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 95 of 770
Found at i:27825598 original size:27 final size:27
Alignment explanation
Indices: 27825582--27825688 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
27825572 TTTTACCTTA
* *
27825582 CAGGGGTATTTTAGTAATTTTGCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
27825609 CATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
27825636 CAGGGGTATTTTGGTAATTTTGCAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* * *
27825663 TAGGGATATTTTGGTAATTTTGCAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
27825689 TTGAGGGTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:27825697 original size:54 final size:54
Alignment explanation
Indices: 27825582--27825688 Score: 171
Period size: 54 Copynumber: 2.0 Consensus size: 54
27825572 TTTTACCTTA
27825582 CAGGGGTATTTTAGTAATTTTGCAAACCATGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTAGTAATTTTGCAAACCATGGGTATTTTGGTAATTTTACAAAC
* * *
27825636 CAGGGGTATTTTGGTAATTTTGCAAACTA-GGGATATTTTGGTAATTTTGCAAA
1 CAGGGGTATTTTAGTAATTTTGCAAACCATGGG-TATTTTGGTAATTTTACAAA
27825689 TTGAGGGTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
53 3 0.06
54 46 0.94
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTAGTAATTTTGCAAACCATGGGTATTTTGGTAATTTTACAAAC
Found at i:27825705 original size:27 final size:27
Alignment explanation
Indices: 27825675--27826096 Score: 501
Period size: 27 Copynumber: 15.6 Consensus size: 27
27825665 GGGATATTTT
* * *
27825675 GGTAATTTTGCAAATTGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* * *
27825702 GGTAATTCTATAAATTGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
27825729 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 GGTAATTCTGTAAATC-GAGGGTAAAAC
*
27825756 GGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* **
27825783 GGTAATTTTAAAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
27825810 GATAATTCTGTAAATCGAAGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* * *
27825837 AGTAATTCTGTGAATCAAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
27825864 AGTAATTCTATAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
27825891 AGTAATTCTGTAAATCAAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
**
27825918 AATAATTCTGTAAA-CTGAGGGTAAAAC
1 GGTAATTCTGTAAATC-GAGGGTAAAAC
*
27825945 GGTAATTCTGTAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
*
27825972 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 GGTAATTCTGTAAATC-GAGGGTAAAAC
27825999 GGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* **
27826026 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* * *
27826053 AGTAATTCTAT-AATCTGTGGGTAAAAC
1 GGTAATTCTGTAAATC-GAGGGTAAAAC
27826080 GGTAATTCTGTAAATCG
1 GGTAATTCTGTAAATCG
27826097 GGAGTACTTT
Statistics
Matches: 343, Mismatches: 44, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.02
27 330 0.96
28 7 0.02
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:27825706 original size:54 final size:54
Alignment explanation
Indices: 27825595--27825708 Score: 124
Period size: 54 Copynumber: 2.1 Consensus size: 54
27825585 GGGTATTTTA
****
27825595 GTAATTTTGCAAACCATGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTGCAAACCATGGGTATTTTGGTAATTTTACAAACCAGGGGTAAAACG
* * **
27825649 GTAATTTTGCAAACTA-GGGATATTTTGGTAATTTTGCAAA-TTGAGGGTAAAACG
1 GTAATTTTGCAAACCATGGG-TATTTTGGTAATTTTACAAACCAG-GGGTAAAACG
27825703 GTAATT
1 GTAATT
27825709 CTATAAATTG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 4 0.08
54 46 0.92
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.38
Consensus pattern (54 bp):
GTAATTTTGCAAACCATGGGTATTTTGGTAATTTTACAAACCAGGGGTAAAACG
Found at i:27826119 original size:81 final size:81
Alignment explanation
Indices: 27825675--27826096 Score: 555
Period size: 81 Copynumber: 5.2 Consensus size: 81
27825665 GGGATATTTT
* * * * *
27825675 GGTAATTTTGCAAATTGAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGTAATTCTGT
1 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
* *
27825740 AAACTGAGGGTAAAAT
66 AATCTGAGGGTAAAAC
* * *
27825756 GGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTTAAAAATCGAGGGTAAAAC-GATAATTCTG
1 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCTG
*
27825820 TAAATC-GAAGGTAAAAC
65 T-AATCTGAGGGTAAAAC
* * * *
27825837 AGTAATTCTGTGAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
1 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
*
27825902 AAATC-AAGGGTAAAAC
66 -AATCTGAGGGTAAAAC
** * *
27825918 AATAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTG
1 GGTAATTCTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
*
27825982 TAAACTGAGGGTAAAAC
65 TAATCTGAGGGTAAAAC
* * *
27825999 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTAT
1 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
*
27826064 AATCTGTGGGTAAAAC
66 AATCTGAGGGTAAAAC
27826080 GGTAATTCTGTAAATCG
1 GGTAATTCTGTAAATCG
27826097 GGAGTACTTT
Statistics
Matches: 298, Mismatches: 37, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
80 5 0.02
81 288 0.97
82 5 0.02
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (81 bp):
GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGT
AATCTGAGGGTAAAAC
Found at i:27832486 original size:37 final size:37
Alignment explanation
Indices: 27832431--27832534 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
27832421 GGACGTAATC
* **
27832431 TCCACACGAAGTTTTCGGGTCTTACCCGGACAAAATA
1 TCCACACGTAGTCATCGGGTCTTACCCGGACAAAATA
* * * *
27832468 TCCATACGTAGTCATCGGGTCTTACCCAGACATAATC
1 TCCACACGTAGTCATCGGGTCTTACCCGGACAAAATA
*
27832505 TCCACACGTAGTCATCGGGTCTCACCCGGA
1 TCCACACGTAGTCATCGGGTCTTACCCGGA
27832535 ATATATTTCC
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
TCCACACGTAGTCATCGGGTCTTACCCGGACAAAATA
Found at i:27832747 original size:47 final size:47
Alignment explanation
Indices: 27832691--27832973 Score: 404
Period size: 47 Copynumber: 6.0 Consensus size: 47
27832681 TTTCACACTA
* * * ** * *
27832691 GCCATTCGGCTTTACCGCATATATGCATTTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
27832738 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
27832785 GCCATTCGGCCTTATCACATATATGCATGCTCACATTTATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
27832832 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * * **
27832879 GCCATTCTGCCTTATCACATATATGCATGTTCATATTCGCCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
27832926 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
27832973 G
1 G
27832974 ACTTACCATT
Statistics
Matches: 210, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 210 1.00
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:27836323 original size:12 final size:12
Alignment explanation
Indices: 27836293--27836324 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
27836283 TATAGTATCA
*
27836293 AGTTCTAATATG
1 AGTTCTGATATG
27836305 AGTTCTGATATG
1 AGTTCTGATATG
27836317 AGTTCTGA
1 AGTTCTGA
27836325 GTCGAGACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (12 bp):
AGTTCTGATATG
Found at i:27838272 original size:20 final size:20
Alignment explanation
Indices: 27838247--27838314 Score: 84
Period size: 20 Copynumber: 3.5 Consensus size: 20
27838237 AAGCTTATGC
27838247 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
** *
27838267 TAAGTAAATAAAATGAAAAG
1 TAAGTAAATGGAATGGAAAG
* *
27838287 TAAGTAAATGGACTGGTAAG
1 TAAGTAAATGGAATGGAAAG
27838307 TAAG-AAAT
1 TAAGTAAAT
27838315 TGAGTGCTTC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
19 4 0.10
20 36 0.90
ACGTcount: A:0.53, C:0.01, G:0.24, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:27839651 original size:124 final size:124
Alignment explanation
Indices: 27839426--27839673 Score: 345
Period size: 124 Copynumber: 2.0 Consensus size: 124
27839416 ATTAAAACCA
* * * *
27839426 ATTCAAAACATAGATATTTTACCTTATACGAGCCCTCGAGGCTCTAAATACACGTTAGAAACAAG
1 ATTCAAAACATAGAGATTTTACCTTATACGAGCCCTCGAGGCCCAAAATACACGTTAGAAAAAAG
* * * *
27839491 TTAGGACTAAATTGGGAAATCATAGAATTTTTCAAGAAACAAGGAAATTTTTCAAAACT
66 TTAGGACTAAATTGAGAAATCAGAGAATTTTACAAGAAACAAGGAAAATTTTCAAAACT
* * * **
27839550 ATTCAAAACATATAGATTTTCCCTTATACGAGCCCTCGAGTCCCAAAATACGTGTTAGAAAAAAG
1 ATTCAAAACATAGAGATTTTACCTTATACGAGCCCTCGAGGCCCAAAATACACGTTAGAAAAAAG
* *
27839615 TTGGGACTAAATT-AGAAACTGAGAGAATTTTACAAGAAACAAGGAAAATTTTCAAAACT
66 TTAGGACTAAATTGAGAAA-TCAGAGAATTTTACAAGAAACAAGGAAAATTTTCAAAACT
27839674 GTAGAGGTCA
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
123 4 0.04
124 104 0.96
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (124 bp):
ATTCAAAACATAGAGATTTTACCTTATACGAGCCCTCGAGGCCCAAAATACACGTTAGAAAAAAG
TTAGGACTAAATTGAGAAATCAGAGAATTTTACAAGAAACAAGGAAAATTTTCAAAACT
Found at i:27842346 original size:47 final size:47
Alignment explanation
Indices: 27842277--27842449 Score: 176
Period size: 47 Copynumber: 3.7 Consensus size: 47
27842267 TGGATATTTG
27842277 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * * *
27842324 GGCATCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAA-T-
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTA
* *
27842373 -G--TCCAAACTCATTGAGTGGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
27842417 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTC
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTC
27842450 ACTTATGGAT
Statistics
Matches: 98, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 24 0.24
47 54 0.55
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (47 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:27842388 original size:93 final size:93
Alignment explanation
Indices: 27842281--27842488 Score: 362
Period size: 93 Copynumber: 2.2 Consensus size: 93
27842271 TATTTGGGCA
27842281 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
27842346 AGTCCAAGTTCACTTATGGATGCGAATG
66 AGTCCAAGTTCACTTATGGATGCGAATG
* *
27842374 TCCAAACTCATTGAGTGGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
1 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
** *
27842439 AGTCTGAGTTCACTTATGGATGTGAATG
66 AGTCCAAGTTCACTTATGGATGCGAATG
*
27842467 CCCAAACTCGTTGAGTTGAGTC
1 TCCAAACTCGTTGAGTTGAGTC
27842489 TAAGTTCGCT
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
93 107 1.00
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (93 bp):
TCCAAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
AGTCCAAGTTCACTTATGGATGCGAATG
Found at i:27842483 original size:46 final size:46
Alignment explanation
Indices: 27842334--27842503 Score: 150
Period size: 46 Copynumber: 3.7 Consensus size: 46
27842324 GGCATCCGAG
* *
27842334 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAATGTCCAAA
1 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAATGCCCAAA
* * * * * * *
27842380 CTCATTGAGTGGAGTCCGAGTTC-GTGA--GATGT-AACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAA-T--GC--CCAAA
**
27842427 CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATGCCCAAA
1 CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAATGCCCAAA
* *
27842473 CTCGTTGAGTTGAGTCTAAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCAAGTTCACTTATGG
27842504 GCGGGTTACA
Statistics
Matches: 97, Mismatches: 18, Indels: 18
0.73 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 52 0.54
47 23 0.24
48 4 0.04
50 6 0.06
51 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGTGAATGCCCAAA
Found at i:27845516 original size:30 final size:30
Alignment explanation
Indices: 27845438--27845517 Score: 90
Period size: 30 Copynumber: 2.7 Consensus size: 30
27845428 CATAGTATCG
** *
27845438 TATCTTGGGTTTCTTTATCCTGGATCTTTT
1 TATCTTGAATTTCTTTATTCTGGATCTTTT
* * *
27845468 TATTTTGTATTTCTTTATTCTGGGT-TTTT
1 TATCTTGAATTTCTTTATTCTGGATCTTTT
27845497 CTATCTTGAATTTCTTTATTC
1 -TATCTTGAATTTCTTTATTC
27845518 GGTTTTCTTG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 4 0.10
30 38 0.90
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.61
Consensus pattern (30 bp):
TATCTTGAATTTCTTTATTCTGGATCTTTT
Found at i:27848394 original size:41 final size:40
Alignment explanation
Indices: 27848270--27848411 Score: 187
Period size: 40 Copynumber: 3.5 Consensus size: 40
27848260 GCACAAGACA
* * * * *
27848270 TTCGGGTCTTAGCCCAGATATGGTCACTAGCATAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
27848310 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
1 TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
* * *
27848350 TTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGCC
1 TTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAATGCC
27848391 TTCGGGACTTAGCCCGGATAT
1 TTCGGGACTTAGCCCGGATAT
27848412 CATTTGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 56 0.63
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (40 bp):
TTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCC
Found at i:27851548 original size:46 final size:45
Alignment explanation
Indices: 27851495--27851670 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 45
27851485 TATTTGGGCA
27851495 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
27851541 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * * *
27851586 CATTCGAGCTCGTTGAGTTGAGTCTGATTTCACTTATGGATGTGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
27851634 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCTCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27851671 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.58
47 24 0.23
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.32
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:27851650 original size:93 final size:93
Alignment explanation
Indices: 27851491--27851662 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
27851481 GGGATATTTG
*
27851491 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
27851556 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * * * * *
27851584 GGCATTCGAGCTCGTTGAGTTGAGTCTGATTTCACTTATGGATGTGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
27851649 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
27851663 TCTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:27854183 original size:25 final size:25
Alignment explanation
Indices: 27854149--27854203 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
27854139 CGGTTAAAGA
*
27854149 ATTCGCACACACAGTGCCTCA-ATTC
1 ATTCACACACACAGTGCCT-ATATTC
*
27854174 ATTCACACACATAGTGCCTATATTC
1 ATTCACACACACAGTGCCTATATTC
27854199 ATTCA
1 ATTCA
27854204 TTATTACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 1 0.04
25 26 0.96
ACGTcount: A:0.31, C:0.31, G:0.09, T:0.29
Consensus pattern (25 bp):
ATTCACACACACAGTGCCTATATTC
Found at i:27854338 original size:17 final size:17
Alignment explanation
Indices: 27854316--27854348 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27854306 CTTAAACTTT
27854316 GCTCGAATCACCGGCAG
1 GCTCGAATCACCGGCAG
*
27854333 GCTCGAATCATCGGCA
1 GCTCGAATCACCGGCA
27854349 TTAAGCCTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.33, G:0.27, T:0.15
Consensus pattern (17 bp):
GCTCGAATCACCGGCAG
Found at i:27854449 original size:40 final size:40
Alignment explanation
Indices: 27854384--27854702 Score: 494
Period size: 40 Copynumber: 8.0 Consensus size: 40
27854374 GATTACACAT
* * * *
27854384 CACCAGCACGAATGCCCTTCAGGACTTAGCCCAGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
27854424 CACCAACACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
27854464 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
27854504 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
27854544 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
27854584 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
27854624 CACCAACACGAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
27854664 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
27854703 TATAACTCTC
Statistics
Matches: 253, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 253 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:27859993 original size:12 final size:12
Alignment explanation
Indices: 27859976--27860000 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27859966 ATAAGAGTAT
27859976 GGAAAAAAAAAA
1 GGAAAAAAAAAA
27859988 GGAAAAAAAAAA
1 GGAAAAAAAAAA
27860000 G
1 G
27860001 TGTTCATCTT
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:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
GGAAAAAAAAAA
Found at i:27861379 original size:40 final size:40
Alignment explanation
Indices: 27861294--27861444 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
27861284 AATTGAATGA
* * *
27861294 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
27861334 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
27861375 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
27861414 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
27861445 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:27861458 original size:40 final size:40
Alignment explanation
Indices: 27861330--27861460 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
27861320 TATGCTGGAA
* * *
27861330 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
27861370 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
27861410 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
27861450 ATTATATCCGG
1 ATTATATCCGG
27861461 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:27864930 original size:25 final size:25
Alignment explanation
Indices: 27864856--27864933 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
27864846 CTCGGCCCTG
27864856 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
27864881 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
27864903 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
27864928 TCACAT
1 TCACAT
27864934 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:27864979 original size:49 final size:47
Alignment explanation
Indices: 27864805--27865121 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
27864795 CCCTTCGGGA
* * * * * *
27864805 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
27864852 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
27864899 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
27864946 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
27864995 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
27865044 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
27865091 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
27865122 GCGTAAAATC
Statistics
Matches: 242, Mismatches: 18, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
46 2 0.01
47 150 0.62
48 2 0.01
49 87 0.36
50 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:27865002 original size:96 final size:94
Alignment explanation
Indices: 27864805--27865121 Score: 442
Period size: 96 Copynumber: 3.3 Consensus size: 94
27864795 CCCTTCGGGA
* * * * * * * *
27864805 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
* *
27864870 CTTCACATTCATCACATTGGCTATTCA-GC
66 CTTCACATTCATCACATCGGCCATT-AGGC
27864899 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGCCTTATCAC--ATATATA
*
27864963 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
27864995 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATA
27865059 CACCTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
*
27865091 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
27865122 GCGTAAAATC
Statistics
Matches: 202, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
94 57 0.28
95 2 0.01
96 108 0.53
97 2 0.01
98 32 0.16
99 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:27869249 original size:40 final size:40
Alignment explanation
Indices: 27869164--27869314 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
27869154 AATTGAATGA
* * *
27869164 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
27869204 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
27869245 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
27869284 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
27869315 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:27869328 original size:40 final size:40
Alignment explanation
Indices: 27869200--27869330 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
27869190 TATGCTGGAA
* * *
27869200 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
27869240 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
27869280 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
27869320 ATTATATCCGG
1 ATTATATCCGG
27869331 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:27871233 original size:27 final size:27
Alignment explanation
Indices: 27871203--27871295 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
27871193 TGGATAAGTT
*
27871203 GTAGAATTACCAAAATACCCTTGTAAG
1 GTAGAATTACCAAAATACCCTTGTAGG
* *
27871230 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCAAAATACCCTTGTAGG
** * *
27871257 GTAGAATTACTGAGATACCCTTGTGGG
1 GTAGAATTACCAAAATACCCTTGTAGG
*
27871284 GTAAAATTACCA
1 GTAGAATTACCA
27871296 TTTTGACCCT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCAAAATACCCTTGTAGG
Found at i:27875506 original size:27 final size:26
Alignment explanation
Indices: 27875462--27875513 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
27875452 CTCGCTACAA
*
27875462 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
27875489 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
