Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 314 of 345
Found at i:94283873 original size:10 final size:10
Alignment explanation
Indices: 94283858--94283882 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
94283848 ACACATCAAT
94283858 CACATATAAG
1 CACATATAAG
94283868 CACATATAAG
1 CACATATAAG
94283878 CACAT
1 CACAT
94283883 TTAGTCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.24, G:0.08, T:0.20
Consensus pattern (10 bp):
CACATATAAG
Found at i:94292832 original size:72 final size:72
Alignment explanation
Indices: 94292715--94292857 Score: 214
Period size: 72 Copynumber: 2.0 Consensus size: 72
94292705 TACGAGCCTA
* ** *
94292715 TTGAAGACACCAACTAAAGACAGTAAGCCAAAGTGCGAGCCTGTCAAAGGTGTATGGTTGCAAGC
1 TTGAAGACACCAACTAAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCAAGC
94292780 AGCAAAG
66 AGCAAAG
* * * *
94292787 TTGAAGACACCTATTGAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCGAGC
1 TTGAAGACACCAACTAAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCAAGC
94292852 AGCAAA
66 AGCAAA
94292858 ATGCAAGCCC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.17
Consensus pattern (72 bp):
TTGAAGACACCAACTAAAGACAGTAAGCAAAAAAGCGAGCCTGTCAAAGGTGTATAGTTGCAAGC
AGCAAAG
Found at i:94317790 original size:132 final size:132
Alignment explanation
Indices: 94317577--94318354 Score: 1245
Period size: 132 Copynumber: 5.9 Consensus size: 132
94317567 TGAATCCCAC
* * * * *
94317577 AGATCCTGTTTCCCTAAAGTTGCAGTGGAGCAGATCAAAGGCGACAAATCTTGGCTTCCTGAAGT
1 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
* * * *
94317642 TGCAGTGAAGTAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTAAAATT
66 TGCAGTGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
94317707 TT
131 TT
* **
94317709 AGATCTTGTTTCCCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATC-TGAGCTTCCTGAAG
1 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTG-GCTTCCTGAAG
* * *
94317773 TTGCAGTGAAGTAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTATGTTGAAAT
65 TTGCAGTGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAAT
94317838 TTT
130 TTT
* *
94317841 AGATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGATGAATCTTGGCTTCCTGAAGT
1 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
* *
94317906 TGCAGTGAAGCAGACTTAAGCCACTAACCTAACTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
94317971 TT
131 TT
* * * *
94317973 AGATCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGACGAATCTTAGCTTCCGGAAGT
1 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
*
94318038 TGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
94318103 TT
131 TT
* *
94318105 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGATGAATATTGGCTTCCTGAAGT
1 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
* *
94318170 TGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTCTCTAAAGTTGTAGTGGAGTAGGTTGAAATT
66 TGCAGTGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
94318235 TT
131 TT
*
94318237 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCTTGAAGT
1 AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
* *
94318302 TGCAGTGAAGCAGATTTAAGCCA-TCACCCTAGTTCCCTAAAGTTGTAGTGGAG
66 TGCAGTGAAGCAGATTTAAGCCACT-AACCTAGCTCCCTAAAGTTGTAGTGGAG
94318355 CAAAATCAAA
Statistics
Matches: 601, Mismatches: 42, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
131 3 0.00
132 596 0.99
133 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.29
Consensus pattern (132 bp):
AGATCTTGTTTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTTCCTGAAGT
TGCAGTGAAGCAGATTTAAGCCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGTTGAAATT
TT
Found at i:94317905 original size:45 final size:45
Alignment explanation
Indices: 94317721--94318317 Score: 265
Period size: 45 Copynumber: 13.5 Consensus size: 45
94317711 ATCTTGTTTC
* * * *
94317721 CCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTGAGCTT
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGACGATGAATCTTAGCTT
* * * * ** * *
94317766 CCTGAAGTTGCAGTGAAGTAGATTTAAG-CCACCAA-CCTAGCTC
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGACGATGAATCTTAGCTT
* * * ** * *
94317809 CCTAAAGTTGTAGTGGAGTATG-TTGAA-A-TTTTAGATCTTA-TTT
1 CCTGAAGTTGCAGTGGAGCA-GATTGAAGACGATGA-ATCTTAGCTT
* *
94317852 CCCTGAAGTTGCAGTGGAGCAGATCGAAGACGATGAATCTTGGCTT
1 -CCTGAAGTTGCAGTGGAGCAGATTGAAGACGATGAATCTTAGCTT
* * * * *
94317898 CCTGAAGTTGCAGTGAAGCAGACTT-AAG-CCACT-AA-CCTAACTC
1 CCTGAAGTTGCAGTGGAGCAGA-TTGAAGACGA-TGAATCTTAGCTT
* * * * ** * *
94317941 CCTAAAGTTGTAGTGGAGTAGGTTGAA-A-TTTTAGATCTTA-TTT
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGACGATGA-ATCTTAGCTT
*
94317984 CCCTGAAGTTGCAGTGGAGCAGATTGAAGACGACGAATCTTAGCTT
1 -CCTGAAGTTGCAGTGGAGCAGATTGAAGACGATGAATCTTAGCTT
* * * * * *
94318030 CCGGAAGTTGCAGTGAAGCAGATTTAAGTC-ACT-AA-CCTAGCTC
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGACGA-TGAATCTTAGCTT
* * * * ** * *
94318073 CCTAAAGTTGTAGTGGAGTAGGTTGAA-A-TTTTAGATCTT-GTTT
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGACGATGA-ATCTTAGCTT
* * *
94318116 CCCTGAAGTTGCAGTGGAGCAGATCGAAGACGATGAATATTGGCTT
1 -CCTGAAGTTGCAGTGGAGCAGATTGAAGACGATGAATCTTAGCTT
* * * *
94318162 CCTGAAGTTGCAGTGAAGCAGATTTAAGTC-ACT-AA-CCTAGC-T
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGACGA-TGAATCTTAGCTT
* * * * ** * *
94318204 CTCTAAAGTTGTAGTGGAGTAGGTTGAA-A-TTTTAGATCTT-GTTT
1 C-CTGAAGTTGCAGTGGAGCAGATTGAAGACGATGA-ATCTTAGCTT
* * *
94318248 CCCTGAAGTTGCAGTGGAGCAGATCGAAGACGACGAATCTTGGCTT
1 -CCTGAAGTTGCAGTGGAGCAGATTGAAGACGATGAATCTTAGCTT
* *
94318294 CTTGAAGTTGCAGTGAAGCAGATT
1 CCTGAAGTTGCAGTGGAGCAGATT
94318318 TAAGCCATCA
Statistics
Matches: 397, Mismatches: 115, Indels: 80
0.67 0.19 0.14
Matches are distributed among these distances:
41 3 0.01
42 8 0.02
43 108 0.27
44 112 0.28
45 149 0.38
46 17 0.04
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (45 bp):
CCTGAAGTTGCAGTGGAGCAGATTGAAGACGATGAATCTTAGCTT
Found at i:94318002 original size:44 final size:44
Alignment explanation
Indices: 94317807--94318271 Score: 163
Period size: 44 Copynumber: 10.6 Consensus size: 44
94317797 CCAACCTAGC
* * * *
94317807 TCCCTAAAGTTGTAGTGGAGTATG-TTGAAATTTTAGATCTTATT
1 TCCCTGAAGTTGCAGTGGAGCA-GATTGAAATTCTAGATCTTATT
* * **
94317851 TCCCTGAAGTTGCAGTGGAGCAGATCGAAGA--CGATGAATCTTGGCT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTCTA-G-ATCTT-ATT
* *** * **
94317897 T-CCTGAAGTTGCAGTGAAGCAGACTT-AAGCCACTA-A-CCTAAC
1 TCCCTGAAGTTGCAGTGGAGCAGA-TTGAA-ATTCTAGATCTTATT
* * * * *
94317939 TCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTTATT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAATTCTAGATCTTATT
* *
94317983 TCCCTGAAGTTGCAGTGGAGCAGATTGAAGA--CGACGAATCTTAGCT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTCTA-G-ATCTTA-TT
* * * * * * **
94318029 T-CCGGAAGTTGCAGTGAAGCAGATTTAAGTCACTA-A-CCTAGC
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAAT-TCTAGATCTTATT
* * * * * *
94318071 TCCCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTTGTT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAATTCTAGATCTTATT
* * * **
94318115 TCCCTGAAGTTGCAGTGGAGCAGATCGAAGA--CGATGAATATTGGCT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATTCTA-G-ATCTT-ATT
* * * * * **
94318161 T-CCTGAAGTTGCAGTGAAGCAGATTTAAGTCACTA-A-CCTAGC
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAAT-TCTAGATCTTATT
* * * * * * *
94318203 TCTCTAAAGTTGTAGTGGAGTAGGTTGAAATTTTAGATCTTGTT
1 TCCCTGAAGTTGCAGTGGAGCAGATTGAAATTCTAGATCTTATT
94318247 TCCCTGAAGTTGCAGTGGAGCAGAT
1 TCCCTGAAGTTGCAGTGGAGCAGAT
94318272 CGAAGACGAC
Statistics
Matches: 294, Mismatches: 95, Indels: 64
0.65 0.21 0.14
Matches are distributed among these distances:
42 11 0.04
43 74 0.25
44 105 0.36
45 90 0.31
46 8 0.03
47 6 0.02
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (44 bp):
TCCCTGAAGTTGCAGTGGAGCAGATTGAAATTCTAGATCTTATT
Found at i:94318269 original size:87 final size:87
Alignment explanation
Indices: 94317634--94318276 Score: 257
Period size: 87 Copynumber: 7.3 Consensus size: 87
94317624 ATCTTGGCTT
* * * * * *
94317634 CCTGAAGTTGCAGTGAAGTAGATTTAAGTCACTAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGTCACTAACCTAGCTCCCTAAAGTTGCAGTGGAGCAGA
* *
94317699 CTAAAATTTTAGATCTTGTTTC
66 TTGAAATTTTAGATCTTGTTTC
* * * ** * * * * *
94317721 CCTGAAGTTGCAGTGAAGCAGATCGAAGACGGTGAATCTGAGCTTCCTGAAGTTGCAGTGAAGTA
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGTCACT-AACCT-AGCTCCCTAAAGTTGCAGTGGAGCA
* ***** * * *
94317786 GATTTAAGCCACCA-ACCTAG-CTC
64 GATTGAA-ATTTTAGATCTTGTTTC
* * * * ** * ** *
94317809 CCTAAAGTTGTAGTGGAGTATG-TTGAAAT-TTTAGATCTTATTTCCCTGAAGTTGCAGTGGAGC
1 CCTGAAGTTGCAGTGGAGCA-GATTGAAGTCACTA-A-CCTAGCTCCCTAAAGTTGCAGTGGAGC
* *** *
94317872 AGATCGAAGACGAT-GAATCTTGGCTT-
63 AGATTGAA-ATTTTAG-ATCTT-GTTTC
* * * * *
94317898 CCTGAAGTTGCAGTGAAGCAGACTT-AAGCCACTAACCTAACTCCCTAAAGTTGTAGTGGAGTAG
1 CCTGAAGTTGCAGTGGAGCAGA-TTGAAGTCACTAACCTAGCTCCCTAAAGTTGCAGTGGAGCAG
* *
94317962 GTTGAAATTTTAGATCTTATTTC
65 ATTGAAATTTTAGATCTTGTTTC
* * * * ** *
94317985 CCTGAAGTTGCAGTGGAGCAGATTGAAGACGACGAATCTTAGCTTCCGGAAGTTGCAGTGAAGCA
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGTC-ACTAA-CCTAGCTCCCTAAAGTTGCAGTGGAGCA
* * ** * * *
94318050 GATTTAAGTCACTA-ACCTAG-CTC
64 GATTGAAAT-TTTAGATCTTGTTTC
* * * * * ** * * * *
94318073 CCTAAAGTTGTAGTGGAGTAGGTTGAAAT-TTTAGATCTTGTTTCCCTGAAGTTGCAGTGGAGCA
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGTCACTA-ACCTAG-CTCCCTAAAGTTGCAGTGGAGCA
* *** * *
94318137 GATCGAAGACGAT-GAATATTGGCTT-
64 GATTGAA-ATTTTAG-ATCTT-GTTTC
* * * * * *
94318162 CCTGAAGTTGCAGTGAAGCAGATTTAAGTCACTAACCTAGCTCTCTAAAGTTGTAGTGGAGTAGG
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGTCACTAACCTAGCTCCCTAAAGTTGCAGTGGAGCAGA
94318227 TTGAAATTTTAGATCTTGTTTC
66 TTGAAATTTTAGATCTTGTTTC
*
94318249 CCTGAAGTTGCAGTGGAGCAGATCGAAG
1 CCTGAAGTTGCAGTGGAGCAGATTGAAG
94318277 ACGACGAATC
Statistics
Matches: 387, Mismatches: 140, Indels: 58
0.66 0.24 0.10
Matches are distributed among these distances:
86 11 0.03
87 145 0.37
88 114 0.29
89 106 0.27
90 11 0.03
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (87 bp):
CCTGAAGTTGCAGTGGAGCAGATTGAAGTCACTAACCTAGCTCCCTAAAGTTGCAGTGGAGCAGA
TTGAAATTTTAGATCTTGTTTC
Found at i:94321586 original size:131 final size:131
Alignment explanation
Indices: 94321337--94321588 Score: 328
Period size: 131 Copynumber: 1.9 Consensus size: 131
94321327 CTTCAAATCG
* *
94321337 AAGACGGGATTCGATGTTTGGCAATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAATTCCGC
1 AAGACGGGATTCGATATTTAGCAATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAATTCCGC
* * * *
94321402 GTTTGCTCGAAATAATCGAATATCACTTCAAAATTTCACTCACGCCTTTTAAAATTCCTCAAAAT
66 GTTTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCACACCTTCTAAAATTCCTCAAAAT
94321467 A
131 A
* **
94321468 AAGACGAGG-TTCGATATTTAGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAATTTTG
1 AAGACG-GGATTCGATATTTAGCAATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAATTCCG
* ** * * * *
94321532 CGTTTGCTCAAAATAATTGGGCT-TCCCTTCAAAATTCCATTCATATCTTCTAAAATT
65 CGTTTGCTCAAAATAA-TCGAATATCACTTCAAAATTCCACTCACACCTTCTAAAATT
94321589 TTTTAAAACG
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
131 98 0.95
132 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (131 bp):
AAGACGGGATTCGATATTTAGCAATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAATTCCGC
GTTTGCTCAAAATAATCGAATATCACTTCAAAATTCCACTCACACCTTCTAAAATTCCTCAAAAT
A
Found at i:94323272 original size:23 final size:24
Alignment explanation
Indices: 94323246--94323292 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
94323236 TGGTAATTTT
* *
94323246 ACAAATATT-TTCAAAATATAATA
1 ACAAATATTAATCAAAATAAAATA
*
94323269 ACAAATGTTAATCAAAATAAAATA
1 ACAAATATTAATCAAAATAAAATA
94323293 TAGTGACAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (24 bp):
ACAAATATTAATCAAAATAAAATA
Found at i:94339389 original size:44 final size:44
Alignment explanation
