Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 9 of 163
Found at i:2929667 original size:19 final size:19
Alignment explanation
Indices: 2929638--2929688 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
2929628 TTTTTAAAAA
2929638 TATAAAT-TTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
2929656 TATAAATATTTTAAATTTT
1 TATAAATATTTTGAATTTT
2929675 TGA-AAATTATTTTG
1 T-ATAAA-TATTTTG
2929689 TTTATTTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 14 0.50
20 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:2929863 original size:23 final size:23
Alignment explanation
Indices: 2929832--2929888 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
2929822 TCTAACTCGA
*
2929832 AACTCGAATAAGTAATTCAAGTT
1 AACTCGAATAAATAATTCAAGTT
* *
2929855 GACTCGAATAAATAATTCGAGTT
1 AACTCGAATAAATAATTCAAGTT
2929878 AACTCGAATAA
1 AACTCGAATAA
2929889 TTCAAACAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (23 bp):
AACTCGAATAAATAATTCAAGTT
Found at i:2931556 original size:12 final size:13
Alignment explanation
Indices: 2931538--2931569 Score: 57
Period size: 12 Copynumber: 2.5 Consensus size: 13
2931528 AGAGTAAAAA
2931538 GAAATAAATAATT
1 GAAATAAATAATT
2931551 -AAATAAATAATT
1 GAAATAAATAATT
2931563 GAAATAA
1 GAAATAA
2931570 TTTTTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.67
13 6 0.33
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (13 bp):
GAAATAAATAATT
Found at i:2938532 original size:13 final size:13
Alignment explanation
Indices: 2938493--2938543 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
2938483 AGTTCTTTAT
2938493 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
2938506 TACTGTGGAAAAG
1 TGCTTTTGAAAAG
*
2938519 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
2938532 TGCTTTTGAAAA
1 TGCTTTTGAAAA
2938544 ATTTGGTTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:2944140 original size:2 final size:2
Alignment explanation
Indices: 2944135--2944159 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2944125 AATGTAGGTA
2944135 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2944160 GNNNNNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2945017 original size:2 final size:2
Alignment explanation
Indices: 2945010--2945090 Score: 126
Period size: 2 Copynumber: 40.5 Consensus size: 2
2945000 TATTTATTAC
* * *
2945010 GA GA GA GA GG GA GA GG GA GA GG GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
2945052 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GC GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
2945091 GAGTTTGGAG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 71 1.00
ACGTcount: A:0.44, C:0.01, G:0.54, T:0.00
Consensus pattern (2 bp):
GA
Found at i:2949223 original size:44 final size:44
Alignment explanation
Indices: 2949157--2949860 Score: 573
Period size: 44 Copynumber: 16.7 Consensus size: 44
2949147 ATCACAAAGC
*
2949157 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
* * * *
2949201 CATATCTCCCTAGTCAGTAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
2949245 CCTATCTCCCTGGTCAGCAGTGGAATAGG-T---GA-----A-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
* *
2949279 CCTATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
*
2949323 CCTATCTCCCTGGTCAGCAGTGGAATAGG-TGAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTG-AAGATTGTGAGT
* *
2949367 CCTATCTCCTTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
* * * * **
2949411 CCTATCTCCCTGAG-CAGTAGTGGAGTAGGTTAAAAATT-ACAGAT
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAAGATTGTGAG-T
* * * ** ** * * ** * *
2949455 CTTATTTCCCTAAG-CAATAGTGGAGCAGATCGAAGACAGCGAAT
1 CCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
* * * * * * *****
2949499 CTTATCTTCCTAAGGT-AGTAG-GGAAGCAGATTTAATCCACT-AGT
1 CCTATCTCCCT--GGTCAGCAGTGGAA-TAGGTTGAAGATTGTGAGT
* *
2949543 CCTATCTTCCTAGTCAGCAGTGGAATAGG-T---GA-----A-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
*
2949577 CCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
** *
2949621 CCTATCTCCCTGGTCAATAGTGGCATAGGTTGAAGATTGTGAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
* * * * *
2949665 CTTATCTCTCTGGTTAGCAGTGGAATAGGTTAAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
2949709 CCTATCTCCCTGGTCAGCAGTGGAATAGG-T---GA-----A-T
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
* *
2949743 CCTATCTCCCTAGTCAGTAGTGGAATAGGTTGAAGATTGTGAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
** *
2949787 CCTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTAAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
*
2949831 TCTATCTCCCTGGTCAGCAGTGGAATAGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGT
2949861 GAATCCTATC
Statistics
Matches: 541, Mismatches: 78, Indels: 82
0.77 0.11 0.12
Matches are distributed among these distances:
34 86 0.16
35 6 0.01
38 6 0.01
40 4 0.01
42 3 0.01
43 14 0.03
44 403 0.74
45 19 0.04
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAGT
Found at i:2949287 original size:34 final size:35
Alignment explanation
Indices: 2949241--2949355 Score: 133
Period size: 34 Copynumber: 3.1 Consensus size: 35
2949231 TGAAGATTGT
2949241 AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
1 AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
*
2949276 AA-TCCTATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATTG
1 AAGTCCTATCTCCCTGGTCAGCAGTGGAATA----G--G--TG
2949318 TAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
1 -AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
2949354 AA
1 AA
2949356 AGATTGTGAA
Statistics
Matches: 68, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
34 27 0.40
35 4 0.06
36 2 0.03
38 2 0.03
40 2 0.03
42 2 0.03
43 2 0.03
44 27 0.40
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (35 bp):
AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTG
Found at i:2949374 original size:122 final size:122
Alignment explanation
Indices: 2949157--2949396 Score: 385
Period size: 122 Copynumber: 2.0 Consensus size: 122
2949147 ATCACAAAGC
* * *
2949157 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTGAGTCATATCTCCCTAGTCAGTAGT
1 CCTATCTCCCTGATCAGCAGTGGAATAGGTTAAAGATTGTAAGTCATATCTCCCTAGTCAGCAGT
2949222 GGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTGAAT
66 GGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTGAAT
* * *
2949279 CCTATCTCCCTGATCAGCAGTGGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGATCAGCAGTGGAATAGGTTAAAGATTGTAAGTCATATCTCCCTAGTCAGCAGT
*
2949344 GGAATAGG-TGAAAGATTGTGAA-TCCTATCTCCTTGGTCAGCAGTGGAATAGGT
66 GGAATAGGTTG-AAGATTGT-AAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGT
2949397 TGAAGATTGT
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
121 2 0.02
122 105 0.96
123 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (122 bp):
CCTATCTCCCTGATCAGCAGTGGAATAGGTTAAAGATTGTAAGTCATATCTCCCTAGTCAGCAGT
GGAATAGGTTGAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTGAAT
Found at i:2949580 original size:34 final size:34
Alignment explanation
Indices: 2949542--2949606 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
2949532 AATCCACTAG
*
2949542 TCCTATCTTCCTAGTCAGCAGTGGAATAGGTGAA
1 TCCTATCTCCCTAGTCAGCAGTGGAATAGGTGAA
2949576 TCCTATCTCCCTAGTCAGCAGTGGAATAGGT
1 TCCTATCTCCCTAGTCAGCAGTGGAATAGGT
2949607 TGAAGATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (34 bp):
TCCTATCTCCCTAGTCAGCAGTGGAATAGGTGAA
Found at i:2949692 original size:122 final size:114
Alignment explanation
Indices: 2949615--2949933 Score: 299
Period size: 122 Copynumber: 2.7 Consensus size: 114
2949605 GTTGAAGATT
* * * * * *
2949615 GTGAGTCCTATCTCCCTGGTCAATAGTGGCATAGGTTGAAGATTGTGAGTCTTATCTCTCTGGTT
1 GTGAATCCTATCTCCCTAGTCAATAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTC
*
2949680 AGCAGTGGAATAGGTTAAAGATTGTAAGTCCTATCTCCCTGGTCAGCAGTGGAATAG
66 AGCAGTGGAATA-G-----G--TGTAAGTCCTATCTCCCTAGTCAGCAGTGGAATAG
*
2949737 GTGAATCCTATCTCCCTAGTCAGTAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTC
1 GTGAATCCTATCTCCCTAGTCAATAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTC
** * *
2949802 AATAGTGGAATAGGTTGAAGATTGTAAGTTCTATCTCCCTGGTCAGCAGTGGAATAG
66 AGCAGTGGAATA----G--G--TGTAAGTCCTATCTCCCTAGTCAGCAGTGGAATAG
* * *
2949859 GTGAATCCTATCTCCCTAGTC---AGTAG-ATAGGTTGAAGATTGT-AATCATATCTCCCTGAG-
1 GTGAATCCTATCTCCCTAGTCAATAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTG-GT
*
2949918 CAGCAGTGGAGTAGGT
65 CAGCAGTGGAATAGGT
2949934 TGAAAATTAC
Statistics
Matches: 176, Mismatches: 17, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
109 1 0.01
111 1 0.01
113 1 0.01
117 23 0.13
118 17 0.10
119 4 0.02
122 128 0.73
125 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (114 bp):
GTGAATCCTATCTCCCTAGTCAATAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTC
AGCAGTGGAATAGGTGTAAGTCCTATCTCCCTAGTCAGCAGTGGAATAG
Found at i:2949712 original size:166 final size:166
Alignment explanation
Indices: 2949540--2949860 Score: 563
Period size: 166 Copynumber: 1.9 Consensus size: 166
2949530 TTAATCCACT
*
2949540 AGTCCTATCTTCCTAGTCAGCAGTGGAATAGGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAG
1 AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAG
* *
2949605 GTTGAAGATTGTGAGTCCTATCTCCCTGGTCAATAGTGGCATAGGTTGAAGATTGTGAG-TCTTA
66 GTTGAAGATTGTGAGTCCTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTAAGTTC-TA
* *
2949669 TCTCTCTGGTTAGCAGTGGAATAGGTTAAAGATTGTA
130 TCTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTA
* *
2949706 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTGAATCCTATCTCCCTAGTCAGTAGTGGAATAG
1 AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAG
2949771 GTTGAAGATTGTGAGTCCTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTAAGTTCTAT
66 GTTGAAGATTGTGAGTCCTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTAAGTTCTAT
2949836 CTCCCTGGTCAGCAGTGGAATAGGT
131 CTCCCTGGTCAGCAGTGGAATAGGT
2949861 GAATCCTATC
Statistics
Matches: 147, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
166 145 0.99
167 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (166 bp):
AGTCCTATCTCCCTAGTCAGCAGTGGAATAGGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAG
GTTGAAGATTGTGAGTCCTATCTCCCTGGTCAATAGTGGAATAGGTTGAAGATTGTAAGTTCTAT
