Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 375 of 378
Found at i:112032634 original size:12 final size:12
Alignment explanation
Indices: 112032614--112032649 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
112032604 ATTCATTTAA
112032614 CATTCATGCATT
1 CATTCATGCATT
*
112032626 CATTTATGCATT
1 CATTCATGCATT
*
112032638 CATTCATTCATT
1 CATTCATGCATT
112032650 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:112043039 original size:2 final size:2
Alignment explanation
Indices: 112043032--112043057 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
112043022 TAAGCCCATA
112043032 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
112043058 GGCATTGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112048227 original size:71 final size:71
Alignment explanation
Indices: 112048128--112048260 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 71
112048118 CTTTTCAAGG
* *
112048128 AAAATCAACTCATATTGTGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTT
1 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTGTT
112048193 GTTTTC
66 GTTTTC
**
112048199 AAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAATT
1 AAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATT
112048261 TTAAATTGAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
70 1 0.02
71 56 0.98
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (71 bp):
AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAATTGTT
GTTTTC
Found at i:112048491 original size:71 final size:69
Alignment explanation
Indices: 112048297--112048560 Score: 332
Period size: 71 Copynumber: 3.7 Consensus size: 69
112048287 GAGTTAAGCC
* *
112048297 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
112048362 GAGGTAT
63 GAGGTAT
* * ** * *
112048369 TTTCAATTTTTGTGTTTTAATCAACTCATATTGCGAG-AGATGAGTTGAGCCTCAAGACACGTTG
1 TTTTAATTTTTGT-TTTAAATCAACTCATATTGCGAGAAG-TGAGTTGAGCCTCGGGGCACGCTG
112048433 AGGTAT
64 AGGTAT
112048439 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTT--AAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
112048504 AGGTAT
64 AGGTAT
* * ** * *
112048510 TTTTAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
112048561 TTTAATTTTT
Statistics
Matches: 167, Mismatches: 20, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
69 35 0.21
70 56 0.34
71 60 0.36
72 16 0.10
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (69 bp):
TTTTAATTTTTGTTTTAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAG
GTAT
Found at i:112048605 original size:122 final size:124
Alignment explanation
Indices: 112048439--112048685 Score: 392
Period size: 122 Copynumber: 2.0 Consensus size: 124
112048429 GTTGAGGTAT
112048439 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
* *
112048504 AGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
* *
112048560 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCT
1 TTTTAATTTTTG-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT
* * * *
112048625 GAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCC
65 GAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
112048685 T
1 T
112048686 CAGGACACGA
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
121 12 0.11
122 60 0.53
123 1 0.01
124 13 0.11
125 28 0.25
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (124 bp):
TTTTAATTTTTGTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTG
AGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAGGTGAGTTAAGCC
Found at i:112048646 original size:263 final size:257
Alignment explanation
Indices: 112048130--112048754 Score: 1043
Period size: 263 Copynumber: 2.4 Consensus size: 257
112048120 TTTCAAGGAA
* *
112048130 AATCAACTCATATTGTGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTGTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
112048195 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAAT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAAT
112048260 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
131 TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
112048325 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
196 CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
112048387 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
*
112048452 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTA--
112048517 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
129 --A--TTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAA
112048582 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
190 TCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGT
112048647 TTT
255 TTT
* * * * * * *
112048650 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATAAGGTAATTTCAATTTCT
1 AA--TCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
* * *
112048715 GTTTGTAAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
64 GTTT-TCAA-AATCAACTCATATTGCGAGAAGTGAGTTGA
112048755 ACCTTTTAAT
Statistics
Matches: 345, Mismatches: 13, Indels: 10
0.94 0.04 0.03
Matches are distributed among these distances:
257 125 0.36
261 1 0.00
263 130 0.38
265 58 0.17
266 3 0.01
267 28 0.08
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (257 bp):
AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTTAAT
TTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAAAATCAACT
CATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGTGTTTT
Found at i:112048681 original size:72 final size:71
Alignment explanation
Indices: 112048560--112048754 Score: 248
Period size: 72 Copynumber: 2.7 Consensus size: 71
112048550 GAGTTAAGCC
* * * *
112048560 TTTT-AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTTCAATTTTTGTTTTT-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
*
112048624 TGAGGTA
65 TAAGGTA
**
112048631 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
1 TTTTCAATTTTTGT-TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
112048696 TAAGGTA
65 TAAGGTA
* * * *
112048703 ATTTCAATTTCTGTTTGTAAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTTCAATTTTTGTTT-TTAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
112048755 ACCTTTTAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
71 6 0.06
72 70 0.65
73 31 0.29
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (71 bp):
TTTTCAATTTTTGTTTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
AAGGTA
Found at i:112048805 original size:199 final size:193
Alignment explanation
Indices: 112048387--112048848 Score: 593
Period size: 199 Copynumber: 2.4 Consensus size: 193
112048377 TTTGTGTTTT
* * * *
112048387 AATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* * * * * * *
112048452 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGT
66 TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATAAGGTAATTTCAAT
** **
112048517 TTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTCAA
131 TTATGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTCAA
* * *
112048580 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
* ** *
112048645 GTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATAAGGTAATTTCAA
66 -TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATAAGGTAATTTCAA
* *
112048710 TTTCTGTTTGTAAAGAATCAACTCATATTGCGAGAGGTGGGTTGAA-CCTTTTAATTTCTACTTT
130 TTTATGTTT-T--A-AATCAACTCATATTGCGAGAGGTGAGTT-AAGCCTTTTAATTT-TACTTT
112048774 TTCAA
189 TTCAA
* * * *
112048779 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
*
112048844 CTTCA
66 TTTCA
112048849 TTATTATGTT
Statistics
Matches: 230, Mismatches: 32, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
193 58 0.25
194 61 0.27
195 1 0.00
197 1 0.00
198 39 0.17
199 70 0.30
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (193 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTTTGT
TTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGATAAGGTAATTTCAAT
TTATGTTTTAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTACTTTTTCAA
Found at i:112048995 original size:85 final size:85
Alignment explanation
Indices: 112048774--112049025 Score: 344
Period size: 88 Copynumber: 2.9 Consensus size: 85
112048764 TTTCTACTTT
*
112048774 TTCAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATT
1 TTCAAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATT
* * * *
112048839 TCTGTCTTCATTATTATGTTT
66 TCTGTTTTCAAT-TTACGTTG
* *
112048860 TTGAAAGAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCAAGTCACGCCGAGGTATTTTCAA
1 TT-CAA-AATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAA
112048925 TTTCTGTTTTCAATTTACGTTG
64 TTTCTGTTTTCAATTTACGTTG
* * * *
112048947 TTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACG-CTAGGTATTTTCAATT
1 TTCAAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATT
* *
112049011 TTTGTGTTTTAATTT
66 TCTGT-TTTCAATTT
112049026 CAACTCATAT
Statistics
Matches: 148, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
84 19 0.13
85 47 0.32
86 4 0.03
87 10 0.07
88 68 0.46
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (85 bp):
TTCAAAATCAGCTCATATTGCTAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATT
TCTGTTTTCAATTTACGTTG
Found at i:112049115 original size:73 final size:71
Alignment explanation
Indices: 112048932--112049125 Score: 221
Period size: 71 Copynumber: 2.7 Consensus size: 71
112048922 CAATTTCTGT
* * * * *
112048932 TTTCAATTTACG-TTGTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGC
1 TTTCAATTTATGTTTG-TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
*
112048996 TAGGTAT
65 TAGGTAA
* * ** **
112049003 TTTCAATTTTTGTGTT-TTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATTA
1 TTTCAATTTATGT-TTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA
112049067 TGAGGTAA
65 T-AGGTAA
*
112049075 TTTCAATTTATGTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGA
1 TTTCAATTTATGTTTGTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
112049126 ACCTTTTAAT
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
71 52 0.51
72 20 0.20
73 29 0.29
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.36
Consensus pattern (71 bp):
TTTCAATTTATGTTTGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGAT
AGGTAA
Found at i:112049255 original size:127 final size:127
Alignment explanation
Indices: 112049029--112049343 Score: 558
Period size: 127 Copynumber: 2.5 Consensus size: 127
112049019 TTAATTTCAA
* *
112049029 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATTATGAGGTAATTTCAATTTATGTTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGTTTGTCA
112049094 AGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
66 AGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
*
112049156 CTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGATGAGGTAATTTCAATTTCTGTTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGTTTGTCA
112049221 AGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
66 AGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
* * ** *
112049283 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGTTT
112049344 TCATTATTAT
Statistics
