Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 713 of 770
Found at i:225369109 original size:29 final size:29
Alignment explanation
Indices: 225369077--225369149 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
225369067 CTTCGAGCTC
* *
225369077 GCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
225369106 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
225369135 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
225369150 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:225370371 original size:25 final size:26
Alignment explanation
Indices: 225370323--225370380 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
225370313 TTTTTTTCCT
225370323 TTTC-TTTGTTTTTCTTCATATTCTC
1 TTTCTTTTGTTTTTCTTCATATTCTC
* * *
225370348 TTTCTTTTTTTTTTTTTCAT-TTCTT
1 TTTCTTTTGTTTTTCTTCATATTCTC
225370373 TATTCTTT
1 T-TTCTTT
225370381 CTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
26 19 0.68
ACGTcount: A:0.07, C:0.16, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTCTTTTGTTTTTCTTCATATTCTC
Found at i:225372514 original size:28 final size:27
Alignment explanation
Indices: 225372467--225372561 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 27
225372457 ATTTAAACCC
225372467 TAGGGGT-ATATT-GGTAATTTTGCTATT
1 TAGGGGTAAT-TTCGGTAATTTTGCT-TT
225372494 TAGGGGTAATTTCGGTAATTTTGC-TT
1 TAGGGGTAATTTCGGTAATTTTGCTTT
*
225372520 TAGGGGTAATTTCAGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCT-TT
225372548 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
225372562 TGATCTACGC
Statistics
Matches: 62, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
26 25 0.40
27 9 0.15
28 28 0.45
ACGTcount: A:0.21, C:0.07, G:0.26, T:0.45
Consensus pattern (27 bp):
TAGGGGTAATTTCGGTAATTTTGCTTT
Found at i:225373211 original size:27 final size:27
Alignment explanation
Indices: 225373181--225373242 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
225373171 GGGCAAAATG
225373181 GTAATTTTACCCCACAAGGGTATTTCA
1 GTAATTTTACCCCACAAGGGTATTTCA
* * *
225373208 GTAATTTTACCCTACAGGGGTATTTTA
1 GTAATTTTACCCCACAAGGGTATTTCA
225373235 GTAATTTT
1 GTAATTTT
225373243 TCAAACCATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACCCCACAAGGGTATTTCA
Found at i:225373257 original size:54 final size:54
Alignment explanation
Indices: 225373198--225373348 Score: 151
Period size: 54 Copynumber: 2.8 Consensus size: 54
225373188 TACCCCACAA
** * * *
225373198 GGGTATTTCAGTAATTTTACCCTAC-AGGGGTATTTTAGTAATTTTTCAAACCAT
1 GGGTATTTCAGTAATTTTA-CAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
* ** *
225373252 TGGTATTTTGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
** * * * *
225373306 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTGGTAATT
1 GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATT
225373349 CTGTAAATTG
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.02
54 81 0.98
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAAACAAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:225373314 original size:81 final size:81
Alignment explanation
Indices: 225373196--225373348 Score: 211
Period size: 81 Copynumber: 1.9 Consensus size: 81
225373186 TTTACCCCAC
** **
225373196 AAGGGTATTTCAGTAATTTTACCCTACAGGGGTATTTTAGTAATTTT-TCAAACCATTGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTAT-AAACCAAGGGTATTT
225373260 TGGTAATTTTATAAACA
65 TGGTAATTTTATAAACA
* * *
225373277 AAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTT
1 AAGGGTATTTCAGTAATTTTACCAAA-CAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTT
225373341 TGGTAATT
65 TGGTAATT
225373349 CTGTAAATTG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 2 0.03
81 60 0.95
82 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (81 bp):
AAGGGTATTTCAGTAATTTTACCAAACAGGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTT
GGTAATTTTATAAACA
Found at i:225373355 original size:27 final size:27
Alignment explanation
Indices: 225373225--225373348 Score: 160
Period size: 27 Copynumber: 4.6 Consensus size: 27
225373215 TACCCTACAG
* *
225373225 GGGTATTTTAGTAATTTT-TCAAACCAT
1 GGGTATTTTGGTAATTTTAT-AAACCAA
* *
225373252 TGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * *
225373279 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
225373306 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
225373333 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
225373349 CTGTAAATTG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
27 81 0.99
28 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:225373362 original size:27 final size:27
Alignment explanation
Indices: 225373332--225373402 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
225373322 TTATAAACCA
* *
225373332 AGGGTATTTTGGTAATTCTGTAAATTG
1 AGGGTAATTTGGTAATTCTGTAAATCG
***
225373359 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTAATTTGGTAATTCTGTAAATCG
*
225373386 -GGAGTACTTTGGTAATT
1 AGG-GTAATTTGGTAATT
225373403 TTACAAGTCG
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
26 2 0.06
27 32 0.94
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTGTAAATCG
Found at i:225373364 original size:54 final size:54
Alignment explanation
Indices: 225373225--225373348 Score: 194
Period size: 54 Copynumber: 2.3 Consensus size: 54
225373215 TACCCTACAG
* **
225373225 GGGTATTTTAGTAATTTTTCAAACCATTGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
* *
225373279 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
*
225373333 GGGTATTTTGGTAATT
1 GGGTATTTTAGTAATT
225373349 CTGTAAATTG
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTATAAACAAA
Found at i:225377849 original size:29 final size:29
Alignment explanation
Indices: 225377817--225377923 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
225377807 ATACCCTCCG
** *
225377817 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
225377846 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
225377875 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
225377904 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
225377924 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:225379115 original size:19 final size:17
Alignment explanation
Indices: 225379081--225379135 Score: 58
Period size: 19 Copynumber: 3.1 Consensus size: 17
225379071 GAATGAACAC
*
225379081 TTTTTTT-TTCTTTTCT
1 TTTTTTTCTTCATTTCT
225379097 TTGTTTTTCTTCATATTCT
1 TT-TTTTTCTTCAT-TTCT
*
225379116 CTTTTTTTTTTCATTTCT
1 -TTTTTTTCTTCATTTCT
225379134 TT
1 TT
225379136 ATTCTTCCTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 2 0.06
17 7 0.21
18 8 0.24
19 14 0.42
20 2 0.06
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTTTCTTCATTTCT
Found at i:225385791 original size:28 final size:28
Alignment explanation
Indices: 225385740--225385832 Score: 123
Period size: 29 Copynumber: 3.2 Consensus size: 28
225385730 TCGCACACCC
* * *
225385740 AGTGCCGTATTTTTCCAGCTTGCACACAT
1 AGTGCCATA-TTTTCCAGCATGCACACTT
*
225385769 AGTGTCATATTTTCCAGCATGCACACTT
1 AGTGCCATATTTTCCAGCATGCACACTT
*
225385797 AGTGCCATATATTTCCAGCACGCACACTT
1 AGTGCCATAT-TTTCCAGCATGCACACTT
225385826 AGTGCCA
1 AGTGCCA
225385833 ATCTCGTCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 26 0.46
29 31 0.54
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (28 bp):
AGTGCCATATTTTCCAGCATGCACACTT
Found at i:225387028 original size:20 final size:20
Alignment explanation
Indices: 225386987--225387039 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 20
225386977 AATGAACACT
*
225386987 TTTTTTTTC-TTT-TCTTTG
1 TTTTTCTTCATTTCTCTTTG
225387005 TTTTTCTTCATATTCTCTTT-
1 TTTTTCTTCAT-TTCTCTTTG
*
225387025 TTTTTTTTCATTTCT
1 TTTTTCTTCATTTCT
225387040 TTATTCTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 8 0.27
19 5 0.17
20 12 0.40
21 5 0.17
ACGTcount: A:0.06, C:0.15, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTCTTCATTTCTCTTTG
Found at i:225393484 original size:40 final size:39
Alignment explanation
Indices: 225393440--225393621 Score: 247
Period size: 39 Copynumber: 4.6 Consensus size: 39
225393430 GTTCAAAACA
* * ** * *
225393440 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
225393480 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
225393520 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
225393559 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
225393598 CCTTCGGGCTTAGCCCGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
225393622 CTCGAACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:225393551 original size:39 final size:39
Alignment explanation
Indices: 225393470--225393622 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
225393460 TATGGTAACC
* *
225393470 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
225393510 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
225393549 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
225393588 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
225393623 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:225400974 original size:40 final size:39
Alignment explanation
Indices: 225400910--225401097 Score: 232
Period size: 39 Copynumber: 4.8 Consensus size: 39
225400900 GCTACTCGTT
* * * ** *
225400910 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
225400950 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* *
225400990 CAATTGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * *
225401029 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
225401068 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
225401098 CTCGAACATT
Statistics
Matches: 133, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 88 0.66
40 45 0.34
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:225401027 original size:39 final size:39
Alignment explanation
Indices: 225400946--225401098 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
225400936 TATGGTAACC
* *
225400946 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
225400986 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
225401025 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
225401064 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
225401099 TCGAACATTC
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:225406395 original size:40 final size:40
Alignment explanation
Indices: 225406335--225406496 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 40
225406325 TCGAATTTAA
** *
225406335 CCGGATATAAC-ACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