CTCCCTGGTCAGCAGTGGAATAGGTTAAAGATTGTA
Found at i:2950083 original size:44 final size:44
Alignment explanation
Indices: 2950035--2950147 Score: 127
Period size: 44 Copynumber: 2.6 Consensus size: 44
2950025 AAGCCACTAG
* * **
2950035 CCTTATCTCCCTGAGCAGTAGTGGAATAGGTTGAAGATTGTAGA
1 CCTTATCTCCCTGAGCAGTAGTGGAATAGGTTAAAAATTACAGA
* * * *
2950079 CCTTATCTCCTTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGA
1 CCTTATCTCCCTGAGCAGTAGTGGAATAGGTTAAAAATTACAGA
* * *
2950123 TCTTATCTCCCTAAGCAATAGTGGA
1 CCTTATCTCCCTGAGCAGTAGTGGA
2950148 GCAGATCGAT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (44 bp):
CCTTATCTCCCTGAGCAGTAGTGGAATAGGTTAAAAATTACAGA
Found at i:2950178 original size:176 final size:175
Alignment explanation
Indices: 2949885--2950245 Score: 589
Period size: 176 Copynumber: 2.1 Consensus size: 175
2949875 TAGTCAGTAG
* * *
2949885 ATAGGTTGAAGATTGTAATCATATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCT
1 ATAGGTTGAAGATTGTAACCATATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGATCT
*
2949950 GATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGG
66 GATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGG
*
2950015 AAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGCAGTAGTGGA
131 AAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAACAGTAGTGGA
* *
2950060 ATAGGTTGAAGATTGTAGACCTTATCTCCTTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGATC
1 ATAGGTTGAAGATTGTA-ACCATATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGATC
* * *
2950125 TTATCTCCCTAAGCAATAGTGGAGCAGATCGATGAC-AGCGAATCTTATCTTCCCAATGTAGTAG
65 TGATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGA-CGAATCTTATCTTCCCAAGGTAGTAG
2950189 GGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAACAGTAGTGGA
129 GGAAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAACAGTAGTGGA
* *
2950236 GTAAGTTGAA
1 ATAGGTTGAA
2950246 AATTACAGAT
Statistics
Matches: 172, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
175 18 0.10
176 154 0.90
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (175 bp):
ATAGGTTGAAGATTGTAACCATATCTCCCTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGATCT
GATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGG
AAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAACAGTAGTGGA
Found at i:2950216 original size:88 final size:87
Alignment explanation
Indices: 2949951--2950236 Score: 244
Period size: 88 Copynumber: 3.3 Consensus size: 87
2949941 TACAGATCTG
*
2949951 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG-CGAATCTTATCTTCCCAATGTAGTAGGGA
2950016 AGCAGATTTAAGCCACTAGCCTT
65 AGCAGATTTAAGCCACTAGCCTT
* ** * * * * * * *
2950039 ATCTCCCTGAGCAGTAGTGGAATAGGTTGAAGATTG-TAGACCTTATC-T-CC-TTG-AGCAGCA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGCGA-ATCTTATCTTCCCAATGTAGTAG--
* * * * *** *
2950099 GTAGAGTAGGTTAAAAATTAC-AGATCTT
62 GGA-AGCAGATT-TAAGCCACTAG-CCTT
* *
2950127 ATCTCCCTAAGCAATAGTGGAGCAGATCGATGACAGCGAATCTTATCTTCCCAATGTAGTAGGGA
1 ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAC-GCGAATCTTATCTTCCCAATGTAGTAGGGA
2950192 AGCAGATTTAAGCCACTAGCCTT
65 AGCAGATTTAAGCCACTAGCCTT
2950215 ATCTCCCTGAA-CAGTAGTGGAG
1 ATCTCCCT-AAGCAGTAGTGGAG
2950237 TAAGTTGAAA
Statistics
Matches: 143, Mismatches: 40, Indels: 30
0.67 0.19 0.14
Matches are distributed among these distances:
84 4 0.03
85 1 0.01
86 4 0.03
87 10 0.07
88 101 0.71
89 13 0.09
90 4 0.03
91 2 0.01
92 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (87 bp):
ATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGCGAATCTTATCTTCCCAATGTAGTAGGGAA
GCAGATTTAAGCCACTAGCCTT
Found at i:2950325 original size:176 final size:175
Alignment explanation
Indices: 2949906--2950286 Score: 460
Period size: 176 Copynumber: 2.2 Consensus size: 175
2949896 ATTGTAATCA
* * * * * * **
2949906 TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGAT-CTGATCTCCCTAAGCAGTAGTG
1 TATCTCCCTAAGCAGCAGTAGAGCAGCTTAAAAAGTA-AGATCCT-ATCTCCCTAAGCAACAGTG
2949970 GAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
64 GAGCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
* * * **
2950035 CCTTATCTCCCTGAGCAGTAGTGGAATAGGTTGAAGATTGTAGACCT
129 CCTTATCTCCCTGAACAGTAGTGGAATAAGTTGAAAATTACAGACCT
* * * * * * *
2950082 TATCTCCTTGAGCAGCAGTAGAGTAGGTTAAAAATTACAGATCTTATCTCCCTAAGCAATAGTGG
1 TATCTCCCTAAGCAGCAGTAGAGCAGCTTAAAAAGTA-AGATCCTATCTCCCTAAGCAACAGTGG
* *
2950147 AGCAGATCGATGAC-AGCGAATCTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAAGCCACTAG
65 AGCAGATCGAAGACGA-CGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAG
* **
2950211 CCTTATCTCCCTGAACAGTAGTGGAGTAAGTTGAAAATTACAGATTT
129 CCTTATCTCCCTGAACAGTAGTGGAATAAGTTGAAAATTACAGACCT
* **
2950258 TATTTCCCTAAGTTGCAGTAGAGCAGCTT
1 TATCTCCCTAAGCAGCAGTAGAGCAGCTT
2950287 GAAGCCAGTA
Statistics
Matches: 181, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
175 1 0.01
176 179 0.99
177 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (175 bp):
TATCTCCCTAAGCAGCAGTAGAGCAGCTTAAAAAGTAAGATCCTATCTCCCTAAGCAACAGTGGA
GCAGATCGAAGACGACGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGCCACTAGCC
TTATCTCCCTGAACAGTAGTGGAATAAGTTGAAAATTACAGACCT
Found at i:2950984 original size:22 final size:22
Alignment explanation
Indices: 2950924--2950981 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
2950914 AATCTTCAAG
2950924 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
2950943 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
2950965 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
2950982 GATTTAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.39
22 8 0.24
23 12 0.36
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:2951229 original size:23 final size:23
Alignment explanation
Indices: 2951185--2951229 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
2951175 TCTTATTTTG
* *
2951185 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
2951208 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
2951230 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:2951428 original size:23 final size:23
Alignment explanation
Indices: 2951383--2951429 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
2951373 TTATTTTACT
* *
2951383 TTTTATTATTATTAAATTAATTA
1 TTTTAATATTATTAAACTAATTA
2951406 TTTTAATATTATTAATACT-ATTA
1 TTTTAATATTATTAA-ACTAATTA
2951429 T
1 T
2951430 GTGGTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAATATTATTAAACTAATTA
Found at i:2951583 original size:3 final size:3
Alignment explanation
Indices: 2951575--2951604 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
2951565 TTATCTTTTC
2951575 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2951605 GTTGTTGTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2951662 original size:20 final size:19
Alignment explanation
Indices: 2951637--2951675 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
2951627 TTTATATTTA
2951637 CATTATCACAATAGTTACTC
1 CATTAT-ACAATAGTTACTC
* *
2951657 CATTATATAATTGTTACTC
1 CATTATACAATAGTTACTC
2951676 AAATTCGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (19 bp):
CATTATACAATAGTTACTC
Found at i:2953204 original size:17 final size:17
Alignment explanation
Indices: 2953184--2953217 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2953174 CTGGTATACA
2953184 GAAAATAAAAAAAAAAG
1 GAAAATAAAAAAAAAAG
*
2953201 GAAATTAAAAAAAAAAG
1 GAAAATAAAAAAAAAAG
2953218 TTTTTGGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (17 bp):
GAAAATAAAAAAAAAAG
Found at i:2954832 original size:40 final size:43
Alignment explanation
Indices: 2954784--2954862 Score: 110
Period size: 40 Copynumber: 1.9 Consensus size: 43
2954774 TTTAAAAAAA
*
2954784 TATTTTAAAAATAAATAA-AAA-ACAAAAAATAT-TTTTAAAG
1 TATTTTAAAAATAAAAAATAAATACAAAAAATATATTTTAAAG
* *
2954824 TATTTTAAAATTAAAAAATAAATATAAAAAATATATTTT
1 TATTTTAAAAATAAAAAATAAATACAAAAAATATATTTT
2954863 TATTAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 16 0.48
41 3 0.09
42 10 0.30
43 4 0.12
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (43 bp):
TATTTTAAAAATAAAAAATAAATACAAAAAATATATTTTAAAG
Found at i:2955018 original size:107 final size:107
Alignment explanation
Indices: 2954894--2955107 Score: 394
Period size: 107 Copynumber: 2.0 Consensus size: 107
2954884 GGGCCAAAAA
2954894 AGTTGTGCCCGAGGCCCGGTCCATTTTTTAAACGGGCCTCGTTTTTTTGCCCAAGCCCATATTTC
1 AGTTGTGCCCGAGGCCCGGTCCATTTTTTAAACGGGCCTCGTTTTTTTGCCCAAGCCCATATTTC
*
2954959 GGGCCTATATTTTTACCCAAACCCTCCCATATTT-AGGGCGGG
66 AGGCCTATATTTTTACCCAAACCCTCCCATATTTCA-GGCGGG
2955001 AGTTGTGCCCGAGGCCCGGTCCATTTTTTAAACGGGCCTCGTTTTTTTGCCCAAGCCCATATTTC
1 AGTTGTGCCCGAGGCCCGGTCCATTTTTTAAACGGGCCTCGTTTTTTTGCCCAAGCCCATATTTC
*
2955066 AGGCCTATATTTTTACCCGAACCCTCCCATATTTCAGGCGGG
66 AGGCCTATATTTTTACCCAAACCCTCCCATATTTCAGGCGGG
2955108 CCGTCGGGCC
Statistics
Matches: 104, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
107 103 0.99
108 1 0.01
ACGTcount: A:0.18, C:0.29, G:0.21, T:0.32
Consensus pattern (107 bp):
AGTTGTGCCCGAGGCCCGGTCCATTTTTTAAACGGGCCTCGTTTTTTTGCCCAAGCCCATATTTC
AGGCCTATATTTTTACCCAAACCCTCCCATATTTCAGGCGGG
Found at i:2966832 original size:17 final size:18
Alignment explanation
Indices: 2966799--2966832 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2966789 GTATCTCACT
2966799 TCTTTTATATATTTATTG
1 TCTTTTATATATTTATTG
*
2966817 TCTTTT-TATTTTTATT
1 TCTTTTATATATTTATT
2966833 TTTTACGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (18 bp):
TCTTTTATATATTTATTG
Found at i:2975595 original size:21 final size:21
Alignment explanation
Indices: 2975556--2975670 Score: 131
Period size: 21 Copynumber: 5.5 Consensus size: 21
2975546 CTTCGTTTAG
*
2975556 CTCTTTTGAGCTTCTGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
* * * *
2975577 CTTTTATGAGTTTCCGTTCAG
1 CTCTTATGAGCTTCTGTTCAA
*
2975598 CTCTTATGAGCTTCTGTTTAA
1 CTCTTATGAGCTTCTGTTCAA
* * * *
2975619 CTCATATGAGTTTCCGTTCAG
1 CTCTTATGAGCTTCTGTTCAA
2975640 CTCTTATGAGCTTCTGTTCAA
1 CTCTTATGAGCTTCTGTTCAA
*
2975661 CCCTTATGAG
1 CTCTTATGAG
2975671 TTTTTTTTTA
Statistics
Matches: 74, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 74 1.00
ACGTcount: A:0.17, C:0.23, G:0.17, T:0.43
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAA
Found at i:2975687 original size:42 final size:42
Alignment explanation
