Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 114 of 218
Found at i:33526726 original size:27 final size:26
Alignment explanation
Indices: 33526687--33526754 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
33526677 GAAGTATATT
**
33526687 TTACTGGTGGCTTTGCCACATATACTA
1 TTACTGGCAGCTTTGCCACAT-TACTA
*** * *
33526714 TTACTGGCAGCTTTGTTGCGTTACTG
1 TTACTGGCAGCTTTGCCACATTACTA
33526740 TTACTGGCAGCTTTG
1 TTACTGGCAGCTTTG
33526755 TTGTGTCATT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.40
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCCACATTACTA
Found at i:33526745 original size:26 final size:26
Alignment explanation
Indices: 33526709--33526780 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
33526699 TTGCCACATA
33526709 TACTATTACTGGCAGCTTTGTTGCGT
1 TACTATTACTGGCAGCTTTGTTGCGT
* *
33526735 TACTGTTACTGGCAGCTTTGTTGTGT
1 TACTATTACTGGCAGCTTTGTTGCGT
* * *
33526761 CATTATTACTGGCAACTTTG
1 TACTATTACTGGCAGCTTTG
33526781 CTACGATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGTTGCGT
Found at i:33526942 original size:28 final size:27
Alignment explanation
Indices: 33526900--33526956 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
33526890 TATTGATTAT
* *
33526900 TGTATTGGGCTAAGGCCCACACTGTTAC
1 TGTAATGGGCCAAGGCCCACACTG-TAC
33526928 TGTAATGGGCCAAGGCCCACACTGTAC
1 TGTAATGGGCCAAGGCCCACACTGTAC
33526955 TG
1 TG
33526957 ATACTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (27 bp):
TGTAATGGGCCAAGGCCCACACTGTAC
Found at i:33527738 original size:27 final size:26
Alignment explanation
Indices: 33527707--33527778 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
33527697 CAGTGAACCC
* *
33527707 TAAAGAAACTCCTTTGTGGCGCAGTA
1 TAAAGAAACGCCTTTGTGGCGCAATA
* * * *
33527733 TGAAAGGAACGACTTTTTGGTGCAATA
1 T-AAAGAAACGCCTTTGTGGCGCAATA
*
33527760 TAAAGAAAAGCCTTTGTGG
1 TAAAGAAACGCCTTTGTGG
33527779 TGACTGATGA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
26 15 0.43
27 20 0.57
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (26 bp):
TAAAGAAACGCCTTTGTGGCGCAATA
Found at i:33540058 original size:3 final size:3
Alignment explanation
Indices: 33540050--33540077 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
33540040 GGTTAAAAAT
33540050 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33540078 GAAAAGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:33544237 original size:19 final size:19
Alignment explanation
Indices: 33544201--33544239 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
33544191 TTACCATGTA
* **
33544201 TAATCTCTATTTTTCAATT
1 TAATCCCTATTTGACAATT
33544220 TAATCCCTATTTGACAATT
1 TAATCCCTATTTGACAATT
33544239 T
1 T
33544240 CATCAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.03, T:0.51
Consensus pattern (19 bp):
TAATCCCTATTTGACAATT
Found at i:33545339 original size:36 final size:35
Alignment explanation
Indices: 33545288--33545415 Score: 107
Period size: 36 Copynumber: 3.6 Consensus size: 35
33545278 AGTACATTAA
* * * *
33545288 TAATCCAACCAAAACACACCAGTTGCTCATAAGAGC
1 TAATACAACCGAAACACACCA-CTGCTCAGAAGAGC
*
33545324 TAA-ACCATCCGAAACACACCACTGCTCAGAAGAGC
1 TAATA-CAACCGAAACACACCACTGCTCAGAAGAGC
* * * *
33545359 TAATACAACTGAAACACACCAATGACTCCGAAAAGC
1 TAATACAACCGAAACACACCACTG-CTCAGAAGAGC
* *
33545395 -AAGTCCAATCGAAACACACCA
1 TAA-TACAACCGAAACACACCA
33545416 AAATAGAGAG
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
35 33 0.44
36 42 0.56
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.13
Consensus pattern (35 bp):
TAATACAACCGAAACACACCACTGCTCAGAAGAGC
Found at i:33545357 original size:35 final size:36
Alignment explanation
Indices: 33545288--33545379 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 36
33545278 AGTACATTAA
* * * *
33545288 TAATCCAACCAAAACACACCAGTTGCTCATAAGAGC
1 TAATACAACCGAAACACACCAGCTGCTCAGAAGAGC
*
33545324 TAA-ACCATCCGAAACACACCA-CTGCTCAGAAGAGC
1 TAATA-CAACCGAAACACACCAGCTGCTCAGAAGAGC
*
33545359 TAATACAACTGAAACACACCA
1 TAATACAACCGAAACACACCA
33545380 ATGACTCCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 29 0.62
36 18 0.38
ACGTcount: A:0.43, C:0.32, G:0.11, T:0.14
Consensus pattern (36 bp):
TAATACAACCGAAACACACCAGCTGCTCAGAAGAGC
Found at i:33552297 original size:35 final size:35
Alignment explanation
Indices: 33552248--33552360 Score: 120
Period size: 35 Copynumber: 3.2 Consensus size: 35
33552238 AATCCAACCA
*
33552248 AAACACATCAAATGCTCATAAGAGCTAAACCATCTG
1 AAACACA-CAAATGCTCATAAGAGCTAAACCAACTG
* *
33552284 AAACACACAAATGCTCATAATAGCTAATCCAACTG
1 AAACACACAAATGCTCATAAGAGCTAAACCAACTG
* * ** *
33552319 AAACAAACTAATGGCTC-TGAAGAGCTAGTCCAACCG
1 AAACACACAAAT-GCTCAT-AAGAGCTAAACCAACTG
33552355 AAACAC
1 AAACAC
33552361 GCCAAAACAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
35 36 0.55
36 30 0.45
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (35 bp):
AAACACACAAATGCTCATAAGAGCTAAACCAACTG
Found at i:33553452 original size:12 final size:12
Alignment explanation
Indices: 33553435--33553464 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33553425 CCTCACACAC
33553435 TCGTGTGCCAGG
1 TCGTGTGCCAGG
*
33553447 TCGTGTGCTAGG
1 TCGTGTGCCAGG
33553459 TCGTGT
1 TCGTGT
33553465 AACTTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.20, G:0.40, T:0.33
Consensus pattern (12 bp):
TCGTGTGCCAGG
Found at i:33554410 original size:84 final size:84
Alignment explanation
Indices: 33554269--33554436 Score: 318
Period size: 84 Copynumber: 2.0 Consensus size: 84
33554259 GATAGTGTGA
33554269 TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
1 TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
33554334 ACGTAAGCAATGAATGCTT
66 ACGTAAGCAATGAATGCTT
*
33554353 TAGATCTCTGACGAGTTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
1 TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
*
33554418 ACGTAAGCAATGGATGCTT
66 ACGTAAGCAATGAATGCTT
33554437 AGTAAGCTCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (84 bp):
TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
ACGTAAGCAATGAATGCTT
Found at i:33555614 original size:137 final size:137
Alignment explanation
Indices: 33555361--33555628 Score: 313
Period size: 137 Copynumber: 2.0 Consensus size: 137
33555351 GAGCCATAAA
* * * * * * *
33555361 TAGGTCTGCTCACACAAGCTGACGGTCGAAATGTAGCTACACGATGCTGCTCACACAAGTTGACG
1 TAGGTCTGCTCACACAAGCTAACGGTCGAAATATAACTACACAATGCCGCTCACACAAGCTGACA
** * * * * *
33555426 AGTATCTAAAACAAATTTCAAAACTCAACCATCGGTAGGACATTCAGGACCAGCACCCAAAACAT
66 AGTATCTAAAACAAATGCCAAAACTCAACCATCAGTAGAAAATTCAAGACCAACACCCAAAACAT
33555491 GGTAACT
131 GGTAACT
* *
33555498 TAGGTCTGCTCACACAAGCTAACGGTCGGAATATAATTACACAATGCCGCTCACACAAGCTGACA
1 TAGGTCTGCTCACACAAGCTAACGGTCGAAATATAACTACACAATGCCGCTCACACAAGCTGACA
** * * ** *
33555563 AGTAT-TCGCAACATATGCCAAACCTCAGTCATCAGTAGAAAATTGAAGACCAACACCCAAAACA
66 AGTATCT-AAAACAAATGCCAAAACTCAACCATCAGTAGAAAATTCAAGACCAACACCCAAAACA
33555627 TG
130 TG
33555629 AAAACCTAAT
Statistics
Matches: 107, Mismatches: 23, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
136 1 0.01
137 106 0.99
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.20
Consensus pattern (137 bp):
TAGGTCTGCTCACACAAGCTAACGGTCGAAATATAACTACACAATGCCGCTCACACAAGCTGACA
AGTATCTAAAACAAATGCCAAAACTCAACCATCAGTAGAAAATTCAAGACCAACACCCAAAACAT
GGTAACT
Found at i:33558524 original size:52 final size:52
Alignment explanation
Indices: 33558463--33558566 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
33558453 TTTATAGAGA
*
33558463 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATATTGTGACTTGGTT
1 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
33558515 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
1 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
33558567 TGTGTTGCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (52 bp):
ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
Found at i:33558550 original size:26 final size:26
Alignment explanation
Indices: 33558469--33558550 Score: 65
Period size: 26 Copynumber: 3.2 Consensus size: 26
33558459 GAGAATTTAC
33558469 TTTCCTATTGAAAGTAAATAAATCAT
1 TTTCCTATTGAAAGTAAATAAATCAT
* ** * *** * * * *
33558495 TTTCATATTGTGACTTGGTTATTTAC
1 TTTCCTATTGAAAGTAAATAAATCAT
33558521 TTTCCTATTGAAAGTAAATAAATCAT
1 TTTCCTATTGAAAGTAAATAAATCAT
33558547 TTTC
1 TTTC
33558551 ATACTGTGAC
Statistics
Matches: 34, Mismatches: 22, Indels: 0
0.61 0.39 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (26 bp):
TTTCCTATTGAAAGTAAATAAATCAT
Found at i:33559668 original size:24 final size:24
Alignment explanation
Indices: 33559640--33559686 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
33559630 CTATTTTTGT
*
33559640 GAGTACCATATTTCTAGTTAATGC
1 GAGTACCATATTTCTACTTAATGC
33559664 GAGTACCATATTTCTACTTAATG
1 GAGTACCATATTTCTACTTAATG
33559687 TTTGTTTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (24 bp):
GAGTACCATATTTCTACTTAATGC
Found at i:33561311 original size:8 final size:8
Alignment explanation
Indices: 33561298--33561322 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33561288 ATGCCCATAA
33561298 TATATTTT
1 TATATTTT
33561306 TATATTTT
1 TATATTTT
33561314 TATATTTT
1 TATATTTT
33561322 T
1 T
33561323 TATGTACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATATTTT
Found at i:33566123 original size:14 final size:14
Alignment explanation
Indices: 33566106--33566144 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
33566096 TTTTATACCA
*
33566106 ATAATTTTTATAAT
1 ATAATATTTATAAT
*
33566120 ATAATATTTATATT
1 ATAATATTTATAAT
*
33566134 ATAACATTTAT
1 ATAATATTTAT
33566145 CTAATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
ATAATATTTATAAT
Found at i:33569101 original size:18 final size:18
Alignment explanation
Indices: 33569061--33569127 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
33569051 TTTCGCGATA
*
33569061 AATAACGTTTTGAAAATT
1 AATAACGTTTTGAAAATG
*
33569079 TATAACGTTTTGAAAGA-G
1 AATAACGTTTTGAAA-ATG
* *
33569097 AATAAC-TTATGAATATG
1 AATAACGTTTTGAAAATG
*
33569114 AATCACG-TTTGAAA
1 AATAACGTTTTGAAA
