Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 47 of 187
Found at i:14200224 original size:17 final size:17
Alignment explanation
Indices: 14200202--14200234 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14200192 AATTACATCT
14200202 TTTAGTGTTTATAATTC
1 TTTAGTGTTTATAATTC
14200219 TTTAGTGTTTATAATT
1 TTTAGTGTTTATAATT
14200235 AATATGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.03, G:0.12, T:0.61
Consensus pattern (17 bp):
TTTAGTGTTTATAATTC
Found at i:14201876 original size:5 final size:5
Alignment explanation
Indices: 14201866--14201892 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
14201856 GATTCTTGTT
14201866 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
14201893 GGCAAGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:14203585 original size:43 final size:44
Alignment explanation
Indices: 14203514--14203637 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 44
14203504 TGACCTATAG
* * * * * *
14203514 TGGCGTTTGTTGTAGAAGTGCCGCTAAAGGTCATGGTATTT-CG-
1 TGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGT-TTTGAGC
** *
14203557 TGGCGTTTGTGGGTAAAGCGCCATTAAAGGTCATGGTTTTGAGC
1 TGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGTTTTGAGC
*
14203601 TGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGT
1 TGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGT
14203638 CTTTAGCGGC
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
42 3 0.04
43 31 0.46
44 33 0.49
ACGTcount: A:0.21, C:0.15, G:0.34, T:0.31
Consensus pattern (44 bp):
TGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGTTTTGAGC
Found at i:14203619 original size:44 final size:43
Alignment explanation
Indices: 14203511--14203648 Score: 143
Period size: 43 Copynumber: 3.2 Consensus size: 43
14203501 TTATGACCTA
* * * * *
14203511 TAGTGGCGTTTGTTGTAGAAGTGCCGCTAAAGGTCATGGTATT
1 TAGTGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGTATT
* ** *
14203554 TCGTGGCGTTTGTGGGTAAAGCGCCATTAAAGGTCATGGT-TT
1 TAGTGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGTATT
* *
14203596 TGAGCTGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTCTT
1 T-AG-TGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGTATT
*
14203641 TAGCGGCG
1 TAGTGGCG
14203649 CTTTTCCCAC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
42 3 0.04
43 37 0.47
44 35 0.45
45 3 0.04
ACGTcount: A:0.20, C:0.15, G:0.34, T:0.30
Consensus pattern (43 bp):
TAGTGGCGTTTGTGGAAAAAGCGCCACTAAAGGTCATGGTATT
Found at i:14204332 original size:40 final size:38
Alignment explanation
Indices: 14204245--14204341 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 38
14204235 GCGTTTGGAC
*
14204245 GAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCAAT
1 GAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCAAT
* * * *
14204283 TAACTAAACGCCGCTAAATATCAAGCATTAGCGGTGTTCCAT
1 GAA--AAACGCCGCTAAAAATCAAGCATTAGCGGCG--CAAT
*
14204325 GAAAAACGCCGCCAAAA
1 GAAAAACGCCGCTAAAA
14204342 GTTGGGCAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
38 2 0.04
40 40 0.85
42 5 0.11
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (38 bp):
GAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCAAT
Found at i:14204712 original size:113 final size:114
Alignment explanation
Indices: 14204411--14205064 Score: 671
Period size: 114 Copynumber: 5.8 Consensus size: 114
14204401 TTGCCACAAT
* * * *
14204411 GCGCCGCGAAATCTCTTAACCAAAACGCAGTGTTTTCGTCTTGATGTATACTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * * *****
14204476 ATTATGGGAAAACGCCGCTACA-G-C-GTATTACCGGCGGCTTCCAAAAA
66 CTTATAGGAAAACGCCGCTAAAGGACAGTAATAGCGGC-GCTTTGTGGAA
** * * * * * *
14204523 GTACCGCAAAATATCTTAACCAAAACGCATCGTTTCGGTCTTGATGTATCCTAAAAGTAGTGGCA
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* ** * *
14204588 TTTACGGGAAAACGCCGTTAAAGGACAGTAATAGCGGCGCTTTTTGGAA
66 CTTATAGGAAAACGCCGCTAAAGGACAGTAATAGCGGCGCTTTGTGGAA
* *
14204637 GCGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTAT-CTTAGAATTAGTGGC
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATAC-TAGAATTAGTGGC
* * *
14204700 GTTTATAGGAAAACGCCG-TAAAAGGACAGTAATAGCGGCACTTTATGGAA
65 GCTTATAGGAAAACGCCGCT-AAAGGACAGTAATAGCGGCGCTTTGTGGAA
* * *
14204750 GCGCCGCAAAATATCTGAACCAAAACACATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * * * * * * *
14204815 CCTA-CGGTGAAACGCCGCTAAAGTATAGTATTAGCGACGATTCGTGGCTA
66 CTTATAGG-AAAACGCCGCTAAAGGACAGTAATAGCGGCGCTTTGTGG-AA
*
14204865 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATA-TAAAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* * * * * * *
14204929 CTTACAGTAAACCGCCGCGAAAGAATATTAATAGCGGCGCTTTGTGAGAA
66 CTTATAGGAAAACGCCGCTAAAGGACAGTAATAGCGGCGCTTTGTG-GAA
**
14204979 GCGCCGCAAAATATCTTAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
* *
14205044 C-T-TAGGGAAACGCCGTTAAAG
66 CTTATAGGAAAACGCCGCTAAAG
14205065 CATAGCAAAA
Statistics
Matches: 449, Mismatches: 80, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
112 73 0.16
113 112 0.25
114 189 0.42
115 75 0.17
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (114 bp):
GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCG
CTTATAGGAAAACGCCGCTAAAGGACAGTAATAGCGGCGCTTTGTGGAA
Found at i:14204773 original size:227 final size:228
Alignment explanation
Indices: 14204411--14205064 Score: 723
Period size: 227 Copynumber: 2.9 Consensus size: 228
14204401 TTGCCACAAT
* * * * * *
14204411 GCGCCGCGAAATCTCTTAACCAAAACGCAGTGTTTTCGTCTTGATGTATACTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATA-TAAAATTAGTGGCG
* ** * * * * * * * **
14204476 ATTATGGGAAAACGCCGCTACAG--C-GTATTACCGGCGGCTTCCA--AAAAGTACCGCAAAATA
65 CTTACAGGAAAACGCCGCAAAAGAACAGTAATAGCGGC-ACTT-TATGAGAAGCGCCGCAAAATA
* * * * **
14204536 TCTTAACCAAAACGCATCGTTTCGGTCTTGATGTATCCTAAAAGTAGTGGCATTTACGGGAAAAC
128 TCTTAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGG-AAAC
* * **
14204601 GCCGTTAAAGGACAGTAATAGCGGCGCTTTTTGG-AA
192 GCCGTTAAAGGACAGTAATAGCGACGATTCGTGGCAA
* *
14204637 GCGCCGCAAAATATCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTATCTTAGAATTAGTGGCG
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTAT-ATAAAATTAGTGGCG
* * * *
14204701 TTTATAGGAAAACGCCGTAAAAGGACAGTAATAGCGGCACTTTATG-GAAGCGCCGCAAAATATC
65 CTTACAGGAAAACGCCGCAAAAGAACAGTAATAGCGGCACTTTATGAGAAGCGCCGCAAAATATC
* * *
14204765 TGAACCAAAACACATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCCTACGGTGAAACGC
130 TTAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGG-GAAACGC
* * * * *
14204830 CGCTAAAGTATAGTATTAGCGACGATTCGTGGCTA
194 CGTTAAAGGACAGTAATAGCGACGATTCGTGGCAA
* *
14204865 GCGCCGCAAAATATCTTAACCAAAACGCAGCGTTTTGGTCTTGATGTATATAAAATTAGTGGCGC
1 GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATATAAAATTAGTGGCGC
* * * * * * *
14204930 TTACAGTAAACCGCCGCGAAAGAATATTAATAGCGGCGCTTTGTGAGAAGCGCCGCAAAATATCT
66 TTACAGGAAAACGCCGCAAAAGAACAGTAATAGCGGCACTTTATGAGAAGCGCCGCAAAATATCT
*
14204995 TAACCAAAACGCATAGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTA-GGGAAACGCCG
131 TAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAACGCCG
14205059 TTAAAG
196 TTAAAG
14205065 CATAGCAAAA
Statistics
Matches: 362, Mismatches: 56, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
225 46 0.13
226 30 0.08
227 111 0.31
228 92 0.25
229 83 0.23
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (228 bp):
GCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGGTCTTGAGGTATATAAAATTAGTGGCGC
TTACAGGAAAACGCCGCAAAAGAACAGTAATAGCGGCACTTTATGAGAAGCGCCGCAAAATATCT
TAACCAAAACGCATCGTTTTGGTCTTGATGTATACTAGAATTAGTGGCGCTTACGGGAAACGCCG
TTAAAGGACAGTAATAGCGACGATTCGTGGCAA
Found at i:14205502 original size:22 final size:22
Alignment explanation
Indices: 14205477--14205541 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
14205467 TTTATGATGT
* * *
14205477 AGGTTTTGGTGTTTTGGGTTTA
1 AGGTTTAGGAGTTTGGGGTTTA
14205499 AGGTTTAGGAGTTTGGGGTTTA
1 AGGTTTAGGAGTTTGGGGTTTA
*
14205521 AGGTTTAAG-GTTTGGGGTTTA
1 AGGTTTAGGAGTTTGGGGTTTA
14205542 CGCTGCTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 12 0.31
22 27 0.69
ACGTcount: A:0.15, C:0.00, G:0.38, T:0.46
Consensus pattern (22 bp):
AGGTTTAGGAGTTTGGGGTTTA
Found at i:14211438 original size:25 final size:25
Alignment explanation
Indices: 14211429--14211515 Score: 138
Period size: 25 Copynumber: 3.5 Consensus size: 25
14211419 AGATAATTCA
* *
14211429 CCACAAAGGCTTTATAGATAACTTG
1 CCACAAAGGCTTTACAAATAACTTG
*
14211454 TCACAAAGGCTTTACAAATAACTTG
1 CCACAAAGGCTTTACAAATAACTTG
*
14211479 CCACAAAGACTTTACAAATAACTTG
1 CCACAAAGGCTTTACAAATAACTTG
14211504 CCACAAAGGCTT
1 CCACAAAGGCTT
14211516 CGGTTTGGTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (25 bp):
CCACAAAGGCTTTACAAATAACTTG
Found at i:14211464 original size:50 final size:50
Alignment explanation
Indices: 14211410--14211515 Score: 133
Period size: 50 Copynumber: 2.1 Consensus size: 50
14211400 TACGCTACAT
* * * * * *
14211410 AGGCTTTTCAGATAA-TTCACCACAAAGGCTTTATAGATAACTTGTCACAA
1 AGGCTTTACAAATAACTT-ACCACAAAGACTTTACAAATAACTTGCCACAA
*
14211460 AGGCTTTACAAATAACTTGCCACAAAGACTTTACAAATAACTTGCCACAA
1 AGGCTTTACAAATAACTTACCACAAAGACTTTACAAATAACTTGCCACAA
14211510 AGGCTT
1 AGGCTT
14211516 CGGTTTGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 46 0.96
51 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (50 bp):
AGGCTTTACAAATAACTTACCACAAAGACTTTACAAATAACTTGCCACAA
Found at i:14213845 original size:33 final size:33
Alignment explanation
Indices: 14213782--14213845 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
14213772 AACTACTACA
* *
14213782 ATTCAGTTCAGGTAAGTTCGTTCGGATTGTAGT
1 ATTCAGTCCAGGTAAGTTCGTTCAGATTGTAGT
* *
14213815 ATTCAGTCCAGGTAAGTTTGTTCAGCTTGTA
1 ATTCAGTCCAGGTAAGTTCGTTCAGATTGTA
14213846 ATTTAACATC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (33 bp):
ATTCAGTCCAGGTAAGTTCGTTCAGATTGTAGT
Found at i:14216649 original size:49 final size:49
Alignment explanation
Indices: 14216557--14216652 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
14216547 ATAGAAATCA
* * *
14216557 AATAAATTCTGTTGAACGGCAGGAATAGAATCATGAAACAGAATTGTGG
1 AATAAATCCTGTTGAACAGCAGGAATAAAATCATGAAACAGAATTGTGG
* *
14216606 AATAAATCCTGTTGAACAGCAGGAATAAAAATCCTG-AATAGAATTGT
1 AATAAATCCTGTTGAACAGCAGGAAT-AAAATCATGAAACAGAATTGT
14216653 TAAATTAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
49 34 0.83
50 7 0.17
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (49 bp):
AATAAATCCTGTTGAACAGCAGGAATAAAATCATGAAACAGAATTGTGG
Found at i:14222496 original size:11 final size:10
Alignment explanation
Indices: 14222462--14222501 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
14222452 TAGAAAGTTA
14222462 TAAAAATTAT
