Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 65 of 344
Found at i:21033245 original size:44 final size:44
Alignment explanation
Indices: 21032836--21033427 Score: 160
Period size: 44 Copynumber: 13.5 Consensus size: 44
21032826 GACGGTGAGC
* *
21032836 CTTATCCCCCTAAGCAATAGGGTAACAGGCT-AAAAGTTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAAA-TTACAGAT
* * * ** ** * *
21032880 CTTATATCCCTAAGTAGTAGCGG-AGCAGATTGAACACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGTAACAGGCTGAA-A-ATTACAGAT
* * *
21032924 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
* * * * * *
21032968 CTTCTCTCCCTAAGCAGTA--GTAA-A-GCAGATCGAA-CACGGTGAGC
1 CTTATCTCCCTAAGCAGTAGGGTAACAGGCTGA--AAATTAC--AGA-T
* * * *
21033012 CTTAACCCCCTAAGTAGTAGGGTAACAGGCTGGAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
* * * * * * * *
21033056 CTTATCGCCTTAAGCAGTAGTGG-AGCA-GAT-CAAA-GACGGTGAGC
1 CTTATCTCCCTAAGCAGTAG-GGTAACAGGCTGAAAATTAC--AGA-T
* * *
21033100 CTTAAC-CTCCTAAGCAGTAGGGTAACAGGATGGAAATTACAGAT
1 CTTATCTC-CCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
** * ** * *
21033144 CTTATCTCCCTAAGCAGTAGAGG-AGTA-GATCGAAGACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGTAACAGGCT-GAA-A-ATTACAGAT
* *
21033188 CTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
* * * * ** * *
21033232 CTTATCTCACTAAGTAGTAGTGG-AGCA-GATCGAAGACGGT-GAG-C
1 CTTATCTCCCTAAGCAGTAG-GGTAACAGGCT-GAA-A-ATTACAGAT
** * * *
21033276 CCCAACCCCCTAAGCAATAGGGTAACAGGCTGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
* * * * * *
21033320 CTTATCTCTCTAAGCAGTAGTGG-AGCA-GATCAAAGAGGGTA-AG-C
1 CTTATCTCCCTAAGCAGTAG-GGTAACAGGCTGAAA-A--TTACAGAT
*
21033364 CTTGA-C-CCCTTAAGCAGTAGGGTAACAGGCTGGAAATTACAGAT
1 CTT-ATCTCCC-TAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
21033408 CTTATCTCCCTAAGCAGTAG
1 CTTATCTCCCTAAGCAGTAG
21033428 CAGAGCAGAT
Statistics
Matches: 376, Mismatches: 117, Indels: 110
0.62 0.19 0.18
Matches are distributed among these distances:
40 3 0.01
41 5 0.01
42 14 0.04
43 41 0.11
44 248 0.66
45 42 0.11
46 15 0.04
47 5 0.01
48 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGAT
Found at i:21034488 original size:29 final size:29
Alignment explanation
Indices: 21034456--21034524 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 29
21034446 TATTCTAATA
21034456 CTATTATTATTTAT-CTAATTATTAT-TTAT
1 CTATTATTATTTATACT-ATTATTATATT-T
21034485 CTATT-TATATTTATACTATTATTATATTT
1 CTATTAT-TATTTATACTATTATTATATTT
21034514 CTATTTATTAT
1 CTA-TTATTAT
21034525 ATTTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
28 1 0.03
29 24 0.69
30 9 0.26
31 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.62
Consensus pattern (29 bp):
CTATTATTATTTATACTATTATTATATTT
Found at i:21034501 original size:44 final size:45
Alignment explanation
Indices: 21034453--21034559 Score: 130
Period size: 44 Copynumber: 2.4 Consensus size: 45
21034443 TGCTATTCTA
21034453 ATACTATTATTATTTATCTAATTATTAT-TTATCTATTTATA-TT-T
1 ATACTATTATTATTT-TCTAATTATTATATT-TCTATTTATATTTAT
* * *
21034497 ATACTATTATTATATTTCTATTTATTATATTTTTATTTCTATTTAT
1 ATACTATTATTAT-TTTCTAATTATTATATTTCTATTTATATTTAT
*
21034543 ATACTAATATTATTTTC
1 ATACTATTATTATTTTC
21034560 ATTATATATG
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
44 32 0.58
45 10 0.18
46 13 0.24
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (45 bp):
ATACTATTATTATTTTCTAATTATTATATTTCTATTTATATTTAT
Found at i:21034528 original size:15 final size:15
Alignment explanation
Indices: 21034459--21034524 Score: 84
Period size: 15 Copynumber: 4.5 Consensus size: 15
21034449 TCTAATACTA
*
21034459 TTATTATTTATCTAA
1 TTATTATTTATCTAT
21034474 TTATTATTTATCTAT
1 TTATTATTTATCTAT
21034489 TTA-TATTTATACTA-
1 TTATTATTTAT-CTAT
21034503 TTATTATATT-TCTAT
1 TTATTAT-TTATCTAT
21034518 TTATTAT
1 TTATTAT
21034525 ATTTTTATTT
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
14 13 0.28
15 31 0.67
16 2 0.04
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTATTTATCTAT
Found at i:21034533 original size:15 final size:15
Alignment explanation
Indices: 21034416--21034534 Score: 58
Period size: 15 Copynumber: 7.1 Consensus size: 15
21034406 ATTACTATTG
* *
21034416 TTATTATGTTTCTAT
1 TTATTATATTTTTAT
*
21034431 TTATATTTATTTTGCTAT
1 TTAT-TATATTTT--TAT
* *
21034449 TCTAATACTATTATTAT
1 T-TATTA-TATTTTTAT
21034466 TTATCTAATTATTATTTAT
1 TTAT-T-A-TATT-TTTAT
* *
21034485 CTATTTATATTTATACT
1 TTA-TTATATTTTTA-T
*
21034502 ATTATTATATTTCTAT
1 -TTATTATATTTTTAT
21034518 TTATTATATTTTTAT
1 TTATTATATTTTTAT
21034533 TT
1 TT
21034535 CTATTTATAT
Statistics
Matches: 79, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
15 20 0.25
16 11 0.14
17 20 0.25
18 13 0.16
19 14 0.18
20 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.64
Consensus pattern (15 bp):
TTATTATATTTTTAT
Found at i:21034691 original size:25 final size:25
Alignment explanation
Indices: 21034663--21034780 Score: 98
Period size: 25 Copynumber: 4.7 Consensus size: 25
21034653 CTCATTTCAA
21034663 ATTTTTATATATTATTTACTTT-AAT
1 ATTTTTATATATTATTTA-TTTAAAT
* *
21034688 ATTTTCATATATTATGTATTTCAAACT
1 ATTTTTATATATTATTTATTT-AAA-T
* * * * *
21034715 TTTTTTACACATTATATATTTTGAAT
1 ATTTTTATATATTATTTA-TTTAAAT
* *
21034741 -TGTTTATATATTATTT-TTTAAAG
1 ATTTTTATATATTATTTATTTAAAT
21034764 ATTTTTATATATTATTT
1 ATTTTTATATATTATTT
21034781 TATCTTGAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
23 5 0.07
24 18 0.25
25 28 0.38
26 3 0.04
27 16 0.22
28 3 0.04
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.60
Consensus pattern (25 bp):
ATTTTTATATATTATTTATTTAAAT
Found at i:21041361 original size:64 final size:64
Alignment explanation
Indices: 21041288--21041412 Score: 187
Period size: 64 Copynumber: 2.0 Consensus size: 64
21041278 TCATTCATAA
*
21041288 CACATCTAGTAAGGAGCATTAGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGAAT
1 CACATCTAGTAAGGAGCATTAGATTCATTTCGAGCATAGCATCCTAATTATTTGACATAAGAAT
* * ** * *
21041352 CACATCTAGTTAGGAGCATTTGATTCATTTTTAGCATAGTATCCTAATTATTTGGCATAAG
1 CACATCTAGTAAGGAGCATTAGATTCATTTCGAGCATAGCATCCTAATTATTTGACATAAG
21041413 CATAGATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (64 bp):
CACATCTAGTAAGGAGCATTAGATTCATTTCGAGCATAGCATCCTAATTATTTGACATAAGAAT
Found at i:21041535 original size:43 final size:45
Alignment explanation
Indices: 21041487--21041593 Score: 159
Period size: 44 Copynumber: 2.5 Consensus size: 45
21041477 ATTCACTAGC
* *
21041487 CTTATC-CCTCTAAGCAGTAG-GGAACAGGTTGAAAATTACAGAT
1 CTTATCTCCTCTAAGCAGTAGAGAAACAGGCTGAAAATTACAGAT
*
21041530 CTTATCTCCT-TAAGCAGTAGAGAAACAGGCTGGAAATTACAGAT
1 CTTATCTCCTCTAAGCAGTAGAGAAACAGGCTGAAAATTACAGAT
21041574 CTTATCTCC-CTAAGCAGTAG
1 CTTATCTCCTCTAAGCAGTAG
21041594 TGGAGCGGAG
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
43 16 0.28
44 42 0.72
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (45 bp):
CTTATCTCCTCTAAGCAGTAGAGAAACAGGCTGAAAATTACAGAT
Found at i:21041657 original size:88 final size:87
Alignment explanation
Indices: 21041540--21043320 Score: 2033
Period size: 88 Copynumber: 20.3 Consensus size: 87
21041530 CTTATCTCCT
* * * * *
21041540 TAAGCAGTAGAGAAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGAGC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
21041605 AAAGACGATGAGCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * ** * * ** * **
21041628 TAAACAGTAGGGAAACAGTTTAAAGATTACAAACCTTATCTCCCTAAATAGTAGTGAAGTGGATC
1 TAAGCAGTAGGGTAACAGGCTAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
21041693 GAAGACGGTGAGCCTTAACCCCT
65 GAAGACGGTGAGCCTTAACCCCC
* *
21041716 TAAGTAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
21041781 GAACACGGTGAGCCTTAACCCCT
65 GAAGACGGTGAGCCTTAACCCCC
* ** * *
21041804 TAAGCAGTAGGGTAACAGGCTGAATATTACATTTCTTATCTCCCTAAGCAGTAGCGGAACAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
21041869 GAACACGATGAACCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* *
21041892 TAAGCAGTAGGGTAACAGGCTCGAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
21041957 GAACATGATGAGCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * *
21041980 TAAGTAGTAGGGTACCAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
21042045 AAAGACGGTGAGCCTTAACCCTC
65 GAAGACGGTGAGCCTTAACCCCC
** ** * * * * **
21042068 TAAATAGTAGGAAAATAGGCTGAAGATTACAGATCTTATCTCCTTAAACAGTAGTGGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
21042133 GAAGACGTTGATCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * *
21042156 TAAGCAGTAGGGTAACAGGATGAAAATTACAAATCTTATCTCCCTAAGCAGCAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
21042221 AAAGACGGTGAGCCTAAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * * * * **
21042244 TAAACAGCAGGGAAACAGGCTGAAGATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * *
21042309 AAAGACGGTGAGCTTTATCCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * * * **
21042332 TAACCAGTAGGGTAACAGGATGAAAATTACAGATCTTATCTCCCTAAACAGTAGTAGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
21042397 GCAA-ACGGTGAGCCTTAA-CCCC
65 G-AAGACGGTGAGCCTTAACCCCC
* * * *
21042419 TAAGCAGTAGGGTAACAGGCTAAAAATTATAAATCTTATCTCCCTAAGTAGTAGTGGACCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* ** **
21042484 GAACACAATGAGCCTTAACCCAT
65 GAAGACGGTGAGCCTTAACCCCC
* * * * * *
21042507 TGAGTAGTAGGGTAACAGGCTGGAAATTACAGATCTTATTTCCCTAACCAGTAGTGGAGCGGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* * * *
21042572 GAACACAGTGAGCCATAACCCCA
65 GAAGACGGTGAGCCTTAACCCCC
* * * * * * **
21042595 TAAACAGTAGCGAAACAAGCTAAAGATTACAGATCTTATCTCCTTAAACAGTAGTGGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCTAAA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
21042660 GAAGACGGTGAGCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * * *
21042683 TAAGCAGTAAGGTAACAAGCTAAAAATTACAGATCTTATCTCCCTAAGCAATAGTGGAGTAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
**
21042748 GAAGACGGTGAATCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* *
21042771 TAAGCAGT-GGGTAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACGGATC
1 TAAGCAGTAGGGTAACAGGCTA-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
21042835 GAAGATGGTGAGCCTTAACCCTC
65 GAAGACGGTGAGCCTTAACCCCC
** * *
21042858 TAAATAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* ** *
21042923 GAACATAGTGAGCCTTAA-CCCT
65 GAAGACGGTGAGCCTTAACCCCC
* * * * * *
21042945 TAAGTAGTAAGGTAACAGGCTGGAAATTATAGATCTTATCTCCTTAAGCTGTAGTGGAGCAGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
21043010 GAACACGGTGAGCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * **
21043033 TAAGCAATAGGGTAACAGGTTAGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCTA-AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
*
21043098 GAAGACAGTGAGCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * * * * * **
21043121 TAAACAGTAGGGAAATAGGCTGAAGATTACAGATCTTATCTTCCTAAACAGTAGTGGAGTGGATC
1 TAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
21043186 GAAGACGGTGAGCCTTAACCCCC
65 GAAGACGGTGAGCCTTAACCCCC
* * *
21043209 TAAGCAAT-GGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAAGCAGTAGTGAAGCAGATC
1 TAAGCAGTAGGGTAACAGGCTAAAA-TTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC
* *
21043273 GAACACGGTGAGCCTTAACCCTC
65 GAAGACGGTGAGCCTTAACCCCC
*
21043296 TAAGCAGTAGGGTAACAAGCTAAAA
1 TAAGCAGTAGGGTAACAGGCTAAAA
21043321 CACGGTGAGC
Statistics
Matches: 1447, Mismatches: 231, Indels: 30
0.85 0.14 0.02
Matches are distributed among these distances:
86 6 0.00
87 296 0.20
88 1135 0.78
89 10 0.01
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (87 bp):
TAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG
AAGACGGTGAGCCTTAACCCCC
Found at i:21041852 original size:44 final size:43
Alignment explanation
Indices: 21041804--21042033 Score: 164
Period size: 44 Copynumber: 5.2 Consensus size: 43
21041794 CTTAACCCCT
*
21041804 TAAGCAGTAGGGTAACAGGCT-GAATATTACATTTCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCTCGAA-ATTACA-ATCTTATCTCCC
* ** * * * *
21041848 TAAGCAGTAGCGG-AACA-GATCGAACACGATGAACCTTAACCCCC
1 TAAGCAGTAG-GGTAACAGGCTCGAA-ATTA-CAATCTTATCTCCC
21041892 TAAGCAGTAGGGTAACAGGCTCGAAATTACAAATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCTCGAAATTAC-AATCTTATCTCCC
* * * * ** * *
21041936 TAAGCAGTAGTGG-AGCA-GATCGAACATGATGAGCCTTAACCCCC
1 TAAGCAGTAG-GGTAACAGGCTCGAA-ATTA-CAATCTTATCTCCC
* * *
21041980 TAAGTAGTAGGGTACCAGGCTGGAAATTACAGATCTTATCTCCC
1 TAAGCAGTAGGGTAACAGGCTCGAAATTACA-ATCTTATCTCCC
21042024 TAAGCAGTAG
1 TAAGCAGTAG
21042034 TGGAGCAGAT
Statistics
Matches: 139, Mismatches: 35, Indels: 24
0.70 0.18 0.12
Matches are distributed among these distances:
43 13 0.09
44 110 0.79
45 16 0.12
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (43 bp):
TAAGCAGTAGGGTAACAGGCTCGAAATTACAATCTTATCTCCC
Found at i:21042561 original size:263 final size:264
Alignment explanation
Indices: 21041544--21043312 Score: 2256
Period size: 264 Copynumber: 6.7 Consensus size: 264
21041534 TCTCCTTAAG
* * * * * *
21041544 CAGTAGAGAAACAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGAGCAAAG
1 CAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAG
* * * ** * *
21041609 ACGATGAGCCTTAACCCCCTAAACAGTAGGGAAACAGTTTAAAGATTACAAACCTTATCTCCCTA
66 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCTCCCTA
** * ** * * * *
21041674 AATAGTAGTGAAGTGGATCGAAGACGGTGAGCCTTAACCCCTTAAGTAGTAGGGTAACAGGCTGA
131 AGCAGTAGTGGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGG
* * * *
