Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 18 of 276
Found at i:5520251 original size:27 final size:27
Alignment explanation
Indices: 5520220--5520397 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
5520210 TAAATTGTAC
5520220 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
5520247 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5520273 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
5520301 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
5520329 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
5520356 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
5520383 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
5520398 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:5520334 original size:82 final size:81
Alignment explanation
Indices: 5520221--5520376 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
5520211 AAATTGTACA
* *
5520221 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
5520285 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
5520302 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
5520367 TGCGAGTTGA
65 TGCGAATTGA
5520377 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:5520388 original size:82 final size:81
Alignment explanation
Indices: 5520217--5520397 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
5520207 GATTAAATTG
* *
5520217 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
5520282 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
5520298 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
5520362 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
5520380 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
5520398 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:5521603 original size:41 final size:41
Alignment explanation
Indices: 5521546--5521629 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
5521536 GGTAATTAAA
5521546 GATGTTTCAACGATACGCCATTGTCCTCCTGGTTTCATGTT
1 GATGTTTCAACGATACGCCATTGTCCTCCTGGTTTCATGTT
5521587 GATGTTTCAACGATACGCCATTGTCCTCCTGGTTTCATGTT
1 GATGTTTCAACGATACGCCATTGTCCTCCTGGTTTCATGTT
5521628 GA
1 GA
5521630 ACAATTGGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.38
Consensus pattern (41 bp):
GATGTTTCAACGATACGCCATTGTCCTCCTGGTTTCATGTT
Found at i:5526498 original size:74 final size:75
Alignment explanation
Indices: 5526376--5526540 Score: 242
Period size: 74 Copynumber: 2.2 Consensus size: 75
5526366 TCAATTTCTA
* * * * *
5526376 TTCAATTTATATTTTTCAAAAAAATCAACTCATGTTGCGAGAGGTGAGTTGGGCCTCGGGGCATG
1 TTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAAG
5526441 CTGAGGTATT
66 CTGAGGTATT
* *
5526451 TTCAATTTCTATTTTTC-AAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGGGCAAG
1 TTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAAG
5526515 CTGAGGTATT
66 CTGAGGTATT
* *
5526525 TTCAATTCCTTTTTTT
1 TTCAATTTCTATTTTT
5526541 TTTTGCATGT
Statistics
Matches: 81, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
74 65 0.80
75 16 0.20
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (75 bp):
TTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCAAG
CTGAGGTATT
Found at i:5526747 original size:14 final size:13
Alignment explanation
Indices: 5526714--5526747 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
5526704 GCTGAGGTAA
5526714 TTTCAATTTCTGT
1 TTTCAATTTCTGT
5526727 TTCTCAATTTCTGCT
1 TT-TCAATTTCTG-T
5526742 TTTCAA
1 TTTCAA
5526748 AAAAAATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 14 0.74
15 3 0.16
ACGTcount: A:0.18, C:0.21, G:0.06, T:0.56
Consensus pattern (13 bp):
TTTCAATTTCTGT
Found at i:5526882 original size:88 final size:88
Alignment explanation
Indices: 5526654--5527268 Score: 355
Period size: 88 Copynumber: 6.8 Consensus size: 88
5526644 TAATTTCTAC
* * *
5526654 TTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTT
** * * *
5526717 CAATTTCTGTTTCTCAATTTCTG
66 CAAAATCTGTTTTTCAAATTATG
*
5526740 CTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACATGCTGAGGT
1 -TTTTC---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGT
5526804 ATTTTCAAAATCTGTTTTTCAAATTATG
61 ATTTTCAAAATCTGTTTTTCAAATTATG
* *
5526832 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTT
* * * *
5526897 CAAATTCTGTCTTTCAAACTCTG
66 CAAAATCTGTTTTTCAAATTATG
* ** * * * * * *
5526920 TTTTTAATTTTTACTTTTCAAAAACTCA-ACT-C-ATATTGCGAGAAG-TGAG-TTGA-G-C-CT
1 TTTTCAA-----A--AATC---AACTCATATTGCGAGA--G-GTG-AGTTGAGCCTCAGGTCACA
* * **** * **
5526977 TGGCTCGCATGCCG-AGGTATTTCCA-AT-TTCTGTTTTAATTCATG
52 T-GCT-G-A-G--GTA-TTTTCAAAATCTGTT-T-TTCAAATT-ATG
*
5527021 TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTT
1 TTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTT
** * * *
5527084 TCAATTTTTGTTTTTTTTCAATTTATAT
65 TCAAAATCTG---TTTTTCAAATTAT-G
** *
5527112 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTTCACATGCCGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGTATTT
5527177 TCAAAATCTGTTTTTCAAATTATG
65 TCAAAATCTGTTTTTCAAATTATG
* * * * * *
5527201 TTTTCAAAAATCAACTCATATCGCGAGAAGTGAATTGAGCCT-TGGCTCACTTGCTGAGCTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-TCACATGCTGAGGTATTT
5527265 TCAA
65 TCAA
5527269 TCCCTATTTT
Statistics
Matches: 401, Mismatches: 78, Indels: 97
0.70 0.14 0.17
Matches are distributed among these distances:
87 5 0.01
88 103 0.26
89 45 0.11
90 90 0.22
91 18 0.04
92 47 0.12
93 32 0.08
94 5 0.01
95 11 0.03
96 3 0.01
97 7 0.02
98 14 0.03
99 5 0.01
100 8 0.02
101 6 0.01
102 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (88 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTT
CAAAATCTGTTTTTCAAATTATG
Found at i:5527027 original size:280 final size:274
Alignment explanation
Indices: 5526452--5527204 Score: 893
Period size: 280 Copynumber: 2.7 Consensus size: 274
5526442 TGAGGTATTT
** *
5526452 TCAATTTCTATTTTTCAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGGGCA-AG
1 TCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT---GGCACAG
** **
5526515 CTGAGGTATTTTC-AATTCCT-TTTTT-TTTTTGCATGTTTTCAAAAAAATCAACTCATATTGTA
63 CTGAGGTATTTTCAAATT-CTGTTTTTCAATTT--ATGTTTTC--AAAAATCAACTCATATTGCG
* * * *
5526577 AGAGGTGAGTTGAGCCTTGGGCCACATACCAAGGTATTTTCAAATTCTGTTGCTCAAATTCTGTT
123 AGAGGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTTCAAATTCTGTT-TTCAAATTCTGTT
* *
5526642 TTTAATTTCTACTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
187 TTTAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCT
5526707 GAGGTAATTTCAATTTCTGTTTC
252 GAGGTAATTTCAATTTCTGTTTC
5526730 TCAATTTCTGCTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACA
1 TCAATTTCTGCTTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG--CACA
* *
5526795 TGCTGAGGTATTTTCAAAATCTGTTTTTCAAATTATGTTTTCAAAAATCAACTCATATTGCGAGA
62 -GCTGAGGTATTTTCAAATTCTGTTTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGA
** * *
5526860 GGTGAGTTGAGCCTCAGGTCACATGCCGAGGTATTCTCAAATTCTGTCTTTCAAACTCTGTTTTT
126 GGTGAGTTGAGCCTTGGGTCACATGCCGAGGTATTTTCAAATTCTGT-TTTCAAATTCTGTTTTT
* * *
5526925 AATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGAGCCT-TGG-CTCGCATG
190 AATTTCTACTTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGC-T-
5526988 CCGAGGT-ATTTCCAATTTCTGTTT-
252 --GAGGTAATTT-CAATTTCTGTTTC
*
5527012 T-AA-TTCATG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACG
1 TCAATTTC-TGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCACA-G
* * *
5527073 CTGAGGTATTTTCAATTTTTGTTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGA
63 CTGAGGTATTTTCAAATTCTG---TTTTTCAATTTAT-GTTTTCAAAAATCAACTCATATTGCGA
* *
5527138 GAGGTGAGTTGAGCCTTGGGTTCACATGCCGAGGTATTTTCAAAATCTGTTTTTCAAATTATGTT
124 GAGGTGAGTTGAGCCTTGGG-TCACATGCCGAGGTATTTTCAAATTCTG-TTTTCAAATTCTGTT
5527203 TT
187 TT
5527205 CAAAAATCAA
Statistics
Matches: 415, Mismatches: 35, Indels: 47
0.84 0.07 0.09
Matches are distributed among these distances:
276 22 0.05
278 54 0.13
279 18 0.04
280 184 0.44
281 80 0.19
282 30 0.07
283 25 0.06
284 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (274 bp):
TCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCACAGCTG
AGGTATTTTCAAATTCTGTTTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGA
GTTGAGCCTTGGGTCACATGCCGAGGTATTTTCAAATTCTGTTTTCAAATTCTGTTTTTAATTTC
TACTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAGGTAATT
TCAATTTCTGTTTC
Found at i:5527114 original size:17 final size:17
Alignment explanation
Indices: 5527081--5527115 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5527071 CGCTGAGGTA
* *
5527081 TTTTCAATTTTTGTTTT
1 TTTTCAATTTATATTTT
5527098 TTTTCAATTTATATTTT
1 TTTTCAATTTATATTTT
5527115 T
1 T
5527116 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.06, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTTCAATTTATATTTT
Found at i:5527239 original size:89 final size:88
Alignment explanation
Indices: 5526908--5527268 Score: 376
Period size: 89 Copynumber: 4.1 Consensus size: 88
5526898 AAATTCTGTC
* * * *
5526908 TTTCAAACTCTGTTTTTAATTTTTACTTTTCAAAAACTCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTCAAATTCTGTTTTTAAATTATAGTTTTCAAAAA-TCAACTCATATTGCGAGAAGTGAGTTGA
*
5526973 GCCTTGGCTCGCATGCCGAGGTAT
65 GCCTTGGCTCACATGCCGAGGTAT
* * *
5526997 TTCCAATTTCTG-TTTT-AATTCAT-GTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTCAAATTCTGTTTTTAAATT-ATAGTTTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTG
* * *
5527059 AGCCTCAGG---ACACGCTGAGGTAT
64 AGCCT-TGGCTCACATGCCGAGGTAT
* * * * *
5527082 TTTCAATTTTTGTTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTCAAATTCTG---TTTTT-AAATTATAGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGT
*
5527147 TGAGCCTTGGGTTCACATGCCGAGGTAT
62 TGAGCCTT-GGCTCACATGCCGAGGTAT
* * *
5527175 TTTCAAAATCTGTTTTTCAAATTAT-GTTTTCAAAAATCAACTCATATCGCGAGAAGTGAATTGA
1 TTTCAAATTCTGTTTTT-AAATTATAGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
* * *
5527239 GCCTTGGCTCACTTGCTGAGCTAT
65 GCCTTGGCTCACATGCCGAGGTAT
5527263 TTTCAA
1 TTTCAA
5527269 TCCCTATTTT
Statistics
Matches: 228, Mismatches: 30, Indels: 29
0.79 0.10 0.10
Matches are distributed among these distances:
85 21 0.09
87 39 0.17
88 33 0.14
89 53 0.23
90 53 0.23
91 8 0.04
93 21 0.09
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (88 bp):
TTTCAAATTCTGTTTTTAAATTATAGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
CCTTGGCTCACATGCCGAGGTAT
Found at i:5528051 original size:5 final size:5
Alignment explanation
Indices: 5528041--5528066 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
5528031 TGGTAATTAT
5528041 AATAA AATAA AATAA AATAA AATAA A
1 AATAA AATAA AATAA AATAA AATAA A
5528067 GCCAAATTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:5528901 original size:81 final size:81
Alignment explanation
Indices: 5528760--5528920 Score: 304
Period size: 81 Copynumber: 2.0 Consensus size: 81
5528750 AGGGACAGAA
*
5528760 ATATTATAAAATGTATGCAAAGGGTTATAAAAACCGAAATGAAAAAACTAAAAAGGGGTTTTTTT
1 ATATTATAAAATGTATGCAAAGGGTTATAAAAACCGAAATGAAAAAACTAAAAAAGGGTTTTTTT
5528825 TCCAGGAGAAAAGTTT
66 TCCAGGAGAAAAGTTT
*
5528841 ATATTATAAAATGTATGCAAAGGGTTATAAAAACCGAAATGAAAAAACTAAAAAATGGTTTTTTT
1 ATATTATAAAATGTATGCAAAGGGTTATAAAAACCGAAATGAAAAAACTAAAAAAGGGTTTTTTT
5528906 TCCAGGAGAAAAGTT
66 TCCAGGAGAAAAGTT
5528921 CAATAAAAGA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.47, C:0.07, G:0.17, T:0.29
Consensus pattern (81 bp):
