Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 126 of 332
Found at i:41071239 original size:14 final size:14
Alignment explanation
Indices: 41071220--41071247 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
41071210 CAGGCTTCAT
41071220 GCCGGTGATGTGTA
1 GCCGGTGATGTGTA
41071234 GCCGGTGATGTGTA
1 GCCGGTGATGTGTA
41071248 TTCGGGCCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.14, G:0.43, T:0.29
Consensus pattern (14 bp):
GCCGGTGATGTGTA
Found at i:41071266 original size:57 final size:57
Alignment explanation
Indices: 41071177--41071290 Score: 192
Period size: 57 Copynumber: 2.0 Consensus size: 57
41071167 CAGGCTTCGT
* *
41071177 GCCGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA
1 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCATGCCGGTGATGTGTA
* *
41071234 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCTGGTGATGTGTA
1 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCATGCCGGTGATGTGTA
41071291 TTCGGGCCTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.12, C:0.21, G:0.35, T:0.32
Consensus pattern (57 bp):
GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCATGCCGGTGATGTGTA
Found at i:41071298 original size:43 final size:43
Alignment explanation
Indices: 41071237--41071401 Score: 294
Period size: 43 Copynumber: 3.8 Consensus size: 43
41071227 ATGTGTAGCC
*
41071237 GGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCT
1 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCT
* *
41071280 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCC
1 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCT
*
41071323 GGTGATGTGTATTCGGGCCTTCGTGTCTAGCAGGCTTCGTGCT
1 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCT
41071366 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCT
1 GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCT
41071402 ATAGTACCGG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 115 1.00
ACGTcount: A:0.11, C:0.23, G:0.34, T:0.32
Consensus pattern (43 bp):
GGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCT
Found at i:41071307 original size:100 final size:100
Alignment explanation
Indices: 41071134--41071333 Score: 373
Period size: 100 Copynumber: 2.0 Consensus size: 100
41071124 CAGGCTTCGT
*
41071134 GCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCC
1 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCC
*
41071199 TTTGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA
66 TTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA
*
41071234 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCC
1 GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCC
41071299 TTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA
66 TTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA
41071334 TTCGGGCCTT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.31
Consensus pattern (100 bp):
GCCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCC
TTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTA
Found at i:41071353 original size:143 final size:143
Alignment explanation
Indices: 41071095--41071376 Score: 492
Period size: 143 Copynumber: 2.0 Consensus size: 143
41071085 CTTCGTGCCA
*
41071095 GTGATGTGTATTAGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCG
1 GTGATGTGTATTAGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCG
* *
41071160 TGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGCCGG
66 TGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG
41071225 TGATGTGTAGCCG
131 TGATGTGTAGCCG
* *
41071238 GTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCTTCG
1 GTGATGTGTATTAGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCG
* * *
41071303 TGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGTCTAGCAGGCTTCGTGCTGG
66 TGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG
41071368 TGATGTGTA
131 TGATGTGTA
41071377 TTCGGGCCTT
Statistics
Matches: 131, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
143 131 1.00
ACGTcount: A:0.11, C:0.22, G:0.34, T:0.32
Consensus pattern (143 bp):
GTGATGTGTATTAGGGCCTTCGTACCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCG
TGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGG
TGATGTGTAGCCG
Found at i:41071363 original size:186 final size:186
Alignment explanation
Indices: 41071049--41071401 Score: 625
Period size: 186 Copynumber: 1.9 Consensus size: 186
41071039 AGGCTTCGTA
*
41071049 CCGGTGATGTGCATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTGTATTAGGGCCT
1 CCGGTGATGTGCATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCAGTGATGTGTATTAGGGCCT
*
41071114 TCGTGCCTAGCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
66 TCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
41071179 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCATGCCGGTGATGTGTAG
131 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTAG
* ** *
41071235 CCGGTGATGTGTATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCT
1 CCGGTGATGTGCATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCAGTGATGTGTATTAGGGCCT
*
41071300 TCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGTCTAGCAGGCTTCGTGC
66 TCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
41071365 TGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCT
131 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCT
41071402 ATAGTACCGG
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
186 158 1.00
ACGTcount: A:0.11, C:0.24, G:0.34, T:0.31
Consensus pattern (186 bp):
CCGGTGATGTGCATTCGGGCCTTCGTACCTAGCAGGCTTCGTGCCAGTGATGTGTATTAGGGCCT
TCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCATGCCGGTGATGTGTAG
Found at i:41071439 original size:86 final size:86
Alignment explanation
Indices: 41071235--41071442 Score: 280
Period size: 86 Copynumber: 2.4 Consensus size: 86
41071225 TGATGTGTAG
**
41071235 CCGGTGATGTGTATTCGGGCCTTCGTA-CCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCC
1 CCGGTGAAATGTATTCGGGCCTTCG-AGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCC
*
41071299 TTCGTGCCTAGCAGGCTTCATG
65 TTCGTGCCTAGCAGGCTTCATA
** * *
41071321 CCGGTGATGTGTATTCGGGCCTTCGTGTCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCT
1 CCGGTGAAATGTATTCGGGCCTTCGAGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCT
41071386 TCGTGCCTAGCAGGCTAT-AGTA
66 TCGTGCCTAGCAGGCT-TCA-TA
*
41071408 CCGGTGAAATG-ATATCGGGGC-TCGAGCCTAGCAGG
1 CCGGTGAAATGTAT-TCGGGCCTTCGAGCCTAGCAGG
41071443 TGAGAAAAGC
Statistics
Matches: 110, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
86 93 0.85
87 17 0.15
ACGTcount: A:0.14, C:0.23, G:0.34, T:0.29
Consensus pattern (86 bp):
CCGGTGAAATGTATTCGGGCCTTCGAGCCTAGCAGGCTTCGTGCTGGTGATGTGTATTCGGGCCT
TCGTGCCTAGCAGGCTTCATA
Found at i:41075988 original size:46 final size:46
Alignment explanation
Indices: 41075938--41076113 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
41075928 TGTTTGGGCA
*
41075938 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*** * * ** *
41075984 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
41076031 TCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
41076077 CCCGAGCTCATTGATTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
41076114 GCGAGTTACA
Statistics
Matches: 103, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
46 69 0.67
47 34 0.33
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:41076096 original size:93 final size:93
Alignment explanation
Indices: 41075934--41076105 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
41075924 AGGATGTTTG
* * *
41075934 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
41075999 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
41076027 GGCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
41076092 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
41076106 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:41080490 original size:31 final size:31
Alignment explanation
Indices: 41080455--41080518 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
41080445 GGTAAGCTCA
41080455 TAGTGTTTCAATACATAAATAAATTTCTACT
1 TAGTGTTTCAATACATAAATAAATTTCTACT
41080486 TAGTGTTTCAATACATAAATAAATTTCTACT
1 TAGTGTTTCAATACATAAATAAATTTCTACT
41080517 TA
1 TA
41080519 CATTTGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (31 bp):
TAGTGTTTCAATACATAAATAAATTTCTACT
Found at i:41080618 original size:40 final size:40
Alignment explanation
Indices: 41080556--41080642 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
41080546 TTATTGAATT
* * * *
41080556 ATTGCACTTACGTGCCAGTGTTTGTATTTTGGAACCCCTG
1 ATTGCACTTACATGCCACTGTTTGTACTTCGGAACCCCTG
* *
41080596 ATTGCACTTACATGCCTCTGTTTGTACTTCGGTACCCCTG
1 ATTGCACTTACATGCCACTGTTTGTACTTCGGAACCCCTG
*
41080636 AATGCAC
1 ATTGCAC
41080643 ATCTGTGCCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (40 bp):
ATTGCACTTACATGCCACTGTTTGTACTTCGGAACCCCTG
Found at i:41084264 original size:26 final size:26
Alignment explanation
Indices: 41084234--41084296 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 26
41084224 TATTTTTTAT
*
41084234 TTTTTTATTTTTTATTATTCTTACTAG
1 TTTTTCATTTTTT-TTATTCTTACTAG
* * **
41084261 TTTTTCATTATTTTTATTGTTTTTAG
1 TTTTTCATTTTTTTTATTCTTACTAG
41084287 TTTTTCATTT
1 TTTTTCATTT
41084297 CATTTCTTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.16, C:0.06, G:0.05, T:0.73
Consensus pattern (26 bp):
TTTTTCATTTTTTTTATTCTTACTAG
Found at i:41084276 original size:29 final size:28
Alignment explanation
Indices: 41084242--41084310 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
41084232 ATTTTTTTAT
41084242 TTTTTATTATTCTTACTAGTTTTTCA-TT-A
1 TTTTTATTATT-TT--TAGTTTTTCATTTCA
*
41084271 TTTTTATTGTTTTTAGTTTTTCATTTCA
1 TTTTTATTATTTTTAGTTTTTCATTTCA
41084299 TTTCTTATTATT
1 TTT-TTATTATT
41084311 ATTTTTCTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 10 0.29
27 2 0.06
28 6 0.17
29 17 0.49
ACGTcount: A:0.17, C:0.09, G:0.04, T:0.70
Consensus pattern (28 bp):
TTTTTATTATTTTTAGTTTTTCATTTCA
Found at i:41084326 original size:16 final size:15
Alignment explanation
Indices: 41084299--41084330 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
41084289 TTTCATTTCA
41084299 TTTCTTATTATTATT
1 TTTCTTATTATTATT
41084314 TTTCTTCATTATTATT
1 TTTCTT-ATTATTATT
41084330 T
1 T
41084331 CTTAGTAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTCTTATTATTATT
Found at i:41085031 original size:10 final size:10
Alignment explanation
Indices: 41085016--41085072 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
41085006 AACTCCAATC
41085016 AGCTCAATTG
1 AGCTCAATTG
*
41085026 AGCTCAATTT
1 AGCTCAATTG
*
41085036 AGCTCACTTG
1 AGCTCAATTG
*
41085046 AGCTCGAATTT
1 AGCTC-AATTG
* *
41085057 AGCTCATTTC
1 AGCTCAATTG
41085067 AGCTCA
1 AGCTCA
41085073 TTTCTTCTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 31 0.79
11 8 0.21