21041739 AAATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAACACGGTGAGCCTTAACCCCT
196 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAGACGGTGAGCCTTAACCCCC
*
21041804 TAAG
261 TAAA
* * ** * * *** *
21041808 CAGTAGGGTAACAGGCTGAATATTACATTTCTTATCTCCCTAAGCAGTAGCGGAACAGATCGAAC
1 CAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAG
* * **
21041873 ACGATGAACCTTAACCCCCTAAGCAGTAGGGTAACAGGCTCGAAATTACAAATCTTATCTCCCTA
66 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCTCCCTA
* * * *
21041938 AGCAGTAGTGGAGCAGATCGAACATGATGAGCCTTAACCCCCTAAGTAGTAGGGTACCAGGCTGG
131 AGCAGTAGTGGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGG
* * *
21042003 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAGCCTTAACCCTC
196 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAGACGGTGAGCCTTAACCCCC
21042068 TAAA
261 TAAA
* * * * *
21042072 TAGTAGGAAAATAGGCTGAAGATTACAGATCTTATCTCCTTAAACAGTAGTGGAGTGGATCGAAG
1 CAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAG
* * * *
21042137 ACGTTGATCCTTAACCCCCTAAGCAGTAGGGTAACAGGATGAAAATTACAAATCTTATCTCCCTA
66 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCTCCCTA
* * * * * * *
21042202 AGCAGCAGTGGAGCAGATCAAAGACGGTGAGCCTAAACCCCCTAAACAGCAGGGAAACAGGCT-G
131 AGCAGTAGTGGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGG
* * * * *
21042266 AAGATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCAAAGACGGTGAGCTTTATCCCC
196 AA-ATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAGACGGTGAGCCTTAACCCC
*
21042331 CTAAC
260 CTAAA
* * *
21042336 CAGTAGGGTAACAGGATGAAAATTACAGATCTTATCTCCCTAAACAGTAGTAGAGTGGATCGCAA
1 CAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCG-AA
*
21042401 -ACGGTGAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTAAAAATTATAAATCTTATCTCCCT
65 GACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCTCCCT
* * ** ** * *
21042464 AAGTAGTAGTGGACCAGATCGAACACAATGAGCCTTAACCCATTGAGTAGTAGGGTAACAGGCTG
130 AAGCAGTAGTGGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
* * * * *
21042529 GAAATTACAGATCTTATTTCCCTAACCAGTAGTGGAGCGGATCGAACACAGTGAGCCATAACCCC
195 GAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAGACGGTGAGCCTTAACCCC
*
21042594 ATAAA
260 CTAAA
* * *
21042599 CAGTAGCGAAACAAGCT-AAAGATTACAGATCTTATCTCCTTAAACAGTAGTGGAGTGGATCGAA
1 CAGTAGGGAAACAGGCTGAAA-ATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAA
* * *
21042663 GACGGTGAGCCTTAACCCCCTAAGCAGTAAGGTAACAAGCTAAAAATTACAGATCTTATCTCCCT
65 GACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCTCCCT
* * * ** *
21042728 AAGCAATAGTGGAGTAGATCGAAGACGGTGAATCTTAACCCCCTAAGCAGT-GGGTAACAGGCTA
130 AAGCAGTAGTGGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
* * *
21042792 GAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAACGGATCGAAGATGGTGAGCCTTAACCCT
195 GAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAGACGGTGAGCCTTAACCCC
21042857 CTAAA
260 CTAAA
* * * * * ** *
21042862 TAGTAGGGTAACAGGCTGAAGATTACAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAC
1 CAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAG
** * * * ** * * *
21042927 ATAGTGAGCCTTAA-CCCTTAAGTAGTAAGGTAACAGGCTGGAAATTATAGATCTTATCTCCTTA
66 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCTCCCTA
* * * *
21042991 AGCTGTAGTGGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGTTAG
131 AGCAGTAGTGGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGG
* *
21043056 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTGGATCGAAGACAGTGAGCCTTAACCCCC
196 AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAGACGGTGAGCCTTAACCCCC
21043121 TAAA
261 TAAA
* * *
21043125 CAGTAGGGAAATAGGCTGAAGATTACAGATCTTATCTTCCTAAACAGTAGTGGAGTGGATCGAAG
1 CAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAG
* *
21043190 ACGGTGAGCCTTAACCCCCTAAGCAAT-GGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTA
66 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCTCCCTA
* *
21043254 AGCAGTAGTGAAGCAGATCGAACACGGTGAGCCTTAACCCTCTAAGCAGTAGGGTAACA
131 AGCAGTAGTGGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
21043313 AGCTAAAACA
Statistics
Matches: 1293, Mismatches: 203, Indels: 19
0.85 0.13 0.01
Matches are distributed among these distances:
262 91 0.07
263 588 0.45
264 612 0.47
265 2 0.00
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (264 bp):
CAGTAGGGAAACAGGCTGAAAATTACAGATCTTATCTCCCTAAACAGTAGTGGAGTGGATCGAAG
ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTATCTCCCTA
AGCAGTAGTGGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGG
AAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCGAAGACGGTGAGCCTTAACCCCC
TAAA
Found at i:21042947 original size:43 final size:43
Alignment explanation
Indices: 21042899--21043030 Score: 101
Period size: 43 Copynumber: 3.0 Consensus size: 43
21042889 GATCTTATCT
21042899 CCTTAAGCAGTAGTGGAGCAGATCGAACATAGTGAGCCTTAAC
1 CCTTAAGCAGTAGTGGAGCAGATCGAACATAGTGAGCCTTAAC
* * * * * * *
21042942 CCTTAAGTAGTAAG-GTAACAGGCTGGAA-ATTA-T-AGATCTTATC
1 CCTTAAGCAGT-AGTGGAGCA-GATCGAACA-TAGTGAG-CCTTAAC
* **
21042985 TCCTTAAGCTGTAGTGGAGCAGATCGAACACGGTGAGCCTTAAC
1 -CCTTAAGCAGTAGTGGAGCAGATCGAACATAGTGAGCCTTAAC
21043029 CC
1 CC
21043031 CCTAAGCAAT
Statistics
Matches: 63, Mismatches: 17, Indels: 18
0.64 0.17 0.18
Matches are distributed among these distances:
42 2 0.03
43 30 0.48
44 29 0.46
45 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (43 bp):
CCTTAAGCAGTAGTGGAGCAGATCGAACATAGTGAGCCTTAAC
Found at i:21043122 original size:44 final size:44
Alignment explanation
Indices: 21043074--21043211 Score: 129
Period size: 44 Copynumber: 3.1 Consensus size: 44
21043064 GATCTTATCT
*
21043074 CCCTAAGCAGTAGTGGAGTGGATCGAAGACAGTGAGCCTTAACC
1 CCCTAAACAGTAGTGGAGTGGATCGAAGACAGTGAGCCTTAACC
* * * ** * * *
21043118 CCCTAAACAGTAG-GGAAATAGGCT-GAAGATTACAGA-TCTTATCT
1 CCCTAAACAGTAGTGG-AGT-GGATCGAAGA-CAGTGAGCCTTAACC
* *
21043162 TCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACC
1 CCCTAAACAGTAGTGGAGTGGATCGAAGACAGTGAGCCTTAACC
21043206 CCCTAA
1 CCCTAA
21043212 GCAATGGGTA
Statistics
Matches: 68, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
43 7 0.10
44 53 0.78
45 8 0.12
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (44 bp):
CCCTAAACAGTAGTGGAGTGGATCGAAGACAGTGAGCCTTAACC
Found at i:21043329 original size:45 final size:45
Alignment explanation
Indices: 21043274--21043445 Score: 167
Period size: 45 Copynumber: 3.9 Consensus size: 45
21043264 AAGCAGATCG
*
21043274 AACACGGTGAGCCTTAACCCTCTAAGCAGTAGGGTAACAAGCTAA
1 AACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
* *
21043319 AACACGGTGAGCTTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGA
1 AACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTA-A
* * * * * * **
21043365 AATTAC--AGA-TCTTATCTCCCTAAGCAGTA--GTAGAGC-AGATCG
1 AA-CACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTA-A-CAAGCTAA
21043407 AACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
1 AACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
21043446 GGCTGGAAAT
Statistics
Matches: 99, Mismatches: 18, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 5 0.05
44 35 0.35
45 44 0.44
46 6 0.06
47 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (45 bp):
AACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
Found at i:21043378 original size:133 final size:132
Alignment explanation
Indices: 21043190--21043445 Score: 435
Period size: 133 Copynumber: 1.9 Consensus size: 132
21043180 TGGATCGAAG
21043190 ACGGTGAGCCTTAACCCCCTAAGCAATGGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAA
1 ACGGTGAGCCTTAACCCCCTAAGCAATGGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAA
*
21043255 GCAGTAGT-GAAGCAGATCGAACACGGTGAGCCTTAACCCTCTAAGCAGTAGGGTAACAAGCTAA
66 GCAGTAGTAG-AGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
21043319 AAC
130 AAC
* * *
21043322 ACGGTGAGCTTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAA-TTACAGATCTTATCTCCCT
1 ACGGTGAGCCTTAACCCCCTAAGCAAT-GGGTAACAGGCTA-AAAGTTACAAATCTTATCTCCCT
21043386 AAGCAGTAGTAGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
64 AAGCAGTAGTAGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACA
21043446 GGCTGGAAAT
Statistics
Matches: 117, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
132 25 0.21
133 88 0.75
134 4 0.03
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (132 bp):
ACGGTGAGCCTTAACCCCCTAAGCAATGGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAA
GCAGTAGTAGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAAA
AC
Found at i:21043430 original size:44 final size:42
Alignment explanation
Indices: 21043249--21043438 Score: 143
Period size: 44 Copynumber: 4.3 Consensus size: 42
21043239 AATCTTATCT
*
21043249 CCCTAAGCAGTAGTGAAGCAGATCGAACACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGT-AA-CAGATAGAACACGGTGAGCCTTAACC
* * * *
21043293 CTCTAAGCAGTAGGGTAACAAGCTAAAACACGGTGAGCTTTAACC
1 CCCTAAGCAGTA--GTAAC-AGATAGAACACGGTGAGCCTTAACC
* * * * * *
21043338 CCCTAAGCAGTAGGGTAACAGGCTAGAA-A--TTACAGATCTTATCT
1 CCCTAAGCAGTA--GTAACA-GATAGAACACGGT-GAG-CCTTAACC
*
21043382 CCCTAAGCAGTAGTAGAGCAGATCGAACACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTA-A-CAGATAGAACACGGTGAGCCTTAACC
21043426 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
21043439 GGTAACAGGC
Statistics
Matches: 115, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
42 4 0.03
43 8 0.07
44 51 0.44
45 49 0.43
46 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (42 bp):
CCCTAAGCAGTAGTAACAGATAGAACACGGTGAGCCTTAACC
Found at i:21043431 original size:88 final size:88
Alignment explanation
Indices: 21043322--21043931 Score: 776
Period size: 88 Copynumber: 6.9 Consensus size: 88
21043312 AAGCTAAAAC
* *
21043322 ACGGTGAGCTTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTCCCTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
* *
21043387 AGCAGTAGTAGAGCAGATCGAAC
66 AGCAGTAGTGGAGCAGATCGAAG
* *
21043410 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCACCTTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
*
21043475 AGCAGTAGCGGAGCAGATCGAAG
66 AGCAGTAGTGGAGCAGATCGAAG
* * *
21043498 ACAGTGAGCCTTTACCCCCTAAGCAGT-GGGTAACAGGCTGGAAATTGCAGATCTTATCTCCCTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
* * *
21043562 AGCAGTAGAGGAGTAGATCAAAG
66 AGCAGTAGTGGAGCAGATCGAAG
* ** * *
21043585 ACGGTGAGCCTTAACCCCCTAAGCAGTCGGGTAACAGGCTAAAAATTACAAATCTTATCTCACTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
21043650 AGCAGTAGTGGAGCAGATCGAAG
66 AGCAGTAGTGGAGCAGATCGAAG
** ** * *
21043673 ACGGTGAGCCCCAACCCCCTAAGCAGTAGCATAACAGGCTGAAAATTACAGATCTTATCTCTCTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
* * * *
21043738 AGCAATAGTGGAGCAAATCAAAA
66 AGCAGTAGTGGAGCAGATCGAAG
* * *
21043761 ACGGTGAGCCTTGACCCCTTAAACAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
*
21043826 AGCAGTATTGGAGCAGATCGAAG
66 AGCAGTAGTGGAGCAGATCGAAG
* * * * * ** * * * *
21043849 ACAGTGAGCCTTATCTCCTTGAGCAACAGTGG-AGCAAGCT-GAAGATTACAAATCATATCTCCC
1 ACGGTGAGCCTTAACCCCCTAAGCAGTAG-GGTAACAGGCTGGAA-ATTACAGATCTTATCTCCC
* *
21043912 TAAGCAGTAATGGAGTAGAT
64 TAAGCAGTAGTGGAGCAGAT
21043932 TGATATGAAA
Statistics
Matches: 454, Mismatches: 65, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
87 82 0.18
88 370 0.81
89 2 0.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.21
Consensus pattern (88 bp):
ACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGGAAATTACAGATCTTATCTCCCTA
AGCAGTAGTGGAGCAGATCGAAG
Found at i:21043569 original size:308 final size:308
Alignment explanation
Indices: 21043011--21043628 Score: 918
Period size: 308 Copynumber: 2.0 Consensus size: 308
21043001 GAGCAGATCG
*
21043011 AACACGGTGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGTTAGAAATTACAGATCTTATCTCC
1 AACACGGTGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAGAAATTACAGATCTTATCTCC
* ** * *
21043076 CTAAGCAGTAGTGGAGTGGATCGAAGACAGTGAGCCTTAACCCCCTAAACAGTAGGGAAATAGGC
66 CTAAGCAGTAGTAGAGCAGATCGAACACAGTGAGCCTTAACCCCCTAAACAGTAGGGAAACAGGC
* * ** *
21043141 TGAAGATTACAGATCTTATCTTCCTAAACAGTAGTGGAGTGGATCGAAGACGGTGAGCCTTAACC
131 TGAAGATTACAGATCTTATCTACCTAAACAGTAGCGGAGCAGATCGAAGACAGTGAGCCTTAACC
*
21043206 CCCTAAGCAATGGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAAGCAGTAGTGAAGCAGA
196 CCCTAAGCAATGGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAAGCAGTAGAGAAGCAGA
* *
21043271 TCGAACACGGTGAGCCTTAACCCTCTAAGCAGTAGGGTAACAAGCTAA
261 TCAAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
* *
21043319 AACACGGTGAGCTTTAACCCCCTAAGCAGTAGGGTAACAGGCTAGAAATTACAGATCTTATCTCC
1 AACACGGTGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAGAAATTACAGATCTTATCTCC
* * *
21043384 CTAAGCAGTAGTAGAGCAGATCGAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGC
66 CTAAGCAGTAGTAGAGCAGATCGAACACAGTGAGCCTTAACCCCCTAAACAGTAGGGAAACAGGC
* *
21043449 TGGAA-ATTACAGATCTTATC-ACCTTAAGCAGTAGCGGAGCAGATCGAAGACAGTGAGCCTTTA
131 T-GAAGATTACAGATCTTATCTACC-TAAACAGTAGCGGAGCAGATCGAAGACAGTGAGCCTTAA
* * * * * *
21043512 CCCCCTAAGCAGTGGGTAACAGGCTGGAAA-TTGCAGATCTTATCTCCCTAAGCAGTAGAGGAGT
194 CCCCCTAAGCAATGGGTAACAGGCT-AAAAGTTACAAATCTTATCTCCCTAAGCAGTAGAGAAGC
* * *
21043576 AGATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTCGGGTAACAGGCTAA
258 AGATCAAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
21043627 AA
1 AA
21043629 ATTACAAATC
Statistics
Matches: 277, Mismatches: 30, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
307 2 0.01
308 269 0.97
309 6 0.02
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (308 bp):
AACACGGTGAGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTAGAAATTACAGATCTTATCTCC
CTAAGCAGTAGTAGAGCAGATCGAACACAGTGAGCCTTAACCCCCTAAACAGTAGGGAAACAGGC
TGAAGATTACAGATCTTATCTACCTAAACAGTAGCGGAGCAGATCGAAGACAGTGAGCCTTAACC
CCCTAAGCAATGGGTAACAGGCTAAAAGTTACAAATCTTATCTCCCTAAGCAGTAGAGAAGCAGA
TCAAACACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTAA
Found at i:21044298 original size:5 final size:5
Alignment explanation
Indices: 21044290--21044316 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
21044280 ATTTTTTTGT
21044290 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
21044317 ATTAAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:21044933 original size:15 final size:15
Alignment explanation
Indices: 21044898--21044946 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 15
21044888 TTTATTTATC
21044898 TATTCATATTTCTACTAT
1 TATT-ATATTTCTA-T-T
21044916 TATTATATTTCTATT
1 TATTATATTTCTATT
*
21044931 TATTATATTTTTATT
1 TATTATATTTCTATT
21044946 T
1 T
21044947 CTATTTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 16 0.53
16 1 0.03
17 9 0.30
18 4 0.13
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTATATTTCTATT
Found at i:21048757 original size:28 final size:28
Alignment explanation
Indices: 21048723--21048780 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
21048713 GCCTCTAGAC
21048723 TATTCTAAAACTTGATATTTAATCTATA
1 TATTCTAAAACTTGATATTTAATCTATA
21048751 TATTCTAAAACTTGATATTTAATCTATA
1 TATTCTAAAACTTGATATTTAATCTATA
21048779 TA
1 TA
21048781 CTTTATTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (28 bp):
TATTCTAAAACTTGATATTTAATCTATA
Found at i:21049902 original size:32 final size:31
Alignment explanation
Indices: 21049804--21049905 Score: 159
Period size: 31 Copynumber: 3.3 Consensus size: 31
21049794 GTTACAAAAT
*
21049804 AGTCACTAAACTATTCAAAAGTTCGCATTTA
1 AGTCACTAAACTATTCAAAAGTTCTCATTTA
*
21049835 AGTCACTGAACTATTCAAAAGTTCTCATTTA
1 AGTCACTAAACTATTCAAAAGTTCTCATTTA
* *
21049866 AGTCACTAAACTATTCAAAAGCTTTTTATTTA
1 AGTCACTAAACTATTCAAAAG-TTCTCATTTA
21049898 AGTCACTA
1 AGTCACTA
21049906 GGTTATTAAG
Statistics
Matches: 65, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 49 0.75
32 16 0.25
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (31 bp):
AGTCACTAAACTATTCAAAAGTTCTCATTTA
Found at i:21053459 original size:26 final size:26
Alignment explanation
Indices: 21053430--21053537 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
21053420 TGATAAAAAT
*
21053430 TGATAATGGGTTAGGTAAGTGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21053456 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21053482 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21053508 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21053534 TGAT
1 TGAT
21053538 GGGAATTTCA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21055049 original size:26 final size:26
Alignment explanation
Indices: 21055020--21055072 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
21055010 TTTACAGTTT
21055020 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* * *
21055046 TACCTCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
21055072 T
1 T
21055073 GCATGCTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:21056373 original size:38 final size:38
Alignment explanation
Indices: 21056322--21056398 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
21056312 TATTTTCATT
*
21056322 TTATGTCCTCTTAGTCAGTTTACCAATTTAAAAAATTA
1 TTATGCCCTCTTAGTCAGTTTACCAATTTAAAAAATTA
*
21056360 TTATGCCCTCTTAGTCGGTTTACCAATTTAAAAAATTA
1 TTATGCCCTCTTAGTCAGTTTACCAATTTAAAAAATTA
21056398 T
1 T
21056399 GTAAAATAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (38 bp):
TTATGCCCTCTTAGTCAGTTTACCAATTTAAAAAATTA
Found at i:21061621 original size:196 final size:198
Alignment explanation
Indices: 21061238--21061634 Score: 489
Period size: 196 Copynumber: 2.0 Consensus size: 198
21061228 TATGGATTAG
* * * * *
21061238 ATATGTACAAATATATATAAAAACATTTGAACGAAATATCAGATAAAGTGTTAAAATAATATGAT
1 ATATGTACAAATATACATAAAAACATTTAAACGAAATATCAGACAAAATGCTAAAATAATATGAT
* **** *
21061303 ACAAAAAAGAACTTTAAAATAATAATTTTGTAAAAACAAAGTAAAATTATTAAAAATAGCTCAAC
66 --AAAAAAGAACTTCAAAATAATAATCAAATAAAAACAAAGCAAAATTATTAAAAATA-CTCAAC
* *
21061368 ACATGTTTTTAAAAAAATATTAAGTGAATTTTAAAATAATAAGTATTACAAATAGAAAACTCAAT
128 ACA---TTATAAAAAAATATTAAATGAATTTTAAAATAATAAGTATTACAAATAGAAAACTCAAT
21061433 TAAAATAAT
190 TAAAATAAT
* * * * *
21061442 ATATGTACAAATATACATAAAAATATTTAAATGAGATATTATACAAAATGCTAAAATAATATGAT
1 ATATGTACAAATATACATAAAAACATTTAAACGAAATATCAGACAAAATGCTAAAATAATATGAT
*
21061507 -AAAAA-AACTTCAAAATAATTATACAAATAAAAACAAAGCAAAATTATTAAAATATA-TCAACA
66 AAAAAAGAACTTCAAAATAATAAT-CAAATAAAAACAAAGCAAAATTATTAAAA-ATACTCAACA
* *
21061569 CA-TATATAAAAATATTAAATGAATTTTAAAATAGTAAGT-TATACAAATAGAAAACTCAATTAA
129 CATTATAAAAAAATATTAAATGAATTTTAAAATAATAAGTAT-TACAAATAGAAAACTCAATTAA
21061632 AAT
193 AAT
21061635 TGAATTAAAA
Statistics
Matches: 169, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
195 1 0.01
196 58 0.34
200 23 0.14
201 29 0.17
202 3 0.02
204 55 0.33
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (198 bp):
ATATGTACAAATATACATAAAAACATTTAAACGAAATATCAGACAAAATGCTAAAATAATATGAT
AAAAAAGAACTTCAAAATAATAATCAAATAAAAACAAAGCAAAATTATTAAAAATACTCAACACA
TTATAAAAAAATATTAAATGAATTTTAAAATAATAAGTATTACAAATAGAAAACTCAATTAAAAT
AAT
Found at i:21063580 original size:177 final size:177
Alignment explanation
Indices: 21063184--21064049 Score: 1123
Period size: 177 Copynumber: 4.9 Consensus size: 177
21063174 GTTTTCTCAA
* * * **
21063184 GGAGATAAGATCTACAATCATCAGCCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGC
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATTTC
* * * *
21063249 CAATCTACTCTCTTGCTATCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCTTTG-CGATA
66 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATA
* * *
21063313 CATGGAGATAAGATTCGCCGTCTTCAATCTGCTCCACAACTGCTTAT
131 CATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACAACTGCTTAG
* * * *
21063360 GGAGATAAGATCCTCAATCTTTAGTCTACTGCCTTGCTACCTCAGGAAGATAAGACTACAATTTC
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATTTC
** *
21063425 CATTCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTACTCCATTGCCGATA
66 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATA
*
21063490 CATGGAGATAAGATTAGCCATCTTCGATCTGCTCCACAACTGCTTAG
131 CATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACAACTGCTTAG
* * * ***
21063537 GGAGATAAGATCTTCAATCTTCAGTATGCTTCCTTGCTACCTCAGAAATATAAGACTTGTATCTT
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT-TT
* * * * * * * * * * **
21063602 -GAACCTGCTC-CACTACAACTTCAGGGAGATAAGGCTTGGGGCTGAAATTTGCTCCATTAACGA
65 CCAACCTGCTCTC-TTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGA
** * *
21063665 TACATGGAGATAAGATTTTCCATCTTCGATATACTCCA-AACTGCTTAG
129 TACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACAACTGCTTAG
* *
21063713 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACTACCATCTT
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAAT-TT
* **
21063778 -CAACCTGCTCTCTTGCTACCTCAGAGAAATAAGGCTAGTGGCTTCAATCTGCTCCATTGCCGAT
65 CCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGAT
* * *
21063842 ACAGGGAGATAAGATTCGCC-TCTTTCGATCTTCTCCACTACTGCTTAG
130 ACATGGAGATAAGATTCGCCATC-TTCGATCTGCTCCACAACTGCTTAG
* * * * **
21063890 GGAGATAAGATCTTCAATCTTTAGTCTACTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
1 GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATTTC
* * *
21063955 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTGAAATCTGCTCCATTGCCAATA
66 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATA
21064020 CATGGAGATAAGATTCGCCATCTTCGATCT
131 CATGGAGATAAGATTCGCCATCTTCGATCT
21064050 ACTGCACTAG
Statistics
Matches: 594, Mismatches: 88, Indels: 15
0.85 0.13 0.02
Matches are distributed among these distances:
175 2 0.00
176 256 0.43
177 332 0.56
178 4 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (177 bp):
GGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATTTC
CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCCATTGCCGATA
CATGGAGATAAGATTCGCCATCTTCGATCTGCTCCACAACTGCTTAG
Found at i:21063786 original size:44 final size:46
Alignment explanation
Indices: 21063715--21063810 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 46
21063705 CTGCTTAGGG
* **
21063715 AGATAAGATCTTCAATCTTCAGTCTGCT-TCCTTACTACCTCAG-GA
1 AGATAAGATCTACAATCTTCAACCTGCTCT-CTTACTACCTCAGAGA
* *
21063760 AGATAAGA-CTACCATCTTCAACCTGCTCTCTTGCTACCTCAGAGA
1 AGATAAGATCTACAATCTTCAACCTGCTCTCTTACTACCTCAGAGA
21063805 A-ATAAG
1 AGATAAG
21063811 GCTAGTGGCT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
44 32 0.73
45 12 0.27
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (46 bp):
AGATAAGATCTACAATCTTCAACCTGCTCTCTTACTACCTCAGAGA
Found at i:21063835 original size:353 final size:354
Alignment explanation
Indices: 21063184--21064052 Score: 1111
Period size: 353 Copynumber: 2.5 Consensus size: 354
21063174 GTTTTCTCAA
* * ** * * *
21063184 GGAGATAAGATCTACAATCATCAGCCTGCTTCCTTGCTACCTCAGGAAGATAAGACTACAATCGC
1 GGAGATAAGATCTTCAATCTTCAGTATACTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
* * * * * * * * * **
21063249 CAATCTACTCTCTTGCTATCTCAGAGAGATAAGGCTAGTGGCTAAAATCTGCTCC-TTTGCGATA
66 CAACCTGCTCTCCTACAACCTCAGAGAGATAAGGCTTGGGGCTGAAATCTGCTCCATTAACGATA
* * * *
21063313 CATGGAGATAAGATTCGCCGTCTTCAATCTGCTCCACAACTGCTTATGGAGATAAGATCCTCAAT
131 CATGGAGATAAGATTCGCCATCTTCGATCTACTCCACAACTGCTTAGGGAGATAAGATCCTCAAT
* * **
21063378 CTTTAGTCTACTGCCTTGCTACCTCAGGAAGATAAGACTACAATTTCCATTCTGCTCTCTTGCTA
196 CTTCAGTCTACTGCCTTACTACCTCAGGAAGATAAGACTACAATTTCCAACCTGCTCTCTTGCTA
* *
21063443 CCTCAGAGAGATAAGGCTAGTGGCTAAAATCTACTCCATTGCCGATACATGGAGATAAGATTAGC
261 CCTCAGAGAAATAAGGCTAGTGGCTAAAATCTACTCCATTGCCGATACAGGGAGATAAGATTAGC
21063508 CATC-TTCGATCTGCTCCACAACTGCTTAG
326 C-TCTTTCGATCTGCTCCACAACTGCTTAG
* * * *** **
21063537 GGAGATAAGATCTTCAATCTTCAGTATGCTTCCTTGCTACCTCAGAAATATAAGACTTGTATCTT
1 GGAGATAAGATCTTCAATCTTCAGTATACTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
* * * *
21063602 GAACCTGCTC-CACTACAACTTCAGGGAGATAAGGCTTGGGGCTGAAATTTGCTCCATTAACGAT
66 CAACCTGCTCTC-CTACAACCTCAGAGAGATAAGGCTTGGGGCTGAAATCTGCTCCATTAACGAT
** * *
21063666 ACATGGAGATAAGATTTTCCATCTTCGATATACTCCA-AACTGCTTAGGGAGATAAGATCTTCAA
130 ACATGGAGATAAGATTCGCCATCTTCGATCTACTCCACAACTGCTTAGGGAGATAAGATCCTCAA
* * *
21063730 TCTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACTACCATCTT-CAACCTGCTCTCTTGC
195 TCTTCAGTCTACTGCCTTACTACCTCAGGAAGATAAGACTACAAT-TTCCAACCTGCTCTCTTGC
** * *
21063794 TACCTCAGAGAAATAAGGCTAGTGGCTTCAATCTGCTCCATTGCCGATACAGGGAGATAAGATTC
259 TACCTCAGAGAAATAAGGCTAGTGGCTAAAATCTACTCCATTGCCGATACAGGGAGATAAGATTA
* *
21063859 GCCTCTTTCGATCTTCTCCACTACTGCTTAG
324 GCCTCTTTCGATCTGCTCCACAACTGCTTAG
* *
21063890 GGAGATAAGATCTTCAATCTTTAGTCTACTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
1 GGAGATAAGATCTTCAATCTTCAGTATACTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
* * * ** *
21063955 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGC-TGGTGGCTGAAATCTGCTCCATTGCCAAT
66 CAACCTGCTCTCCTACAACCTCAGAGAGATAAGGCTTGG-GGCTGAAATCTGCTCCATTAACGAT
21064019 ACATGGAGATAAGATTCGCCATCTTCGATCTACT
130 ACATGGAGATAAGATTCGCCATCTTCGATCTACT
21064053 GCACTAGTAC
Statistics
Matches: 438, Mismatches: 72, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
352 6 0.01
353 392 0.89
354 40 0.09
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (354 bp):
GGAGATAAGATCTTCAATCTTCAGTATACTTCCTTGCTACATCAGAAAGATAAGACTACAATCGC
CAACCTGCTCTCCTACAACCTCAGAGAGATAAGGCTTGGGGCTGAAATCTGCTCCATTAACGATA
CATGGAGATAAGATTCGCCATCTTCGATCTACTCCACAACTGCTTAGGGAGATAAGATCCTCAAT
CTTCAGTCTACTGCCTTACTACCTCAGGAAGATAAGACTACAATTTCCAACCTGCTCTCTTGCTA
CCTCAGAGAAATAAGGCTAGTGGCTAAAATCTACTCCATTGCCGATACAGGGAGATAAGATTAGC
CTCTTTCGATCTGCTCCACAACTGCTTAG
Found at i:21072625 original size:19 final size:20
Alignment explanation
Indices: 21072601--21072647 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
21072591 TAATGGTCTT
* *
21072601 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
21072620 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
21072640 -AATGCAAA
1 TAATGCAAA
21072648 GGAGGCATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:21078044 original size:15 final size:14
Alignment explanation
Indices: 21078015--21078045 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21078005 AGGAAATCTA
21078015 TTTTCCTTTTCTTT
1 TTTTCCTTTTCTTT
*
21078029 TTTTTCTTTTCTTT
1 TTTTCCTTTTCTTT
21078043 TTT
1 TTT
21078046 GCTATTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCCTTTTCTTT
Found at i:21091617 original size:11 final size:11
Alignment explanation
Indices: 21091601--21091627 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
21091591 ATGGTAAAAA
21091601 ATATTATTAAT
1 ATATTATTAAT
21091612 ATATTATTAAT
1 ATATTATTAAT
21091623 ATATT
1 ATATT
21091628 TTTTGCTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATATTATTAAT
Found at i:21093687 original size:35 final size:35
Alignment explanation
Indices: 21093641--21093710 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
21093631 ACGGAATAAA
*
21093641 AACAATTTATTTGCTTTCAATGGGAAAGTAAATTC
1 AACAATTTATTTACTTTCAATGGGAAAGTAAATTC
*
21093676 AACAATTTATTTACTTTCAATGGGAGAGTAAATTC
1 AACAATTTATTTACTTTCAATGGGAAAGTAAATTC
21093711 TATCTATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (35 bp):