225406374 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
225406414 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * * *
225406454 CCGGATATATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
225406493 CCGG
1 CCGG
225406497 GTATCATTCA
Statistics
Matches: 104, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
38 2 0.02
39 33 0.32
40 67 0.64
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:225406485 original size:79 final size:79
Alignment explanation
Indices: 225406335--225406496 Score: 202
Period size: 79 Copynumber: 2.1 Consensus size: 79
225406325 TCGAATTTAA
* * * *
225406335 CCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAATTGC
1 CCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATGATAACTAGCACAAATGC
*
225406400 CTTCGGGTCTTAGC
66 CTTCGGGACTTAGC
** * * *
225406414 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATAT-ATCACTAGCATAAAT
1 CCGGATATAAC-ACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATGATAACTAGCACAAAT
225406477 GCCTTCGGGACTTAGC
64 GCCTTCGGGACTTAGC
225406493 CCGG
1 CCGG
225406497 GTATCATTCA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
79 40 0.56
80 29 0.41
81 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATGATAACTAGCACAAATGC
CTTCGGGACTTAGC
Found at i:225410055 original size:40 final size:40
Alignment explanation
Indices: 225410010--225410139 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
225410000 CGGAATACAA
225410010 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
225410050 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
225410090 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
225410130 CCGGATATAA
1 CCGGATATAA
225410140 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:225410154 original size:40 final size:40
Alignment explanation
Indices: 225410010--225410173 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
225410000 CGGAATACAA
* **
225410010 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
225410050 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
225410090 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
225410130 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
225410170 CCGG
1 CCGG
225410174 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:225415927 original size:40 final size:40
Alignment explanation
Indices: 225415861--225416027 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
225415851 AAATTGAATG
* * *
225415861 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
225415900 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
225415940 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
225415980 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
225416020 ATATCCGG
1 ATATCCGG
225416028 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:225423014 original size:17 final size:18
Alignment explanation
Indices: 225422972--225423020 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
225422962 AGTTGAAAAG
225422972 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
225422991 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
225423008 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
225423021 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:225423963 original size:39 final size:40
Alignment explanation
Indices: 225423840--225424005 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
225423830 AAATTGAATG
* * *
225423840 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTAATT
* * ***
225423879 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
*
225423919 ATATCCGGGCTAAG-CCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTAATT
* * *
225423958 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTAATT
225423998 ATATCCGG
1 ATATCCGG
225424006 TTATATTCCG
Statistics
Matches: 104, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.03
39 44 0.42
40 55 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTAATT
Found at i:225423972 original size:79 final size:79
Alignment explanation
Indices: 225423840--225423989 Score: 205
Period size: 79 Copynumber: 1.9 Consensus size: 79
225423830 AAATTGAATG
*
225423840 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
225423905 TTGTGCTAGTGGCT
66 TTGTGCTAGTGGCT
* * ** *
225423919 ATATCCGGGCTAAGCCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGCCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGGC
*
225423982 ATTTGTGC
64 AATTGTGC
225423990 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
78 4 0.06
79 58 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCTAGTGGCT
Found at i:225426743 original size:28 final size:27
Alignment explanation
Indices: 225426680--225426749 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
225426670 ATAGTGAGTC
225426680 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
225426707 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
225426735 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
225426750 GTACAAGTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:225433059 original size:40 final size:39
Alignment explanation
Indices: 225432894--225433077 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
225432884 AAATTGAATG
* * *
225432894 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
225432934 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
225432974 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
225433014 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
225433053 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
225433078 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:225433102 original size:80 final size:81
Alignment explanation
Indices: 225432934--225433122 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
225432924 GCTGGAAATT
* * * *
225432934 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
225432999 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
225433015 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
225433078 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
225433094 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
225433123 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:225437199 original size:40 final size:40
Alignment explanation
Indices: 225437133--225437299 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
225437123 AAATTGAATG
* * *
225437133 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
225437172 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
225437212 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
225437252 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
225437292 ATATCCGG
1 ATATCCGG
225437300 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:225440915 original size:46 final size:46
Alignment explanation
Indices: 225440792--225440925 Score: 171
Period size: 51 Copynumber: 2.8 Consensus size: 46
225440782 TGTAACCCGC
* * * *
225440792 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
225440838 CCATAAGTTCGGAACTCACGAGACTC-ACTCAACGAGTTCGGACATTCGCAT
1 CCATAAG-T--GAACT--CG-GACTCAACTCAACGAGTTCGGACATTCGCAT
225440889 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
225440926 TGCTCAACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
45 5 0.06
46 25 0.32
48 5 0.06
49 5 0.06
50 1 0.01
51 31 0.40
52 5 0.06
ACGTcount: A:0.29, C:0.30, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:225448289 original size:93 final size:93
Alignment explanation
Indices: 225448177--225448348 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
225448167 CGCCCATAAG
* *
225448177 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
225448242 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
225448270 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
225448335 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
225448349 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:225448345 original size:46 final size:46
Alignment explanation
Indices: 225448170--225448345 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
225448160 TGTAACCCGC
* * *
225448170 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
225448216 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
225448266 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
225448309 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
225448346 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:225449705 original size:12 final size:12
Alignment explanation
Indices: 225449690--225449714 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
225449680 TGATATGAAT
225449690 TATGCTATATGA
1 TATGCTATATGA
225449702 TATGCTATATGA
1 TATGCTATATGA
225449714 T
1 T
225449715 TTGAATATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TATGCTATATGA
Found at i:225449726 original size:2 final size:2
Alignment explanation
Indices: 225449719--225449746 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
225449709 TATGATTTGA
225449719 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
225449747 GACTTGATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:225452486 original size:40 final size:40
Alignment explanation
Indices: 225452442--225452551 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
225452432 TTCACAATTT
* *
225452442 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
225452482 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * * *
225452522 GCATAAATGTCTTCGGGACTTAGCCTGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
225452552 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:225460517 original size:40 final size:40
Alignment explanation
Indices: 225460473--225460582 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
225460463 TTCACAATTT
* *
225460473 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
225460513 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * * *
225460553 GCATAAATGTCTTCGGGACTTAGCCTGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
225460583 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:225464335 original size:107 final size:106
Alignment explanation
Indices: 225464148--225464360 Score: 356
Period size: 107 Copynumber: 2.0 Consensus size: 106
225464138 ACAATAACCC
*
225464148 GTATCATTGTTTAAATCAAAGTATTTAGCTTAAGAAGAGTTGTTTAAGTACATATTAACTTAGTC
1 GTATCATTGTTTAAATCAAAGTATTTAGCATAAGAAGAGTTGTTTAAGTACATATTAACTTAGTC
*