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (10 bp):
AGCTCAATTG
Found at i:41085057 original size:21 final size:20
Alignment explanation
Indices: 41085016--41085072 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
41085006 AACTCCAATC
41085016 AGCTCAATTGAGCTCAATTT
1 AGCTCAATTGAGCTCAATTT
*
41085036 AGCTCACTTGAGCTCGAATTT
1 AGCTCAATTGAGCTC-AATTT
* *
41085057 AGCTCATTTCAGCTCA
1 AGCTCAATTGAGCTCA
41085073 TTTCTTCTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (20 bp):
AGCTCAATTGAGCTCAATTT
Found at i:41085303 original size:13 final size:13
Alignment explanation
Indices: 41085285--41085319 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
41085275 ATTATATGAA
*
41085285 TAATTATTTTATT
1 TAATTATGTTATT
41085298 TAATTATGTTATT
1 TAATTATGTTATT
41085311 TAATTATGT
1 TAATTATGT
41085320 AGGTTAGTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (13 bp):
TAATTATGTTATT
Found at i:41087374 original size:6 final size:6
Alignment explanation
Indices: 41087336--41087420 Score: 75
Period size: 6 Copynumber: 13.5 Consensus size: 6
41087326 GGATCATTAA
* * *
41087336 TTTTAT TTTT-T TCTTTAT TTTATTT TATTTAT GTTTAT GTTTAT TTTTAT
1 TTTTAT TTTTAT T-TTTAT TTT-TAT T-TTTAT TTTTAT TTTTAT TTTTAT
41087386 TTTTAT TTTTAGT TGTTT-T GTTTTAT TTTTAT TTT
1 TTTTAT TTTTA-T T-TTTAT -TTTTAT TTTTAT TTT
41087421 CTTATACTTC
Statistics
Matches: 67, Mismatches: 4, Indels: 16
0.77 0.05 0.18
Matches are distributed among these distances:
5 2 0.03
6 49 0.73
7 11 0.16
8 5 0.07
ACGTcount: A:0.14, C:0.01, G:0.06, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:41087385 original size:32 final size:31
Alignment explanation
Indices: 41087349--41087420 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 31
41087339 TATTTTTTTC
*
41087349 TTTATTTTATTTTATTTA-TGTTTATG-TTTATT
1 TTTATTTT-TATT-TTTAGTGTTT-TGTTTTATT
41087381 TTTATTTTTATTTTTAGTTGTTTTGTTTTATT
1 TTTATTTTTATTTTTAG-TGTTTTGTTTTATT
41087413 TTTATTTT
1 TTTATTTT
41087421 CTTATACTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
30 4 0.11
31 5 0.14
32 27 0.75
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (31 bp):
TTTATTTTTATTTTTAGTGTTTTGTTTTATT
Found at i:41107903 original size:21 final size:19
Alignment explanation
Indices: 41107871--41107909 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
41107861 AGGACAAGGT
41107871 TTATAGGCTGAAGAAGGCC
1 TTATAGGCTGAAGAAGGCC
*
41107890 TTATATGGCCTGAAGCAGGC
1 TTATA-GG-CTGAAGAAGGC
41107910 ACCAAGAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 2 0.12
21 10 0.59
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.23
Consensus pattern (19 bp):
TTATAGGCTGAAGAAGGCC
Found at i:41115914 original size:14 final size:14
Alignment explanation
Indices: 41115876--41115915 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
41115866 CTTACCTAAT
* *
41115876 TGTGCAAGTTATGA
1 TGTGCAAGTTGTAA
*
41115890 TTTGCAAGTTGTAA
1 TGTGCAAGTTGTAA
41115904 TGTGCAAGTTGT
1 TGTGCAAGTTGT
41115916 GCAAGTTGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (14 bp):
TGTGCAAGTTGTAA
Found at i:41131149 original size:37 final size:37
Alignment explanation
Indices: 41131098--41131215 Score: 191
Period size: 37 Copynumber: 3.2 Consensus size: 37
41131088 GGCGAGACCT
* *
41131098 TTACCTCAGACAAAATCTCCACACGAAGTTATCGGGTC
1 TTACC-CAGACAAAATCTCCACACGTAGTCATCGGGTC
41131136 TTACCCAGACAAAATCTCCACACGTAGTCATCGGGTC
1 TTACCCAGACAAAATCTCCACACGTAGTCATCGGGTC
* *
41131173 TTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TTACCCAGACAAAATCTCCACACGTAGTCATCGGGTC
41131210 TTACCC
1 TTACCC
41131216 GGAATATATT
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
37 71 0.93
38 5 0.07
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (37 bp):
TTACCCAGACAAAATCTCCACACGTAGTCATCGGGTC
Found at i:41131615 original size:145 final size:145
Alignment explanation
Indices: 41131365--41131660 Score: 472
Period size: 145 Copynumber: 2.0 Consensus size: 145
41131355 GCACATCGCC
*
41131365 TACATGTTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
* *
41131430 CCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT-GACCATTCGGCTTTAC
66 CCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATTAG-CCATTCGACTTTAC
*
41131494 CACATATGCATAT-TCA
129 CACATATACATATCTCA
* *
41131510 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
41131575 CCATTCGGCGCTTTACCACATATACATATCTC-ATACATATTTCACATTAGCCATTCGACTTTAC
66 CCATTC-G-GCTTTACCACATATACATATCTCAATACATATTTCACATTAGCCATTCGACTTTAC
*
41131639 CACATATACATATCTTA
129 CACATATACATATCTCA
41131656 TACAT
1 TACAT
41131661 CAATTTCAGC
Statistics
Matches: 140, Mismatches: 7, Indels: 7
0.91 0.05 0.05
Matches are distributed among these distances:
145 108 0.77
146 9 0.06
147 23 0.16
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (145 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
CCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTAGCCATTCGACTTTACCA
CATATACATATCTCA
Found at i:41131668 original size:50 final size:48
Alignment explanation
Indices: 41131365--41131660 Score: 470
Period size: 48 Copynumber: 6.1 Consensus size: 48
41131355 GCACATCGCC
* *
41131365 TACATGTTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
41131413 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
41131463 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATAT-TCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
41131510 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
41131558 TACATATTTCACATTAGCCATTCGGCGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTC-G-GCTTTACCACATATACATATCTCA
* *
41131608 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
41131656 TACAT
1 TACAT
41131661 CAATTTCAGC
Statistics
Matches: 233, Mismatches: 8, Indels: 14
0.91 0.03 0.05
Matches are distributed among these distances:
47 41 0.18
48 100 0.43
49 5 0.02
50 87 0.37
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:41139918 original size:32 final size:33
Alignment explanation
Indices: 41139864--41139927 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
41139854 TTGAATGTAT
41139864 GAGAAAAGTATATTTTTATGTATTGTAAGTCCG
1 GAGAAAAGTATATTTTTATGTATTGTAAGTCCG
41139897 GAGAAAAGTATA-TTTTATGTATTGTAAGTCC
1 GAGAAAAGTATATTTTTATGTATTGTAAGTCC
41139928 AGTAATGCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 19 0.61
33 12 0.39
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.39
Consensus pattern (33 bp):
GAGAAAAGTATATTTTTATGTATTGTAAGTCCG
Found at i:41147189 original size:40 final size:40
Alignment explanation
Indices: 41147134--41147313 Score: 148
Period size: 40 Copynumber: 4.5 Consensus size: 40
41147124 GGCACAACCA
* * * *
41147134 CCCTTCGGAATCAAGCACGATTCTTAACACTGGCTC-AAAG
1 CCCTTCGAAACCAAGCTCGATT-ATAACACTGGCTCAAAAG
* *** * *
41147174 CCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGG
1 CCCTTCGAAACCAAGCTC-GATTATAACACTGGCTCAAAAG
* * *
41147215 CCCTTCGAAACTAAG-TCCGGTTATGACACTGGCTCAAAAG
1 CCCTTCGAAACCAAGCT-CGATTATAACACTGGCTCAAAAG
* * * *
41147255 CCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAG
1 CCCTTCGAAACCAAGCTCGATTA-TAACACTGGCTCAAAAG
*
41147296 CCCTTCGAACCCAAGCTC
1 CCCTTCGAAACCAAGCTC
41147314 AGACTTACAC
Statistics
Matches: 114, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
40 62 0.54
41 52 0.46
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
CCCTTCGAAACCAAGCTCGATTATAACACTGGCTCAAAAG
Found at i:41147298 original size:41 final size:41
Alignment explanation
Indices: 41147161--41147304 Score: 179
Period size: 40 Copynumber: 3.6 Consensus size: 41
41147151 CGATTCTTAA
* * *
41147161 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * *
41147200 CCACTGGCTCGAAGGCCCTTCGAAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
41147241 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
41147282 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
41147305 CCCAAGCTCA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
40 45 0.50
41 42 0.47
43 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:41155500 original size:40 final size:40
Alignment explanation
Indices: 41155353--41155536 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
41155343 TCGAATGATG
* * * *
41155353 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
41155393 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
41155432 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41155471 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41155512 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41155537 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 23 0.18
39 21 0.17
40 71 0.57
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41158984 original size:40 final size:40
Alignment explanation
Indices: 41158929--41159151 Score: 200
Period size: 41 Copynumber: 5.5 Consensus size: 40
41158919 GGCACAACCA
* * * *
41158929 CCCTTCGGAATCAAGCACGATTCTTAACACTGGCTC-AAAG
1 CCCTTCGAAACCAAGCTCGGTT-TTAACACTGGCTCAAAAG
* * * * *
41158969 CCCTTCGAGACCAAGCTCGG-ATTAGGCCACTGGCTCGAAGG
1 CCCTTCGAAACCAAGCTCGGTTTTA--ACACTGGCTCAAAAG
* * *
41159010 CCCTTCGAAACTAAG-TCCGGTTATGACACTGGCTCAAAAG
1 CCCTTCGAAACCAAGCT-CGGTTTTAACACTGGCTCAAAAG
* * *
41159050 CCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAG
1 CCCTTCGAAACCAAGCTCGGTT-TTAACACTGGCTCAAAAG
* * *
41159091 CCCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAG
1 CCCTTCGAAACCAAGCTCGGTT-TTAACACTGGCTCAAAAG
*
41159132 CCCTTCGAACCCAAGCTCGG
1 CCCTTCGAAACCAAGCTCGG
41159152 ACTTACACCC
Statistics
Matches: 154, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
38 3 0.02
40 57 0.37
41 93 0.60
42 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
CCCTTCGAAACCAAGCTCGGTTTTAACACTGGCTCAAAAG
Found at i:41159081 original size:81 final size:81
Alignment explanation
Indices: 41158955--41159152 Score: 276
Period size: 81 Copynumber: 2.4 Consensus size: 81
41158945 ACGATTCTTA
* * *
41158955 ACACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGGCCACTGGCTCGAAGGCCCTTCGAA
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGAA
41159019 ACTAAGTCCGGTTATG
66 ACTAAGTCCGGTTATG
* *
41159035 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G-CACTGGCTCAAAAGCCCTTCG
1 ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAGGCCACTGGCTCAAAAGCCCTTCG
* *
41159098 AAACTAAGTTCGGTTATT
64 AAACTAAGTCCGGTTATG
*
41159116 AGCACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGA
1 A-CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGA
41159153 CTTACACCCC
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
80 11 0.11
81 57 0.55
82 32 0.31
83 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (81 bp):
ACACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAGGCCACTGGCTCAAAAGCCCTTCGAA
ACTAAGTCCGGTTATG
Found at i:41159093 original size:41 final size:41
Alignment explanation
Indices: 41158956--41159140 Score: 261