AACAATTTATTTACTTTCAATGGGAAAGTAAATTC
Found at i:21100496 original size:18 final size:17
Alignment explanation
Indices: 21100469--21100508 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
21100459 ATAGAAGATA
*
21100469 TTATTTTTTTATTTAGTT
1 TTATTATTTTA-TTAGTT
*
21100487 TTATTATTTTATTATTT
1 TTATTATTTTATTAGTT
21100504 TTATT
1 TTATT
21100509 TTATTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (17 bp):
TTATTATTTTATTAGTT
Found at i:21100507 original size:14 final size:14
Alignment explanation
Indices: 21100467--21100514 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
21100457 AAATAGAAGA
*
21100467 TATTATTTTTTTATT
1 TATTATTTTTAT-TT
*
21100482 TAGTT-TTATTATTT
1 TA-TTATTTTTATTT
21100496 TATTATTTTTATTT
1 TATTATTTTTATTT
21100510 TATTA
1 TATTA
21100515 ATTTAGAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 2 0.07
14 17 0.61
15 7 0.25
16 2 0.07
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (14 bp):
TATTATTTTTATTT
Found at i:21104638 original size:12 final size:12
Alignment explanation
Indices: 21104621--21104650 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21104611 CTCACACGTT
21104621 CGTGTGCCAGGC
1 CGTGTGCCAGGC
*
21104633 CGTGTGCTAGGC
1 CGTGTGCCAGGC
21104645 CGTGTG
1 CGTGTG
21104651 AAAACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.27, G:0.43, T:0.23
Consensus pattern (12 bp):
CGTGTGCCAGGC
Found at i:21107878 original size:18 final size:18
Alignment explanation
Indices: 21107855--21107892 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
21107845 AAGTGTAATT
21107855 TTAATTATTTTATAAAAA
1 TTAATTATTTTATAAAAA
* *
21107873 TTAATTTTTTTATAAGAA
1 TTAATTATTTTATAAAAA
21107891 TT
1 TT
21107893 TTATCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TTAATTATTTTATAAAAA
Found at i:21110024 original size:43 final size:42
Alignment explanation
Indices: 21109931--21110024 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 42
21109921 TGCAAGATCA
* * **
21109931 TGTTTGGGACATTGGCATCGTATATGATTCCGTGTAAGACCC
1 TGTTTGGGACAGTGGCATCGTATATGATTACACGTAAGACCC
* *
21109973 TGTCTGGGACAGTGGCATCGATATTTGATTACACGTAAGA-CC
1 TGTTTGGGACAGTGGCATCG-TATATGATTACACGTAAGACCC
21110015 TCGTTTGGGA
1 T-GTTTGGGA
21110025 GGTTGGCATT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 21 0.49
43 22 0.51
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (42 bp):
TGTTTGGGACAGTGGCATCGTATATGATTACACGTAAGACCC
Found at i:21114287 original size:2 final size:2
Alignment explanation
Indices: 21114280--21114335 Score: 94
Period size: 2 Copynumber: 28.0 Consensus size: 2
21114270 AATAGCTGAT
* *
21114280 AG AG AG AG AG AG AG AG AG AA AG AG GG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21114322 AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG
21114336 TAGGGAGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21117331 original size:22 final size:19
Alignment explanation
Indices: 21117292--21117335 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 19
21117282 TGCAAAGTTG
21117292 ATAATAATTAATATATATT
1 ATAATAATTAATATATATT
21117311 ATAATAGATATAATTATATATT
1 ATAATA-AT-TAA-TATATATT
21117333 ATA
1 ATA
21117336 TGAAGTAGCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 2 0.09
21 3 0.14
22 11 0.50
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
ATAATAATTAATATATATT
Found at i:21125649 original size:44 final size:44
Alignment explanation
Indices: 21125600--21125684 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
21125590 AACAGAAACT
*
21125600 GTACGACAC-ATGAAGTGCCTCATCGACACGAAGTTGAAGTAACA
1 GTACGACACTAT-AAGTGCCTCATCGACACGAAGTCGAAGTAACA
* **
21125644 GTACGACACTATTAGTGCCTCATCGACTTGAAGTCGAAGTA
1 GTACGACACTATAAGTGCCTCATCGACACGAAGTCGAAGTA
21125685 TCCCTGTACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 34 0.94
45 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (44 bp):
GTACGACACTATAAGTGCCTCATCGACACGAAGTCGAAGTAACA
Found at i:21126592 original size:8 final size:8
Alignment explanation
Indices: 21126554--21126599 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
21126544 TTATGTTTTG
21126554 TTATATTA
1 TTATATTA
*
21126562 TTAAATTA
1 TTATATTA
*
21126570 TTA-AAT-
1 TTATATTA
21126576 TTATA-TA
1 TTATATTA
21126583 TTATATTA
1 TTATATTA
21126591 TTATATTA
1 TTATATTA
21126599 T
1 T
21126600 ATACTTAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 4 0.12
7 8 0.24
8 21 0.64
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATATTA
Found at i:21134738 original size:13 final size:13
Alignment explanation
Indices: 21134720--21134744 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21134710 TAATGGTATA
21134720 TTGAATCCATGAC
1 TTGAATCCATGAC
21134733 TTGAATCCATGA
1 TTGAATCCATGA
21134745 AAATTTAGTA
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:21135325 original size:27 final size:27
Alignment explanation
Indices: 21135294--21135498 Score: 241
Period size: 27 Copynumber: 7.6 Consensus size: 27
21135284 TAAATTGTAC
21135294 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** * *
21135321 TGCACTAAGTGTGCGAAATGAATACG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21135347 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
21135375 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
21135403 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
21135430 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
21135457 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
21135484 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
21135499 GACTCAATAT
Statistics
Matches: 154, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
27 131 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:21135489 original size:109 final size:109
Alignment explanation
Indices: 21135294--21135498 Score: 286
Period size: 109 Copynumber: 1.9 Consensus size: 109
21135284 TAAATTGTAC
*
21135294 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
* *
21135359 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
* ** *
21135403 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
* ** * *
21135467 GTGCGAGTTGATTATATAGCACTGAGTGTGCG
65 GTGCGAATTGACCATACAGCACTAAGTGTGCG
21135499 GACTCAATAT
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
108 1 0.01
109 82 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:21137091 original size:15 final size:15
Alignment explanation
Indices: 21137071--21137121 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
21137061 CACACGGCCA
21137071 TGTCACCTGGCCGTG
1 TGTCACCTGGCCGTG
* *
21137086 TGTCACACACGGCC--A
1 TGTCAC-C-TGGCCGTG
21137101 TGTCACCTGGCCGTG
1 TGTCACCTGGCCGTG
21137116 TGTCAC
1 TGTCAC
21137122 ACACGGTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
13 4 0.14
14 1 0.04
15 18 0.64
16 1 0.04
17 4 0.14
ACGTcount: A:0.14, C:0.35, G:0.27, T:0.24
Consensus pattern (15 bp):
TGTCACCTGGCCGTG
Found at i:21137095 original size:30 final size:30
Alignment explanation
Indices: 21137060--21137127 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
21137050 CTATAGGGGG
21137060 ACACACGGCCATGTCACCTGGCCGTGTGTC
1 ACACACGGCCATGTCACCTGGCCGTGTGTC
21137090 ACACACGGCCATGTCACCTGGCCGTGTGTC
1 ACACACGGCCATGTCACCTGGCCGTGTGTC
21137120 ACACACGG
1 ACACACGG
21137128 TTGAGACAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.19, C:0.37, G:0.26, T:0.18
Consensus pattern (30 bp):
ACACACGGCCATGTCACCTGGCCGTGTGTC
Found at i:21140277 original size:25 final size:25
Alignment explanation
Indices: 21140238--21140356 Score: 130
Period size: 25 Copynumber: 4.8 Consensus size: 25
21140228 TCATGTACAT
* * * *
21140238 ATATGCTTATACGAGCTGTGAATCG
1 ATATGCTCACACGAGCTATAAATCG
* *
21140263 GTATGCTCACTCGAGCTATAAATCG
1 ATATGCTCACACGAGCTATAAATCG
* *
21140288 ATATGCTCTCACGAGCTATAAATCA
1 ATATGCTCACACGAGCTATAAATCG
* *
21140313 ATATGCTCACACGAGCTGTAGATCG
1 ATATGCTCACACGAGCTATAAATCG
**
21140338 ATATGCTTTCACGAGCTAT
1 ATATGCTCACACGAGCTAT
21140357 GGGTCAAAAC
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 77 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (25 bp):
ATATGCTCACACGAGCTATAAATCG
Found at i:21156309 original size:44 final size:48
Alignment explanation
Indices: 21156260--21156350 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
21156250 TGTACGAAAT
21156260 CGAGATAG-TTTTG-GATATATATAT-T-TGCACTTAGTGTGTGAGAA
1 CGAGATAGCTTTTGCGATATATATATATATGCACTTAGTGTGTGAGAA
*
21156304 CGAGATAGCTTTTGCTATATATATATATATGCACTTAGTGTGTGAGA
1 CGAGATAGCTTTTGCGATATATATATATATGCACTTAGTGTGTGAGA
21156351 TTGATACAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 8 0.19
45 5 0.12
46 10 0.24
47 1 0.02
48 18 0.43
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (48 bp):
CGAGATAGCTTTTGCGATATATATATATATGCACTTAGTGTGTGAGAA
Found at i:21161528 original size:31 final size:30
Alignment explanation
Indices: 21161449--21161528 Score: 79
Period size: 31 Copynumber: 2.6 Consensus size: 30
21161439 ATTTCTTCAA
* * * *
21161449 ATGTGTATGATGAACCAAAATTAAAATTTC
1 ATGTGTATAATTAACCATAATCAAAATTTC
** *
21161479 ATGAATATATTTGAACCATAATCAAAATTTC
1 ATGTGTATAATT-AACCATAATCAAAATTTC
21161510 ATGTGTATAATTACACCAT
1 ATGTGTATAATTA-ACCAT
21161529 TCAAAGTTTA
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
30 8 0.21
31 30 0.79
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (30 bp):
ATGTGTATAATTAACCATAATCAAAATTTC
Found at i:21181957 original size:6 final size:6
Alignment explanation
Indices: 21181946--21181973 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21181936 TATATTGTTC
21181946 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
21181974 GTAGTTGATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:21182413 original size:94 final size:94
Alignment explanation
Indices: 21182252--21182438 Score: 365
Period size: 94 Copynumber: 2.0 Consensus size: 94
21182242 AAAAATAAAG
21182252 TAAGCTTATATAGGTTAAAATACATACAAGGCCAGAAATACATATTGGTTAGAGCGCAAGAGATA
1 TAAGCTTATATAGGTTAAAATACATACAAGGCCAGAAATACATATTGGTTAGAGCGCAAGAGATA
21182317 GTATTAAATAAAAGGTGAAATGAGGTAGT
66 GTATTAAATAAAAGGTGAAATGAGGTAGT
*
21182346 TAAGCTTATATAGGTTAAAATACATACAAGGCCAGAAATGCATATTGGTTAGAGCGCAAGAGATA
1 TAAGCTTATATAGGTTAAAATACATACAAGGCCAGAAATACATATTGGTTAGAGCGCAAGAGATA
21182411 GTATTAAATAAAAGGTGAAATGAGGTAG
66 GTATTAAATAAAAGGTGAAATGAGGTAG
21182439 GAATTTGAAG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 92 1.00
ACGTcount: A:0.43, C:0.09, G:0.23, T:0.25
Consensus pattern (94 bp):
TAAGCTTATATAGGTTAAAATACATACAAGGCCAGAAATACATATTGGTTAGAGCGCAAGAGATA
GTATTAAATAAAAGGTGAAATGAGGTAGT
Found at i:21190100 original size:46 final size:46
Alignment explanation
Indices: 21190040--21190687 Score: 820
Period size: 46 Copynumber: 15.0 Consensus size: 46
21190030 TTTGACATGA
* * * * * * *
21190040 TGCCATAGTGTCTTTCAACTAAGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
21190086 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
21190132 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
21190178 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
21190216 TGCCATGGTATCTTTCATCCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
21190262 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
21190308 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
21190346 TGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
21190392 TGCCATGATATCTTTCAACCATGGTCTT--ACA---C--A-CAGAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
21190430 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
21190476 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
21190514 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
21190560 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
21190606 TGCCATGGTATCTTTCAGCCGTGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
21190644 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
21190688 AGAGCACACT
Statistics
Matches: 535, Mismatches: 26, Indels: 82
0.83 0.04 0.13
Matches are distributed among these distances:
38 160 0.30
39 5 0.01
40 15 0.03
41 5 0.01
43 5 0.01
44 15 0.03
45 9 0.02
46 321 0.60
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:21190271 original size:84 final size:88
Alignment explanation
Indices: 21190040--21190687 Score: 705
Period size: 84 Copynumber: 7.5 Consensus size: 88
21190030 TTTGACATGA
* * * * * * *
21190040 TGCCATAGTGTCTTTCAACTAAGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
* * * *
21190104 CCATGGTCTTATTCTTTTCATGTCACGT
65 CCATGGTCTTA-AC--ATCA-ATCAGGT
21190132 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
21190197 CATGGTCTT-ACA-C-A-CAGGT
66 CATGGTCTTAACATCAATCAGGT
*
21190216 TGCCATGGTATCTTTCATCCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
21190281 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTA-ACA--TCA-ATCAGGT
21190308 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
* *
21190365 TATGGTCTTACACATTTCATATCAGAT
66 CATGGTCTTA-ACA--TCA-ATCAGGT
* *
21190392 TGCCATGATATCTTTCAACCATGGTCTT--ACA---C--A-CAGATTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
21190449 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTA-ACA--TCA-ATCAGGT
21190476 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
21190533 CATGGTCTTACACATTTCATATCAGGT
66 CATGGTCTTA-ACA--TCA-ATCAGGT
* *
21190560 TGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
*
21190625 CGTGGTCTT-ACA-C-A-CAGGT
66 CATGGTCTTAACATCAATCAGGT
21190644 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
21190688 AGAGCACACT
Statistics
Matches: 514, Mismatches: 25, Indels: 42
