Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 164 of 378
Found at i:47904417 original size:43 final size:43
Alignment explanation
Indices: 47904297--47904433 Score: 122
Period size: 43 Copynumber: 3.2 Consensus size: 43
47904287 TGTGTTATCG
* * *
47904297 TGTAAGACCAC-GTTTGGGA-AGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACC-CTGTTTGGGACA-ATGGCATCGA-TATTTGATTT-CA
* * * *
47904341 TGTAAGGCCATGTTTGGGAC-ATCGACATC-ATATTTGATTTCT
1 TGTAAGACCCTGTTTGGGACAAT-GGCATCGATATTTGATTTCA
*
47904383 TGTAAGACCCTGTTTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCCTGTTTGGGACAATGGCATCGATATTTGATTTCA
47904426 TGTAAGAC
1 TGTAAGAC
47904434 TAAGTCTGAG
Statistics
Matches: 76, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
42 25 0.33
43 30 0.39
44 21 0.28
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (43 bp):
TGTAAGACCCTGTTTGGGACAATGGCATCGATATTTGATTTCA
Found at i:47912676 original size:42 final size:43
Alignment explanation
Indices: 47912606--47912709 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
47912596 AATCGACTTA
* *
47912606 TGATTTATGTGTAAGACCATGTTTGGGACA-TCAGCATC-ATATT
1 TGATTT-TATGTAAGACCATGTTCGGGACAGT-AGCATCGATATT
* *
47912649 TGATTTTATGTAAGACCCTGTTCGGGACAGTGGCATCGATATT
1 TGATTTTATGTAAGACCATGTTCGGGACAGTAGCATCGATATT
**
47912692 TGATTACATGTAAGACCA
1 TGATTTTATGTAAGACCA
47912710 AGTCTTAGAC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 25 0.48
43 27 0.52
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (43 bp):
TGATTTTATGTAAGACCATGTTCGGGACAGTAGCATCGATATT
Found at i:47916448 original size:13 final size:13
Alignment explanation
Indices: 47916425--47916458 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
47916415 AAACATATTA
47916425 TAAACATTTTGTGT
1 TAAA-ATTTTGTGT
47916439 TAAAATTTTGTGT
1 TAAAATTTTGTGT
47916452 TAGAAAT
1 TA-AAAT
47916459 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (13 bp):
TAAAATTTTGTGT
Found at i:47917856 original size:40 final size:40
Alignment explanation
Indices: 47917763--47918013 Score: 371
Period size: 40 Copynumber: 6.3 Consensus size: 40
47917753 GGACTACGAT
* * * *
47917763 CCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTTAGT-
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
47917802 TCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
47917842 CCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
47917882 CCGAAGGCATTTGTGCGAGTTACTATATCTGGGCCAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
47917922 CCGAAGGCATTTGTGCGAGTTACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
47917962 CCGAAGGCATTTGTGCGAGTTGCTATAT-CTGGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
47918001 CCGAAGGTATTTG
1 CCGAAGGCATTTG
47918014 GGTTTGAAAA
Statistics
Matches: 195, Mismatches: 16, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
39 54 0.28
40 141 0.72
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:47923675 original size:48 final size:48
Alignment explanation
Indices: 47923597--47923829 Score: 306
Period size: 48 Copynumber: 4.8 Consensus size: 48
47923587 TAGGGTTATT
47923597 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATG
* * * ** * **
47923645 TGAGGTAGTGTAAGACCATGTTTGAAACATGGCATCGGCATTGATATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATG
*
47923693 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATG
* * * * *
47923741 TGAACTAGTGTAAGACCATGTTTGGAACATGGCATTGGCAC-CGATATATG
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC-A-ATATG
47923791 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
47923830 ATCTTACCCT
Statistics
Matches: 156, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
48 116 0.74
49 1 0.01
50 39 0.25
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (48 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATG
Found at i:47923761 original size:96 final size:97
Alignment explanation
Indices: 47923597--47923829 Score: 387
Period size: 96 Copynumber: 2.4 Consensus size: 97
47923587 TAGGGTTATT
**
47923597 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGGTAGTGTAAGACC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAACTAGTGTAAGACC
**
47923662 ATGTTTGAAACATGGCATCGGCATTG-ATATG
66 ATGTTTGAAACATGGCATCGGCACCGAATATG
*
47923693 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGTGAACTAGTGTAAGACC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAACTAGTGTAAGACC
* *
47923758 ATGTTTGGAACATGGCATTGGCACCGATATATG
66 ATGTTTGAAACATGGCATCGGCACCGA-ATATG
47923791 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
47923830 ATCTTACCCT
Statistics
Matches: 128, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
96 84 0.66
98 44 0.34
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (97 bp):
AGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAACTAGTGTAAGACC
ATGTTTGAAACATGGCATCGGCACCGAATATG
Found at i:47925490 original size:27 final size:27
Alignment explanation
Indices: 47925416--47925504 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
47925406 TAAACTAGTC
* * * * *
47925416 ATTTTACCCTACAGAGGTATGTCGGTC
1 ATTTTACACTACAAAGGTATTTCGATA
*
47925443 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAAGGTATTTCGATA
*
47925470 ATTTTACACTACAAAGGTATTTTGATA
1 ATTTTACACTACAAAGGTATTTCGATA
47925497 ATTTTACA
1 ATTTTACA
47925505 AATCGGGGGT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAAGGTATTTCGATA
Found at i:47925529 original size:27 final size:25
Alignment explanation
Indices: 47925485--47925794 Score: 266
Period size: 27 Copynumber: 11.6 Consensus size: 25
47925475 ACACTACAAA
* *
47925485 GGTATTTTGATAATTTTACAAATCGGG
1 GGTATTTCG-TAA-TTTACAAATCGAG
*
47925512 GGTGTTTCGCTAAATTTACAAATCGAG
1 GGTATTTCG-T-AATTTACAAATCGAG
* *
47925539 GGTATTTTGGTAATTT-CACAATAGAG
1 GGTA-TTTCGTAATTTACA-AATCGAG
*
47925565 GGTATTTCAGTAATTTCACAAATAGAG
1 GGTATTTC-GTAATTT-ACAAATCGAG
47925592 GGTATTTCGGTAATTTTACAAATCGAG
1 GGTATTTC-GTAA-TTTACAAATCGAG
* *
47925619 GGTGTTTCAATAATTTCACAAATCGAG
1 GGTATTTC-GTAATTT-ACAAATCGAG
*
47925646 GGTATTTTTGTAATTTTACAAATCGAG
1 GGTA-TTTCGTAA-TTTACAAATCGAG
* * * *
47925673 GTTATTTTGGTAATTTTA-TAGTCGAG
1 GGTA-TTTCGTAA-TTTACAAATCGAG
47925699 GGTATTTCGATAATTTTACAAATCGAG
1 GGTATTTCG-TAA-TTTACAAATCGAG
*
47925726 GGTATTTCAGTAATTT-CACAATCGAA
1 GGTATTTC-GTAATTTACA-AATCGAG
47925752 GGTATTTCAGTAATTTTACAAATCGAG
1 GGTATTTC-GTAA-TTTACAAATCGAG
47925779 GGTATTTCAGTAATTT
1 GGTATTTC-GTAATTT
47925795 CTCTTTATTA
Statistics
Matches: 241, Mismatches: 26, Indels: 33
0.80 0.09 0.11
Matches are distributed among these distances:
25 11 0.05
26 67 0.28
27 143 0.59
28 20 0.08
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (25 bp):
GGTATTTCGTAATTTACAAATCGAG
Found at i:47925597 original size:53 final size:54
Alignment explanation
Indices: 47925485--47925795 Score: 380
Period size: 53 Copynumber: 5.8 Consensus size: 54
47925475 ACACTACAAA
* * * *
47925485 GGTATTTTGATAATTTTACAAATCGGGGGTGTTTC-GCTAAATTT-ACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAG-T-AATTTCACAAATCGAG
* * * *
47925539 GGTATTTTGGTAATTTCAC-AATAGAGGGTATTTCAGTAATTTCACAAATAGAG
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAG
* *
47925592 GGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCAATAATTTCACAAATCGAG
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAG
** * ** * * *
47925646 GGTATTTTTGTAATTTTACAAATCGAGGTTATTTTGGTAATTTTA-TAGTCGAG
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAG
* *
47925699 GGTATTTCGATAATTTTACAAATCGAGGGTATTTCAGTAATTTCAC-AATCGAA
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAG
*
47925752 GGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTC
1 GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTC
47925796 TCTTTATTAT
Statistics
Matches: 220, Mismatches: 33, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
52 5 0.02
53 130 0.59
54 85 0.39
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTCACAAATCGAG
Found at i:47925600 original size:80 final size:81
Alignment explanation
Indices: 47925495--47925795 Score: 374
Period size: 80 Copynumber: 3.8 Consensus size: 81
47925485 GGTATTTTGA
* * * * * ***
47925495 TAATTTTACAAATCGGGGGTGTTTCGCTAAATTTACAAATCGAGGGTATTTTGGTAATTTCAC-A
1 TAATTTCACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAA
*
47925559 ATAGAGGGTATTTCAG
66 ATCGAGGGTATTTCAG
* *
47925575 TAATTTCACAAATAGAGGGTATTTCGGTAATTTTACAAATCGAGGGTGTTTCAATAATTTCACAA
1 TAATTTCACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAA
**
47925640 ATCGAGGGTATTTTTG
66 ATCGAGGGTATTTCAG
* * * * * * *
47925656 TAATTTTACAAATCGAGGTTATTTTGGTAATTTTA-TAGTCGAGGGTATTTCGATAATTTTACAA
1 TAATTTCACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAA
47925720 ATCGAGGGTATTTCAG
66 ATCGAGGGTATTTCAG
* * *
47925736 TAATTTCAC-AATCGAAGGTATTTCAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTC
1 TAATTTCACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTC
47925796 TCTTTATTAT
Statistics
Matches: 185, Mismatches: 34, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
79 21 0.11
80 119 0.64
81 45 0.24
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (81 bp):
TAATTTCACAAATCGAGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCAATAATTTCACAA
ATCGAGGGTATTTCAG
Found at i:47935781 original size:28 final size:28
Alignment explanation
Indices: 47935744--47935835 Score: 114
Period size: 28 Copynumber: 3.3 Consensus size: 28
47935734 TGGCCCCTTT
* *
47935744 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCTCATTCATATGGCCCATC
* *
47935772 AGGCCCAATCAT-ATTTATATTGCCCATC
1 AGGCCCAATC-TCATTCATATGGCCCATC
* *
47935800 AGGCCCAATCACATTCATATGACCCATC
1 AGGCCCAATCTCATTCATATGGCCCATC
47935828 AGGCCCAA
1 AGGCCCAA
47935836 ATGCTTCCCA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 53 0.98
29 1 0.02
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.23
Consensus pattern (28 bp):
AGGCCCAATCTCATTCATATGGCCCATC
Found at i:47939718 original size:19 final size:20
Alignment explanation
Indices: 47939668--47939730 Score: 85
Period size: 19 Copynumber: 3.1 Consensus size: 20
47939658 ACTATTTTTA
47939668 TTAAAAA-TTAATTTTAATCC
1 TTAAAAAGTTAATTTTAAT-C
47939688 TTCAAAAAGTTAATTTTAA-C
1 TT-AAAAAGTTAATTTTAATC
*
47939708 TTAAAAGGTTAATTTTAATC
1 TTAAAAAGTTAATTTTAATC
47939728 TTA
1 TTA
47939731 CAGCTAGAGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 15 0.38
20 9 0.23
21 5 0.13
22 10 0.26
ACGTcount: A:0.43, C:0.08, G:0.05, T:0.44
Consensus pattern (20 bp):
TTAAAAAGTTAATTTTAATC
Found at i:47940056 original size:21 final size:22
Alignment explanation
Indices: 47940030--47940070 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
47940020 ATTATTTTTA
47940030 TTAAAAA-TTAATTTTAATCTC
1 TTAAAAAGTTAATTTTAATCTC
47940051 TTAAAAAGTTAATTTTAATC
1 TTAAAAAGTTAATTTTAATC
47940071 CCAGATTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (22 bp):
TTAAAAAGTTAATTTTAATCTC
Found at i:47942002 original size:10 final size:11
Alignment explanation
Indices: 47941981--47942031 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 11
47941971 AAAATGATAG
47941981 GAAATTATTTAA
1 GAAATTA-TTAA
47941993 -AAATTATTAA
1 GAAATTATTAA
*
47942003 -ACATTA-TAA
1 GAAATTATTAA
47942012 GAAATTA-TAA
1 GAAATTATTAA
47942022 GAAATTATTA
1 GAAATTATTA
