Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 97 of 161
Found at i:30708899 original size:50 final size:50
Alignment explanation
Indices: 30708845--30709309 Score: 288
Period size: 50 Copynumber: 9.3 Consensus size: 50
30708835 AGATTCGCCA
*
30708845 TTGTGG-TTTAAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATCCACTG
1 TTGTGGCTTT-AATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTG
* ** ** ** * ** *
30708895 TTGTGGCTTTAATCTGTTCCACTGCACCGTTTGGGAAGTAAGATTCGTTA
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTG
* * * *
30708945 TTGTAGCTCTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTG
* * *** ** * * * *
30708995 ATGTGGCTTTAATCTGTTCCTCTGCACCG-CTTGGGGAGTAAGATTCATTG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTC-AGGGAAGCAAGATTCACTG
* * * * *
30709045 CTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTG
* ** ** *** * * * *
30709095 ATGTGGCTTTAATCTGCTCCACTGC-ACCACAAGGGAAGTAGGATTCGCCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTC-AGGGAAGCAAGATTCACTG
* *
30709145 TTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACTG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTG
* * ** ** * * * * * *
30709195 ATGTGTCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAGGATTCGCCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTG
* * * * * *
30709245 CTGTGGCTTTAATCTTTTTAACTGTAATGTCGGGGAAGCGAGATTCTCCG
1 TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTG
* *
30709295 ATGTAGCTTTAATCT
1 TTGTGGCTTTAATCT
30709310 GCTCTACTGC
Statistics
Matches: 298, Mismatches: 112, Indels: 10
0.71 0.27 0.02
Matches are distributed among these distances:
49 3 0.01
50 289 0.97
51 6 0.02
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (50 bp):
TTGTGGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACTG
Found at i:30709338 original size:100 final size:100
Alignment explanation
Indices: 30708830--30709334 Score: 643
Period size: 100 Copynumber: 5.0 Consensus size: 100
30708820 AACTTTTGGA
* * * * *
30708830 AAGTAAGATTCGCCATTGTGG-TTTAAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATCCACT
1 AAGTAAGATTCGCCGTTGTGGCTTT-AATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACC
* * ***
30708894 GTTGTGGCTTTAATCTGTTCCACTGCACCGTTTGGG
65 GATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
*** * * *
30708930 AAGTAAGATTCGTTATTGTAGCTCTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCG
* * **
30708995 ATGTGGCTTTAATCTGTTCCTCTGCACCGCTTGGG
66 ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* *** * *
30709030 GAGTAAGATTCATTGCTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCG
* *
30709095 ATGTGGCTTTAATCTGCTCCACTGCACCACAAGGG
66 ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* *
30709130 AAGTAGGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACTG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCG
* *
30709195 ATGTGTCTTTAATCTGCTCCACTGCACTGCCAGGG
66 ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
* * * *
30709230 AAGTAGGATTCGCCGCTGTGGCTTTAATCTTTTTAACTGTAATGTCGGGGAAGCGAGATTCTCCG
1 AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCG
* * *
30709295 ATGTAGCTTTAATCTGCTCTACTGCACCGCCAAGG
66 ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
30709330 AAGTA
1 AAGTA
30709335 GGATCTGTAA
Statistics
Matches: 362, Mismatches: 42, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
100 360 0.99
101 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.32
Consensus pattern (100 bp):
AAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCGAGATTCACCG
ATGTGGCTTTAATCTGCTCCACTGCACCGCCAGGG
Found at i:30710731 original size:7 final size:7
Alignment explanation
Indices: 30710712--30710762 Score: 52
Period size: 7 Copynumber: 7.0 Consensus size: 7
30710702 TTAGCCTCTC
30710712 CATTTTT
1 CATTTTT
30710719 -ACTTTTT
1 CA-TTTTT
30710726 CATTTTTTT
1 CA--TTTTT
30710735 CATTTTT
1 CATTTTT
30710742 CA-TTTT
1 CATTTTT
30710748 CATTTTT
1 CATTTTT
30710755 CATCTTTT
1 CAT-TTTT
30710763 TTTTTTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
6 7 0.18
7 19 0.50
8 5 0.13
9 7 0.18
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:30710751 original size:22 final size:23
Alignment explanation
Indices: 30710712--30710754 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
30710702 TTAGCCTCTC
*
30710712 CATTTTTACTTTTTCATTTTTTT
1 CATTTTTACATTTTCATTTTTTT
30710735 CATTTTT-CATTTTCATTTTT
1 CATTTTTACATTTTCATTTTT
30710755 CATCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (23 bp):
CATTTTTACATTTTCATTTTTTT
Found at i:30710762 original size:22 final size:22
Alignment explanation
Indices: 30710712--30710764 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
30710702 TTAGCCTCTC
* *
30710712 CATTTTTACTTTTTCATTTTTTT
1 CATTTTT-CATTTTCATTTTTAT
30710735 CATTTTTCATTTTCATTTTTCAT
1 CATTTTTCATTTTCATTTTT-AT
*
30710758 CTTTTTT
1 CATTTTT
30710765 TTTTGAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (22 bp):
CATTTTTCATTTTCATTTTTAT
Found at i:30710767 original size:13 final size:13
Alignment explanation
Indices: 30710731--30710757 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30710721 TTTTTCATTT
30710731 TTTTCATTTTTCA
1 TTTTCATTTTTCA
30710744 TTTTCATTTTTCA
1 TTTTCATTTTTCA
30710757 T
1 T
30710758 CTTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:30711144 original size:6 final size:6
Alignment explanation
Indices: 30711135--30711219 Score: 50
Period size: 6 Copynumber: 13.8 Consensus size: 6
30711125 TCTCTTTCTT
* * * *
30711135 TTTTTA -TTTTA TTTCATT- TTTTTA TTTTGA TTTTGA TTTTTC TTTTTC
1 TTTTTA TTTTTA TTT--TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* *
30711183 TTCTTT- TTTTTG TCTTTTGA TTTTTA TTTTGA TTTTT
1 TT-TTTA TTTTTA T-TTTT-A TTTTTA TTTTTA TTTTT
30711220 TTTGAATTGG
Statistics
Matches: 65, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
5 10 0.15
6 38 0.58
7 14 0.22
8 3 0.05
ACGTcount: A:0.11, C:0.06, G:0.06, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:30711175 original size:19 final size:18
Alignment explanation
Indices: 30711129--30711167 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
30711119 CTTTTTTCTC
30711129 TTTC-TTTTTTTATTTTA
1 TTTCATTTTTTTATTTTA
30711146 TTTCATTTTTTTATTTTGA
1 TTTCATTTTTTTATTTT-A
30711165 TTT
1 TTT
30711168 TGATTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 12 0.60
19 4 0.20
ACGTcount: A:0.13, C:0.05, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTCATTTTTTTATTTTA
Found at i:30711222 original size:32 final size:31
Alignment explanation
Indices: 30711141--30711222 Score: 87
Period size: 32 Copynumber: 2.6 Consensus size: 31
30711131 TCTTTTTTTA
30711141 TTTTA-TTTCATTTTTTTATTTTGATTTTGAT
1 TTTTATTTTCATTTTTTT-TTTTGATTTTGAT
* * *
30711172 TTTTCTTTTTC-TTCTTTTTTTTGTCTTTTGAT
1 TTTT-ATTTTCATTTTTTTTTTTG-ATTTTGAT
*
30711204 TTTTATTTTGATTTTTTTT
1 TTTTATTTTCATTTTTTTT
30711223 GAATTGGATC
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
31 13 0.32
32 24 0.59
33 4 0.10
ACGTcount: A:0.10, C:0.06, G:0.06, T:0.78
Consensus pattern (31 bp):
TTTTATTTTCATTTTTTTTTTTGATTTTGAT
Found at i:30720238 original size:14 final size:14
Alignment explanation
Indices: 30720219--30720250 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
30720209 GAATGCGTGT
30720219 AGGCGAGCTAGTGA
1 AGGCGAGCTAGTGA
*
30720233 AGGCGAGCTGGTGA
1 AGGCGAGCTAGTGA
30720247 AGGC
1 AGGC
30720251 AGATTTATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.25, C:0.16, G:0.47, T:0.12
Consensus pattern (14 bp):
AGGCGAGCTAGTGA
Found at i:30730482 original size:44 final size:44
Alignment explanation
Indices: 30730385--30730506 Score: 115
Period size: 44 Copynumber: 2.8 Consensus size: 44
30730375 AAACAGAAGA
* * * * *
30730385 AATCTTATGTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAACAAGT
*
30730429 AATCCTATCTCCCTGAGATTACAGTGGAGT-GAATTAAAACAAAG-
1 AATCTTATCTCCCTGAGATTACAGTGGAGTAG-ATTAAAAC-AAGT
* * *
30730473 GATCTTATCTCTCTGA-AGTTACAGTAGAGTAGAT
1 AATCTTATCTCCCTGAGA-TTACAGTGGAGTAGAT
30730507 CGCATCAGAT
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
43 2 0.03
44 59 0.92
45 3 0.05
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGTAGATTAAAACAAGT
Found at i:30731484 original size:44 final size:44
Alignment explanation
Indices: 30731422--30731923 Score: 228
Period size: 44 Copynumber: 10.7 Consensus size: 44
30731412 AGCAAACAGA
*
30731422 AGAAATCTTATGTCCCTGAGATTACAGCGGAGTAGATTGAAGCT
1 AGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT
* * * * *
30731466 AGTAATCCTATCTCCCTGAGATTACAGTGGAGT-GAATTAAAAC-
1 AGAAATCTTATCTCCCTGAGATTACAGCGGAGTAG-ATTGAAGCT
* * *
30731509 A-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCC
1 AGAA--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G--T-AGATTGAAGCT
* *
30731564 AGAAATCTTATCTTCCTGAGATTACAGCGGAGTAGATTAAAGCT
1 AGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT
* * * * *
30731608 AGTAATCTTATCTCCCTGAGATTACAGTGGAGTGGATTAAAAC-
1 AGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT
* * * *
30731651 AAAAGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCC
1 AGAA-ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G--T-AGATTGAAGCT
* * *
30731706 AGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGCT
1 AGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT
* * * * * * * * *
30731750 CGTAATCCTATCTCCCTAAGATTCCAGTGGAGTGGATTAAAAC-
1 AGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT
* * * *
30731793 AAAAGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCC
1 AGAA-ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G--T-AGATTGAAGCT
* *
30731848 AGAAATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGTT
1 AGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT
* * * *
30731892 AGTAATCCTATCTCCCTCAGATTACAGTGGAG
1 AGAAATCTTATCTCCCTGAGATTACAGCGGAG
30731924 CGGATCAAAA
Statistics
Matches: 342, Mismatches: 70, Indels: 92
0.68 0.14 0.18
Matches are distributed among these distances:
42 1 0.00
43 8 0.02
44 208 0.61
45 2 0.01
47 12 0.04
49 12 0.04
51 10 0.03
53 3 0.01
54 73 0.21
55 11 0.03
56 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT
Found at i:30731633 original size:98 final size:95
Alignment explanation
Indices: 30731455--30731919 Score: 263
Period size: 98 Copynumber: 4.9 Consensus size: 95
30731445 ACAGCGGAGT
* * * * *
30731455 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGT-GAATTAAAAC-A-AAGGATC
1 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAG-ATTAAAGCTAGAA--ATC
*
30731517 TTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA
63 TTATCTCCCTGAGA-TTACAGTAGAGTAGATCG-A
* *
30731551 TCAGATTGAAGCCAGAAATCTTATCTTCCTGAGATTACAGCGGAGTAGATTAAAGCTAGTAATCT
1 --AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTAAAGCTAGAAATCT
30731616 TATCTCCCTGAGATTACAGT-G-G-AG-T-G-
64 TATCTCCCTGAGATTACAGTAGAGTAGATCGA
** * * * *
30731642 -GATT-AAAACAAAAGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAG
1 AGATTGAAGCCAGAA-ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G--T-AGATTAAAG
* * *
30731704 CCAGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGA
54 CTAGAAATCTTATCTCCCTGAGATTACAGTAGAGTAGATCGA
* * * * * * * * *
30731746 AG-CT-----C-GTAATCCTATCTCCCTAAGATTCCAGTGGAGTGGATTAAAAC-AAAAGATCTT
1 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTAAAGCTAGAA-ATCTT
*
30731803 ATCTCTCTGA-AGTTACAGTAGAGTAGATCGCA
65 ATCTCCCTGAGA-TTACAGTAGAGTAGATCG-A
* * * * *
30731835 TCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGTTAGTAATCC
1 --AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTAAAGCTAGAAATCT
*
30731900 TATCTCCCTCAGATTACAGT
64 TATCTCCCTGAGATTACAGT
30731920 GGAGCGGATC
Statistics
Matches: 280, Mismatches: 49, Indels: 76
0.69 0.12 0.19
Matches are distributed among these distances:
87 11 0.04
88 58 0.21
89 2 0.01
91 6 0.02
92 1 0.00
93 5 0.02
94 1 0.00
95 6 0.02
96 1 0.00
97 3 0.01
98 168 0.60
99 9 0.03
100 3 0.01
101 2 0.01
102 1 0.00
103 1 0.00
104 1 0.00
105 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (95 bp):
AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTAAAGCTAGAAATCTTA
TCTCCCTGAGATTACAGTAGAGTAGATCGA
Found at i:30731678 original size:142 final size:142
Alignment explanation
Indices: 30731422--30731988 Score: 945
Period size: 142 Copynumber: 4.0 Consensus size: 142
30731412 AGCAAACAGA
* *
30731422 AGAAATCTTATGTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 AGAAATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
30731487 TTACAGTGGAGTGAATTAAAACAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGTGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
30731552 CAGATTGAAGCC
131 CAGATTGAAGCC
* * * *
30731564 AGAAATCTTATCTTCCTGAGATTACAGCGGAGTAGATTAAAGCTAGTAATCTTATCTCCCTGAGA
1 AGAAATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
30731629 TTACAGTGGAGTGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGTGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
30731694 CAGATTGAAGCC
131 CAGATTGAAGCC
* * * *
30731706 AGAAATCTTATCTCCCTGAGATTACAGCAGAGCAGATCGAAGCTCGTAATCCTATCTCCCTAAGA
1 AGAAATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
30731771 TTCCAGTGGAGTGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGTGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
30731836 CAGATTGAAGCC
131 CAGATTGAAGCC
* *
30731848 AGAAATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGTTAGTAATCCTATCTCCCTCAGA
1 AGAAATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* * * * *
30731913 TTACAGTGGAGCGGATCAAAACAAAGGATCTTATTTCTCTGAAGTCACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGTGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
*
30731978 TAGATTGAAGC
131 CAGATTGAAGC
30731989 TACAGCAGCA
Statistics
Matches: 398, Mismatches: 27, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 398 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (142 bp):
AGAAATCTTATCTCCCTGAGATTACAGCAGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGTGGATTAAAACAAAAGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
CAGATTGAAGCC
Found at i:30739162 original size:18 final size:19
Alignment explanation
Indices: 30739128--30739163 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30739118 CTACATATAT
30739128 TTTTATAATTTATAATTTC
1 TTTTATAATTTATAATTTC
*
30739147 TTTTATATTTTA-AATTT
1 TTTTATAATTTATAATTT
30739164 TTTATGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTATAATTTATAATTTC
Found at i:30739894 original size:22 final size:24
Alignment explanation
Indices: 30739842--30739898 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
30739832 AAGCCCTTTT
30739842 AAATTT-TAAAAATTAATAAAAAA
1 AAATTTATAAAAATTAATAAAAAA
* * *
30739865 AAAGTTATAAAAATT-AT-GAACA
1 AAATTTATAAAAATTAATAAAAAA
30739887 AAATTTATAAAA
1 AAATTTATAAAA
30739899 TAAAGGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 14 0.48
23 7 0.24
24 8 0.28
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
AAATTTATAAAAATTAATAAAAAA
Found at i:30746729 original size:13 final size:13
Alignment explanation
Indices: 30746692--30746730 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
30746682 TTTAAAAAAT
30746692 TAAAAAAAATTTA
1 TAAAAAAAATTTA
* * *
30746705 TAAAGAATATTTC
1 TAAAAAAAATTTA
30746718 TAAAAAAAATTTA
1 TAAAAAAAATTTA
30746731 AAGTGTTTAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (13 bp):
TAAAAAAAATTTA
Found at i:30749068 original size:11 final size:12
Alignment explanation
Indices: 30749044--30749068 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30749034 TTTTATAAAA
30749044 TTTATAATTTTT
1 TTTATAATTTTT
30749056 TTTATAATTTTT
1 TTTATAATTTTT
30749068 T
1 T
30749069 AATAAATTAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATAATTTTT
Found at i:30749755 original size:20 final size:20
Alignment explanation
Indices: 30749730--30749769 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
30749720 CGTAAAATGA
*
30749730 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
30749750 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
30749770 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:30749759 original size:34 final size:35
Alignment explanation
Indices: 30749715--30749781 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
30749705 CAGTAAAATA
* *
30749715 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
30749749 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
30749782 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:30751208 original size:29 final size:28
Alignment explanation
Indices: 30751176--30751235 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
30751166 ATTTTATTTG
* *
30751176 AAAGCCTTTTCCTTTTTTTTTTTGAAATT
1 AAAGCCATTTCCTTTTTTGTTTT-AAATT
* *
30751205 AAAGTCATTTCCTTTTTTGTTTTAATTT
1 AAAGCCATTTCCTTTTTTGTTTTAAATT
30751233 AAA
1 AAA
30751236 ATTGTTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 7 0.26
29 20 0.74
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.57
Consensus pattern (28 bp):
AAAGCCATTTCCTTTTTTGTTTTAAATT
Found at i:30753189 original size:23 final size:24
Alignment explanation
Indices: 30753153--30753207 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
30753143 TTAGTAAATT
* *
30753153 TTTATTTTGTTA-TTTAATTTTATA
1 TTTATTTTGCTATTTTAA-TATATA
30753177 TTTATTTT-CTATTTTAATATATA
1 TTTATTTTGCTATTTTAATATATA
30753200 TTTATTTT
1 TTTATTTT
30753208 TAAAATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 15 0.54
24 13 0.46
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTATTTTGCTATTTTAATATATA
Found at i:30754829 original size:25 final size:25
Alignment explanation
Indices: 30754811--30754864 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
30754801 TGAGCTGAAG
30754811 ATCGGTATGCTCTCATGAGCTATAA
1 ATCGGTATGCTCTCATGAGCTATAA
* *
30754836 ATCGGTATGCTCTCACGAGCCATAA
1 ATCGGTATGCTCTCATGAGCTATAA
30754861 ATCG
1 ATCG
30754865 ATAACCTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
ATCGGTATGCTCTCATGAGCTATAA
Found at i:30758102 original size:21 final size:21
Alignment explanation
Indices: 30758078--30758120 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
30758068 GTAAAACGAG
30758078 TATGTAATTACAATCATCTCA
1 TATGTAATTACAATCATCTCA
30758099 TATGTAATTACAATCATCTCA
1 TATGTAATTACAATCATCTCA
30758120 T
1 T
30758121 GATTGGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.05, T:0.40
Consensus pattern (21 bp):
TATGTAATTACAATCATCTCA
Found at i:30763469 original size:37 final size:37
Alignment explanation
Indices: 30763428--30763503 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
30763418 TTAGGAAGCA
30763428 AAAGAGAGTTCGATTCACTAGAGGAATCCATAACATG
1 AAAGAGAGTTCGATTCACTAGAGGAATCCATAACATG
30763465 AAAGAGAGTTCGATTCACTAGAGGAATCCATAACATG
1 AAAGAGAGTTCGATTCACTAGAGGAATCCATAACATG
30763502 AA
1 AA
30763504 GGGAACATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (37 bp):
AAAGAGAGTTCGATTCACTAGAGGAATCCATAACATG
Found at i:30767682 original size:18 final size:17
Alignment explanation
Indices: 30767631--30767682 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
30767621 TAATCTCTCA
30767631 ATATTCATATTAATTTAT
1 ATATTCATATTAATTT-T
**
30767649 ATATT-ATATTGGTTTT
1 ATATTCATATTAATTTT
*
30767665 ACTTTTCATATTAATTTT
1 A-TATTCATATTAATTTT
30767683 TTTTTATAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
16 2 0.07
17 11 0.41
18 14 0.52
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.60
Consensus pattern (17 bp):
ATATTCATATTAATTTT
Found at i:30769074 original size:23 final size:26
Alignment explanation
Indices: 30769043--30769102 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
30769033 GTTAAAAATT
*
30769043 TTAAAAATA-AATAA-AATATA-TAA
1 TTAATAATATAATAATAATATACTAA
* *
30769066 TTAATAATATTATAATAATTTACTAA
1 TTAATAATATAATAATAATATACTAA
30769092 TTAATAATATA
1 TTAATAATATA
30769103 TACGAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 8 0.27
24 4 0.13
25 5 0.17
26 13 0.43
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (26 bp):
TTAATAATATAATAATAATATACTAA
Found at i:30776665 original size:45 final size:45
Alignment explanation
Indices: 30776614--30776700 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
30776604 ACCATAAGAG
* *
30776614 TAATCAAACAAACTTGTGGAATATTTAAGTTTATGAAGTTAGGAC
1 TAATCAAACAAACTTGTGGAATATTTAAATATATGAAGTTAGGAC
30776659 TAATCAAACAAACTTGTGGAATATTTAAATATATGAAGTTAG
1 TAATCAAACAAACTTGTGGAATATTTAAATATATGAAGTTAG
30776701 TTTTGTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (45 bp):
TAATCAAACAAACTTGTGGAATATTTAAATATATGAAGTTAGGAC
Found at i:30780064 original size:27 final size:27
Alignment explanation
Indices: 30780021--30780072 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
30780011 AAAACACGTT
*
30780021 ATGAAAGAAAAACCTTTGTGGCGAATC
1 ATGAAAGAAAAACCTTTGTGCCGAATC
**
30780048 ATGAAAGAAAAGTCTTTGTGCCGAA
1 ATGAAAGAAAAACCTTTGTGCCGAA
30780073 CCCTACAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (27 bp):
ATGAAAGAAAAACCTTTGTGCCGAATC
Found at i:30782703 original size:31 final size:31
Alignment explanation
Indices: 30782668--30782772 Score: 90
Period size: 31 Copynumber: 3.4 Consensus size: 31
30782658 TATTATCATC
*
30782668 GAATGTATATACACTTTAAACATGAATAGTT
1 GAATGTATATACACTTTAAACATGAATAGCT
* * ** *
30782699 GAATGCT-TATACAC-ATAACAAATTTTATCA-CC
1 GAATG-TATATACACTTTAA-ACA-TGAAT-AGCT
30782731 GAATGTATATACACTTTAAACATGAATAGCT
1 GAATGTATATACACTTTAAACATGAATAGCT
*
30782762 GAATGCATATA
1 GAATGTATATA
30782773 TACATATGCC
Statistics
Matches: 55, Mismatches: 12, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
30 4 0.07
31 29 0.53
32 18 0.33
33 4 0.07
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.32
Consensus pattern (31 bp):
GAATGTATATACACTTTAAACATGAATAGCT
Found at i:30782750 original size:63 final size:63
Alignment explanation
Indices: 30782651--30782778 Score: 211
Period size: 63 Copynumber: 2.0 Consensus size: 63
30782641 CATATATGCT
* * *
30782651 TAACAAATATTATCATCGAATGTATATACACTTTAAACATGAATAGTTGAATGCTTATACACA
1 TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATACACA
* *
30782714 TAACAAATTTTATCACCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATATACA
1 TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATACACA
30782777 TA
1 TA
30782779 TGCCTAACAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.33
Consensus pattern (63 bp):
TAACAAATATTATCACCGAATGTATATACACTTTAAACATGAATAGCTGAATGCATATACACA
Found at i:30783007 original size:41 final size:41
Alignment explanation
Indices: 30782956--30783035 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
30782946 GACTGAATTG
* * *
30782956 TTTCATCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATA
1 TTTCACCGGCATCAAACCTGCTAGACATAAAGTCTGAAATA
*
30782997 TTTCACCGGCATCAAACCTGCTAGACGTAAAGTCTGAAA
1 TTTCACCGGCATCAAACCTGCTAGACATAAAGTCTGAAA
30783036 CATTCGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (41 bp):
TTTCACCGGCATCAAACCTGCTAGACATAAAGTCTGAAATA
Found at i:30783203 original size:75 final size:75
Alignment explanation