ATATTATAAAATGTATGCAAAGGGTTATAAAAACCGAAATGAAAAAACTAAAAAAGGGTTTTTTT
TCCAGGAGAAAAGTTT
Found at i:5529283 original size:86 final size:86
Alignment explanation
Indices: 5529115--5529275 Score: 322
Period size: 86 Copynumber: 1.9 Consensus size: 86
5529105 AAACATATAT
5529115 AGAAAAAAAATATGAAGTAAATAAAAAGAAAAAAATCAGAAATTTTACCTCTCCGGCCACCGTGT
1 AGAAAAAAAATATGAAGTAAATAAAAAGAAAAAAATCAGAAATTTTACCTCTCCGGCCACCGTGT
5529180 ACGGTGGCCGACGCCGACGCC
66 ACGGTGGCCGACGCCGACGCC
5529201 AGAAAAAAAATATGAAGTAAATAAAAAGAAAAAAATCAGAAATTTTACCTCTCCGGCCACCGTGT
1 AGAAAAAAAATATGAAGTAAATAAAAAGAAAAAAATCAGAAATTTTACCTCTCCGGCCACCGTGT
5529266 ACGGTGGCCG
66 ACGGTGGCCG
5529276 GTGCCGACAC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 75 1.00
ACGTcount: A:0.43, C:0.20, G:0.19, T:0.17
Consensus pattern (86 bp):
AGAAAAAAAATATGAAGTAAATAAAAAGAAAAAAATCAGAAATTTTACCTCTCCGGCCACCGTGT
ACGGTGGCCGACGCCGACGCC
Found at i:5533106 original size:21 final size:21
Alignment explanation
Indices: 5533065--5533106 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
5533055 TATTTAATCC
*
5533065 AAATTAAATTAAATTGGATTA
1 AAATTAAATTAAATTAGATTA
*
5533086 AAATTAAAATT-AATTATATTA
1 AAATT-AAATTAAATTAGATTA
5533107 TGAATTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
AAATTAAATTAAATTAGATTA
Found at i:5533283 original size:22 final size:21
Alignment explanation
Indices: 5533241--5533283 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
5533231 ATATTTGTCG
**
5533241 AAAATAATAAAAATTTGATAT
1 AAAATAATAAAAATTCAATAT
*
5533262 AAAATTAATTAAAATTCAATAT
1 AAAA-TAATAAAAATTCAATAT
5533284 GTTCATAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (21 bp):
AAAATAATAAAAATTCAATAT
Found at i:5534851 original size:18 final size:18
Alignment explanation
Indices: 5534830--5534866 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
5534820 CTAAGGGATA
5534830 AAATAAAATAAAGTAGAG
1 AAATAAAATAAAGTAGAG
5534848 AAATAAAATAAAGTAGAG
1 AAATAAAATAAAGTAGAG
5534866 A
1 A
5534867 CAAGATCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (18 bp):
AAATAAAATAAAGTAGAG
Found at i:5536280 original size:46 final size:47
Alignment explanation
Indices: 5536174--5536289 Score: 137
Period size: 50 Copynumber: 2.4 Consensus size: 47
5536164 TGTCTTCGAC
** * *
5536174 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
*
5536224 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATC-AGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTA-AT
5536270 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
5536290 TTTGTCCTGT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
45 1 0.02
46 28 0.47
50 30 0.51
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:5545891 original size:44 final size:44
Alignment explanation
Indices: 5545842--5545928 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
5545832 CATCTTATTA
5545842 GGAAAGAAAACCCATAATGACCTTTCCT-GGTGGCCTTGTTTAAG
1 GGAAAGAAAACCCATAATGACCTTT-CTAGGTGGCCTTGTTTAAG
* * * *
5545886 GGAAAGAAAACCCGTAATGATCTTTTTAGGTTGCCTTGTTTAA
1 GGAAAGAAAACCCATAATGACCTTTCTAGGTGGCCTTGTTTAA
5545929 CTTCCTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 1 0.03
44 37 0.97
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
GGAAAGAAAACCCATAATGACCTTTCTAGGTGGCCTTGTTTAAG
Found at i:5550973 original size:40 final size:40
Alignment explanation
Indices: 5550899--5550992 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 40
5550889 GACTATGTTT
* * *
5550899 GGCACTAAGTGTGCGATTTAAAATTGCTTTGGCTATAAGTA
1 GGCACTAAGTGTGCGAATTAAAATAGCTTCGGCTATAAG-A
** *
5550940 -GCACTAAGTGTGCGAATTGGAATAGCTTCGGCTATATGA
1 GGCACTAAGTGTGCGAATTAAAATAGCTTCGGCTATAAGA
5550979 GGCACTAAGTGTGC
1 GGCACTAAGTGTGC
5550993 AATACCGAGA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.02
40 45 0.98
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (40 bp):
GGCACTAAGTGTGCGAATTAAAATAGCTTCGGCTATAAGA
Found at i:5563731 original size:115 final size:114
Alignment explanation
Indices: 5563501--5563731 Score: 453
Period size: 115 Copynumber: 2.0 Consensus size: 114
5563491 TCGGCAAAAA
5563501 TACCTAATAGTCACAAGTATATGTTAGAGTAAGAATTTGATGTTTCCATAGAAGGGAAAATGATC
1 TACCTAATAGTCACAAGTATATGTTAGAGTAAGAATTTGATGTTTCCATAGAAGGGAAAATGATC
5563566 AGCATGTTATAAAACATAAGAATAAGGAATAAAGTTTAATTCCCGAGCC
66 AGCATGTTATAAAACATAAGAATAAGGAATAAAGTTTAATTCCCGAGCC
5563615 TACCTAATAGTCACAAGTATATGTTAGAGTAAGAATTTGATGTTTCCATAGAAGGGAAAAATGAT
1 TACCTAATAGTCACAAGTATATGTTAGAGTAAGAATTTGATGTTTCCATAGAAGGG-AAAATGAT
5563680 CAGCATGTTATAAAACATAAGAATAAGGAATAAAGTTTAATTCCCGAGCC
65 CAGCATGTTATAAAACATAAGAATAAGGAATAAAGTTTAATTCCCGAGCC
5563730 TA
1 TA
5563732 GGGGAAAAAG
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
114 56 0.48
115 60 0.52
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (114 bp):
TACCTAATAGTCACAAGTATATGTTAGAGTAAGAATTTGATGTTTCCATAGAAGGGAAAATGATC
AGCATGTTATAAAACATAAGAATAAGGAATAAAGTTTAATTCCCGAGCC
Found at i:5564140 original size:162 final size:162
Alignment explanation
Indices: 5563873--5564195 Score: 628
Period size: 162 Copynumber: 2.0 Consensus size: 162
5563863 GATTCAAGTC
5563873 GCGATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTTTGGTACCAAGGTA
1 GCGATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTTTGGTACCAAGGTA
5563938 AGTTCATGTGTAAATAATGTAGCATAAATGTTATTTTTAAGTTATTAATGTTAATTATATGATAT
66 AGTTCATGTGTAAATAATGTAGCATAAATGTTATTTTTAAGTTATTAATGTTAATTATATGATAT
*
5564003 GCTGATTTTTAATCGTGAAATATTATGCTTTA
131 GCTAATTTTTAATCGTGAAATATTATGCTTTA
*
5564035 GCGATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTTTGGTACCAGGGTA
1 GCGATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTTTGGTACCAAGGTA
5564100 AGTTCATGTGTAAATAATGTAGCATAAATGTTATTTTTAAGTTATTAATGTTAATTATATGATAT
66 AGTTCATGTGTAAATAATGTAGCATAAATGTTATTTTTAAGTTATTAATGTTAATTATATGATAT
5564165 GCTAATTTTTAATCGTGAAATATTATGCTTT
131 GCTAATTTTTAATCGTGAAATATTATGCTTT
5564196 GTGGTTAATA
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
162 159 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (162 bp):
GCGATCGAGGAAAAGAAAAGATTGTGGACTAAATTGCAAAATCTTTATATTTTGGTACCAAGGTA
AGTTCATGTGTAAATAATGTAGCATAAATGTTATTTTTAAGTTATTAATGTTAATTATATGATAT
GCTAATTTTTAATCGTGAAATATTATGCTTTA
Found at i:5564424 original size:46 final size:46
Alignment explanation
Indices: 5564374--5564546 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
5564364 TGGTTGAGCA
*
5564374 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
5564420 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-T-TGAAATGTAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ATG
* * **
5564465 CATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACA
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
5564513 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
5564547 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 57 0.56
47 26 0.25
48 1 0.01
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:5564530 original size:93 final size:93
Alignment explanation
Indices: 5564371--5564541 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
5564361 GGATGGTTGA
* * * ***
5564371 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACACCCGAACTCGTTGAGT
5564436 TGAGTCCGAGTTCTTGAAATGTAACTAG
66 TGAGTCCGAGTTCTTGAAATGTAACTAG
*
5564464 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACACCCGAGCTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACACCCGAACTCGTTGAGT
5564529 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
5564542 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCTTGAAATGTAACTAG
Found at i:5564810 original size:46 final size:46
Alignment explanation
Indices: 5564760--5564932 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
5564750 TGGTTGAGCA
*
5564760 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
5564806 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-T-TGAAAT-CTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGC-AA--ATG
* *
5564851 CATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
5564899 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
5564933 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
45 2 0.02
46 57 0.54
47 27 0.26
48 2 0.02
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:5564916 original size:93 final size:93
Alignment explanation
Indices: 5564757--5564927 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
5564747 GGATGGTTGA
* * * * *
5564757 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
5564822 TGAGTCCGAGTTCTTGAAATCTAACTAG
66 TGAGTCCGAGTTCTTGAAATCTAACTAG
*
5564850 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTCATTGAGT
1 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
5564915 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
5564928 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCTTGAAATCTAACTAG
Found at i:5564950 original size:386 final size:386
Alignment explanation
Indices: 5564237--5565008 Score: 1445
Period size: 386 Copynumber: 2.0 Consensus size: 386
5564227 TTTACTACTT
5564237 GATAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCACGGAAGATGGCAAATGTGAAATC
1 GATAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCACGGAAGATGGCAAATGTGAAATC
5564302 AAGGGAAAAAGCCCGTTTGAACCTTAGGAATAGAATAGGATACAAGTGACATGTCACTAGGATGG
66 AAGGGAAAAAGCCCGTTTGAACCTTAGGAATAGAATAGGATACAAGTGACATGTCACTAGGATGG
5564367 TTGAGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTT
131 TTGAGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTT
*
5564432 GAGTTGAGTCCGAGTTCTTGAAATGTAACTAGGCATCCAAACTCATTGAGTTGAGTCCGAGTTCA
196 GAGTTGAGTCCGAGTTCTTGAAATCTAACTAGGCATCCAAACTCATTGAGTTGAGTCCGAGTTCA
*
5564497 CTTATAGATGCAAACACCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAGGGGCGGGTTACATG
261 CTTATAGATGCAAACACCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAGGGGCGGGTTACATG
*
5564562 ATTTCTTGATTACATATGAGGCACTTATGTGCAAATTATCCGTGTATCCGAGTTGTATTCC
326 ATTTCTTGATTACATATGAGGCACTTATCTGCAAATTATCCGTGTATCCGAGTTGTATTCC
*
5564623 GATAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCACGGAAGATGGCAAATGTGAGATC
1 GATAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCACGGAAGATGGCAAATGTGAAATC
* *
5564688 GAGGGAAAAAGCCCGTTTGAACCTTAGGAATAGATTAGGATACAAGTGACATGTCACTAGGATGG
66 AAGGGAAAAAGCCCGTTTGAACCTTAGGAATAGAATAGGATACAAGTGACATGTCACTAGGATGG
*
5564753 TTGAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTT
131 TTGAGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTT
*
5564818 GAGTTGAGTCCGAGTTCTTGAAATCTAACTAGGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCA
196 GAGTTGAGTCCGAGTTCTTGAAATCTAACTAGGCATCCAAACTCATTGAGTTGAGTCCGAGTTCA
* * *
5564883 CTTATGGATGCAAACGCCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTAGGGGCGGGTTACATG
261 CTTATAGATGCAAACACCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAGGGGCGGGTTACATG
5564948 ATTTCTTGATTACATATGAGGCACTTATCTGCAAATTATCCGTGTATCCGAGTTGTATTCC
326 ATTTCTTGATTACATATGAGGCACTTATCTGCAAATTATCCGTGTATCCGAGTTGTATTCC
5565009 AATGTGTTCA
Statistics
Matches: 375, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
386 375 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (386 bp):
GATAAATATGAATTGCTACCGAGTATCGGTTCCGATATTCCACGGAAGATGGCAAATGTGAAATC
AAGGGAAAAAGCCCGTTTGAACCTTAGGAATAGAATAGGATACAAGTGACATGTCACTAGGATGG
TTGAGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTT
GAGTTGAGTCCGAGTTCTTGAAATCTAACTAGGCATCCAAACTCATTGAGTTGAGTCCGAGTTCA
CTTATAGATGCAAACACCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTAGGGGCGGGTTACATG
ATTTCTTGATTACATATGAGGCACTTATCTGCAAATTATCCGTGTATCCGAGTTGTATTCC
Found at i:5565455 original size:159 final size:159
Alignment explanation
Indices: 5565166--5565482 Score: 607
Period size: 159 Copynumber: 2.0 Consensus size: 159
5565156 AAGATGATGA
5565166 ATGATGTTTAGAAATGTGATATATGTTTTGGTGATACCATGCTATAGTTGTTTGGTATATATGTA
1 ATGATGTTTAGAAATGTGATATATGTTTTGGTGATACCATGCTATAGTTGTTTGGTATATATGTA
* *
5565231 TTGTTATGTTACTTGTTATTTACATATGAACTTGCTAAGCATTTATGCTTACTCCCTCCTCTTTA
66 TTGTTATGTTACTTGTTATTTACATATGAACTTACTAAGCATTTATACTTACTCCCTCCTCTTTA
5565296 TTTACTGTAGTTTTGAACAAGCCAGCTCG
131 TTTACTGTAGTTTTGAACAAGCCAGCTCG
*
5565325 ATGATGTTTAGAAATGTGATATATGTTTTGGTGATACCATGCTATAGTTGTTTGGTATATTTGTA
1 ATGATGTTTAGAAATGTGATATATGTTTTGGTGATACCATGCTATAGTTGTTTGGTATATATGTA
5565390 TTGTTATGTTACTTGTTATTTACATATGAACTTACTAAGCATTTATACTTACTCCCTCCTCTTTA
66 TTGTTATGTTACTTGTTATTTACATATGAACTTACTAAGCATTTATACTTACTCCCTCCTCTTTA
5565455 TTTACTGTAGTTTTGAACAAGCCAGCTC
131 TTTACTGTAGTTTTGAACAAGCCAGCTC
5565483 AGGAATTGGG
Statistics
Matches: 155, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
159 155 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (159 bp):
ATGATGTTTAGAAATGTGATATATGTTTTGGTGATACCATGCTATAGTTGTTTGGTATATATGTA
TTGTTATGTTACTTGTTATTTACATATGAACTTACTAAGCATTTATACTTACTCCCTCCTCTTTA
TTTACTGTAGTTTTGAACAAGCCAGCTCG
Found at i:5565689 original size:130 final size:130
Alignment explanation
Indices: 5565528--5565788 Score: 513
Period size: 130 Copynumber: 2.0 Consensus size: 130
5565518 TCCAAAGGAC
5565528 TTTCATCTGGGTAAATGGCTTGTAAAACTTAAGTATGGCATGTATAGCAATATACTTATTTTCTG
1 TTTCATCTGGGTAAATGGCTTGTAAAACTTAAGTATGGCATGTATAGCAATATACTTATTTTCTG
5565593 TAAATAATTTTATGATATGGCCATGATTGGTTGATAAAATGTTTGATATTGATAAGTCATGGTGA
66 TAAATAATTTTATGATATGGCCATGATTGGTTGATAAAATGTTTGATATTGATAAGTCATGGTGA
*
5565658 TTTCATCTGGGTAAATGGCTTGTAAAACTTAAGTATGGCATGTATAGCAATATACTTATTTTGTG
1 TTTCATCTGGGTAAATGGCTTGTAAAACTTAAGTATGGCATGTATAGCAATATACTTATTTTCTG
5565723 TAAATAATTTTATGATATGGCCATGATTGGTTGATAAAATGTTTGATATTGATAAGTCATGGTGA
66 TAAATAATTTTATGATATGGCCATGATTGGTTGATAAAATGTTTGATATTGATAAGTCATGGTGA
5565788 T
1 T
5565789 GGTTAAATTT
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (130 bp):
TTTCATCTGGGTAAATGGCTTGTAAAACTTAAGTATGGCATGTATAGCAATATACTTATTTTCTG
TAAATAATTTTATGATATGGCCATGATTGGTTGATAAAATGTTTGATATTGATAAGTCATGGTGA
Found at i:5569108 original size:40 final size:40
Alignment explanation
Indices: 5569043--5569134 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
5569033 GACTATGTTC
* * **
5569043 GGCACTAAGTGTGCGATTTAAAATAGCTTTGGCTATAAGTA
1 GGCACTAAGTGTACGAATTAAAATAGCTTCAGCTATAAG-A
** *
5569084 -GCACTAAGTGTACGAATTGGAATAGCTTCAGCTATATGA
1 GGCACTAAGTGTACGAATTAAAATAGCTTCAGCTATAAGA
5569123 GGCACTAAGTGT
1 GGCACTAAGTGT
5569135 GCGATACCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (40 bp):
GGCACTAAGTGTACGAATTAAAATAGCTTCAGCTATAAGA
Found at i:5575444 original size:29 final size:29
Alignment explanation
Indices: 5575386--5575542 Score: 221
Period size: 29 Copynumber: 5.5 Consensus size: 29
5575376 ATAGTAAGTC
*
5575386 CGCACACTTAGTG-TTATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
5575414 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
5575443 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
*
5575472 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
5575500 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
5575529 CGCACACTTAGTGC
1 CGCACACTTAGTGC
5575543 CAATCTCATG
Statistics
Matches: 117, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
28 39 0.33
29 76 0.65
30 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:5575493 original size:57 final size:58
Alignment explanation
Indices: 5575386--5575542 Score: 221
Period size: 57 Copynumber: 2.7 Consensus size: 58
5575376 ATAGTAAGTC
*
5575386 CGCACACTTAGTG-TTATATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
*
5575443 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
* * * * *
5575500 TGCACACTTAGTGCTATGCA-ATTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCT-TACATAATCAAACTCGCACACTTAGTGC
5575543 CAATCTCATG
Statistics
Matches: 91, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
57 60 0.66
58 31 0.34
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (58 bp):
CGCACACTTAGTGCTTACATAATCAAACTCGCACACTTAGTGCTTACATAATCAAACT
Found at i:5580690 original size:46 final size:46
Alignment explanation
Indices: 5580620--5580795 Score: 192
Period size: 46 Copynumber: 3.8 Consensus size: 46
5580610 TGTAACCCGC
5580620 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * * * *
5580666 CCATAAGTGAATTCGGACTGAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* *** * * *
5580712 ACATCTCTCGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
5580759 CCATAAGTGAACCCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
5580796 TGCCCAAATA
Statistics
Matches: 102, Mismatches: 25, Indels: 6
0.77 0.19 0.05
Matches are distributed among these distances:
46 70 0.69
47 32 0.31
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:5580740 original size:93 final size:93
Alignment explanation
Indices: 5580628--5580799 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
5580618 GCCCATAAGT
* * ** *
5580628 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAATTCGGACTGAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
5580693 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
5580721 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
*
5580786 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
5580800 CAAATATCCT
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:5580968 original size:49 final size:48
Alignment explanation
Indices: 5580894--5580990 Score: 149
Period size: 49 Copynumber: 2.0 Consensus size: 48
5580884 ATCTTTTACG
* * *
5580894 GAATGCCGTTACCGATACTCAGTAGTATTTCACCTTTTCCATGTATAT
1 GAATGCCGATACCGATACTCAGTAGTATTTCACATTTTCCAAGTATAT
*
5580942 NGAATGCCGATACCGATACTCGGTAGTATTTCACATTTTCCAAGTATAT
1 -GAATGCCGATACCGATACTCAGTAGTATTTCACATTTTCCAAGTATAT
5580991 CACATAATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (48 bp):
GAATGCCGATACCGATACTCAGTAGTATTTCACATTTTCCAAGTATAT
Found at i:5583268 original size:15 final size:15
Alignment explanation
Indices: 5583233--5583308 Score: 84
Period size: 15 Copynumber: 5.1 Consensus size: 15
5583223 TAAAGATAAC
*
5583233 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
5583247 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
5583262 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
5583277 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
5583292 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
5583307 AA
1 AA
5583309 AAAACCCAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
14 9 0.17
15 42 0.81
16 1 0.02
ACGTcount: A:0.58, C:0.12, G:0.17, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:5583277 original size:30 final size:30
Alignment explanation
Indices: 5583233--5583321 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
5583223 TAAAGATAAC
*
5583233 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAATCCAGAATAAAGAAATCCAAGATA
* *
5583262 GAGAAATCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAATCCAGAATAAAGAAATCCAAG-ATA
* * * *
5583292 AAGAGATCCAGGATAAAAAAACCCAAGATA
1 AAGAAATCCAGAATAAAGAAATCCAAGATA
5583322 CGATGCTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.58, C:0.13, G:0.16, T:0.12
Consensus pattern (30 bp):
AAGAAATCCAGAATAAAGAAATCCAAGATA
Found at i:5589006 original size:13 final size:13
Alignment explanation
Indices: 5588988--5589012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5588978 AGGGGGCACA
5588988 TGGCCATGTGTCC
1 TGGCCATGTGTCC
5589001 TGGCCATGTGTC
1 TGGCCATGTGTC
5589013 ACACAGGGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.28, G:0.32, T:0.32
Consensus pattern (13 bp):
TGGCCATGTGTCC
Found at i:5594338 original size:39 final size:39
Alignment explanation
Indices: 5594274--5594387 Score: 174
Period size: 39 Copynumber: 2.9 Consensus size: 39
5594264 ATTTGATGTG
* *
5594274 TATCTGGACTTAGGGTCCGCGGGCTATGTGCTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
*
5594313 TATCCGGACTTAGGGTCCGCAGGCTATGTACTGGAATTA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
* * *
5594352 TATCCGAACTTAAGGTCCGCAGGCTACGTGCTGGAA
1 TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAA
5594388 ATATTTTCGG
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 68 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:5594424 original size:78 final size:78
Alignment explanation
Indices: 5594281--5594431 Score: 171
Period size: 78 Copynumber: 1.9 Consensus size: 78
5594271 GTGTATCTGG
* * * * ** *
5594281 ACTTAGGGTCCGCGGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTATGTACTG
1 ACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAACTG
5594346 GAATTATATCCGA
66 GAATTATATCCGA
* * *
5594359 ACTTAAGGTCCGCAGGCTACGTGCTGGAAATATTTTCGGGC-TAAAGTCTCGCAGGCT-TCGAAC
1 ACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTC-CGCAGGCTAT-GAAC
*
5594422 TGGTATTATA
64 TGGAATTATA
5594432 CCAGGTTTAA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
77 6 0.10
78 54 0.90
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (78 bp):
ACTTAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAACTG
GAATTATATCCGA
Found at i:5596703 original size:21 final size:20
Alignment explanation
Indices: 5596679--5596717 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5596669 CTGTGTCGGT
5596679 TTCGTACTTTGGCCCATTTTC
1 TTCGT-CTTTGGCCCATTTTC
*
5596700 TTCGTTTTTGGCCCATTT
1 TTCGTCTTTGGCCCATTT
5596718 CTCGTTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.08, C:0.26, G:0.15, T:0.51
Consensus pattern (20 bp):
TTCGTCTTTGGCCCATTTTC
Found at i:5600221 original size:19 final size:20
Alignment explanation
Indices: 5600187--5600229 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
5600177 TGTGATTATC
5600187 AATATAGAAATAATATGAAA
1 AATATAGAAATAATATGAAA
* *
5600207 AATATAG-ATTAATATGATA
1 AATATAGAAATAATATGAAA
5600226 AATA
1 AATA
5600230 GCATTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.30
Consensus pattern (20 bp):
AATATAGAAATAATATGAAA
Found at i:5601197 original size:14 final size:14
Alignment explanation
Indices: 5601178--5601205 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5601168 CTTTATCACC
5601178 AACCTTAAGTTGAT
1 AACCTTAAGTTGAT
5601192 AACCTTAAGTTGAT
1 AACCTTAAGTTGAT
5601206 TTGGAGAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (14 bp):
AACCTTAAGTTGAT
Found at i:5613149 original size:43 final size:42
Alignment explanation
Indices: 5613102--5613182 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
5613092 TTACATGGGA
*
5613102 TCTCATAGTGATGCCAATAGCCCAGCTAT-GGTCTTACACGTAG
1 TCTCATAGTGATGCC-ATAGCCCAGATATAGG-CTTACACGTAG
* * *
5613145 TCTCATATTGTTGCCATATCCCAGATATAGGCTTACAC
1 TCTCATAGTGATGCCATAGCCCAGATATAGGCTTACAC
5613183 ACAATCTCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
42 18 0.55
43 15 0.45
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (42 bp):
TCTCATAGTGATGCCATAGCCCAGATATAGGCTTACACGTAG
Found at i:5613181 original size:42 final size:41
Alignment explanation
Indices: 5613070--5613182 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 41
5613060 GCCCCATACA
* * *
