17291733 TCTCA TCTCA TCTCA TCTCA TCTCA T
1 TCTCA TCTCA TCTCA TCTCA TCTCA T
17291759 TTATTTTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.38, G:0.00, T:0.42
Consensus pattern (5 bp):
TCTCA
Found at i:17291776 original size:14 final size:14
Alignment explanation
Indices: 17291757--17291786 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
17291747 ATCTCATCTC
17291757 ATTTATTTTATTTT
1 ATTTATTTTATTTT
*
17291771 ATTTATTTTGTTTT
1 ATTTATTTTATTTT
17291785 AT
1 AT
17291787 GATTTTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (14 bp):
ATTTATTTTATTTT
Found at i:17293034 original size:36 final size:36
Alignment explanation
Indices: 17292994--17293065 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
17292984 AATGATCTAG
*
17292994 GTCTATACTTAATCTTTTTGCCTAAAACTAATTCCA
1 GTCTATACTTAATCTTTTTGCCTAAAACAAATTCCA
17293030 GTCTATACTTAATCTTTTTGCCTAAAACAAATTCCA
1 GTCTATACTTAATCTTTTTGCCTAAAACAAATTCCA
17293066 TTCATCTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (36 bp):
GTCTATACTTAATCTTTTTGCCTAAAACAAATTCCA
Found at i:17294566 original size:57 final size:57
Alignment explanation
Indices: 17294418--17294624 Score: 188
Period size: 57 Copynumber: 3.6 Consensus size: 57
17294408 TCATTAAGAT
* * * * * *
17294418 TTACCCTTCTAGAGTTTTTCCACAAGGGCATTCCGTTTAGAGGTTCGCTACTAAGTC
1 TTACCCTTCTAGAGTTTTTCCAAAAAGGCATTCCTTTTAGAGATTCGCCACTAAGGC
* * *
17294475 TTACCCTTCTAGAGTTTTGT-CATAAAGGCATTCCTTTTAGCA-ATTTGCCACTGAGGC
1 TTACCCTTCTAGAGTTTT-TCCAAAAAGGCATTCCTTTTAG-AGATTCGCCACTAAGGC
* * * *
17294532 TTACACTTCTAGAGTTTTTCCAAAAAGGCATTCCTTTCAAAGGCTTC-CCACTAAGGC
1 TTACCCTTCTAGAGTTTTTCCAAAAAGGCATTCCTTTTAGA-GATTCGCCACTAAGGC
* * * * *
17294589 TTACCTTTCCAGA-TTTTTGTCACAAAGGCAATCCTT
1 TTACCCTTCTAGAGTTTTT-CCAAAAAGGCATTCCTT
17294625 CCAAAGGTTA
Statistics
Matches: 123, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
56 7 0.06
57 112 0.91
58 4 0.03
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (57 bp):
TTACCCTTCTAGAGTTTTTCCAAAAAGGCATTCCTTTTAGAGATTCGCCACTAAGGC
Found at i:17294607 original size:114 final size:114
Alignment explanation
Indices: 17294418--17294624 Score: 283
Period size: 114 Copynumber: 1.8 Consensus size: 114
17294408 TCATTAAGAT
* * * * * *
17294418 TTACCCTTCTAGAGTTTTTCCACAAGGGCATTCCGTTTAGAGGTTCGCTACTAAGTCTTACCCTT
1 TTACACTTCTAGAGTTTTTCCAAAAAGGCATTCCGTTTAAAGGTTCGCCACTAAGGCTTACCCTT
* * *
17294483 CTAGAGTTTTGTCATAAAGGCATTCCTTTTAGCAATTTGCCACTGAGGC
66 CCAGAGTTTTGTCACAAAGGCAATCCTTTTAGCAATTTGCCACTGAGGC
*
17294532 TTACACTTCTAGAGTTTTTCCAAAAAGGCATTCC-TTTCAAAGGCTTC-CCACTAAGGCTTACCT
1 TTACACTTCTAGAGTTTTTCCAAAAAGGCATTCCGTTT-AAAGG-TTCGCCACTAAGGCTTACCC
*
17294595 TTCCAGATTTTTGTCACAAAGGCAATCCTT
64 TTCCAGAGTTTTGTCACAAAGGCAATCCTT
17294625 CCAAAGGTTA
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
113 3 0.04
114 74 0.93
115 3 0.04
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (114 bp):
TTACACTTCTAGAGTTTTTCCAAAAAGGCATTCCGTTTAAAGGTTCGCCACTAAGGCTTACCCTT
CCAGAGTTTTGTCACAAAGGCAATCCTTTTAGCAATTTGCCACTGAGGC
Found at i:17294630 original size:57 final size:57
Alignment explanation
Indices: 17294542--17294681 Score: 156
Period size: 57 Copynumber: 2.5 Consensus size: 57
17294532 TTACACTTCT
* * * * ** *
17294542 AGAGTTTTTCCAAAAAGGCATTCCTTTCAAAGGCTT-CCCACTAAGGCTTACCTTTCC
1 AGAGTTTTGCCACAAAGGCATTCCTTCCAAAGG-TTAACCAAAAAGGCTCACCTTTCC
* * * *
17294599 AGATTTTTGTCACAAAGGCAATCCTTCCAAAGGTTAACCAAAAAGGCTCACCTTTGC
1 AGAGTTTTGCCACAAAGGCATTCCTTCCAAAGGTTAACCAAAAAGGCTCACCTTTCC
*
17294656 AGAGTTTTGCCACAAATGCATTCCTT
1 AGAGTTTTGCCACAAAGGCATTCCTT
17294682 GACTAGTGTT
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
56 2 0.03
57 65 0.97
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (57 bp):
AGAGTTTTGCCACAAAGGCATTCCTTCCAAAGGTTAACCAAAAAGGCTCACCTTTCC
Found at i:17313724 original size:22 final size:22
Alignment explanation
Indices: 17313688--17313730 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
17313678 ACCACTAAAG
*
17313688 ACCACCAAACCACCACGTCACA
1 ACCACCAAACCACCACCTCACA
* *
17313710 ACCACCGAACGACCACCTCAC
1 ACCACCAAACCACCACCTCAC
17313731 CTCCACCACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.51, G:0.07, T:0.05
Consensus pattern (22 bp):
ACCACCAAACCACCACCTCACA
Found at i:17317774 original size:21 final size:21
Alignment explanation
Indices: 17317732--17317777 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
17317722 GGCTTTTGTT
*
17317732 TAAAATATGCAATTTAACGAC
1 TAAAATATGCAATTTAAAGAC
*
17317753 TAAAA-ATTCAATTTAAAAGAC
1 TAAAATATGCAATTT-AAAGAC
17317774 TAAA
1 TAAA
17317778 TAACATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.54, C:0.11, G:0.07, T:0.28
Consensus pattern (21 bp):
TAAAATATGCAATTTAAAGAC
Found at i:17322815 original size:21 final size:20
Alignment explanation
Indices: 17322790--17322844 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
17322780 ATTTTTTTAA
*
17322790 TTTAAATTTCAAACT-TCAATT
1 TTTAAA-TTCAAACTCT-AAAT
17322811 TTTAAATTCAAAACTCTAAAT
1 TTTAAATTC-AAACTCTAAAT
17322832 TTTAAACTTCAAA
1 TTTAAA-TTCAAA
17322845 TTTAAGTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 3 0.10
21 23 0.77
22 4 0.13
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (20 bp):
TTTAAATTCAAACTCTAAAT
Found at i:17323900 original size:13 final size:13
Alignment explanation
Indices: 17323882--17323907 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17323872 ATGACACTTG
17323882 TAGGTTGTTGCAT
1 TAGGTTGTTGCAT
17323895 TAGGTTGTTGCAT
1 TAGGTTGTTGCAT
17323908 GGACAATGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (13 bp):
TAGGTTGTTGCAT
Found at i:17325708 original size:13 final size:14
Alignment explanation
Indices: 17325681--17325710 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
17325671 ACAGAGACTA
17325681 AAAATAATCAAATT
1 AAAATAATCAAATT
17325695 AAAATAAT-AAATT
1 AAAATAATCAAATT
17325708 AAA
1 AAA
17325711 TACATATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATAATCAAATT
Found at i:17333031 original size:24 final size:24
Alignment explanation
Indices: 17332983--17333043 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 24
17332973 TGTCTGTAAT
*
17332983 TTTTTTCTTTCTATCTGCAAGTTTTC
1 TTTTTTCTTTC--TCTACAAGTTTTC
*
17333009 TTTTTTCTTTCTCTACAATTTTTC
1 TTTTTTCTTTCTCTACAAGTTTTC