225464213 TTTTTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
66 TTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
* *
225464254 GTATCATTGTTTAAATCAAAGTATTTAGCATAGGGAA-AGTTGTTTTAAGTACATATTAAGTTAG
1 GTATCATTGTTTAAATCAAAGTATTTAGCATA-AGAAGAGTTG-TTTAAGTACATATTAACTTAG
*
225464318 TCTTTCTATATATCTCTCTTTTTCCTTCCCTTTTGCATGCATT
64 TCTTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
225464361 TCAACAGATA
Statistics
Matches: 100, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
106 36 0.36
107 64 0.64
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.46
Consensus pattern (106 bp):
GTATCATTGTTTAAATCAAAGTATTTAGCATAAGAAGAGTTGTTTAAGTACATATTAACTTAGTC
TTTCTATATATCTCTCTTTTCCCTTCCCTTTTGCATGCATT
Found at i:225465801 original size:2 final size:2
Alignment explanation
Indices: 225465794--225465836 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
225465784 ATAAATACAA
225465794 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
225465836 A
1 A
225465837 ATTTACATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:225470678 original size:234 final size:234
Alignment explanation
Indices: 225470269--225470733 Score: 903
Period size: 234 Copynumber: 2.0 Consensus size: 234
225470259 CTGTTTGAAG
225470269 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
225470334 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
225470399 AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
225470464 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
196 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
*
225470503 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACGAAACGGTGGTTCTTT
1 AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
*
225470568 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAGCAAAATCATTCCATTTGCTAG
66 ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
*
225470633 AAGCCACATAGTAGATTCGTTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
131 AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
225470698 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTC
196 TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTC
225470734 CAAGTACTCA
Statistics
Matches: 228, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
234 228 1.00
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (234 bp):
AGTATAAAAATGTTGTCAATTCTACATACGAGGAATAATAATAGAAAACAAAACGGTGGTTCTTT
ATATCAGTTCAAGGATCTCAGCTCAGTGCTGTATCTATGTTTAACAAAATCATTCCATTTGCTAG
AAGCCACATAGTAGATTCATTACATACAAATAAGTAACCATCAACAAGCTTCATCTATGCTTCCA
TTAGTCGAATCCAACAGGATGAAGTATTAGAAATTCAAC
Found at i:225472455 original size:54 final size:54
Alignment explanation
Indices: 225472387--225472496 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
225472377 AGGCCTACCA
*
225472387 TTGGCTTAATAGTAACGTCAATATCTTCACCAGCAGAAATATAATATATCCTTC
1 TTGGCTTAACAGTAACGTCAATATCTTCACCAGCAGAAATATAATATATCCTTC
225472441 TTGGCTTAACAGTAACGTCAATATCTTCACCAGCAGAAATATAATATATCCTTC
1 TTGGCTTAACAGTAACGTCAATATCTTCACCAGCAGAAATATAATATATCCTTC
225472495 TT
1 TT
225472497 ACCTCAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.34
Consensus pattern (54 bp):
TTGGCTTAACAGTAACGTCAATATCTTCACCAGCAGAAATATAATATATCCTTC
Found at i:225472836 original size:28 final size:28
Alignment explanation
Indices: 225472796--225472858 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
225472786 GTCATTATCA
225472796 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
225472824 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
225472852 ACCCCAT
1 ACCCCAT
225472859 TAATATGGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:225478230 original size:28 final size:28
Alignment explanation
Indices: 225478190--225478252 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
225478180 GTCATTATCA
225478190 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* * * *
225478218 ACCCCATAAGTTATGAGATTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
225478246 ACCCCAT
1 ACCCCAT
225478253 TAATATGAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.33
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:225478412 original size:14 final size:14
Alignment explanation
Indices: 225478372--225478412 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
225478362 AAAAAGAAGA
225478372 TACACTCTCTCTTC
1 TACACTCTCTCTTC
225478386 TACA-T-TCTC-TC
1 TACACTCTCTCTTC
*
225478397 TACACTCTTTCTTC
1 TACACTCTCTCTTC
225478411 TA
1 TA
225478413 TCACATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 6 0.26
12 5 0.22
13 4 0.17
14 8 0.35
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (14 bp):
TACACTCTCTCTTC
Found at i:225485102 original size:11 final size:11
Alignment explanation
Indices: 225485086--225485110 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
225485076 AACATATACA
225485086 AAAACGAAACG
1 AAAACGAAACG
225485097 AAAACGAAACG
1 AAAACGAAACG
225485108 AAA
1 AAA
225485111 CATAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.68, C:0.16, G:0.16, T:0.00
Consensus pattern (11 bp):
AAAACGAAACG
Found at i:225495160 original size:40 final size:40
Alignment explanation
Indices: 225495115--225495244 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
225495105 CGGAATACAA
225495115 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
225495155 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * * *
225495195 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
225495235 CCGGATATAA
1 CCGGATATAA
225495245 TTTCCAGCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:225499432 original size:40 final size:40
Alignment explanation
Indices: 225499305--225499434 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
225499295 ATGCTGGAAA
* * *
225499305 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
225499345 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
225499385 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
225499425 TTATATCCGG
1 TTATATCCGG
225499435 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:225502751 original size:30 final size:30
Alignment explanation
Indices: 225502715--225502815 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
225502705 GACAAGATTG
* * *
225502715 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
225502745 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
225502773 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
225502802 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
225502816 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:225502827 original size:29 final size:28
Alignment explanation
Indices: 225502744--225502819 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
225502734 AAAATTGTAC
* *
225502744 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
225502772 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
225502801 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
225502820 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:225510597 original size:30 final size:30
Alignment explanation
Indices: 225510561--225510661 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
225510551 GACAAGATTG
* * *
225510561 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
225510591 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
225510619 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
225510648 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
225510662 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:225510673 original size:29 final size:28
Alignment explanation
Indices: 225510590--225510665 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
225510580 AAAATTGTAC
* *
225510590 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
225510618 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
225510647 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
225510666 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:225513287 original size:28 final size:28
Alignment explanation
Indices: 225513254--225513332 Score: 131
Period size: 28 Copynumber: 2.8 Consensus size: 28
225513244 GAATCATTCG
* *
225513254 ATATTTCCCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
225513282 ATATTTCGCACACTATGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
225513310 ATATTTCGCACACTAAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
225513333 ATTTGATGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 47 1.00
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:225516957 original size:8 final size:8
Alignment explanation
Indices: 225516944--225516978 Score: 70
Period size: 8 Copynumber: 4.4 Consensus size: 8
225516934 ACAACGGGAA
225516944 AATTTTTG
1 AATTTTTG
225516952 AATTTTTG
1 AATTTTTG
225516960 AATTTTTG
1 AATTTTTG
225516968 AATTTTTG
1 AATTTTTG
225516976 AAT
1 AAT
225516979 CCTCTCACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (8 bp):
AATTTTTG
Found at i:225520278 original size:40 final size:39
Alignment explanation
Indices: 225520220--225520422 Score: 282
Period size: 40 Copynumber: 5.1 Consensus size: 39
225520210 TGAATGATAC
*
225520220 CCGGGTTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
* *
225520260 CCGGGTTAAGACCTGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTG-TTATAT
*
225520300 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
* * *
225520340 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAG-TGTTATAT
*
225520380 CCGGGTTAAGACCCGAAGGCAATTGTGCT-GTGGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCTAGT-GTTATAT
225520419 CCGG
1 CCGG
225520423 CTAAATTCCG
Statistics
Matches: 151, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 10 0.07
40 138 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (39 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGTTATAT
Found at i:225522669 original size:40 final size:40
Alignment explanation
Indices: 225522624--225522790 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
225522614 CGGAATATAA
*
225522624 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
225522664 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
225522704 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
225522744 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
225522783 CCGGATAT
1 CCGGATAT
225522791 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
39 14 0.14
40 89 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:225529161 original size:40 final size:40
Alignment explanation
Indices: 225529097--225529239 Score: 146