5613070 ATGCCATATCCCAGATATGCTCTTACATGGGATCTCATAGTG
1 ATGCCATATCCCAGATATG-GCTTACACGAGATCTCATAGTG
* * *
5613112 ATGCCAATAGCCCAGCTATGGTCTTACACGTAG-TCTCATATTG
1 ATGCC-ATATCCCAGATATGG-CTTACACG-AGATCTCATAGTG
*
5613155 TTGCCATATCCCAGATATAGGCTTACAC
1 ATGCCATATCCCAGATAT-GGCTTACAC
5613183 ACAATCTCAA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
42 23 0.40
43 34 0.59
44 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGCTTACACGAGATCTCATAGTG
Found at i:5629350 original size:39 final size:39
Alignment explanation
Indices: 5629296--5629514 Score: 305
Period size: 39 Copynumber: 5.6 Consensus size: 39
5629286 TGATATTTGA
* *
5629296 GAATTATATCCGGACTAAAAGTCCGCAGGCTATATGCGG
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGG
* *
5629335 GAATTATATTCGGACTTAAAGTCCGTAGGCTATATGCGA
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGG
* *
5629374 GAATTATATCCGGACTTAAAGTCTGTAGGCTATATGCGA
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGG
*
5629413 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCAG
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGG
* * * **
5629452 GAATTATATGCGAACTTAAGGTCCGTAGGCTACGTGCTGG
1 GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGC-GG
*
5629492 GAA-TATATCCGGGCTTAAAGTCC
1 GAATTATATCCGGACTTAAAGTCC
5629515 CGAAGGCTTT
Statistics
Matches: 160, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
39 156 0.98
40 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.28
Consensus pattern (39 bp):
GAATTATATCCGGACTTAAAGTCCGTAGGCTATATGCGG
Found at i:5630347 original size:5 final size:5
Alignment explanation
Indices: 5630337--5630361 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
5630327 TATGGTATAT
5630337 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
5630362 TACAAGTTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:5632515 original size:24 final size:25
Alignment explanation
Indices: 5632459--5632517 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
5632449 TACATGTATT
** *
5632459 CTCATACGAGCTCTAAATTTGTATG
1 CTCATACGAGCTCTAAATCAGTAAG
* *
5632484 CTCTTACGAGCTGT-AATCAGTAAG
1 CTCATACGAGCTCTAAATCAGTAAG
5632508 CTCATACGAG
1 CTCATACGAG
5632518 TTGAGAATTA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 16 0.57
25 12 0.43
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (25 bp):
CTCATACGAGCTCTAAATCAGTAAG
Found at i:5635957 original size:40 final size:40
Alignment explanation
Indices: 5635902--5636079 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
5635892 CGGATGATAA
* *
5635902 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* *
5635942 CCGGGCTAAGCCCCGAAGGCATTTGTGCGCGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
5635982 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
5636022 CCGGGCTAAGTTCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
5636062 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
5636080 TACTTGGTTT
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
39 16 0.13
40 107 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:5638982 original size:16 final size:16
Alignment explanation
Indices: 5638961--5638998 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5638951 TAACTAATTT
*
5638961 AAATAAAATCAA-AATG
1 AAATAAAAT-AAGAATA
5638977 AAATAAAATAAGAATA
1 AAATAAAATAAGAATA
5638993 AAATAA
1 AAATAA
5638999 GATTTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (16 bp):
AAATAAAATAAGAATA
Found at i:5655411 original size:15 final size:15
Alignment explanation
Indices: 5655391--5655420 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5655381 TATATTTAAA
*
5655391 TTTAATTTTTTATAT
1 TTTAATTTTTAATAT
5655406 TTTAATTTTTAATAT
1 TTTAATTTTTAATAT
5655421 AATTTGGTTT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTAATTTTTAATAT
Found at i:5660893 original size:39 final size:40
Alignment explanation
Indices: 5660796--5660973 Score: 168
Period size: 40 Copynumber: 4.5 Consensus size: 40
5660786 AATGATGTCC
* * * * *
5660796 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCT
* * *
5660836 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AATTT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCT
5660875 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCT
1 -GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
* * * *
5660915 GGGTTAAGTCCTGAAGGCAATTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCT
*
5660955 GGGCTATGTCCCGAAGGCA
1 GGGCTAAGTCCCGAAGGCA
5660974 CGAGTAGCTA
Statistics
Matches: 113, Mismatches: 18, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
39 32 0.28
40 71 0.63
41 10 0.09
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCT
Found at i:5660933 original size:79 final size:80
Alignment explanation
Indices: 5660795--5660972 Score: 193
Period size: 79 Copynumber: 2.2 Consensus size: 80
5660785 GAATGATGTC
* *
5660795 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGT
1 CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGT
5660860 GCGAGATACTAATTT
66 GCGAGATACTAATTT
* * * * **
5660875 CGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCTGGGTTAAG-TCCTGAAGGCAATT
1 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGATCC-GAAGGCAATT
* **
5660937 GTGCGAGTTACT-ATAAC
64 GTGCGAGATACTAAT-TT
*
5660954 CGGGCTATGTCCCGAAGGC
1 CGGGCTAAGTCCCGAAGGC
5660973 ACGAGTAGCT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
78 5 0.06
79 52 0.63
80 25 0.30
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAATTGT
GCGAGATACTAATTT
Found at i:5666878 original size:39 final size:38
Alignment explanation
Indices: 5666811--5666910 Score: 112
Period size: 39 Copynumber: 2.6 Consensus size: 38
5666801 AACATGTTTT
* *
5666811 TGAGTATTGTG-ATATGCTTGAATATTATGTGATCATA
1 TGAGTATTGTGAATATGTTTAAATATTATGTGATCATA
* *
5666848 TGAGTATTGTGATATATGTTTAAATGTTATGTGATTATA
1 TGAGTATTGTGA-ATATGTTTAAATATTATGTGATCATA
** *
5666887 TTTGTAATGTGACATATGTTTAAA
1 TGAGTATTGTGA-ATATGTTTAAA
5666911 AGTGAATATG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 11 0.21
39 42 0.79
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (38 bp):
TGAGTATTGTGAATATGTTTAAATATTATGTGATCATA
Found at i:5672838 original size:46 final size:46
Alignment explanation
Indices: 5672782--5672954 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
5672772 TGGTTGAGCA
*
5672782 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * * *
5672828 TCTGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
5672875 TCCGAACTTGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
5672921 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
5672955 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.57
47 26 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:5672938 original size:93 final size:93
Alignment explanation
Indices: 5672779--5672949 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
5672769 GGTTGGTTGA
* * * *
5672779 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
*
5672844 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
5672872 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
5672937 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
5672950 ACTTAGGGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:5673185 original size:19 final size:20
Alignment explanation
Indices: 5673148--5673185 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
5673138 ACCCTCGGGT
5673148 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
5673168 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
5673186 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:5675364 original size:40 final size:39
Alignment explanation
Indices: 5675309--5675388 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 39
5675299 AGCAGAATGT
*
5675309 GGGTCCTAAATCTCAGAATACTTCTGCAGCCAGTGTAGGG
1 GGGTCCTAAATCTCAGAATACTTCTACAGCCAGTGT-GGG
* *
5675349 GGGTCCTAAATCTCAGACTACTTCTACAGCTAGTGTGGG
1 GGGTCCTAAATCTCAGAATACTTCTACAGCCAGTGTGGG
5675388 G
1 G
5675389 AACTCGAGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 4 0.11
40 33 0.89
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
GGGTCCTAAATCTCAGAATACTTCTACAGCCAGTGTGGG
Found at i:5679672 original size:39 final size:42
Alignment explanation
Indices: 5679577--5679760 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 42
5679567 TTGAATGATG
*
5679577 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGT-ACTAATA
*
5679616 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGAGTACTAATA
*
5679656 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAG-TTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTACTAATA
* * *
5679695 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTACTAATA
* *
5679735 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
5679761 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 8, Indels: 21
0.81 0.05 0.14
Matches are distributed among these distances:
39 55 0.44
40 59 0.47
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (42 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTACTAATA
Found at i:5679712 original size:79 final size:81
Alignment explanation
Indices: 5679577--5679760 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
5679567 TTGAATGATG
5679577 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
*
5679640 TGTGCGAGA-TACTA-A
66 TGTGC-AAATTACTATA
* * **
5679655 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
5679716 ATTTGTGCAAATTACTATA
63 ATTTGTGCAAATTACTATA
* *
5679735 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
5679761 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 12 0.13
79 56 0.62
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCAAATTACTATA
Found at i:5679782 original size:79 final size:79
Alignment explanation
Indices: 5679629--5679793 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
5679619 GGACTAAGAT
* * ** *
5679629 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAAATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
5679694 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
5679708 CCGAAGGCATTTGTGC-AAATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAAA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
5679770 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
5679787 CCGAAGG
1 CCGAAGG
5679794 TACGTGTTTG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 4 0.05
79 44 0.60
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAAATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:5683569 original size:46 final size:46
Alignment explanation
Indices: 5683519--5683691 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
5683509 TGGTTGAGCA
*
5683519 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
5683565 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
5683612 TCCGAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
5683658 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
5683692 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:5683675 original size:93 final size:93
Alignment explanation
Indices: 5683516--5683686 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
5683506 GGATGGTTGA
*** *
5683516 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAGT
5683581 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
5683609 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCATTTATGGATGCGAACACCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAGT
5683674 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
5683687 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:5683952 original size:19 final size:20
Alignment explanation
Indices: 5683915--5683952 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
5683905 ATAAGGTGGT
5683915 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
5683935 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
5683953 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:5686560 original size:40 final size:40
Alignment explanation
Indices: 5686505--5686734 Score: 361
Period size: 40 Copynumber: 5.8 Consensus size: 40
5686495 GCATGAGCAA
5686505 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
5686545 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
* *
5686585 TTGATATATCCGGGCTAAAACCCAAAGGCATTTGTGCAAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
* * *
5686625 TTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
* *
5686665 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
* * * *
5686705 TTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TTGATATATCCGGGCTAAAACCCGAAGGCA
5686735 ATTGAGCTTG
Statistics
Matches: 179, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 179 1.00
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
Found at i:5686753 original size:120 final size:120
Alignment explanation
Indices: 5686498--5686762 Score: 363
Period size: 120 Copynumber: 2.2 Consensus size: 120
5686488 TATGTGTGCA
* * *
5686498 TGAGCAA-TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTA
1 TGAGCAAGTGGATATATCCGGGCTAAAACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTA
* * *
5686562 AAACCCGAAGGCATTTGTGCGAGTTGATATATCCGGGCTAAAACCCAAAGGCATT
66 AAACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGCTAAAACCCAAAGGCAAT
* * *
5686617 TGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTA
1 TGAGCAAGTGGATATATCCGGGCTAAAACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTA
* * * * *
5686682 AGACCCGAAGGCATTCGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAAT
66 AAACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGCTAAAACCCAAAGGCAAT
** *
5686737 TGAGCTTGTGGTTATATCC-GGCTAAA
1 TGAGCAAGTGGATATATCCGGGCTAAA
5686763 TTCCGAAGAA
Statistics
Matches: 127, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
119 12 0.09
120 115 0.91
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (120 bp):
TGAGCAAGTGGATATATCCGGGCTAAAACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTA
AAACCCGAAGGCATTCGTGCGAGTTGATATACCCGGGCTAAAACCCAAAGGCAAT
Found at i:5688857 original size:40 final size:40
Alignment explanation
Indices: 5688803--5688880 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
5688793 AAGTGCCATA
* *
5688803 TATATAGCTAAAGCTAT-TCCAATTCGCACACTAAGTGCTT
1 TATATAGCCAAAGCTATCT-CAATACGCACACTAAGTGCTT
* *
5688843 TATATAGCCGAAGCTATCTCTATACGCACACTAAGTGC
1 TATATAGCCAAAGCTATCTCAATACGCACACTAAGTGC
5688881 CAAACATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (40 bp):
TATATAGCCAAAGCTATCTCAATACGCACACTAAGTGCTT
Found at i:5695356 original size:43 final size:45
Alignment explanation
Indices: 5695297--5695430 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 45
5695287 GATATATGAG
* *
5695297 GCATCTGAGCTTGTTGAATGGTCTGAGTTCATTATGGATGCG-A-
1 GCATCTGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCGAAT
* * *
5695340 GCATCTGAGCTCGTTGAGTGGTCCGAGCTCATAATGGATGCGATACAT
1 GCATCTGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCG--A-AT
*
5695388 GTAACATCTGAGCTCGTTGAGGGGTCTGAGTTCATTATGGATG
1 G---CATCTGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATG
5695431 TGTTACATGT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
43 37 0.50
47 1 0.01
48 1 0.01
51 35 0.47
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (45 bp):
GCATCTGAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGCGAAT
Found at i:5695428 original size:51 final size:51
Alignment explanation
Indices: 5695341--5695440 Score: 146
Period size: 51 Copynumber: 2.0 Consensus size: 51
5695331 TGGATGCGAG
*
5695341 CATCTGAGCTCGTTGAGTGGTCCGAGCTCATAATGGATGCGATACATGTAA
1 CATCTGAGCTCGTTGAGGGGTCCGAGCTCATAATGGATGCGATACATGTAA
* * * * *
5695392 CATCTGAGCTCGTTGAGGGGTCTGAGTTCATTATGGATGTGTTACATGT
1 CATCTGAGCTCGTTGAGGGGTCCGAGCTCATAATGGATGCGATACATGT
5695441 TATAAGGTAG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (51 bp):
CATCTGAGCTCGTTGAGGGGTCCGAGCTCATAATGGATGCGATACATGTAA
Found at i:5700410 original size:212 final size:212
Alignment explanation
Indices: 5700043--5700464 Score: 781
Period size: 212 Copynumber: 2.0 Consensus size: 212
5700033 GCGGGTATTG
* * *
5700043 TTTACCTTAAAAGTGCCGAATTTGGGATGACTTACCTTGACTGTTCCAAATGGGAAAATGCTAAG
1 TTTACCTTAAAAGTGCCGAATTTGGGATGACTTACCTCGACTGTACCAAATGGGAAAATACTAAG
*
5700108 TACCGTAAGAGGAATTTCTTTATTCGGTTTGGCAATGTCAATGTGAGAATCTGTGGCATCTAATG
66 TACCGTAAGAGGAACTTCTTTATTCGGTTTGGCAATGTCAATGTGAGAATCTGTGGCATCTAATG
5700173 AAACTTTATCTCCTACCTTAAGTTGATTTGGTGAGGCATTGAGCTCGTTCTGGCGTAGTTTTGGT
131 AAACTTTATCTCCTACCTTAAGTTGATTTGGTGAGGCATTGAGCTCGTTCTGGCGTAGTTTTGGT
5700238 TCATCGTGTTTCCTCGA
196 TCATCGTGTTTCCTCGA
*
5700255 TTTACCTTAAAAGTGCCTAATTTGGGATGACTTACCTCGACTGTACCAAATGGGAAAATACTAAG
1 TTTACCTTAAAAGTGCCGAATTTGGGATGACTTACCTCGACTGTACCAAATGGGAAAATACTAAG
* *
5700320 TACCGTAAGAGGAACTTCTTTATTCGGTTTGGCAGTGTCAATGTGAGGATCTGTGGCATCTAATG
66 TACCGTAAGAGGAACTTCTTTATTCGGTTTGGCAATGTCAATGTGAGAATCTGTGGCATCTAATG
5700385 AAACTTTATCTCCTACCTTAAGTTGATTTGGTGAGGCATTGAGCTCGTTCTGGCGTAGTTTTGGT
131 AAACTTTATCTCCTACCTTAAGTTGATTTGGTGAGGCATTGAGCTCGTTCTGGCGTAGTTTTGGT
5700450 TCATCGTGTTTCCTC
196 TCATCGTGTTTCCTC
5700465 TGTTTAAATG
Statistics
Matches: 203, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
212 203 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (212 bp):
TTTACCTTAAAAGTGCCGAATTTGGGATGACTTACCTCGACTGTACCAAATGGGAAAATACTAAG
TACCGTAAGAGGAACTTCTTTATTCGGTTTGGCAATGTCAATGTGAGAATCTGTGGCATCTAATG
AAACTTTATCTCCTACCTTAAGTTGATTTGGTGAGGCATTGAGCTCGTTCTGGCGTAGTTTTGGT
TCATCGTGTTTCCTCGA
Found at i:5703498 original size:93 final size:93
Alignment explanation
Indices: 5703391--5703563 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
5703381 CGCCCATAAG
* *
5703391 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGAATCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGAATCAACTCA
5703456 ACAAGCTCGGATGCCTAGTTACATCTCA
66 ACAAGCTCGGATGCCTAGTTACATCTCA
* *
5703484 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGAATCAACTCA
* *
5703549 ACGAGTTCGGATGCC
66 ACAAGCTCGGATGCC
5703564 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCAGAATCAACTCA
ACAAGCTCGGATGCCTAGTTACATCTCA
Found at i:5703559 original size:46 final size:46
Alignment explanation
Indices: 5703384--5703559 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
5703374 TGTAACCCGC
* * *
5703384 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * * *
5703430 CCATAAGTGAACTCAGAATCAACTCAACAAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* * *
5703480 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
5703523 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGA
5703560 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 64 0.62
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:5703578 original size:46 final size:45
Alignment explanation
Indices: 5703435--5703578 Score: 112
Period size: 46 Copynumber: 3.1 Consensus size: 45
5703425 CGCATCCATA
* * * * *
5703435 AGTGAACTCAGAATCAACTCAACAAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCA---ACATCCC
* * * * * *
5703483 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC-GCATCCATA
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAACATCC--C
*
5703528 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCC-AACATCCC
5703574 AGTGA
1 AGTGA
5703579 CATGTCACTT
Statistics
Matches: 73, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
43 4 0.05
45 1 0.01
46 36 0.49
47 27 0.37
48 5 0.07
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.20
Consensus pattern (45 bp):
AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAACATCCC
Found at i:5705974 original size:30 final size:30
Alignment explanation
Indices: 5705930--5706018 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
5705920 CAAAGATAAC
*
5705930 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCGGAATAAAGAAATCCAAGATA
*
5705959 GAGAAACCCGGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGGAATAAAGAAATCCAAG-ATA
* * *
5705989 AAGAGATCCAGG-ATAAAGAAACCCAAGATA
1 AAGA-AACCCGGAATAAAGAAATCCAAGATA
5706019 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 9 0.18
30 34 0.68
31 7 0.14
ACGTcount: A:0.56, C:0.16, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAAACCCGGAATAAAGAAATCCAAGATA
Found at i:5705978 original size:15 final size:14
Alignment explanation
Indices: 5705930--5706012 Score: 58
Period size: 15 Copynumber: 5.6 Consensus size: 14
5705920 CAAAGATAAC
*
5705930 AAGAAAACCGAATA
1 AAGAAACCCGAATA
* *
5705944 AAGAAATCCAAGATA
1 AAGAAACCCGA-ATA
*
5705959 GAGAAACCCGGAATA
1 AAGAAACCC-GAATA
*
5705974 AAGAAATCCAGAATA
1 AAGAAA-CCCGAATA
* * *
5705989 AAGAGATCCAGGATA
1 AAGA-AACCCGAATA
5706004 AAGAAACCC
1 AAGAAACCC
5706013 AAGATACGAT
Statistics
Matches: 54, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
14 12 0.22
15 38 0.70
16 4 0.07
ACGTcount: A:0.55, C:0.17, G:0.18, T:0.10
Consensus pattern (14 bp):
AAGAAACCCGAATA
Found at i:5706018 original size:15 final size:15
Alignment explanation
Indices: 5705941--5706018 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
5705931 AGAAAACCGA
5705941 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* **
5705956 ATAGAGAAA-CCCGG
1 ATAAAGAAATCCAAG
5705970 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
5705985 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
5706001 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
5706016 ATA
1 ATA
5706019 CGATACTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.88
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:5708946 original size:207 final size:207
Alignment explanation
Indices: 5708591--5709004 Score: 801
Period size: 207 Copynumber: 2.0 Consensus size: 207
5708581 AACTACAAGG
* *
5708591 AATGAAAAGGAGGGAGTAAGCATAAATGCTTAATAAGTTCACATGCAAATAGCAAGTAACATAAC
1 AATGAAAAAGAGGGAGTAAGCATAAATGATTAATAAGTTCACATGCAAATAGCAAGTAACATAAC
5708656 CATATAAGCAAACATAAAACATCATTTGCATAATCATCACCAAGACATTCATATCACATTTTCAT
66 CATATAAGCAAACATAAAACATCATTTGCATAATCATCACCAAGACATTCATATCACATTTTCAT
*
5708721 TTATCATCTTACCATATTGTTGTTATATCGATTTTTCAACCCGAGGGTTAAGTACATACCTGTTC
131 TTATCATCTTACCATATTGTTGTTATATCAATTTTTCAACCCGAGGGTTAAGTACATACCTGTTC
5708786 AAAGTACCCATT
196 AAAGTACCCATT
5708798 AATGAAAAAGAGGGAGTAAGCATAAATGATTAATAAGTTCACATGCAAATAGCAAGTAACATAAC
1 AATGAAAAAGAGGGAGTAAGCATAAATGATTAATAAGTTCACATGCAAATAGCAAGTAACATAAC
5708863 CATATAAGCAAACATAAAACATCATTTGCATAATCATCACCAAGACATTCATATCACATTTTCAT
66 CATATAAGCAAACATAAAACATCATTTGCATAATCATCACCAAGACATTCATATCACATTTTCAT
5708928 TTATCATCTTACCATATTGTTGTTATATCAATTTTTCAACCCGAGGGTTAAGTACATACCTGTTC
131 TTATCATCTTACCATATTGTTGTTATATCAATTTTTCAACCCGAGGGTTAAGTACATACCTGTTC
5708993 AAAGTACCCATT
196 AAAGTACCCATT
5709005 TCACAACACT
Statistics
Matches: 204, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
