Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 135 of 344
Found at i:45429307 original size:27 final size:27
Alignment explanation
Indices: 45429277--45429471 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
45429267 GGGGCAAAAT
* * * *
45429277 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
45429304 GGTAATTCTACCCTACAAGGGT-TTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
45429330 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
45429357 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
45429384 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
45429411 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
45429438 AGAAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
45429465 AGTAATT
1 GGTAATT
45429472 TCACAATCAA
Statistics
Matches: 147, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 24 0.16
27 123 0.84
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:45429506 original size:27 final size:27
Alignment explanation
Indices: 45429476--45429725 Score: 271
Period size: 27 Copynumber: 9.3 Consensus size: 27
45429466 GTAATTTCAC
* *
45429476 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
45429503 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
*
45429530 AA-CTGAGGGT-AAACTAGTAATTCTGTA
1 AATC-GAGGGTAAAACGA-TAATTCTGTA
* * * **
45429557 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGATAATTCTGTA
* *
45429584 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTGTA
45429611 AATCGAGGGTAAAAC-AGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTGTA
45429638 AA-CTGAGGGTAAAAC-AGTAATT-T-TAA
1 AATC-GAGGGTAAAACGA-TAATTCTGT-A
*
45429664 CAATCGAGGGTAAAATGATAATTCTGTA
1 -AATCGAGGGTAAAACGATAATTCTGTA
*
45429692 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTGTA
45429719 AATCGAG
1 AATCGAG
45429726 AGTATTTTGG
Statistics
Matches: 192, Mismatches: 19, Indels: 24
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.01
26 9 0.05
27 172 0.90
28 9 0.05
29 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTGTA
Found at i:45429587 original size:81 final size:80
Alignment explanation
Indices: 45429476--45429722 Score: 338
Period size: 81 Copynumber: 3.0 Consensus size: 80
45429466 GTAATTTCAC
* * *
45429476 AATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAA-CTGAGGGT
1 AATCAAGGGTAAAACGGTAATTTTA-AAATCGAGGGTAAAACGATAATTCTGTAAATC-GAGGGT
45429540 -AAACTAGTAATTCTGTA
64 AAAAC-AGTAATTCTGTA
* *
45429557 AATCAAGGGTAAAACGGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 AATCAAGGGTAAAACGGTAATTTTA-AAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTA
45429622 AAACAGTAATTCTGTA
65 AAACAGTAATTCTGTA
* * *
45429638 AA-CTGAGGGTAAAACAGTAATTTTAACAATCGAGGGTAAAATGATAATTCTGTAAATCGAGGGT
1 AATC-AAGGGTAAAACGGTAATTTTAA-AATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGT
*
45429702 AAAACGGTAATTCTGTA
64 AAAACAGTAATTCTGTA
45429719 AATC
1 AATC
45429723 GAGAGTATTT
Statistics
Matches: 149, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
80 2 0.01
81 141 0.95
82 6 0.04
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.27
Consensus pattern (80 bp):
AATCAAGGGTAAAACGGTAATTTTAAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAA
AACAGTAATTCTGTA
Found at i:45434845 original size:16 final size:15
Alignment explanation
Indices: 45434823--45434867 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
45434813 ACAAAATTGG
45434823 AAAGATAAAAAATAA
1 AAAGATAAAAAATAA
* *
45434838 AGATGATAAATAATAA
1 A-AAGATAAAAAATAA
*
45434854 AAAGATGAAAAATA
1 AAAGATAAAAAATA
45434868 TCATTATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (15 bp):
AAAGATAAAAAATAA
Found at i:45435535 original size:21 final size:20
Alignment explanation
Indices: 45435506--45435552 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
45435496 ATATAATAAT
45435506 ATAATAACATAAAATAAAAGAA
1 ATAA-AACATAAAAT-AAAGAA
* *
45435528 ATAAAACATGAAATAAATAA
1 ATAAAACATAAAATAAAGAA
45435548 ATAAA
1 ATAAA
45435553 GAAACAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 9 0.39
22 4 0.17
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (20 bp):
ATAAAACATAAAATAAAGAA
Found at i:45436851 original size:16 final size:15
Alignment explanation
Indices: 45436800--45436852 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
45436790 GTTATCTACT
45436800 CATGAATTGAGTATGG
1 CATGAATTGAGTAT-G
* * *
45436816 TATGAAATGATGTATT
1 CATGAATTGA-GTATG
45436832 CATGAATTGAGTACTG
1 CATGAATTGAGTA-TG
45436848 CATGA
1 CATGA
45436853 CTGATTCCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 3 0.10
16 22 0.76
17 4 0.14
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.34
Consensus pattern (15 bp):
CATGAATTGAGTATG
Found at i:45438688 original size:93 final size:93
Alignment explanation
Indices: 45438575--45438746 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
45438565 CGCCCATAAG
* *
45438575 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45438640 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
45438668 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
45438733 ACGGGTTCGGATGC
66 ACGAGTTCGGATGC
45438747 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:45438743 original size:46 final size:46
Alignment explanation
Indices: 45438568--45438743 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
45438558 TGTAACTCGC
* * *
45438568 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
45438614 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
45438664 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
45438707 CCATAAGTGAACTCGGACTCAACTCAACGGGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
45438744 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45445745 original size:46 final size:46
Alignment explanation
Indices: 45445678--45445852 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
45445668 TGTAACCCGC
*
45445678 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* * *
45445724 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
45445774 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
45445817 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
45445853 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:45445798 original size:93 final size:93
Alignment explanation
Indices: 45445685--45445856 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
45445675 CGCCCATAAG
* *
45445685 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
45445750 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
45445778 CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
45445843 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
45445857 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:45449278 original size:174 final size:174
Alignment explanation
Indices: 45448988--45449313 Score: 589
Period size: 174 Copynumber: 1.9 Consensus size: 174
45448978 CTCAAGGTAC
*
45448988 TTACCTTTTCCGCCGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATAGA
1 TTACCTTTCCCGCCGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATAGA
*
45449053 AAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGCAC
66 AAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCACGCACACTTAGTGCCATGCAC
45449118 TTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCACAT
131 TTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCACAT
* *
45449162 TTACCTTTCCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATAGA
1 TTACCTTTCCCGCCGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATAGA
* *
45449227 AAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGTAC
66 AAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCACGCACACTTAGTGCCATGCAC
*
45449292 TTTAAACTCGCACACTTAGTGC
131 TTTAAACTCACACACTTAGTGC
45449314 TGTACAATTT
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (174 bp):
TTACCTTTCCCGCCGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATAGA
AAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCACGCACACTTAGTGCCATGCAC
TTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCACAT
Found at i:45449305 original size:29 final size:30
Alignment explanation
Indices: 45449266--45449344 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
45449256 CTTAATAATC
45449266 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
45449296 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
45449325 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
45449345 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:45449388 original size:43 final size:43
Alignment explanation
Indices: 45449327--45449429 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
45449317 ACAATTTAAA
45449327 CCCGCACACTTAGTGCCAATCTCATGACCGTGAACACTTATTG
1 CCCGCACACTTAGTGCCAATCTCATGACCGTGAACACTTATTG
45449370 CCCGCACACTTAGTGCCAATCTCATGACCGTGAACACTTATTG
1 CCCGCACACTTAGTGCCAATCTCATGACCGTGAACACTTATTG
45449413 CCCGCACACTTAGTGCC
1 CCCGCACACTTAGTGCC
45449430 GAAAACCAGC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (43 bp):
CCCGCACACTTAGTGCCAATCTCATGACCGTGAACACTTATTG
Found at i:45451519 original size:16 final size:15
Alignment explanation
Indices: 45451488--45451529 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
45451478 TTTGATGAAT
45451488 TGAA-TTACTTAACTA
1 TGAACTTAC-TAACTA
45451503 TGAACTTACTAAGCTA
1 TGAACTTACTAA-CTA
45451519 TGAAGCTTACT
1 TGAA-CTTACT
45451530 GTGTGTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (15 bp):
TGAACTTACTAACTA
Found at i:45452333 original size:349 final size:349
Alignment explanation
Indices: 45451694--45452395 Score: 1404
Period size: 349 Copynumber: 2.0 Consensus size: 349
45451684 TTGAGTCTTG
45451694 ATATTAGCCATGAGATTTGGCTTGTAAATGTAGTATGTATAACCATTTAAGTTGGCTTGAATTAA
1 ATATTAGCCATGAGATTTGGCTTGTAAATGTAGTATGTATAACCATTTAAGTTGGCTTGAATTAA