17333033 -TTTTTCTTTCT
1 TTTTTTCTTTCT
17333044 ATCAGACTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 11 0.33
24 11 0.33
26 11 0.33
ACGTcount: A:0.10, C:0.20, G:0.03, T:0.67
Consensus pattern (24 bp):
TTTTTTCTTTCTCTACAAGTTTTC
Found at i:17333194 original size:73 final size:76
Alignment explanation
Indices: 17333100--17333241 Score: 209
Period size: 76 Copynumber: 1.9 Consensus size: 76
17333090 TTATAAAACG
* *
17333100 TAAACAATAAGTAACTTATTATAAG-TT-AAAAAAA-TGAAAAAATTTAACTGAAAAAATAGTTT
1 TAAACAATAAATAACTTATTATAAGTTTAAAAAAAAGTGAAAAAATTTAACTGAAAAAATAATTT
17333162 TTTTTTTGCCC
66 TTTTTTTGCCC
* ** *
17333173 TAAACAATAAATAATTTATTATAAGTTTAAAAAAAAGTGAAAATTTTTAACTGGAAAAATAATTT
1 TAAACAATAAATAACTTATTATAAGTTTAAAAAAAAGTGAAAAAATTTAACTGAAAAAATAATTT
17333238 TTTT
66 TTTT
17333242 GGGCACCCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
73 23 0.38
74 2 0.03
75 7 0.12
76 28 0.47
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (76 bp):
TAAACAATAAATAACTTATTATAAGTTTAAAAAAAAGTGAAAAAATTTAACTGAAAAAATAATTT
TTTTTTTGCCC
Found at i:17333242 original size:73 final size:71
Alignment explanation
Indices: 17333100--17333242 Score: 180
Period size: 73 Copynumber: 2.0 Consensus size: 71
17333090 TTATAAAACG
* *
17333100 TAAACAATAAGTAACTTATTATAAGTTAAAAAAATGAAAAAATTTAACTGAAAAAATAGTTTTTT
1 TAAACAATAAATAACTTATTATAAGTTAAAAAAATGAAAAAATTTAACTGAAAAAATA--TATTT
17333165 TTTTGCCC
64 TTTTGCCC
* ** *
17333173 TAAACAATAAATAATTTATTATAAGTTTAAAAAAAAGTGAAAATTTTTAACTGGAAAAATA-ATT
1 TAAACAATAAATAACTTATTATAAG-TT-AAAAAAA-TGAAAAAATTTAACTGAAAAAATATATT
17333237 TTTTTG
63 TTTTTG
17333243 GGCACCCTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
73 31 0.51
74 2 0.03
75 7 0.11
76 21 0.34
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (71 bp):
TAAACAATAAATAACTTATTATAAGTTAAAAAAATGAAAAAATTTAACTGAAAAAATATATTTTT
TTGCCC
Found at i:17333603 original size:21 final size:22
Alignment explanation
Indices: 17333579--17333620 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
17333569 TTTTGTTTTG
17333579 TCTGCAA-TTTT-TTTCTTTCTA
1 TCTGCAAGTTTTCTTT-TTTCTA
17333600 TCTGCAAGTTTTCTTTTTTCT
1 TCTGCAAGTTTTCTTTTTTCT
17333621 TTCTCTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 9 0.47
23 3 0.16
ACGTcount: A:0.12, C:0.19, G:0.07, T:0.62
Consensus pattern (22 bp):
TCTGCAAGTTTTCTTTTTTCTA
Found at i:17333616 original size:26 final size:24
Alignment explanation
Indices: 17333587--17333648 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
17333577 TGTCTGCAAT
*
17333587 TTTTTTCTTTCTATCTGCAAGTTTTC
1 TTTTTTCTTTCT-TCTACAA-TTTTC
*
17333613 TTTTTTCTTTC-TCTACAATTTTT
1 TTTTTTCTTTCTTCTACAATTTTC
17333636 TCTTTTTCTTTCT
1 T-TTTTTCTTTCT
17333649 GTCAGACTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 5 0.16
24 16 0.50
26 11 0.34
ACGTcount: A:0.10, C:0.19, G:0.03, T:0.68
Consensus pattern (24 bp):
TTTTTTCTTTCTTCTACAATTTTC
Found at i:17333808 original size:71 final size:72
Alignment explanation
Indices: 17333705--17333846 Score: 223
Period size: 73 Copynumber: 2.0 Consensus size: 72
17333695 TCATAAAACG
* * * * *
17333705 TAAACAATAAGTAACTTGTTATAAGTT-AAAAAAATTGAAAAATTTTAATTGAAAAAATAGTTTT
1 TAAACAATAAGTAACTTATTATAAGTTAAAAAAAAGTGAAAAAATTTAACTGAAAAAATAATTTT
17333769 TTTTTTC
66 TTTTTTC
17333776 TAAACAATAAGTAACTTATTATAAGTTTAAAAAAAAGTGAAAAAATTTAACTGAAAAAATAATTT
1 TAAACAATAAGTAACTTATTATAAG-TTAAAAAAAAGTGAAAAAATTTAACTGAAAAAATAATTT
17333841 TTTTTT
65 TTTTTT
17333847 GGGCATCCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 24 0.38
72 2 0.03
73 38 0.59
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.39
Consensus pattern (72 bp):
TAAACAATAAGTAACTTATTATAAGTTAAAAAAAAGTGAAAAAATTTAACTGAAAAAATAATTTT
TTTTTTC
Found at i:17334439 original size:75 final size:69
Alignment explanation
Indices: 17334313--17334450 Score: 168
Period size: 75 Copynumber: 1.9 Consensus size: 69
17334303 TCATAAAACG
* *
17334313 TAAACAATAAGTAACTTATAAGTTAAAAAAATGAAAAAAATTAACTAAAAAAATAGTTTTTTTTT
1 TAAACAATAAATAACTTATAAGTTAAAAAAATGAAAAAAATTAACTAAAAAAATAATTTTTTTTT
17334378 TCCC
66 TCCC
*** *
17334382 TAAACAATAAATAACTTATTATAAGTTTAAAAAAAAGTGAAAATTTTTAACTGAAAAAATAATTT
1 TAAACAATAAATAAC---TTATAAG-TT-AAAAAAA-TGAAAAAAATTAACTAAAAAAATAATTT
17334447 TTTT
60 TTTT
17334451 GGGCACCCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
69 14 0.25
72 7 0.12
73 2 0.04
74 7 0.12
75 27 0.47
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.36
Consensus pattern (69 bp):
TAAACAATAAATAACTTATAAGTTAAAAAAATGAAAAAAATTAACTAAAAAAATAATTTTTTTTT
TCCC
Found at i:17334601 original size:604 final size:605
Alignment explanation
Indices: 17332700--17335714 Score: 4519
Period size: 605 Copynumber: 5.0 Consensus size: 605
17332690 ATTGTCACCC
* *
17332700 ATGAGAACTTTCCAATGCCTGATGAGCATCTATTCGAAATTTCTTATGATAATGAGGGAAAAATA
1 ATGAGAACTTTCCAATGCCTGATGAGCTTCTATTCGAAATTTCTTATGATAATGAGGGGAAAATA
17332765 AGATTACTACAATATTAAA-TTCAACACCAGAAAGAAATCCTTATAAATCATAAGAAAAGAAAAA
66 AGATTACTACAATATTAAATTTCAACACCAGAAAGAAATCCTTATAAATCATAAGAAAAGAAAAA
* * * *
17332829 GTTAAGATCGGCAACAAATTTTGAATAGAAGCTAAAAGATCTCACAATATAAACAATAATTTGAA
131 GTTAAGATCAGCAACAAATTTCGAATAGAAACTAAAAGATCTCACAACATAAACAATAATTTGAA
* *
17332894 ATATTATAAGTTAAAAAATACTATAAGAAACTGAAAATACCTTGTAAGAATTGAAATAAAATTTT
196 ATATTATAAG-TAAAAAATACTATAAGAAACTGAAAATACCTTGTAAGAATTGAAATGAAATTCT
*
17332959 TTTTGTTTTTGTTTTGTCTGTAATTTTTTTCTTTCTATCTGCAAGTTTTCTTTTTTCTTTCTCTA
260 TTTTGTTTTTGTTTTGTCTGCAATTTTTTTCTTTCTATCTGCAAGTTTTCTTTTTTCTTTCTCTA
* * * *
17333024 CAATTTTTCTTTTTCTTTCTATCAGACTAGTGATGGAGTCATGAAGATGAAATGTCGAAGATAAA
325 CAATTTTTCTTTTTCTTTCTGTCAGACTAGTGATGAAGTCATGAAGATGAAACGTTGAAGATAAA
*
17333089 GTTATAAAACGTAAACAATAAGTAACTTATTATAAGTTAAAAAAA-TGAAAAAATTTAACTGAAA
390 GTCATAAAACGTAAACAATAAGTAAC-T-TTATAAGTTAAAAAAACTGAAAAAATTTAACTGAAA
* * *
17333153 AAATAGTTTTTTTTTTGCCCTAAACAATAAATAATTTATTATAAGTTTAAAAAAAAGTGAAAATT
453 AAATAGTTTTTTTTTT-CCCTAAACAATAAGTAACTTATTATAAGTTTAAAAAAAAGTGAAAAAT
* * * *
17333218 TTTAACTGGAAAAATAATTTTTTTGGGCACCCTTCTAATGTTAGGTCTTGAGCGACTGCACTTAT
517 TTTAACTGAAAAAATAATTTTTTTGGGCACCCTTCTAATGTT-GGGCCTGAGCGATTGCACTTAT
* *
17333283 GGACTACCCCTAAAACCAG-GCCTG
581 GGACTACCCCCAGAACCAGAGCCTG
* * * *
17333307 ATGAGAACTTTCCAATGCCTGGTAACCTTCTATTCGAAATTTCTTATGATAATGAGGGGTAAATA