207 204 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (207 bp):
AATGAAAAAGAGGGAGTAAGCATAAATGATTAATAAGTTCACATGCAAATAGCAAGTAACATAAC
CATATAAGCAAACATAAAACATCATTTGCATAATCATCACCAAGACATTCATATCACATTTTCAT
TTATCATCTTACCATATTGTTGTTATATCAATTTTTCAACCCGAGGGTTAAGTACATACCTGTTC
AAAGTACCCATT
Found at i:5709274 original size:93 final size:93
Alignment explanation
Indices: 5709162--5709334 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
5709152 CGCCCATAAG
* *
5709162 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
5709227 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
5709255 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCTCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
5709320 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
5709335 CAAATATCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:5709330 original size:46 final size:46
Alignment explanation
Indices: 5709155--5709330 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
5709145 TGTAACCCGC
* * *
5709155 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCTCAT
* *
5709201 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CT-AGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCTCA--T
* * *
5709247 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCTCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCTCAT
* *
5709294 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
5709331 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 68 0.62
47 33 0.30
48 4 0.04
49 1 0.01
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCTCAT
Found at i:5709349 original size:46 final size:45
Alignment explanation
Indices: 5709206--5709349 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 45
5709196 CGCATCCATA
* * * *
5709206 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATCCC
* * * *
5709254 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTC--TCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAT-ATCC--C
5709299 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCC
5709345 AGTGA
1 AGTGA
5709350 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 16
0.73 0.11 0.15
Matches are distributed among these distances:
43 3 0.04
45 1 0.01
46 37 0.48
47 30 0.39
48 5 0.06
49 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCC
Found at i:5716382 original size:48 final size:48
Alignment explanation
Indices: 5716309--5716528 Score: 182
Period size: 46 Copynumber: 4.7 Consensus size: 48
5716299 TTATTAGTGT
* * * *
5716309 CGATGCCATGTCCCAGGCAGGTCTTACACTAGCTTGTATATCGCAAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTATATATCTCAAGGC
* ** *
5716358 CGATGCATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTATATATCTCAAGGC
* * *
5716404 CGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTATATATCTCAAGGC
* * * * * * **
5716452 CGGTGCACGT-CCAGATATTTCTTACACTGGCTCT-CATA-CT-GTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TATATATCTCAAGGC
* * *
5716497 TGATGCATGTCCCAAACATGTCTTACGCTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
5716529 ACACATATTA
Statistics
Matches: 139, Mismatches: 28, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
45 11 0.08
46 56 0.40
47 26 0.19
48 41 0.29
49 5 0.04
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (48 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTATATATCTCAAGGC
Found at i:5716508 original size:93 final size:94
Alignment explanation
Indices: 5716273--5716528 Score: 266
Period size: 93 Copynumber: 2.7 Consensus size: 94
5716263 GCCATGTCTT
* * * *
5716273 AGACATTGTCTTACACTGGCTCTCATTTATTAGTGTCGATGCCATGTCCCAGGCAGGTCTTACAC
1 AGACA-TGTCTTACACTGGCTCTCA--TACTAGTGGCGATG-CATGTCCCAGACATGTCTTACAC
** *
5716338 TAGCTTGTATATCGCAAGGCCGATGCATGTCCC
62 TAGCTTAAATATCGCAAGGCCGATGCACGTCCC
* * * * *
5716371 AGACATGTCTTACACTAGCTCTCGT-CTCAATGCCGATGCATGTCCCAGACATGTCTTACACTGG
1 AGACATGTCTTACACTGGCTCTCATACT-AGTGGCGATGCATGTCCCAGACATGTCTTACACTAG
* * *
5716435 CTTAAATATCTCGAGGCCGGTGCACGT-CC
65 CTTAAATATCGCAAGGCCGATGCACGTCCC
* * * *
5716464 AGATATTTCTTACACTGGCTCTCATACT-GTGGCTGATGCATGTCCCAAACATGTCTTACGCTAG
1 AGACATGTCTTACACTGGCTCTCATACTAGTGGC-GATGCATGTCCCAGACATGTCTTACACTAG
5716528 C
65 C
5716529 ACACATATTA
Statistics
Matches: 132, Mismatches: 23, Indels: 11
0.80 0.14 0.07
Matches are distributed among these distances:
92 3 0.02
93 51 0.39
94 47 0.36
95 9 0.07
97 17 0.13
98 5 0.04
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (94 bp):
AGACATGTCTTACACTGGCTCTCATACTAGTGGCGATGCATGTCCCAGACATGTCTTACACTAGC
TTAAATATCGCAAGGCCGATGCACGTCCC
Found at i:5719358 original size:18 final size:18
Alignment explanation
Indices: 5719335--5719370 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
5719325 TCCCCCGGTG
5719335 ATAGTCTATTATCAACTC
1 ATAGTCTATTATCAACTC
*
5719353 ATAGTCTTTTATCAACTC
1 ATAGTCTATTATCAACTC
5719371 CTACCATCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.42
Consensus pattern (18 bp):
ATAGTCTATTATCAACTC
Found at i:5726567 original size:32 final size:32
Alignment explanation
Indices: 5726519--5726634 Score: 151
Period size: 32 Copynumber: 3.6 Consensus size: 32
5726509 GGGTTTGATA
* *
5726519 TTGAAATGGGCGAGGCCCAACTGATATTGGTT
1 TTGATATGGGCTAGGCCCAACTGATATTGGTT
* *
5726551 TTGATATGGGCTAGGCCAAACTGATACTGGTT
1 TTGATATGGGCTAGGCCCAACTGATATTGGTT
* * *
5726583 TTGATATGGGCTACGCCGAACTGATATTGATT
1 TTGATATGGGCTAGGCCCAACTGATATTGGTT
* *
5726615 CTGAGATGGGCTAGGCCCAA
1 TTGATATGGGCTAGGCCCAA
5726635 TTAAGACTGT
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (32 bp):
TTGATATGGGCTAGGCCCAACTGATATTGGTT
Found at i:5733586 original size:40 final size:40
Alignment explanation
Indices: 5733531--5733807 Score: 455
Period size: 40 Copynumber: 6.9 Consensus size: 40
5733521 GCATGAGCAT
5733531 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
5733571 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
5733611 TTGATAAATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
5733651 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGTGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
5733691 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
5733731 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
5733771 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
5733808 TTGCGGTTAT
Statistics
Matches: 219, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 219 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:5738536 original size:46 final size:45
Alignment explanation
Indices: 5738472--5738641 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
5738462 TAGCGAGGCC
* * *
5738472 GATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATACA
1 GATGCATGTCCTAGACATGTCTTACACTAGCTCTCATCTC-ATGCT
* * *
5738518 GATGCATGTCCTAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCT
1 GATGCATGTCCTAGACATGTCTTACACTAGCTCT---CATCTC-ATGCT
* *
5738566 GATGCATGTCC-AGATATGTCTTACACTGGCTCTCATACT-ATGGCT
1 GATGCATGTCCTAGACATGTCTTACACTAGCTCTCAT-CTCAT-GCT
*
5738611 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCTAGACATGTCTTACACTAGC
5738642 ACACATATCA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
44 1 0.01
45 17 0.16
46 50 0.48
47 19 0.18
48 18 0.17
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.31
Consensus pattern (45 bp):
GATGCATGTCCTAGACATGTCTTACACTAGCTCTCATCTCATGCT
Found at i:5738650 original size:93 final size:93
Alignment explanation
Indices: 5738428--5738641 Score: 270
Period size: 93 Copynumber: 2.3 Consensus size: 93
5738418 AAGCTGACGC
* ** *
5738428 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATAGCGAGGCCGATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCTAGACATGTC
*
5738493 TTACACTAGCTCTCGTCTCAATACAGATG
66 TTACACTAGCTCTCATCT-AATACAGATG
* * * * *
5738522 CATGTCCTAGACATGTCTTACACTGGCTTAAATATCTCGAGGCTGATGCATGTCC-AGATATGTC
1 CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCTAGACATGTC
* * *
5738586 TTACACTGGCTCTCATACT-ATGGCTGATG
66 TTACACTAGCTCTCAT-CTAAT-ACAGATG
5738615 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
5738642 ACACATATCA
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
92 2 0.02
93 52 0.50
94 49 0.48
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCTAGACATGTC
TTACACTAGCTCTCATCTAATACAGATG
Found at i:5740663 original size:53 final size:53
Alignment explanation
Indices: 5740489--5740692 Score: 147
Period size: 53 Copynumber: 3.8 Consensus size: 53
5740479 AGGGTTTAAG
* * * ** * * *
5740489 GATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGCTTTACAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAACGGTAAG-TTCATAAGGCAAA
* * * * * ** * * *
5740543 GAAATCATGTAAGACCATGTCAAGACATAGCATTGATAAACTATTATAAGGCAAA
1 GATACCACGTAAGACCATGCCAAGACATGGCAACGGT-AAGT-TCATAAGGCAAA
* * * * * *
5740598 GATCCCATGTAAGACTATGCCAAGGCATGGCAACGGTGAGTTCATAAGGCAAG
1 GATACCACGTAAGACCATGCCAAGACATGGCAACGGTAAGTTCATAAGGCAAA
* *
5740651 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCACGTAAGACCATGCCAAGACATGGCAACGGTAAGTT
5740693 TAAAAAGGAA
Statistics
Matches: 116, Mismatches: 32, Indels: 5
0.76 0.21 0.03
Matches are distributed among these distances:
53 45 0.39
54 32 0.28
55 39 0.34
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.21
Consensus pattern (53 bp):
GATACCACGTAAGACCATGCCAAGACATGGCAACGGTAAGTTCATAAGGCAAA
Found at i:5743325 original size:15 final size:15
Alignment explanation
Indices: 5743262--5743325 Score: 67
Period size: 15 Copynumber: 4.3 Consensus size: 15
5743252 GTATTGTATA
* *
5743262 TTGGAATTCTGTATC
1 TTGGATTTCTTTATC
*
5743277 TTGGATTTCTTCATC
1 TTGGATTTCTTTATC
*
5743292 TTGGATTT-TTCTGTC
1 TTGGATTTCTT-TATC
*
5743307 TTGGATTTCTTTATT
1 TTGGATTTCTTTATC
5743322 TTGG
1 TTGG
5743326 TCTGCTTGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 2 0.05
15 36 0.90
16 2 0.05
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.56
Consensus pattern (15 bp):
TTGGATTTCTTTATC
Found at i:5744575 original size:24 final size:24
Alignment explanation
Indices: 5744547--5744597 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
5744537 TTCTTAAAAT
5744547 GATAGCTTTTGTTAATCAGATTGA
1 GATAGCTTTTGTTAATCAGATTGA
*
5744571 GATAGTTTTTGTTAATCAGATTGA
1 GATAGCTTTTGTTAATCAGATTGA
5744595 GAT
1 GAT
5744598 CCGTGATGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (24 bp):
GATAGCTTTTGTTAATCAGATTGA
Found at i:5745897 original size:30 final size:30
Alignment explanation
Indices: 5745841--5745897 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
5745831 TACGAGCATT
* *
5745841 GGGGCAAAAGTGTAAATATGTGAAAGTTTA
1 GGGGCAAAAGTGCAAATATGTAAAAGTTTA
*
5745871 GGGGTCAAAA-TGCAAATTTGTAAAAGT
1 GGGG-CAAAAGTGCAAATATGTAAAAGT
5745898 ATGATTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.26
Consensus pattern (30 bp):
GGGGCAAAAGTGCAAATATGTAAAAGTTTA
Found at i:5750494 original size:40 final size:40
Alignment explanation
Indices: 5750434--5750581 Score: 226
Period size: 40 Copynumber: 3.7 Consensus size: 40
5750424 GCATGAGCAT
5750434 TTGAGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
5750475 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAA
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
**
5750515 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* *
5750555 -TGGTAATATCCGGGCTAAGGCCCGAAG
1 TTGAT-ATATCCGGGCTAAGACCCGAAG
5750582 AAACTTGGGT
Statistics
Matches: 100, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