45451759 GTGTTTGGTAAGTGTTATATGTGATGTATATAATGCATTATGAATTGGTCTGGTTTGAGATGATG
66 GTGTTTGGTAAGTGTTATATGTGATGTATATAATGCATTATGAATTGGTCTGGTTTGAGATGATG
45451824 ATATGATGAGTTTTGTGTTATGAAATAGATAATATTATGATAAATTAGTGAATAGGGAATATATG
131 ATATGATGAGTTTTGTGTTATGAAATAGATAATATTATGATAAATTAGTGAATAGGGAATATATG
45451889 CAAGTTATGATGATTTTGGCATAATGATTTGGTATAATTTGAATATGGAAATGATTAGTTGAAAT
196 CAAGTTATGATGATTTTGGCATAATGATTTGGTATAATTTGAATATGGAAATGATTAGTTGAAAT
45451954 GGTTGATTATATATGGTATGTTATGTGTATGTTTTGGTGGGTTTTGGTTGCTTATAAATGACTTG
261 GGTTGATTATATATGGTATGTTATGTGTATGTTTTGGTGGGTTTTGGTTGCTTATAAATGACTTG
45452019 AAATGGTACCAAATAGGTTGATTC
326 AAATGGTACCAAATAGGTTGATTC
45452043 ATATTAGCCATGAGATTTGGCTTGTAAATGTAGTATGTATAACCATTTAAGTTGGCTTGAATTAA
1 ATATTAGCCATGAGATTTGGCTTGTAAATGTAGTATGTATAACCATTTAAGTTGGCTTGAATTAA
45452108 GTGTTTGGTAAGTGTTATATGTGATGTATATAATGCATTATGAATTGGTCTGGTTTGAGATGATG
66 GTGTTTGGTAAGTGTTATATGTGATGTATATAATGCATTATGAATTGGTCTGGTTTGAGATGATG
45452173 ATATGATGAGTTTTGTGTTATGAAATAGATAATATTATGATAAATTAGTGAATAGGGAATATATG
131 ATATGATGAGTTTTGTGTTATGAAATAGATAATATTATGATAAATTAGTGAATAGGGAATATATG
45452238 CAAGTTATGATGATTTTGGCATAATGATTTGGTATAATTTGAATATGGAAATGATTAGTTGAAAT
196 CAAGTTATGATGATTTTGGCATAATGATTTGGTATAATTTGAATATGGAAATGATTAGTTGAAAT
45452303 GGTTGATTATATATGGTATGTTATGTGTATGTTTTGGTGGGTTTTGGTTGCTTATAAATGACTTG
261 GGTTGATTATATATGGTATGTTATGTGTATGTTTTGGTGGGTTTTGGTTGCTTATAAATGACTTG
45452368 AAATGGTACCAAATAGGTTGATTC
326 AAATGGTACCAAATAGGTTGATTC
45452392 ATAT
1 ATAT
45452396 GCATGACTGT
Statistics
Matches: 353, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
349 353 1.00
ACGTcount: A:0.31, C:0.04, G:0.24, T:0.41
Consensus pattern (349 bp):
ATATTAGCCATGAGATTTGGCTTGTAAATGTAGTATGTATAACCATTTAAGTTGGCTTGAATTAA
GTGTTTGGTAAGTGTTATATGTGATGTATATAATGCATTATGAATTGGTCTGGTTTGAGATGATG
ATATGATGAGTTTTGTGTTATGAAATAGATAATATTATGATAAATTAGTGAATAGGGAATATATG
CAAGTTATGATGATTTTGGCATAATGATTTGGTATAATTTGAATATGGAAATGATTAGTTGAAAT
GGTTGATTATATATGGTATGTTATGTGTATGTTTTGGTGGGTTTTGGTTGCTTATAAATGACTTG
AAATGGTACCAAATAGGTTGATTC
Found at i:45463805 original size:46 final size:46
Alignment explanation
Indices: 45463656--45463866 Score: 178
Period size: 46 Copynumber: 4.5 Consensus size: 46
45463646 GTTGTTGGCT
** * * *
45463656 AGTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAACCTCGAGT-CGAGAGCC
* * * * * * *
45463702 AGTGTAAGACTATGTCTGGGACATTGCGTCAGCATTGAGACGAGAGCT
1 AGTGTAAGAC-ATGTTTGGGACA-TGCATCAACCTCGAGTCGAGAGCC
45463750 AGTGTAAGACATGTTTGGGACATGCATCAACCTCGAGTCGTA-AGCC
1 AGTGTAAGACATGTTTGGGACATGCATCAACCTCGAGTCG-AGAGCC
* * * * *
45463796 AGTGTAAGACATGTCTGGGACATGCATCGA-CTATGAGAT-GATAGTC
1 AGTGTAAGACATGTTTGGGACATGCATCAACCT-CGAG-TCGAGAGCC
45463842 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGA-CATGTTTGGGACATG
45463867 GCAACGACTT
Statistics
Matches: 135, Mismatches: 22, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
45 3 0.02
46 70 0.52
47 38 0.28
48 23 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATCAACCTCGAGTCGAGAGCC
Found at i:45463880 original size:47 final size:47
Alignment explanation
Indices: 45463795--45463915 Score: 153
Period size: 47 Copynumber: 2.6 Consensus size: 47
45463785 AGTCGTAAGC
* * *
45463795 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGACTATGAGATGAT-AGT
1 CAGTGTAAGACCATGTTTGGGACATGGCAACGACTATGAGAT-ATGA-A
45463841 CAGTGTAAGACCATGTTTGGGACATGGCAACGACT-TGAGATATGAA
1 CAGTGTAAGACCATGTTTGGGACATGGCAACGACTATGAGATATGAA
45463887 CTAGTGTAAGACCATG-TTGGGACATGGCA
1 C-AGTGTAAGACCATGTTTGGGACATGGCA
45463916 TCGGCACCTT
Statistics
Matches: 68, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
46 26 0.38
47 34 0.50
48 8 0.12
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.25
Consensus pattern (47 bp):
CAGTGTAAGACCATGTTTGGGACATGGCAACGACTATGAGATATGAA
Found at i:45463917 original size:140 final size:140
Alignment explanation
Indices: 45463656--45463917 Score: 320
Period size: 140 Copynumber: 1.9 Consensus size: 140
45463646 GTTGTTGGCT
* * * *
45463656 AGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACTATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* *
45463721 GACATTGCGTCAGCATTGAGACGAGAGCTAGTGTAAGACATGTTTGGGACATGCATCAACCTCGA
66 GACATTGCGTCAACATTGAGACGAGAACTAGTGTAAGACATGTTTGGGACATGCATCAACCTCGA
45463786 GTCGTAAGCC
131 GTCGTAAGCC
* * * * *
45463796 AGTGTAAGACATGTCTGGGACATGCATCGACTATGA-GATGATAGTCAGTGTAAGACCATGTTTG
1 AGTGTAAGACATGTCTGGGACATGCATCGACCA-CATGATGAGAGCCAGTGTAAGACCATGTCTG
*
45463860 GGACA-TG-G-CAACGACTTGAGA-TATGAACTAGTGTAAGACCATG-TTGGGACATGGCATC
65 GGACATTGCGTCAAC-A-TTGAGACGA-GAACTAGTGTAAGA-CATGTTTGGGACAT-GCATC
45463918 GGCACCTTAC
Statistics
Matches: 104, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
137 3 0.03
138 3 0.03
139 30 0.29
140 67 0.64
141 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GACATTGCGTCAACATTGAGACGAGAACTAGTGTAAGACATGTTTGGGACATGCATCAACCTCGA
GTCGTAAGCC
Found at i:45471332 original size:46 final size:47
Alignment explanation
Indices: 45471278--45471444 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 47
45471268 ATTATTGGTT
* *
45471278 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACATTATGATAGCC
1 AGTGTAAGACCATGTCTGGGACATAGCATCAGCCACA-GATGATAGCC
* * * * * * * *
45471324 AATGTAAGACCATGTCTGGGACATGGCAT-TGACAGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATAGCATCAGCCACAGATGATAGCC
* * * *
45471370 AGTGTAAGA-CATGTCTGGCAAAT-GCATCAGCTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATAGCATCAGCCAC-AGATGATAGCC
45471416 AGTGTAAGACCATGTCTGGGACATAGCAT
1 AGTGTAAGACCATGTCTGGGACATAGCAT
45471445 TGACTTGAGA
Statistics
Matches: 94, Mismatches: 21, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
44 4 0.04
45 14 0.15
46 38 0.40
47 30 0.32
48 8 0.09
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATAGCATCAGCCACAGATGATAGCC
Found at i:45471434 original size:92 final size:92
Alignment explanation
Indices: 45471277--45471448 Score: 256
Period size: 92 Copynumber: 1.9 Consensus size: 92
45471267 TATTATTGGT
* * * *
45471277 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAATGTAAGACCATGTCTG
1 TAGTGTAAGACATGTCTGGCAAATGCATCAGCCACATGATGATAGCCAATGTAAGACCATGTCTG
*
45471342 GGACATGGCATTGACAGAGACGAGAGC
66 GGACATAGCATTGACAGAGACGAGAGC
* * *
45471369 TAGTGTAAGACATGTCTGGCAAATGCATCAGCTACGA-GATGATAGTCAGTGTAAGACCATGTCT
1 TAGTGTAAGACATGTCTGGCAAATGCATCAGCCAC-ATGATGATAGCCAATGTAAGACCATGTCT
45471433 GGGACATAGCATTGAC
65 GGGACATAGCATTGAC
45471449 TTGAGATATG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
92 70 0.99
93 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (92 bp):
TAGTGTAAGACATGTCTGGCAAATGCATCAGCCACATGATGATAGCCAATGTAAGACCATGTCTG
GGACATAGCATTGACAGAGACGAGAGC
Found at i:45471455 original size:47 final size:46
Alignment explanation
Indices: 45471280--45471479 Score: 167
Period size: 47 Copynumber: 4.3 Consensus size: 46
45471270 TATTGGTTAG
* * * * *
45471280 TGTAAGA-CATGTCTGGGACATGCATCGGCCACATTATGATAGCCAA
1 TGTAAGACCATGTCTGGGACATGCATTGACTAGA-GATGATAGCCAA
* * * *
45471326 TGTAAGACCATGTCTGGGACATGGCATTGAC-AGAGACGAGAGCTAG
1 TGTAAGACCATGTCTGGGACAT-GCATTGACTAGAGATGATAGCCAA
* * * * *
45471372 TGTAAGA-CATGTCTGGCAAATGCA-TCAGCTACGAGATGATAGTCAG
1 TGTAAGACCATGTCTGGGACATGCATTGA-CTA-GAGATGATAGCCAA
*
45471418 TGTAAGACCATGTCTGGGACATAGCATTGACTTGAGAT-ATGAGCCAA
1 TGTAAGACCATGTCTGGGACAT-GCATTGACTAGAGATGAT-AGCCAA
*
45471465 TGTAGGACCATGTCT
1 TGTAAGACCATGTCT
45471480 TGAGATAACG
Statistics
Matches: 123, Mismatches: 22, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
43 2 0.02
44 4 0.03
45 13 0.11
46 40 0.33
47 51 0.41
48 11 0.09
49 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (46 bp):
TGTAAGACCATGTCTGGGACATGCATTGACTAGAGATGATAGCCAA
Found at i:45474760 original size:38 final size:38
Alignment explanation
Indices: 45474709--45474793 Score: 161
Period size: 38 Copynumber: 2.2 Consensus size: 38
45474699 CGGTACTAGT
45474709 TGGAGTGTAGGTATGGGTAGGTTGATTTTATCCCCACA
1 TGGAGTGTAGGTATGGGTAGGTTGATTTTATCCCCACA
*
45474747 TGGAGTGTAGGTATGGGTGGGTTGATTTTATCCCCACA
1 TGGAGTGTAGGTATGGGTAGGTTGATTTTATCCCCACA
45474785 TGGAGTGTA
1 TGGAGTGTA
45474794 AGGTTGGACA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.20, C:0.12, G:0.34, T:0.34
Consensus pattern (38 bp):
TGGAGTGTAGGTATGGGTAGGTTGATTTTATCCCCACA
Found at i:45478734 original size:21 final size:20
Alignment explanation
Indices: 45478705--45478751 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
45478695 ATATAATAAT
45478705 ATAATAACATAAAATAAAAGAA
1 ATAA-AACATAAAAT-AAAGAA
* *
45478727 ATAAAACATGAAATAAATAA
1 ATAAAACATAAAATAAAGAA
45478747 ATAAA
1 ATAAA
45478752 TAAACAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 10 0.43
21 9 0.39
22 4 0.17
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.19
Consensus pattern (20 bp):
ATAAAACATAAAATAAAGAA
Found at i:45480207 original size:5 final size:5
Alignment explanation
Indices: 45480199--45480244 Score: 92
Period size: 5 Copynumber: 9.2 Consensus size: 5
45480189 TAATTGTGCC
45480199 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
45480245 TTTTAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:45480852 original size:21 final size:21
Alignment explanation
Indices: 45480824--45480875 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
45480814 TTTTGTCTAA
45480824 GATG-TAAATTGGACTAAATT
1 GATGTTAAATTGGACTAAATT
* *
45480844 GA-GTTTAAATTGTATTAAATT
1 GATG-TTAAATTGGACTAAATT
45480865 GATGTTAAATT
1 GATGTTAAATT
45480876 TACTCGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 2 0.07
21 23 0.85
22 1 0.04
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.42
Consensus pattern (21 bp):
GATGTTAAATTGGACTAAATT
Found at i:45481916 original size:16 final size:15
Alignment explanation
Indices: 45481895--45481940 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 15