1 TAAAAATTAT
* *
14222472 TAAAAGTTAA
1 TAAAAATTAT
14222482 TAAAAATATAT
1 TAAAAAT-TAT
14222493 TAAAAATTA
1 TAAAAATTA
14222502 GAAAAAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:14222507 original size:21 final size:19
Alignment explanation
Indices: 14222463--14222579 Score: 67
Period size: 21 Copynumber: 5.7 Consensus size: 19
14222453 AGAAAGTTAT
*
14222463 AAAAAT-TATTAAAAGTTAA
1 AAAAATATA-TAAAAATTAA
14222482 TAAAAATATATTAAAAATTAGA
1 -AAAAATATA-TAAAAATTA-A
*
14222504 AAAAAAATGATAAAAATCGTAA
1 AAAAATAT-ATAAAAAT--TAA
**
14222526 AAGAAAT-TATAAAAAATTGT
1 AA-AAATATAT-AAAAATTAA
* * *
14222546 AAAATTTTATAAAAATCATA
1 AAAAATATATAAAAATTA-A
14222566 AAAAATATATAAAA
1 AAAAATATATAAAA
14222580 TGCATCAAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
19 9 0.12
20 24 0.31
21 27 0.35
22 12 0.16
23 5 0.06
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAAATATATAAAAATTAA
Found at i:14222527 original size:20 final size:20
Alignment explanation
Indices: 14222504--14222579 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 20
14222494 AAAAATTAGA
*
14222504 AAAAAAATGATAAAAATCGT
1 AAAAAAATTATAAAAATCGT
*
14222524 AAAAGAAATTATAAAAAATTGT
1 AAAA-AAATTAT-AAAAATCGT
** *
14222546 -AAAATTTTATAAAAATCAT
1 AAAAAAATTATAAAAATCGT
14222565 -AAAAAATATATAAAA
1 AAAAAAAT-TATAAAA
14222580 TGCATCAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
19 12 0.27
20 16 0.36
21 9 0.20
22 8 0.18
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAAAATTATAAAAATCGT
Found at i:14222850 original size:10 final size:10
Alignment explanation
Indices: 14222828--14222930 Score: 52
Period size: 10 Copynumber: 10.2 Consensus size: 10
14222818 TGCTTACGAC
*
14222828 TTTATAAAAT
1 TTTATAAATT
14222838 TTTATAAATT
1 TTTATAAATT
* *
14222848 TTTTTACGATT
1 TTTATA-AATT
14222859 TTTAT-AATT
1 TTTATAAATT
*
14222868 TTTAATAAA-A
1 TTT-ATAAATT
14222878 TTTA-AATATT
1 TTTATAA-ATT
* *
14222888 GTTTTTATATT
1 -TTTATAAATT
*
14222899 TTTATTAAAAT
1 TTTA-TAAATT
*
14222910 TTAAT-AATT
1 TTTATAAATT
*
14222919 TTTATAACTT
1 TTTATAAATT
14222929 TT
1 TT
14222931 ATTTTTTATT
Statistics
Matches: 68, Mismatches: 16, Indels: 18
0.67 0.16 0.18
Matches are distributed among these distances:
8 2 0.03
9 15 0.22
10 28 0.41
11 22 0.32
12 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (10 bp):
TTTATAAATT
Found at i:14222855 original size:30 final size:28
Alignment explanation
Indices: 14222808--14222873 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
14222798 TCTTTACATT
14222808 TTTTATAATTTGCTTACGACTTTATAAAA
1 TTTTATAATTTGCTTACGA-TTTATAAAA
** * *
14222837 TTTTATAAATTTTTTTACGATTTTTATAA
1 TTTTAT-AATTTGCTTACGATTTATAAAA
14222866 TTTT-TAAT
1 TTTTATAAT
14222874 AAAATTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 3 0.09
28 1 0.03
29 17 0.53
30 11 0.34
ACGTcount: A:0.32, C:0.06, G:0.05, T:0.58
Consensus pattern (28 bp):
TTTTATAATTTGCTTACGATTTATAAAA
Found at i:14222876 original size:41 final size:41
Alignment explanation
Indices: 14222831--14222930 Score: 100
Period size: 41 Copynumber: 2.5 Consensus size: 41
14222821 TTACGACTTT
**
14222831 ATAAAATTTTATAAATTTTTTTACGATTTTTA-TAATTTTTA
1 ATAAAATTTTATAAATTTTTTTA-GATTTTTATTAAAATTTA
*
14222872 ATAAAA-TTTA-AATATTGTTTTTATATTTTTATTAAAATTTA
1 ATAAAATTTTATAA-ATT-TTTTTAGATTTTTATTAAAATTTA
* *
14222913 AT-AATTTTTATAACTTTT
1 ATAAAATTTTATAAATTTT
14222931 ATTTTTTATT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
39 2 0.04
40 18 0.37
41 27 0.55
42 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (41 bp):
ATAAAATTTTATAAATTTTTTTAGATTTTTATTAAAATTTA
Found at i:14223743 original size:3 final size:3
Alignment explanation
Indices: 14223735--14223767 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
14223725 CGATTTTCTC
14223735 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14223768 ATTAATTGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14228272 original size:74 final size:75
Alignment explanation
Indices: 14228078--14228297 Score: 352
Period size: 75 Copynumber: 2.9 Consensus size: 75
14228068 AGCTTTACTA
* * *
14228078 ACCTAATATTAAAACTATAAATAGTTAACTAATGATACACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
14228143 ATACTTTCCC
66 ATACTTTCCC
* *
14228153 ACCTAATATTAAAATAATAAATAGTTAACTAATCATATACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
14228218 ATACTTT-CC
66 ATACTTTCCC
* * * *
14228227 ACCTAATATTATAACCATAAATAGTTAACTGATAATGTACTTACCATTTATCAAATAAAAATGAT
1 ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
14228292 ATACTT
66 ATACTT
14228298 GCCAATTTTG
Statistics
Matches: 135, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
74 67 0.50
75 68 0.50
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (75 bp):
ACCTAATATTAAAACAATAAATAGTTAACTAATAATATACTTACCATTTATCAAATAAAAATGAT
ATACTTTCCC
Found at i:14232191 original size:99 final size:103
Alignment explanation
Indices: 14232025--14232243 Score: 275
Period size: 99 Copynumber: 2.1 Consensus size: 103
14232015 GGGAATGAGA
* **
14232025 TCCCATGTAAGACCATGTCTAGGACATGGCATTGACATCATTGAGATTATGAGAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGACATCA-CGAG--TATGAGAGGTCCCACATA
* * **
14232090 AGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
63 AGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAAC
* * *
14232131 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCA-C-CGAG-ATGAGAGGTCCCCCATAAGA
1 TCCCATGTAAGACCATGTCTAGGACATGGCATTGACATCACGAGTATGAGAGGTCCCACATAAGA
* *
14232192 CCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
66 CCATGTCTAGGACATGGCATGGGCACCGAGATGAGAAC
14232230 TCCCATGTAAGACC
1 TCCCATGTAAGACC
14232244 TTATTTGGGA
Statistics
Matches: 101, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
99 63 0.62
102 3 0.03
104 1 0.01
105 14 0.14
106 20 0.20
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (103 bp):
TCCCATGTAAGACCATGTCTAGGACATGGCATTGACATCACGAGTATGAGAGGTCCCACATAAGA
CCATGTCTAGGACATGGCATGGGCACCGAGATGAGAAC
Found at i:14232253 original size:50 final size:50
Alignment explanation
Indices: 14232025--14232243 Score: 260
Period size: 50 Copynumber: 4.3 Consensus size: 50
14232015 GGGAATGAGA
* * * *
14232025 TCCCATGTAAGACCATGTCTAGGACATGGCATTGACATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATGAGAGG
*
14232081 TCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
14232131 TCCCATGTAAGACCATGTCT-GGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
*** * * * **
14232180 TCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
14232230 TCCCATGTAAGACC
1 TCCCATGTAAGACC
14232244 TTATTTGGGA
Statistics
Matches: 148, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
49 46 0.31
50 63 0.43
53 3 0.02
55 1 0.01
56 35 0.24
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
Found at i:14235139 original size:18 final size:19
Alignment explanation
Indices: 14235118--14235159 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
14235108 ATTTTAATTT
*
14235118 TTTTATATATTT-AAATGA
1 TTTTATATATTTGAAATAA
* *
14235136 TTTTTTATTTTTGAAATAA
1 TTTTATATATTTGAAATAA
14235155 TTTTA
1 TTTTA
14235160 GTTTTTTCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TTTTATATATTTGAAATAA
Found at i:14235152 original size:19 final size:20
Alignment explanation
Indices: 14235116--14235158 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
14235106 GAATTTTAAT
*
14235116 TTTTTTATATATTTAAATGA
1 TTTTTTATATATTTAAATAA
14235136 TTTTTTAT-T-TTTGAAATAA
1 TTTTTTATATATTT-AAATAA
14235155 TTTT
1 TTTT
14235159 AGTTTTTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 10 0.48
20 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTTTTATATATTTAAATAA
Found at i:14238481 original size:19 final size:19
Alignment explanation
Indices: 14238444--14238480 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14238434 GAAGTAATTT
*
14238444 TTATAATGTTTTATAAAAA
1 TTATAATGTTGTATAAAAA
14238463 TTATAAT-TTGTATAAAAA
1 TTATAATGTTGTATAAAAA
14238481 ACTTTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (19 bp):
TTATAATGTTGTATAAAAA
Found at i:14239195 original size:23 final size:22
Alignment explanation
Indices: 14239142--14239195 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
14239132 TAAGATGGCC
*
14239142 ATATAAAAATTAGTAAATAAAA
1 ATATTAAAATTAGTAAATAAAA
* *
14239164 ATATATAAAATTATTAAATATTAA
1 ATAT-TAAAATTAGTAAATA-AAA
14239188 ATATTAAA
1 ATATTAAA
14239196 TTAAAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 17 0.63
24 6 0.22
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATTAAAATTAGTAAATAAAA
Found at i:14244879 original size:12 final size:11
Alignment explanation
Indices: 14244857--14244884 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
14244847 CATTTGCTTC
14244857 TTTTCTTTTTT
1 TTTTCTTTTTT
14244868 TTTTCTTTTTT
1 TTTTCTTTTTT
14244879 TTTTCT
1 TTTTCT
14244885 GCAGGGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:14252283 original size:3 final size:3
Alignment explanation
Indices: 14252275--14252307 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
14252265 ACAAAATTTA
*
14252275 TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14252308 CAATTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:14253582 original size:26 final size:25
Alignment explanation
Indices: 14253552--14253605 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
14253542 AATACCTTTT
*
14253552 AATTAAGTAATA-TAAATTATTTATAA
1 AATTAA-TAATACTAAAATATTT-TAA
14253578 AATTAATAATACTTAAAATATTTTAA
1 AATTAATAATAC-TAAAATATTTTAA
14253604 AA
1 AA
14253606 ACTTAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 5 0.20
26 11 0.44
27 9 0.36
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (25 bp):
AATTAATAATACTAAAATATTTTAA
Found at i:14253666 original size:33 final size:33
Alignment explanation
Indices: 14253627--14253696 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
14253617 GTAATAAATT
* *
14253627 ATATTTAAATAATTTAATATAACGATACATGAA
1 ATATTTAAATAATTTAATATAACAATACATAAA
* *
14253660 ATATTTAAATAATTTAATGTAATAATACATAAA
1 ATATTTAAATAATTTAATATAACAATACATAAA
14253693 ATAT
1 ATAT
14253697 AAATTAATCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (33 bp):
ATATTTAAATAATTTAATATAACAATACATAAA
Found at i:14261416 original size:22 final size:22
Alignment explanation
Indices: 14261388--14261469 Score: 119
Period size: 22 Copynumber: 3.7 Consensus size: 22
14261378 CACAATCCAA
14261388 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
14261410 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
* * * **
14261432 CATGAGGGTTTAGTTCGTTAAA
1 CATGAGAGCTTAGTACGTTAGC
14261454 CATGAGAGCTTAGTAC
1 CATGAGAGCTTAGTAC