Period size: 41 Copynumber: 4.6 Consensus size: 41
41158946 CGATTCTTAA
* * *
41158956 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * *
41158995 CCACTGGCTCGAAGGCCCTTCGAAACTAAGTCCGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
41159036 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
41159077 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
41159118 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
41159141 CCCAAGCTCG
Statistics
Matches: 131, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
40 45 0.34
41 83 0.63
43 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:41162111 original size:19 final size:18
Alignment explanation
Indices: 41162089--41162128 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
41162079 TGAATAAAAC
41162089 TTATCTAACTAAATAAGAT
1 TTATCTAACTAAATAA-AT
*
41162108 TTATCTACCTAAATAAAT
1 TTATCTAACTAAATAAAT
41162126 TTA
1 TTA
41162129 AATATATCCC
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:0.45, C:0.12, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTAACTAAATAAAT
Found at i:41175858 original size:13 final size:14
Alignment explanation
Indices: 41175835--41175879 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 14
41175825 ACAACAAAAG
41175835 AAAG-TGAAAAGAA
1 AAAGATGAAAAGAA
*
41175848 AATGA-GAAAAGAA
1 AAAGATGAAAAGAA
41175861 AAAGATGAGAAAGAA
1 AAAGATGA-AAAGAA
41175876 AAAG
1 AAAG
41175880 CATGTGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 15 0.56
14 2 0.07
15 10 0.37
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (14 bp):
AAAGATGAAAAGAA
Found at i:41175875 original size:15 final size:16
Alignment explanation
Indices: 41175849--41175879 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
41175839 TGAAAAGAAA
41175849 ATGAGAAAAGAAAAAG
1 ATGAGAAAAGAAAAAG
41175865 ATGAG-AAAGAAAAAG
1 ATGAGAAAAGAAAAAG
41175880 CATGTGAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (16 bp):
ATGAGAAAAGAAAAAG
Found at i:41179044 original size:29 final size:28
Alignment explanation
Indices: 41179012--41179082 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
41179002 ATACAAGTCT
** *
41179012 TTAATATGTCTTACCTTAAATTCATGTTA
1 TTAATATGTCTTAAATTAAA-ACATGTTA
*
41179041 TTAATATGTCTTAAAATTAAAACATGTTT
1 TTAATATGTCTT-AAATTAAAACATGTTA
41179070 TTAATATGTCTTA
1 TTAATATGTCTTA
41179083 GTGCAGCCGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 1 0.03
29 30 0.81
30 6 0.16
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.48
Consensus pattern (28 bp):
TTAATATGTCTTAAATTAAAACATGTTA
Found at i:41185206 original size:8 final size:8
Alignment explanation
Indices: 41185173--41185214 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
41185163 AAAGAAAATA
41185173 AAATAATT
1 AAATAATT
41185181 -AATAATT
1 AAATAATT
* *
41185188 AAACAAGT
1 AAATAATT
41185196 AAATAATT
1 AAATAATT
41185204 AAATAATT
1 AAATAATT
41185212 AAA
1 AAA
41185215 AGAAATGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
7 7 0.24
8 22 0.76
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AAATAATT
Found at i:41188582 original size:27 final size:26
Alignment explanation
Indices: 41188520--41188634 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
41188510 AACATGGCTG
* *
41188520 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
41188546 CTAGATACAGATAATCGTGGCAGGGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
41188574 CCATAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
41188601 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
41188628 CCAGAAC
1 CCAGAAC
41188635 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
26 4 0.05
27 57 0.76
28 14 0.19
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:41190281 original size:26 final size:26
Alignment explanation
Indices: 41190245--41190380 Score: 245
Period size: 26 Copynumber: 5.2 Consensus size: 26
41190235 CATGAAATTC
*
41190245 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
41190271 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
41190297 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
41190323 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
41190349 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
41190375 TTATCA
1 TTATCA
41190381 ATTTGTATCA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:41191987 original size:12 final size:12
Alignment explanation
Indices: 41191953--41191994 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
41191943 AATTAGAATG
* *
41191953 TAAAAATTAAAC
1 TAAAAAATAAAA
*
41191965 TAAATAA-AAAA
1 TAAAAAATAAAA
41191976 TAAAAAATAAAA
1 TAAAAAATAAAA
41191988 TAAAAAA
1 TAAAAAA
41191995 GGCTAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
11 9 0.36
12 16 0.64
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:41192102 original size:37 final size:37
Alignment explanation
Indices: 41192042--41192112 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
41192032 AGTCCCCAAT
*
41192042 AATGGTGCCAAAAACTTGGTAGTCACAAAACTAAGAC
1 AATGGTGCCAAAAACTTGATAGTCACAAAACTAAGAC
*
41192079 AATGGTGCCAAAACCTTGATAGTCACAAAACTAA
1 AATGGTGCCAAAAACTTGATAGTCACAAAACTAA
41192113 CTATAAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (37 bp):
AATGGTGCCAAAAACTTGATAGTCACAAAACTAAGAC
Found at i:41195434 original size:14 final size:14
Alignment explanation
Indices: 41195415--41195441 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
41195405 AATACTTAGT
41195415 TTTGTTCTTAATTA
1 TTTGTTCTTAATTA
41195429 TTTGTTCTTAATT
1 TTTGTTCTTAATT
41195442 CTTAGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTGTTCTTAATTA
Found at i:41208246 original size:47 final size:47
Alignment explanation
Indices: 41208167--41208383 Score: 353
Period size: 47 Copynumber: 4.6 Consensus size: 47
41208157 TATTTGAATA
41208167 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
41208216 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
41208263 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
41208310 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
41208357 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
41208384 TCCCGAAGGG
Statistics
Matches: 160, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 148 0.93
49 12 0.08
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:41225679 original size:93 final size:93
Alignment explanation
Indices: 41225571--41225743 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
41225561 CGCCCATAAG
* * *
41225571 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAAATCAGACTCAACTCA
1 TGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCA
41225636 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* * * * * *
41225664 TGAACTCGGACTCAACTCAACAAGTTCTGACATTCGCATCCATAAGTGAACTCGGTCTCAACTCA
1 TGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCA
*
41225729 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
41225744 CAAATATCCT
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (93 bp):
TGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAGTGAAATCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:41226043 original size:40 final size:39
Alignment explanation
Indices: 41225999--41226156 Score: 126
Period size: 41 Copynumber: 3.9 Consensus size: 39
41225989 CGATTCTTAA
*
41225999 CACTGGTTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGG
1 CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTA-G
* * * * *
41226038 CCACTGGCTCGAAGGCCCTTCG-GAACTATG-TCCGATTATG
1 -CACTGGCTCAAAAGCCCTTCGAG-ACCAAGCTCGGATTA-G
* * * *
41226078 ACACTGTCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 -CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--ATTAG
41226120 CACTGGCTCAAAAGCCCTTCGA-ACCCAAGCTCGGATT
1 CACTGGCTCAAAAGCCCTTCGAGA-CCAAGCTCGGATT
41226157 TACACCCCGA
Statistics
Matches: 95, Mismatches: 16, Indels: 15
0.75 0.13 0.12
Matches are distributed among these distances:
39 3 0.03
40 41 0.43
41 46 0.48
42 1 0.01
43 4 0.04
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGGATTAG
Found at i:41226133 original size:41 final size:41
Alignment explanation
Indices: 41225999--41226142 Score: 134
Period size: 40 Copynumber: 3.6 Consensus size: 41
41225989 CGATTCTTAA
* * * *
41225999 CACTGGTTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTA-G
* * * * * * *
41226038 CCACTGGCTCGAAGGCCCTTCGGAACTATGTCCGATTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
*
41226079 CACTGTCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
41226120 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
41226143 CCCAAGCTCG
Statistics
Matches: 81, Mismatches: 19, Indels: 7
0.76 0.18 0.07
Matches are distributed among these distances:
40 40 0.49
41 38 0.47
43 3 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
Found at i:41229760 original size:39 final size:39
Alignment explanation
Indices: 41229683--41229786 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 39
41229673 TAGCTCCTCG
* * *
41229683 TTCAAGTGCCTTCGGGACATAGCCCGGTTATAGTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGTTATAGAAACTCA
* *
41229723 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGG-TTATAGAAACTCA
**
41229762 CACGAATGCCTTCGGGACTTAACCC
1 TTC-AATGCCTTCGGGACTTAACCC
41229787 AGAATTAGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 25 0.45
40 30 0.55
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (39 bp):
TTCAATGCCTTCGGGACTTAACCCGGTTATAGAAACTCA
Found at i:41229802 original size:40 final size:40
Alignment explanation
Indices: 41229726--41229816 Score: 112
Period size: 40 Copynumber: 2.3 Consensus size: 40
41229716 TAACTCATTC
* * *
41229726 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCAGATATTAAAACTCGCACA
* *
41229766 AATGCCTTCGGGACTTAACCCAGA-ATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCAGATATTA-AAACTCGCACA
*
41229806 AATACCTTCGG
1 AATGCCTTCGG
41229817 ATCTTAGTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
39 3 0.07
40 41 0.93
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCAGATATTAAAACTCGCACA
Found at i:41237584 original size:39 final size:38
Alignment explanation
Indices: 41237497--41237639 Score: 121
Period size: 39 Copynumber: 3.7 Consensus size: 38
41237487 AGTACTCATT
*
41237497 CAATGCCTTCGGGACTTAACCCGGATTTTAAACTCGCA
1 CAATGCCTTCGGGACTTAACCCGGATTGTAAACTCGCA
*
41237535 CGAATGCCTTCGGGACTTAACCCGGAATTAGT-ATCTCGCA
1 C-AATGCCTTCGGGACTTAACCCGG-ATT-GTAAACTCGCA
* ** * *
41237575 CAATACCTTC-GGATCTTAGTCCGGATATAGT-CACTTAGCA
1 CAATGCCTTCGGGA-CTTAACCCGGAT-T-GTAAAC-TCGCA
* *
41237615 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAATGCCTTCGGGACTTAACCCGGA
41237640 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
38 6 0.07
39 44 0.51
40 33 0.38
41 4 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (38 bp):
CAATGCCTTCGGGACTTAACCCGGATTGTAAACTCGCA
Found at i:41245267 original size:40 final size:39