1 ATGAGAACTTTCCAATGCCTGATGAGCTTCTATTCGAAATTTCTTATGATAATGAGGGGAAAATA
*
17333372 AGATTACTATAATATTAAATTTCAACACCAGAAAGAAATCCTTATAAATCATAAGAAAAGAAAAA
66 AGATTACTACAATATTAAATTTCAACACCAGAAAGAAATCCTTATAAATCATAAGAAAAGAAAAA
* * * *
17333437 GTTAAGATC-GACAATAAATTTCGTATAGAAACTAAAAGATCTCACAAAATAAACAATAATTTCA
131 GTTAAGATCAG-CAACAAATTTCGAATAGAAACTAAAAGATCTCACAACATAAACAATAATTTGA
* *
17333501 AATATTATAGGT---AAATACTATAAGAAACTGAAAATACCTTGTAATAATTGAAATGAAATTCT
195 AATATTATAAGTAAAAAATACTATAAGAAACTGAAAATACCTTGTAAGAATTGAAATGAAATTCT
17333563 TTTTGTTTTTGTTTTGTCTGCAATTTTTTTCTTTCTATCTGCAAGTTTTCTTTTTTCTTTCTCTA
260 TTTTGTTTTTGTTTTGTCTGCAATTTTTTTCTTTCTATCTGCAAGTTTTCTTTTTTCTTTCTCTA
*
17333628 CAATTTTTTCTTTTTCTTTCTGTCAGACTAGTGATGAAGTCATGAATATGAAACGTTGAAGATAA
325 CAA-TTTTTCTTTTTCTTTCTGTCAGACTAGTGATGAAGTCATGAAGATGAAACGTTGAAGATAA
* * *
17333693 AGTCATAAAACGTAAACAATAAGTAACTTGTTATAAGTTAAAAAAATTGAAAAATTTTAATTGAA
389 AGTCATAAAACGTAAACAATAAGTAAC-T-TTATAAGTTAAAAAAACTGAAAAAATTTAACTGAA
*
17333758 AAAATAGTTTTTTTTTT--CTAAACAATAAGTAACTTATTATAAGTTTAAAAAAAAGTGAAAAAA
452 AAAATAGTTTTTTTTTTCCCTAAACAATAAGTAACTTATTATAAGTTTAAAAAAAAGTGAAAAAT
* * *
17333821 TTTAACTGAAAAAATAATTTTTTTTTGGGCATCCTTCTAATGTTGGGCCTTGGGCAATTGCACTT
517 TTTAACTGAAAAAATAA--TTTTTTTGGGCACCCTTCTAATGTTGGGCC-TGAGCGATTGCACTT
* *
17333886 ATGGACTACCCCCA-AAGCTGAGCCTG
579 ATGGACTACCCCCAGAACCAGAGCCTG
* *
17333912 ATGAGAACTTTCCAATGCCTGATGAGCTTTTATTCGAAATTTCTTATGATAATGAGGGAAAAATA
1 ATGAGAACTTTCCAATGCCTGATGAGCTTCTATTCGAAATTTCTTATGATAATGAGGGGAAAATA
* *
17333977 AGATTACTACAATATTAAATTTCAACACCAGAAAAAAATCCTTATAAATCATAAGAAAAGAAAGA
66 AGATTACTACAATATTAAATTTCAACACCAGAAAGAAATCCTTATAAATCATAAGAAAAGAAAAA
* *
17334042 GTAAAGATCAGCAACAAATTTCGAATAGAAACTAAAAGATCTCACAATATAAACAATAATTTGAA
131 GTTAAGATCAGCAACAAATTTCGAATAGAAACTAAAAGATCTCACAACATAAACAATAATTTGAA
17334107 ATATTATAAGTAAAAAAATACTATAAGAAACTGAAAATACCTTGTAAGAATTGAAATGAAATTCT
196 ATATTATAAGT-AAAAAATACTATAAGAAACTGAAAATACCTTGTAAGAATTGAAATGAAATTCT
* *
17334172 TTTTGTTTTTGTTTTGTCTGCAATTATTTTCTTTCTATTTGCAAGTTTTCTTTTTTCTTTCTCTA
260 TTTTGTTTTTGTTTTGTCTGCAATTTTTTTCTTTCTATCTGCAAGTTTTCTTTTTTCTTTCTCTA
* * *
17334237 CAATTTTTCTTTTTCTTTCTATCAGACTAGTGATGAAGTCATGAAGATGAAATGTGGAAGATAAA
325 CAATTTTTCTTTTTCTTTCTGTCAGACTAGTGATGAAGTCATGAAGATGAAACGTTGAAGATAAA
* *
17334302 GTCATAAAACGTAAACAATAAGTAAC-TTATAAGTTAAAAAAA-TGAAAAAAATTAACTAAAAAA
390 GTCATAAAACGTAAACAATAAGTAACTTTATAAGTTAAAAAAACTGAAAAAATTTAACTGAAAAA
* *
17334365 ATAGTTTTTTTTTTCCCTAAACAATAAATAACTTATTATAAGTTTAAAAAAAAGTGAAAATTTTT
455 ATAGTTTTTTTTTTCCCTAAACAATAAGTAACTTATTATAAGTTTAAAAAAAAGTGAAAAATTTT
* **
17334430 AACTGAAAAAATAATTTTTTTGGGCACCCTTCTAATATTGGGTCCTGAGCGGCTGCACTTATGGA
520 AACTGAAAAAATAATTTTTTTGGGCACCCTTCTAATGTTGGG-CCTGAGCGATTGCACTTATGGA
*
17334495 CTACCCCTAGAACCAG-GCCTG
584 CTACCCCCAGAACCAGAGCCTG
* * *
17334516 ATGAGAACTTTCCAATGCCTGGTGACCTTCTATTCGAAATTTCTTATGATAATGAGGGGCAAATA
1 ATGAGAACTTTCCAATGCCTGATGAGCTTCTATTCGAAATTTCTTATGATAATGAGGGGAAAATA
* * *
17334581 AGACTACTATAATATTAAATTTCAACACCAGAAAGAAATCTTTATAAATCATAAGAAAAGAAAAA
66 AGATTACTACAATATTAAATTTCAACACCAGAAAGAAATCCTTATAAATCATAAGAAAAGAAAAA
* *
17334646 GTTAAGATCGGCAACAAATTTCGAATAGAAACTAAAAGATCTCACAACATAAACAATAATTTCAA
131 GTTAAGATCAGCAACAAATTTCGAATAGAAACTAAAAGATCTCACAACATAAACAATAATTTGAA
*
17334711 ATATTATAAGT---AAATACTATAAGAAACTGAAAATACCTTGTAATAATTGAAATGAAATTCTT
196 ATATTATAAGTAAAAAATACTATAAGAAACTGAAAATACCTTGTAAGAATTGAAATGAAATTCTT
*
17334773 TTTGTTTTTGTTTTGTCTGCAATTTTTTTCTTTCTATCTACAAG--TT-TTTTTTCTTTCTCTAC
261 TTTGTTTTTGTTTTGTCTGCAATTTTTTTCTTTCTATCTGCAAGTTTTCTTTTTTCTTTCTCTAC
*
17334835 AATTTTTTCTTTTTCTTTATGTCAGACTAGTGATGAAGTCATGAAGATGAAACGTTGAAGATAAA
326 AA-TTTTTCTTTTTCTTTCTGTCAGACTAGTGATGAAGTCATGAAGATGAAACGTTGAAGATAAA
*
17334900 GTCATAAAACGTAAACAATAAGTAACTTGTTATAAGTTAAAAAAACT-AAAAAATTTTAATTGAA
390 GTCATAAAACGTAAACAATAAGTAAC-T-TTATAAGTTAAAAAAACTGAAAAAA-TTTAACTGAA
17334964 AAAATAG-TTTTTTTTT--CTAAACAATAAGTAACTTATTATAAGTTTAAAAAAAAGTGAAAAAT
452 AAAATAGTTTTTTTTTTCCCTAAACAATAAGTAACTTATTATAAGTTTAAAAAAAAGTGAAAAAT
* *
17335026 TTTAACTGAAAAAATAATTTTTTTTTGGGCATCCTTCTAATGTTGGGCCTTG-GACAATTGCACT
517 TTTAACTGAAAAAATAA--TTTTTTTGGGCACCCTTCTAATGTTGGGCC-TGAG-CGATTGCACT
* *
17335090 TATGGATTACCCCCAGAGCC-GAGCCTG
578 TATGGACTACCCCCAGAACCAGAGCCTG
* * *
17335117 ATGAGAACTTTCCAATGCTTGATGAGCTTTTATTCGAAATTTCTTATGATAATGAGGGGCAAATA
1 ATGAGAACTTTCCAATGCCTGATGAGCTTCTATTCGAAATTTCTTATGATAATGAGGGGAAAATA
* *
17335182 AGATTACTACAATATTAAATTCCAACACCAGAAAGAAATCCTTATAAATCATAAGAAAAGAAAGA
66 AGATTACTACAATATTAAATTTCAACACCAGAAAGAAATCCTTATAAATCATAAGAAAAGAAAAA
* *
17335247 GTAAAGATCAGCAACAAATTTTGAATAGAAACTAAAAGATCTCACAACATAAACAATAATTTGAA
131 GTTAAGATCAGCAACAAATTTCGAATAGAAACTAAAAGATCTCACAACATAAACAATAATTTGAA
* *
17335312 ATATTATAAGTAAAAAAATACTATAAGAAACTGAAATTACCTTGTAAGAATTAAAATG-AATGTC
196 ATATTATAAGT-AAAAAATACTATAAGAAACTGAAAATACCTTGTAAGAATTGAAATGAAAT-TC
* * *
17335376 TTTTTGTTTTTGTTTTTGTTTTGTCTGTAA-TTTTTTCTTTCTGTCTACAAGTTTTCTTTTTTCT
259 ------TTTTTGTTTTTGTTTTGTCTGCAATTTTTTTCTTTCTATCTGCAAGTTTTCTTTTTTCT
17335440 TTCTCTACAATTTTTCTTTTTCTTTCTGTCAGACTAGTGATGAAGTCATGAAGATGAAACGTTGA
318 TTCTCTACAATTTTTCTTTTTCTTTCTGTCAGACTAGTGATGAAGTCATGAAGATGAAACGTTGA
* * * **
17335505 AAATAAAGGCATAAAACGTAAACAATAAGTAACTTATTATAAGTTAAAAAAAAAAGTGAAAATTT
383 AGATAAAGTCATAAAACGTAAACAATAAGTAAC-T-TTATAAGTT---AAAAAAACTGAAAAAAT
* ***
17335570 TTAACTGAAAAAATA-ATTTTTTGGGCCCTAAA-AATTAAGTAACTTATTATAAGTTTAAAAAAA
443 TTAACTGAAAAAATAGTTTTTTTTTTCCCTAAACAA-TAAGTAACTTATTATAAGTTTAAAAAAA
* * *
17335633 A-TGAAAAATTTTAACTGAAAAAATAATTTTTTTAGGC-CCTCTTCTAATGTTAGGCCCT-AGGT
507 AGTGAAAAATTTTAACTGAAAAAATAATTTTTTTGGGCACC-CTTCTAATGTT-GGGCCTGA-GC
*
17335695 GGTTGCACTTATGGACTACC
569 GATTGCACTTATGGACTACC
17335715 TCCAAGGTCG
Statistics
Matches: 2204, Mismatches: 150, Indels: 101
0.90 0.06 0.04
Matches are distributed among these distances:
597 18 0.01
598 86 0.04
599 61 0.03
600 95 0.04
601 281 0.13
602 15 0.01
603 58 0.03
604 402 0.18
605 407 0.18
606 94 0.04
607 79 0.04
608 195 0.09
609 115 0.05
610 20 0.01
611 23 0.01
612 98 0.04
613 19 0.01
614 39 0.02
615 34 0.02
616 31 0.01
617 34 0.02
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (605 bp):
ATGAGAACTTTCCAATGCCTGATGAGCTTCTATTCGAAATTTCTTATGATAATGAGGGGAAAATA
AGATTACTACAATATTAAATTTCAACACCAGAAAGAAATCCTTATAAATCATAAGAAAAGAAAAA