Indices: 2975549--2975673 Score: 196
Period size: 42 Copynumber: 3.0 Consensus size: 42
2975539 TTTTACTCTT
* * *
2975549 CGTTTAGCTCTTTTGAGCTTCTGTTCAACTTTTATGAGTTTC
1 CGTTCAGCTCTTATGAGCTTCTGTTCAACTCTTATGAGTTTC
* *
2975591 CGTTCAGCTCTTATGAGCTTCTGTTTAACTCATATGAGTTTC
1 CGTTCAGCTCTTATGAGCTTCTGTTCAACTCTTATGAGTTTC
*
2975633 CGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTATGAGTTT
1 CGTTCAGCTCTTATGAGCTTCTGTTCAACTCTTATGAGTTT
2975674 TTTTTTAGCT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.45
Consensus pattern (42 bp):
CGTTCAGCTCTTATGAGCTTCTGTTCAACTCTTATGAGTTTC
Found at i:2977690 original size:15 final size:14
Alignment explanation
Indices: 2977670--2977699 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2977660 ATAAGATCTA
2977670 TTTTCTTTTTCTTTT
1 TTTTCTTTTT-TTTT
2977685 TTTTCTTTTTTTTT
1 TTTTCTTTTTTTTT
2977699 T
1 T
2977700 CTTCCTTTCG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTCTTTTTTTTT
Found at i:2979053 original size:41 final size:41
Alignment explanation
Indices: 2979008--2979090 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
2978998 ATAAGTAAGT
2979008 TTTTGGCATGTATTCTCGTATCGGGAATTCGATACGTTGTG
1 TTTTGGCATGTATTCTCGTATCGGGAATTCGATACGTTGTG
2979049 TTTTGGCATGTATTCTCGTATCGGGAATTCGATACGTTGTG
1 TTTTGGCATGTATTCTCGTATCGGGAATTCGATACGTTGTG
2979090 T
1 T
2979091 CCTAACGCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.17, C:0.14, G:0.27, T:0.42
Consensus pattern (41 bp):
TTTTGGCATGTATTCTCGTATCGGGAATTCGATACGTTGTG
Found at i:2980567 original size:18 final size:18
Alignment explanation
Indices: 2980541--2980575 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2980531 TGTATTTTTC
*
2980541 ATTAATTATTTACTATTT
1 ATTAATTATTTAATATTT
*
2980559 ATTATTTATTTAATATT
1 ATTAATTATTTAATATT
2980576 AAAATTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (18 bp):
ATTAATTATTTAATATTT
Found at i:2980596 original size:20 final size:20
Alignment explanation
Indices: 2980559--2980597 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
2980549 TTTACTATTT
*
2980559 ATTATTTATTTAATATTAAA
1 ATTATTTAATTAATATTAAA
2980579 ATTATTTTAATTAA-ATTAA
1 ATTA-TTTAATTAATATTAA
2980598 TTAATATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTATTTAATTAATATTAAA
Found at i:3006400 original size:40 final size:40
Alignment explanation
Indices: 3006270--3006407 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 40
3006260 GCGTTTGTAC
* * *
3006270 AAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTCCC
1 AAAAAACGCCGCTAAAAATCGATCATTAGCGGCGCTTTCT
* *
3006310 AAAAAACGCCGCTAAAGATCGAGT-GTTAGCGGCGCTTT-T
1 AAAAAACGCCGCTAAAAATCGA-TCATTAGCGGCGCTTTCT
* * **
3006349 AGGAAAGCGCCGCTAAAAAT-GATCATTAGCGGCATTTTTCT
1 A-AAAAACGCCGCTAAAAATCGATCATTAGCGGC-GCTTTCT
*
3006390 AAAAAACGCCGCAAAAAA
1 AAAAAACGCCGCTAAAAA
3006408 CCTAAACTCC
Statistics
Matches: 79, Mismatches: 14, Indels: 10
0.77 0.14 0.10
Matches are distributed among these distances:
38 1 0.01
39 11 0.14
40 65 0.82
41 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (40 bp):
AAAAAACGCCGCTAAAAATCGATCATTAGCGGCGCTTTCT
Found at i:3006508 original size:41 final size:41
Alignment explanation
Indices: 3006445--3006625 Score: 274
Period size: 41 Copynumber: 4.4 Consensus size: 41
3006435 CCTTGTGGGT
*
3006445 CTTTAGCGGCGTTTTTCGAGAAGCGCCGCTAATGCGCAGAC
1 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
*
3006486 CTTTAGCGGCGTGTTTT-AAGAAGCGCCGCTAATGCGCATAC
1 CTTTAGCGGCGT-TTTTCAAGAAGCGCCGCTAATGCGCAGAC
* * * *
3006527 CTTTAGCGGCGATTTTCAGGAAGCGCCGCTAATGCACTGAC
1 CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
*
3006568 CTTTAGCGGCGTTTTTTCATGAAGCGCCGCTAATGCGCAGAC
1 CTTTAGCGGCG-TTTTTCAAGAAGCGCCGCTAATGCGCAGAC
3006610 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
3006626 TGTAAAGCGC
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
40 4 0.03
41 81 0.64
42 41 0.33
ACGTcount: A:0.19, C:0.25, G:0.27, T:0.28
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTCAAGAAGCGCCGCTAATGCGCAGAC
Found at i:3013214 original size:43 final size:44
Alignment explanation
Indices: 3013153--3013309 Score: 259
Period size: 43 Copynumber: 3.7 Consensus size: 44
3013143 GACCTATAGT
* *
3013153 GGCGTTTGTG-GTAGAAGCGCCGCTAAAGGTCCTGGTCTTTAGC
1 GGCGTTTGTGAGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
*
3013196 GGCGTTTGTG-GTAAAAGCGTCGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTGAGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
3013239 GGCGTTTGTGAG-AAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
1 GGCGTTTGTGAGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
3013282 GGCGTTTGTGAGT-AAAGCGCCGCTAAAG
1 GGCGTTTGTGAGTAAAAGCGCCGCTAAAG
3013310 TTAGCGACGC
Statistics
Matches: 108, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
43 107 0.99
44 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (44 bp):
GGCGTTTGTGAGTAAAAGCGCCGCTAAAGGTCATGGTCTTTAGC
Found at i:3020358 original size:22 final size:22
Alignment explanation
Indices: 3020333--3020374 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3020323 AACTTGTAAT
*
3020333 AATT-TAATAATATTATTATTTA
1 AATTATAAT-ATATTAATATTTA
3020355 AATTATAATATATTAATATT
1 AATTATAATATATTAATATT
3020375 AATATTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTATAATATATTAATATTTA
Found at i:3028574 original size:63 final size:63
Alignment explanation
Indices: 3028439--3028576 Score: 154
Period size: 63 Copynumber: 2.2 Consensus size: 63
3028429 TAGGCCCTCT
* * * * *
3028439 ACCATTCGGCCCACTTGATTGTGGCCTATACACATTATTCTCAAAAGTCGTCCTGACCCCTCT
1 ACCATTCGGCCCACTTGATTGTGGCCTATACACATTATGCTCAAAACTCGACCTGACCCCACC
* * **
3028502 ACCATTCGGCCCACTTGATTGTGGCCTATACGCATGT-TGCTCAACAC-CTGACCTGGGCCCACC
1 ACCATTCGGCCCACTTGATTGTGGCCTATACACAT-TATGCTCAAAACTC-GACCTGACCCCACC
*
3028565 ACCAATCGGCCC
1 ACCATTCGGCCC
3028577 TGCATACTGA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
62 1 0.02
63 61 0.97
64 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.17, T:0.25
Consensus pattern (63 bp):
ACCATTCGGCCCACTTGATTGTGGCCTATACACATTATGCTCAAAACTCGACCTGACCCCACC
Found at i:3031954 original size:15 final size:16
Alignment explanation
Indices: 3031934--3031963 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
3031924 GGCCCGATAA
3031934 ATTTTAA-AAAAATAT
1 ATTTTAATAAAAATAT
3031949 ATTTTAATAAAAATA
1 ATTTTAATAAAAATA
3031964 AATTCGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTTTAATAAAAATAT
Found at i:3034286 original size:42 final size:42
Alignment explanation
Indices: 3034235--3034314 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
3034225 CCTTATTAAC
3034235 TAATACTAAAATATAAATCAACACCAAAAACTTTGATTAAGT
1 TAATACTAAAATATAAATCAACACCAAAAACTTTGATTAAGT
3034277 TAATACTAAAATATAAATCAACACCAAAAACTTTGATT
1 TAATACTAAAATATAAATCAACACCAAAAACTTTGATT
3034315 GCTTCAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.53, C:0.15, G:0.04, T:0.29
Consensus pattern (42 bp):
TAATACTAAAATATAAATCAACACCAAAAACTTTGATTAAGT
Found at i:3037508 original size:27 final size:27
Alignment explanation
Indices: 3037472--3037523 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
3037462 TATTTAATTT
*
3037472 TTTTCTTTTATGTTCTTTAAACTTTTA
1 TTTTCTTTTATATTCTTTAAACTTTTA
3037499 TTTTCTTTTATATTCTTTAAACTTT
1 TTTTCTTTTATATTCTTTAAACTTT
3037524 CCTGTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.12, G:0.02, T:0.67
Consensus pattern (27 bp):
TTTTCTTTTATATTCTTTAAACTTTTA
Found at i:3058236 original size:15 final size:15
Alignment explanation
Indices: 3058216--3058256 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 15
3058206 ATGTCCATCC
3058216 GTAGTTGAAATTAAG
1 GTAGTTGAAATTAAG
3058231 GTAGTTGATGAAATTAAG
1 GTAG-T--TGAAATTAAG
3058249 GTAGTTGA
1 GTAGTTGA
3058257 TTGTTTAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 1 0.04
17 1 0.04
18 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (15 bp):
GTAGTTGAAATTAAG
Found at i:3058242 original size:18 final size:18
Alignment explanation
Indices: 3058221--3058257 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
3058211 CATCCGTAGT
3058221 TGAAATTAAGGTAGTTGA
1 TGAAATTAAGGTAGTTGA
3058239 TGAAATTAAGGTAGTTGA
1 TGAAATTAAGGTAGTTGA
3058257 T
1 T
3058258 TGTTTAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.27, T:0.35
Consensus pattern (18 bp):
TGAAATTAAGGTAGTTGA
Found at i:3074561 original size:29 final size:29
Alignment explanation
Indices: 3074519--3074577 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
3074509 CATATATTCT
3074519 ATCACAATGCTGATTCAAGATGAATAAAG
1 ATCACAATGCTGATTCAAGATGAATAAAG
3074548 ATCACAATGCTGATTCAAGATGAATAAAG
1 ATCACAATGCTGATTCAAGATGAATAAAG
3074577 A
1 A
3074578 ATGTGTATGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.24
Consensus pattern (29 bp):
ATCACAATGCTGATTCAAGATGAATAAAG
Found at i:3084406 original size:4 final size:4
Alignment explanation
Indices: 3084397--3084424 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
3084387 ATTTTAGATT
3084397 AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA
3084425 TTAGTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:3090015 original size:29 final size:28
Alignment explanation
Indices: 3089983--3090060 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
3089973 AATATATTTA
3089983 TTTTTAAATTTTTTTAATTTTAAAATACT
1 TTTTTAAATTTTTTTAATTTTAAAATA-T
** *
3090012 TTTTTTTA-TTTTTAAATTTTAAAATAT
1 TTTTTAAATTTTTTTAATTTTAAAATAT
*
3090039 TTTTAAAATATTTTTTAATTTT
1 TTTTTAAAT-TTTTTTAATTTT
3090061 TTTAATTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
27 6 0.15
28 17 0.43
29 17 0.43
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (28 bp):
TTTTTAAATTTTTTTAATTTTAAAATAT
Found at i:3090016 original size:20 final size:20
Alignment explanation
Indices: 3089991--3090028 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3089981 TATTTTTAAA
3089991 TTTTTTTAATTTTAAAATAC
1 TTTTTTTAATTTTAAAATAC
* *
3090011 TTTTTTTTATTTTTAAAT
1 TTTTTTTAATTTTAAAAT
3090029 TTTAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTTAATTTTAAAATAC
Found at i:3090054 original size:39 final size:40
Alignment explanation
Indices: 3089977--3090077 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 40
3089967 ATAATAAATA
**
3089977 TATTTATTTTTAAATTTT--TTTAATTTTAAAATACTTTT