Alignment explanation
Indices: 41245223--41245380 Score: 169
Period size: 41 Copynumber: 3.9 Consensus size: 39
41245213 CGATTCTTAA
*
41245223 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGGATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTA-G
* * *
41245262 CCACTGGCTCGAAGGCCCTTCGAAACTAAG-TCTGG-TTATG
1 -CACTGGCTCAAAAGCCCTTCGAAACCAAGCTC-GGATTA-G
* *
41245302 ACACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 -CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGG--ATTAG
*
41245344 CACTGGCTCAAAAGCCCTTCGAACCCAAGCTCGGATT
1 CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATT
41245381 TACACCCCGA
Statistics
Matches: 102, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
39 3 0.03
40 44 0.43
41 51 0.50
42 1 0.01
43 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (39 bp):
CACTGGCTCAAAAGCCCTTCGAAACCAAGCTCGGATTAG
Found at i:41245360 original size:41 final size:40
Alignment explanation
Indices: 41245223--41245366 Score: 170
Period size: 40 Copynumber: 3.6 Consensus size: 40
41245213 CGATTCTTAA
* *
41245223 CACTGGCTC-AAAGCCCTTCGAGACCAAGCTCGG--ATTAGG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAG-TCGGTTATTA-G
* * *
41245262 CCACTGGCTCGAAGGCCCTTCGAAACTAAGTCTGGTTATGA-
1 -CACTGGCTCAAAAGCCCTTCGAAACTAAGTC-GGTTATTAG
41245303 CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAG-TCGGTTATTAG
41245344 CACTGGCTCAAAAGCCCTTCGAA
1 CACTGGCTCAAAAGCCCTTCGAA
41245367 CCCAAGCTCG
Statistics
Matches: 91, Mismatches: 7, Indels: 11
0.83 0.06 0.10
Matches are distributed among these distances:
40 45 0.49
41 43 0.47
43 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTCGGTTATTAG
Found at i:41248667 original size:46 final size:45
Alignment explanation
Indices: 41248600--41248774 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
41248590 TGTAACCCGC
41248600 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
41248646 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * * *
41248692 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* *
41248739 CCATAAGTGAACTCGGTCTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
41248775 ATGCCCAAAT
Statistics
Matches: 101, Mismatches: 23, Indels: 10
0.75 0.17 0.07
Matches are distributed among these distances:
45 1 0.01
46 67 0.66
47 31 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:41248713 original size:93 final size:93
Alignment explanation
Indices: 41248608--41248779 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
41248598 GCCCATAAGT
* * *
41248608 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
41248673 CAAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* * *
41248701 GAACTCAGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGTCTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
41248766 CGAGTTCGGATGCC
66 CAAGCTCGGATGCC
41248780 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:41257436 original size:40 final size:40
Alignment explanation
Indices: 41257392--41257583 Score: 232
Period size: 40 Copynumber: 4.8 Consensus size: 40
41257382 TGATACTTGA
* *
41257392 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCT-TCGTTCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT
*
41257432 GGAAT-TGTATCCGGGCTTAAAGACCCGTAGGCTATATGCT
1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCTATATGCT
* *
41257472 AGAATGTTATCCGGGCTTAAAGACCCGCCGGCTATATGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
* *
41257512 GGAATGTTATCTGGG-TTAAAGACCCGCAGGCT-TCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT
* * *
41257551 GGAATGCTATTCGGGC-TAAAGACCCGTAGGCTA
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTA
41257584 CGAGCTGGTA
Statistics
Matches: 132, Mismatches: 14, Indels: 12
0.84 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 48 0.36
40 81 0.61
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTATATGCT
Found at i:41257551 original size:39 final size:40
Alignment explanation
Indices: 41257392--41257621 Score: 231
Period size: 40 Copynumber: 5.8 Consensus size: 40
41257382 TGATACTTGA
*
41257392 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTTCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* *
41257432 GGAAT-TGTATCCGGGCTTAAAGACCCGTAGGCTAT-ATGCT
1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT
* * *
41257472 AGAATGTTATCCGGGCTTAAAGACCCGCCGGCTAT-ATGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT
*
41257512 GGAATGTTATCTGGG-TTAAAGACCCGCAGGCTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* * * * *
41257551 GGAATGCTATTCGGGC-TAAAGACCCGTAGGCTACGAGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* * **
41257590 GG--TATTATACCGGGTTTAAATTCCCGCAGGCT
1 GGAATGTTAT-CCGGGCTTAAAGACCCGCAGGCT
41257622 GGTGCTAGAA
Statistics
Matches: 160, Mismatches: 23, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
37 4 0.03
38 5 0.03
39 68 0.43
40 81 0.51
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
Found at i:41259427 original size:383 final size:385
Alignment explanation
Indices: 41258664--41259432 Score: 1355
Period size: 383 Copynumber: 2.0 Consensus size: 385
41258654 ATGGGACAGC
*
41258664 GCCGATGGACTCTCAACCTATCACAAGCAATCAGAATGATGAGGCCAGACAGGCTTTTTATAGTG
1 GCCGATGGACTCTCAACCTATCACAAGCAATCAGAACGATGAGGCCAGACAGGCTTTTTATAGTG
* * * *
41258729 TGATGAATGATTGGTTCAACCAATACCTTCGAACTAATATAGCTGTTCCGCAACCCCCACTCCCG
66 TGATGAATGATTGGTTCAACCAATACATTCAAACTAATACAGCTGTTCCACAACCCCCACTCCCG
* * *
41258794 AATAATACACCCCTTGCACCTACGATACCTCTGATAATTGATCAGATGAGGTTGAATAAGCCCTC
131 AATAATACACCCCCTGCACCTACGATACCTCCGATAATTGATCAGATGAGGTTGAATAAGCCCCC
* *
41258859 GGTTGACAGAATTCGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATGATGCTGAGC
196 GGTTGACAGAATTCGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATAATGCTAAGC
* *
41258924 AAGCTGAATTTTGGTTGGACAATACTATCCGAGTGTTTGATGAACTGTCTTGCACACCCGATGAA
261 AAGCTAAATTTTGGTTGGACAATACTATCCGAGTGTTCGATGAACTGTCTTGCACACCCGATGAA
41258989 TGCCTAAAATGTGCTGTATCTTTGCTACGTGATTCTGCCTACTATTGGTGGAATACGTTG
326 TGCCTAAAATGTGCTGTATCTTTGCTACGTGATTCTGCCTACTATTGGTGGAATACGTTG
*
41259049 GCCGATGGACTCTCAACCTATCGCAAGCAATCAGAACGATGAGGCCAGACAGGCTTTTTATAGTG
1 GCCGATGGACTCTCAACCTATCACAAGCAATCAGAACGATGAGGCCAGACAGGCTTTTTATAGTG
*
41259114 TGATGAATGATTGGTTCAACCAATACATTCAAACTAATACGGCTGTTCCACAA-CCCCACTCCCG
66 TGATGAATGATTGGTTCAACCAATACATTCAAACTAATACAGCTGTTCCACAACCCCCACTCCCG
*
41259178 AATAATACACCCCCTGCACCTACGATACCTCCGATGATTGATCAGATGAGGTTGAATAAGCCCCC
131 AATAATACACCCCCTGCACCTACGATACCTCCGATAATTGATCAGATGAGGTTGAATAAGCCCCC
41259243 GGTTGACAGAA-TCTGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTG-TAATGCTAAG
196 GGTTGACAGAATTC-GAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATAATGCTAAG
*
41259306 CAAGCTAAATTTTGGTTGGACAATACTATTCGAGTGTTCGATGAACTGTCTTGCACACCCGATGA
260 CAAGCTAAATTTTGGTTGGACAATACTATCCGAGTGTTCGATGAACTGTCTTGCACACCCGATGA
*
41259371 ATGCCTAAAATGTGTTGTATCTTTGCTACGTGATTCTGCCTACTATTGGTGGAATACGTTG
325 ATGCCTAAAATGTGCTGTATCTTTGCTACGTGATTCTGCCTACTATTGGTGGAATACGTTG
41259432 G
1 G
41259433 TTTCTGTTGT
Statistics
Matches: 366, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
383 133 0.36
384 122 0.33
385 111 0.30
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (385 bp):
GCCGATGGACTCTCAACCTATCACAAGCAATCAGAACGATGAGGCCAGACAGGCTTTTTATAGTG
TGATGAATGATTGGTTCAACCAATACATTCAAACTAATACAGCTGTTCCACAACCCCCACTCCCG
AATAATACACCCCCTGCACCTACGATACCTCCGATAATTGATCAGATGAGGTTGAATAAGCCCCC
GGTTGACAGAATTCGAAAGCACGGGGCTACTGAATTTAAGGCTACCGATAGTGATAATGCTAAGC
AAGCTAAATTTTGGTTGGACAATACTATCCGAGTGTTCGATGAACTGTCTTGCACACCCGATGAA
TGCCTAAAATGTGCTGTATCTTTGCTACGTGATTCTGCCTACTATTGGTGGAATACGTTG
Found at i:41265521 original size:40 final size:40
Alignment explanation
Indices: 41265477--41265707 Score: 267
Period size: 40 Copynumber: 5.8 Consensus size: 40
41265467 ATTAAATTGA
41265477 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* *
41265517 GGAAT-TGTATCCGAGCTTAAAGACCCGCAGGCTAT-ATGCT
1 GGAATGT-TATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT
*
41265557 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTAT-ATGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCT-TCGTGCT
* *
41265597 GGAATGTTATTCGGGCTTAAAGACCCGCAGGTTTCGTGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* * * *
41265637 GGAATGCTATCCTGGC-TAAAGACCCGCAGGCTACGAGCT
1 GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
* * **
41265676 GG--TATTATACCGGGTTTAAATTCCCGCAGGCT
1 GGAATGTTAT-CCGGGCTTAAAGACCCGCAGGCT
41265708 GGTGCTAGAA
Statistics
Matches: 167, Mismatches: 18, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
37 4 0.02
38 4 0.02
39 38 0.23
40 119 0.71
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GGAATGTTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCT
Found at i:41273966 original size:24 final size:24
Alignment explanation
Indices: 41273938--41273983 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
41273928 AAGTTTTTTC
* *
41273938 TCCTAGTTAAACTCTTATTAATCT
1 TCCTAGTCAAACTCTAATTAATCT
*
41273962 TCCTAGTCGAACTCTAATTAAT
1 TCCTAGTCAAACTCTAATTAAT
41273984 TTAGGATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.41
Consensus pattern (24 bp):
TCCTAGTCAAACTCTAATTAATCT
Found at i:41277129 original size:47 final size:47
Alignment explanation
Indices: 41277075--41277268 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
41277065 TTAGGATTTT
** * *
41277075 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41277122 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
41277169 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
** * * *
41277216 ATGTGATGAACATGAACATGCATATATGTGGTAAAGCCGAATGGTCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
41277263 ATGTGA
1 ATGTGA
41277269 AATATATATA
Statistics
Matches: 134, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 134 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:41277175 original size:22 final size:22
Alignment explanation
Indices: 41277104--41277222 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
41277094 GTATATATGA
41277104 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
41277126 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
41277151 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
41277173 GATGAATGTG-AGCAT-G-CATATGTGT
1 GAT-AA-G-GCCGAATGGCCA-A--TGT
41277198 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
41277220 GAT
1 GAT
41277223 GAACATGAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:41277348 original size:48 final size:48
Alignment explanation
Indices: 41277238--41277614 Score: 648
Period size: 48 Copynumber: 7.8 Consensus size: 48
41277228 TGAACATGCA
* *
41277238 TATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AGTGTG-AA-ATATGTATGAGATATG
41277288 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
41277336 TATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