33569128 TTGATCGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.03
17 17 0.45
18 19 0.50
19 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.34
Consensus pattern (18 bp):
AATAACGTTTTGAAAATG
Found at i:33570815 original size:14 final size:13
Alignment explanation
Indices: 33570767--33570816 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
33570757 ACTGGTCATA
33570767 GAGAGA-ATTGAG
1 GAGAGATATTGAG
* *
33570779 GAGGGATATT-TG
1 GAGAGATATTGAG
33570791 GAGAGAT-TTGAG
1 GAGAGATATTGAG
33570803 GAGAGAATATTGAG
1 GAGAG-ATATTGAG
33570817 ATTTGGGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 2 0.07
12 18 0.60
13 5 0.17
14 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (13 bp):
GAGAGATATTGAG
Found at i:33571501 original size:27 final size:27
Alignment explanation
Indices: 33571471--33571613 Score: 191
Period size: 27 Copynumber: 5.3 Consensus size: 27
33571461 GAGAGGTCAA
33571471 TAAAATGACCGAAATACCCCTATAGGG
1 TAAAATGACCGAAATACCCCTATAGGG
* *
33571498 TAAAATGACCGAAATACCCATATAAGG
1 TAAAATGACCGAAATACCCCTATAGGG
** * *
33571525 TAAAATGACTAAAATACCCCCATAGGC
1 TAAAATGACCGAAATACCCCTATAGGG
*
33571552 TAGAATGACCGAAATA-CCCTCATAGGG
1 TAAAATGACCGAAATACCCCT-ATAGGG
*
33571579 TAAAATGACC-AAATACCCCTATTGGG
1 TAAAATGACCGAAATACCCCTATAGGG
33571605 TAAAATGAC
1 TAAAATGAC
33571614 TATTATACCC
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
26 22 0.22
27 77 0.78
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.20
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCTATAGGG
Found at i:33571578 original size:81 final size:80
Alignment explanation
Indices: 33571474--33571624 Score: 232
Period size: 80 Copynumber: 1.9 Consensus size: 80
33571464 AGGTCAATAA
33571474 AATGACCGAAATACCCCTATAGGGTAAAATGACCGAAATACCCATATAAGGTAAAATGACTAAAA
1 AATGACCGAAATACCCCTATAGGGTAAAATGACC-AAATACCCATATAAGGTAAAATGACTAAAA
33571539 TACCCCCATAGGCTAG
65 TACCCCCATAGGCTAG
* ** **
33571555 AATGACCGAAATA-CCCTCATAGGGTAAAATGACCAAATACCCCTATTGGGTAAAATGACTATTA
1 AATGACCGAAATACCCCT-ATAGGGTAAAATGACCAAATACCCATATAAGGTAAAATGACTAAAA
33571619 TACCCC
65 TACCCC
33571625 TAGGAGATAA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
80 35 0.55
81 29 0.45
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.21
Consensus pattern (80 bp):
AATGACCGAAATACCCCTATAGGGTAAAATGACCAAATACCCATATAAGGTAAAATGACTAAAAT
ACCCCCATAGGCTAG
Found at i:33575026 original size:55 final size:55
Alignment explanation
Indices: 33574959--33575261 Score: 340
Period size: 55 Copynumber: 5.4 Consensus size: 55
33574949 AAGCAACACT
* * *
33574959 TTAATTTAATTTAGGATAGCAT-AATAATACTCAATTTGAAACATTAAATAGCAAC
1 TTAATTTAATTTAAGACAGCATGAA-AATGCTCAATTTGAAACATTAAATAGCAAC
33575014 TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGAAACATTAAATAGCAAC
1 TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGAAACATTAAATAGCAAC
* * *
33575069 TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGATAA-ACTAAAACACCAAC
1 TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGA-AACA-TTAAATAGCAAC
* * * * * *
33575125 TTTAATTCAATTTATGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGC
1 -TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGAAACA-TTAAATAGCAAC
* * * * * *
33575182 TTGATTCAATTTAAGACAGTATGAAAATGCTCAATTTGAAACACTCAAACAACAAC
1 TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGAAACA-TTAAATAGCAAC
* * *
33575238 TTTAATTCATTTTATGACAGCATG
1 -TTAATTTAATTTAAGACAGCATG
33575262 CAAACAGTAA
Statistics
Matches: 223, Mismatches: 19, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
55 89 0.40
56 66 0.30
57 68 0.30
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (55 bp):
TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGAAACATTAAATAGCAAC
Found at i:33575238 original size:113 final size:112
Alignment explanation
Indices: 33574959--33575261 Score: 380
Period size: 113 Copynumber: 2.7 Consensus size: 112
33574949 AAGCAACACT
* * * * * * * *
33574959 TTAATTTAATTTAGGATAGCAT-AATAATACTCAATTTGAAACA-TTAAATAGCAAC-TTAATTT
1 TTAATTCAATTTAAGACAGCATGAA-AATGCTCAATTTGAAACACTAAAACAACAACTTTAATTC
* * * *
33575021 AATTTAAGACAGCATGAAAATGCTCAATTTGAAACATTAAATAGCAAC
65 AATTTATGACAGCATGAAAATGCTCAATTTGAAACATAAAACAACAAC
* *
33575069 TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGATAA-ACTAAAACACCAACTTTAATTC
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGA-AACACTAAAACAACAACTTTAATTC
*
33575133 AATTTATGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGC
65 AATTTATGACAGCATGAAAATGCTCAATTTGAAACA-TAAAACAACAAC
* * *
33575182 TTGATTCAATTTAAGACAGTATGAAAATGCTCAATTTGAAACACTCAAACAACAACTTTAATTCA
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCA
*
33575247 TTTTATGACAGCATG
66 ATTTATGACAGCATG
33575262 CAAACAGTAA
Statistics
Matches: 169, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
110 34 0.20
111 13 0.08
112 43 0.25
113 79 0.47
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (112 bp):
TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCA
ATTTATGACAGCATGAAAATGCTCAATTTGAAACATAAAACAACAAC
Found at i:33576096 original size:18 final size:18
Alignment explanation
Indices: 33576073--33576117 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
33576063 TTTATGATTG
33576073 GGTTGGGTAATTGAGTTT
1 GGTTGGGTAATTGAGTTT
* * *
33576091 GGTTGGATACTTGGGTTT
1 GGTTGGGTAATTGAGTTT
33576109 GGATTGGGT
1 GG-TTGGGT
33576118 TTAGGTGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.13, C:0.02, G:0.42, T:0.42
Consensus pattern (18 bp):
GGTTGGGTAATTGAGTTT
Found at i:33583458 original size:27 final size:27
Alignment explanation
Indices: 33583428--33583488 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
33583418 CAGTAACAGA
*
33583428 ACAGAACAA-TGTGGGCTTTAACCCAAT
1 ACAGAACAAGT-TGGGCCTTAACCCAAT
*
33583455 ACAGAAACAAGTTGGGCCTTAGCCCAAT
1 ACAG-AACAAGTTGGGCCTTAACCCAAT
33583483 ACAGAA
1 ACAGAA
33583489 ACAGTATGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 6 0.20
28 23 0.77
29 1 0.03
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (27 bp):
ACAGAACAAGTTGGGCCTTAACCCAAT
Found at i:33583929 original size:27 final size:27
Alignment explanation
Indices: 33583899--33584130 Score: 173
Period size: 27 Copynumber: 8.9 Consensus size: 27
33583889 TAACCTATAA
33583899 GGGTATTTCGATAATTTCACAAACTAG
1 GGGTATTTCGATAATTTCACAAACTAG
*
33583926 GGGTATTTCGGTAATTTCACAAA-TCAG
1 GGGTATTTCGATAATTTCACAAACT-AG
* * * * *
33583953 GGGTATTTCGGTAATTTTAAAAATTGG
1 GGGTATTTCGATAATTTCACAAACTAG
* * *
33583980 GGGTATTTCAATAATTTTACACAC-AG
1 GGGTATTTCGATAATTTCACAAACTAG
33584006 AGGGTATTT---TAA--T-A-AAACTAG
1 -GGGTATTTCGATAATTTCACAAACTAG
*
33584027 GGGTATTTCGATAATTTCACAAATTAG
1 GGGTATTTCGATAATTTCACAAACTAG
** * *
33584054 GGGCGTTTCGATAATTTTACAAATTAG
1 GGGTATTTCGATAATTTCACAAACTAG
* * * *
33584081 AGGTATTTC-AGTAATTTTACACAC-CG
1 GGGTATTTCGA-TAATTTCACAAACTAG
33584107 GGAGTATTTC-AGTAATTTCACAAA
1 GG-GTATTTCGA-TAATTTCACAAA
33584131 TCGGGGGTCT
Statistics
Matches: 168, Mismatches: 24, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
20 11 0.07
21 3 0.02
22 1 0.01
23 3 0.02
24 3 0.02
25 1 0.01
26 6 0.04
27 139 0.83
28 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGATAATTTCACAAACTAG
Found at i:33584115 original size:101 final size:101
Alignment explanation
Indices: 33583919--33584104 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
33583909 ATAATTTCAC
* * * * *
33583919 AAACTAGGGGTATTTCGGTAATTTCACAAATCAGGGGTATTTCGGTAATTTTAAAAATTGGGGGT
1 AAACTAGGGGTATTTCGATAATTTCACAAATCAGGGGCATTTCGATAATTTTAAAAATTAGAGGT
33583984 ATTTCAATAATTTTACACACAGAGGGTATTTTAATA
66 ATTTCAATAATTTTACACACAGAGGGTATTTTAATA
* * *
33584020 AAACTAGGGGTATTTCGATAATTTCACAAATTAGGGGCGTTTCGATAATTTTACAAATTAGAGGT
1 AAACTAGGGGTATTTCGATAATTTCACAAATCAGGGGCATTTCGATAATTTTAAAAATTAGAGGT
*
33584085 ATTTCAGTAATTTTACACAC
66 ATTTCAATAATTTTACACAC
33584105 CGGGAGTATT
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (101 bp):
AAACTAGGGGTATTTCGATAATTTCACAAATCAGGGGCATTTCGATAATTTTAAAAATTAGAGGT
ATTTCAATAATTTTACACACAGAGGGTATTTTAATA
Found at i:33587166 original size:41 final size:40
Alignment explanation
Indices: 33587032--33587166 Score: 118
Period size: 41 Copynumber: 3.5 Consensus size: 40
33587022 ACCAGTTTGG
* * * * *
33587032 CACCCAGTGCCTCATCGAATAATTCGAAGTAATAATTTGA
1 CACCTAGTGTCTCATCGAATAATCCGAAGTAGTAAATTGA
** * *
33587072 CACC-AGTGTCTCATCGGCTAAACCG-A--AGTAAATTGG
1 CACCTAGTGTCTCATCGAATAATCCGAAGTAGTAAATTGA
*
33587108 CA-CTCAGTGCCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCT-AGTGTCTCATCGAA-TAATCCGAAGTAGTAAATTGA
*
33587149 CACCTAGTGTCTTATCGA
1 CACCTAGTGTCTCATCGA
33587167 CTCGAAGTTG
Statistics
Matches: 73, Mismatches: 15, Indels: 13
0.72 0.15 0.13
Matches are distributed among these distances:
35 1 0.01
36 9 0.12
37 11 0.15
38 7 0.10
39 17 0.23
40 4 0.05
41 22 0.30
42 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.27
Consensus pattern (40 bp):
CACCTAGTGTCTCATCGAATAATCCGAAGTAGTAAATTGA
Found at i:33588002 original size:22 final size:22
Alignment explanation
Indices: 33587975--33588045 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
33587965 TAATTTCTCC
33587975 TTTCTTTCTTTCTCTTTCTCTT
1 TTTCTTTCTTTCTCTTTCTCTT
* *
33587997 TTTCTTTCTTTCCCTTTCT-AT
1 TTTCTTTCTTTCTCTTTCTCTT
*
33588018 TTTCGTTTCTATCTCTGTT-TCTT
1 TTTC-TTTCTTTCTCT-TTCTCTT
33588041 TTTCT
1 TTTCT
33588046 ATTTTCTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 5 0.12
22 29 0.71
23 7 0.17
ACGTcount: A:0.03, C:0.25, G:0.03, T:0.69
Consensus pattern (22 bp):
TTTCTTTCTTTCTCTTTCTCTT
Found at i:33588501 original size:3 final size:3
Alignment explanation
Indices: 33588493--33588533 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
33588483 AACTAAAAGA
33588493 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33588534 AATGAATAGC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33592066 original size:41 final size:41
Alignment explanation
Indices: 33591977--33592085 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 41
33591967 TCAGGCTCTG
* * * *