1 TATTTATTTTTAAATTTTAAAATAATTTTAAAATACTTTT
* *
3090015 T-TTTATTTTTAAATTTTAAAATATTTTTAAAATATTTTT
1 TATTTATTTTTAAATTTTAAAATAATTTTAAAATACTTTT
* *
3090054 TAATT-TTTTTAATTTTTAAAATAA
1 TATTTATTTTTAAATTTTAAAATAA
3090078 AATTTTGGTA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
37 16 0.30
38 1 0.02
39 34 0.64
40 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (40 bp):
TATTTATTTTTAAATTTTAAAATAATTTTAAAATACTTTT
Found at i:3090056 original size:12 final size:11
Alignment explanation
Indices: 3090028--3090053 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3090018 TATTTTTAAA
3090028 TTTTAAAATAT
1 TTTTAAAATAT
3090039 TTTTAAAATAT
1 TTTTAAAATAT
3090050 TTTT
1 TTTT
3090054 TAATTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:3091003 original size:22 final size:22
Alignment explanation
Indices: 3090962--3091003 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3090952 AATTATTTAA
*
3090962 ATAATAAAATTATATTTTTATT
1 ATAATAAAATTATATGTTTATT
3090984 ATAATAAAAATTATA-GTTTA
1 ATAAT-AAAATTATATGTTTA
3091004 ATTTCAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATAATAAAATTATATGTTTATT
Found at i:3091645 original size:368 final size:369
Alignment explanation
Indices: 3090957--3091697 Score: 1475
Period size: 368 Copynumber: 2.0 Consensus size: 369
3090947 ATACGAATTA
3090957 TTTAAATAATAAAATTATATTTTTATTATAATAAAAATTATAGTTTAATTTCAATTGCAATAATT
1 TTTAAATAATAAAATTATATTTTTATTATAATAAAAATTATAGTTTAATTTCAATTGCAATAATT
3091022 TTTTTTTTGAATTCGTCCCTCGAGAAACATCGATGGTGCTTGTTCTTGGACACAGCATGTATCAT
66 TTTTTTTTGAATTCGTCCCTCGAGAAACATCGATGGTGCTTGTTCTTGGACACAGCATGTATCAT
3091087 TTCTCTTGAATTAAGAAAACAAATAATGTGAAAAATACTCTGTCATGAAACAGTTCCGTTATATA
131 TTCTCTTGAATTAAGAAAACAAATAATGTGAAAAATACTCTGTCATGAAACAGTTCCGTTATATA
3091152 ATGATTTCAATGAGATGTAACATTTAAAAGCAAGAGTTTATCTTCTTCTTTTATAAACTAAAGTT
196 ATGATTTCAATGAGATGTAACATTTAAAAGCAAGAGTTTATCTTCTTCTTTTATAAACTAAAGTT
3091217 GTTTGTGTTTCATAAAACTAATCCCCACTTACCCTTTTATCTTTCTCTATTCTCACACTATCATT
261 GTTTGTGTTTCATAAAACTAATCCCCACTTACCCTTTTATCTTTCTCTATTCTCACACTATCATT
3091282 TTCTCTCTTTTACTAAATTTTAATTTGTTTTTATACCATTTAAC
326 TTCTCTCTTTTACTAAATTTTAATTTGTTTTTATACCATTTAAC
3091326 TTTAAATAAT-AAATTATATTTTTATTATAATAAAAATTATAGTTTAATTTCAATTGCAATAATT
1 TTTAAATAATAAAATTATATTTTTATTATAATAAAAATTATAGTTTAATTTCAATTGCAATAATT
3091390 TTTTTTTTGAATTCGTCCCTCGAGAAACATCGATGGTGCTTGTTCTTGGACACAGCATGTATCAT
66 TTTTTTTTGAATTCGTCCCTCGAGAAACATCGATGGTGCTTGTTCTTGGACACAGCATGTATCAT
3091455 TTCTCTTGAATTAAGAAAACAAATAATGTGAAAAATACTCTGTCATGAAACAGTTCCGTTATATA
131 TTCTCTTGAATTAAGAAAACAAATAATGTGAAAAATACTCTGTCATGAAACAGTTCCGTTATATA
3091520 ATGATTTCAATGAGATGTAACATTTAAAAGCAAGAGTTTATCTTCTTCTTTTATAAACTAAAGTT
196 ATGATTTCAATGAGATGTAACATTTAAAAGCAAGAGTTTATCTTCTTCTTTTATAAACTAAAGTT
3091585 GTTTGTGTTTCATAAAACTAATCCCCACTTACCCTTTTATCTTTCTCTATTCTCACACTATCATT
261 GTTTGTGTTTCATAAAACTAATCCCCACTTACCCTTTTATCTTTCTCTATTCTCACACTATCATT
3091650 TTCTCTCTTTTACTAAATTTTAATTTGTTTTTATACCATTTAAC
326 TTCTCTCTTTTACTAAATTTTAATTTGTTTTTATACCATTTAAC
3091694 TTTA
1 TTTA
3091698 TACTTTTTAT
Statistics
Matches: 372, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
368 362 0.97
369 10 0.03
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.43
Consensus pattern (369 bp):
TTTAAATAATAAAATTATATTTTTATTATAATAAAAATTATAGTTTAATTTCAATTGCAATAATT
TTTTTTTTGAATTCGTCCCTCGAGAAACATCGATGGTGCTTGTTCTTGGACACAGCATGTATCAT
TTCTCTTGAATTAAGAAAACAAATAATGTGAAAAATACTCTGTCATGAAACAGTTCCGTTATATA
ATGATTTCAATGAGATGTAACATTTAAAAGCAAGAGTTTATCTTCTTCTTTTATAAACTAAAGTT
GTTTGTGTTTCATAAAACTAATCCCCACTTACCCTTTTATCTTTCTCTATTCTCACACTATCATT
TTCTCTCTTTTACTAAATTTTAATTTGTTTTTATACCATTTAAC
Found at i:3091950 original size:145 final size:145
Alignment explanation
Indices: 3091687--3091957 Score: 402
Period size: 145 Copynumber: 1.9 Consensus size: 145
3091677 TTTTTATACC
*
3091687 ATTTAACTTTATACTTTTTATACAATTTTGTCAAGAATCGCAATAGAATGCATCGATTATTATGA
1 ATTTAACTTTATACTTTTTATACAATTTTGTCAAGAATCGCAATAGAATGAATCGATTATTATGA
* * * * * ** *
3091752 ATTGGATGTGGTTTGCTCTGGTAACTGTAGTAACGTTTCGTAGCTCAGGTTCAATAATTGATTGG
66 ATTGGACGTGGTTTGCTCCGATAACTGTAGTAACATTTCGCAGCTCAAATTCAACAATTGATTGG
3091817 GCGAGGGATGTTACA
131 GCGAGGGATGTTACA
*
3091832 ATTTAACTTTATA-TTTTCTATACAATTTTGTCAAGAATCAG-AATAGAATGAATTGATTATTAT
1 ATTTAACTTTATACTTTT-TATACAATTTTGTCAAGAATC-GCAATAGAATGAATCGATTATTAT
* *
3091895 GAATTGTACGTGGTTTGCTCCGATAACTGTAGTAACATTTTGCAGCTCAAATTCAACAATTGA
64 GAATTGGACGTGGTTTGCTCCGATAACTGTAGTAACATTTCGCAGCTCAAATTCAACAATTGA
3091958 ATCATTGATG
Statistics
Matches: 112, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
144 4 0.04
145 107 0.96
146 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (145 bp):
ATTTAACTTTATACTTTTTATACAATTTTGTCAAGAATCGCAATAGAATGAATCGATTATTATGA
ATTGGACGTGGTTTGCTCCGATAACTGTAGTAACATTTCGCAGCTCAAATTCAACAATTGATTGG
GCGAGGGATGTTACA
Found at i:3093147 original size:12 final size:12
Alignment explanation
Indices: 3093130--3093159 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
3093120 TTTAATTTTT
3093130 TATATTTCTTTA
1 TATATTTCTTTA
3093142 TATATTTCTTTA
1 TATATTTCTTTA
3093154 TA-ATTT
1 TATATTT
3093160 TTTTTTTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (12 bp):
TATATTTCTTTA
Found at i:3093211 original size:19 final size:19
Alignment explanation
Indices: 3093182--3093244 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
3093172 TTTTTTAAAA
3093182 TATAAAT-TTTTGATTTTT
1 TATAAATATTTTGATTTTT
*
3093200 TATAAATATTTTGAATTTT
1 TATAAATATTTTGATTTTT
* *
3093219 TAAAAATTATTTTGTTTATTT
1 TATAAA-TATTTTGATT-TTT
3093240 TATAA
1 TATAA
3093245 TTTTTGTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 7 0.19
19 15 0.41
20 8 0.22
21 7 0.19
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
TATAAATATTTTGATTTTT
Found at i:3094966 original size:13 final size:15
Alignment explanation
Indices: 3094948--3094983 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
3094938 ATATAAAAAA
3094948 TTTATTTTT-ATTT-
1 TTTATTTTTAATTTG
3094961 TTTATTTTTAATTTG
1 TTTATTTTTAATTTG
3094976 TTT-TTTTT
1 TTTATTTTT
3094984 TCAAAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.43
14 9 0.43
15 3 0.14
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTATTTTTAATTTG
Found at i:3107272 original size:2 final size:2
Alignment explanation
Indices: 3107265--3107289 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3107255 CATAAACCCC
3107265 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3107290 GACTATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3111835 original size:265 final size:266
Alignment explanation
Indices: 3111347--3111883 Score: 1049
Period size: 265 Copynumber: 2.0 Consensus size: 266
3111337 CTTAAAAAAA
*
3111347 TTTTAAATTAATTAATATTACTTTTTTATTATCATTTTATTAATATTACAATAATTTATTGATAA
1 TTTTAAATTAATT-ATATTACTTTTTTATTATCATATTATTAATATTACAATAATTTATTGATAA
3111412 TGCTAAATTAATATTATAATAAACAATAAAAACAATATTTTAGGTTCCAAAGTTTCCCAAGCTCA
65 TGCTAAATTAATATTATAATAAACAATAAAAACAATATTTTAGGTTCCAAAGTTTCCCAAGCTCA
3111477 TGCAGCAACTCAATTGTTAAAAGTTTTAAAAACCATTTAAAAATAATAATAAATACTTTTATGTT
130 TGCAGCAACTCAATTGTTAAAAGTTTTAAAAACCATTTAAAAATAATAATAAATACTTTTATGTT
3111542 GATATTTTTTGTTCAAATCTGTAAAAAAATATTAAGGCATGATGAAAATTTTAGCCCTCAATGTT
195 GATATTTTTTGTTCAAATCTGTAAAAAAATATTAAGGCATGATGAAAATTTTAGCCCTCAATGTT
3111607 TACATGT
260 TACATGT
3111614 TTTTAAATTAATT-TATTACTTTTTTATTATCATATTATTAATATTACAATAATTTATTGATAAT
1 TTTTAAATTAATTATATTACTTTTTTATTATCATATTATTAATATTACAATAATTTATTGATAAT
3111678 GCTAAATTAATATTATAATAAACAATAAAAACAATATTTTAGGTTCCAAAGTTTCCCAAGCTCAT
66 GCTAAATTAATATTATAATAAACAATAAAAACAATATTTTAGGTTCCAAAGTTTCCCAAGCTCAT
3111743 GCAGCAACTCAATTGTTAAAAGTTTTAAAAACCATTTAAAAATAATAATAAATACTTTTATGTTG
131 GCAGCAACTCAATTGTTAAAAGTTTTAAAAACCATTTAAAAATAATAATAAATACTTTTATGTTG
3111808 ATATTTTTTGTTCAAATCTGTAAAAAAATATTAAGGCATGATGAAAATTTTAGCCCTCAATGTTT
196 ATATTTTTTGTTCAAATCTGTAAAAAAATATTAAGGCATGATGAAAATTTTAGCCCTCAATGTTT
3111873 ACATGT
261 ACATGT
3111879 TTTTA
1 TTTTA
3111884 TTATTTTTTA
Statistics
Matches: 269, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
265 256 0.95
267 13 0.05
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (266 bp):
TTTTAAATTAATTATATTACTTTTTTATTATCATATTATTAATATTACAATAATTTATTGATAAT
GCTAAATTAATATTATAATAAACAATAAAAACAATATTTTAGGTTCCAAAGTTTCCCAAGCTCAT
GCAGCAACTCAATTGTTAAAAGTTTTAAAAACCATTTAAAAATAATAATAAATACTTTTATGTTG
ATATTTTTTGTTCAAATCTGTAAAAAAATATTAAGGCATGATGAAAATTTTAGCCCTCAATGTTT
ACATGT
Found at i:3123324 original size:228 final size:228
Alignment explanation
Indices: 3122927--3123382 Score: 903
Period size: 228 Copynumber: 2.0 Consensus size: 228
3122917 ACAAACAATA
3122927 TGTGACTTAAACGAAATTTTAAACATATATTTCAGATCAAAATAAATTTAAATAAGTATAAAATA
1 TGTGACTTAAACGAAATTTTAAACATATATTTCAGATCAAAATAAATTTAAATAAGTATAAAATA
3122992 TATTAGTATCGTATTTAATTACTTAAGCATGACCAACAATTATCTAGTAATTATTATAAATAATA
66 TATTAGTATCGTATTTAATTACTTAAGCATGACCAACAATTATCTAGTAATTATTATAAATAATA
3123057 TTAATAAAATTTTTTTAAACTCGTTTGTATTTTTTTTTTTGTAAAAACAACTTATTATATTTAAT
131 TTAATAAAATTTTTTTAAACTCGTTTGTATTTTTTTTTTTGTAAAAACAACTTATTATATTTAAT
*
3123122 TCGAAAATAAAAAATAATTTAAAACTATCTTTT
196 TCGAAAATAAAAAATAATTTAAAACTATATTTT
3123155 TGTGACTTAAACGAAATTTTAAACATATATTTCAGATCAAAATAAATTTAAATAAGTATAAAATA
1 TGTGACTTAAACGAAATTTTAAACATATATTTCAGATCAAAATAAATTTAAATAAGTATAAAATA
3123220 TATTAGTATCGTATTTAATTACTTAAGCATGACCAACAATTATCTAGTAATTATTATAAATAATA
66 TATTAGTATCGTATTTAATTACTTAAGCATGACCAACAATTATCTAGTAATTATTATAAATAATA
3123285 TTAATAAAATTTTTTTAAACTCGTTTGTATTTTTTTTTTTGTAAAAACAACTTATTATATTTAAT
131 TTAATAAAATTTTTTTAAACTCGTTTGTATTTTTTTTTTTGTAAAAACAACTTATTATATTTAAT
3123350 TCGAAAATAAAAAATAATTTAAAACTATATTTT
196 TCGAAAATAAAAAATAATTTAAAACTATATTTT
3123383 AACTCTTAAC
Statistics
Matches: 227, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
228 227 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (228 bp):
TGTGACTTAAACGAAATTTTAAACATATATTTCAGATCAAAATAAATTTAAATAAGTATAAAATA
TATTAGTATCGTATTTAATTACTTAAGCATGACCAACAATTATCTAGTAATTATTATAAATAATA
TTAATAAAATTTTTTTAAACTCGTTTGTATTTTTTTTTTTGTAAAAACAACTTATTATATTTAAT
TCGAAAATAAAAAATAATTTAAAACTATATTTT
Found at i:3126886 original size:18 final size:19
Alignment explanation
Indices: 3126863--3126900 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
3126853 ATTCTAGGAA
3126863 TTTAAAAAAAATT-ATTTT