27875514 ACAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:27875610 original size:27 final size:26
Alignment explanation
Indices: 27875558--27875617 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
27875548 ATATTTATAT
*
27875558 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
27875584 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
27875611 ATATCTG
1 ATATCTG
27875618 GTAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:27882117 original size:2 final size:2
Alignment explanation
Indices: 27882110--27882141 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
27882100 GCTTCGCCAC
27882110 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
27882142 TCCTTCTGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27885997 original size:68 final size:67
Alignment explanation
Indices: 27885925--27886074 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
27885915 CATCATGTGT
* * * *
27885925 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
27885987 ATGTAG
62 ATGTAG
** * *
27885993 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
27886058 AG
66 AG
27886060 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
27886075 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:27886030 original size:64 final size:64
Alignment explanation
Indices: 27885949--27886131 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
27885939 AGACATTATG
* *
27885949 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
27886013 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
27886078 AA
63 AA
* * * *
27886080 ACTG--GCTAGGTCACATGGGTGGTA-TAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
27886132 CAACTATATG
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
61 1 0.01
62 19 0.20
63 1 0.01
64 21 0.22
65 6 0.06
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:27887221 original size:2 final size:2
Alignment explanation
Indices: 27887214--27887238 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
27887204 TCATGACATG
27887214 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
27887239 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27887975 original size:53 final size:54
Alignment explanation
Indices: 27887911--27888016 Score: 151
Period size: 53 Copynumber: 2.0 Consensus size: 54
27887901 GGGGTGTTAC
*
27887911 AATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAAGGTAGAATTACCAA
1 AATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAAGGTAAAATTACCAA
* ** * *
27887965 AATA-CCCTGTAGGGTAGAATTATTGAGATACCCTTGTAGGGTAAAATTACCA
1 AATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAAGGTAAAATTACCA
27888017 TTTTGCCCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
53 42 0.91
54 4 0.09
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAAGGTAAAATTACCAA
Found at i:27887982 original size:26 final size:27
Alignment explanation
Indices: 27887911--27888016 Score: 124
Period size: 27 Copynumber: 4.0 Consensus size: 27
27887901 GGGGTGTTAC
* * *
27887911 AATACCCCTGTAGGATAGAATTACCGA
1 AATACCCTTGTAGGGTAGAATTACCAA
*
27887938 AATACCCTTGTAAGGTAGAATTACCAA
1 AATACCCTTGTAGGGTAGAATTACCAA
***
27887965 AATACCC-TGTAGGGTAGAATTATTGA
1 AATACCCTTGTAGGGTAGAATTACCAA
* *
27887991 GATACCCTTGTAGGGTAAAATTACCA
1 AATACCCTTGTAGGGTAGAATTACCA
27888017 TTTTGCCCCT
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
26 21 0.32
27 44 0.68
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AATACCCTTGTAGGGTAGAATTACCAA
Found at i:27888786 original size:26 final size:27
Alignment explanation
Indices: 27888757--27888816 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
27888747 CCACATATAT
*
27888757 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
27888783 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
27888810 ATATCTG
1 ATATCTG
27888817 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:27890297 original size:8 final size:8
Alignment explanation
Indices: 27890284--27890312 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
27890274 CCTCATCCCT
27890284 CATCCTTG
1 CATCCTTG
27890292 CATCCTTG
1 CATCCTTG
27890300 CATCCTTG
1 CATCCTTG
27890308 CATCC
1 CATCC
27890313 CTCATTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.41, G:0.10, T:0.34
Consensus pattern (8 bp):
CATCCTTG
Found at i:27892012 original size:23 final size:23
Alignment explanation
Indices: 27891983--27892082 Score: 112
Period size: 23 Copynumber: 4.3 Consensus size: 23
27891973 CATAGCTCAT
*
27891983 AGCTTACTATTTCAGCTCATTAG
1 AGCTTACTATTTCAGCTCAATAG
* * *
27892006 AGCTTACTGTTTCAACTCAAAAG
1 AGCTTACTATTTCAGCTCAATAG
* *
27892029 TGCTTACT-GTTCAGCTCAATAG
1 AGCTTACTATTTCAGCTCAATAG
* *
27892051 AGCTTACCATTTTCATCTCAATAG
1 AGCTTACTA-TTTCAGCTCAATAG
27892075 AGCTTACT
1 AGCTTACT
27892083 GTTTATTAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
22 17 0.27
23 26 0.42
24 19 0.31
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (23 bp):
AGCTTACTATTTCAGCTCAATAG
Found at i:27892071 original size:46 final size:45
Alignment explanation
Indices: 27891983--27892085 Score: 127
Period size: 46 Copynumber: 2.2 Consensus size: 45
27891973 CATAGCTCAT
* *
27891983 AGCTTACTATTTCAGCTCATTAGAGCTTACTGTTTCAACTCAAAAG
1 AGCTTACT-GTTCAGCTCAATAGAGCTTACTGTTTCAACTCAAAAG
* * *
27892029 TGCTTACTGTTCAGCTCAATAGAGCTTACCAT-TTTCATCTCAATAG
1 AGCTTACTGTTCAGCTCAATAGAGCTTA-C-TGTTTCAACTCAAAAG
27892075 AGCTTACTGTT
1 AGCTTACTGTT
27892086 TATTAGCTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
45 18 0.37
46 30 0.61
47 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (45 bp):
AGCTTACTGTTCAGCTCAATAGAGCTTACTGTTTCAACTCAAAAG
Found at i:27897505 original size:23 final size:23
Alignment explanation
Indices: 27897479--27897526 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
27897469 GTTTATTTTC
27897479 ATTTT-TTTTTACATATTATTAAT
1 ATTTTATTTTTA-ATATTATTAAT
* *
27897502 ATTTTATTTTTATTTTTATTAAT
1 ATTTTATTTTTAATATTATTAAT
27897525 AT
1 AT
27897527 ACTAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (23 bp):
ATTTTATTTTTAATATTATTAAT
Found at i:27897891 original size:48 final size:45
Alignment explanation
Indices: 27897826--27897946 Score: 142
Period size: 46 Copynumber: 2.6 Consensus size: 45
27897816 TTTTTAATAT
27897826 TATATTTC-ACATA-TATTATTATATATATTT-TAATATTATTAGTTA
1 TATATTTCTA-ATACTATTATTATATATATTTCTAATATTA-TA-TTA
* *
27897871 TATTTTTCTTTTATACTATTA-TATATATATTTCTAATATTATATTA
1 TATATTTC--TAATACTATTATTATATATATTTCTAATATTATATTA
27897917 TATATTTCTAATACTATTATATATATATAT
1 TATATTTCTAATACTATTAT-TATATATAT
27897947 GTGTGTGTAT
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
44 10 0.15
45 7 0.11
46 19 0.29
47 16 0.25
48 13 0.20
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (45 bp):
TATATTTCTAATACTATTATTATATATATTTCTAATATTATATTA
Found at i:27897920 original size:21 final size:21
Alignment explanation
Indices: 27897887--27897944 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 21
27897877 TCTTTTATAC
27897887 TATTATA-TATATATTTCTAA
1 TATTATATTATATATTTCTAA
27897907 TATTATATTATATATTTCTAA
1 TATTATATTATATATTTCTAA
*
27897928 TACTATTATATATATAT
1 TATTA-TAT-TATATAT
27897945 ATGTGTGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 7 0.21
21 17 0.50
22 3 0.09
23 7 0.21
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TATTATATTATATATTTCTAA
Found at i:27897934 original size:19 final size:20
Alignment explanation
Indices: 27897826--27897940 Score: 72
Period size: 21 Copynumber: 5.2 Consensus size: 20
27897816 TTTTTAATAT
27897826 TATATTTC-ACATATATTATTA
1 TATATTTCTA-ATATA-TATTA
*
27897847 TATATATTTTAATATTATTAGTTA
1 TATAT-TTCTAATA-TA-TA-TTA
* *
27897871 TATTTTTCTTTTATACTATTATATA
1 TATATTTC--TAATA-TA-TAT-TA
27897896 TATATTTCTAATATTATATTA
1 TATATTTCTAATA-TATATTA
*
27897917 TATATTTCTAATA-CTATTA
1 TATATTTCTAATATATATTA
27897936 TATAT
1 TATAT
27897941 ATATATGTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 16
0.76 0.09 0.16
Matches are distributed among these distances:
19 10 0.13
21 20 0.26
22 8 0.10
23 14 0.18
24 8 0.10
25 18 0.23
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (20 bp):
TATATTTCTAATATATATTA
Found at i:27902456 original size:40 final size:40
Alignment explanation
Indices: 27902404--27902578 Score: 181
Period size: 40 Copynumber: 4.3 Consensus size: 40
27902394 GATTGTCTTT
* * * *
27902404 GGGACATT-GCCCGGTTATAGTGATTCGCACAATTGCCTTC
1 GGGA-ATTAGCCCGGTTTTAGTAACTCGCACAAATGCCTTC
* *
27902444 GGGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTTC
1 GGGAATTAGCCCGGTTTTAGTAACTCGCACAAATGCCTTC
* * *
27902484 GGGATTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTC
1 GGGAATTAGCCCGGTTTTAGTAACTCGCACAAATGCCTTC
* * * * * *
27902524 GGGACTTAACCCGGTTTTGGTCACTTAGCACAAAAGCCTTC
1 GGGAATTAGCCCGGTTTTAGTAAC-TCGCACAAATGCCTTC
*
27902565 GGGACTTAGCCCGG
1 GGGAATTAGCCCGG
27902579 ACACCATTCG
Statistics
Matches: 117, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 3 0.03
40 87 0.74
41 27 0.23
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
GGGAATTAGCCCGGTTTTAGTAACTCGCACAAATGCCTTC
Found at i:27902567 original size:41 final size:40
Alignment explanation
Indices: 27902428--27902578 Score: 194
Period size: 40 Copynumber: 3.8 Consensus size: 40
27902418 TTATAGTGAT
* * * * *
27902428 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
* *
27902468 TCGCACGAATGCCTTCGGGATTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
*
27902508 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTCAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
* * *
27902548 TTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 -TCGCACAAATGCCTTCGGGACTTAACCCGG
27902579 ACACCATTCG
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 71 0.72
41 27 0.28
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
Found at i:27903294 original size:2 final size:2
Alignment explanation
Indices: 27903287--27903312 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
27903277 ATGTGCAAAC
27903287 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
27903313 GCTAGAGCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27905558 original size:40 final size:40
Alignment explanation
Indices: 27905478--27905696 Score: 363
Period size: 40 Copynumber: 5.5 Consensus size: 40
27905468 TTCGGATGAC
*
27905478 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
27905517 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
27905557 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
27905597 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
27905637 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
27905677 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