45481885 TCTACATGAA
45481895 ATACATGAAAATGATG
1 ATACATGAAAAT-ATG
*
45481911 ATACATGATAAT-TG
1 ATACATGAAAATATG
*
45481925 ATATATGAAAATATG
1 ATACATGAAAATATG
45481940 A
1 A
45481941 GATGATGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 12 0.46
15 3 0.12
16 11 0.42
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.30
Consensus pattern (15 bp):
ATACATGAAAATATG
Found at i:45481962 original size:29 final size:30
Alignment explanation
Indices: 45481895--45481963 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
45481885 TCTACATGAA
*
45481895 ATACATGAAAATGATGATACATGATAATTG
1 ATACATGAAAATGATGAGACATGATAATTG
* * *
45481925 ATATATGAAAAT-ATGAGATGATGATATTTG
1 ATACATGAAAATGATGAGA-CATGATAATTG
45481955 -TACATGAAA
1 ATACATGAAA
45481964 TTTATTTGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 13 0.39
30 20 0.61
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.32
Consensus pattern (30 bp):
ATACATGAAAATGATGAGACATGATAATTG
Found at i:45484678 original size:25 final size:25
Alignment explanation
Indices: 45484650--45484697 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
45484640 TACATAGTGA
45484650 ACAAG-CATAATCACATAACCATATC
1 ACAAGACATAATCACAT-ACCATATC
*
45484675 ACAAGACATTATCACATACCATA
1 ACAAGACATAATCACATACCATA
45484698 GACAAATAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.48, C:0.27, G:0.04, T:0.21
Consensus pattern (25 bp):
ACAAGACATAATCACATACCATATC
Found at i:45494219 original size:29 final size:28
Alignment explanation
Indices: 45494177--45494348 Score: 202
Period size: 29 Copynumber: 6.0 Consensus size: 28
45494167 GTGCTAAACA
* *
45494177 ATGGTTGTAACCATCCCTTTTCATATTCG
1 ATGGTCGTCACCATCCCTTTTCATATT-G
45494206 ATGGTCGTCACCATCCCTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATA-TTG
45494235 ATGGTCGTCACCATCCCTTTTCATAATTG
1 ATGGTCGTCACCATCCCTTTTCAT-ATTG
* * * * * *
45494264 ATAGCCG-AAGCTATCCCTTTTCAAAGTCG
1 ATGGTCGTCA-CCATCCCTTTTCATA-TTG
*
45494293 ATGGTCGTCACCTTCCCTTTTCATAGTTG
1 ATGGTCGTCACCATCCCTTTTCATA-TTG
45494322 ATGGTCGTCACCATCCCTTTTCATATT
1 ATGGTCGTCACCATCCCTTTTCATATT
45494349 CGATAGCCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
28 4 0.03
29 114 0.93
30 4 0.03
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (28 bp):
ATGGTCGTCACCATCCCTTTTCATATTG
Found at i:45494335 original size:87 final size:87
Alignment explanation
Indices: 45494189--45494373 Score: 318
Period size: 87 Copynumber: 2.1 Consensus size: 87
45494179 GGTTGTAACC
* *
45494189 ATCCCTTTTCATATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
1 ATCCCTTTTCAAAGTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
*
45494254 TTCATAATT-GATAGCCGAAGCT
66 TTCAT-ATTCGATAGCCAAAGCT
*
45494276 ATCCCTTTTCAAAGTCGATGGTCGTCACCTTCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
1 ATCCCTTTTCAAAGTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
45494341 TTCATATTCGATAGCCAAAGCT
66 TTCATATTCGATAGCCAAAGCT
45494363 ATCCCTTTTCA
1 ATCCCTTTTCA
45494374 TTTTCGGTAG
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
86 3 0.03
87 90 0.97
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.37
Consensus pattern (87 bp):
ATCCCTTTTCAAAGTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCCTT
TTCATATTCGATAGCCAAAGCT
Found at i:45494404 original size:29 final size:29
Alignment explanation
Indices: 45494334--45494404 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
45494324 GGTCGTCACC
*
45494334 ATCCCTTTTCATATTCGATAGCCAAAGCT
1 ATCCCTTTTCATTTTCGATAGCCAAAGCT
* **
45494363 ATCCCTTTTCATTTTCGGTAGCTGAAGCT
1 ATCCCTTTTCATTTTCGATAGCCAAAGCT
45494392 ATCCCTTTTCATT
1 ATCCCTTTTCATT
45494405 GGTCAATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.21, C:0.27, G:0.11, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATTTTCGATAGCCAAAGCT
Found at i:45497858 original size:25 final size:26
Alignment explanation
Indices: 45497803--45497868 Score: 89
Period size: 25 Copynumber: 2.5 Consensus size: 26
45497793 CAAGCACTTA
* *
45497803 AACGGGAAGCTCTATTTCGATCCATAT
1 AACGGGAAGCTC-ATGTCGAGCCATAT
*
45497830 AACGGGAAGCTCATGT-GAGCCATGT
1 AACGGGAAGCTCATGTCGAGCCATAT
45497855 AACGGGAAGCTCAT
1 AACGGGAAGCTCAT
45497869 AAGAGCTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 21 0.58
26 3 0.08
27 12 0.33
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (26 bp):
AACGGGAAGCTCATGTCGAGCCATAT
Found at i:45497874 original size:25 final size:25
Alignment explanation
Indices: 45497824--45497874 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
45497814 CTATTTCGAT
**
45497824 CCATATAACGGGAAGCTCATGTGAG
1 CCATATAACGGGAAGCTCATAAGAG
*
45497849 CCATGTAACGGGAAGCTCATAAGAG
1 CCATATAACGGGAAGCTCATAAGAG
45497874 C
1 C
45497875 TGTAATCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.22, G:0.27, T:0.18
Consensus pattern (25 bp):
CCATATAACGGGAAGCTCATAAGAG
Found at i:45505708 original size:15 final size:15
Alignment explanation
Indices: 45505659--45505729 Score: 61
Period size: 15 Copynumber: 4.7 Consensus size: 15
45505649 GGTACTGTAA
*
45505659 TTTGGATTTCCTTAT
1 TTTGGATTTCTTTAT
** *
45505674 CATGGATTTATTTAT
1 TTTGGATTTCTTTAT
*
45505689 CTTGGATTTCTTTAT
1 TTTGGATTTCTTTAT
** **
45505704 TTTGGGCTTCTCCAT
1 TTTGGATTTCTTTAT
45505719 TTTGGATTTCT
1 TTTGGATTTCT
45505730 CCATCTTGGC
Statistics
Matches: 43, Mismatches: 13, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.56
Consensus pattern (15 bp):
TTTGGATTTCTTTAT
Found at i:45505730 original size:15 final size:15
Alignment explanation
Indices: 45505690--45505738 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
45505680 TTTATTTATC
**
45505690 TTGGATTTCTTTATT
1 TTGGATTTCTCCATT
**
45505705 TTGGGCTTCTCCATT
1 TTGGATTTCTCCATT
*
45505720 TTGGATTTCTCCATC
1 TTGGATTTCTCCATT
45505735 TTGG
1 TTGG
45505739 CTTTTTGGTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.10, C:0.18, G:0.18, T:0.53
Consensus pattern (15 bp):
TTGGATTTCTCCATT
Found at i:45507569 original size:42 final size:42
Alignment explanation
Indices: 45507523--45507612 Score: 171
Period size: 42 Copynumber: 2.1 Consensus size: 42
45507513 ATGGTTCGAG
45507523 AACAAACCGGAATCAATAAAAACTTTCCGATCACTTAAACAA
1 AACAAACCGGAATCAATAAAAACTTTCCGATCACTTAAACAA
45507565 AACAAACCGGAATCAATAAAAACTTTCCGATCACTTAAACAA
1 AACAAACCGGAATCAATAAAAACTTTCCGATCACTTAAACAA
*
45507607 ATCAAA
1 AACAAA
45507613 ACAATTTACT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.51, C:0.23, G:0.07, T:0.19
Consensus pattern (42 bp):
AACAAACCGGAATCAATAAAAACTTTCCGATCACTTAAACAA
Found at i:45507909 original size:21 final size:21
Alignment explanation
Indices: 45507883--45507925 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
45507873 TAACCATGCC
45507883 ATTTATTTTCTTTAAAATTAG
1 ATTTATTTTCTTTAAAATTAG
45507904 ATTTATTTTCTTTAAAATTAG
1 ATTTATTTTCTTTAAAATTAG
45507925 A
1 A
45507926 CTCAATAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
ATTTATTTTCTTTAAAATTAG
Found at i:45508663 original size:16 final size:16
Alignment explanation
Indices: 45508644--45508674 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45508634 CTTCTTCACT
45508644 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
45508660 TACTTACTTACTTAA
1 TACTCACTTACTTAA
45508675 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:45508680 original size:20 final size:20
Alignment explanation
Indices: 45508641--45508680 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45508631 AAACTTCTTC
* *
45508641 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
45508661 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
45508681 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:45508999 original size:53 final size:54
Alignment explanation
Indices: 45508866--45509119 Score: 240
Period size: 55 Copynumber: 4.8 Consensus size: 54
45508856 ACATGGGTAC
* *
45508866 CTTACC-ATGGCCATGACTTGTCATGGTCTTACATGGTATCC-T---TT-TGAAA
1 CTTACCAAT-GCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
45508915 CTTACC-ATGCCATGTCTTGACATGGTCTTACATGGTGTCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * * *
45508967 CTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
45509022 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
45509075 CCTTACCAATTTCCATGCCTTGGCATGGTTTTATATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
45509120 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
48 29 0.17
49 9 0.05
52 11 0.07
53 40 0.24
54 8 0.05
55 68 0.41
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:45509067 original size:55 final size:51
Alignment explanation
Indices: 45508866--45509070 Score: 184
Period size: 53 Copynumber: 3.9 Consensus size: 51
45508856 ACATGGGTAC
* * * * *
45508866 CTTACCATGGCCATGACTTGTCATGGTCTTACATG-GT--AT-CCTTTTGAAA
1 CTTACAAT-GCCATGTCTTGACATGGTCTTACATGTGTCCTTGCCTTATG-AA
*
45508915 CTTACCATGCCATGTCTTGACATGGTCTTACATGGTGTCCTTGCCTTATGAA
1 CTTACAATGCCATGTCTTGACATGGTCTTACAT-GTGTCCTTGCCTTATGAA
* * * * * *
45508967 CTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTA-CAATGCCATGTCTTGACATGGTCTTACATGTGTCC-TTGCCTTAT-G-AA
*
45509022 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA
1 CTTA-CAATGCCATGTCTTGACATGGTCTTACATG-TGTCCTTGCCTTA
45509071 GAAACCTTAC
Statistics
Matches: 127, Mismatches: 19, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
48 23 0.18
49 9 0.07
50 2 0.02
52 10 0.08
53 40 0.31
54 1 0.01
55 40 0.31
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (51 bp):
CTTACAATGCCATGTCTTGACATGGTCTTACATGTGTCCTTGCCTTATGAA
Found at i:45509069 original size:108 final size:109
Alignment explanation
Indices: 45508913--45509112 Score: 298
Period size: 108 Copynumber: 1.8 Consensus size: 109
45508903 ATCCTTTTGA
* *
45508913 AACTTACCATGCCATGTCTTGACATGGTCTTACATGGTGTCCTTGCCTTATG-AA-CTCACCAAT
1 AACTTACAATGCCATGTCTTGACATGGTCTTACATGATGTCCTTGCCTTA-GAAACCTCACCAAT