1 TTTAAAAAAAATTCATTTT
3126881 TTTAAAAAAAATTCATTTT
1 TTTAAAAAAAATTCATTTT
3126900 T
1 T
3126901 AGCCTCTTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTAAAAAAAATTCATTTT
Found at i:3135156 original size:17 final size:17
Alignment explanation
Indices: 3135134--3135187 Score: 108
Period size: 17 Copynumber: 3.2 Consensus size: 17
3135124 ATAGGCGAAA
3135134 AATGAATTCTAGTGTAG
1 AATGAATTCTAGTGTAG
3135151 AATGAATTCTAGTGTAG
1 AATGAATTCTAGTGTAG
3135168 AATGAATTCTAGTGTAG
1 AATGAATTCTAGTGTAG
3135185 AAT
1 AAT
3135188 TACACCATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.35
Consensus pattern (17 bp):
AATGAATTCTAGTGTAG
Found at i:3143045 original size:3 final size:3
Alignment explanation
Indices: 3143037--3143065 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
3143027 TTGAGAGGAA
3143037 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
3143066 AAGGGAAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:3151522 original size:21 final size:23
Alignment explanation
Indices: 3151493--3151535 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
3151483 AAGATTTCTA
*
3151493 TATTTATAT-AATTTT-TTAATT
1 TATTAATATAAATTTTGTTAATT
3151514 TATTAATATAAATTTTGTTAAT
1 TATTAATATAAATTTTGTTAAT
3151536 GCATTAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TATTAATATAAATTTTGTTAATT
Found at i:3151541 original size:23 final size:23
Alignment explanation
Indices: 3151497--3151548 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
3151487 TTTCTATATT
**
3151497 TATATAATTTTTTAATTTATTAA
1 TATATAATTTTTTAATGCATTAA
3151520 TATA-AATTTTGTTAATGCATTAA
1 TATATAATTTT-TTAATGCATTAA
3151543 TCATAT
1 T-ATAT
3151549 CATGCTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 6 0.25
23 15 0.62
24 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
TATATAATTTTTTAATGCATTAA
Found at i:3153675 original size:17 final size:17
Alignment explanation
Indices: 3153615--3153676 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
3153605 TTATACTCGT
3153615 AATAATTTAAACCTT-AA
1 AATAATTTAAA-CTTGAA
* *
3153632 AATCATTCAAA-TTCG-A
1 AATAATTTAAACTT-GAA
3153648 AATAATCTTAAACTTGAA
1 AATAAT-TTAAACTTGAA
3153666 AATAATTTAAA
1 AATAATTTAAA
3153677 ATTTTTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
15 2 0.06
16 6 0.17
17 19 0.53
18 9 0.25
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.34
Consensus pattern (17 bp):
AATAATTTAAACTTGAA
Found at i:3156538 original size:23 final size:23
Alignment explanation
Indices: 3156494--3156538 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
3156484 TTCAAATATT
*
3156494 TATATAAAATATGATCATATAAA
1 TATATAAAATATGATCACATAAA
*
3156517 TATATAAAA-ATGTTCAACATAA
1 TATATAAAATATGATC-ACATAA
3156539 TTACCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.56, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
TATATAAAATATGATCACATAAA
Found at i:3163457 original size:4 final size:4
Alignment explanation
Indices: 3163444--3163512 Score: 56
Period size: 4 Copynumber: 17.2 Consensus size: 4
3163434 GGGGGGGGAG
*
3163444 AGAA AAAA AGAA AGAA AG-A AG-A AG-A AGTAA AGGAAA AGAGA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG-AA A-G-AA AGA-A AGAA
*
3163489 A-AA AGAA AGAA AGAA GGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
3163513 AGGAAAGGAG
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
3 12 0.22
4 32 0.58
5 7 0.13
6 4 0.07
ACGTcount: A:0.72, C:0.00, G:0.26, T:0.01
Consensus pattern (4 bp):
AGAA
Found at i:3163469 original size:22 final size:22
Alignment explanation
Indices: 3163444--3163545 Score: 80
Period size: 22 Copynumber: 5.0 Consensus size: 22
3163434 GGGGGGGGAG
3163444 AGAAAAAAAGAAAGAAAGAAGA
1 AGAAAAAAAGAAAGAAAGAAGA
** *
3163466 AGAAGTAAAG-GA-AAAG-AGA
1 AGAAAAAAAGAAAGAAAGAAGA
3163485 AG-AAAAAAGAAAGAAAGAAG-
1 AGAAAAAAAGAAAGAAAGAAGA
*
3163505 -GAAAGAAAAGGAAAG-GAGAAG-
1 AGAAA-AAAA-GAAAGAAAGAAGA
3163526 AGAAAAAAA-AAAG-AAGAAGA
1 AGAAAAAAAGAAAGAAAGAAGA
3163546 GGGAAGGAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
18 5 0.08
19 16 0.25
20 10 0.16
21 16 0.25
22 17 0.27
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (22 bp):
AGAAAAAAAGAAAGAAAGAAGA
Found at i:3163495 original size:40 final size:40
Alignment explanation
Indices: 3163447--3163545 Score: 141
Period size: 39 Copynumber: 2.5 Consensus size: 40
3163437 GGGGGAGAGA
*
3163447 AAAAAAGAAAGAAAGAAGAAGAAGTAAAGGAAAAGAGAAG
1 AAAAAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAG
* *
3163487 AAAAAAGAAAGAAAGAAGGA-AAGAAAAGGAAAGGAGAAG
1 AAAAAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAG
*
3163526 AGAAAA-AAA-AAAGAAGAAGA
1 AAAAAAGAAAGAAAGAAGAAGA
3163546 GGGAAGGAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
37 8 0.15
38 4 0.08
39 22 0.42
40 19 0.36
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (40 bp):
AAAAAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGAGAAG
Found at i:3163499 original size:33 final size:33
Alignment explanation
Indices: 3163444--3163514 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
3163434 GGGGGGGGAG
*
3163444 AGAAAA-A-AAGAAAGAAAGAAG-AAGAAGTAA
1 AGAAAAGAGAAGAAAGAAAGAAGAAAGAAGGAA
3163474 AGGAAAAGAGAAGAAA-AAAGAAAGAAAGAAGGAA
1 A-GAAAAGAGAAGAAAGAAAG-AAGAAAGAAGGAA
3163508 AGAAAAG
1 AGAAAAG
3163515 GAAAGGAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
30 1 0.03
31 5 0.14
32 5 0.14
33 15 0.43
34 9 0.26
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (33 bp):
AGAAAAGAGAAGAAAGAAAGAAGAAAGAAGGAA
Found at i:3163505 original size:29 final size:27
Alignment explanation
Indices: 3163449--3163512 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
3163439 GGGAGAGAAA
*
3163449 AAAAGAAAGAAAGAAGAAGAAGTAAAGG
1 AAAAGAAAGAAAAAAGAAGAAG-AAAGG
3163477 AAAAGAGAAGAAAAAAGAAAGAA-AGAAGG
1 AAAAGA-AAGAAAAAAG-AAGAAGA-AAGG
3163506 -AAAGAAA
1 AAAAGAAA
3163513 AGGAAAGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 2 0.06
28 12 0.38
29 13 0.41
30 5 0.16
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.02
Consensus pattern (27 bp):
AAAAGAAAGAAAAAAGAAGAAGAAAGG
Found at i:3163520 original size:44 final size:40
Alignment explanation
Indices: 3163441--3163566 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 40
3163431 GGGGGGGGGG
* *
3163441 GAGAGAAAAAAAGAAAGAAAGAAGAAGAAGTAAAGGAAAA
1 GAGAAAAAAAAAGAAAGAAAGAAGAAGAAGGAAAGGAAAA
* * * *
3163481 GAGAAGAAAAAAGAAAGAAAGAAGGA-AAGAAAAGGAAAG
1 GAGAAAAAAAAAGAAAGAAAGAAGAAGAAGGAAAGGAAAA
* * *
3163520 GAGAAGAGAAAA-AAA-AAAGAAGAAG-AGGGAAGG--AA
1 GAGAAAAAAAAAGAAAGAAAGAAGAAGAAGGAAAGGAAAA
3163555 G-GAAAAAAAAAG
1 GAGAAAAAAAAAG
3163567 TAATTTTATT
Statistics
Matches: 72, Mismatches: 12, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
34 8 0.11
35 2 0.03
37 14 0.19
38 3 0.04
39 22 0.31
40 23 0.32
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (40 bp):
GAGAAAAAAAAAGAAAGAAAGAAGAAGAAGGAAAGGAAAA
Found at i:3163553 original size:32 final size:29
Alignment explanation
Indices: 3163507--3163565 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 29
3163497 GAAAGAAGGA
3163507 AAGAAAAGGAAAGGAGAAGAGAAAAAAAAAAG
1 AAGAAAAGGAAA-G-GAAG-GAAAAAAAAAAG
* *
3163539 AAGAAGAGGGAAGGAAGGAAAAAAAAA
1 AAGAAAAGGAAAGGAAGGAAAAAAAAA
3163566 GTAATTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.40
30 4 0.16
31 1 0.04
32 10 0.40
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (29 bp):
AAGAAAAGGAAAGGAAGGAAAAAAAAAAG
Found at i:3163806 original size:4 final size:4
Alignment explanation
Indices: 3163797--3163888 Score: 73
Period size: 4 Copynumber: 22.5 Consensus size: 4
3163787 ATAAAATGAC
* *
3163797 AAAG AAAG AAAG AAAA AAAG AAAG AAAGG AGAGG AAAG AAAG -AA- AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAA-G A-AAG AAAG AAAG AAAG AAAG
* * *
3163845 AAGG AAAG AAAATG AAAG -GAG AAGAG AAAC AAAG AAAG AAAG AA
1 AAAG AAAG -AAA-G AAAG AAAG AA-AG AAAG AAAG AAAG AAAG AA
3163889 GAAGAAGAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
3 6 0.09
4 48 0.69
5 14 0.20
6 2 0.03
ACGTcount: A:0.71, C:0.01, G:0.27, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:3163834 original size:30 final size:30
Alignment explanation
Indices: 3163800--3163886 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 30
3163790 AAATGACAAA
*
3163800 GAAAGAAAGAAAAAAAGAAAGAAAGGAGAG
1 GAAAGAAAGAAAAAAAGAAAGAAAGGAAAG
*
3163830 GAAAGAAAGAAAAAGAAGGAAAGAAAATGAAAG
1 GAAAGAAAGAAAAA-AA-GAAAG-AAAGGAAAG
*
3163863 G--AGAAGAGAAACAAAGAAAGAAAG
1 GAAAGAA-AGAAAAAAAGAAAGAAAG
3163887 AAGAAGAAGA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
29 3 0.06
30 19 0.39
31 8 0.16
32 11 0.22
33 8 0.16
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (30 bp):
GAAAGAAAGAAAAAAAGAAAGAAAGGAAAG
Found at i:3163836 original size:18 final size:19
Alignment explanation
Indices: 3163797--3163882 Score: 83
Period size: 18 Copynumber: 4.6 Consensus size: 19
3163787 ATAAAATGAC
*
3163797 AAAGAAAGAAA-GA-AA-A
1 AAAGAAAGAAAGGAGAAGG
3163813 AAAGAAAGAAAGGAG-AGG
1 AAAGAAAGAAAGGAGAAGG
*
3163831 AAAGAAAGAAA-AAGAAGG
1 AAAGAAAGAAAGGAGAAGG
3163849 AAAGAAAATGAAAGGAGAAGAG
1 AAAG-AAA-GAAAGGAGAAG-G
*
3163871 AAACAAAGAAAG
1 AAAGAAAGAAAG
3163883 AAAGAAGAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
16 11 0.19
17 5 0.09
18 18 0.31
19 3 0.05
20 9 0.16
21 8 0.14
22 4 0.07
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.01
Consensus pattern (19 bp):
AAAGAAAGAAAGGAGAAGG
Found at i:3163879 original size:44 final size:42
Alignment explanation
Indices: 3163801--3163972 Score: 139
Period size: 43 Copynumber: 4.2 Consensus size: 42
3163791 AATGACAAAG
* **
3163801 AAAGAAAGAAA-AAAAGAAA-GA-AAGGAGAGGAAAGAAAGAA
1 AAAGAAGGAAAGAAAAGAAAGGAGAA-GAGAAAAAAGAAAGAA
3163841 AAAGAAGGAAAGAAAATGAAAGGAGAAGAGAAACAAAGAAAGAA
1 AAAGAAGGAAAGAAAA-GAAAGGAGAAGAGAAA-AAAGAAAGAA
* * *
3163885 AGAAGAA-G-AAGAAAAGGAAAAGTG-A-AGAAAAACGAAAG--
1 A-AAGAAGGAAAGAAAA-GAAAGGAGAAGAGAAAAAAGAAAGAA
*
3163923 AAAGAAGGAAATAAAAGTAAAGGAGAAGAG-AAAAAGAAAAGAA
1 AAAGAAGGAAAGAAAAG-AAAGGAGAAGAGAAAAAAG-AAAGAA
*
3163966 GAAGAAG
1 AAAGAAG
3163973 AGGGAAGGAA
Statistics
Matches: 106, Mismatches: 12, Indels: 25
0.74 0.08 0.17
Matches are distributed among these distances:
37 5 0.05
38 3 0.03
39 11 0.10
40 23 0.22
41 15 0.14
42 5 0.05
43 25 0.24
44 14 0.13
45 5 0.05