27905697 TACTTGGGTT
Statistics
Matches: 172, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 38 0.22
40 132 0.77
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:27914226 original size:40 final size:40
Alignment explanation
Indices: 27914174--27914348 Score: 181
Period size: 40 Copynumber: 4.3 Consensus size: 40
27914164 CGATTGTCTT
* * * *
27914174 GGGACATT-GCCCGGTTATAGTGATTCGCACAATTGCCTTC
1 GGGA-ATTAGCCCGGTTTTAGTAACTCGCACAAATGCCTTC
* *
27914214 GGGAATTAGCCCGGATTTAGTAACTCGCACGAATGCCTTC
1 GGGAATTAGCCCGGTTTTAGTAACTCGCACAAATGCCTTC
* * *
27914254 GGGATTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTC
1 GGGAATTAGCCCGGTTTTAGTAACTCGCACAAATGCCTTC
* * * * * *
27914294 GGGACTTAACCCGGTTTTGGTCACTTAGCACAAAAGCCTTC
1 GGGAATTAGCCCGGTTTTAGTAAC-TCGCACAAATGCCTTC
*
27914335 GGGACTTAGCCCGG
1 GGGAATTAGCCCGG
27914349 ACACCATTCG
Statistics
Matches: 117, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 3 0.03
40 87 0.74
41 27 0.23
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (40 bp):
GGGAATTAGCCCGGTTTTAGTAACTCGCACAAATGCCTTC
Found at i:27914337 original size:41 final size:40
Alignment explanation
Indices: 27914198--27914348 Score: 194
Period size: 40 Copynumber: 3.8 Consensus size: 40
27914188 TTATAGTGAT
* * * * *
27914198 TCGCACAATTGCCTTCGGGAATTAGCCCGGATTTAGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
* *
27914238 TCGCACGAATGCCTTCGGGATTTAACCCGGTTTTGGTAAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
*
27914278 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTCAC
1 TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
* * *
27914318 TTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 -TCGCACAAATGCCTTCGGGACTTAACCCGG
27914349 ACACCATTCG
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 71 0.72
41 27 0.28
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
TCGCACAAATGCCTTCGGGACTTAACCCGGTTTTGGTAAC
Found at i:27925524 original size:71 final size:70
Alignment explanation
Indices: 27925425--27925794 Score: 222
Period size: 69 Copynumber: 5.5 Consensus size: 70
27925415 CTTTTCAAGG
* *
27925425 AAAATCAACTCATATTGCGAG-AGATGAGTTAAGCCTCAAGACACGTTGAGGTATTTTTAATTTT
1 AAAATCAACTCATATTGCGAGAAG-TGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
*
27925489 TTTTTT
65 TGTTTT
* ** * *
27925495 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
27925560 TGTTTT
65 TGTTTT
** * *** * *
27925566 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-A---T----T-TTTGT-GTTT-T
1 AAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
**
27925618 AATTT
66 GTTTT
* * * ** * * *
27925623 C-----AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGTTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAA--TTT
*
27925683 GTGTTTT
64 ATGTTTT
** * * ** * *
27925690 AATTTCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGGGCACGCTGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
27925755 GTTTT
66 GTTTT
** *
27925760 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCT
27925795 TTTAATTTTT
Statistics
Matches: 234, Mismatches: 44, Indels: 44
0.73 0.14 0.14
Matches are distributed among these distances:
53 28 0.12
55 1 0.00
57 4 0.02
58 5 0.02
59 4 0.02
60 1 0.00
62 1 0.00
63 3 0.01
64 1 0.00
66 3 0.01
67 5 0.02
69 59 0.25
70 9 0.04
71 59 0.25
72 51 0.22
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.38
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAAGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
GTTTT
Found at i:27925600 original size:69 final size:70
Alignment explanation
Indices: 27925425--27925794 Score: 238
Period size: 71 Copynumber: 5.5 Consensus size: 70
27925415 CTTTTCAAGG
* * *
27925425 AAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
*
27925490 TTTTT
66 GTTTT
* * ** * *
27925495 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTA
27925560 TGTTTT
65 TGTTTT
** *** * *
27925566 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT-TTTA-A---T----T-TTTGT-GTTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
**
27925618 AATTT
66 GTTTT
* * ** * * *
27925623 C-----AACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGTTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAA--TTT
*
27925683 GTGTTTT
64 ATGTTTT
** * * * ** * *
27925690 AATTTCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGGGCACGCTGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
27925755 GTTTT
66 GTTTT
**
27925760 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT
27925795 TTTAATTTTT
Statistics
Matches: 233, Mismatches: 46, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
53 28 0.12
55 1 0.00
57 4 0.02
58 5 0.02
59 4 0.02
60 1 0.00
62 1 0.00
63 3 0.01
64 1 0.00
66 3 0.01
67 5 0.02
69 59 0.25
70 9 0.04
71 60 0.26
72 49 0.21
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.38
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAAGACACGCTGAGGTATTTTTAATTTAT
GTTTT
Found at i:27925721 original size:72 final size:71
Alignment explanation
Indices: 27925600--27925794 Score: 286
Period size: 72 Copynumber: 2.8 Consensus size: 71
27925590 GAGTTAAGCC
*
27925600 TTTTAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGTT
1 TTTTAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
27925665 GAGGTA
66 GAGGTA
* *
27925671 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGGGCACGC
1 TTTT-AATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGC
27925736 TGAGGTA
65 TGAGGTA
* * * * * *
27925743 TTTTTA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCCT
1 TTTTAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCT
27925795 TTTAATTTTT
Statistics
Matches: 112, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
69 26 0.23
70 13 0.12
71 5 0.04
72 68 0.61
ACGTcount: A:0.23, C:0.12, G:0.25, T:0.41
Consensus pattern (71 bp):
TTTTAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCT
GAGGTA
Found at i:27925757 original size:194 final size:194
Alignment explanation
Indices: 27925425--27925942 Score: 846
Period size: 194 Copynumber: 2.7 Consensus size: 194
27925415 CTTTTCAAGG
* * ** * *
27925425 AAAATCAACTCATATTGCGAGAGATGAGTTAAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGTTGAGGTATTTTCAATTTTT
** *
27925490 -T-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT
66 GTGTTTT-AATTTCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGGGCACGCTGAGGTATTTT
27925553 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTGTTTT
130 TAGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGT-TTTT
27925618 -
194 C
**
27925618 AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGTTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGTTGAGGTATTTTCAATTTTT
27925683 GTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGGGCACGCTGAGGTATTTTT
66 GTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGGGCACGCTGAGGTATTTTT
27925748 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
131 AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
* *
27925812 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGTTGAGGTATTTTCAATTTTT
* *
27925877 GTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTC-GGGCACGATGAGGTATCTT
66 GTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCGGGGCACGCTGAGGTATTTT
27925941 TA
130 TA
27925943 ATTTCTGCTT
Statistics
Matches: 304, Mismatches: 17, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
193 61 0.20
194 235 0.77
195 8 0.03
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.38
Consensus pattern (194 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGTTGAGGTATTTTCAATTTTT
GTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGGGCACGCTGAGGTATTTTT
AGTTTATGTTTTAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTAATTTTTGTTTTTC
Found at i:27925828 original size:122 final size:126
Alignment explanation
Indices: 27925671--27925920 Score: 348
Period size: 122 Copynumber: 2.0 Consensus size: 126
27925661 CGTTGAGGTA
** *
27925671 TTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGGGCACGC
1 TTTTCAATTTTTGTGTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
* * *
27925736 TGAGGTATTTT-TA-GTTTATGTTTTAAATT-GACTCATATTGCGAGAGGTGAGTTAAGCC
66 TGAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAAGTGAGTTAAGCC
* *
27925794 TTTT-AATTTTTGT-TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACG
1 TTTTCAATTTTTGTGTTTT-AAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACG
* * * *
27925857 CTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCC
65 CTGAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAAGTGAGTTAAGCC
27925919 TT
1 TT
27925921 CGGGCACGAT
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
121 4 0.04
122 61 0.55
123 5 0.05
124 13 0.12
125 28 0.25
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (126 bp):
TTTTCAATTTTTGTGTTTTAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGC
TGAGGTATTTTCAATGTTTATGTTTTAAATTCAACTCATATTGCGAGAAGTGAGTTAAGCC
Found at i:27925915 original size:72 final size:71
Alignment explanation
Indices: 27925794--27925957 Score: 215
Period size: 72 Copynumber: 2.3 Consensus size: 71
27925784 GAGTTAAGCC
* * *
27925794 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCC-TCGGGGCACGC
1 TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTC-GGGCACGA
27925858 TGAGGTA
65 TGAGGTA
**
27925865 TTTTCAATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTTCGGGCACG
1 TTTT-AATTTTTGT-TTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTCGGGCACG
27925929 ATGAGGTA
64 ATGAGGTA
* *
27925937 TCTTTAATTTCTGCTTTTCAA
1 T-TTTAATTTTTGTTTTTCAA
27925958 TTCATGCTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
71 8 0.10
72 64 0.79
73 9 0.11
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.40
Consensus pattern (71 bp):
TTTTAATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTCGGGCACGAT
GAGGTA
Found at i:27926151 original size:159 final size:155
Alignment explanation
Indices: 27925793--27926314 Score: 513
Period size: 159 Copynumber: 3.3 Consensus size: 155
27925783 TGAGTTAAGC
* * * *
27925793 CTTTTAATTTTTGTTTTTC--AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCAC
1 CTTTTAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
* * * * ** *
27925856 GCTGAGGTATTTTCAATTTTTGTGTTTTAATTTCAACTCATATTGCGAGAAGTGAGTTGAGCCTT
66 GATGAGGTAATTTCAA--TTTATG-TTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T
* * *
27925921 CGGGCACGATGAGGTATCTTTAATTTCTG
127 CGCGCACGATGAAGTATCTTCAATTTCTG
* * *
27925950 CTTTTCAATTCATGCTTCTT-AAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
1 CTTTT-AATTTATG-TTTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * * *
27926014 CACGTTGAGGTAATTTCAATTTATGTTCCAGAATCAACTCATATTGTGAGAGGTGAGTGGAGCCT