Period size: 40 Copynumber: 3.6 Consensus size: 40
225529087 GCCTACTGGA
* * * *
225529097 CTTAACCCGGATATCACGATTTGCACAAATGCCTTCGGGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
* *
225529137 CTTAGCCCGGATTTAACAACTTGCACGAATGCCTTC-GGT
1 CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
** * * *
225529176 CTTAGCCCGGATATAATTACTAGCATAAATGTCC-TCGGGA
1 CTTAGCCCGGATATAACAACTTGCACAAATG-CCTTCGGGT
* *
225529216 CTTAGCCCGGATATCACAATTTGC
1 CTTAGCCCGGATATAACAACTTGC
225529240 TCATGCACAC
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 30 0.36
40 53 0.64
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (40 bp):
CTTAGCCCGGATATAACAACTTGCACAAATGCCTTCGGGT
Found at i:225531360 original size:49 final size:50
Alignment explanation
Indices: 225531280--225531521 Score: 292
Period size: 49 Copynumber: 4.9 Consensus size: 50
225531270 ATCTATTGTG
*
225531280 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
225531330 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
225531380 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
225531430 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACC-GAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATT
** * *
225531480 -GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
225531522 AATAGCCTTG
Statistics
Matches: 162, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
49 78 0.48
50 46 0.28
51 38 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:225533300 original size:29 final size:28
Alignment explanation
Indices: 225533262--225533362 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 28
225533252 TTGAGAGATT
*
225533262 GCACTGAGTGTGCGAGCTTGAAATGCATG
1 GCACTAAGTGTGCGAG-TTGAAATGCATG
225533291 GCACTAAGTGTGCGAGGTTGAAATGCATG
1 GCACTAAGTGTGCGA-GTTGAAATGCATG
* * **
225533320 GCACTAAGTGTGTGAGTTTAAAGTATATG
1 GCACTAAGTGTGCGAGTTGAAA-TGCATG
225533349 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
225533363 CGGCTGATTA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
28 6 0.09
29 57 0.89
30 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.27
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTGAAATGCATG
Found at i:225542165 original size:40 final size:39
Alignment explanation
Indices: 225542000--225542183 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
225541990 AAATTGAATG
* * *
225542000 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
225542040 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
225542080 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
225542120 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
225542159 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
225542184 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:225542208 original size:80 final size:81
Alignment explanation
Indices: 225542040--225542228 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
225542030 GCTGGAAATT
* * * *
225542040 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
225542105 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
225542121 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
225542184 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
225542200 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
225542229 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:225547694 original size:15 final size:16
Alignment explanation
Indices: 225547674--225547703 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
225547664 AAGATCTTAT
225547674 AATCATAA-CTTACCC
1 AATCATAACCTTACCC
225547689 AATCATAACCTTACC
1 AATCATAACCTTACC
225547704 GAGGGTTCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (16 bp):
AATCATAACCTTACCC
Found at i:225547959 original size:43 final size:42
Alignment explanation
Indices: 225547907--225547999 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
225547897 TTTCATGGGA
* *
225547907 TCTCATATCGATGCCAAT-TGCCCAGCTATGGTCTTACACGAAG
1 TCTCATATCGAT-CCAATAT-CCCAGATATGGTCGTACACGAAG
* * *
225547950 TCTTATATCGATCCCATATCCCAGATATGGTCGTACACGCAG
1 TCTCATATCGATCCAATATCCCAGATATGGTCGTACACGAAG
225547992 TCTCATAT
1 TCTCATAT
225548000 AGATTTCATA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 31 0.72
43 12 0.28
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (42 bp):
TCTCATATCGATCCAATATCCCAGATATGGTCGTACACGAAG
Found at i:225547979 original size:42 final size:42
Alignment explanation
Indices: 225547927--225548022 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
225547917 ATGCCAATTG
* * * *
225547927 CCCAGCTATGGTCTTACACGAAGTCTTATATCGATCCCATAT
1 CCCAGATATGGTCGTACACGAAGTCTCATATAGATCCCATAT
* **
225547969 CCCAGATATGGTCGTACACGCAGTCTCATATAGATTTCATAT
1 CCCAGATATGGTCGTACACGAAGTCTCATATAGATCCCATAT
* *
225548011 CCTAGACATGGT
1 CCCAGATATGGT
225548023 TTTATACATA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (42 bp):
CCCAGATATGGTCGTACACGAAGTCTCATATAGATCCCATAT
Found at i:225552539 original size:24 final size:24
Alignment explanation
Indices: 225552512--225552574 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
225552502 CTTATTATGT
*
225552512 TCGCAAACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
225552536 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
225552560 TCGCACACATAGTGC
1 TCGCACACATAGTGC
225552575 ATTTGAGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:225555223 original size:40 final size:40
Alignment explanation
Indices: 225555168--225555377 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
225555158 AACATTGGAA
225555168 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
225555208 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
225555248 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
225555288 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
225555327 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
225555368 CTATATCCGG
1 ATATATCCGG
225555378 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:225561976 original size:40 final size:40
Alignment explanation
Indices: 225561932--225562041 Score: 139
Period size: 40 Copynumber: 2.8 Consensus size: 40
225561922 TTCACAATTT
* *
225561932 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * * *
225561972 GCACAATTGCCTTTGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
225562012 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
225562042 ATCATTCAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 58 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:225564115 original size:40 final size:39
Alignment explanation
Indices: 225563950--225564133 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
225563940 AAATTGAATG
* * *
225563950 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
225563990 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
225564030 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
225564070 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
225564109 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
225564134 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:225564158 original size:80 final size:81
Alignment explanation
Indices: 225563990--225564178 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
225563980 GCTGGAAATT
* * * *
225563990 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
225564055 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
225564071 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
225564134 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
225564150 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
225564179 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:225572233 original size:40 final size:39
Alignment explanation
Indices: 225572068--225572251 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
225572058 AAATTGAATG
* * *
225572068 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
225572108 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
225572148 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
225572188 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
225572227 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
225572252 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:225572276 original size:80 final size:81
Alignment explanation
Indices: 225572108--225572296 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
225572098 GCTGGAAATT
* * * *
225572108 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
225572173 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
225572189 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
225572252 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
225572268 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
225572297 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:225577901 original size:17 final size:18
Alignment explanation
Indices: 225577879--225577912 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
225577869 ACGGAGCTAT
*
225577879 CGAAATTGGA-GTGGTAC
1 CGAAATTCGAGGTGGTAC
225577896 CGAAATTCGAGGTGGTA
1 CGAAATTCGAGGTGGTA
225577913 AACCCGGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.24
Consensus pattern (18 bp):
CGAAATTCGAGGTGGTAC
Found at i:225584298 original size:46 final size:47
Alignment explanation
Indices: 225584192--225584313 Score: 138
Period size: 46 Copynumber: 2.6 Consensus size: 47
225584182 TGTCTTCGAC
* * *
225584192 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCC--A-ATATATCTAAT
* * *
225584242 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATATCTAAT
* *
225584288 ATGGACTTACATGTCTCATTTCTGTC
1 ATGGACTTACATGACTCATTCCTGTC
225584314 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 33 0.52
50 30 0.48
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (47 bp):
ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATATCTAAT
Found at i:225590689 original size:15 final size:14
Alignment explanation
Indices: 225590645--225590689 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
225590635 TATTTTAAGT
225590645 TTATTTTAATTTTA
1 TTATTTTAATTTTA
*
225590659 TTTTTTTAATTATTA
1 TTATTTTAATT-TTA
225590674 TTATTTTAGATTTTA
1 TTATTTTA-ATTTTA
225590689 T
1 T
225590690 ATTAATTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
14 10 0.37
15 14 0.52
16 3 0.11
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (14 bp):
TTATTTTAATTTTA
Found at i:225591621 original size:19 final size:19
Alignment explanation