Indices: 94339251--94339392 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 44
94339241 CTTAACCCCC
94339251 TAAGCAGTAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCA
1 TAAGCAGTAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCA
** * * * * * * *
94339295 TAAGCAGTAGTGG-AGTA-GATCGAAGATGGT-GAG-CCTTAACCCCC
1 TAAGCAGTAG-GGAAACAGGCTGGAA-AT--TACAGATCTTATCTCCA
*
94339339 TAAGTAGTAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCA
1 TAAGCAGTAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCA
*
94339383 TAAGTAGTAG
1 TAAGCAGTAG
94339393 TGAAGTAGAT
Statistics
Matches: 71, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
42 1 0.01
43 9 0.13
44 51 0.72
45 9 0.13
46 1 0.01
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (44 bp):
TAAGCAGTAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCA
Found at i:94339392 original size:88 final size:87
Alignment explanation
Indices: 94339238--94340156 Score: 1186
Period size: 88 Copynumber: 10.5 Consensus size: 87
94339228 AACCTCCACT
*
94339238 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCATAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAATTACAGATCTTATCTCCCTAAGCAGT
* *
94339303 AGTGGAGTAGATCGAAGATGGTG
65 AGTGGAGCAGATCGAAGACGGTG
* * *
94339326 AGCCTTAACCCCCTAAGTAGTAGGGAAACAGGCTGGAAATTACAGATCTTATCTCCATAAGTAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
94339391 AGTGAAGTAGATCGAAAACGGTG
65 AGTGGAGCAGATCGAAGACGGTG
* * *
94339414 AGCCTTAACCCCCTAAGTAGTAGGGAAACAGGCTGAAGATTACAGATCTTATCTCTCTGAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAA-ATTACAGATCTTATCTCCCTAAGCAGT
* * * *
94339479 AATGGAGC-GAATCGAAGGCGATA
65 AGTGGAGCAG-ATCGAAGACGGTG
* *
94339502 AGCCTTAACCCCCTAAGTAGTAGGGAAACAGGCTGAAAATTACAGATCTTATTTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTG-AAATTACAGATCTTATCTCCCTAAGCAGT
* * *
94339567 AGTGAAGCGGATCGAAAACGGTG
65 AGTGGAGCAGATCGAAGACGGTG
* * * *
94339590 AGCTTTAACCTCCTAAGCAGTAGGGAAACAGGCTGAAGATTACATATCTTATCTCCCTGAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAA-ATTACAGATCTTATCTCCCTAAGCAGT
* * * *
94339655 AGTGAAGCAGATCGAAAACAGTA
65 AGTGGAGCAGATCGAAGACGGTG
* *
94339678 AGCCTTAACCCCCTAAGCAGTAGGAAAATAGGCTGAAGATTACAGATCTTATCTCCCT----AGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAA-ATTACAGATCTTATCTCCCTAAGCAGT
* *
94339739 AGTAGAGTAGATCGAAGACGGTG
65 AGTGGAGCAGATCGAAGACGGTG
* *
94339762 AGCCTTATCCCCCTAAGCAATAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAATTACAGATCTTATCTCCCTAAGCAGT
* *
94339827 AATGGAGCAGATCGAAGACAGTG
65 AGTGGAGCAGATCGAAGACGGTG
* * * *
94339850 AGCCTTATCCCCCTAAGCAGTAGGGAAACAAGCTAGAAATTACAAATCTTATCTCCCTAAGCAAT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAATTACAGATCTTATCTCCCTAAGCAGT
94339915 AGTGGAGCAGATCGAAGACGGTG
65 AGTGGAGCAGATCGAAGACGGTG
* * *
94339938 AGCCTT-ATCCCCTAAAGCAGTAGGAAAACAGGCTGAAAATTACAGATCTTATCTCTCTAAGCAG
1 AGCCTTAACCCCCT-AAGCAGTAGGGAAACAGGCTG-AAATTACAGATCTTATCTCCCTAAGCAG
*
94340002 TAGTGGAGCAGATCGAAGACGGTA
64 TAGTGGAGCAGATCGAAGACGGTG
* * * ** **
94340026 AGCCTTATCCCCCTAAGCAGTAGGGAAATAAGCCAAAAATTACA-ATCTTATCTCCCTAAGCAAC
1 AGCCTTAACCCCCTAAGCAGTAGGGAAA-CAGGCTGAAATTACAGATCTTATCTCCCTAAGCAGT
*
94340090 AGTGGAGCAGATCAAAGACGGTG
65 AGTGGAGCAGATCGAAGACGGTG
*
94340113 AGCCTTATCCCCCTAAGCAGTAGGGAAACAGGCTGAAGATTACA
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAA-ATTACA
94340157 AATCATAAGC
Statistics
Matches: 733, Mismatches: 83, Indels: 31
0.87 0.10 0.04
Matches are distributed among these distances:
84 70 0.10
85 3 0.00
86 5 0.01
87 84 0.11
88 560 0.76
89 11 0.02
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (87 bp):
AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTGAAATTACAGATCTTATCTCCCTAAGCAGTA
GTGGAGCAGATCGAAGACGGTG
Found at i:94339431 original size:44 final size:44
Alignment explanation
Indices: 94339295--94339436 Score: 110
Period size: 44 Copynumber: 3.2 Consensus size: 44
94339285 CTTATCTCCA
* * * *
94339295 TAAGCAGTAGTGGAGTAGATCGAAGATGGTGAGCCTTAACCCCC
1 TAAGTAGTAGTGAAGTAGATCGAAAACGGTGAGCCTTAACCCCC
* ** * * * * * * *
94339339 TAAGTAGTAGGGAAACAGGCTGGAAATTAC--AGA-TCTTATCTCCA
1 TAAGTAGTAGTGAAGTA-GATCGAAA--ACGGTGAGCCTTAACCCCC
94339383 TAAGTAGTAGTGAAGTAGATCGAAAACGGTGAGCCTTAACCCCC
1 TAAGTAGTAGTGAAGTAGATCGAAAACGGTGAGCCTTAACCCCC
94339427 TAAGTAGTAG
1 TAAGTAGTAG
94339437 GGAAACAGGC
Statistics
Matches: 68, Mismatches: 24, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
41 2 0.03
43 8 0.12
44 50 0.74
45 7 0.10
47 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.23
Consensus pattern (44 bp):
TAAGTAGTAGTGAAGTAGATCGAAAACGGTGAGCCTTAACCCCC
Found at i:94339653 original size:44 final size:43
Alignment explanation
Indices: 94339605--94339743 Score: 106
Period size: 44 Copynumber: 3.2 Consensus size: 43
94339595 TAACCTCCTA
94339605 AGCAGTAGGGAAACAGGCTGAAGATTACATATCTTATCTCCCT
1 AGCAGTAGGGAAACAGGCTGAAGATTACATATCTTATCTCCCT
* * * * * *
94339648 GAGCAGTAGTGAAGCA-GATCGAA-A--ACAGTAAGCCTTAACCCCCT
1 -AGCAGTAGGGAAACAGGCT-GAAGATTACA-T-A-TCTTATCTCCCT
* * *
94339692 AAGCAGTAGGAAAATAGGCTGAAGATTACAGATCTTATCTCCCT
1 -AGCAGTAGGGAAACAGGCTGAAGATTACATATCTTATCTCCCT
*
94339736 AGTAGTAG
1 AGCAGTAG
94339744 AGTAGATCGA
Statistics
Matches: 70, Mismatches: 17, Indels: 17
0.67 0.16 0.16
Matches are distributed among these distances:
41 3 0.04
42 1 0.01
43 11 0.16
44 48 0.69
45 4 0.06
47 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (43 bp):
AGCAGTAGGGAAACAGGCTGAAGATTACATATCTTATCTCCCT
Found at i:94340048 original size:44 final size:44
Alignment explanation
Indices: 94339736--94340135 Score: 162
Period size: 44 Copynumber: 9.1 Consensus size: 44
94339726 TTATCTCCCT
* * *
94339736 AGTAGTAGAGTAGATCGAAGACGGTGAGCCTTATCCCCCTAAGC
1 AGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGC
* * * * * * *
94339780 AATAG-GGAAACAGGCTAGAA-A--TTACAGATCTTATCTCCCTAAGC
1 AGTAGTGG-AGCA-GATCGAAGACGGTA-AG-CCTTATCCCCCTAAGC
* * *
94339824 AGTAATGGAGCAGATCGAAGACAGTGAGCCTTATCCCCCTAAGC
1 AGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGC
* * * **** ** *
94339868 AGTAG-GGAAACAAGCTAGAA-ATTACAAATCTTATCTCCCTAAGC
1 AGTAGTGG-AGC-AGATCGAAGACGGTAAGCCTTATCCCCCTAAGC
* *
94339912 AATAGTGGAGCAGATCGAAGACGGTGAGCCTTAT-CCCCTAAAGC
1 AGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCT-AAGC
* * * ** * * *
94339956 AGTAG-GAAAACAG-GCTGAA-A-ATTACAGATCTTATCTCTCTAAGC
1 AGTAGTG-GAGCAGATC-GAAGACGGTA-AG-CCTTATCCCCCTAAGC
94340000 AGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGC
1 AGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGC
* * * * *** ** *
94340044 AGTAG-GGA-AATAAGCCAA-AAATTACAATCTTATCTCCCTAAGC
1 AGTAGTGGAGCA-GATCGAAGACGGTA-AGCCTTATCCCCCTAAGC
** * *
94340087 AACAGTGGAGCAGATCAAAGACGGTGAGCCTTATCCCCCTAAGC
1 AGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGC
94340131 AGTAG
1 AGTAG
94340136 GGAAACAGGC
Statistics
Matches: 243, Mismatches: 86, Indels: 54
0.63 0.22 0.14
Matches are distributed among these distances:
42 6 0.02
43 50 0.21
44 156 0.64
45 28 0.12
46 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (44 bp):
AGTAGTGGAGCAGATCGAAGACGGTAAGCCTTATCCCCCTAAGC
Found at i:94346604 original size:179 final size:179
Alignment explanation
Indices: 94346253--94346611 Score: 517
Period size: 179 Copynumber: 2.0 Consensus size: 179
94346243 AATCATATAT
* * * *
94346253 TTAGAATACTTGTGTACATTTGAATATAACATACAATAAATAATTAAAATGTAAGGTTTGAAATA
1 TTAGAATACATGTGTACATTTGAATATAACATACAATAAACAATAAAAACGTAAGGTTTGAAATA
* ** * * *
94346318 AATTAATAATAACACGTGTAATATGTACAATATTTTGTTTAAAAAAATTTAGATTTAATTGTTAG
66 AATTAATAATAACACATACAATATGTACAATATTTTATTGAAAAAAATTTAGATTAAATTGTTAG
94346383 TAAAAAAATTAAACACGTAAATACATTATATTAAAAATACTAAATGTAC
131 TAAAAAAATTAAACACGTAAATACATTATATTAAAAATACTAAATGTAC
* ** * *
94346432 TTAGAATACATGTGTGCATTTGAATATAACATATGATAAACAATAAAAACGTGAGGTTTGAAATT
1 TTAGAATACATGTGTACATTTGAATATAACATACAATAAACAATAAAAACGTAAGGTTTGAAATA
94346497 AATTAATAATAACACATACAATATGTACAATATTTTATTGAAAAAAA-TTAGATTAAATTGTTAG
66 AATTAATAATAACACATACAATATGTACAATATTTTATTGAAAAAAATTTAGATTAAATTGTTAG
**
94346561 TAAAAAGAAATTTAAACACGTAAATACA-TA-ATTAAGTATACTAAATGTAC
131 T-AAAA-AAA-TTAAACACGTAAATACATTATATTAAAAATACTAAATGTAC
94346611 T
1 T
94346612 ATAATTATTT
Statistics
Matches: 160, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
178 17 0.11
179 121 0.76
180 5 0.03
181 17 0.11
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.34
Consensus pattern (179 bp):
TTAGAATACATGTGTACATTTGAATATAACATACAATAAACAATAAAAACGTAAGGTTTGAAATA
AATTAATAATAACACATACAATATGTACAATATTTTATTGAAAAAAATTTAGATTAAATTGTTAG
TAAAAAAATTAAACACGTAAATACATTATATTAAAAATACTAAATGTAC
Found at i:94350888 original size:7 final size:7
Alignment explanation
Indices: 94350876--94350924 Score: 53
Period size: 7 Copynumber: 6.4 Consensus size: 7
94350866 CTTTTACATT
94350876 TAAAATA
1 TAAAATA
94350883 TAAAATA
1 TAAAATA
94350890 TAAAATA
1 TAAAATA
94350897 TTCAAAAATTA
1 -T--AAAA-TA
*
94350908 TAAAATC
1 TAAAATA
94350915 TAAAATA
1 TAAAATA
94350922 TAA
1 TAA
94350925 TAAAAAAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 24 0.67
8 5 0.14
10 5 0.14
11 2 0.06
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (7 bp):
TAAAATA
Found at i:94350929 original size:25 final size:25
Alignment explanation
Indices: 94350876--94350929 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
94350866 CTTTTACATT
94350876 TAAAATATAAAATATAAAATATTCAA
1 TAAAATATAAAATATAAAATATT-AA
* *
94350902 -AAATTATAAAATCTAAAATA-TAA
1 TAAAATATAAAATATAAAATATTAA
94350925 TAAAA
1 TAAAA
94350930 AAATCACTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
23 2 0.08
24 4 0.17
25 18 0.75
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
TAAAATATAAAATATAAAATATTAA
Found at i:94353973 original size:17 final size:17
Alignment explanation
Indices: 94353951--94353986 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
94353941 GCTATGACTT
*
94353951 ACAATGTTGTGAATGAC
1 ACAATGTTATGAATGAC
94353968 ACAATGTTATGAATGAC
1 ACAATGTTATGAATGAC
94353985 AC
1 AC
94353987 TACATACTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (17 bp):
ACAATGTTATGAATGAC
Found at i:94356302 original size:30 final size:30
Alignment explanation
Indices: 94356268--94356326 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
94356258 GGGAGGAGGA
*
94356268 GGTGCAGCATAGTAAG-GCGGAGGTGGTGGG
1 GGTGCACCATA-TAAGTGCGGAGGTGGTGGG
*
94356298 GGTGCACCATATAAGTGCGGTGGTGGTGG
1 GGTGCACCATATAAGTGCGGAGGTGGTGG
94356327 TGCAAAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.19, C:0.12, G:0.49, T:0.20
Consensus pattern (30 bp):
GGTGCACCATATAAGTGCGGAGGTGGTGGG
Found at i:94357185 original size:11 final size:11
Alignment explanation
Indices: 94357168--94357207 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
94357158 TAAGGAGTAA
94357168 ATAATTTTTTT
1 ATAATTTTTTT
*
94357179 TTAATTTTTTT
1 ATAATTTTTTT
94357190 AT-A-TTTTTT
1 ATAATTTTTTT
94357199 ATAATTTTT
1 ATAATTTTT
94357208 AAGATATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 8 0.32
10 2 0.08
11 15 0.60
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (11 bp):
ATAATTTTTTT
Found at i:94357188 original size:9 final size:9
Alignment explanation
Indices: 94357174--94357207 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
94357164 GTAAATAATT
94357174 TTTTTTTAA
1 TTTTTTTAA
94357183 TTTTTTTATA
1 TTTTTTTA-A
94357193 TTTTTTATAA
1 TTTTTT-TAA
94357203 TTTTT
1 TTTTT
94357208 AAGATATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 8 0.35
10 13 0.57
11 2 0.09
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:94357214 original size:21 final size:20
Alignment explanation
Indices: 94357173--94357221 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
94357163 AGTAAATAAT
* **
94357173 TTTTTTTTAATTTTTTTATA
1 TTTTTTATAATTTTTAGATA
94357193 TTTTTTATAATTTTTAAGATA
1 TTTTTTATAATTTTT-AGATA
94357214 TTTTTTAT
1 TTTTTTAT
94357222 TCTTAATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTTTATAATTTTTAGATA
Found at i:94360849 original size:31 final size:33