14261470 TGAAAGAGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:14264397 original size:32 final size:32
Alignment explanation
Indices: 14264361--14264425 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 32
14264351 TAATAAGGTA
* *
14264361 AGATTTCTATCCTTAATTATAGGATTTCCAAC
1 AGATTTCTATCATTAATTATAGGACTTCCAAC
*
14264393 AGATTTCTATCATTAATTATAGGGCTTCCAAC
1 AGATTTCTATCATTAATTATAGGACTTCCAAC
14264425 A
1 A
14264426 CTCCCCCTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.38
Consensus pattern (32 bp):
AGATTTCTATCATTAATTATAGGACTTCCAAC
Found at i:14269051 original size:32 final size:32
Alignment explanation
Indices: 14269010--14269082 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
14269000 TAATAAGGTA
14269010 AGATTTCTATCCTTAATTATAGGGATTCCAAC
1 AGATTTCTATCCTTAATTATAGGGATTCCAAC
14269042 AGATTTCTATCCTTAATTATAGGGATTCCAAC
1 AGATTTCTATCCTTAATTATAGGGATTCCAAC
*
14269074 A-AATTCTAT
1 AGATTTCTAT
14269083 AAATTTCACA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 7 0.17
32 33 0.82
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (32 bp):
AGATTTCTATCCTTAATTATAGGGATTCCAAC
Found at i:14276522 original size:6 final size:6
Alignment explanation
Indices: 14276508--14276546 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
14276498 TAAGATTAGG
* *
14276508 TTTGAT TTTGGT TTTGGT TTTGGT TTTGAT TTTGGT TTT
1 TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTTGGT TTT
14276547 CTTTTTGCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.69
Consensus pattern (6 bp):
TTTGGT
Found at i:14276552 original size:18 final size:18
Alignment explanation
Indices: 14276513--14276553 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
14276503 TTAGGTTTGA
* *
14276513 TTTTGGTTTTGGTTTTGG
1 TTTTGATTTTGGTTTTCG
*
14276531 TTTTGATTTTGGTTTTCT
1 TTTTGATTTTGGTTTTCG
14276549 TTTTG
1 TTTTG
14276554 CGGGTTAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.02, C:0.02, G:0.24, T:0.71
Consensus pattern (18 bp):
TTTTGATTTTGGTTTTCG
Found at i:14276553 original size:12 final size:12
Alignment explanation
Indices: 14276508--14276546 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
14276498 TAAGATTAGG
14276508 TTTGATTTTGGT
1 TTTGATTTTGGT
*
14276520 TTTGGTTTTGGT
1 TTTGATTTTGGT
14276532 TTTGATTTTGGT
1 TTTGATTTTGGT
14276544 TTT
1 TTT
14276547 CTTTTTGCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.69
Consensus pattern (12 bp):
TTTGATTTTGGT
Found at i:14276847 original size:34 final size:34
Alignment explanation
Indices: 14276804--14276869 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 34
14276794 AATAAAATGT
14276804 TTTTCGTAAAATGATTT-CTGAAAAATATTTTAC
1 TTTTCGTAAAATGATTTACTGAAAAATATTTTAC
*
14276837 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTC-GTAAAATGATTTACTGAAAAATATTTT
14276870 TTGGTGTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.40
35 13 0.43
ACGTcount: A:0.35, C:0.08, G:0.11, T:0.47
Consensus pattern (34 bp):
TTTTCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:14276981 original size:20 final size:20
Alignment explanation
Indices: 14276956--14276994 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14276946 GTTTTTACAT
14276956 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
14276976 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
14276995 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:14279389 original size:11 final size:11
Alignment explanation
Indices: 14279373--14279398 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14279363 AACCATCTGT
14279373 ATATAACCAAA
1 ATATAACCAAA
14279384 ATATAACCAAA
1 ATATAACCAAA
14279395 ATAT
1 ATAT
14279399 CATCCAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (11 bp):
ATATAACCAAA
Found at i:14279718 original size:18 final size:19
Alignment explanation
Indices: 14279695--14279739 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
14279685 TTTGCAACCC
14279695 AAGGGGAAGGGAAAAGGG-
1 AAGGGGAAGGGAAAAGGGA
*
14279713 AAGGGGAAGGGAAAGGGGA
1 AAGGGGAAGGGAAAAGGGA
14279732 AAGGGGAA
1 AAGGGGAA
14279740 AGGGGAGAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 17 0.68
19 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (19 bp):
AAGGGGAAGGGAAAAGGGA
Found at i:14279719 original size:6 final size:6
Alignment explanation
Indices: 14279695--14279745 Score: 57
Period size: 6 Copynumber: 8.2 Consensus size: 6
14279685 TTTGCAACCC
* * *
14279695 AAGGGG AAGGGA AAAGGG AAGGGG AAGGGA AAGGGG AAAGGGG AAAGGGG
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG -AAGGGG
14279745 A
1 A
14279746 GAAGAAGGCG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
6 25 0.66
7 13 0.34
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:14280440 original size:3 final size:3
Alignment explanation
Indices: 14280432--14280468 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
14280422 GTGAAAATTA
14280432 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14280469 TGGTTTCATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14290544 original size:7 final size:7
Alignment explanation
Indices: 14290534--14290559 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14290524 TTTAATTAGT
14290534 AATTTTA
1 AATTTTA
14290541 AATTTTA
1 AATTTTA
14290548 AATTTTA
1 AATTTTA
14290555 AATTT
1 AATTT
14290560 ATATATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTTA
Found at i:14296647 original size:29 final size:30
Alignment explanation
Indices: 14296579--14296650 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
14296569 GTTAATAATT
* * *
14296579 TACAAGAATTGGATCAAATCAAAGTTTCATG
1 TACAA-AATTGCATAAAATCAAAGTTTCATA
*
14296610 TATAAAATTGCATAAAATCAAAG-TTCATA
1 TACAAAATTGCATAAAATCAAAGTTTCATA
*
14296639 TACACAATTGCA
1 TACAAAATTGCA
14296651 CAATAAACCA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 15 0.43
30 16 0.46
31 4 0.11
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (30 bp):
TACAAAATTGCATAAAATCAAAGTTTCATA
Found at i:14317528 original size:21 final size:22
Alignment explanation
Indices: 14317487--14317529 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
14317477 ATAGACATTC
14317487 TTAAATTATGATTTAAAATTTT
1 TTAAATTATGATTTAAAATTTT
* *
14317509 TTAAATTA-GTTTTCAAATTTT
1 TTAAATTATGATTTAAAATTTT
14317530 AAAATGTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
TTAAATTATGATTTAAAATTTT
Found at i:14328077 original size:86 final size:86
Alignment explanation
Indices: 14327974--14328144 Score: 279
Period size: 86 Copynumber: 2.0 Consensus size: 86
14327964 TTCAAACAAG
*
14327974 ATTTGTGCAAGAATTAGATATTGTTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGAT
1 ATTTGCGCAAGAATTAGATATTGTTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGAT
* * *
14328039 TCGTAATAGGTCGTTTAATCA
66 TCGTAAGAGATCATTTAATCA
***
14328060 ATTTGCGCAAGAATTAGATATTGTTTTCAAGATTTATCAAGATTATTGGGAAATATCGACAAGAT
1 ATTTGCGCAAGAATTAGATATTGTTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGAT
14328125 TCGTAAGAGATCATTTAATC
66 TCGTAAGAGATCATTTAATC
14328145 GATCTTAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.35
Consensus pattern (86 bp):
ATTTGCGCAAGAATTAGATATTGTTTTCAAGATTTATCAAGATTACCAGGAAATATCGACAAGAT
TCGTAAGAGATCATTTAATCA
Found at i:14331046 original size:28 final size:28
Alignment explanation
Indices: 14331013--14331069 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
14331003 CTCACCCTTT
*
14331013 TATTTCTACTAGGGTT-TTCGCCCTTTCA
1 TATTTCTACTAGGGTTGTT-GCCCCTTCA
*
14331041 TATTTCTACTAGTGTTGTTGCCCCTTCA
1 TATTTCTACTAGGGTTGTTGCCCCTTCA
14331069 T
1 T
14331070 GTTATATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 24 0.92
29 2 0.08
ACGTcount: A:0.14, C:0.25, G:0.14, T:0.47
Consensus pattern (28 bp):
TATTTCTACTAGGGTTGTTGCCCCTTCA
Found at i:14334864 original size:26 final size:26
Alignment explanation
Indices: 14334827--14334895 Score: 102
Period size: 26 Copynumber: 2.6 Consensus size: 26
14334817 TAAATTTTAG
*
14334827 GAAAGAAAAGCCTTTGTGGCGTAACAT
1 GAAAG-AAAGCCTTTGTGACGTAACAT
* *
14334854 GAAATAAAGCCTTTGTGACGTAATAT
1 GAAAGAAAGCCTTTGTGACGTAACAT
14334880 GAAAGAAAGCCTTTGT
1 GAAAGAAAGCCTTTGT
14334896 AGCAGAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
26 34 0.89
27 4 0.11
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (26 bp):
GAAAGAAAGCCTTTGTGACGTAACAT
Found at i:14334904 original size:26 final size:26
Alignment explanation
Indices: 14334827--14334904 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
14334817 TAAATTTTAG
*
14334827 GAAAGAAAAGCCTTTGTGGC-GTAACAT
1 GAAAG-AAAGCCTTTGT-GCAGTAATAT
*
14334854 GAAATAAAGCCTTTGTG-ACGTAATAT
1 GAAAGAAAGCCTTTGTGCA-GTAATAT
14334880 GAAAGAAAGCCTTTGTAGCAG-AATA
1 GAAAGAAAGCCTTTGT-GCAGTAATA
14334905 ATGTTTTTGT
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
25 1 0.02
26 36 0.82
27 6 0.14
28 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (26 bp):
GAAAGAAAGCCTTTGTGCAGTAATAT
Found at i:14335812 original size:13 final size:13
Alignment explanation
Indices: 14335794--14335820 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14335784 CGAGTTGAAG
14335794 TTGTAATTACTTA
1 TTGTAATTACTTA
14335807 TTGTAATTACTTA
1 TTGTAATTACTTA
14335820 T
1 T
14335821 GTATTTTAAT
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:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (13 bp):
TTGTAATTACTTA
Found at i:14337033 original size:45 final size:45
Alignment explanation
Indices: 14336983--14337174 Score: 285
Period size: 45 Copynumber: 4.3 Consensus size: 45
14336973 TACTATTACA
* * *
14336983 GTTACCATTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACT
1 GTTACCGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAATACT
*
14337028 GTTACCGTTACTGTTATCAATTCGGCACTTTGTGTGTCGAATACT
1 GTTACCGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAATACT
*
14337073 ATTACCGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAATACT
1 GTTACCGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAATACT
* ** * *
14337118 GTTACCGTTACTGTTACAAATTTAGCACTTTGTGTGTTGAATATT
1 GTTACCGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAATACT
*
14337163 GTTACTGTTACT
1 GTTACCGTTACT
14337175 TATACTGCTA
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.40
Consensus pattern (45 bp):
GTTACCGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAATACT
Found at i:14338920 original size:4 final size:4
Alignment explanation
Indices: 14338911--14338935 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14338901 CGAATACATG
14338911 AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA A
14338936 TTATCAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:14339363 original size:3 final size:3
Alignment explanation