Indices: 30783117--30783257 Score: 178
Period size: 75 Copynumber: 1.9 Consensus size: 75
30783107 AATATATATA
* * * * *
30783117 CATAATCGAATCTTCCATAT-ACA-TATATAAATTTCATACTTAAATTCATTACAAGAACATATA
1 CATAATCGAATCTT--ATATAAAATTATATAAATGTCATACCTAAATTCAATAAAAGAACATATA
30783180 CATGTATACCTG
64 CATGTATACCTG
* * *
30783192 CATAATTGAATCTTATATAAAATTATATAAATGTCCTTCCTAAATTCAATAAAAGAACATATACA
1 CATAATCGAATCTTATATAAAATTATATAAATGTCATACCTAAATTCAATAAAAGAACATATACA
30783257 T
66 T
30783258 ATATGTAAGC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
73 4 0.07
74 2 0.04
75 50 0.89
ACGTcount: A:0.44, C:0.16, G:0.05, T:0.35
Consensus pattern (75 bp):
CATAATCGAATCTTATATAAAATTATATAAATGTCATACCTAAATTCAATAAAAGAACATATACA
TGTATACCTG
Found at i:30784782 original size:25 final size:26
Alignment explanation
Indices: 30784716--30784787 Score: 83
Period size: 26 Copynumber: 2.8 Consensus size: 26
30784706 TATCATCCCT
* * * *
30784716 ATTTTACCTTTAGCAAAATTTTTACG
1 ATTTTACCATTGGTAAAATTTTAACG
30784742 ATTTTACCATTGGTAAAATTTTAACG
1 ATTTTACCATTGGTAAAATTTTAACG
* *
30784768 ATTTTCCCCTT-GTAAAATTT
1 ATTTTACCATTGGTAAAATTT
30784788 CAAGAAAATA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 9 0.22
26 31 0.77
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (26 bp):
ATTTTACCATTGGTAAAATTTTAACG
Found at i:30784945 original size:6 final size:6
Alignment explanation
Indices: 30784934--30784964 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
30784924 TGAAAACGGA
*
30784934 TCATTT TCATTT TCATTT TCATTT CCATTT T
1 TCATTT TCATTT TCATTT TCATTT TCATTT T
30784965 TGGAAACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (6 bp):
TCATTT
Found at i:30787136 original size:95 final size:95
Alignment explanation
Indices: 30786833--30787624 Score: 927
Period size: 95 Copynumber: 8.4 Consensus size: 95
30786823 GGTGGTTTGG
* * * * ** *
30786833 AAATCAACTAACTCAG-GTAAGATTTTTCATGATAATAAATCAAATGAACTTAG-TTGCAATATT
1 AAATCAGCTAACTCAGAG-AAGATTGTTCATGATAGTAAATCAAATGAACTTAGACTGTGATCTT
** * * *
30786896 AAATTAGCGAGTTGTTTGAAGCAGAGATATC
65 AAATTAGCGAGCCGTTTGGAGCAGCGATATT
* * * * **
30786927 AATTCAAG-TAACTTAGAGAAGACTATTCATGATAGTAAATCAAATGAACTTAGGTTGCT-ATCT
1 AAATC-AGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGACTG-TGATCT
*
30786990 TAAATTAGC-AGTCGTTTGGAGCAGCGATATT
64 TAAATTAGCGAGCCGTTTGGAGCAGCGATATT
*
30787021 AAATCAGCTAACTCAGAGAAGATTAG-TCATGATAGTAAATCAAATGAACTTAGACTGTGATATT
1 AAATCAGCTAACTCAGAGAAGATT-GTTCATGATAGTAAATCAAATGAACTTAGACTGTGATCTT
* * *
30787085 AAATCAGCGAGCCGTTTGGAGCAACAATATT
65 AAATTAGCGAGCCGTTTGGAGCAGCGATATT
* * * *
30787116 AAATAAACTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGGCTGCGATCTTA
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGACTGTGATCTTA
* * *
30787181 AATGAGTGAGCCGTTTGGAGTAGCGATATT
66 AATTAGCGAGCCGTTTGGAGCAGCGATATT
* * * *
30787211 AAATCAGTTAACTCAAAGAAGATTGTTCATGATAGTAAATCAAATGAACTCA-AGCTATGATCTT
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGA-CTGTGATCTT
* *
30787275 AAATTAGTGAGCCGTTTGGAGCAACGATATT
65 AAATTAGCGAGCCGTTTGGAGCAGCGATATT
* * * **
30787306 AAATCAGTTAACTCAGAGAAGATTGTTCATGATAGTAAATTAAATGAACTTTGGTTGTGATCTTA
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGACTGTGATCTTA
* *
30787371 AATTAGCGAACCGTTTGGAGCAGCAATATT
66 AATTAGCGAGCCGTTTGGAGCAGCGATATT
* * * * *
30787401 AAATCAGCTAACTTAGAGATGATTGTTTATAATAGTAAATCAAATAAACTTA-AGCTGTGATCTT
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGA-CTGTGATCTT
* *
30787465 AAATTAGCGAGCTGCTTGGAGCAGCGATATT
65 AAATTAGCGAGCCGTTTGGAGCAGCGATATT
* * * *
30787496 AAATAAGCTAACTTAGAGGAGATTGTTCATGATAGTAAATCAAATGAACTTA-ACTTGCGATCTT
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGAC-TGTGATCTT
* * *
30787560 AAAGTAGCGAGCTGTTTGGAGCATCGATATT
65 AAATTAGCGAGCCGTTTGGAGCAGCGATATT
* *
30787591 AAATCAGCTAACTTAGAGAAGATTTTTCATGATA
1 AAATCAGCTAACTCAGAGAAGATTGTTCATGATA
30787625 AATAAACTAA
Statistics
Matches: 603, Mismatches: 82, Indels: 25
0.85 0.12 0.04
Matches are distributed among these distances:
93 3 0.00
94 121 0.20
95 479 0.79
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (95 bp):
AAATCAGCTAACTCAGAGAAGATTGTTCATGATAGTAAATCAAATGAACTTAGACTGTGATCTTA
AATTAGCGAGCCGTTTGGAGCAGCGATATT
Found at i:30791038 original size:3 final size:3
Alignment explanation
Indices: 30791030--30791057 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30791020 AGGCTCCCTT
30791030 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
30791058 AATGTTGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:30798472 original size:25 final size:25
Alignment explanation
Indices: 30798444--30798509 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
30798434 GATTCACCAT
30798444 AGCTCATATGAGCTTACCGATT-TGC
1 AGCTCATATGAGCTTACCGATTCT-C
*
30798469 AGCTCATGA-GAGGTTACCGATTCTC
1 AGCTCAT-ATGAGCTTACCGATTCTC
* *
30798494 AGCTCGTATGGGCTTA
1 AGCTCATATGAGCTTA
30798510 TCGAATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.03
25 31 0.91
26 2 0.06
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (25 bp):
AGCTCATATGAGCTTACCGATTCTC
Found at i:30798555 original size:24 final size:25
Alignment explanation
Indices: 30798505--30798555 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 25
30798495 GCTCGTATGG
* * *
30798505 GCTTATCGAATTTTAGCTCGGAGGA
1 GCTTATCGAATTATAGCTCGAAAGA
*
30798530 GCTTATCG-ATTATGGCTCGAAAGA
1 GCTTATCGAATTATAGCTCGAAAGA
30798554 GC
1 GC
30798556 ATACATGTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (25 bp):
GCTTATCGAATTATAGCTCGAAAGA
Found at i:30802962 original size:715 final size:704
Alignment explanation
Indices: 30801603--30803023 Score: 2055
Period size: 715 Copynumber: 2.0 Consensus size: 704
30801593 TGTAACTGCT
* * *
30801603 TCGATTGATCCCGGATCAACCCATTCATATATATGTACAAATTTAGTGTCTAGTAAGATCTTACT
1 TCGATTGATCCCAGATCAACCCATTCATATATATATACAAATTTAGTGTCTAGTAAGATCTTACC
* *
30801668 TGTCGAGTCCACTGAATTTGTGGTTAAGGTATCGAACCCTTTAGGTCAGTATGTCCTAATTGATA
66 TGTCGAGTCCACTAAATTTGCGGTTAAGGTATCGAACCCTTTAGGTCAGTATGTCCTAATTGATA
* ** ** *
30801733 AAGTTTGCAAGATCTGTCCGTTAATGACTCGGGGTTATAGTTTTTTGACTGATTTGATGCTTTTA
131 AAGTTTGCAAGATCTGTCAGTTAATGACTCAAGGTTATAGTTTTCAGACCGATTTGATGCTTTTA
* * * *
30801798 CCGTTTGATGAGTTTAACGTAATTTTGGGTGACTCTGCATGATGCGGTTATAAACTATAGATGAA
196 CCATTTGATGAGTTTAACGTAATTTTGGGTGACTCTGCATGATGCGGATATAAAATATAGACGAA
*
30801863 AGATTATTGTGTTAAAATGTCAGAATGGTGAGACTCTTCATATTGAATCTGATGATTCGAATGGT
261 AGATTATTGTGTTAAAATGTCAGAATGGTGAGACTCTTCATATTGAATCCGATGATTCGAATGGT
* * * *
30801928 TTACCTATTGTGATATCGACTATGCTAGCATAGAAATATGTGAGAAAGGGTTGCAATGCTTACCT
326 TTACCTATTGTGATATAGACTATGCTAGCACAAAAATATGTGAAAAAGGGTTGCAATGCTTACCT
* * *
30801993 TGCGTATGTACTTGATAAAAAAGTGTTTGAATCGAACATTGAATCAGTGCCAGTGATTTGTGAAT
391 TGCGTATGTACTTGATAAAAAAGTGTCTAAATCAAACATTGAATCAGTGCCAGTGATTTGTGAAT
* *
30802058 ATCTAGTTGTGTTTCCAGAAGAGTTACCCGAATTGCCACCGATCAAAGAGGTTGAATTTGCTATT
456 ATCTAGATGTGTTTCCAGAAGAGTTACCCGAATTGCCACCAATCAAAGAGGTTGAATTTGCTATT
* * *
30802123 GAGTTAGCACTAGGAACATCATCGATATCGACAGCTCCGTACAGAATGGCTCCTACAGAGTTGAA
521 GAGTTAGCACGAGGAACATCACCGATATCGACAGCTCAGTACAGAATGGCTCCTACAGAGTTGAA
* *
30802188 AGAATTGAAAGCTCAGTTGCAAGAGTTAAAAGATAGAGGTTTTGCACGACCAAGTTTCTCGTCCT
586 AGAATTGAAAGATCAGTTGCAAGAGTTAAAAGATAGAGGTTTTGCACGACCAAGTTTCTCGCCCT
* * * *
30802253 GGGGTGCACC-AGTTTTATTTTTAAAGAAGAAAGATGGATTAATGAGACTATGTA
651 AGGGTGCACCGA-TTTTATTTGTAAAGAAGAAAGAGGGATCAATGAGACTATGTA
* * *
30802307 TCGATTGATCTCAGATCAACCCATTTATATGA-ATATACAAATTTAGTGTCTCGTAAGAGT-TTA
1 TCGATTGATCCCAGATCAACCCATTCATAT-ATATATACAAATTTAGTGTCTAGTAAGA-TCTTA
* *
30802370 CCTGTTGAGTCCACTAAATTTGCGTTTAAGGTATCGAACTCC-TTAGGTCAGTATGTCCTAATTG
64 CCTGTCGAGTCCACTAAATTTGCGGTTAAGGTATCGAAC-CCTTTAGGTCAGTATGTCCTAATTG
*
30802434 ATAAAGTTTGCAAGAAT-TGTTAGTTAATGACTCAAGGTTATAGTTTTCCAG-CCGATTTGATGC
128 ATAAAGTTTGCAAG-ATCTGTCAGTTAATGACTCAAGGTTATAGTTTT-CAGACCGATTTGATGC
* *
30802497 TTTTACCATTTGATGAGTTTGATGTAATTTTGGGTACGGATTGGCTGACTCTGCATGATGCGGAT
191 TTTTACCATTTGATGAGTTTAACGTAA-TTT---T---G---GG-TGACTCTGCATGATGCGGAT
* * * * * *
30802562 GTAAAATCTATACGAAAGATTATTGTGTTAAAATTTTAGAATGGTGAGACTCTTCGTATTGAATC
245 ATAAAATATAGACGAAAGATTATTGTGTTAAAATGTCAGAATGGTGAGACTCTTCATATTGAATC
* * *
30802627 CGATGATTCGAGTGGTTTAGCTATTTTGATATAGACTATGCTAGCACAAAAATATGTGAAAAAGG
310 CGATGATTCGAATGGTTTACCTATTGTGATATAGACTATGCTAGCACAAAAATATGTGAAAAAGG
** * *
30802692 GTTGCAATGCTTACCTTGCGTATGTACTTGATTCAAATGTGTCTAAATCAAAGATTGAATCAGTG
375 GTTGCAATGCTTACCTTGCGTATGTACTTGATAAAAAAGTGTCTAAATCAAACATTGAATCAGTG
* *
30802757 CCAGTGGTTTGTGAATATCTAGATGTGTTTCCAGAAGAGTTACCCGGATTGCCACCAATCAAAGA
440 CCAGTGATTTGTGAATATCTAGATGTGTTTCCAGAAGAGTTACCCGAATTGCCACCAATCAAAGA
* * *
30802822 GGTTGAATTTGCTATTGAGTTAGTACCGA-GAACATCACCGGTATCGATAGCTCAGTACAGAATG
505 GGTTGAATTTGCTATTGAGTTAGCA-CGAGGAACATCACCGATATCGACAGCTCAGTACAGAATG
*
30802886 GCTCCTACAGAGTTGAAAGAATTGAAAGATCAGTTGCAAGAGTTAATAGATAGAGGTTTTGCACG
569 GCTCCTACAGAGTTGAAAGAATTGAAAGATCAGTTGCAAGAGTTAAAAGATAGAGGTTTTGCACG
* *
30802951 ACCGAGTTTCTCGCCCTAGGGTGCACCGATTTTATTTGTAAAGAAGAAATAGGGATCAATGAGAC
634 ACCAAGTTTCTCGCCCTAGGGTGCACCGATTTTATTTGTAAAGAAGAAAGAGGGATCAATGAGAC
*
30803016 TGTGTA
699 TATGTA
30803022 TC
1 TC
30803024 AATTATCGAC
Statistics
Matches: 635, Mismatches: 64, Indels: 25
0.88 0.09 0.03
Matches are distributed among these distances:
704 185 0.29
705 10 0.02
708 1 0.00
711 1 0.00
714 2 0.00
715 433 0.68
716 3 0.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (704 bp):
TCGATTGATCCCAGATCAACCCATTCATATATATATACAAATTTAGTGTCTAGTAAGATCTTACC
TGTCGAGTCCACTAAATTTGCGGTTAAGGTATCGAACCCTTTAGGTCAGTATGTCCTAATTGATA
AAGTTTGCAAGATCTGTCAGTTAATGACTCAAGGTTATAGTTTTCAGACCGATTTGATGCTTTTA
CCATTTGATGAGTTTAACGTAATTTTGGGTGACTCTGCATGATGCGGATATAAAATATAGACGAA
AGATTATTGTGTTAAAATGTCAGAATGGTGAGACTCTTCATATTGAATCCGATGATTCGAATGGT
TTACCTATTGTGATATAGACTATGCTAGCACAAAAATATGTGAAAAAGGGTTGCAATGCTTACCT
TGCGTATGTACTTGATAAAAAAGTGTCTAAATCAAACATTGAATCAGTGCCAGTGATTTGTGAAT
ATCTAGATGTGTTTCCAGAAGAGTTACCCGAATTGCCACCAATCAAAGAGGTTGAATTTGCTATT
GAGTTAGCACGAGGAACATCACCGATATCGACAGCTCAGTACAGAATGGCTCCTACAGAGTTGAA
AGAATTGAAAGATCAGTTGCAAGAGTTAAAAGATAGAGGTTTTGCACGACCAAGTTTCTCGCCCT
AGGGTGCACCGATTTTATTTGTAAAGAAGAAAGAGGGATCAATGAGACTATGTA
Found at i:30805836 original size:29 final size:29
Alignment explanation
Indices: 30805779--30805839 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
30805769 TGTGACAATA
** **
30805779 CCTACTAAATATAACACCGGTAACTAGTG
1 CCTACTAAATATAACACCGACAAAGAGTG
*
30805808 CCTAGTAAATATAACACCGACAAAGAGTG
1 CCTACTAAATATAACACCGACAAAGAGTG
30805837 CCT
1 CCT
30805840 GCTACTCCCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.25, G:0.15, T:0.21
Consensus pattern (29 bp):
CCTACTAAATATAACACCGACAAAGAGTG
Found at i:30813241 original size:41 final size:40
Alignment explanation
Indices: 30813191--30813283 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
30813181 AGCGGCGTTT
* *
30813191 TTAGTGGCGCTTGGATAAAAAACGCCGCTAAAAATCAAGCA
1 TTAGCGGCGCTT-GATAAAAAACGCCACTAAAAATCAAGCA
** * *
30813232 TTAGCGGCGCTTTTTAAAAAACGCCACTAAAGATCAAGTA
1 TTAGCGGCGCTTGATAAAAAACGCCACTAAAAATCAAGCA
*
30813272 TTAGCGGTGCTT
1 TTAGCGGCGCTT
30813284 TTTAAAAACG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 34 0.76
41 11 0.24
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCGGCGCTTGATAAAAAACGCCACTAAAAATCAAGCA
Found at i:30813262 original size:40 final size:40
Alignment explanation
Indices: 30813206--30813315 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
30813196 GGCGCTTGGA
*
30813206 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTT
1 TAAAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTT
* * *
30813246 TAAAAAACGCCACTAAAGATCAAGTATTAGCGGTGCTTTT
1 TAAAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTT
* *
30813286 T-AAAAACG-TAGCTAAAAAT-GAGCATTAGCG
1 TAAAAAACGCCA-CTAAAAATCAAGCATTAGCG
30813316 ACGTTTTCCA
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
38 10 0.16
39 14 0.23
40 37 0.61
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (40 bp):
TAAAAAACGCCACTAAAAATCAAGCATTAGCGGCGCTTTT
Found at i:30813442 original size:41 final size:41
Alignment explanation
Indices: 30813382--30813664 Score: 377
Period size: 41 Copynumber: 6.9 Consensus size: 41
30813372 TTTTGAGGCA
* * *** * *
30813382 TTAGCGGCGATTTTGAAAAAGCATTGCTAATGTTCAGGGTT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGCT
30813423 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGCT
* * *
30813464 TTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCAGGGAT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGCT
* *
30813505 TTAGCGGCGTTTTTTAATAAGCGCCGCTAATGCTTAGGGCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGCT
* * * *
30813546 TTAGCGGCATTTTTCAATAAGCGCCGCTAATGCTCAAGGCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGCT
* * *
30813587 TTAGCGGCATTTTTCAAAAAGCGCTGCTAATGCTCAGGGCT
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGCT
* *
30813628 TTAGCGGCGTTTTTTGAAAAGCGCTGCTAATGCTCAG
1 TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAG
30813665 ATTTATCATA
Statistics
Matches: 218, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 218 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (41 bp):
TTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAGGGCT
Found at i:30816061 original size:30 final size:30
Alignment explanation
Indices: 30816025--30816084 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
30816015 AAATTCGATG
30816025 ATGAGATCCACAATGACAATTGGGGATATT
1 ATGAGATCCACAATGACAATTGGGGATATT
*
30816055 ATGAGATCCGCAATGACAATTGGGGATATT
1 ATGAGATCCACAATGACAATTGGGGATATT
30816085 GAGACATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (30 bp):
ATGAGATCCACAATGACAATTGGGGATATT
Found at i:30816567 original size:31 final size:31
Alignment explanation
Indices: 30816526--30816586 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
30816516 AGCTGTCAGA
30816526 TATGACTGACAATGGTTAAATAAATACTAAG
1 TATGACTGACAATGGTTAAATAAATACTAAG
*
30816557 TATGATTGACAATGGTTAAATAAATACTAA
1 TATGACTGACAATGGTTAAATAAATACTAA
30816587 AAAGAAGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (31 bp):
TATGACTGACAATGGTTAAATAAATACTAAG
Found at i:30819207 original size:86 final size:85
Alignment explanation
Indices: 30819063--30819233 Score: 306
Period size: 86 Copynumber: 2.0 Consensus size: 85
30819053 CTTCTCTGAT
* *
30819063 TCATTGTACTTCATTGAACTGTTTATACAAAACTTAAATATGTGTTACTTTGGTCAGTATTCAGC
1 TCATTGTACTTCATTGAACTATTTATAAAAAACTTAAATATGTGTTACTTTGGTCAGTATTCAGC
*
30819128 TTGGCTATTGAAGAAGGCTG
66 TCGGCTATTGAAGAAGGCTG
30819148 TCATTGTACTTCATTGAACTATTTATAAAAAAACTTAAATATGTGTTACTTTGGTCAGTATTCAG
1 TCATTGTACTTCATTGAACTATTTAT-AAAAAACTTAAATATGTGTTACTTTGGTCAGTATTCAG
30819213 CTCGGCTATTGAAGAAGGCTG
65 CTCGGCTATTGAAGAAGGCTG
30819234 ATCAGTGCAG
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
85 25 0.30
86 57 0.70
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (85 bp):
TCATTGTACTTCATTGAACTATTTATAAAAAACTTAAATATGTGTTACTTTGGTCAGTATTCAGC
TCGGCTATTGAAGAAGGCTG
Found at i:30820031 original size:52 final size:52
Alignment explanation
Indices: 30819968--30820071 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
30819958 TTATTTTAAA
30819968 TTCTGAAACTAAATTCATTAATTTTTATATTTAATTTTAAAGTTAAAATTTT
1 TTCTGAAACTAAATTCATTAATTTTTATATTTAATTTTAAAGTTAAAATTTT
30820020 TTCTGAAACTAAATTCATTAATTTTTATATTTAATTTTAAAGTTAAAATTTT
1 TTCTGAAACTAAATTCATTAATTTTTATATTTAATTTTAAAGTTAAAATTTT
30820072 CATAGAAAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.52
Consensus pattern (52 bp):
TTCTGAAACTAAATTCATTAATTTTTATATTTAATTTTAAAGTTAAAATTTT
Found at i:30820308 original size:43 final size:43
Alignment explanation
Indices: 30820199--30820524 Score: 309
Period size: 43 Copynumber: 7.6 Consensus size: 43
30820189 ATATATTTTT
* * * *
30820199 TAAAGGTTATGTT-TTTAGCGGCGTTT-TTGCAAGAAGCGCCGG
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAA-AAGCGCCGC
* * * **
30820241 AAAAGGTTA-ATTCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
30820283 TAAAGGTCATGTTCTTTAGAGGCGTTTGTGGGGAAATCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
30820326 TAAAGGTCATAG-TCTTTAGCGGCGTTTGTGGGAGAAGTGCCGC
1 TAAAGGTCAT-GTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * * * **
30820369 TAAAGGTCTTGGTCTTTAGTGCCATTTGTGGGAGAAGCGCTAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * *
30820412 TAAAGGTCTTGGTCTTTAGCGGCGTTTATGGGAAAAGTGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * *
30820455 TAAAGGTCATGGTCTTTAGCGGCGTTTTTTGGAATAGCGCCGT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
30820498 TAAATGTCTTGTTCTTTAGCGGCGTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTT
30820525 ATTTCTAAAA
Statistics
Matches: 236, Mismatches: 43, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
41 2 0.01
42 37 0.16
43 196 0.83
44 1 0.00
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:30822398 original size:24 final size:22
Alignment explanation
Indices: 30822371--30822416 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30822361 TTATTTTTCT
30822371 TTGAAGTAATAGTGTCTCGAGACA
1 TTGAAGT-ATA-TGTCTCGAGACA
* *
30822395 TTGAGGTTTATGTCTCGAGACA
1 TTGAAGTATATGTCTCGAGACA
30822417 AGGCCTTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 12 0.60
23 2 0.10
24 6 0.30
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (22 bp):
TTGAAGTATATGTCTCGAGACA
Found at i:30826055 original size:45 final size:45
Alignment explanation
Indices: 30826006--30826657 Score: 469
Period size: 44 Copynumber: 14.9 Consensus size: 45
30825996 AGATCTATTT
* * * *
30826006 TCTTCGATCTACTTCACCACTAGTATGGGAAGATAAGATTTGCTA
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * * * * * *
30826051 TCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATTTGTTT
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * * *
30826096 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * * * * *
30826139 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATTTGTTT
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * * *
30826184 TCTTCGATCTACTTCA-CGCCAATACATGAAGACAAGATCTGCTA
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
** * * * * * *
30826228 TCTTTAATCCACTTCGCTACCAATATAGAAAGACAAGATTTGATT
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * * * *
30826273 TCTTCGATCTATTTCA-CGCCAATACATGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * * * *
30826316 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTA
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * * * *
30826361 TCTTCGATCTATTTCA-CGCCAATACATGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * * * *
30826404 TCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTA
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * * * * *
30826449 TCTTCGATCTATTTCA-CGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * *
30826493 TCTTTGATCTACTTCGCCACCAATATGGGAAGAC-A-A---G--A
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* * *
30826531 TCTTCGATCCAC-TC-CCTACCAATATAGGAAGACAGGATATGCTA
1 TCTTCGATCTACTTCACC-ACCAATATAGGAAGACAAGATTTGCTA
** * * * * *
30826575 TCTTCGATCTACTTCA-CGTCAATACATGAAGACAGGATCTGCTT
1 TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
* ** *
30826619 TCTTTGAT-TAACTTTGCCACCAATATGGGAAGACAAGAT
1 TCTTCGATCT-ACTTCACCACCAATATAGGAAGACAAGAT
30826658 CTTCAATCCA
Statistics
Matches: 459, Mismatches: 128, Indels: 40
0.73 0.20 0.06
Matches are distributed among these distances:
36 2 0.00
37 17 0.04
38 10 0.02
39 1 0.00
40 1 0.00
42 1 0.00
43 43 0.09
44 232 0.51
45 152 0.33
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAATATAGGAAGACAAGATTTGCTA
Found at i:30826165 original size:88 final size:89
Alignment explanation
Indices: 30825922--30826533 Score: 779
Period size: 88 Copynumber: 6.9 Consensus size: 89
30825912 TGCTATTTTT
* * * ** * * * *
30825922 GATCTACTTCACTGCCAGTACAGGTAGGTAAGATCTGTTATCCTT-GATCTACTTC-ATGCCAAT
1 GATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTAT-CTTCGATCCACTTCGCTACCAAT
* * * *
30825985 ACATGAAGACAAGATCTATTTTCTTC
64 ATAGGAAGACAGGATCTGTTTTCTTC
* * * * *
30826011 GATCTACTTCA--CCACTAGTATGGGAAGATAAGATTTGCTATCTTCAATCCACTTCGCTACCAA
1 GATCTACTTCACGCCAATA-CAT--GAAGACAAGATCTGCTATCTTCGATCCACTTCGCTACCAA
*
30826074 TATAGGAAGACAGGATTTGTTTTCTTC
63 TATAGGAAGACAGGATCTGTTTTCTTC
30826101 GATCTACTTCACGCCAATACATGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCTACCAATAT
*
30826165 AGGAAGACAGGATTTGTTTTCTTC
66 AGGAAGACAGGATCTGTTTTCTTC
**
30826189 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTAATCCACTTCGCTACCAATAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCTACCAATAT
* * * *
30826254 AGAAAGACAAGATTTGATTTCTTC
66 AGGAAGACAGGATCTGTTTTCTTC
*
30826278 GATCTATTTCACGCCAATACATGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCTACCAATAT
* *
30826342 AGGAAGACAGGATCTGCTATCTTC
66 AGGAAGACAGGATCTGTTTTCTTC
*
30826366 GATCTATTTCACGCCAATACATGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCTACCAATAT
* *
30826430 AGGAAGACAGGATCTGCTATCTTC
66 AGGAAGACAGGATCTGTTTTCTTC
* * * * *
30826454 GATCTATTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCTACCAATAT
* *
30826519 GGGAAGACAAGATCT
66 AGGAAGACAGGATCT
30826534 TCGATCCACT
Statistics
Matches: 474, Mismatches: 40, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
86 5 0.01
87 1 0.00
88 259 0.55
89 164 0.35
90 38 0.08
91 2 0.00
92 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (89 bp):
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCCACTTCGCTACCAATAT
AGGAAGACAGGATCTGTTTTCTTC
Found at i:30826277 original size:177 final size:177
Alignment explanation
Indices: 30825980--30826533 Score: 808
Period size: 177 Copynumber: 3.1 Consensus size: 177
30825970 CTACTTCATG
* * * * * * *
30825980 CCAATACATGAAGACAAGATCTATTTTCTTCGATCTACTTCA--CCACTAGTATGGGAAGATAAG
1 CCAATATAGGAAGACAGGATCTGTTTTCTTCGATCTACTTCACGCCAATA-CAT--GAAGACAAG
* * *
30826043 ATTTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATTTGTTTTCTTCGATCTAC
63 ATCTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATTTGATTTCTTCGATCTAT
30826108 TTCACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTA
128 TTCACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTA
*
30826158 CCAATATAGGAAGACAGGATTTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
1 CCAATATAGGAAGACAGGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
* * *
30826223 TGCTATCTTTAATCCACTTCGCTACCAATATAGAAAGACAAGATTTGATTTCTTCGATCTATTTC
66 TGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATTTGATTTCTTCGATCTATTTC
30826288 ACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTA
131 ACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTA
* * *
30826335 CCAATATAGGAAGACAGGATCTGCTATCTTCGATCTATTTCACGCCAATACATGAAGACAAGATC
1 CCAATATAGGAAGACAGGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
* * * *
30826400 TGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTATTTC
66 TGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATTTGATTTCTTCGATCTATTTC
* * * *
30826464 ACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCA
131 ACGCCAATACATGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTA
* *
30826512 CCAATATGGGAAGACAAGATCT
1 CCAATATAGGAAGACAGGATCT
30826534 TCGATCCACT
Statistics
Matches: 342, Mismatches: 31, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
176 81 0.24
177 217 0.63
178 37 0.11
179 2 0.01
180 5 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (177 bp):
CCAATATAGGAAGACAGGATCTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
TGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATTTGATTTCTTCGATCTATTTC
ACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTA
Found at i:30826397 original size:265 final size:266
Alignment explanation
Indices: 30826034--30826531 Score: 836
Period size: 265 Copynumber: 1.9 Consensus size: 266
30826024 ACTAGTATGG
* * * * *
30826034 GAAGATAAGATTTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATTTGTTTTCT
1 GAAGACAAGATCTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCT
30826099 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATA
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATA
* * *
30826164 TAGGAAGACAGGATTTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT
131 TAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT
*
30826229 CTTTAATCCACTTCGCTACCAATATAGAAAGACAAGATTTGATTTCTTCGATCTATTTCACGCCA
196 CTTTAATCCACTTCGCCACCAATATAGAAAGACAAGATTTGATTTCTTCGATCTATTTCACGCCA
30826294 ATACAT
261 ATACAT
*
30826300 GAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCT
1 GAAGACAAGATCTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCT
*
30826364 TCGATCTATTTCACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATA
66 TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATA
* *
30826429 TAGGAAGACAGGATCTGCTATCTTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGCTTT
131 TAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT
* * * *
30826494 CTTTGATCTACTTCGCCACCAATATGGGAAGACAAGAT
196 CTTTAATCCACTTCGCCACCAATATAGAAAGACAAGAT
30826532 CTTCGATCCA
Statistics
Matches: 215, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
265 202 0.94
266 13 0.06
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (266 bp):
GAAGACAAGATCTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCT
TCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATA
TAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTAT
CTTTAATCCACTTCGCCACCAATATAGAAAGACAAGATTTGATTTCTTCGATCTATTTCACGCCA
ATACAT
Found at i:30826578 original size:126 final size:129
Alignment explanation
Indices: 30825908--30826701 Score: 606
Period size: 133 Copynumber: 6.1 Consensus size: 129
30825898 GACTGGATAT
* * * * * ** * *
30825908 GATCTGCTATTTTTGATCTACTTCACTGCCAGTACAGGTAGGTAAGATCTGTTATCCTTGATCTA
1 GATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCTTTGATCTA
*** * * * * * * *
30825973 CTTC-ATGCCAATACATGAAGACAAGATCTATTTTCTTCGATCTACTTCACC-ACTAGTATGGGA
65 CTTCGCCACCAATATAGGAAGACAAGAT-GA---TCTTCGATCCAC-TC-CCTACCAATATAGGA
* *
30826036 AGATAA
124 AGACAG
* * * * * * * * * * * *
30826042 GATTTGCTATCTTCAATCCACTTCGCTACCAATATAGGAAGACAGGATTTGTTTTCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCTTTGATCTA
* * * * *
30826107 CTTC-ACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAG
65 CTTCGCCACCAATATAGGAAGACAAGA--TG-ATCTTCGATCCAC-TCCCTACCAATATAGGAAG
30826171 ACAG
126 ACAG
* * * * *
30826175 GATTTGTTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTAATCCAC
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTAC
* * * * * * * *
30826240 TTCGCTACCAATATAGAAAGACAAGATTTGATTTCTTCGATCTATTTCAC-GCCAATACATGAAG
66 TTCGCCACCAATATAGGAAGACAAGA--TGA--TCTTCGATCCA-CTCCCTACCAATATAGGAAG
*
30826304 ACAA
126 ACAG
* * * * * * *
30826308 GATCTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTA
1 GATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCTTTGATCTA
* * * * * *
30826372 TTTC-ACGCCAATACATGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAATATAGGAAG
65 CTTCGCCACCAATATAGGAAGACAAGA--TG-ATCTTCGATCCAC-TCCCTACCAATATAGGAAG
30826436 ACAG
126 ACAG
* *
30826440 GATCTGCTATCTTCGATCTATTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTAC
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTAC
*
30826505 TTCGCCACCAATATGGGAAGAC-A-A-GATCTTCGATCCACTCCCTACCAATATAGGAAGACAG
66 TTCGCCACCAATATAGGAAGACAAGATGATCTTCGATCCACTCCCTACCAATATAGGAAGACAG
* * * *
30826566 GATATGCTATCTTCGATCTACTTCACGTCAATACATGAAGACAGGATCTGCTTTCTTTGAT-TAA
1 GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCT-A
* * * *
30826630 CTTTGCCACCAATATGGGAAGAC-A-A-GATCTTCAATCCACTTCCTACCAATATAGGAAGACAG
65 CTTCGCCACCAATATAGGAAGACAAGATGATCTTCGATCCACTCCCTACCAATATAGGAAGACAG
30826692 GATCTGCTAT
1 GATCTGCTAT
30826702 TTTCAACCTA
Statistics
Matches: 539, Mismatches: 106, Indels: 38
0.79 0.16 0.06
Matches are distributed among these distances:
125 1 0.00
126 148 0.27
127 13 0.02
128 1 0.00
131 14 0.03
132 125 0.23
133 149 0.28
134 86 0.16
136 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (129 bp):
GATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTTGATCTAC
TTCGCCACCAATATAGGAAGACAAGATGATCTTCGATCCACTCCCTACCAATATAGGAAGACAG
Found at i:30826713 original size:126 final size:126
Alignment explanation
Indices: 30826138--30826701 Score: 614
Period size: 126 Copynumber: 4.4 Consensus size: 126
30826128 CAAGATCTGC
* * *
30826138 ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATTTGTTTTCTTCGATCTACTTCACGC
1 ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGC
* * * * * *
30826203 CAATACATGAAGACAAGATCTGCTATCTTTAATCCACTTCGCTACCAATATAGAAAGACAAGATT
65 CAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGAC-A-A--
30826268 TG
126 -G
* * * * * * * *
30826270 ATTTCTTCGATCTATTTCAC-GCCAATACATGAAGACAAGATCTGC-ATCTTCGATCCACTTCGC
1 A--TCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC
* * * * * * * * * ***
30826333 TACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTATTTC-ACGCCAATACATGAAGACAAG
63 -GCCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGAC-A-
30826397 ATCTG
125 A---G
*
30826402 CATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTATTTCACG
1 -ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACG
30826467 CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGACAAG
64 CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGACAAG
* * *
30826530 ATCTTCGATCCACTCCCTACCAATATAGGAAGACAGGATATGCTATCTTCGATCTACTTCACGTC
1 ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCC
* *
30826595 AATACATGAAGACAGGATCTGCTTTCTTTGAT-TAACTTTGCCACCAATATGGGAAGACAAG
66 AATACATGAAGACAAGATCTGCTTTCTTTGATCT-ACTTCGCCACCAATATGGGAAGACAAG
*
30826656 ATCTTCAATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTAT
1 ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTAT
30826702 TTTCAACCTA
Statistics
Matches: 366, Mismatches: 58, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
125 1 0.00
126 146 0.40
127 15 0.04
128 1 0.00
131 15 0.04
132 92 0.25
133 82 0.22
134 14 0.04
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (126 bp):
ATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCC
AATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAATATGGGAAGACAAG
Found at i:30827633 original size:25 final size:26
Alignment explanation
Indices: 30827605--30827653 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
30827595 GTGTCTTGAA
30827605 AAGAA-AAAGATATT-CAAGAACAATG
1 AAGAATAAAG-TATTACAAGAACAATG
30827630 AAGAATAAAGTATTACAAGAACAA
1 AAGAATAAAGTATTACAAGAACAA
30827654 ACAAATTCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.16
Consensus pattern (26 bp):
AAGAATAAAGTATTACAAGAACAATG
Found at i:30836263 original size:39 final size:40
Alignment explanation
Indices: 30836168--30836390 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
30836158 TTGAATGATG
*
30836168 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
30836206 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
30836247 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
30836286 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
30836325 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
30836364 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
30836391 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:30836354 original size:79 final size:81
Alignment explanation
Indices: 30836168--30836390 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
30836158 TTGAATGATG
* * *
30836168 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
30836230 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
30836247 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
30836308 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
30836325 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
30836389 TG
66 TG
30836391 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:30836412 original size:79 final size:79
Alignment explanation
Indices: 30836168--30836423 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
30836158 TTGAATGATG
* * * *
30836168 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
30836229 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
30836247 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
30836311 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
30836325 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
30836388 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
30836405 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
30836424 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:30844238 original size:40 final size:40
Alignment explanation
Indices: 30844155--30844340 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
30844145 TTGAATGATG
* * * *
30844155 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
30844195 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
30844235 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
30844275 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
30844316 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
30844341 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
40 121 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:30844347 original size:80 final size:79
Alignment explanation
Indices: 30844208--30844373 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
30844198 GGACTAAGAT
* **
30844208 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAG-TAGCT
*
30844272 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
* *
30844288 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCT
* *
30844352 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
30844367 CCGAAGG
1 CCGAAGG
30844374 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 58 0.76
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGGCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:30851651 original size:15 final size:15
Alignment explanation
Indices: 30851633--30851661 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
30851623 AATATCGTGA
30851633 TAACAAATACAATAG
1 TAACAAATACAATAG
30851648 TAACAAATACAATA
1 TAACAAATACAATA
30851662 ATGACATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.14, G:0.03, T:0.21
Consensus pattern (15 bp):
TAACAAATACAATAG
Found at i:30851698 original size:18 final size:17
Alignment explanation
Indices: 30851671--30851714 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
30851661 AATGACATAG
30851671 AAATAATATA-AACAAAT
1 AAATAATATATAA-AAAT
30851688 AAATAAATATATAAAAAT
1 AAAT-AATATATAAAAAT
30851706 AAATCAATA