Alignment explanation
Indices: 94360814--94360887 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
94360804 TAGTCCAATG
*
94360814 GGACAGTAAACAC-AAA-AGAGATAATCCGCTA
1 GGACAGTAAACACAAAATAGAGATAATCCACTA
* * *
94360845 GGACAATCAACACAAAATAGAGATAGTCCACTA
1 GGACAGTAAACACAAAATAGAGATAATCCACTA
94360878 GGACAGTAAA
1 GGACAGTAAA
94360888 TGTAATATCC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 11 0.31
32 3 0.09
33 21 0.60
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.14
Consensus pattern (33 bp):
GGACAGTAAACACAAAATAGAGATAATCCACTA
Found at i:94360879 original size:33 final size:31
Alignment explanation
Indices: 94360801--94360887 Score: 93
Period size: 33 Copynumber: 2.7 Consensus size: 31
94360791 CGCAAAACAA
* * *
94360801 AGATAGTCCAATGGGACAGTAAACACAAAAG
1 AGATAGTCCACTAGGACAATAAACACAAAAG
* * *
94360832 AGATAATCCGCTAGGACAATCAACACAAAATAG
1 AGATAGTCCACTAGGACAATAAACAC-AAA-AG
*
94360865 AGATAGTCCACTAGGACAGTAAA
1 AGATAGTCCACTAGGACAATAAA
94360888 TGTAATATCC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
31 20 0.45
32 3 0.07
33 21 0.48
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (31 bp):
AGATAGTCCACTAGGACAATAAACACAAAAG
Found at i:94362489 original size:18 final size:20
Alignment explanation
Indices: 94362466--94362506 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
94362456 CCGTCATTCG
94362466 TATATATGT-A-TATATATC
1 TATATATGTAACTATATATC
94362484 TATATATGTAACTATATATC
1 TATATATGTAACTATATATC
94362504 TAT
1 TAT
94362507 TTGCTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.43
19 1 0.05
20 11 0.52
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (20 bp):
TATATATGTAACTATATATC
Found at i:94362817 original size:150 final size:148
Alignment explanation
Indices: 94362548--94362851 Score: 355
Period size: 150 Copynumber: 2.0 Consensus size: 148
94362538 AGATGTCCCT
* *
94362548 TTATATACATATATACATACTTTATAATAAGGTTAATTTTATTTTATGCATATTATTAATCTTAT
1 TTATATACATATATACATACTTTATAATAAGATTAATTTTATTCTATGCATATTATTAATCTTAT
* * * *
94362613 ATTATTTTTCACATATAATTTTCTTTAAATTTACTTTCATATTTTATTGCATAATCCTACATAAT
66 ATTATTTTACACATATAATTTTCTTTAAATTTACTCTCATATTTTAATACATAATCCTACATAAT
94362678 ACATCTTTCAAATTATTA
131 ACATCTTTCAAATTATTA
* *
94362696 TATATATATATATATACACGTACTTTATAGTAAGATT-ATTTTATTCTATGCATATTATTAAT-T
1 T-TATATACATATATACA--TACTTTATAATAAGATTAATTTTATTCTATGCATATTATTAATCT
* * * * * *
94362759 CTATATTATTTTACGCATAT-AGTTTCTTTTAAATTTA-TCCTCGTCTTTTAATATATAATCTTA
63 -TATATTATTTTACACATATAATTTTC-TTTAAATTTACT-CTCATATTTTAATACATAATCCTA
* * * * *
94362822 TATAATATATTTTTTAATTTATTA
125 CATAATACATCTTTCAAATTATTA
94362846 TTATAT
1 TTATAT
94362852 GTATTTTATC
Statistics
Matches: 131, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
148 1 0.01
149 27 0.21
150 88 0.67
151 15 0.11
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (148 bp):
TTATATACATATATACATACTTTATAATAAGATTAATTTTATTCTATGCATATTATTAATCTTAT
ATTATTTTACACATATAATTTTCTTTAAATTTACTCTCATATTTTAATACATAATCCTACATAAT
ACATCTTTCAAATTATTA
Found at i:94364357 original size:130 final size:130
Alignment explanation
Indices: 94364081--94364362 Score: 352
Period size: 130 Copynumber: 2.2 Consensus size: 130
94364071 TTATTCATTC
* ** *
94364081 AAAAATTCTTTAAAACGAAGACGAGATTTGATATTTGACAATTCGCGGAATCGTGTCCTAACGTG
1 AAAAATTCTTTAAAACGAAGGCGAGACGTGATATTTGACAATTCGCGGAATCGTGCCCTAACGTG
* * *
94364146 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTT
66 TTGGGTTGCAATTTC-CGATTGCTCAAAATAATCAAATATCACTTCAAAATTTCACTCATATCTT
94364211 T
130 T
* * * * * * *
94364212 TAAAATCCCTT-AAACGAAGGCGATACGTGATATTTGGCAATTTGTGGAATCGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAGGCGAGACGTGATATTTGACAATTCGCGGAATCGTGCCCTAACGTG
* * * * *
94364276 TTGGGTTGCAATTT-CGATTGTTTAAAATAATCAAATATCCCTTCAAGATTTCATTCATATCTTC
66 TTGGGTTGCAATTTCCGATTGCTCAAAATAATCAAATATCACTTCAAAATTTCACTCATATCTT-
94364340 T
130 T
*
94364341 AAAAATTATTTAAAACGAAGGC
1 AAAAATTCTTTAAAACGAAGGC
94364363 AATATTCGGC
Statistics
Matches: 126, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
128 41 0.33
129 8 0.06
130 69 0.55
131 8 0.06
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (130 bp):
AAAAATTCTTTAAAACGAAGGCGAGACGTGATATTTGACAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCCGATTGCTCAAAATAATCAAATATCACTTCAAAATTTCACTCATATCTTT
Found at i:94364377 original size:130 final size:130
Alignment explanation
Indices: 94364081--94364399 Score: 351
Period size: 130 Copynumber: 2.5 Consensus size: 130
94364071 TTATTCATTC
* * * * *
94364081 AAAAATTCTTTAAAACGAAGACGAGATTTGATATTTGACAATTCGCGGAATCGTGTCCTAACGTG
1 AAAAATTCTTTAAAACGAAGGCGATATTCGGTATTTGACAATTCGCGGAATCGTGCCCTAACGTG
* * *
94364146 TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCATGTCTT
66 TTGGGTTGCAATTTC-CGATTGCTCAAAATAATCAAATATCACTTCAAAATTTCACTCATATCTT
94364211 T
130 T
* * * * * *
94364212 TAAAATCCCTT-AAACGAAGGCGATA--CGTGATATTTGGCAATTTGTGGAATCGTGCCCTAACG
1 AAAAATTCTTTAAAACGAAGGCGATATTCG-G-TATTTGACAATTCGCGGAATCGTGCCCTAACG
* * * * *
94364274 TGTTGGGTTGCAATTT-CGATTGTTTAAAATAATCAAATATCCCTTCAAGATTTCATTCATATCT
64 TGTTGGGTTGCAATTTCCGATTGCTCAAAATAATCAAATATCACTTCAAAATTTCACTCATATCT
94364338 TCT
129 T-T
* * * * *
94364341 AAAAATTATTTAAAACGAAGGCAATATTCGGCATTTGACAATTCG-AGAATCATGCCCTA
1 AAAAATTCTTTAAAACGAAGGCGATATTCGGTATTTGACAATTCGCGGAATCGTGCCCTA
94364400 TCATGCTGGG
Statistics
Matches: 153, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
128 42 0.27
129 20 0.13
130 80 0.52
131 9 0.06
132 2 0.01
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.34
Consensus pattern (130 bp):
AAAAATTCTTTAAAACGAAGGCGATATTCGGTATTTGACAATTCGCGGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCCGATTGCTCAAAATAATCAAATATCACTTCAAAATTTCACTCATATCTTT
Found at i:94368966 original size:24 final size:24
Alignment explanation
Indices: 94368939--94369019 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
94368929 GCCCAAACAT
*
94368939 AGGTGGTGCAAAGGGGTCTGGTGG
1 AGGTGGTGCAAAGGGGTCTGGCGG
* **
94368963 AGGTGGTGC--CGGATGCCCTGGCGG
1 AGGTGGTGCAAAGG--GGTCTGGCGG
* *
94368987 TGGTGGAGCAAAGGGGTCTGGCGG
1 AGGTGGTGCAAAGGGGTCTGGCGG
94369011 AGGTGGTGC
1 AGGTGGTGC
94369020 CGGATGCCCT
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
22 2 0.05
24 38 0.90
26 2 0.05
ACGTcount: A:0.14, C:0.15, G:0.53, T:0.19
Consensus pattern (24 bp):
AGGTGGTGCAAAGGGGTCTGGCGG
Found at i:94368980 original size:48 final size:48
Alignment explanation
Indices: 94368940--94369064 Score: 214
Period size: 48 Copynumber: 2.6 Consensus size: 48
94368930 CCCAAACATA
94368940 GGTGGTGCAAAGGGGTCTGGTGGAGGTGGTGCCGGATGCCCTGGCGGT
1 GGTGGTGCAAAGGGGTCTGGTGGAGGTGGTGCCGGATGCCCTGGCGGT
* *
94368988 GGTGGAGCAAAGGGGTCTGGCGGAGGTGGTGCCGGATGCCCTGGCGGT
1 GGTGGTGCAAAGGGGTCTGGTGGAGGTGGTGCCGGATGCCCTGGCGGT
* *
94369036 GGGGGTGCAAAAGGGTCTGGTGGAGGTGG
1 GGTGGTGCAAAGGGGTCTGGTGGAGGTGG
94369065 AGGATGCCCG
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.13, C:0.15, G:0.54, T:0.18
Consensus pattern (48 bp):
GGTGGTGCAAAGGGGTCTGGTGGAGGTGGTGCCGGATGCCCTGGCGGT
Found at i:94369031 original size:24 final size:24
Alignment explanation
Indices: 94368956--94369043 Score: 72
Period size: 24 Copynumber: 3.7 Consensus size: 24
94368946 GCAAAGGGGT
*
94368956 CTGGTGGAGGTGGTGCCGGATGCC
1 CTGGCGGAGGTGGTGCCGGATGCC
* * * **
94368980 CTGGCGGTGGTGGAGCAAAGG--GGT
1 CTGGCGGAGGTGGTGC--CGGATGCC
94369004 CTGGCGGAGGTGGTGCCGGATGCC
1 CTGGCGGAGGTGGTGCCGGATGCC
* *
94369028 CTGGCGGTGGGGGTGC
1 CTGGCGGAGGTGGTGC
94369044 AAAAGGGTCT
Statistics
Matches: 47, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
22 2 0.04
24 43 0.91
26 2 0.04
ACGTcount: A:0.09, C:0.19, G:0.53, T:0.18
Consensus pattern (24 bp):
CTGGCGGAGGTGGTGCCGGATGCC
Found at i:94375535 original size:2 final size:2
Alignment explanation
Indices: 94375528--94375564 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
94375518 ATATTTTCCG
*
94375528 AT AT AT AT GT 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 A
94375565 ATAGATTCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94376571 original size:179 final size:179
Alignment explanation
Indices: 94376308--94377523 Score: 1228
Period size: 179 Copynumber: 6.8 Consensus size: 179
94376298 AATATGTTCT
* * * *
94376308 AATGTAATTTCATGGAGAAGAGATTTGTAGCTTCGATCTACTCTGTTGGAACTTCAAGGAGATAA
1 AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTTAAGGAGATAA
* * * *
94376373 AAATTGGTAATTTCAACCTACTCCACTGCAACTTTAAGGAGATAAGGTTTGTGTACTTTTATCCT
66 GAATTGGTAATTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
* *
94376438 GCTCTACTGCAACTTCAGAGAAATAAGGATTGTGGCTTCGATCTACTCT
131 GCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCC
* ** *
94376487 AATGTAATTTCATGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTAAAAATTTAAGGAGATAA
1 AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTTAAGGAGATAA
* *
94376552 GAATTGGTAATTTCAACCTACTCCACTGCTACTTCAGGGAGATAAGGTTTGTTTATTTTTATCCT
66 GAATTGGTAATTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
* *
94376617 GCTCTACTTCAACTTTAGAGAGATAAGGATTGTGGCTTCGATCTACTCC
131 GCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCC
* * **
94376666 AATATAATTTC-AGAGAGAAGAGATTTGCAGCTTCGATCTACTCCGCTAAAACTTTAAGGAGATA
1 AATGTAATTTCAAG-GAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTTAAGGAGATA
* * *
94376730 AGAATTGGTAATTTCAACCTGCTCCACTGCTACTTCAGGGAGATAAGGTTTGTTTATTTTTATCC
65 AGAATTGGTAATTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCC
* *
94376795 TGCTCTACTTCAACTTTAGAGAGATAAGGATTGTGGCTTCGATCTACTCC
130 TGCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCC
* * ** *
94376845 AATATAATTTCAAAGAGAAGAGATTTACAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAA
1 AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTTAAGGAGATAA
* * *
94376910 TAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTCGTGTATTTTTATCCT
66 GAATTGGTAATTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
* * * * *
94376975 ACTTTACTGCAACTTCAGAGAGATAAGGATTATGGCTTCAATCTGCTCC
131 GCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCC
* * *
94377024 AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCAATCTACTCCGTTGGAACTTTAAAGAGATAA
1 AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTTAAGGAGATAA
* * * * * * **
94377089 GAATTGGTAATTTCAATCC-GCTCCAATGTAATTTCAGGGAG--AAGAGATT-TGTAGCTTCAAT
66 GAATTGGTAATTTCAA-CCTACTCCACTGCAACTTCAGGGAGATAAG-GTTTGTGTA-TTTTTAT
* * * * *** * * *
94377150 -CTACTCCACTGGAACTTCA-AGGAGATAAGAATTGGTAATTTCAACCTGCTCC
128 CCTGCTCTACTGCAACTTCAGA-GAGATAAGGATT-GTGGCTTCGATCTACTCC
* * * * * * ** * ** * *
94377202 ACTATAACTTCAGGGAGATA-AGGTTTGT-GTATTTTTATCCTGCTCTACTGCAAC-TTCAGAGA
1 AATGTAATTTCAAGGAGA-AGAGATTTGTAG--CTTCGAT-CTACTCCGCTGGAACTTTAAG-GA
* ** * * * * * * * *
94377264 GATAAGGATT-GTGGCTTT-GATCTGCTCCAATGTAATTTCAGGGAGA-ATA-GATT-TGTAGCT
61 GATAAGAATTGGT-AATTTCAACCTACTCCACTGCAACTTCAGGGAGATA-AGGTTTGTGTA-TT
** * * * * ** *
94377324 TCGAT-CTACTCCACTAG-AACTT-AAAGGAGATAAGAATTGGTGGCTTTAATCCACTCC
123 TTTATCCTGCTCTACT-GCAACTTCAGA-GAGATAAGGATT-GTGGCTTCGATCTACTCC
* * *
94377381 AATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTAGAACTTCAAGGAGATAA
1 AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTTAAGGAGATAA
* * *
94377446 GAATTAGTAATTTCAACCTGCTCCACTGCAACTTAAGGGAGATAAGGTTTGTGTATTTTTATCCT
66 GAATTGGTAATTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
* *
94377511 TC-CTACTACAACT
131 GCTCTACTGCAACT
94377524 CAAGGGTATA
Statistics
Matches: 888, Mismatches: 121, Indels: 56
0.83 0.11 0.05
Matches are distributed among these distances:
176 1 0.00
177 59 0.07
178 76 0.09
179 714 0.80
180 37 0.04
181 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (179 bp):
AATGTAATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTTAAGGAGATAA
GAATTGGTAATTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
GCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCGATCTACTCC
Found at i:94377164 original size:268 final size:268
Alignment explanation