47942032 TTTTTTTAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 3 0.09
10 24 0.69
11 8 0.23
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (11 bp):
GAAATTATTAA
Found at i:47942016 original size:31 final size:30
Alignment explanation
Indices: 47941958--47942031 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
47941948 GAGTAGTTTC
*
47941958 TTAAATAATTA-TAAAAATGATAGGAAATTA
1 TTAAA-AATTATTAAAAATGATAAGAAATTA
* *
47941988 TTTAAAAATTATTAAACATTATAAGAAATTA
1 -TTAAAAATTATTAAAAATGATAAGAAATTA
47942019 -TAAGAAATTATTA
1 TTAA-AAATTATTA
47942032 TTTTTTTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 3 0.08
30 14 0.37
31 21 0.55
ACGTcount: A:0.55, C:0.01, G:0.07, T:0.36
Consensus pattern (30 bp):
TTAAAAATTATTAAAAATGATAAGAAATTA
Found at i:47942776 original size:40 final size:40
Alignment explanation
Indices: 47942694--47942950 Score: 318
Period size: 40 Copynumber: 6.4 Consensus size: 40
47942684 TGTTTAATAA
* * *
47942694 AAACGCC-GTAAAAACTGAACAATAGCGGCATTTTTGGCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
*
47942733 AAAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCA
1 -AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
* *
47942774 AAACGCCAGTAAAAACTGATCAATAGTGGCGTTTTTGGCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
* * *
47942814 AAACGCCACTAAAAACTGATCAATAACGGTGTTTTTGTCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
* * *
47942854 AAACGCCACTAAAAACTGATCAATAACGGCATTTTTTGCCC
1 AAACGCCACTAAAAACTGATCAATAGCGGC-GTTTTTGGCC
* * * * **
47942895 AAGCGCCACTAAAAACTAATTAATAGCGGCATTTTTCTTCC
1 AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTT-GGCC
47942936 AAACGCCACTAAAAA
1 AAACGCCACTAAAAA
47942951 ATTGTAACGC
Statistics
Matches: 191, Mismatches: 23, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
40 113 0.59
41 78 0.41
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.24
Consensus pattern (40 bp):
AAACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCC
Found at i:47942961 original size:19 final size:19
Alignment explanation
Indices: 47942937--47942974 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
47942927 TTTTCTTCCA
47942937 AACGCCACTAAAAAATTGT
1 AACGCCACTAAAAAATTGT
*
47942956 AACGCCACTAAAAACTTGT
1 AACGCCACTAAAAAATTGT
47942975 GAATAGCGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.21
Consensus pattern (19 bp):
AACGCCACTAAAAAATTGT
Found at i:47943011 original size:40 final size:41
Alignment explanation
Indices: 47942956--47943122 Score: 234
Period size: 40 Copynumber: 4.1 Consensus size: 41
47942946 AAAAAATTGT
* *
47942956 AACGCCACTAAAAACTTGTGAATAGCGGCGTTTTTGGT-CA
1 AACGCCACTAAAAACTTATCAATAGCGGCGTTTTTGGTCCA
*
47942996 AACGCCACTAAAAACTTATCAATAGCGGCGTTTTT-ATCCCA
1 AACGCCACTAAAAACTTATCAATAGCGGCGTTTTTGGT-CCA
* *
47943037 AATGCCACTAAAAA-TGATCAATAGCGGCGTTTTTGGTCCA
1 AACGCCACTAAAAACTTATCAATAGCGGCGTTTTTGGTCCA
* *
47943077 AACGCCACT-AAAACTCATCAATAGCGGTGTTTTTGGTCCA
1 AACGCCACTAAAAACTTATCAATAGCGGCGTTTTTGGTCCA
47943117 AACGCC
1 AACGCC
47943123 GCAAAATGTT
Statistics
Matches: 114, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
39 5 0.04
40 93 0.82
41 16 0.14
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (41 bp):
AACGCCACTAAAAACTTATCAATAGCGGCGTTTTTGGTCCA
Found at i:47943030 original size:100 final size:101
Alignment explanation
Indices: 47942855--47943050 Score: 261
Period size: 100 Copynumber: 2.0 Consensus size: 101
47942845 TTTTTGTCCA
* * *
47942855 AACGCCACTAAAAACTGATCAATAACGGCATTTTTTGCCCAAGCGCCACTAAAAACTAATTAATA
1 AACGCCACTAAAAACTGATCAATAACGGCAGTTTTTGCCCAAACGCCACTAAAAACTAATCAATA
* *
47942920 GCGGCATTTTTCTTCCAAACGCCACTAAAAAATTGT
66 GCGGCATTTTTATCCCAAACGCCACTAAAAAATTGT
* * ** *
47942956 AACGCCACTAAAAACTTG-TGAATAGCGGC-GTTTTTGGTCAAACGCCACTAAAAACTTATCAAT
1 AACGCCACTAAAAAC-TGATCAATAACGGCAGTTTTTGCCCAAACGCCACTAAAAACTAATCAAT
* *
47943019 AGCGGCGTTTTTATCCCAAATGCCACTAAAAA
65 AGCGGCATTTTTATCCCAAACGCCACTAAAAA
47943051 TGATCAATAG
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
100 56 0.68
101 24 0.29
102 2 0.02
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.26
Consensus pattern (101 bp):
AACGCCACTAAAAACTGATCAATAACGGCAGTTTTTGCCCAAACGCCACTAAAAACTAATCAATA
GCGGCATTTTTATCCCAAACGCCACTAAAAAATTGT
Found at i:47943085 original size:181 final size:180
Alignment explanation
Indices: 47942775--47943122 Score: 475
Period size: 181 Copynumber: 1.9 Consensus size: 180
47942765 TTTTTGGCAA
* *
47942775 AACGCCAGTAAAAACTGATCAATAGTGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATAA
1 AACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATAA
* * * *
47942840 CGGTGTTTTTGTCCAAACGCCACTAAAAACTGATCAATAACGGCATTTTTTGCCCAAGCGCCACT
66 CGGCGTTTTTATCCAAACGCCACTAAAAACTGATCAATAACGGCATTTTTGGCCCAAACGCCACT
* *
47942905 AAAAACTAATTAATAGCGGCATTTTTCTTCCAAACGCCACTAAAAAATTGT
131 -AAAACTAATCAATAGCGGCATTTTTCGTCCAAACGCCACTAAAAAATTGT
* * *
47942956 AACGCCACTAAAAACTTG-TGAATAGCGGCGTTTTTGGTCAAACGCCACTAAAAACTTATCAATA
1 AACGCCACTAAAAAC-TGATCAATAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATA
* * * * *
47943020 GCGGCGTTTTTATCCCAAATGCCACTAAAAA-TGATCAATAGCGGCGTTTTTGGTCCAAACGCCA
65 ACGGCGTTTTTAT-CCAAACGCCACTAAAAACTGATCAATAACGGCATTTTTGGCCCAAACGCCA
* ** *
47943084 CTAAAACTCATCAATAGCGGTGTTTTTGGTCCAAACGCC
129 CTAAAACTAATCAATAGCGGCATTTTTCGTCCAAACGCC
47943123 GCAAAATGTT
Statistics
Matches: 145, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
180 31 0.21
181 96 0.66
182 18 0.12
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (180 bp):
AACGCCACTAAAAACTGATCAATAGCGGCGTTTTTGGCCAAACGCCACTAAAAACTGATCAATAA
CGGCGTTTTTATCCAAACGCCACTAAAAACTGATCAATAACGGCATTTTTGGCCCAAACGCCACT
AAAACTAATCAATAGCGGCATTTTTCGTCCAAACGCCACTAAAAAATTGT
Found at i:47943450 original size:21 final size:21
Alignment explanation
Indices: 47943426--47943492 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
47943416 CCTTAAATCT
*
47943426 TAAACATTAAACCCTAAACCC
1 TAAACATTAAACCATAAACCC
** * *
47943447 TAAATTTTAAAACATAAACCA
1 TAAACATTAAACCATAAACCC
* * *
47943468 TAAACACTAATCCATAAACTC
1 TAAACATTAAACCATAAACCC
47943489 TAAA
1 TAAA
47943493 ACCCTAAACC
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACATTAAACCATAAACCC
Found at i:47943456 original size:28 final size:28
Alignment explanation
Indices: 47943411--47943477 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
47943401 TGGATTTCTG
*
47943411 TAAACCCTTAAATCTT-AAACATTAAACCC
1 TAAACCC-TAAATCTTAAAACA-TAAACCA
*
47943440 TAAACCCTAAATTTTAAAACATAAACCA
1 TAAACCCTAAATCTTAAAACATAAACCA
*
47943468 TAAACACTAA
1 TAAACCCTAA
47943478 TCCATAAACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 22 0.65
29 12 0.35
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (28 bp):
TAAACCCTAAATCTTAAAACATAAACCA
Found at i:47943698 original size:38 final size:41
Alignment explanation
Indices: 47943650--47943736 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 41
47943640 GTTTAAGGCC
*
47943650 TATGGTTTA-G-GGTTCAATGGTA-GAATATATTTTAAGTT
1 TATGGTTTAGGCGGTTCAATGGTACGAATATATGTTAAGTT
*
47943688 TATGGTTTAGGCCGGTTCAATGGTATCGTATATATGTTAAGTT
1 TATGGTTTAGG-CGGTTCAATGGTA-CGAATATATGTTAAGTT
47943731 TATGGT
1 TATGGT
47943737 ATGGGCCGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
38 9 0.21
39 1 0.02
41 12 0.29
43 20 0.48
ACGTcount: A:0.25, C:0.06, G:0.25, T:0.44
Consensus pattern (41 bp):
TATGGTTTAGGCGGTTCAATGGTACGAATATATGTTAAGTT
Found at i:47943711 original size:41 final size:42
Alignment explanation
Indices: 47943660--47943745 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 42
47943650 TATGGTTTAG
* *
47943660 GGTTCAATGGTA-GAATATATTTTAAGTTTATGGTTTAGGCC
1 GGTTCAATGGTACGAATATATGTTAAGTTTATGGTATAGGCC
* *
47943701 GGTTCAATGGTATCGTATATATGTTAAGTTTATGGTATGGGCC
1 GGTTCAATGGTA-CGAATATATGTTAAGTTTATGGTATAGGCC
47943744 GG
1 GG
47943746 GTTTGTTATC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 12 0.31
43 27 0.69
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (42 bp):
GGTTCAATGGTACGAATATATGTTAAGTTTATGGTATAGGCC
Found at i:47944871 original size:40 final size:41
Alignment explanation
Indices: 47944816--47944916 Score: 125
Period size: 40 Copynumber: 2.5 Consensus size: 41
47944806 CTGCAGAGGC
* *
47944816 ATTAGCGGCGTTTTTGTAAAAAT-GCCGCTAAAAATAGAGA
1 ATTAGCGGCGCTTTTGTAAAAATCGCCGCAAAAAATAGAGA
* * *
47944856 ATTAGTGGCGCTTTTGT-AAAATCGCTGCAAAAAATTGAGA
1 ATTAGCGGCGCTTTTGTAAAAATCGCCGCAAAAAATAGAGA
* *
47944896 TTTAGCGACGCTTTTGTAAAA
1 ATTAGCGGCGCTTTTGTAAAA
47944917 CGCCACTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
39 5 0.10
40 43 0.84
41 3 0.06
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.31
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTGTAAAAATCGCCGCAAAAAATAGAGA
Found at i:47947345 original size:161 final size:161
Alignment explanation
Indices: 47947080--47947404 Score: 650
Period size: 161 Copynumber: 2.0 Consensus size: 161
47947070 AATGGTAGGA
47947080 GATTTTAGTATAATTATAATATAATTTTTTTTGTGAGACTGCAAAACATCTCCGCTTACCAACAA
1 GATTTTAGTATAATTATAATATAATTTTTTTTGTGAGACTGCAAAACATCTCCGCTTACCAACAA
47947145 GTTTTAAATTGTGGAAACCTGGCTTACCAAAGAAGTAGGAGATGGATAAAAAGAAATGAAAGTTA
66 GTTTTAAATTGTGGAAACCTGGCTTACCAAAGAAGTAGGAGATGGATAAAAAGAAATGAAAGTTA
47947210 TAGAAATAGAAAGGGGCGAAATGGATTGGAT
131 TAGAAATAGAAAGGGGCGAAATGGATTGGAT
47947241 GATTTTAGTATAATTATAATATAATTTTTTTTGTGAGACTGCAAAACATCTCCGCTTACCAACAA
1 GATTTTAGTATAATTATAATATAATTTTTTTTGTGAGACTGCAAAACATCTCCGCTTACCAACAA
47947306 GTTTTAAATTGTGGAAACCTGGCTTACCAAAGAAGTAGGAGATGGATAAAAAGAAATGAAAGTTA
66 GTTTTAAATTGTGGAAACCTGGCTTACCAAAGAAGTAGGAGATGGATAAAAAGAAATGAAAGTTA
47947371 TAGAAATAGAAAGGGGCGAAATGGATTGGAT
131 TAGAAATAGAAAGGGGCGAAATGGATTGGAT
47947402 GAT
1 GAT
47947405 GCGCATTTGA
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
161 164 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (161 bp):
GATTTTAGTATAATTATAATATAATTTTTTTTGTGAGACTGCAAAACATCTCCGCTTACCAACAA
GTTTTAAATTGTGGAAACCTGGCTTACCAAAGAAGTAGGAGATGGATAAAAAGAAATGAAAGTTA
TAGAAATAGAAAGGGGCGAAATGGATTGGAT
Found at i:47948892 original size:16 final size:16
Alignment explanation
Indices: 47948862--47948926 Score: 68
Period size: 16 Copynumber: 4.4 Consensus size: 16
47948852 TTTATCCTTA
*
47948862 GATTATTTTT-CATGT
1 GATTTTTTTTCCATGT
*
47948877 GATTTTTTTTCTATGT
1 GATTTTTTTTCCATGT
47948893 GA----TTTTCCATGT
1 GATTTTTTTTCCATGT
*
47948905 GATTTTTTTCCCATGT
1 GATTTTTTTTCCATGT
47948921 GATTTT
1 GATTTT
47948927 CCATAATCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
12 11 0.27
15 9 0.22
16 21 0.51
ACGTcount: A:0.15, C:0.11, G:0.14, T:0.60
Consensus pattern (16 bp):
GATTTTTTTTCCATGT
Found at i:47948906 original size:28 final size:28
Alignment explanation
Indices: 47948866--47948930 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
47948856 TCCTTAGATT
* * *
47948866 ATTTTTCATGTGATTTTTTTTCTATGTG
1 ATTTTCCATGTGATTTTTTTCCCATGTG
47948894 ATTTTCCATGTGATTTTTTTCCCATGTG
1 ATTTTCCATGTGATTTTTTTCCCATGTG
47948922 ATTTTCCAT
1 ATTTTCCAT
47948931 AATCTCAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.15, C:0.14, G:0.12, T:0.58
Consensus pattern (28 bp):
ATTTTCCATGTGATTTTTTTCCCATGTG
Found at i:47949209 original size:9 final size:9
Alignment explanation
Indices: 47949146--47949237 Score: 55