1 AAAT-AATA
30851715 ACATGCAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 18 0.75
19 2 0.08
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAATATATAAAAAT
Found at i:30852231 original size:29 final size:27
Alignment explanation
Indices: 30852184--30852259 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 27
30852174 TAGTTGCAAA
*
30852184 ATATATATATAAGA-AAAAAATGAATATAC
1 ATATATATATAA-ATTAAAAAT-AAT-TAC
30852213 ATATATATATAAATTAAAAATAATTAC
1 ATATATATATAAATTAAAAATAATTAC
*
30852240 AT-TATTTA-AAATTAACAAAT
1 ATATATATATAAATTAA-AAAT
30852260 TTTAAGAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 7 0.16
26 9 0.21
27 5 0.12
28 4 0.09
29 18 0.42
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (27 bp):
ATATATATATAAATTAAAAATAATTAC
Found at i:30852234 original size:25 final size:26
Alignment explanation
Indices: 30852201--30852259 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
30852191 TATAAGAAAA
30852201 AAATGAATATACATATATATATAAATTAA-
1 AAAT-AAT-TACAT-TATATA-AAATTAAC
*
30852230 AAATAATTACATTATTTAAAATTAAC
1 AAATAATTACATTATATAAAATTAAC
30852256 AAAT
1 AAAT
30852260 TTTAAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
25 7 0.25
26 9 0.32
27 5 0.18
28 3 0.11
29 4 0.14
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (26 bp):
AAATAATTACATTATATAAAATTAAC
Found at i:30855808 original size:24 final size:24
Alignment explanation
Indices: 30855757--30855815 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
30855747 GATTTGTGTC
* ** *
30855757 TGCATTTGTATCTAAGCCTGTGTC
1 TGCATTTGTATCTAAACCTGAATA
*
30855781 TGCATTTGTATCTAAATCTGAATA
1 TGCATTTGTATCTAAACCTGAATA
*
30855805 TGCATCTGTAT
1 TGCATTTGTAT
30855816 TTGATTCCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (24 bp):
TGCATTTGTATCTAAACCTGAATA
Found at i:30855960 original size:11 final size:13
Alignment explanation
Indices: 30855944--30855976 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
30855934 ATTGCACAGA
30855944 AAAATTTCG-T-G
1 AAAATTTCGTTCG
30855955 AAAATTTCGTTCG
1 AAAATTTCGTTCG
30855968 AAAATTTCG
1 AAAATTTCG
30855977 ACGTTTGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 1 0.05
13 10 0.50
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (13 bp):
AAAATTTCGTTCG
Found at i:30857242 original size:51 final size:51
Alignment explanation
Indices: 30857182--30857425 Score: 264
Period size: 51 Copynumber: 4.8 Consensus size: 51
30857172 GATGAACACG
* *
30857182 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACA
* * * * * * * *
30857233 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATGATGGTCACA
* *
30857284 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACA
* * * * *
30857335 TGTGTAGTACTAAGTGAAGGCTACTATGT-ATACCGA-AAA-GCTTTGGCCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGA-ACCGATAAATG--ATGGTCACA
30857386 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAAT
30857426 TCTGAATTTG
Statistics
Matches: 156, Mismatches: 29, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
49 1 0.01
50 5 0.03
51 148 0.95
52 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATGATGGTCACA
Found at i:30857354 original size:102 final size:102
Alignment explanation
Indices: 30857178--30857425 Score: 435
Period size: 102 Copynumber: 2.4 Consensus size: 102
30857168 TATCGATGAA
30857178 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * *
30857243 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACAATGTATACCGAAAAGCTTTGGC
30857280 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
30857345 TAAGTGAAGGCTACTATGTATACCGAAAAGCTTTGGC
66 TAAGTGAAGGCTACAATGTATACCGAAAAGCTTTGGC
* *
30857382 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAT
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAAT
30857426 TCTGAATTTG
Statistics
Matches: 140, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 5 0.04
102 135 0.96
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACAATGTATACCGAAAAGCTTTGGC
Found at i:30864093 original size:19 final size:19
Alignment explanation
Indices: 30864046--30864093 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
30864036 TAATTAATTA
30864046 AATAA-ATATTAGTTTATT
1 AATAATATATTAGTTTATT
* * *
30864064 AATATTTTATTATTTTATT
1 AATAATATATTAGTTTATT
*
30864083 ATTAATATATT
1 AATAATATATT
30864094 TAGTATAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATAATATATTAGTTTATT
Found at i:30864388 original size:11 final size:11
Alignment explanation
Indices: 30864372--30864400 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
30864362 TGAAATCAAT
30864372 AGAACAAGGTA
1 AGAACAAGGTA
30864383 AGAACAAGGTA
1 AGAACAAGGTA
30864394 AGAACAA
1 AGAACAA
30864401 ATAGATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.10, G:0.24, T:0.07
Consensus pattern (11 bp):
AGAACAAGGTA
Found at i:30870451 original size:246 final size:246
Alignment explanation
Indices: 30870017--30870509 Score: 986
Period size: 246 Copynumber: 2.0 Consensus size: 246
30870007 TGGTAGAAAT
30870017 ACATTTGAGTATAGTTTCGGAAACATCAAGTGGATCTTAATTTGGAATTCTGTAGCTCAAGATAT
1 ACATTTGAGTATAGTTTCGGAAACATCAAGTGGATCTTAATTTGGAATTCTGTAGCTCAAGATAT
30870082 AAATAATTTAGTGACAATGACTCAAGGAGACAACTTTGAATCAACATGTAAGTAAATAGTGAAAA
66 AAATAATTTAGTGACAATGACTCAAGGAGACAACTTTGAATCAACATGTAAGTAAATAGTGAAAA
30870147 CATATATGAATATTTAGCTAGCATGGGTTACATTAAAAATGGATCACACGGCCAAGGCCAATTTG
131 CATATATGAATATTTAGCTAGCATGGGTTACATTAAAAATGGATCACACGGCCAAGGCCAATTTG
30870212 GGCCGAGTGGGTCACATGGGCACACACGGGCGTGTGGGCCCATTTTTACCG
196 GGCCGAGTGGGTCACATGGGCACACACGGGCGTGTGGGCCCATTTTTACCG
30870263 ACATTTGAGTATAGTTTCGGAAACATCAAGTGGATCTTAATTTGGAATTCTGTAGCTCAAGATAT
1 ACATTTGAGTATAGTTTCGGAAACATCAAGTGGATCTTAATTTGGAATTCTGTAGCTCAAGATAT
30870328 AAATAATTTAGTGACAATGACTCAAGGAGACAACTTTGAATCAACATGTAAGTAAATAGTGAAAA
66 AAATAATTTAGTGACAATGACTCAAGGAGACAACTTTGAATCAACATGTAAGTAAATAGTGAAAA
30870393 CATATATGAATATTTAGCTAGCATGGGTTACATTAAAAATGGATCACACGGCCAAGGCCAATTTG
131 CATATATGAATATTTAGCTAGCATGGGTTACATTAAAAATGGATCACACGGCCAAGGCCAATTTG
30870458 GGCCGAGTGGGTCACATGGGCACACACGGGCGTGTGGGCCCATTTTTACCG
196 GGCCGAGTGGGTCACATGGGCACACACGGGCGTGTGGGCCCATTTTTACCG
30870509 A
1 A
30870510 AATGTTTCTA
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
246 247 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (246 bp):
ACATTTGAGTATAGTTTCGGAAACATCAAGTGGATCTTAATTTGGAATTCTGTAGCTCAAGATAT
AAATAATTTAGTGACAATGACTCAAGGAGACAACTTTGAATCAACATGTAAGTAAATAGTGAAAA
CATATATGAATATTTAGCTAGCATGGGTTACATTAAAAATGGATCACACGGCCAAGGCCAATTTG
GGCCGAGTGGGTCACATGGGCACACACGGGCGTGTGGGCCCATTTTTACCG
Found at i:30882663 original size:45 final size:44
Alignment explanation
Indices: 30882591--30882719 Score: 123
Period size: 44 Copynumber: 2.9 Consensus size: 44
30882581 GCTATACGCC
* * * * *
30882591 TAAACTGAGTAAGACAATAGTTGAAAGACGCTATGGTATCAAGA
1 TAAAATGAGTAAGACCATAGCTAAAAGACGCTATGGCATCAAGA
* * * * *
30882635 TAAAGATGAGTAAGACCATGGCTAAAAGATGCTATGGCATTATGG
1 TAAA-ATGAGTAAGACCATAGCTAAAAGACGCTATGGCATCAAGA
* * * *
30882680 TAAAAAGACTAAGACCATAGCTAAAAGATGTTATGGCATC
1 TAAAATGAGTAAGACCATAGCTAAAAGACGCTATGGCATC
30882720 CTTTGACAGT
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
44 35 0.51
45 34 0.49
ACGTcount: A:0.42, C:0.12, G:0.22, T:0.23
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTAAAAGACGCTATGGCATCAAGA
Found at i:30887509 original size:45 final size:44
Alignment explanation
Indices: 30887416--30887523 Score: 121
Period size: 45 Copynumber: 2.4 Consensus size: 44
30887406 CTAAACTGAG
* * * *
30887416 TAAGACCATGCTGAAAGATGCTATGGCATTAGGATAAAGATGAG
1 TAAGACCATGCTGAAAGACGCTATGACATTAGGATAAAGAGGAC
*
30887460 TAAGACCATGGCTGAAAGACGCTATGACATCATA-G-TAAATAGGAC
1 TAAGACCAT-GCTGAAAGACGCTATGACAT--TAGGATAAAGAGGAC
30887505 TAAGACCATAGCTGAAAGA
1 TAAGACCAT-GCTGAAAGA
30887524 TGGTATGCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
44 9 0.16
45 43 0.78
46 1 0.02
47 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (44 bp):
TAAGACCATGCTGAAAGACGCTATGACATTAGGATAAAGAGGAC
Found at i:30892917 original size:19 final size:19
Alignment explanation
Indices: 30892893--30892967 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
30892883 AATTTTCGAG
30892893 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
30892912 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
30892931 GATATATGCAATCTTAAATAT
1 G--ATATGCAATCTTAGATAT
*
30892952 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
30892968 AGATATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
19 33 0.65
21 18 0.35
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:30892939 original size:21 final size:21
Alignment explanation
Indices: 30892894--30892956 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
30892884 ATTTTCGAGG
30892894 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
30892913 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
30892934 ATATGCAATCTTAAATATGAT
1 ATATGCAATCTTAGATATGAT
30892955 AT
1 AT
30892957 GTAATCTTAG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 19 0.46
21 22 0.54
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:30892985 original size:23 final size:22
Alignment explanation
Indices: 30892906--30892990 Score: 81
Period size: 21 Copynumber: 4.0 Consensus size: 22
30892896 ATGCAATCTT
*
30892906 AGATATGATATGCAATCTTAG-
1 AGATATGATATGTAATCTTAGA
* *
30892927 ATATGAT-ATATGCAATCTT--A
1 AGAT-ATGATATGTAATCTTAGA
30892947 A-ATATGATATGTAATCTTAGA
1 AGATATGATATGTAATCTTAGA
*
30892968 AGATATGATTTTGTAATCTTAGA
1 AGATATGA-TATGTAATCTTAGA
30892991 GATTTAATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
18 2 0.04
19 13 0.24
20 1 0.02
21 17 0.31
22 8 0.15
23 13 0.24
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (22 bp):
AGATATGATATGTAATCTTAGA
Found at i:30893000 original size:22 final size:23
Alignment explanation
Indices: 30892956--30893000 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30892946 AAATATGATA
*
30892956 TGTAATCTTAGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
30892979 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
30893001 GTAGATACCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:30899153 original size:21 final size:21
Alignment explanation
Indices: 30899127--30899169 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
30899117 GGTTCGCTGT
*
30899127 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
30899148 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
30899169 A
1 A
30899170 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:30899169 original size:16 final size:16
Alignment explanation
Indices: 30899150--30899182 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
30899140 TGTATTGGAT
*
30899150 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
30899166 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
30899182 T
1 T
30899183 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:30899227 original size:45 final size:44
Alignment explanation
Indices: 30899161--30899255 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
30899151 GGATTAGAGG
* *
30899161 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
30899206 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
30899250 TGTAAT
1 TGTAAT
30899256 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:30899438 original size:18 final size:17
Alignment explanation
Indices: 30899417--30899451 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30899407 TTATTATTTA
*