45508976 GT-CATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 GTCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* *
45509020 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTA-CAATGCCATGTCTTGACATGGTCTTACATGATGTCCTTGCCTTAGAAACCTCACCAAT
* * *
45509085 TTCCATGCCTTGGCATGGTTTTATATGG
65 GTCCATGCCTTGGCATGGTCTTACATGG
45509113 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
107 7 0.09
108 43 0.52
109 9 0.11
110 23 0.28
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (109 bp):
AACTTACAATGCCATGTCTTGACATGGTCTTACATGATGTCCTTGCCTTAGAAACCTCACCAATG
TCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:45512475 original size:26 final size:26
Alignment explanation
Indices: 45512446--45512497 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
45512436 TCTCACTATT
*
45512446 TTTGGGTACAATAACAATATCTCAAA
1 TTTGGATACAATAACAATATCTCAAA
* *
45512472 TTTGTATAGAATAACAATATCTCAAA
1 TTTGGATACAATAACAATATCTCAAA
45512498 GTTGTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.33
Consensus pattern (26 bp):
TTTGGATACAATAACAATATCTCAAA
Found at i:45514008 original size:35 final size:35
Alignment explanation
Indices: 45513962--45514029 Score: 109
Period size: 35 Copynumber: 1.9 Consensus size: 35
45513952 TGTTGCCCCG
* *
45513962 AAGGATATGTATACCATTTACATGATGTCGCCCTA
1 AAGGACATGTATACCATTTACACGATGTCGCCCTA
*
45513997 AAGGACATGTATACCATTTACACGGTGTCGCCC
1 AAGGACATGTATACCATTTACACGATGTCGCCC
45514030 CAAATGACCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (35 bp):
AAGGACATGTATACCATTTACACGATGTCGCCCTA
Found at i:45521773 original size:48 final size:48
Alignment explanation
Indices: 45521709--45521878 Score: 193
Period size: 48 Copynumber: 3.6 Consensus size: 48
45521699 ACAGCATGAG
*
45521709 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTTA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCA
* * * * * *
45521757 AGCCAGTGTAATACATGTCTGGGGCATGCATCGGCATTGA-A-A-TGA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCA
* * *
45521802 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATATACA
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCA
* * *
45521851 AGCTAGTGTAAGACCTGTCTAGGACATG
1 AGCCAGTGTAAGACATGTCTGGGACATG
45521879 GCGTCAGCTT
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
45 2 0.02
46 34 0.34
47 2 0.02
48 62 0.61
49 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATTCA
Found at i:45521979 original size:49 final size:49
Alignment explanation
Indices: 45521889--45522013 Score: 160
Period size: 49 Copynumber: 2.5 Consensus size: 49
45521879 GCGTCAGCTT
* * *
45521889 ACCTGTCTGGGACATGGCATCGACATTGATAGATGCGAGCCAGTGTAAG
1 ACCTGTCTGGGACATGGCATCGGCATTGATAGACGCAAGCCAGTGTAAG
* * * * *
45521938 ACCTGTATGGGACATGGCATCGGCCTTGCTATACGTAAGCCAGTGTAAG
1 ACCTGTCTGGGACATGGCATCGGCATTGATAGACGCAAGCCAGTGTAAG
*
45521987 ACTATGTCTGGGACATGGCATCGGCAT
1 AC-CTGTCTGGGACATGGCATCGGCAT
45522014 CTTAACCCAT
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
49 43 0.67
50 21 0.33
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (49 bp):
ACCTGTCTGGGACATGGCATCGGCATTGATAGACGCAAGCCAGTGTAAG
Found at i:45551839 original size:46 final size:46
Alignment explanation
Indices: 45551786--45551961 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
45551776 TATATGGGCA
45551786 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
45551832 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
45551877 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGC-GATCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT-G
*
45551925 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
45551962 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
43 6 0.05
45 5 0.05
46 62 0.56
47 30 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:45551941 original size:93 final size:93
Alignment explanation
Indices: 45551782--45551953 Score: 285
Period size: 93 Copynumber: 1.8 Consensus size: 93
45551772 GGGATATATG
*
45551782 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAG
45551847 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
45551875 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGC-GATCG-CTCGAGCTCGTTG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAAT-GTC-CGAACTCGTTG
45551938 AGTTGAGTCCGAGTTC
64 AGTTGAGTCCGAGTTC
45551954 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 3 0.04
93 71 0.96
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:45556634 original size:27 final size:27
Alignment explanation
Indices: 45556594--45556647 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
45556584 TGTCATGTGA
* *
45556594 AATTGAATGGTAAATTATTGTTACATG
1 AATTGAATGGTAAATTACTATTACATG
*
45556621 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGTAAATTACTATTACATG
45556648 GGTTGTATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.41
Consensus pattern (27 bp):
AATTGAATGGTAAATTACTATTACATG
Found at i:45556973 original size:49 final size:50
Alignment explanation
Indices: 45556896--45557139 Score: 296
Period size: 49 Copynumber: 4.9 Consensus size: 50
45556886 TATTGTGAGA
* **
45556896 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGG
* * ** * *
45556945 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCA-A
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-AGG
* * * **
45556996 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGG
*
45557046 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGG
* *
45557095 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
45557140 CCTTGTCTAC
Statistics
Matches: 165, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
49 83 0.50
50 47 0.28
51 35 0.21
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGG
Found at i:45566239 original size:30 final size:30
Alignment explanation
Indices: 45566205--45566292 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
45566195 CTAACTCATA
45566205 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* * * * * *
45566235 TTCAGCTTAGGAGTTTAGCCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
* *
45566265 TTTAGCTCACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
45566293 TTTTAGTTTA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.27
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAAC
Found at i:45584290 original size:29 final size:29
Alignment explanation
Indices: 45584235--45584334 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 29
45584225 CCTGTATCTA
* *
45584235 GCCCATTAAGCCC-AATCATAT-TCATATG
1 GCCCATTAGGCCCAAATCACATGT-ATATG
*
45584263 GCCCATTAGGCCCAAATCACCTGTATATG
1 GCCCATTAGGCCCAAATCACATGTATATG
*
45584292 GCCCATTAGGCCCAAATCACATTTATATG
1 GCCCATTAGGCCCAAATCACATGTATATG
*
45584321 GCCCGTTAGGCCCA
1 GCCCATTAGGCCCA
45584335 GTCATATTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
28 12 0.19
29 51 0.80
30 1 0.02
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (29 bp):
GCCCATTAGGCCCAAATCACATGTATATG
Found at i:45584333 original size:58 final size:57
Alignment explanation
Indices: 45584224--45584334 Score: 159
Period size: 58 Copynumber: 1.9 Consensus size: 57
45584214 AAATTCACAT
* *
45584224 ACCTGTATCTAGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATAGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * *
45584281 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATAGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
45584335 GTCATATTCA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 21 0.45
58 26 0.55
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (57 bp):
ACCTGTATATAGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:45584599 original size:16 final size:16
Alignment explanation
Indices: 45584557--45584599 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
45584547 GTAGCCAAAC
*
45584557 TTTCGGCTTTTCGGCA
1 TTTCGGCTTTTCGACA
* *
45584573 TTTTGGATTTTCGACA
1 TTTCGGCTTTTCGACA
45584589 TTTCGGCTTTT
1 TTTCGGCTTTT
45584600 GCCGATTCAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.21, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:45592937 original size:43 final size:43
Alignment explanation
Indices: 45592876--45592961 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
45592866 GTTACATGAA
* *
45592876 TCGCATCCATTATGAACTCAGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
45592919 TCGCATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
1 TCGCATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
45592962 CACATATCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCAGACCTCTCAACAAGCTCGGATGC
Found at i:45594209 original size:9 final size:9
Alignment explanation
Indices: 45594197--45594221 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
45594187 TGTTTTCCTT
45594197 TTTTTTTTC
1 TTTTTTTTC
45594206 TTTTTTTTC
1 TTTTTTTTC
45594215 TTTTTTT
1 TTTTTTT
45594222 GCCAAGAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:45595395 original size:20 final size:20
Alignment explanation
Indices: 45595346--45595414 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
45595336 ATATAAATTA
*
45595346 TGAAAGTTTTATAAA-TATTT
1 TGAAA-TTTTAAAAATTATTT
*
45595366 T-AAATTTTAAAAGTTATTT
1 TGAAATTTTAAAAATTATTT
* *
45595385 TGAATTTTTAAAAATTGTTT
1 TGAAATTTTAAAAATTATTT
45595405 TGAACATTTT
1 TGAA-ATTTT
45595415 TATAATTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 7 0.17
19 9 0.22
20 20 0.50
21 4 0.10
ACGTcount: A:0.38, C:0.01, G:0.09, T:0.52
Consensus pattern (20 bp):
TGAAATTTTAAAAATTATTT
Found at i:45599794 original size:22 final size:22
Alignment explanation
Indices: 45599766--45599809 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45599756 CATAAAAATT
45599766 TAAAATTTATTCATACATGTAA
1 TAAAATTTATTCATACATGTAA
*
45599788 TAAAATTTATTCATGCATGTAA
1 TAAAATTTATTCATACATGTAA