Matches: 179, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 179 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (127 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGATGAGGTAATTTCAATTTCTGTTTGTCA
AGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTAATTTCTACTTTTTCAAAATCAG
Found at i:112049490 original size:93 final size:89
Alignment explanation
Indices: 112049283--112049528 Score: 282
Period size: 93 Copynumber: 2.7 Consensus size: 89
112049273 TCAAAATCAG
*
112049283 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-CACGCCGAGGTATTTTCAATTTCTGTTTTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCCGAGGTATTTTCAATTTCCGTTTTCA
* ** * **
112049347 TTATTATGTTTTTGAAAGAATCAA
66 ATATTATGTTTTAAAAAAAAAAAA
* * *
112049371 CTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTAATTTCCGTTTTT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-ACACGCCGAGGTATTTTCAATTTCCG-TTTT
*
112049436 CAAT-TTCTGTCTTTCAAAAAAAAAAAAA
64 CAATATTATGT-TTT--AAAAAAAAAAAA
* * * * *
112049464 CTCATATTGCGAGAGGTGAGTTGAGCCTTAGG-ACACGCTGAGGTAATTTCAATTTCTGTTGTCA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCCGAGGTATTTTCAATTTCCGTTTTCA
112049528 A
66 A
112049529 AAAAATCAAC
Statistics
Matches: 133, Mismatches: 19, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
88 31 0.23
90 34 0.26
91 32 0.24
93 36 0.27
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.34
Consensus pattern (89 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCCGAGGTATTTTCAATTTCCGTTTTCA
ATATTATGTTTTAAAAAAAAAAAA
Found at i:112049559 original size:167 final size:167
Alignment explanation
Indices: 112049365--112049930 Score: 874
Period size: 165 Copynumber: 3.4 Consensus size: 167
112049355 TTTTTGAAAG
*
112049365 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTTAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* * *
112049430 GTTTTTCAATTTCTGTCTTTCAAAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTTAG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
112049495 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
*
112049532 AATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* *
112049597 GTTTTTCAATTTTTGCCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
112049660 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
131 GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * * *
112049697 AGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGTCGAGGTATTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
* *
112049762 ATTTTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
66 GTTTTTCAATTTCTGCCTTTCAAAAAAAAAA-CAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
*
112049827 GGACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAA
130 GGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* * *** * ** *
112049863 ATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG--ACACGTTGAGGTATTTTCAATTTCT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
112049926 GTTTT
66 GTTTT
112049931 CAAAAAATCA
Statistics
Matches: 370, Mismatches: 26, Indels: 9
0.91 0.06 0.02
Matches are distributed among these distances:
164 27 0.07
165 155 0.42
166 35 0.09
167 89 0.24
168 64 0.17
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (167 bp):
AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTCC
GTTTTTCAATTTCTGCCTTTCAAAAAAAAAACAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
GACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:112049591 original size:76 final size:76
Alignment explanation
Indices: 112049432--112050151 Score: 300
Period size: 74 Copynumber: 9.1 Consensus size: 76
112049422 TAATTTCCGT
* * *
112049432 TTTTCAATTTCTGTCTTTCAAAAAAAAAAAAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGA
1 TTTTCAATTTCTGTCTGTC-AAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGA
*
112049497 CACGCTGAGGTA
65 CACGCCGAGGTA
* ** * *
112049509 ATTTCAATTTCTGT-TGTC-AAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--
112049572 ACACGCCGAGGTA
64 ACACGCCGAGGTA
* * * * *
112049585 TTTTCAATTTCCGTTTTTCAATTTTTGCCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGT
1 TTTTCAATTTCTGTCTGTCAA------------AAAAAAA-AAACTCATATTGCGAGAGGCGAGT
*
112049650 TGAGCCTCAGGACACGCTGAGGTA
53 TGAGCCTCAGGACACGCCGAGGTA
* *** * * *
112049674 ATTTCAATTTCTGT-TGTC-AAAAAAGTCAACTCGTATTGCGAGAGGTGAGTTGAGCCTCAGATC
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG--G
*
112049737 ACACGTCGAGGTA
64 ACACGCCGAGGTA
* *** *
112049750 TTTTCAATTTCCATTTTTCAATTTCTGCCTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTG
1 TTTTC-A-----A--TTTC--TGTCTG--TCAAAAAAAAA--A--AACTCATATTGCGAGAGGCG
* *
112049815 AGTTGAGCCTCGGGACACGCTGAGGTA
50 AGTTGAGCCTCAGGACACGCCGAGGTA
* * *** *** *
112049842 ATTTCAATTTCTGT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGAC
**
112049903 ACGTTGAGGTA
66 ACGCCGAGGTA
* ** * * * * *
112049914 TTTTCAATTTCTGT-TTTC--AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCT-TGGCT
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-A
* * *
112049975 CATGCGCTGAGCTT
65 CA--CGCCGAGGTA
* * ** * *
112049989 TTTTCAATTTCTATCTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA-GAT
1 TTTTCAATTTCTGTCTGTCAAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGA-
*
112050052 CACACACTGAGGTA
65 CACGC-C-GAGGTA
* * * * ** * * * *
112050066 TTTTTTCAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 --TTTTCAATTTCTGTCTGTCAAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG
* *
112050130 TTACATGTCGAGGTA
64 --ACACGCCGAGGTA
112050145 TTTTCAA
1 TTTTCAA
112050152 AATCTGTTTT
Statistics
Matches: 510, Mismatches: 81, Indels: 104
0.73 0.12 0.15
Matches are distributed among these distances:
72 60 0.12
73 34 0.07
74 70 0.14
75 27 0.05
76 50 0.10
77 66 0.13
78 1 0.00
79 61 0.12
80 2 0.00
81 3 0.01
82 4 0.01
84 8 0.02
86 3 0.01
87 3 0.01
88 3 0.01
89 25 0.05
90 11 0.02
91 33 0.06
92 15 0.03
94 31 0.06
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (76 bp):
TTTTCAATTTCTGTCTGTCAAAAAAAAAAAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGAC
ACGCCGAGGTA
Found at i:112049889 original size:72 final size:73
Alignment explanation
Indices: 112049787--112050294 Score: 390
Period size: 79 Copynumber: 6.5 Consensus size: 73
112049777 CCTTTCAAAA
*
112049787 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
112049852 CTGTTTTC
66 CTGTTTTC
* ** ** *
112049860 -AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
112049924 CTGTTTTC
66 CTGTTTTC
* * * ** * *
112049932 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTTTTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATTTTCAAT
*
112049997 TTCTATCTTTC
64 TTCTGT-TTTC
* ** *
112050008 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTA--TTTTC
* *
112050073 AATTTATATTTTTC
61 AATTTCT-GTTTTC
* * *
112050087 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG--ACACGCT-GAGGTATTTTCA
**
112050151 AAATCTGTTTTTCAAATTC
62 ATTTCTG---TT----TTC
* * ** * *
112050170 TATTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCATGTGCTGAGCTATT
1 -A-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTATT
112050235 TTCAATTTCTGTTTTTTTTTTC
58 TTCAATTTCTG------TTTTC
112050257 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 -AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
112050295 TTTTTAATTT
Statistics
Matches: 349, Mismatches: 54, Indels: 54
0.76 0.12 0.12
Matches are distributed among these distances:
72 65 0.19
73 34 0.10
75 20 0.06
76 4 0.01
77 51 0.15
78 3 0.01
79 66 0.19
80 1 0.00
82 5 0.01
83 33 0.09
86 2 0.01
87 4 0.01
88 55 0.16
89 1 0.00
91 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTT
CTGTTTTC
Found at i:112050028 original size:77 final size:77
Alignment explanation
Indices: 112049786--112050294 Score: 378
Period size: 72 Copynumber: 6.5 Consensus size: 77
112049776 GCCTTTCAAA
* ** *
112049786 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA--CGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGGTATTTTCAA
*
112049849 TTTCTGT-TTTC
66 TTTCTATCTTTC
* ** ** * *
112049860 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACA--CGTTGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCATGCGCTGAGGTATTTTCA
*
112049920 ATTTCTGT-TTTC
65 ATTTCTATCTTTC
* * * *
112049932 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTTTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGGTATTTTCAA
112049996 TTTCTATCTTTC
66 TTTCTATCTTTC
* * ** *
112050008 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACACTGAGGTATTTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCATGCGCTGAGGTA--TTTT
* *
112050072 CAATTTATATTTTTC
63 CAATTTCTATCTTTC
* * * * *
112050087 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TC-GAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCT-CATGCGCTGAGGTATTTTC
* *
112050150 AAAATCTGTTTTTCAAATTCTATTT
64 --AA------TTTC-TA-TCT-TTC
** * * *
112050175 TCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCATGTGCTGAGCTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGGTATTTTCAA
* *
112050240 TTTCTGTTTTTTTTTTC
66 TTTC-----TATCTTTC
112050257 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC
112050295 TTTTTAATTT
Statistics
Matches: 346, Mismatches: 58, Indels: 53
0.76 0.13 0.12
Matches are distributed among these distances:
72 64 0.18
73 35 0.10
75 20 0.06
76 7 0.02
77 49 0.14
79 59 0.17
80 9 0.03
81 2 0.01
82 7 0.02
83 31 0.09
85 3 0.01
86 7 0.02
87 6 0.02
88 47 0.14
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (77 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGGTATTTTCAA
TTTCTATCTTTC
Found at i:112050101 original size:79 final size:76
Alignment explanation
Indices: 112049786--112050504 Score: 411
Period size: 88 Copynumber: 9.0 Consensus size: 76
112049776 GCCTTTCAAA
** *
112049786 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G-GGACACGCTGAGGTAATTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
112049849 TTTCTGTTTTC
66 TTTCTGTTTTC
* ** * *
112049860 --AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-A-GACACGTTGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
112049921 TTTCTGTTTTC
66 TTTCTGTTTTC
* * ** * ** * *
112049932 -AAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTTTTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
*
112049996 TTTCTATCTTTC
66 TTTCTGT-TTTC
* *
112050008 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACACACTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTA--TTTTC
* *
112050073 AATTTATATTTTTC
64 AATTTCT-GTTTTC
* * * * * *
112050087 AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGGTTACATG-TCGAGGTATTTTCA
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCT-GAGGTATTTTCA
**
112050151 AAATCTGTTTTTC
65 ATTTCTG-TTTTC
* ** * ***
112050164 AAATTCTATTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCATGTGCTGA
1 --A----A-----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
112050229 GCTATTTTCAATTTCTGTTTTTTTTTTC
55 GGTATTTTCAATTTCTG------TTTTC
* * * * * *
112050257 AAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTT
1 AAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTCAGA--TC-AC-A-CGCTGAGGT
*