33591977 TGCCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA
1 TGCCTAGCAGGCTTCATGCCGGTGTATTATATCAGACTTTA
* *
33592018 TGTCTAGCAGGCTTCATGCCGGTGTATTGA-ATCAGGCTTT-
1 TGCCTAGCAGGCTTCATGCCGGTGTATT-ATATCAGACTTTA
* *
33592058 TGGCCTAGCAGGCTTCGTGCCAGTGTAT
1 T-GCCTAGCAGGCTTCATGCCGGTGTAT
33592086 CATTTCAAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.02
41 55 0.96
42 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (41 bp):
TGCCTAGCAGGCTTCATGCCGGTGTATTATATCAGACTTTA
Found at i:33596665 original size:16 final size:18
Alignment explanation
Indices: 33596639--33596671 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33596629 TTAATTTAAA
33596639 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
33596656 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
33596672 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:33603968 original size:25 final size:24
Alignment explanation
Indices: 33603931--33603996 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
33603921 TCCTTTACAT
33603931 GTATGCTCATACGAGCTCTAAATCG
1 GTATGCTCATACGAGCTCT-AATCG
* * *
33603956 GTATGCTCTTACGACCTGTAATCG
1 GTATGCTCATACGAGCTCTAATCG
* *
33603980 GTAAGATCATACGAGCT
1 GTATGCTCATACGAGCT
33603997 AAATAATAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
GTATGCTCATACGAGCTCTAATCG
Found at i:33604047 original size:25 final size:25
Alignment explanation
Indices: 33603935--33604048 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
33603925 TTACATGTAT
* * *
33603935 GCTCATACGAGCTCTAA-ATCGGTAT
1 GCTCATACGAGCT-GAATAACGGTAA
* *
33603960 GCTCTTACGACCTG--TAATCGGTAA
1 GCTCATACGAGCTGAATAA-CGGTAA
* * **
33603984 GATCATACGAGCTAAATAATAGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
33604009 GCTCATGCTAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
33604034 GCTCGTACGAGCTGA
1 GCTCATACGAGCTGA
33604049 GAATCTGTAA
Statistics
Matches: 65, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
23 1 0.02
24 15 0.23
25 46 0.71
26 3 0.05
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:33617846 original size:3 final size:3
Alignment explanation
Indices: 33617838--33617866 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
33617828 GGCTTAAATA
33617838 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
33617867 AACTGACGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:33619634 original size:51 final size:51
Alignment explanation
Indices: 33619558--33619778 Score: 207
Period size: 51 Copynumber: 4.4 Consensus size: 51
33619548 TATCAACACG
* * * *
33619558 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATA-GATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGAT-ATGATCACA
* * * * *
33619609 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAAGGCTTTGGTCACC
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGATATGATCACA
* * *
33619660 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAA-G-TTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAAGGATATGATCACA
* * * * * *
33619710 TGTGTAGTACTACGTGAAGGCTACTACGTGTATCG-AATGATAATAATTACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGAT-ATGATCACA
* *
33619761 TGGGTGGTACTATGTGCA
1 TGTGTAGTACTATGTGCA
33619779 AACCACCGAA
Statistics
Matches: 142, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.01
49 2 0.01
50 39 0.27
51 93 0.65
52 6 0.04
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGATATGATCACA
Found at i:33631188 original size:9 final size:9
Alignment explanation
Indices: 33631174--33631201 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
33631164 AATTTCATAC
33631174 CAAGCTTAA
1 CAAGCTTAA
33631183 CAAGCTTAA
1 CAAGCTTAA
33631192 CAAGCTTAA
1 CAAGCTTAA
33631201 C
1 C
33631202 CCACAATACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.43, C:0.25, G:0.11, T:0.21
Consensus pattern (9 bp):
CAAGCTTAA
Found at i:33634187 original size:39 final size:40
Alignment explanation
Indices: 33634038--33634262 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
33634028 GCTCCTCGTT
* *
33634038 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
33634078 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
33634118 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
33634158 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
33634197 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
33634238 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33634263 CATCATTCAA
Statistics
Matches: 165, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
38 2 0.01
39 37 0.22
40 113 0.68
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:33634222 original size:119 final size:120
Alignment explanation
Indices: 33634038--33634262 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
33634028 GCTCCTCGTT
**
33634038 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
33634103 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
33634158 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
33634220 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
33634263 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.72
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:33639174 original size:28 final size:28
Alignment explanation
Indices: 33639108--33639174 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
33639098 CTTAGACAGT
*
33639108 AACAGTAT-AGTGTGGGCCTTAGCCCAA
1 AACAGTATCAGTGTGGGCCTAAGCCCAA
* * * *
33639135 AATAGAAACAGTGTGGGCCTAAGCCCGA
1 AACAGTATCAGTGTGGGCCTAAGCCCAA
*
33639163 TACAGTATCAGT
1 AACAGTATCAGT
33639175 ATGGTGCAAG
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (28 bp):
AACAGTATCAGTGTGGGCCTAAGCCCAA
Found at i:33639430 original size:32 final size:32
Alignment explanation
Indices: 33639386--33639701 Score: 362
Period size: 32 Copynumber: 9.9 Consensus size: 32
33639376 GTCACAACAA
* * *
33639386 TAATATGTTTGGCACAAAGCCATCAGTAGCAG
1 TAATATGATTGGCACAAAGCCATCAGTAACGG
* * *
33639418 TGATATGATTGGCACACAGTCATCAGTAACGG
1 TAATATGATTGGCACAAAGCCATCAGTAACGG
* * * *
33639450 TAATATGATCGGTACAAAGCTATCAGTAATGG
1 TAATATGATTGGCACAAAGCCATCAGTAACGG
*
33639482 TAAAATGATTGGCACAAAGCCATCAGTAACGG
1 TAATATGATTGGCACAAAGCCATCAGTAACGG
*
33639514 TAATATGATCGGCACAAAGCCATCAGTAACGG
1 TAATATGATTGGCACAAAGCCATCAGTAACGG
** *
33639546 TAATATGATCAGCACAAAGCCATCAGTAACGA
1 TAATATGATTGGCACAAAGCCATCAGTAACGG
* * *
33639578 TAATATGATTGGCACAAAGCTATCAATAACGA
1 TAATATGATTGGCACAAAGCCATCAGTAACGG
*** * *
33639610 TAATATGACCAGTACAAAGCCATCAGTAATGG
1 TAATATGATTGGCACAAAGCCATCAGTAACGG
* * * *
33639642 TAATATGATCGACACAAAGCCATTAATAACGG
1 TAATATGATTGGCACAAAGCCATCAGTAACGG
* **
33639674 TAATATGATCGAAACAAAGCCATCAGTA
1 TAATATGATTGGCACAAAGCCATCAGTA
33639702 GTATCGCAAC
Statistics
Matches: 240, Mismatches: 44, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 240 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (32 bp):
TAATATGATTGGCACAAAGCCATCAGTAACGG
Found at i:33639803 original size:27 final size:27
Alignment explanation
Indices: 33639769--33640005 Score: 282
Period size: 27 Copynumber: 8.8 Consensus size: 27
33639759 TTAACCTCGA
* *
33639769 GGGTATTATGGTTATTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTACAG
* *
33639796 GGGTATTACAGTCATTTTACCCTACAA
1 GGGTATTACGGTCATTTTACCCTACAG
* * * *
33639823 GGGCATTATGGTCATTTTACCCTATAA
1 GGGTATTACGGTCATTTTACCCTACAG
*
33639850 GGGTATTAC-GACATTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTACAG
* * *
33639876 GGGCATTACGGTCATTTAAACCTACAG
1 GGGTATTACGGTCATTTTACCCTACAG
* *
33639903 GGGCATTACGGTTATTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTACAG
33639930 GGGTATTACGGTCATTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTACAG
**
33639957 GGACATTA-GGTTCATTTTACCCTACAG
1 GGGTATTACGG-TCATTTTACCCTACAG
*
33639984 GGGTAATT-CGGTAATTTTACCC
1 GGGT-ATTACGGTCATTTTACCC
33640006 ATCGAGGGTA
Statistics
Matches: 179, Mismatches: 27, Indels: 8
0.84 0.13 0.04
Matches are distributed among these distances:
26 24 0.13
27 150 0.84
28 5 0.03
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (27 bp):
GGGTATTACGGTCATTTTACCCTACAG
Found at i:33639870 original size:80 final size:81
Alignment explanation
Indices: 33639768--33640005 Score: 284
Period size: 80 Copynumber: 3.0 Consensus size: 81
33639758 TTTAACCTCG
* ** * * *
33639768 AGGGTATTATGGTTATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAAGGGCATTATG
1 AGGGTATTACGGACATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACG
*
33639833 GTCATTTTACCCTATA
66 GTCATTTTACCCTACA
* * *
33639849 AGGGTATTAC-GACATTTTACCCTACAGGGGCATTACGGTCATTTAAACCTACAGGGGCATTACG
1 AGGGTATTACGGACATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACG
*
33639913 GTTATTTTACCCTACA
66 GTCATTTTACCCTACA
* * * * *
33639929 GGGGTATTACGGTCATTTTACCCTACAGGGACATTA-GGTTCATTTTACCCTACAGGGGTAATT-
1 AGGGTATTACGGACATTTTACCCTACAGGGGCATTACGG-TCATTTTACCCTACAAGGG-CATTA
*
33639992 CGGTAATTTTACCC
64 CGGTCATTTTACCC
33640006 ATCGAGGGTA
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
80 71 0.52
81 62 0.46
82 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (81 bp):
AGGGTATTACGGACATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAGGGCATTACG
GTCATTTTACCCTACA
Found at i:33640015 original size:81 final size:81
Alignment explanation
Indices: 33639765--33640032 Score: 296
Period size: 81 Copynumber: 3.3 Consensus size: 81
33639755 TCATTTAACC
* * * * *
33639765 TCGAGGGTATTATGGTTATTTTACCCTACAGGGGTATTACAGTCATTTTACCCTACAAGGGCATT
1 TCGAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATT
* *
33639830 ATGGTCATTTTACCCTA
66 ACGGTAATTTTACCC-A
* * * *
33639847 T-AAGGGTATTAC-GACATTTTACCCTACAGGGGCATTACGGTCATTTAAACCTACAGGGGCATT
1 TCGAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATT
*
33639910 ACGGTTATTTTACCC-
66 ACGGTAATTTTACCCA
*
33639925 TAC-AGGGGTATTACGGTCATTTTACCCTACAGGGACATTA-GGTTCATTTTACCCTACAGGGGT
1 T-CGA-GGGTATTACGGTCATTTTACCCTACAGGGGCATTACGG-TCATTTTACCCTACAGGGG-
*
33639988 AATT-CGGTAATTTTACCCA
62 CATTACGGTAATTTTACCCA
* * *
33640007 TCGAGGGTATTTCGATAATTTTACCC
1 TCGAGGGTATTACGGTCATTTTACCC