45599810 CACATGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (22 bp):
TAAAATTTATTCATACATGTAA
Found at i:45614206 original size:31 final size:31
Alignment explanation
Indices: 45614171--45614238 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
45614161 AAATTTTGTT
*
45614171 ATTTTAGTCACTCTCATTTA-ATAAGTTGTCA
1 ATTTTAGTCACTC-CAGTTAGATAAGTTGTCA
* *
45614202 ATTTTAGTTACTCCCGTTAGATAAGTTGTCA
1 ATTTTAGTCACTCCAGTTAGATAAGTTGTCA
45614233 ATTTTA
1 ATTTTA
45614239 ATCGCTCTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 4 0.12
31 29 0.88
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.46
Consensus pattern (31 bp):
ATTTTAGTCACTCCAGTTAGATAAGTTGTCA
Found at i:45614783 original size:16 final size:16
Alignment explanation
Indices: 45614758--45614792 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
45614748 TAAACAATAT
*
45614758 ATTATTAATTTTTAAA
1 ATTATGAATTTTTAAA
45614774 ATTATGAATTTTTAAA
1 ATTATGAATTTTTAAA
45614790 ATT
1 ATT
45614793 TAAACTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTATGAATTTTTAAA
Found at i:45617367 original size:40 final size:40
Alignment explanation
Indices: 45617308--45617528 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
45617298 TATTCGGATA
* *
45617308 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
45617348 ATACCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
45617388 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
45617428 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
45617468 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
45617508 ATATCC-GGATAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
45617529 ATACTTGGGT
Statistics
Matches: 166, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 13 0.08
40 151 0.91
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:45619338 original size:40 final size:40
Alignment explanation
Indices: 45619290--45619516 Score: 400
Period size: 40 Copynumber: 5.7 Consensus size: 40
45619280 GCAAACACAT
* *
45619290 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
45619330 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
45619370 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
45619410 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
45619450 TTGCCTTCGGGTCATAACCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
45619490 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
45619517 ATCCAATGCT
Statistics
Matches: 177, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 177 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:45629984 original size:40 final size:40
Alignment explanation
Indices: 45629940--45630206 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
45629930 GCAAACACAT
* *
45629940 TTGCCTTCGGGTCTTAGCCCGAACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
45629980 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
45630020 TTGCCTTCGGGTTTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
45630060 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
45630100 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
45630140 TTGCCTTCGGGTC-TAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
45630179 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
45630207 TCCAATGCTC
Statistics
Matches: 218, Mismatches: 8, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
39 39 0.18
40 179 0.82
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:45632509 original size:40 final size:40
Alignment explanation
Indices: 45632447--45632720 Score: 408
Period size: 40 Copynumber: 6.9 Consensus size: 40
45632437 CTCGCCGATG
*
45632447 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
45632487 ATTCGGTCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
45632527 ATCCGGGCTAAGTCCCGAAGAGCATACGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
*
45632567 ATCCGGGCTAAGT-CTGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
45632606 AT-CGGGCTAAGTCTCGAAGAGCATTCATGCTGGAGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* * *
45632645 ATCAGGGTTAAGTCCCGAAAAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
* *
45632685 ATCCGGGCTAGGTCCCGAAGAGCATTCATGCTGGTG
1 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
45632721 ATGTGTATTC
Statistics
Matches: 209, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
38 10 0.05
39 50 0.24
40 149 0.71
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:45636487 original size:47 final size:47
Alignment explanation
Indices: 45636418--45636573 Score: 201
Period size: 47 Copynumber: 3.3 Consensus size: 47
45636408 AGCTTAAGAT
45636418 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** *
45636465 CGAATGGCCAATGTGATGAATGTGAAAGTGCATACATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
** * *
45636512 CGAATGGTTAATGTGAT-ATATGTGTAA--GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGTGTGTATATGTGATAAGGC
*
45636557 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
45636574 AAAGTGTGCA
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
45 22 0.23
46 6 0.06
47 66 0.70
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (47 bp):
CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
Found at i:45636697 original size:39 final size:40
Alignment explanation
Indices: 45636643--45636728 Score: 120
Period size: 40 Copynumber: 2.2 Consensus size: 40
45636633 TAAATGAATT
* * * *
45636643 ATGCTGAGATTGTATCCGGG-TTAGAGACCCGCTGGCTTC
1 ATGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTA
*
45636682 ATGCTGGGATTGTATCCGGGTTTAAAGTCCCGCAGGCTTA
1 ATGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTA
45636722 ATGCTGG
1 ATGCTGG
45636729 TGAATTAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 19 0.46
40 22 0.54
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (40 bp):
ATGCTGGGATTGTATCCGGGTTTAAAGACCCGCAGGCTTA
Found at i:45644165 original size:28 final size:28
Alignment explanation
Indices: 45644125--45644182 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
45644115 GGGGACCTGA
45644125 TTGTCAAGCAACCTCCCGATCAATGTGG
1 TTGTCAAGCAACCTCCCGATCAATGTGG
*
45644153 TTGTCATGCAACCTCCCGATCAATGTGG
1 TTGTCAAGCAACCTCCCGATCAATGTGG
45644181 TT
1 TT
45644183 CATTTGTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (28 bp):
TTGTCAAGCAACCTCCCGATCAATGTGG
Found at i:45644336 original size:63 final size:63
Alignment explanation
Indices: 45644269--45644388 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
45644259 CTTTAGTTTC
* *
45644269 AGTTTATTTTACACAACCACCAC-ATCATGCACAATCATTTCCTGCATCAACACATTCAGCACT
1 AGTTTATTTTACACAACCACCACAAT-AGGCACAATCATTCCCTGCATCAACACATTCAGCACT
* * *
45644332 AGTTTATTTTACACAAGCACCACAATAGGCCCCATCATTCCCTGCATCAACACATTC
1 AGTTTATTTTACACAACCACCACAATAGGCACAATCATTCCCTGCATCAACACATTC
45644389 TCTAGGGATA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 49 0.96
64 2 0.04
ACGTcount: A:0.33, C:0.33, G:0.07, T:0.28
Consensus pattern (63 bp):
AGTTTATTTTACACAACCACCACAATAGGCACAATCATTCCCTGCATCAACACATTCAGCACT
Found at i:45649631 original size:5 final size:5
Alignment explanation
Indices: 45649621--45649648 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
45649611 CAATTTGTGA
45649621 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
45649649 CACACAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:45651039 original size:130 final size:129
Alignment explanation
Indices: 45650732--45651039 Score: 388
Period size: 130 Copynumber: 2.4 Consensus size: 129
45650722 GATAAATCAA
* * * ** *
45650732 AACCCAGCACG-TAGGGCACAATTTCTCGAAATTTCCAAACA-CAAAATATTGCCTTGTTTTTTT
1 AACCCAGCACGATAGGGCACGATTCCTCG-AATTTCCAAACATC-AAACATTGCCTTGCATTTTA
* * *
45650795 AAAATTTAGAAAACATGAGTAAAATTCTAAAGGAATATTCGATTATTTGAACAAACGGGAAATTG
64 AAAATTTAGAAAACATGAGTAAAATTCCAAAGGAATATTCGATAATTTGAACAAACGAGAAATTG
45650860 C
129 C
* * * *
45650861 AACCTAGCACGATAGGGCACGATTCCCCGAATTTCCAAACTTCGAACATTGCCTT-CATTTTAAA
1 AACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATCAAACATTGCCTTGCATTTTAAA
** * *
45650925 GAATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATAATTTTGAACAAACGAGAAATTT
66 -AATTTAGAAAACATGAGTAAAATTCCAAAGGAATATTCGATAA-TTTGAACAAACGAGAAATTG
*
45650990 T
129 C
*
45650991 AACCCAGCACGATAGGGCACGATTCCTCGAATTTCTAAACATCAAACAT
1 AACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATCAAACAT
45651040 CGCTTTTGTT
Statistics
Matches: 152, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
128 6 0.04
129 69 0.45
130 77 0.51
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (129 bp):
AACCCAGCACGATAGGGCACGATTCCTCGAATTTCCAAACATCAAACATTGCCTTGCATTTTAAA
AATTTAGAAAACATGAGTAAAATTCCAAAGGAATATTCGATAATTTGAACAAACGAGAAATTGC
Found at i:45653207 original size:10 final size:10
Alignment explanation
Indices: 45653184--45653218 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
45653174 AATGTATTCG
45653184 AAAAGAAAAGA
1 AAAAGAAAA-A
45653195 AAAAGAAAAA
1 AAAAGAAAAA
*
45653205 AAAGGAAAAA
1 AAAAGAAAAA
45653215 AAAA
1 AAAA
45653219 ATAACAGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:45659795 original size:64 final size:64
Alignment explanation
Indices: 45659666--45659842 Score: 239
Period size: 64 Copynumber: 2.8 Consensus size: 64
45659656 AGGTAAGAGC
* * ** * *
45659666 ATAGAGTAATTCCTTGATGAGGAAGTATCATAGACCGTAAGGGTTTTTTATGCTGGTAATGTATT
1 ATAGAGTAATTCCTCGATAAGGAAGTATCATAGAAAGTAA-GGTTTTTTACGCTGATAATGTATT
* * *
45659731 ATAGAGTAATTCCTCAATAAGGAAG-ATCGTAGAAATTAAGGTTTTTTAACGCTGATAATGTATT
1 ATAGAGTAATTCCTCGATAAGGAAGTATCATAGAAAGTAAGGTTTTTT-ACGCTGATAATGTATT
*
45659795 ATAGAGTAATTCCTCGATAAGGAAGTATCATAGAAAGTAAGTTTTTTT
1 ATAGAGTAATTCCTCGATAAGGAAGTATCATAGAAAGTAAGGTTTTTT
45659843 TTTTTTTGGC
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 8 0.08
64 48 0.49
65 41 0.42