Period size: 9 Copynumber: 10.0 Consensus size: 9
47949136 ATATCATATC
47949146 TTACATAAT
1 TTACATAAT
*
47949155 TTACATAAC
1 TTACATAAT
47949164 TTACAT--T
1 TTACATAAT
*
47949171 ATACATAAAT
1 TTACAT-AAT
47949181 ATATATCAT-AT
1 -T-TA-CATAAT
47949192 CTTACATAAT
1 -TTACATAAT
47949202 TTACATAAT
1 TTACATAAT
*** *
47949211 TCGGATAAC
1 TTACATAAT
*
47949220 TTACATAAC
1 TTACATAAT
47949229 TTACATAAT
1 TTACATAAT
47949238 ACATAAATAT
Statistics
Matches: 63, Mismatches: 13, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
7 5 0.08
9 45 0.71
10 5 0.08
11 3 0.05
12 2 0.03
13 3 0.05
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
TTACATAAT
Found at i:47954334 original size:13 final size:14
Alignment explanation
Indices: 47954318--47954346 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47954308 TTATAAATAT
47954318 TTATAATG-TTTAA
1 TTATAATGATTTAA
47954331 TTATAATGATTTAA
1 TTATAATGATTTAA
47954345 TT
1 TT
47954347 TGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (14 bp):
TTATAATGATTTAA
Found at i:47955689 original size:191 final size:191
Alignment explanation
Indices: 47955365--47955739 Score: 750
Period size: 191 Copynumber: 2.0 Consensus size: 191
47955355 AGTGATTGCT
47955365 ATTTTGTTGCTCTGTTAGTCATGTTATCACTTAAAAGTAGAAATAGATAGATTTCTTTTATAGAA
1 ATTTTGTTGCTCTGTTAGTCATGTTATCACTTAAAAGTAGAAATAGATAGATTTCTTTTATAGAA
47955430 TGACTAGTTTAATATTTAATCTAAACTATATGAACTAATTTGCCCATTTTTTCAGTTGATGGGAC
66 TGACTAGTTTAATATTTAATCTAAACTATATGAACTAATTTGCCCATTTTTTCAGTTGATGGGAC
47955495 AAACTACAACCGACTCTTAGTATAGGGGCCTCCATGGTACTTTGACATAATCCTCCATGGC
131 AAACTACAACCGACTCTTAGTATAGGGGCCTCCATGGTACTTTGACATAATCCTCCATGGC
47955556 ATTTTGTTGCTCTGTTAGTCATGTTATCACTTAAAAGTAGAAATAGATAGATTTCTTTTATAGAA
1 ATTTTGTTGCTCTGTTAGTCATGTTATCACTTAAAAGTAGAAATAGATAGATTTCTTTTATAGAA
47955621 TGACTAGTTTAATATTTAATCTAAACTATATGAACTAATTTGCCCATTTTTTCAGTTGATGGGAC
66 TGACTAGTTTAATATTTAATCTAAACTATATGAACTAATTTGCCCATTTTTTCAGTTGATGGGAC
47955686 AAACTACAACCGACTCTTAGTATAGGGGCCTCCATGGTACTTTGACATAATCCT
131 AAACTACAACCGACTCTTAGTATAGGGGCCTCCATGGTACTTTGACATAATCCT
47955740 ACTTATCCTT
Statistics
Matches: 184, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
191 184 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (191 bp):
ATTTTGTTGCTCTGTTAGTCATGTTATCACTTAAAAGTAGAAATAGATAGATTTCTTTTATAGAA
TGACTAGTTTAATATTTAATCTAAACTATATGAACTAATTTGCCCATTTTTTCAGTTGATGGGAC
AAACTACAACCGACTCTTAGTATAGGGGCCTCCATGGTACTTTGACATAATCCTCCATGGC
Found at i:47961183 original size:27 final size:27
Alignment explanation
Indices: 47961145--47961227 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
47961135 AAGCGTCCAA
*
47961145 GTGGCTATGCCACATTTATCTGATCTG
1 GTGGCTATGCCACATTTATCTGTTCTG
* *
47961172 GTGGCTATGCCACATATATCTGTTATG
1 GTGGCTATGCCACATTTATCTGTTCTG
* *
47961199 GTGGCTCTGCCACAATTATCTGTTCTG
1 GTGGCTATGCCACATTTATCTGTTCTG
47961226 GT
1 GT
47961228 AGCCATACTG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (27 bp):
GTGGCTATGCCACATTTATCTGTTCTG
Found at i:47970343 original size:12 final size:12
Alignment explanation
Indices: 47970326--47970397 Score: 75
Period size: 12 Copynumber: 6.2 Consensus size: 12
47970316 CCAATCTTTC
47970326 TTTTTATTTTTA
1 TTTTTATTTTTA
47970338 TTTTTATTTTTA
1 TTTTTATTTTTA
47970350 --TTTATTTTT-
1 TTTTTATTTTTA
47970359 TCTTTTATTATTTA
1 T-TTTTATT-TTTA
47970373 TTATTT-TTTTTA
1 TT-TTTATTTTTA
47970385 -TTTTA-TTTTA
1 TTTTTATTTTTA
47970395 TTT
1 TTT
47970398 AAATATTAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
10 17 0.33
11 3 0.06
12 22 0.42
13 6 0.12
14 4 0.08
ACGTcount: A:0.17, C:0.01, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:47970353 original size:22 final size:21
Alignment explanation
Indices: 47970328--47970398 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 21
47970318 AATCTTTCTT
47970328 TTTATTTTTATTTTTATTTTTA
1 TTTATTTTT-TTTTTATTTTTA
47970350 TTTATTTTTTCTTTTATTATTTA
1 TTTATTTTTT-TTTTATT-TTTA
*
47970373 -TTATTTTTTTTATTTTATTTTA
1 TTTATTTTTTTT-TTAT-TTTTA
47970395 TTTA
1 TTTA
47970399 AATATTAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
21 3 0.07
22 32 0.74
23 8 0.19
ACGTcount: A:0.18, C:0.01, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTATTTTTTTTTTATTTTTA
Found at i:47970355 original size:16 final size:16
Alignment explanation
Indices: 47970334--47970398 Score: 77
Period size: 16 Copynumber: 4.2 Consensus size: 16
47970324 TCTTTTTATT
47970334 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
47970350 TTTATTTTT-TCTTTTA
1 TTTATTTTTAT-TTTTA
47970366 -TTATTTATTATTTTT-
1 TTTATTT-TTATTTTTA
47970381 TTTA-TTTTA-TTTTA
1 TTTATTTTTATTTTTA
47970395 TTTA
1 TTTA
47970399 AATATTAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.09
14 7 0.16
15 9 0.20
16 23 0.52
17 1 0.02
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:47970373 original size:35 final size:36
Alignment explanation
Indices: 47970322--47970393 Score: 105
Period size: 35 Copynumber: 2.0 Consensus size: 36
47970312 CAACCCAATC
47970322 TTTCTTTTTATTTTTATT-TTTATTTTTA-TTTATTT
1 TTTCTTTTTATTTTTATTATTT-TTTTTATTTTATTT
47970357 TTTC-TTTTATTATTTATTATTTTTTTTATTTTATTT
1 TTTCTTTTTATT-TTTATTATTTTTTTTATTTTATTT
47970393 T
1 T
47970394 ATTTAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
34 7 0.21
35 16 0.47
36 11 0.32
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (36 bp):
TTTCTTTTTATTTTTATTATTTTTTTTATTTTATTT
Found at i:47970598 original size:40 final size:41
Alignment explanation
Indices: 47970501--47970602 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 41
47970491 ATCCATGGTA
*
47970501 CCAAACAGTTCTATTCCAACCCAAAATGCATATCCCTGCTG
1 CCAAACAGTTCTATTCCAGCCCAAAATGCATATCCCTGCTG
*
47970542 CCAAACAGTTCTATTCCAGCCCAGAATGCTATAT-CCTG-TAG
1 CCAAACAGTTCTATTCCAGCCCAAAATGC-ATATCCCTGCT-G
*
47970583 -CAAACAGTCCTATTCCAGCC
1 CCAAACAGTTCTATTCCAGCC
47970603 TTAGAATCCC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
40 20 0.36
41 32 0.57
42 4 0.07
ACGTcount: A:0.30, C:0.33, G:0.12, T:0.25
Consensus pattern (41 bp):
CCAAACAGTTCTATTCCAGCCCAAAATGCATATCCCTGCTG
Found at i:47971590 original size:117 final size:116
Alignment explanation
Indices: 47971385--47971595 Score: 377
Period size: 117 Copynumber: 1.8 Consensus size: 116
47971375 TGTTTTCCAT
* *
47971385 GGTTATGAGTACAGCTTAGATCGTGACTGACTGAGTAACCGGGTAGGGTGCTTGGGTTGTCATTC
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGTAGGGTGCTTGGGTTGTCATTC
47971450 TACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCGCTAGCCGA
66 TACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCGCTAGCCGA
**
47971501 GGTTATGAGTATGGCTCAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACC-GGGTAGGGTGCTTGGGTTGTCATT
47971566 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
65 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
47971596 TTGGGTAAAA
Statistics
Matches: 90, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
116 36 0.40
117 54 0.60
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (116 bp):
GGTTATGAGTACAGCTCAAATCGTGACTGACTGAGTAACCGGGTAGGGTGCTTGGGTTGTCATTC
TACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCGCTAGCCGA
Found at i:47974915 original size:23 final size:21
Alignment explanation
Indices: 47974889--47974930 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
47974879 CCGAATTCTC
47974889 TCATCTTCTTCTCTTTCTTTCGG
1 TCATC-TCTTCTCTTT-TTTCGG
*
47974912 TCATCTGTTCTCTTTTTTC
1 TCATCTCTTCTCTTTTTTC
47974931 TTCCCATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.05, C:0.29, G:0.07, T:0.60
Consensus pattern (21 bp):
TCATCTCTTCTCTTTTTTCGG
Found at i:47976138 original size:27 final size:27
Alignment explanation
Indices: 47976100--47976209 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 27
47976090 GAAGCGTCTA
*
47976100 GGTGGCTATGCCACATTTATCTGATCT
1 GGTGGCTATGCCACATTTATCTGTTCT
*
47976127 GGTGGCTATGCCACATATATCTGTTCT
1 GGTGGCTATGCCACATTTATCTGTTCT
* *
47976154 GGTGGCTCTGCCACAATTATCTGTTCT
1 GGTGGCTATGCCACATTTATCTGTTCT
* * * *
47976181 GGTGACTTTGTCACA-TCATCTGTTCT
1 GGTGGCTATGCCACATTTATCTGTTCT
47976207 GGT
1 GGT
47976210 AGCCATGCTG
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 13 0.18
27 61 0.82
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
GGTGGCTATGCCACATTTATCTGTTCT
Found at i:47990200 original size:16 final size:18
Alignment explanation
Indices: 47990171--47990204 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
47990161 ATTATTTGAT
47990171 AATTATCTTAATTTATAA
1 AATTATCTTAATTTATAA
47990189 AATTAT-TT-ATTTATAA
1 AATTATCTTAATTTATAA
47990205 TAAAAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
AATTATCTTAATTTATAA
Found at i:47994613 original size:21 final size:21
Alignment explanation
Indices: 47994577--47994633 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
47994567 AGAGGAGTGT
* *
47994577 GTTCTACCGATAGAAGTTCGA
1 GTTCTATCGGTAGAAGTTCGA
* **
47994598 GTTGTATCGGTAGAAGTTCTT
1 GTTCTATCGGTAGAAGTTCGA
47994619 GTTCTATCGGTAGAA
1 GTTCTATCGGTAGAA
47994634 TTCTGTAACC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (21 bp):
GTTCTATCGGTAGAAGTTCGA
Found at i:47995317 original size:26 final size:27
Alignment explanation
Indices: 47995297--47995350 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
47995287 TAGTACATTT
*
47995297 AAAATA-AAAGCAT-CCAAAGTAAATG
1 AAAATAGAAAACATCCCAAAGTAAATG
*
47995322 AAAATAGAAAACATCCCAAAGTAACTG
1 AAAATAGAAAACATCCCAAAGTAAATG
47995349 AA
1 AA
47995351 TATGCAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 6 0.24
26 6 0.24
27 13 0.52
ACGTcount: A:0.59, C:0.15, G:0.11, T:0.15
Consensus pattern (27 bp):
AAAATAGAAAACATCCCAAAGTAAATG
Found at i:48005272 original size:43 final size:44
Alignment explanation
Indices: 48005214--48005298 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 44
48005204 GAAAAAGGTA
48005214 AAAATAAATAAATAGATAACATATGTAAAATCATATAATACCGT
1 AAAATAAATAAATAGATAACATATGTAAAATCATATAATACCGT
48005258 AAAA-AAATAAATAGATAACATATGTAAAATCATATAATACC
1 AAAATAAATAAATAGATAACATATGTAAAATCATATAATACC
48005299 ATGTTCAAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 37 0.90
44 4 0.10
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (44 bp):
AAAATAAATAAATAGATAACATATGTAAAATCATATAATACCGT
Found at i:48013944 original size:28 final size:29
Alignment explanation
Indices: 48013875--48013973 Score: 148
Period size: 29 Copynumber: 3.4 Consensus size: 29
48013865 TGTGTGTACC
48013875 ATGTGAAAAGGGATAGCTTT-GGCTATCGA
1 ATGTGAAAAGGGATAG-TTTCGGCTATCGA
* *
48013904 ATGTGAAAAGGGATAGTTTCAGCTATTG-
1 ATGTGAAAAGGGATAGTTTCGGCTATCGA
*
48013932 ATGTGAAAAGGGATAGCTTCGGCTATCGA
1 ATGTGAAAAGGGATAGTTTCGGCTATCGA
48013961 ATGTGAAAAGGGA
1 ATGTGAAAAGGGA
48013974 AGGTATACTT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
28 28 0.44
29 35 0.56
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.26
Consensus pattern (29 bp):
ATGTGAAAAGGGATAGTTTCGGCTATCGA
Found at i:48014018 original size:34 final size:34
Alignment explanation
Indices: 48013965--48014077 Score: 115
Period size: 33 Copynumber: 3.4 Consensus size: 34
48013955 TATCGAATGT
* *
48013965 GAAAAGGGAAGGTATACTTTGTGTATACCACATG
1 GAAAAGGAAAGGTAAACTTTGTGTATACCACATG
** ** * *
48013999 GAAAAGGCTATTTAAACTTTGTGTGTA-CACTTG