0.88 0.04 0.07
Matches are distributed among these distances:
84 363 0.71
85 2 0.00
86 6 0.01
87 3 0.01
89 2 0.00
90 7 0.01
91 6 0.01
92 125 0.24
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (88 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTAACATCAATCAGGT
Found at i:21190281 original size:130 final size:133
Alignment explanation
Indices: 21190084--21190687 Score: 791
Period size: 130 Copynumber: 4.7 Consensus size: 133
21190074 TTTCTGTCAT
* * * *
21190084 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA-ACATTTCATATCAGGTTGCCATGGTATCTTTCA
21190149 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT-ACA-C-A
65 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTAACATCAA
21190211 -CAG
130 TCAG
*
21190214 GTTGCCATGGTATCTTTCATCCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA-ACATTTCATATCAGGTTGCCATGGTATCTTTCA
21190279 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTT-ACA-C-A
65 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTAACATCAA
21190341 -CAG
130 TCAG
* * *
21190344 GTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATATCAGATTGCCATGATATCTTTCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTA-ACATTTCATATCAGGTTGCCATGGTATCTTTCA
*
21190409 ACCATGGTCTT--ACA---C--A-CAGATTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
65 ACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA-ACA--T
21190466 CATATCAG
127 CA-ATCAG
21190474 GTTGCCATGGTATCTTTCAACCATGGTCTT-ACA---C--A-CAGGTTGCCATGGTATCTTTCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTAACATTTCATATCAGGTTGCCATGGTATCTTTCAA
*
21190532 CCATGGTCTTACACATTTCATATCAGGTTGCCATAGTATCTTTCAACCATGGTCTTACACATTTC
66 CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTA-ACA--TC
21190597 ATATCAG
128 A-ATCAG
* *
21190604 GTTGCCATGGTATCTTTCAGCCGTGGTCTT-ACA---C--A-CAGGTTGCCATGGTATCTTTCAA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTAACATTTCATATCAGGTTGCCATGGTATCTTTCAA
21190662 CCATGGTCTTACACATTTCATATCAG
66 CCATGGTCTTACACATTTCATATCAG
21190688 AGAGCACACT
Statistics
Matches: 440, Mismatches: 18, Indels: 32
0.90 0.04 0.07
Matches are distributed among these distances:
122 63 0.14
123 2 0.00
124 6 0.01
125 2 0.00
127 2 0.00
128 6 0.01
129 2 0.00
130 357 0.81
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (133 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTAACATTTCATATCAGGTTGCCATGGTATCTTTCAA
CCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTAACATCAAT
CAG
Found at i:21201011 original size:20 final size:20
Alignment explanation
Indices: 21200966--21201013 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
21200956 ACGCTAGAGA
21200966 ATGGTTTTCTCGAAATAAAT
1 ATGGTTTTCTCGAAATAAAT
*
21200986 AAGGTTTT-TCGTAAATTAAAT
1 ATGGTTTTCTCG-AAA-TAAAT
21201007 -TGGTTTT
1 ATGGTTTT
21201014 GAAAGCTTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 3 0.12
20 16 0.67
21 5 0.21
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (20 bp):
ATGGTTTTCTCGAAATAAAT
Found at i:21201505 original size:110 final size:110
Alignment explanation
Indices: 21201312--21201534 Score: 428
Period size: 110 Copynumber: 2.0 Consensus size: 110
21201302 CAATCTTGTA
*
21201312 AGTTTCTGAAAGTCTATTTAGAATTATATGAAAGCATGCTTAGAATATACTGAAATTCTGTTTGG
1 AGTTTCTGAAAGTCTATTTAGAATTATATGAAAGCATGATTAGAATATACTGAAATTCTGTTTGG
21201377 AACTGTCTAAAATTACTGTTAACATGCTATAAAACTACTATAGGT
66 AACTGTCTAAAATTACTGTTAACATGCTATAAAACTACTATAGGT
21201422 AGTTTCTGAAAGTCTATTTAGAATTATATGAAAGCATGATTAGAATATACTGAAATTCTGTTTGG
1 AGTTTCTGAAAGTCTATTTAGAATTATATGAAAGCATGATTAGAATATACTGAAATTCTGTTTGG
*
21201487 AACTGTCTGAAATTACTGTTAACATGCTATAAAACTACTATAGGT
66 AACTGTCTAAAATTACTGTTAACATGCTATAAAACTACTATAGGT
21201532 AGT
1 AGT
21201535 AAACCTTACT
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 111 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (110 bp):
AGTTTCTGAAAGTCTATTTAGAATTATATGAAAGCATGATTAGAATATACTGAAATTCTGTTTGG
AACTGTCTAAAATTACTGTTAACATGCTATAAAACTACTATAGGT
Found at i:21203250 original size:7 final size:7
Alignment explanation
Indices: 21203238--21203262 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21203228 GGACTGTGCA
21203238 AAACCCT
1 AAACCCT
21203245 AAACCCT
1 AAACCCT
21203252 AAACCCT
1 AAACCCT
21203259 AAAC
1 AAAC
21203263 ACTGTGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:21207457 original size:18 final size:18
Alignment explanation
Indices: 21207429--21207481 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
21207419 CCAATTAGGC
21207429 CGTGT-GGGCCACACGGG
1 CGTGTGGGGCCACACGGG
21207446 CGTGTGGGGCCACACGGG
1 CGTGTGGGGCCACACGGG
21207464 CGTGTGGGGCCACACGGG
1 CGTGTGGGGCCACACGGG
21207482 TGAAGCACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 5 0.14
18 30 0.86
ACGTcount: A:0.11, C:0.28, G:0.49, T:0.11
Consensus pattern (18 bp):
CGTGTGGGGCCACACGGG
Found at i:21212299 original size:23 final size:22
Alignment explanation
Indices: 21212267--21212310 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
21212257 AACCAATCCA
21212267 ATTCAGCATATTT-TCAAGATAG
1 ATTCAGCATATTTAT-AAGATAG
21212289 ATTCATGCATATTTATAAGATA
1 ATTCA-GCATATTTATAAGATA
21212311 ACCTCATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.25
23 14 0.70
24 1 0.05
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.39
Consensus pattern (22 bp):
ATTCAGCATATTTATAAGATAG
Found at i:21212898 original size:16 final size:17
Alignment explanation
Indices: 21212879--21212915 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
21212869 ACTAAAAGGT
21212879 TAAACATG-TAAAATAA
1 TAAACATGCTAAAATAA
*
21212895 TAAACATGCTAATATAA
1 TAAACATGCTAAAATAA
21212912 TAAA
1 TAAA
21212916 ACATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.27
Consensus pattern (17 bp):
TAAACATGCTAAAATAA
Found at i:21213863 original size:43 final size:43
Alignment explanation
Indices: 21213794--21213885 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 43
21213784 AGTAAGACCA
21213794 TGGCATCGATATATGTGTACGAGTAAGACC-CTGTCTGGGACAG-
1 TGGCATCGATATATGTGTACGAGTAAGACCAC-GTCTGGGAC-GT
*
21213837 TGGCATCGATATGTGAT-TAC-ATGTAAGACCACGTCTGGGACGT
1 TGGCATCGATATATG-TGTACGA-GTAAGACCACGTCTGGGACGT
21213880 TGGCAT
1 TGGCAT
21213886 TGTATGTTAC
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
42 2 0.05
43 40 0.91
44 2 0.05
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
TGGCATCGATATATGTGTACGAGTAAGACCACGTCTGGGACGT
Found at i:21220207 original size:20 final size:19
Alignment explanation
Indices: 21220151--21220209 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
21220141 TAGAAAAAAA
21220151 TATAAAAAATAATAAATTT
1 TATAAAAAATAATAAATTT
*
21220170 TATAAAAAATTATTAAATTT
1 TATAAAAAA-TAATAAATTT
* *
21220190 TAATAAAATATAAAAAATTT
1 T-ATAAAAAATAATAAATTT
21220210 AAAATTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.26
20 18 0.53
21 7 0.21
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TATAAAAAATAATAAATTT
Found at i:21220211 original size:26 final size:28
Alignment explanation
Indices: 21220170--21220223 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
21220160 TAATAAATTT
*
21220170 TATAAAAAATTATTAAATTTTAATAAAA
1 TATAAAAAATTATTAAAATTTAATAAAA
*
21220198 TATAAAAAA-T-TTAAAATTTATTAAAA
1 TATAAAAAATTATTAAAATTTAATAAAA
21220224 ATTAGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 14 0.58
27 1 0.04
28 9 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
TATAAAAAATTATTAAAATTTAATAAAA
Found at i:21220529 original size:9 final size:9
Alignment explanation
Indices: 21220489--21220670 Score: 65
Period size: 9 Copynumber: 19.6 Consensus size: 9
21220479 ACTTGTAAAA
21220489 TTTTATAATTT
1 TTTTATAA--T
21220500 TTTTATAA-
1 TTTTATAAT
*
21220508 TTCTAT-AT
1 TTTTATAAT
21220516 ATTTTATAAT
1 -TTTTATAAT
*
21220526 TTTTTTACTAT
1 TTTTATA--AT
*
21220537 TTTTATAAAA
1 TTTTAT-AAT
* *
21220547 ATTTACAAT
1 TTTTATAAT
*
21220556 CTTTTATTAT
1 -TTTTATAAT
21220566 TTTT-TACGAT
1 TTTTATA--AT
21220576 TTTTATATAT
1 TTTTATA-AT
21220586 TTTTATAA-
1 TTTTATAAT
21220594 TTTT-TAAT
1 TTTTATAAT
* *
21220602 ATTTGA-ATT
1 -TTTTATAAT
*
21220611 TTTTATTAAAA
1 TTTTA-T-AAT
*
21220622 TTTAATAAT
1 TTTTATAAT
* *
21220631 ATTTATAAA
1 TTTTATAAT
21220640 TTTTATAGA-
1 TTTTATA-AT
*
21220649 TTTTA-ATT
1 TTTTATAAT
21220657 TTTTATAAT
1 TTTTATAAT
21220666 TTTTA
1 TTTTA
21220671 ATAAAAGCAG
Statistics
Matches: 126, Mismatches: 26, Indels: 40
0.66 0.14 0.21
Matches are distributed among these distances:
7 4 0.03
8 20 0.16
9 49 0.39
10 30 0.24
11 22 0.17
12 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:21220530 original size:10 final size:10
Alignment explanation
Indices: 21220489--21220598 Score: 52
Period size: 10 Copynumber: 11.3 Consensus size: 10
21220479 ACTTGTAAAA
21220489 TTTTATAATTT
1 TTTTATAA-TT
21220500 TTTTATAA--
1 TTTTATAATT
* *
21220508 TTCTAT-ATA
1 TTTTATAATT
21220517 TTTTATAATT
1 TTTTATAATT
*
21220527 TTTT-TACTAT
1 TTTTATAAT-T
**
21220537 TTTTATAAAA
1 TTTTATAATT
* * *
21220547 ATTTACAATC
1 TTTTATAATT
*
21220557 TTTTATTATT
1 TTTTATAATT
**
21220567 TTTTACGA-T
1 TTTTATAATT
21220576 TTTTAT-ATAT
1 TTTTATAAT-T
21220586 TTTTATAATT
1 TTTTATAATT
21220596 TTT
1 TTT
21220599 AATATTTGAA
Statistics
Matches: 73, Mismatches: 18, Indels: 17
0.68 0.17 0.16
Matches are distributed among these distances:
7 1 0.01
8 6 0.08
9 14 0.19
10 40 0.55
11 12 0.16
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.65
Consensus pattern (10 bp):
TTTTATAATT
Found at i:21220603 original size:20 final size:19
Alignment explanation
Indices: 21220489--21220670 Score: 80
Period size: 19 Copynumber: 9.7 Consensus size: 19
21220479 ACTTGTAAAA
* *
21220489 TTTTATAATTTTTTTATAA
1 TTTTATAATTTTTATATAT
*
21220508 TTCTAT-ATATTTTATA-AT
1 TTTTATAAT-TTTTATATAT
* * *
21220526 TTTTTTACTATTTTTATAAAA
1 TTTTATA--ATTTTTATATAT
* *
21220547 ATTTACAATCTTTTAT-TAT
1 TTTTATAAT-TTTTATATAT
21220566 TTTT-TACGATTTTTATATAT
1 TTTTATA--ATTTTTATATAT
21220586 TTTTATAATTTTTA-ATA-
1 TTTTATAATTTTTATATAT
* * * *
21220603 TTTGA-ATTTTTTATTAAAA
1 TTTTATAATTTTTA-TATAT
* * *
21220622 TTTAATAATATTTATA-AA
1 TTTTATAATTTTTATATAT
21220640 TTTTATAGA-TTTTA-AT-T
1 TTTTATA-ATTTTTATATAT
21220657 TTTTATAATTTTTA
1 TTTTATAATTTTTA
21220671 ATAAAAGCAG
Statistics
Matches: 124, Mismatches: 22, Indels: 36
0.68 0.12 0.20
Matches are distributed among these distances:
16 8 0.06
17 17 0.14
18 25 0.20
19 37 0.30
20 28 0.23
21 9 0.07
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTATATAT
Found at i:21220671 original size:45 final size:44
Alignment explanation
Indices: 21220564--21220674 Score: 116
Period size: 45 Copynumber: 2.5 Consensus size: 44
21220554 ATCTTTTATT
** * * *
21220564 ATTTTTTACGATTTTT-ATATATTTTTATAATTTTTAATATTTGA
1 ATTTTTTATAATTTTTAATA-ATATTTATAAATTTTAAGATTTGA
** *
21220608 ATTTTTTATTAAAATTTAATAATATTTATAAATTTTATAGATTTTA
1 ATTTTTTA-TAATTTTTAATAATATTTATAAATTTTA-AGATTTGA
21220654 ATTTTTTATAATTTTTAATAA
1 ATTTTTTATAATTTTTAATAA
21220675 AAGCAGAGGC
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
44 8 0.15
45 29 0.54
46 17 0.31
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (44 bp):
ATTTTTTATAATTTTTAATAATATTTATAAATTTTAAGATTTGA
Found at i:21221813 original size:8 final size:8
Alignment explanation
Indices: 21221800--21221826 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
21221790 ATATTCTATT
21221800 TTATTTTA
1 TTATTTTA
21221808 TTATTTTA
1 TTATTTTA
21221816 TTATTTTA
1 TTATTTTA
21221824 TTA
1 TTA
21221827 CATTATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:21221832 original size:16 final size:16
Alignment explanation
Indices: 21221800--21221838 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
21221790 ATATTCTATT
**
21221800 TTATTTTATTATTTTA
1 TTATTTTATTACATTA
21221816 TTATTTTATTACATTA
1 TTATTTTATTACATTA
21221832 -TATTTTA
1 TTATTTTA
21221839 ACTCCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.33
16 14 0.67
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTTATTACATTA
Found at i:21234619 original size:52 final size:52
Alignment explanation
Indices: 21234548--21234894 Score: 468
Period size: 52 Copynumber: 6.9 Consensus size: 52
21234538 ATCAAGTGAC
* **
21234548 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
21234600 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
21234652 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
21234698 AAAGTGATAAGTGGTAGCTT-AGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
21234749 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
21234795 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
** *
21234847 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
21234895 AGTGATAAGT
Statistics
Matches: 264, Mismatches: 18, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
45 23 0.09
46 62 0.23
51 18 0.07
52 161 0.61
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:21234744 original size:97 final size:98
Alignment explanation
Indices: 21234548--21234905 Score: 520
Period size: 98 Copynumber: 3.6 Consensus size: 98
21234538 ATCAAGTGAC
** * *
21234548 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC------AAAGTGATAAGTG
*
21234613 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
60 ATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* * *
21234652 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCT
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
*
21234717 T-AGCTACACTTATCTGATCAAGTGACAAGTGG
66 TCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