ACGTcount: A:0.69, C:0.01, G:0.28, T:0.02
Consensus pattern (42 bp):
AAAGAAGGAAAGAAAAGAAAGGAGAAGAGAAAAAAGAAAGAA
Found at i:3163945 original size:82 final size:78
Alignment explanation
Indices: 3163795--3163973 Score: 206
Period size: 82 Copynumber: 2.3 Consensus size: 78
3163785 AAATAAAATG
* * *
3163795 ACAAAGAAAGAAAGAA-AAAAAGAAAGAAAGGAGAGGAAAGAAAGAAAAAGAAGGAAAGAAAATG
1 ACAAAGAAAGAAAGAAGAAGAAGAAAGAAAAGAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAATG
3163859 AAAGGAGAAGAGAA
66 AAAGGAGAAGAG-A
* * *
3163873 ACAAAGAAAGAAAGAAGAAGAAGAAAAGGAAAAGTGAAGAAA-AACGAAAGAAAGAAGGAAATAA
1 ACAAAGAAAGAAAGAAGAAGAAG-AAA-GAAAAGAGAAGAAAGAAAG-AA-AAAGAAGGAAAGAA
3163937 AA-GTAAAGGAGAAGAGA
62 AATG-AAAGGAGAAGAGA
3163954 A-AAAGAAA-AGAAGAAGAAGA
1 ACAAAGAAAGA-AAGAAGAAGA
3163974 GGGAAGGAAG
Statistics
Matches: 88, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
78 16 0.18
79 6 0.07
80 23 0.26
81 16 0.18
82 27 0.31
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (78 bp):
ACAAAGAAAGAAAGAAGAAGAAGAAAGAAAAGAGAAGAAAGAAAGAAAAAGAAGGAAAGAAAATG
AAAGGAGAAGAGA
Found at i:3169639 original size:17 final size:18
Alignment explanation
Indices: 3169603--3169641 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
3169593 TTACTAAGTT
3169603 ACATCTTAATACATTAATA
1 ACATCTTAATACA-TAATA
3169622 ACATCTTAATAC-TAATA
1 ACATCTTAATACATAATA
3169639 ACA
1 ACA
3169642 ACAACAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
19 12 0.60
ACGTcount: A:0.49, C:0.18, G:0.00, T:0.33
Consensus pattern (18 bp):
ACATCTTAATACATAATA
Found at i:3170000 original size:28 final size:28
Alignment explanation
Indices: 3169968--3170039 Score: 110
Period size: 28 Copynumber: 2.6 Consensus size: 28
3169958 TTTGTTTTTT
3169968 TATATATTTTGGTAAATAAAAAAAATTA
1 TATATATTTTGGTAAATAAAAAAAATTA
*
3169996 TATATATTTTGGTAAATAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAATTA
* *
3170024 TA-ACATTTTAGTAAAT
1 TATATATTTTGGTAAAT
3170040 TTTTTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 12 0.29
28 29 0.71
ACGTcount: A:0.50, C:0.01, G:0.08, T:0.40
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAATTA
Found at i:3170025 original size:26 final size:27
Alignment explanation
Indices: 3169967--3170039 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
3169957 TTTTGTTTTT
*
3169967 TTATATATTTTGGTAAATAAAAAAAAT
1 TTATATATTTTGGTAAATAAAAAAAAG
3169994 TATATATATTTTGGTAAAT-AAAAAAAG
1 T-TATATATTTTGGTAAATAAAAAAAAG
* *
3170021 TTATAACATTTTAGTAAAT
1 TTAT-ATATTTTGGTAAAT
3170040 TTTTTTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
27 21 0.51
28 17 0.41
ACGTcount: A:0.49, C:0.01, G:0.08, T:0.41
Consensus pattern (27 bp):
TTATATATTTTGGTAAATAAAAAAAAG
Found at i:3172739 original size:24 final size:25
Alignment explanation
Indices: 3172712--3172759 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
3172702 TACTCACTTT
3172712 TATTATTTAT-TAACTAATAAAAAA
1 TATTATTTATATAACTAATAAAAAA
* *
3172736 TATTATTTTTATAATTAATAAAAA
1 TATTATTTATATAACTAATAAAAA
3172760 TTTTCAAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
TATTATTTATATAACTAATAAAAAA
Found at i:3175517 original size:124 final size:124
Alignment explanation
Indices: 3175087--3175697 Score: 848
Period size: 124 Copynumber: 4.9 Consensus size: 124
3175077 CCCAAACATG
* * * *
3175087 CTACTCTAGCAAAAACGCGTCCACGAGGGCGCGATTTTCACAAATTCTTTTCAAATAGCATCCTG
1 CTACTGTAGCAATAGCGCGTCCACGAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCCTG
* *
3175152 CTAGAAGCGATTTTATACTATTTGGTCAGAAACGTC-AAAAAAATTATTTCATCCATGAC
65 CTAGAAGAGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCATCCATGAC
* * * * *
3175211 CTACTGTAGCAAAAGCGTGTCAACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAATAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
3175276 TAGAAGATATTTTATACTATTTGCTCAGAAACGTC-AAAAAAATTATTTCATCTATGAC
66 TAGAAGAGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCATCCATGAC
** * *
3175334 CTACTGTAGCAATAGCATGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCGTGC
1 CTACTGTAGCAATAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
3175399 TAGAAGAGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATATTTCATCCATGAG
66 TAGAAGAGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCATCCATGAC
* * * * *
3175458 CTACTGTAGCAATATCGCGTCCATGAGGCCGTGATTTCACAAATTCTTCTCAAATAGCATCCTTC
1 CTACTGTAGCAATAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
3175523 TAGAAGAGATTTTATACTATTTGCTCAGAAACGTTAAAAAAAATTATTTCATCCATGAC
66 TAGAAGAGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCATCCATGAC
* * * * **
3175582 CTACTGTAGTAATAGCGCGTCCACGAGGCCGCAATTTCACAAATTTTTCTCAAATAGCATCCTAT
1 CTACTGTAGCAATAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * * * **
3175647 TTGAAGCGATTTTATACTGTTTGATCATAAACGTCAACTCAAAATTATTTC
66 TAGAAGAGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTC
3175698 GTCCCGGACC
Statistics
Matches: 438, Mismatches: 47, Indels: 3
0.90 0.10 0.01
Matches are distributed among these distances:
123 177 0.40
124 250 0.57
125 11 0.03
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAATAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGAGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCATCCATGAC
Found at i:3175541 original size:247 final size:248
Alignment explanation
Indices: 3175104--3175683 Score: 851
Period size: 247 Copynumber: 2.3 Consensus size: 248
3175094 AGCAAAAACG
*
3175104 CGTCCACGAGGGCGCGATTTTCACAAATTCTTTTCAAATAGCATCCTGCTAGAAGCGATTTTATA
1 CGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATA
* * *
3175169 CTATTTGGTCAGAAACGTC-AAAAAAATTATTTCATCCATGACCTACTGTAGCAAAAGCGTGTCA
65 CTATTTGATCAGAAACGTCAAAAAAAAATATTTCATCCATGACCTACTGTAGCAAAAGCGCGTCA
* * *
3175233 ACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCTTGCTAGAAGATATTTTATACTATTT
130 ACGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGCTAGAAGAGATTTTATACTATTT
* *
3175298 GCTCAGAAACG-TCAAAAAAATTATTTCATCTATGACCTACTGTAGCAATAGCA
195 GCTCAGAAACGTTAAAAAAAATTATTTCATCCATGACCTACTGTAGCAATAGCA
* * *
3175351 TGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCGTGCTAGAAGAGATTTTATAC
1 CGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATAC
* * * * *
3175416 TATTTGCTCAGAAACGTCAAAAAAAAATATTTCATCCATGAGCTACTGTAGCAATATCGCGTCCA
66 TATTTGATCAGAAACGTCAAAAAAAAATATTTCATCCATGACCTACTGTAGCAAAAGCGCGTCAA
* *
3175481 TGAGGCCGTGATTTCACAAATTCTTCTCAAATAGCATCCTT-CTAGAAGAGATTTTATACTATTT
131 CGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCAT-CTTGCTAGAAGAGATTTTATACTATTT
* *
3175545 GCTCAGAAACGTTAAAAAAAATTATTTCATCCATGACCTACTGTAGTAATAGCG
195 GCTCAGAAACGTTAAAAAAAATTATTTCATCCATGACCTACTGTAGCAATAGCA
* * * * ** *
3175599 CGTCCACGAGGCCGCAATTTCACAAATTTTTCTCAAATAGCATCCTATTTGAAGCGATTTTATAC
1 CGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATAC
* *
3175664 TGTTTGATCATAAACGTCAA
66 TATTTGATCAGAAACGTCAA
3175684 CTCAAAATTA
Statistics
Matches: 297, Mismatches: 33, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
246 58 0.20
247 126 0.42
248 113 0.38
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (248 bp):
CGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATAC
TATTTGATCAGAAACGTCAAAAAAAAATATTTCATCCATGACCTACTGTAGCAAAAGCGCGTCAA
CGAGGCCGCGATTTCACAAATTCTTCTCAAATAGCATCTTGCTAGAAGAGATTTTATACTATTTG
CTCAGAAACGTTAAAAAAAATTATTTCATCCATGACCTACTGTAGCAATAGCA
Found at i:3181200 original size:18 final size:18
Alignment explanation
Indices: 3181177--3181212 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
3181167 AAGCATGACA
3181177 TAGCTTTGTGCTTCTTAG
1 TAGCTTTGTGCTTCTTAG
3181195 TAGCTTTGTGCTTCTTAG
1 TAGCTTTGTGCTTCTTAG
3181213 CACACTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.22, T:0.50
Consensus pattern (18 bp):
TAGCTTTGTGCTTCTTAG
Found at i:3188690 original size:8 final size:8
Alignment explanation
Indices: 3188663--3188700 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
3188653 TTAAAAAGCG
3188663 TAATTTTA
1 TAATTTTA
* *
3188671 TTATTATA
1 TAATTTTA
3188679 TAATTTTA
1 TAATTTTA
3188687 TAA-TTTA
1 TAATTTTA
3188694 TAATTTT
1 TAATTTT
3188701 TAAAGCGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
7 7 0.28
8 18 0.72
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (8 bp):
TAATTTTA
Found at i:3188702 original size:16 final size:16
Alignment explanation
Indices: 3188663--3188700 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
3188653 TTAAAAAGCG
*
3188663 TAATTTTATTATTATA
1 TAATTTTATAATTATA
3188679 TAATTTTATAATT-TA
1 TAATTTTATAATTATA
3188694 TAATTTT
1 TAATTTT
3188701 TAAAGCGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TAATTTTATAATTATA
Found at i:3192045 original size:3 final size:3
Alignment explanation
Indices: 3192037--3192091 Score: 60
Period size: 3 Copynumber: 18.3 Consensus size: 3
3192027 TTAGTTTTTG
*
3192037 TTA TTA TTA TTA TTA TT- TCTA TTA TTA TTA TTA -TA TTA TATA GTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA T-TA TTA
*
3192082 TTA TAA TTA T
1 TTA TTA TTA T
3192092 ACTTACATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 3 0.07
3 38 0.86
4 3 0.07
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:3198801 original size:45 final size:45
Alignment explanation
Indices: 3198746--3199000 Score: 189
Period size: 45 Copynumber: 5.7 Consensus size: 45
3198736 GTATTGGCGT
** *
3198746 GAAGTAGGTCAAAGATGGTAGATCTTGTCTTCCCATACAGGTGGC
1 GAAGTAGGTCAAAGAAAGCAGATCTTGTCTTCCCATACAGGTGGC
* * ** *
3198791 GAAGTAGGTCAAAGAAAACAGATCTTATCTT--CATGTA-TTGGC
1 GAAGTAGGTCAAAGAAAGCAGATCTTGTCTTCCCATACAGGTGGC
* ** * *
3198833 ATGAAGTAGATTGAGGAAAACAGATCTTGTCTTCCCATACAGGTGGC
1 --GAAGTAGGTCAAAGAAAGCAGATCTTGTCTTCCCATACAGGTGGC
** * * ** *
3198880 GAAGTAGACCGAAGAAAGCAGATATTGTCTT--CATGTA-TTGGC
1 GAAGTAGGTCAAAGAAAGCAGATCTTGTCTTCCCATACAGGTGGC
* ** *
3198922 GTGAAGCAGGTCAAAGATGGTAGATCTTGTCTTCCCATACAGGTGGC
1 --GAAGTAGGTCAAAGAAAGCAGATCTTGTCTTCCCATACAGGTGGC
* * *
3198969 GAAGTAGGCCAAAAAAAGTAGATCTTGTCTTC
1 GAAGTAGGTCAAAGAAAGCAGATCTTGTCTTC
3199001 ATGTATTGGC
Statistics
Matches: 160, Mismatches: 40, Indels: 20
0.73 0.18 0.09
Matches are distributed among these distances:
42 8 0.05
43 8 0.05
44 49 0.31
45 79 0.49
46 8 0.05
47 8 0.05
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (45 bp):
GAAGTAGGTCAAAGAAAGCAGATCTTGTCTTCCCATACAGGTGGC