Indices: 14339279--14339350 Score: 101
Period size: 3 Copynumber: 24.3 Consensus size: 3
14339269 TTATATTAGT
* * * *
14339279 ATA ATA ATA GTA ATA ATA ATG ATA ACA CTA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14339327 ATA ATA ATA ATA A-A ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
14339351 ACTTAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
2 2 0.03
3 58 0.97
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:14344078 original size:30 final size:30
Alignment explanation
Indices: 14344044--14344104 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
14344034 ACTTAACAAG
14344044 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
14344074 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
14344104 C
1 C
14344105 GAGAAATAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:14344164 original size:11 final size:11
Alignment explanation
Indices: 14344143--14344181 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
14344133 CAATAACAAA
*
14344143 AAAATAGTAGT
1 AAAATAATAGT
*
14344154 AACATAATAGT
1 AAAATAATAGT
*
14344165 AAAATGATAGT
1 AAAATAATAGT
14344176 AAAATA
1 AAAATA
14344182 GGGAGAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.59, C:0.03, G:0.13, T:0.26
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:14347831 original size:24 final size:24
Alignment explanation
Indices: 14347799--14347847 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
14347789 CACTAATATG
14347799 ATTAATGA-TAA-TTAAATTAAATTA
1 ATTAATGATTAAGTT-AATT-AATTA
14347823 ATTAATGATTAAGTTAATTAATTA
1 ATTAATGATTAAGTTAATTAATTA
14347847 A
1 A
14347848 GGTAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 14 0.61
25 7 0.30
26 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
ATTAATGATTAAGTTAATTAATTA
Found at i:14347839 original size:16 final size:16
Alignment explanation
Indices: 14347796--14347844 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
14347786 CTCCACTAAT
*
14347796 ATGATTAATGATAATTA
1 ATGATTAA-GTTAATTA
*
14347813 A--ATTAAATTAATTA
1 ATGATTAAGTTAATTA
14347827 ATGATTAAGTTAATTA
1 ATGATTAAGTTAATTA
14347843 AT
1 AT
14347845 TAAGGTAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 7 0.26
15 5 0.19
16 14 0.52
17 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (16 bp):
ATGATTAAGTTAATTA
Found at i:14353402 original size:22 final size:22
Alignment explanation
Indices: 14353377--14353420 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14353367 TAGTCATATA
14353377 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
14353399 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
14353421 TATTTAATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:14353455 original size:18 final size:18
Alignment explanation
Indices: 14353420--14353458 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14353410 TTTTAATAAA
*
14353420 TTATTTAATAATTCAATT
1 TTATTTAATAATTAAATT
14353438 TTATTGTAATAA-TAAATT
1 TTATT-TAATAATTAAATT
14353456 TTA
1 TTA
14353459 AAAATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TTATTTAATAATTAAATT
Found at i:14353464 original size:16 final size:16
Alignment explanation
Indices: 14353444--14353480 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
14353434 AATTTTATTG
14353444 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
14353461 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
14353476 TAATA
1 TAATA
14353481 TTATACACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:14353533 original size:15 final size:15
Alignment explanation
Indices: 14353513--14353570 Score: 62
Period size: 15 Copynumber: 3.6 Consensus size: 15
14353503 ATTCAATATT
14353513 AATATTTTAATAATA
1 AATATTTTAATAATA
*
14353528 AATATTTATTACATTTATA
1 AATA-TT-TTA-A-TAATA
*
14353547 AATATATTAATAATA
1 AATATTTTAATAATA
14353562 AATATTTTA
1 AATATTTTA
14353571 TAGTATAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 16 0.46
16 3 0.09
17 6 0.17
18 2 0.06
19 8 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:14355312 original size:6 final size:6
Alignment explanation
Indices: 14355240--14355311 Score: 135
Period size: 6 Copynumber: 12.0 Consensus size: 6
14355230 ATGCAAAAGA
14355240 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
1 GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT GTATAT
*
14355288 GTATAT GTATAT GTATAT ATATAT
1 GTATAT GTATAT GTATAT GTATAT
14355312 AAAGCATAAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
GTATAT
Found at i:14355354 original size:2 final size:2
Alignment explanation
Indices: 14355347--14355400 Score: 51
Period size: 2 Copynumber: 28.0 Consensus size: 2
14355337 TGCAAGCATG
*
14355347 TA TA TA TA TA TA TGA -A AA T- TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
14355387 TA TA AA GA TA TA TA
1 TA TA TA TA TA TA TA
14355401 GATAAATAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
1 3 0.07
2 40 0.91
3 1 0.02
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.43
Consensus pattern (2 bp):
TA
Found at i:14355403 original size:8 final size:8
Alignment explanation
Indices: 14355370--14355429 Score: 59
Period size: 8 Copynumber: 7.5 Consensus size: 8
14355360 GAAAATTAAT
*
14355370 ATATATAT
1 ATATATAG
*
14355378 ATATATAT
1 ATATATAG
*
14355386 ATATAAAG
1 ATATATAG
14355394 ATATATAG
1 ATATATAG
*
14355402 ATAAATAAG
1 ATATAT-AG
*
14355411 ATATAAAG
1 ATATATAG
14355419 -TATATAG
1 ATATATAG
14355426 ATAT
1 ATAT
14355430 GAAAATGAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
7 6 0.14
8 31 0.72
9 6 0.14
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (8 bp):
ATATATAG
Found at i:14355443 original size:35 final size:35
Alignment explanation
Indices: 14355349--14355465 Score: 89
Period size: 37 Copynumber: 3.3 Consensus size: 35
14355339 CAAGCATGTA
* * *
14355349 TATATATATATGAAAATTAATAT-A-TATATATA-
1 TATATATATATGAAAATAAAAATAAGTATATAAAG
* *
14355381 TATATATATAAAGATATATAGATAAATAAG-ATATAAAG
1 TATATATAT-ATGA-AAATA-A-AAATAAGTATATAAAG
* *
14355419 TATATAGATATGAAAATGAAAAATACGTATATAAAG
1 TATATATATATGAAAAT-AAAAATAAGTATATAAAG
14355455 ATATATATATA
1 -TATATATATA
14355466 ATAAGATATA
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
32 9 0.14
33 3 0.05
34 3 0.05
35 7 0.11
36 15 0.23
37 20 0.31
38 8 0.12
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.35
Consensus pattern (35 bp):
TATATATATATGAAAATAAAAATAAGTATATAAAG
Found at i:14355533 original size:64 final size:62
Alignment explanation
Indices: 14355385--14355566 Score: 273
Period size: 60 Copynumber: 3.0 Consensus size: 62
14355375 TATATATATA
* * *
14355385 TATATAAAGATATATAGATA-AATAAGATATAAAGTATATAGATATGAAAATGAAAAATACG
1 TATATAAAGATATATATATATAATAAGATATAAAGTATATATATATGAAAATAAAAAATACG
*
14355446 TATATAAAG--ATATATATATAATAAGATATAAAGTATATATATATGAAAATTAAAAATACG
1 TATATAAAGATATATATATATAATAAGATATAAAGTATATATATATGAAAATAAAAAATACG
14355506 TATATAAAGATATATATATATATAATAAGATATAATA-TATATATATATGAAAATAAAAAAT
1 TATATAAAG--ATATATATATATAATAAGATATAA-AGTATATATATATGAAAATAAAAAAT
14355567 GTATAAATAT
Statistics
Matches: 111, Mismatches: 4, Indels: 9
0.90 0.03 0.07
Matches are distributed among these distances:
59 8 0.07
60 48 0.43
61 9 0.08
64 45 0.41
65 1 0.01
ACGTcount: A:0.58, C:0.01, G:0.09, T:0.32
Consensus pattern (62 bp):
TATATAAAGATATATATATATAATAAGATATAAAGTATATATATATGAAAATAAAAAATACG
Found at i:14355756 original size:4 final size:4
Alignment explanation
Indices: 14355696--14355799 Score: 54
Period size: 4 Copynumber: 26.8 Consensus size: 4
14355686 TGCAAGTGTG
* * * * * * *
14355696 TATA TGTA TGTA TATG TATA CATA TAAA TATA AATA CTATA TGTA -AT-
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA -TATA TATA TATA
* * * ** *
14355743 TATG TATA TATA TATA TAGA -AT- TATA GACG TATA AATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
14355789 TATA TATA TAT
1 TATA TATA TAT
14355800 TAATAAAATG
Statistics
Matches: 72, Mismatches: 23, Indels: 10
0.69 0.22 0.10
Matches are distributed among these distances:
3 6 0.08
4 63 0.88
5 3 0.04
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (4 bp):
TATA
Found at i:14355758 original size:6 final size:6
Alignment explanation
Indices: 14355696--14355799 Score: 54
Period size: 6 Copynumber: 17.8 Consensus size: 6
14355686 TGCAAGTGTG
* * * * * * *
14355696 TATATG TATGTA TATGTA TACATA TAAATA TAAATA CTATATG TA-AT-
1 TATATA TATATA TATATA TATATA TATATA TATATA -TATATA TATATA
* * * ** *
14355743 TATGTA TATATA TATATA GA-AT- TATAGA CGTATA AATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
14355789 TATATA TATAT
1 TATATA TATAT
14355800 TAATAAAATG
Statistics
Matches: 75, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
4 3 0.04
5 6 0.08
6 62 0.83
7 4 0.05
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (6 bp):
TATATA
Found at i:14355922 original size:12 final size:12
Alignment explanation
Indices: 14355907--14355961 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
14355897 TAGTTGAGTA
14355907 AATAGTAATAAT
1 AATAGTAATAAT
* *
14355919 AATATTTATAAT
1 AATAGTAATAAT
14355931 AATA-TAAT-AT
1 AATAGTAATAAT
*
14355941 AATAGTATTAAT
1 AATAGTAATAAT
14355953 AATATGTAA
1 AATA-GTAA
14355962 AATGATCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
10 6 0.17
11 6 0.17
12 20 0.57
13 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (12 bp):
AATAGTAATAAT
Found at i:14357730 original size:20 final size:20
Alignment explanation
Indices: 14357705--14357747 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
14357695 TCTTAACGAG
14357705 ACTGCTAATGTGGCAAGTTA
1 ACTGCTAATGTGGCAAGTTA
* *
14357725 ACTGCTGATGTGGCCAGTTA
1 ACTGCTAATGTGGCAAGTTA
14357745 ACT
1 ACT
14357748 TGCCACGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (20 bp):
ACTGCTAATGTGGCAAGTTA
Found at i:14358461 original size:3 final size:3
Alignment explanation
Indices: 14358440--14358496 Score: 68
Period size: 3 Copynumber: 20.3 Consensus size: 3
14358430 CCATTTTTTC
*
14358440 TCT TC- TCT TC- TCC TCT TCT TCT TCT TCT TCT TCT TCT T-T TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
14358485 TTT TC- TCT TCT T
1 TCT TCT TCT TCT T
14358497 AAACCCTAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
2 8 0.17
3 39 0.83
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:14358476 original size:31 final size:28
Alignment explanation
Indices: 14358440--14358496 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
14358430 CCATTTTTTC
*
14358440 TCTTC-TCTTCTCCTCTTCTTCTTCTTCT
1 TCTTCTTCTTTTCCTCTTCTTC-TCTTCT
* *
14358468 TCTTCTTCTTTTCTTCTTTTTCTCTTCT
1 TCTTCTTCTTTTCCTCTTCTTCTCTTCT
14358496 T
1 T
14358497 AAACCCTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (28 bp):