Indices: 94376308--94377523 Score: 1208
Period size: 268 Copynumber: 4.5 Consensus size: 268
94376298 AATATGTTCT
* * *
94376308 AATGTAATTTCATGGAGAAGAGATTTGTAGCTTCGATCTACTCTGTTGGAACTTCAAGGAGATAA
1 AATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAA
* * * * *
94376373 AAATTGGTAATTTCAACCTACTCCACTGCAACTTTAAGGAGATAAGGTTTGTGTACTTTTATCCT
66 GAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
* * * * * *
94376438 GCTCTACTGCAACTTCAGAGAAATAAGGATTGTGGCTTCGATCTACTCTAATGTAATTTCATGGA
131 ACTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCAATCTGCTCCAATGTAATTTCAGGGA
* * *
94376503 GAAGAGATTTGTAGCTTCGATCTACTCCGCTAAAAATTTAAGGAGATAAGAATTGGTAATTTCAA
196 GAAGAGATTTGTAGCTTCGATCTACTCCGCTAGAACTTTAAAGAGATAAGAATTGGTAATTTCAA
94376568 -CCTACTCC
261 TCC-ACTCC
* * * * ** * ** ** *
94376576 ACTGCT-ACTTCAGGGAGATA-AGGTTTGTTTA-TTTTTATCCTGCTCTACTTCAACTT-TAGAG
1 AATG-TAATTTCAGGGAGA-AGAGATTTG--TAGCTTCGAT-CTACTCCGCTGGAACTTCAAG-G
* *** * * * * ** * * * * *
94376637 AGATAAGGATT-GTGGCTTCGATCTACTCCAATATAATTTCA--GAGAGAAGAGATT-TGCAGCT
60 AGATAAGAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG-GTTTGTGTA-TT
** ** ** * * *** * *
94376698 TCGAT-CTACTCCGCTAAAACTTTA-AGGAGATAAGAATTGGTAATTTCAACCTGCTCCACTGCT
123 TTTATCCTACTCTACTGCAACTTCAGA-GAGATAAGGATT-GTGGCTTCAATCTGCTCCAATG-T
* * * ** * ** ** *
94376761 -ACTTCAGGGAGATA-AGGTTTGTTTA-TTTTTATCCTGCTCTACTTCAACTTTAGAGAGATAAG
185 AATTTCAGGGAGA-AGAGATTTG--TAGCTTCGAT-CTACTCCGCTAGAACTTTAAAGAGATAAG
* *** * *
94376823 GATT-GTGGCTTCGATCTACTCC
246 AATTGGTAATTTCAATCCACTCC
* ** **
94376845 AATATAATTTCAAAGAGAAGAGATTTACAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAA
1 AATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAA
* *
94376910 TAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTCGTGTATTTTTATCCT
66 GAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
* * *
94376975 ACTTTACTGCAACTTCAGAGAGATAAGGATTATGGCTTCAATCTGCTCCAATGTAATTTCAAGGA
131 ACTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCAATCTGCTCCAATGTAATTTCAGGGA
* * *
94377040 GAAGAGATTTGTAGCTTCAATCTACTCCGTTGGAACTTTAAAGAGATAAGAATTGGTAATTTCAA
196 GAAGAGATTTGTAGCTTCGATCTACTCCGCTAGAACTTTAAAGAGATAAGAATTGGTAATTTCAA
*
94377105 TCCGCTCC
261 TCCACTCC
* *
94377113 AATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCCACTGGAACTTCAAGGAGATAA
1 AATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAA
**
94377178 GAATTGGTAATTTCAACCTGCTCCACTATAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
66 GAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
* **
94377243 GCTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTTGATCTGCTCCAATGTAATTTCAGGGA
131 ACTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCAATCTGCTCCAATGTAATTTCAGGGA
* * **
94377308 GAATAGATTTGTAGCTTCGATCTACTCCACTAGAAC-TTAAAGGAGATAAGAATTGGTGGCTTT-
196 GAAGAGATTTGTAGCTTCGATCTACTCCGCTAGAACTTTAAA-GAGATAAGAATTGGT-AATTTC
94377371 AATCCACTCC
259 AATCCACTCC
*
94377381 AATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTAGAACTTCAAGGAGATAA
1 AATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAA
* *
94377446 GAATTAGTAATTTCAACCTGCTCCACTGCAACTTAAGGGAGATAAGGTTTGTGTATTTTTATCCT
66 GAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
* *
94377511 TC-CTACTACAACT
131 ACTCTACTGCAACT
94377524 CAAGGGTATA
Statistics
Matches: 747, Mismatches: 169, Indels: 65
0.76 0.17 0.07
Matches are distributed among these distances:
266 1 0.00
267 98 0.13
268 460 0.62
269 102 0.14
270 85 0.11
271 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (268 bp):
AATGTAATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAA
GAATTGGTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCT
ACTCTACTGCAACTTCAGAGAGATAAGGATTGTGGCTTCAATCTGCTCCAATGTAATTTCAGGGA
GAAGAGATTTGTAGCTTCGATCTACTCCGCTAGAACTTTAAAGAGATAAGAATTGGTAATTTCAA
TCCACTCC
Found at i:94377258 original size:46 final size:46
Alignment explanation
Indices: 94376357--94377500 Score: 263
Period size: 44 Copynumber: 25.6 Consensus size: 46
94376347 ACTCTGTTGG
* ** *
94376357 AACTTCAAGGAGATAAAAATTG-GTAATTTCAACCTACTCCACTGC
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * * * * * *
94376402 AACTTTAAGGAGATAAGGTTTGTGTACTTTTATCCTGCTCTACTGC
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * ** * * * * * *
94376448 AACTTCAGAGAAATAAGGATTGTG--GCTTCGATCTACTCTAATGT
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * ** * * * * **
94376492 AATTTCATGGAG--AAGAGATT-TGTAGCTTCGATCTACTCCGCTAA
1 AACTTCAGGGAGATAAG-GATTGTGTAATTTCAACCTGCTCCACTGC
* * * * *
94376536 AAATTTAAGGAGATAAGAATTG-GTAATTTCAACCTACTCCACTGC
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * * * * * * *
94376581 TACTTCAGGGAGATAAGGTTTGTTTATTTTTATCCTGCTCTACTTC
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * ** * * * * **
94376627 AACTTTAGAGAGATAAGGATTGTG--GCTTCGATCTACTCCAATAT
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * * ** * * * * **
94376671 AATTTCA--GAGAGAAGAGATT-TGCAGCTTCGATCTACTCCGCTAA
1 AACTTCAGGGAGATAAG-GATTGTGTAATTTCAACCTGCTCCACTGC
* * *
94376715 AACTTTAAGGAGATAAGAATTG-GTAATTTCAACCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * * * * * * *
94376760 TACTTCAGGGAGATAAGGTTTGTTTATTTTTATCCTGCTCTACTTC
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * ** * * * * **
94376806 AACTTTAGAGAGATAAGGATTGTG--GCTTCGATCTACTCCAATAT
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * * ** ** * * * * *
94376850 AATTTCA--AAGAGAAGAGATT-TACAGCTTCGATCTACTCCGCTGG
1 AACTTCAGGGAGATAAG-GATTGTGTAATTTCAACCTGCTCCACTGC
* **
94376894 AACTTCAAGGAGATAATAATTG-GTAATTTCAACCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * * * **
94376939 AACTTCAGGGAGATAAGG-TTCGTGTATTTTTATCCTACTTTACTGC
1 AACTTCAGGGAGATAAGGATT-GTGTAATTTCAACCTGCTCCACTGC
* * ** * * *
94376985 AACTTCAGAGAGATAAGGATTATG--GCTTCAATCTGCTCCAATGT
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * ** * * ** *
94377029 AATTTCAAGGAG--AAGAGATT-TGTAGCTTCAATCTACTCCGTTGG
1 AACTTCAGGGAGATAAG-GATTGTGTAATTTCAACCTGCTCCACTGC
* ** * * *
94377073 AACTTTAAAGAGATAAGAATTG-GTAATTTCAATCC-GCTCCAATGT
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAA-CCTGCTCCACTGC
* ** * * *
94377118 AATTTCAGGGAG--AAGAGATT-TGTAGCTTCAATCTACTCCACTGG
1 AACTTCAGGGAGATAAG-GATTGTGTAATTTCAACCTGCTCCACTGC
* * **
94377162 AACTTCAAGGAGATAAGAATTG-GTAATTTCAACCTGCTCCACTAT
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* * * * *
94377207 AACTTCAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGC
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* ** * * * *
94377253 AACTTCAGAGAGATAAGGATTGTG-GCTTT-GATCTGCTCCAATGT
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* ** * * *
94377297 AATTTCAGGGAGA-ATA-GATT-TGTAGCTTCGATCTACTCCACTAG-
1 AACTTCAGGGAGATA-AGGATTGTGTAATTTCAACCTGCTCCACT-GC
* * * ** * * *
94377341 AACTTAAAGGAGATAAGAATTG-GTGGCTTT-AATCC-ACTCCAATGT
1 AACTTCAGGGAGATAAGGATTGTGT-AATTTCAA-CCTGCTCCACTGC
* ** * * * *
94377386 AATTTCAGGGAG--AAGAGATT-TGTAGCTTCGATCTACTCCGCTAG-
1 AACTTCAGGGAGATAAG-GATTGTGTAATTTCAACCTGCTCCACT-GC
* * *
94377430 AACTTCAAGGAGATAAGAATT-AGTAATTTCAACCTGCTCCACTGC
1 AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
* *
94377475 AACTTAAGGGAGATAAGGTTTGTGTA
1 AACTTCAGGGAGATAAGGATTGTGTA
94377501 TTTTTATCCT
Statistics
Matches: 780, Mismatches: 262, Indels: 113
0.68 0.23 0.10
Matches are distributed among these distances:
42 28 0.04
43 33 0.04
44 256 0.33
45 247 0.32
46 214 0.27
47 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (46 bp):
AACTTCAGGGAGATAAGGATTGTGTAATTTCAACCTGCTCCACTGC
Found at i:94377570 original size:46 final size:46
Alignment explanation
Indices: 94377506--94377679 Score: 235
Period size: 46 Copynumber: 3.8 Consensus size: 46
94377496 GTGTATTTTT
* *
94377506 ATCCTTCCTACTACAACTCAAGGGTATAGGATTTGTATCATCTTTA
1 ATCCATCCCACTACAACTCAAGGGTATAGGATTTGTATCATCTTTA
* *
94377552 ATCCATCCCACTATAACTCAAGGGTATAGGATTTGTACCATCTTTA
1 ATCCATCCCACTACAACTCAAGGGTATAGGATTTGTATCATCTTTA
* * *
94377598 ATCCATCCCACTGCAACTCAGGGGTATAGGATTTGTATC-TTTTTCA
1 ATCCATCCCACTACAACTCAAGGGTATAGGATTTGTATCATCTTT-A
* *
94377644 ATCCATCCCACTGCAGCTC-AGGGTTATAGGATTTGT
1 ATCCATCCCACTACAACTCAAGGG-TATAGGATTTGT
94377680 GGCTTCTTCA
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
45 7 0.06
46 108 0.94
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (46 bp):
ATCCATCCCACTACAACTCAAGGGTATAGGATTTGTATCATCTTTA
Found at i:94378202 original size:26 final size:26
Alignment explanation
Indices: 94378173--94378263 Score: 75
Period size: 27 Copynumber: 3.5 Consensus size: 26
94378163 AATTAACTCA
94378173 AAATG-AATAAGTTAATCAAAGATAGC
1 AAATGTAATAAGTTAA-CAAAGATAGC
* *
94378199 AAATGTAATAAG--AAGAAA-ATTGACTC
1 AAATGTAATAAGTTAACAAAGA-T-A-GC
94378225 AAAATG-AATAAGTTAAGCAAAGATAGC
1 -AAATGTAATAAGTTAA-CAAAGATAGC
94378252 AAATGTAATAAG
1 AAATGTAATAAG
94378264 AATAAAATTG
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
23 1 0.02
24 4 0.08
25 3 0.06
26 17 0.33
27 18 0.35
28 3 0.06
29 4 0.08
30 1 0.02
ACGTcount: A:0.55, C:0.07, G:0.16, T:0.22
Consensus pattern (26 bp):
AAATGTAATAAGTTAACAAAGATAGC
Found at i:94378273 original size:53 final size:53
Alignment explanation
Indices: 94378120--94378274 Score: 238
Period size: 53 Copynumber: 2.9 Consensus size: 53
94378110 GCATAGCTCG
* * ** * *
94378120 AAATAAATAAATTAATCAAAGATAGCAAATACAATAAGAAGGAAATTAACTCA
1 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGAAAATTGACTCA
94378173 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGAAAATTGACTCA
1 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGAAAATTGACTCA
* *
94378226 AAATGAATAAGTTAAGCAAAGATAGCAAATGTAATAAGAATAAAATTGA
1 AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGAAAATTGA
94378275 TTGGGATCAT
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 94 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.22
Consensus pattern (53 bp):
AAATGAATAAGTTAATCAAAGATAGCAAATGTAATAAGAAGAAAATTGACTCA
Found at i:94382045 original size:19 final size:20
Alignment explanation
Indices: 94382021--94382065 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
94382011 TTGTGACATT
*
94382021 CAATGCATATG-ATGAAATG
1 CAATGCAGATGCATGAAATG
94382040 CAATGCAGATGCATGAAATG
1 CAATGCAGATGCATGAAATG
94382060 -AATGCA
1 CAATGCA
94382066 AAAAGAGACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.22
Consensus pattern (20 bp):
CAATGCAGATGCATGAAATG
Found at i:94391027 original size:15 final size:15
Alignment explanation
Indices: 94391007--94391036 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
94390997 TAGTAAAAGG
94391007 GATAAAATGTAATCT
1 GATAAAATGTAATCT
94391022 GATAAAATGTAATCT
1 GATAAAATGTAATCT
94391037 AACTCTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (15 bp):
GATAAAATGTAATCT
Found at i:94399717 original size:15 final size:15
Alignment explanation
Indices: 94399697--94399726 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
94399687 AAATCAAATC
94399697 TCAATAAAAAGGGAG
1 TCAATAAAAAGGGAG
*
94399712 TCAATAAAAATGGAG
1 TCAATAAAAAGGGAG
94399727 AAATTCTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.07, G:0.23, T:0.17
Consensus pattern (15 bp):
TCAATAAAAAGGGAG
Found at i:94400606 original size:5 final size:6
Alignment explanation
Indices: 94400592--94400631 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
94400582 AAAGCAACAT
*
94400592 AATAAA AAT-AA AATAAA AATGAA AATAAA AATAAA AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAA
94400632 CATAAGTGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:94400631 original size:12 final size:11
Alignment explanation
Indices: 94400592--94400627 Score: 63
Period size: 11 Copynumber: 3.2 Consensus size: 11
94400582 AAAGCAACAT
94400592 AATAAAAATAA
1 AATAAAAATAA
94400603 AATAAAAATGAA
1 AATAAAAAT-AA
94400615 AATAAAAATAA
1 AATAAAAATAA
94400626 AA
1 AA
94400628 ATAACATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AATAAAAATAA
Found at i:94402199 original size:3 final size:3
Alignment explanation