1 GAAAAGGAAAGGTAAACTTTGTGTATACCACATG
* *
48014032 G-AAAGGAAAGGTATACTTTGTGTATACCATAT-
1 GAAAAGGAAAGGTAAACTTTGTGTATACCACATG
48014064 GAAAAGGAAAGGTA
1 GAAAAGGAAAGGTA
48014078 CACTATATGT
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
32 20 0.32
33 21 0.34
34 21 0.34
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (34 bp):
GAAAAGGAAAGGTAAACTTTGTGTATACCACATG
Found at i:48014074 original size:33 final size:33
Alignment explanation
Indices: 48013964--48014077 Score: 115
Period size: 32 Copynumber: 3.5 Consensus size: 33
48013954 CTATCGAATG
* *
48013964 TGAAAAGGGAAGGTATACTTTGTGTATACCACA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
** ** * *
48013997 TGGAAAAGGCTATTTAAACTTTGTGTGTA-CACT-
1 T-GAAAAGGAAAGGTATACTTTGTGTATACCA-TA
*
48014030 TGGAAAGGAAAGGTATACTTTGTGTATACCATA
1 TGAAAAGGAAAGGTATACTTTGTGTATACCATA
48014063 TGAAAAGGAAAGGTA
1 TGAAAAGGAAAGGTA
48014078 CACTATATGT
Statistics
Matches: 62, Mismatches: 15, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
32 21 0.34
33 20 0.32
34 21 0.34
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.29
Consensus pattern (33 bp):
TGAAAAGGAAAGGTATACTTTGTGTATACCATA
Found at i:48014135 original size:33 final size:32
Alignment explanation
Indices: 48014085--48014198 Score: 120
Period size: 33 Copynumber: 3.5 Consensus size: 32
48014075 GTACACTATA
* * *
48014085 TGTGTACACTTGAAAAGGTTATGTGCACTTTG
1 TGTGTACACTTGAAAAGGGTATGTACACTTCG
*
48014117 TGTGTACAACTTGCAAAGGGTATGTACACTTCG
1 TGTGTAC-ACTTGAAAAGGGTATGTACACTTCG
** *
48014150 TGTGTACCACTTGAAAAGGAAATGTACACCTCG
1 TGTGTA-CACTTGAAAAGGGTATGTACACTTCG
* *
48014183 AGTGTACTACTGGAAA
1 TGTGTAC-ACTTGAAA
48014199 CGGAAATATC
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
32 8 0.12
33 60 0.87
34 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.30
Consensus pattern (32 bp):
TGTGTACACTTGAAAAGGGTATGTACACTTCG
Found at i:48014188 original size:98 final size:98
Alignment explanation
Indices: 48014014--48014198 Score: 223
Period size: 98 Copynumber: 1.9 Consensus size: 98
48014004 GGCTATTTAA
* * *
48014014 ACTTTGTGTGTACACTTGGAAAGGAAAGGTATACTTTGTGTATACCATATGAAAAGGAAAGGTAC
1 ACTTTGTGTGTACACTTGCAAAGGAAAGGTACACTTCGTGTATACCATATGAAAAGGAAAGGTAC
* *
48014079 ACTATATGTGTAC-ACTTGAAAAGGTTATGTGC
66 ACTAGATGTGTACTACTGGAAAAGGTTATGTGC
** * * *
48014111 ACTTTGTGTGTACAACTTGCAAAGGGTATGTACACTTCGTGTGTACCACT-TGAAAAGGAAATGT
1 ACTTTGTGTGTAC-ACTTGCAAAGGAAAGGTACACTTCGTGTATACCA-TATGAAAAGGAAAGGT
*
48014175 ACACCTCGA-GTGTACTACTGGAAA
64 ACA-CTAGATGTGTACTACTGGAAA
48014199 CGGAAATATC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
97 13 0.18
98 49 0.67
99 11 0.15
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (98 bp):
ACTTTGTGTGTACACTTGCAAAGGAAAGGTACACTTCGTGTATACCATATGAAAAGGAAAGGTAC
ACTAGATGTGTACTACTGGAAAAGGTTATGTGC
Found at i:48014204 original size:33 final size:33
Alignment explanation
Indices: 48014138--48014205 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
48014128 TGCAAAGGGT
* * *
48014138 ATGTACACTTCGTGTGTACCACTTGAAAAGGAA
1 ATGTACACCTCGAGTGTACCACTGGAAAAGGAA
* *
48014171 ATGTACACCTCGAGTGTACTACTGGAAACGGAA
1 ATGTACACCTCGAGTGTACCACTGGAAAAGGAA
48014204 AT
1 AT
48014206 ATCCATCGAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (33 bp):
ATGTACACCTCGAGTGTACCACTGGAAAAGGAA
Found at i:48015943 original size:40 final size:40
Alignment explanation
Indices: 48015866--48016083 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
48015856 AAACCAAGTA
* * *
48015866 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
48015905 CCTTCGAGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48015945 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48015985 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
48016025 CCTTCGGGGCTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
48016065 CCTCCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48016084 TTATCATCCG
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 14 0.09
40 148 0.91
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48035242 original size:10 final size:10
Alignment explanation
Indices: 48035213--48035260 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
48035203 TAAAAATAGT
48035213 TTAATTAAAGAA
1 TTAATT-AAG-A
* *
48035225 TAAATTAAGG
1 TTAATTAAGA
48035235 TTAATTAAGA
1 TTAATTAAGA
48035245 TTAATTAAGTA
1 TTAATTAAG-A
48035256 TTAAT
1 TTAAT
48035261 ATTAGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
10 17 0.55
11 9 0.29
12 5 0.16
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (10 bp):
TTAATTAAGA
Found at i:48038331 original size:25 final size:25
Alignment explanation
Indices: 48038291--48038388 Score: 110
Period size: 25 Copynumber: 3.9 Consensus size: 25
48038281 TCTCACCCCA
* *
48038291 ATTTTACCCC-AGTAAAAATTTGATG
1 ATTTTACCCCGA-TAAAATTTTGACG
*
48038316 GTTTTACCCCGATAAAATTTTGACG
1 ATTTTACCCCGATAAAATTTTGACG
* *
48038341 ATTTTAACCCGATAAAATTTTGACT
1 ATTTTACCCCGATAAAATTTTGACG
*
48038366 ATTTTA-CCCTAGTAAAATTTTGA
1 ATTTTACCCCGA-TAAAATTTTGA
48038389 GAAAATTCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
24 4 0.06
25 59 0.92
26 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (25 bp):
ATTTTACCCCGATAAAATTTTGACG
Found at i:48040864 original size:27 final size:27
Alignment explanation
Indices: 48040834--48040923 Score: 96
Period size: 27 Copynumber: 3.3 Consensus size: 27
48040824 CAAAAAAAAT
48040834 CTTTGTGGCCAACCATAAAAGGAAAGC
1 CTTTGTGGCCAACCATAAAAGGAAAGC
*
48040861 CTTTGTGG-CAGACCATGAAAA-GAAAGT
1 CTTTGTGGCCA-ACCAT-AAAAGGAAAGC
** *
48040888 CTTTGTGGTGAACCAT-GAAGTGAAAGC
1 CTTTGTGGCCAACCATAAAAG-GAAAGC
48040915 CTTTGTGGC
1 CTTTGTGGC
48040924 AAAAAAACAA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
25 2 0.04
26 2 0.04
27 44 0.83
28 5 0.09
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (27 bp):
CTTTGTGGCCAACCATAAAAGGAAAGC
Found at i:48041044 original size:27 final size:27
Alignment explanation
Indices: 48040992--48041048 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
48040982 AAGTCTAAAA
* *
48040992 GAATGGTATTCATGAAAAACTCTGAAG
1 GAATGGTATGCATGAAAAACTATGAAG
*
48041019 GAATGGTATGCATGGTAAAA-TATGAAG
1 GAATGGTATGCAT-GAAAAACTATGAAG
48041046 GAA
1 GAA
48041049 ATGCCCTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.42, C:0.07, G:0.26, T:0.25
Consensus pattern (27 bp):
GAATGGTATGCATGAAAAACTATGAAG
Found at i:48056560 original size:8 final size:8
Alignment explanation
Indices: 48056547--48056593 Score: 78
Period size: 8 Copynumber: 6.0 Consensus size: 8
48056537 CTAAAAAATC
48056547 TTTTATTT
1 TTTTATTT
48056555 TTTTA-TT
1 TTTTATTT
48056562 TTTTATTT
1 TTTTATTT
*
48056570 TTCTATTT
1 TTTTATTT
48056578 TTTTATTT
1 TTTTATTT
48056586 TTTTATTT
1 TTTTATTT
48056594 CTTATAAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
7 7 0.19
8 29 0.81
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTATTT
Found at i:48056567 original size:15 final size:15
Alignment explanation
Indices: 48056547--48056598 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
48056537 CTAAAAAATC
48056547 TTTTATTTTTTTATT
1 TTTTATTTTTTTATT
*
48056562 TTTTATTTTTCTATTT
1 TTTTATTTTTTTA-TT
48056578 TTTTATTTTTTTATT
1 TTTTATTTTTTTATT
*
48056593 TCTTAT
1 TTTTAT
48056599 AAGTTTTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 19 0.58
16 14 0.42
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTATTTTTTTATT
Found at i:48057786 original size:45 final size:45
Alignment explanation
Indices: 48057726--48057812 Score: 108
Period size: 45 Copynumber: 1.9 Consensus size: 45
48057716 TAATTTATTT
* *
48057726 AGGGTTAGGGTTTTTATGG-TTTAAGGTTAAGG-TTAGGGTTTTGTA
1 AGGGTTAGGGTTTTTA-GGATTT-AGGGTAAGGTTTAAGGTTTTGTA
48057771 AGGGTTTAGGG-TTTTAGGATTTAGGGTAAGGTTTAAGGTTTT
1 AGGG-TTAGGGTTTTTAGGATTTAGGGTAAGGTTTAAGGTTTT
48057813 AGGATTTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
44 10 0.27
45 21 0.57
46 6 0.16
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (45 bp):
AGGGTTAGGGTTTTTAGGATTTAGGGTAAGGTTTAAGGTTTTGTA
Found at i:48057805 original size:27 final size:28
Alignment explanation
Indices: 48057768--48057821 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 28
48057758 TTAGGGTTTT
*
48057768 GTAAGGGTTTAGGGTTTTAGGATTTAGG
1 GTAAGGGTTTAAGGTTTTAGGATTTAGG
48057796 GTAA-GGTTTAAGGTTTTAGGATTTAG
1 GTAAGGGTTTAAGGTTTTAGGATTTAG
48057822 AGGTTTAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (28 bp):
GTAAGGGTTTAAGGTTTTAGGATTTAGG
Found at i:48058606 original size:126 final size:126
Alignment explanation
Indices: 48058291--48058672 Score: 615
Period size: 126 Copynumber: 3.0 Consensus size: 126
48058281 GGGTTTCTAC
** * *
48058291 AAAAATAATTCTGACCAGACGTTTCTAGAA-AAATAGTGTCGGAAAAGGCTTCAAGCAGGATGCA
1 AAAAATAATTCTGAGTAGACGTTTCT-GAACAAATAGTG-CTGAAAACGCTTCAAGCAGGATGCA
* * * *
48058355 CTGTCAGCAAAATTTCTGGAAAAAACTCTCACGTGGATGCTCTTTTGCTACAGTAATTCGTAG
64 CTGTCAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAG
*
48058418 -AAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCTGAAAACGCTTCAAGCAAGATGCACT
1 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCTGAAAACGCTTCAAGCAGGATGCACT
* *
48058482 ATCAGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAG
66 GTCAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAG
*
48058543 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCTGAAAACACTTCAAGCAGGATGCACT
1 AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCTGAAAACGCTTCAAGCAGGATGCACT
*
48058608 GTCAGCAAAATTTCTGGAAAAAGCTCCCACATGGACGCTCTTTTGCTACAGTAGTTCGTAG
66 GTCAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAG
48058669 AAAA
1 AAAA
48058673 TGAGGCTATA
Statistics
Matches: 237, Mismatches: 16, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
125 82 0.35
126 155 0.65
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (126 bp):
AAAAATAATTCTGAGTAGACGTTTCTGAACAAATAGTGCTGAAAACGCTTCAAGCAGGATGCACT
GTCAGCAAAATTTCTGGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAG
Found at i:48060730 original size:50 final size:50
Alignment explanation
Indices: 48060606--48060842 Score: 282
Period size: 50 Copynumber: 4.7 Consensus size: 50
48060596 AGCCGAAGCT
* * *
48060606 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* * * *
48060655 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* * *
48060705 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA--CA
* * * *
48060756 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACA
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* *
48060806 ATATGGTACACGTAGTAGCCTGCACTTAGTACTACAC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACAC
48060843 GTCGTATTGT
Statistics
Matches: 161, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
49 41 0.25
50 80 0.50
51 39 0.24
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:48060816 original size:101 final size:99
Alignment explanation
Indices: 48060609--48060842 Score: 292
Period size: 101 Copynumber: 2.3 Consensus size: 99
48060599 CGAAGCTATC
* * * *
48060609 TGATACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCTGGTACACATAGTAGC
* * * *
48060674 CTGCACTTAGTACTACACACGTGACCTCACCATC
66 CTGCACTTAGTACTACACACGCGACCTAACAATA
* * *
48060708 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-AT-TGAGTACGCATAG