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (64 bp):
ATAGAGTAATTCCTCGATAAGGAAGTATCATAGAAAGTAAGGTTTTTTACGCTGATAATGTATT
Found at i:45672653 original size:6 final size:6
Alignment explanation
Indices: 45672635--45672667 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
45672625 AGCAGAATCG
*
45672635 GAGGAA GATGAA GAGGAA GAGGAA GAGGAA GAG
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAG
45672668 ATATTGGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (6 bp):
GAGGAA
Found at i:45676345 original size:17 final size:16
Alignment explanation
Indices: 45676325--45676360 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
45676315 AGTTAAATTT
45676325 TATATTAATTAAATCCA
1 TATATTAATTAAA-CCA
*
45676342 TATATTAATTTAACCA
1 TATATTAATTAAACCA
45676358 TAT
1 TAT
45676361 TTTTCATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (16 bp):
TATATTAATTAAACCA
Found at i:45678378 original size:31 final size:30
Alignment explanation
Indices: 45678323--45678381 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
45678313 GTAAATACTC
***
45678323 AAAATTTGAAGGGTTAAAGTGTAAATATGA
1 AAAATTTGAAGGACCAAAGTGTAAATATGA
45678353 AAAATTTGAAGGACCAATAGTGTAAATAT
1 AAAATTTGAAGGACCAA-AGTGTAAATAT
45678382 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.29
Consensus pattern (30 bp):
AAAATTTGAAGGACCAAAGTGTAAATATGA
Found at i:45678633 original size:11 final size:11
Alignment explanation
Indices: 45678619--45678663 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
45678609 AGATAAATAT
45678619 TATTTTATTAA
1 TATTTTATTAA
*
45678630 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
45678643 TATTTTATTAT
1 TATTTTATTAA
45678654 TATTTTATTA
1 TATTTTATTA
45678664 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:45678732 original size:3 final size:3
Alignment explanation
Indices: 45678724--45678754 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
45678714 AACCAACGTG
45678724 AGA AGA AGA AGA AGA AGA AGA AGA A-A AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
45678755 TTTTCACTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:45680566 original size:46 final size:46
Alignment explanation
Indices: 45680514--45680817 Score: 387
Period size: 46 Copynumber: 6.6 Consensus size: 46
45680504 GCTTTCTGAA
** * * *
45680514 ATGAAATGTGTAAGACCATGGTTAAAAGATACCATGACAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
45680560 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
45680606 ATGAAA-AAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
45680651 ATGAAAAGAATAAGACCATAGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
45680697 GGGAAATGAATAAGACCATGGTTGAAAGATGCCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
45680743 ATGAAATGAACAAGACCATGGTTGAAAGATACAATTGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
45680789 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAATAAGACCATGGTTGAAAGA
45680818 CACTATGACA
Statistics
Matches: 228, Mismatches: 28, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
45 43 0.19
46 185 0.81
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:45680794 original size:137 final size:138
Alignment explanation
Indices: 45680524--45680832 Score: 442
Period size: 137 Copynumber: 2.2 Consensus size: 138
45680514 ATGAAATGTG
* * * **
45680524 TAAGACCATGGTTAAAAGATACCATGACAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGATACCATGACAACATGATAGGAAATGAATAAGACCATGGTTGAAAGA
* * *
45680589 TACCATGGCAACGTGACATGAAAAAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATG
66 TACCATGGCAACGTGACATGAAAAAACAAGACCATGGTTGAAAGATACAATGGCAACATGACATG
45680654 AAAA-GAA
131 AAAATGAA
* *
45680661 TAAGACCATAGTTGAAAGATACCATGGCAACATGATGGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATAGTTGAAAGATACCATGACAACATGATAGGAAATGAATAAGACCATGGTTGAAAGA
* * *
45680726 TGCCATGGCAACGTGACATGAAATGAACAAGACCATGGTTGAAAGATACAATTGCAACATGACA-
66 TACCATGGCAACGTGACATGAAA-AAACAAGACCATGGTTGAAAGATACAATGGCAACATGACAT
*
45680790 GAAAATGAG
130 GAAAATGAA
* * *
45680799 TAAGACCATAGTTGAAAGACACTATGACATCATG
1 TAAGACCATAGTTGAAAGATACCATGACAACATG
45680833 TCAAAGATAA
Statistics
Matches: 152, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
137 85 0.56
138 67 0.44
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (138 bp):
TAAGACCATAGTTGAAAGATACCATGACAACATGATAGGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACGTGACATGAAAAAACAAGACCATGGTTGAAAGATACAATGGCAACATGACATG
AAAATGAA
Found at i:45683684 original size:37 final size:37
Alignment explanation
Indices: 45683634--45683709 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
45683624 TGGCTTAGGA
*
45683634 TTCGACTCCTCCCCGTCAACTACATTTCCTACCCTTT
1 TTCGACTCCTCCCCGTCAACTACATCTCCTACCCTTT
* *
45683671 TTCGACTCCTCCCCGTCAATTGCATCTCCTACCCTTT
1 TTCGACTCCTCCCCGTCAACTACATCTCCTACCCTTT
45683708 TT
1 TT
45683710 TCCTCACTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.14, C:0.42, G:0.07, T:0.37
Consensus pattern (37 bp):
TTCGACTCCTCCCCGTCAACTACATCTCCTACCCTTT
Found at i:45686641 original size:23 final size:23
Alignment explanation
Indices: 45686604--45686650 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
45686594 TTGTTTAGCC
*
45686604 ACAAAAAATGGAAAA-AAAGAAAA
1 ACAAAAAATCGAAAACAAA-AAAA
*
45686627 ACAAAAAATCTAAAACAAAAAAA
1 ACAAAAAATCGAAAACAAAAAAA
45686650 A
1 A
45686651 GTGGTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.79, C:0.09, G:0.06, T:0.06
Consensus pattern (23 bp):
ACAAAAAATCGAAAACAAAAAAA
Found at i:45693694 original size:5 final size:6
Alignment explanation
Indices: 45693679--45693708 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
45693669 CAACTTATAA
*
45693679 AAAAAG AAAAAG AAAAAC AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
45693709 GAAAGGGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:45694642 original size:19 final size:19
Alignment explanation
Indices: 45694620--45694659 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45694610 TTCATGTGGC
45694620 TTTCATGTTT-TTTTTCTTT
1 TTTC-TGTTTCTTTTTCTTT
*
45694639 TTTCTTTTTCTTTTTCTTT
1 TTTCTGTTTCTTTTTCTTT
45694658 TT
1 TT
45694660 CATATTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (19 bp):
TTTCTGTTTCTTTTTCTTT
Found at i:45694646 original size:6 final size:6
Alignment explanation
Indices: 45694630--45694670 Score: 55
Period size: 6 Copynumber: 6.3 Consensus size: 6
45694620 TTTCATGTTT
45694630 TTTTTC TTTTTTC TTTTTC TTTTTC TTTTTC ATATTTTC TT
1 TTTTTC -TTTTTC TTTTTC TTTTTC TTTTTC -T-TTTTC TT
45694671 AATAAAACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 19 0.59
7 8 0.25
8 5 0.16
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTC
Found at i:45704392 original size:18 final size:19
Alignment explanation
Indices: 45704354--45704393 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
45704344 ATTGCATGCT
*
45704354 TGAATCGTAATGAACGAAA
1 TGAATAGTAATGAACGAAA
*
45704373 TGAATAGTAATGGA-GAAA
1 TGAATAGTAATGAACGAAA
45704391 TGA
1 TGA
45704394 GAAACATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.47, C:0.05, G:0.25, T:0.23
Consensus pattern (19 bp):
TGAATAGTAATGAACGAAA
Found at i:45709522 original size:10 final size:10
Alignment explanation
Indices: 45709507--45709532 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
45709497 ATAAAGTGAC
45709507 AAAAAAAAGA
1 AAAAAAAAGA
45709517 AAAAAAAAGA
1 AAAAAAAAGA
45709527 AAAAAA
1 AAAAAA
45709533 TTCTGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAGA
Found at i:45711301 original size:51 final size:51
Alignment explanation
Indices: 45711184--45711303 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
45711174 AACCAAGTTA
* * *
45711184 TCCGGATGAAACATTAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATTAT
1 TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAAT
* *
45711235 TCCGGATGAAATATGAAGCTCTTGTTGAAGTTAGAGCAACAAGGTAATAAT
1 TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAAT
*
45711286 TCCGGATGAAGTATGAAG
1 TCCGGATGAAATATGAAG
45711304 TAAGTTTGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (51 bp):
TCCGGATGAAATATGAAGCTCTTGTTGAAGCTAGAGCAACAAAGTAATAAT
Found at i:45713447 original size:23 final size:22
Alignment explanation
Indices: 45713421--45713474 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
45713411 TTCCTTCCCT
* *
45713421 TTATATCAATATTTTTAATTAAA
1 TTATAT-AATATATCTAATTAAA
45713444 TTAT-TAATAAATATCTAATTAAA
1 TTATATAAT--ATATCTAATTAAA
45713467 TTATATAA
1 TTATATAA
45713475 ATAAAATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 3 0.12
22 1 0.04
23 19 0.73
24 3 0.12
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATATAATATATCTAATTAAA
Found at i:45719383 original size:93 final size:93
Alignment explanation
Indices: 45719270--45719441 Score: 256
Period size: 93 Copynumber: 1.8 Consensus size: 93
45719260 GCCCATAAGT
* * *
45719270 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCTATAAGTGAACTCAGACTCAATTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
45719334 ATGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
45719363 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
45719428 CGAGTTCTGATGCC
66 CGAGCTCGGATGCC
45719442 CAAATATCCC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:45719434 original size:46 final size:45
Alignment explanation
Indices: 45719262--45719431 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
45719252 TGTAACCCGC
*
45719262 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
* * * * *
45719308 CTATAAGTGAACTCAGACTCAATTCAATGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
45719354 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
45719401 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
45719432 TTCTGATGCC
Statistics
Matches: 97, Mismatches: 20, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 57 0.59