Indices: 225591576--225591615 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
225591566 TATTTTGTTA
*
225591576 TTTATTTTTATTTCATCTT
1 TTTATTTTCATTTCATCTT
225591595 TTTATTTTCATTTCATCTT
1 TTTATTTTCATTTCATCTT
225591614 TT
1 TT
225591616 ACTTTTTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTCATTTCATCTT
Found at i:225594403 original size:205 final size:203
Alignment explanation
Indices: 225593824--225594610 Score: 1166
Period size: 205 Copynumber: 3.8 Consensus size: 203
225593814 TAGGCCGTAG
* **
225593824 CATAACAGATCTGGCCTTCAAATGTTATACTGAAGCAGATCCAAGATGGTTTGATATCCTTGTGT
1 CATAACAGATCTCGCCTTCAAATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
* * *
225593889 TTACAAGGAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGATTACAATGAAGTAAATCTA
65 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTA
225593954 AGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
130 AGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGA
225594019 GAGCAGACA
195 GAGCAGACA
*
225594028 CATAACAGATCTGGCCTTCAAATGATTTCACTGAAGCAGATCCAAGATGGTTTTGGCATCCTTGT
1 CATAACAGATCTCGCCTTCAAATG-TTT-ACTGAAGCAGATCCAAGATGG-TTTGGCATCCTTGT
225594093 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATC
63 GTTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATC
* *
225594158 TAAGATGATTTGTCGTCTTTGTATTGTCAGAGAACGAATCGAAGTTTGGCATATTCACTTTGATG
128 TAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
*
225594223 GAGAGTAGACA
193 GAGAGCAGACA
* *
225594234 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAACAGATCTCGCCTTCAAATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * *
225594299 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGA-GAAAGAAAATC
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATC
* *
225594363 TAAGATGATTTGTCGTCTCTGTATCGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATA
128 TAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
225594428 GAGAGCAGACA
193 GAGAGCAGACA
* * * ** * *
225594439 CATAGCAGATCTCACATTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTTATG
1 CATAACAGATCTCGCCTTCAAATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * *
225594504 CTTACAAGGAGCAAATC-AA-ATCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATC
64 TTTACAAGGAGCAAATCGAAGA-CATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATC
* * * *
225594567 TAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATCGAAG
128 TAAGATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAG
225594611 AAATAGATTT
Statistics
Matches: 538, Mismatches: 37, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
203 2 0.00
204 105 0.20
205 237 0.44
206 194 0.36
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (203 bp):
CATAACAGATCTCGCCTTCAAATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTT
TACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAA
GATGATTTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAG
AGCAGACA
Found at i:225594778 original size:88 final size:88
Alignment explanation
Indices: 225594652--225595191 Score: 378
Period size: 88 Copynumber: 6.1 Consensus size: 88
225594642 GGGTAGATCA
* * *
225594652 AAGATAGCAGATATCG-CTTTCCTGAG-TTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 AAGATAGCAGATCT-GACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
225594715 CCTGTGCTTATAAGGAACAGATTG
65 CCTGTGCTTATAAGGAACAGATTG
* *
225594739 AAGATAGCAGATCTAACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCATGGCATCC
1 AAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCC
* *
225594804 CTGTGCTTATAGGGAACA-AGTTA
66 CTGTGCTTATAAGGAACAGA-TTG
* * * * * * * *
225594827 AAAACAGCAGATTTGACATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAAT-AG-ATCTGACA
1 AAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT-TTCAGCA--TGGCA
* * * * *
225594889 TTCATGTGCTTA-CAGTAAAGCAGATAG
63 TCCCTGTGCTTATAAG-GAA-CAGATTG
** * * * * * ** *
225594916 AAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA-CA-AGTTGAA-A-AACAGTAGATTTG
1 AAGATAGCAGATC-TGACATTCCTGTGCTTACAGTGAAGCAGA-TCGAAGATTTCAG--CA--TG
* *
225594975 GCATCCCTGTGCTTATAGGGAACAGATCG
60 GCATCCCTGTGCTTATAAGGAACAGATTG
*
225595004 AAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAAATCGAAGATTTCAGCATGGCATCC
1 AAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCC
*
225595069 CTGTGTTTATAAGGAACA-AGTTG
66 CTGTGCTTATAAGGAACAGA-TTG
* * * * * * * ***
225595092 AAGATAGCAGATTTGGCATCCCTGTGTTTATAGGGAA-CA-AGTTGAAGACAGCAG-ATTTGGCA
1 AAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGA-TCGAAGATTTCAGCA--TGGCA
* * *
225595154 TCCCTGTGTTTATAGGGAACAGATCG
63 TCCCTGTGCTTATAAGGAACAGATTG
225595180 AAGA-AGCAGATC
1 AAGATAGCAGATC
225595192 GAAGAACTCA
Statistics
Matches: 360, Mismatches: 66, Indels: 54
0.75 0.14 0.11
Matches are distributed among these distances:
85 1 0.00
86 5 0.01
87 58 0.16
88 233 0.65
89 48 0.13
90 10 0.03
91 2 0.01
92 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (88 bp):
AAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCC
CTGTGCTTATAAGGAACAGATTG
Found at i:225594807 original size:44 final size:43
Alignment explanation
Indices: 225594678--225595183 Score: 294
Period size: 44 Copynumber: 11.5 Consensus size: 43
225594668 CTTTCCTGAG
* *
225594678 TTACAGTGAAGCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGC
1 TTACAGGGAA-CAGATCGAAGATATCAG-ATTGGCATCCCTGTGC
* * * * ** *
225594722 TTATAAGGAACAGATTGAAGATAGCAGATCTAACATTCCTGTGC
1 TTACAGGGAACAGATCGAAGATATCAGAT-TGGCATCCCTGTGC
** *
225594766 TTACAGTAAAGCAGATCGAAGATTTCAGCA-TGGCATCCCTGTGC
1 TTACAGGGAA-CAGATCGAAGATATCAG-ATTGGCATCCCTGTGC
* ** * * * *
225594810 TTATAGGGAACA-AGTTAAAAACAGCAGATTTGACATCCCTGTGC
1 TTACAGGGAACAGA-TCGAAGATATCAGA-TTGGCATCCCTGTGC
* * * *
225594854 TTATAGGGAACAGATCGAAGATAAT-AGATCTGACATTCATGTGC
1 TTACAGGGAACAGATCGAAGAT-ATCAGAT-TGGCATCCCTGTGC
** * *
225594898 TTACAGTAAAGCAGATAGAAGATTTCAGCA-TGGCATCCCTGTGC
1 TTACAGGGAA-CAGATCGAAGATATCAG-ATTGGCATCCCTGTGC
* * * *
225594942 TTATAGGGAACA-AGTTGAAAAACAGT-AGATTTGGCATCCCTGTGC
1 TTACAGGGAACAGA-TCG-AAGATA-TCAGA-TTGGCATCCCTGTGC
* * * *
225594987 TTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGC
1 TTACAGGGAACAGATCGAAGATATCAGAT-TGGCATCCCTGTGC
* * * *
225595031 TTACAGTGAAGCAAATCGAAGATTTCAGCA-TGGCATCCCTGTGT
1 TTACAGGGAA-CAGATCGAAGATATCAG-ATTGGCATCCCTGTGC
* * * * *
225595075 TTATAAGGAACA-AGTTGAAGATAGCAGATTTGGCATCCCTGTGT
1 TTACAGGGAACAGA-TCGAAGATATCAGA-TTGGCATCCCTGTGC
* * * * *
225595119 TTATAGGGAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGT
1 TTACAGGGAACAGA-TCGAAGATATCAGA-TTGGCATCCCTGTGC
*
225595163 TTATAGGGAACAGATCGAAGA
1 TTACAGGGAACAGATCGAAGA
225595184 AGCAGATCGA
Statistics
Matches: 361, Mismatches: 74, Indels: 54
0.74 0.15 0.11
Matches are distributed among these distances:
42 6 0.02
43 42 0.12
44 236 0.65
45 73 0.20
46 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (43 bp):
TTACAGGGAACAGATCGAAGATATCAGATTGGCATCCCTGTGC
Found at i:225594890 original size:132 final size:132
Alignment explanation
Indices: 225594708--225595183 Score: 686
Period size: 132 Copynumber: 3.6 Consensus size: 132
225594698 GATTTCAGCA
* * *
225594708 TGGCATCCCTGTGCTTATAAGGAACAGATTGAAGATAGCAGATCTAACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
225594773 AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTAAAAACAGCAGA
66 AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTAAAAACAGCAGA
225594838 TT
131 TT
* ** *
225594840 TGACATCCCTGTGCTTATAGGGAACAGATCGAAGATAATAGATCTGACATTCATGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* *
225594905 AAAGCAGATAGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGTAG
66 AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTT-AAAAACAGCAG
225594970 ATT
130 ATT
225594973 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
* * * * * * *
225595038 GAAGCAAATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAAGGAACAAGTTGAAGATAGCAGA
66 AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTAAAAACAGCAGA
225595103 TT
131 TT
* * * * * * * *
225595105 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGACAGCAGATTTGGCATCCCTGTGTTTATAG
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAG
**
225595169 GGAA-CAGATCGAAGA
65 TAAAGCAGATCGAAGA
225595184 AGCAGATCGA
Statistics
Matches: 310, Mismatches: 32, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
131 11 0.04
132 177 0.57
133 122 0.39
ACGTcount: A:0.32, C:0.18, G:0.24, T:0.26
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTAAAAACAGCAGA
TT
Found at i:225595191 original size:13 final size:13
Alignment explanation
Indices: 225595173--225595197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
225595163 TTATAGGGAA
225595173 CAGATCGAAGAAG
1 CAGATCGAAGAAG
225595186 CAGATCGAAGAA
1 CAGATCGAAGAA
225595198 CTCAAAACTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.28, T:0.08
Consensus pattern (13 bp):
CAGATCGAAGAAG
Found at i:225595673 original size:22 final size:23
Alignment explanation
Indices: 225595641--225595697 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
225595631 GTAAGGGGGG
*
225595641 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATTGTATTTTGAGGAGAGA
*
225595663 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATTGTATTTTGAGGAGAGA
**
225595686 AGAGATTGTATT
1 ATCGATTGTATT
225595698 AGAGGGGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.30, C:0.04, G:0.32, T:0.35
Consensus pattern (23 bp):
ATCGATTGTATTTTGAGGAGAGA
Found at i:225595692 original size:23 final size:22
Alignment explanation
Indices: 225595648--225595697 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
225595638 GGGATCGATG
**
225595648 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
225595670 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
225595693 GTATT
1 GTATT
225595698 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:225596414 original size:39 final size:40
Alignment explanation
Indices: 225596304--225596458 Score: 242
Period size: 39 Copynumber: 3.9 Consensus size: 40
225596294 ATAAAGTATG
* *
225596304 GTTTTAATTAATAATAAAAATAAAATAGTATGGGGGAATT
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
225596344 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
**
225596384 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGCGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
225596423 GTTTTAATTAATAAT-AAAACAAAGTAGCATGGGGGA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGA
225596459 GTGGAATCAG
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 55 0.51