39 3 0.03
40 93 0.93
41 4 0.04
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:5751170 original size:135 final size:135
Alignment explanation
Indices: 5750928--5751192 Score: 530
Period size: 135 Copynumber: 2.0 Consensus size: 135
5750918 CTGTTTTATA
5750928 GATTTTGTTCGTTAGCTATCGGATTCGGGATCATCGAAGTCAAAGTCATCCACACTATCAAAGCC
1 GATTTTGTTCGTTAGCTATCGGATTCGGGATCATCGAAGTCAAAGTCATCCACACTATCAAAGCC
5750993 CTTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCATTGTTGTTGTT
66 CTTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCATTGTTGTTGTT
5751058 CAAGT
131 CAAGT
5751063 GATTTTGTTCGTTAGCTATCGGATTCGGGATCATCGAAGTCAAAGTCATCCACACTATCAAAGCC
1 GATTTTGTTCGTTAGCTATCGGATTCGGGATCATCGAAGTCAAAGTCATCCACACTATCAAAGCC
5751128 CTTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCATTGTTGTTGTT
66 CTTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCATTGTTGTTGTT
5751193 TAAGCACTTT
Statistics
Matches: 130, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 130 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (135 bp):
GATTTTGTTCGTTAGCTATCGGATTCGGGATCATCGAAGTCAAAGTCATCCACACTATCAAAGCC
CTTTTTGGTACTCTTTTAGTTGAACTCTGGATATGGCATGTATAGGACTACCCATTGTTGTTGTT
CAAGT
Found at i:5752023 original size:40 final size:40
Alignment explanation
Indices: 5751978--5752058 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
5751968 GTGACTAATA
5751978 CGCAGATTGGCACTGTCTGGGAAATTTTTTTTATAAGGGG
1 CGCAGATTGGCACTGTCTGGGAAATTTTTTTTATAAGGGG
5752018 CGCAGATTGGCACTGTCTGGGAAATTTTTTTTATAAGGGG
1 CGCAGATTGGCACTGTCTGGGAAATTTTTTTTATAAGGGG
5752058 C
1 C
5752059 TTAAAGTCTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (40 bp):
CGCAGATTGGCACTGTCTGGGAAATTTTTTTTATAAGGGG
Found at i:5753158 original size:50 final size:50
Alignment explanation
Indices: 5753018--5753147 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 50
5753008 GCTGTGAAAA
*
5753018 CACACGTGTAGTACTAAGTGTAGGCTACTACGTCTATCC-GATGGTTAAGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTACGTCTA-CCAGATGGTTAAGT
* * * * * *
5753068 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGTAGGCTACTACGTCTACCAGATGGTTAAGT
*
5753118 CGCATGTGTAGTACTAAGTGTAGGCTACTA
1 CACATGTGTAGTACTAAGTGTAGGCTACTA
5753148 TTCATACCAG
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 2 0.03
50 66 0.97
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGTAGGCTACTACGTCTACCAGATGGTTAAGT
Found at i:5757788 original size:49 final size:47
Alignment explanation
Indices: 5757735--5757846 Score: 136
Period size: 49 Copynumber: 2.3 Consensus size: 47
5757725 AGGTTATGCG
* *
5757735 GCACTATGTGTGCAAAAACTACGTGGCACTATGTGTGCGAGATTA-GATA
1 GCACTATGTGTGCAAAAA--ACGTGGCACTATGTGTGCGA-ATGAGGAGA
**
5757784 GCACTATGTGTGCGAGGAAACGTGGCACTATGTGTGCGAATGAGTGAGA
1 GCACTATGTGTGC-AAAAAACGTGGCACTATGTGTGCGAATGAG-GAGA
5757833 GCACTATGTGTGCA
1 GCACTATGTGTGCA
5757847 GACCTTTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
47 3 0.05
48 21 0.38
49 29 0.52
50 3 0.05
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (47 bp):
GCACTATGTGTGCAAAAAACGTGGCACTATGTGTGCGAATGAGGAGA
Found at i:5757811 original size:24 final size:24
Alignment explanation
Indices: 5757711--5757822 Score: 86
Period size: 24 Copynumber: 4.6 Consensus size: 24
5757701 AGAAATTTCA
* ** * *
5757711 GCACTATATGTGCGAGGTTATGCG
1 GCACTATGTGTGCGAGGAAACGTG
**
5757735 GCACTATGTGTGC-AAAAACTACGTG
1 GCACTATGTGTGCGAGGAA--ACGTG
* *
5757760 GCACTATGTGTGCGA-GATTA-GATA
1 GCACTATGTGTGCGAGGA-AACG-TG
5757784 GCACTATGTGTGCGAGGAAACGTG
1 GCACTATGTGTGCGAGGAAACGTG
5757808 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
5757823 ATGAGTGAGA
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
23 2 0.03
24 46 0.67
25 20 0.29
26 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (24 bp):
GCACTATGTGTGCGAGGAAACGTG
Found at i:5764108 original size:17 final size:19
Alignment explanation
Indices: 5764076--5764110 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
5764066 TCTAAATAAA
5764076 ATGAATTAATAAGAAGAAG
1 ATGAATTAATAAGAAGAAG
5764095 ATGAA-TAA-AAGAAGAA
1 ATGAATTAATAAGAAGAA
5764111 AAGGAAGGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 3 0.19
19 5 0.31
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (19 bp):
ATGAATTAATAAGAAGAAG
Found at i:5765506 original size:73 final size:73
Alignment explanation
Indices: 5765371--5765508 Score: 170
Period size: 73 Copynumber: 1.9 Consensus size: 73
5765361 TAAGAAATTT
** * * *
5765371 TAGCACTATGTGTGCGAGGTTATGCGGCACTATGTGTGTAAAAACTACGTGGTACTACGTGTGCG
1 TAGCACTATGTGTGCGAGGAAATGCGGCACTATGTGTGTAAAAACTAAGTAGCACTACGTGTGCG
5765436 AGATTACA
66 AGATTACA
* ** * *
5765444 TAGCACTATGTGTGCGAGGAAATGTGGCACTATGTGTGTGAATGAGTAAG-AGCACTATGTGTGC
1 TAGCACTATGTGTGCGAGGAAATGCGGCACTATGTGTGT-AAAAACTAAGTAGCACTACGTGTGC
5765508 G
65 G
5765509 GACCTTTAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
73 48 0.89
74 6 0.11
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.28
Consensus pattern (73 bp):
TAGCACTATGTGTGCGAGGAAATGCGGCACTATGTGTGTAAAAACTAAGTAGCACTACGTGTGCG
AGATTACA
Found at i:5767417 original size:15 final size:15
Alignment explanation
Indices: 5767394--5767432 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
5767384 TATGATATTG
*
5767394 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
5767409 TATCATGGATTTCTC
1 TATCTTGGATTTCTC
5767424 TATCTTGGA
1 TATCTTGGA
5767433 CGTCTTAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:5785791 original size:40 final size:40
Alignment explanation
Indices: 5785697--5785917 Score: 177
Period size: 40 Copynumber: 5.5 Consensus size: 40
5785687 TACTCGAATG
* *
5785697 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTAGTGCTA-GTGACT
* * *
5785738 ATAAT-CGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 AT-ATCCGGGCTAAG-TCCCGAAGGCATTAGTGCTAG-TGACT
* * *
5785778 ATATCCGGGCTAAGACCCGAAGGAATTAGTGCTAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTAGTGCTAGTGACT
*
5785818 ATATCCGGGCTAAGTCCCGAAGGCATTTA-TGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTAGTGCTAGTGACT
* * * * * * * *
5785858 ACATCCAGGCTAGGACCCAAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTAGTGCTAGTGA-CT
*
5785897 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
5785918 ATAACTTGAA
Statistics
Matches: 143, Mismatches: 28, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
38 12 0.08
39 16 0.11
40 82 0.57
41 30 0.21
42 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTAGTGCTAGTGACT
Found at i:5794236 original size:50 final size:50
Alignment explanation
Indices: 5794168--5794297 Score: 190
Period size: 50 Copynumber: 2.6 Consensus size: 50
5794158 GTTGTGAGAA
* *
5794168 CACATGTGTAGTATTAAGTGCAGGCTACTACGTGTA-TCCGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATGGTTAGGT
* *
5794218 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGGTTAGGT
* *
5794268 CGCATGTGTAGTACTAAGTGCAGGCCACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
5794298 TGCGTACCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
50 71 0.99
51 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATGGTTAGGT
Found at i:5795623 original size:31 final size:31
Alignment explanation
Indices: 5795588--5795648 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
5795578 AATGTGTAAT
*
5795588 ATGGTAATAAGATGATAGTGCCTTGAACATA
1 ATGGTAATAAGAGGATAGTGCCTTGAACATA
5795619 ATGGTAATAAGAGGATAGTGCCTTGAACAT
1 ATGGTAATAAGAGGATAGTGCCTTGAACAT
5795649 GGATGTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (31 bp):
ATGGTAATAAGAGGATAGTGCCTTGAACATA
Found at i:5799903 original size:28 final size:27
Alignment explanation
Indices: 5799840--5800019 Score: 288
Period size: 28 Copynumber: 6.6 Consensus size: 27
5799830 ATATTAAGTC
* * *
5799840 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
5799867 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
5799895 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
5799922 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
5799950 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
5799978 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
5800005 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
5800020 GCACAATTTA
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:5799924 original size:55 final size:55
Alignment explanation
Indices: 5799840--5800019 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
5799830 ATATTAAGTC
* * * *
5799840 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
5799895 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
5799950 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAGTCAAACT
5800005 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
5800020 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:5799978 original size:83 final size:82
Alignment explanation
Indices: 5799840--5800019 Score: 306
Period size: 83 Copynumber: 2.2 Consensus size: 82
5799830 ATATTAAGTC
* *
5799840 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
5799905 GTGCTACATAGTCAACT
66 GTGCTACATAGTCAACT
* *
5799922 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTT
*
5799987 AGTGCTACATAGTCAATT
65 AGTGCTACATAGTCAACT
5800005 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
5800020 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 20 0.22
83 72 0.78
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:5806290 original size:98 final size:98
Alignment explanation
Indices: 5806121--5806316 Score: 383
Period size: 98 Copynumber: 2.0 Consensus size: 98
5806111 AGTCAAAGTC
5806121 TCCATGTTACTGGGGTCGACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTGTACAG
1 TCCATGTTACTGGGGTCGACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTGTACAG
5806186 AACTTCCATACTGATGCCGTTTGTTTCTATAGA
66 AACTTCCATACTGATGCCGTTTGTTTCTATAGA
5806219 TCCATGTTACTGGGGTCGACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTGTACAG
1 TCCATGTTACTGGGGTCGACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTGTACAG
*
5806284 AACTTCCATATTGATGCCGTTTGTTTCTATAGA
66 AACTTCCATACTGATGCCGTTTGTTTCTATAGA
5806317 AACTAGACTC
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (98 bp):
TCCATGTTACTGGGGTCGACTACACTGACCTTTGCGCATTACGACCTGGATATCTCCCTGTACAG
AACTTCCATACTGATGCCGTTTGTTTCTATAGA
Found at i:5806642 original size:61 final size:61
Alignment explanation
Indices: 5806547--5806667 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
5806537 AATTAATTCC
*
5806547 ACTCCTACTATTTTTAGTGATTTTTCAATCTCATGTCACTGCTGCTGCCAGCATCTGTTAT
1 ACTCCTACTATTTTTAGTGATTTTTCAATCTCATGACACTGCTGCTGCCAGCATCTGTTAT
5806608 ACTCCTACTATTTTTAGTGATTTTTCAATCTCATGACACTGCTGCTGCCAGCATCTGTTA
1 ACTCCTACTATTTTTAGTGATTTTTCAATCTCATGACACTGCTGCTGCCAGCATCTGTTA
5806668 CGAAAGTAAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.41
Consensus pattern (61 bp):
ACTCCTACTATTTTTAGTGATTTTTCAATCTCATGACACTGCTGCTGCCAGCATCTGTTAT
Found at i:5815020 original size:30 final size:30
Alignment explanation
Indices: 5814986--5815045 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
5814976 ATTTAATATG
5814986 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
5815016 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
5815046 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:5825633 original size:49 final size:49
Alignment explanation
Indices: 5825472--5825649 Score: 223