47 29 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:45721916 original size:7 final size:7
Alignment explanation
Indices: 45721904--45721933 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
45721894 TATTGCTAGT
45721904 GTCTGAG
1 GTCTGAG
45721911 GTCTGAG
1 GTCTGAG
*
45721918 GTCTGAA
1 GTCTGAG
45721925 GTCTGAG
1 GTCTGAG
45721932 GT
1 GT
45721934 TCGAATCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.13, G:0.40, T:0.30
Consensus pattern (7 bp):
GTCTGAG
Found at i:45723452 original size:17 final size:19
Alignment explanation
Indices: 45723430--45723466 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
45723420 TGAAGATTAT
45723430 TGGG-CCACACGGG-CGTG
1 TGGGCCCACACGGGTCGTG
*
45723447 TGGGCCCACATGGGTCGTG
1 TGGGCCCACACGGGTCGTG
45723466 T
1 T
45723467 TATGGCCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 4 0.24
18 8 0.47
19 5 0.29
ACGTcount: A:0.11, C:0.27, G:0.43, T:0.19
Consensus pattern (19 bp):
TGGGCCCACACGGGTCGTG
Found at i:45728627 original size:21 final size:20
Alignment explanation
Indices: 45728601--45728659 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
45728591 TAAAAGTTTA
45728601 AAATATTTTTAAAAACTAATT
1 AAATATTTTTAAAAA-TAATT
*
45728622 AAATATTTTTATAAAA-ATTT
1 AAATATTTTTA-AAAATAATT
45728642 AAA-A-TTTTAAAAATAATT
1 AAATATTTTTAAAAATAATT
45728660 TAAAATTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
17 4 0.12
18 8 0.24
19 1 0.03
20 6 0.18
21 11 0.32
22 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATATTTTTAAAAATAATT
Found at i:45728648 original size:19 final size:19
Alignment explanation
Indices: 45728591--45728671 Score: 67
Period size: 19 Copynumber: 4.0 Consensus size: 19
45728581 TTTTAAGAAT
*
45728591 TAAAAGTTTAAAATATTTT-
1 TAAAAATTTAAAAT-TTTTA
45728610 TAAAAACTAATTAAATATTTTTA
1 TAAAAA-T--TTAAA-ATTTTTA
45728633 TAAAAATTTAAAA-TTTTA
1 TAAAAATTTAAAATTTTTA
*
45728651 AAAATAATTTAAAATTGTTTA
1 TAAA-AATTTAAAATT-TTTA
45728672 GAATTTATTC
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
18 8 0.15
19 15 0.29
20 7 0.13
21 4 0.08
22 10 0.19
23 8 0.15
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.44
Consensus pattern (19 bp):
TAAAAATTTAAAATTTTTA
Found at i:45730046 original size:54 final size:54
Alignment explanation
Indices: 45729913--45730046 Score: 148
Period size: 54 Copynumber: 2.5 Consensus size: 54
45729903 CAAAGTTGGG
* * *
45729913 ACACACGGCCGTGTC-CTAGCCCGTGTCTCAAATCATGTAACTCACTGACTTAAT
1 ACACACGGCCGTGTCTC-AGACCGTGTCTCAAACCATATAACTCACTGACTTAAT
* * * * *
45729967 ACACATGGCCGTGT-TATAGATCGTGTGC-CAAACCATATGACTCACTGACTTGAT
1 ACACACGGCCGTGTCT-CAGACCGTGT-CTCAAACCATATAACTCACTGACTTAAT
45730021 ACACACGGCCGTGTCTCAGACCGTGT
1 ACACACGGCCGTGTCTCAGACCGTGT
45730047 ACGGTACATG
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
54 63 0.97
55 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (54 bp):
ACACACGGCCGTGTCTCAGACCGTGTCTCAAACCATATAACTCACTGACTTAAT
Found at i:45733354 original size:15 final size:15
Alignment explanation
Indices: 45733331--45733367 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
45733321 TTTTTGAAAG
*
45733331 AAAATTATTTTATAA
1 AAAAATATTTTATAA
*
45733346 AAAAATATTTTATAT
1 AAAAATATTTTATAA
45733361 AAAAATA
1 AAAAATA
45733368 AATGAATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAAATATTTTATAA
Found at i:45733871 original size:28 final size:28
Alignment explanation
Indices: 45733839--45733892 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
45733829 ATTATTGTGA
45733839 ATCTTATGTTTGAAA-ATTGATATATTGC
1 ATCTTATGTTT-AAATATTGATATATTGC
* *
45733867 ATCTTGTGTTTAAATTTTGATATATT
1 ATCTTATGTTTAAATATTGATATATT
45733893 ACATTCTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.52
Consensus pattern (28 bp):
ATCTTATGTTTAAATATTGATATATTGC
Found at i:45735404 original size:49 final size:49
Alignment explanation
Indices: 45735304--45735401 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
45735294 TTTTAAAATT
* * ** *
45735304 TTTTAAAATTAAGATTAAATTAAAATAATTTGTAAAATTAAAGTTAAAA
1 TTTTAAAATTAAGATGAAATTAAAACAATTAATAAAATTAAAGCTAAAA
*
45735353 TTTTAAAATTATGATGAAATTAAAACAA-TAATAAATATTTAAAGCTAAA
1 TTTTAAAATTAAGATGAAATTAAAACAATTAATAAA-A-TTAAAGCTAAA
45735402 TTTATTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 5 0.12
49 26 0.63
50 10 0.24
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (49 bp):
TTTTAAAATTAAGATGAAATTAAAACAATTAATAAAATTAAAGCTAAAA
Found at i:45742083 original size:18 final size:19
Alignment explanation
Indices: 45742060--45742102 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
45742050 TCAGAAAATA
45742060 ATTTTT-GGAAAATGATTT
1 ATTTTTCGGAAAATGATTT
*
45742078 ATTTTTCTGAAAATGATTT
1 ATTTTTCGGAAAATGATTT
45742097 ATTTTT
1 ATTTTT
45742103 TTGGTGTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (19 bp):
ATTTTTCGGAAAATGATTT
Found at i:45753893 original size:24 final size:23
Alignment explanation
Indices: 45753866--45753929 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 23
45753856 TTTGAAGAAC
45753866 TTTTATTCCTTATTTTAAATTTT
1 TTTTATTCCTTATTTTAAATTTT
* * **
45753889 GTTTTGTT-TTTATTTTTTATTTT
1 -TTTTATTCCTTATTTTAAATTTT
*
45753912 TATTATTCACTTATTTTA
1 TTTTATTC-CTTATTTTA
45753930 TTTTATTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
22 5 0.17
23 12 0.40
24 13 0.43
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.72
Consensus pattern (23 bp):
TTTTATTCCTTATTTTAAATTTT
Found at i:45754202 original size:22 final size:22
Alignment explanation
Indices: 45754177--45754223 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
45754167 CACTTAAAAC
45754177 TAAATGA-TCCCAACTTTAATTT
1 TAAATGATTCCCAAC-TTAATTT
* *
45754199 TAAATGATTGCCAACTTCATTT
1 TAAATGATTCCCAACTTAATTT
45754221 TAA
1 TAA
45754224 TAAATTTTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.40
Consensus pattern (22 bp):
TAAATGATTCCCAACTTAATTT
Found at i:45760133 original size:13 final size:13
Alignment explanation
Indices: 45760117--45760150 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
45760107 AATAAAATAA
45760117 TAAAATATCTTAT
1 TAAAATATCTTAT
45760130 TAAAATATCTTAT
1 TAAAATATCTTAT
45760143 TAAAATAT
1 TAAAATAT
45760151 TAATAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAATATCTTAT
Found at i:45761100 original size:40 final size:40
Alignment explanation
Indices: 45761056--45761136 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
45761046 TGTTATCTGG
45761056 TTAGATTTGATGCTTAGATATGAAAAATGACTAGTTTGTA
1 TTAGATTTGATGCTTAGATATGAAAAATGACTAGTTTGTA
45761096 TTAGATTTGATGCTTAGATATGAAAAATGACTAGTTTGTA
1 TTAGATTTGATGCTTAGATATGAAAAATGACTAGTTTGTA
45761136 T
1 T
45761137 AATGAAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.41
Consensus pattern (40 bp):
TTAGATTTGATGCTTAGATATGAAAAATGACTAGTTTGTA
Found at i:45765875 original size:16 final size:16
Alignment explanation
Indices: 45765854--45765892 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
45765844 ATAGTAAAAT
45765854 ATTATT-TTATTATTAA
1 ATTATTATTA-TATTAA
*
45765870 ATTATTATTATATTAC
1 ATTATTATTATATTAA
45765886 ATTATTA
1 ATTATTA
45765893 AAATAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTATTATATTAA
Found at i:45765875 original size:19 final size:19
Alignment explanation
Indices: 45765848--45765884 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45765838 GTGGTAATAG
*
45765848 TAAAATATTATTTTATTAT
1 TAAAATATTATTATATTAT
*
45765867 TAAATTATTATTATATTA
1 TAAAATATTATTATATTA
45765885 CATTATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAAATATTATTATATTAT
Found at i:45769161 original size:48 final size:48
Alignment explanation
Indices: 45769103--45769314 Score: 240
Period size: 48 Copynumber: 4.5 Consensus size: 48
45769093 CACATAGTAG
* * * *
45769103 GATGCCAATGCCATATCCCGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
** **
45769151 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
45769199 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
** * *
45769247 GATGCCAAT---A-GT-CCAG-CTATGGTCTTACACT-ATATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACA-TGGGATCACACATC
*
45769290 GATGCCAAAGCCATGTCCCAGACAT
1 GATGCCAATGCCATGTCCCAGACAT
45769315 TACATGGGAT
Statistics
Matches: 140, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
42 1 0.01
43 31 0.22
44 3 0.02
45 1 0.01
46 1 0.01
47 2 0.01
48 100 0.71
49 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
Found at i:45776143 original size:46 final size:48
Alignment explanation
Indices: 45775894--45776259 Score: 240
Period size: 46 Copynumber: 7.7 Consensus size: 48
45775884 AGGGTATAAT
* *
45775894 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCA--TC-AA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTC-TACATCTCGAG
* * * * ** ** *
45775941 GTCGATGCCATGTCTCA-AGCATGGTCTTACACTGACTATTGAAATCAAG
1 GCCGATG-CATGTCCCAGA-CATGGTCTTACACTGGCTCTACATCTCGAG
* * * * * * *
45775990 GCCGACTCCATGTCCCTGACATAGTCTTACACTAGCTCTCACATATCCAT
1 GCCGA-TGCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCTCGAG
* *
45776040 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTTGTA-
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCG-AG
* *
45776086 GCCAATGCATGTCCCAGACAT-GTCTTAGACTGGCT-TACATCTCGAG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGAG
* ** * * *
45776132 GCTGATGCATGTCCCAGACAT-GTCTTACACTACCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGAG
* * *
45776178 GCCGATTCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTG
1 GCCGA-TGCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTCGAG
**
45776226 GCTAATGCATGTCCCAGACAT-GTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGC
45776260 ACACAAATAA
Statistics
Matches: 251, Mismatches: 51, Indels: 35
0.74 0.15 0.10
Matches are distributed among these distances:
44 9 0.04
45 16 0.06
46 74 0.29