63 CACGATGAGGTAATTTCAATTTATGTT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
27926079 CGACTCGCATGTTGAAGTAT-TCTCAATTT-T-
127 CG---CGCACGATGAAGTATCT-TCAATTTCTG
27926109 CATTTTAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 C-TTTTAATTTATGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* *
27926174 ACGATGAGGTAATTTCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGATGAGTTGAGC
64 ACGATGAGGTAATTTCAATTTATG--T-TC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
* *
27926239 CTCAG-GACAC-ACTGAGGTATTTTCAATTTCTG
125 CTC-GCG-CACGA-TGAAGTATCTTCAATTTCTG
* * *
27926271 -TTTTCAGTTTATGTTTTTCAGAAAATCAACTCATATTGTGAGAG
1 CTTTT-AATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAG
27926315 TTTATGAGTC
Statistics
Matches: 304, Mismatches: 37, Indels: 45
0.79 0.10 0.12
Matches are distributed among these distances:
157 5 0.02
158 15 0.05
159 110 0.36
160 51 0.17
161 88 0.29
162 34 0.11
163 1 0.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (155 bp):
CTTTTAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
GATGAGGTAATTTCAATTTATGTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGCG
CACGATGAAGTATCTTCAATTTCTG
Found at i:27926220 original size:73 final size:73
Alignment explanation
Indices: 27926131--27926273 Score: 252
Period size: 73 Copynumber: 2.0 Consensus size: 73
27926121 TGTTTTTCAA
*
27926131 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGA-TGAGGTAATTTCAATTT
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACAC-ACTGAGGTAATTTCAATTT
27926195 CTGTTTGTC
65 CTGTTTGTC
*
27926204 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACACTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTC
27926269 TGTTT
66 TGTTT
27926274 TCAGTTTATG
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
72 1 0.01
73 66 0.99
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (73 bp):
AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACACTGAGGTAATTTCAATTTC
TGTTTGTC
Found at i:27927673 original size:24 final size:24
Alignment explanation
Indices: 27927597--27927711 Score: 94
Period size: 24 Copynumber: 4.8 Consensus size: 24
27927587 AAAAATTCAC
*
27927597 TCAGCTCATTAGAGCTTA-C-TGTT
1 TCAGCTCAATAGAGCTTACCAT-TT
* * * *
27927620 TCAACTCAAAAGTGCTTA-C-TGT
1 TCAGCTCAATAGAGCTTACCATTT
27927642 TCAGCTCAATAGAGCTTACCATTT
1 TCAGCTCAATAGAGCTTACCATTT
* *
27927666 TCATCTCAATAGAGCTTACTATTT
1 TCAGCTCAATAGAGCTTACCATTT
* *
27927690 ATTAGCTCAGTAAGAGCTTACC
1 -TCAGCTCAAT-AGAGCTTACC
27927712 GCCCATGACT
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
22 16 0.22
23 17 0.23
24 24 0.33
25 7 0.10
26 9 0.12
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.35
Consensus pattern (24 bp):
TCAGCTCAATAGAGCTTACCATTT
Found at i:27933973 original size:12 final size:12
Alignment explanation
Indices: 27933956--27934080 Score: 54
Period size: 11 Copynumber: 10.5 Consensus size: 12
27933946 TATATTTCAC
27933956 ATATATTATTAT
1 ATATATTATTAT
27933968 ATATATT-TTA-
1 ATATATTATTAT
27933978 ATATTATTAGTTAT
1 ATA-TATTA-TTAT
* * *
27933992 AT-TTTTCTTTT
1 ATATATTATTAT
27934003 ATACTATTA-TAT
1 ATA-TATTATTAT
*
27934015 ATACATT-TCTA-
1 ATATATTAT-TAT
27934026 ATAT-TATATTAT
1 ATATAT-TATTAT
*
27934038 ATAT-TT-CTA-
1 ATATATTATTAT
27934047 ATACTATTATATAT
1 ATA-TATTAT-TAT
27934061 ATATATATATATAT
1 ATATAT-TAT-TAT
27934075 ATATAT
1 ATATAT
27934081 ATATGTGTGT
Statistics
Matches: 86, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
9 3 0.03
10 7 0.08
11 24 0.28
12 23 0.27
13 11 0.13
14 18 0.21
ACGTcount: A:0.38, C:0.05, G:0.01, T:0.56
Consensus pattern (12 bp):
ATATATTATTAT
Found at i:27934011 original size:48 final size:45
Alignment explanation
Indices: 27933946--27934066 Score: 133
Period size: 46 Copynumber: 2.6 Consensus size: 45
27933936 GTTTTAATAT
27933946 TATATTTC-ACATA-TATTATTATATATATTT-TAATATTATTAGTTA
1 TATATTTCTA-ATACTATTATTATATATATTTCTAATATTA-TA-TTA
* * *
27933991 TATTTTTCTTTTATACTATTA-TATATACATTTCTAATATTATATTA
1 TATATTTC--TAATACTATTATTATATATATTTCTAATATTATATTA
27934037 TATATTTCTAATACTATTATATATATATAT
1 TATATTTCTAATACTATTAT-TATATATAT
27934067 ATATATATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
44 10 0.16
45 7 0.11
46 18 0.29
47 15 0.24
48 13 0.21
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.56
Consensus pattern (45 bp):
TATATTTCTAATACTATTATTATATATATTTCTAATATTATATTA
Found at i:27934043 original size:21 final size:21
Alignment explanation
Indices: 27934007--27934064 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 21
27933997 TCTTTTATAC
*
27934007 TATTATA-TATACATTTCTAA
1 TATTATATTATATATTTCTAA
27934027 TATTATATTATATATTTCTAA
1 TATTATATTATATATTTCTAA
*
27934048 TACTATTATATATATAT
1 TATTA-TAT-TATATAT
27934065 ATATATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.48
22 3 0.09
23 7 0.21
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTATATTATATATTTCTAA
Found at i:27934059 original size:2 final size:2
Alignment explanation
Indices: 27934026--27934084 Score: 63
Period size: 2 Copynumber: 31.0 Consensus size: 2
27934016 TACATTTCTA
* *
27934026 AT AT -T AT AT -T AT AT AT TT CT A- AT ACT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
27934065 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
27934085 GTGTGTGTGT
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
1 4 0.08
2 43 0.88
3 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:27936468 original size:17 final size:18
Alignment explanation
Indices: 27936426--27936474 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
27936416 AGTTGAAAAG
27936426 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
27936445 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
27936462 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
27936475 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:27937362 original size:40 final size:40
Alignment explanation
Indices: 27937296--27937462 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
27937286 AAATTGAATG
* * *
27937296 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
27937335 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
27937375 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
27937415 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
27937455 ATATCCGG
1 ATATCCGG
27937463 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:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:27944480 original size:17 final size:18
Alignment explanation
Indices: 27944438--27944486 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
27944428 AGTTGAAAAG
27944438 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
27944457 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
27944474 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
27944487 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:27945375 original size:40 final size:40
Alignment explanation
Indices: 27945309--27945475 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
27945299 AAATTGAATG
* * *
27945309 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
27945348 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
27945388 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
27945428 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
27945468 ATATCCGG
1 ATATCCGG
27945476 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:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:27949192 original size:23 final size:23
Alignment explanation
Indices: 27949163--27949267 Score: 108
Period size: 23 Copynumber: 4.6 Consensus size: 23
27949153 TAACTCGTAG
* *
27949163 GAGCTTACTGTTTCAGCTCAGTG
1 GAGCTTACTGTTTCAGCTCAATA
* * *
27949186 GAGCTTACCGATTCAGCTTGAA-A
1 GAGCTTACTGTTTCAGC-TCAATA
*
27949209 GAGTTTACTG-TTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
27949231 GAGCTTACCAT-TTTCAGCTCAATA
1 GAGCTTA-C-TGTTTCAGCTCAATA
27949255 GAGCTTACTGTTT
1 GAGCTTACTGTTT
27949268 ATCAACTCAG
Statistics
Matches: 67, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.04
22 14 0.21
23 28 0.42
24 22 0.33
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:27949247 original size:46 final size:45
Alignment explanation
Indices: 27949163--27949266 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 45
27949153 TAACTCGTAG
* * *
27949163 GAGCTTACTGTTTCAGCTCAGTGGAGCTTACCGATTCAGCTTGAA-A
1 GAGCTTACTG-TTCAGCTCAATAGAGCTTACCGATTCAGC-TCAATA
*
27949209 GAGTTTACTGTTCAGCTCAATAGAGCTTACC-ATTTTCAGCTCAATA
1 GAGCTTACTGTTCAGCTCAATAGAGCTTACCGA--TTCAGCTCAATA
27949255 GAGCTTACTGTT
1 GAGCTTACTGTT
27949267 TATCAACTCA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
44 1 0.02
45 22 0.44
46 27 0.54
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (45 bp):
GAGCTTACTGTTCAGCTCAATAGAGCTTACCGATTCAGCTCAATA
Found at i:27949250 original size:24 final size:24
Alignment explanation
Indices: 27949219--27949289 Score: 88
Period size: 24 Copynumber: 2.9 Consensus size: 24
27949209 GAGTTTACTG
27949219 TTCAGCTCAATAGAGCTTACCATT
1 TTCAGCTCAATAGAGCTTACCATT
**
27949243 TTCAGCTCAATAGAGCTTACTGTT
1 TTCAGCTCAATAGAGCTTACCATT
* *
27949267 TATCAACTCAGTAAGAGCTTACC
1 T-TCAGCTCAAT-AGAGCTTACC
27949290 GCCCATGACT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
24 23 0.57
25 8 0.20
26 9 0.22
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (24 bp):
TTCAGCTCAATAGAGCTTACCATT
Found at i:27951640 original size:45 final size:44
Alignment explanation
Indices: 27951550--27951637 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
27951540 AATAAGAAAG
27951550 AACATGTGAATGTTTTTTTTCAAAATATTTTGTTTTACTATTTT
1 AACATGTGAATGTTTTTTTTCAAAATATTTTGTTTTACTATTTT
27951594 AACATGTGAATGTTTTTTTTCAAAATATTTTGTTTTACTATTTT
1 AACATGTGAATGTTTTTTTTCAAAATATTTTGTTTTACTATTTT
27951638 TAAGGTAACT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (44 bp):
AACATGTGAATGTTTTTTTTCAAAATATTTTGTTTTACTATTTT
Found at i:27960930 original size:29 final size:29
Alignment explanation
Indices: 27960896--27961000 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
27960886 TACTCGATTT
* * *
27960896 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
27960925 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
27960954 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
27960983 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
27961001 TATTTCCAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:27960988 original size:58 final size:59
Alignment explanation
Indices: 27960934--27961056 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 59
27960924 CCGCACACAC
* *
27960934 AGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
* * * *