GTTAAGATCAGCAACAAATTTCGAATAGAAACTAAAAGATCTCACAACATAAACAATAATTTGAA
ATATTATAAGTAAAAAATACTATAAGAAACTGAAAATACCTTGTAAGAATTGAAATGAAATTCTT
TTTGTTTTTGTTTTGTCTGCAATTTTTTTCTTTCTATCTGCAAGTTTTCTTTTTTCTTTCTCTAC
AATTTTTCTTTTTCTTTCTGTCAGACTAGTGATGAAGTCATGAAGATGAAACGTTGAAGATAAAG
TCATAAAACGTAAACAATAAGTAACTTTATAAGTTAAAAAAACTGAAAAAATTTAACTGAAAAAA
TAGTTTTTTTTTTCCCTAAACAATAAGTAACTTATTATAAGTTTAAAAAAAAGTGAAAAATTTTA
ACTGAAAAAATAATTTTTTTGGGCACCCTTCTAATGTTGGGCCTGAGCGATTGCACTTATGGACT
ACCCCCAGAACCAGAGCCTG
Found at i:17334825 original size:23 final size:21
Alignment explanation
Indices: 17334795--17334851 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
17334785 TTGTCTGCAA
17334795 TTTTTTTCTTTCTATCTACAAGT
1 TTTTTTTCTTTCT-TCTACAA-T
17334818 TTTTTTTCTTTC-TCTACAAT
1 TTTTTTTCTTTCTTCTACAAT
17334838 TTTTTCTT-TTTCTT
1 TTTTT-TTCTTTCTT
17334852 TATGTCAGAC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 10 0.31
21 10 0.31
23 12 0.38
ACGTcount: A:0.12, C:0.18, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTTTTCTTTCTTCTACAAT
Found at i:17335003 original size:70 final size:72
Alignment explanation
Indices: 17334911--17335051 Score: 223
Period size: 72 Copynumber: 2.0 Consensus size: 72
17334901 TCATAAAACG
* * *
17334911 TAAACAATAAGTAACTTGTTATAAG-TT-AAAAAAACTAAAAAATTTTAATTGAAAAAATAGTTT
1 TAAACAATAAGTAACTTATTATAAGTTTAAAAAAAACTAAAAAATTTTAACTGAAAAAATAATTT
17334974 TTTTTTC
66 TTTTTTC
* *
17334981 TAAACAATAAGTAACTTATTATAAGTTTAAAAAAAAGTGAAAAATTTTAACTGAAAAAATAATTT
1 TAAACAATAAGTAACTTATTATAAGTTTAAAAAAAACTAAAAAATTTTAACTGAAAAAATAATTT
17335046 TTTTTT
66 TTTTTT
17335052 GGGCATCCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 24 0.38
71 2 0.03
72 38 0.59
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (72 bp):
TAAACAATAAGTAACTTATTATAAGTTTAAAAAAAACTAAAAAATTTTAACTGAAAAAATAATTT
TTTTTTC
Found at i:17335446 original size:24 final size:24
Alignment explanation
Indices: 17335406--17335466 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
17335396 TTGTCTGTAA
17335406 TTTTTTCTTTCTGTCTACAAGTTTTC
1 TTTTTTCTTTC--TCTACAAGTTTTC
*
17335432 TTTTTTCTTTCTCTACAATTTTTC
1 TTTTTTCTTTCTCTACAAGTTTTC
17335456 -TTTTTCTTTCT
1 TTTTTTCTTTCT
17335467 GTCAGACTAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 11 0.32
24 12 0.35
26 11 0.32
ACGTcount: A:0.10, C:0.20, G:0.03, T:0.67
Consensus pattern (24 bp):
TTTTTTCTTTCTCTACAAGTTTTC
Found at i:17338756 original size:25 final size:24
Alignment explanation
Indices: 17338721--17338769 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
17338711 ATATTATTTT
17338721 AAATACTTTAATATTAAAT-TAATA
1 AAATACTTTAA-ATTAAATCTAATA
*
17338745 AAATACTATTAAATTTAATCTAATA
1 AAATACT-TTAAATTAAATCTAATA
17338770 TTTATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (24 bp):
AAATACTTTAAATTAAATCTAATA
Found at i:17340155 original size:12 final size:12
Alignment explanation
Indices: 17340138--17340164 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17340128 GAGAGCAACT
17340138 AGACATTATAAA
1 AGACATTATAAA
17340150 AGACATTATAAA
1 AGACATTATAAA
17340162 AGA
1 AGA
17340165 AGAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.11, T:0.22
Consensus pattern (12 bp):
AGACATTATAAA
Found at i:17340195 original size:30 final size:30
Alignment explanation
Indices: 17340160--17340217 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
17340150 AGACATTATA
*
17340160 AAAGAAGAAAGAAAAAATA-AAAATAAAACT
1 AAAGAA-AAAGAAAAAATATAAAAGAAAACT
* *
17340190 AAAGAAAGAGAAATAATATAAAAGAAAA
1 AAAGAAAAAGAAAAAATATAAAAGAAAA
17340218 AAATTAAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (30 bp):
AAAGAAAAAGAAAAAATATAAAAGAAAACT
Found at i:17343909 original size:6 final size:6
Alignment explanation
Indices: 17343898--17343937 Score: 62
Period size: 6 Copynumber: 6.7 Consensus size: 6
17343888 CGGCTGGACC
* *
17343898 GGAGGA GGAGGA GGAGCA GGAGCA GGAGCA GGAGCA GGAG
1 GGAGCA GGAGCA GGAGCA GGAGCA GGAGCA GGAGCA GGAG
17343938 GCGCGACTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.33, C:0.10, G:0.57, T:0.00
Consensus pattern (6 bp):
GGAGCA
Found at i:17344276 original size:58 final size:58
Alignment explanation
Indices: 17344186--17344301 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
17344176 AGCTGAGTGA
17344186 AACAGTGTTAGCAACCCAAGATTTGAATAATGTTAACAGTTTAGACCTTAGATGCGCT
1 AACAGTGTTAGCAACCCAAGATTTGAATAATGTTAACAGTTTAGACCTTAGATGCGCT
17344244 AACAGTGTTAGCAACCCAAGATTTGAATAATGTTAACAGTTTAGACCTTAGATGCGCT
1 AACAGTGTTAGCAACCCAAGATTTGAATAATGTTAACAGTTTAGACCTTAGATGCGCT
17344302 TTTGATTTAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (58 bp):
AACAGTGTTAGCAACCCAAGATTTGAATAATGTTAACAGTTTAGACCTTAGATGCGCT
Found at i:17345293 original size:28 final size:29
Alignment explanation
Indices: 17345235--17345290 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
17345225 ATTTTTTAAT
* *
17345235 TAATAATTATTTTATTTATATAAATAAAA
1 TAATAATTATTGTAATTATATAAATAAAA
17345264 TAATAATTA-TGTAATTATAT-AATAAAA
1 TAATAATTATTGTAATTATATAAATAAAA
17345291 ATATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 7 0.28
28 9 0.36
29 9 0.36
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (29 bp):
TAATAATTATTGTAATTATATAAATAAAA
Found at i:17350997 original size:56 final size:54
Alignment explanation
Indices: 17350936--17351050 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 54
17350926 GGGTGTTGGT
* * * * *
17350936 CATCAGTGTCCTAACATCCAAAAAATATTTTTTTGATCTAGAAAAAGGGTGTCGAC
1 CATCAGTGTCCCAACAACC--AAAATATTTTTTTAATCTAAAAAAAGGCTGTCGAC
** * *
17350992 CATCAGTGTCCCAGTAACCTAAATTTTTTTTTAATCTAAAAAAAGGCTGTCGAC
1 CATCAGTGTCCCAACAACCAAAATATTTTTTTAATCTAAAAAAAGGCTGTCGAC
17351046 CATCA
1 CATCA
17351051 ATATCTTAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 35 0.70
56 15 0.30
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (54 bp):
CATCAGTGTCCCAACAACCAAAATATTTTTTTAATCTAAAAAAAGGCTGTCGAC
Found at i:17351075 original size:54 final size:54
Alignment explanation
Indices: 17350958--17351113 Score: 154
Period size: 54 Copynumber: 2.9 Consensus size: 54
17350948 AACATCCAAA
* * * * *
17350958 AAATATTTTTTTGATCTAGAAAAAGGGTGTCGACCATCAGTGTCCCAGTAACCT
1 AAATATTTTTTTAATCTAGAAAAAGGATGTCGACCATCAATATCCCAGTAACCC
* * * ** *
17351012 AAATTTTTTTTTAATCTAAAAAAAGGCTGTCGACCATCAATATCTTAGTACTCCC