47 64 0.25
48 22 0.09
49 31 0.12
50 35 0.14
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGAG
Found at i:45776251 original size:140 final size:141
Alignment explanation
Indices: 45775891--45776259 Score: 379
Period size: 140 Copynumber: 2.6 Consensus size: 141
45775881 CATAGGGTAT
* * * ** * * *
45775891 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCT
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-CTTGTAGCCAATG-CATGTCC
* ** ** * * * *
45775956 CA-AGCATGGTCTTACACTGACTATTGAAATCAAGGCCGACTCCATGTCCCTGACATAGTCTTAC
64 CAGA-CAT-GTCTTACACTGGCT-TACATCTCGAGGCTGA-TGCATGTCCCAGACATAGTCTTAC
45776020 ACTAGCTCTCACATATC
125 ACTAGCTCTCACATATC
*
45776037 CATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCCAATGCATGTCCCA
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCCAATGCATGTCCCA
*
45776102 GACATGTCTTAGACTGGCTTACATCTCGAGGCTGATGCATGTCCCAGACAT-GTCTTACACTA-C
66 GACATGTCTTACACTGGCTTACATCTCGAGGCTGATGCATGTCCCAGACATAGTCTTACACTAGC
* * *
45776165 -CTCTCGTCTC
131 TCTCACATATC
* * * * *
45776175 AATGCCGATTCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCTAATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-T--TGTAGCCAATGCATGTC
45776239 CCAGACATGTCTTACACTGGC
63 CCAGACATGTCTTACACTGGC
45776260 ACACAAATAA
Statistics
Matches: 190, Mismatches: 29, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
137 2 0.01
138 45 0.24
139 1 0.01
140 46 0.24
141 14 0.07
142 10 0.05
143 12 0.06
144 11 0.06
145 9 0.05
146 40 0.21
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (141 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTGTAGCCAATGCATGTCCCA
GACATGTCTTACACTGGCTTACATCTCGAGGCTGATGCATGTCCCAGACATAGTCTTACACTAGC
TCTCACATATC
Found at i:45793213 original size:50 final size:49
Alignment explanation
Indices: 45793052--45793233 Score: 167
Period size: 50 Copynumber: 3.7 Consensus size: 49
45793042 AGGGTATAAT
* * * * * * *
45793052 GTCGATGCCAGGTCCCAAACATGGCCTTATACTGGCTCATC--CATC-AA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAAATCGAG
* *
45793099 GTCGATGCCATGTCCTAGGCATGGTCTTACACTGACTATCAAAATCGAG
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAG
* * * * *
45793148 GCCGATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTTACATATTCG-T
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGA-CT-AT-CAAAATCGAG
45793198 GTCGATGCCATGTCCCAGACATGGTCTTACACTGAC
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGAC
45793234 ACATCTCGTA
Statistics
Matches: 111, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
46 3 0.03
47 30 0.27
48 4 0.04
49 33 0.30
50 34 0.31
51 7 0.06
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.26
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATCGAG
Found at i:45793265 original size:45 final size:49
Alignment explanation
Indices: 45793101--45793272 Score: 164
Period size: 50 Copynumber: 3.6 Consensus size: 49
45793091 TCCATCAAGT
* * * *
45793101 CGATGCCATGTCCTAGGCATGGTCTTACACT-G-ACTATCAAAATCG-AGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTA-CATACTCGTA--C
* * **
45793150 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTTACATATTCGTGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCAC-TACATACTCGTAC
45793200 CGATGCCATGTCCCAGACATGGTCTTACACT-G-AC-ACAT-CTCGTAAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTACATACTCGT-AC
45793246 CGATG-CATGTCCCAGACAT-GTCTTACA
1 CGATGCCATGTCCCAGACATGGTCTTACA
45793273 GTGGCTTACA
Statistics
Matches: 107, Mismatches: 11, Indels: 15
0.80 0.08 0.11
Matches are distributed among these distances:
44 8 0.07
45 18 0.17
46 9 0.08
48 1 0.01
49 30 0.28
50 32 0.30
51 7 0.07
52 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACTACATACTCGTAC
Found at i:45801430 original size:22 final size:22
Alignment explanation
Indices: 45801402--45801464 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
45801392 TTAAGTAAAA
45801402 GTTTGTTATGTGAAATGGAATT
1 GTTTGTTATGTGAAATGGAATT
*
45801424 GTTTGTTATGTAAAATGGAATT
1 GTTTGTTATGTGAAATGGAATT
*
45801446 GTTATGTTCATTTGAAATG
1 GTT-TGTT-ATGTGAAATG
45801465 AAAAGGATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 24 0.67
23 4 0.11
24 8 0.22
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (22 bp):
GTTTGTTATGTGAAATGGAATT
Found at i:45804164 original size:34 final size:34
Alignment explanation
Indices: 45804116--45804185 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
45804106 TTGCTATATT
*
45804116 TAAACTAAGTTATTAAATGTTAGTATTTAATTCA
1 TAAAATAAGTTATTAAATGTTAGTATTTAATTCA
45804150 TAAAATAAGTTATTAAATGTTAGTATTTAATTCA
1 TAAAATAAGTTATTAAATGTTAGTATTTAATTCA
45804184 TA
1 TA
45804186 TGATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.44
Consensus pattern (34 bp):
TAAAATAAGTTATTAAATGTTAGTATTTAATTCA
Found at i:45805041 original size:47 final size:47
Alignment explanation
Indices: 45804972--45805067 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
45804962 GCAAAATGTA
*
45804972 ATAAATTGTGTGATAAATGTGTGAAATAATGAAAAGTATGGGCTCCT
1 ATAAATTGTGTGATAAATGTGTGAAATAATGAAAAGTATGGGCTACT
*
45805019 ATAAATTGTGTGGTAAATGTGTGAAATAATGAAAAGTATGGGCTACT
1 ATAAATTGTGTGATAAATGTGTGAAATAATGAAAAGTATGGGCTACT
45805066 AT
1 AT
45805068 GAGTATAGAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (47 bp):
ATAAATTGTGTGATAAATGTGTGAAATAATGAAAAGTATGGGCTACT
Found at i:45810562 original size:34 final size:35
Alignment explanation
Indices: 45810489--45810575 Score: 90
Period size: 34 Copynumber: 2.5 Consensus size: 35
45810479 AGGTAAGTAT
45810489 ATGT-AAGCTTATATTGAACTTGATTATTCGATTAC
1 ATGTGAAG-TTATATTGAACTTGATTATTCGATTAC
* * **
45810524 ATGTGAA-TTATATTGAACTT-ATATATTTGGTTTT
1 ATGTGAAGTTATATTGAACTTGAT-TATTCGATTAC
*
45810558 ATGTGAAGTTATTTTGAA
1 ATGTGAAGTTATATTGAA
45810576 TGTGCATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 2 0.05
34 27 0.61
35 13 0.30
36 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.16, T:0.47
Consensus pattern (35 bp):
ATGTGAAGTTATATTGAACTTGATTATTCGATTAC
Found at i:45812239 original size:18 final size:18
Alignment explanation
Indices: 45812193--45812244 Score: 70
Period size: 18 Copynumber: 2.8 Consensus size: 18
45812183 TCAAGATTCA
*
45812193 CATA-TCATTTCATCATTT
1 CATATTCATTTC-TCATCT
45812211 CATATTTCATTTCTCATCT
1 CATA-TTCATTTCTCATCT
45812230 CATATTCATTTCTCA
1 CATATTCATTTCTCA
45812245 ACTTTTCCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.48
19 9 0.29
20 7 0.23
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (18 bp):
CATATTCATTTCTCATCT
Found at i:45814760 original size:22 final size:22
Alignment explanation
Indices: 45814722--45814764 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
45814712 AGACCCTAAA
45814722 TTTTTCTTTTCCTTTTCTTTCG
1 TTTTTCTTTTCCTTTTCTTTCG
*
45814744 TTTTT-TTTTCTTCTTTCTTTC
1 TTTTTCTTTTCCT-TTTCTTTC
45814765 CCTACTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.77
Consensus pattern (22 bp):
TTTTTCTTTTCCTTTTCTTTCG
Found at i:45815383 original size:19 final size:19
Alignment explanation
Indices: 45815348--45815384 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45815338 TACACAACTC
*
45815348 AATTTTACATTAAATTTCA
1 AATTTTACACTAAATTTCA
*
45815367 AATTTTACACTATATTTC
1 AATTTTACACTAAATTTC
45815385 TTAAACTGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.00, T:0.49
Consensus pattern (19 bp):
AATTTTACACTAAATTTCA
Found at i:45815854 original size:3 final size:3
Alignment explanation
Indices: 45815846--45816473 Score: 913
Period size: 3 Copynumber: 210.7 Consensus size: 3
45815836 TCAACTTTCC
* * *
45815846 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAC TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
45815894 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAC TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
45815942 TAT TAT TAC TAC TAT TAT TAT TAT TAT TAT TAT TAC TAC TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
45815990 TAT TAT TAT TAT TAT TAC TAT T-T TAT TAT TAT TAT TAT TAC TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
45816036 TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
45816084 TAT TAT TAC TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45816132 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
45816180 TA- TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
45816226 TAT TAT TAC TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
45816274 TAT TAT TAT TAC TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
45816322 TAC TAT TAT TAT TAT TAT TAC TAT TAC TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
45816370 TAC TAT TAC TAT TAC TAT TAT TAT TAT TAT TAC TAT TAC TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
45816418 TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45816466 TAT TAT TA
1 TAT TAT TA
45816474 CTGACCCAAC
Statistics
Matches: 561, Mismatches: 60, Indels: 8
0.89 0.10 0.01
Matches are distributed among these distances:
2 8 0.01
3 553 0.99
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:45820509 original size:10 final size:11
Alignment explanation
Indices: 45820482--45820515 Score: 54
Period size: 10 Copynumber: 3.3 Consensus size: 11
45820472 TATTTTAGAT
45820482 TTTAAAAATTA
1 TTTAAAAATTA
45820493 TTT-AAAA-TA
1 TTTAAAAATTA
45820502 TTTAAAAATTA
1 TTTAAAAATTA
45820513 TTT
1 TTT
45820516 TGATTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 5 0.24
10 8 0.38
11 8 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTTAAAAATTA
Found at i:45820774 original size:13 final size:13
Alignment explanation
Indices: 45820756--45820782 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
45820746 TGCCTAAATT
45820756 TTTTTATTTTTCA
1 TTTTTATTTTTCA
45820769 TTTTTATTTTTCA
1 TTTTTATTTTTCA
45820782 T
1 T
45820783 ATATCTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTATTTTTCA
Done.