33640033 ATCGGGTTTA
Statistics
Matches: 158, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
78 1 0.01
79 1 0.01
80 68 0.43
81 82 0.52
82 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (81 bp):
TCGAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATT
ACGGTAATTTTACCCA
Found at i:33640028 original size:54 final size:54
Alignment explanation
Indices: 33639769--33640032 Score: 216
Period size: 54 Copynumber: 4.9 Consensus size: 54
33639759 TTAACCTCGA
* * ** * *
33639769 GGGTATTATGGTTATTTTACCCTACAGGGGTATTAC-AGTCATTTTACCCTACAA
1 GGGTATTACGGTAATTTTACCCTACAGGGACATTACGA-TAATTTTACCCTACAG
* * * * * *
33639823 GGGCATTATGGTCATTTTACCCTATAAGGG-TATTACGA-CATTTTACCCTACAG
1 GGGTATTACGGTAATTTTACCCTA-CAGGGACATTACGATAATTTTACCCTACAG
* * * * * * *
33639876 GGGCATTACGGTCATTTAAACCTACAGGGGCATTACGGTTATTTTACCCTACAG
1 GGGTATTACGGTAATTTTACCCTACAGGGACATTACGATAATTTTACCCTACAG
* * * *
33639930 GGGTATTACGGTCATTTTACCCTACAGGGACATTAGGTTCATTTTACCCTACAG
1 GGGTATTACGGTAATTTTACCCTACAGGGACATTACGATAATTTTACCCTACAG
* *
33639984 GGGTAATT-CGGTAATTTTACCC-ATCGAGGG-TATTTCGATAATTTTACCC
1 GGGT-ATTACGGTAATTTTACCCTA-C-AGGGACATTACGATAATTTTACCC
33640033 ATCGGGTTTA
Statistics
Matches: 179, Mismatches: 24, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
52 4 0.02
53 42 0.23
54 121 0.68
55 12 0.07
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (54 bp):
GGGTATTACGGTAATTTTACCCTACAGGGACATTACGATAATTTTACCCTACAG
Found at i:33640045 original size:27 final size:27
Alignment explanation
Indices: 33639984--33640036 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
33639974 TACCCTACAG
* *
33639984 GGGTAATTCGGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
33640011 GGGTATTTCGATAATTTTACCCATCG
1 GGGTATTTCGATAATTTTACCCATCG
33640037 GGTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCATCGA
Found at i:33640052 original size:27 final size:26
Alignment explanation
Indices: 33639994--33640081 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
33639984 GGGTAATTCG
*
33639994 GTAATTTTACCCATCGAGGGTA-TTTC
1 GTAATTTTACCCATCG-GGGTATTTTA
*
33640020 GATAATTTTACCCATCGGGTTTATTTTA
1 G-TAATTTTACCCATCGGG-GTATTTTA
* *
33640048 GTAATTTTACCAATCAGGGGTATTTTG
1 GTAATTTTACCCATC-GGGGTATTTTA
33640075 GTAATTT
1 GTAATTT
33640082 AACAACTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
26 3 0.06
27 43 0.81
28 7 0.13
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (26 bp):
GTAATTTTACCCATCGGGGTATTTTA
Found at i:33643208 original size:22 final size:21
Alignment explanation
Indices: 33643154--33643218 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
33643144 TGCCAGTAGT
33643154 CAGAATGGCTAAGAGCCATAAA
1 CAGAATGGCTAA-AGCCATAAA
* * * *
33643176 GAGGATAGCTATAAGCTATAAA
1 CAGAATGGCTA-AAGCCATAAA
33643198 CAGAATGGCTACAAGCCATAA
1 CAGAATGGCTA-AAGCCATAA
33643219 GTATAGTAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
CAGAATGGCTAAAGCCATAAA
Found at i:33643278 original size:32 final size:32
Alignment explanation
Indices: 33643235--33643476 Score: 313
Period size: 32 Copynumber: 7.6 Consensus size: 32
33643225 TAATATTTTT
* * *
33643235 GGCACAAAGCCATCAGTAGCAGTGATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * *
33643267 GGCACACAGCCATCAGTAATGATAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
*
33643299 GGTACAAAGCCATCAGTAACGGTAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
33643331 GGCACAAAGCCATCAGTAACGGTAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* *
33643363 GACACAAAGCCATCAGTAACGGTAATATGACC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * * *
33643395 GGTACAAAGCCATCAATAACGATAATATAATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * * * *
33643427 GGTACAAAGCCATCAATAACGATAATATAACC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
*
33643459 GGCACAAGGCCATCAGTA
1 GGCACAAAGCCATCAGTA
33643477 GCGTCGCACC
Statistics
Matches: 187, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 187 1.00
ACGTcount: A:0.40, C:0.22, G:0.19, T:0.19
Consensus pattern (32 bp):
GGCACAAAGCCATCAGTAACGGTAATATGATC
Found at i:33643669 original size:24 final size:23
Alignment explanation
Indices: 33643627--33643701 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
33643617 TCAGAATTAG
* * *
33643627 TCATCCAAATCACAAACAAATCAG
1 TCATCTAAA-CACAGACAAATCAA
* *
33643651 TCATACTAAACATAGACAAATCAT
1 TCAT-CTAAACACAGACAAATCAA
* *
33643675 TCATTTAACCACAGACAAATCAA
1 TCATCTAAACACAGACAAATCAA
33643698 TCAT
1 TCAT
33643702 TTGACCTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 19 0.45
24 19 0.45
25 4 0.10
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (23 bp):
TCATCTAAACACAGACAAATCAA
Found at i:33643694 original size:23 final size:23
Alignment explanation
Indices: 33643637--33643703 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
33643627 TCATCCAAAT
* * *
33643637 CACAAACAAATCAGTCATACTAAA
1 CACAGACAAATCAATCAT-TTAAA
* * *
33643661 CATAGACAAATCATTCATTTAAC
1 CACAGACAAATCAATCATTTAAA
33643684 CACAGACAAATCAATCATTT
1 CACAGACAAATCAATCATTT
33643704 GACCTCAAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (23 bp):
CACAGACAAATCAATCATTTAAA
Found at i:33643748 original size:27 final size:27
Alignment explanation
Indices: 33643716--33644138 Score: 531
Period size: 27 Copynumber: 15.7 Consensus size: 27
33643706 CCTCAAGGGT
33643716 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
*
33643743 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
33643770 ATTACGATCAGTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* ** * * *
33643797 ATTACGATCATTTTATGCTACAAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
33643824 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
33643851 ATTACGATCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
*
33643878 ATTACGATCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
33643905 ATTACGATCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
33643932 ATTACAGTTATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
*
33643959 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
33643986 ATTACGATCATTTTACCCTAGAGGGAC
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
33644013 ATTACGGTCATTTTACCCTACATGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
33644040 ATTACGATCATTTTACCTTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* * * *
33644067 ATTATGGTCATTTTACCCTACATGGAC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
33644094 ATTACGGTCATTTTACCCTAAAAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
**
33644121 ATTTTGGTCATTTTACCC
1 ATTACGGTCATTTTACCC
33644139 ATTGGGGGTA
Statistics
Matches: 340, Mismatches: 56, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 340 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGC
Found at i:33644147 original size:27 final size:27
Alignment explanation
Indices: 33644117--33644178 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
33644107 TACCCTAAAA
* **
33644117 GGGTATTTTGGTCATTTTACCCATTGG
1 GGGTATTTTGGTAATTTTACCCATCAG
*
33644144 GGGTATTTTGGTAATTTTATCCATCAG
1 GGGTATTTTGGTAATTTTACCCATCAG
33644171 GGGTATTT
1 GGGTATTT
33644179 CAGTAAAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.18, C:0.11, G:0.26, T:0.45
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACCCATCAG
Found at i:33648130 original size:15 final size:17
Alignment explanation
Indices: 33648104--33648135 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33648094 GTATTATTGA
33648104 ATAAATTTATA-TGTTT
1 ATAAATTTATATTGTTT
33648120 ATAAA-TTATATTGTTT
1 ATAAATTTATATTGTTT
33648136 TCTATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
ATAAATTTATATTGTTT
Found at i:33648460 original size:20 final size:20
Alignment explanation
Indices: 33648437--33648484 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
33648427 TTGCACTCCA
33648437 GTGCCT-TTGTCTACACTTCG
1 GTGCCTCTT-TCTACACTTCG
* *
33648457 GTGCCTCTTTCTGCACTTTG
1 GTGCCTCTTTCTACACTTCG
33648477 GTGCCTCT
1 GTGCCTCT
33648485 GTTATGCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.06, C:0.31, G:0.21, T:0.42
Consensus pattern (20 bp):
GTGCCTCTTTCTACACTTCG
Found at i:33651058 original size:20 final size:20
Alignment explanation
Indices: 33651035--33651081 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
33651025 GGGTTAAGAT
*
33651035 TGAGCTGAATTGAGCTTGAA
1 TGAGCTGAATTGAGCTCGAA
* * *
33651055 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAA
33651075 TGAGCTG
1 TGAGCTG
33651082 GAAACAAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.23, C:0.13, G:0.34, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAA
Found at i:33652806 original size:48 final size:48
Alignment explanation
Indices: 33652751--33652856 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
33652741 TTGTCTTTTC
*
33652751 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
33652799 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
33652847 TTTCTTTTTC
1 TTTCTTTTTC
33652857 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:33653928 original size:23 final size:24
Alignment explanation
Indices: 33653902--33653956 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
33653892 TTTAACTTGA
*
33653902 TTTTTTTGCTC-ACTTTTTTT-TCT
1 TTTTTTTGCTCGA-TTTTTTTCACT
*
33653925 TTTTTTTTCTCGATTTTTTTCACT
1 TTTTTTTGCTCGATTTTTTTCACT
33653949 TTTTTTTG
1 TTTTTTTG
33653957 AATTTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTTTTTGCTCGATTTTTTTCACT
Found at i:33653962 original size:11 final size:11
Alignment explanation
Indices: 33653938--33653972 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
33653928 TTTTTCTCGA
* *
33653938 TTTTTTTCACT
1 TTTTTTTGAAT
33653949 TTTTTTTGAAT
1 TTTTTTTGAAT
33653960 TTTTTTTGAAT
1 TTTTTTTGAAT
33653971 TT
1 TT
33653973 CGATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.14, C:0.06, G:0.06, T:0.74
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:33654871 original size:209 final size:210
Alignment explanation
Indices: 33654469--33654886 Score: 829
Period size: 209 Copynumber: 2.0 Consensus size: 210