1 AAATATTTTTTTAATCTAGAAAAAGGATGTCGACCATCAATATCCCAGTA-ACCC
* *
17351067 AAA-ATTTTTTTAAATCT-GTAAAAGAGATTTCGACCATCAATATCCCA
1 AAATATTTTTTT-AATCTAGAAAAAG-GATGTCGACCATCAATATCCCA
17351114 AATGTATACC
Statistics
Matches: 82, Mismatches: 17, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
54 54 0.66
55 28 0.34
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.34
Consensus pattern (54 bp):
AAATATTTTTTTAATCTAGAAAAAGGATGTCGACCATCAATATCCCAGTAACCC
Found at i:17351947 original size:17 final size:18
Alignment explanation
Indices: 17351915--17351957 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
17351905 ATTGTTATTT
*
17351915 TTATTGTTACTTTTGCTG
1 TTATTTTTACTTTTGCTG
17351933 TTATTTTTA-TTTTGCTG
1 TTATTTTTACTTTTGCTG
17351950 TTATTTTT
1 TTATTTTT
17351958 GTTATTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.67
18 8 0.33
ACGTcount: A:0.12, C:0.07, G:0.12, T:0.70
Consensus pattern (18 bp):
TTATTTTTACTTTTGCTG
Found at i:17351987 original size:12 final size:12
Alignment explanation
Indices: 17351901--17351943 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
17351891 TTGATATTGC
17351901 TTTTATTGTTAT
1 TTTTATTGTTAT
*
17351913 TTTTATTGTTAC
1 TTTTATTGTTAT
**
17351925 TTTTGCTGTTAT
1 TTTTATTGTTAT
17351937 TTTTATT
1 TTTTATT
17351944 TTGCTGTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.14, C:0.05, G:0.09, T:0.72
Consensus pattern (12 bp):
TTTTATTGTTAT
Found at i:17352162 original size:22 final size:24
Alignment explanation
Indices: 17352117--17352163 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
17352107 ATATAAAGAA
*
17352117 TTTTTAATGTATTTTAAATTTATT
1 TTTTTAATGTATTTTAAATGTATT
*
17352141 TTTTTAAT-T-TTTTAAGTGTATT
1 TTTTTAATGTATTTTAAATGTATT
17352163 T
1 T
17352164 GATATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 1 0.05
24 8 0.38
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (24 bp):
TTTTTAATGTATTTTAAATGTATT
Found at i:17355300 original size:21 final size:21
Alignment explanation
Indices: 17355276--17355321 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
17355266 TCACATGGGC
*
17355276 GTGTGTCTTAAACACACGCTA
1 GTGTGTCTCAAACACACGCTA
*
17355297 GTGTGTCTCAAACACACGCTC
1 GTGTGTCTCAAACACACGCTA
17355318 GTGT
1 GTGT
17355322 CCCCACATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (21 bp):
GTGTGTCTCAAACACACGCTA
Found at i:17356801 original size:26 final size:25
Alignment explanation
Indices: 17356763--17356865 Score: 102
Period size: 26 Copynumber: 4.1 Consensus size: 25
17356753 TGGTATTATG
17356763 AGGTGATT-TTAGCAGGCTTTGAGC
1 AGGTGATTATTAGCAGGCTTTGAGC
* ** *
17356787 CGGTGACTTATTAGCAAACTTCGAGC
1 AGGTGA-TTATTAGCAGGCTTTGAGC
* *
17356813 TA-GTGGTTTTTAGCAGGCTTTGAGC
1 -AGGTGATTATTAGCAGGCTTTGAGC
*
17356838 AGGTGATTATTTATCAGGCTTTGAGC
1 AGGTGATTA-TTAGCAGGCTTTGAGC
17356864 AG
1 AG
17356866 TGGTTTTTAG
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
24 6 0.10
25 22 0.36
26 33 0.54
ACGTcount: A:0.22, C:0.15, G:0.29, T:0.34
Consensus pattern (25 bp):
AGGTGATTATTAGCAGGCTTTGAGC
Found at i:17356829 original size:51 final size:50
Alignment explanation
Indices: 17356769--17356893 Score: 146
Period size: 51 Copynumber: 2.5 Consensus size: 50
17356759 TATGAGGTGA
17356769 TTTTAGCAGGCTTTGAGCCGGTGACTTA-TTAGCAAACTTCGAGCTAGTGGT
1 TTTTAGCAGGCTTTGAGCCGGTGA-TTATTTAGCAAACTTCGAGC-AGTGGT
* * ** *
17356820 TTTTAGCAGGCTTTGAGCAGGTGATTATTTATCAGGCTTTGAGCAGTGGT
1 TTTTAGCAGGCTTTGAGCCGGTGATTATTTAGCAAACTTCGAGCAGTGGT
* *
17356870 TTTTAGTAGG-TTTCAAGCCGGTGA
1 TTTTAGCAGGCTTT-GAGCCGGTGA
17356894 ATGTTTAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
49 3 0.05
50 26 0.41
51 35 0.55
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (50 bp):
TTTTAGCAGGCTTTGAGCCGGTGATTATTTAGCAAACTTCGAGCAGTGGT
Found at i:17359884 original size:34 final size:33
Alignment explanation
Indices: 17359812--17359908 Score: 86
Period size: 34 Copynumber: 2.9 Consensus size: 33
17359802 TTAATAGTGA
* * * *
17359812 GCCCAGCTCTAGTTGGATTAACCAACGATATTGC
1 GCCCAGCACTAGTCGGATAAACCGACGA-ATTGC
* *
17359846 GCCCAGCGCTAGTCGGATAAACCGACGAATGTGT
1 GCCCAGCACTAGTCGGATAAACCGACGAAT-TGC
* ** *
17359880 GCCCAACACTAGTCACATAAACTGACGAA
1 GCCCAGCACTAGTCGGATAAACCGACGAA
17359909 GTAGATAGTA
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
33 2 0.04
34 50 0.96
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.20
Consensus pattern (33 bp):
GCCCAGCACTAGTCGGATAAACCGACGAATTGC
Found at i:17359979 original size:108 final size:108
Alignment explanation
Indices: 17359805--17360002 Score: 258
Period size: 108 Copynumber: 1.8 Consensus size: 108
17359795 TACGATATTA
* * *
17359805 ATAGTGAGCCCAGCTCTAGTTGGATTAACCAACGATATTGCGCCCAGCGCTAGTCGGATAAACCG
1 ATAGTAAGCCCAGCTCTAGTTGGATTAACCAACGATATTGCGCCCAGCACTAGTCGAATAAACCG
* *
17359870 ACGAATGTGTGCCCAACACTAGTCACATAAACTGACGAAGTAG
66 ACAAATATGTGCCCAACACTAGTCACATAAACTGACGAAGTAG
* * *
17359913 ATAGTAAGCCCAGCTCTAGTTGG-TTAAACCAAC-AGTATTTGTGCCCGGCACTAGTCGAAT-AG
1 ATAGTAAGCCCAGCTCTAGTTGGATT-AACCAACGA-TA-TTGCGCCCAGCACTAGTCGAATAAA
* *
17359975 CCGACAAATATGTGCCTAGCACTAGTCA
63 CCGACAAATATGTGCCCAACACTAGTCA
17360003 AATTCACTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
107 3 0.04
108 56 0.73
109 18 0.23
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (108 bp):
ATAGTAAGCCCAGCTCTAGTTGGATTAACCAACGATATTGCGCCCAGCACTAGTCGAATAAACCG
ACAAATATGTGCCCAACACTAGTCACATAAACTGACGAAGTAG
Found at i:17362387 original size:2 final size:2
Alignment explanation
Indices: 17362380--17362413 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
17362370 GGACGCTTTC
17362380 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17362414 GGAAAGGCGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17362560 original size:28 final size:28
Alignment explanation
Indices: 17362517--17362578 Score: 69
Period size: 28 Copynumber: 2.2 Consensus size: 28
17362507 TATTTTTATA
17362517 ATTTTT-AAAGGATTAAA-T-TAAATTTTT
1 ATTTTTAAAAGGATTAAAGTGT-AA-TTTT
17362544 ATTTTTAAGAAGG-TTAAAGTGTAATTTT
1 ATTTTTAA-AAGGATTAAAGTGTAATTTT
17362572 ATTTTTA
1 ATTTTTA
17362579 CTAATTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
27 6 0.19
28 17 0.55
29 7 0.23
30 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (28 bp):
ATTTTTAAAAGGATTAAAGTGTAATTTT