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA--CAATCTG-GTACACATAG
* *
48060771 TAGCCTGCACTTAGTACTACACATGCGACTTAACAATA
62 TAGCCTGCACTTAGTACTACACACGCGACCTAACAATA
*
48060809 TGGTACACGTAGTAGCCTGCACTTAGTACTACAC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACAC
48060843 GTCGTATTGT
Statistics
Matches: 117, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
99 36 0.31
100 5 0.04
101 75 0.64
102 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (99 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCTGGTACACATAGTAGC
CTGCACTTAGTACTACACACGCGACCTAACAATA
Found at i:48065714 original size:34 final size:34
Alignment explanation
Indices: 48065669--48065742 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 34
48065659 AGTGCCACGA
*
48065669 TTCACAACTCAGTATGGAAACACCATACCTACGT
1 TTCACAACTCAGTATAGAAACACCATACCTACGT
* *
48065703 TTCACAGCTCAGTATAGAAATACCATACCTACGT
1 TTCACAACTCAGTATAGAAACACCATACCTACGT
48065737 TTCACA
1 TTCACA
48065743 CTTTGCCATG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.35, C:0.28, G:0.11, T:0.26
Consensus pattern (34 bp):
TTCACAACTCAGTATAGAAACACCATACCTACGT
Found at i:48065827 original size:27 final size:27
Alignment explanation
Indices: 48065797--48065861 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
48065787 GATCACTGAA
* *
48065797 CACTTTGCTATGTTTGGCACACTATAT
1 CACTTTGCCATGATTGGCACACTATAT
*
48065824 CACTTTGCCATGATTGGCACACTTTAT
1 CACTTTGCCATGATTGGCACACTATAT
48065851 CACTTTGCCAT
1 CACTTTGCCAT
48065862 AGTTCAACTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.38
Consensus pattern (27 bp):
CACTTTGCCATGATTGGCACACTATAT
Found at i:48065995 original size:31 final size:31
Alignment explanation
Indices: 48065959--48066067 Score: 157
Period size: 31 Copynumber: 3.5 Consensus size: 31
48065949 TTGTAGTCGG
* *
48065959 AGCTACCA-TTATTCACTGATCAGGTAGCTGG
1 AGCTACCACTT-TTCACTGATCAGGTAGCCGA
*
48065990 AGCTACCACTTTTCACTAATCAGGTAGCCGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGA
*
48066021 AGCTACTACTTTTCACTGATCAGGTAGCCGA
1 AGCTACCACTTTTCACTGATCAGGTAGCCGA
*
48066052 AGCTACTACTTTTCAC
1 AGCTACCACTTTTCAC
48066068 ATTGTACACA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 70 0.97
32 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCCGA
Found at i:48066144 original size:33 final size:33
Alignment explanation
Indices: 48066060--48066171 Score: 129
Period size: 33 Copynumber: 3.4 Consensus size: 33
48066050 GAAGCTACTA
* **
48066060 CTTTTCACA-TTGTACACACAAGGCATACATTTC
1 CTTTTCA-AGTTGTACACACAAAGTGTACATTTC
*
48066093 CTTTTCAAG-TGTACACACAAAGTGTACGTTTC
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
* * *
48066125 CTTTTTAAGTTGTACACACACAGTGTACATTTT
1 CTTTTCAAGTTGTACACACAAAGTGTACATTTC
*
48066158 CTTTTCCAGTTGTA
1 CTTTTCAAGTTGTA
48066172 TCTTTTAGGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
32 28 0.42
33 39 0.58
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.38
Consensus pattern (33 bp):
CTTTTCAAGTTGTACACACAAAGTGTACATTTC
Found at i:48067917 original size:31 final size:31
Alignment explanation
Indices: 48067855--48067917 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
48067845 TATACTAAAT
* *
48067855 AAATAATAATAAAATAATAAATATTTCATTA
1 AAATAATAATAAAATAATAAATATCTAATTA
* **
48067886 AAATATTAATAAAATAATATTTATCTAATTA
1 AAATAATAATAAAATAATAAATATCTAATTA
48067917 A
1 A
48067918 TTAATTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (31 bp):
AAATAATAATAAAATAATAAATATCTAATTA
Found at i:48068089 original size:18 final size:18
Alignment explanation
Indices: 48068066--48068102 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
48068056 ATTTTTCACC
*
48068066 TATTCAATTTGGTCCTAA
1 TATTCAATTTGCTCCTAA
48068084 TATTCAATTTGCTCCTAA
1 TATTCAATTTGCTCCTAA
48068102 T
1 T
48068103 TCATTCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (18 bp):
TATTCAATTTGCTCCTAA
Found at i:48071903 original size:9 final size:9
Alignment explanation
Indices: 48071889--48071914 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
48071879 GCTGGACTAA
48071889 CTTTCTTCC
1 CTTTCTTCC
48071898 CTTTCTTCC
1 CTTTCTTCC
48071907 CTTTCTTC
1 CTTTCTTC
48071915 TTGCCTCCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (9 bp):
CTTTCTTCC
Found at i:48081254 original size:9 final size:9
Alignment explanation
Indices: 48081240--48081304 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
48081230 TTTGGTTAAA
48081240 AATTAACCG
1 AATTAACCG
*
48081249 AATTAATCG
1 AATTAACCG
48081258 AATTAACCG
1 AATTAACCG
*
48081267 -ATTACCCG
1 AATTAACCG
*
48081275 AATTAATCG
1 AATTAACCG
*
48081284 -ATTACCCG
1 AATTAACCG
48081292 AATTAACCG
1 AATTAACCG
48081301 AATT
1 AATT
48081305 GAATCACTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
8 13 0.28
9 33 0.72
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:48081275 original size:26 final size:26
Alignment explanation
Indices: 48081240--48081309 Score: 97
Period size: 26 Copynumber: 2.7 Consensus size: 26
48081230 TTTGGTTAAA
48081240 AATTAACCGAATTAATCGAATTAACCG
1 AATTAACCGAATTAATCG-ATTAACCG
* *
48081267 -ATTACCCGAATTAATCGATTACCCG
1 AATTAACCGAATTAATCGATTAACCG
48081292 AATTAACCGAATTGAATC
1 AATTAACCGAATT-AATC
48081310 ACTACATAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 7 0.18
26 27 0.71
27 4 0.11
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.27
Consensus pattern (26 bp):
AATTAACCGAATTAATCGATTAACCG
Found at i:48081276 original size:17 final size:17
Alignment explanation
Indices: 48081240--48081301 Score: 88
Period size: 17 Copynumber: 3.6 Consensus size: 17
48081230 TTTGGTTAAA
**
48081240 AATTAACCGAATTAATCG
1 AATTAACCG-ATTACCCG
48081258 AATTAACCGATTACCCG
1 AATTAACCGATTACCCG
*
48081275 AATTAATCGATTACCCG
1 AATTAACCGATTACCCG
48081292 AATTAACCGA
1 AATTAACCGA
48081302 ATTGAATCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
17 31 0.77
18 9 0.22
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.26
Consensus pattern (17 bp):
AATTAACCGATTACCCG
Found at i:48081353 original size:37 final size:37
Alignment explanation
Indices: 48081303--48081443 Score: 199
Period size: 37 Copynumber: 4.0 Consensus size: 37
48081293 ATTAACCGAA
48081303 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
48081340 TTGAATCACTACATAATTAAAAATATTACATAAGTC-
1 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
*
48081376 -T--AT---GA-ATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
**
48081406 ACGAATCACTACATAATTAAAAATATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAATATTACATAAGTCT
48081443 T
1 T
48081444 GAAATTAACA
Statistics
Matches: 92, Mismatches: 4, Indels: 16
0.82 0.04 0.14
Matches are distributed among these distances:
29 24 0.26
30 1 0.01
33 4 0.04
35 1 0.01
36 1 0.01
37 61 0.66
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.34
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAATATTACATAAGTCT
Found at i:48081385 original size:29 final size:29
Alignment explanation
Indices: 48081352--48081411 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
48081342 GAATCACTAC
*
48081352 ATAATTAAAAATATTACATAAGTCTATGA
1 ATAATTAAAAATATTACATAAGTCTACGA
48081381 ATAATTAAAAATATTACATAAGTCTACGA
1 ATAATTAAAAATATTACATAAGTCTACGA
48081410 AT
1 AT
48081412 CACTACATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.52, C:0.08, G:0.07, T:0.33
Consensus pattern (29 bp):
ATAATTAAAAATATTACATAAGTCTACGA
Found at i:48081396 original size:66 final size:65
Alignment explanation
Indices: 48081315--48081446 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 65
48081305 GAATCACTAC
**
48081315 ATAATTAAAAATATTACATAAGTCTTTGAATCACTACATAATTAAAAATATTACATAAGTCTATG
1 ATAATTAAAAATATTACATAAGTCTACGAATCACTACATAATTAAAAATATTACATAAGTCT-TG
48081380 A
65 A
48081381 ATAATTAAAAATATTACATAAGTCTACGAATCACTACATAATTAAAAATATTACATAAGTCTTGA
1 ATAATTAAAAATATTACATAAGTCTACGAATCACTACATAATTAAAAATATTACATAAGTCTTGA
48081446 A
1 A
48081447 ATTAACACAT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
65 4 0.06
66 60 0.94
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (65 bp):
ATAATTAAAAATATTACATAAGTCTACGAATCACTACATAATTAAAAATATTACATAAGTCTTGA
Found at i:48085533 original size:19 final size:20
Alignment explanation
Indices: 48085509--48085553 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
48085499 TTTTTTTATT
48085509 AATTTTTTCGG-TTTAACCA
1 AATTTTTTCGGTTTTAACCA
*
48085528 AATTTTTTCGGTTTTACCCA
1 AATTTTTTCGGTTTTAACCA
48085548 AATTTT
1 AATTTT
48085554 GCACACCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (20 bp):
AATTTTTTCGGTTTTAACCA
Found at i:48087145 original size:18 final size:18
Alignment explanation
Indices: 48087087--48087146 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 18
48087077 AATTTCATTT
48087087 CATTTC-ATAACATTTGC
1 CATTTCAATAACATTTGC
* * * *
48087104 TATTTAAATAGCA-TTGT
1 CATTTCAATAACATTTGC
* *
48087121 TATTTCAATATCATTTGC
1 CATTTCAATAACATTTGC
48087139 CATTTCAA
1 CATTTCAA
48087147 GTCATTAACT
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
17 18 0.55
18 15 0.45
ACGTcount: A:0.32, C:0.17, G:0.07, T:0.45
Consensus pattern (18 bp):
CATTTCAATAACATTTGC
Found at i:48088367 original size:6 final size:6
Alignment explanation
Indices: 48088349--48088381 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
48088339 TTTATAACAT
48088349 ATATTA ATA-TA ATATTA ATATTA ATATTA ATAT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATAT
48088382 AACATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:48090495 original size:38 final size:40
Alignment explanation
Indices: 48090405--48090505 Score: 134
Period size: 40 Copynumber: 2.6 Consensus size: 40
48090395 CAAATATAAT
* * * *
48090405 AATTATAATTACCATAATTATAATAATGTTTGATCGACAA
1 AATTACAATTACAATAATTATAATAATATTCGATCGACAA
* *
48090445 AATTACAGTTACAATAATTATAATAATATTCGATC-A-TA
1 AATTACAATTACAATAATTATAATAATATTCGATCGACAA
48090483 AATTACAATTACAATAATTATAA
1 AATTACAATTACAATAATTATAA
48090506 CAAGGATTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
38 23 0.43
39 1 0.02
40 30 0.56
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (40 bp):
AATTACAATTACAATAATTATAATAATATTCGATCGACAA
Found at i:48095108 original size:35 final size:35
Alignment explanation
Indices: 48095068--48095369 Score: 388
Period size: 35 Copynumber: 8.6 Consensus size: 35
48095058 CATGGCAAAA
48095068 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
48095103 TGTGAAGCGTAGGTATGGTATTAACCATACTAAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
48095138 TGTGAAACATAGGTATGATATTAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * * *
48095173 TGTGAAACGTAGGTATGGTATCATCTATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * *
48095208 TGTGAAACGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* *
48095243 TGTGAAACGTAGGTATGGAATAAACCATACTGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
* * *
48095278 TGTGAAATGTAGGTATGGTATTATCCATACTAAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
** * * ** *
48095313 TAAGAAACTTAGGTATGGCATTTTCCATACCGAGT
1 TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
*
48095348 TGTGAAATGTAGGTATGGTATT
1 TGTGAAACGTAGGTATGGTATT
48095370 TCAATGAGGA
Statistics