112050321 GAGTCTTTTAATTTCTGTTTTTC
58 -A-T-TTTCAATTTCTG-TTTTC
* **
112050344 --AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACA-TATCGAGGTATTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-CAGATCACACGCT-GAGGTATTTTC
**
112050405 AAAATCTGCTTTTC
64 AATTTCTG-TTTTC
** * *
112050419 AAGTTAAGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGA
1 ------A-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGA
*
112050484 GCTATTTTCAATTTCTGTTTT
55 GGTATTTTCAATTTCTGTTTT
112050505 TAATGTCTGT
Statistics
Matches: 501, Mismatches: 86, Indels: 103
0.73 0.12 0.15
Matches are distributed among these distances:
72 65 0.13
73 32 0.06
75 35 0.07
76 5 0.01
77 62 0.12
78 5 0.01
79 65 0.13
80 2 0.00
81 2 0.00
82 6 0.01
83 31 0.06
84 29 0.06
85 7 0.01
86 2 0.00
87 12 0.02
88 113 0.23
89 8 0.02
90 1 0.00
91 2 0.00
92 11 0.02
93 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCACACGCTGAGGTATTTTCAA
TTTCTGTTTTC
Found at i:112050312 original size:30 final size:30
Alignment explanation
Indices: 112050276--112050337 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
112050266 CAACTCATAT
112050276 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
112050306 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
112050336 TG
1 TG
112050338 TTTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.19, C:0.10, G:0.29, T:0.42
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:112050438 original size:255 final size:249
Alignment explanation
Indices: 112049928--112050505 Score: 744
Period size: 255 Copynumber: 2.3 Consensus size: 249
112049918 CAATTTCTGT
* * *
112049928 TTTCAAAAAATCAACTTATATTGCGAGAGGTGAGTTGACCCTTGGCTCATGCGCTGAGCTTTTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGCTATTTT
*
112049993 CAATTTC-----TATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
66 CAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
* *
112050053 ACACACTGAGGTATTTTTTCAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAG
131 ACACACTGAGGTATCTTTTCAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAG
* ** * * * * *
112050118 TTGAGCCTCGGGTTACATGTCGAGGTATTTTCAAAATCTGTTTTTCAAATTCTAT
195 TTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTCAAG
* *
112050173 TTTC-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCATGTGCTGAGCTATTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGCTATTTT
* *
112050237 CAATTTCTGTTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-
66 CAATTTCTGTTTTTTCTTTCAAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAG
* * * * * * *
112050301 ATTTCTGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTGTTTTTC-AAAAATCAACTCATATTGCG
128 A--TC-AC-ACA-CTGAGGT-A-TCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCG
*
112050364 AGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAGTT-AAG
186 AGAGGTGAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTCAAG
*
112050427 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGCTATTTT
112050492 CAATTTCTGTTTTT
66 CAATTTCTGTTTTT
112050506 AATGTCTGTT
Statistics
Matches: 288, Mismatches: 29, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
244 62 0.22
245 4 0.01
249 13 0.05
250 30 0.10
251 1 0.00
252 3 0.01
253 2 0.01
254 6 0.02
255 144 0.50
256 5 0.02
257 13 0.05
258 5 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (249 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCATGCGCTGAGCTATTTT
CAATTTCTGTTTTTTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
ACACACTGAGGTATCTTTTCAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGT
TGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAAATTCAAG
Found at i:112051070 original size:17 final size:17
Alignment explanation
Indices: 112051040--112051080 Score: 50
Period size: 19 Copynumber: 2.4 Consensus size: 17
112051030 CCCATTTATG
112051040 TAAA-AATTAATAA-TA
1 TAAACAATTAATAATTA
112051055 TAAACAATTCAATAATTTA
1 TAAACAATT-AATAA-TTA
112051074 TAAACAA
1 TAAACAA
112051081 CATGTATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 4 0.18
17 5 0.23
19 9 0.41
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAACAATTAATAATTA
Found at i:112055265 original size:6 final size:6
Alignment explanation
Indices: 112055254--112055293 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
112055244 TTCATCAGTT
112055254 TCCATC TCCATC TCCATC TCCATC TCCATC TCCATC TCCA
1 TCCATC TCCATC TCCATC TCCATC TCCATC TCCATC TCCA
112055294 AGTCCCAACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.17, C:0.50, G:0.00, T:0.33
Consensus pattern (6 bp):
TCCATC
Found at i:112066262 original size:16 final size:17
Alignment explanation
Indices: 112066241--112066278 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
112066231 AAAACAAATA
*
112066241 TTATTATATTAA-CCTT
1 TTATTATATTAATACTT
112066257 TTATTATATTAATACTT
1 TTATTATATTAATACTT
112066274 TTATT
1 TTATT
112066279 TAAAACTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTATATTAATACTT
Found at i:112072478 original size:67 final size:67
Alignment explanation
Indices: 112072365--112072503 Score: 260
Period size: 67 Copynumber: 2.1 Consensus size: 67
112072355 CGGTGAACTA
* *
112072365 ATATTTTTGAGCTCTTTATTTTAGTGTAAATTAGTGAATGTTCTAGATATGATAGATTCTGCTCT
1 ATATATTTGAGCTCTTTATTTTAGTGGAAATTAGTGAATGTTCTAGATATGATAGATTCTGCTCT
112072430 GC
66 GC
112072432 ATATATTTGAGCTCTTTATTTTAGTGGAAATTAGTGAATGTTCTAGATATGATAGATTCTGCTCT
1 ATATATTTGAGCTCTTTATTTTAGTGGAAATTAGTGAATGTTCTAGATATGATAGATTCTGCTCT
112072497 GC
66 GC
112072499 ATATA
1 ATATA
112072504 ATGTGTTAGT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (67 bp):
ATATATTTGAGCTCTTTATTTTAGTGGAAATTAGTGAATGTTCTAGATATGATAGATTCTGCTCT
GC
Found at i:112082861 original size:181 final size:181
Alignment explanation
Indices: 112082548--112082910 Score: 627
Period size: 181 Copynumber: 2.0 Consensus size: 181
112082538 ACCACATTCT
*
112082548 GACGAACATGGACCGGTTTTTATCAGTAGAAATGGATGAAATTTTCAACAAAACGACCAATTTGC
1 GACGAACATGGACCGGTTTTTATAAGTAGAAATGGATGAAATTTTCAACAAAACGACCAATTTGC
*
112082613 TCTTTGCTTTAATGTACAGGGACTAATTTGTCCATTTTTATAGAAAACGAAGCAAAATGCAATCC
66 TCTTTGCTTTAATGTACAGGGACTAATTTGTCCATTTTTATAGAAAACGAAGCAAAAAGCAATCC
112082678 AACTTCTAGTACAAGGGCCTCTATAGCACTTTTCCCCAAACGAACAATATA
131 AACTTCTAGTACAAGGGCCTCTATAGCACTTTTCCCCAAACGAACAATATA
* *
112082729 GACGTACATGGACCGGTTTTTATAAGTAGAAATGGATGAAATTTTCAACAAAATGACCAATTTGC
1 GACGAACATGGACCGGTTTTTATAAGTAGAAATGGATGAAATTTTCAACAAAACGACCAATTTGC
* * * * * *
112082794 TCTTTGCTTTAATGTATAGGGACTAGTTTGTCCATTTTTATAGTAAAGGGAGCAAAAAGCGATCC
66 TCTTTGCTTTAATGTACAGGGACTAATTTGTCCATTTTTATAGAAAACGAAGCAAAAAGCAATCC
*
112082859 AACTTCTAGTACAAGGGCCTCTATAGCACTTTTTCCCAAACGAACAATATA
131 AACTTCTAGTACAAGGGCCTCTATAGCACTTTTCCCCAAACGAACAATATA
112082910 G
1 G
112082911 TAAGCATTGG
Statistics
Matches: 171, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
181 171 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.30
Consensus pattern (181 bp):
GACGAACATGGACCGGTTTTTATAAGTAGAAATGGATGAAATTTTCAACAAAACGACCAATTTGC
TCTTTGCTTTAATGTACAGGGACTAATTTGTCCATTTTTATAGAAAACGAAGCAAAAAGCAATCC
AACTTCTAGTACAAGGGCCTCTATAGCACTTTTCCCCAAACGAACAATATA
Found at i:112085644 original size:23 final size:23
Alignment explanation
Indices: 112085588--112085657 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
112085578 TTATTAACAT
* **
112085588 TGTTCGTGAATATGTTCAATTATA
1 TGTTCGTGAACATGTTTGATTA-A
* *
112085612 TGTTCATGAACATGTTTGTTTAA
1 TGTTCGTGAACATGTTTGATTAA
112085635 TGTTCGTGAACATGTTTGATTAA
1 TGTTCGTGAACATGTTTGATTAA
112085658 GTTAAATGAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 22 0.56
24 17 0.44
ACGTcount: A:0.27, C:0.09, G:0.19, T:0.46
Consensus pattern (23 bp):
TGTTCGTGAACATGTTTGATTAA
Found at i:112085667 original size:23 final size:23
Alignment explanation
Indices: 112085606--112085673 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
112085596 AATATGTTCA
*
112085606 ATTATATGTTCATGAACATGTTTG
1 ATTA-ATGTTAATGAACATGTTTG
* **
112085630 TTTAATGTTCGTGAACATGTTTG
1 ATTAATGTTAATGAACATGTTTG
*
112085653 ATTAA-GTTAAATGAATATGTT
1 ATTAATGTT-AATGAACATGTT
112085674 CGTAAACATT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 3 0.08
23 31 0.84
24 3 0.08
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.46
Consensus pattern (23 bp):
ATTAATGTTAATGAACATGTTTG
Found at i:112086756 original size:43 final size:42
Alignment explanation
Indices: 112086696--112086777 Score: 155
Period size: 43 Copynumber: 1.9 Consensus size: 42
112086686 ACCTGTGCAT
112086696 ACTTACCCTTCTTTCAACAAAGAAAGGTATCACATTCACAAC
1 ACTTACCCTTCTTTCAACAAAGAAAGGTATCACATTCACAAC
112086738 ACTTACCCTTTCTTTCAACAAAGAAAGGTATCACATTCAC
1 ACTTACCC-TTCTTTCAACAAAGAAAGGTATCACATTCAC
112086778 GTACTTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
42 8 0.21
43 31 0.79
ACGTcount: A:0.37, C:0.28, G:0.07, T:0.28
Consensus pattern (42 bp):
ACTTACCCTTCTTTCAACAAAGAAAGGTATCACATTCACAAC
Found at i:112089022 original size:20 final size:18
Alignment explanation
Indices: 112088984--112089022 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
112088974 TAATAGAATC
*
112088984 AAATAGATGATGTCAAAA
1 AAATAGATGATGGCAAAA
112089002 AAATATGATGTATGGCAAAA
1 AAATA-GATG-ATGGCAAAA
112089022 A
1 A
112089023 GAAAATTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 4 0.22
20 9 0.50
ACGTcount: A:0.54, C:0.05, G:0.18, T:0.23
Consensus pattern (18 bp):
AAATAGATGATGGCAAAA
Found at i:112093903 original size:14 final size:14
Alignment explanation
Indices: 112093884--112093915 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
112093874 AAAAAATAAA
112093884 GAAACTAAATTCCT
1 GAAACTAAATTCCT
112093898 GAAACTAAATTCCT
1 GAAACTAAATTCCT
112093912 GAAA
1 GAAA
112093916 GCATGGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (14 bp):
GAAACTAAATTCCT
Found at i:112099242 original size:24 final size:24
Alignment explanation
Indices: 112099211--112099256 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
112099201 GCTTCATATT
112099211 TATATATATGCATGTAATTCATCA
1 TATATATATGCATGTAATTCATCA
* *
112099235 TATATATATGTATGTATTTCAT
1 TATATATATGCATGTAATTCAT
112099257 TGTTGAGTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (24 bp):
TATATATATGCATGTAATTCATCA
Found at i:112106530 original size:11 final size:11
Alignment explanation
Indices: 112106516--112106561 Score: 51
Period size: 10 Copynumber: 4.2 Consensus size: 11
112106506 TTTTTAATGG
112106516 TTTTTAATATA
1 TTTTTAATATA
112106527 TTTTT-ATGAATA
1 TTTTTAAT--ATA
112106539 TTTTTAAT-TA
1 TTTTTAATATA
*
112106549 TTTTTAATTTA
1 TTTTTAATATA
112106560 TT
1 TT
112106562 AATTTTAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 12 0.39
11 9 0.29
12 8 0.26
13 2 0.06
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (11 bp):
TTTTTAATATA
Found at i:112106553 original size:10 final size:10
Alignment explanation
Indices: 112106506--112106557 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
112106496 CTTATTCTAT
**
112106506 TTTTTAATGG
1 TTTTTAATTA
112106516 TTTTTAATATA
1 TTTTTAAT-TA
*
112106527 TTTTTATGAATA
1 TTTTTA--ATTA
112106539 TTTTTAATTA
1 TTTTTAATTA
112106549 TTTTTAATT