Found at i:17362816 original size:1 final size:1
Alignment explanation
Indices: 17362810--17362836 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
17362800 TTAATTACAT
17362810 GGGGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGG
17362837 AACTGGTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:17363403 original size:21 final size:21
Alignment explanation
Indices: 17363370--17363410 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17363360 CGAAAGAAAA
* *
17363370 AAAAATAATAGCAACAATAAC
1 AAAAACAAAAGCAACAATAAC
*
17363391 AAAAACAAAAGCAATAATAA
1 AAAAACAAAAGCAACAATAA
17363411 TACAAATGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.71, C:0.12, G:0.05, T:0.12
Consensus pattern (21 bp):
AAAAACAAAAGCAACAATAAC
Found at i:17367969 original size:16 final size:16
Alignment explanation
Indices: 17367948--17367978 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17367938 CAATAAAAAA
17367948 TAAAATTAAAATCCAT
1 TAAAATTAAAATCCAT
*
17367964 TAAAATTAAATTCCA
1 TAAAATTAAAATCCA
17367979 AATTACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (16 bp):
TAAAATTAAAATCCAT
Found at i:17368158 original size:21 final size:22
Alignment explanation
Indices: 17368133--17368182 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
17368123 GCTACTCCTA
* *
17368133 CCACGTCAACCGTCGCTTC-CG
1 CCACGTCAACCGCCACTTCTCG
17368154 CCACGTCAACCGCCACTTCTCG
1 CCACGTCAACCGCCACTTCTCG
17368176 CCACGTC
1 CCACGTC
17368183 GGCACTCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.16, C:0.50, G:0.16, T:0.18
Consensus pattern (22 bp):
CCACGTCAACCGCCACTTCTCG
Found at i:17374041 original size:62 final size:60
Alignment explanation
Indices: 17373917--17374052 Score: 170
Period size: 62 Copynumber: 2.3 Consensus size: 60
17373907 CCTAATTAAA
* *
17373917 ATTTTT-T-TTCACGTCTTTGCAACCCTTACTGTTTTTTTTTTCCGGTAATTACATTGCT
1 ATTTTTCTCTTCACGTCTTTACAACCCTTACTGTTTTTTTTTTCCGGCAATTACATTGCT
* * * *
17373975 ATTTTTCTCTTCACGTCTTTACAACCTCTTGCT-TTTATATTTTTTTCGGCAATTGCTTTGCT
1 ATTTTTCTCTTCACGTCTTTACAACC-CTTACTGTTT-T-TTTTTTCCGGCAATTACATTGCT
17374037 ATTTTTCTCTTCACGT
1 ATTTTTCTCTTCACGT
17374053 GAAGAATTGA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
58 6 0.09
59 1 0.01
60 19 0.28
61 6 0.09
62 35 0.52
ACGTcount: A:0.15, C:0.22, G:0.10, T:0.54
Consensus pattern (60 bp):
ATTTTTCTCTTCACGTCTTTACAACCCTTACTGTTTTTTTTTTCCGGCAATTACATTGCT
Found at i:17380185 original size:2 final size:2
Alignment explanation
Indices: 17380178--17380286 Score: 218
Period size: 2 Copynumber: 54.5 Consensus size: 2
17380168 GCGCACTTTT
17380178 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
17380220 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
17380262 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
17380287 TATATATATA
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 107 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17380595 original size:22 final size:22
Alignment explanation
Indices: 17380570--17380611 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17380560 GCTTGTACGG
*
17380570 GTTCAACACTTCGGTGCTCTCT
1 GTTCAACACTTCGGTACTCTCT
17380592 GTTCAACACTTCGGTACTCT
1 GTTCAACACTTCGGTACTCT
17380612 TTGGTGTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.17, C:0.31, G:0.17, T:0.36
Consensus pattern (22 bp):
GTTCAACACTTCGGTACTCTCT
Found at i:17382301 original size:21 final size:21
Alignment explanation
Indices: 17382272--17382311 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17382262 TCGATACTAG
*
17382272 ATTAAAGTATCAATACTTTGT
1 ATTAAAGTACCAATACTTTGT
* *
17382293 ATTAGAGTACCGATACTTT
1 ATTAAAGTACCAATACTTT
17382312 ACAATGGTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (21 bp):
ATTAAAGTACCAATACTTTGT
Found at i:17383826 original size:26 final size:26
Alignment explanation
Indices: 17383783--17383858 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
17383773 TCTCACCCCC
17383783 ATTTTACCCTTAGCAAAAATTTGACG
1 ATTTTACCCTTAGCAAAAATTTGACG
* * * * *
17383809 ATTTTACCTTTGGTAAAATTTTGATG
1 ATTTTACCCTTAGCAAAAATTTGACG
* * * *
17383835 ATTTTGCCCCTAGTAAAATTTTGA
1 ATTTTACCCTTAGCAAAAATTTGA
17383859 GAAAATATGC
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (26 bp):
ATTTTACCCTTAGCAAAAATTTGACG
Found at i:17388847 original size:25 final size:25
Alignment explanation
Indices: 17388813--17388962 Score: 140
Period size: 25 Copynumber: 6.0 Consensus size: 25
17388803 AGACAATGAA
17388813 GATATTCTGTCTAGCTCGTAAGAGT
1 GATATTCTGTCTAGCTCGTAAGAGT
*
17388838 GATATTCTGTCTGGCTCGTAAGAGT
1 GATATTCTGTCTAGCTCGTAAGAGT
* * *
17388863 GATATTCTGTCTGGCTTGTAAGAGC
1 GATATTCTGTCTAGCTCGTAAGAGT
* * * * *
17388888 GATATTCTTTTTGGCTTGTAAGA-A
1 GATATTCTGTCTAGCTCGTAAGAGT
* *
17388912 GATACTCTGTTTAGGCTCGTAAGAGT
1 GATATTCTGTCTA-GCTCGTAAGAGT
* * * *
17388938 TAAACTCTGTCTAGTCTCGTTAGAG
1 GATATTCTGTCTAG-CTCGTAAGAG
17388963 CTAAATTTTT
Statistics
Matches: 107, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.09
25 78 0.73
26 19 0.18
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (25 bp):
GATATTCTGTCTAGCTCGTAAGAGT
Found at i:17388872 original size:50 final size:49
Alignment explanation
Indices: 17388810--17388937 Score: 157
Period size: 50 Copynumber: 2.6 Consensus size: 49
17388800 GGAAGACAAT
17388810 GAAGATATTCTGTCTAGCTCGTAAGAGTGATATTCTGTCTGGCTCGTAA
1 GAAGATATTCTGTCTAGCTCGTAAGAGTGATATTCTGTCTGGCTCGTAA
* * * * * * *
17388859 GAGTGATATTCTGTCTGGCTTGTAAGAGCGATATTCTTTTTGGCTTGTAA
1 GA-AGATATTCTGTCTAGCTCGTAAGAGTGATATTCTGTCTGGCTCGTAA
* *
17388909 GAAGATACTCTGTTTAGGCTCGTAAGAGT
1 GAAGATATTCTGTCTA-GCTCGTAAGAGT
17388938 TAAACTCTGT
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
49 12 0.19
50 52 0.81
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.37
Consensus pattern (49 bp):
GAAGATATTCTGTCTAGCTCGTAAGAGTGATATTCTGTCTGGCTCGTAA
Found at i:17410559 original size:24 final size:24
Alignment explanation
Indices: 17410524--17410579 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
17410514 GAAACATTCA
*
17410524 GAATTGCAGTCACAAGTTGATCCT
1 GAATTGCGGTCACAAGTTGATCCT
17410548 GAATTGCGGTCACAAGTTGATCCT
1 GAATTGCGGTCACAAGTTGATCCT
17410572 GAATTGCG
1 GAATTGCG
17410580 TTCAAATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.29
Consensus pattern (24 bp):