Found at i:3199036 original size:89 final size:89
Alignment explanation
Indices: 3198716--3199038 Score: 423
Period size: 89 Copynumber: 3.6 Consensus size: 89
3198706 AGGTTGGAAG
* * * *
3198716 AAAGCAAATCTTGTCTTCATGTATTGGCGTGAAGTAGGTCAAAGATGGTAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCA
*
3198781 TACAGGTGGCGAAGTAGGTCAAAGA
66 TACAGGTGGCGAAGTAGGCCAAA-A
* * ** * * *
3198806 AAA-CAGATCTTATCTTCATGTATTGGCATGAAGTAGATTGAGGAAAACAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCA
* * *
3198870 TACAGGTGGCGAAGTAGACCGAAG
66 TACAGGTGGCGAAGTAGGCCAAAA
* * * * *
3198894 AAAGCAGATATTGTCTTCATGTATTGGCGTGAAGCAGGTCAAAGATGGTAGATCTTGTCTTCCCA
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCA
3198959 TACAGGTGGCGAAGTAGGCCAAAA
66 TACAGGTGGCGAAGTAGGCCAAAA
* * *
3198983 AAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAATACAGCAGATCTT
1 AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTT
3199039 ATCTCTCTGA
Statistics
Matches: 194, Mismatches: 38, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
88 3 0.02
89 188 0.97
90 3 0.02
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (89 bp):
AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCA
TACAGGTGGCGAAGTAGGCCAAAA
Found at i:3200506 original size:3 final size:3
Alignment explanation
Indices: 3200498--3200543 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
3200488 TTAGTTTTTG
* *
3200498 TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TATA GTA TTA TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
3200543 T
1 T
3200544 ACTTACATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:3207984 original size:42 final size:42
Alignment explanation
Indices: 3207938--3208081 Score: 155
Period size: 43 Copynumber: 3.4 Consensus size: 42
3207928 AGACTAAGAC
*
3207938 CTTTAGCGGCGCTTTAGTGGAAGTGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGCTTTTGTGGAAGTGCCGCTAAAGATCAGGGT
* * * *
3207980 CTTTAGTGGCG-TTTTTTCGAGAGTCGCCGCTGAAGATCAGGGT
1 CTTTAGCGGCGCTTTTGTGGA-AGT-GCCGCTAAAGATCAGGGT
* * * * * *
3208023 CTTTAACGGCGTTTTTGCGACAAGCGCCGCTAAAGATTAGGGT
1 CTTTAGCGGCGCTTTTGTG-GAAGTGCCGCTAAAGATCAGGGT
3208066 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGCTTTT
3208082 CCCACAAACG
Statistics
Matches: 82, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
41 6 0.07
42 13 0.16
43 56 0.68
44 6 0.07
45 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTTGTGGAAGTGCCGCTAAAGATCAGGGT
Found at i:3208010 original size:43 final size:43
Alignment explanation
Indices: 3207962--3208098 Score: 161
Period size: 43 Copynumber: 3.2 Consensus size: 43
3207952 TAGTGGAAGT
* * *
3207962 GCCGCTAAAGATCAGGGTCTTTAGTGGCGTTTTTTCGA-GAGTC
1 GCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTGCGACAAG-C
* *
3208005 GCCGCTGAAGATCAGGGTCTTTAACGGCGTTTTTGCGACAAGC
1 GCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTGCGACAAGC
* * * * *
3208048 GCCGCTAAAGATTAGGGTCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTGCGACAAGC
3208091 GCCG-TAAA
1 GCCGCTAAA
3208099 AGACCCTGAT
Statistics
Matches: 81, Mismatches: 12, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
42 4 0.05
43 75 0.93
44 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGATCAGGGTCTTTAGCGGCGTTTTTGCGACAAGC
Found at i:3208101 original size:43 final size:43
Alignment explanation
Indices: 3207962--3208272 Score: 156
Period size: 43 Copynumber: 7.2 Consensus size: 43
3207952 TAGTGGAAGT
** * * * * **
3207962 GCCGCTAAAGATCAGGGTCTTTAGTGGCGTTTTTTCGAGAGTC
1 GCCGCTAAAGATCAGGGTCTTTAACGGCGCTTTTCCCACAAAC
* * * * *
3208005 GCCGCTGAAGATCAGGGTCTTTAACGGCGTTTTTGCGACAAGC
1 GCCGCTAAAGATCAGGGTCTTTAACGGCGCTTTTCCCACAAAC
* *
3208048 GCCGCTAAAGATTAGGGTCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGATCAGGGTCTTTAACGGCGCTTTTCCCACAAAC
* ** * * * * ***
3208091 GCCG-TAAAAGACCCTGATCTATAGCGGCGCCTCGACCACAAAC
1 GCCGCT-AAAGATCAGGGTCTTTAACGGCGCTTTTCCCACAAAC
* **** * *
3208134 GCCACTAAAGATCCTAATCTTTAGCGGCGCTTTCCCCACAAAC
1 GCCGCTAAAGATCAGGGTCTTTAACGGCGCTTTTCCCACAAAC
* * * * ** * *
3208177 GCCGCTAAAGACCATGATCTTATAGCGGCGCTTCGCGCAAAAAC
1 GCCGCTAAAGATCAGGGTCTT-TAACGGCGCTTTTCCCACAAAC
* **** * * * *
3208221 GCCGCTAAAGACCCTAATCTATAGCGGCGCTTTTACCAAAAAC
1 GCCGCTAAAGATCAGGGTCTTTAACGGCGCTTTTCCCACAAAC
3208264 GCCGCTAAA
1 GCCGCTAAA
3208273 TTTGGCAGAT
Statistics
Matches: 218, Mismatches: 47, Indels: 6
0.80 0.17 0.02
Matches are distributed among these distances:
42 1 0.00
43 180 0.83
44 37 0.17
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (43 bp):
GCCGCTAAAGATCAGGGTCTTTAACGGCGCTTTTCCCACAAAC
Found at i:3208250 original size:87 final size:86
Alignment explanation
Indices: 3208069--3208272 Score: 286
Period size: 87 Copynumber: 2.4 Consensus size: 86
3208059 TTAGGGTCTT
* *
3208069 TAGCGGCGCTTTTCCCACAAACGCCG-TAAAAGACCCTGATCTATAGCGGCGCCTCGACCACAAA
1 TAGCGGCGCTTTTCCCACAAACGCCGCT-AAAGACCATGATCTATAGCGGCGCCTCGACCAAAAA
* *
3208133 CGCCACTAAAGATCCTAATCTT
65 CGCCACTAAAGACCCTAATCTA
* *
3208155 TAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGATCTTATAGCGGCGCTTCG-CGCAAAA
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATC-TATAGCGGCGCCTCGAC-CAAAA
*
3208219 ACGCCGCTAAAGACCCTAATCTA
64 ACGCCACTAAAGACCCTAATCTA
* *
3208242 TAGCGGCGCTTTTACCAAAAACGCCGCTAAA
1 TAGCGGCGCTTTTCCCACAAACGCCGCTAAA
3208273 TTTGGCAGAT
Statistics
Matches: 105, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
86 38 0.36
87 67 0.64
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (86 bp):
TAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGATCTATAGCGGCGCCTCGACCAAAAAC
GCCACTAAAGACCCTAATCTA
Found at i:3208607 original size:21 final size:21
Alignment explanation
Indices: 3208578--3208665 Score: 104
Period size: 21 Copynumber: 4.2 Consensus size: 21
3208568 TTTGACGCTG
*
3208578 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
**
3208599 CTCTACTTCCCTCGCTATAGC
1 CTCTACTTCCCTCGCTGCAGC
* *
3208620 GTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTGCAGC
* * *
3208641 CTTTACTTCTCTCGCTGCCGC
1 CTCTACTTCCCTCGCTGCAGC
3208662 CTCT
1 CTCT
3208666 GTTTTTCTTG
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.07, C:0.44, G:0.16, T:0.33
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTGCAGC
Found at i:3208751 original size:66 final size:66
Alignment explanation
Indices: 3208675--3208826 Score: 200
Period size: 66 Copynumber: 2.3 Consensus size: 66
3208665 TGTTTTTCTT
* *
3208675 GCTGCCGCATCTGCTTTAAGCTGCTA-CTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCT
1 GCTGCTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACCACAGCTTCT
3208738 CTC
64 CTC
* *
3208741 GCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCACAGCTTCTCT
1 GCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCACAGCTTCTCT
3208806 C
66 C
* * * *
3208807 GATGTTGCCTCCGCTTTAAG
1 GCTGCTGCATCTGCTTTAAG
3208827 TTGTGTAATT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 2 0.03
66 70 0.92
67 4 0.05
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.38
Consensus pattern (66 bp):
GCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCACAGCTTCTCT
C
Found at i:3218303 original size:39 final size:39
Alignment explanation
Indices: 3218249--3218327 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
3218239 TAATGATAAA
*
3218249 TTTAGTCCTCGATATTTACATTTTTCTATCAAATTGGCC
1 TTTAGTCCTCGATATTTACATTTTTCTACCAAATTGGCC
*
3218288 TTTAGTCCTCGATATTTACATTTTTCTGCCAAATTGGCC
1 TTTAGTCCTCGATATTTACATTTTTCTACCAAATTGGCC
3218327 T
1 T
3218328 CTGTTCTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (39 bp):
TTTAGTCCTCGATATTTACATTTTTCTACCAAATTGGCC
Found at i:3220641 original size:18 final size:19
Alignment explanation
Indices: 3220610--3220646 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3220600 ATTATCGATA
*
3220610 AAATTTTAAAATATTAAAT
1 AAATTTTAAAATATAAAAT
3220629 AAATTTT-AAATATAAAAT
1 AAATTTTAAAATATAAAAT
3220647 TATTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATTTTAAAATATAAAAT
Found at i:3221452 original size:19 final size:19
Alignment explanation
Indices: 3221416--3221452 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
3221406 TAATTAGGCT
* *
3221416 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
3221435 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
3221453 GAAAAAGGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:3222272 original size:49 final size:49
Alignment explanation
Indices: 3222200--3222306 Score: 144
Period size: 49 Copynumber: 2.2 Consensus size: 49
3222190 TTTAAAAGTC
* * * *
3222200 TTTAAAATTTATTGTCAAACATGATGTG-CTATATACAATTAACACAGTA
1 TTTAAAAATTATCGTCAAACATGATG-GCCCATAAACAATTAACACAGTA
* *
3222249 TTTAAAAATTATCGTCAAACATGATGGCCCATAAACAATTAACACGGTG
1 TTTAAAAATTATCGTCAAACATGATGGCCCATAAACAATTAACACAGTA
3222298 TTTAAAAAT
1 TTTAAAAAT
3222307 CATCTTCATG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
48 1 0.02
49 50 0.98
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (49 bp):
TTTAAAAATTATCGTCAAACATGATGGCCCATAAACAATTAACACAGTA
Found at i:3229023 original size:14 final size:14
Alignment explanation
Indices: 3229004--3229030 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3228994 TTTCATCCGT
3229004 TTTGGGCCTCTGTA
1 TTTGGGCCTCTGTA
3229018 TTTGGGCCTCTGT
1 TTTGGGCCTCTGT
3229031 TCATTTTGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.22, G:0.30, T:0.44
Consensus pattern (14 bp):
TTTGGGCCTCTGTA
Found at i:3234024 original size:32 final size:31
Alignment explanation
Indices: 3233986--3234051 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
3233976 ACATTTGTAA
* *
3233986 TATTTA-TATTTAATTAGTAAATATATATTTAT
1 TATTTATTA-TTAATAAGTAAA-AGATATTTAT
*
3234018 TATTTATTATTACTAAGTAAAAGATATTTAT
1 TATTTATTATTAATAAGTAAAAGATATTTAT
3234049 TAT
1 TAT
3234052 AATTAGTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 12 0.40
32 16 0.53
33 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (31 bp):
TATTTATTATTAATAAGTAAAAGATATTTAT
Found at i:3235388 original size:21 final size:21
Alignment explanation
Indices: 3235355--3235394 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3235345 GTTGGAATGT
*
3235355 GAATGATAAATTGGTTGGTAG
1 GAATAATAAATTGGTTGGTAG
*
3235376 GAATAATATATTGGTTGGT
1 GAATAATAAATTGGTTGGT
