Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 49 of 163
Found at i:15727648 original size:4 final size:4
Alignment explanation
Indices: 15727641--15727682 Score: 84
Period size: 4 Copynumber: 10.5 Consensus size: 4
15727631 ATTTTAGGAT
15727641 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
15727683 TGCGTTTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:15734556 original size:38 final size:41
Alignment explanation
Indices: 15734508--15734584 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 41
15734498 AATTCAAAAA
* *
15734508 AAAAACAAAATCAAAAGCA-GAAAA-AAAA-AAGAAAAATC
1 AAAAACAAAATAAAAAGAAGGAAAAGAAAAGAAGAAAAATC
*
15734546 AAAAATAAAATAAAAAGAAGGAAAAGAAAAGAAGAAAAA
1 AAAAACAAAATAAAAAGAAGGAAAAGAAAAGAAGAAAAA
15734585 GGAGAGGTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 16 0.48
39 5 0.15
40 4 0.12
41 8 0.24
ACGTcount: A:0.78, C:0.05, G:0.12, T:0.05
Consensus pattern (41 bp):
AAAAACAAAATAAAAAGAAGGAAAAGAAAAGAAGAAAAATC
Found at i:15735438 original size:7 final size:7
Alignment explanation
Indices: 15735422--15735454 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
15735412 TTTGAGTAAA
15735422 AAAAAT-
1 AAAAATG
15735428 AAAAATG
1 AAAAATG
15735435 -AAAATG
1 AAAAATG
15735441 AAAAATG
1 AAAAATG
15735448 AAAAATG
1 AAAAATG
15735455 GAGAGGCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:15736849 original size:100 final size:100
Alignment explanation
Indices: 15736676--15736893 Score: 312
Period size: 100 Copynumber: 2.2 Consensus size: 100
15736666 GTGAAATCAA
* * * *
15736676 GAATCTTATTTCCCAGGCGGTGCAGTGGAACAGATTAAAGTCACATCAGTGAATCTTGCTTCCCC
1 GAATCCTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCA
15736741 GACATTGCAGTTAAAAAGATTAAAGTCACAGCGGC
66 GACATTGCAGTTAAAAAGATTAAAGTCACAGCGGC
* *
15736776 GAATCCTACTTCCCTGGCGGTGCAGTGGAGCAGATTAAAGCCACATCAGTGAATCTTGCTATCCC
1 GAATCCTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCT-TCCC
* * **
15736841 AG-CATTGCAGTTAAAAAGATTAAAGCCATAATGGC
65 AGACATTGCAGTTAAAAAGATTAAAGTCACAGCGGC
*
15736876 GAATCTTACTTTCCCAGG
1 GAATCCTAC-TTCCCAGG
15736894 TTACGAGTTA
Statistics
Matches: 104, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 92 0.88
101 12 0.12
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (100 bp):
GAATCCTACTTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACATCAGTGAATCTTGCTTCCCA
GACATTGCAGTTAAAAAGATTAAAGTCACAGCGGC
Found at i:15736866 original size:50 final size:49
Alignment explanation
Indices: 15736707--15736868 Score: 162
Period size: 50 Copynumber: 3.2 Consensus size: 49
15736697 GCAGTGGAAC
* *
15736707 AGATTAAAGTCACATCAGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCCAG-CATTGCAGTTAAAA
* * * * * * * ** ** **
15736757 AGATTAAAGTCACAGCGGCGAATCCTACTTCCCTGGCGGTGCAGTGGAGC
1 AGATTAAAGCCACATCAGTGAATCTTGCTTCCC-AGCATTGCAGTTAAAA
15736807 AGATTAAAGCCACATCAGTGAATCTTGCTATCCCAGCATTGCAGTTAAAA
1 AGATTAAAGCCACATCAGTGAATCTTGCT-TCCCAGCATTGCAGTTAAAA
15736857 AGATTAAAGCCA
1 AGATTAAAGCCA
15736869 TAATGGCGAA
Statistics
Matches: 85, Mismatches: 25, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
50 80 0.94
51 5 0.06
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (49 bp):
AGATTAAAGCCACATCAGTGAATCTTGCTTCCCAGCATTGCAGTTAAAA
Found at i:15736969 original size:44 final size:44
Alignment explanation
Indices: 15736906--15737148 Score: 151
Period size: 44 Copynumber: 5.5 Consensus size: 44
15736896 ACGAGTTACA
15736906 AATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
** ** **
15736950 AATCCTATCTCCCTGAGATTACAGTAGAGTGGATT-AAAATAAAG-
1 AATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT--AGT
* * ** * ** * * *
15736994 GATCTTATCTATCTGA-AGTTACAGCAGAGTGGATCGCATC-AGGT
1 AATCCTATCTCCCTGAGA-TTACAGCGGAGCAGATTGAAGCTA-GT
* * * ** * *
15737038 --T-TTATCTCCCTGATATTACAGTGGAGCAGACCGAAG-AATTT
1 AATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA-GT
*
15737079 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 -A-ATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
15737125 AATCCTATCTCCCTGAGATTACAG
1 AATCCTATCTCCCTGAGATTACAG
15737149 TGAAGCGGAT
Statistics
Matches: 152, Mismatches: 33, Indels: 28
0.71 0.15 0.13
Matches are distributed among these distances:
41 26 0.17
42 3 0.02
43 5 0.03
44 80 0.53
45 5 0.03
46 32 0.21
47 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCCTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
Found at i:15737091 original size:46 final size:46
Alignment explanation
Indices: 15737039--15737247 Score: 189
Period size: 46 Copynumber: 4.6 Consensus size: 46
15737029 GCATCAGGTT
*
15737039 TTATCTCCCTGATATTACAGTGGAGCAGACCGAAGAATTTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATC
* ** * *
15737085 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG-CTAGT-A-ATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAAT-TTCAGATC
* * * ** **
15737129 CTATCTCCCTGAGATTACAGTGAAGCGGA-TTAA-AA-TAAAGGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCA-GATC
* *
15737173 TTATCTCCCTAAGATTACAGTGGAAC-GAACCGAAGAATTTCAGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAG-ACCGAAGAATTTCAGATC
* *
15737219 TTATCTCCTTGAGGTTACAGTGGAGCAGA
1 TTATCTCCCTGAGATTACAGTGGAGCAGA
15737248 TTTAAGGCAT
Statistics
Matches: 127, Mismatches: 26, Indels: 20
0.73 0.15 0.12
Matches are distributed among these distances:
42 1 0.01
43 4 0.03
44 54 0.43
45 4 0.03
46 61 0.48
47 3 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (46 bp):
TTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAGATC
Found at i:15737178 original size:44 final size:44
Alignment explanation
Indices: 15737039--15737194 Score: 129
Period size: 44 Copynumber: 3.5 Consensus size: 44
15737029 GCATCAGGTT
* * ** *
15737039 TTATCTCCCTGATATTACAGTGGAGCAGACCGAAGAAT-TTCAGATC
1 TTATCTCCCTGAGATTACAGTGAAGCAGATTGAA-AATAGT--GATC
* * ** *
15737085 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATC
1 TTATCTCCCTGAGATTACAGTGAAGCAGATTGAAAATAGTGATC
* *
15737129 CTATCTCCCTGAGATTACAGTGAAGCGGATT-AAAATAAAG-GATC
1 TTATCTCCCTGAGATTACAGTGAAGCAGATTGAAAAT--AGTGATC
*
15737173 TTATCTCCCTAAGATTACAGTG
1 TTATCTCCCTGAGATTACAGTG
15737195 GAACGAACCG
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
43 3 0.03
44 53 0.59
45 3 0.03
46 31 0.34
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
TTATCTCCCTGAGATTACAGTGAAGCAGATTGAAAATAGTGATC
Found at i:15737532 original size:16 final size:17
Alignment explanation
Indices: 15737511--15737543 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15737501 TGATTCCAAA
*
15737511 GTTCTT-TTTTTTTGTT
1 GTTCTTGTTATTTTGTT
15737527 GTTCTTGTTATTTTGTT
1 GTTCTTGTTATTTTGTT
15737544 TCTACTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.03, C:0.06, G:0.15, T:0.76
Consensus pattern (17 bp):
GTTCTTGTTATTTTGTT
Found at i:15738318 original size:9 final size:9
Alignment explanation
Indices: 15738306--15738399 Score: 57
Period size: 9 Copynumber: 10.1 Consensus size: 9
15738296 CCTTTTTAGC
15738306 ATTTTTATT
1 ATTTTTATT
15738315 ATTTTCTTCATT
1 A-TTT-TT-ATT
*
15738327 ATTTTAATGT
1 ATTTTTAT-T
* *
15738337 ATTATCA-T
1 ATTTTTATT
*
15738345 CTTTT-ATT
1 ATTTTTATT
15738353 ATTTATTATT
1 ATTT-TTATT
*
15738363 ATTATTATT
1 ATTTTTATT
*
15738372 ATTATTATT
1 ATTTTTATT
*
15738381 ATTATTATT
1 ATTTTTATT
*
15738390 ATTTTAATT
1 ATTTTTATT
15738399 A
1 A
15738400 CTTATATATA
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
7 1 0.01
8 8 0.12
9 35 0.51
10 16 0.23
11 5 0.07
12 4 0.06
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (9 bp):
ATTTTTATT
Found at i:15738361 original size:3 final size:3
Alignment explanation
Indices: 15738348--15738392 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
15738338 TTATCATCTT
15738348 TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15738393 TTAATTACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:15738819 original size:108 final size:106
Alignment explanation
Indices: 15738605--15738798 Score: 277
Period size: 106 Copynumber: 1.8 Consensus size: 106
15738595 NNNNNNNNNN
*
15738605 TTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAG
1 TTTGGAAATTC-AGAAAACATGCCCTAATGTGCTGGGTTTCGA-TTTTCTCGTTCGACCAAATAG
* *
15738670 CCAAATATCCTTTTAAAAAATTTCAAAATAAGGCAATTTTTTGCG
64 CCAAATATCCTCTT--AAAATCTCAAAATAAGGCAATTTTTTGCG
* *
15738715 TTTGGAAATT-AGAAAATATGCCCTAATGTGCTGGGTTTCGA-TTTCTCGTTTGACCAAATAGCC
1 TTTGGAAATTCAGAAAACATGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCGACCAAATAGCC
*
15738778 AAATATTCTCTT-AAATCTCAA
66 AAATATCCTCTTAAAATCTCAA
15738799 TCTATGTCAT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
103 8 0.10
106 31 0.40
108 29 0.37
110 10 0.13
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (106 bp):
TTTGGAAATTCAGAAAACATGCCCTAATGTGCTGGGTTTCGATTTTCTCGTTCGACCAAATAGCC
AAATATCCTCTTAAAATCTCAAAATAAGGCAATTTTTTGCG
Found at i:15748870 original size:11 final size:12
Alignment explanation
Indices: 15748854--15748884 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
15748844 ATTTTTTTAA
15748854 TTTTAAAATAC-
1 TTTTAAAATACT
15748865 TTTTAAAATACT
1 TTTTAAAATACT
15748877 TTTTAAAA
1 TTTTAAAA
15748885 ATTTNNNTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (12 bp):
TTTTAAAATACT
Found at i:15753056 original size:126 final size:126
Alignment explanation
Indices: 15752890--15753398 Score: 491
Period size: 126 Copynumber: 4.1 Consensus size: 126
15752880 GCCAAACATG
** * * **
15752890 AACTACTGTAGAAAAAGAGCGTCCTTGTGAGAGTTTTTTTCATTAATTTTGCTGACAGTGCATAT
1 AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *
15752955 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAACCGTCTTCTCAAATTTATTTTTTTAGA
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAACCGTATTCTCAAAATTATTTTTTTAGA
* * * * *
15753016 AACCACTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCAGTAATTTTGCTAACCGTGCATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * *** ******* *
15753081 TTCTTGAAGCGTTTTTG--AC-A-TTATTC-G-A-CTTATT-T-ATAGCCTAAGGCCAAACA
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAACCGTATTCTCA-AAATTATTTTTTTAGA
* *
15753134 TGAACTACTGTAGAAAAAGAGCGTCCTCGTGAGAGCTTTTTTCATTAATTTTGCTGACAGTGCAT
1 --AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCAT
* * * * * * *
15753199 CCTGCTTGAAGCGTTTTTGACATTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGG
64 CCTGCTTGAAGCGTTTTTGACACTATTTATTCAGAACCGTATTCTCAAAATTATTTTTTTAGA
* * * * * *
15753262 AACTACTGCAGAAAAAAAACGTCCACGTGAGAG-TTTTTTCAGTAATTTTACTGATAGTGAATCC
1 AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
* * * * *
15753326 TGCTTGAAGCGTTTTTCACACTATTTATTCAGACCCGTATTGTTAAAATTA-TTTTTTAGG
66 TGCTTGAAGCGTTTTTGACACTATTTATTCAGAACCGTATTCTCAAAATTATTTTTTTAGA
15753386 AACTACTGTAGAA
1 AACTACTGTAGAA
15753399 GAAAACAAAA
Statistics
Matches: 302, Mismatches: 69, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
117 1 0.00
118 6 0.02
119 4 0.01
120 75 0.25
121 1 0.00
122 6 0.02
123 2 0.01
124 27 0.09
125 70 0.23
126 100 0.33
127 4 0.01
128 5 0.02
129 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
AACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTATTCAGAACCGTATTCTCAAAATTATTTTTTTAGA
Found at i:15753184 original size:120 final size:120
Alignment explanation
Indices: 15752861--15753225 Score: 369
Period size: 120 Copynumber: 3.0 Consensus size: 120
15752851 AATAAAATTT
* * * *
15752861 GACTCATTTATATCCTAAGGCCAAACATGAACTACTGTAGAAAAAGAGCGTCCTTGTGAGAGTTT
1 GACTTATTTATAGCCTAAGGCCAAACATGAACTACTGTAGAAAAAGAGCGTCCTCGTGAGAGCTT
* * *
15752926 TTTTCATTAATTTTGCTGACAGTGCAT-ATTGCTTGAAGCGTTTTTGACACTATTT
66 TTTTCATTAATTTTGCTGACAGTGCATCCTT-CTTGAAGCGTTTTTGACATTATTC
** ** **** **** * * *
15752981 G--TTCA-GAACCGTCTTCTCAAATTTATTTTTTTAGAAACCACTGTAGAAAAAGAGCATCCACG
1 GACTT-ATTTATAG-C--CT-AAGGCCA--AACAT-G-AACTACTGTAGAAAAAGAGCGTCCTCG
* * * *
15753043 TGGGAGCTTTTTTCAGTAATTTTGCTAACCGTGCATCCTTCTTGAAGCGTTTTTGACATTATTC
57 TGAGAGCTTTTTTCATTAATTTTGCTGACAGTGCATCCTTCTTGAAGCGTTTTTGACATTATTC
15753107 GACTTATTTATAGCCTAAGGCCAAACATGAACTACTGTAGAAAAAGAGCGTCCTCGTGAGAGCTT
1 GACTTATTTATAGCCTAAGGCCAAACATGAACTACTGTAGAAAAAGAGCGTCCTCGTGAGAGCTT
*
15753172 TTTTCATTAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTGACATTATT
66 TTTTCATTAATTTTGCTGACAGTGCATCCTTCTTGAAGCGTTTTTGACATTATT
15753226 TGTTCAGAAA
Statistics
Matches: 186, Mismatches: 46, Indels: 26
0.72 0.18 0.10
Matches are distributed among these distances:
118 2 0.01
119 2 0.01
120 83 0.45
121 3 0.02
122 4 0.02
124 4 0.02
125 3 0.02
126 77 0.41
127 4 0.02
128 4 0.02
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (120 bp):
GACTTATTTATAGCCTAAGGCCAAACATGAACTACTGTAGAAAAAGAGCGTCCTCGTGAGAGCTT
TTTTCATTAATTTTGCTGACAGTGCATCCTTCTTGAAGCGTTTTTGACATTATTC
Found at i:15753501 original size:34 final size:33
Alignment explanation
Indices: 15753461--15753568 Score: 127
Period size: 34 Copynumber: 3.4 Consensus size: 33
15753451 CACAATATTA
*
15753461 TTTTAAAAAAACTAAACCTTAATTTAATTAATT
1 TTTTAAAAAAACTAAACCCTAATTTAATTAATT
*
15753494 TTCTTAAAAACACTAAACCCTAATTTAATTAATT
1 TT-TTAAAAAAACTAAACCCTAATTTAATTAATT
* *
15753528 TATTT--AAAATCT-TACCCTAATTTAATTAA--
1 T-TTTAAAAAAACTAAACCCTAATTTAATTAATT
15753557 TTTTAAAAAAAC
1 TTTTAAAAAAAC
15753569 ATTAAATCTT
Statistics
Matches: 65, Mismatches: 6, Indels: 11
0.79 0.07 0.13
Matches are distributed among these distances:
28 3 0.05
29 1 0.02
30 5 0.08
31 16 0.25
32 5 0.08
33 2 0.03
34 32 0.49
35 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.00, T:0.41
Consensus pattern (33 bp):
TTTTAAAAAAACTAAACCCTAATTTAATTAATT
Found at i:15753700 original size:14 final size:15
Alignment explanation
Indices: 15753670--15753704 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15753660 TTATTTTAAC
*
15753670 AAAACCCTAACCTTA
1 AAAACCCTAAACTTA
*
15753685 AAAACCCTAAACTAA
1 AAAACCCTAAACTTA
15753700 AAAAC
1 AAAAC
15753705 TCTAGGGACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAACCCTAAACTTA
Found at i:15754019 original size:6 final size:6
Alignment explanation
Indices: 15754008--15754042 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
15753998 ATGTCTGATG
*
15754008 AAATAT AAATAT AAATAT AAATAT TAAT-T AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
15754043 TAAAAAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (6 bp):
AAATAT
Found at i:15758171 original size:49 final size:49
Alignment explanation
Indices: 15758100--15758203 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
15758090 AAAAAAAAAT
* * *
15758100 AAATTAAAATTAAGTTTAATATCATGAATCAAAAGATCAATACTTTACA
1 AAATTAAAATTAAGTTCAATATCATAAATCAAAAGATCAACACTTTACA
* * *
15758149 AAATTAAAATTAAGTTCAATATCATAAATTAAAAGCTCAACACTTTATA
1 AAATTAAAATTAAGTTCAATATCATAAATCAAAAGATCAACACTTTACA
15758198 AAATTA
1 AAATTA
15758204 TAACACATGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.52, C:0.11, G:0.05, T:0.33
Consensus pattern (49 bp):
AAATTAAAATTAAGTTCAATATCATAAATCAAAAGATCAACACTTTACA
Found at i:15767997 original size:31 final size:32
Alignment explanation
Indices: 15767959--15768022 Score: 112
Period size: 31 Copynumber: 2.0 Consensus size: 32
15767949 GAAAATGACG
15767959 AAGACTGTGGTGTATCTCCGGACTTGTT-AGA
1 AAGACTGTGGTGTATCTCCGGACTTGTTGAGA
*
15767990 AAGACTGTGGTGTATCTCTGGACTTGTTGAGA
1 AAGACTGTGGTGTATCTCCGGACTTGTTGAGA
15768022 A
1 A
15768023 TGGTGGAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 27 0.87
32 4 0.13
ACGTcount: A:0.23, C:0.14, G:0.30, T:0.33
Consensus pattern (32 bp):
AAGACTGTGGTGTATCTCCGGACTTGTTGAGA
Found at i:15772877 original size:128 final size:128
Alignment explanation
Indices: 15772649--15772912 Score: 492
Period size: 128 Copynumber: 2.1 Consensus size: 128
15772639 TCGGTGAAAT
15772649 CACAAGTCCTATGTCCCTGGTCAGCAATGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGTCAGCAATGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
15772714 CAGTAGCAGAGCAGATCAAAGACGGCGAATCTTATCTTAAAGTGTAAGGAAGCAGATTTAAGC
66 CAGTAGCAGAGCAGATCAAAGACGGCGAATCTTATCTTAAAGTGTAAGGAAGCAGATTTAAGC
*
15772777 CACAAGTCCTATGTCCCTGGTCAGCAGTGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
1 CACAAGTCCTATGTCCCTGGTCAGCAATGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
* * *
15772842 CAGTAGCGGAGCATATCGAAGACGGCGAATCTTATCTTAAAGTGTAAGGAAGCAGATTTAAGC
66 CAGTAGCAGAGCAGATCAAAGACGGCGAATCTTATCTTAAAGTGTAAGGAAGCAGATTTAAGC
15772905 CACAAGTC
1 CACAAGTC
15772913 TTCTCTCCCT
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
128 132 1.00
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (128 bp):
CACAAGTCCTATGTCCCTGGTCAGCAATGGAGTAGGTTGGAAATTACAGATCTTGTCTCCCTAAG
CAGTAGCAGAGCAGATCAAAGACGGCGAATCTTATCTTAAAGTGTAAGGAAGCAGATTTAAGC
Found at i:15778689 original size:28 final size:27
Alignment explanation
Indices: 15778628--15778716 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 27
15778618 ACTCAGATAT
* *
15778628 CACTTGGTTCAAAACTTGGCTCGAATAC
1 CACTTGGTTC-GAACCTGGCTCGAATAC
*
15778656 CACTTGGTTTGAACCTGGCTCGAATATC
1 CACTTGGTTCGAACCTGGCTCGAATA-C
* *
15778684 TC-CTTGGTTCGAACCTTGCTCGGATAC
1 -CACTTGGTTCGAACCTGGCTCGAATAC
15778711 CACTTG
1 CACTTG
15778717 TCACGGGGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
26 1 0.02
27 19 0.37
28 31 0.60
29 1 0.02
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.31
Consensus pattern (27 bp):
CACTTGGTTCGAACCTGGCTCGAATAC
Found at i:15780523 original size:17 final size:16
Alignment explanation
Indices: 15780499--15780543 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
15780489 TTTGGGTTTA
15780499 AATATTTTTAATATTT
1 AATATTTTTAATATTT
15780515 AATATTTTTTAATA-TT
1 AATA-TTTTTAATATTT
* *
15780531 AGTGTTTTTAATA
1 AATATTTTTAATA
15780544 GGGTTTAGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 9 0.35
16 8 0.31
17 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (16 bp):
AATATTTTTAATATTT
Found at i:15780569 original size:21 final size:20
Alignment explanation
Indices: 15780535--15780578 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
15780525 AATATTAGTG
* *
15780535 TTTTTAATAGGGTTTAGGGT
1 TTTTTAAAAGGGTTCAGGGT
*
15780555 TTTTCTAAAAGGGTTCGGGGT
1 TTTT-TAAAAGGGTTCAGGGT
15780576 TTT
1 TTT
15780579 CAACTGAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.18, C:0.05, G:0.30, T:0.48
Consensus pattern (20 bp):
TTTTTAAAAGGGTTCAGGGT
Found at i:15792252 original size:40 final size:39
Alignment explanation
Indices: 15792177--15792252 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 39
15792167 GAATCAGTTT
* *
15792177 GGGCCTTAGCCCATTCAGATATAGTATCAGAATACATTA
1 GGGCCTTAGCCCATTCAGATACAGAATCAGAATACATTA
*
15792216 GGGCCTTGGCCCATATCAGATACAGAATACAG-ATACA
1 GGGCCTTAGCCCAT-TCAGATACAGAAT-CAGAATACA
15792253 GTAAATCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 13 0.41
40 16 0.50
41 3 0.09
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (39 bp):
GGGCCTTAGCCCATTCAGATACAGAATCAGAATACATTA
Found at i:15798943 original size:8 final size:8
Alignment explanation
Indices: 15798930--15798958 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15798920 TATATATACT
15798930 AAATAATA
1 AAATAATA
15798938 AAATAATA
1 AAATAATA
15798946 AAATAATA
1 AAATAATA
15798954 AAATA
1 AAATA
15798959 TCATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AAATAATA
Found at i:15799278 original size:30 final size:31
Alignment explanation
Indices: 15799223--15799281 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
15799213 AACCTTAAAA
** *
15799223 TATTTGCACTATTGGTCCTTCAAATTTTTCT
1 TATTTGCACTATTAATCCCTCAAATTTTTCT
15799254 TATTTGCACT-TTAATCCCTCAAATTTTT
1 TATTTGCACTATTAATCCCTCAAATTTTT
15799282 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.22, C:0.20, G:0.07, T:0.51
Consensus pattern (31 bp):
TATTTGCACTATTAATCCCTCAAATTTTTCT
Found at i:15799289 original size:31 final size:31
Alignment explanation
Indices: 15799223--15799289 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 31
15799213 AACCTTAAAA
** * **
15799223 TATTTGCACTATTGGTCCTTCAAATTTTTCT
1 TATTTGCACTATTAATCCCTCAAATTTTTAG
15799254 TATTTGCACT-TTAATCCCTCAAATTTTTGAG
1 TATTTGCACTATTAATCCCTCAAATTTTT-AG
15799285 TATTT
1 TATTT
15799290 ACCCTTGGGC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.22, C:0.18, G:0.09, T:0.51
Consensus pattern (31 bp):
TATTTGCACTATTAATCCCTCAAATTTTTAG
Found at i:15799838 original size:406 final size:407
Alignment explanation
Indices: 15799043--15799856 Score: 1368
Period size: 408 Copynumber: 2.0 Consensus size: 407
15799033 CATCATTATC
* *
15799043 TTCAAGATTTCTCTCTCTTCTAAATGACCATTTTGCCCTTTATGATCTTTTAAAATTCCATCATT
1 TTCAAGATTTCTCTCTCTTCTAAATGACCATTTTGCCCTTAATGATATTTTAAAATTCCATCATT
*
15799108 AACTCATTACTTAATTTGGTAAAATTACGATTTAGTCCCTCATAATTCTTCACCTATTCAATTTG
66 AACTCATTACTTAATTTGGTAAAATTACGATTTAGTCCCTCATAATTCTTCACCTATTCAAATTG
* * *
15799173 GTCCTAATTCATCCGTTTTCCTTAGTTTCTAGATTTTTCCAACCTTAAAATATTTGCACTATTGG
131 GGCCTAATTCATCCATTTTCCTTAGTTTCTAGATTATTCCAACCTTAAAATATTTGCACTATTGG
* * *
15799238 TCCTTCAAATTTTTCTTATTTGCACTTTAATCCCTCAAATTTTTGAGTATTTACCCTTGGGCAAC
196 TCCTTCAAACTTTTATTATTTGCACTTTAACCCCTCAAATTTTTGAGTATTTACCCTTGGGCAAC
15799303 AAACATTTTCTCACTTTTGCGATTTAATCATTTCTTGAATTAATATGTCATAATTTACTTCTTAA
261 AAACATTTTCTCACTTTTGCGATTTAAT-ATTTCTTGAATTAATATGTCATAATTTACTTCTTAA
*
15799368 TGCTGACATAACTCAAAATTACCCTTTTTATCACTTTATTTCCTTATTTTACTATATCAGGAATA
325 TGCTGACATAACTCAAAATTACCCTCTTTATCACTTTATTTCCTTATTTTACTATATCAGGAATA
15799433 TTATCTTACTTTCTTACT
390 TTATCTTACTTTCTTACT
*
15799451 TTCAAGATTTCTCTCTCTTCTAAATGACCATTTTGCCCTTAATGATATTTTAAAATTCCATCCTT
1 TTCAAGATTTCTCTCTCTTCTAAATGACCATTTTGCCCTTAATGATATTTTAAAATTCCATCATT
* * *
15799516 GAGTCATTACTTAATTTGGTAAAATTATGATTTAGTCCCTCATAATTCTTCACCTATTCAAATTG
66 AACTCATTACTTAATTTGGTAAAATTACGATTTAGTCCCTCATAATTCTTCACCTATTCAAATTG
*
15799581 GGCCTAATTCATCCATTTTCCTTAGTTTCTAGATTATTCCAACCTTAAAATTTTTGCACTATTGG
131 GGCCTAATTCATCCATTTTCCTTAGTTTCTAGATTATTCCAACCTTAAAATATTTGCACTATTGG
* *
15799646 TCCTTC-AACTTTTATTATTTTCACTTTAACCCCTCCAA-TTTTGAGTATTTACCCTTGGGCAAC
196 TCCTTCAAACTTTTATTATTTGCACTTTAACCCCTCAAATTTTTGAGTATTTACCCTTGGGCAAC
* *
15799709 AAA-ACTTTTCTCACTTTTGTGATTTAGT-TTAATCATT-AATTAATATGTCATAATTTACTTCT