21234749 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
*
21234814 TCGGCTACACTTATCTGATCAAGTGACAAGTGA
66 TCGGCTACACTTATCTGATCAAGTGACAAGTGG
* * *
21234847 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTG
21234906 GCTACACTTA
Statistics
Matches: 236, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
97 94 0.40
98 101 0.43
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCT
TCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:21234866 original size:195 final size:196
Alignment explanation
Indices: 21234548--21234906 Score: 549
Period size: 195 Copynumber: 1.8 Consensus size: 196
21234538 ATCAAGTGAC
** *
21234548 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGAC-----GAAAGTGATAAGTA
* * *
21234613 ATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTA
61 ATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAATAGCTTCAGCTA
* *
21234678 TACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAC
126 CACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGAC
21234743 AAGTGG
191 AAGTGG
* * *
21234749 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC-AAAGTGATAAGTGATAGC
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACGAAAGTGATAAGTAATAGC
* *
21234813 TTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTT
66 TTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAATAGCTTCAGCTACACTT
21234878 ATCTGATCAAGAGACAAAGTGATAAGTGG
131 ATCTGATCAAGAGACAAAGTGATAAGTGG
21234907 CTACACTTAT
Statistics
Matches: 145, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
195 104 0.72
201 41 0.28
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (196 bp):
AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACGAAAGTGATAAGTAATAGC
TTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTAATAGCTTCAGCTACACTT
ATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:21234913 original size:37 final size:37
Alignment explanation
Indices: 21234869--21235014 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
21234859 GATAGCTTTA
*
21234869 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
21234906 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
21234943 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
21234980 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
21235015 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:21236389 original size:96 final size:98
Alignment explanation
Indices: 21236269--21236459 Score: 296
Period size: 96 Copynumber: 2.0 Consensus size: 98
21236259 ATGTGAACAT
*
21236269 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTG-TGCG
1 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATACG
*
21236333 TGTAAGACCATAGCTGGGCTATGGCATCGGTAA
66 TGTAAGACCATAGCTGGACTATGGCATCGGTAA
* * * *
21236366 GTGA-TATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTATGTGATTTGTGATTAC
1 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGA-TAC
*
21236430 GTGTAAGACCATAGTTGGACTATGGCATCG
65 GTGTAAGACCATAGCTGGACTATGGCATCG
21236460 AGAAAACGAA
Statistics
Matches: 85, Mismatches: 7, Indels: 3
0.89 0.07 0.03
Matches are distributed among these distances:
96 51 0.60
97 4 0.05
98 30 0.35
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (98 bp):
GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAAGTGATATGTGATACG
TGTAAGACCATAGCTGGACTATGGCATCGGTAA
Found at i:21236403 original size:49 final size:49
Alignment explanation
Indices: 21236269--21236459 Score: 287
Period size: 49 Copynumber: 3.9 Consensus size: 49
21236259 ATGTGAACAT
*
21236269 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
*
21236319 GTGATATGTG--TGCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * *
21236366 GTGATATGTGATTTCGTGTAAGACCATAGTTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * *
21236415 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
21236460 AGAAAACGAA
Statistics
Matches: 132, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
47 46 0.35
49 82 0.62
50 4 0.03
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:21239674 original size:52 final size:52
Alignment explanation
Indices: 21239603--21239950 Score: 468
Period size: 52 Copynumber: 6.9 Consensus size: 52
21239593 ATCAAGTGAC
* **
21239603 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
21239655 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
21239707 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* **
21239753 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
21239805 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
21239851 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
** *
21239903 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
21239951 AGTGATAAGT
Statistics
Matches: 264, Mismatches: 20, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
46 85 0.32
52 179 0.68
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:21239725 original size:98 final size:98
Alignment explanation
Indices: 21239655--21239961 Score: 438
Period size: 98 Copynumber: 3.1 Consensus size: 98
21239645 TGACAAGTGG
* *
21239655 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
21239720 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* **
21239753 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
21239818 ATAGCTTCGGCTATACTTATCTGATCAAGTGAC
66 ATAGCTACGACTATACTGATCTGATCAAGTGAC
* *
21239851 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
* * *
21239916 ATAGCTTTA-G-CTACACTTATCTGATCAAGAGAC
66 ATAGC--TACGACTATACTGATCTGATCAAGTGAC
21239949 AAAGTGATAAGTG
1 AAAGTGATAAGTG
21239962 GCTACACTTA
Statistics
Matches: 194, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
98 192 0.99
99 1 0.01
100 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (98 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
ATAGCTACGACTATACTGATCTGATCAAGTGAC
Found at i:21239809 original size:150 final size:144
Alignment explanation
Indices: 21239589--21239950 Score: 580
Period size: 150 Copynumber: 2.4 Consensus size: 144
21239579 TTTGAGTACT
21239589 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
21239654 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGT
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------AAAGTGATAAGT
*
21239719 AATAGCTTCGGCTATACTTA
125 AATAGCTTCGGCTACACTTA
21239739 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
21239804 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGC
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
21239869 TTCGGCTACACTTA
131 TTCGGCTACACTTA
* *
21239883 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
21239948 CAA
60 CAA
21239951 AGTGATAAGT
Statistics
Matches: 202, Mismatches: 4, Indels: 12
0.93 0.02 0.06
Matches are distributed among these distances:
144 44 0.22
150 158 0.78
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (144 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTAATAGC
TTCGGCTACACTTA
Found at i:21239969 original size:37 final size:37
Alignment explanation
Indices: 21239925--21240070 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
21239915 GATAGCTTTA
*
21239925 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
21239962 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
21239999 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
21240036 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
21240071 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:21244120 original size:74 final size:74
Alignment explanation
Indices: 21243994--21244151 Score: 271
Period size: 74 Copynumber: 2.1 Consensus size: 74
21243984 ATGTCGATAG
* * *
21243994 TACAATTCATATAATTATATGAACTTGATGCTGGATAATATATATTGGTATAGTTTATGAAATTC
1 TACATTTCATATAATTATATGAACTTGATGCTGGATAATACATATTGGTATAGTTTATGAAATTA
21244059 ATCCATGTT
66 ATCCATGTT
* *
21244068 TATATTTCATATAATTGTATGAACTTGATGCTGGATAATACATATTGGTATAGTTTATGAAATTA
1 TACATTTCATATAATTATATGAACTTGATGCTGGATAATACATATTGGTATAGTTTATGAAATTA
21244133 ATCCATGTT
66 ATCCATGTT
21244142 TACATTTCAT
1 TACATTTCAT
21244152 GCAAAGTTAA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 78 1.00
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (74 bp):
TACATTTCATATAATTATATGAACTTGATGCTGGATAATACATATTGGTATAGTTTATGAAATTA
ATCCATGTT
Found at i:21244127 original size:38 final size:38
Alignment explanation
Indices: 21244011--21244128 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
21244001 CATATAATTA
21244011 TATGAACTTGATGCTGGATAATATATATTGGTATAGTT
1 TATGAACTTGATGCTGGATAATATATATTGGTATAGTT
* * * * ** *
21244049 TATGAAATTCATCCAT-G-T-TTATAT-TTCATATAATT
1 TATGAACTTGATGC-TGGATAATATATATTGGTATAGTT
*
21244084 GTATGAACTTGATGCTGGATAATACATATTGGTATAGTT
1 -TATGAACTTGATGCTGGATAATATATATTGGTATAGTT
21244123 TATGAA
1 TATGAA
21244129 ATTAATCCAT
Statistics
Matches: 59, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
35 9 0.15
36 17 0.29
37 2 0.03
38 22 0.37
39 9 0.15
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (38 bp):
TATGAACTTGATGCTGGATAATATATATTGGTATAGTT
Found at i:21257005 original size:137 final size:138
Alignment explanation
Indices: 21256645--21257735 Score: 1270
Period size: 137 Copynumber: 7.7 Consensus size: 138
21256635 ATATAATATA
* * *
21256645 ATAATACTATTAAAATAAAGTAATTAAAAATGATACTATATATAAATATATATATTTATATATAC
1 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATAT-AA-ATATATA--TATACAT--
* *
21256710 ATATAATAAAACATAGACTAATATTAATAATG-ATAATAATACTA-ACAATAGTAATGAAATACA
60 ATATAATAAAACATATACTAATATTAATAA-GAATAATAATACTAGA-AATAATAATGAAATACA
*
21256773 AATAAAAGTAAATATAAT
123 AA-AAAA-TAAACATAAT
21256791 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATACATATATAA
1 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATACATATATAA
*
21256856 TAAAACACATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAAAAAAATA
66 TAAAACATATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAAAAAAATA
21256921 AACATAAT
131 AACATAAT
21256929 ATAATAATATTAAAATAAAGTAATTAAAAA-AATACTATATATAAATATATATATACATATATAA
1 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATACATATATAA
21256993 TAAAACATATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAAAAAAATA
66 TAAAACATATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAAAAAAATA
21257058 AACATAATAT
131 AACAT-A-AT
*
21257068 AATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATATACCTATA
1 -ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATAT-AA-ATATATATATACATATA
* * *
21257133 TAATAAAAACATACACTAATATTAATAATG-ATAATAATGCTA-ACAATAGTAATGAAATACGAA
63 TAAT-AAAACATATACTAATATTAATAA-GAATAATAATACTAGA-AATAATAATGAAATAC-AA
* *
21257196 AAAAGTAAATATAAT
124 AAAAATAAACATAAT
21257211 ATAATAATATTAAAATAAAGTAATTAAAAA-AATACTATATATAAATATATATATATACATATAT
1 ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATAT-AA-ATATATATATACATATAT
*
21257275 AATAAAACATATACT-A-A-TAATAATAATAATAATACTAGAAATAATAATGAAATACAAAAAAA
64 AATAAAACATATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATAC-AAAAAA
21257337 ATAAACATAATAT
128 ATAAACAT-A-AT
* * *
21257350 AATAATAATATTAAAATAAAGTAATTAAAAACAATACTATATGTAAAAATATATATATACCTATA
1 -ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATA--TATAAATATATATATACATATA
* * * * *
21257415 TAAAAAAACATACACTAATAATAATAATAATAATAATACTAGCAATAATAATGAAATACAAAAAA
63 TAATAAAACATATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAAAAAA
*
21257480 A-AAGTAAAT-AT
128 ATAA--ACATAAT
* * * *
21257491 AATAATAATGTTAAAATAAAGTAATTAAAAATAGTATTATATAT-AA-ATATATATACGTATATA
1 -ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATACATATATA
* * * * *
21257554 ATAAGA-ATATAC----ACTAATAATAATAATAATAGTA-ATAATAATATTGAAATACAAAAAGC
65 ATAAAACATATACTAATATTAATAAGAATAATAATACTAGA-AATAATAATGAAATAC-AAAA--
* *
21257613 AAATGTAATATAAT
126 AAAT-AAACATAAT
* * *
21257627 A-AA-AATATTAAAATAAAGTAATTAAAAAAAATAATACTATGTGTAAATATAAATACATATACG
1 ATAATAATATTAAAATAAAGTAATT---AAAAATAATACTATATATAAATAT--AT--ATATACA
* *
21257690 TATATAATAAAAACATATACACTAATATATAATAATAATAGTAATA
59 TATATAAT-AAAACATAT--ACTAATAT-TAATAAGAATAATAATA
21257736 ATAATAATAT
Statistics
Matches: 844, Mismatches: 51, Indels: 95
0.85 0.05 0.10
Matches are distributed among these distances:
132 35 0.04
133 23 0.03
134 2 0.00
135 7 0.01
136 21 0.02
137 170 0.20
138 47 0.06
139 12 0.01
140 131 0.16
141 127 0.15
142 58 0.07
143 36 0.04
144 100 0.12
145 15 0.02
146 43 0.05
150 1 0.00
151 16 0.02
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (138 bp):
ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATACATATATAA
TAAAACATATACTAATATTAATAAGAATAATAATACTAGAAATAATAATGAAATACAAAAAAATA
AACATAAT
Found at i:21257075 original size:6 final size:6
Alignment explanation
Indices: 21256728--21257086 Score: 53
Period size: 6 Copynumber: 59.5 Consensus size: 6
21256718 AAACATAGAC
* * * * * *
21256728 TAATAT TAATAA TGATAA TAATAC TAACAA TAGTAA TGA-AA TACA-AA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TA-ATAA
* * *
21256775 TAA-AA GTAA-ATA TAAT-A TAATAA TATTAA -AATAA -AGTAA TTAAAAA
1 TAATAA -TAATA-A TAATAA TAATAA TAATAA TAATAA TAATAA -TAATAA
* * *
21256821 TAATAC T-ATATA TAAATATA TATATACA TATATAA TAA-AA CACATAC
1 TAATAA TAATA-A T-AATA-A TA-ATA-A TA-ATAA TAATAA TA-ATAA
* * * * *
21256868 TAATAT TAATAA GAATAA TAATAC TAGA-AA TAATAA TGA-AA TACAAAA
1 TAATAA TAATAA TAATAA TAATAA TA-ATAA TAATAA TAATAA TA-ATAA
* * * *
21256916 AAATAA -ACATAA T-ATAA TAATAT TAA-AA TAA-AG TAATTAA -AAAAA
1 TAATAA TA-ATAA TAATAA TAATAA TAATAA TAATAA TAA-TAA TAATAA
* * *
21256961 TACT-A TATATAAA TATATATA TACATATA TAATAA -AACATA TACTAA