41277384 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
41277432 TATATGCGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
41277480 TATATGTGGTAAAGCTGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
41277528 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
41277576 TATATGCGGTAAAGCTGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
41277615 GGCGATGTGC
Statistics
Matches: 316, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
48 286 0.91
49 2 0.01
50 27 0.09
51 1 0.00
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:41277811 original size:37 final size:37
Alignment explanation
Indices: 41277761--41277865 Score: 183
Period size: 37 Copynumber: 2.8 Consensus size: 37
41277751 GGAAATATAT
41277761 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
41277798 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
41277835 TCCGGGTAAGACCCGATAACTTCGTGTGGAG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAG
41277866 GTTTCGTCTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:41286550 original size:47 final size:47
Alignment explanation
Indices: 41286462--41286711 Score: 349
Period size: 47 Copynumber: 5.3 Consensus size: 47
41286452 GGCCGAGTGG
* * *
41286462 TGTGATGAATGTGAAAGTATATATATGCGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTG-AA-CATGTATATGTGTGATAAGGCCGAATGGCCAA
* *
41286511 TGTGATGAATGTGATCATGTGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAA
*
41286558 TGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAA
* * *
41286605 TGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAA
1 TGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAA
* * *
41286652 TGTGATGAATGAGAA-AGTGTATATATGTGATAAGGCCGAATGACCAA
1 TGTGATGAATGTGAACA-TGTATATGTGTGATAAGGCCGAATGGCCAA
*
41286699 TGTGATGGATGTG
1 TGTGATGAATGTG
41286712 GAAGTGTATA
Statistics
Matches: 184, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 169 0.92
48 1 0.01
49 13 0.07
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
TGTGATGAATGTGAACATGTATATGTGTGATAAGGCCGAATGGCCAA
Found at i:41286717 original size:47 final size:46
Alignment explanation
Indices: 41286433--41286732 Score: 340
Period size: 47 Copynumber: 6.4 Consensus size: 46
41286423 ATTGATGTAC
* * *
41286433 AAGTATATATATGTGATAGGGCCGAGTGG----TGTGATGAATGTG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
*
41286475 AAAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 -AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *
41286524 ATCA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 A--AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * *
41286571 AACATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AA-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * * *
41286618 AACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAG
1 AA-GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *
41286665 AAAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGGATGTGG
1 -AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-G
*
41286713 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
41286733 TCCCGAAGGG
Statistics
Matches: 228, Mismatches: 17, Indels: 20
0.86 0.06 0.08
Matches are distributed among these distances:
43 12 0.05
45 16 0.07
47 176 0.77
48 4 0.02
49 19 0.08
50 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (46 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
Found at i:41289352 original size:40 final size:40
Alignment explanation
Indices: 41289291--41289647 Score: 527
Period size: 40 Copynumber: 8.9 Consensus size: 40
41289281 CTCGACAATG
*
41289291 ATCCGGGCTAAGTCCCAAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
*
41289331 ATCCGGGCTAATTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
41289371 ATCCGGGCTAAGTCCCGAAGGGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
41289411 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * *
41289451 ATCCGGGCTAAGTCCAGAAGAGCATTCATCCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
41289491 ATCTGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* *
41289531 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
* * * * *
41289571 ATCCGTGCTAA-ACTCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTC-CCGAAGAGCATTCATGCTAGTGATAT
* * *
41289611 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
41289648 CGTGTATTCG
Statistics
Matches: 287, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
40 286 1.00
41 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATAT
Found at i:41293086 original size:47 final size:47
Alignment explanation
Indices: 41293029--41293332 Score: 407
Period size: 47 Copynumber: 6.4 Consensus size: 47
41293019 ATTGATGTAC
* * *
41293029 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
41293076 AAGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATAT--GTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
41293125 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* *
41293172 ACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
41293219 ACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGAGA
1 A-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
41293266 AAGTGTATATATGTGATAAGGCCGAATGACCAATGTGATGGATGTGG
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
41293313 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
41293333 TCCAGAAGGG
Statistics
Matches: 236, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 194 0.82
49 40 0.17
50 1 0.00
ACGTcount: A:0.34, C:0.10, G:0.30, T:0.27
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:41297524 original size:6 final size:6
Alignment explanation
Indices: 41297513--41297538 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
41297503 TTTTATTGCG
41297513 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
41297539 CCTAACTTTT
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:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:41303982 original size:61 final size:61
Alignment explanation
Indices: 41303887--41304009 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
41303877 TGTAGGCGTA
41303887 TTTGTATGATTCACGTGTGGTTAACTCATTTCCATTTCATCATGGCTCACTTAGAAGCTAT
1 TTTGTATGATTCACGTGTGGTTAACTCATTTCCATTTCATCATGGCTCACTTAGAAGCTAT
41303948 TTTGTATGATTCACGTGTGGTTAACTCATTTCCATTTCATCATGGCTCACTTAGAAGCTAT
1 TTTGTATGATTCACGTGTGGTTAACTCATTTCCATTTCATCATGGCTCACTTAGAAGCTAT
41304009 T
1 T
41304010 GTGCTTTCAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (61 bp):
TTTGTATGATTCACGTGTGGTTAACTCATTTCCATTTCATCATGGCTCACTTAGAAGCTAT
Found at i:41310881 original size:42 final size:42
Alignment explanation
Indices: 41310827--41310953 Score: 159
Period size: 43 Copynumber: 3.0 Consensus size: 42
41310817 TACATAGTGC
* *
41310827 CATACCAATGCCATATCCCAGATATGGTCTTACATGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
* * *
41310869 CGTATCGATGCCAATAGCCCA-ACTATGGTCTTACACG-AAGTCT
1 CATATCAATGCC-ATATCCCAGA-TATGGTCTTACACGTAA-TCT
*
41310912 CATATCAATGCCATATCTCAGATATGGTCTTACACGTAATCT
1 CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
41310954 TAGTAACCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
42 35 0.49
43 36 0.51
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (42 bp):
CATATCAATGCCATATCCCAGATATGGTCTTACACGTAATCT
Found at i:41316831 original size:20 final size:21
Alignment explanation
Indices: 41316806--41316847 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
41316796 CCTTTGAAAC
*
41316806 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCATGTGGA
*
41316826 AGGGCAACATGCCCATGTGGA
1 AGGGCAACACGCCCATGTGGA
41316847 A
1 A
41316848 CTTGTACATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:41318370 original size:46 final size:46
Alignment explanation
Indices: 41318298--41318425 Score: 211
Period size: 46 Copynumber: 2.8 Consensus size: 46
41318288 TGTAACCCGC
* *
41318298 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
* * *
41318344 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGTCATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
41318390 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
41318426 ATGCTCAAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
Found at i:41320366 original size:30 final size:30
Alignment explanation
Indices: 41320322--41320410 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
41320312 CAAAGATAAC
41320322 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
41320351 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
41320381 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
41320411 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:41320370 original size:15 final size:15
Alignment explanation
Indices: 41320322--41320401 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
41320312 CAAAGATAAC
*
41320322 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
41320336 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
41320351 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
41320366 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
41320381 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
41320396 AAGAAA
1 AAGAAA
41320402 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:41320410 original size:15 final size:15
Alignment explanation
Indices: 41320333--41320410 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
41320323 AGAAAACCGA
41320333 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
41320348 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
41320362 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
41320377 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
41320393 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
41320408 ATA
1 ATA
41320411 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:41323388 original size:46 final size:46
Alignment explanation
Indices: 41323316--41323444 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
41323306 TGTAACCCGC
*
41323316 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAC-TTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTT-GCAT
* *
41323362 TCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
41323408 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
41323445 TGCCCAAATA
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
46 74 0.96
47 3 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:41325366 original size:49 final size:49
Alignment explanation
Indices: 41325313--41325481 Score: 202
Period size: 49 Copynumber: 3.5 Consensus size: 49
41325303 AGTCGATGTT
*
41325313 ATGTCCCAAACAAGTCTTACACTGACTTTCATATATCGAGGCCGATGCC
1 ATGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAGGCCGATGCC
* * * *
41325362 ATGTCCCAGACAGGTCTTACACTGTCTCTT-ATCTATCG-GTGTCGATGCC
1 ATGTCCCAGACAAGTCTTACACTGACT-TTCATATATCGAG-GCCGATGCC
* * *