261 AAACA-TTTTCTCACTTTTGCGATTTAATATT--TC-TTGAATTAATATGTCATAATTTACTTCT
*
15799771 TAATGCTGACATAACTCAAAATTACCCTCTTTATCACTTTATTTCCTTATTTTACTATATTAGGA
322 TAATGCTGACATAACTCAAAATTACCCTCTTTATCACTTTATTTCCTTATTTTACTATATCAGGA
15799836 ATATTATCTTACTTTCTTACT
387 ATATTATCTTACTTTCTTACT
15799857 ATAGTAATTT
Statistics
Matches: 382, Mismatches: 20, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
404 2 0.01
405 1 0.00
406 160 0.42
407 29 0.08
408 190 0.50
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (407 bp):
TTCAAGATTTCTCTCTCTTCTAAATGACCATTTTGCCCTTAATGATATTTTAAAATTCCATCATT
AACTCATTACTTAATTTGGTAAAATTACGATTTAGTCCCTCATAATTCTTCACCTATTCAAATTG
GGCCTAATTCATCCATTTTCCTTAGTTTCTAGATTATTCCAACCTTAAAATATTTGCACTATTGG
TCCTTCAAACTTTTATTATTTGCACTTTAACCCCTCAAATTTTTGAGTATTTACCCTTGGGCAAC
AAACATTTTCTCACTTTTGCGATTTAATATTTCTTGAATTAATATGTCATAATTTACTTCTTAAT
GCTGACATAACTCAAAATTACCCTCTTTATCACTTTATTTCCTTATTTTACTATATCAGGAATAT
TATCTTACTTTCTTACT
Found at i:15801033 original size:49 final size:49
Alignment explanation
Indices: 15800980--15801131 Score: 171
Period size: 49 Copynumber: 3.0 Consensus size: 49
15800970 GATGGAAGTA
* *
15800980 AGTGGTAGTTTATTTGCAAATTAGA-GGTGGCTTGTCCATAAAGTGTTTC
1 AGTGGTAGTTTATCTGCAAATCA-ATGGTGGCTTGTCCATAAAGTGTTTC
* * * * *
15801029 AGTGGTAGTATATCTGTATATCAATGGTGTCTTGTCCACAAAGTGTTATC
1 AGTGGTAGTTTATCTGCAAATCAATGGTGGCTTGTCCATAAAGTGTT-TC
* * *
15801079 AGTGGTAGTTTATCTACAAACCAATGGTGGCTTGCCCATAAATGGTGTTTC
1 AGTGGTAGTTTATCTGCAAATCAATGGTGGCTTGTCCATAAA--GTGTTTC
15801130 AG
1 AG
15801132 ATGGACGAGT
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 38 0.45
50 36 0.43
51 4 0.05
52 5 0.06
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (49 bp):
AGTGGTAGTTTATCTGCAAATCAATGGTGGCTTGTCCATAAAGTGTTTC
Found at i:15801104 original size:50 final size:49
Alignment explanation
Indices: 15801005--15801131 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 49
15800995 GCAAATTAGA
* ** * *
15801005 GGTGGCTTGTCCATAAAGTGTTTCAGTGGTAGTATATCTGTATATCAAT
1 GGTGGCTTGTCCACAAAGTGTTTCAGTGGTAGTATATCTACAAACCAAT
* *
15801054 GGTGTCTTGTCCACAAAGTGTTATCAGTGGTAGTTTATCTACAAACCAAT
1 GGTGGCTTGTCCACAAAGTGTT-TCAGTGGTAGTATATCTACAAACCAAT
* *
15801104 GGTGGCTTGCCCATAAATGGTGTTTCAG
1 GGTGGCTTGTCCACAAA--GTGTTTCAG
15801132 ATGGACGAGT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
49 20 0.31
50 36 0.55
51 4 0.06
52 5 0.08
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (49 bp):
GGTGGCTTGTCCACAAAGTGTTTCAGTGGTAGTATATCTACAAACCAAT
Found at i:15806096 original size:95 final size:94
Alignment explanation
Indices: 15806031--15806219 Score: 324
Period size: 95 Copynumber: 2.0 Consensus size: 94
15806021 CCAAACAAAT
* *
15806031 TTATGCTAAGGGTATTCTAGTCATTTTAGTTTTTTCCATTATGCTATTACATCTCTATTCCATTT
1 TTATGCTAAGGGTATTCTAGTCATTTCAGTTTTTTCCATTATGCTATTACACCTCTATTCCATTT
15806096 AACCAAACACAAGAATACTATTACGCCTCC
66 AA-CAAACACAAGAATACTATTACGCCTCC
* *
15806126 TTATGCTAAGGGTATTCTAGTTATTTCAGTTTTTTCCATTATGCTATTACACCTCTATTCCATTC
1 TTATGCTAAGGGTATTCTAGTCATTTCAGTTTTTTCCATTATGCTATTACACCTCTATTCCATTT
15806191 AACCAAACACAAGAATACTATTACGCCTC
66 AA-CAAACACAAGAATACTATTACGCCTC
15806220 TATTCCATTA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.39
Consensus pattern (94 bp):
TTATGCTAAGGGTATTCTAGTCATTTCAGTTTTTTCCATTATGCTATTACACCTCTATTCCATTT
AACAAACACAAGAATACTATTACGCCTCC
Found at i:15806276 original size:16 final size:16
Alignment explanation
Indices: 15806255--15806303 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
15806245 TTGATTTGCT
*
15806255 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
15806271 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
15806287 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
15806303 A
1 A
15806304 ATACAGCGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.20, C:0.35, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:15818776 original size:15 final size:15
Alignment explanation
Indices: 15818751--15818785 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
15818741 ATTAAATAGG
15818751 AAAGA-AAAGAAAGA
1 AAAGAGAAAGAAAGA
15818765 AAAGAGAAAGAAAGA
1 AAAGAGAAAGAAAGA
15818780 AAAGAG
1 AAAGAG
15818786 GAGAAAGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (15 bp):
AAAGAGAAAGAAAGA
Found at i:15830421 original size:11 final size:12
Alignment explanation
Indices: 15830405--15830441 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
15830395 TCATGCGTTA
15830405 TTTTGTATAT-T
1 TTTTGTATATAT
15830416 TTTTGTATCATAT
1 TTTTGTAT-ATAT
15830429 TTTTGTATA-AT
1 TTTTGTATATAT
15830440 TT
1 TT
15830442 AGAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.50
12 3 0.12
13 9 0.38
ACGTcount: A:0.22, C:0.03, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTTGTATATAT
Found at i:15830430 original size:14 final size:13
Alignment explanation
Indices: 15830405--15830436 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15830395 TCATGCGTTA
15830405 TTTTGTAT-AT-T
1 TTTTGTATCATAT
15830416 TTTTGTATCATAT
1 TTTTGTATCATAT
15830429 TTTTGTAT
1 TTTTGTAT
15830437 AATTTAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 2 0.11
13 9 0.47
ACGTcount: A:0.19, C:0.03, G:0.09, T:0.69
Consensus pattern (13 bp):
TTTTGTATCATAT
Found at i:15832265 original size:148 final size:149
Alignment explanation
Indices: 15832029--15832326 Score: 580
Period size: 148 Copynumber: 2.0 Consensus size: 149
15832019 TGAAATCTGG
15832029 GTCTAAAATTTTACCCAAACTCACCCATATTTGCAAAAAACTAACCCAAGCCCATTTTAGGCTAG
1 GTCTAAAATTTTACCCAAACTCACCCATATTTGCAAAAAACTAACCCAAGCCCATTTTAGGCTAG
15832094 CCTATATTATTTTTTAAATTTTTTTAAAAAAAATTATATTAAATTATATTAAAATTTAAAAATAT
66 CCTATATTATTTTTTAAATTTTTTTAAAAAAAATTATATTAAATTATATTAAAATTTAAAAATAT
15832159 TATACATTTTTTATTCATT
131 TATACATTTTTTATTCATT
*
15832178 GTCTAAAA-TTTCCCCAAACTCACCCATATTTGCAAAAAACTAACCCAAGCCCATTTTAGGCTAG
1 GTCTAAAATTTTACCCAAACTCACCCATATTTGCAAAAAACTAACCCAAGCCCATTTTAGGCTAG
15832242 CCTATATTATTTTTTAAATTTTTTTAAAAAAAATTATATTAAATTATATTAAAATTTAAAAATAT
66 CCTATATTATTTTTTAAATTTTTTTAAAAAAAATTATATTAAATTATATTAAAATTTAAAAATAT
15832307 TATACATTTTTTATTCATT
131 TATACATTTTTTATTCATT
15832326 G
1 G
15832327 AAATTTTTTA
Statistics
Matches: 148, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
148 140 0.95
149 8 0.05
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.41
Consensus pattern (149 bp):
GTCTAAAATTTTACCCAAACTCACCCATATTTGCAAAAAACTAACCCAAGCCCATTTTAGGCTAG
CCTATATTATTTTTTAAATTTTTTTAAAAAAAATTATATTAAATTATATTAAAATTTAAAAATAT
TATACATTTTTTATTCATT
Found at i:15838013 original size:89 final size:90
Alignment explanation
Indices: 15837896--15838074 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 90
15837886 ATATTTATAG
15837896 GTTTTGTCAATTTAACCCTTACTCTTTATAAATACATAAAAAGTCTAAAAATTAAAAAATATATA
1 GTTTTGTCAATTTAACCCTTACTCTTTATAAATACATAAAAAGTCTAAAAATTAAAAAATATATA
15837961 ATTTTAAAATATGAAAAAATTATGA
66 ATTTTAAAATATGAAAAAATTATGA
15837986 GTTTTGTCAA-TTAACCCTTACTCTTTATAAATACATAAAAAGTCTAAAAATTAAAAAATATATA
1 GTTTTGTCAATTTAACCCTTACTCTTTATAAATACATAAAAAGTCTAAAAATTAAAAAATATATA
15838050 ATTTTAAAATATGAAAAAATTATGA
66 ATTTTAAAATATGAAAAAATTATGA
15838075 AAAAGTAAAA
Statistics
Matches: 89, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
89 79 0.89
90 10 0.11
ACGTcount: A:0.49, C:0.09, G:0.06, T:0.36
Consensus pattern (90 bp):
GTTTTGTCAATTTAACCCTTACTCTTTATAAATACATAAAAAGTCTAAAAATTAAAAAATATATA
ATTTTAAAATATGAAAAAATTATGA
Found at i:15838828 original size:41 final size:41
Alignment explanation
Indices: 15838766--15838854 Score: 108
Period size: 41 Copynumber: 2.2 Consensus size: 41
15838756 ACTGAAAATA
* * **
15838766 CCGC-AAATATACACCACTAGTGGCATTTTTCTTATAAACG
1 CCGCAAAATATAAACCAATAGTGGCATTTTTCACATAAACG
* * *
15838806 CCGCAAAATATAAAGCAATAGTGGCGTTTTTCACATAAATG
1 CCGCAAAATATAAACCAATAGTGGCATTTTTCACATAAACG
15838847 CCGCAAAA
1 CCGCAAAA
15838855 GGTAGAGGAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 4 0.10
41 37 0.90
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (41 bp):
CCGCAAAATATAAACCAATAGTGGCATTTTTCACATAAACG
Found at i:15842527 original size:59 final size:59
Alignment explanation
Indices: 15842455--15842589 Score: 234
Period size: 59 Copynumber: 2.3 Consensus size: 59
15842445 AAAAGCTGGG
*
15842455 TCATATTTCATAATAATTATACGAATAATTAATTAATTTTTAATTAATTAAATAAATAA
1 TCATATTTCATAATAATTATACGAATAATTAATTAATTTTCAATTAATTAAATAAATAA
* * *
15842514 TCATATTTCATAATAATTTTATGAATAATTAATTAATTTTCGATTAATTAAATAAATAA
1 TCATATTTCATAATAATTATACGAATAATTAATTAATTTTCAATTAATTAAATAAATAA
15842573 TCATATTTCATAATAAT
1 TCATATTTCATAATAAT
15842590 GATAATCATA
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 72 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (59 bp):
TCATATTTCATAATAATTATACGAATAATTAATTAATTTTCAATTAATTAAATAAATAA
Found at i:15846839 original size:30 final size:30
Alignment explanation
Indices: 15846803--15846860 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15846793 ATTCAAGCAC
* *
15846803 AAAAAAAAAAGCAAAATCAAGATCAAAAAT
1 AAAAAAAAAAGAAAAATCAAAATCAAAAAT
*
15846833 AAAAAAAGAAGAAAAATCAAAATCAAAA
1 AAAAAAAAAAGAAAAATCAAAATCAAAA
15846861 TCAAAGTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.76, C:0.09, G:0.07, T:0.09
Consensus pattern (30 bp):
AAAAAAAAAAGAAAAATCAAAATCAAAAAT
Found at i:15846860 original size:12 final size:12
Alignment explanation
Indices: 15846845--15846884 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
15846835 AAAAAGAAGA
15846845 AAAATCAAAATC
1 AAAATCAAAATC
*
15846857 AAAATCAAAGTC
1 AAAATCAAAATC
* *
15846869 AAAATGAAAATG
1 AAAATCAAAATC
15846881 AAAA
1 AAAA
15846885 AGAGAGAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.68, C:0.10, G:0.07, T:0.15
Consensus pattern (12 bp):
AAAATCAAAATC
Found at i:15846915 original size:21 final size:21
Alignment explanation
Indices: 15846874--15846918 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15846864 AAGTCAAAAT
* *
15846874 GAAAATGAAAAAGAGAGAAGA
1 GAAAAGGAAAAAGAGAAAAGA
15846895 GAAAAGGAAAAAG-GAAAA-A
1 GAAAAGGAAAAAGAGAAAAGA
15846914 GAAAA
1 GAAAA
15846919 TGAGAGGCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.27
20 4 0.18
21 12 0.55
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (21 bp):
GAAAAGGAAAAAGAGAAAAGA
Found at i:15847789 original size:8 final size:7
Alignment explanation
Indices: 15847770--15847808 Score: 53
Period size: 8 Copynumber: 5.4 Consensus size: 7
15847760 ATTCTTCAAA
15847770 AAAAAGTG
1 AAAAA-TG
15847778 AAAAATG
1 AAAAATG
15847785 AAAAAATG
1 -AAAAATG
15847793 -AAAATG
1 AAAAATG
15847799 AAAAATG
1 AAAAATG
15847806 AAA
1 AAA
15847809 GTAAAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
6 6 0.21
7 11 0.38
8 12 0.41
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:15847804 original size:13 final size:13
Alignment explanation
Indices: 15847779--15847817 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
15847769 AAAAAAGTGA
15847779 AAAATGAAAAAATG
1 AAAATG-AAAAATG
15847793 AAAATGAAAAATG
1 AAAATGAAAAATG
*
15847806 AAAGT-AAAAATG
1 AAAATGAAAAATG
15847818 GAGAGGCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 7 0.29