40 53 0.49
ACGTcount: A:0.46, C:0.03, G:0.19, T:0.31
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:225596427 original size:79 final size:79
Alignment explanation
Indices: 225596304--225596458 Score: 240
Period size: 79 Copynumber: 2.0 Consensus size: 79
225596294 ATAAAGTATG
* *
225596304 GTTTTAATTAATAATAAAAATAAAATAGTATGGGGGAATTGTTTTAATTAATAATAAAAACAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAAT-AAAACAAAA
*
225596369 TAGTATGGGGGAATA
65 TAGCATGGGGGAATA
** *
225596384 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGCGTAGTTTTAATTAATAATAAAACAAAGT
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAACAAAAT
225596448 AGCATGGGGGA
66 AGCATGGGGGA
225596459 GTGGAATCAG
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
78 19 0.28
79 35 0.51
80 15 0.22
ACGTcount: A:0.46, C:0.03, G:0.19, T:0.31
Consensus pattern (79 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAACAAAAT
AGCATGGGGGAATA
Found at i:225600946 original size:15 final size:15
Alignment explanation
Indices: 225600926--225600956 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
225600916 TTTACTTTCC
225600926 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
225600941 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
225600956 A
1 A
225600957 AAATCTGGAA
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:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:225609880 original size:30 final size:30
Alignment explanation
Indices: 225609844--225609944 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
225609834 GACAAGATTG
* * *
225609844 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
225609874 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
225609902 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
225609931 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
225609945 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:225609956 original size:29 final size:28
Alignment explanation
Indices: 225609873--225609948 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
225609863 AAAATTGTAC
* *
225609873 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
225609901 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
225609930 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
225609949 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:225617767 original size:30 final size:30
Alignment explanation
Indices: 225617731--225617831 Score: 118
Period size: 28 Copynumber: 3.5 Consensus size: 30
225617721 GACAAGATTG
* * *
225617731 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
225617761 GCACTAAGTGTGCGAGTTT--GATTCTATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
* *
225617789 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGTTTAAAATTATATA
225617818 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
225617832 GATTCACTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.38
29 19 0.31
30 19 0.31
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTTAAAATTATATA
Found at i:225617843 original size:29 final size:28
Alignment explanation
Indices: 225617760--225617835 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 28
225617750 AAAATTGTAC
* *
225617760 AGCACTAAGTGTGCGAGTTTGAT-TCTAT
1 AGCACTAAGTGTGCG-GATTGATATATAT
* *
225617788 AGCACTAAGTGTGC-GAGCTGAAAATATAT
1 AGCACTAAGTGTGCGGA-TTG-ATATATAT
225617817 AGCACTAAGTGTGCGGATT
1 AGCACTAAGTGTGCGGATT
225617836 CACTATATGC
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.03
27 2 0.05
28 15 0.38
29 19 0.49
30 2 0.05
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGGATTGATATATAT
Found at i:225621224 original size:22 final size:23
Alignment explanation
Indices: 225621182--225621224 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
225621172 CTTACGAAAC
*
225621182 TCCTTTGCTCCTATATTAGCTTT
1 TCCTTTGCTCCTATATGAGCTTT
225621205 TCCTTT-CTCCT-TACTGAGCT
1 TCCTTTGCTCCTATA-TGAGCT
225621225 CTTCGGCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 2 0.11
22 10 0.56
23 6 0.33
ACGTcount: A:0.12, C:0.30, G:0.09, T:0.49
Consensus pattern (23 bp):
TCCTTTGCTCCTATATGAGCTTT
Found at i:225624231 original size:70 final size:71
Alignment explanation
Indices: 225624080--225624242 Score: 310
Period size: 70 Copynumber: 2.3 Consensus size: 71
225624070 GAGATGTATC
225624080 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
225624145 AGGACA
66 AGGACA
225624151 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
225624215 CGGACA
66 AGGACA
225624221 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
225624243 AGACAAATCG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
70 51 0.56
71 40 0.44
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:225635043 original size:24 final size:24
Alignment explanation
Indices: 225635004--225635057 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
225634994 CCGGTTAGGT
* * *
225635004 TCCCGGCGGTGCTCCGACGATCCA
1 TCCCGGCGATGATCCGACGAGCCA
*
225635028 TCCCGGCGATGATCCGGCGAGCCA
1 TCCCGGCGATGATCCGACGAGCCA
225635052 TCCCGG
1 TCCCGG
225635058 GATACACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.41, G:0.31, T:0.15
Consensus pattern (24 bp):
TCCCGGCGATGATCCGACGAGCCA
Found at i:225635169 original size:58 final size:59
Alignment explanation
Indices: 225635091--225635211 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 59
225635081 CCCTCCCCAA
* *
225635091 TCCCAAAAGGTAGAATTCGGACACCGTTACATGTTCGGTACCCAATAACGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGACACCGTTACATGTCCGGTACCCAACAACGAATGAATCG
* * * *
225635150 TCCC-AAAGGTAGGATTCGGATACCGTTGCATGTCCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGACACCGTTACATGTCCGGTACCCAACAACGAATGAATCG
225635208 TCCC
1 TCCC
225635212 TGTCCCTCCC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 52 0.93
59 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (59 bp):
TCCCAAAAGGTAGAATTCGGACACCGTTACATGTCCGGTACCCAACAACGAATGAATCG
Found at i:225635633 original size:24 final size:24
Alignment explanation
Indices: 225635606--225635659 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
225635596 CCGGTTAGGT
*
225635606 TCCCGGCGGTGCTCCGGCGATCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
225635630 TCCCGGCGGTGCTCCGGCGAGCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
225635654 TCCCGG
1 TCCCGG
225635660 AATATCGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.07, C:0.43, G:0.35, T:0.15
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGCGAGCCA
Found at i:225636328 original size:23 final size:23
Alignment explanation
Indices: 225636302--225636372 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
225636292 GCACCACCGG
225636302 GAACCTAGGCCTTGATCGTGCGA
1 GAACCTAGGCCTTGATCGTGCGA
* * ***
225636325 GAACCTCGGGCACCATCG-GC--
1 GAACCTAGGCCTTGATCGTGCGA
225636345 -AACCTAGGCCTTGATCGTGCGA
1 GAACCTAGGCCTTGATCGTGCGA
225636367 GAACCT
1 GAACCT
225636373 CGGGCACCAT
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
19 12 0.35
20 2 0.06
22 2 0.06
23 18 0.53
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (23 bp):
GAACCTAGGCCTTGATCGTGCGA
Found at i:225636384 original size:23 final size:23
Alignment explanation
Indices: 225636316--225636384 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
225636306 CTAGGCCTTG
225636316 ATCGTGCGAGAACCTCGGGCACC
1 ATCGTGCGAGAACCTCGGGCACC
* * ***
225636339 ATCG-GC---AACCTAGGCCTTG
1 ATCGTGCGAGAACCTCGGGCACC
225636358 ATCGTGCGAGAACCTCGGGCACC
1 ATCGTGCGAGAACCTCGGGCACC
225636381 ATCG
1 ATCG
225636385 GCACCTTGGT
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 12 0.38
20 2 0.06
22 2 0.06
23 16 0.50
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (23 bp):
ATCGTGCGAGAACCTCGGGCACC
Found at i:225636458 original size:43 final size:43
Alignment explanation
Indices: 225635846--225636562 Score: 870
Period size: 42 Copynumber: 16.9 Consensus size: 43
225635836 CACATTGCTG
* * * * * *
225635846 CTTGGACGTGCAGGAGCCTTGGACGCCATCGGCAACCTAGGAC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* *
225635889 GTTTGTCGTGCGGGAGCCTCGGGCACCATCGG-AACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* *
225635931 CTTGGTCGTGCGAGAGCCTAGGGCACCATCGG-AACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * *
225635973 CCTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
225636016 CTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * * *
225636059 CCTGGTCATGCGAGAGCCTCGAGCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
225636101 CCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
225636144 CTTGGTCGTGCGAGAGCCTCGGG-ACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
225636185 CTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
225636227 CTTGGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * *
225636270 CCTGGTCGTGCGGGAGCCTCGGGCACCACCGGGAACCTAGG-C
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * *
225636312 CTTGATCGTGCGAGAACCTCGGGCACCATCGGCAACCTAGG-C
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * * * **
225636354 CTTGATCGTGCGAGAACCTCGGGCACCATCGGC-ACCTTGGTG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
** *
225636396 CTTGGAT-GTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
* * *
225636439 CTTGGTCGTGCGGGAGCCTCGGGCACCACCGGC-ACCTTGGTGC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CC
* * * * **
225636482 CTTGGAT-GTGCGGGAGCCTCGAGCAGCATTGGC-ACCTTGGTG
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
*
225636524 CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTA
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTA
225636563 TGACGTTGGG
Statistics
Matches: 594, Mismatches: 67, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
41 36 0.06
42 304 0.51
43 253 0.43
44 1 0.00
ACGTcount: A:0.16, C:0.34, G:0.33, T:0.17
Consensus pattern (43 bp):
CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
Found at i:225636602 original size:85 final size:85
Alignment explanation
Indices: 225635846--225636591 Score: 843
Period size: 85 Copynumber: 8.8 Consensus size: 85
225635836 CACATTGCTG
* * * * * * * * *
225635846 CTTGGACGTGCAGGAGCCTTGGACGCCATCGGCAACCTAGGACGTTTGTCGTGCGGGAGCCTCGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
*
225635911 GCACCATCGGAACCTAGGCC
66 GCACCATCGGCACCTAGGCC
* * *
225635931 CTTGGTCGTGCGAGAGCCTAGGGCACCATCGG-AACCTAGGCCCCTGGTCGTGCGGGAGCCTCG-
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
*