33654459 ACCTATATGG
33654469 AGGTAAGAACCAAAGGTATAGGAAGATGGTTGAATGCCACACCGATTTGGTGATAAGTTCAATGG
1 AGGTAAGAACCAAAGGTATAGGAAGATGGTTGAATGCCACACCGATTTGGTGATAAGTTCAATGG
33654534 AGTTCGGATTGACACCACTAGCAAGCTAGATAAGTCGCTTCAAGACTCGAACGAAAGAAGAGAGG
66 AGTTCGGATTGACACCACTAGCAAGCTAGATAAGTCGCTTCAAGACTCGAACGAAAGAAGAGAGG
33654599 AGGTAACCTCACAAGAACAAAAGTTCTATTAAGTTTAATTGATCAAATTCTGTAACCTTTTACAA
131 AGGTAACCTCACAAGAACAAAAGTTCTATTAAGTTTAATTGATCAAATTCTGTAACCTTTTACAA
33654664 TAAACAAGTAAGCTT
196 TAAACAAGTAAGCTT
33654679 AGGTAAGAACCAAAGGTATAGGAAGATGGTTGAATGCCACACCGATTTGGTGATAAGTTCAATGG
1 AGGTAAGAACCAAAGGTATAGGAAGATGGTTGAATGCCACACCGATTTGGTGATAAGTTCAATGG
33654744 AGTTCGGATTGACACCACTAGCAAGCTAGAT-AGTCGCTTCAAGACTCGAACGAAAGAAGAGAGG
66 AGTTCGGATTGACACCACTAGCAAGCTAGATAAGTCGCTTCAAGACTCGAACGAAAGAAGAGAGG
33654808 AGGTAACCTCACAAGAACAAAAGTTCTATTAAGTTTAATTGATCAAATTCTGTAACCTTTTACAA
131 AGGTAACCTCACAAGAACAAAAGTTCTATTAAGTTTAATTGATCAAATTCTGTAACCTTTTACAA
33654873 TAAACAAGTAAGCT
196 TAAACAAGTAAGCT
33654887 ATTTATAAGC
Statistics
Matches: 208, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
209 112 0.54
210 96 0.46
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (210 bp):
AGGTAAGAACCAAAGGTATAGGAAGATGGTTGAATGCCACACCGATTTGGTGATAAGTTCAATGG
AGTTCGGATTGACACCACTAGCAAGCTAGATAAGTCGCTTCAAGACTCGAACGAAAGAAGAGAGG
AGGTAACCTCACAAGAACAAAAGTTCTATTAAGTTTAATTGATCAAATTCTGTAACCTTTTACAA
TAAACAAGTAAGCTT
Found at i:33664590 original size:14 final size:14
Alignment explanation
Indices: 33664571--33664602 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
33664561 AAATACGTAT
33664571 TTTATTGATCCTTA
1 TTTATTGATCCTTA
33664585 TTTATTGATCCTTA
1 TTTATTGATCCTTA
33664599 TTTA
1 TTTA
33664603 CTAAGGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTATTGATCCTTA
Found at i:33665069 original size:39 final size:39
Alignment explanation
Indices: 33665026--33665103 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
33665016 AAGAAAGGAA
33665026 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
1 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
33665065 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
1 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
33665104 TGACTGACGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (39 bp):
AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
Found at i:33669463 original size:69 final size:69
Alignment explanation
Indices: 33669379--33669629 Score: 324
Period size: 69 Copynumber: 3.6 Consensus size: 69
33669369 ATAGTTGGAC
* ** * *
33669379 ATTATAATGTCATTTTGATTCTATAAAATATATGTTTCAATTGAATTTTAATGTTGTCTATTTTA
1 ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCATTTTA
33669444 GGAT
66 GGAT
* * * * *
33669448 ATTGTCATGTCATTTTGGTGGTATAAAATATGTGTTTCAATTGAAGTTTAATGTTATCCATTTTG
1 ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCATTTTA
33669513 GGAT
66 GGAT
* * * *
33669517 ATTATCATGTCATTTCGGTTGTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
1 ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCATTTTA
* *
33669582 AGAC
66 GGAT
* *
33669586 ATTACCATGTCATTTT-AGTGGTATAAAATACATGTTTCAATTGA
1 ATTATCATGTCATTTTGA-TGGTATAAAATATATGTTTCAATTGA
33669630 GGTAGCAATG
Statistics
Matches: 156, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
69 156 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (69 bp):
ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCATTTTA
GGAT
Found at i:33669554 original size:138 final size:138
Alignment explanation
Indices: 33669379--33669629 Score: 376
Period size: 138 Copynumber: 1.8 Consensus size: 138
33669369 ATAGTTGGAC
* * * *
33669379 ATTATAATGTCATTTTGATTCTATAAAATATATGTTTCAATTGAATTTTAATGTTGTCTATTTTA
1 ATTATAATGTCATTTCGATTCTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
* * ** * **
33669444 GGATATTGTCATGTCATTTTGGTGGTATAAAATATGTGTTTCAATTGAAGTTTAATGTTATCCAT
66 AGACATTACCATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGAAGTTTAATGTTATCCAT
33669509 TTTGGGAT
131 TTTGGGAT
* * *
33669517 ATTATCATGTCATTTCGGTTGTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
1 ATTATAATGTCATTTCGATTCTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
33669582 AGACATTACCATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGA
66 AGACATTACCATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGA
33669630 GGTAGCAATG
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
138 99 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (138 bp):
ATTATAATGTCATTTCGATTCTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
AGACATTACCATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGAAGTTTAATGTTATCCAT
TTTGGGAT
Found at i:33673144 original size:26 final size:26
Alignment explanation
Indices: 33673115--33673183 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
33673105 CATTCTGACC
*
33673115 CACAGCTCATGTGAGTAGACCAATTT
1 CACAGCTCATGTGAGCAGACCAATTT
* * * *
33673141 CACAACTCGTGTGAGCAGGCCCATTT
1 CACAGCTCATGTGAGCAGACCAATTT
*
33673167 CATAGCTCATGTGAGCA
1 CACAGCTCATGTGAGCA
33673184 ACGATGTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (26 bp):
CACAGCTCATGTGAGCAGACCAATTT
Found at i:33677171 original size:25 final size:25
Alignment explanation
Indices: 33677129--33677199 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 25
33677119 ACAGCTCGTG
* *
33677129 AGAGCA-AACAATTTATAGCTTATA
1 AGAGCATACCAATTTATAGCTCATA
*
33677153 AGAGCATACCAATTTATAGCTCATG
1 AGAGCATACCAATTTATAGCTCATA
*
33677178 AGAGCATACCGATTTATAGCTC
1 AGAGCATACCAATTTATAGCTC
33677200 GAGTGAGCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 6 0.14
25 36 0.86
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (25 bp):
AGAGCATACCAATTTATAGCTCATA
Found at i:33677207 original size:25 final size:25
Alignment explanation
Indices: 33677154--33677261 Score: 121
Period size: 25 Copynumber: 4.3 Consensus size: 25
33677144 TAGCTTATAA
* *
33677154 GAGCATACCAATTTATAGCTC-ATGA
1 GAGCATACCGATTTATAGCTCGA-GT
33677179 GAGCATACCGATTTATAGCTCGAGT
1 GAGCATACCGATTTATAGCTCGAGT
* * *
33677204 GAGCATATCGATCTACAGCTCGAGT
1 GAGCATACCGATTTATAGCTCGAGT
* *
33677229 GAGCATACCGACTCATAGCTCGTA-T
1 GAGCATACCGATTTATAGCTCG-AGT
33677254 GAGCATAC
1 GAGCATAC
33677262 ATGTACATGA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
25 69 0.97
26 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (25 bp):
GAGCATACCGATTTATAGCTCGAGT
Found at i:33690611 original size:50 final size:50
Alignment explanation
Indices: 33690512--33690750 Score: 237
Period size: 50 Copynumber: 4.7 Consensus size: 50
33690502 AAAGAGATCT
33690512 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA-G--ATGAGAGGTCC
* * *
33690568 CATGTAAGACCATGTCTGTGAGATGGCATTAGCACTGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
** * * * **
33690618 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
* * * * * * **
33690668 CATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAAGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
* *
33690717 CATGTAAGACCATGCCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
33690751 TGTTATTATC
Statistics
Matches: 154, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 38 0.25
50 80 0.52
52 1 0.01
53 3 0.02
55 1 0.01
56 31 0.20
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
Found at i:33709438 original size:12 final size:12
Alignment explanation
Indices: 33709421--33709448 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
33709411 AGCAAAATAG
33709421 ATTTTTAGCGGC
1 ATTTTTAGCGGC
33709433 ATTTTTAGCGGC
1 ATTTTTAGCGGC
33709445 ATTT
1 ATTT
33709449 GGATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.14, G:0.21, T:0.46
Consensus pattern (12 bp):
ATTTTTAGCGGC
Found at i:33709516 original size:38 final size:40
Alignment explanation
Indices: 33709470--33709574 Score: 133
Period size: 38 Copynumber: 2.7 Consensus size: 40
33709460 CCTCTATAAG
* *
33709470 TCGAGCATTAGCGGTGTTTTTTGAAAA-CACCGCTATAGA
1 TCGAGCATTAGCGGCGTTTTTTGAAAAGCACCACTATAGA
** **
33709509 T-GAGCATTAGCGGCACTTTTTGAAAAGCGTCACTATAGA
1 TCGAGCATTAGCGGCGTTTTTTGAAAAGCACCACTATAGA
*
33709548 TCGAGCATTAGCGGCGTTTTTTAAAAA
1 TCGAGCATTAGCGGCGTTTTTTGAAAA
33709575 AACACCGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
38 22 0.40
39 11 0.20
40 22 0.40
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (40 bp):
TCGAGCATTAGCGGCGTTTTTTGAAAAGCACCACTATAGA
Found at i:33713460 original size:43 final size:43
Alignment explanation
Indices: 33713407--33713617 Score: 201
Period size: 43 Copynumber: 4.9 Consensus size: 43
33713397 GTTTGTTCAT
* * * *
33713407 AAACGTCGCTAAAGAACGGTACT-TTTAGCGGTGTTTGTGATAA
1 AAACGCCGCTAAAGATC-ATACTCTTTAGCGGCGTTTGTGATAA
**
33713450 AAACGCCGCTAAAGATCATTTTCTTTAGCGGCGTTTGTGATAA
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTGATAA
* * * * *
33713493 AAGCGCCACTAAAGATCATGCTCTTTAGCGACGTTTCTGATAA
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTGATAA
* * ** *
33713536 AAACGCCTCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGT-A
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGT-GATAA
* * * **
33713579 AAGCGCTGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTG
33713618 GGTAAAGTGC
Statistics
Matches: 144, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
42 3 0.02
43 139 0.97
44 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTGATAA
Found at i:33713618 original size:43 final size:43
Alignment explanation
Indices: 33713430--33713657 Score: 264
Period size: 43 Copynumber: 5.3 Consensus size: 43
33713420 GAACGGTACT
* * * *
33713430 TTTAGCGGTGTTTGTGATAAAAACGCCGCTAAAGATCATTTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
33713473 TTTAGCGGCGTTTGTGATAAAAGCGCCACTAAAGATCATGCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
33713516 TTTAGCGACGTTTCTGATAAAAACGCCTCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
33713559 TTTAGCGGCGTTTGTGGGT-AAAGCGCTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
33713602 TTTAGCGGCGTTTGTGGGT-AAAGTGCCGCTAAAAGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTC
33713645 TATT-GCGGCGTTT
1 T-TTAGCGGCGTTT
33713658 TTCACATAAA
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
43 159 0.98
44 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:33720401 original size:282 final size:280
Alignment explanation
Indices: 33719854--33720408 Score: 1020
Period size: 282 Copynumber: 2.0 Consensus size: 280
33719844 GTAGGCTTTG
33719854 CTGCAACAAAAGAGTCATAGTTTAGAACAATATTTTCCAATGGAACATGCTAATTCTGCAGAATT
1 CTGCAACAAAAGAGTCATAGTTTAGAACAATATTTTCCAATGGAACATGCTAATTCTGCAGAATT
33719919 ATGCATAGATACCTGTTGGCAATCATCCTTTATCTGATTCAGTTTAATCCAGCAAATTTTGATAT
66 ATGCATAGATACCTGTTGGCAATCATCCTTTATCTGATTCAGTTTAATCCAGCAAATTTTGATAT
33719984 AGAGGGATTACTGATCACATCTGCAATTACAGTTAGAATTACATTATATTAAACTAAGAAAAAAC
131 AGAGGGATTACTGATCACATCTGCAATTACAGTTAGAATTACATTATATTAAACTAAGAAAAAAC
* * *
33720049 ACCACTTGTTTTATAAGATTACTAGCATTTCCTTAGAAGAATCATCGAGCACCTGCAGCCCCTCT
196 ACCACTTGTTTTATAAGATTACTAGCATCTCCTTAGAAGAATCATCGAGCACCTACAGCCCCTAT
33720114 TTCTTGTTCAAGAATTACAT
261 TTCTTGTTCAAGAATTACAT
*
33720134 CTGCAACAAAAGGGTCATAGTTTAGAACAATATTTTCCAATGGAACATGCTAATTCTGCAGAATT
1 CTGCAACAAAAGAGTCATAGTTTAGAACAATATTTTCCAATGGAACATGCTAATTCTGCAGAATT
* *
33720199 ATGCATAGATACCTGTTGGTAATCATCCTTTATCTGATTTAGTTTAATCCAGCAAATTTTGATAG
66 ATGCATAGATACCTGTTGGCAATCATCCTTTATCTGATTCAGTTTAATCCAGCAAATTTTGATA-
* *
33720264 GTAGAGGGATTACTGATCACATCTGCAATTACAGTTAGTATTACATTATATTAAACTAAGCAAAA
130 -TAGAGGGATTACTGATCACATCTGCAATTACAGTTAGAATTACATTATATTAAACTAAGAAAAA
33720329 ACACCACTTGTTTTATAAGATTACTAGCATCTCCTTAGAAGAATCATCGAGCACCTACAGCCCCT
194 ACACCACTTGTTTTATAAGATTACTAGCATCTCCTTAGAAGAATCATCGAGCACCTACAGCCCCT
33720394 ATTTCTTGTTCAAGA
259 ATTTCTTGTTCAAGA
33720409 CCATTTTAGT
Statistics
Matches: 265, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
280 126 0.48
282 139 0.52
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (280 bp):
CTGCAACAAAAGAGTCATAGTTTAGAACAATATTTTCCAATGGAACATGCTAATTCTGCAGAATT
ATGCATAGATACCTGTTGGCAATCATCCTTTATCTGATTCAGTTTAATCCAGCAAATTTTGATAT
AGAGGGATTACTGATCACATCTGCAATTACAGTTAGAATTACATTATATTAAACTAAGAAAAAAC
ACCACTTGTTTTATAAGATTACTAGCATCTCCTTAGAAGAATCATCGAGCACCTACAGCCCCTAT
TTCTTGTTCAAGAATTACAT
Found at i:33721474 original size:23 final size:22
Alignment explanation
Indices: 33721431--33721489 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 22
33721421 TTGTTTTGAT
33721431 ATTGTTCTTGATTTGTTCTGGAA
1 ATTGTTCTTGA-TTGTTCTGGAA
33721454 ATTGTT-TTGATTGTCTGCTGGAA
1 ATTGTTCTTGATTGT-T-CTGGAA
33721477 ATTGTTCTTGATT
1 ATTGTTCTTGATT
33721490 TGTTAGTCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
21 4 0.12
22 5 0.15
23 18 0.55
24 6 0.18
ACGTcount: A:0.17, C:0.08, G:0.22, T:0.53
Consensus pattern (22 bp):
ATTGTTCTTGATTGTTCTGGAA
Found at i:33724375 original size:7 final size:7
Alignment explanation
Indices: 33724363--33724415 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
33724353 ATTTCTTGTC
33724363 ATTTTAA
1 ATTTTAA
33724370 ATTTTAA
1 ATTTTAA
*
33724377 ACTTTT-T
1 A-TTTTAA
* *
33724384 GTGTTATA
1 ATTTTA-A
33724392 ATTTTAA
1 ATTTTAA
33724399 ATTTTAA
1 ATTTTAA
33724406 ATTTTAA
1 ATTTTAA
33724413 ATT
1 ATT
33724416 ATAGTTTGTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
6 3 0.08
7 26 0.70
8 8 0.22
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (7 bp):
ATTTTAA
Found at i:33726027 original size:120 final size:120
Alignment explanation
Indices: 33725902--33726439 Score: 977
Period size: 120 Copynumber: 4.5 Consensus size: 120
33725892 AATTATTTTA
* * *
33725902 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
*
33725967 ATAGTGTCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
33726022 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
33726087 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
33726142 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
33726207 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
33726262 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
*
33726327 ATAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
33726382 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATATTTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
33726440 ATGATTAAAT
Statistics
Matches: 409, Mismatches: 8, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
120 403 0.99
121 6 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:33726177 original size:16 final size:16
Alignment explanation
Indices: 33726156--33726202 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
33726146 TTATTAAATT
33726156 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
33726172 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
33726187 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
33726203 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:33726676 original size:16 final size:16
Alignment explanation
Indices: 33726651--33726688 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
33726641 TTGATTTGCT
33726651 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
33726667 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
33726683 ATTACA
1 ATTACA
33726689 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:33736998 original size:13 final size:15
Alignment explanation
Indices: 33736976--33737007 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
33736966 TATCCTATTT
33736976 TATTATTAATTAAC-
1 TATTATTAATTAACA
33736990 TATTA-TAATTAACA
1 TATTATTAATTAACA
33737004 TATT
1 TATT
33737008 TCCATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATTAATTAACA
Found at i:33737860 original size:22 final size:21
Alignment explanation
Indices: 33737833--33737890 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
33737823 ATATTTTTAT
*
33737833 TATAAAATAAAGAAAAAGAAAG
1 TATAAAATAAAGAAAAA-AAAA
33737855 TATAAAA-AAGAGAAAAAAAAA
1 TATAAAATAA-AGAAAAAAAAA
33737876 TAATAAGAATAAAGA
1 T-ATAA-AATAAAGA
33737891 GATAAATGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 6 0.19
22 18 0.58
23 5 0.16
24 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (21 bp):
TATAAAATAAAGAAAAAAAAA
Found at i:33751549 original size:61 final size:61
Alignment explanation
Indices: 33751454--33751575 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
33751444 GTAGATACTG
33751454 TGAATATACAACCATATAGAGAAGGGTGTAATCAATGGTAAAGGTGTAAATAGACAAATAT
1 TGAATATACAACCATATAGAGAAGGGTGTAATCAATGGTAAAGGTGTAAATAGACAAATAT
33751515 TGAATATACAACCATATAGAGAAGGGTGTAATCAATGGTAAAGGTGTAAATAGACAAATAT
1 TGAATATACAACCATATAGAGAAGGGTGTAATCAATGGTAAAGGTGTAAATAGACAAATAT
33751576 AGGATTGATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (61 bp):
TGAATATACAACCATATAGAGAAGGGTGTAATCAATGGTAAAGGTGTAAATAGACAAATAT
Found at i:33754396 original size:14 final size:15
Alignment explanation
Indices: 33754377--33754413 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
33754367 AAAATCTGTA
33754377 TTTTTTTTTT-GT-T
1 TTTTTTTTTTAGTAT
33754390 TTTTTTTTTTAGTAT
1 TTTTTTTTTTAGTAT
33754405 TTGTTTTTT
1 TT-TTTTTT
33754414 GGGATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 3 0.14
16 6 0.29
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTAGTAT
Found at i:33755695 original size:9 final size:9
Alignment explanation
Indices: 33755681--33755717 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
33755671 TATAGTTTGA
33755681 TATTCGAAT
1 TATTCGAAT
33755690 TATTCGAAT
1 TATTCGAAT
33755699 TATTC-AAGT
1 TATTCGAA-T
33755708 TATTCGAAT
1 TATTCGAAT
33755717 T
1 T
33755718 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:33755788 original size:9 final size:9
Alignment explanation
Indices: 33755771--33755801 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33755761 TCGAATTGAT
33755771 TCGAATAAC
1 TCGAATAAC
*
33755780 TCGATTAAC
1 TCGAATAAC
33755789 TCGAATAAC
1 TCGAATAAC
33755798 TCGA
1 TCGA
33755802 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:33761319 original size:21 final size:22
Alignment explanation
Indices: 33761278--33761319 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
33761268 CAAAGTTTAA
* *
33761278 TGTCGTGACATGGAGTGGTTGT
1 TGTCGCGACATCGAGTGGTTGT
33761300 TGTCGCGACATCGA-TGGTTG
1 TGTCGCGACATCGAGTGGTTG
33761320 AATGTTCCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.14, C:0.14, G:0.38, T:0.33
Consensus pattern (22 bp):
TGTCGCGACATCGAGTGGTTGT
Found at i:33761339 original size:71 final size:71
Alignment explanation
Indices: 33761248--33761416 Score: 189
Period size: 71 Copynumber: 2.4 Consensus size: 71
33761238 ATTGAACACC
* * * * * *
33761248 GAATGCTTCCCCTCTTGGTTCAAAGTTTAATGTCGTGACATGGAGTGGTTGTTGTCGCGACATCG
1 GAATGCTTCCCCTCTTGGTTCAAAGTTGAATGTCATGACATAGAGTAGTGGTTGTCGCGACATCA
*
33761313 ATGGTT
66 ACGGTT
* * * *
33761319 GAATG-TTCCCCTTTTAGGTTCGAAGTTGGATGTCATGACATAGAGTAGTGGTTGTTGCGACATC
1 GAATGCTTCCCCTCTT-GGTTCAAAGTTGAATGTCATGACATAGAGTAGTGGTTGTCGCGACATC
33761383 AACGGTT
65 AACGGTT
* *
33761390 -ATTTGTTTCCCCTCTTGGTTCAAAGTT
1 GA-ATGCTTCCCCTCTTGGTTCAAAGTT
33761417 AGGTGTCACA
Statistics
Matches: 81, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
70 10 0.12
71 62 0.77
72 9 0.11
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.37
Consensus pattern (71 bp):
GAATGCTTCCCCTCTTGGTTCAAAGTTGAATGTCATGACATAGAGTAGTGGTTGTCGCGACATCA
ACGGTT
Found at i:33766645 original size:16 final size:16
Alignment explanation
Indices: 33766624--33766654 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33766614 CTATGCATAC
*
33766624 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
33766640 AAAATACAAAAGACA
1 AAAATACAAAAGACA
33766655 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:33769071 original size:35 final size:35
Alignment explanation
Indices: 33769032--33769115 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
33769022 CATGTATATC
* **
33769032 GTTTACATGGTGTCGCCCTGAA-GAGGTTATATACT
1 GTTTACATGGTGTCACCCTGAAGGA-CCTATATACT
* *
33769067 GTTTACA-GAGTGTCACTCTGAAGGACCTATATATT
1 GTTTACATG-GTGTCACCCTGAAGGACCTATATACT
33769102 GTTTACATGGTGTC
1 GTTTACATGGTGTC