13 11 0.46
14 6 0.25
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:15848046 original size:23 final size:23
Alignment explanation
Indices: 15848016--15848062 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
15848006 CATCTTGGGG
15848016 CATCGACAAAGTATTGTAGATCT
1 CATCGACAAAGTATTGTAGATCT
15848039 CATCGACAAAGTATTGTAGATCT
1 CATCGACAAAGTATTGTAGATCT
15848062 C
1 C
15848063 CTAAACACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (23 bp):
CATCGACAAAGTATTGTAGATCT
Found at i:15852221 original size:191 final size:193
Alignment explanation
Indices: 15851862--15852248 Score: 683
Period size: 191 Copynumber: 2.0 Consensus size: 193
15851852 TAATGAGGCA
15851862 GACTTGTGGAAAAAAAGAAGTATTTTTTTAGTTACCTTATTAGAAGCATCACATTTTACGACACA
1 GACTTGTGGAAAAAAAGAAGTATTTTTTTAGTTACCTTATTAGAAGCATCACATTTTACGACACA
15851927 ATCTTGATGTCATGCATATTGAAAAGAATGCTTGCGAGAACATCATTGGGACAATTCTAAATGTC
66 ATCTTGATGTCATGCATATTGAAAAGAATGCTTGCGAGAACATCATTGGGACAATTCTAAATGTC
* *
15851992 GATAGAAAATTGAAAGACAATCTTTAGAGTTGACTTGATCTAGTTGACATGGGAATTCGATGT
131 GATAGAAAATTGAAAGACAATCTTTAAAGTTGACTTGATCTAGTTGACATGGGAATTCGACGT
* *
15852055 GACTTGTGG-AAAAAA-AAGT-TTTTTTTGAGTTATCTTATTA-AGAGCATCACATTTTGCGACA
1 GACTTGTGGAAAAAAAGAAGTATTTTTTT-AGTTACCTTATTAGA-AGCATCACATTTTACGACA
15852116 CAATCTTGATGTCATGCATATTGAAAAGAATGCTTGCGAGAACATCATTGGGACAATTCTAAATG
64 CAATCTTGATGTCATGCATATTGAAAAGAATGCTTGCGAGAACATCATTGGGACAATTCTAAATG
*
15852181 TCGATAGAAAATTGAAAGACAATCTTTAAATTTGACTTGATCTAGTTGACATGGGAATTCGACGT
129 TCGATAGAAAATTGAAAGACAATCTTTAAAGTTGACTTGATCTAGTTGACATGGGAATTCGACGT
15852246 GAC
1 GAC
15852249 CTTCATCCCC
Statistics
Matches: 187, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
190 8 0.04
191 164 0.88
192 6 0.03
193 9 0.05
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (193 bp):
GACTTGTGGAAAAAAAGAAGTATTTTTTTAGTTACCTTATTAGAAGCATCACATTTTACGACACA
ATCTTGATGTCATGCATATTGAAAAGAATGCTTGCGAGAACATCATTGGGACAATTCTAAATGTC
GATAGAAAATTGAAAGACAATCTTTAAAGTTGACTTGATCTAGTTGACATGGGAATTCGACGT
Found at i:15853247 original size:12 final size:12
Alignment explanation
Indices: 15853224--15853281 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
15853214 TCATAAGTTA
15853224 TTCATAGAATCTT
1 TTCAT-GAATCTT
15853237 TTCATGAATCTT
1 TTCATGAATCTT
* *
15853249 TTAAT-AAGT-TA
1 TTCATGAA-TCTT
15853260 TTCATAGAATCTT
1 TTCAT-GAATCTT
15853273 TTCATGAAT
1 TTCATGAAT
15853282 GGTTAGGGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
11 7 0.19
12 17 0.46
13 13 0.35
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.47
Consensus pattern (12 bp):
TTCATGAATCTT
Found at i:15853256 original size:36 final size:37
Alignment explanation
Indices: 15853207--15853281 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 37
15853197 AAGTCTTGAG
*
15853207 ATCTTGTTCATAAGTTATTCATAGAATCTTTTCATGA
1 ATCTTGTTAATAAGTTATTCATAGAATCTTTTCATGA
15853244 ATCTT-TTAATAAGTTATTCATAGAATCTTTTCATGA
1 ATCTTGTTAATAAGTTATTCATAGAATCTTTTCATGA
15853280 AT
1 AT
15853282 GGTTAGGGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 32 0.86
37 5 0.14
ACGTcount: A:0.32, C:0.12, G:0.09, T:0.47
Consensus pattern (37 bp):
ATCTTGTTAATAAGTTATTCATAGAATCTTTTCATGA
Found at i:15860804 original size:11 final size:11
Alignment explanation
Indices: 15860788--15860817 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
15860778 ATTTTCTATA
15860788 ATTAATTTAAT
1 ATTAATTTAAT
15860799 ATTAATTTAAT
1 ATTAATTTAAT
15860810 ATTAATTT
1 ATTAATTT
15860818 CTCTAATCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTAATTTAAT
Found at i:15864781 original size:15 final size:15
Alignment explanation
Indices: 15864761--15864812 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
15864751 TGGTTAATTG
15864761 TAATTAAGATTTAAT
1 TAATTAAGATTTAAT
**
15864776 TAATTAAGGCTTAAT
1 TAATTAAGATTTAAT
* *
15864791 TAAATAA-ATTTTTAT
1 TAATTAAGA-TTTAAT
15864806 TAATTAA
1 TAATTAA
15864813 CTTAATTTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (15 bp):
TAATTAAGATTTAAT
Found at i:15867096 original size:8 final size:8
Alignment explanation
Indices: 15867083--15867121 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
15867073 AAGATAATTG
15867083 AAGCAACT
1 AAGCAACT
*
15867091 AAGCAAACA
1 AAGC-AACT
*
15867100 AAGAAACT
1 AAGCAACT
15867108 AAGCAACT
1 AAGCAACT
15867116 AAGCAA
1 AAGCAA
15867122 GCAAAGAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.59, C:0.21, G:0.13, T:0.08
Consensus pattern (8 bp):
AAGCAACT
Found at i:15867111 original size:25 final size:25
Alignment explanation
Indices: 15867083--15867134 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
15867073 AAGATAATTG
15867083 AAGCAACTAAGCAAACAAAGAAACT
1 AAGCAACTAAGCAAACAAAGAAACT
*
15867108 AAGCAACTAAGCAAGCAAAGAAACT
1 AAGCAACTAAGCAAACAAAGAAACT
15867133 AA
1 AA
15867135 CTCGTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.60, C:0.19, G:0.13, T:0.08
Consensus pattern (25 bp):
AAGCAACTAAGCAAACAAAGAAACT
Found at i:15872005 original size:71 final size:71
Alignment explanation
Indices: 15871889--15872031 Score: 207
Period size: 71 Copynumber: 2.0 Consensus size: 71
15871879 ACTAGGGGGC
* * ** *
15871889 CTACCTGGGTTATTGTCAGGTCGTCATTCGTTTCGCCATGTGTCATCCTTGGGGTAGGGGTATAA
1 CTACCTGGGCTATTGTCAGGTCGTCATTCGTTTCGCCACGTGTCATCCTTAAGGTAGGGCTATAA
15871954 CAATTT
66 CAATTT
* *
15871960 CTACCTGGGCTCTTGTCAGGTTGTCATTCG-TTCTGCCACGTGTCATCCTTAAGGTAGGGCTATA
1 CTACCTGGGCTATTGTCAGGTCGTCATTCGTTTC-GCCACGTGTCATCCTTAAGGTAGGGCTATA
15872024 ACAATTT
65 ACAATTT
15872031 C
1 C
15872032 CCCTTGTTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
70 3 0.05
71 61 0.95
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.36
Consensus pattern (71 bp):
CTACCTGGGCTATTGTCAGGTCGTCATTCGTTTCGCCACGTGTCATCCTTAAGGTAGGGCTATAA
CAATTT
Found at i:15877762 original size:7 final size:7
Alignment explanation
Indices: 15877747--15877794 Score: 78
Period size: 7 Copynumber: 6.9 Consensus size: 7
15877737 GGAAAAAATT
15877747 TCAAACC
1 TCAAACC
*
15877754 TCGAACC
1 TCAAACC
*
15877761 TCGAACC
1 TCAAACC
15877768 TCAAACC
1 TCAAACC
15877775 TCAAACC
1 TCAAACC
15877782 TCAAACC
1 TCAAACC
15877789 TCAAAC
1 TCAAAC
15877795 ATACAAGCAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.40, C:0.42, G:0.04, T:0.15
Consensus pattern (7 bp):
TCAAACC
Found at i:15879463 original size:62 final size:62
Alignment explanation
Indices: 15879386--15879509 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 62
15879376 GGTGGTAGTC
* * *
15879386 TGTGAAATGGTATAGATGTCACTTGAATGGTAAATTTGGTAGTTAATTTACATGACTAAATT
1 TGTGAAATGCTATAGATGTCACTTGAATGGTAAATTTGGTAGTTAATTCACAAGACTAAATT
*
15879448 TGTGAAATGCTATAGATGTCACTTGAATGGTAAATTTTGTAGTTAATTCACAAGACTAAATT
1 TGTGAAATGCTATAGATGTCACTTGAATGGTAAATTTGGTAGTTAATTCACAAGACTAAATT
15879510 GGTGGGATTG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.35, C:0.08, G:0.19, T:0.38
Consensus pattern (62 bp):
TGTGAAATGCTATAGATGTCACTTGAATGGTAAATTTGGTAGTTAATTCACAAGACTAAATT
Found at i:15883732 original size:106 final size:106
Alignment explanation
Indices: 15883610--15883930 Score: 509
Period size: 106 Copynumber: 3.0 Consensus size: 106
15883600 TTTAAATGCA
* * * *
15883610 TGCACATATTCTAAATATGTGATTTTCATATACATACGCGTGTAATA-AATTTTCTAACAAATAT
1 TGCA-ATATTCTAAATATGTGATTTTCACATACCTACGCGTGTGATAGAA-TTTCTAATAAATAT
* *
15883674 AAAGGGATAAATCTCAAATTTATACATGAATTTTGTTTCAATG
64 AAAGGGATAAATATCAAATTTATACATGAACTTTGTTTCAATG
* *
15883717 TGCAATATTCTAAATATGTGATTTTCACATACCGACGTGTGTGATAGAATTTCTAATAAATATAA
1 TGCAATATTCTAAATATGTGATTTTCACATACCTACGCGTGTGATAGAATTTCTAATAAATATAA
*
15883782 AGGGATAAATATCAAATTCATACATGAACTTTGTTTCAATG
66 AGGGATAAATATCAAATTTATACATGAACTTTGTTTCAATG
* *
15883823 TGCAATATTATAAATATGTGATTTTCACATACCTACGCGTGTGATAGAATTTCTAGTAAATATAA
1 TGCAATATTCTAAATATGTGATTTTCACATACCTACGCGTGTGATAGAATTTCTAATAAATATAA
*
15883888 AGAGATAAATATCAAATTTATACATGAACTTTGTTTCAATG
66 AGGGATAAATATCAAATTTATACATGAACTTTGTTTCAATG
15883929 TG
1 TG
15883931 TAATTTGATA
Statistics
Matches: 198, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
106 192 0.97
107 6 0.03
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (106 bp):
TGCAATATTCTAAATATGTGATTTTCACATACCTACGCGTGTGATAGAATTTCTAATAAATATAA
AGGGATAAATATCAAATTTATACATGAACTTTGTTTCAATG
Found at i:15885260 original size:19 final size:19
Alignment explanation
Indices: 15885238--15885297 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
15885228 AATTTTTTTA
15885238 TATTTTTATATTTTTGAAT
1 TATTTTTATATTTTTGAAT
*
15885257 TATTTTTA-ATTTTAGAA-
1 TATTTTTATATTTTTGAAT
*
15885274 TATTTTTATAATTTTTAAAT
1 TATTTTTAT-ATTTTTGAAT
15885294 TATT
1 TATT
15885298 CGTTGGCATG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 8 0.23
18 8 0.23
19 15 0.43
20 4 0.11
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
TATTTTTATATTTTTGAAT
Found at i:15885277 original size:36 final size:37
Alignment explanation
Indices: 15885223--15885297 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 37
15885213 CCATGCTATC
*** *
15885223 TTTTTAATTTTTTTATATTTTTAT-ATTTTTGAATTA
1 TTTTTAATTTTAGAATATTTTTATAATTTTTAAATTA
15885259 TTTTTAATTTTAGAATATTTTTATAATTTTTAAATTA
1 TTTTTAATTTTAGAATATTTTTATAATTTTTAAATTA
15885296 TT
1 TT
15885298 CGTTGGCATG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
36 21 0.62
37 13 0.38
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (37 bp):
TTTTTAATTTTAGAATATTTTTATAATTTTTAAATTA
Found at i:15885820 original size:12 final size:12
Alignment explanation
Indices: 15885803--15885829 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
15885793 TGATATACGG
15885803 AAAAGGAAAAAA
1 AAAAGGAAAAAA
15885815 AAAAGGAAAAAA
1 AAAAGGAAAAAA
15885827 AAA
1 AAA
15885830 TTTTGGGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAGGAAAAAA
Found at i:15886026 original size:110 final size:108
Alignment explanation
Indices: 15885830--15886051 Score: 340
Period size: 111 Copynumber: 2.0 Consensus size: 108
15885820 GAAAAAAAAA
15885830 TTTTGGGTGCTGGCCTGTCAATAGCCGACACCCAGTACAATTTTAAAAAAAAATTATTCTTTTTG
1 TTTTGGGTGCTGGCCTGTCAATAGCCGACACCCAGTACAATTTT-AAAAAAAATTATTCTTTTTG
*
15885895 TGTCAGAATCAGATATTAGTATACGAAAAAAGTAAAAAAAAAATTT
65 TGTCAGAATCAGATATCAGTATACGAAAAAA-T-AAAAAAAAATTT
* * *
15885941 TTTTGGGTGCTGGCCTGTCAATGGCCGACACCCAGTACAA-TTT-AAAAAAATTCTTTTTTTTTC
1 TTTTGGGTGCTGGCCTGTCAATAGCCGACACCCAGTACAATTTTAAAAAAAATT-ATTCTTTTT-
*
15886004 GTGTCAGAATCAGATATCAGTATACGAAAAAATAACAAAAAATTT
64 GTGTCAGAATCAGATATCAGTATACGAAAAAATAAAAAAAAATTT
15886049 TTT
1 TTT
15886052 GGCAGCACCT
Statistics
Matches: 104, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
108 23 0.22
109 8 0.08
110 34 0.33
111 39 0.38
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (108 bp):
TTTTGGGTGCTGGCCTGTCAATAGCCGACACCCAGTACAATTTTAAAAAAAATTATTCTTTTTGT
GTCAGAATCAGATATCAGTATACGAAAAAATAAAAAAAAATTT
Found at i:15886560 original size:103 final size:107
Alignment explanation
Indices: 15886378--15886644 Score: 400
Period size: 107 Copynumber: 2.5 Consensus size: 107
15886368 ATTACAAGGT
*