1 TAATAA TA-AT-AA TA-ATA-A TA-ATA-A TAATAA TAATA-A TAATAA
* * * * * *
21257008 TATTAA TAAGAA TAATAA TACTAGA -AATAA TAATGA -AATACA AAAAAA
1 TAATAA TAATAA TAATAA TAATA-A TAATAA TAATAA TAATA-A TAATAA
*
21257056 TAA-ACA TAAT-A TAATAA TAATAT TAA-AA TAA
1 TAATA-A TAATAA TAATAA TAATAA TAATAA TAA
21257087 AGTAATTAAA
Statistics
Matches: 260, Mismatches: 57, Indels: 73
0.67 0.15 0.19
Matches are distributed among these distances:
5 65 0.25
6 138 0.53
7 25 0.10
8 32 0.12
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.30
Consensus pattern (6 bp):
TAATAA
Found at i:21257260 original size:282 final size:282
Alignment explanation
Indices: 21256635--21257744 Score: 1392
Period size: 281 Copynumber: 3.9 Consensus size: 282
21256625 AAAGGAAGGC
*
21256635 ATATAATATAATAATACTATTAAAATAAAGTAATTAAAAATGATACTATATATAAATATATATAT
1 ATATAATATAAT-A-A-TATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATA-
* * *
21256700 TTATATATACATATAATAAAACATAGACTAATATTAATAATG-ATAATAATACTAACAATAGTAA
62 -TATACAT--ATATAATAAAACATATACT-A-ATTAATAA-GAATAATAATACTAACAATAATAA
*
21256764 TGAAATACAAATAAAAGTAAATAT-A-AT-ATAATAATATTAAAATAAAGTAATTAAAAATAATA
121 TGAAATACAAA-AAAA-TAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATA
* *
21256826 CTATATAT-AA-ATATATATATACATATATAATAAAACACAT--ACTAATATTAATAAGAATAAT
184 CTATATATAAATATATATATATACCTATATAATAAAA-ACATACACTAATATTAATAATAATAAT
*
21256887 AATACTAGA-AATAATAATGAAATACAAAAAAATAA
248 AATACTA-ACAATAATAATGAAATACAAAAAAGTAA
*
21256922 ACATAATATAATAATATTAAAATAAAGTAATTAAAAA-AATACTATATAT-AA-ATATATATATA
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATATA
21256984 CATATATAATAAAACATATACTAATATTAATAAGAATAATAATACTAGA-AATAATAATGAAATA
66 CATATATAATAAAACATATACT-A-ATTAATAAGAATAATAATACTA-ACAATAATAATGAAATA
21257048 CAAAAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATA
128 CAAAAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATA
* *
21257113 AATATATATATATACCTATATAATAAAAACATACACTAATATTAATAATGATAATAATGCTAACA
193 AATATATATATATACCTATATAATAAAAACATACACTAATATTAATAATAATAATAATACTAACA
*
21257178 ATAGTAATGAAATACGAAAAAAGTAA
258 ATAATAATGAAATAC-AAAAAAGTAA
21257204 ATATAATATAATAATATTAAAATAAAGTAATTAAAAA-AATACTATATATAAATATATATATATA
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATATA
*
21257268 CATATATAATAAAACATATACTAA-TAATAATAATAATAATACTAGA-AATAATAATGAAATACA
66 CATATATAATAAAACATATACTAATTAATAAGAATAATAATACTA-ACAATAATAATGAAATAC-
* *
21257331 AAAAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAACAATACTATATGTAA
129 AAAAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAA
* * *
21257396 AAATATATATATACCTATATAA-AAAAACATACACTAATAATAATAATAATAATAATACTAGCAA
194 ATATATATATATACCTATATAATAAAAACATACACTAATATTAATAATAATAATAATACTAACAA
21257460 TAATAATGAAATACAAAAAAAAAGTAA
259 TAATAATGAAATAC---AAAAAAGTAA
* * *
21257487 ATAT-A-ATAATAATGTTAAAATAAAGTAATTAAAAATAGTA-T-TATAT--ATAAATATATATA
1 ATATAATATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATATA
* * * * * * *
21257546 CGTATATAATAAGA-ATATAC--ACTAATAATAATAATAATAGTAATAATAATATTGAAATAC-A
66 CATATATAATAAAACATATACTAATTAATAAGAATAATAATACTAACAATAATAATGAAATACAA
** ** * * *
21257607 AAAAGCAAATGTAATATAATAAAAATATTAAAATAAAGTAATTAAAAAAAATAATACTATGTGTA
131 AAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATT---AAAAATAATACTATATATA
* * * *
21257672 AATATAAATACATATACGTATATAATAAAAACATATACACTAATATATAATAATAATAGTAATAA
193 AATAT--ATATATATACCTATATAATAAAAAC--ATACACTAATAT-TAATAATAATAATAATAC
*
21257737 TAATAATA
253 TAACAATA
21257745 TAAAAATAAA
Statistics
Matches: 750, Mismatches: 45, Indels: 60
0.88 0.05 0.07
Matches are distributed among these distances:
274 39 0.05
275 8 0.01
276 40 0.05
277 88 0.12
278 68 0.09
279 28 0.04
280 36 0.05
281 165 0.22
282 159 0.21
283 50 0.07
284 56 0.07
285 1 0.00
286 1 0.00
287 11 0.01
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (282 bp):
ATATAATATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAATATATATATATA
CATATATAATAAAACATATACTAATTAATAAGAATAATAATACTAACAATAATAATGAAATACAA
AAAAATAAACATAATATAATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAAAT
ATATATATATACCTATATAATAAAAACATACACTAATATTAATAATAATAATAATACTAACAATA
ATAATGAAATACAAAAAAGTAA
Found at i:21257265 original size:14 final size:14
Alignment explanation
Indices: 21257246--21257287 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
21257236 AAAAAAATAC
21257246 TATATATAAATATA
1 TATATATAAATATA
*
21257260 TATATATACATATA
1 TATATATAAATATA
*
21257274 TA-ATA-AAACATA
1 TATATATAAATATA
21257286 TA
1 TA
21257288 CTAATAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 7 0.28
13 3 0.12
14 15 0.60
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (14 bp):
TATATATAAATATA
Found at i:21257359 original size:20 final size:20
Alignment explanation
Indices: 21257263--21257359 Score: 58
Period size: 21 Copynumber: 4.7 Consensus size: 20
21257253 AAATATATAT
21257263 ATATACATATATAATAAAACAT-
1 ATATA-ATA-ATAAT-AAACATA
21257285 ATACTAATAATAATAATA-ATA
1 ATA-TAATAATAATAA-ACATA
**
21257306 ATACTAGA-AATAATAATGA-A
1 ATA-TA-ATAATAATAAACATA
* * *
21257326 ATACAAAAAAAATAAACATA
1 ATATAATAATAATAAACATA
21257346 ATATAATAATAATA
1 ATATAATAATAATA
21257360 TTAAAATAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
18 1 0.02
19 9 0.15
20 20 0.33
21 21 0.35
22 7 0.12
23 2 0.03
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (20 bp):
ATATAATAATAATAAACATA
Found at i:21257717 original size:23 final size:21
Alignment explanation
Indices: 21257675--21257718 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
21257665 ATGTGTAAAT
* *
21257675 ATAAATACATATACGTATATA
1 ATAAAAACATATACCTATATA
21257696 ATAAAAACATATACACTAATATA
1 ATAAAAACATATAC-CT-ATATA
21257719 TAATAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 1 0.05
23 5 0.26
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (21 bp):
ATAAAAACATATACCTATATA
Found at i:21257723 original size:133 final size:132
Alignment explanation
Indices: 21256742--21257767 Score: 779
Period size: 141 Copynumber: 7.4 Consensus size: 132
21256732 ATTAATAATG
* * * *
21256742 ATAATAATACTAACAATAGTAATGAAATAC-AAATAAAAGTAAATATAATATAATAATATTAAAA
1 ATAATAATAGTAATAATAATAATGAAATACAAAAAAAAAGTAAATATAATA-AA-AATATTAAAA
*
21256806 TAAAGTAATTAAAAATAATACTATATATAAATATATATATACATATATAATAAAACACATACTAA
64 TAAAGTAATTAAAAATAATACTATATATAAATATA-A-ATACATATATAAT--AAGA-ATA--AA
* * *
21256871 TATTAATAAGA
122 CACTAATAACA
* *
21256882 ATAATAATACTAGA-AATAATAATGAAATAC--AAAAAAA-TAAACATAATATAATAATATTAAA
1 ATAATAATAGTA-ATAATAATAATGAAATACAAAAAAAAAGTAAATATAATA-AA-AATATTAAA
*
21256943 ATAAAGTAATTAAAAA-AATACTATATATAAATATATATATACATATATAATAAAACATATACTA
63 ATAAAGTAATTAAAAATAATACTATATATAAATATA-A-ATACATATATAAT--AAGA-ATA--A
* * *
21257007 ATATTAATAAGA
121 ACACTAATAACA
* ** *
21257019 ATAATAATACTAGA-AATAATAATGAAATACAAAAAAATAAACATAATATAATAATAATATTAAA
1 ATAATAATAGTA-ATAATAATAATGAAATACAAAAAAA-AAGTA-AATATAATAAAAATATTAAA
* * * *
21257083 ATAAAGTAATTAAAAATAATACTATATATAAATATATATATATACCTATATAATAAAAACATACA
63 ATAAAGTAATTAAAAATAATACTATATAT-AA-ATATA-A-ATACATATATAATAAGAATAAACA
*
21257148 CTAATATTAATA
124 CT-A-A-TAACA
* * * *
21257160 ATGATAATAATGCTAACAATAGTAATGAAATAC--GAAAAAAGTAAATATAATATAATAATATTA
1 ATAATAAT-A-G-TAATAATAATAATGAAATACAAAAAAAAAGTAAATATAATA-AA-AATATTA
* *
21257223 AAATAAAGTAATTAAAAA-AATACTATATATAAATATATATATATACATATATAATAAAACATAT
61 AAATAAAGTAATTAAAAATAATACTATATAT-AA-ATATA-A-ATACATATATAATAAGA-ATAA
* *
21257287 ACTAATAATAATA
121 AC-ACTAATAACA
* ** *
21257300 ATAATAATACTAGA-AATAATAATGAAATACAAAAAAAATAAACATAATATAATAATAATATTAA
1 ATAATAATAGTA-ATAATAATAATGAAATAC-AAAAAAA-AAGTA-AATATAATAAAAATATTAA
* * * * * *
21257364 AATAAAGTAATTAAAAACAATACTATATGTAAAAATATATATATACCTATATAA-AAAAACATAC
62 AATAAAGTAATTAAAAATAATACTATA--TATAAATATA-A-ATACATATATAATAAGAATAAAC
*
21257428 ACTAATAATA
123 ACTAATAACA
* * *
21257438 ATAATAATAATAATACTAGCAATAATAATGAAATACAAAAAAAAAGTAAATATAATAATAATGTT
1 ATAATAATAGT-A-A-T---AATAATAATGAAATACAAAAAAAAAGTAAATATAATAAAAATATT
* * * * *
21257503 AAAATAAAGTAATTAAAAATAGTATTATATATAAATATATATACGTATATAATAAGAATATACAC
60 AAAATAAAGTAATTAAAAATAATACTATATATAAATATAAATACATATATAATAAGAATAAACAC
*
21257568 TAATAATA
125 TAATAACA
* *
21257576 ATAATAATAGTAATAATAATATTGAAATACAAAAAGCAAATGT-AATATAATAAAAATATTAAAA
1 ATAATAATAGTAATAATAATAATGAAATACAAAAA--AAAAGTAAATATAATAAAAATATTAAAA
* * *
21257640 TAAAGTAATTAAAAAAAATAATACTATGTGTAAATATAAATACATATACGTATATAATAA-AAAC
64 TAAAGTAATT---AAAAATAATACTATATATAAATATAAATACATATA--TA-ATAAGAATAAAC
21257704 A-T-ATACACTA
123 ACTAATA-AC-A
* * * * * *
21257714 ATATATAATAATAATAGTAATAATAATAATATAAAAATAAAAATAAAAATAATA
1 ATA-ATAATAGTAATAATAATAATGA-AATACAAAAA-AAAAGTAAATATAATA
21257768 GTGTTAGACA
Statistics
Matches: 766, Mismatches: 71, Indels: 98
0.82 0.08 0.10
Matches are distributed among these distances:
132 20 0.03
133 29 0.04
134 5 0.01
135 1 0.00
136 33 0.04
137 120 0.16
138 100 0.13
139 57 0.07
140 128 0.17
141 148 0.19
142 60 0.08
143 32 0.04
144 33 0.04
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (132 bp):
ATAATAATAGTAATAATAATAATGAAATACAAAAAAAAAGTAAATATAATAAAAATATTAAAATA
AAGTAATTAAAAATAATACTATATATAAATATAAATACATATATAATAAGAATAAACACTAATAA
CA
Found at i:21257726 original size:3 final size:3
Alignment explanation
Indices: 21257712--21257767 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
21257702 ACATATACAC
* * *
21257712 TAA TATA TAA TAA TAA TAG TAA TAA TAA TAA T-A TAA AAA TAA AAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
21257757 TAA AAA TAA TA
1 TAA TAA TAA TA
21257768 GTGTTAGACA
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 2 0.05
3 38 0.88
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:21272533 original size:42 final size:42
Alignment explanation
Indices: 21272477--21272589 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 42
21272467 TTTAAGTGTT
* ***
21272477 AGACCATGTCTGGGACATCGGCATCGTATCTG-TTTTGGTATA
1 AGACCATGTCTGGGACATCGGCATCGTAT-TGAATTACATATA
* ** *
21272519 AGACCTTGTCTGGGACAGAGGCATCGATATTGAATTACATGTA
1 AGACCATGTCTGGGACATCGGCATCG-TATTGAATTACATATA
*
21272562 AGACCACGTCTGGGACATCGGCATCGTA
1 AGACCATGTCTGGGACATCGGCATCGTA
21272590 CTTGTCTGTG
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
42 27 0.47
43 30 0.53
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (42 bp):
AGACCATGTCTGGGACATCGGCATCGTATTGAATTACATATA
Found at i:21272586 original size:85 final size:86
Alignment explanation
Indices: 21272431--21272589 Score: 234
Period size: 85 Copynumber: 1.9 Consensus size: 86
21272421 AATTATCGTG
* * *
21272431 TAAGACCGTGTTTGGGACACAGGCATCGATTTGAAATTTAAGTGTTAGACCATGTCTGGGACATC
1 TAAGACCGTGTCTGGGACACAGGCATCGATTTGAAATTTAAGTGTAAGACCACGTCTGGGACATC
21272496 GGCATCGTATCTGTTTTGGTA
66 GGCATCGTATCTGTTTTGGTA
* *
21272517 TAAGACCTTGTCTGGGACAGAGGCATCGATATTG-AA-TTACA-TGTAAGACCACGTCTGGGACA
1 TAAGACCGTGTCTGGGACACAGGCATCGAT-TTGAAATTTA-AGTGTAAGACCACGTCTGGGACA
21272579 TCGGCATCGTA
64 TCGGCATCGTA
21272590 CTTGTCTGTG
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
85 33 0.50
86 30 0.45
87 3 0.05
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (86 bp):
TAAGACCGTGTCTGGGACACAGGCATCGATTTGAAATTTAAGTGTAAGACCACGTCTGGGACATC
GGCATCGTATCTGTTTTGGTA
Found at i:21275596 original size:44 final size:43
Alignment explanation
Indices: 21275526--21275679 Score: 161
Period size: 43 Copynumber: 3.6 Consensus size: 43
21275516 GGAACGTTGA
* *
21275526 CATCGATCTGAGATATCGTGTAAGACCGTGTCTGGGACACAGG
1 CATCGATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
* * **
21275569 CCTCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATTGG
1 CATCGATCTGAGATTT-CGTGTAAGACCATGTCTGGGACACAGG
* * *
21275613 CATCGTATCT--GATTTCGTGTAAGACCCTGTCTGGGAAAGAGG
1 CATCG-ATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
* *
21275655 CATCGATAGTGA-ATTTCATGTAAGA
1 CATCGAT-CTGAGATTTCGTGTAAGA
21275680 TCACATCCGG
Statistics
Matches: 92, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 29 0.32
43 30 0.33
44 28 0.30
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
CATCGATCTGAGATTTCGTGTAAGACCATGTCTGGGACACAGG
Found at i:21275644 original size:42 final size:42
Alignment explanation
Indices: 21275526--21275661 Score: 148
Period size: 42 Copynumber: 3.2 Consensus size: 42
21275516 GGAACGTTGA
* *
21275526 CATCGATCTGAGATATCGTGTAAGACCGTGTCTGGGACACAGG
1 CATCGATCT-AGATTTCGTGTAAGACCATGTCTGGGACACAGG
* * **
21275569 CCTCGATTTGAGATTTACGTGTAAGACCATGTCTGGGACATTGG
1 CATCGATCT-AGATTT-CGTGTAAGACCATGTCTGGGACACAGG
* * *
21275613 CATCGTATCT-GATTTCGTGTAAGACCCTGTCTGGGAAAGAGG
1 CATCG-ATCTAGATTTCGTGTAAGACCATGTCTGGGACACAGG
21275655 CATCGAT
1 CATCGAT
21275662 AGTGAATTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
41 2 0.03
42 28 0.35
43 18 0.23
44 28 0.35
45 3 0.04
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (42 bp):
CATCGATCTAGATTTCGTGTAAGACCATGTCTGGGACACAGG
Found at i:21286671 original size:40 final size:40
Alignment explanation
Indices: 21286641--21286811 Score: 181
Period size: 39 Copynumber: 4.3 Consensus size: 40
21286631 GCTACTCGTT
*
21286641 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
*
21286681 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
* * * * *
21286721 CAAATGCCTTCGTG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTA-TAGTAACTCGCA
* * * *
21286760 CAAATGCCTTCGGG-CTTATCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGTTA-TAGTAACTCGCA
21286799 CAAATGCCTTCGG
1 CAAATGCCTTCGG
21286812 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 70 0.58