Indices: 94402191--94402239 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
94402181 AATAAAAGAC
94402191 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
94402239 A
1 A
94402240 AGTAAACTAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:94425021 original size:16 final size:18
Alignment explanation
Indices: 94424994--94425027 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
94424984 TTAGAATTGT
94424994 ATTGAGGAAATT-ATTTA
1 ATTGAGGAAATTAATTTA
94425011 ATTGA-GAAATTAATTTA
1 ATTGAGGAAATTAATTTA
94425028 GTTAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (18 bp):
ATTGAGGAAATTAATTTA
Found at i:94427365 original size:25 final size:25
Alignment explanation
Indices: 94427337--94427384 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
94427327 TAGGATATGT
*
94427337 TATGATATGATTTGATCCGATATTA
1 TATGATATGATCTGATCCGATATTA
* * *
94427362 TATGCTATGGTCTGATCTGATAT
1 TATGATATGATCTGATCCGATAT
94427385 GTTATACTAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.19, T:0.44
Consensus pattern (25 bp):
TATGATATGATCTGATCCGATATTA
Found at i:94427980 original size:27 final size:27
Alignment explanation
Indices: 94427946--94428001 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
94427936 AATTAAGTTG
94427946 TGAAAATCGTTGTGTTTTCAAAAAAGT
1 TGAAAATCGTTGTGTTTTCAAAAAAGT
94427973 TGAAAATCGTTGTGTTTTCAAAAAAGT
1 TGAAAATCGTTGTGTTTTCAAAAAAGT
94428000 TG
1 TG
94428002 TTCGATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (27 bp):
TGAAAATCGTTGTGTTTTCAAAAAAGT
Found at i:94428554 original size:5 final size:5
Alignment explanation
Indices: 94428544--94428590 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
94428534 AAGTGATCAT
* *
94428544 GGGCC GGGCC GGGCC GGGTTC GGGCC GGGCC GGGTTC GGGCC GGGCC
1 GGGCC GGGCC GGGCC GGG-CC GGGCC GGGCC GGG-CC GGGCC GGGCC
94428591 CATACAATTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
5 28 0.78
6 8 0.22
ACGTcount: A:0.00, C:0.34, G:0.57, T:0.09
Consensus pattern (5 bp):
GGGCC
Found at i:94428569 original size:11 final size:10
Alignment explanation
Indices: 94428544--94428590 Score: 58
Period size: 11 Copynumber: 4.5 Consensus size: 10
94428534 AAGTGATCAT
94428544 GGGCCGGGCC
1 GGGCCGGGCC
*
94428554 GGGCCGGGTTC
1 GGGCCGGG-CC
94428565 GGGCCGGGCC
1 GGGCCGGGCC
*
94428575 GGGTTCGGGCC
1 GGG-CCGGGCC
94428586 GGGCC
1 GGGCC
94428591 CATACAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 13 0.42
11 18 0.58
ACGTcount: A:0.00, C:0.34, G:0.57, T:0.09
Consensus pattern (10 bp):
GGGCCGGGCC
Found at i:94428569 original size:16 final size:16
Alignment explanation
Indices: 94428548--94428590 Score: 86
Period size: 16 Copynumber: 2.7 Consensus size: 16
94428538 GATCATGGGC
94428548 CGGGCCGGGCCGGGTT
1 CGGGCCGGGCCGGGTT
94428564 CGGGCCGGGCCGGGTT
1 CGGGCCGGGCCGGGTT
94428580 CGGGCCGGGCC
1 CGGGCCGGGCC
94428591 CATACAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.00, C:0.35, G:0.56, T:0.09
Consensus pattern (16 bp):
CGGGCCGGGCCGGGTT
Found at i:94428789 original size:24 final size:25
Alignment explanation
Indices: 94428745--94428792 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
94428735 ATAAAAAAAT
94428745 TTTAAAAAATAATAAATCAAATATA
1 TTTAAAAAATAATAAATCAAATATA
94428770 TTTAAAAACATAA-AAA-CAAATAT
1 TTTAAAAA-ATAATAAATCAAATAT
94428793 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.32
25 11 0.50
26 4 0.18
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (25 bp):
TTTAAAAAATAATAAATCAAATATA
Found at i:94428804 original size:22 final size:21
Alignment explanation
Indices: 94428733--94428821 Score: 65
Period size: 21 Copynumber: 4.1 Consensus size: 21
94428723 TTATTTCATT
* *
94428733 AAAT-AAAAAAATTTTAAAAA
1 AAATAAAAAAAATATTAAAAC
*
94428753 ATAATAAATCAAATATATTTAAAA-
1 A-AATAAA--AAAAATA-TTAAAAC
*
94428777 ACATAAAAACAAATATTAAAAC
1 AAATAAAAA-AAATATTAAAAC
* *
94428799 AAATAAAAATAATACTAAAAC
1 AAATAAAAAAAATATTAAAAC
94428820 AA
1 AA
94428822 TTCTTAAAAC
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
20 1 0.02
21 23 0.42
22 14 0.25
23 5 0.09
24 6 0.11
25 6 0.11
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATAAAAAAAATATTAAAAC
Found at i:94428897 original size:15 final size:16
Alignment explanation
Indices: 94428867--94428899 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
94428857 AAATGGTTAT
94428867 ATTAAAAATTTAAAATA
1 ATTAAAAA-TTAAAATA
94428884 ATTAAAAA-TAAAATA
1 ATTAAAAATTAAAATA
94428899 A
1 A
94428900 AAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
ATTAAAAATTAAAATA
Found at i:94429254 original size:17 final size:17
Alignment explanation
Indices: 94429221--94429264 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
94429211 TCTTAGTTCG
94429221 AATCAATTTTCGATTCA
1 AATCAATTTTCGATTCA
*
94429238 TATCAATTTT-GAGTTCA
1 AATCAATTTTCGA-TTCA
*
94429255 AATCACTTTT
1 AATCAATTTT
94429265 AGGTTTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (17 bp):
AATCAATTTTCGATTCA
Found at i:94429437 original size:16 final size:16
Alignment explanation
Indices: 94429396--94429439 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
94429386 GTGTTTAGGA
* *
94429396 TTGCTATTTCTAGTGT
1 TTGCTATTTTTAATGT
94429412 TTGCTATTTTTAATGT
1 TTGCTATTTTTAATGT
*
94429428 TTTCTATTTTTA
1 TTGCTATTTTTA
94429440 GGAGTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.16, C:0.09, G:0.11, T:0.64
Consensus pattern (16 bp):
TTGCTATTTTTAATGT
Found at i:94433766 original size:25 final size:25
Alignment explanation
Indices: 94433738--94433790 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
94433728 ATATTATGTG
*
94433738 AAATAATGTATAGAATACA-ATATTA
1 AAAT-ATGTACAGAATACACATATTA
* *
94433763 AAATATTTACATAATACACATATTA
1 AAATATGTACAGAATACACATATTA
94433788 AAA
1 AAA
94433791 ATAACTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 11 0.46
25 13 0.54
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (25 bp):
AAATATGTACAGAATACACATATTA
Found at i:94433801 original size:25 final size:24
Alignment explanation
Indices: 94433751--94433803 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
94433741 TAATGTATAG
**
94433751 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
94433775 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
94433800 AATA
1 AATA
94433804 ATATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:94434497 original size:6 final size:6
Alignment explanation
Indices: 94434486--94434510 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
94434476 GTCGGAACGT
94434486 CGCCGG CGCCGG CGCCGG CGCCGG C
1 CGCCGG CGCCGG CGCCGG CGCCGG C
94434511 CACCGCACGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.52, G:0.48, T:0.00
Consensus pattern (6 bp):
CGCCGG
Found at i:94434591 original size:20 final size:19
Alignment explanation
Indices: 94434554--94434592 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
94434544 TTTTGTGTTA
* *
94434554 TTTATTTATTTATTTATAT
1 TTTATTTATTAATATATAT
94434573 TTTATGTTATTAATATATAT
1 TTTAT-TTATTAATATATAT
94434593 ATGCACTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTATTTATTAATATATAT
Found at i:94435061 original size:16 final size:16
Alignment explanation
Indices: 94435040--94435111 Score: 78
Period size: 16 Copynumber: 4.5 Consensus size: 16
94435030 GGTTTAGTTA
*
94435040 GGTTTAATGGGTTTTG
1 GGTTTAGTGGGTTTTG
94435056 GGTTTAGTGGGTTTT-
1 GGTTTAGTGGGTTTTG
94435071 GG-TTAGTTGGGGTTATTG
1 GGTTTAG-T-GGGTT-TTG
94435089 GG-TTAGTGGGTTTTG
1 GGTTTAGTGGGTTTTG
*
94435104 GGTCTAGT
1 GGTTTAGT
94435112 TGTTGGGCTC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
14 4 0.08
15 8 0.16
16 28 0.57
17 3 0.06
18 6 0.12
ACGTcount: A:0.10, C:0.01, G:0.42, T:0.47
Consensus pattern (16 bp):
GGTTTAGTGGGTTTTG
Found at i:94435095 original size:32 final size:34
Alignment explanation
Indices: 94435048--94435113 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
94435038 TAGGTTTAAT
94435048 GGGTTTTGGGTTTAGTGGGTTTT-GGT-TAGTTG
1 GGGTTTTGGGTTTAGTGGGTTTTGGGTCTAGTTG
94435080 GGGTTATTGGG-TTAGTGGGTTTTGGGTCTAGTTG
1 GGGTT-TTGGGTTTAGTGGGTTTTGGGTCTAGTTG
94435114 TTGGGCTCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 17 0.55
33 8 0.26
34 6 0.19
ACGTcount: A:0.08, C:0.02, G:0.44, T:0.47
Consensus pattern (34 bp):
GGGTTTTGGGTTTAGTGGGTTTTGGGTCTAGTTG
Found at i:94436010 original size:74 final size:73
Alignment explanation
Indices: 94435794--94436043 Score: 280
Period size: 74 Copynumber: 3.4 Consensus size: 73
94435784 GAACAGAGGC
* *
94435794 TCAACTCATTTCTCGCAATATGAGTTGATTTT--TTTACA-ACGGAAATTGAAATTACCTCAGCG
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTAATTTA-ATA-GG-AATTGAAATTACCTCAGCG
* ** *
94435856 TGTCCTGAGGC
63 TGCCCCAAGGT
* * ** * * *
94435867 TCAACTCACCTCTCGCCATATGAGTTGAAATTAA--AAAT-GAAAATTGAAAATACCTC-GTCGT
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTAATTTAATAG-GAATTGAAATTACCTCAG-CGT
94435928 GCCCCAAGGT
64 GCCCCAAGGT
94435938 TCAACTCACTTCTCGCGATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAGCGTG
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTA-ATTTAATAGGAATTGAAATTACCTCAGCGTG
94436003 CCCCAAGGT
65 CCCCAAGGT
94436012 TCAACTCACTTCTCGCGATATGAGTTGATTTT
1 TCAACTCACTTCTCGCGATATGAGTTGATTTT
94436044 TTGAAACTTA
Statistics
Matches: 148, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
70 1 0.01
71 53 0.36
72 2 0.01
73 28 0.19
74 62 0.42
75 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (73 bp):
TCAACTCACTTCTCGCGATATGAGTTGATTTTAATTTAATAGGAATTGAAATTACCTCAGCGTGC
CCCAAGGT
Found at i:94436253 original size:160 final size:161
Alignment explanation
Indices: 94435982--94436275 Score: 509
Period size: 160 Copynumber: 1.8 Consensus size: 161
94435972 ATTTAATAGG
* * * *
94435982 AATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTTG
1 AATTGAAAATACCTCAGCGTACCCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTG
* *
94436047 AAACTTAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
66 AAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
94436112 TTTTCTTAGAAAACATGAATTAAAAGGCAGA
131 TTTTCTTAGAAAACATGAATTAAAAGGCAGA
*
94436143 AATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTG
1 AATTGAAAATACCTCAGCGTACCCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTG
*
94436207 AAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
66 AAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
94436272 TTTT
131 TTTT
94436276 GATAAAGTAG
Statistics
Matches: 125, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
160 72 0.58
161 53 0.42
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (161 bp):
AATTGAAAATACCTCAGCGTACCCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTG
AAACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA
TTTTCTTAGAAAACATGAATTAAAAGGCAGA
Found at i:94436258 original size:71 final size:71
Alignment explanation
Indices: 94436142--94436275 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
94436132 TAAAAGGCAG
* *
94436142 AAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
94436207 AAACAT
66 AAACAT
* ** *
94436213 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAACGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
94436276 GATAAAGTAG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAACAT
Found at i:94436397 original size:127 final size:127
Alignment explanation
Indices: 94436173--94436531 Score: 641
Period size: 127 Copynumber: 2.8 Consensus size: 127
94436163 ACCCCGAGGC
* * * *
94436173 TCAACTCACTTCTCGCAATATGAGTTGATTTTTG--AAACATAAATTGAAATTACCTCAACGTGT
1 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACATAAATTGAAATTACCTCAGCGTGT
94436236 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATAAAGTAGAAATTAAAAGGT
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATAAAGTAGAAATTAAAAGGT
* *
94436298 TCAACCCACCTCTCGCAATATGAGTTGATCCTTGACAAACAGAAATTGAAATTACCTCAGCGTGT
1 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACATAAATTGAAATTACCTCAGCGTGT
94436363 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATAAAGTAGAAATTAAAAGGT
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATAAAGTAGAAATTAAAAGGT
*
94436425 TCAACCCACCTCTCGCAATATGAGTCGATTCTTGACAAACATAAATTGAAATTACCTCAGCGTGT
1 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACATAAATTGAAATTACCTCAGCGTGT
94436490 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
66 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
94436532 CAAACAGAAG
Statistics
Matches: 223, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
125 30 0.13
127 193 0.87
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (127 bp):
TCAACCCACCTCTCGCAATATGAGTTGATTCTTGACAAACATAAATTGAAATTACCTCAGCGTGT
CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGATAAAGTAGAAATTAAAAGGT
Found at i:94436555 original size:72 final size:72
Alignment explanation
Indices: 94436425--94436601 Score: 291
Period size: 72 Copynumber: 2.4 Consensus size: 72
94436415 ATTAAAAGGT
* *
94436425 TCAACCCACCTCTCGCAATATGAGTCGATTCTTGACAAACATAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTCGATT-TTGACAAACAGAAATTGAAATTACCTCAGCGTGT
94436490 CCTGAGGC
65 CCTGAGGC
* *
94436498 TCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAGTTGAAATTACCTCAGCGTGTC
1 TCAACTCACCTCTCGCAATATGAGTCGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
94436563 CTGAGGC
66 CTGAGGC
* *
94436570 TCAACTCACTTCTCGCGATATGAGTCGATTTT
1 TCAACTCACCTCTCGCAATATGAGTCGATTTT
94436602 CTTGGAAACA
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
72 69 0.71
73 28 0.29
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (72 bp):
TCAACTCACCTCTCGCAATATGAGTCGATTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTC
CTGAGGC
Found at i:94443321 original size:16 final size:16
Alignment explanation
Indices: 94443300--94443366 Score: 84
Period size: 16 Copynumber: 4.1 Consensus size: 16
94443290 GGTTTAGTTA
*
94443300 GGTTTAATGGGTTTTG
1 GGTTTAGTGGGTTTTG
94443316 GGTTTAGTGGGTTTT-
1 GGTTTAGTGGGTTTTG
94443331 GG-TTAGTTGGGGTTATTG
1 GGTTTAG-T-GGGTT-TTG
94443349 GGTTTAGTGGGTTTTG
1 GGTTTAGTGGGTTTTG
94443365 GG
1 GG
94443367 GTCTAGTTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
14 4 0.09
15 3 0.07
16 24 0.53
17 7 0.16
18 3 0.07
19 4 0.09
ACGTcount: A:0.09, C:0.00, G:0.43, T:0.48
Consensus pattern (16 bp):
GGTTTAGTGGGTTTTG
Found at i:94444268 original size:74 final size:73
Alignment explanation
Indices: 94444052--94444301 Score: 280
Period size: 74 Copynumber: 3.4 Consensus size: 73
94444042 GAACAGAGGC
* *
94444052 TCAACTCATTTCTCGCAATATGAGTTGATTTT--TTTACA-ACGGAAATTGAAATTACCTCAGCG
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTAATTTA-ATA-GG-AATTGAAATTACCTCAGCG
* ** *
94444114 TGTCCTGAGGC
63 TGCCCCAAGGT
* * ** * * *
94444125 TCAACTCACCTCTCGCCATATGAGTTGAAATTAA--AAAT-GAAAATTGAAAATACCTC-GTCGT
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTAATTTAATAG-GAATTGAAATTACCTCAG-CGT
94444186 GCCCCAAGGT
64 GCCCCAAGGT
94444196 TCAACTCACTTCTCGCGATATGAGTTGATTTTAGATTTAATAGGAATTGAAATTACCTCAGCGTG
1 TCAACTCACTTCTCGCGATATGAGTTGATTTTA-ATTTAATAGGAATTGAAATTACCTCAGCGTG
94444261 CCCCAAGGT
65 CCCCAAGGT
94444270 TCAACTCACTTCTCGCGATATGAGTTGATTTT
1 TCAACTCACTTCTCGCGATATGAGTTGATTTT
94444302 TGAAACTTAA
Statistics
Matches: 148, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
70 1 0.01
71 53 0.36
72 2 0.01
73 28 0.19
74 62 0.42
75 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (73 bp):
TCAACTCACTTCTCGCGATATGAGTTGATTTTAATTTAATAGGAATTGAAATTACCTCAGCGTGC
CCCAAGGT
Found at i:94444370 original size:71 final size:72
Alignment explanation
Indices: 94444047--94444373 Score: 297
Period size: 71 Copynumber: 4.5 Consensus size: 72
94444037 CAGGTGAACA
* * * **
94444047 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTACAACGGAAATTGAAATTACCTCAG
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGATAACTTAAATTGAAATTACCTCAG
* *
94444112 CGTGTCCT
65 CGTGCCCC
* * ** * * * *
94444120 GAGGCTCAACTCACCTCTCGCCATATGAGTTGA-AATT-AAAAATGAAAATTGAAAATACCTC-G
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGATAACT-TAAATTGAAATTACCTCAG
94444182 TCGTGCCCC
65 -CGTGCCCC
* * * *
94444191 AAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTAGATTTAA--TAGGAATTGAAATTACCT
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA--TAACTTA--AATTGAAATTACCT
94444254 CAGCGTGCCCC
62 CAGCGTGCCCC
* * * *
94444265 AAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGA-AACTTAAATTGAAATTACCTCAAC
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGATAACTTAAATTGAAATTACCTCAGC
* **
94444329 GTGTCTT
66 GTGCCCC
* *
94444336 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTT
94444374 TAGAAAACAT
Statistics
Matches: 211, Mismatches: 32, Indels: 24
0.79 0.12 0.09
Matches are distributed among these distances:
70 4 0.02
71 108 0.51
72 2 0.01
73 33 0.16
74 61 0.29
75 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (72 bp):
GAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGATAACTTAAATTGAAATTACCTCAGC
GTGCCCC
Found at i:94444514 original size:71 final size:70
Alignment explanation
Indices: 94444398--94444535 Score: 213
Period size: 71 Copynumber: 2.0 Consensus size: 70
94444388 TAAAAGGCAG
* *
94444398 AAATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
94444463 AAACAT
65 AAACAT
* ** *
94444469 AAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAAATACCTCAACGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
94444534 AA
66 AA
94444536 AGTAGAAATT
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 8 0.13
71 53 0.87
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (70 bp):
AAATTGAAAATACCTCAACGTACCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
AACAT
Found at i:94444529 original size:159 final size:159
Alignment explanation
Indices: 94444240--94444531 Score: 512
Period size: 159 Copynumber: 1.8 Consensus size: 159
94444230 ATTTAATAGG
* * * *
94444240 AATTGAAATTACCTCAGCGTGCCCCAAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTACCCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
* *
94444305 AACTTAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
94444370 TTTTTAGAAAACATGAATTAAAAGGCAGA
131 TTTTTAGAAAACATGAATTAAAAGGCAGA
*
94444399 AATTGAAAATACCTCAGCGTACCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTACCCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
94444464 AACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
94444529 TTT
131 TTT
94444532 GAAAAGTAGA
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
159 125 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.30
Consensus pattern (159 bp):
AATTGAAAATACCTCAGCGTACCCCAAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTTTAGAAAACATGAATTAAAAGGCAGA
Found at i:94444654 original size:120 final size:118
Alignment explanation
Indices: 94444429--94444769 Score: 541
Period size: 120 Copynumber: 2.9 Consensus size: 118
94444419 ACCCCGAGGC
* * *
94444429 TCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAACATAAATTGAAATTACCTCAACGTGTC
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTGAAAACAGAAATTGAAA-TACCTCAGCGTGTC
94444493 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAGTAGAAATTAAAAGT
63 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAA-T--AAATTAAAAGT
94444552 TCAAC-CACCTCTCGCAATATGAGTTGATTTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTG
*
94444616 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAATAAATTAAAGGT
66 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAATAAATTAAAAGT
*
94444669 TCAACTCACCTCTCGCAATATGAG-TG-TTT-AAAACAGAAATTGAAATACCTCAGCGTGCCCTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTG
94444731 AGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTGAAA
66 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAA
94444770 CAAATTGAAA
Statistics
Matches: 211, Mismatches: 5, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
114 27 0.13
115 44 0.21
116 3 0.01
117 17 0.08
118 18 0.09
119 1 0.00
120 61 0.29
121 14 0.07
122 21 0.10
123 5 0.02
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.29
Consensus pattern (118 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTG
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAATAAATTAAAAGT
Found at i:94444831 original size:68 final size:67
Alignment explanation
Indices: 94444669--94444833 Score: 230
Period size: 68 Copynumber: 2.5 Consensus size: 67
94444659 AATTAAAGGT
*
94444669 TCAACTCACCTCTCGCAATATGAGTG--TTTAAAACAGAAATTGAAATACCTCAGCGTGCCCTGA
1 TCAACTCACCTCTCGCAATATGAGTGATTTTAAAACA-AAATTGAAATACCTCAACGTGCCCTGA
94444732 GGC
65 GGC
* * *
94444735 TCAACTCA-CTCTCGCAATATGAGTTGATTTTGAAAC-AAATTGAAATTACCTCAACGTGTCTTG
1 TCAACTCACCTCTCGCAATATGAG-TGATTTTAAAACAAAATTGAAA-TACCTCAACGTGCCCTG
94444798 AGGC
64 AGGC
94444802 TCAACTCACCTCTCGCAATATGAGCTGATTTT
1 TCAACTCACCTCTCGCAATATGAG-TGATTTT
94444834 TTGGAAACAT
Statistics
Matches: 89, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
65 15 0.17
66 19 0.21
67 26 0.29
68 29 0.33
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (67 bp):
TCAACTCACCTCTCGCAATATGAGTGATTTTAAAACAAAATTGAAATACCTCAACGTGCCCTGAG
GC
Found at i:94458542 original size:20 final size:19
Alignment explanation
Indices: 94458505--94458543 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
94458495 TTTTGTGTTA
* *
94458505 TTTATTTATTTATTTATAT
1 TTTATTTATTAATATATAT
94458524 TTTATGTTATTAATATATAT
1 TTTAT-TTATTAATATATAT
94458544 ATGCACTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTATTTATTAATATATAT
Found at i:94459013 original size:16 final size:16
Alignment explanation
Indices: 94458992--94459063 Score: 78
Period size: 16 Copynumber: 4.5 Consensus size: 16
94458982 GGTTTAGTTA
*
94458992 GGTTTAATGGGTTTTG
1 GGTTTAGTGGGTTTTG
94459008 GGTTTAGTGGGTTTT-
1 GGTTTAGTGGGTTTTG
94459023 GG-TTAGTTGGGGTTATTG
1 GGTTTAG-T-GGGTT-TTG
94459041 GG-TTAGTGGGTTTTG
1 GGTTTAGTGGGTTTTG
*
94459056 GGTCTAGT
1 GGTTTAGT
94459064 TGTTGGGCTC
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
14 4 0.08
15 8 0.16
16 28 0.57
17 3 0.06
18 6 0.12
ACGTcount: A:0.10, C:0.01, G:0.42, T:0.47
Consensus pattern (16 bp):
GGTTTAGTGGGTTTTG
Found at i:94459047 original size:32 final size:34
Alignment explanation
Indices: 94459000--94459065 Score: 102
Period size: 32 Copynumber: 2.0 Consensus size: 34
94458990 TAGGTTTAAT
94459000 GGGTTTTGGGTTTAGTGGGTTTT-GGT-TAGTTG
1 GGGTTTTGGGTTTAGTGGGTTTTGGGTCTAGTTG
94459032 GGGTTATTGGG-TTAGTGGGTTTTGGGTCTAGTTG
1 GGGTT-TTGGGTTTAGTGGGTTTTGGGTCTAGTTG
94459066 TTGGGCTCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 17 0.55
33 8 0.26
34 6 0.19
ACGTcount: A:0.08, C:0.02, G:0.44, T:0.47
Consensus pattern (34 bp):
GGGTTTTGGGTTTAGTGGGTTTTGGGTCTAGTTG
Found at i:94460561 original size:16 final size:16
Alignment explanation
Indices: 94460536--94460580 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
94460526 GTGTTTAGGA
*
94460536 TTGCTATTTTTAGTGT
1 TTGCTATTTTTAGCGT
* *
94460552 TTGTTATTTTTAACGT
1 TTGCTATTTTTAGCGT
94460568 TTGCTATTTTTAG
1 TTGCTATTTTTAG
94460581 GAGTTCTGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.16, C:0.07, G:0.16, T:0.62
Consensus pattern (16 bp):
TTGCTATTTTTAGCGT
Found at i:94461927 original size:2 final size:2
Alignment explanation
Indices: 94461920--94461955 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
94461910 GGAAATATTA
94461920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94461956 TTGAGAAATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94462480 original size:2 final size:2
Alignment explanation
Indices: 94462435--94462468 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
94462425 ATATGTAACG
94462435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94462469 TTCTACATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94463368 original size:12 final size:12
Alignment explanation
Indices: 94463351--94463375 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94463341 CCGCCTTGGT
94463351 AAAAACAATTTA
1 AAAAACAATTTA
94463363 AAAAACAATTTA
1 AAAAACAATTTA
94463375 A
1 A
94463376 TTATGATTTG