41325411 ATGTCCCAGACAAGTCTTACACT-AGCTTGCATATCTTGAGGCCGATG-C
1 ATGTCCCAGACAAGTCTTACACTGA-CTTTCATATATCGAGGCCGATGCC
*
41325459 ATGTCCCAGACATGTCTTACACT
1 ATGTCCCAGACAAGTCTTACACT
41325482 AGCTCTCGTA
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
48 25 0.25
49 74 0.73
50 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (49 bp):
ATGTCCCAGACAAGTCTTACACTGACTTTCATATATCGAGGCCGATGCC
Found at i:41325424 original size:98 final size:94
Alignment explanation
Indices: 41325304--41325572 Score: 278
Period size: 98 Copynumber: 2.8 Consensus size: 94
41325294 ACACATCTAA
** *
41325304 GTCGATGTTATGTCCCAAACAAGTCTTACACTGACTTTCATATATCGAGGCCGATGCCATGTCCC
1 GTCGATGCCATGTCCCAGACAAGTCTTACACTGACTTTCATATAT-GAGGCCGATG-CATGTCCC
* *
41325369 AGACAGGTCTTACACT-G-TCTCTTATCTATCGGT
64 AGACATGTCTTACACTAGCTCTCGTAT-TAT---T
* *
41325402 GTCGATGCCATGTCCCAGACAAGTCTTACACT-AGCTTGCATATCTTGAGGCCGATGCATGTCCC
1 GTCGATGCCATGTCCCAGACAAGTCTTACACTGA-CTTTCATAT-ATGAGGCCGATGCATGTCCC
41325466 AGACATGTCTTACACTAGCTCTCGTATTATT
64 AGACATGTCTTACACTAGCTCTCGTATTATT
* * * * * * *
41325497 -ACTAATACCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGGCCGATGCATGTCCC
1 GTC-GATGCCATGTCCCAGACA-AGTCTTACACTGACTTTCATATATGAGGCCGATGCATGTCCC
*
41325560 AGGCATGTCTTAC
64 AGACATGTCTTAC
41325573 GCTTGAATGT
Statistics
Matches: 147, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
94 31 0.21
95 17 0.12
96 16 0.11
97 24 0.16
98 51 0.35
99 8 0.05
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (94 bp):
GTCGATGCCATGTCCCAGACAAGTCTTACACTGACTTTCATATATGAGGCCGATGCATGTCCCAG
ACATGTCTTACACTAGCTCTCGTATTATT
Found at i:41334691 original size:26 final size:26
Alignment explanation
Indices: 41334662--41334724 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
41334652 ATCAAACCAC
41334662 ATACATATATAAATACATCTAAGCAT
1 ATACATATATAAATACATCTAAGCAT
41334688 ATACATATATAAATACATCTAAGCAT
1 ATACATATATAAATACATCTAAGCAT
* *
41334714 ATTCGTATATA
1 ATACATATATA
41334725 TATCAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.33
Consensus pattern (26 bp):
ATACATATATAAATACATCTAAGCAT
Found at i:41351497 original size:149 final size:149
Alignment explanation
Indices: 41351227--41351551 Score: 605
Period size: 149 Copynumber: 2.2 Consensus size: 149
41351217 GGGCTTTGTT
* *
41351227 GGATTACCAGTCCAGGCTAAATCCTTTACATGACAAATAATACCCTACAAAGTCTAATCTAGATT
1 GGATTACCTGTCCGGGCTAAATCCTTTACATGACAAATAATACCCTACAAAGTCTAATCTAGATT
*
41351292 ACCAGTCTAGGCTAAATCCAGTCAACTAGGATTACTAGTCCAAGCTAAATCCAATTGAAACGTAA
66 ACCAGTCTAGGCTAAATCCAGTCAACTAGGATTACTAGTCCAAACTAAATCCAATTGAAACGTAA
41351357 GCTCAATAGGCTCATTTCA
131 GCTCAATAGGCTCATTTCA
* *
41351376 GGATTACTTGTCCGGGCTAAATCCTTTACATGACAAATAATACCCTACAAAGTCTAATCTGGATT
1 GGATTACCTGTCCGGGCTAAATCCTTTACATGACAAATAATACCCTACAAAGTCTAATCTAGATT
41351441 ACCAGTCTAGGCTAAATCCAGTCAACTAGGATTACTAGTCCAAACTAAATCCAATTGAAACGTAA
66 ACCAGTCTAGGCTAAATCCAGTCAACTAGGATTACTAGTCCAAACTAAATCCAATTGAAACGTAA
41351506 GCTCAATAGGCTCATTTCA
131 GCTCAATAGGCTCATTTCA
41351525 GGATTACCTGTCCGGGCTAAATCCTTT
1 GGATTACCTGTCCGGGCTAAATCCTTT
41351552 CCATAATGAG
Statistics
Matches: 170, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 170 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (149 bp):
GGATTACCTGTCCGGGCTAAATCCTTTACATGACAAATAATACCCTACAAAGTCTAATCTAGATT
ACCAGTCTAGGCTAAATCCAGTCAACTAGGATTACTAGTCCAAACTAAATCCAATTGAAACGTAA
GCTCAATAGGCTCATTTCA
Found at i:41351806 original size:35 final size:35
Alignment explanation
Indices: 41351760--41351826 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
41351750 AAAATCAAAT
41351760 TCAACATGCATAAACATCCAATTAGGTTACACGAC
1 TCAACATGCATAAACATCCAATTAGGTTACACGAC
*
41351795 TCAACATGCATAAACGTCCAATTAGGTTACAC
1 TCAACATGCATAAACATCCAATTAGGTTACAC
41351827 AACCTTTCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (35 bp):
TCAACATGCATAAACATCCAATTAGGTTACACGAC
Found at i:41357154 original size:39 final size:39
Alignment explanation
Indices: 41357109--41357268 Score: 248
Period size: 39 Copynumber: 4.1 Consensus size: 39
41357099 ATGCAAGATA
*
41357109 CTGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
41357148 CTGGAAATGTATCCAGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
41357187 CTGGAAATGTATTCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
** *
41357226 CAAGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
41357265 CTGG
1 CTGG
41357269 TAATATAATT
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:41390774 original size:297 final size:297
Alignment explanation
Indices: 41390240--41390806 Score: 1125
Period size: 297 Copynumber: 1.9 Consensus size: 297
41390230 AATTTTTTCA
41390240 CTCAATTCAACCGAACGCTCACCTCTACCTCTGGTATTTCCTTAAATTCAAAGCAATCTAATCAA
1 CTCAATTCAACCGAACGCTCACCTCTACCTCTGGTATTTCCTTAAATTCAAAGCAATCTAATCAA
41390305 CTTACATGCTTGAAATTTGCAGCAAATTATTTAAAACTATAAATAATAATGGTTAAGGTTAACAA
66 CTTACATGCTTGAAATTTGCAGCAAATTATTTAAAACTATAAATAATAATGGTTAAGGTTAACAA
41390370 TCCCTAAACGTTTTTCAAAAACTAAAATCACTTAAATTCATCCGTAATAAATACATCGGTCTGCA
131 TCCCTAAACGTTTTTCAAAAACTAAAATCACTTAAATTCATCCGTAATAAATACATCGGTCTGCA
41390435 TTTTTAAATTCAAAAATTGCATTGATTAAGACCTTTGACTAATGAAAACTATCTCTAACGGTTAT
196 TTTTTAAATTCAAAAATTGCATTGATTAAGACCTTTGACTAATGAAAACTATCTCTAACGGTTAT
41390500 TATTCTGATCTAATTGTTAGCTTTGACTTACAGAACG
261 TATTCTGATCTAATTGTTAGCTTTGACTTACAGAACG
41390537 CTCAATTCAACCGAACGCTCACCTCTACCTCTGGTATTTCCTTAAATTCAAAGCAATCTAATCAA
1 CTCAATTCAACCGAACGCTCACCTCTACCTCTGGTATTTCCTTAAATTCAAAGCAATCTAATCAA
41390602 CTTACATGCTTGAAATTTGCAGCAAATTATTTAAAACTATAAATAATAATGGTTAAGGTTAACAA
66 CTTACATGCTTGAAATTTGCAGCAAATTATTTAAAACTATAAATAATAATGGTTAAGGTTAACAA
*
41390667 TCCCTAAACGTTTTTCAAAAACTAAAATCACTTAAATTCATCTGTAATAAATACATCGGTCTGCA
131 TCCCTAAACGTTTTTCAAAAACTAAAATCACTTAAATTCATCCGTAATAAATACATCGGTCTGCA
41390732 TTTTTAAATTCAAAAATTGCATTGATTAAGACCTTTGACTAATGAAAACTATCTCTAACGGTTAT
196 TTTTTAAATTCAAAAATTGCATTGATTAAGACCTTTGACTAATGAAAACTATCTCTAACGGTTAT
41390797 TATTCTGATC
261 TATTCTGATC
41390807 AATGTGCGCT
Statistics
Matches: 269, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
297 269 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (297 bp):
CTCAATTCAACCGAACGCTCACCTCTACCTCTGGTATTTCCTTAAATTCAAAGCAATCTAATCAA
CTTACATGCTTGAAATTTGCAGCAAATTATTTAAAACTATAAATAATAATGGTTAAGGTTAACAA
TCCCTAAACGTTTTTCAAAAACTAAAATCACTTAAATTCATCCGTAATAAATACATCGGTCTGCA
TTTTTAAATTCAAAAATTGCATTGATTAAGACCTTTGACTAATGAAAACTATCTCTAACGGTTAT
TATTCTGATCTAATTGTTAGCTTTGACTTACAGAACG
Found at i:41391346 original size:21 final size:20
Alignment explanation
Indices: 41391317--41391355 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
41391307 CACTATCAAG
*
41391317 TCAATAAAAATTATAAAAAAT
1 TCAAAAAAAATTA-AAAAAAT
*
41391338 TCAAAAAAAGTTAAAAAA
1 TCAAAAAAAATTAAAAAA
41391356 TTTAAACATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (20 bp):
TCAAAAAAAATTAAAAAAAT
Found at i:41392639 original size:6 final size:6
Alignment explanation
Indices: 41392630--41392658 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
41392620 AAAGTTTAGG
41392630 GTGATA GTGATA GTGATA GTGATA GTGAT
1 GTGATA GTGATA GTGATA GTGATA GTGAT
41392659 CCAAAAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.34, T:0.34
Consensus pattern (6 bp):
GTGATA
Found at i:41392764 original size:6 final size:6
Alignment explanation
Indices: 41392726--41392762 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
41392716 ATTGGCTAAA
41392726 TTTATC TTTATC TTTATC TTTATC TTT-TC TTT-TC TTT
1 TTTATC TTTATC TTTATC TTTATC TTTATC TTTATC TTT
41392763 TTTTACGTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (6 bp):
TTTATC
Found at i:41393049 original size:33 final size:33
Alignment explanation
Indices: 41393012--41393076 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
41393002 TTTGATCTTG
41393012 ACCATTGTCGGCAACAATCTCAATTGGTGATCA
1 ACCATTGTCGGCAACAATCTCAATTGGTGATCA
* * *
41393045 ACCATTGTTGGCGATAATCTCAATTGGTGATC
1 ACCATTGTCGGCAACAATCTCAATTGGTGATC
41393077 TCGTGATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (33 bp):
ACCATTGTCGGCAACAATCTCAATTGGTGATCA
Found at i:41412295 original size:43 final size:43
Alignment explanation
Indices: 41412248--41412342 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
41412238 TCCCGAACAA
*
41412248 GGTCTTACACAAAATCGATTAAT-G-ATGCCAATGTACCAGAAAT
1 GGTCTTACACAAAATC--TTAATAGAATGCCAATGCACCAGAAAT
** * *
41412291 GGTCTTACACGTAATCTTAATAGAATGCCAATGCCCCAGACAT
1 GGTCTTACACAAAATCTTAATAGAATGCCAATGCACCAGAAAT
41412334 GGTCTTACA
1 GGTCTTACA
41412343 TGTAATCACA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
41 5 0.11
42 1 0.02
43 39 0.87
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (43 bp):
GGTCTTACACAAAATCTTAATAGAATGCCAATGCACCAGAAAT
Found at i:41415520 original size:47 final size:47
Alignment explanation
Indices: 41415466--41415581 Score: 135
Period size: 47 Copynumber: 2.5 Consensus size: 47
41415456 TGAATAATAT
* *
41415466 CTTGATTTGGCTACGGGCCATGGCATAGGTATTC-AGAGAGGAGTTAC
1 CTTGATTTGGCTACGGGCCATGGCATAGGTACTCTAG-GAGAAGTTAC
** * *
41415513 CTTGATTTGGCTATAGGCCATGGTATAGGTACTCTAGGATAAGTTAC
1 CTTGATTTGGCTACGGGCCATGGCATAGGTACTCTAGGAGAAGTTAC
* * *
41415560 CTTGATTGGGTTACGAGCCATG
1 CTTGATTTGGCTACGGGCCATG
41415582 ATATAAGTAC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
47 55 0.96
48 2 0.04
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.31
Consensus pattern (47 bp):
CTTGATTTGGCTACGGGCCATGGCATAGGTACTCTAGGAGAAGTTAC
Found at i:41418527 original size:15 final size:15
Alignment explanation
Indices: 41418507--41418537 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
41418497 AAGTTTAAGA
41418507 GAAACATAATTTTAC
1 GAAACATAATTTTAC
41418522 GAAACATAATTTTAC
1 GAAACATAATTTTAC
41418537 G
1 G
41418538 CTTGTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (15 bp):
GAAACATAATTTTAC
Found at i:41421017 original size:25 final size:23
Alignment explanation
Indices: 41420980--41421026 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
41420970 AACCATTCAT
41420980 TCTTCAATTTTCTCTCACTTTTCTC
1 TCTTCAATTTTCT-TCA-TTTTCTC
41421005 TCTTC-ATTGTTCTTCATTTTCT
1 TCTTCAATT-TTCTTCATTTTCT
41421027 TCCCCATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.11, C:0.28, G:0.02, T:0.60
Consensus pattern (23 bp):
TCTTCAATTTTCTTCATTTTCTC
Found at i:41424357 original size:43 final size:43
Alignment explanation
Indices: 41424309--41424394 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
41424299 TTCAGTAGAA
41424309 GACATTGTAAATAGAGAAAGGATCGGTTTTGAAAATGAATGAT
1 GACATTGTAAATAGAGAAAGGATCGGTTTTGAAAATGAATGAT
41424352 GACATTGTAAATAGAGAAAGGATCGGTTTTGAAAATGAATGAT
1 GACATTGTAAATAGAGAAAGGATCGGTTTTGAAAATGAATGAT
41424395 TTCGAAGGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.28
Consensus pattern (43 bp):
GACATTGTAAATAGAGAAAGGATCGGTTTTGAAAATGAATGAT
Found at i:41430988 original size:4 final size:4
Alignment explanation