15886378 GGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTACTTTTTTCGTATACTGATATCT
1 GGTGCCGGCCATTGACAGGCCAGCACCC-AAA-TTTTTTTTTACTTTTTTCGTATATTGATATCT
* * *
15886443 GATTCTGACACG-AAAAAAA-GAA-TTTTTTTTAAATTGTGCTG
64 GATTATGACACGAAAAAAAATAAACTTTTTTTTAAATTGTACTG
* *
15886484 GGTGCTGGCCATTGACAGGCCAGCA-TCAAATTTTTTTTTACTTTTTTCGTATATTGATATCTGA
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTTTCGTATATTGATATCTGA
15886548 TTATGACACGAAAAAAAATAAACTTTTTTTTTAAATTGTACTG
66 TTATGACACGAAAAAAAATAAAC-TTTTTTTTAAATTGTACTG
* *
15886591 AGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTT-CCTTTTTCGTATAT
1 GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTTTCGTATAT
15886645 CAGTATTATA
Statistics
Matches: 146, Mismatches: 10, Indels: 9
0.88 0.06 0.05
Matches are distributed among these distances:
103 42 0.29
104 10 0.07
105 3 0.02
106 24 0.16
107 54 0.37
108 13 0.09
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (107 bp):
GGTGCCGGCCATTGACAGGCCAGCACCCAAATTTTTTTTTACTTTTTTCGTATATTGATATCTGA
TTATGACACGAAAAAAAATAAACTTTTTTTTAAATTGTACTG
Found at i:15890509 original size:42 final size:40
Alignment explanation
Indices: 15890443--15890529 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 40
15890433 CTTCCTTCAA
15890443 ACCAAGCAGACCCAAATACTTTATGAGTTGAGATAGATGG
1 ACCAAGCAGACCCAAATACTTTATGAGTTGAGATAGATGG
*
15890483 GCCAAGCAGACCCTAAAATACTTTATGAGTTGAGATAGATGG
1 ACCAAGCAGACCC--AAATACTTTATGAGTTGAGATAGATGG
15890525 ACCAA
1 ACCAA
15890530 AAGTAGAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 12 0.28
42 31 0.72
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (40 bp):
ACCAAGCAGACCCAAATACTTTATGAGTTGAGATAGATGG
Found at i:15892794 original size:13 final size:13
Alignment explanation
Indices: 15892776--15892800 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15892766 AAATTAACTA
15892776 ATAATTATAATTC
1 ATAATTATAATTC
15892789 ATAATTATAATT
1 ATAATTATAATT
15892801 ATCATAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (13 bp):
ATAATTATAATTC
Found at i:15895372 original size:39 final size:39
Alignment explanation
Indices: 15895327--15895505 Score: 209
Period size: 39 Copynumber: 4.6 Consensus size: 39
15895317 CATATTCACT
* * * *
15895327 TTTAAGCATGTATCACATTACACATATAATCACATAACC
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * * **
15895366 TTTAAGCATATA-CAACAAT-GTCATACAATTACATAATG
1 TTTAAGCATATATC-ACAATACTCATATAATCACATAACA
15895404 TTTAAGCATATATCACAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* * *
15895443 TTCAAGCATTTATCGCAATACTCATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACATAACA
* *
15895482 TTCAAGCATATGTCACAATACTCA
1 TTTAAGCATATATCACAATACTCA
15895506 AAAACATATT
Statistics
Matches: 118, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
38 31 0.26
39 87 0.74
ACGTcount: A:0.42, C:0.21, G:0.06, T:0.31
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACATAACA
Found at i:15895761 original size:50 final size:50
Alignment explanation
Indices: 15895686--15895795 Score: 184
Period size: 50 Copynumber: 2.2 Consensus size: 50
15895676 ATAGAGTCAA
*
15895686 ACATGTCCCAAAAGTGAAGCATAAAGTTAACACTCTCCTTATTTCCCCTC
1 ACATGTCCCAAAAGTGAAGCATAAAGTTAACACTCCCCTTATTTCCCCTC
** *
15895736 ACATGTCCCAAAAGTGAAGCATAAAGTTAACGTTCCCCTTATTTCCTCTC
1 ACATGTCCCAAAAGTGAAGCATAAAGTTAACACTCCCCTTATTTCCCCTC
15895786 ACATGTCCCA
1 ACATGTCCCA
15895796 TTGAATAGAG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.28
Consensus pattern (50 bp):
ACATGTCCCAAAAGTGAAGCATAAAGTTAACACTCCCCTTATTTCCCCTC
Found at i:15904317 original size:19 final size:21
Alignment explanation
Indices: 15904279--15904319 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
15904269 CTACGCTCTA
15904279 AAGAAAAGATACGATGAGAGT
1 AAGAAAAGATACGATGAGAGT
*
15904300 AAGAAAA-ATA-GGTGAGAGT
1 AAGAAAAGATACGATGAGAGT
15904319 A
1 A
15904320 GCAAAGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 3 0.16
21 7 0.37
ACGTcount: A:0.54, C:0.02, G:0.29, T:0.15
Consensus pattern (21 bp):
AAGAAAAGATACGATGAGAGT
Found at i:15916932 original size:8 final size:10
Alignment explanation
Indices: 15916899--15916958 Score: 86
Period size: 10 Copynumber: 5.9 Consensus size: 10
15916889 ATTGGATTGG
15916899 ATATAATTTC
1 ATATAATTTC
15916909 ATATAATTTC
1 ATATAATTTC
15916919 ATATAATTAT-
1 ATATAATT-TC
*
15916929 ATAACAATTTC
1 AT-ATAATTTC
15916940 ATATAATTTC
1 ATATAATTTC
15916950 ATATAATTT
1 ATATAATTT
15916959 TTTCTCCCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
10 37 0.82
11 8 0.18
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATATAATTTC
Found at i:15917496 original size:97 final size:97
Alignment explanation
Indices: 15917330--15917524 Score: 381
Period size: 97 Copynumber: 2.0 Consensus size: 97
15917320 ACACATGTAT
15917330 ATGGGTGCAAGGCTATTCAAATACTCATCATGTTGAGAAAGATAAAGCATGGAGGAAAGTATAGA
1 ATGGGTGCAAGGCTATTCAAATACTCATCATGTTGAGAAAGATAAAGCATGGAGGAAAGTATAGA
15917395 GAACAAAGAGAGCCAACTGTGAAACATTAAAC
66 GAACAAAGAGAGCCAACTGTGAAACATTAAAC
*
15917427 ATGGGTGCAAGGCTATTCAATTACTCATCATGTTGAGAAAGATAAAGCATGGAGGAAAGTATAGA
1 ATGGGTGCAAGGCTATTCAAATACTCATCATGTTGAGAAAGATAAAGCATGGAGGAAAGTATAGA
15917492 GAACAAAGAGAGCCAACTGTGAAACATTAAAC
66 GAACAAAGAGAGCCAACTGTGAAACATTAAAC
15917524 A
1 A
15917525 ATACATATAA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (97 bp):
ATGGGTGCAAGGCTATTCAAATACTCATCATGTTGAGAAAGATAAAGCATGGAGGAAAGTATAGA
GAACAAAGAGAGCCAACTGTGAAACATTAAAC
Found at i:15919941 original size:79 final size:79
Alignment explanation
Indices: 15919725--15919931 Score: 274
Period size: 79 Copynumber: 2.6 Consensus size: 79
15919715 ACATCTAGAT
* *
15919725 GCAGATTTCGATTCGAGAAACGCATGTCACGTGTATTTTATTTTGATTTCACTCTATATCTATAT
1 GCAGATTTCGATTCGAGATACGCATGTCACGTGTATTTTATTTTGATTTCACTCTATATCTATAA
*
15919790 CTGATTATGACGGA
66 CTGATTATGACAGA
* * * * *
15919804 G-TGAATTTCAATTCGAGATGCGCATGCCACGTGTATTTTATTTTGATTTCACCCTATATCTATA
1 GCAG-ATTTCGATTCGAGATACGCATGTCACGTGTATTTTATTTTGATTTCACTCTATATCTATA
15919868 ACTGATTATGACAGA
65 ACTGATTATGACAGA
* * * *
15919883 GCAGATTTTGATTCAAGATACGCATGTCA-GATATATTTTATTTTAATTT
1 GCAGATTTCGATTCGAGATACGCATGTCACG-TGTATTTTATTTTGATTT
15919932 TGATGTATAT
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.02
79 106 0.97
80 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.40
Consensus pattern (79 bp):
GCAGATTTCGATTCGAGATACGCATGTCACGTGTATTTTATTTTGATTTCACTCTATATCTATAA
CTGATTATGACAGA
Found at i:15925004 original size:52 final size:52
Alignment explanation
Indices: 15924942--15925045 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 52
15924932 TTGACCTAAA
15924942 AGTTTCACATTGCACTCG-TTACTCTTCATAAAATCATATTTAAAATTTTATG
1 AGTTTCACATTGCACTCGTTTACTCTTCAT-AAATCATATTTAAAATTTTATG
15924994 AGTTTCACATTGCACTCGTTTACTCTTCATAAATCATATTTAAAATTTTATG
1 AGTTTCACATTGCACTCGTTTACTCTTCATAAATCATATTTAAAATTTTATG
15925046 TATAATATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
52 40 0.78
53 11 0.22
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (52 bp):
AGTTTCACATTGCACTCGTTTACTCTTCATAAATCATATTTAAAATTTTATG
Found at i:15930888 original size:17 final size:17
Alignment explanation
Indices: 15930868--15930922 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
15930858 GCAAGCTCTA
15930868 CAAAACAGTGAGCTCAC
1 CAAAACAGTGAGCTCAC
15930885 CAAAA-AGTGTGAGCTCAC
1 CAAAACA--GTGAGCTCAC
* * *
15930903 CAAGACTGCGAGCTCAC
1 CAAAACAGTGAGCTCAC
15930920 CAA
1 CAA
15930923 GCTTGAGAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 1 0.03
17 17 0.53
18 14 0.44
ACGTcount: A:0.38, C:0.29, G:0.20, T:0.13
Consensus pattern (17 bp):
CAAAACAGTGAGCTCAC
Found at i:15930923 original size:17 final size:17
Alignment explanation
Indices: 15930895--15930937 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
15930885 CAAAAAGTGT
*
15930895 GAGCTCACCAAGAC-TGC
1 GAGCTCACCAAG-CTTGA
15930912 GAGCTCACCAAGCTTGA
1 GAGCTCACCAAGCTTGA
15930929 GAGCTCACC
1 GAGCTCACC
15930938 TGCGAACTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.28, C:0.35, G:0.23, T:0.14
Consensus pattern (17 bp):
GAGCTCACCAAGCTTGA
Found at i:15933461 original size:12 final size:12
Alignment explanation
Indices: 15933446--15933470 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15933436 TTTTATTTGA
15933446 TTTTTTAGATTT
1 TTTTTTAGATTT
15933458 TTTTTTAGATTT
1 TTTTTTAGATTT
15933470 T
1 T
15933471 ATACAATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTTTAGATTT
Found at i:15933479 original size:22 final size:21
Alignment explanation
Indices: 15933433--15933492 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
15933423 TAGCTCCAAT
* *
15933433 ATTTTTTATTT-GATTTTTTAG
1 ATTTTTT-TTTAGATTTTATAA
15933454 ATTTTTTTTTAGATTTTATACA
1 ATTTTTTTTTAGATTTTATA-A
* *
15933476 ATTTCTTTTTATATTTT
1 ATTTTTTTTTAGATTTT
15933493 CAGATTCTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 3 0.09
21 15 0.45
22 15 0.45
ACGTcount: A:0.22, C:0.03, G:0.05, T:0.70
Consensus pattern (21 bp):
ATTTTTTTTTAGATTTTATAA
Found at i:15933755 original size:31 final size:32
Alignment explanation
Indices: 15933710--15933770 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
15933700 TTTAATCTAA
* *
15933710 GAAATAAAATAATATTTAAAAGAGAAAAGACT
1 GAAATAAAATAATATTCAAAAAAGAAAAGACT
* *
15933742 GAAATATAA-AATATTCAAAAAATAAAAGA
1 GAAATAAAATAATATTCAAAAAAGAAAAGA
15933771 ACTTACTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 17 0.68
32 8 0.32
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.21
Consensus pattern (32 bp):
GAAATAAAATAATATTCAAAAAAGAAAAGACT
Found at i:15942916 original size:35 final size:35
Alignment explanation
Indices: 15942870--15942940 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
15942860 CATCTTCAGA
*
15942870 GCTTGGTAAATATGGAAAGTGATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGTGATCTTCAAAGATAT
*
15942905 GCTTGGAAAATATGGAAGGTGATCTTCAAAGATAT
1 GCTTGGAAAATATGGAAAGTGATCTTCAAAGATAT
15942940 G
1 G
15942941 TGATCCTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.37, C:0.08, G:0.25, T:0.30
Consensus pattern (35 bp):
GCTTGGAAAATATGGAAAGTGATCTTCAAAGATAT
Found at i:15948037 original size:35 final size:35
Alignment explanation
Indices: 15947993--15948062 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
15947983 TCTCCGTAGC
* *
15947993 TTGGTAAATATGGAAAGTGATCTTCAAAGATATGT
1 TTGGCAAATATGGAAAGTGATATTCAAAGATATGT
*
15948028 TTGGCAAATATGGAAGGTGATATTCAAAGATATGT
1 TTGGCAAATATGGAAAGTGATATTCAAAGATATGT
15948063 GATCCTAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (35 bp):
TTGGCAAATATGGAAAGTGATATTCAAAGATATGT
Found at i:15949814 original size:20 final size:20
Alignment explanation
Indices: 15949775--15949815 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
15949765 ACCATCTACC
*
15949775 TTATTTTTAGTTTTTTTATT
1 TTATTTTTAGTTTTTATATT
15949795 TTATTTTTGAG-TTTTATATT
1 TTATTTTT-AGTTTTTATATT
15949815 T
1 T
15949816 CCTCCTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (20 bp):
TTATTTTTAGTTTTTATATT
Found at i:15950699 original size:21 final size:21
Alignment explanation