TCTTCTTCTTTTCCTCTTCTTCTCTTCT
Found at i:14360169 original size:113 final size:112
Alignment explanation
Indices: 14359987--14360333 Score: 396
Period size: 113 Copynumber: 3.1 Consensus size: 112
14359977 CGTTTCTAAA
* * ****
14359987 AAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTGTAAGCGCCGCAAAATACCTTAACCAAA
1 AAAACGCCGTAAAAGAACATCATTAGCGGCGTTTACAAAAAGCGCCGCAAAATACCTTAACCAAA
* *
14360052 ACGCAGCGTTTGGTTCAATTGTATATTAGAATTAGTGGCGTTTTCGAT
66 ACGCAGCGTTTGGTTCGA-GGTATATTAGAATTAGTGGCGTTTTCGAT
* * * *
14360100 AAAACGCCGTTAAAGAATAGT-ATTAGCGGCGTTTTACAAAAAGCGCCGC-AAATATCTTAACGA
1 AAAACGCCGTAAAAGAACA-TCATTAGCGGCG-TTTACAAAAAGCGCCGCAAAATACCTTAACCA
* * * *
14360163 AAACGCAGCGTTTGGTCTCGAGGTAGATTAGTATTAGTGGCGTTTT-TAA
64 AAACGCAGCGTTTGGT-TCGAGGTATATTAGAATTAGTGGCGTTTTCGAT
* ****
14360212 ACAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTGTAAGCGCCGCAAAATACCTTAACCAA
1 A-AAACGCCGTAAAAGAACATCATTAGCGGCGTTTACAAAAAGCGCCGCAAAATACCTTAACCAA
* * *
14360277 AAAGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
65 AACGCAGCGTTTGG-TTCGAGGTATATTAGAATTAGTGGCGTTTTCGAT
14360326 -AAACGCCG
1 AAAACGCCG
14360334 CAAATATCTT
Statistics
Matches: 195, Mismatches: 31, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
112 24 0.12
113 152 0.78
114 19 0.10
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (112 bp):
AAAACGCCGTAAAAGAACATCATTAGCGGCGTTTACAAAAAGCGCCGCAAAATACCTTAACCAAA
ACGCAGCGTTTGGTTCGAGGTATATTAGAATTAGTGGCGTTTTCGAT
Found at i:14360370 original size:73 final size:74
Alignment explanation
Indices: 14360234--14360392 Score: 205
Period size: 73 Copynumber: 2.2 Consensus size: 74
14360224 AAAGAACATC
* * * *
14360234 ATTAGTGGCGTTTATTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGG
1 ATTAGTGGCGTTTATCGTAAACGCCGCAAAATACCTTAACCAAAAAGCACCGTTTGGTCTTGAGG
*
14360299 TATATTAGA
66 TAGATTAGA
* * *
14360308 ATTAGTGGCGTTTA-CGATAAACGCCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAG
1 ATTAGTGGCGTTTATCG-TAAACGCCGCAAAATACCTTAACCAAAAAGCACCGTTTGGTCTTGAG
*
14360371 GTAGATTAGT
65 GTAGATTAGA
*
14360381 TTTAGTGGCGTT
1 ATTAGTGGCGTT
14360393 ATTAAAAAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
73 51 0.69
74 23 0.31
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (74 bp):
ATTAGTGGCGTTTATCGTAAACGCCGCAAAATACCTTAACCAAAAAGCACCGTTTGGTCTTGAGG
TAGATTAGA
Found at i:14360481 original size:187 final size:186
Alignment explanation
Indices: 14360121--14360904 Score: 966
Period size: 208 Copynumber: 4.1 Consensus size: 186
14360111 AAAGAATAGT
* *
14360121 ATTAGCGGCGTTTTACAAAAAGCGCCGCAAATATCTTAACGAAAACGCAGCGTTTGGTCTCGAGG
1 ATTAGTGGCG-TTTACAAAAAGCGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGG
* * * *
14360186 TAGATTAGTATTAGTGGCGTTTTTAAACAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTG
65 TAGATTAGTATTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTG
14360251 TAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGA
130 TAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGA
* *
14360308 ATTAGTGGCGTTTACGATAAA-CGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGG
1 ATTAGTGGCGTTTAC-AAAAAGCGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGG
*
14360372 TAGATTAGTTTTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTT
65 TAGATTAGTATTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTA-TT
*
14360437 GTAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
129 GTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGA
* * * * * *
14360495 ATTAGTGGCGTTTTCTATAAAA-AGCCGCTAAAGAATAGTATTAGTGGCGTATCACAATAAGCGC
1 ATTAGTGGCGTTTAC-A-AAAAGCGCCGC---A-AATA-TCTTA---ACG----A-AA-ACGCAC
** * * *** * * *
14360559 CGCAAAT-ATCT-TAACCAGAGGTAGATTAGTATTAGTGGCGTTTTTAAACAAACGCCGTAAAAG
50 CG--TTTGGTCTCGAGGTAGA-TTAG-----TATTAGTGGCGTTATTAAAAAAACGCCGTAAAAG
* *
14360622 AACATCATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGT
107 AACATAATTAGTGGCATTTA-TTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGT
14360687 TTTGAGGTATATTAGA
171 TTTGAGGTATATTAGA
*
14360703 ATTAGTGGCGTTTACGATAAAA-CGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAG
1 ATTAGTGGCGTTTAC-A-AAAAGCGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAG
* *
14360767 GTAGATTAGTTTTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATT
64 GTAGATTAGTATTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTA-T
*
14360832 TGTAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGA
128 TGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGA
14360891 ATTAGTGGCGTTTA
1 ATTAGTGGCGTTTA
14360905 TGGTAAAACG
Statistics
Matches: 518, Mismatches: 52, Indels: 53
0.83 0.08 0.09
Matches are distributed among these distances:
186 103 0.20
187 87 0.17
188 132 0.25
191 1 0.00
192 5 0.01
193 10 0.02
194 10 0.02
195 2 0.00
196 3 0.01
200 3 0.01
201 2 0.00
202 10 0.02
203 10 0.02
204 5 0.01
205 1 0.00
208 134 0.26
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (186 bp):
ATTAGTGGCGTTTACAAAAAGCGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTCGAGGT
AGATTAGTATTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTGT
AAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGA
Found at i:14360556 original size:114 final size:112
Alignment explanation
Indices: 14360307--14360575 Score: 310
Period size: 114 Copynumber: 2.4 Consensus size: 112
14360297 GGTATATTAG
* * *
14360307 AATTAGTGGCGTTTACGATAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGG
1 AATTAGTGGCGTTTACAATAAGCGCCGCAAATATCTTAACCAAAACGCACCGTTTGGTCTTGAGG
**
14360372 TAGATTAGTTTTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACAT
66 TAGATTAGAATTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACAT
* *** * * *
14360419 AATTAGTGGCATTTATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGA
1 AATTAGTGGCGTTTA-CAATAAGCGCCGC-AAATATCTTAACCAAAACGCACCGTTTGGTCTTGA
* * * *
14360484 GGTATATTAGAATTAGTGGCGTTTTCTATAAAAA-GCCGCT-AAAGAATAGT
64 GGTAGATTAGAATTAGTGGCGTTAT-TAAAAAAACGCCG-TAAAAGAACA-T
*
14360534 -ATTAGTGGCGTATCACAATAAGCGCCGCAAATATCTTAACCA
1 AATTAGTGGCGT-TTACAATAAGCGCCGCAAATATCTTAACCA
14360576 GAGGTAGATT
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
112 14 0.11
113 22 0.17
114 83 0.64
115 11 0.08
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (112 bp):
AATTAGTGGCGTTTACAATAAGCGCCGCAAATATCTTAACCAAAACGCACCGTTTGGTCTTGAGG
TAGATTAGAATTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACAT
Found at i:14360766 original size:74 final size:75
Alignment explanation
Indices: 14360650--14360788 Score: 199
Period size: 74 Copynumber: 1.9 Consensus size: 75
14360640 TATTTGTAAG
* * *
14360650 CGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
1 CGCCGCAAAATACCTTAACCAAAAAGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
14360715 TACGATAAAA
66 TACGATAAAA
* * * **
14360725 CGCCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAGTTTTAGTGGCGTT
1 CGCCGCAAAATACCTTAACCAAAAAGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
14360789 ATTAAAAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
74 50 0.89
75 6 0.11
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (75 bp):
CGCCGCAAAATACCTTAACCAAAAAGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
TACGATAAAA
Found at i:14360799 original size:74 final size:74
Alignment explanation
Indices: 14360650--14360808 Score: 187
Period size: 74 Copynumber: 2.1 Consensus size: 74
14360640 TATTTGTAAG
* * *
14360650 CGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
1 CGCCGCAAAATACCTTAACCAAAAAGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
*
14360715 TACGATAAAA
66 TAC-AAAAAA
* * * **
14360725 CGCCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAGTTTTAGTGGCGTT
1 CGCCGCAAAATACCTTAACCAAAAAGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCG-T
14360789 ATTA-AAAAAA
65 -TTACAAAAAA
*
14360799 CGCCGTAAAA
1 CGCCGCAAAA
14360809 GAACATAATT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
74 58 0.82
75 10 0.14
76 3 0.04
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (74 bp):
CGCCGCAAAATACCTTAACCAAAAAGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
TACAAAAAA
Found at i:14360893 original size:188 final size:188
Alignment explanation
Indices: 14360576--14360918 Score: 623
Period size: 188 Copynumber: 1.8 Consensus size: 188
14360566 ATCTTAACCA
* * *
14360576 GAGGTAGATTAGTATTAGTGGCGTTTTTAAACAAACGCCGTAAAAGAACATCATTAGTGGCGTTT
1 GAGGTAGATTAGTATTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTT
14360641 ATTTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATT
66 ATTTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATT
14360706 AGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTT
131 AGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTT
*
14360764 GAGGTAGATTAGTTTTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTT
1 GAGGTAGATTAGTATTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTT
*
14360829 ATTTGTAAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATT
66 ATTTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATT
* *
14360894 AGTGGCGTTTATGGTAAAACGCCGC
131 AGTGGCGTTTACGATAAAACGCCGC
14360919 TAAAGAATAG
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
188 148 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.29
Consensus pattern (188 bp):
GAGGTAGATTAGTATTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTT
ATTTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATT
AGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTT
Found at i:14360920 original size:396 final size:394
Alignment explanation
Indices: 14360182--14360934 Score: 1427
Period size: 396 Copynumber: 1.9 Consensus size: 394
14360172 GTTTGGTCTC
14360182 GAGGTAGATTAGTATTAGTGGCGTTTTTAAACAAACGCCGTAAAAGAACATCATTAGTGGCGTTT
1 GAGGTAGATTAGTATTAGTGGCGTTTTTAAACAAACGCCGTAAAAGAACATCATTAGTGGCGTTT
14360247 ATTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATTA
66 ATTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATTA
14360312 GTGGCGTTTACGATAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGAT
131 GTGGCGTTTACGATAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGAT
14360377 TAGTTTTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTTGTAAG
196 TAGTTTTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTTGTAAG
14360442 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
261 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
* *
14360507 TTCTATAAAAAGCCGCTAAAGAATAGTATTAGTGGCGTATCACAATAAGCGCCGCAAATATCTTA
326 TTCGATAAAAAGCCGCTAAAGAATAGCATTAGTGGCGTATCACAATAAGCGCCGCAAATATCTTA
14360572 ACCA
391 ACCA
14360576 GAGGTAGATTAGTATTAGTGGCGTTTTTAAACAAACGCCGTAAAAGAACATCATTAGTGGCGTTT