27960992 AGTGCCATATATTTCCAGCAT-GCACACTCAGTGCCATATTTTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
27961050 AGTGCCA
1 AGTGCCA
27961057 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (59 bp):
AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
Found at i:27961001 original size:29 final size:29
Alignment explanation
Indices: 27960955--27961056 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
27960945 CTTCGAGCTC
27960955 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27960984 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
27961013 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27961042 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
27961057 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:27968904 original size:29 final size:29
Alignment explanation
Indices: 27968870--27968974 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 29
27968860 TACTCGATTT
* * *
27968870 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
27968899 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
27968928 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
27968957 TGCACACTTAGTGCCATA
1 CGCACACTTAGTGCCATA
27968975 TATTTCCAGC
Statistics
Matches: 60, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.26, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:27968962 original size:58 final size:59
Alignment explanation
Indices: 27968908--27969030 Score: 178
Period size: 58 Copynumber: 2.1 Consensus size: 59
27968898 CCGCACACAC
* *
27968908 AGTGCCATACCCTTCGAGC-TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
* * * *
27968966 AGTGCCATATATTTCCAGCAT-GCACACTCAGTGCCATATTTTTCCAGCATGCACACTT
1 AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
27969024 AGTGCCA
1 AGTGCCA
27969031 ATCTCGTCAC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 57 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (59 bp):
AGTGCCATACACTTCCAGCATCGCACACTTAGTGCCATATATTTCCAGCATGCACACTT
Found at i:27968975 original size:29 final size:29
Alignment explanation
Indices: 27968929--27969030 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
27968919 CTTCGAGCTC
27968929 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27968958 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
27968987 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27969016 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
27969031 ATCTCGTCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 70 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:27973071 original size:39 final size:40
Alignment explanation
Indices: 27973017--27973154 Score: 156
Period size: 40 Copynumber: 3.5 Consensus size: 40
27973007 CAACCAAGTA
** *
27973017 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAATTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAATTG
* *
27973056 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
* * * *
27973096 CCTTCGGGACTTAGCCCGGA-ATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAATTG
27973136 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
27973155 TTATCATCCG
Statistics
Matches: 85, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 14 0.16
40 71 0.84
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
Found at i:27981040 original size:40 final size:40
Alignment explanation
Indices: 27980963--27981144 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
27980953 CAACCAAGTA
** * * *
27980963 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAATTT
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAATTG
27981002 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
*
27981042 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
* * * * * *
27981082 CCTTCGGGCCTTAGCCCGG-AATTAGTCATTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAATTG
27981122 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
27981145 CATCCGAATA
Statistics
Matches: 124, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 14 0.11
40 109 0.88
41 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
Found at i:27982336 original size:7 final size:6
Alignment explanation
Indices: 27982319--27982348 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
27982309 AGGATGAAGC
27982319 CTTTTT CTTTTT CTTTTT CTTTTTT CTTTT
1 CTTTTT CTTTTT CTTTTT C-TTTTT CTTTT
27982349 AGGTACGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
CTTTTT
Found at i:27982336 original size:12 final size:13
Alignment explanation
Indices: 27982319--27982348 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
27982309 AGGATGAAGC
27982319 CTTTTTC-TTTTT
1 CTTTTTCTTTTTT
27982331 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
27982344 CTTTT
1 CTTTT
27982349 AGGTACGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:27985388 original size:93 final size:93
Alignment explanation
Indices: 27985278--27985448 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
27985268 GCCCCTAAGT
* * *
27985278 GAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTTAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTAAACTCAA
*
27985343 CGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * * *
27985371 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTAAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTAAACTCAA
27985436 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27985449 TCAATCATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGGACATTCGCATCCATAAATGAACTCGGACTAAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:27985433 original size:46 final size:46
Alignment explanation
Indices: 27985273--27985445 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
27985263 AACCCGCCCC
* * * * *
27985273 TAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
27985319 TAAATGAACTCGGACTTAACTCAACGAGTTTGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
27985367 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
27985412 TAAGTGAACTCGGACTAAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27985446 TGCTCAATCA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 56 0.55
47 27 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:27990154 original size:46 final size:45
Alignment explanation
Indices: 27990087--27990262 Score: 144
Period size: 46 Copynumber: 3.8 Consensus size: 45
27990077 TATTTTAACA
27990087 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACG
* * * * * *
27990133 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGAAATGTA-ACAAGTCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCAA--CG
* *
27990180 TCCTAACTCGTTGAGTTGAGTCTGAGCTT-ACTTATGGATGCCAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATG-CAACG
* * * *
27990226 CCCGAGC-CAGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAACTC-GTTGAGTTGAGTCCGAGTTCACTTATGG
27990263 GCAGGTTACA
Statistics
Matches: 102, Mismatches: 18, Indels: 20
0.73 0.13 0.14
Matches are distributed among these distances:
45 6 0.06
46 60 0.59
47 30 0.29
48 6 0.06
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACG
Found at i:27990254 original size:93 final size:93
Alignment explanation
Indices: 27990085--27990255 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 93
27990075 GATATTTTAA
* *
27990085 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAACGCCCGAACTCGTTGAGTT
**
27990150 GAGTCTGAGTTCGTGAAATGTAACAAGT
66 GAGTCCAAGTTCGTGAAATGTAACAAGT
* * *
27990178 CATCCTAACTCGTTGAGTTGAGTCTGAGCTT-ACTTATGGATGCCAACGCCCGAGC-CAGTTGAG
1 CATCCGAACTCGTTGAGTTGAGTCCGAG-TTCACTTATGGATGCCAACGCCCGAACTC-GTTGAG
27990241 TTGAGTCCAAGTTCG
64 TTGAGTCCAAGTTCG
27990256 CTTATGGGCA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
92 1 0.01
93 66 0.96
94 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCCAACGCCCGAACTCGTTGAGTT
GAGTCCAAGTTCGTGAAATGTAACAAGT
Found at i:28001005 original size:27 final size:27
Alignment explanation
Indices: 28000975--28001492 Score: 630
Period size: 27 Copynumber: 19.2 Consensus size: 27
28000965 AAAGTACTCC
28000975 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
28001002 CGATTTACAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
28001029 CGATTTTTAAAATTACCGTTTTACGCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
28001056 TGAGTTACAGAATTACCGTTTTACCGT
1 CGATTTACAGAATTACCGTTTTACCCT
*
28001083 CGATTTACAGAATTACCGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
28001110 CGATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
28001137 TGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
28001164 CGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
28001191 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
28001218 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
28001245 C-AGTTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
28001272 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
28001299 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
28001326 C-AGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
**
28001353 CGATTTACAGAATTATTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
28001380 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
28001407 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
28001434 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
28001461 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
28001488 TGATT
1 CGATT
28001493 GTGAAATTAC
Statistics
Matches: 425, Mismatches: 60, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
26 3 0.01
27 419 0.99
28 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:28001527 original size:27 final size:27
Alignment explanation
Indices: 28001497--28001692 Score: 257
Period size: 27 Copynumber: 7.3 Consensus size: 27
28001487 TTGATTGTGA
*
28001497 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
28001524 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
28001551 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
28001578 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
28001605 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
28001632 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
28001659 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
28001686 AATTACC
1 AATTACC
28001693 ATTTTGCCCC
Statistics
Matches: 146, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:28001929 original size:27 final size:26
Alignment explanation
Indices: 28001891--28001973 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
28001881 CGGAGGAAGC
*
28001891 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
28001918 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
28001944 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