1 TTTTTAATT
112106558 TATTAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 20 0.57
11 6 0.17
12 8 0.23
13 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (10 bp):
TTTTTAATTA
Found at i:112110628 original size:34 final size:34
Alignment explanation
Indices: 112110590--112110657 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
112110580 AATGCATTTG
112110590 GATGTTCAGTAACTTCTTAACACTGCATAACAGT
1 GATGTTCAGTAACTTCTTAACACTGCATAACAGT
112110624 GATGTTCAGTAACTTCTTAACACTGCATAACAGT
1 GATGTTCAGTAACTTCTTAACACTGCATAACAGT
112110658 AATATATCAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (34 bp):
GATGTTCAGTAACTTCTTAACACTGCATAACAGT
Found at i:112110884 original size:28 final size:28
Alignment explanation
Indices: 112110846--112110903 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
112110836 CTGATATGAG
*
112110846 TTGCTTCCTTTGGCTCTAGTATGTATTT
1 TTGCTTCCTTTGGCTCTAGTATATATTT
112110874 TTGCTTCCTTTGGCTCTAGTATATATTT
1 TTGCTTCCTTTGGCTCTAGTATATATTT
112110902 TT
1 TT
112110904 TACTTTCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.12, C:0.17, G:0.16, T:0.55
Consensus pattern (28 bp):
TTGCTTCCTTTGGCTCTAGTATATATTT
Found at i:112116153 original size:25 final size:25
Alignment explanation
Indices: 112116106--112116153 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
112116096 CAACGAGATT
* *
112116106 AATTTTTAATAGTATAAATTAATGA
1 AATTTTTAATAGTAAAAACTAATGA
112116131 AATTTTTAATA-TAAAAAACTAAT
1 AATTTTTAATAGT-AAAAACTAAT
112116154 TTGCTCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.05
25 19 0.95
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (25 bp):
AATTTTTAATAGTAAAAACTAATGA
Found at i:112119720 original size:13 final size:12
Alignment explanation
Indices: 112119702--112119749 Score: 51
Period size: 13 Copynumber: 3.8 Consensus size: 12
112119692 TTAACAATAT
112119702 TTTTGAAAAGTGA
1 TTTTGAAAAGT-A
*
112119715 TTTTGAAAAATA
1 TTTTGAAAAGTA
*
112119727 TTGTAGAAAAGTA
1 TT-TTGAAAAGTA
112119740 TTTTTGAAAA
1 -TTTTGAAAA
112119750 ATTTGGTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 3 0.10
13 24 0.83
14 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (12 bp):
TTTTGAAAAGTA
Found at i:112119735 original size:26 final size:26
Alignment explanation
Indices: 112119697--112119751 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
112119687 CTAGTTTAAC
* *
112119697 AATATTTTTGAAAAGTGA-TTTTGAAA
1 AATATTGTAGAAAAGT-ATTTTTGAAA
112119723 AATATTGTAGAAAAGTATTTTTGAAA
1 AATATTGTAGAAAAGTATTTTTGAAA
112119749 AAT
1 AAT
112119752 TTGGTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (26 bp):
AATATTGTAGAAAAGTATTTTTGAAA
Found at i:112122154 original size:27 final size:27
Alignment explanation
Indices: 112122116--112122170 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
112122106 CCCTGATACG
112122116 GCTGCTGGGGATCCAAAGTCCAAGGAC
1 GCTGCTGGGGATCCAAAGTCCAAGGAC
112122143 GCTGCTGGGGATCCAAAGTCCAAGGAC
1 GCTGCTGGGGATCCAAAGTCCAAGGAC
112122170 G
1 G
112122171 AGACATCTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (27 bp):
GCTGCTGGGGATCCAAAGTCCAAGGAC
Found at i:112122982 original size:6 final size:6
Alignment explanation
Indices: 112122967--112123042 Score: 80
Period size: 6 Copynumber: 12.7 Consensus size: 6
112122957 AGGCACGTGA
* ** **
112122967 ACAGGC ACAGGA ACAGGC ACAGGC ACAGGC ACAACC ACAGGC ACAACC
1 ACAGGC ACAGGC ACAGGC ACAGGC ACAGGC ACAGGC ACAGGC ACAGGC
* **
112123015 ACAGGC ACAGGA ACAACC ACAGGC ACAG
1 ACAGGC ACAGGC ACAGGC ACAGGC ACAG
112123043 CAAGGGAAGG
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.41, C:0.34, G:0.25, T:0.00
Consensus pattern (6 bp):
ACAGGC
Found at i:112123168 original size:45 final size:45
Alignment explanation
Indices: 112123119--112123391 Score: 410
Period size: 45 Copynumber: 6.2 Consensus size: 45
112123109 AAATTAGAGG
112123119 AGCAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGA
1 AGCAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGA
112123164 AGCAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGA
1 AGCAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGA
*
112123209 AGCAAGAACGAAAAGAAAAGGAC---AAGAGAAAAGAGGATAAGA
1 AGCAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGA
* * * * *
112123251 ACCAAGAACGAAAAGAAATGGAGAAGAAGATAAACGAGGATGAGA
1 AGCAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGA
* * *
112123296 ACCAAGAACGAAAAGCAATGGACAAGAAGAGAAAAGAGGATGAGA
1 AGCAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGA
* * *
112123341 AGCAAGAACGAAAAGAAAAAGAGAAGAAGAGAATAGAGGATGAGA
1 AGCAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGA
112123386 AG-AAGA
1 AGCAAGA
112123392 GAGGAAAGCT
Statistics
Matches: 208, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
42 38 0.18
44 4 0.02
45 166 0.80
ACGTcount: A:0.59, C:0.07, G:0.30, T:0.04
Consensus pattern (45 bp):
AGCAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGA
Found at i:112123290 original size:132 final size:135
Alignment explanation
Indices: 112123121--112123386 Score: 421
Period size: 132 Copynumber: 2.0 Consensus size: 135
112123111 ATTAGAGGAG
*
112123121 CAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGAAGCAAGAACGAAAAGAAAAGGA
1 CAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGAACCAAGAACGAAAAGAAAAGGA
112123186 CAAGAAGAGAAAAGAGGATGAGAAGCAAGAACGAAAAG-AAAAG-G-ACAAGAGAAAAGAGGATA
66 CAAGAAGAGAAAAGAGGATGAGAAGCAAGAACGAAAAGAAAAAGAGAACAAGAGAAAAGAGGATA
112123248 AGAAC
131 AGAAC
* * * * * *
112123253 CAAGAACGAAAAGAAATGGAGAAGAAGATAAACGAGGATGAGAACCAAGAACGAAAAGCAATGGA
1 CAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGAACCAAGAACGAAAAGAAAAGGA
* * *
112123318 CAAGAAGAGAAAAGAGGATGAGAAGCAAGAACGAAAAGAAAAAGAGAAGAAGAGAATAGAGGATG
66 CAAGAAGAGAAAAGAGGATGAGAAGCAAGAACGAAAAGAAAAAGAGAACAAGAGAAAAGAGGATA
112123383 AGAA
131 AGAA
112123387 GAAGAGAGGA
Statistics
Matches: 121, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
132 96 0.79
133 5 0.04
134 1 0.01
135 19 0.16
ACGTcount: A:0.59, C:0.08, G:0.30, T:0.04
Consensus pattern (135 bp):
CAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGAACCAAGAACGAAAAGAAAAGGA
CAAGAAGAGAAAAGAGGATGAGAAGCAAGAACGAAAAGAAAAAGAGAACAAGAGAAAAGAGGATA
AGAAC
Found at i:112128070 original size:6 final size:6
Alignment explanation
Indices: 112128059--112128122 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
112128049 AGGCAGGTGA
** ** *
112128059 ACAGGC ACAGGC ACAACC ACAGGC ACAGGC ACAACC ACAGGC ACAGGA
1 ACAGGC ACAGGC ACAGGC ACAGGC ACAGGC ACAGGC ACAGGC ACAGGC
**
112128107 ACAACC ACAGGC ACAG
1 ACAGGC ACAGGC ACAG
112128123 CAAGGGAAGG
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.41, C:0.36, G:0.23, T:0.00
Consensus pattern (6 bp):
ACAGGC
Found at i:112128080 original size:18 final size:18
Alignment explanation
Indices: 112128059--112128122 Score: 119
Period size: 18 Copynumber: 3.6 Consensus size: 18
112128049 AGGCAGGTGA
112128059 ACAGGCACAGGCACAACC
1 ACAGGCACAGGCACAACC
112128077 ACAGGCACAGGCACAACC
1 ACAGGCACAGGCACAACC
*
112128095 ACAGGCACAGGAACAACC
1 ACAGGCACAGGCACAACC
112128113 ACAGGCACAG
1 ACAGGCACAG
112128123 CAAGGGAAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.41, C:0.36, G:0.23, T:0.00
Consensus pattern (18 bp):
ACAGGCACAGGCACAACC
Found at i:112128252 original size:45 final size:45
Alignment explanation
Indices: 112128201--112128345 Score: 215
Period size: 45 Copynumber: 3.3 Consensus size: 45
112128191 ATTAGAGGAG
*
112128201 CAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGAAG
1 CAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGAAC
*
112128246 CAAGAACGAAAAGAAAAGGAC---AAGAGAAAAGAGGATAAGAAC
1 CAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGAAC
* * * *
112128288 CAAGAACGAAAAGAAATGGAGAAGAAGATAAACGAGGATGAGAAC
1 CAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGAAC
112128333 CAAGAACGAAAAG
1 CAAGAACGAAAAG
112128346 CAATGGATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
42 38 0.42
45 52 0.58
ACGTcount: A:0.59, C:0.09, G:0.28, T:0.03
Consensus pattern (45 bp):
CAAGAACGAAAAGAAAAGGACAAGAAGAGAAAAGAGGATGAGAAC
Found at i:112128967 original size:25 final size:25
Alignment explanation
Indices: 112128939--112128990 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
112128929 CCTCTTCAAG
112128939 TCCCATGTCAATCCAACATCTTTCT
1 TCCCATGTCAATCCAACATCTTTCT
112128964 TCCCATGTCAATCCAACATCTTTCT
1 TCCCATGTCAATCCAACATCTTTCT
112128989 TC
1 TC
112128991 TTTCAACCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.37, G:0.04, T:0.37
Consensus pattern (25 bp):
TCCCATGTCAATCCAACATCTTTCT
Found at i:112131870 original size:26 final size:25
Alignment explanation
Indices: 112131812--112131873 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
112131802 TAACAATGCT
112131812 TTTGAAAAGTGATTTTGAAAAATAC
1 TTTGAAAAGTGATTTTGAAAAATAC
* * * *
112131837 TGTGGAAAAGTGCTTTTGAGAAGTATC
1 T-TTGAAAAGTGATTTTGAAAAATA-C
112131864 TTTGAAAAGT
1 TTTGAAAAGT
112131874 TTGGTTTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 1 0.03
26 27 0.90
27 2 0.07
ACGTcount: A:0.37, C:0.05, G:0.23, T:0.35
Consensus pattern (25 bp):
TTTGAAAAGTGATTTTGAAAAATAC
Found at i:112132165 original size:33 final size:33
Alignment explanation
Indices: 112132102--112132165 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
112132092 AAATATTAAT
* *
112132102 TATTTATAAATTTTAATTAAATTATATAAATTA
1 TATTTATAAATTTTAAATAAATCATATAAATTA
112132135 TATTT-TAAATATTTAAATATAATCAT-TAAAT
1 TATTTATAAAT-TTTAAATA-AATCATATAAAT
112132166 ATTTGTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 5 0.19
33 17 0.63
34 5 0.19
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (33 bp):
TATTTATAAATTTTAAATAAATCATATAAATTA
Found at i:112132360 original size:9 final size:9
Alignment explanation
Indices: 112132348--112132374 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
112132338 AAAGCTAAAA
112132348 ATTTAACTT
1 ATTTAACTT
112132357 ATTTAACTT
1 ATTTAACTT
112132366 ATTTAACTT
1 ATTTAACTT
112132375 TTACTTTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
ATTTAACTT
Found at i:112134129 original size:18 final size:19
Alignment explanation
Indices: 112134097--112134134 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
112134087 TATCTTAATT
*
112134097 TTATTTTTTCAAAATTTTA
1 TTATTTTTTCAAAATATTA
112134116 TTATTTTTTC-AAATATTA
1 TTATTTTTTCAAAATATTA
112134134 T
1 T
112134135 AGTAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATTTTTTCAAAATATTA
Found at i:112134149 original size:6 final size:6
Alignment explanation
Indices: 112134138--112134163 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
112134128 ATATTATAGT
112134138 AAAGAA AAAGAA AAAGAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA
112134164 TACGATAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:112134471 original size:20 final size:20
Alignment explanation
Indices: 112134446--112134486 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
112134436 AATATTTGAT
112134446 TGGCGTATTCAAGCAATTGC
1 TGGCGTATTCAAGCAATTGC
112134466 TGGCGTATTCAAGCAATTGC
1 TGGCGTATTCAAGCAATTGC
112134486 T
1 T