Matches: 232, Mismatches: 35, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 232 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (35 bp):
TGTGAAACGTAGGTATGGTATTAACCATACTGAGT
Found at i:48097044 original size:49 final size:49
Alignment explanation
Indices: 48096972--48097069 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
48096962 TTGGATCACT
*
48096972 TCCTTGGAAACTACACCGTTTACACCCCAAAAGTGTAGCATTTAGCTAA
1 TCCTTGGAAACCACACCGTTTACACCCCAAAAGTGTAGCATTTAGCTAA
*
48097021 TCCTTGGAAACCGCACCGTTTACACCCCAAAAGTGTAGCATTTAGCTAA
1 TCCTTGGAAACCACACCGTTTACACCCCAAAAGTGTAGCATTTAGCTAA
48097070 CACTTTCTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (49 bp):
TCCTTGGAAACCACACCGTTTACACCCCAAAAGTGTAGCATTTAGCTAA
Found at i:48107470 original size:20 final size:20
Alignment explanation
Indices: 48107447--48107484 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48107437 CAAAAAGTAC
48107447 AAAAT-AATTTTCAAAATTTT
1 AAAATAAATTTT-AAAATTTT
48107467 AAAATAAATTTTAAAATT
1 AAAATAAATTTTAAAATT
48107485 CAAAACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATAAATTTTAAAATTTT
Found at i:48107513 original size:19 final size:21
Alignment explanation
Indices: 48107479--48107518 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
48107469 AATAAATTTT
48107479 AAAATTCAAAACA-TTTATAA
1 AAAATTCAAAACATTTTATAA
*
48107499 AAAATTCCAAA-ATTTTATAA
1 AAAATTCAAAACATTTTATAA
48107519 TTTTGAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATTCAAAACATTTTATAA
Found at i:48111741 original size:9 final size:9
Alignment explanation
Indices: 48111729--48111813 Score: 91
Period size: 9 Copynumber: 9.4 Consensus size: 9
48111719 TAAGTATAAT
*
48111729 ATTAACTGA
1 ATTAACCGA
*
48111738 ATTAATCGA
1 ATTAACCGA
*
48111747 ATTAACTGA
1 ATTAACCGA
48111756 ATT-ACTCGA
1 ATTAAC-CGA
*
48111765 ATTACCCGA
1 ATTAACCGA
* *
48111774 ATTACCCAA
1 ATTAACCGA
48111783 ATTAACCGA
1 ATTAACCGA
48111792 ATTAACCGA
1 ATTAACCGA
*
48111801 ATTAATCGA
1 ATTAACCGA
48111810 ATTA
1 ATTA
48111814 TTTGTATAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
8 2 0.03
9 61 0.95
10 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.29
Consensus pattern (9 bp):
ATTAACCGA
Found at i:48111846 original size:5 final size:6
Alignment explanation
Indices: 48111831--48111871 Score: 64
Period size: 6 Copynumber: 6.5 Consensus size: 6
48111821 AAAATTATAT
48111831 TTTTTA TTTTTA TTTTTA GTTTTATA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
48111872 ATTAAATTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 23 0.70
7 8 0.24
8 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:48111858 original size:20 final size:20
Alignment explanation
Indices: 48111830--48111868 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
48111820 TAAAATTATA
*
48111830 TTTTTTATTTTTATTTTTAG
1 TTTTATATTTTTATTTTTAG
48111850 TTTTATATTTTTATTTTTA
1 TTTTATATTTTTATTTTTA
48111869 TTTATTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (20 bp):
TTTTATATTTTTATTTTTAG
Found at i:48111912 original size:13 final size:13
Alignment explanation
Indices: 48111896--48111920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48111886 AATTTTTATG
48111896 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
48111909 ATTGGGTTGGGT
1 ATTGGGTTGGGT
48111921 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:48111920 original size:18 final size:18
Alignment explanation
Indices: 48111897--48111934 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
48111887 ATTTTTATGA
48111897 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
48111915 TTGGGTTGGGTACTTGGG
1 TTGGGTTGGGTAATTGGG
48111933 TT
1 TT
48111935 AATATATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.08, C:0.03, G:0.47, T:0.42
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:48124727 original size:18 final size:18
Alignment explanation
Indices: 48124706--48124743 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
48124696 TTTTTATTAA
48124706 TTTATAAATTT-TAAATTT
1 TTTA-AAATTTATAAATTT
*
48124724 TTTAAAATTTATATATTT
1 TTTAAAATTTATAAATTT
48124742 TT
1 TT
48124744 AATTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTAAAATTTATAAATTT
Found at i:48124734 original size:16 final size:17
Alignment explanation
Indices: 48124705--48124753 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 17
48124695 CTTTTTATTA
* *
48124705 ATTTATAAATTTTAAAT
1 ATTTTTAAAATTTAAAT
*
48124722 -TTTTTAAAATTTATAT
1 ATTTTTAAAATTTAAAT
48124738 ATTTTT--AATTTAAAT
1 ATTTTTAAAATTTAAAT
48124753 A
1 A
48124754 CAATAATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 9 0.33
16 13 0.48
17 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTTAAAATTTAAAT
Found at i:48126289 original size:39 final size:38
Alignment explanation
Indices: 48126222--48126356 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 38
48126212 ACCAATATGG
* * *
48126222 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGTCTCATCGGCTAG-CCGAAGTAATAGTTGA
*
48126261 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGTCTCATCGG-CTAGCCGAAGTAATAGTTGA
* ** * * *
48126299 TACCCAGTAACTCATCGAATCTATCCGAAGAAATA-TAGTGA
1 CACCCAGTGTCTCATCG--GCTAGCCGAAGTAATAGT--TGA
48126340 CACCCAGTGTCTCATCG
1 CACCCAGTGTCTCATCG
48126357 ACTCGAGGTC
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
38 19 0.25
39 37 0.49
40 4 0.05
41 16 0.21
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.24
Consensus pattern (38 bp):
CACCCAGTGTCTCATCGGCTAGCCGAAGTAATAGTTGA
Found at i:48127937 original size:5 final size:5
Alignment explanation
Indices: 48127919--48127954 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
48127909 TTTCTTTTAT
48127919 ATATA ATAATA ATATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
48127955 CTTAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:48133571 original size:102 final size:102
Alignment explanation
Indices: 48133395--48133599 Score: 340
Period size: 102 Copynumber: 2.0 Consensus size: 102
48133385 TGGTTACTTG
* * * *
48133395 ATGCTGTTATTGCTTAATTTGAGGGCCAAAAGTTATCTGATCCTTGGCATTTTTGTTACTTGGAT
1 ATGCTGTTATTGCTCAATTTGAGAGCCAAAAGTGATCTGATCCTTGGCATTTATGTTACTTGGAT
48133460 TTGGGTGGAATGTC-AAAAAGAGGACATTTTCAAGAAA
66 TTGGGTGGAATGTCGAAAAA-AGGACATTTTCAAGAAA
* *
48133497 ATGCTGTTATTGCTCAATTTGAGAGCCAAAAGTGCTCTGATCGTTGGCATTTATGTTACTTGGAT
1 ATGCTGTTATTGCTCAATTTGAGAGCCAAAAGTGATCTGATCCTTGGCATTTATGTTACTTGGAT
48133562 TTGGGTGGAATGTCGAAAAAAGGACATTTTCAAGAAA
66 TTGGGTGGAATGTCGAAAAAAGGACATTTTCAAGAAA
48133599 A
1 A
48133600 ATAAAGAGAC
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 91 0.95
103 5 0.05
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (102 bp):
ATGCTGTTATTGCTCAATTTGAGAGCCAAAAGTGATCTGATCCTTGGCATTTATGTTACTTGGAT
TTGGGTGGAATGTCGAAAAAAGGACATTTTCAAGAAA
Found at i:48135922 original size:14 final size:14
Alignment explanation
Indices: 48135903--48135930 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
48135893 GTGAAAGTTA
48135903 TTATGAGAGCATGT
1 TTATGAGAGCATGT
48135917 TTATGAGAGCATGT
1 TTATGAGAGCATGT
48135931 AAAACATGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (14 bp):
TTATGAGAGCATGT
Found at i:48140840 original size:68 final size:72
Alignment explanation
Indices: 48140750--48140887 Score: 203
Period size: 72 Copynumber: 2.0 Consensus size: 72
48140740 TTTAATAGAT
* * *
48140750 TTAATATTAAATTAAATTTAATACTTATC-T-T-AAT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTAAATTTAATACTTATCTTGTAAATAAATATTCTATTAATTTAATATTAAAAT
48140811 GATTATC
66 GATTATC
* *
48140818 TTAATATTAAATTAATTTTAATATTTATCTTGTAAATAAATATTCTATTAATTTAATATTAAAAT
1 TTAATATTAAATTAAATTTAATACTTATCTTGTAAATAAATATTCTATTAATTTAATATTAAAAT
48140883 GATTA
66 GATTA
48140888 AGTTTAATTA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 27 0.44
69 1 0.02
70 1 0.02
71 3 0.05
72 29 0.48
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (72 bp):
TTAATATTAAATTAAATTTAATACTTATCTTGTAAATAAATATTCTATTAATTTAATATTAAAAT
GATTATC
Found at i:48141719 original size:75 final size:75
Alignment explanation
Indices: 48141626--48141831 Score: 322
Period size: 75 Copynumber: 2.7 Consensus size: 75
48141616 CAGCGACATT
* * *
48141626 ACCTTCGGTTTTCTAACAGTTTGCTGATTTACTATTGCGATTGTCATTTTTATGGTCTGCTGATT
1 ACCTTCAGTTTTCTAACAGTTTGCTGATTTACTATTGCGACTGTCATTTTTATGGTCTGCTAATT
*
48141691 TAGTATCGCG
66 TACTATCGCG
** *
48141701 ACCTTCAGTTTTCTAACAGTTTGCTGATTTACTATTATGACTGTCATTTTTACGGTCTGCTAATT
1 ACCTTCAGTTTTCTAACAGTTTGCTGATTTACTATTGCGACTGTCATTTTTATGGTCTGCTAATT
48141766 TACTATCGCG
66 TACTATCGCG
* * *
48141776 ACCTTCATTTTTCTAACAGTTCGTTGATTTACTATTGCGACTGTCATTTTTATGGT
1 ACCTTCAGTTTTCTAACAGTTTGCTGATTTACTATTGCGACTGTCATTTTTATGGT
48141832 TCGTTGATTT
Statistics
Matches: 118, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 118 1.00
ACGTcount: A:0.19, C:0.18, G:0.17, T:0.46
Consensus pattern (75 bp):
ACCTTCAGTTTTCTAACAGTTTGCTGATTTACTATTGCGACTGTCATTTTTATGGTCTGCTAATT
TACTATCGCG
Found at i:48141784 original size:36 final size:36
Alignment explanation
Indices: 48141647--48142410 Score: 168
Period size: 36 Copynumber: 20.6 Consensus size: 36
48141637 TCTAACAGTT
* * *
48141647 TGCTGATTTACTATTGCGATTGTCATTTTTATGGTC
1 TGCTGATTTACTATCGCGACTGTCATTTTTACGGTC
* * *
48141683 TGCTGATTTAGTATCGCGACCT-TCAGTTTTCTAACAGTT
1 TGCTGATTTACTATCGCGA-CTGTCA-TTTT-T-ACGGTC
***
48141722 TGCTGATTTACTATTATGACTGTCATTTTTACGGTC
1 TGCTGATTTACTATCGCGACTGTCATTTTTACGGTC
* *
48141758 TGCTAATTTACTATCGCGACCT-TCATTTTTCTAACAGT-
1 TGCTGATTTACTATCGCGA-CTGTCA-TTTT-T-ACGGTC
* * *
48141796 TCGTTGATTTACTATTGCGACTGTCATTTTTATGGT-
1 T-GCTGATTTACTATCGCGACTGTCATTTTTACGGTC
* * * * *
48141832 TCGTTGATTTAATA-CGCCACCTTACATTCGATTTTCTAATCGTTC
1 T-GCTGATTTACTATCGCGA-C-T---GTC-ATTTT-T-A-CGGTC
* * * * * * * * *
48141877 -GTTAATTTATTATTGCGATTGCCAATTTTACAGTT
1 TGCTGATTTACTATCGCGACTGTCATTTTTACGGTC
* * * * * **
48141912 TGCTGATTTAATATTGCAACTATTATTTTTATAGTC
1 TGCTGATTTACTATCGCGACTGTCATTTTTACGGTC
* * * * * *
48141948 CGCTAATTTTCGAT-GATGACCT-TCGATTTTCTAACAGT-
1 TGCTGATTTACTATCG-CGA-CTGTC-ATTTT-T-ACGGTC
* * **
48141986 TCGCTGATTTATTATCGCGACTATCATTTTTACAAT-
1 T-GCTGATTTACTATCGCGACTGTCATTTTTACGGTC
* * * * *
48142022 TCGTTAATATT-TTATCACGACCT-TCAGTTTTCTAACAGT-
1 T-GCTGAT-TTACTATCGCGA-CTGTCA-TTTT-T-ACGGTC
* **
48142061 TCGCTGATTTACTATCGCGACTGTCATTTTTGCAATC
1 T-GCTGATTTACTATCGCGACTGTCATTTTTACGGTC
* * * * *
48142098 CGTTGATTTACTATCGCGACCTTTGATTTTCTAACAGT-
1 TGCTGATTTACTATCGCGA-CTGTCATTTT-T-ACGGTC
* * ** * **
48142136 TAGTTGATTTCCTATTACGATTGTCATTTTTATAGT-
1 T-GCTGATTTACTATCGCGACTGTCATTTTTACGGTC
* * * **
48142172 TCGCTAATTTACTATCGTGACTTTCATTTTTACAAT-
1 T-GCTGATTTACTATCGCGACTGTCATTTTTACGGTC
* *
48142208 TCGTTGATTTACAATCGCGACTGTCATTTTTACGGTC
1 T-GCTGATTTACTATCGCGACTGTCATTTTTACGGTC
*
48142245 TGCTGATTTACTATCGCGACCT-TCAGTTTTCTAACAGT-
1 TGCTGATTTACTATCGCGA-CTGTCA-TTTT-T-ACGGTC
* * * *
48142283 T-CATTGATTTACTATTGCAATTGTCATTTTTACAGT-
1 TGC--TGATTTACTATCGCGACTGTCATTTTTACGGTC
* * * * * **
48142319 TCGCTAATTTACTGTTGTGACTTTCA-TTTTACAAT-
1 T-GCTGATTTACTATCGCGACTGTCATTTTTACGGTC
* * *
48142354 TCGCTAATTTACTATCACGACTGTTATTTTTACGGTC
1 T-GCTGATTTACTATCGCGACTGTCATTTTTACGGTC
*
48142391 TGCTGATTTACCATCGCGAC
1 TGCTGATTTACTATCGCGAC
48142411 CTTTGGTTTT
Statistics