225635994 GCCACCATCGGCAACCTAGGCG
66 G-CACCATCGGC-ACCTAGGCC
* * * *
225636016 CTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCCCCTGGTCATGCGAGAGCCTCGA
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
225636081 GCACCATCGGCACCTAGGCC
66 GCACCATCGGCACCTAGGCC
* *
225636101 CCTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGAGAGCCTCG-
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
*
225636165 GGACCATCGGCACCTAGGCC
66 GCACCATCGGCACCTAGGCC
*
225636185 CTTGGTCGTGCGGGAGCCTCGGCCACCATCGGC-ACCTAGGCCCTTGGAT-GTGCGGGAGCCTCG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG
*
225636248 GGCACCATCGGCAACCTAGGCC
65 AGCACCATCGGC-ACCTAGGCC
* * * * * * *
225636270 CCTGGTCGTGCGGGAGCCTCGGGCACCACCGGGAACCTAGG-CCTTGATCGTGCGAGAACCTCGG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
225636334 GCACCATCGGCAACCTAGG-C
66 GCACCATCGGC-ACCTAGGCC
* * * * **
225636354 CTTGATCGTGCGAGAACCTCGGGCACCATCGGC-ACCTTGGTGCTTGGAT-GTGCGGGAGCCTCG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGG-TCGTGCGGGAGCCTCG
* *
225636417 AACACCATCGGCAACCTCGGCC
65 AGCACCATCGGC-ACCTAGGCC
* * *
225636439 CTTGGTCGTGCGGGAGCCTCGGGCACCACCGGC-ACCTTGGTGCCTTGGAT-GTGCGGGAGCCTC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGG-TCGTGCGGGAGCCTC
* * * **
225636502 GAGCAGCATTGGCACCTTGGTG
64 GAGCACCATCGGCACCTAGGCC
* * * * *
225636524 CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTATGACGTTGGGT-GTGCGGGTGCCTC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTT-GGTCGTGCGGGAGCCTC
225636587 GAGCA
64 GAGCA
225636592 GCAGGGGCAC
Statistics
Matches: 578, Mismatches: 67, Indels: 32
0.85 0.10 0.05
Matches are distributed among these distances:
83 34 0.06
84 159 0.28
85 300 0.52
86 84 0.15
87 1 0.00
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.17
Consensus pattern (85 bp):
CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGTCGTGCGGGAGCCTCGA
GCACCATCGGCACCTAGGCC
Found at i:225636620 original size:43 final size:43
Alignment explanation
Indices: 225635980--225636623 Score: 322
Period size: 43 Copynumber: 15.2 Consensus size: 43
225635970 GCCCCTGGTC
* *
225635980 GTGCGGGAGCCTCG-GCCACCATCGGCAACCTAGG-CGCTTGG-T
1 GTGCGGGAGCCTCGAG-CACCATCGGCACCCT-GGTGGCTTGGAT
* ** *
225636022 CGTGCGGGAGCCTCG-GCCACCATCGGCAACCTAGG-CCCCTGG-T
1 -GTGCGGGAGCCTCGAG-CACCATCGGCACCCT-GGTGGCTTGGAT
* * ** *
225636065 CATGCGAGAGCCTCGAGCACCATCGGCA-CCTAGG-CCCCTGG-T
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCT-GGTGGCTTGGAT
* * **
225636107 CGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCTTGG-T
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCT-GGTGGCTTGGAT
* * **
225636150 CGTGCGAGAGCCTCG-GGACCATCGGCA-CCTAGG-CCCTTGG-T
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCT-GGTGGCTTGGAT
**
225636191 CGTGCGGGAGCCTCG-GCCACCATCGGCA-CCTAGG-CCCTTGGAT
1 -GTGCGGGAGCCTCGAG-CACCATCGGCACCCT-GGTGGCTTGGAT
* * ** *
225636234 GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGG-CCCCTGG-T
1 GTGCGGGAGCCTCGAGCACCATCGGCACCCT-GGTGGCTTGGAT
* * * * * *
225636276 CGTGCGGGAGCCTCGGGCACCACCGGGAACCTAG-GCCTT-GAT
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * * * * *
225636318 CGTGCGAGAACCTCGGGCACCATCGGCAACCTAG-GCCTT-GAT
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * * *
225636360 CGTGCGAGAACCTCGGGCACCATCGGCACCTTGGT-GCTTGGAT
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * **
225636403 GTGCGGGAGCCTCGAACACCATCGGCAACCTCGG-CCCTTGG-T
1 GTGCGGGAGCCTCGAGCACCATCGGCACCCT-GGTGGCTTGGAT
* * * *
225636445 CGTGCGGGAGCCTCGGGCACCACCGGCACCTTGGTGCCTTGGAT
1 -GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * *
225636489 GTGCGGGAGCCTCGAGCAGCATTGGCACCTTGGT-GCTTGGAT
1 GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
* * * *
225636531 GTGCGGGAGCCTCG-GACACCATCGGCAACCT-ATGACGTTGGGT
1 GTGCGGGAGCCTCGAG-CACCATCGGCACCCTGGTGGC-TTGGAT
* * ** *
225636574 GTGCGGGTGCCTCGAGCAGCAGGGGCACCCTGGTGGCTCGGAT
1 GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
225636617 GTGCGGG
1 GTGCGGG
225636624 CTAAAGAAAA
Statistics
Matches: 521, Mismatches: 60, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
41 32 0.06
42 237 0.45
43 246 0.47
44 6 0.01
ACGTcount: A:0.15, C:0.33, G:0.35, T:0.17
Consensus pattern (43 bp):
GTGCGGGAGCCTCGAGCACCATCGGCACCCTGGTGGCTTGGAT
Found at i:225650181 original size:24 final size:24
Alignment explanation
Indices: 225650142--225650195 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
225650132 CCGGTTAGGT
* * *
225650142 TCCCGGCGGTGCTCCGACGATCCA
1 TCCCGGCGATGATCCGACGAGCCA
*
225650166 TCCCGGCGATGATCCGGCGAGCCA
1 TCCCGGCGATGATCCGACGAGCCA
225650190 TCCCGG
1 TCCCGG
225650196 GATACACAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.13, C:0.41, G:0.31, T:0.15
Consensus pattern (24 bp):
TCCCGGCGATGATCCGACGAGCCA
Found at i:225650307 original size:58 final size:59
Alignment explanation
Indices: 225650229--225650349 Score: 181
Period size: 58 Copynumber: 2.1 Consensus size: 59
225650219 CCCTCCCCAA
* *
225650229 TCCCAAAAGGTAGAATTCGGACACCGTTACATGTTCGGTACCCAATAACGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGACACCGTTACATGTCCGGTACCCAACAACGAATGAATCG
* * * *
225650288 TCCC-AAAGGTAGGATTCGGATACCGTTGCATGTCCGGTACCCAACAATGAATGAATCG
1 TCCCAAAAGGTAGAATTCGGACACCGTTACATGTCCGGTACCCAACAACGAATGAATCG
225650346 TCCC
1 TCCC
225650350 TGTCCCTCCC
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
58 52 0.93
59 4 0.07
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (59 bp):
TCCCAAAAGGTAGAATTCGGACACCGTTACATGTCCGGTACCCAACAACGAATGAATCG
Found at i:225650772 original size:24 final size:24
Alignment explanation
Indices: 225650745--225650798 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
225650735 CCGGTTAGGT
*
225650745 TCCCGGCGGTGCTCCGGCGATCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
225650769 TCCCGGCGGTGCTCCGGCGAGCCA
1 TCCCGGCGGTGCTCCGGCGAGCCA
225650793 TCCCGG
1 TCCCGG
225650799 AATATCGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.07, C:0.43, G:0.35, T:0.15
Consensus pattern (24 bp):
TCCCGGCGGTGCTCCGGCGAGCCA
Found at i:225651078 original size:42 final size:42
Alignment explanation
Indices: 225650985--225651697 Score: 791
Period size: 42 Copynumber: 16.9 Consensus size: 42
225650975 CACATTGCTG
* * * * * *
225650985 CTTGGACGTGCAGGAGCCTTGGACGCCATCGGCAACCTAGGAC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-AACCTAGGCC
* *
225651028 GTTTGTCGTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
* *
225651070 CTTGGTCGTGCGAGAGCCTAGGGCACCATCGGAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
* * *
225651112 CCTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-AACCTAGGCC
*
225651155 CTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-AACCTAGGCC
* * * *
225651198 C-TGGTCATGCGAGAGCCTCGAGCACCATCGGCACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
225651239 C-TGGTCGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-AACCTAGGCC
* *
225651281 CTTGGTCGTGCGAGAGCCTCGGG-ACCATCGGCACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
* *
225651322 CTTGGTCGTGCGGGAGCCTCGGCCACCATCGGCACCTAGGCC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
225651364 CTTGGAT-GTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGG-AACCTAGGCC
*
225651407 C-TGGTCGTGCGGGAGCCTCGGGCACCACCGGGAACCTAGG-C
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATC-GGAACCTAGGCC
* * *
225651448 CTTGATCGTGCGAGAACCTCGGGCACCATCGGCAACCTAGG-C
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGG-AACCTAGGCC
* * * * * **
225651490 CTTGATCGTGCGAGAACCTCGGGCACCATCGGCA-CTTGGTG
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
** *
225651531 CTTGGAT-GTGCGGGAGCCTCGAACACCATCGGCAACCTCGGCC
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGG-AACCTAGGCC
* * * *
225651574 CTTGGTCGTGCGGGAGCCTCGGGCACCACCGGCACCTTGGTGC
1 CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAACCTAGG-CC
* * * * * **
225651617 CTTGGAT-GTGCGGGAGCCTCGAGCAGCATTGGCACCTTGGTG
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
*
225651659 CTTGGAT-GTGCGGGAGCCTCGGACACCATCGGCAACCTA
1 CTTGG-TCGTGCGGGAGCCTCGGGCACCATCGG-AACCTA
225651698 TGACGTTGGG
Statistics
Matches: 583, Mismatches: 69, Indels: 36
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.01
41 98 0.17
42 301 0.52
43 179 0.31
44 1 0.00
ACGTcount: A:0.16, C:0.33, G:0.34, T:0.17
Consensus pattern (42 bp):
CTTGGTCGTGCGGGAGCCTCGGGCACCATCGGAACCTAGGCC
Found at i:225651464 original size:23 final size:23
Alignment explanation
Indices: 225651438--225651508 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 23
225651428 GCACCACCGG
225651438 GAACCTAGGCCTTGATCGTGCGA
1 GAACCTAGGCCTTGATCGTGCGA
* * ***
225651461 GAACCTCGGGCACCATCG-GC--
1 GAACCTAGGCCTTGATCGTGCGA
225651481 -AACCTAGGCCTTGATCGTGCGA
1 GAACCTAGGCCTTGATCGTGCGA
225651503 GAACCT
1 GAACCT
225651509 CGGGCACCAT
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
19 12 0.35
20 2 0.06
22 2 0.06
23 18 0.53
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (23 bp):
GAACCTAGGCCTTGATCGTGCGA
Found at i:225651520 original size:23 final size:23
Alignment explanation
Indices: 225651452--225651520 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
225651442 CTAGGCCTTG
225651452 ATCGTGCGAGAACCTCGGGCACC
1 ATCGTGCGAGAACCTCGGGCACC
* * ***
225651475 ATCG-GC---AACCTAGGCCTTG
1 ATCGTGCGAGAACCTCGGGCACC
225651494 ATCGTGCGAGAACCTCGGGCACC
1 ATCGTGCGAGAACCTCGGGCACC
225651517 ATCG
1 ATCG
225651521 GCACTTGGTG
Statistics
Matches: 32, Mismatches: 10, Indels: 8
0.64 0.20 0.16
Matches are distributed among these distances:
19 12 0.38
20 2 0.06
22 2 0.06
23 16 0.50
ACGTcount: A:0.22, C:0.33, G:0.29, T:0.16
Consensus pattern (23 bp):
ATCGTGCGAGAACCTCGGGCACC
Found at i:225660745 original size:38 final size:38
Alignment explanation
Indices: 225660687--225660794 Score: 182
Period size: 38 Copynumber: 2.8 Consensus size: 38
225660677 TCAATCATGC
225660687 ACTGGGCC-ATAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGA-AG-CCTTTTCATATTTCATATTTCATAAT
*
225660726 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
225660764 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATT
225660795 ACTGGGCCGA
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
38 55 0.83
39 10 0.15
40 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:225660752 original size:31 final size:31
Alignment explanation
Indices: 225660710--225660811 Score: 132
Period size: 31 Copynumber: 3.1 Consensus size: 31
225660700 CCTTTTCATA