1 GAGGTAGATTAGTATTAGTGGCGTTTTTAAACAAACGCCGTAAAAGAACATCATTAGTGGCGTTT
14360641 ATTTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATT
66 A-TTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATT
14360706 AGTGGCGTTTACGATAAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAG
130 AGTGGCGTTTACGAT-AAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAG
*
14360771 ATTAGTTTTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATTTGTA
194 ATTAGTTTTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTTGTA
14360836 AGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCG
259 AGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCG
* *
14360901 TTTAT-GGTAAAACGCCGCTAAAGAATAGCATTAG
324 TTT-TCGATAAAAAGCCGCTAAAGAATAGCATTAG
14360935 CGGCATTTTT
Statistics
Matches: 351, Mismatches: 5, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
394 66 0.19
395 78 0.22
396 206 0.59
397 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (394 bp):
GAGGTAGATTAGTATTAGTGGCGTTTTTAAACAAACGCCGTAAAAGAACATCATTAGTGGCGTTT
ATTGTAAGCGCCGCAAAATACCTTAACCAAAAAGCAGCGTTTGGTTTTGAGGTATATTAGAATTA
GTGGCGTTTACGATAAACGCCGCAAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGAT
TAGTTTTAGTGGCGTTATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCATTTATTTGTAAG
CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
TTCGATAAAAAGCCGCTAAAGAATAGCATTAGTGGCGTATCACAATAAGCGCCGCAAATATCTTA
ACCA
Found at i:14360934 original size:114 final size:114
Alignment explanation
Indices: 14360725--14360961 Score: 266
Period size: 114 Copynumber: 2.1 Consensus size: 114
14360715 TACGATAAAA
* * **
14360725 CGCCGC-AAATATCTTAACGAAAACGCACCGTTTGGTCTTGAGGTAGATTAGTTTTAGTGGCGTT
1 CGCCGCAAAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
* * * * *
14360789 ATTAAAAAAACGCCGTAAAAGAACATAATTAGTGGCGTTTATT-TGTAAG
66 ATTAAAAAAACGCCGTAAAAGAACAGAATTAGCGGCATTT-TTGGGAAAG
* * *
14360838 CGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTT
1 CGCCGCAAAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
*** * *
14360903 -TATGGTAAAACGCCGCT-AAAGAATAGCATTAGCGGCATTTTTGGGAAAG
66 AT-TAAAAAAACGCCG-TAAAAGAACAGAATTAGCGGCATTTTTGGGAAAG
14360952 CGCCGCAAAA
1 CGCCGCAAAA
14360962 CTACTTCAGC
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
113 9 0.09
114 93 0.90
115 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (114 bp):
CGCCGCAAAATACCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAATTAGTGGCGTT
ATTAAAAAAACGCCGTAAAAGAACAGAATTAGCGGCATTTTTGGGAAAG
Found at i:14366396 original size:53 final size:54
Alignment explanation
Indices: 14366318--14366429 Score: 181
Period size: 53 Copynumber: 2.1 Consensus size: 54
14366308 AAATTTATAT
* *
14366318 ATTACATTACTTAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAGATAC
1 ATTACATTACTAAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAAATAC
* *
14366372 ATTA-ATTACTAAAATTTGGTTAAATTTTTTACTTAAATATGTTACTTAAATAC
1 ATTACATTACTAAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAAATAC
14366425 ATTAC
1 ATTAC
14366430 CCGCTACAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 49 0.92
54 4 0.08
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (54 bp):
ATTACATTACTAAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAAATAC
Found at i:14366560 original size:13 final size:13
Alignment explanation
Indices: 14366542--14366696 Score: 75
Period size: 13 Copynumber: 11.8 Consensus size: 13
14366532 TTTTACTCTT
*
14366542 AATATATTACTTG
1 AATATATTACTTA
14366555 AATATATTACTTA
1 AATATATTACTTA
14366568 AATA-AGTTACTTA
1 AATATA-TTACTTA
*
14366581 AATACATTACTTA
1 AATATATTACTTA
*
14366594 CTAA-A-ATTTCGTTA
1 --AATATATTAC-TTA
* *
14366608 AATTTTTTACTTA
1 AATATATTACTTA
* *
14366621 AATATGTTACTCA
1 AATATATTACTTA
* * *
14366634 GATACATTAATTA
1 AATATATTACTTA
* **
14366647 CTAAAAT-TTGTTTA
1 --AATATATTACTTA
* *
14366661 AATTTTTTACTTA
1 AATATATTACTTA
*
14366674 AATATGTTACTTA
1 AATATATTACTTA
*
14366687 AATACATTAC
1 AATATATTAC
14366697 CCGCTATAAA
Statistics
Matches: 106, Mismatches: 26, Indels: 20
0.70 0.17 0.13
Matches are distributed among these distances:
12 6 0.06
13 83 0.78
14 13 0.12
15 4 0.04
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:14366618 original size:53 final size:53
Alignment explanation
Indices: 14366561--14366963 Score: 260
Period size: 53 Copynumber: 7.6 Consensus size: 53
14366551 CTTGAATATA
*
14366561 TTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
* * *
14366614 TTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTT-GTTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCG-TTAAATTTT
*** * * **
14366667 TTACTTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTATATATTACA
1 TTACTTAAATATGTTACTTAAATACATTACTTACTA-AAATTT-CGT-TAAATT-TT
* * * * * * *
14366724 TTACTTAAATAAATATT-TTTAAGT--A-TA-TT--TTAGATGTC-TTACAATATTAA
1 TTACTTAAAT--ATGTTACTTAAATACATTACTTACTAAAATTTCGTTA-AAT-TT-T
* * * * * * * * *
14366774 TAAATAAAACATATTTTTAC-TAAAT--TTTAC-T-CTTAATATATTAC-TTGAATATA
1 TTACT-TAA-ATA-TGTTACTTAAATACATTACTTAC-TAA-A-ATTTCGTTAAATTTT
*
14366827 TTACTTAAATAAGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
* * * *
14366880 TTACTTAAATATGTTACTCAGATACATTAATTACTAAAATTTGGTTAAATTTT
1 TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
*
14366933 TTACTTAAGTATGTTACTTAAATACATTACT
1 TTACTTAAATATGTTACTTAAATACATTACT
14366964 CGCTATAAAT
Statistics
Matches: 267, Mismatches: 56, Indels: 54
0.71 0.15 0.14
Matches are distributed among these distances:
48 2 0.01
49 3 0.01
50 10 0.04
51 21 0.08
52 13 0.05
53 167 0.63
54 13 0.05
55 7 0.03
56 12 0.04
57 10 0.04
58 5 0.02
59 4 0.01
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.45
Consensus pattern (53 bp):
TTACTTAAATATGTTACTTAAATACATTACTTACTAAAATTTCGTTAAATTTT
Found at i:14366826 original size:13 final size:13
Alignment explanation
Indices: 14366808--14366859 Score: 70
Period size: 13 Copynumber: 4.0 Consensus size: 13
14366798 TTTTACTCTT
*
14366808 AATATATTACTTG
1 AATATATTACTTA
14366821 AATATATTACTTA
1 AATATATTACTTA
14366834 AATA-AGTTACTTA
1 AATATA-TTACTTA
*
14366847 AATACATTACTTA
1 AATATATTACTTA
14366860 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 1 0.03
13 34 0.94
14 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (13 bp):
AATATATTACTTA
Found at i:14366930 original size:266 final size:267
Alignment explanation
Indices: 14366318--14366996 Score: 1297
Period size: 266 Copynumber: 2.5 Consensus size: 267
14366308 AAATTTATAT
*
14366318 ATTACATTACTTAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTA
1 ATTAC-TTACTAAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTA
*
14366383 AAATTTGGTTAAATTTTTTACTTAAATATGTTACTTAAATACATTACCCGCTACAAATTTAAGTA
65 AAATTTGGTTAAATTTTTTACTTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTA
14366448 TATATTACATTACTTAAATAAATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATA
130 TATATTACATTACTTAAATAAATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATA
14366513 AAACATATTTTTTACTAAATTTTACTCTTAATATATTACTTGAATATATTACTTAAATAAGTTAC
195 AAACATATTTTTTACTAAATTTTACTCTTAATATATTACTTGAATATATTACTTAAATAAGTTAC
14366578 TTAAATAC
260 TTAAATAC
14366586 ATTACTTACTAAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAA
1 ATTACTTACTAAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAA
*
14366651 AATTTGTTTAAATTTTTTACTTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTAT
66 AATTTGGTTAAATTTTTTACTTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTAT
14366716 ATATTACATTACTTAAATAAATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAA
131 ATATTACATTACTTAAATAAATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAA
14366781 AACATA-TTTTTACTAAATTTTACTCTTAATATATTACTTGAATATATTACTTAAATAAGTTACT
196 AACATATTTTTTACTAAATTTTACTCTTAATATATTACTTGAATATATTACTTAAATAAGTTACT
14366845 TAAATAC
261 TAAATAC
14366852 ATTACTTACTAAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAA
1 ATTACTTACTAAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAA
* *
14366917 AATTTGGTTAAATTTTTTACTTAAGTATGTTACTTAAATACATTACTCGCTATAAATTTAAGTAT
66 AATTTGGTTAAATTTTTTACTTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTAT
14366982 ATATTACATTACTTA
131 ATATTACATTACTTA
14366997 CAGAACTTGT
Statistics
Matches: 405, Mismatches: 6, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
266 207 0.51
267 193 0.48
268 5 0.01
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.45
Consensus pattern (267 bp):
ATTACTTACTAAAATTTCGTTAAATTTTTTACTTAAATATGTTACTCAGATACATTAATTACTAA
AATTTGGTTAAATTTTTTACTTAAATATGTTACTTAAATACATTACCCGCTATAAATTTAAGTAT
ATATTACATTACTTAAATAAATATTTTTAAGTATATTTTAGATGTCTTACAATATTAATAAATAA
AACATATTTTTTACTAAATTTTACTCTTAATATATTACTTGAATATATTACTTAAATAAGTTACT
TAAATAC
Found at i:14373726 original size:42 final size:42
Alignment explanation
Indices: 14373668--14373894 Score: 257
Period size: 42 Copynumber: 5.3 Consensus size: 42
14373658 TTTGTGAAAC
**
14373668 AAGCGCCGCTAAAGAACACT-ACTTTTAGCGGCGTTTTTGAGC-
1 AAGCGCCGCTAAAGAACA-TGACTTTTAGCGGCGTTTTT-TCCT
* * * *
14373710 AAGCGCCGCTATAGAACATTACTTTTAGAGGCGTTTTCTTCCA
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTT-TTCCT
*
14373753 AAGCGCTGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCGTTTTTTCCT
*
14373795 AAGCGCCGCTAAAGAACATGATCTTTT-GTGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGA-CTTTTAGCGGCGTTTTTTCCT
*
14373837 AAGCGCCGCTAAAGAACATGA-TCTTTAGCGGCGTTTTTTTCTGT
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGGCG-TTTTTTC-CT
*
14373881 AAGCGCCGCAAAAG
1 AAGCGCCGCTAAAG
14373895 TTAGCGACGT
Statistics
Matches: 161, Mismatches: 14, Indels: 18
0.83 0.07 0.09
Matches are distributed among these distances:
40 1 0.01
41 4 0.02
42 99 0.61
43 42 0.26
44 15 0.09
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGGCGTTTTTTCCT
Found at i:14373875 original size:85 final size:86
Alignment explanation
Indices: 14373668--14373894 Score: 286
Period size: 85 Copynumber: 2.7 Consensus size: 86
14373658 TTTGTGAAAC
*** * *
14373668 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAGC-AAGCGCCGCTATAGAACATT
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATG
14373730 ACTTTTAGAGGCGTTTTCTTCCA
64 ACTTTTAGAGGCGTTTTCTTCCA
*
14373753 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTCCTAAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGA-
* *
14373817 CTTTT-GTGGCGTTTT-TTCCT
65 CTTTTAGAGGCGTTTTCTTCCA
* *
14373837 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTGTAAGCGCCGCAAAAG
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-CTAAGCGCCGCTAAAG
14373895 TTAGCGACGT
Statistics
Matches: 125, Mismatches: 11, Indels: 11