Matches: 541, Mismatches: 132, Indels: 110
0.69 0.17 0.14
Matches are distributed among these distances:
35 34 0.06
36 258 0.48
37 51 0.09
38 52 0.10
39 120 0.22
40 3 0.01
41 5 0.01
42 2 0.00
43 11 0.02
44 5 0.01
ACGTcount: A:0.22, C:0.19, G:0.14, T:0.45
Consensus pattern (36 bp):
TGCTGATTTACTATCGCGACTGTCATTTTTACGGTC
Found at i:48141842 original size:75 final size:75
Alignment explanation
Indices: 48141634--48141859 Score: 303
Period size: 75 Copynumber: 3.0 Consensus size: 75
48141624 TTACCTTCGG
* * *
48141634 TTTTCTAACAGTTTGCTGATTTACTATTGCGATTGTCATTTTTATGGTCTGCTGATTTAGTATCG
1 TTTTCTAACAGTTCGCTGATTTACTATTGCGACTGTCATTTTTATGGTCTGCTGATTTAATATCG
*
48141699 CGACCTTCAG
66 CGACCTTCAT
* ** * * *
48141709 TTTTCTAACAGTTTGCTGATTTACTATTATGACTGTCATTTTTACGGTCTGCTAATTTACTATCG
1 TTTTCTAACAGTTCGCTGATTTACTATTGCGACTGTCATTTTTATGGTCTGCTGATTTAATATCG
48141774 CGACCTTCAT
66 CGACCTTCAT
* *
48141784 TTTTCTAACAGTTCGTTGATTTACTATTGCGACTGTCATTTTTATGGT-TCGTTGATTTAATA-C
1 TTTTCTAACAGTTCGCTGATTTACTATTGCGACTGTCATTTTTATGGTCT-GCTGATTTAATATC
*
48141847 GCCACCTTACAT
65 GCGACCTT-CAT
48141859 T
1 T
48141860 CGATTTTCTA
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
74 9 0.07
75 124 0.93
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.46
Consensus pattern (75 bp):
TTTTCTAACAGTTCGCTGATTTACTATTGCGACTGTCATTTTTATGGTCTGCTGATTTAATATCG
CGACCTTCAT
Found at i:48142090 original size:150 final size:147
Alignment explanation
Indices: 48141902--48142426 Score: 403
Period size: 147 Copynumber: 3.6 Consensus size: 147
48141892 CGATTGCCAA
* * * * * * * * * *
48141902 TTTTACAGTTTGCTGATTTAATATTGCAACTATTATTTTTATAGTCCGCTAATTTTCGAT-GATG
1 TTTTACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAATCCGCTAATTTACGATCG-CG
* * * *
48141966 ACCTTCGATTTTCTAACAGTTCGCTGATTTATTATCGCGACTATCATTTTTACAATTCGTTAATA
65 ACCTTCGATTTTCTAACAGTTAGCTGATTTACTATCACGACTATCATTTTTACAATTCGCTAAT-
*
48142031 TT-TTATCACGACCTTCAGT
129 TTACTATCACGACCTTCA-T
* * * *
48142050 TTTCTAACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTGCAATCCGTTGATTTACTATCGC
1 TTT-T-ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAATCCGCTAATTTACGATCGC
* * * * * * * *
48142115 GACCTTTGATTTTCTAACAGTTAGTTGATTTCCTATTACGATTGTCATTTTTATAGTTCGCTAAT
64 GACCTTCGATTTTCTAACAGTTAGCTGATTTACTATCACGACTATCATTTTTACAATTCGCTAAT
** *
48142180 TTACTATCGTGACTTTCAT
129 TTACTATCACGACCTTCAT
* * * ** * * *
48142199 TTTTACAATTCGTTGATTTACAATCGCGACTGTCATTTTTACGGTCTGCTGATTTACTATCGCGA
1 TTTTACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAATCCGCTAATTTACGATCGCGA
* ** * * * *
48142264 CCTTC-AGTTTTCTAACAGTTCA-TTGATTTACTATTGCAATTGTCATTTTTACAGTTCGCTAAT
66 CCTTCGA-TTTTCTAACAGTT-AGCTGATTTACTATCACGACTATCATTTTTACAATTCGCTAAT
* *** *
48142327 TTACTGTTGTGACTTTCA-
129 TTACTATCACGACCTTCAT
* * * * ** * * *
48142345 TTTTACAATTCGCTAATTTACTATCACGACTGTTATTTTTACGGTCTGCTGATTTACCATCGCGA
1 TTTTACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAATCCGCTAATTTACGATCGCGA
* *
48142410 CCTTTGGTTTTCTAACA
66 CCTTCGATTTTCTAACA
48142427 ATTTTATACC
Statistics
Matches: 317, Mismatches: 53, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
146 74 0.23
147 123 0.39
148 5 0.02
149 7 0.02
150 107 0.34
151 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.45
Consensus pattern (147 bp):
TTTTACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAATCCGCTAATTTACGATCGCGA
CCTTCGATTTTCTAACAGTTAGCTGATTTACTATCACGACTATCATTTTTACAATTCGCTAATTT
ACTATCACGACCTTCAT
Found at i:48142118 original size:75 final size:75
Alignment explanation
Indices: 48141906--48142426 Score: 407
Period size: 75 Copynumber: 7.0 Consensus size: 75
48141896 TGCCAATTTT
* * * * * * * * * *
48141906 ACAGTTTGCTGATTTAATATTGCAACTATTATTTTTATAGTCCGCTAATTTTCGAT-GATGACCT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAGTCCGCTAATTTACTATCG-CGACCT
48141970 TC-GATTTTCTA
65 TCAG-TTTTCTA
* * * * * * *
48141981 ACAGTTCGCTGATTTATTATCGCGACTATCATTTTTACAATTCGTTAATATT-TTATCACGACCT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAGTCCGCTAAT-TTACTATCGCGACCT
48142045 TCAGTTTTCTA
65 TCAGTTTTCTA
* * * *
48142056 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTGCAATCCGTTGATTTACTATCGCGACCTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAGTCCGCTAATTTACTATCGCGACCTT
*
48142121 -TGATTTTCTA
66 CAG-TTTTCTA
* * * ** * * * * *
48142131 ACAGTTAGTTGATTTCCTATTACGATTGTCATTTTTATAGTTCGCTAATTTACTATCGTGACTTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAGTCCGCTAATTTACTATCGCGACCTT
48142196 CA-TTTT-T-
66 CAGTTTTCTA
* * * * * *
48142203 ACAATTCGTTGATTTACAATCGCGACTGTCATTTTTACGGTCTGCTGATTTACTATCGCGACCTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAGTCCGCTAATTTACTATCGCGACCTT
48142268 CAGTTTTCTA
66 CAGTTTTCTA
** * * * * * * * *
48142278 ACAGTTCATTGATTTACTATTGCAATTGTCATTTTTACAGTTCGCTAATTTACTGTTGTGACTTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAGTCCGCTAATTTACTATCGCGACCTT
48142343 CA--TTT-T-
66 CAGTTTTCTA
* * * * * * * *
48142349 ACAATTCGCTAATTTACTATCACGACTGTTATTTTTACGGTCTGCTGATTTACCATCGCGACCTT
1 ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAGTCCGCTAATTTACTATCGCGACCTT
**
48142414 TGGTTTTCTA
66 CAGTTTTCTA
48142424 ACA
1 ACA
48142427 ATTTTATACC
Statistics
Matches: 349, Mismatches: 84, Indels: 26
0.76 0.18 0.06
Matches are distributed among these distances:
71 47 0.13
72 54 0.15
73 11 0.03
74 9 0.03
75 225 0.64
76 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (75 bp):
ACAGTTCGCTGATTTACTATCGCGACTGTCATTTTTACAGTCCGCTAATTTACTATCGCGACCTT
CAGTTTTCTA
Found at i:48142257 original size:147 final size:146
Alignment explanation
Indices: 48142060--48142426 Score: 522
Period size: 147 Copynumber: 2.5 Consensus size: 146
48142050 TTTCTAACAG
* ** * *
48142060 TTCGCTGATTTACTATCGCGACTGTCATTTTTGCAATCCGTTGATTTACTATCGCGACCTTTGAT
1 TTCGCTGATTTACTATCGCGACTGTCATTTTTACGGTCTGCTGATTTACTATCGCGACCTTTGAT
* * *
48142125 TTTCTAACAGTT-AGTTGATTTCCTATTACGATTGTCATTTTTATAGTTCGCTAATTTACTATCG
66 TTTCTAACAGTTCA-TTGATTTACTATTACAATTGTCATTTTTACAGTTCGCTAATTTACTATCG
48142189 TGACTTTCATTTTTACAA
130 TGACTTTCA-TTTTACAA
* * *
48142207 TTCGTTGATTTACAATCGCGACTGTCATTTTTACGGTCTGCTGATTTACTATCGCGACC-TTCAG
1 TTCGCTGATTTACTATCGCGACTGTCATTTTTACGGTCTGCTGATTTACTATCGCGACCTTTGA-
* * *
48142271 TTTTCTAACAGTTCATTGATTTACTATTGCAATTGTCATTTTTACAGTTCGCTAATTTACTGTTG
65 TTTTCTAACAGTTCATTGATTTACTATTACAATTGTCATTTTTACAGTTCGCTAATTTACTATCG
48142336 TGACTTTCATTTTACAA
130 TGACTTTCATTTTACAA
* * * * *
48142353 TTCGCTAATTTACTATCACGACTGTTATTTTTACGGTCTGCTGATTTACCATCGCGACCTTTGGT
1 TTCGCTGATTTACTATCGCGACTGTCATTTTTACGGTCTGCTGATTTACTATCGCGACCTTTGAT
48142418 TTTCTAACA
66 TTTCTAACA
48142427 ATTTTATACC
Statistics
Matches: 195, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
146 74 0.38
147 120 0.62
148 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (146 bp):
TTCGCTGATTTACTATCGCGACTGTCATTTTTACGGTCTGCTGATTTACTATCGCGACCTTTGAT
TTTCTAACAGTTCATTGATTTACTATTACAATTGTCATTTTTACAGTTCGCTAATTTACTATCGT
GACTTTCATTTTACAA
Found at i:48142521 original size:36 final size:36
Alignment explanation
Indices: 48142471--48142633 Score: 157
Period size: 36 Copynumber: 4.4 Consensus size: 36
48142461 AAGTTTCTAT
* *
48142471 CAGTTCACTGATTTACTATCGCAACTGTCATTTTTA
1 CAGTTCGCTAATTTACTATCGCAACTGTCATTTTTA
* * * **
48142507 CGGTTCGCTAATTTACTATTGCAACCTTTGGTTTTCTA
1 CAGTTCGCTAATTTACTATCGCAA-CTGTCATTTT-TA
* * *
48142545 GCAGTTCGCTGATTTATTATCGCGACTGTCATTTTTA
1 -CAGTTCGCTAATTTACTATCGCAACTGTCATTTTTA
*
48142582 CAGTTCGCTAATTTAGTATCGCAA-TGGTCATTTTTA
1 CAGTTCGCTAATTTACTATCGCAACT-GTCATTTTTA
* * *
48142618 CAATTCTCTGATTTAC
1 CAGTTCGCTAATTTAC
48142634 AAATTTCTAT
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
35 1 0.01
36 63 0.62
37 9 0.09
38 9 0.09
39 19 0.19
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (36 bp):
CAGTTCGCTAATTTACTATCGCAACTGTCATTTTTA
Found at i:48142566 original size:75 final size:75
Alignment explanation
Indices: 48142464--48142605 Score: 221
Period size: 75 Copynumber: 1.9 Consensus size: 75
48142454 GACCTTCAAG
* * *
48142464 TTTCTATCAGTTCACTGATTTACTATCGCAACTGTCATTTTTACGGTTCGCTAATTTACTATTGC
1 TTTCTAGCAGTTCACTGATTTACTATCGCAACTGTCATTTTTACAGTTCGCTAATTTACTATCGC
48142529 AACCTTTGGT
66 AACCTTTGGT
* * * *
48142539 TTTCTAGCAGTTCGCTGATTTATTATCGCGACTGTCATTTTTACAGTTCGCTAATTTAGTATCGC
1 TTTCTAGCAGTTCACTGATTTACTATCGCAACTGTCATTTTTACAGTTCGCTAATTTACTATCGC
48142604 AA
66 AA
48142606 TGGTCATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 60 1.00
ACGTcount: A:0.22, C:0.20, G:0.15, T:0.43
Consensus pattern (75 bp):
TTTCTAGCAGTTCACTGATTTACTATCGCAACTGTCATTTTTACAGTTCGCTAATTTACTATCGC
AACCTTTGGT
Found at i:48143091 original size:85 final size:85
Alignment explanation
Indices: 48142891--48143092 Score: 241
Period size: 85 Copynumber: 2.4 Consensus size: 85
48142881 TAAGCCCTTA
* * * *
48142891 CTTTTTTTTTGCACTCATTTGGGTACTTAAACTTTCACAATGCATCAAAAAGATCCTCAAACTTT
1 CTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGAATCAAAAAGATCCTCAAACTTT
*
48142956 TTTAAAAAGAGCAATTAAGC
66 TTTAAAAAGAGCAAGTAAGC
** * *
48142976 CTTTTTTTTTGTGCTTAATTGGGTACTTGAACTTTCAAAATGAATTAAAAAGA-CTCTCAAAC-T
1 CTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGAATCAAAAAGATC-CTCAAACTT
*
48143039 TTTTCAAAA-AGCAAGTAAGCCCC
65 TTTTAAAAAGAGCAAGTAAG---C
*
48143062 CTTTTTTTTT-CACTCAATTGGGTATTTGAAC
1 CTTTTTTTTTGCACTCAATTGGGTACTTGAAC
48143093 CACCTCTAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
83 9 0.09
84 10 0.10
85 69 0.70
86 11 0.11
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (85 bp):
CTTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATGAATCAAAAAGATCCTCAAACTTT
TTTAAAAAGAGCAAGTAAGC
Found at i:48143228 original size:9 final size:9
Alignment explanation
Indices: 48143154--48143368 Score: 62
Period size: 10 Copynumber: 22.0 Consensus size: 9
48143144 ATATGTGGTA
*
48143154 AAAAATGAT
1 AAAAATTAT
48143163 AAAAA--AT
1 AAAAATTAT
*
48143170 AAAAATAAAT
1 AAAAAT-TAT
*
48143180 AAAAGTTAT
1 AAAAATTAT
*
48143189 AAAAATGATT
1 AAAAATTA-T
**
48143199 AAATTTTAAT
1 AAAAATT-AT
48143209 AAAAATATAT
1 AAAAAT-TAT
48143219 AAAAATTAT
1 AAAAATTAT
*
48143228 AAAAAAATAT
1 -AAAAATTAT
*
48143238 AAAAATAGTAAA
1 AAAAAT--T-AT
48143250 AGAAAATTTAT
1 A-AAAA-TTAT
*
48143261 AAAATATATAGA
1 AAAA-AT-TA-T
48143273 AAAAATTTAT
1 AAAAA-TTAT
*
48143283 AAAATTTAT
1 AAAAATTAT
*
48143292 -AAAATTTT
1 AAAAATTAT
*
48143300 ATAAAGTCCTA-
1 A-AAAAT--TAT
48143311 AGAAAATTAT
1 A-AAAATTAT
* *
48143321 AAAAAATGT
1 AAAAATTAT
*
48143330 AAAGAAATAT
1 AAA-AATTAT
48143340 -AAAATTCAT
1 AAAAATT-AT
48143349 AAAAAAATTAT
1 --AAAAATTAT
48143360 AAAAATTAT
1 AAAAATTAT
48143369 CGTACTAAAA
Statistics
Matches: 154, Mismatches: 26, Indels: 52
0.66 0.11 0.22
Matches are distributed among these distances:
7 7 0.05
8 9 0.06
9 49 0.32
10 51 0.33
11 18 0.12
12 15 0.10
13 4 0.03
14 1 0.01
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:48143234 original size:22 final size:22
Alignment explanation
Indices: 48143199--48143295 Score: 78
Period size: 22 Copynumber: 4.5 Consensus size: 22
48143189 AAAAATGATT
* *
48143199 AAATTTTAATAAAAATATATAA
1 AAATTATAAAAAAAATATATAA
48143221 AAATTAT--AAAAAA-ATATAA
1 AAATTATAAAAAAAATATATAA
*
48143240 AAA-TAGTAAAAGAAAATTTAT-A
1 AAATTA-TAAAA-AAAATATATAA