Indices: 41430979--41431009 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
41430969 GGTTGCATGT
41430979 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
41431010 TAAATGCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:41433029 original size:48 final size:47
Alignment explanation
Indices: 41432955--41433177 Score: 297
Period size: 48 Copynumber: 4.7 Consensus size: 47
41432945 GATATGTGTA
41432955 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAG
1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGA-ATGAGAG
* * *
41433003 CCAGTGTAAGACCATGTTTGGAACATGGCATCGGCAATGTAATGAGAG
1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACG-AATGAGAG
*
41433051 CCAGTGTAAGACCATATTTGGGACATGGCATCGGCCAC-ATTATGAGAG
1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGA--ATGAGAG
* * *
41433099 CCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAG
1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCA-CGA-ATGAGAG
* *
41433147 CAAGTGTAAGACCATGTCTGGGACATGGCAT
1 CCAGTGTAAGACCATGTTTGGGACATGGCAT
41433178 TGGCAGTTAC
Statistics
Matches: 157, Mismatches: 13, Indels: 10
0.87 0.07 0.06
Matches are distributed among these distances:
46 1 0.01
47 2 0.01
48 152 0.97
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (47 bp):
CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGAATGAGAG
Found at i:41433125 original size:96 final size:96
Alignment explanation
Indices: 41432955--41433177 Score: 342
Period size: 96 Copynumber: 2.3 Consensus size: 96
41432945 GATATGTGTA
41432955 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGACCATGT
1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGACCATGT
* *
41433020 TTGGAACATGGCATCGGCAATGTA-ATGAGAG
66 CTGGAACATGGCATCGGCAATG-AGACGAGAG
* *
41433051 CCAGTGTAAGACCATATTTGGGACATGGCATCGGCCAC-ATTATGAGAGCCAGTGTAAGACCATG
1 CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGA-CATGAGAGCCAGTGTAAGACCATG
* *
41433115 TCTGGGACATGGCATCGGCATTGAGACGAGAG
65 TCTGGAACATGGCATCGGCAATGAGACGAGAG
* *
41433147 CAAGTGTAAGACCATGTCTGGGACATGGCAT
1 CCAGTGTAAGACCATGTTTGGGACATGGCAT
41433178 TGGCAGTTAC
Statistics
Matches: 116, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
95 2 0.02
96 114 0.98
ACGTcount: A:0.29, C:0.20, G:0.30, T:0.21
Consensus pattern (96 bp):
CCAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACGACATGAGAGCCAGTGTAAGACCATGT
CTGGAACATGGCATCGGCAATGAGACGAGAG
Found at i:41440717 original size:48 final size:48
Alignment explanation
Indices: 41440646--41440913 Score: 267
Period size: 48 Copynumber: 5.6 Consensus size: 48
41440636 ATGTGTGCCC
* * *
41440646 GTGTAAGATCATGTCTCGGACATGGCATCGGCCACGAAATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCA
* * * *
41440694 GTGTAAGACCATGTTTGGGACATGGCATC-G-CATTGATATGTGCA-CTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAG-AGCCA
* * *
41440741 GTGTAAAACCATGTCTGGGTCATGGCGTCGGCCAC-ATTATGAGAGCCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGA-TATGAGAGCCA
* * * * *
41440789 GTGTAAAACCATGTCTGGGACATGGCATCGG-CATTGAGACGAGAGCGA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCA-CGATATGAGAGCCA
* * * *
41440837 GTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCA
* **
41440885 GTGTAAGACCATGTTTGAAACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
41440914 AGCAGTTCAC
Statistics
Matches: 181, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
46 2 0.01
47 38 0.21
48 137 0.76
49 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCCACGATATGAGAGCCA
Found at i:41443530 original size:32 final size:33
Alignment explanation
Indices: 41443488--41443629 Score: 80
Period size: 34 Copynumber: 4.3 Consensus size: 33
41443478 AACATCCACT
41443488 AATATATATAT-TGTAT-ACAACAAAA-CCATGC
1 AATATATATATATGTATAACAACAAAACCCAT-C
* * * *
41443519 ATATATATATATATATTATAACACCAAAATCCATT
1 A-ATATATATATAT-GTATAACAACAAAACCCATC
* * * *
41443554 AATATATATA-CTGCAT-ACAATAGAA-CCATGC
1 AATATATATATATGTATAACAACAAAACCCAT-C
* * * *
41443585 ATATGTATATTATATATATGACACCAAAACCCATC
1 A-ATATATA-TATATGTATAACAACAAAACCCATC
41443620 AATATATATA
1 AATATATATA
41443630 CTATACATAA
Statistics
Matches: 82, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
30 4 0.05
31 8 0.10
32 18 0.22
33 6 0.07
34 21 0.26
35 17 0.21
36 8 0.10
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (33 bp):
AATATATATATATGTATAACAACAAAACCCATC
Found at i:41443557 original size:66 final size:66
Alignment explanation
Indices: 41443481--41443631 Score: 205
Period size: 66 Copynumber: 2.3 Consensus size: 66
41443471 TACATATAAC
* * *
41443481 ATCCACTAATATATATATTGTATACAACAAAACCATGCATATATATA-TATATATTATAACACCA
1 ATCCATTAATATATATACTGCATACAACAAAACCATGCATATATATATTATATA-TATAACACCA
41443545 AA
65 AA
* * * *
41443547 ATCCATTAATATATATACTGCATACAATAGAACCATGCATATGTATATTATATATATGACACCAA
1 ATCCATTAATATATATACTGCATACAACAAAACCATGCATATATATATTATATATATAACACCAA
41443612 A
66 A
* *
41443613 ACCCATCAATATATATACT
1 ATCCATTAATATATATACT
41443632 ATACATAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
66 69 0.92
67 6 0.08
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.32
Consensus pattern (66 bp):
ATCCATTAATATATATACTGCATACAACAAAACCATGCATATATATATTATATATATAACACCAA
A
Found at i:41445389 original size:41 final size:41
Alignment explanation
Indices: 41445344--41445428 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 41
41445334 TCACGCTTTT
* *
41445344 TGCCTAGCAAGCTCCGTGCCGGTG-TGTTTTATTAGCCTCTG
1 TGCCTAGCAAGCTCCGTGCCAGTGAT-TTATATTAGCCTCTG
* ** *
41445385 TGCCTAGCAGGCTTTGTGCCAGTGATTTATATTAGCCTTTG
1 TGCCTAGCAAGCTCCGTGCCAGTGATTTATATTAGCCTCTG
41445426 TGC
1 TGC
41445429 TGATTTAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.26, T:0.36
Consensus pattern (41 bp):
TGCCTAGCAAGCTCCGTGCCAGTGATTTATATTAGCCTCTG
Found at i:41450131 original size:45 final size:45
Alignment explanation
Indices: 41450059--41450149 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 45
41450049 TACGGTGTTC
* * * * *
41450059 TATGGTCTAATCTGGCTCGATCGAAAG-TCTTGTCGAGCACTCCTA
1 TATGGTCCAATCTGGCTCAATCAAAAGTTC-TATCAAGCACTCCTA
* *
41450104 TATGGTCCAATCTGTCTCAATTAAAAGTTCTATCAAGCACTCCTA
1 TATGGTCCAATCTGGCTCAATCAAAAGTTCTATCAAGCACTCCTA
41450149 T
1 T
41450150 CAAAATTTCG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 36 0.95
46 2 0.05
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (45 bp):
TATGGTCCAATCTGGCTCAATCAAAAGTTCTATCAAGCACTCCTA
Found at i:41458043 original size:42 final size:43
Alignment explanation
Indices: 41457930--41458045 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
41457920 AGCTCGTACA
* * * * *
41457930 ATGCCAACGTCCCATACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATAAAATATCG
** *
41457973 ATGCCTCTGTCCCAGACAG-CGTCTTACACGAAATAAAATA-CG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGAAATAAAATATCG
* *
41458015 ATGCCAATGTCCTAGACGTGGTCATACACGA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA
41458046 TAACACTTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.02
42 26 0.45
43 30 0.52
44 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATAAAATATCG
Found at i:41465262 original size:20 final size:21
Alignment explanation
Indices: 41465226--41465264 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
41465216 AAGAAAAAAT
41465226 AATGACAAACAAAAACTTACC
1 AATGACAAACAAAAACTTACC
41465247 AATGACAAAC-AAAACTTA
1 AATGACAAACAAAAACTTA
41465265 TCAACAAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.59, C:0.21, G:0.05, T:0.15
Consensus pattern (21 bp):
AATGACAAACAAAAACTTACC
Found at i:41467530 original size:13 final size:12
Alignment explanation
Indices: 41467512--41467550 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
41467502 AATAAGATTT
41467512 AATATTAAATATA
1 AATATTAAAT-TA
41467525 AATATTAAATTA
1 AATATTAAATTA
41467537 AAT-TTAATATTA
1 AATATTAA-ATTA
41467549 AA
1 AA
41467551 GTAATTAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 4 0.16
12 11 0.44
13 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATATTAAATTA
Found at i:41478464 original size:16 final size:16
Alignment explanation
Indices: 41478443--41478475 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41478433 ATTCTCTCAC
41478443 AAAAAAAATAA-AAATT
1 AAAAAAAA-AACAAATT
41478459 AAAAAAAAAACAAATT
1 AAAAAAAAAACAAATT
41478475 A
1 A
41478476 TATATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAAAAAACAAATT
Found at i:41484776 original size:25 final size:26
Alignment explanation
Indices: 41484743--41484796 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
41484733 TTTTTTTATT
41484743 TTTAGTTTTTTAAAATTTTAAAAATA
1 TTTAGTTTTTTAAAATTTTAAAAATA
* ** *
41484769 TTTA-TTTTTTGACTTTTTTAAAATA
1 TTTAGTTTTTTAAAATTTTAAAAATA
41484794 TTT
1 TTT
41484797 TAAGTATTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTAGTTTTTTAAAATTTTAAAAATA
Found at i:41489523 original size:17 final size:17
Alignment explanation
Indices: 41489495--41489539 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
41489485 AATTTTAAAT
* *
41489495 ATTTTTCAAAAATATCA
1 ATTTTTAAAAAATAGCA
41489512 ATTTTTAAAAAAAATAGCA
1 ATTTTT--AAAAAATAGCA
41489531 ATTTTTAAA
1 ATTTTTAAA
41489540 TTTTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
19 15 0.62
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (17 bp):
ATTTTTAAAAAATAGCA
Found at i:41489526 original size:19 final size:19
Alignment explanation
Indices: 41489502--41489539 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
41489492 AATATTTTTC
*
41489502 AAAAATATCAATTTTTAAA
1 AAAAATAGCAATTTTTAAA
41489521 AAAAATAGCAATTTTTAAA
1 AAAAATAGCAATTTTTAAA
41489540 TTTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (19 bp):
AAAAATAGCAATTTTTAAA
Found at i:41491491 original size:18 final size:20
Alignment explanation
Indices: 41491456--41491500 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
41491446 AGTATTATTG
41491456 ATAATTTTTATAATAA-TTA
1 ATAATTTTTATAATAATTTA
* *
41491475 ATAATTTTTTTCA-AATTTA
1 ATAATTTTTATAATAATTTA
41491494 A-AATTTT
1 ATAATTTT
41491501 ATAGTTGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
ATAATTTTTATAATAATTTA
Found at i:41493151 original size:28 final size:28
Alignment explanation
Indices: 41493119--41493242 Score: 115
Period size: 28 Copynumber: 4.4 Consensus size: 28
41493109 GTGAAAACGA
* * **
41493119 CACTTAGTGTGTGAATTATTGAGGATGG
1 CACTTAGTGTGCGAATCATCCAGGATGG
* * *
41493147 CACTTAGTGTGCGAAACATCCAGAAATAG
1 CACTTAGTGTGCGAATCATCCAG-GATGG
* * ** *
41493176 CACTTAGTGTGCAAATTATTGAAGATGG
1 CACTTAGTGTGCGAATCATCCAGGATGG
41493204 CACTTAGTGTGCGAGA-CATCCAGGATGG
1 CACTTAGTGTGCGA-ATCATCCAGGATGG
41493232 CACTTAGTGTG
1 CACTTAGTGTG
41493243 TGATAGATCC
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
28 53 0.72
29 21 0.28
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTGCGAATCATCCAGGATGG
Found at i:41493186 original size:57 final size:56
Alignment explanation