112134487 AATGTACGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (20 bp):
TGGCGTATTCAAGCAATTGC
Found at i:112134552 original size:12 final size:12
Alignment explanation
Indices: 112134535--112134587 Score: 54
Period size: 12 Copynumber: 4.4 Consensus size: 12
112134525 TTCAAAAAAA
112134535 CGTTGATAACAT
1 CGTTGATAACAT
*
112134547 CGTTGAGAACAT
1 CGTTGATAACAT
* *
112134559 CCATT-ATATCAT
1 -CGTTGATAACAT
*
112134571 CGATGATAACAT
1 CGTTGATAACAT
112134583 CGTTG
1 CGTTG
112134588 GCGACCTCAA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
11 2 0.06
12 26 0.84
13 3 0.10
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (12 bp):
CGTTGATAACAT
Found at i:112140898 original size:6 final size:6
Alignment explanation
Indices: 112140889--112140914 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
112140879 GAAAGAGAAA
112140889 AAGCAG AAGCAG AAGCAG AAGCAG AA
1 AAGCAG AAGCAG AAGCAG AAGCAG AA
112140915 ATTAGAGGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.31, T:0.00
Consensus pattern (6 bp):
AAGCAG
Found at i:112148097 original size:21 final size:21
Alignment explanation
Indices: 112148064--112148110 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
112148054 ACCTTCGTTG
* * *
112148064 TTTTCCTTTTCTTTCTTTCGC
1 TTTTTCTTGTCTTTCTTGCGC
*
112148085 TTTTTCTTGTCTTTCTTGCTC
1 TTTTTCTTGTCTTTCTTGCGC
112148106 TTTTT
1 TTTTT
112148111 TAGATCAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.06, T:0.70
Consensus pattern (21 bp):
TTTTTCTTGTCTTTCTTGCGC
Found at i:112156633 original size:12 final size:12
Alignment explanation
Indices: 112156616--112156642 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
112156606 AGTTTTCTAC
112156616 AGAACTAGCAAG
1 AGAACTAGCAAG
112156628 AGAACTAGCAAG
1 AGAACTAGCAAG
112156640 AGA
1 AGA
112156643 GGTGGCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.15, G:0.26, T:0.07
Consensus pattern (12 bp):
AGAACTAGCAAG
Found at i:112163493 original size:5 final size:5
Alignment explanation
Indices: 112163483--112163525 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
112163473 TTATGTGTGA
* *
112163483 AAAAT AAAAT AGAAT AAAAT AGAAT AAAAT -AAAT AAAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAA
112163526 GAACACATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 4 0.12
5 24 0.75
6 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:112163500 original size:10 final size:10
Alignment explanation
Indices: 112163485--112163520 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
112163475 ATGTGTGAAA
112163485 AATAAAATAG
1 AATAAAATAG
112163495 AATAAAATAG
1 AATAAAATAG
112163505 AATAAAATA-
1 AATAAAATAG
112163514 AATAAAA
1 AATAAAA
112163521 ATAAAGAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (10 bp):
AATAAAATAG
Found at i:112184231 original size:23 final size:23
Alignment explanation
Indices: 112184201--112184247 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
112184191 CTACGAATTT
112184201 TTAGTAAATTTCAAAATTCATAC
1 TTAGTAAATTTCAAAATTCATAC
112184224 TTAGTAAATTTCAAAATTCATAC
1 TTAGTAAATTTCAAAATTCATAC
112184247 T
1 T
112184248 ACATACCGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAGTAAATTTCAAAATTCATAC
Found at i:112184817 original size:18 final size:19
Alignment explanation
Indices: 112184779--112184819 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
112184769 TGGTTCATGT
112184779 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
112184798 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
112184816 TTTC
1 TTTC
112184820 TTATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:112185009 original size:39 final size:40
Alignment explanation
Indices: 112184966--112185077 Score: 102
Period size: 38 Copynumber: 2.8 Consensus size: 40
112184956 TCGGATAGTT
* *
112184966 CGAAGCAATATTTGACACCCAGTGTCTCATCG-GCCTAAC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAAC
* * ** ** * *
112185005 CGAAGTAA-AGTTGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAAC
*
112185044 CGAAGAAATATAGTGACACCCAGTGTCTCATCGA
1 CGAAGAAATAT-TTGACACCCAGTGTCTCATCGA
112185078 CTCGAGGTCG
Statistics
Matches: 54, Mismatches: 16, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
38 18 0.33
39 18 0.33
40 1 0.02
41 17 0.31
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (40 bp):
CGAAGAAATATTTGACACCCAGTGTCTCATCGAACCTAAC
Found at i:112185342 original size:18 final size:19
Alignment explanation
Indices: 112185316--112185354 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
112185306 TTTCAATTCA
112185316 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
112185335 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
112185353 AT
1 AT
112185355 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:112186680 original size:5 final size:5
Alignment explanation
Indices: 112186670--112186722 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
112186660 TTACTTATTT
* *
112186670 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
112186718 ATATA
1 ATATA
112186723 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:112186686 original size:12 final size:12
Alignment explanation
Indices: 112186669--112186724 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
112186659 TTTACTTATT
112186669 TATATAATATAA
1 TATATAATATAA
112186681 TATATAATATAATA
1 TATATAATAT-A-A
112186695 TACTATAATATAA
1 TA-TATAATATAA
*
112186708 TA-ATAATTTAA
1 TATATAATATAA
112186719 TATATA
1 TATATA
112186725 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:112190549 original size:19 final size:19
Alignment explanation
Indices: 112190503--112190550 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
112190493 GTATATATTT
112190503 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
112190521 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
112190540 TAAGTTTTATT
1 TAAATTTTATT
112190551 CATATTCTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:112190611 original size:43 final size:43
Alignment explanation
Indices: 112190564--112190656 Score: 161
Period size: 43 Copynumber: 2.2 Consensus size: 43
112190554 ATTCTAGAAA
112190564 TATTTT-TATTTTATCTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCT-TTTTATCTTTTAGTAGTTTATTAGAATAAGGGAAC
*
112190607 TATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAGGGAAC
1 TATTTTCTTTTTATCTTTTAGTAGTTTATTAGAATAAGGGAAC
112190650 TATTTTC
1 TATTTTC
112190657 CCAATTAGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 47 0.98
44 1 0.02
ACGTcount: A:0.28, C:0.05, G:0.14, T:0.53
Consensus pattern (43 bp):
TATTTTCTTTTTATCTTTTAGTAGTTTATTAGAATAAGGGAAC
Found at i:112195241 original size:18 final size:19
Alignment explanation
Indices: 112195220--112195259 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
112195210 GTATATATTT
112195220 TAAAT-TTATTTAGGTAGA
1 TAAATCTTATTTAGGTAGA
*
112195238 TAAATCTTATTTGGGTAGA
1 TAAATCTTATTTAGGTAGA
112195257 TAA
1 TAA
112195260 GTTTTATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (19 bp):
TAAATCTTATTTAGGTAGA
Found at i:112195266 original size:19 final size:19
Alignment explanation
Indices: 112195220--112195267 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
112195210 GTATATATTT
112195220 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
* *
112195238 TAAATCTTATTTGGGTAGA
1 TAAATTTTATTTAGGTAGA
*
112195257 TAAGTTTTATT
1 TAAATTTTATT
112195268 CATATTTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:112195328 original size:43 final size:43
Alignment explanation
Indices: 112195277--112195373 Score: 153
Period size: 43 Copynumber: 2.3 Consensus size: 43
112195267 TCATATTTTA
112195277 GAAA-TATTTT-TATTTTATCTTTTAGTAGTTTATTAGAATAAT
1 GAAACTATTTTCT-TTTTATCTTTTAGTAGTTTATTAGAATAAT
*
112195319 GAAACTATTTTCTTTTTATGTTTTAGTAGTTTATTAGAATAAT
1 GAAACTATTTTCTTTTTATCTTTTAGTAGTTTATTAGAATAAT
*
112195362 GGAACTATTTTC
1 GAAACTATTTTC
112195374 CCAATTAGGA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
42 4 0.08
43 46 0.90
44 1 0.02
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.53
Consensus pattern (43 bp):
GAAACTATTTTCTTTTTATCTTTTAGTAGTTTATTAGAATAAT
Found at i:112207007 original size:26 final size:26
Alignment explanation
Indices: 112206971--112207023 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
112206961 GTTGGACATG
*
112206971 AGTATGTATTAAACAGAACTGACTTA
1 AGTATGTATTAAACAGAACTAACTTA
112206997 AGTATGTATTAAACAGAACTAACTTA
1 AGTATGTATTAAACAGAACTAACTTA
112207023 A
1 A
112207024 TCGAATCAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.30
Consensus pattern (26 bp):
AGTATGTATTAAACAGAACTAACTTA
Found at i:112217191 original size:15 final size:15
Alignment explanation
Indices: 112217150--112217192 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
112217140 GGAATTTAAT
112217150 TAATAAAGAAAA-ATA
1 TAATAAA-AAAATATA
* *
112217165 AAATAAACAAATATA
1 TAATAAAAAAATATA
112217180 TAATAAAAAAATA
1 TAATAAAAAAATA
112217193 GAAATAGAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (15 bp):
TAATAAAAAAATATA
Found at i:112220710 original size:23 final size:24
Alignment explanation
Indices: 112220679--112220723 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
112220669 CTAATTAAAT
* *
112220679 TTTATAAATA-TTAATATTTATTG
1 TTTAAAAATATTTAAAATTTATTG
112220702 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATATTTAAAATTTAT
112220724 ATTTTATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTAAAAATATTTAAAATTTATTG
Found at i:112220729 original size:24 final size:23
Alignment explanation
Indices: 112220677--112220729 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
112220667 TTCTAATTAA
* *
112220677 ATTTTATAAATATTAATATTTAT
1 ATTTTAAAAATATTAAAATTTAT
112220700 -TGTTTAAAAATATTTAAAATTTAT
1 AT-TTTAAAAATA-TTAAAATTTAT
112220724 ATTTTA
1 ATTTTA
112220730 TATATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 1 0.04
23 9 0.36
24 14 0.56
25 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
ATTTTAAAAATATTAAAATTTAT
Found at i:112220936 original size:13 final size:13
Alignment explanation
Indices: 112220917--112220967 Score: 66
Period size: 13 Copynumber: 3.9 Consensus size: 13
112220907 TAAACCAAAT
112220917 TTTTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
112220930 TTCTCAAAAGCAT
1 TTTTCAAAAGCAC
* *
112220943 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
112220956 TTTTCAAAAGCA
1 TTTTCAAAAGCA
112220968 TTGCCAAACT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.31
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:112220954 original size:26 final size:26
Alignment explanation
Indices: 112220915--112220969 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
112220905 TTTAAACCAA
112220915 ATTTTTCAAAAGCACTTCTCAAAAGC
1 ATTTTTCAAAAGCACTTCTCAAAAGC
* * *
112220941 ATTTTTCCACAGCACTTTTCAAAAGC
1 ATTTTTCAAAAGCACTTCTCAAAAGC
112220967 ATT
1 ATT
112220970 GCCAAACTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.35
Consensus pattern (26 bp):
ATTTTTCAAAAGCACTTCTCAAAAGC
Found at i:112222023 original size:48 final size:48
Alignment explanation
Indices: 112221952--112222057 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