30899417 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30899435 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30899452 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30899445 original size:28 final size:27
Alignment explanation
Indices: 30899375--30899447 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
30899365 TTTATTATCA
*
30899375 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
30899403 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
30899430 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
30899448 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:30899564 original size:144 final size:147
Alignment explanation
Indices: 30899336--30899607 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
30899326 ATGATTATTG
30899336 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
30899401 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
30899466 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
30899485 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
30899547 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
30899608 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:30899582 original size:18 final size:17
Alignment explanation
Indices: 30899561--30899595 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
30899551 TTATTATTAA
*
30899561 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
30899579 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
30899596 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:30904151 original size:3 final size:3
Alignment explanation
Indices: 30904143--30904196 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
30904133 AGATGAATTG
30904143 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
30904191 CTT CTT
1 CTT CTT
30904197 TTTTTTTTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:30905928 original size:108 final size:105
Alignment explanation
Indices: 30905743--30905955 Score: 374
Period size: 108 Copynumber: 2.0 Consensus size: 105
30905733 CCGCGAATTG
*
30905743 CCAAATATTGAGTCTCGTCTTCATGATAAAATATAATAAGTATAATAAACTATATTTAAAATTAT
1 CCAAATATCGAGTCTCGTCTTCATGATAAAATATAATAAGTATAATAAACTATATTTAAAATTAT
30905808 TATAAAATATGTATATAAAAAGAAATAGTACA-AAAAAAA
66 TATAAAATATGTATATAAAAAGAAATAGTACAGAAAAAAA
30905847 CCAAATATCGAGTCTCGTCTTCATGATAAATAAAATATAATAAGTATAATAAACTATATTTAAAA
1 CCAAATATCGAGTCTCGTCTTCATG----ATAAAATATAATAAGTATAATAAACTATATTTAAAA
30905912 TTATTATAAAATATGTATATAAAAAGAAATAGTACAGAAAAAAA
62 TTATTATAAAATATGTATATAAAAAGAAATAGTACAGAAAAAAA
30905956 TGATTATTAG
Statistics
Matches: 103, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
104 24 0.23
108 72 0.70
109 7 0.07
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (105 bp):
CCAAATATCGAGTCTCGTCTTCATGATAAAATATAATAAGTATAATAAACTATATTTAAAATTAT
TATAAAATATGTATATAAAAAGAAATAGTACAGAAAAAAA
Found at i:30907085 original size:35 final size:35
Alignment explanation
Indices: 30906979--30907068 Score: 171
Period size: 35 Copynumber: 2.6 Consensus size: 35
30906969 AAATATATAT
*
30906979 ATCCCCCCCAAAATACAATCGATTCCTCTCTAGAA
1 ATCCCCCCTAAAATACAATCGATTCCTCTCTAGAA
30907014 ATCCCCCCTAAAATACAATCGATTCCTCTCTAGAA
1 ATCCCCCCTAAAATACAATCGATTCCTCTCTAGAA
30907049 ATCCCCCCTAAAATACAATC
1 ATCCCCCCTAAAATACAATC
30907069 CCTTCTCCCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.36, C:0.37, G:0.04, T:0.23
Consensus pattern (35 bp):
ATCCCCCCTAAAATACAATCGATTCCTCTCTAGAA
Found at i:30908018 original size:40 final size:43
Alignment explanation
Indices: 30907918--30908034 Score: 159
Period size: 40 Copynumber: 2.8 Consensus size: 43
30907908 CATCTTCGAC
* *
30907918 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTTTCTTTCGT
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTATCTGTC-T
* *
30907962 CTGCTCCACTATTGCTTAGGGAGATAAGA-CTTG-ATGTGT-T
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTATCTGTCT
*
30908002 CTGCTCCACTACTGCTTAGGGAGATAAGATCTG
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTG
30908035 TAATCTTCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
40 29 0.44
41 2 0.03
42 3 0.05
43 3 0.05
44 29 0.44
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (43 bp):
CTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTATCTGTCT
Found at i:30926087 original size:25 final size:26
Alignment explanation
Indices: 30926051--30926130 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 26
30926041 AAACTCAAGG
*
30926051 AATCTCT-TAAAAGCCTTTATGGCGA
1 AATCTCTAGAAAAGCCTTTATGGCGA
* **
30926076 AATCTC-AGAAAAGCCTTTCTATCGA
1 AATCTCTAGAAAAGCCTTTATGGCGA
* * *
30926101 AATCCCTAG-AAAGCATTTTTGGCGA
1 AATCTCTAGAAAAGCCTTTATGGCGA
30926126 AATCT
1 AATCT
30926131 TTGAAGACCA
Statistics
Matches: 43, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
25 41 0.95
26 2 0.05
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (26 bp):
AATCTCTAGAAAAGCCTTTATGGCGA
Found at i:30929764 original size:90 final size:90
Alignment explanation
Indices: 30929611--30929791 Score: 344
Period size: 90 Copynumber: 2.0 Consensus size: 90
30929601 GTTGTTCTAA
* *
30929611 AATGCACAACTTGAAGCATGTTGTACTTGGGGGTTAATTGTTATTCAAGGCTAGACAATATCATG
1 AATGCACAACTTGAAGCATGTTGTACTTCGGGGTTAATTGCTATTCAAGGCTAGACAATATCATG
30929676 GTATATTGTTGAGTTGGAATACATG
66 GTATATTGTTGAGTTGGAATACATG
30929701 AATGCACAACTTGAAGCATGTTGTACTTCGGGGTTAATTGCTATTCAAGGCTAGACAATATCATG
1 AATGCACAACTTGAAGCATGTTGTACTTCGGGGTTAATTGCTATTCAAGGCTAGACAATATCATG
30929766 GTATATTGTTGAGTTGGAATACATG
66 GTATATTGTTGAGTTGGAATACATG
30929791 A
1 A
30929792 CTTAATTAAG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (90 bp):
AATGCACAACTTGAAGCATGTTGTACTTCGGGGTTAATTGCTATTCAAGGCTAGACAATATCATG
GTATATTGTTGAGTTGGAATACATG
Found at i:30929896 original size:69 final size:68
Alignment explanation
Indices: 30929822--30930076 Score: 375
Period size: 69 Copynumber: 3.7 Consensus size: 68
30929812 TGTCACAGTT
*
30929822 GGACATTATCATGTCATTTTTGTTGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCAT
1 GGACATTATCATGTCA-TTTCGTTGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCAT
30929887 TTTA
65 TTTA
* * *
30929891 GGACATTATCATGTTATTTCAGTGGTATAAAATATATGTTTCAATTGAAGTTTAATGCTGTCCAT
1 GGACATTATCATGTCATTTC-GTTGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCAT
30929956 TTTA
65 TTTA
* * * * * *
30929960 AGATATCATCATGTCATTTCGATTGTATAAAATGTATGTTTCAATAGAAGTTTAATGTTATCCAT
1 GGACATTATCATGTCATTTCG-TTGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCAT
30930025 TTTA
65 TTTA
*
30930029 GGACATTATCATGTCATTTCGTTGGTATAAAATACATGTTTCAATTGA
1 GGACATTATCATGTCATTTCGTT-GTATAAAATATATGTTTCAATTGA
30930077 GGTTGCAATG
Statistics
Matches: 164, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
68 6 0.04
69 158 0.96
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (68 bp):
GGACATTATCATGTCATTTCGTTGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCATT
TTA
Found at i:30931298 original size:15 final size:16
Alignment explanation
Indices: 30931278--30931310 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
30931268 GATTTGTGAG
30931278 ATTTTCTT-ATCTCAC
1 ATTTTCTTGATCTCAC
30931293 ATTTTCTTGATCTCAC
1 ATTTTCTTGATCTCAC
30931309 AT
1 AT
30931311 CTATTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTTCTTGATCTCAC
Found at i:30934483 original size:79 final size:82
Alignment explanation
Indices: 30934372--30934556 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
30934362 GCTACTCGTT
* *
30934372 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
30934435 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
30934452 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
30934515 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
30934532 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30934557 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:30934556 original size:40 final size:40
Alignment explanation
Indices: 30934353--30934556 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
30934343 CGGAATTTAA
** *
30934353 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30934393 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
30934433 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30934472 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
30934512 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30934552 CCGGA
1 CCGGA
30934557 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30939514 original size:63 final size:64
Alignment explanation
Indices: 30939412--30939535 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 64
30939402 ATAAGAATGG
* *
30939412 TGAAAATGGAGAAATGAGAAATATTTGAAAATTATTATGGTTTTCTCCAAAATGAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAATATTTGAAAATGAATATGGTTTTCTCCAAAATGAAAATGAAAA
30939476 TGAAAATGGAGAAAT-AG-AATCATTTGAAAATGAATATGGTTTTCTCCAAAATGAAAATGA
1 TGAAAATGGAGAAATGAGAAAT-ATTTGAAAATGAATATGGTTTTCTCCAAAATGAAAATGA
30939536 CCTGGAAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
62 3 0.05
63 39 0.68
64 15 0.26
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.29
Consensus pattern (64 bp):
TGAAAATGGAGAAATGAGAAATATTTGAAAATGAATATGGTTTTCTCCAAAATGAAAATGAAAA
Found at i:30941549 original size:17 final size:18
Alignment explanation
Indices: 30941527--30941562 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30941517 AACCTAATTT
*
30941527 TTATATAA-ATTCTTTTA
1 TTATATAATATTATTTTA
30941544 TTATATAATATTATTTTA
1 TTATATAATATTATTTTA
30941562 T
1 T
30941563 GTATTCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTATATAATATTATTTTA
Found at i:30942172 original size:24 final size:25
Alignment explanation
Indices: 30942118--30942172 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
30942108 TTATATCGAT
30942118 TATTAATATGAATGTTTGTATAACA
1 TATTAATATGAATGTTTGTATAACA
*
30942143 TGATTAA-A-GAATGTTTGTATTAGCA
1 T-ATTAATATGAATGTTTGTA-TAACA
30942168 TATTA
1 TATTA
30942173 CTTGTTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 15 0.56
25 7 0.26
26 5 0.19
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (25 bp):
TATTAATATGAATGTTTGTATAACA
Found at i:30945075 original size:13 final size:12
Alignment explanation
Indices: 30945043--30945077 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
30945033 TTTCTTTTAC
*
30945043 TATATTTATTAT
1 TATATCTATTAT
30945055 TATATCTATTAT
1 TATATCTATTAT
30945067 TACTATCTATT
1 TA-TATCTATT
30945078 TATGTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATCTATTAT
Found at i:30948805 original size:19 final size:19
Alignment explanation
Indices: 30948781--30948827 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
30948771 CAATACCTCT
*
30948781 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTGCAT-CA
30948800 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
30948819 TATGCATTA
1 TTTGCATTA
30948828 AGTTTCACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:30956943 original size:45 final size:44
Alignment explanation
Indices: 30956833--30956956 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 44
30956823 GTCATCACGG
* * * * *
30956833 CGAATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTGGAGCCA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAACAA
* *
30956877 CTAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATATAA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA-ACAA
* * *
30956922 CGAATCTTATTTCCCTGAAGTTACAGTGGAACAGA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
30956957 TTAAAATCAT
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 36 0.53