GAATTGCGGTCACAAGTTGATCCT
Found at i:17415563 original size:12 final size:12
Alignment explanation
Indices: 17415548--17415592 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
17415538 AAGGAGTACG
*
17415548 AGAAGAAGAGAA
1 AGAAGAAGAGGA
*
17415560 AGAAGAAAAGGA
1 AGAAGAAGAGGA
17415572 AGAAGGAA-AGGA
1 AGAA-GAAGAGGA
17415584 AGAAGAAGA
1 AGAAGAAGA
17415593 AAGCATTGCC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 3 0.10
12 23 0.79
13 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (12 bp):
AGAAGAAGAGGA
Found at i:17416013 original size:17 final size:17
Alignment explanation
Indices: 17415987--17416031 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
17415977 GCATGCGTTT
17415987 ATTTTAATTGTCATTGC
1 ATTTTAATTGTCATTGC
* **
17416004 ATTTTTATTGTTTTTGC
1 ATTTTAATTGTCATTGC
*
17416021 ATTTTATTTGT
1 ATTTTAATTGT
17416032 TTTAGCATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.18, C:0.07, G:0.11, T:0.64
Consensus pattern (17 bp):
ATTTTAATTGTCATTGC
Found at i:17416032 original size:17 final size:17
Alignment explanation
Indices: 17416000--17416039 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
17415990 TTAATTGTCA
17416000 TTGCATTTTTATTGTTT
1 TTGCATTTTTATTGTTT
17416017 TTGCA-TTTTATTTGTTT
1 TTGCATTTTTA-TTGTTT
*
17416034 TAGCAT
1 TTGCAT
17416040 ATGCTTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.15, C:0.07, G:0.12, T:0.65
Consensus pattern (17 bp):
TTGCATTTTTATTGTTT
Found at i:17416611 original size:18 final size:17
Alignment explanation
Indices: 17416588--17416621 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
17416578 CAGTCGCATA
*
17416588 AAAAAGAGAGAGAAAGAG
1 AAAAAGAAAGA-AAAGAG
17416606 AAAAAGAAAGAAAAGA
1 AAAAAGAAAGAAAAGA
17416622 AAGAATATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAGAAAAGAG
Found at i:17423689 original size:51 final size:51
Alignment explanation
Indices: 17423574--17423813 Score: 284
Period size: 51 Copynumber: 4.6 Consensus size: 51
17423564 TTTCGTTTAA
* ** ** * *
17423574 TACTCATGATGACA-TATAGTCATCGGACCTCTTGTTCTGTATAGGAATTCATA
1 TACTCACGATGACACT-TAGTCATCGGACCT-TTAATCCATAAAGG-ATTCATT
* * * *
17423627 TACTCACGATGATACTGAGTCATCGGACCTTTAATCCATCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
* *
17423678 TACTCACGATGACACTTAGTCATTGGACCTTAAATCCATAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
* *
17423729 TACTCACGATAACATTTAGTCATCGGACCTTTAATCCATAAAGGAATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGG-ATTCATT
*
17423781 TACTCACGATGACACTTAGTCATCAGATCCTTT
1 TACTCACGATGACACTTAGTCATCGGA-CCTTT
17423814 CGTTTGTAGC
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
51 91 0.57
52 38 0.24
53 30 0.19
54 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.33
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
Found at i:17430935 original size:51 final size:51
Alignment explanation
Indices: 17430868--17431061 Score: 262
Period size: 51 Copynumber: 3.8 Consensus size: 51
17430858 TCATATAGGA
* * * * * *
17430868 ATTCATATACTCACGATGATACTGAGTCATCGGACCTTTAATCCATCATGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGG
* * * *
17430919 ATTCATTTACTCACGATGGCACTTAGTCATCAGACCATAAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGG
* *
17430970 ATTCATTTACTCACGATTACACTTAGTCATCGAACCTTTAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGG
17431021 TATTCATTTACTCACGATGACACTTAGTCATCGGATCCTTT
1 -ATTCATTTACTCACGATGACACTTAGTCATCGGA-CCTTT
17431062 CATTTATAGC
Statistics
Matches: 123, Mismatches: 18, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
51 86 0.70
52 32 0.26
53 5 0.04
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (51 bp):
ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGG
Found at i:17431046 original size:52 final size:51
Alignment explanation
Indices: 17430824--17431053 Score: 248
Period size: 51 Copynumber: 4.5 Consensus size: 51
17430814 TCGTTTAAGG
* ** * * *
17430824 CTCACGATGACA-TATAGTCATTGAACCTCTTGTTTCATATAGGAATTCATATA
1 CTCACGATGACACT-TAGTCATCGAACCT-TTAATCCATAAAGG-ATTCATTTA
* * * * *
17430877 CTCACGATGATACTGAGTCATCGGACCTTTAATCCATCATGGATTCATTTA
1 CTCACGATGACACTTAGTCATCGAACCTTTAATCCATAAAGGATTCATTTA
* * * *
17430928 CTCACGATGGCACTTAGTCATC-AGACCATAAATCCGTAAAGGATTCATTTA
1 CTCACGATGACACTTAGTCATCGA-ACCTTTAATCCATAAAGGATTCATTTA
* *
17430979 CTCACGATTACACTTAGTCATCGAACCTTTAATCCGTAAAGGTATTCATTTA
1 CTCACGATGACACTTAGTCATCGAACCTTTAATCCATAAAGG-ATTCATTTA
17431031 CTCACGATGACACTTAGTCATCG
1 CTCACGATGACACTTAGTCATCG
17431054 GATCCTTTCA
Statistics
Matches: 148, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
51 85 0.57
52 40 0.27
53 22 0.15
54 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (51 bp):
CTCACGATGACACTTAGTCATCGAACCTTTAATCCATAAAGGATTCATTTA
Found at i:17435213 original size:15 final size:18
Alignment explanation
Indices: 17435193--17435232 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 18
17435183 TACTGATTAT
17435193 AATTTCCTT-G-TCGAA-
1 AATTTCCTTGGCTCGAAG
*
17435208 AATTTCTTTGGCTCGAAG
1 AATTTCCTTGGCTCGAAG
17435226 AATTTCC
1 AATTTCC
17435233 ATATCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 8 0.40
16 1 0.05
17 5 0.25
18 6 0.30
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (18 bp):
AATTTCCTTGGCTCGAAG
Found at i:17441004 original size:25 final size:25
Alignment explanation
Indices: 17440967--17441041 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
17440957 AGACGATGAA
* *
17440967 GATATTTTGTTTGGCTCGTAAGAGC
1 GATATTCTATTTGGCTCGTAAGAGC
* *
17440992 GATATTCTATTTGGCTTGTAAGA-A
1 GATATTCTATTTGGCTCGTAAGAGC
*
17441016 GATACTCTATTTAGGCTCGTAAGAGC
1 GATATTCTATTT-GGCTCGTAAGAGC
17441042 TAAACTCTGT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
24 11 0.27
25 30 0.73
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.37
Consensus pattern (25 bp):
GATATTCTATTTGGCTCGTAAGAGC
Found at i:17451660 original size:26 final size:26
Alignment explanation
Indices: 17451631--17451688 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
17451621 TTTAGTCTTC
*
17451631 CAGAATTTAGGTCATACGAGCCCAGA
1 CAGAATTTAGCTCATACGAGCCCAGA
* ** *
17451657 CAGAGTTTAGCTTTTACGAGCCCCGA
1 CAGAATTTAGCTCATACGAGCCCAGA
17451683 CAGAAT
1 CAGAAT
17451689 ATCGCTCTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGAATTTAGCTCATACGAGCCCAGA