Indices: 15950673--15950724 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
15950663 CAGAGTTTGG
15950673 CCACACAGCCATATCCCTAAA
1 CCACACAGCCATATCCCTAAA
* * * * *
15950694 CCACACAACCATGTCTCTGAG
1 CCACACAGCCATATCCCTAAA
15950715 CCACACAGCC
1 CCACACAGCC
15950725 TGGGCTTTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.33, C:0.44, G:0.10, T:0.13
Consensus pattern (21 bp):
CCACACAGCCATATCCCTAAA
Found at i:15952749 original size:13 final size:13
Alignment explanation
Indices: 15952731--15952756 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15952721 TCTTTCCAAG
15952731 TCATTTTCATTTT
1 TCATTTTCATTTT
15952744 TCATTTTCATTTT
1 TCATTTTCATTTT
15952757 GGAGAAAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
TCATTTTCATTTT
Found at i:15957229 original size:15 final size:15
Alignment explanation
Indices: 15957205--15957246 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
15957195 ATTATGTGAC
15957205 ATGATATGATCCAAT
1 ATGATATGATCCAAT
* **
15957220 ATGGTATGATGTAAT
1 ATGATATGATCCAAT
15957235 ATGATATGATCC
1 ATGATATGATCC
15957247 GATACGTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.36
Consensus pattern (15 bp):
ATGATATGATCCAAT
Found at i:15957270 original size:20 final size:20
Alignment explanation
Indices: 15957234--15957276 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
15957224 TATGATGTAA
**
15957234 TATGATATGATCCGATACGT
1 TATGATATGATAAGATACGT
*
15957254 TATGATATGATAAGATATGT
1 TATGATATGATAAGATACGT
15957274 TAT
1 TAT
15957277 CGAATAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (20 bp):
TATGATATGATAAGATACGT
Found at i:15957271 original size:30 final size:30
Alignment explanation
Indices: 15957207--15957272 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
15957197 TATGTGACAT
* * *
15957207 GATATGATCCAATATGGTATGATGTAATAT
1 GATATGATCCAATACGGTATGATATAATAA
* * *
15957237 GATATGATCCGATACGTTATGATATGATAA
1 GATATGATCCAATACGGTATGATATAATAA
15957267 GATATG
1 GATATG
15957273 TTATCGAATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (30 bp):
GATATGATCCAATACGGTATGATATAATAA
Found at i:15969298 original size:24 final size:24
Alignment explanation
Indices: 15969270--15969319 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
15969260 TTCTTGATGT
15969270 TGCTAGTTGACTTGTTTGCTCAAG
1 TGCTAGTTGACTTGTTTGCTCAAG
15969294 TGCTAGTTGACTTGTTTGCTCAAG
1 TGCTAGTTGACTTGTTTGCTCAAG
15969318 TG
1 TG
15969320 GTCACTCTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (24 bp):
TGCTAGTTGACTTGTTTGCTCAAG
Found at i:15970266 original size:377 final size:377
Alignment explanation
Indices: 15969572--15970326 Score: 1501
Period size: 377 Copynumber: 2.0 Consensus size: 377
15969562 ATTTTTTTAG
15969572 TTGTTTTGATGCTTATTTGATTAAATGAATGAAATATGATGTTTAAAAATTAAATTTGAATGATT
1 TTGTTTTGATGCTTATTTGATTAAATGAATGAAATATGATGTTTAAAAATTAAATTTGAATGATT
15969637 TAAGTGCTTATGTAAGCTGGATTTTTGTAATTAGATGTAGGAGAATCGATATTAAGGCTTAAAAA
66 TAAGTGCTTATGTAAGCTGGATTTTTGTAATTAGATGTAGGAGAATCGATATTAAGGCTTAAAAA
15969702 CAATATCTCTGTACTCATGAAAATGCAAGGAGTCAGAATATGAAATTGGTATTGATACCATGGCC
131 CAATATCTCTGTACTCATGAAAATGCAAGGAGTCAGAATATGAAATTGGTATTGATACCATGGCC
15969767 TGAGTATCGATACTCGAGGTGTAATTATCGATACCTTGAGAGAGGTACCAATATTTTTCGATAAG
196 TGAGTATCGATACTCGAGGTGTAATTATCGATACCTTGAGAGAGGTACCAATATTTTTCGATAAG
15969832 TTTAATTTTAGGTGAATACAGTACGCTCTTTTGGTACCCATTTTCCTTGTGGTATCGGTACCACC
261 TTTAATTTTAGGTGAATACAGTACGCTCTTTTGGTACCCATTTTCCTTGTGGTATCGGTACCACC
*
15969897 AAGAGGAAATATCGATACCTTGGATTTAGTATCGATACTTACATAACTTTTT
326 AAGAGGAAATATCGATACCTTGGATTTAGTATCGATACTTACATAACCTTTT
15969949 TTGTTTTGATGCTTATTTGATTAAATGAATGAAATATGATGTTTAAAAATTAAATTTGAATGATT
1 TTGTTTTGATGCTTATTTGATTAAATGAATGAAATATGATGTTTAAAAATTAAATTTGAATGATT
15970014 TAAGTGCTTATGTAAGCTGGATTTTTGTAATTAGATGTAGGAGAATCGATATTAAGGCTTAAAAA
66 TAAGTGCTTATGTAAGCTGGATTTTTGTAATTAGATGTAGGAGAATCGATATTAAGGCTTAAAAA
15970079 CAATATCTCTGTACTCATGAAAATGCAAGGAGTCAGAATATGAAATTGGTATTGATACCATGGCC
131 CAATATCTCTGTACTCATGAAAATGCAAGGAGTCAGAATATGAAATTGGTATTGATACCATGGCC
15970144 TGAGTATCGATACTCGAGGTGTAATTATCGATACCTTGAGAGAGGTACCAATATTTTTCGATAAG
196 TGAGTATCGATACTCGAGGTGTAATTATCGATACCTTGAGAGAGGTACCAATATTTTTCGATAAG
15970209 TTTAATTTTAGGTGAATACAGTACGCTCTTTTGGTACCCATTTTCCTTGTGGTATCGGTACCACC
261 TTTAATTTTAGGTGAATACAGTACGCTCTTTTGGTACCCATTTTCCTTGTGGTATCGGTACCACC
15970274 AAGAGGAAATATCGATACCTTGGATTTAGTATCGATACTTACATAACCTTTT
326 AAGAGGAAATATCGATACCTTGGATTTAGTATCGATACTTACATAACCTTTT
15970326 T
1 T
15970327 GGGAAATTTT
Statistics
Matches: 377, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
377 377 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.36
Consensus pattern (377 bp):
TTGTTTTGATGCTTATTTGATTAAATGAATGAAATATGATGTTTAAAAATTAAATTTGAATGATT
TAAGTGCTTATGTAAGCTGGATTTTTGTAATTAGATGTAGGAGAATCGATATTAAGGCTTAAAAA
CAATATCTCTGTACTCATGAAAATGCAAGGAGTCAGAATATGAAATTGGTATTGATACCATGGCC
TGAGTATCGATACTCGAGGTGTAATTATCGATACCTTGAGAGAGGTACCAATATTTTTCGATAAG
TTTAATTTTAGGTGAATACAGTACGCTCTTTTGGTACCCATTTTCCTTGTGGTATCGGTACCACC
AAGAGGAAATATCGATACCTTGGATTTAGTATCGATACTTACATAACCTTTT
Found at i:15977394 original size:22 final size:21
Alignment explanation
Indices: 15977360--15977401 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
15977350 ACTTCTTAAA
15977360 AAATAATAAAATAAAACAAACG
1 AAATAATAAAATAAAA-AAACG
15977382 AAATAA-AAGAATAAAAAAAC
1 AAATAATAA-AATAAAAAAAC
15977402 TACCTCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.76, C:0.07, G:0.05, T:0.12
Consensus pattern (21 bp):
AAATAATAAAATAAAAAAACG
Found at i:15983137 original size:57 final size:58
Alignment explanation
Indices: 15983069--15983185 Score: 209
Period size: 57 Copynumber: 2.0 Consensus size: 58
15983059 CATAAAATAA
*
15983069 AAGGACGAATCAATATCGTATGAAATAACAAGTACATAAGCAAATAAAACATT-TTTC
1 AAGGACGAATCAATATCGTACGAAATAACAAGTACATAAGCAAATAAAACATTCTTTC
*
15983126 AAGGATGAATCAATATCGTACGAAATAACAAGTACATAAGCAAATAAAACATTCTTTC
1 AAGGACGAATCAATATCGTACGAAATAACAAGTACATAAGCAAATAAAACATTCTTTC
15983184 AA
1 AA
15983186 AAATAATAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 51 0.89
58 6 0.11
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (58 bp):
AAGGACGAATCAATATCGTACGAAATAACAAGTACATAAGCAAATAAAACATTCTTTC
Found at i:15983229 original size:22 final size:22
Alignment explanation
Indices: 15983186--15983227 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15983176 ATTCTTTCAA
* *
15983186 AAATAATAATAATAATATAAAT
1 AAATAACAAAAATAATATAAAT
15983208 AAATAACAAAAATAA-ATAAA
1 AAATAACAAAAATAATATAAA
15983228 ATTATGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (22 bp):
AAATAACAAAAATAATATAAAT
Found at i:15983683 original size:30 final size:30
Alignment explanation
Indices: 15983627--15983683 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
15983617 ATAATGAGTA
* *
15983627 TACATAAGTATGTATATAAATTAAAATATG
1 TACATAAGTATGTAAATAAATAAAAATATG
*
15983657 TACATATA-TATGTAAATATATAAAAAT
1 TACATA-AGTATGTAAATAAATAAAAAT
15983684 TATGAAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 22 0.96
31 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (30 bp):
TACATAAGTATGTAAATAAATAAAAATATG
Found at i:15985684 original size:76 final size:75
Alignment explanation
Indices: 15985558--15985769 Score: 273
Period size: 76 Copynumber: 2.8 Consensus size: 75
15985548 TATCTGTTAT
* ** *
15985558 CGGTGGATTCAGCACTTAGCAACCACCAGGGACTCGGGGAATTAGCACTTAGCAACCCCTTTCAC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACTTAGCAACCCCTTTCAC
15985623 ATTCAAAAATA
66 ATT-AAAAATA
* * * *
15985634 CGGTGGAATCAGCACTAAGAAACCACCAATGAATCGGAGAATTAGCACTTAGCAAACCCTTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACTTAGC-AACCCCTTTCA
* *
15985699 CATTTAAGATA
65 CATTAAAAATA
* * **
15985710 -GGTGGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCGGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACTTAGCAACCCCTT
15985770 GGGGGAATCA
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
74 7 0.06
75 45 0.38
76 51 0.44
77 14 0.12
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (75 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACTTAGCAACCCCTTTCAC
ATTAAAAATA
Found at i:15985737 original size:75 final size:77
Alignment explanation
Indices: 15985558--15985769 Score: 268
Period size: 75 Copynumber: 2.8 Consensus size: 77
15985548 TATCTGTTAT
* ** * *
15985558 CGGTGGATTCAGCACTTAGCAACCACCAGGGACTCGGGGAATTAGCACTTAGC-AACCCCTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACTTAGCAAACCCTTTTCA
15985622 CATTCAAAAATA
66 CATTCAAAAATA
* * *
15985634 CGGTGGAATCAGCACTAAGAAACCACCAATGAATCGGAGAATTAGCACTTAGCAAACCCTTTTCA
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACTTAGCAAACCCTTTTCA
* *
15985699 CATT-TAAGATA
66 CATTCAAAAATA
* * ** *
15985710 -GGTGGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCGGCACTTAGCAACCCCTT
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACTTAGCAAACCCTT
15985770 GGGGGAATCA
Statistics
Matches: 117, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
75 52 0.44
76 51 0.44
77 14 0.12
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (77 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATTAGCACTTAGCAAACCCTTTTCA
CATTCAAAAATA
Found at i:15985828 original size:102 final size:101
Alignment explanation
Indices: 15985679--15985899 Score: 336
Period size: 102 Copynumber: 2.2 Consensus size: 101
15985669 GGAGAATTAG
** * * * *
15985679 CACTTAGCAAACCCTTTTCACATTTAAGATAGGTGGGATCAGCACTTAGCAACCACCAATG-ATT
1 CACTTAGC-AACCCCCTTCACATTTAAAATAAGTGGAATCAGAACTTAGCAACCACCAATGAATT
*
15985743 CGGGGAATCGGCACTTAGCAACCCCTTGGGGGAATCAA
65 -GGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAA
15985781 CACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGAACTTAGCAACCACCAATGAATT
1 CACTTAGCAACCCCCTTCACATTTAAAATA-AGTGGAATCAGAACTTAGCAACCACCAATGAATT
*
15985846 GGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAG
65 GGGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAA
15985883 CACTTAGCAACCCCCTT
1 CACTTAGCAACCCCCTT
15985900 TTATATTCAA
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
101 19 0.17
102 87 0.80
103 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.22
Consensus pattern (101 bp):
CACTTAGCAACCCCCTTCACATTTAAAATAAGTGGAATCAGAACTTAGCAACCACCAATGAATTG
GGGAATCAGCACTTAGCAACCCCTTGGGGGAATCAA
Found at i:15990193 original size:3 final size:3
Alignment explanation
Indices: 15990185--15990695 Score: 1022
Period size: 3 Copynumber: 170.3 Consensus size: 3
15990175 CATGATCAAG
15990185 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15990233 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15990281 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15990329 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15990377 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15990425 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15990473 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15990521 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15990569 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15990617 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