225660710 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
225660747 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
225660779 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
225660810 TT
1 TT
225660812 ACTGTAAACG
Statistics
Matches: 63, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
31 32 0.51
32 1 0.02
33 1 0.02
37 1 0.02
38 28 0.44
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:225661048 original size:24 final size:24
Alignment explanation
Indices: 225661002--225661119 Score: 154
Period size: 23 Copynumber: 5.0 Consensus size: 24
225660992 GCTTTATCAT
*
225661002 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
225661027 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
225661051 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
225661074 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTA
225661097 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
225661120 TCACTTCCTC
Statistics
Matches: 85, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
22 3 0.04
23 40 0.47
24 29 0.34
25 13 0.15
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:225661195 original size:20 final size:20
Alignment explanation
Indices: 225661170--225661209 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
225661160 TATGATTACC
225661170 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
225661190 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
225661210 CCATATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:225668822 original size:31 final size:31
Alignment explanation
Indices: 225668784--225668877 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
225668774 CCTTTTCATA
225668784 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
225668815 TTTCATATTTCATAA-ACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
225668845 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
225668876 TT
1 TT
225668878 ACTGTAAACG
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
30 29 0.48
31 32 0.52
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:225669133 original size:24 final size:24
Alignment explanation
Indices: 225669069--225669186 Score: 170
Period size: 23 Copynumber: 5.0 Consensus size: 24
225669059 GCTTTATCAT
*
225669069 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
225669094 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
225669117 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
225669140 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
225669164 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
225669187 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 40 0.46
24 39 0.45
25 8 0.09
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:225669158 original size:47 final size:47
Alignment explanation
Indices: 225669069--225669186 Score: 168
Period size: 47 Copynumber: 2.5 Consensus size: 47
225669059 GCTTTATCAT
*
225669069 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAGCCCTTTCA
**
225669117 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCA-AAGCCCTTTCA
225669164 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
225669187 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
46 12 0.18
47 41 0.63
48 12 0.18
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAGCCCTTTCA
Found at i:225669262 original size:20 final size:20
Alignment explanation
Indices: 225669237--225669296 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
225669227 TATGATTACC
225669237 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
225669257 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
225669277 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
225669297 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:225669267 original size:11 final size:11
Alignment explanation
Indices: 225669237--225669291 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
225669227 TATGATTACC
225669237 TCATGTGCATA
1 TCATGTGCATA
*
225669248 TCA--TACATA
1 TCATGTGCATA
225669257 TCATGTGCATA
1 TCATGTGCATA
* *
225669268 TCA--TACATT
1 TCATGTGCATA
225669277 TCATGTGCATA
1 TCATGTGCATA
225669288 TCAT
1 TCAT
225669292 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:225673396 original size:30 final size:30
Alignment explanation
Indices: 225673362--225673422 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
225673352 TCCTTAACTC
225673362 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
225673392 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
225673422 A
1 A
225673423 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:225677798 original size:30 final size:30
Alignment explanation
Indices: 225677764--225677824 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
225677754 TCCTTAACTC
225677764 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
225677794 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
225677824 A
1 A
225677825 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:225682908 original size:27 final size:27
Alignment explanation
Indices: 225682878--225682939 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
225682868 TAATATCACC
*
225682878 ATATATTTATTTTCAAC-ATA-TATGT
1 ATATATATATTTTCAACTATATTATGT
*
225682903 ATATATATATTTTTAACTATATTATGT
1 ATATATATATTTTCAACTATATTATGT
225682930 AT-TACTATAT
1 ATATA-TATAT
225682940 CTACATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 15 0.47
26 5 0.16
27 12 0.38
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.53
Consensus pattern (27 bp):
ATATATATATTTTCAACTATATTATGT
Found at i:225683181 original size:25 final size:26
Alignment explanation
Indices: 225683165--225683223 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
225683155 ATACTTCAAG
225683165 CACTATATATATA-ATATATCTCTAA
1 CACTATATATATATATATATCTCTAA
* * *
225683190 CACTATGTATATATATATATTTCTTA
1 CACTATATATATATATATATCTCTAA
225683216 CA-TATATA
1 CACTATATA
225683224 CACTTAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 17 0.59
26 12 0.41
ACGTcount: A:0.41, C:0.14, G:0.02, T:0.44
Consensus pattern (26 bp):
CACTATATATATATATATATCTCTAA
Found at i:225696415 original size:171 final size:171
Alignment explanation
Indices: 225696169--225696589 Score: 584
Period size: 171 Copynumber: 2.5 Consensus size: 171
225696159 GATTGAAAAT
* * * * *
225696169 TTACAAATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGATGACGAGACCATAAACCCCTA
1 TTACAGATCTTAACACCCTAAGCAGTAGGG-AACAGATCGAAGACGAAGAGACCATAAACCCCTA
**
225696234 AGCAGTAGGGTAACGGGTTGAACTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
65 AGCAGTAGGGTAACAAGTTGAACTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
225696299 ACGAAGAACCTTAAACCCCTAAGCAGTAGGGTAACAGGTTGAA
130 ACGAAGAACCTTAAA-CCCTAAGCAGTAGGGTAACAGGTTGAA
* * * * *
225696342 TTGCAGATCTTATCTCCCTAAGCAGTAGTGG-GCAGATCGAAGACGAAGA-ACCTTAAACCCCTA
1 TTACAGATCTTAACACCCTAAGCAGTAG-GGAACAGATCGAAGACGAAGAGACCATAAACCCCTA
*
225696405 AGCAGTAGGGTAACAAGTTGAATTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
65 AGCAGTAGGGTAACAAGTTGAACTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAG
225696470 ACGAAGAACCTTAAACCCTAAGCAGTAGGGTAACAGGTTGAA
130 ACGAAGAACCTTAAACCCTAAGCAGTAGGGTAACAGGTTGAA
* * * *
225696512 TTACAGATC-TAAAACCCTAAGCAGTAGGGAAACAGATCAAAGATGACA-AG-CC-TGAATCCCC
1 TTACAGATCTTAACACCCTAAGCAGTAGGG-AACAGATCGAAGACGA-AGAGACCAT-AAACCCC
*
225696573 TAAACAGTAGGGTAACA
63 TAAGCAGTAGGGTAACA
225696590 GGCTGGAAAT
Statistics
Matches: 221, Mismatches: 21, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
168 2 0.01
169 16 0.07
170 72 0.33
171 91 0.41
172 14 0.06
173 24 0.11
174 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (171 bp):
TTACAGATCTTAACACCCTAAGCAGTAGGGAACAGATCGAAGACGAAGAGACCATAAACCCCTAA
GCAGTAGGGTAACAAGTTGAACTGCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
CGAAGAACCTTAAACCCTAAGCAGTAGGGTAACAGGTTGAA
Found at i:225696419 original size:85 final size:86
Alignment explanation
Indices: 225696175--225696591 Score: 567
Period size: 85 Copynumber: 4.9 Consensus size: 86
225696165 AAATTTACAA
* * * * * * *
225696175 ATCTTAACCCCCTAAGCAGTAG-GGAAACAGATTGAAGATGACGAGACCATAAACCCCTAAGCAG
1 ATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGAAGA-ACCTTAAACCCCTAAGCAG
* *
225696239 TAGGGTAACGGGTTGAACTGCAG
64 TAGGGTAACAGGTTGAATTGCAG
225696262 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTA
225696327 GGGTAACAGGTTGAATTGCAG
66 GGGTAACAGGTTGAATTGCAG
225696348 ATCTTATCTCCCTAAGCAGTAGTGG-GCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTA
*
225696412 GGGTAACAAGTTGAATTGCAG
66 GGGTAACAGGTTGAATTGCAG
225696433 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAA-CCCTAAGCAGTA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTA
*
225696497 GGGTAACAGGTTGAATTACAG
66 GGGTAACAGGTTGAATTGCAG
*** * * * * * * *
225696518 ATC-TAAAACCCTAAGCAGTAG-GGAAACAGATCAAAGATGACA-AGCCTGAATCCCCTAAACAG
1 ATCTTATCTCCCTAAGCAGTAGTGG-AGCAGATCGAAGACGA-AGAACCTTAAACCCCTAAGCAG
225696580 TAGGGTAACAGG
64 TAGGGTAACAGG
225696592 CTGGAAATTA
Statistics
Matches: 303, Mismatches: 22, Indels: 12
0.90 0.07 0.04
Matches are distributed among these distances:
83 2 0.01
84 34 0.11
85 140 0.46
86 90 0.30
87 35 0.12
88 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (86 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAGAACCTTAAACCCCTAAGCAGTA
GGGTAACAGGTTGAATTGCAG
Found at i:225698115 original size:35 final size:35
Alignment explanation
Indices: 225698048--225698215 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
225698038 TCCTCATTGA
*** *
225698048 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
225698084 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
225698124 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
225698159 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
225698194 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
225698216 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:225698174 original size:75 final size:73
Alignment explanation
Indices: 225698043--225698215 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
225698033 GGTTTTCCTC
*** * * **
225698043 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
225698108 TCAGTATGG
65 TCAGTATGG
*
225698117 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
225698181 ACTCAGTATGG
63 ACTCAGTATGG
225698192 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
225698216 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Done.