3235395 TGGCATGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.38
Consensus pattern (21 bp):
GAATAATAAATTGGTTGGTAG
Found at i:3239990 original size:14 final size:15
Alignment explanation
Indices: 3239973--3240001 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3239963 AAATTGAAAT
3239973 AAAGAAAGAA-AGCA
1 AAAGAAAGAATAGCA
3239987 AAAGAAAGAATAGCA
1 AAAGAAAGAATAGCA
3240002 GAAGCCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
AAAGAAAGAATAGCA
Found at i:3240445 original size:17 final size:18
Alignment explanation
Indices: 3240423--3240456 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
3240413 TAAATGAGTT
3240423 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
3240440 AATTAGGATATAAATTG
1 AATTAGGATATAAATTG
3240457 AATAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:3241142 original size:16 final size:17
Alignment explanation
Indices: 3241117--3241150 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
3241107 AAAATTGATT
3241117 TTGAAATGAATGA-GAA
1 TTGAAATGAATGATGAA
*
3241133 TTGAATTGAATGATGAA
1 TTGAAATGAATGATGAA
3241150 T
1 T
3241151 GTGTATGTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.24, T:0.32
Consensus pattern (17 bp):
TTGAAATGAATGATGAA
Found at i:3241234 original size:17 final size:18
Alignment explanation
Indices: 3241212--3241245 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3241202 AAAGTGATAT
3241212 TGAATTG-GAAATGAAAG
1 TGAATTGAGAAATGAAAG
*
3241229 TGAATTGAGAATTGAAA
1 TGAATTGAGAAATGAAA
3241246 TACCCTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (18 bp):
TGAATTGAGAAATGAAAG
Found at i:3241359 original size:21 final size:21
Alignment explanation
Indices: 3241330--3241382 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
3241320 GGCTTTGCGT
3241330 ATTTCAGGCACCTCGTGTGTC
1 ATTTCAGGCACCTCGTGTGTC
3241351 ATATT-AGGCACCTCGTGTGTC
1 AT-TTCAGGCACCTCGTGTGTC
3241372 ATTTCAGGCAC
1 ATTTCAGGCAC
3241383 TTATGTGTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.32
Consensus pattern (21 bp):
ATTTCAGGCACCTCGTGTGTC
Found at i:3243834 original size:10 final size:10
Alignment explanation
Indices: 3243805--3243846 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
3243795 TGTATCATAT
3243805 ATATTTAAAA
1 ATATTTAAAA
*
3243815 ATTATATAAAA
1 A-TATTTAAAA
3243826 ATATTTAAAA
1 ATATTTAAAA
3243836 A-ATTTTAAAA
1 ATA-TTTAAAA
3243846 A
1 A
3243847 AATTAAAACG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 1 0.04
10 18 0.64
11 9 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATTTAAAA
Found at i:3243846 original size:21 final size:22
Alignment explanation
Indices: 3243805--3243849 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
3243795 TGTATCATAT
3243805 ATATTT-AAAAATTATATAAAA
1 ATATTTAAAAAATTATATAAAA
* *
3243826 ATATTTAAAAAATTTTAAAAAA
1 ATATTTAAAAAATTATATAAAA
3243848 AT
1 AT
3243850 TAAAACGAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATATTTAAAAAATTATATAAAA
Found at i:3245893 original size:2 final size:2
Alignment explanation
Indices: 3245888--3245926 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
3245878 GAAAAAAAGG
*
3245888 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3245927 ATTGTTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3246023 original size:26 final size:27
Alignment explanation
Indices: 3245994--3246106 Score: 102
Period size: 28 Copynumber: 4.0 Consensus size: 27
3245984 TATGGAAGTA
3245994 TTACAAAGTCAGCTTGTGTGAGC-ATT
1 TTACAAAGTCAGCTTGTGTGAGCAATT
** *
3246020 TTACAAAGTCAGGATGTGTGAACAATTCCAT
1 TTACAAAGTCAGCTTGTGTGAGCAA-T---T
* *
3246051 TATATAAAGTTAGCTTGTGTGAGCAATT
1 T-TACAAAGTCAGCTTGTGTGAGCAATT
* *
3246079 ATTACAAAGTCAACTTGTGTGAACAATT
1 -TTACAAAGTCAGCTTGTGTGAGCAATT
3246107 CTAATATAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
26 20 0.29
27 1 0.01
28 24 0.35
29 1 0.01
31 3 0.04
32 19 0.28
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (27 bp):
TTACAAAGTCAGCTTGTGTGAGCAATT
Found at i:3246114 original size:58 final size:58
Alignment explanation
Indices: 3245998--3246131 Score: 173
Period size: 58 Copynumber: 2.3 Consensus size: 58
3245988 GAAGTATTAC
** *
3245998 AAAGTCAGCTTGTGTGAGCATTTTACAAAGTCAGGATGTGTGAACAATTCCATTATAT
1 AAAGTCAGCTTGTGTGAGCATTTTACAAAGTCAACATGTGTGAACAATTCCATAATAT
* *
3246056 AAAGTTAGCTTGTGTGAGCAATTATTACAAAGTCAACTTGTGTGAACAATT-C-TAATAT
1 AAAGTCAGCTTGTGTGAGC-ATT-TTACAAAGTCAACATGTGTGAACAATTCCATAATAT
* *
3246114 AAAATCAACTTGTGTGAG
1 AAAGTCAGCTTGTGTGAG
3246132 AAAGTTCGTT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
58 38 0.58
59 4 0.06
60 24 0.36
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (58 bp):
AAAGTCAGCTTGTGTGAGCATTTTACAAAGTCAACATGTGTGAACAATTCCATAATAT
Found at i:3246124 original size:30 final size:30
Alignment explanation
Indices: 3246034--3246130 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 30
3246024 AAAGTCAGGA
* * *
3246034 TGTGTGAACAATTCCATTATATAAAGTTAGCT
1 TGTGTGAACAATT-C-TAATATAAAGTCAACT
* * *
3246066 TGTGTGAGCAA-T-TATTACAAAGTCAACT
1 TGTGTGAACAATTCTAATATAAAGTCAACT
*
3246094 TGTGTGAACAATTCTAATATAAAATCAACT
1 TGTGTGAACAATTCTAATATAAAGTCAACT
3246124 TGTGTGA
1 TGTGTGA
3246131 GAAAGTTCGT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
28 21 0.40
29 1 0.02
30 20 0.38
31 1 0.02
32 10 0.19
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.35
Consensus pattern (30 bp):
TGTGTGAACAATTCTAATATAAAGTCAACT
Found at i:3247672 original size:27 final size:27
Alignment explanation
Indices: 3247641--3247693 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
3247631 ATAAAACAAA
3247641 TTGGTTGGCACGTGAATAATAAATTGG
1 TTGGTTGGCACGTGAATAATAAATTGG
*
3247668 TTGGTTGGCATGTGAATAATAAATTG
1 TTGGTTGGCACGTGAATAATAAATTG
3247694 CAAATATGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (27 bp):
TTGGTTGGCACGTGAATAATAAATTGG
Found at i:3248920 original size:18 final size:20
Alignment explanation
Indices: 3248897--3248936 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
3248887 TTCAAAAGAG
*
3248897 AATTAAATTTA-ATTAA-AA
1 AATTAAAATTATATTAATAA
3248915 AATTAAAATTATATTAATAA
1 AATTAAAATTATATTAATAA
3248935 AA
1 AA
3248937 ATATAAACAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
19 5 0.26
20 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AATTAAAATTATATTAATAA
Found at i:3257398 original size:3 final size:3
Alignment explanation
Indices: 3257390--3257414 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
3257380 CATGCGTTAC
3257390 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
3257415 GTAAATTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:3263329 original size:39 final size:39
Alignment explanation
Indices: 3263285--3264202 Score: 1746
Period size: 39 Copynumber: 23.4 Consensus size: 39
3263275 CGACTACTGT
*
3263285 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263324 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263363 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263402 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263441 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263480 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263519 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263558 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263597 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263636 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263675 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263714 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263753 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263792 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263831 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263870 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263909 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263948 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3263987 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3264026 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3264065 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3264104 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
* * *
3264143 TACTGGTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TAC---T---GTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
3264188 TACTGTTACTGTTAC
1 TACTGTTACTGTTAC
3264203 TGCTATCGTT
Statistics
Matches: 869, Mismatches: 4, Indels: 12
0.98 0.00 0.01
Matches are distributed among these distances:
39 832 0.96
42 2 0.00
45 35 0.04
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (39 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
Found at i:3264740 original size:13 final size:15
Alignment explanation
Indices: 3264722--3264753 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3264712 TATATGAAAT
3264722 AATGATT-TT-ATGA
1 AATGATTATTGATGA
3264735 AATGATTATTGATGA
1 AATGATTATTGATGA
3264750 AATG
1 AATG
3264754 CATGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 2 0.12
15 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (15 bp):
AATGATTATTGATGA
Found at i:3267828 original size:15 final size:15
Alignment explanation
Indices: 3267805--3267838 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3267795 ACATCTAACC
3267805 TTAAAATCTATTAAT
1 TTAAAATCTATTAAT
* *
3267820 TTAACATCTATTTAT
1 TTAAAATCTATTAAT
3267835 TTAA
1 TTAA
3267839 GAAACTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (15 bp):
TTAAAATCTATTAAT
Found at i:3274854 original size:5 final size:6
Alignment explanation
Indices: 3274825--3274867 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
3274815 AGAAGCCTAC
*
3274825 AAAATA AAAACAA AACAACTA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAA-TA AA-AA-TA AAAATA AAAATA AAAATA AAAA
3274868 AGAAAGCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 22 0.67
7 5 0.15
8 6 0.18
ACGTcount: A:0.81, C:0.07, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:3276892 original size:21 final size:20
Alignment explanation
Indices: 3276854--3276892 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
3276844 AAATTGAATT
* *
3276854 TTTATAATTTTAATTTTACC
1 TTTATAATTTAAAATTTACC
3276874 TTTACTAATTTAAAATTTA
1 TTTA-TAATTTAAAATTTA
3276893 AAAAAAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTATAATTTAAAATTTACC
Done.