33769116 CCTCCGAAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
34 1 0.02
35 37 0.90
36 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.36
Consensus pattern (35 bp):
GTTTACATGGTGTCACCCTGAAGGACCTATATACT
Found at i:33771375 original size:13 final size:13
Alignment explanation
Indices: 33771357--33771384 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33771347 TTCAGTATCG
33771357 ATACAAAAATGAC
1 ATACAAAAATGAC
33771370 ATACAAAAATGAC
1 ATACAAAAATGAC
33771383 AT
1 AT
33771385 TCTATTTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.14, G:0.07, T:0.18
Consensus pattern (13 bp):
ATACAAAAATGAC
Found at i:33772582 original size:23 final size:24
Alignment explanation
Indices: 33772537--33772584 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
33772527 TACTTGTATT
*
33772537 TCTATTTTATTTTTTTTCATTATA
1 TCTATTTTATTTTTTATCATTATA
33772561 TCTA-TTTA-TTTTTATCATTTATA
1 TCTATTTTATTTTTTATCA-TTATA
33772584 T
1 T
33772585 AAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (24 bp):
TCTATTTTATTTTTTATCATTATA
Found at i:33776245 original size:34 final size:34
Alignment explanation
Indices: 33776174--33776253 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
33776164 ATGCCATTAG
*
33776174 CCATCCAGCACACCATAAGCTCGTATGATCCAAT
1 CCATCCAGCACACCATAAGCTCGTATAATCCAAT
* * *
33776208 CCATCTAGCACACCATATGCTCGTATAAGT-CAGT
1 CCATCCAGCACACCATAAGCTCGTATAA-TCCAAT
33776242 CCATCCAGCACA
1 CCATCCAGCACA
33776254 TTGTATCCAG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
34 39 0.98
35 1 0.03
ACGTcount: A:0.31, C:0.35, G:0.12, T:0.21
Consensus pattern (34 bp):
CCATCCAGCACACCATAAGCTCGTATAATCCAAT
Found at i:33777055 original size:29 final size:29
Alignment explanation
Indices: 33777021--33777077 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
33777011 AGCTAATACC
33777021 AATCCAAAAACATAAAAATTACTAAAAAG
1 AATCCAAAAACATAAAAATTACTAAAAAG
33777050 AATCCAAAAACATAAAAATTACTAAAAA
1 AATCCAAAAACATAAAAATTACTAAAAA
33777078 TGGGGCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.18
Consensus pattern (29 bp):
AATCCAAAAACATAAAAATTACTAAAAAG
Found at i:33785221 original size:26 final size:26
Alignment explanation
Indices: 33785177--33785279 Score: 134
Period size: 26 Copynumber: 4.0 Consensus size: 26
33785167 AAGTATACGG
*
33785177 TACTGACAGCTTTGCTGCGATATTAT
1 TACTGGCAGCTTTGCTGCGATATTAT
* * *
33785203 TACCGGCAGCTTTGTTGCGATATTGT
1 TACTGGCAGCTTTGCTGCGATATTAT
* * *
33785229 TACTGACAGCTTTGCTGCGATACTAC
1 TACTGGCAGCTTTGCTGCGATATTAT
*
33785255 TACTGGTAGCTTTGCTGCGATATTA
1 TACTGGCAGCTTTGCTGCGATATTA
33785280 GTGTGTTAGT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 64 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (26 bp):
TACTGGCAGCTTTGCTGCGATATTAT
Found at i:33785266 original size:52 final size:52
Alignment explanation
Indices: 33785177--33785278 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 52
33785167 AAGTATACGG
* * *
33785177 TACTGACAGCTTTGCTGCGATATTATTACCGGCAGCTTTGTTGCGATATTGT
1 TACTGACAGCTTTGCTGCGATACTACTACCGGCAGCTTTGCTGCGATATTGT
* *
33785229 TACTGACAGCTTTGCTGCGATACTACTACTGGTAGCTTTGCTGCGATATT
1 TACTGACAGCTTTGCTGCGATACTACTACCGGCAGCTTTGCTGCGATATT
33785279 AGTGTGTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (52 bp):
TACTGACAGCTTTGCTGCGATACTACTACCGGCAGCTTTGCTGCGATATTGT
Found at i:33785414 original size:27 final size:27
Alignment explanation
Indices: 33785379--33785443 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
33785369 ATTGCACTGT
*
33785379 ACTGATACTGTATTAGGCTAAGGCCCAC
1 ACTG-TACTGTATTAGGCTAAGACCCAC
* *
33785407 A-TGTTACTGTATTGGGTTAAGACCCAC
1 ACTG-TACTGTATTAGGCTAAGACCCAC
33785434 ACTGTACTGT
1 ACTGTACTGT
33785444 TATTGAATAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 29 0.91
28 3 0.09
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (27 bp):
ACTGTACTGTATTAGGCTAAGACCCAC
Found at i:33786139 original size:27 final size:28
Alignment explanation
Indices: 33786109--33786172 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
33786099 CTATATAGTA
33786109 ACAGTAT-AATATGGGCCTTAGCCCAAT
1 ACAGTATCAATATGGGCCTTAGCCCAAT
* * *
33786136 ACAGTATCAGTGTGGGCTTTAGCCCAAT
1 ACAGTATCAATATGGGCCTTAGCCCAAT
33786164 ACAGTATCA
1 ACAGTATCA
33786173 GTACAATGCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 7 0.21
28 26 0.79
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (28 bp):
ACAGTATCAATATGGGCCTTAGCCCAAT
Found at i:33786157 original size:28 final size:28
Alignment explanation
Indices: 33786120--33786174 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
33786110 CAGTATAATA
33786120 TGGGCCTTAGCCCAATACAGTATCAGTG
1 TGGGCCTTAGCCCAATACAGTATCAGTG
*
33786148 TGGGCTTTAGCCCAATACAGTATCAGT
1 TGGGCCTTAGCCCAATACAGTATCAGT
33786175 ACAATGCAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAGTATCAGTG
Found at i:33786547 original size:27 final size:27
Alignment explanation
Indices: 33786525--33786893 Score: 387
Period size: 27 Copynumber: 13.7 Consensus size: 27
33786515 TCTACCTTAT
*
33786525 GAGGGTATTTCAGTTATTTTACCCTAT-
1 GAGGGTATTTCAGTCATTTTACCCT-TC
* *
33786552 GCA-GGTATTTCAGTTATTTTGCCCTTC
1 G-AGGGTATTTCAGTCATTTTACCCTTC
* *
33786579 G-GGGTATTT-TGATCATTTTACCCTTA
1 GAGGGTATTTCAG-TCATTTTACCCTTC
**
33786605 GAGGGTATTTTGGTCATTTT-CCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
*
33786631 AAGGGTATTTC-GATCATTTTACCCTTC
1 GAGGGTATTTCAG-TCATTTTACCCTTC
* *
33786658 GAGGGTATTTCAGTTATTTTACCCTTT
1 GAGGGTATTTCAGTCATTTTACCCTTC
*
33786685 GAGGGTATTTCGGTCATTTTACCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
*
33786712 GAAGGTATTTC-GATCATTTTACCCTTC
1 GAGGGTATTTCAG-TCATTTTACCCTTC
* * *
33786739 GAGGATATTTAAGTCTTTTTACCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
** *
33786766 GAGGGTATTTTGGTCATTTTATCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
* * *
33786793 GAGGGTATTTCGGTTATTTTATCCTTC
1 GAGGGTATTTCAGTCATTTTACCCTTC
*
33786820 AAGGGTATTTC-GATCATTTTACCCTTC
1 GAGGGTATTTCAG-TCATTTTACCCTTC
*
33786847 AAGGGTATTTC-GATCATTTTACCCTTC
1 GAGGGTATTTCAG-TCATTTTACCCTTC
* *
33786874 AAGGGTATTTCGGTCATTTT
1 GAGGGTATTTCAGTCATTTT
33786894 CCCACGAATC
Statistics
Matches: 299, Mismatches: 30, Indels: 26
0.84 0.08 0.07
Matches are distributed among these distances:
25 2 0.01
26 43 0.14
27 249 0.83
28 5 0.02
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (27 bp):
GAGGGTATTTCAGTCATTTTACCCTTC
Found at i:33786707 original size:54 final size:54
Alignment explanation
Indices: 33786525--33786893 Score: 431
Period size: 54 Copynumber: 6.9 Consensus size: 54
33786515 TCTACCTTAT
* * * * *
33786525 GAGGGTATTTCAGTTATTTTACCCTAT-GCA-GGTATTTCAGTTATTTTGCCCTTC
1 GAGGGTATTTCGGTCATTTTACCCT-TCG-AGGGTATTTCGGTCATTTTACCCTTC
* * * *
33786579 G-GGGTATTTTGATCATTTTACCCTTAGAGGGTATTTTGGTCATTTT-CCCTTC
1 GAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTC
* * * * *
33786631 AAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTT
1 GAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTC
* *
33786685 GAGGGTATTTCGGTCATTTTACCCTTCGAAGGTATTTCGATCATTTTACCCTTC
1 GAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTC
* ** * * *
33786739 GAGGATATTTAAGTCTTTTTACCCTTCGAGGGTATTTTGGTCATTTTATCCTTC
1 GAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTC
* * * *
33786793 GAGGGTATTTCGGTTATTTTATCCTTCAAGGGTATTTCGATCATTTTACCCTTC
1 GAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTC
* * *
33786847 AAGGGTATTTCGATCATTTTACCCTTCAAGGGTATTTCGGTCATTTT
1 GAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTT
33786894 CCCACGAATC
Statistics
Matches: 267, Mismatches: 44, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
52 8 0.03
53 74 0.28
54 185 0.69
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (54 bp):
GAGGGTATTTCGGTCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTC
Found at i:33793360 original size:34 final size:34
Alignment explanation
Indices: 33793303--33793403 Score: 97
Period size: 34 Copynumber: 3.1 Consensus size: 34
33793293 ATGAAACATG
* * * *
33793303 CAGTATTAGTCTGGGTCTAAGCCCAATACAATAA
1 CAGTATCAGTGTGGGCCTTAGCCCAATACAATAA
33793337 CAGTATCAGTGTGGGCCTTAG-CC----CAAT-A
1 CAGTATCAGTGTGGGCCTTAGCCCAATACAATAA
* * *
33793365 CAGTATCAGTGTGAGCCTTAGCCCAATACAGTAT
1 CAGTATCAGTGTGGGCCTTAGCCCAATACAATAA
33793399 CAGTA
1 CAGTA
33793404 CAATGCAGCA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
28 21 0.39
29 6 0.11
33 5 0.09
34 22 0.41
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (34 bp):
CAGTATCAGTGTGGGCCTTAGCCCAATACAATAA
Found at i:33793372 original size:28 final size:28
Alignment explanation
Indices: 33793331--33793402 Score: 126
Period size: 28 Copynumber: 2.5 Consensus size: 28
33793321 AAGCCCAATA
*
33793331 CAATAACAGTATCAGTGTGGGCCTTAGCC
1 CAAT-ACAGTATCAGTGTGAGCCTTAGCC
33793360 CAATACAGTATCAGTGTGAGCCTTAGCC
1 CAATACAGTATCAGTGTGAGCCTTAGCC
33793388 CAATACAGTATCAGT
1 CAATACAGTATCAGT
33793403 ACAATGCAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
28 38 0.90
29 4 0.10
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (28 bp):
CAATACAGTATCAGTGTGAGCCTTAGCC
Found at i:33793539 original size:26 final size:26
Alignment explanation
Indices: 33793510--33793578 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
33793500 ACCAATATCG
* * * *
33793510 CAGCAAAGTTACCAGTAATAGTACCA
1 CAGCAAAGCTGCCAGTAACAATACCA
* *
33793536 CAGCGAAGCTGCCAGTAACAATATCA
1 CAGCAAAGCTGCCAGTAACAATACCA
33793562 CAGCAAAGCTGCCAGTA
1 CAGCAAAGCTGCCAGTA
33793579 TCAGTATATG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.39, C:0.26, G:0.19, T:0.16
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAATACCA
Found at i:33793807 original size:27 final size:27
Alignment explanation
Indices: 33793760--33794143 Score: 376
Period size: 27 Copynumber: 14.2 Consensus size: 27
33793750 GGTATAACAA
* *
33793760 TCATTCTACCCTATGGA-GGTATTTCGG
1 TCATTTTACCCT-TCGAGGGTATTTCGG
* * ***
33793787 TTATTTTACTCTTC-AGGGGTATTTTAA
1 TCATTTTACCCTTCGA-GGGTATTTCGG
** *
33793814 TCATTTTACCCTTTAAGGGTATTTTGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* *
33793841 TCATTTTACCCTTCAAAGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* * * * **
33793868 TTACTTTACCTTTCGGGGGTATTTCAT
1 TCATTTTACCCTTCGAGGGTATTTCGG
**
33793895 TCATTTTACCCTTCGAGGGTATTTCAT
1 TCATTTTACCCTTCGAGGGTATTTCGG
33793922 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* * * *
33793949 TTATTTTACCCTTCGAAGGTATTTTGA
1 TCATTTTACCCTTCGAGGGTATTTCGG
**
33793976 TCATTTTACCCTTCGAGGGTATTTAAG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* *
33794003 TTATTTTACCCTTTGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
** * *
33794030 TCAAATTATCCTTCAAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* * *
33794057 TTATTTTATCCTTCGAGGGTATTTCAG
1 TCATTTTACCCTTCGAGGGTATTTCGG
* * * *
33794084 TCATTTTAACCTTCAATGGTATCTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
*
33794111 TCATTTTACCTTTCGAGGGTATTTCGG
1 TCATTTTACCCTTCGAGGGTATTTCGG
33794138 TCATTT
1 TCATTT
33794144 GCCCATGAAT
Statistics
Matches: 290, Mismatches: 64, Indels: 6
0.81 0.18 0.02
Matches are distributed among these distances:
25 1 0.00
26 1 0.00
27 287 0.99
28 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGG
Found at i:33799164 original size:21 final size:21
Alignment explanation
Indices: 33799140--33799180 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33799130 CTTGGCATGT
*
33799140 AAGTCTCAATACTTAACCTAC
1 AAGTCTCAAGACTTAACCTAC
**
33799161 AAGTCTTGAGACTTAACCTA
1 AAGTCTCAAGACTTAACCTA
33799181 TTTATTGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (21 bp):
AAGTCTCAAGACTTAACCTAC
Found at i:33801785 original size:39 final size:39
Alignment explanation
Indices: 33801725--33801853 Score: 177
Period size: 39 Copynumber: 3.3 Consensus size: 39
33801715 TGAGCAATAC
* * * *
33801725 CTACTAAAATGTATGCGCTATCGTGTCATACCTACTAATT
1 CTACTAAAA-GTATGCTCTATCGAGCCATACCTACTGATT
33801765 CTACTAAAAGTATGCTCTATCGAGCCATACCTACTGATT
1 CTACTAAAAGTATGCTCTATCGAGCCATACCTACTGATT
* * *
33801804 CTACTGAAAGTATGCTCTATCGAGCCATATCTACTGGTT
1 CTACTAAAAGTATGCTCTATCGAGCCATACCTACTGATT
*
33801843 CTACTGAAAGT
1 CTACTAAAAGT
33801854 TGTTCAAATG
Statistics
Matches: 82, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 73 0.89
40 9 0.11
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (39 bp):
CTACTAAAAGTATGCTCTATCGAGCCATACCTACTGATT
Found at i:33810449 original size:89 final size:90
Alignment explanation
Indices: 33810306--33810489 Score: 334
Period size: 89 Copynumber: 2.1 Consensus size: 90
33810296 GATTGTTCCC
*
33810306 AAATTATTTTTAAAGGACACGTAAGCTTGATTTAAGGCCCATAAATGAATGTATTACTTCGACCT
1 AAATTATTTTTAAAGGACACGTAAGCTTGATTTAAGGCCCATAAATGAATGTATTACTTCAACCT
33810371 AAATTATTATGAAATTTTGTTAACT
66 AAATTATTATGAAATTTTGTTAACT
*
33810396 AAATTATTTTT-AAGGCCACGTAAGCTTGATTTAAGGCCCATAAATGAATGTATTACTTCAACCT
1 AAATTATTTTTAAAGGACACGTAAGCTTGATTTAAGGCCCATAAATGAATGTATTACTTCAACCT
*
33810460 AAATTATTATGAAATTTTGTTAATT
66 AAATTATTATGAAATTTTGTTAACT
33810485 AAATT
1 AAATT
33810490 GGCAACTTGA
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 80 0.88
90 11 0.12
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (90 bp):
AAATTATTTTTAAAGGACACGTAAGCTTGATTTAAGGCCCATAAATGAATGTATTACTTCAACCT
AAATTATTATGAAATTTTGTTAACT
Found at i:33812887 original size:17 final size:19
Alignment explanation
Indices: 33812855--33812899 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
33812845 TTAAGGATTT
33812855 AAATCTAATTCAAACTT-A
1 AAATCTAATTCAAACTTCA
*
33812873 AAATCTAATT-GAACTTCA
1 AAATCTAATTCAAACTTCA
33812891 AAGATCTAA
1 AA-ATCTAA
33812900 AATCTAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 5 0.21
18 13 0.54
19 6 0.25
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (19 bp):
AAATCTAATTCAAACTTCA
Found at i:33816498 original size:21 final size:19
Alignment explanation
Indices: 33816472--33816544 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 19
33816462 ATCTAATTAC
33816472 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TAT-TTT
*
33816493 AAATATTTAAATATATTTT
1 AAATATTTAATTATATTTT
* *
33816512 ATATATTCTAATTAAATTTAAT
1 AAATATT-TAATTATATTT--T
*
33816534 AAATAATTAAT
1 AAATATTTAAT
33816545 ATTAATTACT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.21
20 12 0.28
21 16 0.37
22 6 0.14
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATATTTT
Found at i:33816787 original size:13 final size:13
Alignment explanation
Indices: 33816761--33816793 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33816751 CACTCAAATT
*
33816761 TTCT-AAAAGTAC
1 TTCTCAAAAGCAC
33816773 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
33816786 TTCTCAAA
1 TTCTCAAA
33816794 GTCACTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.24, G:0.06, T:0.30
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:33816812 original size:13 final size:13
Alignment explanation
Indices: 33816796--33816829 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
33816786 TTCTCAAAGT
*
33816796 CACTTTTCCATAG
1 CACTTTTCCACAG
33816809 CACTTTTCCACAG
1 CACTTTTCCACAG
*
33816822 CACATTTC
1 CACTTTTC
33816830 AAAAGTATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (13 bp):
CACTTTTCCACAG
Found at i:33823737 original size:18 final size:18
Alignment explanation
Indices: 33823716--33823755 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33823706 AGCCCACAAC
33823716 TTTTTCCTATTTCTCTTT
1 TTTTTCCTATTTCTCTTT
* * *
33823734 TTTTTTCTTTTTTTCTTT
1 TTTTTCCTATTTCTCTTT
33823752 TTTT
1 TTTT
33823756 GCTCTTCAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCCTATTTCTCTTT
Found at i:33826001 original size:19 final size:19
Alignment explanation
Indices: 33825973--33826016 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
33825963 GCAAAATAAA
*
33825973 TTTTAAAAA-TATTAAAAT
1 TTTTAAAAATTATAAAAAT
33825991 TTTTGAAAAATTATAAAAAT
1 TTTT-AAAAATTATAAAAAT
33826011 TATTTA
1 T-TTTA
33826017 TTTAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.18
19 5 0.23
20 10 0.45
21 3 0.14
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TTTTAAAAATTATAAAAAT
Found at i:33826901 original size:5 final size:5
Alignment explanation
Indices: 33826891--33826916 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33826881 ATCTAAATAA
33826891 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
33826917 AGGGTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:33827978 original size:21 final size:20
Alignment explanation
Indices: 33827954--33828005 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
33827944 AAAATCTTTG
33827954 AAAATTTTAAAAATATATCAT
1 AAAATTTTAAAAAT-TATCAT
* *
33827975 AAAATTATTTAAAATTTTCAT
1 AAAATT-TTAAAAATTATCAT
33827996 AAAATTTTAA
1 AAAATTTTAA
33828006 GATTTTCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.11
21 17 0.63
22 7 0.26
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTTTAAAAATTATCAT
Found at i:33828018 original size:19 final size:19
Alignment explanation
Indices: 33827954--33828017 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
33827944 AAAATCTTTG
*
33827954 AAAATTTTAAAAATATATCAT
1 AAAATTTT-AAAAT-TTTCAT
33827975 AAAATTATTTAAAATTTTCAT
1 AAAA-T-TTTAAAATTTTCAT
*
33827996 AAAATTTTAAGATTTTC-T
1 AAAATTTTAAAATTTTCAT
33828014 AAAA
1 AAAA
33828018 ACCTAGAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.13
19 11 0.28
20 1 0.03
21 13 0.33
22 6 0.15
23 3 0.08
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.42
Consensus pattern (19 bp):
AAAATTTTAAAATTTTCAT
Found at i:33831405 original size:22 final size:21
Alignment explanation
Indices: 33831375--33831448 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
33831365 TTGTACAAGT
* *
33831375 TTAGTACTTTTGTCCTCTCTG
1 TTAGCACTTTTGTGCTCTCTG
** *
33831396 TTCAGCACTTCGGTGCTCTCTAC
1 TT-AGCACTTTTGTGCTCTCT-G
*
33831419 TTAGCACTCTTGTGCTCTCTG
1 TTAGCACTTTTGTGCTCTCTG
33831440 TTTAGCACT
1 -TTAGCACT
33831449 ACAATGCTCT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.05
22 37 0.90
23 2 0.05
ACGTcount: A:0.12, C:0.28, G:0.16, T:0.43
Consensus pattern (21 bp):
TTAGCACTTTTGTGCTCTCTG
Found at i:33831457 original size:44 final size:44
Alignment explanation
Indices: 33831375--33831458 Score: 105
Period size: 44 Copynumber: 1.9 Consensus size: 44
33831365 TTGTACAAGT
* * * **
33831375 TTAGTACTTTTGTCCTCTCTGTTCAGCACTTCGGTGCTCTCTAC
1 TTAGCACTCTTGTCCTCTCTGTTCAGCACTACAATGCTCTCTAC
* *
33831419 TTAGCACTCTTGTGCTCTCTGTTTAGCACTACAATGCTCT
1 TTAGCACTCTTGTCCTCTCTGTTCAGCACTACAATGCTCT
33831459 TTAGTGTGGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
44 33 1.00
ACGTcount: A:0.14, C:0.29, G:0.15, T:0.42
Consensus pattern (44 bp):
TTAGCACTCTTGTCCTCTCTGTTCAGCACTACAATGCTCTCTAC
Found at i:33832222 original size:30 final size:30
Alignment explanation
Indices: 33832188--33832254 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
33832178 TTTAGTTGCC
33832188 TGATTGGCCCGTTATACACGTGGCACAATA
1 TGATTGGCCCGTTATACACGTGGCACAATA
** * * *
33832218 TGATTGGCCTTTTATATACGTGGCATAATC
1 TGATTGGCCCGTTATACACGTGGCACAATA
33832248 TGATTGG
1 TGATTGG
33832255 TAGAAATTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (30 bp):
TGATTGGCCCGTTATACACGTGGCACAATA
Found at i:33834273 original size:5 final size:5
Alignment explanation
Indices: 33834263--33834291 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
33834253 AAATCTCCTA
33834263 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
33834292 AAATCTCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:33835249 original size:18 final size:18
Alignment explanation
Indices: 33835228--33835285 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 18
33835218 ACTCCCTCTA
33835228 TTTATTTTCTCTCAAACT
1 TTTATTTTCTCTCAAACT
33835246 TTTA--TTCTC-CAAAACTT
1 TTTATTTTCTCTC-AAAC-T
* *
33835263 TTTATTTTTCCCTTAAACT
1 TTTA-TTTTCTCTCAAACT
33835282 TTTA
1 TTTA
33835286 CTTATCACCC
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
15 1 0.03
16 9 0.28
17 5 0.16
18 4 0.12
19 5 0.16
20 8 0.25
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTATTTTCTCTCAAACT
Done.