28001971 GTT
1 GTT
28001974 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:28002093 original size:22 final size:22
Alignment explanation
Indices: 28002061--28002119 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
28002051 CCCGTTATTA
*
28002061 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
28002083 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
28002105 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
28002120 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:28002306 original size:27 final size:27
Alignment explanation
Indices: 28002284--28002357 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
28002274 TAGGTGGGTT
*
28002284 TGCCACATTATCTG-ATGCTGGTGGCTC
1 TGCCACAATATCTGTAT-CTGGTGGCTC
*
28002311 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
28002338 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
28002358 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 35 0.83
28 2 0.05
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:28002511 original size:6 final size:6
Alignment explanation
Indices: 28002500--28002667 Score: 161
Period size: 6 Copynumber: 27.8 Consensus size: 6
28002490 ATGTCACGTA
*
28002500 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
* * *
28002548 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTA ATTCTG -TCACCTA ATTCTG
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG
* *
28002597 ATTCTG ATTCTA ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG
28002644 ATTACTG ATTCTG ATTCTG ATTCT
1 ATT-CTG ATTCTG ATTCTG ATTCT
28002668 CATTTTGCTT
Statistics
Matches: 135, Mismatches: 12, Indels: 30
0.76 0.07 0.17
Matches are distributed among these distances:
5 12 0.09
6 111 0.82
7 9 0.07
8 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:28002545 original size:30 final size:29
Alignment explanation
Indices: 28002510--28002667 Score: 191
Period size: 30 Copynumber: 5.4 Consensus size: 29
28002500 ATTCTGATTC
28002510 TGATTCTGATTCTGATTCTGTTACTAATAT
1 TGATTCTGATTCTGATTCTGTTACTAAT-T
28002540 TGATTCTGATTCTGATTCTGTTAC-----
1 TGATTCTGATTCTGATTCTGTTACTAATT
* *
28002564 TGATTCTGATTCTAATTCTGTCACCTAATT
1 TGATTCTGATTCTGATTCTGTTA-CTAATT
*
28002594 CTGATTCTGATTCTAATTCTGTTACTAATAT
1 -TGATTCTGATTCTGATTCTGTTACTAAT-T
* *
28002625 TGATTCTGATTCTGATTCTATTACTGATT
1 TGATTCTGATTCTGATTCTGTTACTAATT
28002654 CTGATTCTGATTCT
1 -TGATTCTGATTCT
28002668 CATTTTGCTT
Statistics
Matches: 113, Mismatches: 6, Indels: 18
0.82 0.04 0.13
Matches are distributed among these distances:
24 21 0.19
25 1 0.01
29 1 0.01
30 67 0.59
31 23 0.20
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (29 bp):
TGATTCTGATTCTGATTCTGTTACTAATT
Found at i:28002621 original size:85 final size:85
Alignment explanation
Indices: 28002506--28002667 Score: 297
Period size: 85 Copynumber: 1.9 Consensus size: 85
28002496 CGTAATTCTG
* *
28002506 ATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTGATTCTGATTCTGTTACTGATTCT
1 ATTCTGATTCTGATTCTAATTCTGTTACTAATATTGATTCTGATTCTGATTCTATTACTGATTCT
28002571 GATTCTAATTCTGTCACCTA
66 GATTCTAATTCTGTCACCTA
28002591 ATTCTGATTCTGATTCTAATTCTGTTACTAATATTGATTCTGATTCTGATTCTATTACTGATTCT
1 ATTCTGATTCTGATTCTAATTCTGTTACTAATATTGATTCTGATTCTGATTCTATTACTGATTCT
*
28002656 GATTCTGATTCT
66 GATTCTAATTCT
28002668 CATTTTGCTT
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.22, C:0.17, G:0.12, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTAATTCTGTTACTAATATTGATTCTGATTCTGATTCTATTACTGATTCT
GATTCTAATTCTGTCACCTA
Found at i:28002685 original size:30 final size:30
Alignment explanation
Indices: 28002506--28002688 Score: 168
Period size: 30 Copynumber: 6.3 Consensus size: 30
28002496 CGTAATTCTG
* *
28002506 ATTCTGATTCTGATTCTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTAATTCTGTTACCA
*
28002536 ATAT-TGATTCTGATTCTGATTCTGTT----
1 AT-TCTGATTCTGATTCTAATTCTGTTACCA
*
28002562 A--CTGATTCTGATTCTAATTCTGTCACCTA
1 ATTCTGATTCTGATTCTAATTCTGTTACC-A
*
28002591 ATTCTGATTCTGATTCTAATTCTGTTACTA
1 ATTCTGATTCTGATTCTAATTCTGTTACCA
* * **
28002621 ATAT-TGATTCTGATTCTGATTCTATTACTG
1 AT-TCTGATTCTGATTCTAATTCTGTTACCA
* *
28002651 ATTCTGATTCTGATTCTCATTTTGCTT-CCA
1 ATTCTGATTCTGATTCTAATTCTG-TTACCA
28002681 ATTCTGAT
1 ATTCTGAT
28002689 AATGTTTCTT
Statistics
Matches: 129, Mismatches: 12, Indels: 24
0.78 0.07 0.15
Matches are distributed among these distances:
24 20 0.16
26 1 0.01
29 2 0.02
30 78 0.60
31 28 0.22
ACGTcount: A:0.21, C:0.17, G:0.12, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTAATTCTGTTACCA
Found at i:28005170 original size:46 final size:46
Alignment explanation
Indices: 28005111--28005226 Score: 160
Period size: 46 Copynumber: 2.5 Consensus size: 46
28005101 ATTTGAACAT
* * * *
28005111 CCGAACTCATTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGT
1 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACGC
* * *
28005157 CTGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATTCAAACGC
1 CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACGC
*
28005203 CCGAGCTCGTTGAGTTGAGTCTGA
1 CCGAACTCGTTGAGTTGAGTCTGA
28005227 ATTTCGCTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCTGAGTTCACTTACGGATGCAAACGC
Found at i:28019546 original size:29 final size:27
Alignment explanation
Indices: 28019512--28019614 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
28019502 TACTCAATCA
*
28019512 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
28019541 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
28019570 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
28019599 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
28019615 ATCTTGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:28022267 original size:25 final size:25
Alignment explanation
Indices: 28022239--28022286 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
28022229 TAAGAAAACC
28022239 ATCAATCTTTTTATTTAAGAGTTTT
1 ATCAATCTTTTTATTTAAGAGTTTT
28022264 ATCAATCTTTTTATTTAAGAGTT
1 ATCAATCTTTTTATTTAAGAGTT
28022287 CTACCTGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.54
Consensus pattern (25 bp):
ATCAATCTTTTTATTTAAGAGTTTT
Found at i:28024823 original size:46 final size:46
Alignment explanation
Indices: 28024771--28025125 Score: 338
Period size: 46 Copynumber: 7.8 Consensus size: 46
28024761 ATTTGGGCAT
* *
28024771 CCGAACTCGTTGATTTGAGTCTGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*** * *
28024817 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT--
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGC
* * *
28024864 CCGAACTGGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * *
28024910 CCGAACTCGTTGAGTTGAATCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
* ***
28024955 ATCCGAGCTCGTTGAGTTGAGTCC--G---ACTTATGGATGCGAACAT
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
28024998 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
28025044 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
28025090 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
28025126 GCGGGTTACA
Statistics
Matches: 252, Mismatches: 36, Indels: 42
0.76 0.11 0.13
Matches are distributed among these distances:
41 21 0.08
42 2 0.01
43 9 0.04
44 4 0.02
45 9 0.04
46 151 0.60
47 50 0.20
48 1 0.00
49 4 0.02
50 1 0.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:28024877 original size:47 final size:47
Alignment explanation
Indices: 28024817--28025025 Score: 188
Period size: 47 Copynumber: 4.6 Consensus size: 47
28024807 ATGCGAATGC
28024817 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCAT
* * *** * *
28024864 CCGAACTGGTTGAGTTGAGTTCGAGTTC-ACTTATG-GA-T-GCGAAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT
* *
28024908 GGCCGAACTCGTTGAGTTGAATCCGAGTTCGTGAGATGTAACTAGGCAT
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCAT
* * * *
28024957 CCGAGCTCGTTGAGTTGAGTCCGACTT--ATG-GATG---CGA-ACAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGA-GAGATGTAACTAGGCAT
28024998 CCGAACTCGTTGAGTTGAGTCCGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
28025026 ACTTATGGAT
Statistics
Matches: 129, Mismatches: 24, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
41 28 0.22
42 2 0.02
43 1 0.01
44 4 0.03
45 5 0.04
46 30 0.23
47 53 0.41
48 1 0.01
49 4 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAGGCAT
Found at i:28024925 original size:93 final size:92
Alignment explanation
Indices: 28024766--28025117 Score: 437
Period size: 93 Copynumber: 3.8 Consensus size: 92
28024756 AGGATATTTG
*
28024766 GGCATCCGAACTCGTTGATTTGAGTCTGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTC-GAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
28024831 TTGAGTCCGAGTTCGAGAGATGTAACTA
65 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
28024859 GGCATCCGAACTGGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAATGGCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAG-TCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
* *
28024924 TTGAATCCGAGTTCGTGAGATGTAACTA
65 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * ***
28024952 GGCATCCGAGCTCGTTGAGTTGAGTC-CG---ACTTATGGATGCGAACATCCGAACTCGTTGAGT
1 GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
*** * * *
28025013 TGAGTCCGAGTTC-ACTTATGGATGCGA
66 TGAGTCCGAGTTCGAGAGATGTA-ACTA
* * * * *
28025040 -ACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
28025104 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
28025118 ACTTATGGGC
Statistics
Matches: 223, Mismatches: 29, Indels: 15
0.84 0.11 0.06
Matches are distributed among these distances:
87 25 0.11
88 45 0.20
89 1 0.00
91 1 0.00
92 42 0.19
93 107 0.48
94 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:28029673 original size:40 final size:40
Alignment explanation
Indices: 28029569--28029692 Score: 124
Period size: 40 Copynumber: 3.1 Consensus size: 40
28029559 CGGAATACAA
**
28029569 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
28029609 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
*** * * *
28029649 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
28029689 CCGG
1 CCGG
28029693 GTATCATTCA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 2 0.03
40 66 0.97
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:28031696 original size:68 final size:69
Alignment explanation
Indices: 28031624--28031771 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 69
28031614 CATCATGTGT
* * * *
28031624 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
28031686 ATGTAG
64 ATGTAG
* ** * *
28031692 ACAAGAGAGCT--ATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
28031755 GTAG
66 GTAG
28031759 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