112221942 CAAGATAAAT
* * *
112221952 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
112222000 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
112222048 ATGTGTATAT
1 ATATGTATAT
112222058 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:112225291 original size:24 final size:24
Alignment explanation
Indices: 112225247--112225297 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
112225237 CTTAAATACT
* *
112225247 ATTTTATTTAAATTTATATTAATA
1 ATTTTATCTAAATTTAAATTAATA
*
112225271 ATTTTCATCTAAA-TTAAATTAGTA
1 ATTTT-ATCTAAATTTAAATTAATA
112225295 ATT
1 ATT
112225298 GCTTAACTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
ATTTTATCTAAATTTAAATTAATA
Found at i:112233649 original size:20 final size:21
Alignment explanation
Indices: 112233614--112233652 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
112233604 TCATAAAGTT
*
112233614 AAAATAATAACTCTTAATTTA
1 AAAATAATAACACTTAATTTA
112233635 AAAATAATAA-ACTTAATT
1 AAAATAATAACACTTAATT
112233653 ATCTAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATAATAACACTTAATTTA
Found at i:112235126 original size:27 final size:29
Alignment explanation
Indices: 112235081--112235144 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 29
112235071 ACAGAAACCC
* * *
112235081 AAAAACCATGACCATTATCAC-AG-CACA
1 AAAAACCAGGACAACTATCACAAGTCACA
* *
112235108 AAAAACCAGGACAACTATCCCAAGTCGCA
1 AAAAACCAGGACAACTATCACAAGTCACA
112235137 AAAAACCA
1 AAAAACCA
112235145 ATGGCCACAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 17 0.57
28 2 0.07
29 11 0.37
ACGTcount: A:0.50, C:0.30, G:0.09, T:0.11
Consensus pattern (29 bp):
AAAAACCAGGACAACTATCACAAGTCACA
Found at i:112236927 original size:35 final size:35
Alignment explanation
Indices: 112236888--112237129 Score: 162
Period size: 35 Copynumber: 7.0 Consensus size: 35
112236878 ATTTCAAGGA
* *
112236888 ACTTAGCTTTCAATGCATACTTCTACTTCTCAAAC
1 ACTTAGCCTTCAAGGCATACTTCTACTTCTCAAAC
* * * * *
112236923 ACTTAACCTACGAGACATACTTTCTA-TTCTTAAAC
1 ACTTAGCCTTCAAGGCATAC-TTCTACTTCTCAAAC
* * ****
112236958 AC--AGCCTTCAAGGCATAGTTC-ATTTTCTTTGGC
1 ACTTAGCCTTCAAGGCATACTTCTA-CTTCTCAAAC
* * *
112236991 ACTTAGCCTTTAAGGCAAACTTCGT-CTTCTCAAAT
1 ACTTAGCCTTCAAGGCATACTTC-TACTTCTCAAAC
* *
112237026 ACTTAGCCTTCAAGGCATGCTT-TGTCTTCT-AAGAC
1 ACTTAGCCTTCAAGGCATACTTCT-ACTTCTCAA-AC
* *
112237061 ACTTAGCCTTCAAGGCATACTTCGT-CTTCTTAGAC
1 ACTTAGCCTTCAAGGCATACTTC-TACTTCTCAAAC
* *
112237096 AC--AGCCTTCAATGCATACTTCAACTTCTCAAAC
1 ACTTAGCCTTCAAGGCATACTTCTACTTCTCAAAC
112237129 A
1 A
112237130 ACTAAACTTT
Statistics
Matches: 159, Mismatches: 34, Indels: 30
0.71 0.15 0.13
Matches are distributed among these distances:
31 1 0.01
32 3 0.02
33 47 0.30
34 2 0.01
35 99 0.62
36 6 0.04
37 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.11, T:0.34
Consensus pattern (35 bp):
ACTTAGCCTTCAAGGCATACTTCTACTTCTCAAAC
Found at i:112237089 original size:18 final size:18
Alignment explanation
Indices: 112237024--112237089 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
112237014 GTCTTCTCAA
*
112237024 ATACTTAGCCTTCAAGGC
1 ATACTTAGTCTTCAAGGC
* *
112237042 ATGCTTTGTCTTCTAA-G-
1 ATACTTAGTCTTC-AAGGC
* *
112237059 ACACTTAGCCTTCAAGGC
1 ATACTTAGTCTTCAAGGC
*
112237077 ATACTTCGTCTTC
1 ATACTTAGTCTTC
112237090 TTAGACACAG
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
16 2 0.06
17 10 0.29
18 21 0.60
19 2 0.06
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (18 bp):
ATACTTAGTCTTCAAGGC
Found at i:112254572 original size:20 final size:21
Alignment explanation
Indices: 112254535--112254592 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
112254525 CTTATCCCAT
*
112254535 CCCGGTTCAGTATTTTTAT-TG
1 CCCGGTTCAGT-TTTTTATGTA
*
112254556 CCCGCTTCAGTTTTTTATGTA
1 CCCGGTTCAGTTTTTTATGTA
*
112254577 TCCGGTTCAGTTTTTT
1 CCCGGTTCAGTTTTTT
112254593 GCGTGTTTGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.22
21 25 0.78
ACGTcount: A:0.12, C:0.21, G:0.17, T:0.50
Consensus pattern (21 bp):
CCCGGTTCAGTTTTTTATGTA
Found at i:112261916 original size:7 final size:7
Alignment explanation
Indices: 112261904--112261941 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
112261894 TTCAACCGAC
112261904 TTGCTAA
1 TTGCTAA
112261911 TTGCTAA
1 TTGCTAA
112261918 TTGCTAA
1 TTGCTAA
112261925 TTGCTAA
1 TTGCTAA
112261932 TTGCTAA
1 TTGCTAA
112261939 TTG
1 TTG
112261942 GAGAATTTCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (7 bp):
TTGCTAA
Found at i:112262353 original size:16 final size:15
Alignment explanation
Indices: 112262324--112262353 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
112262314 TTGGGGTTTT
112262324 TAAAAAATTTATATA
1 TAAAAAATTTATATA
112262339 TAAAAAATTTA-ATA
1 TAAAAAATTTATATA
112262353 T
1 T
112262354 GCACGGGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAAAAATTTATATA
Found at i:112277337 original size:31 final size:31
Alignment explanation
Indices: 112277299--112277364 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
112277289 CTTTTCCAAC
112277299 TTTCATCAGTAGAGGAGAGCACCTATACAAG
1 TTTCATCAGTAGAGGAGAGCACCTATACAAG
112277330 TTTCATCAGTAGAGGAGAGCACCTATACAAG
1 TTTCATCAGTAGAGGAGAGCACCTATACAAG
112277361 TTTC
1 TTTC
112277365 TTTCTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (31 bp):
TTTCATCAGTAGAGGAGAGCACCTATACAAG
Found at i:112281142 original size:37 final size:37
Alignment explanation
Indices: 112281101--112281179 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
112281091 TCAGAACTAG
** *
112281101 AATCAAAATGGGAATCAGAATCAGGTGACAGAATCAA
1 AATCAAAATCAGAATCAGAATCAGGTAACAGAATCAA
* *
112281138 AATCAGAATCAGAATCAGAATTAGGTAACAGAATCAA
1 AATCAAAATCAGAATCAGAATCAGGTAACAGAATCAA
112281175 AATCA
1 AATCA
112281180 GTATCAGGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.51, C:0.14, G:0.18, T:0.18
Consensus pattern (37 bp):
AATCAAAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:112281146 original size:12 final size:12
Alignment explanation
Indices: 112281090--112281270 Score: 95
Period size: 12 Copynumber: 14.7 Consensus size: 12
112281080 AAGAAACATT
112281090 ATCAGAA-CTAGA
1 ATCAGAATC-AGA
* **
112281102 ATCAAAATGGGA
1 ATCAGAATCAGA
112281114 ATCAGAATCAG-
1 ATCAGAATCAGA
* *
112281125 GTGACAGAATCAAA
1 AT--CAGAATCAGA
112281139 ATCAGAATCAGA
1 ATCAGAATCAGA
*
112281151 ATCAGAATTAGGTA
1 ATCAGAATCA-G-A
*
112281165 A-CAGAATCAAA
1 ATCAGAATCAGA
*
112281176 ATCAGTATCAGGTA
1 ATCAGAATCA-G-A
112281190 AT-AGAATCAGA
1 ATCAGAATCAGA
*
112281201 ATCAGAACCAGA
1 ATCAGAATCAGA
*
112281213 ATCAGAATTAGGTA
1 ATCAGAATCA-G-A
*
112281227 A-CATAATCAGA
1 ATCAGAATCAGA
* *
112281238 ATTAGTATCAGGTA
1 ATCAGAATCA-G-A
*
112281252 A-CAGAATCATA
1 ATCAGAATCAGA
112281263 ATCAGAAT
1 ATCAGAAT
112281271 GTGAATGCAA
Statistics
Matches: 126, Mismatches: 27, Indels: 32
0.68 0.15 0.17
Matches are distributed among these distances:
11 10 0.08
12 70 0.56
13 36 0.29
14 10 0.08
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (12 bp):
ATCAGAATCAGA
Found at i:112281180 original size:37 final size:37
Alignment explanation
Indices: 112281112--112281220 Score: 125
Period size: 37 Copynumber: 2.9 Consensus size: 37
112281102 ATCAAAATGG
*
112281112 GAATCAGAATCAGGTGACAGAATCAAAATCAGAATCA
1 GAATCAGAATCAGGTAACAGAATCAAAATCAGAATCA
* *
112281149 GAATCAGAATTAGGTAACAGAATCAAAATCAGTATCA
1 GAATCAGAATCAGGTAACAGAATCAAAATCAGAATCA
* *
112281186 GGTAAT-AGAATCA-G-AATCAGAACCAGAATCAGAAT
1 -G-AATCAGAATCAGGTAA-CAGAATCAAAATCAGAAT
112281221 TAGGTAACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
36 2 0.03
37 50 0.81
38 7 0.11
39 3 0.05
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.18
Consensus pattern (37 bp):
GAATCAGAATCAGGTAACAGAATCAAAATCAGAATCA
Found at i:112281188 original size:62 final size:62
Alignment explanation
Indices: 112281113--112281270 Score: 235
Period size: 62 Copynumber: 2.5 Consensus size: 62
112281103 TCAAAATGGG
* *
112281113 AATCAGAATCAGGTGACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAA
1 AATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAA
* * * * *
112281175 AATCAGTATCAGGTAATAGAATCAGAATCAGAACCAGAATCAGAATTAGGTAACATAATCAG
1 AATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAA
* *
112281237 AATTAGTATCAGGTAACAGAATCATAATCAGAAT
1 AATCAGTATCAGGTAACAGAATCAAAATCAGAAT
112281271 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 85 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (62 bp):
AATCAGTATCAGGTAACAGAATCAAAATCAGAATCAGAATCAGAATTAGGTAACAGAATCAA
Found at i:112281238 original size:25 final size:25
Alignment explanation
Indices: 112281112--112281270 Score: 100
Period size: 25 Copynumber: 6.4 Consensus size: 25
112281102 ATCAAAATGG
*
112281112 GAATCAGAATCAGGTGACAGAATCA
1 GAATCAGAATCAGGTAACAGAATCA
* *
112281137 AAATCAGAATCA-G-AATCAGAATTA
1 GAATCAGAATCAGGTAA-CAGAATCA
* *
112281161 GGTAA-CAGAATCA--AAATCAGTATCA
1 -G-AATCAGAATCAGGTAA-CAGAATCA
*
112281186 GGTAAT-AGAATCA-G-AATCAGAACCA
1 -G-AATCAGAATCAGGTAA-CAGAATCA
* *
112281211 GAATCAGAATTAGGTAACATAATCA
1 GAATCAGAATCAGGTAACAGAATCA
* *
112281236 GAATTAGTATCAGGTAACAGAATCA
1 GAATCAGAATCAGGTAACAGAATCA
*
112281261 TAATCAGAAT
1 GAATCAGAAT
112281271 GTGAATGCAA
Statistics
Matches: 107, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
23 4 0.04
24 15 0.14
25 84 0.79
26 4 0.04
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.21
Consensus pattern (25 bp):
GAATCAGAATCAGGTAACAGAATCA
Found at i:112281560 original size:27 final size:26
Alignment explanation
Indices: 112281512--112281563 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
112281502 GCGAGGCTGC
*
112281512 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
112281538 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
112281564 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:112281828 original size:27 final size:27
Alignment explanation
Indices: 112281798--112282257 Score: 553
Period size: 27 Copynumber: 17.1 Consensus size: 27
112281788 TAGCACCCTA
* * *
112281798 AGGGTAAAATGGTAATTTTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
** * *
112281825 AGGGTAAAATAGTAACTCTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
112281852 AGGGTAAAACAGTAATTCTAT-AATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
112281878 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* ** * * *
112281905 AGGATAAAATAGTAATTTTATGAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * * *
112281932 AGGGTAAAACGATAATTTTATAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
* ** *
112281959 AGGATAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
112281986 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
** *
112282013 AGGGTAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
112282040 AGGGTAAAACGGTAATTCTGTATATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
112282067 AGGGTAAAACAGTAATTCTGTAAATCA
1 AGGGTAAAACGGTAATTCTGTAAATCG
112282094 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* * *
112282121 AGGGTAAAATGATAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
** *
112282148 AGGGTAAAATAGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTCTGTAAATCG
* *
112282175 AGGGTAAAACGGTAATTTTATAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
112282202 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
*
112282229 AGGGTAAAACGATAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTCTGTAAATCG
112282256 AG
1 AG
112282258 TGTACTTTGA
Statistics
Matches: 372, Mismatches: 60, Indels: 2
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 0.06
27 348 0.94
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTCTGTAAATCG
Found at i:112282283 original size:27 final size:26
Alignment explanation
Indices: 112282253--112282386 Score: 101
Period size: 27 Copynumber: 5.0 Consensus size: 26
112282243 ATTCTGTAAA
*
112282253 TCGAGTGTACTTTGATAATTTTACAAG
1 TCGAGGGTA-TTTGATAATTTTACAAG
* *
112282280 TCGAGGGTATTTCAGTAATTTTACAGG
1 TCGAGGGTATTTGA-TAATTTTACAAG
* * *
112282307 TCGAGGGTATTTCTATAATTTCACAAA
1 TCGAGGGTATTT-GATAATTTTACAAG
*
112282334 TC-AGAGGTATTTTGGTAATTTTACAA-
1 TCGAG-GGTA-TTTGATAATTTTACAAG
* * *
112282360 ACTAGGGGTATTTTGGTAATTTTACAA
1 TCGA-GGGTA-TTTGATAATTTTACAA
112282387 ACCAGGGGTA
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
26 7 0.08
27 78 0.87
28 5 0.06
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (26 bp):
TCGAGGGTATTTGATAATTTTACAAG
Found at i:112282311 original size:54 final size:54
Alignment explanation
Indices: 112282253--112282358 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 54
112282243 ATTCTGTAAA
* * *
112282253 TCGAGTGTACTTT-GATAATTTTACAAGTC-GAGGGTATTTCAGTAATTTTACAGG
1 TCGAGGGTA-TTTCGATAATTTCACAAATCAGA-GGTATTTCAGTAATTTTACAGG
* **
112282307 TCGAGGGTATTTCTATAATTTCACAAATCAGAGGTATTTTGGTAATTTTACA
1 TCGAGGGTATTTCGATAATTTCACAAATCAGAGGTATTTCAGTAATTTTACA
112282359 AACTAGGGGT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
53 3 0.07
54 39 0.89
55 2 0.05
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (54 bp):
TCGAGGGTATTTCGATAATTTCACAAATCAGAGGTATTTCAGTAATTTTACAGG
Found at i:112282387 original size:27 final size:27
Alignment explanation
Indices: 112282322--112282407 Score: 129
Period size: 27 Copynumber: 3.2 Consensus size: 27
112282312 GGTATTTCTA
* *
112282322 TAATTTCACAAA-TCAGAGGTATTTTGG
1 TAATTTTACAAACT-AGGGGTATTTTGG
112282349 TAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTTACAAACTAGGGGTATTTTGG
*
112282376 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACTAGGGGTATTTTGG
112282403 TAATT
1 TAATT
112282408 CTATCCTACA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 54 0.98
28 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TAATTTTACAAACTAGGGGTATTTTGG
Found at i:112282426 original size:27 final size:27
Alignment explanation
Indices: 112282402--112282471 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
112282392 GGGTATTTTG
*
112282402 GTAATTCTATCCTACAAGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
*
112282429 GTAATTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAAGGGCATTTCA
* *
112282456 GTAATGCTAGCCTACA
1 GTAATTCTACCCTACA
112282472 GATATGAGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCATTTCA
Found at i:112282433 original size:54 final size:54
Alignment explanation
Indices: 112282322--112282434 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 54
112282312 GGTATTTCTA
* * * * **
112282322 TAATTTCACAAATCAGAGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 TAATTTCACAAACCAGAGGTATTTTGGTAATTCTACAAACTAAGGGCATTTCAG
* * **
112282376 TAATTTTACAAACCAGGGGTATTTTGGTAATTCTATCCTAC-AAGGGCATTTCAG
1 TAATTTCACAAACCAGAGGTATTTTGGTAATTCTA-CAAACTAAGGGCATTTCAG
112282430 TAATT
1 TAATT
112282435 CTACCCTACA
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 45 0.94
55 3 0.06
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (54 bp):
TAATTTCACAAACCAGAGGTATTTTGGTAATTCTACAAACTAAGGGCATTTCAG
Found at i:112283804 original size:26 final size:26
Alignment explanation
Indices: 112283775--112283882 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
112283765 TGGTACAAAT
*
112283775 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
112283801 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112283827 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112283853 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112283879 TGAT
1 TGAT
112283883 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112288528 original size:8 final size:8
Alignment explanation
Indices: 112288487--112288553 Score: 84
Period size: 8 Copynumber: 8.5 Consensus size: 8
112288477 CAATGATGTG
*
112288487 AATAATAA
1 AATATTAA
112288495 AATATATAA
1 AATAT-TAA
112288504 AATA-TAA
1 AATATTAA
112288511 AATA-TAA
1 AATATTAA
112288518 AATATTAA
1 AATATTAA
112288526 AATATTAA
1 AATATTAA
*
112288534 AATATCAA
1 AATATTAA
*
112288542 AATATTAG
1 AATATTAA
112288550 AATA
1 AATA
112288554 ATAATAATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
7 14 0.26
8 32 0.60
9 7 0.13
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:112288866 original size:27 final size:26
Alignment explanation
Indices: 112288791--112288866 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 26
112288781 CATGTAGAAA
*
112288791 AAAATATATATATAAATAATATAATAT
1 AAAATATATATAT-AATAATATAGTAT
* * *
112288818 TAAAGATATATA-AATAAAATAGTAT
1 AAAATATATATATAATAATATAGTAT
*
112288843 AAAATATATATATACGTAATATAG
1 AAAATATATATATA-ATAATATAG
112288867 AATTTAAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
25 21 0.54
26 1 0.03
27 17 0.44
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (26 bp):
AAAATATATATATAATAATATAGTAT
Found at i:112289458 original size:30 final size:30
Alignment explanation
Indices: 112289422--112289536 Score: 185
Period size: 30 Copynumber: 3.8 Consensus size: 30
112289412 TAGGTACAAG
* * *
112289422 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
112289452 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
* *
112289482 TGGTGGTGGAAAATGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
112289512 TGGTGGTGGAAAAAGAGTGGCTAGT
1 TGGTGGTGGAAAAAGAGTGGCTAGT
112289537 TGAGAAAAGT
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 78 1.00
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.26
Consensus pattern (30 bp):
TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:112289515 original size:60 final size:60
Alignment explanation
Indices: 112289422--112289536 Score: 212
Period size: 60 Copynumber: 1.9 Consensus size: 60
112289412 TAGGTACAAG
*
112289422 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
112289482 TGGTGGTGGAAAATGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
112289537 TGAGAAAAGT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.23, C:0.03, G:0.48, T:0.26
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:112290340 original size:14 final size:14
Alignment explanation
Indices: 112290323--112290351 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
112290313 GATTTTGACG
112290323 AACAGAAATTGAAA
1 AACAGAAATTGAAA
112290337 AACAGAAATTGAAA
1 AACAGAAATTGAAA
112290351 A
1 A
112290352 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:112290374 original size:88 final size:89
Alignment explanation
Indices: 112290107--112290425 Score: 358
Period size: 89 Copynumber: 3.6 Consensus size: 89
112290097 GTGATCCTGA
** * * * *
112290107 GCTCAACTCATTTCTCGCAATATGAATTGACTTTT-AAAAACTAGACATT-AAAAACAGAAATTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAAC-AGAAATTGAAAAACAGAAATTG
* * **
112290170 AAAAATAGCTCAGCACGTGAGCAAAG
65 -AAAATACCTCAGCATGTGAGCCGAG
* * ** **
112290196 GCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAATTTGCCAAACAGATTTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAGAAATTGAAAAACAGAAATTG
** *
112290260 AAAATACCTTGGCATGTGACCCGAG
65 AAAATACCTCAGCATGTGAGCCGAG
* *
112290285 GCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATTGA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAACAGAAATTGA
* *
112290349 AAAGACCTCAGCATGTAAGCCGAG
66 AAATACCTCAGCATGTGAGCCGAG
* *
112290373 GCTCAACTCACCTCTCGCGATATGAGTTGATCTTTGACAAACAGAAATTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
112290426 TTACTTCAGC
Statistics
Matches: 192, Mismatches: 33, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
87 6 0.03
88 68 0.35
89 99 0.52
90 18 0.09
91 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (89 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAAAACAGAAATTGA
AAATACCTCAGCATGTGAGCCGAG
Found at i:112290500 original size:14 final size:14
Alignment explanation
Indices: 112290481--112290515 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
112290471 GTTGATTTTT
112290481 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
112290495 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
112290509 TTGAAAA
1 TTGAAAA
112290516 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:112290587 original size:164 final size:163
Alignment explanation
Indices: 112290282--112291157 Score: 946
Period size: 164 Copynumber: 5.3 Consensus size: 163
112290272 CATGTGACCC
* *
112290282 GAGGCTCAACTCACCTCTCGTAATATGAGTTGA---TTTTGACGAA-CAGAAATTGAAAAACAGA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAAGCAGAAATTG-AAAACAGA
* *
112290343 AATTGAAAAGACCTCAGCATGTAAG-CC-GAGGCTCAACTCACCTCTCGCGATATGAGTTGA--T
64 AATTGAAAATACCTCAGC--GT--GCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* * *
112290404 CTTTGACAAACAGAAATTGAAATTACTTCAGCGTGCCCT
125 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCT
112290443 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAGCAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAA-CAGAA
* *
112290508 ATTGAAAATACCTCAGCGTGCCCTGAGGCTCATCTCACCTCTCGCAATATGAGCTGATTTTTTTG
65 ATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
112290573 AAAAACATAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCT
130 ----AC------------AAACAGAAATTGAAATTACCTCAGCGTGTCCT
112290623 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG-AAAGACAGAAATTGAAAAACAG
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAG-CAGAAATTG-AAAACAG
* * * * *
112290687 AAATTGAAAAGACCTCAACATGTGAGCC-GAGGCTCAACTCACCTCTCACTATATGAGTTGA--T
63 AAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
* *
112290749 TTTTGACAAACAAAAACTGAAATTACCTCAGCGTGTCCT
125 TTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCT
* * * *
112290788 GAGGCTCAACTCAGCTCTCACAATATGAGTTGATTTTTTTGAAGAGCAGAAATTGAAAATAGAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAACAGAAA
* * * *
112290853 TCGACAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTTG
66 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG
*
112290918 ACAAACATAAATTGAAATTACCTCAGCGTGTCCT
130 ACAAACAGAAATTGAAATTACCTCAGCGTGTCCT
*
112290952 GAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAGCAGAAATT-------GAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAACAGAAA
* *
112291010 -T-----TACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG
66 TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG
* *
112291069 A-AAAGCAGAAATTGAAAATACCTTAGCGTG-CCTT
130 ACAAA-CAGAAATTGAAATTACCTCAGCGTGTCC-T
* * *