0.85 0.07 0.07
Matches are distributed among these distances:
84 42 0.34
85 63 0.50
86 20 0.16
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (86 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGAC
TTTTAGAGGCGTTTTCTTCCA
Found at i:14376560 original size:43 final size:41
Alignment explanation
Indices: 14376489--14376574 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 41
14376479 TACTCTGTCA
*
14376489 TTTATTTTAATATTAAAATCAAGTATTTTCATGGGGTAAATAT
1 TTTATTTTAATATTAAAATCAAGGATTTTCAT-GGGTAAA-AT
* *
14376532 TTTATTTTAATATTAATATTAAGGATTTTCATGGGTAAAAT
1 TTTATTTTAATATTAAAATCAAGGATTTTCATGGGTAAAAT
14376573 TT
1 TT
14376575 ATACATCAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 4 0.10
42 7 0.17
43 29 0.73
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (41 bp):
TTTATTTTAATATTAAAATCAAGGATTTTCATGGGTAAAAT
Found at i:14376618 original size:25 final size:23
Alignment explanation
Indices: 14376590--14376635 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
14376580 TCAAGGGCTT
14376590 ATTTAATTACAAAAATAGTATAAGA
1 ATTTAATTA-AAAAAT-GTATAAGA
* *
14376615 ATTTATTTAAATAATGTATAA
1 ATTTAATTAAAAAATGTATAA
14376636 TAGTCTAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 6 0.32
24 5 0.26
25 8 0.42
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (23 bp):
ATTTAATTAAAAAATGTATAAGA
Found at i:14382187 original size:32 final size:32
Alignment explanation
Indices: 14382151--14382214 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
14382141 CAAAATAAGG
*
14382151 TTCAACCCGTCCAAGATCCCCCAAAGCTCCGT
1 TTCAACCCATCCAAGATCCCCCAAAGCTCCGT
14382183 TTCAACCCATCCAAGATCCCCCAAAGCTCCGT
1 TTCAACCCATCCAAGATCCCCCAAAGCTCCGT
14382215 CTCCATCACT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.27, C:0.44, G:0.11, T:0.19
Consensus pattern (32 bp):
TTCAACCCATCCAAGATCCCCCAAAGCTCCGT
Found at i:14383789 original size:41 final size:41
Alignment explanation
Indices: 14383744--14383833 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
14383734 AAATTTTCCC
* * *
14383744 TAGGGTCGCACGGGTAGTTCTGATCGACTATGGGCCTACTG
1 TAGGGTCGCACGAGTAGTTCCGATCGACTATGGGCCTACCG
*
14383785 TAGGGTCGCACGAGTCGTTCCGATCGACTATGGGCCTACCG
1 TAGGGTCGCACGAGTAGTTCCGATCGACTATGGGCCTACCG
14383826 TAGGGTCG
1 TAGGGTCG
14383834 GTAAGGGCTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.17, C:0.24, G:0.34, T:0.24
Consensus pattern (41 bp):
TAGGGTCGCACGAGTAGTTCCGATCGACTATGGGCCTACCG
Found at i:14386912 original size:22 final size:23
Alignment explanation
Indices: 14386878--14386920 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
14386868 TGTCCATGTT
14386878 ATATATTATAAAAATA-ATAAAC
1 ATATATTATAAAAATATATAAAC
14386900 ATAT-TTATAAAAAATATATAA
1 ATATATTAT-AAAAATATATAA
14386921 TTTTTTGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
ATATATTATAAAAATATATAAAC
Found at i:14393756 original size:24 final size:24
Alignment explanation
Indices: 14393724--14393771 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
14393714 ATGTTATAAC
14393724 TTTTTTTTATTTACCAAAATATAT
1 TTTTTTTTATTTACCAAAATATAT
14393748 TTTTTTTTATTTACCAAAATATAT
1 TTTTTTTTATTTACCAAAATATAT
14393772 CAAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTTTTTATTTACCAAAATATAT
Found at i:14393789 original size:14 final size:14
Alignment explanation
Indices: 14393772--14393801 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14393762 CAAAATATAT
14393772 CAAAAAAAAACCTG
1 CAAAAAAAAACCTG
*
14393786 CAAAAAAAAATCTG
1 CAAAAAAAAACCTG
14393800 CA
1 CA
14393802 CCGATGTGAC
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:0.63, C:0.20, G:0.07, T:0.10
Consensus pattern (14 bp):
CAAAAAAAAACCTG
Found at i:14393978 original size:12 final size:11
Alignment explanation
Indices: 14393948--14393988 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
14393938 GAGGTGCTGC
14393948 GAAAAAGAAGA
1 GAAAAAGAAGA
14393959 GAAAAAG-AGA
1 GAAAAAGAAGA
14393969 G-AAAAGAAGA
1 GAAAAAGAAGA
14393979 GAAAAAGAAG
1 GAAAAAGAAG
14393989 GTATTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.18
10 8 0.29
11 15 0.54
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAGA
Found at i:14394050 original size:19 final size:21
Alignment explanation
Indices: 14394012--14394050 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
14394002 AATAATTGAT
*
14394012 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
14394033 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
14394051 TTTGTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:14395024 original size:18 final size:18
Alignment explanation
Indices: 14395001--14395038 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14394991 GGTTGGTGGT
*
14395001 GAAGAAGAAGGTGCTGGC
1 GAAGAAGAAAGTGCTGGC
*
14395019 GAAGAAGAAAGTGGTGGC
1 GAAGAAGAAAGTGCTGGC
14395037 GA
1 GA
14395039 TCATTGGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.45, T:0.11
Consensus pattern (18 bp):
GAAGAAGAAAGTGCTGGC
Found at i:14398279 original size:159 final size:156
Alignment explanation
Indices: 14397832--14398290 Score: 380
Period size: 159 Copynumber: 2.9 Consensus size: 156
14397822 CAAGTTGAAA
* * * * * *
14397832 AAAAAAGTTAGTAAAAAAATCTTACTTCGACCATTTATTCGTATTTTTTTCTCCTCATTTTATTC
1 AAAAAAGTTAGT-AATAACTCTTACTTTG-CCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
**
14397897 CTTTAAAAAATATCAT-AATTTCTAATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAA
64 CTTTAAAAAATATCATAAATTAGT-ATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAA
* *
14397961 ATTTATTAATCTAGTGTGTTATTTAAATT
128 ATTTATTAATCTAATGTATTATTTAAATT
**** ** * ** * * * *
14397990 AATTTGGTGTAAAAAAATAACCCTTACCCCTGCCCTTTGCTCATATTATTTTCT-CG-ATTTTTA
1 AAAAAAGT-T--AGTAATAACTCTTA-CTTTGCCATTTGTTCGTATTTTTTTCTCCGCA-TTTTA
* * * * * *
14398053 TTACTTTATATAAAAATAT-ATTATTCTCGTATTTTATTATTTTATATTATTTCAGT--ATATTT
61 TTAC-TT-TA-AAAAATATCATAAAT-TAGTATTTTATAATTTTACATTATTTCAGTGCATA-AT
* *
14398115 TTTTGAAATATT-TTGTAT-TAAT-TATT-TTTAAATTTT
121 GTTTGAAAT-TTATT-AATCTAATGTATTATTTAAA--TT
14398151 AAAAAAGTTAGTAATACACTCTTACTTTTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
1 AAAAAAGTTAGTAATA-ACTCTTAC-TTTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTA
*
14398216 CTTTAAAAAATATCATAAACTTAGTCTTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAA
64 CTTTAAAAAATATCATAAA-TTAGTATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAA
14398281 ATTTATTAAT
128 ATTTATTAAT
14398291 TTAGTGTTTT
Statistics
Matches: 226, Mismatches: 51, Indels: 48
0.70 0.16 0.15
Matches are distributed among these distances:
157 8 0.04
158 46 0.20
159 56 0.25
160 48 0.21
161 28 0.12
162 38 0.17
163 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (156 bp):
AAAAAAGTTAGTAATAACTCTTACTTTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACT
TTAAAAAATATCATAAATTAGTATTTTATAATTTTACATTATTTCAGTGCATAATGTTTGAAATT
TATTAATCTAATGTATTATTTAAATT
Found at i:14399153 original size:18 final size:18
Alignment explanation
Indices: 14399130--14399263 Score: 69
Period size: 18 Copynumber: 7.1 Consensus size: 18
14399120 CCTTCCTTCC
14399130 CTCTTCTTCTTTTTTTTT
1 CTCTTCTTCTTTTTTTTT
**
14399148 CTCTTC-TCATTTCCTTTT
1 CTCTTCTTC-TTTTTTTTT
14399166 CT-TTCCTTCTTTCCTTCTTTT
1 CTCTT-CTTCTTT--TT-TTTT
* *
14399187 TTCTTCTCCTTTCCTTTTCTT
1 CTCTTCTTCTTT--TTTT-TT
14399208 CTTCTTTCTT-TTTTTTTTT
1 C-TC-TTCTTCTTTTTTTTT
* **
14399227 CTCTTCTCCTTTCCTTTT
1 CTCTTCTTCTTTTTTTTT
*
14399245 CT-TTCGTTCTTTTTCTTT
1 CTCTTC-TTCTTTTTTTTT
14399263 C
1 C
14399264 GTTCCTCTCC
Statistics
Matches: 89, Mismatches: 15, Indels: 24
0.70 0.12 0.19
Matches are distributed among these distances:
17 11 0.12
18 39 0.44
19 5 0.06
20 6 0.07
21 17 0.19
22 7 0.08
23 4 0.04
ACGTcount: A:0.01, C:0.29, G:0.01, T:0.69
Consensus pattern (18 bp):
CTCTTCTTCTTTTTTTTT
Found at i:14399161 original size:40 final size:40
Alignment explanation
Indices: 14399117--14399242 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 40
14399107 TTTTCTTTTT
*
14399117 TTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCA
1 TTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCC
* * *
14399157 TTTCCTTTTCTTTCCTTCTTTCCTTCTTTTTTCTTCTCCTT-TCC
1 TTTCC--TTCCTTCCCTC-TT-CTTCTTTTTTTTTCT-CTTCTCC
*
14399201 TTTTCTT-CTT--CT-TTCTT-TTTTTTTTTCTCTTCTCC
1 TTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCC
14399236 TTTCCTT
1 TTTCCTT
14399243 TTCTTTCGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
34 3 0.04
35 19 0.27
36 3 0.04
37 2 0.03
39 1 0.01
40 5 0.07
41 2 0.03
42 11 0.15
43 2 0.03
44 20 0.28
45 3 0.04
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (40 bp):
TTTCCTTCCTTCCCTCTTCTTCTTTTTTTTTCTCTTCTCC
Found at i:14399196 original size:16 final size:16
Alignment explanation
Indices: 14399172--14399221 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 16
14399162 TTTTCTTTCC
14399172 TTCTT-TCCTTCTTTT
1 TTCTTCTCCTTCTTTT
14399187 TTCTTCTCCTTTCCTTTT
1 TTCTTCTCC-TT-CTTTT
14399205 CTTCTTCT--TTCTTTT
1 -TTCTTCTCCTTCTTTT
14399220 TT
1 TT
14399222 TTTTTCTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
14 2 0.06
15 10 0.32
16 5 0.16
17 2 0.06
18 5 0.16
19 7 0.23
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (16 bp):
TTCTTCTCCTTCTTTT
Found at i:14399203 original size:26 final size:23
Alignment explanation
Indices: 14399162--14399218 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 23
14399152 TCTCATTTCC
14399162 TTTTCTTTCCTTCTTTCCTTCTT
1 TTTTCTTTCCTTCTTTCCTTCTT
*
14399185 TTTTCTTCTCCTTTCCTTTTCTTCTT
1 TTTTCTT-TCC-TT-CTTTCCTTCTT
*
14399211 CTTTCTTT
1 TTTTCTTT
14399219 TTTTTTTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 7 0.24
24 3 0.10
25 3 0.10
26 16 0.55
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTCTTTCCTTCTTTCCTTCTT
Found at i:14399209 original size:34 final size:34
Alignment explanation
Indices: 14399159--14399258 Score: 94
Period size: 34 Copynumber: 2.9 Consensus size: 34
14399149 TCTTCTCATT
* *
14399159 TCCTTTTCTTTCCTTCTTTCCTTCTTTTTTCTTC
1 TCCTTTCCTTTTCTTCTTTCCTTCTTTTTTCTTC
* * *
14399193 TCCTTTCCTTTTCTTC-TTCTTTCTTTTTTTTTT
1 TCCTTTCCTTTTCTTCTTTCCTTCTTTTTTCTTC
* *
14399226 TCTCTTCTCCTTTCCTTTTCTTTCGTTCTTTTT
1 TC-CTT-TCCTTT--TCTTCTTTCCTTCTTTTT
14399259 CTTTCGTTCC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
33 16 0.30
34 17 0.31
35 6 0.11
37 4 0.07
38 11 0.20
ACGTcount: A:0.00, C:0.29, G:0.01, T:0.70
Consensus pattern (34 bp):
TCCTTTCCTTTTCTTCTTTCCTTCTTTTTTCTTC
Found at i:14399228 original size:16 final size:16
Alignment explanation
Indices: 14399180--14399233 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
14399170 CCTTCTTTCC
*
14399180 TTCTTTTTTCTTCTCCT