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:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAACAATTTA
Found at i:94463531 original size:26 final size:28
Alignment explanation
Indices: 94463475--94463532 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
94463465 TATACTTTTG
* *
94463475 AAAAAAAAAAGAGAGAATAGTTATCTTT
1 AAAAAAAAAAGAAAGAATAGTTATCTAT
94463503 AAAAAAAAAA-AAAGAA-AGTTAT-TAAT
1 AAAAAAAAAAGAAAGAATAGTTATCT-AT
94463529 AAAA
1 AAAA
94463533 GCCGGCTGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 1 0.04
26 11 0.41
27 5 0.19
28 10 0.37
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.21
Consensus pattern (28 bp):
AAAAAAAAAAGAAAGAATAGTTATCTAT
Found at i:94464383 original size:2 final size:2
Alignment explanation
Indices: 94464376--94464413 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
94464366 GTCCATTGTT
94464376 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
94464414 ACACTAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94467847 original size:15 final size:14
Alignment explanation
Indices: 94467800--94467847 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
94467790 GAACTTTGAA
* *
94467800 CTTGAACCTCAGAC
1 CTTGAATCTTAGAC
*
94467814 TTTGAATCTTAGAC
1 CTTGAATCTTAGAC
*
94467828 CTTGAATCTTGGACC
1 CTTGAATCTTAGA-C
94467843 CTTGA
1 CTTGA
94467848 TTATAAACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 22 0.79
15 6 0.21
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (14 bp):
CTTGAATCTTAGAC
Found at i:94467898 original size:21 final size:22
Alignment explanation
Indices: 94467851--94467901 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
94467841 CCCTTGATTA
*
94467851 TAAACCCTAAATCCTAGACTCC
1 TAAACCCTAAATCCTAGACTAC
*
94467873 T-AACCCTAAATCTTAGAC-AC
1 TAAACCCTAAATCCTAGACTAC
94467893 TAAACCCTA
1 TAAACCCTA
94467902 GACCCTTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 2 0.08
21 23 0.88
22 1 0.04
ACGTcount: A:0.39, C:0.33, G:0.04, T:0.24
Consensus pattern (22 bp):
TAAACCCTAAATCCTAGACTAC
Found at i:94467954 original size:14 final size:14
Alignment explanation
Indices: 94467932--94467967 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
94467922 AAGTTCATGG
*
94467932 TCCAAGGTCTAGGA
1 TCCAGGGTCTAGGA
94467946 TCCAGGGTCTAGGA
1 TCCAGGGTCTAGGA
*
94467960 TTCAGGGT
1 TCCAGGGT
94467968 TCAAGGTCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.25
Consensus pattern (14 bp):
TCCAGGGTCTAGGA
Found at i:94468007 original size:21 final size:21
Alignment explanation
Indices: 94467963--94468052 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 21
94467953 TCTAGGATTC
*
94467963 AGGGTTCAAGGTCCAAAGTCT
1 AGGGTTCAAGGTACAAAGTCT
* * *
94467984 AGGTTTCAAGGTACAACGTTT
1 AGGGTTCAAGGTACAAAGTCT
* * * *
94468005 AGGGTCCAAGGT-CTAGGTTTT
1 AGGGTTCAAGGTACAAAG-TCT
* * *
94468026 AAGGTCCAAGGTCCAAAGTCT
1 AGGGTTCAAGGTACAAAGTCT
94468047 AGGGTT
1 AGGGTT
94468053 TAATGTTCAG
Statistics
Matches: 53, Mismatches: 14, Indels: 4
0.75 0.20 0.06
Matches are distributed among these distances:
20 3 0.06
21 47 0.89
22 3 0.06
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (21 bp):
AGGGTTCAAGGTACAAAGTCT
Found at i:94469653 original size:36 final size:36
Alignment explanation
Indices: 94469606--94469680 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
94469596 TAATTTAATG
94469606 TTTGTTCCTCATTTGGGTAAAGAAGTGATGAAAATA
1 TTTGTTCCTCATTTGGGTAAAGAAGTGATGAAAATA
94469642 TTTGTTCCTCATTTGGGTAAAGAAGTGATGAAAATA
1 TTTGTTCCTCATTTGGGTAAAGAAGTGATGAAAATA
94469678 TTT
1 TTT
94469681 TTAAGTTTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (36 bp):
TTTGTTCCTCATTTGGGTAAAGAAGTGATGAAAATA
Found at i:94471548 original size:17 final size:17
Alignment explanation
Indices: 94471528--94471626 Score: 135
Period size: 17 Copynumber: 5.6 Consensus size: 17
94471518 CAATGATATG
94471528 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
94471545 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
*
94471563 CAATCTTAAATATGATA
1 CAATCTTAGATATGATA
*
94471580 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
94471598 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
94471617 CAATCTTAGA
1 CAATCTTAGA
94471627 AGATATGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
17 30 0.42
18 30 0.42
19 11 0.15
20 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:94471566 original size:35 final size:35
Alignment explanation
Indices: 94471520--94471626 Score: 178
Period size: 35 Copynumber: 3.0 Consensus size: 35
94471510 ATAATCTTCA
94471520 ATGATATGCAATCTTAGATATGATACAATCTTAGAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
*
94471556 ATGATTGCAATCTTAAATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
94471591 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
94471627 AGATATGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
35 49 0.73
36 5 0.07
37 13 0.19
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.36
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:94471568 original size:18 final size:18
Alignment explanation
Indices: 94471528--94471626 Score: 148
Period size: 18 Copynumber: 5.6 Consensus size: 18
94471518 CAATGATATG
94471528 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
94471545 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
*
94471563 CAATCTTAAATATGA-TA
1 CAATCTTAGATATGATTA
*
94471580 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
94471598 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
94471617 CAATCTTAGA
1 CAATCTTAGA
94471627 AGATATGATT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
17 30 0.41
18 32 0.44
19 11 0.15
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:94474180 original size:31 final size:31
Alignment explanation
Indices: 94474132--94474213 Score: 119
Period size: 31 Copynumber: 2.6 Consensus size: 31
94474122 GGATAGTTTT
* *
94474132 TTGGGTGACTAAAATGAAAGCGACTTAGAAG
1 TTGGGTGACCAAAATGAAAGAGACTTAGAAG
* *
94474163 TTGGATGACCAAAATGAAAGAGATTTAGAAG
1 TTGGGTGACCAAAATGAAAGAGACTTAGAAG
*
94474194 TTGGGTGACCCAAATGAAAG
1 TTGGGTGACCAAAATGAAAG
94474214 TGTAAACATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.40, C:0.10, G:0.28, T:0.22
Consensus pattern (31 bp):
TTGGGTGACCAAAATGAAAGAGACTTAGAAG
Found at i:94476683 original size:25 final size:24
Alignment explanation
Indices: 94476655--94476709 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
94476645 TCTGTTCCAC
* *
94476655 CTTTTCTGTTCTCTTTCTTTTGTTT
1 CTTTT-TGTTCTATTTCTTTTATTT
* *
94476680 CTTTATTTTTTTATTTCTTTTATTT
1 CTTT-TTGTTCTATTTCTTTTATTT
94476705 CTTTT
1 CTTTT
94476710 AAATTTTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 23 0.92
26 1 0.04
ACGTcount: A:0.05, C:0.15, G:0.04, T:0.76
Consensus pattern (24 bp):
CTTTTTGTTCTATTTCTTTTATTT
Found at i:94476694 original size:8 final size:9
Alignment explanation
Indices: 94476668--94476710 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
94476658 TTCTGTTCTC
*
94476668 TTTCTTTTG
1 TTTCTTTTA
94476677 TTTC-TTTA
1 TTTCTTTTA
94476685 TTT-TTTTA
1 TTTCTTTTA
94476693 TTTCTTTTA
1 TTTCTTTTA
94476702 TTTCTTTTA
1 TTTCTTTTA
94476711 AATTTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 13 0.42
9 18 0.58
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (9 bp):
TTTCTTTTA
Found at i:94476732 original size:8 final size:8
Alignment explanation
Indices: 94476721--94476755 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
94476711 AATTTTATTA
94476721 TATTATAT
1 TATTATAT
94476729 TATTATAT
1 TATTATAT
*
94476737 TAATATAT
1 TATTATAT
94476745 TATTATAT
1 TATTATAT
94476753 TAT
1 TAT
94476756 ACACTTAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:94476733 original size:13 final size:13
Alignment explanation
Indices: 94476715--94476756 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 13
94476705 CTTTTAAATT
94476715 TTATTATATTATA
1 TTATTATATTATA
94476728 TTATTATATTAATATA
1 TTATTATA-T--TATA
94476744 TTATTATATTATA
1 TTATTATATTATA
94476757 CACTTAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 12 0.46
14 1 0.04
15 1 0.04
16 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTATTATATTATA
Found at i:94477851 original size:30 final size:30
Alignment explanation
Indices: 94477815--94477873 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
94477805 CACTTTTCTT
94477815 AAGTTAACCCATCACCTCTCTATATCTATA
1 AAGTTAACCCATCACCTCTCTATATCTATA
94477845 AAGTTAACCCATCACCTCTCTATATCTAT
1 AAGTTAACCCATCACCTCTCTATATCTAT
94477874 TTAATTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.31, G:0.03, T:0.34
Consensus pattern (30 bp):
AAGTTAACCCATCACCTCTCTATATCTATA
Found at i:94479272 original size:13 final size:13
Alignment explanation
Indices: 94479254--94479292 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
94479244 AAGTAAGCGT
94479254 ACACGGGCGTGTC
1 ACACGGGCGTGTC
94479267 ACACGGGCGTGTC
1 ACACGGGCGTGTC
94479280 ACACGGGCGTGTC
1 ACACGGGCGTGTC
94479293 CCTGTCGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:94484268 original size:32 final size:32
Alignment explanation
Indices: 94484230--94484293 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
94484220 GACACGTTAG
*
94484230 ACACTTAGCTACAAATCTAGTCACCTCACGTT
1 ACACTTAGCTACAAATCCAGTCACCTCACGTT
94484262 ACACTTAGCTACAAATCCAGTCACCTCACGTT
1 ACACTTAGCTACAAATCCAGTCACCTCACGTT
94484294 TTAGTCCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.27
Consensus pattern (32 bp):
ACACTTAGCTACAAATCCAGTCACCTCACGTT
Found at i:94498819 original size:17 final size:16
Alignment explanation
Indices: 94498775--94498820 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
94498765 TGATCCAAGC
94498775 TTGAATTAAAAAAAAT
1 TTGAATTAAAAAAAAT
*
94498791 TTGAGTTCAAAAAAAAT
1 TTGAATT-AAAAAAAAT
94498808 TTGAATCTAAAAA
1 TTGAAT-TAAAAA
94498821 TGTTCAAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 6 0.23
17 19 0.73
18 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (16 bp):
TTGAATTAAAAAAAAT
Found at i:94498995 original size:56 final size:56
Alignment explanation
Indices: 94498900--94499007 Score: 180
Period size: 56 Copynumber: 1.9 Consensus size: 56
94498890 ATCTGTTTGT
* * *
94498900 ATTTCAAATTTCTTTACTTTTGTTTTCTATTTTGGTGTACTCCTGATATATAGGAG
1 ATTTCAAATTTCTTTACTCTTGTTTTCTATCTTGATGTACTCCTGATATATAGGAG
*
94498956 ATTTCAAATTTCTTTGCTCTTGTTTTCTATCTTGATGTACTCCTGATATATA
1 ATTTCAAATTTCTTTACTCTTGTTTTCTATCTTGATGTACTCCTGATATATA
94499008 AGAGTTAGTT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 48 1.00
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (56 bp):
ATTTCAAATTTCTTTACTCTTGTTTTCTATCTTGATGTACTCCTGATATATAGGAG
Found at i:94500788 original size:65 final size:64
Alignment explanation
Indices: 94500679--94500825 Score: 186
Period size: 65 Copynumber: 2.3 Consensus size: 64
94500669 CATCACGTTA
* * * * *
94500679 TGGCCAAGCCACTTAATATCGCAGTCAAGCTACATCGTTGTGGTCAAGTCACTCAAAAACGTTTG
1 TGGCCAAGCCACTCAATATCGCAGTCAAGCTACATCATTATGGTCAAGCCACTCAAAAAC-ATTG
* * * *
94500744 TGGCCAAGCCACTCAATATCGCAGTCAAGTTGCATCATTATGGTCAAGCCACTCAATAGCATTG
1 TGGCCAAGCCACTCAATATCGCAGTCAAGCTACATCATTATGGTCAAGCCACTCAAAAACATTG
**
94500808 TGGCCAAGCTGCTCAATA
1 TGGCCAAGCCACTCAATA
94500826 ACATTGTGGC
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
64 19 0.27
65 52 0.73
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (64 bp):
TGGCCAAGCCACTCAATATCGCAGTCAAGCTACATCATTATGGTCAAGCCACTCAAAAACATTG
Found at i:94500815 original size:24 final size:24
Alignment explanation
Indices: 94500779--94500849 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 24
94500769 CAAGTTGCAT
* * *
94500779 CATTATGGTCAAGCCACTCAATAG
1 CATTGTGGCCAAGCCACTCAATAA
**
94500803 CATTGTGGCCAAGCTGCTCAATAA
1 CATTGTGGCCAAGCCACTCAATAA
* *
94500827 CATTGTGGCCAAGTCATTCAATA
1 CATTGTGGCCAAGCCACTCAATA
94500850 TTTTAGTAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (24 bp):
CATTGTGGCCAAGCCACTCAATAA
Found at i:94501022 original size:40 final size:41
Alignment explanation