45 32 0.47
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAACAA
Found at i:30957075 original size:92 final size:94
Alignment explanation
Indices: 30956880--30957187 Score: 316
Period size: 92 Copynumber: 3.4 Consensus size: 94
30956870 GGAGCCACTA
* * * * *
30956880 ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAATAT-AACGAATCTTATTTCCCTGAAGTT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-T-CATATCAACG-ATCTTATTTCCCTAAAGTC
*
30956944 ACAGTGGAACAGATTAAAATCATAAATTACAG
63 ACAGTGGAACAAATTAAAATCATAAATTACAG
* *
30956976 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAA-G-TCTTATTTTCCTAAAGTCATA
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAACGATCTTATTTCCCTAAAGTCACA
* *
30957039 GTGGAACAAATT-GAAGCTATAAATTACAG
66 GTGGAACAAATTAAAATC-ATAAATTACAG
* * * **
30957068 A-CATTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAA--ACCTTATCTCCCTGAAGTTGC
1 ATC-TTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAACGATCTTATTTCCCTAAAGTCAC
**
30957130 AGTGGAACAGGTTAAAA--ATAAA-T-CA-
65 AGTGGAACAAATTAAAATCATAAATTACAG
* *
30957155 ATCTTATCTCTCTGAAGTTACAGTGGAGCAGAT
1 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
30957188 TGAAGACTGG
Statistics
Matches: 184, Mismatches: 22, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
87 29 0.16
88 3 0.02
89 1 0.01
90 5 0.03
91 4 0.02
92 102 0.55
93 2 0.01
94 5 0.03
95 3 0.02
96 30 0.16
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (94 bp):
ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAACGATCTTATTTCCCTAAAGTCACA
GTGGAACAAATTAAAATCATAAATTACAG
Found at i:30957269 original size:44 final size:44
Alignment explanation
Indices: 30957071--30957278 Score: 138
Period size: 46 Copynumber: 4.6 Consensus size: 44
30957061 ATTACAGACA
* * * *
30957071 TTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATA-TCA-AACC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAAGCCACAACC
* * * *** *
30957112 TTATCTCCCTGAAGTTGCAGTGGAACAGGTTAAAAATAAATCAATC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AAAAGCCA-CAACC
* * * *
30957158 TTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGACTGGCTACAAATC
1 TTATCTCTCTGAAGTTGCAGTGGAGCAGATT-AA-A--AGCCAC-AACC
*
30957207 TTATCTC-CATAAAGTTGCAGTGGAGCAGATT-AAAGCCACGAACC
1 TTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAAGCCAC-AACC
* *
30957251 TTATCTCTTTGAAGTTGCAGTAGAGCAG
1 TTATCTCTCTGAAGTTGCAGTGGAGCAG
30957279 TGAAGAGGAT
Statistics
Matches: 129, Mismatches: 27, Indels: 19
0.74 0.15 0.11
Matches are distributed among these distances:
41 25 0.19
42 1 0.01
43 2 0.02
44 32 0.25
46 33 0.26
47 2 0.02
48 2 0.02
49 32 0.25
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
TTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAAGCCACAACC
Found at i:30959140 original size:19 final size:16
Alignment explanation
Indices: 30959116--30959158 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 16
30959106 ACAAAAAAAA
30959116 TTTAAAATAAATTTATAAT
1 TTTAAAATAAA-TTAT--T
30959135 TTTAAAATAAATTATT
1 TTTAAAATAAATTATT
30959151 TTTAAAAT
1 TTTAAAAT
30959159 CTTATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.38
18 4 0.17
19 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTAAAATAAATTATT
Found at i:30960319 original size:125 final size:125
Alignment explanation
Indices: 30960097--30960372 Score: 462
Period size: 125 Copynumber: 2.2 Consensus size: 125
30960087 ATTTATTAAG
**
30960097 GAAATCGCTCCCACGTGGACGCATTTTTGATACAGTAGGTCCTGAAAAAATAATTTCAAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGATACAGTAGGTCCTGAAAAAATAATTTCAAGTTGAC
* * *
30960162 GTTTCTGAGCCAATAGTATAAAACACGCTTCAAGCAGGATGCTTTATTAGAATAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATTAGAAGAATTTCT
* *
30960222 GAAATTGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGATACAGTAGGTCCTGAAAAAATAATTTCAAGTTGAC
*
30960287 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATTAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATTAGAAGAATTTCT
* *
30960347 GAAATCGCTCCCACGTGAACACGCTT
1 GAAATCGCTCCCACGTGGACGCGCTT
30960373 GCTCCTTTTA
Statistics
Matches: 140, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 140 1.00
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGATACAGTAGGTCCTGAAAAAATAATTTCAAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATTAGAAGAATTTCT
Found at i:30960787 original size:49 final size:49
Alignment explanation
Indices: 30960669--30960789 Score: 206
Period size: 49 Copynumber: 2.5 Consensus size: 49
30960659 TAAGAATATT
* * *
30960669 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAACATTCAAAATA
*
30960718 AACTATTTTGTATTTTATTACATCAAATAATATCAAAACATTTAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAACATTCAAAATA
30960767 AACTATTTTGTATTTTATTACAT
1 AACTATTTTGTATTTTATTACAT
30960790 TAATGTAAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAACATTCAAAATA
Found at i:30961236 original size:18 final size:18
Alignment explanation
Indices: 30961210--30961252 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
30961200 GACTAGGAAA
* * *
30961210 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
30961228 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
30961246 AGGATAC
1 AGGATAC
30961253 GCACTTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:30964151 original size:17 final size:17
Alignment explanation
Indices: 30964125--30964160 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
30964115 AAATCATTTT
*
30964125 AATTATAATTTTTAATA
1 AATTACAATTTTTAATA
*
30964142 AATTACAATTTTTTATA
1 AATTACAATTTTTAATA
30964159 AA
1 AA
30964161 CAAATTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTACAATTTTTAATA
Found at i:30964594 original size:51 final size:53
Alignment explanation
Indices: 30964542--30964641 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 53
30964532 ATAACAATAA
* *
30964542 TTTTTT-AAATAAGATATAAACAAATACTTA-TAAATGGATATTTAAAAGTAAT
1 TTTTTTAAAATAAGATATAAACAAACAC-TACTAAATAGATATTTAAAAGTAAT
* * *
30964594 TTTTTTAAAATAATATATAAGCAAACACTACTAAATATATATTTAAAA
1 TTTTTTAAAATAAGATATAAACAAACACTACTAAATAGATATTTAAAA
30964642 ACAAATTGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
52 8 0.20
53 33 0.80
ACGTcount: A:0.51, C:0.06, G:0.05, T:0.38
Consensus pattern (53 bp):
TTTTTTAAAATAAGATATAAACAAACACTACTAAATAGATATTTAAAAGTAAT
Found at i:30966426 original size:21 final size:21
Alignment explanation
Indices: 30966400--30966441 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
30966390 TTTACTCTTG
30966400 AAATTCATTTTTTAGTTTTAC
1 AAATTCATTTTTTAGTTTTAC
30966421 AAATTCATTTTTTAGTTTTAC
1 AAATTCATTTTTTAGTTTTAC
30966442 TTATACGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.05, T:0.57
Consensus pattern (21 bp):
AAATTCATTTTTTAGTTTTAC
Found at i:30966508 original size:16 final size:16
Alignment explanation
Indices: 30966489--30966539 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
30966479 CAGTGTAATG
30966489 GAATAGAGCTGTAAAA
1 GAATAGAGCTGTAAAA
* *
30966505 GAATAGAGTTGTAATA
1 GAATAGAGCTGTAAAA
*
30966521 GAATAGAACTGTAATAA
1 GAATAGAGCTGTAA-AA
30966538 GA
1 GA
30966540 TTCTTGTGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 26 0.90
17 3 0.10
ACGTcount: A:0.49, C:0.04, G:0.24, T:0.24
Consensus pattern (16 bp):
GAATAGAGCTGTAAAA
Found at i:30966738 original size:18 final size:17
Alignment explanation
Indices: 30966717--30966768 Score: 61
Period size: 18 Copynumber: 3.0 Consensus size: 17
30966707 ATCCTTTTTA
* *
30966717 ATAAATTTATTATTAA-
1 ATAAATTTAATAATAAT
30966733 ATATAATTTAATAATAAT
1 ATA-AATTTAATAATAAT
30966751 ATATAATTTAATAATAAT
1 ATA-AATTTAATAATAAT
30966769 TTTAATACAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 3 0.09
17 11 0.34
18 18 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAAATTTAATAATAAT
Found at i:30966946 original size:12 final size:12
Alignment explanation
Indices: 30966916--30966950 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
30966906 TATATGTTAC
30966916 TTAAAGAATAAT
1 TTAAAGAATAAT
*
30966928 TTAAAAGAGTAAT
1 TT-AAAGAATAAT
30966941 TTAAAGAATA
1 TTAAAGAATA
30966951 TCTTGTGTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (12 bp):
TTAAAGAATAAT
Found at i:30972691 original size:22 final size:22
Alignment explanation
Indices: 30972640--30972694 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
30972630 CCCCAACCTA
* * *
30972640 CAAATTTCTCACATTTCTCTAT
1 CAAATCTCTCAAATTTCTCAAT
*
30972662 TAAATCTCTCAAATTTCTCAAT
1 CAAATCTCTCAAATTTCTCAAT
30972684 C-AA-CTCTCAAA
1 CAAATCTCTCAAA
30972695 AATCTCTCAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 8 0.29
21 2 0.07
22 18 0.64
ACGTcount: A:0.35, C:0.27, G:0.00, T:0.38
Consensus pattern (22 bp):
CAAATCTCTCAAATTTCTCAAT
Found at i:30972770 original size:13 final size:13
Alignment explanation
Indices: 30972747--30972800 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
30972737 TTCGATCTAA
30972747 ATTATATATTTTTT
1 ATTA-ATATTTTTT
*
30972761 ATTAATATTTTTA
1 ATTAATATTTTTT
**
30972774 AGAAATATTTTTTT
1 ATTAATA-TTTTTT
*
30972788 ATTAAAATTTTTT
1 ATTAATATTTTTT
30972801 CTATGTTCTA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
13 19 0.59
14 13 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
ATTAATATTTTTT
Found at i:30977274 original size:68 final size:69
Alignment explanation
Indices: 30977142--30977276 Score: 202
Period size: 68 Copynumber: 2.0 Consensus size: 69
30977132 TGATTAAACT
* * *
30977142 TAATCACTTTAATATTAAGTTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATT
1 TAATCACTTTAACATTAAATTAATAAAATACTTATCAAGATAAATATTAGATTAAATTTAATATT
30977207 AAGA
66 AAGA
* *
30977211 TAATCACTTTAACATTAAATTAATAAAATA-TTATCAAGATAAGTATTTA-ATTTAATTTAATAT
1 TAATCACTTTAACATTAAATTAATAAAATACTTATCAAGATAAATA-TTAGATTAAATTTAATAT
30977274 TAA
65 TAA
30977277 AAATATTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
68 30 0.50
69 30 0.50
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.41
Consensus pattern (69 bp):
TAATCACTTTAACATTAAATTAATAAAATACTTATCAAGATAAATATTAGATTAAATTTAATATT
AAGA
Found at i:30984623 original size:48 final size:48
Alignment explanation
Indices: 30984552--30984648 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
30984542 TTCTTTGCTT
**
30984552 AAAAACACCTAAGTCAACCTAACTTGCAGTGATAAAGGATTCAACAGA
1 AAAAACACCTAAGTCAACCTAACTTGCAACGATAAAGGATTCAACAGA
* *
30984600 AAAAACACCTAAGTCAGCTTAACTTGCAACGATAAAGGATTCAACAGA
1 AAAAACACCTAAGTCAACCTAACTTGCAACGATAAAGGATTCAACAGA
30984648 A
1 A
30984649 TTCCCTTAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.46, C:0.21, G:0.14, T:0.19
Consensus pattern (48 bp):
AAAAACACCTAAGTCAACCTAACTTGCAACGATAAAGGATTCAACAGA
Found at i:30985821 original size:13 final size:13
Alignment explanation
Indices: 30985805--30985854 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
30985795 TTTAAACCAA
30985805 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
* *
30985818 ACTTCTCAAAAGC
1 ACTTTTCAAAAAC
* * *
30985831 GCTTTTCCACAAC
1 ACTTTTCAAAAAC
30985844 ACTTTTCAAAA
1 ACTTTTCAAAA
30985855 GTAATTTTCA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:30985844 original size:26 final size:26
Alignment explanation
Indices: 30985806--30985855 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
30985796 TTAAACCAAA
30985806 CTTTTCAAAAACACTTCTCAAAAGCG
1 CTTTTCAAAAACACTTCTCAAAAGCG
* * *
30985832 CTTTTCCACAACACTTTTCAAAAG
1 CTTTTCAAAAACACTTCTCAAAAG
30985856 TAATTTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (26 bp):
CTTTTCAAAAACACTTCTCAAAAGCG
Done.