1 TTCTTTTTT-TTCTTCT
* *
14399197 TTCCTTTTCTTCTTCT
1 TTCTTTTTTTTCTTCT
*
14399213 TTCTTTTTTTTTTTCT
1 TTCTTTTTTTTCTTCT
14399229 CTTCT
1 -TTCT
14399234 CCTTTCCTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (16 bp):
TTCTTTTTTTTCTTCT
Found at i:14399247 original size:16 final size:15
Alignment explanation
Indices: 14399172--14399219 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
14399162 TTTTCTTTCC
*
14399172 TTCTT-TCCTTCTTTT
1 TTCTTCTCCTT-TCTT
14399187 TTCTTCTCCTTTCCTT
1 TTCTTCTCCTTT-CTT
*
14399203 TTCTTCTTCTTTCTT
1 TTCTTCTCCTTTCTT
14399218 TT
1 TT
14399220 TTTTTTTCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTCTTCTCCTTTCTT
Found at i:14399260 original size:14 final size:14
Alignment explanation
Indices: 14399241--14399267 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14399231 TCTCCTTTCC
14399241 TTTTCTTTCGTTCT
1 TTTTCTTTCGTTCT
14399255 TTTTCTTTCGTTC
1 TTTTCTTTCGTTC
14399268 CTCTCCTNNN
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.22, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTTCTTTCGTTCT
Found at i:14401130 original size:11 final size:11
Alignment explanation
Indices: 14401116--14401165 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
14401106 CGGCCCGAAT
14401116 TATATATTAAA
1 TATATATTAAA
**
14401127 TATATATT-TT
1 TATATATTAAA
* *
14401137 TAT-TTTTAAT
1 TATATATTAAA
14401147 TATATATTAAA
1 TATATATTAAA
14401158 TATATATT
1 TATATATT
14401166 TTTATTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
9 3 0.10
10 7 0.23
11 21 0.68
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATATATTAAA
Found at i:14401148 original size:24 final size:25
Alignment explanation
Indices: 14401137--14401194 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
14401127 TATATATTTT
* *
14401137 TATTTTTAATTATATATTAAATATA
1 TATTTTTATTTATATATCAAATATA
*
14401162 TATTTTTATTTTTA-ATCAAATATA
1 TATTTTTATTTATATATCAAATATA
*
14401186 -CTTTTTATT
1 TATTTTTATT
14401195 AAATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 8 0.28
24 9 0.31
25 12 0.41
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTTTTATTTATATATCAAATATA
Found at i:14401151 original size:31 final size:31
Alignment explanation
Indices: 14401113--14401177 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
14401103 GCCCGGCCCG
14401113 AATTATATATTAAATATATATTTTTATTTTT
1 AATTATATATTAAATATATATTTTTATTTTT
14401144 AATTATATATTAAATATATATTTTTATTTTT
1 AATTATATATTAAATATATATTTTTATTTTT
14401175 AAT
1 AAT
14401178 CAAATATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (31 bp):
AATTATATATTAAATATATATTTTTATTTTT
Found at i:14401204 original size:20 final size:19
Alignment explanation
Indices: 14401151--14401210 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
14401141 TTTAATTATA
14401151 TATTAAATATATAT-TTTT
1 TATTAAATATATATATTTT
* * *
14401169 ATTTTTAATCAAATATACTTTT
1 -TATTAAAT-ATATATA-TTTT
14401191 TATTAAATATATATATTTT
1 TATTAAATATATATATTTT
14401210 T
1 T
14401211 TAGAATTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
19 11 0.34
20 11 0.34
21 6 0.19
22 4 0.12
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTAAATATATATATTTT
Found at i:14401211 original size:20 final size:20
Alignment explanation
Indices: 14401151--14401212 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
14401141 TTTAATTATA
14401151 TATTAAATATATAT-TTTTAT
1 TATTAAATATATATATTTT-T
* * *
14401171 T-TTTAATCAAATATACTTTT
1 TATTAAAT-ATATATATTTTT
14401191 TATTAAATATATATATTTTT
1 TATTAAATATATATATTTTT
14401211 TA
1 TA
14401213 GAATTTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 5 0.15
20 20 0.61
21 8 0.24
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTAAATATATATATTTTT
Found at i:14401243 original size:40 final size:37
Alignment explanation
Indices: 14401113--14401262 Score: 122
Period size: 31 Copynumber: 4.1 Consensus size: 37
14401103 GCCCGGCCCG
14401113 AATTATATATTAAATATATA-TTTTT-ATTTT--T--
1 AATTATATATTAAATATATATTTTTTAATTTTAATCA
*
14401144 AATTATATATTAAATATATA-TTTTTATTTTTAATCA
1 AATTATATATTAAATATATATTTTTTAATTTTAATCA
* *
14401180 AATATACTTTTTATTAAATATATATATTTTTTAGAATTTTAATCTG
1 AAT-TA---TATATT-AA-ATATATATTTTTT--AATTTTAATC-A
14401226 AATTATATATTAAATATATA--TTTT-ATTTTAATCA
1 AATTATATATTAAATATATATTTTTTAATTTTAATCA
14401260 AAT
1 AAT
14401263 ATGGGCCGGG
Statistics
Matches: 98, Mismatches: 6, Indels: 27
0.75 0.05 0.21
Matches are distributed among these distances:
31 25 0.26
32 4 0.04
34 4 0.04
35 9 0.09
36 3 0.03
37 2 0.02
38 4 0.04
40 12 0.12
41 4 0.04
42 12 0.12
43 5 0.05
45 11 0.11
46 3 0.03
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (37 bp):
AATTATATATTAAATATATATTTTTTAATTTTAATCA
Found at i:14403885 original size:56 final size:56
Alignment explanation
Indices: 14403805--14403917 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
14403795 AGAAGGAAGG
* *
14403805 TAGGTATTAAAAAAATTGACAAGAAAGCTTGGGGATTTAATGGTGGGGGAAAGAAA
1 TAGGTATTAAAAAAATTGACAAGAAAGCTTGGGGATTTAATGGCGGGGGAAAAAAA
14403861 TAGGTATTAAAAAAATTGACAAGAAAGCTTGGGGATTTAATGGCGGGGGAAAAAAA
1 TAGGTATTAAAAAAATTGACAAGAAAGCTTGGGGATTTAATGGCGGGGGAAAAAAA
14403917 T
1 T
14403918 GACGAAAATC
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.43, C:0.04, G:0.29, T:0.23
Consensus pattern (56 bp):
TAGGTATTAAAAAAATTGACAAGAAAGCTTGGGGATTTAATGGCGGGGGAAAAAAA
Found at i:14405544 original size:2 final size:2
Alignment explanation
Indices: 14405537--14405579 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
14405527 CCTAATTCGC
14405537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14405579 A
1 A
14405580 CCTAATCTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14405855 original size:43 final size:44
Alignment explanation
Indices: 14405793--14405932 Score: 194
Period size: 44 Copynumber: 3.2 Consensus size: 44
14405783 ACCATTGAAA
* * * *
14405793 TTCTTACCTAAACAATCAA-CAAGACAATTATATTACATGTCCAT
1 TTCTTACCAAAACAATCAACCAA-ACAATTATAATGCATGTTCAT
*
14405837 TTCTTACC-AAACAATCAACCAAACATTTATAATGCATGTTCAT
1 TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
* *
14405880 TTATTACCAAAACAATCAATCAAACAATTATAATGCATGTTCAT
1 TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
14405924 TTCTTACCA
1 TTCTTACCA
14405933 TTTAACAACT
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
43 34 0.40
44 52 0.60
ACGTcount: A:0.41, C:0.22, G:0.04, T:0.33
Consensus pattern (44 bp):
TTCTTACCAAAACAATCAACCAAACAATTATAATGCATGTTCAT
Found at i:14406723 original size:42 final size:44
Alignment explanation
Indices: 14406666--14406773 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
14406656 CGATGCCACT
* * * *
14406666 GTCCCAGACAGGGTCTTCCACGT-AATCATATA-TGACGCCAAA
1 GTCCCAGACATGGTCTTACACGTAAACCATAAATTGACGCCAAA
* * * *
14406708 GTCCCAGACTTGGTCTTACACGTAAACCTTAAATTGATGCCAAC
1 GTCCCAGACATGGTCTTACACGTAAACCATAAATTGACGCCAAA
*
14406752 GTCCCAGACGTGGTCTTACACG
1 GTCCCAGACATGGTCTTACACG
14406774 AATTCACATT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 20 0.36
43 6 0.11
44 29 0.53
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (44 bp):
GTCCCAGACATGGTCTTACACGTAAACCATAAATTGACGCCAAA
Found at i:14423771 original size:417 final size:415
Alignment explanation
Indices: 14423023--14423785 Score: 1047
Period size: 417 Copynumber: 1.8 Consensus size: 415
14423013 TAGTTTCTTT
* * ** *
14423023 GACTCAAATATGCCTAAGTCAGCCTAGCTCCCACAAGGTAAGGATTCTCGCAGAATTCCTCTGAA
1 GACTCAAATAAGCCTAAGTCAGCCTAACTCCCACAAAATAAGGATTCTCGCAGAATTCCTCTCAA
* *
14423088 GCACTAATTTATATAGCAGAAGCAACTCAAGCCAAAAGAATGCGCAAAAGAACAATAGCCATAGA
66 GCACTAATCTATATAGCAGAAACAACTCAAGCCAAAAGAATGCGCAAAAGAACAATAGCCATAGA
* *
14423153 AAAATAATGCACGAGAGGTGTTTGAGTAAATGCTCTCAAAGAATAATATTACTCAAGGAATTCAA
131 AAAACAATGCACGAGAGGTGTTTAAGTAAATGCTCTCAAAGAATAATATTACTCAAGGAATTCAA
* *
14423218 GATACAATAGGTGATTTACAACTAAAGAGGAGGCTTTCTATTTCTAGTTGAGCTCCCTCAAATCC
196 GATACAATAGGTGATTTACAACTAAAGAGGAGGCTCTCTATTTATAGTTGAGCTCCCTCAAATCC
* * * *
14423283 AATGTTTTAGCTAAATTTACATCGACGGATGAGATGAAGCCTATCCCTACAATTAAGAGATTTAC
261 AATGTTCTAGCTAAATTTACATCGACGAACGAGATGAAACCTATCCCTACAATTAAGAGATTTAC
14423348 AAGATTTACACAATCAAATTAGATCTAATCTTACTATTACAGGGCTAGAATTTTAGTCTCACAAT
326 AAGATTTACACAATCAAATTAGATCTAATCTTACTATTACAGGGCTAGAATTTTAGTCTCACAAT
14423413 CCGTGTGGCCTTAGGCGATTCCTTC
391 CCGTGTGGCCTTAGGCGATTCCTTC
* * * *
14423438 GACTCAAATAAGCCTAAGTCAGCCTAACTCCCCCAAAATGAGGGTTCTCGTAGAATTCCTC-CAA
1 GACTCAAATAAGCCTAAGTCAGCCTAACTCCCACAAAATAAGGATTCTCGCAGAATTCCTCTCAA
* * * * ** *
14423502 GGCA-TCAATCTATATCG-TGAAAACAACTCAAGTCAAAAGATTGCTTAAAAGAATAGAATAGCC
66 -GCACT-AATCTATATAGCAG-AAACAACTCAAGCCAAAAGAATGCGCAAAAG-A-ACAATAGCC
* ** *
14423565 ATAGAAAAACAATGCACGAGAGGTTTTTAAGTAAATGCTCTCAAAGAATTCTATTACTTTAA-GA
126 ATAGAAAAACAATGCACGAGAGGTGTTTAAGTAAATGCTCTCAAAGAATAATATTAC-TCAAGGA
* *
14423629 ATTCAAGATACAAT-GGATGATTTAGAACT-GAGAGGGAGGCTCTCTATTTATAGTTGAGCTCCC
190 ATTCAAGATACAATAGG-TGATTTACAACTAAAGA-GGAGGCTCTCTATTTATAGTTGAGCTCCC
* * *
14423692 -CTGAATCCAATAG-TCTAGCTAAGTTTACATCGATGAACGAGATGAAACCTATCCCTACAATTA
253 TC-AAATCCAAT-GTTCTAGCTAAATTTACATCGACGAACGAGATGAAACCTATCCCTACAATTA
* *
14423755 AGGGATTTATAAGATTTACACAATCAAATTA
316 AGAGATTTACAAGATTTACACAATCAAATTA
14423786 AATAAAATCT
Statistics
Matches: 301, Mismatches: 37, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
414 4 0.01
415 91 0.30
416 7 0.02
417 195 0.65
418 4 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (415 bp):
GACTCAAATAAGCCTAAGTCAGCCTAACTCCCACAAAATAAGGATTCTCGCAGAATTCCTCTCAA
GCACTAATCTATATAGCAGAAACAACTCAAGCCAAAAGAATGCGCAAAAGAACAATAGCCATAGA
AAAACAATGCACGAGAGGTGTTTAAGTAAATGCTCTCAAAGAATAATATTACTCAAGGAATTCAA
GATACAATAGGTGATTTACAACTAAAGAGGAGGCTCTCTATTTATAGTTGAGCTCCCTCAAATCC
AATGTTCTAGCTAAATTTACATCGACGAACGAGATGAAACCTATCCCTACAATTAAGAGATTTAC
AAGATTTACACAATCAAATTAGATCTAATCTTACTATTACAGGGCTAGAATTTTAGTCTCACAAT
CCGTGTGGCCTTAGGCGATTCCTTC
Found at i:14427472 original size:13 final size:11
Alignment explanation
Indices: 14427462--14427496 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
14427452 TTCAAAAATT
14427462 TAAAAATAAAA
1 TAAAAATAAAA
14427473 CCTAAAAATAAAA
1 --TAAAAATAAAA
14427486 TAAAAATAAAA
1 TAAAAATAAAA
14427497 AAATTACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:14429192 original size:25 final size:25
Alignment explanation
Indices: 14429164--14429223 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
14429154 TGATATATGA
*
14429164 ATTT-AATTCTTTTCCTTAATTTAAT
1 ATTTAAATT-TTTTACTTAATTTAAT
* *
14429189 ATTTAAATTTTTTATTTAATTTAGT
1 ATTTAAATTTTTTACTTAATTTAAT
*
14429214 ATATAAATTT
1 ATTTAAATTT
14429224 GATTATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (25 bp):
ATTTAAATTTTTTACTTAATTTAAT
Done.