Indices: 94500938--94501033 Score: 131
Period size: 40 Copynumber: 2.3 Consensus size: 41
94500928 TTTTCAGTGG
* *
94500938 CATGCTTAACATGCGAATCGAATTTATAATCAGTATAATCGA
1 CATGCTTAACATGCG-ATCGAATTTATAATCAATACAATCGA
* * *
94500980 CATGCTTAACATGCG-TCGAATTTATAATTAATACAGTTGA
1 CATGCTTAACATGCGATCGAATTTATAATCAATACAATCGA
94501020 CATGCTTAACATGC
1 CATGCTTAACATGC
94501034 AAACCATGTC
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
40 34 0.69
42 15 0.31
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (41 bp):
CATGCTTAACATGCGATCGAATTTATAATCAATACAATCGA
Found at i:94504461 original size:21 final size:22
Alignment explanation
Indices: 94504436--94504486 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
94504426 CAAGTAATAC
94504436 AAGTATTTAAAGTA-TCAAGGT
1 AAGTATTTAAAGTATTCAAGGT
** *
94504457 AAGTATAAAAATTATTCAAGGT
1 AAGTATTTAAAGTATTCAAGGT
94504479 AAGTATTT
1 AAGTATTT
94504487 TTTTTTAGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.45, C:0.04, G:0.16, T:0.35
Consensus pattern (22 bp):
AAGTATTTAAAGTATTCAAGGT
Found at i:94506342 original size:43 final size:43
Alignment explanation
Indices: 94506253--94506368 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
94506243 TGTGATTACA
* *
94506253 TGTAAGACCATGTTTGGGACATTGGCATTGTTTTGAGATTATG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTTATGAGATTATG
*
94506296 TGTAAGACCATGTTTGGGACATTGGCATCGTTAAT-CGATT-TCG
1 TGTAAGACCATGTTTGGGACATTGGCATCGTT-ATGAGATTAT-G
* * * *
94506339 TGTAAGACCCTGTCTGGGATAGTGGCATCG
1 TGTAAGACCATGTTTGGGACATTGGCATCG
94506369 ATGTGTGATA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
42 1 0.02
43 62 0.97
44 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATCGTTATGAGATTATG
Found at i:94515236 original size:119 final size:119
Alignment explanation
Indices: 94515022--94515362 Score: 522
Period size: 119 Copynumber: 2.9 Consensus size: 119
94515012 AACACGTGAA
* * * * ** * * *
94515022 AGCCAAATCAGCTATATCTTCGATTTGTTCCTTGTAAGTACAAGGATACTAAACCATCTTGGATC
1 AGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
* *
94515087 TGCTTCAGCATAAACATCTG-AAGGTGAGATCTGCTATATTTGAGAACATCTGAG
66 TGCTTCAGTATAAACATCTGAAAGCT-AGATCTGCTATATTTGAGAACATCTGAG
* *
94515141 AGCCAAATCTGCTATGTCCTCGATTTGTTTCTTATAAACACAAGAATACCAAATTATCTTGGATC
1 AGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
**
94515206 TGCTTCAGTATAAACATCTGAAAGCTAGATCTATTATATTTGAGAACATCTGAG
66 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAG
*
94515260 AGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
1 AGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
94515325 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
66 TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATA
94515363 CTGCGGCCTA
Statistics
Matches: 201, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
119 197 0.98
120 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (119 bp):
AGCCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATACCAAATCATCTTGGATC
TGCTTCAGTATAAACATCTGAAAGCTAGATCTGCTATATTTGAGAACATCTGAG
Found at i:94525587 original size:54 final size:54
Alignment explanation
Indices: 94525528--94525636 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
94525518 AATCTTAATA
94525528 GTAACTTATAAGGTAATACCTAAAGTGTAATATCTAACTAAATTGGGTTCTTAC
1 GTAACTTATAAGGTAATACCTAAAGTGTAATATCTAACTAAATTGGGTTCTTAC
94525582 GTAACTTATAAGGTAATACCTAAAGTGTAATATCTAACTAAATTGGGTTCTTAC
1 GTAACTTATAAGGTAATACCTAAAGTGTAATATCTAACTAAATTGGGTTCTTAC
94525636 G
1 G
94525637 GTTTTCTATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (54 bp):
GTAACTTATAAGGTAATACCTAAAGTGTAATATCTAACTAAATTGGGTTCTTAC
Found at i:94527417 original size:18 final size:19
Alignment explanation
Indices: 94527374--94527419 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
94527364 AGATACATAA
*
94527374 CATATATAAAAAAGTAATAT
1 CATA-ATAAAAAAATAATAT
*
94527394 -AGAATAAAAAAATAA-AT
1 CATAATAAAAAAATAATAT
94527411 CATAATAAA
1 CATAATAAA
94527420 TGTTATATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
17 2 0.09
18 18 0.82
19 2 0.09
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.24
Consensus pattern (19 bp):
CATAATAAAAAAATAATAT
Found at i:94529826 original size:37 final size:37
Alignment explanation
Indices: 94529774--94529848 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
94529764 CGTCAGACAA
*
94529774 TCATAAGAGCTAATCCACCCGATAACATGCCAAATGC
1 TCATAAGAGCCAATCCACCCGATAACATGCCAAATGC
*
94529811 TCATAAGAGCCAATCCACCCGATAACATGCCAATTGC
1 TCATAAGAGCCAATCCACCCGATAACATGCCAAATGC
94529848 T
1 T
94529849 TCGAATAGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.31, G:0.13, T:0.20
Consensus pattern (37 bp):
TCATAAGAGCCAATCCACCCGATAACATGCCAAATGC
Found at i:94529844 original size:20 final size:20
Alignment explanation
Indices: 94529785--94529844 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 20
94529775 CATAAGAGCT
94529785 AATCCACCCGATAACATGCC
1 AATCCACCCGATAACATGCC
* * *
94529805 AAAT--GCTC-ATAAGA-GCC
1 -AATCCACCCGATAACATGCC
94529822 AATCCACCCGATAACATGCC
1 AATCCACCCGATAACATGCC
94529842 AAT
1 AAT
94529845 TGCTTCGAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 9
0.66 0.14 0.20
Matches are distributed among these distances:
16 3 0.10
17 3 0.10
18 7 0.24
19 7 0.24
20 6 0.21
21 3 0.10
ACGTcount: A:0.38, C:0.33, G:0.12, T:0.17
Consensus pattern (20 bp):
AATCCACCCGATAACATGCC
Found at i:94537216 original size:24 final size:25
Alignment explanation
Indices: 94537189--94537235 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
94537179 AATCACAGCT
94537189 TTATTGAATATG-TAATT-ATTTTCC
1 TTATTGAAT-TGCTAATTCATTTTCC
*
94537213 TTATTGCATTGCTAATTCATTTT
1 TTATTGAATTGCTAATTCATTTT
94537236 TGTCGGTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 13 0.65
25 5 0.25
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.55
Consensus pattern (25 bp):
TTATTGAATTGCTAATTCATTTTCC
Found at i:94539842 original size:18 final size:18
Alignment explanation
Indices: 94539806--94539843 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
94539796 ATATTTATAC
*
94539806 TTTTAAGTTTTAGTTTTT
1 TTTTAAGTTATAGTTTTT
94539824 TTTTAAG-TATAGTTATTT
1 TTTTAAGTTATAGTT-TTT
94539842 TT
1 TT
94539844 AAAATGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (18 bp):
TTTTAAGTTATAGTTTTT
Found at i:94540379 original size:2 final size:2
Alignment explanation
Indices: 94540372--94540400 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
94540362 AACTGAAATT
94540372 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94540401 TTTATTTTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94542340 original size:29 final size:29
Alignment explanation
Indices: 94542281--94542340 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
94542271 TTCAAAATCA
* * *
94542281 AATTTTAATTTCGATTTCAAAACTAAGTT
1 AATTTTAACTTAGATTTCAAAACTAAATT
*
94542310 AATTTTAACTTAGCTTT-AAAACTAGAATT
1 AATTTTAACTTAGATTTCAAAACTA-AATT
94542339 AA
1 AA
94542341 AGAAAAATGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.42
Consensus pattern (29 bp):
AATTTTAACTTAGATTTCAAAACTAAATT
Found at i:94543833 original size:10 final size:10
Alignment explanation
Indices: 94543752--94543833 Score: 53
Period size: 10 Copynumber: 8.0 Consensus size: 10
94543742 GTATTAATGA
*
94543752 TTTTATATAA
1 TTTTATATAT
*
94543762 TTTTCTATCAT
1 TTTTATAT-AT
*
94543773 TTTT-TGTAT
1 TTTTATATAT
*
94543782 TTTTAAATCAAT
1 TTTTATAT--AT
*
94543794 TTTTTTATAAT
1 TTTTATAT-AT
94543805 TTTTATGATA-
1 TTTTAT-ATAT
94543815 TTTTA-ATAT
1 TTTTATATAT
94543824 TTTTATATAT
1 TTTTATATAT
94543834 GGTTTTTGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
8 3 0.05
9 11 0.19
10 19 0.33
11 14 0.25
12 10 0.18
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:94543996 original size:18 final size:17
Alignment explanation
Indices: 94543965--94544036 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 17
94543955 ATAAAAATTA
94543965 TTTAAAAGAT-TTAAAAT
1 TTTAAAA-ATATTAAAAT
*
94543982 TTTAAAAAGTATTAAAGT
1 TTTAAAAA-TATTAAAAT
*
94544000 TTATAAAAAAATTATAAAACT
1 TT-TAAAAATA-T-TAAAA-T
94544021 TTTAAAAATATTAAAA
1 TTTAAAAATATTAAAA
94544037 AAAGTATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
16 1 0.02
17 8 0.18
18 14 0.31
19 8 0.18
20 11 0.24
21 3 0.07
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (17 bp):
TTTAAAAATATTAAAAT
Found at i:94544306 original size:11 final size:11
Alignment explanation
Indices: 94544290--94544436 Score: 51
Period size: 10 Copynumber: 13.4 Consensus size: 11
94544280 AAATTTTTTT
94544290 ATTTTTTAATA
1 ATTTTTTAATA
**
94544301 ATTTTTATTTTCTA
1 A--TTT-TTTAATA
94544315 AT-TTTT-ATA
1 ATTTTTTAATA
*
94544324 ATATTTTAATA
1 ATTTTTTAATA
94544335 ATTTTTT-ATA
1 ATTTTTTAATA
**
94544345 ATTTCAATTTTTTA
1 ATTT---TTTAATA
*
94544359 A-TTTTTAATT
1 ATTTTTTAATA
94544369 A-TTTTTAATA
1 ATTTTTTAATA
* *
94544379 ACTTTTTAATT
1 ATTTTTTAATA
*
94544390 A-TATTTAA-A
1 ATTTTTTAATA
* *
94544399 ACTTTCT-ATA
1 ATTTTTTAATA
94544409 ATCTTTTT-ATA
1 AT-TTTTTAATA
94544420 ATTTTTATAATA
1 ATTTTT-TAATA
94544432 TATTT
1 -ATTT
94544437 ATAATATTCA
Statistics
Matches: 104, Mismatches: 16, Indels: 30
0.69 0.11 0.20
Matches are distributed among these distances:
9 6 0.06
10 43 0.41
11 30 0.29
12 4 0.04
13 12 0.12
14 9 0.09
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTTTTAATA
Found at i:94544333 original size:34 final size:32
Alignment explanation
Indices: 94544284--94544375 Score: 114
Period size: 34 Copynumber: 2.8 Consensus size: 32
94544274 ACTAGTAAAT
*
94544284 TTTTTTATTTTTTAATAATTTTTAT-TTTCTAA
1 TTTTTTAATTTTTAATAATTTTTATATTTC-AA
94544316 TTTTTATAATATTTTAATAATTTTTTATAATTTCAA
1 TTTTT-TAAT-TTTTAATAA-TTTTTAT-ATTTCAA
*
94544352 TTTTTTAATTTTTAATTATTTTTA
1 TTTTTTAATTTTTAATAATTTTTA
94544376 ATAACTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
32 5 0.09
33 9 0.17
34 17 0.32
35 11 0.21
36 7 0.13
37 4 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (32 bp):
TTTTTTAATTTTTAATAATTTTTATATTTCAA
Found at i:94544338 original size:20 final size:19
Alignment explanation
Indices: 94544306--94544459 Score: 89
Period size: 20 Copynumber: 7.6 Consensus size: 19
94544296 TAATAATTTT
*
94544306 TATTTTCTAATTTTTATAA
1 TATTTTATAATTTTTATAA
94544325 TATTTTAATAATTTTTTATAA
1 TATTTT-ATAA-TTTTTATAA
* *
94544346 TTTCAATTTTTTAATTTTTA-AT
1 --T--ATTTTATAATTTTTATAA
*
94544368 TATTTTTAATAACTTTTTA-AT
1 TA-TTTT-ATAA-TTTTTATAA
* *
94544389 TATATTTAAAACTTTCTATAA
1 TAT-TTTATAA-TTTTTATAA
*
94544410 TCTTTTTATAATTTTTATAA
1 T-ATTTTATAATTTTTATAA
* *
94544430 TATATTTATAATATTCATAA
1 TAT-TTTATAATTTTTATAA
94544450 T-TTTTATAAT
1 TATTTTATAAT
94544460 ATATATTTAG
Statistics
Matches: 109, Mismatches: 13, Indels: 27
0.73 0.09 0.18
Matches are distributed among these distances:
18 9 0.08
19 12 0.11
20 41 0.38
21 30 0.28
22 2 0.02
23 7 0.06
24 3 0.03
25 5 0.05
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TATTTTATAATTTTTATAA
Found at i:94544346 original size:44 final size:44
Alignment explanation
Indices: 94544290--94544386 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
94544280 AAATTTTTTT
**
94544290 ATTTTTTAATAATTTTTATTTTCTAATTTTTATAATA-TTTTAATA
1 ATTTTTT-ATAATTTCAATTTTCTAATTTTTA-AATATTTTTAATA
* *
94544335 ATTTTTTATAATTTCAATTTTTTAATTTTTAATTATTTTTAATA
1 ATTTTTTATAATTTCAATTTTCTAATTTTTAAATATTTTTAATA
*
94544379 ACTTTTTA
1 ATTTTTTA
94544387 ATTATATTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 3 0.07
44 36 0.78
45 7 0.15
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (44 bp):
ATTTTTTATAATTTCAATTTTCTAATTTTTAAATATTTTTAATA
Found at i:94548737 original size:20 final size:20
Alignment explanation
Indices: 94548699--94548737 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
94548689 ATTTAATAAA
**
94548699 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
*
94548719 TAAAACTAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
94548738 AATATAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Done.