112291103 GAGGCTCAACTCACCTCTCGCAATATGAGCTGA--TTTTTGAAAAACATAAATTGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAA
112291158 GAAAATAGAA
Statistics
Matches: 625, Mismatches: 49, Indels: 91
0.82 0.06 0.12
Matches are distributed among these distances:
149 17 0.03
150 5 0.01
151 109 0.17
157 4 0.01
160 3 0.00
161 68 0.11
162 32 0.05
163 27 0.04
164 146 0.23
165 63 0.10
168 2 0.00
177 2 0.00
180 66 0.11
181 43 0.07
182 4 0.01
183 32 0.05
184 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.28
Consensus pattern (163 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAACAGAAA
TTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
CAAACAGAAATTGAAATTACCTCAGCGTGTCCT
Found at i:112290595 original size:16 final size:16
Alignment explanation
Indices: 112290574--112290604 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
112290564 ATTTTTTTGA
*
112290574 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
112290590 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
112290605 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:112290636 original size:91 final size:89
Alignment explanation
Indices: 112290406--112290752 Score: 471
Period size: 89 Copynumber: 3.8 Consensus size: 89
112290396 GAGTTGATCT
* * * *
112290406 TTGACAAACAGAAATTGAAATTACTTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
112290471 GTTGATTTTTTTGAAAAGCAGAAA
66 GTTGATTTTTTTGAAAAACAGAAA
* * *
112290495 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCATCTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
112290560 GCTGATTTTTTTGAAAAACATAAA
66 GTTGATTTTTTTGAAAAACAGAAA
* *
112290584 TTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTG-A-AAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATAT
*
112290649 GAGTTGATTTTTTTTGAAAGACAGAAA
64 GAGTTGA-TTTTTTTGAAAAACAGAAA
* * * * *
112290676 TTGAAAAACAGAAATTGAAAAGACCTCAACATGTGAGCC-GAGGCTCAACTCACCTCTCACTATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCA--TG-CCCTGAGGCTCAACTCACCTCTCGCAATA
112290740 TGAGTTGATTTTT
63 TGAGTTGATTTTT
112290753 GACAAACAAA
Statistics
Matches: 230, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
89 84 0.37
90 25 0.11
91 66 0.29
92 53 0.23
93 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (89 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAAACAGAAA
Found at i:112290681 original size:14 final size:14
Alignment explanation
Indices: 112290662--112290696 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
112290652 TTGATTTTTT
*
112290662 TTGAAAGACAGAAA
1 TTGAAAAACAGAAA
112290676 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
112290690 TTGAAAA
1 TTGAAAA
112290697 GACCTCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:112290797 original size:165 final size:164
Alignment explanation
Indices: 112290591--112291140 Score: 640
Period size: 151 Copynumber: 3.4 Consensus size: 164
112290581 AAATTGAAGA
* *
112290591 AAACAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* *
112290656 TTTTTTTTGAAAGA-CAGAAATTGAAAAACAGAAATTGAAAAGACCTCAACATGTGAGCC-GAGG
66 -TTTTTTTGAAAGAGCAGAAATTGAAAAACAGAAATCGAAAAGACCTCAAC--GTG-CCCTGAGG
*
112290719 CTCAACTCACCTCTCACTATATGAGTTGA-TTTTTGAC
127 CTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAC
* * *
112290756 AAACAAAAACTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAGCTCTCACAATATGAGTTGA
1 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
112290821 TTTTTTTG-AAGAGCAGAAATTG-AAAATAGAAATCGACAATACCTCAGCGTGCCCTGAGGCTCA
66 TTTTTTTGAAAGAGCAGAAATTGAAAAACAGAAATCGAAAAGACCTCAACGTGCCCTGAGGCTCA
*
112290884 ACTCACCTTTCACAATATGAGTTGATTTTTTTTGAC
131 ACTCACCTCTCACAATATGAGTTGA--TTTTTTGAC
* *
112290920 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA
1 AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
* * * *
112290985 TTTTTTTGAAA-AGCAGAAATT--------GAAAT------TACCTCAGCATGTCCTGAGGCTCA
66 TTTTTTTGAAAGAGCAGAAATTGAAAAACAGAAATCGAAAAGACCTCAACGTGCCCTGAGGCTCA
*
112291035 ACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA-
131 ACTCACCTCTCACAATATGAGTTGA--TTTTTTGAC
* * * *
112291070 AAAGCAGAAATTGAAAATACCTTAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGCT
1 AAA-CAAAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTT
112291134 GATTTTT
64 GATTTTT
112291141 GAAAAACATA
Statistics
Matches: 350, Mismatches: 27, Indels: 30
0.86 0.07 0.07
Matches are distributed among these distances:
150 5 0.01
151 114 0.33
157 5 0.01
160 2 0.01
161 34 0.10
163 25 0.07
164 103 0.29
165 62 0.18
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (164 bp):
AAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTGAAAGAGCAGAAATTGAAAAACAGAAATCGAAAAGACCTCAACGTGCCCTGAGGCTCA
ACTCACCTCTCACAATATGAGTTGATTTTTTGAC
Found at i:112291030 original size:75 final size:76
Alignment explanation
Indices: 112290860--112291140 Score: 442
Period size: 76 Copynumber: 3.7 Consensus size: 76
112290850 AAATCGACAA
* * *
112290860 TACCTCAGCGTGCCCTGAGGCTCAACTCACCTTTCACAATATGAGTTGATTTTTTTTGACAAA-C
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA-AAAGC
*
112290924 ATAAATTGAAAT
65 AGAAATTGAAAT
*
112290936 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTTTGAAAAGCA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCA
112291000 GAAATTGAAAT
66 GAAATTGAAAT
*
112291011 TACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCA
1 TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCA
*
112291076 GAAATTGAAAA
66 GAAATTGAAAT
* *
112291087 TACCTTAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 TACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
112291141 GAAAAACATA
Statistics
Matches: 191, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
74 3 0.02
75 70 0.37
76 118 0.62
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (76 bp):
TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAGCA
GAAATTGAAAT
Found at i:112292720 original size:28 final size:28
Alignment explanation
Indices: 112292684--112292742 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
112292674 TAGAGGTATA
112292684 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
112292712 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
112292740 TCG
1 TCG
112292743 TGATCTACGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.17, C:0.12, G:0.25, T:0.46
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:112293393 original size:27 final size:27
Alignment explanation
Indices: 112293363--112293424 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
112293353 GGGCAAAATG
112293363 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
112293390 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
112293417 GTAATTTT
1 GTAATTTT
112293425 TCAAACCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:112293438 original size:54 final size:54
Alignment explanation
Indices: 112293380--112293530 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
112293370 TACCCCACAA
** * * *
112293380 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** *
112293434 GGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
112293488 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
112293531 CTGTAAATTG
Statistics
Matches: 85, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.02
54 83 0.98
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:112293496 original size:81 final size:81
Alignment explanation
Indices: 112293378--112293530 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 81
112293368 TTTACCCCAC
** *
112293378 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
112293442 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
112293459 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
112293523 TGGTAATT
65 TGGTAATT
112293531 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 61 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:112293537 original size:27 final size:27
Alignment explanation
Indices: 112293407--112293530 Score: 169
Period size: 27 Copynumber: 4.6 Consensus size: 27
112293397 TACCCTACAG
* *
112293407 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
*
112293434 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
112293461 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
112293488 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
112293515 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
112293531 CTGTAAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 83 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:112293544 original size:27 final size:27
Alignment explanation
Indices: 112293514--112293584 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
112293504 TTATAAACCA
* *
112293514 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
112293541 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
112293568 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
112293585 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:112293546 original size:54 final size:54
Alignment explanation
Indices: 112293407--112293530 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
112293397 TACCCTACAG
* *
112293407 GGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
112293461 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
112293515 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
112293531 CTGTAAATTG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:112293556 original size:81 final size:81
Alignment explanation
Indices: 112293404--112293557 Score: 175
Period size: 81 Copynumber: 1.9 Consensus size: 81
112293394 TTTTACCCTA
* * ***
112293404 CAGGGGTATTTTAGTAATTTTTCAAACCATGGGTATTTTGGTAATTTTATAAACAAAGGGTATTT
1 CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
*
112293469 TAGTAATTTTACAAAC
66 CAGTAATTTTACAAAC
* * * ***
112293485 CAGGGGTATTTTGGTGATTTTAT-AAACCAAGGGTATTTTGGTAATTCTGTAAATTGAGGGTAAA
1 CAGGGGTATTTTAGTAATTTT-TCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAA
*
112293549 ACGGTAATT
65 ACAGTAATT
112293558 CTGTAAATCG
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
81 58 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
CAGGGGTATTTTAGTAATTTTTCAAACCAAGGGTATTTTGGTAATTCTATAAACAAAGGGTAAAA
CAGTAATTTTACAAAC
Found at i:112300111 original size:13 final size:12
Alignment explanation
Indices: 112300093--112300137 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
112300083 TGCATTAAAA
112300093 AATATATATACAT
1 AATATATATA-AT
112300106 AATATATATAA-
1 AATATATATAAT
*
112300117 AATACATATAAT
1 AATATATATAAT
112300129 -ATATATATA
1 AATATATATA
112300138 CGTATTAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 18 0.62
12 1 0.03
13 10 0.34
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATATATAAT
Found at i:112300868 original size:10 final size:10
Alignment explanation
Indices: 112300837--112300871 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
112300827 ATATAAAAAG
112300837 AAAGAAAGAA
1 AAAGAAAGAA
* *
112300847 AAAAAAACAA
1 AAAGAAAGAA
112300857 AAAGAAAGAA
1 AAAGAAAGAA
112300867 AAAGA
1 AAAGA
112300872 TTCGAAAGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Done.