15990665 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
15990696 CAAACAGAGG
Statistics
Matches: 508, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 508 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:15991132 original size:19 final size:19
Alignment explanation
Indices: 15991108--15991163 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
15991098 AATCATATCT
15991108 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
15991127 TCTAAGATTACATATATCATA
1 TCTAAGATTGC--ATATCATA
*
15991148 TCTAAGATTGTATATC
1 TCTAAGATTGCATATC
15991164 CTTTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 15 0.47
21 17 0.53
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:15994917 original size:24 final size:24
Alignment explanation
Indices: 15994871--15994917 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
15994861 TTCATATGAA
*
15994871 AATATACTGATTCAGCTTCAATTT
1 AATATACTGATTCAGCCTCAATTT
*
15994895 AATATA-TTATTCAGCCTCTAATT
1 AATATACTGATTCAGCCTC-AATT
15994918 CATTTTCCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (24 bp):
AATATACTGATTCAGCCTCAATTT
Found at i:15995268 original size:76 final size:75
Alignment explanation
Indices: 15995144--15995428 Score: 392
Period size: 76 Copynumber: 3.8 Consensus size: 75
15995134 CCGTTATCGG
* * * *
15995144 TGGATTCAGCACTTAGCAACCACCAAGGACTCGGGGAATTAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
* * *
15995209 CAAAAATAAGG
66 -TAAAATACGA
* * * *
15995220 TGGAATCAGCACTAAGAAACCACCAATGAATCAGGGAATCGGCACTTAGCAACCCCTTTTCACAT
1 TGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCC-TTTCACAT
*
15995285 TTAAGATACGA
65 TTAAAATACGA
* * *
15995296 TGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTAAGCAACCTCC-TCCACAT
1 TGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACC-CCTTTCACAT
15995360 TTAAAATACGA
65 TTAAAATACGA
*
15995371 TGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAACAACCCCTT
1 TGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTT
15995429 GGGGGAATCA
Statistics
Matches: 183, Mismatches: 23, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
74 2 0.01
75 68 0.37
76 102 0.56
77 11 0.06
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.20
Consensus pattern (75 bp):
TGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTTTCACATT
TAAAATACGA
Found at i:15995315 original size:43 final size:40
Alignment explanation
Indices: 15995254--15995391 Score: 128
Period size: 43 Copynumber: 3.5 Consensus size: 40
15995244 AATGAATCAG
*
15995254 GGAATCGGCACTTAGCAACCCCTTTTCACATTTAAGATACGAT
1 GGAATCAGCACTTAGCAACCCC---TCACATTTAAGATACGAT
* * *
15995297 GGAATCAGCACTTAGCAACCAC-CA-A--T--GATTCG-G
1 GGAATCAGCACTTAGCAACCCCTCACATTTAAGATACGAT
* *
15995330 GGAATCAGCACTAAGCAACCTCCTCCACATTTAAAATACGAT
1 GGAATCAGCACTTAGCAACC-CCT-CACATTTAAGATACGAT
15995372 GGAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
15995392 ACCAATGAAT
Statistics
Matches: 76, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
33 19 0.25
34 6 0.08
36 3 0.04
37 1 0.01
38 1 0.01
39 3 0.04
41 4 0.05
42 19 0.25
43 20 0.26
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.22
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCTCACATTTAAGATACGAT
Found at i:15995339 original size:33 final size:33
Alignment explanation
Indices: 15995297--15995424 Score: 112
Period size: 33 Copynumber: 3.6 Consensus size: 33
15995287 AAGATACGAT
15995297 GGAATCAGCACTTAGCAACCACCAATGATTCGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
* * * * *
15995330 GGAATCAGCACTAAGCAACCTCCTCCACATTTAAAATACGAT
1 GGAATCAGCACTTAGCAA---CCACCA-A--T--GATTCG-G
*
15995372 GGAATCAGCACTTAGCAACCACCAATGAATCGG
1 GGAATCAGCACTTAGCAACCACCAATGATTCGG
*
15995405 GGAATCAGCACTTAACAACC
1 GGAATCAGCACTTAGCAACC
15995425 CCTTGGGGGA
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
33 36 0.49
34 3 0.04
36 6 0.08
37 1 0.01
38 1 0.01
39 6 0.08
41 4 0.05
42 17 0.23
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGATTCGG
Found at i:15995437 original size:27 final size:28
Alignment explanation
Indices: 15995403--15995456 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
15995393 CCAATGAATC
*
15995403 GGGGAATCAGCACTTAAC-AACCCCTTG
1 GGGGAATCAACACTTAACAAACCCCTTG
*
15995430 GGGGAATCAACACTTAGCAAACCCCTT
1 GGGGAATCAACACTTAACAAACCCCTT
15995457 TTATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (28 bp):
GGGGAATCAACACTTAACAAACCCCTTG
Found at i:15997986 original size:44 final size:44
Alignment explanation
Indices: 15997903--15998061 Score: 167
Period size: 44 Copynumber: 3.6 Consensus size: 44
15997893 GCTTTAATCC
* * **
15997903 GCTCCACTACAACTTCAGGGAGATAGGA-TTAGTAGCTTCAGTCT
1 GCTCCACTACAACTTTAGGGAGATAAGACTTA-TAGCTTCAACCT
* * *
15997947 GCTCAACTACAACTTTAGGGAAATAAGACTTATATCTTCAACCT
1 GCTCCACTACAACTTTAGGGAGATAAGACTTATAGCTTCAACCT
** * * *
15997991 GCTCCACGGCAATTTTAGGGAGATAAGACTTATTGCTTTAACCT
1 GCTCCACTACAACTTTAGGGAGATAAGACTTATAGCTTCAACCT
* * *
15998035 GCTCCACTGCGACTGTAGGGAGATAAG
1 GCTCCACTACAACTTTAGGGAGATAAG
15998062 GTTTGATTTG
Statistics
Matches: 95, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 92 0.97
45 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
GCTCCACTACAACTTTAGGGAGATAAGACTTATAGCTTCAACCT
Found at i:15998446 original size:44 final size:44
Alignment explanation
Indices: 15998330--15998451 Score: 124
Period size: 44 Copynumber: 2.8 Consensus size: 44
15998320 GTCTGATGCG
* * *
15998330 ATCTGCTCTACTGCAACTTCGGAGAGATAAGATCCATCCTTTTA
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATACTTTTA
* * * * *
15998374 ATCCGCTTCACTGCAAATTCAG-GAAGATAGGA-CTAGTAAC-TTTA
1 ATCTGCTCCACTGCAACTTCAGAG-AGATAAGATCCA-T-ACTTTTA
15998418 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATC
1 ATCTGCTCCACTGCAACTTCAGAGAGATAAGATC
15998452 TGTAATTTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
43 3 0.05
44 55 0.90
45 3 0.05
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGAGAGATAAGATCCATACTTTTA
Found at i:15998829 original size:44 final size:43
Alignment explanation
Indices: 15998625--15998833 Score: 129
Period size: 44 Copynumber: 4.8 Consensus size: 43
15998615 TTGACCCGCT
* * *
15998625 CCACTGCAACTTCAGGGAGATAGGACTTATATCTTCAACTTGCC
1 CCACTGCAACTTTAGGGAGATAAGACTTGTAT-TTCAACTTGCC
* * * * *
15998669 CCACTGGAACTTTAGGGGGATAAGGA-TAGTGACTTCAACTTGCT
1 CCACTGCAACTTTAGGGAGATAA-GACTTGT-ATTTCAACTTGCC
* * * * ** * * * *
15998713 CTACTGCAACTTCAGAGAGACAAGGTTTGTTTTTTCAACCTACT
1 CCACTGCAACTTTAGGGAGATAAGACTTG-TATTTCAACTTGCC
* * *
15998757 CTACTGCAA-TTTCAGAGAGATCTA-ACTTGTAATTTCAACTTGCC
1 CCACTGCAACTTT-AGGGAGAT-AAGACTTGT-ATTTCAACTTGCC
*
15998801 CCACTGCAACTTTAGGGGGATAAGACTTG-ATTT
1 CCACTGCAACTTTAGGGAGATAAGACTTGTATTT
15998834 GATCTGCTCT
Statistics
Matches: 123, Mismatches: 33, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
42 4 0.03
43 5 0.04
44 106 0.86
45 8 0.07
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (43 bp):
CCACTGCAACTTTAGGGAGATAAGACTTGTATTTCAACTTGCC
Found at i:15999778 original size:97 final size:96
Alignment explanation
Indices: 15999598--15999785 Score: 297
Period size: 97 Copynumber: 1.9 Consensus size: 96
15999588 GAAAAATGCT
*
15999598 TGAAAAAGATTATCACAATGGACAAGATGAAATTTCATTGAAACAAAGCTCGAAATGAATAAATT
1 TGAAAAAGATTACCACAATGGACAAGATGAAATTTCATTGAAACAAAGCTCGAAATGAATAAATT
*
15999663 AGTCAAGATAGGAAATTTTGCTAAGAGAAGA
66 AATCAAGATAGGAAATTTTGCTAAGAGAAGA
* * *
15999694 TGAAAAAGATTACCACAATGGATAAGATGAAATCTT-ATTGAGAGCACAGCTCGAAATGAATAAA
1 TGAAAAAGATTACCACAATGGACAAGATGAAAT-TTCATTGA-AACAAAGCTCGAAATGAATAAA
*
15999758 TTAATCAAGATAGTAAATTTTGCTAAGA
64 TTAATCAAGATAGGAAATTTTGCTAAGA
15999786 TACGAAATGA
Statistics
Matches: 84, Mismatches: 6, Indels: 3
0.90 0.06 0.03
Matches are distributed among these distances:
96 36 0.43
97 48 0.57
ACGTcount: A:0.47, C:0.10, G:0.18, T:0.25
Consensus pattern (96 bp):
TGAAAAAGATTACCACAATGGACAAGATGAAATTTCATTGAAACAAAGCTCGAAATGAATAAATT
AATCAAGATAGGAAATTTTGCTAAGAGAAGA
Found at i:16000090 original size:14 final size:13
Alignment explanation
Indices: 16000071--16000128 Score: 59
Period size: 14 Copynumber: 4.5 Consensus size: 13
16000061 GGCCTCTCCT
16000071 TTTTCTTTTTCTTC
1 TTTT-TTTTTCTTC
*
16000085 TTTTCTTTTTTTTC
1 TTTT-TTTTTCTTC
16000099 TTTTTTCTTTC-T-
1 TTTTTT-TTTCTTC
16000111 TTTTTTTTTCTT-
1 TTTTTTTTTCTTC
16000123 TTTTTT
1 TTTTTT
16000129 GAACATTCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
11 4 0.10
12 13 0.32
13 3 0.08
14 20 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTCTTC
Found at i:16000126 original size:23 final size:22
Alignment explanation
Indices: 16000070--16000127 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
16000060 TGGCCTCTCC
16000070 TTTTTCTTTTTCTTCTTTTCTTT
1 TTTTTCTTTTT-TTCTTTTCTTT
*
16000093 TTTTTC-TTTTTTCTTTCTTTTT
1 TTTTTCTTTTTTTCTTT-TCTTT
16000115 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
16000128 TGAACATTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTTTCTTTTTTTCTTTTCTTT
Found at i:16004675 original size:30 final size:30
Alignment explanation
Indices: 16004619--16004675 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
16004609 ATAATGAGTA
* *
16004619 TACATAAGTATGTATATAAATTAAAATATG
1 TACATAAGTATGTAAATAAATAAAAATATG
*
16004649 TACATATA-TATGTAAATATATAAAAAT
1 TACATA-AGTATGTAAATAAATAAAAAT
16004676 TATGAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 22 0.96
31 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.37
Consensus pattern (30 bp):
TACATAAGTATGTAAATAAATAAAAATATG
Found at i:16006840 original size:3 final size:3
Alignment explanation
Indices: 16006834--16006858 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
16006824 TATAAAAAAA
16006834 GGC GGC GGC GGC GGC GGC GGC GGC G
1 GGC GGC GGC GGC GGC GGC GGC GGC G
16006859 AGACCTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.68, T:0.00
Consensus pattern (3 bp):
GGC
Found at i:16010938 original size:115 final size:116
Alignment explanation
Indices: 16010777--16011007 Score: 455
Period size: 115 Copynumber: 2.0 Consensus size: 116
16010767 TTGCAATAGA
16010777 AATGATTAATTTGCATGTTTTAGGCTCAATGACTAAATTGAATAAAAGTAAAATATTGGGGGCAA
1 AATGATTAATTTGCATGTTTTAGGCTCAATGACTAAATTGAATAAAAGTAAAATATTGGGGGCAA
16010842 TTGTGTAAAAAATTTAAAAAGGACTAAATTGCAAAAATGAATTATTTTGTT
66 TTGTGTAAAAAATTTAAAAAGGACTAAATTGCAAAAATGAATTATTTTGTT
16010893 AATGATTAA-TTGCATGTTTTAGGCTCAATGACTAAATTGAATAAAAGTAAAATATTGGGGGCAA
1 AATGATTAATTTGCATGTTTTAGGCTCAATGACTAAATTGAATAAAAGTAAAATATTGGGGGCAA
16010957 TTGTGTAAAAAATTTAAAAAGGACTAAATTGCAAAAATGAATTATTTTGTT
66 TTGTGTAAAAAATTTAAAAAGGACTAAATTGCAAAAATGAATTATTTTGTT
16011008 TTCTAAATTA
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
115 106 0.92
116 9 0.08
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.34
Consensus pattern (116 bp):
AATGATTAATTTGCATGTTTTAGGCTCAATGACTAAATTGAATAAAAGTAAAATATTGGGGGCAA
TTGTGTAAAAAATTTAAAAAGGACTAAATTGCAAAAATGAATTATTTTGTT
Found at i:16014435 original size:483 final size:483
Alignment explanation
Indices: 16013529--16014496 Score: 1936