* *
48143262 AAATATATAGAAAAAATTTATAA
1 AAAT-TATAAAAAAAATATATAA
*
48143285 AATTTATAAAA
1 AAATTATAAAA
48143296 TTTTATAAAG
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
18 2 0.03
19 10 0.16
20 5 0.08
21 2 0.03
22 29 0.48
23 11 0.18
24 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (22 bp):
AAATTATAAAAAAAATATATAA
Found at i:48143249 original size:19 final size:19
Alignment explanation
Indices: 48143153--48143368 Score: 95
Period size: 19 Copynumber: 10.9 Consensus size: 19
48143143 GATATGTGGT
48143153 AAAAAATGATAAAAA--ATA
1 AAAAAAT-ATAAAAATTATA
*
48143171 AAAATAA-ATAAAAGTTATA
1 AAAA-AATATAAAAATTATA
* **
48143190 AAAATGAT-TAAATTTTAATA
1 AAAA-AATATAAAAATT-ATA
*
48143210 AAAATATATAAAAATTATA
1 AAAAAATATAAAAATTATA
48143229 AAAAAATATAAAAA-TAGTAA
1 AAAAAATATAAAAATTA-T-A
*
48143249 AAGAAAATTTATAAAATATATA
1 AA-AAAATATA-AAAAT-TATA
*
48143271 GAAAAAATTTATAAAATT-TA
1 -AAAAAATATA-AAAATTATA
* * * * **
48143291 TAAAATTTTATAAAGTCCTA
1 AAAAAATATA-AAAATTATA
* * *
48143311 AGAAAATTATAAAAAATGTA
1 A-AAAAATATAAAAATTATA
*
48143331 AAGAAATAT-AAAATTCATA
1 AAAAAATATAAAAATT-ATA
48143350 AAAAAATTATAAAAATTAT
1 AAAAAA-TATAAAAATTAT
48143369 CGTACTAAAA
Statistics
Matches: 156, Mismatches: 24, Indels: 34
0.73 0.11 0.16
Matches are distributed among these distances:
17 6 0.04
18 11 0.07
19 62 0.40
20 31 0.20
21 22 0.14
22 19 0.12
23 3 0.02
24 2 0.01
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (19 bp):
AAAAAATATAAAAATTATA
Found at i:48143261 original size:23 final size:22
Alignment explanation
Indices: 48143209--48143295 Score: 85
Period size: 22 Copynumber: 4.0 Consensus size: 22
48143199 AAATTTTAAT
*
48143209 AAAAATATATAAAA-AT-TATAA
1 AAAAATTTATAAAATATATA-AA
48143230 AAAAA--TATAAAA-ATAGTAAA
1 AAAAATTTATAAAATATA-TAAA
*
48143250 AGAAAATTTATAAAATATATAGA
1 A-AAAATTTATAAAATATATAAA
*
48143273 AAAAATTTATAAAATTTATAAA
1 AAAAATTTATAAAATATATAAA
48143295 A
1 A
48143296 TTTTATAAAG
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.16
20 3 0.05
21 11 0.19
22 20 0.35
23 11 0.19
24 3 0.05
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (22 bp):
AAAAATTTATAAAATATATAAA
Found at i:48143300 original size:10 final size:9
Alignment explanation
Indices: 48143274--48143304 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
48143264 ATATATAGAA
48143274 AAAATTTAT
1 AAAATTTAT
48143283 AAAATTTAT
1 AAAATTTAT
48143292 AAAATTTTAT
1 AAAA-TTTAT
48143302 AAA
1 AAA
48143305 GTCCTAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATTTAT
Found at i:48143551 original size:19 final size:19
Alignment explanation
Indices: 48143527--48143564 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
48143517 AAAGTTAATG
48143527 ATTAAAGAGTCTTTTTGAT
1 ATTAAAGAGTCTTTTTGAT
48143546 ATTAAAGAGTCTTTTTGAT
1 ATTAAAGAGTCTTTTTGAT
48143565 GTATTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (19 bp):
ATTAAAGAGTCTTTTTGAT
Found at i:48144780 original size:2 final size:2
Alignment explanation
Indices: 48144773--48144800 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48144763 GTAACTCTTT
48144773 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
48144801 ATGAAAATCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48149086 original size:2 final size:2
Alignment explanation
Indices: 48149079--48149115 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
48149069 CGTAGATACA
48149079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48149116 GATTCGTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:48151823 original size:18 final size:17
Alignment explanation
Indices: 48151800--48151833 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48151790 TTTTGAATTT
48151800 TATTATTTATTTAATATA
1 TATTA-TTATTTAATATA
*
48151818 TATTATTATTTTATAT
1 TATTATTATTTAATAT
48151834 TAAAATTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATTATTTAATATA
Found at i:48152095 original size:15 final size:15
Alignment explanation
Indices: 48152075--48152180 Score: 56
Period size: 15 Copynumber: 6.7 Consensus size: 15
48152065 CTATATTTAT
*
48152075 ATATTATTTGT-TTTC
1 ATATTATTT-TATTAC
48152090 ATATTATTTTATTAC
1 ATATTATTTTATTAC
* *
48152105 ATATTATATTTTACTCC
1 ATA-T-TATTTTATTAC
*
48152122 ATATGATATTTT-TTAT
1 ATAT--TATTTTATTAC
48152138 ATATTATATTTA-TAC
1 ATATTAT-TTTATTAC
* *
48152153 ATTTTATTATATATATAT
1 ATATTATT-T-TAT-TAC
48152171 ATATTATTTT
1 ATATTATTTT
48152181 GTTTATCATA
Statistics
Matches: 71, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
14 5 0.07
15 27 0.38
16 10 0.14
17 20 0.28
18 9 0.13
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (15 bp):
ATATTATTTTATTAC
Found at i:48152116 original size:17 final size:17
Alignment explanation
Indices: 48152094--48152148 Score: 67
Period size: 17 Copynumber: 3.3 Consensus size: 17
48152084 GTTTTCATAT
48152094 TATTTTATTACATATTA
1 TATTTTATTACATATTA
* * *
48152111 TATTTTACTCCATATGA
1 TATTTTATTACATATTA
*
48152128 TATTTT-TTATATATTA
1 TATTTTATTACATATTA
48152144 TATTT
1 TATTT
48152149 ATACATTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
16 11 0.35
17 20 0.65
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTTTATTACATATTA
Found at i:48152177 original size:18 final size:18
Alignment explanation
Indices: 48152135--48152178 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
48152125 TGATATTTTT
*
48152135 TATA-TATTATATTTATA
1 TATATTATTATATATATA
* *
48152152 CATTTTATTATATATATA
1 TATATTATTATATATATA
48152170 TATATTATT
1 TATATTATT
48152179 TTGTTTATCA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTATTATATATATA
Found at i:48163121 original size:87 final size:87
Alignment explanation
Indices: 48162989--48163640 Score: 924
Period size: 87 Copynumber: 7.5 Consensus size: 87
48162979 TAGAGAAACA
* * * *
48162989 GATTTGGCATCTCTGTATTCGACAGGGAGCAGATCGGAGATATAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCGTCTCTGTATT-GTCAGAGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGT
* *
48163054 TTATGTTGAAGCAAATCGAAGAT
65 TTACGTTGAAGCAAATCTAAGAT
*
48163077 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGATGATATAGCTGATTTGGCTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTT
48163142 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* *
48163164 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGACATAGCTGATTTAGCTTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTT
48163229 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* *
48163251 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGACATAGCTGATTTGGATTTCACGTGTT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTT
48163316 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
** *
48163338 GATTTGATGTCTC--TATTGTCAAAGAGCAGATCGAAGA-ATTAGCTGATTTGGCTTTCACGTGT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA-TAGCTGATTTGGCTTTCACGTGT
*
48163400 TTATGTTGAAAGCAAATCTAAGAT
65 TTACGTTG-AAGCAAATCTAAGAT
* * *
48163424 GATTTGGCGTCTCTGTATCGTCAGAGAGCAGATCAAAGATATAGCTGATTTGGCTATCACGTGTT
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTT
48163489 TACGTTGAAGCAAATCTAAGAT
66 TACGTTGAAGCAAATCTAAGAT
* * * *
48163511 GATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAA-ACATAGCTGATTTGGC-GTCTC-TGTA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGT-
* * *
48163573 TT--GTCAGAGAGCAGATCGAAGATAGAT
65 TTACGT-TGA-AGCAAATC---TA-AGAT
*
48163600 GATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
1 GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATA
48163641 GTAGATTTGA
Statistics
Matches: 517, Mismatches: 34, Indels: 24
0.90 0.06 0.04
Matches are distributed among these distances:
83 2 0.00
84 6 0.01
85 64 0.12
86 41 0.08
87 291 0.56
88 69 0.13
89 42 0.08
90 2 0.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (87 bp):
GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATATAGCTGATTTGGCTTTCACGTGTT
TACGTTGAAGCAAATCTAAGAT
Found at i:48163618 original size:44 final size:44
Alignment explanation
Indices: 48163073--48163726 Score: 293
Period size: 44 Copynumber: 15.0 Consensus size: 44
48163063 AGCAAATCGA
*
48163073 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGATGATAT
1 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGA--AGAT
* * * * * *
48163119 AGCTGATTTGGCTTTCACGTGT-TTACGT-TGA-AGCAAATC---TA-
1 AGATGATTTGGC-GTCTC-TGTATT--GTCAGAGAGCAGATCGAAGAT
48163160 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGACAT
1 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAG--AT
* * * * * * *
48163206 AGCTGATTTAGCTTTCACGTGT-TTACGT-TGA-AGCAAATC---TA-
1 AGATGATTTGGC-GTCTC-TGTATT--GTCAGAGAGCAGATCGAAGAT
48163247 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGACAT
1 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAG--AT
* ** * * * *
48163293 AGCTGATTTGGATTTCACGTGT-TTACGT-TGA-AGCAAATC---TA-
1 AGATGATTTGG-CGTCTC-TGTATT--GTCAGAGAGCAGATCGAAGAT
** *
48163334 AGATGATTTGATGTCTC--TATTGTCAAAGAGCAGATCGAAGAATT
1 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAG-A-T
* * * * * * * *
48163378 AGCTGATTTGGCTTTCACGTGTTTATGT-TGAAAGCAAATC---TA-
1 AGATGATTTGGC-GTCTC-TGTAT-TGTCAGAGAGCAGATCGAAGAT
* *
48163420 AGATGATTTGGCGTCTCTGTATCGTCAGAGAGCAGATCAAAGATAT
1 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAG--AT
* * * * * *
48163466 AGCTGATTTGGCTATCACGTGT-TTACGT-TGA-AGCAAATC---TA-
1 AGATGATTTGGC-GTCTC-TGTATT--GTCAGAGAGCAGATCGAAGAT
* *
48163507 AGATGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAACAT
1 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCG-AAGAT
*
48163552 AGCTGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
1 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
*
48163596 AGATGATTTGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
1 AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
* *
48163640 AG-TAGATTTGACGTCTCTGCATTGTCAGAGAGCAGATCGAAGAT
1 AGAT-GATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
* * * * *
48163684 AGCA-GATTTGGCATCTTTGTGTTCGACAGAGAGCAGATAGAAG
1 AG-ATGATTTGGCGTCTCTGTATT-GTCAGAGAGCAGATCGAAG
48163727 TATCAGCATG
Statistics
Matches: 452, Mismatches: 89, Indels: 135
0.67 0.13 0.20
Matches are distributed among these distances:
36 2 0.00
37 2 0.00
38 15 0.03
39 17 0.04
40 53 0.12
41 43 0.10
42 17 0.04
43 1 0.00
44 112 0.25
45 60 0.13
46 42 0.09
47 47 0.10
48 30 0.07
49 11 0.02
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.32
Consensus pattern (44 bp):
AGATGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGAT
Found at i:48165361 original size:18 final size:17
Alignment explanation
Indices: 48165338--48165371 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
48165328 TTTTGAATTT
48165338 TATTATTTATTTAATATA
1 TATTA-TTATTTAATATA
*
48165356 TATTATTATTTTATAT
1 TATTATTATTTAATAT
48165372 TAAAATTGTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTATTATTTAATATA
Found at i:48165632 original size:23 final size:23
Alignment explanation
Indices: 48165605--48165649 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
48165595 ATATTTCACT
48165605 ATATTTATATATTATTTGTTTTC
1 ATATTTATATATTATTTGTTTTC
48165628 ATATTTATATATTATTTGTTTT
1 ATATTTATATATTATTTGTTTT
48165650 TATAAGTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (23 bp):
ATATTTATATATTATTTGTTTTC
Done.