Indices: 41493119--41493245 Score: 191
Period size: 57 Copynumber: 2.2 Consensus size: 56
41493109 GTGAAAACGA
*
41493119 CACTTAGTGTGTGAATTATTGAGGATGGCACTTAGTGTGCGAAACATCCAGAAATAG
1 CACTTAGTGTGTGAATTATTGAAGATGGCACTTAGTGTGCGAAACATCCAG-AATAG
** * * *
41493176 CACTTAGTGTGCAAATTATTGAAGATGGCACTTAGTGTGCGAGACATCCAGGATGG
1 CACTTAGTGTGTGAATTATTGAAGATGGCACTTAGTGTGCGAAACATCCAGAATAG
41493232 CACTTAGTGTGTGA
1 CACTTAGTGTGTGA
41493246 TAGATCCGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
56 15 0.24
57 47 0.76
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (56 bp):
CACTTAGTGTGTGAATTATTGAAGATGGCACTTAGTGTGCGAAACATCCAGAATAG
Found at i:41493252 original size:28 final size:28
Alignment explanation
Indices: 41493199--41493273 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 28
41493189 AATTATTGAA
*
41493199 GATGGCACTTAGTGTGCGAGACATCCAG-
1 GATGGCACTTAGTGTGTGAGACATCC-GT
* *
41493227 GATGGCACTTAGTGTGTGATAGATCCGT
1 GATGGCACTTAGTGTGTGAGACATCCGT
* *
41493255 GAAGGCACTGAGTGTGTGA
1 GATGGCACTTAGTGTGTGA
41493274 AACTTCGAGA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
27 1 0.02
28 40 0.98
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.25
Consensus pattern (28 bp):
GATGGCACTTAGTGTGTGAGACATCCGT
Found at i:41495547 original size:47 final size:47
Alignment explanation
Indices: 41495475--41495603 Score: 163
Period size: 47 Copynumber: 2.7 Consensus size: 47
41495465 TGAGTTGTGC
* **
41495475 GCCAGTGTAAGACATGTTTGGGACATGCTTCGGCCACA-TTATGAGA
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACAGAGATGAGA
* *
41495521 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACAGAGATGAGA
* *
41495569 GCTAGAGTAAGACATGTTTGGGACATGCATCGGCC
1 GCCAGTGTAAGACATGTTTGGGACATGCATCGGCC
41495604 TCAACAGAGA
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
46 19 0.27
47 31 0.44
48 21 0.30
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACAGAGATGAGA
Found at i:41495903 original size:335 final size:335
Alignment explanation
Indices: 41495293--41495957 Score: 1267
Period size: 335 Copynumber: 2.0 Consensus size: 335
41495283 GAGGTAAGTT
* *
41495293 GTATGTAAATGATATAACTATACTGTAAATACTTGTATTCATATTGTCATTGAATTGATATTGTA
1 GTATGTAAATGATACAACTACACTGTAAATACTTGTATTCATATTGTCATTGAATTGATATTGTA
*
41495358 CGTGTTGTTAAGTTATAAGTTGAGAATGCCTTGTAATATTTGAGATAGTAGAAATATCCCATTGA
66 CGAGTTGTTAAGTTATAAGTTGAGAATGCCTTGTAATATTTGAGATAGTAGAAATATCCCATTGA
41495423 AACCTTAGGATATGAACTAGATATTCGCGCCAAGACATTAGGTGAGTTGTGCGCCAGTGTAAGAC
131 AACCTTAGGATATGAACTAGATATTCGCGCCAAGACATTAGGTGAGTTGTGCGCCAGTGTAAGAC
* *
41495488 ATGTTTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
196 ATGTCTGAGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
41495553 CGGCACAGAGATGAGTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCAACAGAGATAGC
261 CGGCACAGAGATGAGTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCAACAGAGATAGC
41495618 CAGTGCTAGA
326 CAGTGCTAGA
41495628 GTATGTAAATGATACAACTACACTGTAAATACTTGTATTCATATTGTCATTGAATTGATATTGTA
1 GTATGTAAATGATACAACTACACTGTAAATACTTGTATTCATATTGTCATTGAATTGATATTGTA
41495693 CGAGTTGTTAAGTTATAAGTTGAGAATGCCTTGTAATATTTGAGATAGTAGAAATATCCCATTGA
66 CGAGTTGTTAAGTTATAAGTTGAGAATGCCTTGTAATATTTGAGATAGTAGAAATATCCCATTGA
41495758 AACCTTAGGATATGAACTAGATATTCGCGCCAAGACATTAGGTGAGTTGTGCGCCAGTGTAAGAC
131 AACCTTAGGATATGAACTAGATATTCGCGCCAAGACATTAGGTGAGTTGTGCGCCAGTGTAAGAC
*
41495823 ATGTCTGAGACATGCTTTGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
196 ATGTCTGAGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
*
41495888 CGGCACAGAGATGAGTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGAGATAGC
261 CGGCACAGAGATGAGTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCAACAGAGATAGC
41495953 CAGTG
326 CAGTG
41495958 TAAGACGTGT
Statistics
Matches: 323, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
335 323 1.00
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (335 bp):
GTATGTAAATGATACAACTACACTGTAAATACTTGTATTCATATTGTCATTGAATTGATATTGTA
CGAGTTGTTAAGTTATAAGTTGAGAATGCCTTGTAATATTTGAGATAGTAGAAATATCCCATTGA
AACCTTAGGATATGAACTAGATATTCGCGCCAAGACATTAGGTGAGTTGTGCGCCAGTGTAAGAC
ATGTCTGAGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
CGGCACAGAGATGAGTGCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCAACAGAGATAGC
CAGTGCTAGA
Found at i:41495920 original size:47 final size:45
Alignment explanation
Indices: 41495810--41496079 Score: 196
Period size: 47 Copynumber: 5.8 Consensus size: 45
41495800 TGAGTTGTGC
* * * *
41495810 GCCAGTGTAAGACATGTCTGAGACATGCTTTGGCCACATTATGA-GA-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CACA-GA-GATGAT
41495856 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGA-T
* * *
41495904 GCTAGAGTAAGACATGTTTGGGACATGCATCGGCCTCGACAGAGAT-A-
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG---C-ACAGAGATGAT
* * *
41495951 GCCAGTGTAAGACGTGTTTGGGACATGCATCGGCTA-AGAGTTGTAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATG-AT
* * * *
41495997 --TAGTGTAAGACATGTCTGGGACATGCATCAGCATGCATATG-TGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CAGA-GATGA-T
41496043 GCCAGTGTAAGACAATGTCTGGGACATGGCATCGGCA
1 GCCAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCA
41496080 ATTTATCCCA
Statistics
Matches: 183, Mismatches: 20, Indels: 38
0.76 0.08 0.16
Matches are distributed among these distances:
43 6 0.03
44 30 0.16
45 4 0.02
46 26 0.14
47 61 0.33
48 25 0.14
49 15 0.08
50 16 0.09
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAT
Found at i:41504738 original size:24 final size:25
Alignment explanation
Indices: 41504722--41504773 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
41504712 TTAACTTAAT
41504722 ATAT-TATAATTTAATT-ATTATAA
1 ATATCTATAATTTAATTAATTATAA
* *
41504745 ATATCTATCATTTAATTAATAATACA
1 ATATCTATAATTTAATTAATTATA-A
41504771 ATA
1 ATA
41504774 CAAATGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.17
24 11 0.46
25 5 0.21
26 4 0.17
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATCTATAATTTAATTAATTATAA
Found at i:41504912 original size:29 final size:29
Alignment explanation
Indices: 41504879--41504948 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
41504869 ATTATTTAAT
*
41504879 TAATAACTATCTT-TTTAATTTAATAAAAA
1 TAATAAATAT-TTATTTAATTTAATAAAAA
*
41504908 TAATAAATATTTATTTACTTTAATAAAAA
1 TAATAAATATTTATTTAATTTAATAAAAA
41504937 GTAAATAAATAT
1 -T-AATAAATAT
41504949 GTTACAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 2 0.06
29 24 0.67
30 1 0.03
31 9 0.25
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (29 bp):
TAATAAATATTTATTTAATTTAATAAAAA
Found at i:41509501 original size:5 final size:6
Alignment explanation
Indices: 41509457--41509593 Score: 58
Period size: 5 Copynumber: 25.0 Consensus size: 6
41509447 CTTAATCCCT
*
41509457 TTAATA TTAA-A TTAAT- CTAATA TT--TA -TAATA TT-ATA TTAAT-
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
* *
41509498 TTAATA TTAA-A TCT--TA TTAA-A TTAATA -TAATA TT--TA TCAAGA
1 TTAATA TTAATA T-TAATA TTAATA TTAATA TTAATA TTAATA TTAATA
* *
41509540 TAAATA TTAA-A TTAA-A TTAAATA TTAAGA -TAATCA TTTTAATA TTAA-A
1 TTAATA TTAATA TTAATA TT-AATA TTAATA TTAAT-A --TTAATA TTAATA
41509588 TTAATA
1 TTAATA
41509594 AAATACTTTT
Statistics
Matches: 100, Mismatches: 9, Indels: 44
0.65 0.06 0.29
Matches are distributed among these distances:
3 1 0.01
4 6 0.06
5 51 0.51
6 34 0.34
7 3 0.03
8 1 0.01
9 4 0.04
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (6 bp):
TTAATA
Found at i:41509517 original size:51 final size:52
Alignment explanation
Indices: 41509461--41509561 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 52
41509451 ATCCCTTTAA
* * * *
41509461 TATTAAATTAATCTAATATTTAT-AATAT-TATATTAATTTAATATTAAATCT
1 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAA-ATTAAATCT
41509512 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTAAAT
1 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTAAAT
41509562 ATTAAGATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 22 0.50
52 11 0.25
53 11 0.25
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (52 bp):
TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTAAATCT
Found at i:41509559 original size:42 final size:39
Alignment explanation
Indices: 41509459--41509561 Score: 100
Period size: 42 Copynumber: 2.5 Consensus size: 39
41509449 TAATCCCTTT
* * *
41509459 AATATTAAATTAATCTAATATTTATAATATTATATTAATTT
1 AATATTAAATTAAT-TAA-ATTTATAATATTATATCAAATA
*
41509500 AATATTAAATCTTATTAAATTAATATAATATT-TATCAAGATA
1 AATATTAAAT-TAATTAAATT--TATAATATTATATCAA-ATA
41509542 AATATTAAATTAAATTAAAT
1 AATATTAAATT-AATTAAAT
41509562 ATTAAGATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
40 3 0.06
41 19 0.37
42 30 0.58
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (39 bp):
AATATTAAATTAATTAAATTTATAATATTATATCAAATA
Found at i:41509592 original size:20 final size:18
Alignment explanation
Indices: 41509459--41509593 Score: 69
Period size: 16 Copynumber: 7.8 Consensus size: 18
41509449 TAATCCCTTT
*
41509459 AATATTAAATTAAT-CT-
1 AATATTAAATTAATATTA
*
41509475 AATATT-TA-TAATATT-
1 AATATTAAATTAATATTA
*
41509490 -ATATTAATTTAATATTA
1 AATATTAAATTAATATTA
41509507 AATCTTATTAAATTAATA-T-
1 AA---TATTAAATTAATATTA
* * *
41509526 AATATT-TATCAAGA-TA
1 AATATTAAATTAATATTA
41509542 AATATTAAATTAA-ATTA
1 AATATTAAATTAATATTA
*
41509559 AATATTAAGA-TAATCATTTT
1 AATATTAA-ATTAAT-A-TTA
41509579 AATATTAAATTAATA
1 AATATTAAATTAATA
41509594 AAATACTTTT
Statistics
Matches: 92, Mismatches: 11, Indels: 29
0.70 0.08 0.22
Matches are distributed among these distances:
14 9 0.10
15 8 0.09
16 24 0.26
17 17 0.18
18 2 0.02
19 5 0.05
20 15 0.16
21 12 0.13
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.45
Consensus pattern (18 bp):
AATATTAAATTAATATTA
Found at i:41511204 original size:30 final size:30
Alignment explanation
Indices: 41511168--41511237 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
41511158 GTTGTCCCCA
* *
41511168 CCCTTTTCATAGATCTATAGCCGAAGCTAT
1 CCCTTTTCATAGATCGATAGCCAAAGCTAT
** *
41511198 CCCTTTTCGCAGCTCGATAGCCAAAGCTAT
1 CCCTTTTCATAGATCGATAGCCAAAGCTAT
41511228 CCCTTTTCAT
1 CCCTTTTCAT
41511238 TATTTAATGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.31, G:0.13, T:0.33
Consensus pattern (30 bp):
CCCTTTTCATAGATCGATAGCCAAAGCTAT
Found at i:41511260 original size:30 final size:30
Alignment explanation
Indices: 41511226--41511301 Score: 118
Period size: 29 Copynumber: 2.6 Consensus size: 30
41511216 AGCCAAAGCT
*
41511226 ATCCCTTTTCATTATTTAATGGTCGTCACC
1 ATCCCTTTTCATTATTTAATGATCGTCACC
* *
41511256 ATCCCTTTTCATTA-TTGATGATCGTCGCC
1 ATCCCTTTTCATTATTTAATGATCGTCACC
41511285 ATCCCTTTTCATTATTT
1 ATCCCTTTTCATTATTT
41511302 GATATCCAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
29 26 0.62
30 16 0.38
ACGTcount: A:0.18, C:0.26, G:0.09, T:0.46
Consensus pattern (30 bp):
ATCCCTTTTCATTATTTAATGATCGTCACC
Done.