28031772 GAGATAAACT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 20 0.30
65 7 0.11
66 5 0.08
67 23 0.35
68 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (69 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
GTAG
Found at i:28036399 original size:21 final size:20
Alignment explanation
Indices: 28036371--28036411 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
28036361 TGTCCTAAGA
28036371 CTTAGTTAT-TTATATGTTTT
1 CTTAGTTATATT-TATGTTTT
28036391 CTTATGTTATATTTATGTTTT
1 CTTA-GTTATATTTATGTTTT
28036412 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 13 0.68
22 2 0.11
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.66
Consensus pattern (20 bp):
CTTAGTTATATTTATGTTTT
Found at i:28036906 original size:2 final size:2
Alignment explanation
Indices: 28036899--28036930 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
28036889 AAACTTAAAC
28036899 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
28036931 TAACTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28044477 original size:18 final size:18
Alignment explanation
Indices: 28044454--28044488 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
28044444 GGACACGCCC
*
28044454 GTGTGGGCAGGCCGTGTA
1 GTGTGGGCAAGCCGTGTA
*
28044472 GTGTGGGTAAGCCGTGT
1 GTGTGGGCAAGCCGTGT
28044489 GGTCATACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.14, G:0.49, T:0.26
Consensus pattern (18 bp):
GTGTGGGCAAGCCGTGTA
Found at i:28055290 original size:14 final size:15
Alignment explanation
Indices: 28055241--28055290 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
28055231 GTATCTTGGG
*
28055241 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
28055256 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
28055271 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
28055285 TTTCTT
1 TTTCTT
28055291 GTTATCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 8 0.26
15 23 0.74
ACGTcount: A:0.10, C:0.18, G:0.12, T:0.60
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:28063478 original size:40 final size:40
Alignment explanation
Indices: 28063423--28063550 Score: 141
Period size: 40 Copynumber: 3.2 Consensus size: 40
28063413 TGAATGATAC
* *
28063423 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * ** *
28063463 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * * *
28063503 CCGGGTTAAGACCCGAAGACAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
28063543 CC-GGCTAA
1 CCGGGCTAA
28063551 ATTCCGAAGA
Statistics
Matches: 70, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
39 5 0.07
40 65 0.93
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:28075833 original size:40 final size:40
Alignment explanation
Indices: 28075786--28075986 Score: 286
Period size: 39 Copynumber: 5.1 Consensus size: 40
28075776 CGGGCTTTAA
** *
28075786 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
**
28075826 CCGGATATAGTAGTTCGCACAAATGCCTTC-GGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
28075865 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
28075905 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
28075944 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC-TAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
28075983 CCGG
1 CCGG
28075987 TTATCATCCA
Statistics
Matches: 149, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
39 83 0.56
40 66 0.44
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:28075903 original size:79 final size:79
Alignment explanation
Indices: 28075786--28075986 Score: 309
Period size: 79 Copynumber: 2.6 Consensus size: 79
28075776 CGGGCTTTAA
* * **
28075786 CCGGATATAGCCACTCGCTCAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAGTTCGCACAAAT
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAAT
28075850 GCCTTCGGACTTAGC
65 GCCTTCGGACTTAGC
*
28075865 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATG
1 CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATG
28075930 CCTTCGGACTTAGC
66 CCTTCGGACTTAGC
*
28075944 CCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC-TAGCCCGG
1 CCGGATA-TAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGG
28075987 TTATCATCCA
Statistics
Matches: 113, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
78 9 0.08
79 102 0.90
80 2 0.02
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (79 bp):
CCGGATATAGTCACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATG
CCTTCGGACTTAGC
Found at i:28084161 original size:40 final size:40
Alignment explanation
Indices: 28084117--28084261 Score: 240
Period size: 40 Copynumber: 3.6 Consensus size: 40
28084107 GCCACTCGCT
28084117 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCACA
*
28084157 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
*
28084197 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCA-CA
28084237 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
28084262 TTATCATCCG
Statistics
Matches: 100, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
40 98 0.98
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
Found at i:28097334 original size:40 final size:40
Alignment explanation
Indices: 28097289--28097456 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
28097279 CGGAATATAA
28097289 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
28097329 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
28097369 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
28097409 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
28097449 CCGGATAT
1 CCGGATAT
28097457 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:28105364 original size:40 final size:40
Alignment explanation
Indices: 28105319--28105486 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
28105309 CGGAATATAA
28105319 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
28105359 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
28105399 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
28105439 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
28105479 CCGGATAT
1 CCGGATAT
28105487 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:28115681 original size:55 final size:55
Alignment explanation
Indices: 28115616--28115728 Score: 145
Period size: 55 Copynumber: 2.1 Consensus size: 55
28115606 TAGGCCCACA
* * * *
28115616 CCCGTGTTAATCTGACAGGTTCACCCACGGTTGCTCGGTACGGGCGTGTCGCACG
1 CCCGTGTTAATCTGACAGGTTCACCCACAGTTGCTAGGCACGGGCGTGTCACACG
* ** **
28115671 CCCGTGTTAATTTGACAGGTTCGGCCACAGTTTTTAGGCACGGGCGTGTCACACG
1 CCCGTGTTAATCTGACAGGTTCACCCACAGTTGCTAGGCACGGGCGTGTCACACG
28115726 CCC
1 CCC
28115729 ATGGCAGGTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.16, C:0.30, G:0.29, T:0.25
Consensus pattern (55 bp):
CCCGTGTTAATCTGACAGGTTCACCCACAGTTGCTAGGCACGGGCGTGTCACACG
Found at i:28120425 original size:68 final size:68
Alignment explanation
Indices: 28120311--28120447 Score: 220
Period size: 68 Copynumber: 2.0 Consensus size: 68
28120301 TTTAAGACGT
*
28120311 TCTAATTAATAATCTAAAGAAATTTAATGCAAATTCCTTCTAGAATCCAAGTTTTGCAATTTATT
1 TCTAATTAATAATCTAAAGAAATTTAATGCAAATTCCTTCTAGAATCCAAGTTTTACAATTTATT
28120376 CAA
66 CAA
* * * * *
28120379 TCTAATTAATAATCTAAAGCAATTTCATGCAAATTGCTTCTGGAATCCAAGTTTTATAATTTATT
1 TCTAATTAATAATCTAAAGAAATTTAATGCAAATTCCTTCTAGAATCCAAGTTTTACAATTTATT
28120444 CAA
66 CAA
28120447 T
1 T
28120448 TTGGTCCTTA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (68 bp):
TCTAATTAATAATCTAAAGAAATTTAATGCAAATTCCTTCTAGAATCCAAGTTTTACAATTTATT
CAA
Found at i:28121859 original size:27 final size:27
Alignment explanation
Indices: 28121687--28121860 Score: 222
Period size: 27 Copynumber: 6.4 Consensus size: 27
28121677 ACATAGGGGT
* * * *
28121687 AAATAGTCATCTGAGCAAATAAGGGCA
1 AAATAGTCATTTTACCACATAAGGGCA
*
28121714 ATATAGTCATTTTACCACATAAGGGCA
1 AAATAGTCATTTTACCACATAAGGGCA
* *
28121741 AAATAGTCATTCTACTACATAAGGGCA
1 AAATAGTCATTTTACCACATAAGGGCA
* * * *
28121768 AAACAATCATATTACCACATAAGGTCA
1 AAATAGTCATTTTACCACATAAGGGCA
* *
28121795 AAATAGTAATTCTACCACATAAGGGCA
1 AAATAGTCATTTTACCACATAAGGGCA
*
28121822 AAACAGTCATTTTACCACATAAGGGCA
1 AAATAGTCATTTTACCACATAAGGGCA
28121849 AAATAGTCATTT
1 AAATAGTCATTT
28121861 CATCAAATTG
Statistics
Matches: 123, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (27 bp):
AAATAGTCATTTTACCACATAAGGGCA
Found at i:28123273 original size:24 final size:24
Alignment explanation
Indices: 28123246--28123297 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
28123236 CCCACTTTTT
* * *
28123246 CCTCCCCTAATCTCTCCTAAAATC
1 CCTCCCCAAATATCTCATAAAATC
* *
28123270 CCTCCTCAAATATCTCATCAAATC
1 CCTCCCCAAATATCTCATAAAATC
28123294 CCTC
1 CCTC
28123298 AACTGATCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.44, G:0.00, T:0.29
Consensus pattern (24 bp):
CCTCCCCAAATATCTCATAAAATC
Found at i:28127588 original size:39 final size:39
Alignment explanation
Indices: 28127496--28127652 Score: 233
Period size: 39 Copynumber: 4.0 Consensus size: 39
28127486 CCGGTTATGG
* ** *
28127496 TAACCCGCACAAAGGCCTTCGGGACTTAACCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
* * *
28127536 CAATTTGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
*
28127575 TAACTCGCCCAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
28127614 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
1 TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
28127653 CTCGAACATT
Statistics
Matches: 105, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
TAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCA
Found at i:28135025 original size:39 final size:39
Alignment explanation
Indices: 28134907--28135089 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
28134897 TCGTTCAAAC
* * ** * **
28134907 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
28134947 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
28134987 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
28135026 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
28135065 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
28135090 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:28142450 original size:39 final size:39
Alignment explanation
Indices: 28142332--28142514 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
28142322 TCGTTCAAAC
* * ** * **
28142332 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
28142372 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
28142412 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
28142451 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
28142490 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
28142515 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Done.