Found at i:17451699 original size:26 final size:26
Alignment explanation
Indices: 17451631--17451701 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
17451621 TTTAGTCTTC
* * *
17451631 CAGAATTTAGGTCATACGAGCCCAGA
1 CAGAATATAGCTCTTACGAGCCCAGA
* * * *
17451657 CAGAGTTTAGCTTTTACGAGCCCCGA
1 CAGAATATAGCTCTTACGAGCCCAGA
*
17451683 CAGAATATCGCTCTTACGA
1 CAGAATATAGCTCTTACGA
17451702 ACTATAGTTT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (26 bp):
CAGAATATAGCTCTTACGAGCCCAGA
Found at i:17454178 original size:17 final size:17
Alignment explanation
Indices: 17454158--17454191 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17454148 CTCACTCGCT
*
17454158 ATTTCAATAGCATTTTC
1 ATTTCAATAACATTTTC
17454175 ATTTCAATAACATTTTC
1 ATTTCAATAACATTTTC
17454192 CATATCAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:17460462 original size:100 final size:100
Alignment explanation
Indices: 17460324--17460527 Score: 291
Period size: 100 Copynumber: 2.0 Consensus size: 100
17460314 ACACACCAAT
* * * *
17460324 TTGGCACCGAATGCCTCATCGGATAAATCCGAAGCAAATATTTGTGCCCAACGCTATAATGAGTT
1 TTGGCACCCAATGCCTCATCGGATAAATCCAAAGCAAATATTTGCGCCCAACACTATAATGAGTT
* *
17460389 AACACCCAGTGTCTTATCGGTTAAACCGAAGTAAA
66 AACACCCAGTGTCTCATCGATTAAACCGAAGTAAA
* * *
17460424 TTGGCACCCAGTGCCTCATCGGATAAATCTAAAGCAAATATTTGCGCCCAGCACTATAATGAGTT
1 TTGGCACCCAATGCCTCATCGGATAAATCCAAAGCAAATATTTGCGCCCAACACTATAATGAGTT
** * *
17460489 GGCACCCAGTGTCTCATCTATTAAACCGAATTAAA
66 AACACCCAGTGTCTCATCGATTAAACCGAAGTAAA
17460524 TTGG
1 TTGG
17460528 AACCTAGTTC
Statistics
Matches: 91, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
100 91 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (100 bp):
TTGGCACCCAATGCCTCATCGGATAAATCCAAAGCAAATATTTGCGCCCAACACTATAATGAGTT
AACACCCAGTGTCTCATCGATTAAACCGAAGTAAA
Found at i:17461495 original size:28 final size:29
Alignment explanation
Indices: 17461464--17461548 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 29
17461454 TTATTTTTTA
17461464 TTATAATAATATATA-ATAATATTACTAT
1 TTATAATAATATATACATAATATTACTAT
* *
17461492 TTATCAT-ATAT-TAACACTAATA-TAATAT
1 TTATAATAATATAT-ACA-TAATATTACTAT
*
17461520 TTATAATATATATATATATATATATTACT
1 TTATAATA-ATATATACATA-ATATTACT
17461549 TTGACCATCG
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
26 1 0.02
27 5 0.11
28 18 0.41
29 7 0.16
30 9 0.20
31 4 0.09
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (29 bp):
TTATAATAATATATACATAATATTACTAT
Found at i:17463834 original size:18 final size:18
Alignment explanation
Indices: 17463811--17463853 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
17463801 ACAAAGTTGT
*
17463811 GAGCTCATC-AAAAAGTGC
1 GAGCTCA-CAAAAAAGGGC
17463829 GAGCTCACAAAAAAGGGC
1 GAGCTCACAAAAAAGGGC
17463847 GAGCTCA
1 GAGCTCA
17463854 ACCAAAGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.12
Consensus pattern (18 bp):
GAGCTCACAAAAAAGGGC
Found at i:17463839 original size:17 final size:17
Alignment explanation
Indices: 17463811--17463875 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 17
17463801 ACAAAGTTGT
17463811 GAGCTCATCAAAAAGTGC
1 GAGCTCA-CAAAAAGTGC
*
17463829 GAGCTCACAAAAAAGGGC
1 GAGCTCAC-AAAAAGTGC
*
17463847 GAGCTCA-ACCAAAGATGC
1 GAGCTCACA-AAAAG-TGC
*
17463865 AAGCTCACAAA
1 GAGCTCACAAA
17463876 GATTGTGAGC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 1 0.03
17 5 0.13
18 31 0.82
19 1 0.03
ACGTcount: A:0.43, C:0.25, G:0.22, T:0.11
Consensus pattern (17 bp):
GAGCTCACAAAAAGTGC
Found at i:17464120 original size:3 final size:3
Alignment explanation
Indices: 17464112--17464148 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
17464102 AGTTGTAATA
17464112 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
17464149 GTTGTTGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:17464153 original size:3 final size:3
Alignment explanation
Indices: 17464147--17464193 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
17464137 ATTATTATTA
17464147 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
17464194 AAACTAAGCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:17475433 original size:20 final size:19
Alignment explanation
Indices: 17475405--17475459 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 19
17475395 TCACGTCAAT
*
17475405 AAATAATTTTAAAATTATTA
1 AAATTATTTTAAAATTA-TA
17475425 AAATTATTTTTTTAAAA-TATA
1 AAATTA---TTTTAAAATTATA
17475446 AAA-TATTTTAAAAT
1 AAATTATTTTAAAAT
17475460 ATTTTTTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
17 8 0.27
20 7 0.23
21 5 0.17
22 2 0.07
23 8 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAATTATTTTAAAATTATA
Found at i:17475441 original size:23 final size:20
Alignment explanation
Indices: 17475411--17475454 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 20
17475401 CAATAAATAA
17475411 TTTTAAAATTATTAAAATTATTT
1 TTTTAAAA-TA-TAAAA-TATTT
17475434 TTTTAAAATATAAAATATTT
1 TTTTAAAATATAAAATATTT
17475454 T
1 T
17475455 AAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 5 0.24
22 2 0.10
23 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAAAATATAAAATATTT
Found at i:17475465 original size:29 final size:30
Alignment explanation
Indices: 17475414--17475485 Score: 112
Period size: 29 Copynumber: 2.4 Consensus size: 30
17475404 TAAATAATTT
17475414 TAAAATTATTAAAATTATTTTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTTAAAATA
*
17475444 TAAAATATTTTAAAA-TA-TTTTTTAAAATA
1 TAAAAT-TATTAAAATTATTTTTTTAAAATA
17475473 TAAAATTATTAAA
1 TAAAATTATTAAA
17475486 TAATTTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 6 0.15
29 18 0.46
30 8 0.21
31 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (30 bp):
TAAAATTATTAAAATTATTTTTTTAAAATA
Found at i:17476375 original size:6 final size:6
Alignment explanation
Indices: 17476366--17476423 Score: 53
Period size: 6 Copynumber: 9.3 Consensus size: 6
17476356 AAAGGAAAAT
* ** * *
17476366 AAGGGG AAGGGG AAGGGG AAGGGA AAGGCA AAGGGGGG AAGGAG AAGGAG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AA--GGGG AAGGGG AAGGGG
17476416 AAGGGG AA
1 AAGGGG AA
17476424 CAGGAAAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
6 40 0.91
8 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.57, T:0.00
Consensus pattern (6 bp):
AAGGGG
Done.