Period size: 483 Copynumber: 2.0 Consensus size: 483
16013519 TTACACGGGC
16013529 ACGGACACGGGTTGGGACACGGCCATGTGTCCCTATTTCAAATGTTATAGGGCCTAAGGCACAAA
1 ACGGACACGGGTTGGGACACGGCCATGTGTCCCTATTTCAAATGTTATAGGGCCTAAGGCACAAA
16013594 CATGTGTCTTAGTTGTGTGAGTCACACGGCCGTGTGACCCCTGCAATTCAAATTTTCCAACTTTT
66 CATGTGTCTTAGTTGTGTGAGTCACACGGCCGTGTGACCCCTGCAATTCAAATTTTCCAACTTTT
16013659 TCTTCAATGTTTCAAATGTTTCCGATTTAGTGCCGAATTGTTTTTAAAGTGCTTTTAAGGCCTCA
131 TCTTCAATGTTTCAAATGTTTCCGATTTAGTGCCGAATTGTTTTTAAAGTGCTTTTAAGGCCTCA
16013724 GGGGCTCGAATAAGGGATGATATACATGTTTCTGATTGAAATTTTCCATGTTAAGAGTATGTTTT
196 GGGGCTCGAATAAGGGATGATATACATGTTTCTGATTGAAATTTTCCATGTTAAGAGTATGTTTT
16013789 AAAGTTACGATTTTACAGTAATACTCTATAACCCTATTTCGACGATAGATACGGGTTACGAGTGT
261 AAAGTTACGATTTTACAGTAATACTCTATAACCCTATTTCGACGATAGATACGGGTTACGAGTGT
16013854 TACAAACCTACTCAACAGGTTCAAACATTGGAGTATTCATATTATTTTACCATGACAAAAATTAT
326 TACAAACCTACTCAACAGGTTCAAACATTGGAGTATTCATATTATTTTACCATGACAAAAATTAT
16013919 ACCGTATTACTATATTGAAATTAAGTATAGAAGTCCTAAATTTATTAAAAGAATGCTACTATAGC
391 ACCGTATTACTATATTGAAATTAAGTATAGAAGTCCTAAATTTATTAAAAGAATGCTACTATAGC
16013984 CTAATTGCATTTTTATTTCAATTATTCT
456 CTAATTGCATTTTTATTTCAATTATTCT
16014012 ACGGACACGGGTTGGGACACGGCCATGTGTCCCTATTTCAAATGTTATAGGGCCTAAGGCACAAA
1 ACGGACACGGGTTGGGACACGGCCATGTGTCCCTATTTCAAATGTTATAGGGCCTAAGGCACAAA
16014077 CATGTGTCTTAGTTGTGTGAGTCACACGGCCGTGTGACCCCTGCAATTCAAATTTTCCAACTTTT
66 CATGTGTCTTAGTTGTGTGAGTCACACGGCCGTGTGACCCCTGCAATTCAAATTTTCCAACTTTT
16014142 TCTTCAATGTTTCAAATGTTTCCGATTTAGTGCCGAATTGTTTTTAAAGTGCTTTTAAGGCCTCA
131 TCTTCAATGTTTCAAATGTTTCCGATTTAGTGCCGAATTGTTTTTAAAGTGCTTTTAAGGCCTCA
16014207 GGGGCTCGAATAAGGGATGATATACATGTTTCTGATTGAAATTTTCCATGTTAAGAGTATGTTTT
196 GGGGCTCGAATAAGGGATGATATACATGTTTCTGATTGAAATTTTCCATGTTAAGAGTATGTTTT
16014272 AAAGTTACGATTTTACAGTAATACTCTATAACCCTATTTCGACGATAGATACGGGTTACGAGTGT
261 AAAGTTACGATTTTACAGTAATACTCTATAACCCTATTTCGACGATAGATACGGGTTACGAGTGT
16014337 TACAAACCTACTCAACAGGTTCAAACATTGGAGTATTCATATTATTTTACCATGACAAAAATTAT
326 TACAAACCTACTCAACAGGTTCAAACATTGGAGTATTCATATTATTTTACCATGACAAAAATTAT
16014402 ACCGTATTACTATATTGAAATTAAGTATAGAAGTCCTAAATTTATTAAAAGAATGCTACTATAGC
391 ACCGTATTACTATATTGAAATTAAGTATAGAAGTCCTAAATTTATTAAAAGAATGCTACTATAGC
16014467 CTAATTGCATTTTTATTTCAATTATTCT
456 CTAATTGCATTTTTATTTCAATTATTCT
16014495 AC
1 AC
16014497 TTTTAGAAAT
Statistics
Matches: 485, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
483 485 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (483 bp):
ACGGACACGGGTTGGGACACGGCCATGTGTCCCTATTTCAAATGTTATAGGGCCTAAGGCACAAA
CATGTGTCTTAGTTGTGTGAGTCACACGGCCGTGTGACCCCTGCAATTCAAATTTTCCAACTTTT
TCTTCAATGTTTCAAATGTTTCCGATTTAGTGCCGAATTGTTTTTAAAGTGCTTTTAAGGCCTCA
GGGGCTCGAATAAGGGATGATATACATGTTTCTGATTGAAATTTTCCATGTTAAGAGTATGTTTT
AAAGTTACGATTTTACAGTAATACTCTATAACCCTATTTCGACGATAGATACGGGTTACGAGTGT
TACAAACCTACTCAACAGGTTCAAACATTGGAGTATTCATATTATTTTACCATGACAAAAATTAT
ACCGTATTACTATATTGAAATTAAGTATAGAAGTCCTAAATTTATTAAAAGAATGCTACTATAGC
CTAATTGCATTTTTATTTCAATTATTCT
Found at i:16021281 original size:29 final size:29
Alignment explanation
Indices: 16021212--16021460 Score: 198
Period size: 29 Copynumber: 8.5 Consensus size: 29
16021202 ACACAGTCAC
*
16021212 TTTTAGATTTTACAATTTTGCCACTGTGTT
1 TTTTAGATTTTACAGTTTTGCCACTG-GTT
** *
16021242 TTCCAGATTTTACAGTTGTGCCACTGGTT
1 TTTTAGATTTTACAGTTTTGCCACTGGTT
* * *
16021271 TTTTAGATTTTATAGTTTTGACACT-ATAT
1 TTTTAGATTTTACAGTTTTGCCACTGGT-T
* * * * *
16021300 TTTATAGATTTTATAATTGTGACAATGGTT
1 TTT-TAGATTTTACAGTTTTGCCACTGGTT
* * **
16021330 TTTTAGATTTTACAATTATGCCA-TTATAT
1 TTTTAGATTTTACAGTTTTGCCACTGGT-T
* * *
16021359 TTCTAGATTTTATAGTTTTGCCACT-ATT
1 TTTTAGATTTTACAGTTTTGCCACTGGTT
**
16021387 TTTCTAGATTTTACAGTTTTGCCACTATTT
1 TTT-TAGATTTTACAGTTTTGCCACTGGTT
* * * *
16021417 TTTTAAAATTTATAGTTTTGCCACAGGTT
1 TTTTAGATTTTACAGTTTTGCCACTGGTT
16021446 TTTTCAGATTTTACA
1 TTTT-AGATTTTACA
16021461 ATTTCGGCAC
Statistics
Matches: 176, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
28 6 0.03
29 111 0.63
30 58 0.33
31 1 0.01
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.51
Consensus pattern (29 bp):
TTTTAGATTTTACAGTTTTGCCACTGGTT
Found at i:16021309 original size:59 final size:59
Alignment explanation
Indices: 16021212--16021473 Score: 278
Period size: 59 Copynumber: 4.5 Consensus size: 59
16021202 ACACAGTCAC
* * * *
16021212 TTTTAGATTTTACAATTTTGCCACTGTGTTTTCCAGATTTTACAGTTGTGCCACTGGTT
1 TTTTAGATTTTACAATTTTGCCACTATATTTTCTAGATTTTATAGTTGTGCCACTGGTT
* * * * * * *
16021271 TTTTAGATTTTATAGTTTTGACACTATATTTTATAGATTTTATAATTGTGACAATGGTT
1 TTTTAGATTTTACAATTTTGCCACTATATTTTCTAGATTTTATAGTTGTGCCACTGGTT
* * * *
16021330 TTTTAGATTTTACAATTATGCCATTATA-TTTCTAGATTTTATAGTTTTGCCACT-ATT
1 TTTTAGATTTTACAATTTTGCCACTATATTTTCTAGATTTTATAGTTGTGCCACTGGTT
* * * * * *
16021387 TTTCTAGATTTTACAGTTTTGCCACTAT-TTTTTTAAAATTTATAGTTTTGCCACAGGTT
1 TTT-TAGATTTTACAATTTTGCCACTATATTTTCTAGATTTTATAGTTGTGCCACTGGTT
* *
16021446 TTTTCAGATTTTACAATTTCGGCACTAT
1 TTTT-AGATTTTACAATTTTGCCACTAT
16021474 TCTTCAAAAA
Statistics
Matches: 166, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
57 5 0.03
58 65 0.39
59 96 0.58
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (59 bp):
TTTTAGATTTTACAATTTTGCCACTATATTTTCTAGATTTTATAGTTGTGCCACTGGTT
Found at i:16021397 original size:117 final size:117
Alignment explanation
Indices: 16021212--16021463 Score: 305
Period size: 117 Copynumber: 2.1 Consensus size: 117
16021202 ACACAGTCAC
* * *
16021212 TTTTAGATTTTACAATTTTGCCACTGTGTTTTCCAGATTTTACAGTTGTGCCACTGGTTTTTTAG
1 TTTTAGATTTTACAATTATGCCACTGTATTTTCCAGATTTTACAGTTGTGCCACTGATTTTTTAG
* * *
16021277 ATTTTATAGTTTTGACACTATATTTTATAGATTTTATAATTGTGACA-ATGGTT
66 ATTTTACAGTTTTGACACTAT-TTTTATAAAATTTATAATTGTGACACA-GGTT
* * *
16021330 TTTTAGATTTTACAATTATGCCA-T-TATATTTCTAGATTTTATAGTTTTGCCACT-ATTTTTCT
1 TTTTAGATTTTACAATTATGCCACTGTAT-TTTCCAGATTTTACAGTTGTGCCACTGATTTTT-T
* * * * *
16021392 AGATTTTACAGTTTTGCCACTATTTTTTTAAAATTTATAGTTTTGCCACAGGTT
64 AGATTTTACAGTTTTGACACTATTTTTATAAAATTTATAATTGTGACACAGGTT
16021446 TTTTCAGATTTTACAATT
1 TTTT-AGATTTTACAATT
16021464 TCGGCACTAT
Statistics
Matches: 116, Mismatches: 14, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
116 34 0.29
117 60 0.52
118 22 0.19
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (117 bp):
TTTTAGATTTTACAATTATGCCACTGTATTTTCCAGATTTTACAGTTGTGCCACTGATTTTTTAG
ATTTTACAGTTTTGACACTATTTTTATAAAATTTATAATTGTGACACAGGTT
Found at i:16021420 original size:88 final size:89
Alignment explanation
Indices: 16021215--16021420 Score: 231
Period size: 88 Copynumber: 2.3 Consensus size: 89
16021205 CAGTCACTTT
* * * * * *
16021215 TAGATTTTACAATTTTGCCACTGTGTTTTCCAGATTTTACAGTTGTGCCACTGGTTTTTTAGATT
1 TAGATTTTACAATTTTGCCACTATGTTTTTCAGATTTTACAATTATGCCACTGATTTTCTAGATT
16021280 TTATAGTTTTGACACTATATTTTA
66 TTATAGTTTTGACACTATATTTTA
* * * * *
16021304 TAGATTTTATAATTGTG--ACAATGGTTTTTTAGATTTTACAATTATGCCA-TTATATTTCTAGA
1 TAGATTTTACAATTTTGCCACTAT-GTTTTTCAGATTTTACAATTATGCCACTGAT-TTTCTAGA
* *
16021366 TTTTATAGTTTTGCCACTAT-TTTTC
64 TTTTATAGTTTTGACACTATATTTTA
* *
16021391 TAGATTTTACAGTTTTGCCACTATTTTTTT
1 TAGATTTTACAATTTTGCCACTATGTTTTT
16021421 AAAATTTATA
Statistics
Matches: 95, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
87 23 0.24
88 53 0.56
89 19 0.20
ACGTcount: A:0.24, C:0.12, G:0.13, T:0.51
Consensus pattern (89 bp):
TAGATTTTACAATTTTGCCACTATGTTTTTCAGATTTTACAATTATGCCACTGATTTTCTAGATT
TTATAGTTTTGACACTATATTTTA
Found at i:16021484 original size:59 final size:58
Alignment explanation
Indices: 16021328--16021493 Score: 146
Period size: 58 Copynumber: 2.9 Consensus size: 58
16021318 GTGACAATGG
* * * *
16021328 TTTTT-TAGATTTTACAATTAT-GCCATTATAT-TTCTAGATTTTATAGTTTTGCCACTA
1 TTTTTCTAGATTTTACAATT-TCGCCACTAT-TCTTCAAAAATTTATAGTTTTGCCACTA
* * * **
16021385 TTTTTCTAGATTTTACAGTTTTGCCACTATTTTTTTAAAATTTATAGTTTTGCCAC-A
1 TTTTTCTAGATTTTACAATTTCGCCACTATTCTTCAAAAATTTATAGTTTTGCCACTA
* *
16021442 GGTTTTT-TCAGATTTTACAATTTCGGCACTATTCTTCAAAAA-TTACAGTTTT
1 --TTTTTCT-AGATTTTACAATTTCGCCACTATTCTTCAAAAATTTATAGTTTT
16021494 ACCTTACCTT
Statistics
Matches: 91, Mismatches: 12, Indels: 11
0.80 0.11 0.10
Matches are distributed among these distances:
57 8 0.09
58 51 0.56
59 32 0.35
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.51
Consensus pattern (58 bp):
TTTTTCTAGATTTTACAATTTCGCCACTATTCTTCAAAAATTTATAGTTTTGCCACTA
Found at i:16021959 original size:20 final size:20
Alignment explanation
Indices: 16021934--16021977 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
16021924 TTAGGGTTAC
*
16021934 AGAACATT-ACCATACAAAAT
1 AGAACATTCAACAT-CAAAAT
16021954 AGAACATTCAACATCAAAAT
1 AGAACATTCAACATCAAAAT
16021974 AGAA
1 AGAA
16021978 ACAATTATGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.57, C:0.18, G:0.07, T:0.18
Consensus pattern (20 bp):
AGAACATTCAACATCAAAAT
Found at i:16023551 original size:45 final size:45
Alignment explanation
Indices: 16023459--16023575 Score: 162
Period size: 45 Copynumber: 2.6 Consensus size: 45
16023449 ATGGTTGAAG
*
16023459 GATGCCATGGTGTCTTTCAACCATGGTCTTATTCATTCCTAACTT
1 GATGCCATGGTGTCTTTCAACCATGGTCTTATTCATTCCCAACTT
* * * *
16023504 GATGTCATGGTGTATTTCAACCATGGTCTTATTCATTCCCGATTT
1 GATGCCATGGTGTCTTTCAACCATGGTCTTATTCATTCCCAACTT
* * *
16023549 GATGCCATAGTGTCTTTTAACAATGGT
1 GATGCCATGGTGTCTTTCAACCATGGT
16023576 TTTGTTCGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (45 bp):
GATGCCATGGTGTCTTTCAACCATGGTCTTATTCATTCCCAACTT
Found at i:16023639 original size:45 final size:45
Alignment explanation
Indices: 16023590--16023716 Score: 141
Period size: 43 Copynumber: 2.8 Consensus size: 45
16023580 TTCGTCTGAT
* * * *
16023590 TCATGATGTCGTAGCGTCTTTTAGCTATGGTCTTACTCATTAGAA
1 TCATGATGCCATAACGTCTTTTAGCTATGGTCTTACTCATTAAAA
* * *
16023635 TCATGATGCCATAACATCTTTCAGC--TGGTCTTATTCATTAAAA
1 TCATGATGCCATAACGTCTTTTAGCTATGGTCTTACTCATTAAAA
* * *
16023678 TCGTGATGCCATAATGTCTTTTCAGCTATGGTTTTACTC
1 TCATGATGCCATAACGTCTTTT-AGCTATGGTCTTACTC
16023717 GTTTCTAGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
43 34 0.52
44 3 0.05
45 20 0.30
46 9 0.14
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (45 bp):
TCATGATGCCATAACGTCTTTTAGCTATGGTCTTACTCATTAAAA
Found at i:16039723 original size:17 final size:17
Alignment explanation
Indices: 16039701--16039742 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
16039691 TTTATCTCCA
16039701 TCTTTTGTACTTTTCGT
1 TCTTTTGTACTTTTCGT
16039718 TCTTTTGTACTTTTCGT
1 TCTTTTGTACTTTTCGT
16039735 TCTTTTGT
1 TCTTTTGT
16039743 CATTATAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.05, C:0.17, G:0.12, T:0.67
Consensus pattern (17 bp):
TCTTTTGTACTTTTCGT
Found at i:16039882 original size:9 final size:9
Alignment explanation
Indices: 16039864--16039899 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
16039854 GCAGACATGC
*
16039864 AAATTTAAA
1 AAATTAAAA
16039873 AAATTAAAA
1 AAATTAAAA
16039882 AAATT-AAA
1 AAATTAAAA
16039890 AAATTAAAA
1 AAATTAAAA
16039899 A
1 A
16039900 TTAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (9 bp):
AAATTAAAA
Done.