Period size: 51 Copynumber: 3.6 Consensus size: 49
5825462 ATCTGGTATG
* *
5825472 CATAGTAGCCTGCACTTAGTACTACACACT-TGACCTAATCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACA-TGTGACC-AATTATCCGATACA
* * * * * *
5825522 CGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAATTTATCGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGATACA
*
5825573 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGATACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACA
*
5825622 TATAGTAGCCTGCACTTAGTACTACACA
1 CATAGTAGCCTGCACTTAGTACTACACA
5825650 AGTCACCTCA
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
49 36 0.33
50 35 0.32
51 39 0.35
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (49 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACA
Found at i:5825646 original size:100 final size:101
Alignment explanation
Indices: 5825461--5825649 Score: 292
Period size: 101 Copynumber: 1.9 Consensus size: 101
5825451 TAGACAAGGC
* * * * *
5825461 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACACTTGACCTAATCATCTGATACACGTA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACTCGACCTAATCATCCGATACACATA
5825526 GTAGCCTGCACTTAGTACTACACACGTGATCGAATT
66 GTAGCCTGCACTTAGTACTACACACGTGATCGAATT
* *
5825562 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA-TGCGACC-AATTATCCGATACATAT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACT-CGACCTAATCATCCGATACACAT
5825625 AGTAGCCTGCACTTAGTACTACACA
65 AGTAGCCTGCACTTAGTACTACACA
5825650 AGTCACCTCA
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
100 39 0.49
101 41 0.51
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (101 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACTCGACCTAATCATCCGATACACATA
GTAGCCTGCACTTAGTACTACACACGTGATCGAATT
Found at i:5825943 original size:27 final size:27
Alignment explanation
Indices: 5825903--5825956 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
5825893 TCATACAACC
* *
5825903 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
5825930 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
5825957 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:5828259 original size:48 final size:48
Alignment explanation
Indices: 5828179--5828511 Score: 271
Period size: 48 Copynumber: 6.9 Consensus size: 48
5828169 AGGGTGAATT
* * * *
5828179 GCTGATGCCATGTTCCAAACATGGT-TATACACTGGCTCACTTGTCGAG
1 GCTGATGCCATGTCCCAGACATGGTCT-TACACTGGCTCACATATCGAG
* * * * * *
5828227 GCCGATGCCATGTCCCAGACATGGTCTGACACTAGCTCTCATCTC-ATT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGA-G
* * * * * *
5828275 GCTGATTCTATGTCCTAGACATGGTCTTACACCT-GCTCTCGTAAT-GTG
1 GCTGATGCCATGTCCCAGACATGGTCTTACA-CTGGCTCACAT-ATCGAG
* * * * * *
5828323 GCTAATGCCATGTCCCAGACATGGTCTCACACTAGCGCACATATCAAT
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * * *
5828371 GCTGATGCCATGTCCTAGACATGGTCGTACACTGGCTCTCATATCGTG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * * * *
5828419 GCTAATGTCATGTCGCAGACATGGTCTTACACTGGCACACATAAT-GTG
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAT-ATCGAG
* * * *
5828467 GCCGATGCCATGTCCCAGACATGGTCTTATACTAGCACACATATC
1 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATC
5828512 ACCCAACTGT
Statistics
Matches: 224, Mismatches: 52, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
47 7 0.03
48 211 0.94
49 6 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
Found at i:5828342 original size:96 final size:96
Alignment explanation
Indices: 5828178--5828492 Score: 318
Period size: 96 Copynumber: 3.3 Consensus size: 96
5828168 GAGGGTGAAT
* ** * * * * **
5828178 TGCTGATGCCATGTTCC-AAACATGGTTATACACTGGCTCACTTGTCGAGGCCGATGCCATGTCC
1 TGCTGATGCCATG-TCCTAGACATGGTCGTACACTGGCTCTCATATCGTGGCTAATGCCATGTCC
* * * * *
5828242 CAGACATGGTCTGACACTAGCTCTCATCTCAT
65 CAGACATGGTCTCACACTAGCGCACATATCAA
* * * *
5828274 TGCTGATTCTATGTCCTAGACATGGTCTTACACCT-GCTCTCGTAAT-GTGGCTAATGCCATGTC
1 TGCTGATGCCATGTCCTAGACATGGTCGTACA-CTGGCTCTCAT-ATCGTGGCTAATGCCATGTC
5828337 CCAGACATGGTCTCACACTAGCGCACATATCAA
64 CCAGACATGGTCTCACACTAGCGCACATATCAA
* *
5828370 TGCTGATGCCATGTCCTAGACATGGTCGTACACTGGCTCTCATATCGTGGCTAATGTCATGTCGC
1 TGCTGATGCCATGTCCTAGACATGGTCGTACACTGGCTCTCATATCGTGGCTAATGCCATGTCCC
* *
5828435 AGACATGGTCTTACACT-G-GCACACAT-AA
66 AGACATGGTCTCACACTAGCGCACATATCAA
* *
5828463 TGTGGCCGATGCCATGTCCCAGACATGGTC
1 --T-GCTGATGCCATGTCCTAGACATGGTC
5828493 TTATACTAGC
Statistics
Matches: 185, Mismatches: 26, Indels: 16
0.81 0.11 0.07
Matches are distributed among these distances:
93 2 0.01
94 7 0.04
95 9 0.05
96 164 0.89
97 3 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (96 bp):
TGCTGATGCCATGTCCTAGACATGGTCGTACACTGGCTCTCATATCGTGGCTAATGCCATGTCCC
AGACATGGTCTCACACTAGCGCACATATCAA
Found at i:5828443 original size:144 final size:144
Alignment explanation
Indices: 5828230--5828512 Score: 376
Period size: 144 Copynumber: 2.0 Consensus size: 144
5828220 TGTCGAGGCC
* * *
5828230 GATGCCATGTCCCAGACATGGTCTGACACTAGCTCTCATCTCATTGCTGATTCTATGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTGACACTAGCTCTCATATCATGGCTAATTCTATGTCCTAGAC
* * * *
5828295 ATGGTCTTACACCT-GCTCTCGTAATGTGGCTAATGCCATGTCCCAGACATGGTCTCACACTAGC
66 ATGGTCTTACA-CTGGCACACATAATGTGGCCAATGCCATGTCCCAGACATGGTCTCACACTAGC
*
5828359 GCACATATCAATGCT
130 ACACATATCAATGCT
* * *
5828374 GATGCCATGTCCTAGACATGGTC-GTACACTGGCTCTCATATCGTGGCTAATGTC-ATGTCGC-A
1 GATGCCATGTCCCAGACATGGTCTG-ACACTAGCTCTCATATCATGGCTAAT-TCTATGTC-CTA
* * *
5828436 GACATGGTCTTACACTGGCACACATAATGTGGCCGATGCCATGTCCCAGACATGGTCTTATACTA
63 GACATGGTCTTACACTGGCACACATAATGTGGCCAATGCCATGTCCCAGACATGGTCTCACACTA
5828501 GCACACATATCA
128 GCACACATATCA
5828513 CCCAACTGTC
Statistics
Matches: 121, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
143 3 0.02
144 115 0.95
145 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (144 bp):
GATGCCATGTCCCAGACATGGTCTGACACTAGCTCTCATATCATGGCTAATTCTATGTCCTAGAC
ATGGTCTTACACTGGCACACATAATGTGGCCAATGCCATGTCCCAGACATGGTCTCACACTAGCA
CACATATCAATGCT
Found at i:5834006 original size:15 final size:16
Alignment explanation
Indices: 5833988--5834017 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5833978 ATGGAAACTA
5833988 TGGTAT-ATGAAATAT
1 TGGTATAATGAAATAT
5834003 TGGTATAATGAAATA
1 TGGTATAATGAAATA
5834018 AATGATATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.37
Consensus pattern (16 bp):
TGGTATAATGAAATAT
Found at i:5837872 original size:47 final size:47
Alignment explanation
Indices: 5837769--5838101 Score: 459
Period size: 47 Copynumber: 7.0 Consensus size: 47
5837759 TGATAGTAAA
5837769 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGG
*
5837818 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGG
*
5837865 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGG
* *
5837912 GCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGG
* * * *
5837961 GCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATATGTGATAGG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGG
* * *
5838008 GCCTAATGGCCGATATGATGAATGTGGAAGTGTATATATATGTGACAGG
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAGG
* * * * * *
5838057 GCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
5838102 AGTCCCGAAG
Statistics
Matches: 254, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
47 143 0.56
49 111 0.44
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.28
Consensus pattern (47 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGG
Found at i:5837950 original size:96 final size:96
Alignment explanation
Indices: 5837773--5838103 Score: 495
Period size: 96 Copynumber: 3.4 Consensus size: 96
5837763 AGTAAAGCCT
* * *
5837773 AATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
5837838 AATGTGAAAGTG--TATATATGTGATAAGGCCT
64 AATGTGGAAGTGTATATATATGTGACAGGGCCG
* *
5837869 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 AATGGCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
5837934 TGTGGAAGTGTATATATATGTGACAGGGCCG
66 TGTGGAAGTGTATATATATGTGACAGGGCCG
* * *
5837965 AGTGGCCAACGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATATGATGAA
1 AATGGCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
5838030 TGTGGAAGTGTATATATATGTGACAGGGCCG
66 TGTGGAAGTGTATATATATGTGACAGGGCCG
* * *
5838061 AGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 AATGGCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAG
5838104 TCCCGAAGGG
Statistics
Matches: 220, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 45 0.20
96 175 0.80
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (96 bp):
AATGGCCAACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGGAAGTGTATATATATGTGACAGGGCCG
Found at i:5838027 original size:143 final size:144
Alignment explanation
Indices: 5837769--5838099 Score: 488
Period size: 143 Copynumber: 2.3 Consensus size: 144
5837759 TGATAGTAAA
* * * *
5837769 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCAACGT
*
5837834 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-T
66 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGAT
*
5837898 ATATATGTGATAAG
131 ATATATGTGACAAG
* *
5837912 GCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCAACGT
* *
5837977 GATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATATGATGAATGTGGAAGTGTA
66 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTG-A
*
5838042 TATATATGTGACAGG
130 TATATATGTGACAAG
* * * * *
5838057 GCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
5838100 TAAGTCCCGA
Statistics
Matches: 169, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
143 125 0.74
144 1 0.01
145 43 0.25
ACGTcount: A:0.31, C:0.10, G:0.32, T:0.28
Consensus pattern (144 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCAACGT
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGAT
ATATATGTGACAAG
Found at i:5840250 original size:40 final size:40
Alignment explanation
Indices: 5840126--5840350 Score: 274
Period size: 40 Copynumber: 5.6 Consensus size: 40
5840116 TATTCGAATG
* *
5840126 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * *
5840167 ATAACCGGACTAAGATCCGAAGGCATTCGTG-TGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCT-AG-TGACT
* * *
5840207 ATATCGGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
5840247 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
5840287 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
5840327 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
5840351 CTTGTGCAAG
Statistics
Matches: 157, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 127 0.81
41 29 0.18
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:5840306 original size:80 final size:80
Alignment explanation
Indices: 5840126--5840386 Score: 287
Period size: 80 Copynumber: 3.3 Consensus size: 80
5840116 TATTCGAATG
* * * *
5840126 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
5840191 ATTCGTGTGAGTTGCT
65 ATTCGTGTGAGTCGCT
* * * * *
5840207 ATATCGGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
5840272 TTTGTGCT-AG-CGACT
66 TTCGTG-TGAGTCG-CT
* * * *
5840287 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
** * *
5840352 TT-GTGCAAGTAGTT
66 TTCGTGTGAGTCGCT
*
5840366 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
5840387 ATTTCTTGAG
Statistics
Matches: 152, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
78 14 0.09
79 13 0.09
80 93 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGTGAGTCGCT
Done.