40 48 0.40
41 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCA
Found at i:21286758 original size:39 final size:40
Alignment explanation
Indices: 21286641--21286864 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
21286631 GCTACTCGTT
* *
21286641 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
21286681 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
21286721 CAAATGCCTTCGTG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
21286760 CAAATGCCTTCGGG-CTTATCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
21286799 CAAATGCCTTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCA
21286840 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21286865 CATCATTCAA
Statistics
Matches: 162, Mismatches: 15, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
38 2 0.01
39 72 0.44
40 75 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:21286758 original size:79 final size:79
Alignment explanation
Indices: 21286641--21286864 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 79
21286631 GCTACTCGTT
*
21286641 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAACCCGG
*
21286706 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* * * *
21286721 CAAATGCCTTCGTG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTCGGGCTTATCCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGG
*
21286784 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * * *
21286799 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGG-CTTAACCC
21286862 GGA
63 GGA
21286865 CATCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
77 1 0.01
78 34 0.27
79 57 0.46
80 32 0.26
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAACCCGGA
ATTAGTAACTCGCA
Found at i:21294690 original size:39 final size:39
Alignment explanation
Indices: 21294568--21294791 Score: 229
Period size: 39 Copynumber: 5.6 Consensus size: 39
21294558 GCTACTCGTT
* *
21294568 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCA
* * *
21294608 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGGCTTAGCCCGGAATTAGTAACTCGCA
* * *
21294648 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGTA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* *
21294687 CAAATGCCTTCAGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
* * * * *
21294726 CAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCACTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGTAAC-TCGCA
21294767 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
21294792 CATCATTCAA
Statistics
Matches: 156, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
39 72 0.46
40 72 0.46
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCA
Found at i:21294734 original size:78 final size:80
Alignment explanation
Indices: 21294568--21294791 Score: 242
Period size: 79 Copynumber: 2.8 Consensus size: 80
21294558 GCTACTCGTT
**
21294568 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGG
*
21294633 ATTTAGTAACTCGCA
66 AATTAGTAACTCGCA
* * * *
21294648 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGTACAAATGCCTTCAGG-CTTAGCCCG
1 CAAATGCCTTCGGGACATAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCAGGACTTAACCCG
*
21294710 GAATTAGTATCTCGCA
65 GAATTAGTAACTCGCA
* * * * * * * *
21294726 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CATAGCCCGAATATAGTAAC-TCGCACAAATGCCTTCAGGACTTAACCC
21294789 GGA
64 GGA
21294792 CATCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
77 2 0.02
78 34 0.28
79 53 0.43
80 33 0.27
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGG
AATTAGTAACTCGCA
Found at i:21294751 original size:118 final size:120
Alignment explanation
Indices: 21294562--21294789 Score: 295
Period size: 118 Copynumber: 1.9 Consensus size: 120
21294552 GATATAGCTA
* * *
21294562 CTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCAGGACTTA
1 CTCGTACAAATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTA
* *
21294627 ACCCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGAAATTAGTAT
66 ACCCGGATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGAAATTAGTAT
* *
21294681 CTCGTACAAATGCCTTCAGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCT
1 CTCGTACAAATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCAGGA-CT
** * *
21294743 TAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
64 TAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCG
21294790 GACATCATTC
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
117 4 0.04
118 55 0.59
119 35 0.37
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (120 bp):
CTCGTACAAATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCAGGACTTA
ACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGAAATTAGTAT
Found at i:21294791 original size:40 final size:40
Alignment explanation
Indices: 21294549--21294791 Score: 211
Period size: 40 Copynumber: 6.1 Consensus size: 40
21294539 CGGAATTTAA
** *
21294549 CCGGATATAGCTAC-TCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TACTTCGCACAAATGCCTTCGGGACTTAGC
* * *
21294589 CCGGTTATAGTAAC-TCGCACAAATGCCTTCAGGACTTAAC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
*
21294629 CCGGATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
* * *
21294668 CC-GAAATTAGTA-TCTCGTACAAATGCCTTCAGG-CTTAGC
1 CCGGATA-TAGTACT-TCGCACAAATGCCTTCGGGACTTAGC
*
21294707 CCGGA-ATTAGTA-TCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTACT-TCGCACAAATGCCTTCGGGA-CTTAGC
* *
21294747 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGT-ACTTCGCACAAATGCCTTCGGGACTTAGC
21294787 CCGGA
1 CCGGA
21294792 CATCATTCAA
Statistics
Matches: 173, Mismatches: 19, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
38 5 0.03
39 61 0.35
40 93 0.54
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTACTTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21301862 original size:17 final size:17
Alignment explanation
Indices: 21301811--21301863 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
21301801 AAATATGGAA
* *
21301811 TGTAATCTTCGAATATA
1 TGTAATCTTAGAATATT
* **
21301828 TGCAATCTTAGAGGATT
1 TGTAATCTTAGAATATT
21301845 TGTAATCTTAGAATATT
1 TGTAATCTTAGAATATT
21301862 TG
1 TG
21301864 ATTCTATAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.17, T:0.42
Consensus pattern (17 bp):
TGTAATCTTAGAATATT
Found at i:21309873 original size:5 final size:5
Alignment explanation
Indices: 21309858--21309892 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
21309848 TTGTGTGTTC
21309858 TTTATT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
21309893 ACAAACTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.86
6 4 0.14
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:21314323 original size:14 final size:14
Alignment explanation
Indices: 21314304--21314331 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21314294 TTGTGTGTTC
21314304 TTTATTTTATTTTA
1 TTTATTTTATTTTA
21314318 TTTATTTTATTTTA
1 TTTATTTTATTTTA
21314332 ACAGAAATTT
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:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTATTTTA
Found at i:21314414 original size:21 final size:21
Alignment explanation
Indices: 21314390--21314429 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21314380 CAGTTGTATA
21314390 TCTCAACCACATGGTCGTGCC
1 TCTCAACCACATGGTCGTGCC
**
21314411 TCTCATTCACATGGTCGTG
1 TCTCAACCACATGGTCGTG
21314430 TACCCCTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.17, C:0.33, G:0.20, T:0.30
Consensus pattern (21 bp):
TCTCAACCACATGGTCGTGCC
Found at i:21333318 original size:47 final size:47
Alignment explanation
Indices: 21333228--21333958 Score: 1102
Period size: 47 Copynumber: 15.6 Consensus size: 47
21333218 GATAATTGTG
*
21333228 ATGTGAAAGTGTATATATGTGATGAGGCCTAAT-G-CGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
21333273 ATGTGAAAGTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
21333320 ATGTGAAAGTGTATATATATGCGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
21333369 ACGTGAAAGTGTATATATCTG-T---G-AT-ATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21333410 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
21333457 ATGTGAAAGTGTATTTATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
21333504 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
21333551 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21333598 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21333647 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
21333696 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
21333743 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
21333792 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
21333839 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
21333886 CTGTGAAAGTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAG-GCCTAATGGCCGATGTGATGA
*
21333933 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
21333959 TGCCGAAGGG
Statistics
Matches: 630, Mismatches: 40, Indels: 29
0.90 0.06 0.04
Matches are distributed among these distances:
41 35 0.06
42 2 0.00
43 1 0.00
45 31 0.05
46 5 0.01
47 372 0.59
48 2 0.00
49 182 0.29
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:21347700 original size:39 final size:39
Alignment explanation
Indices: 21347646--21347848 Score: 253
Period size: 39 Copynumber: 5.6 Consensus size: 39
21347636 TCTCGCTTTG
*
21347646 CTTCGGGTCATAGCCCGGATATATCAACTGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTGCATAATTGC
21347685 CTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACT-GCATAATTGC
21347725 CTTC-GGTCTTAG-CCGG-TATATCAACTCGCATAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACT-GCATAATTGC
21347762 CTTCGGGTCTTAGCCCGG--ATATC-ACTGC--AA-TG-
1 CTTCGGGTCTTAGCCCGGATATATCAACTGCATAATTGC
21347794 CTTC-GGTCTT-G-CC--ATATATC-A-TGC-TAATTGC
1 CTTCGGGTCTTAGCCCGGATATATCAACTGCATAATTGC
21347825 CTTCGGGTCTTAGCCCGGATATAT
1 CTTCGGGTCTTAGCCCGGATATAT
21347849 TCCAATGCTC
Statistics
Matches: 150, Mismatches: 1, Indels: 29
0.83 0.01 0.16
Matches are distributed among these distances:
28 3 0.02
29 10 0.07
30 3 0.02
31 10 0.07
32 10 0.07
33 3 0.02
34 4 0.03
36 8 0.05
37 28 0.19
38 17 0.11
39 40 0.27
40 14 0.09
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.32
Consensus pattern (39 bp):
CTTCGGGTCTTAGCCCGGATATATCAACTGCATAATTGC
Found at i:21347762 original size:77 final size:70
Alignment explanation
Indices: 21347627--21347848 Score: 253
Period size: 77 Copynumber: 3.1 Consensus size: 70
21347617 CTTCGGTCTT
* ** *
21347627 CCGGATATATCTC-GCTTTGCTTCGGGTCATAGCCCGGATATATCAACTGCATAATTGCCTTCGG
1 CCGGATATATCACTGCAATGCTTC-GGTCTTAG-CCGG-TATATCAACTGCATAATTGCCTTCGG
21347691 GTCTTAGC
63 GTCTTAGC
21347699 CCGGATATATCAACTCGCATAATTGCCTTCGGTCTTAGCCGGTATATCAACTCGCATAATTGCCT
1 CCGGATATATC-ACT-GC--AA-TG-CTTCGGTCTTAGCCGGTATATCAACT-GCATAATTGCCT
21347764 TCGGGTCTTAGC
59 TCGGGTCTTAGC
*
21347776 CCGG--ATATCACTGCAATGCTTCGGTCTT-GCC-ATATATC-A-TGC-TAATTGCCTTCGGGTC
1 CCGGATATATCACTGCAATGCTTCGGTCTTAGCCGGTATATCAACTGCATAATTGCCTTCGGGTC
21347834 TTAGC
66 TTAGC
21347839 CCGGATATAT
1 CCGGATATAT
21347849 TCCAATGCTC
Statistics
Matches: 135, Mismatches: 5, Indels: 27
0.81 0.03 0.16
Matches are distributed among these distances:
63 25 0.19
64 2 0.01
65 5 0.04
66 1 0.01
67 6 0.04
68 3 0.02
69 10 0.07
70 2 0.01
71 2 0.01
72 11 0.08
73 3 0.02
74 3 0.02
75 7 0.05
76 10 0.07
77 32 0.24
78 9 0.07
79 4 0.03
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.32
Consensus pattern (70 bp):
CCGGATATATCACTGCAATGCTTCGGTCTTAGCCGGTATATCAACTGCATAATTGCCTTCGGGTC
TTAGC
Found at i:21347844 original size:63 final size:73
Alignment explanation
Indices: 21347663--21347846 Score: 253
Period size: 63 Copynumber: 2.6 Consensus size: 73
21347653 TCATAGCCCG
21347663 GATATATCAACTGCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAATTGCCTT
1 GATATATCAACTGCATAATTGCCTTCGGGTCTTAGCCCGG--ATATCAACTCGCA-AATTGCCTT
21347728 CGGTCTTAGCC
63 CGGTCTTAGCC
*
21347739 GGTATATCAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATATC-ACT-GC-AA-TG-CTTCG
1 GATATATCAACT-GCATAATTGCCTTCGGGTCTTAGCCCGGATATCAACTCGCAAATTGCCTTCG
21347799 GTCTT-GCC
65 GTCTTAGCC
21347807 -ATATATC-A-TGC-TAATTGCCTTCGGGTCTTAGCCCGGATAT
1 GATATATCAACTGCATAATTGCCTTCGGGTCTTAGCCCGGATAT
21347847 ATTCCAATGC
Statistics
Matches: 105, Mismatches: 2, Indels: 15
0.86 0.02 0.12
Matches are distributed among these distances:
63 29 0.28
64 2 0.02
65 1 0.01
66 1 0.01
67 6 0.06
68 3 0.03
69 10 0.10
70 2 0.02
71 2 0.02
73 2 0.02
74 3 0.03
75 5 0.05
76 11 0.10
77 28 0.27
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (73 bp):
GATATATCAACTGCATAATTGCCTTCGGGTCTTAGCCCGGATATCAACTCGCAAATTGCCTTCGG
TCTTAGCC
Found at i:21356296 original size:40 final size:40
Alignment explanation
Indices: 21356249--21356431 Score: 240
Period size: 40 Copynumber: 4.7 Consensus size: 40
21356239 GCAAACACAT
* *
21356249 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
21356289 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
21356329 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACT---T-GCATAA
*
21356373 TTGCCTTC-GG--TT-G--CGGA-ATAT-AACTCGC-TAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
21356404 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
21356432 TCCAATGCTC
Statistics
Matches: 129, Mismatches: 3, Indels: 24
0.83 0.02 0.15
Matches are distributed among these distances:
31 11 0.09
32 4 0.03
34 2 0.02
35 1 0.01
36 4 0.03
37 8 0.06
38 8 0.06
40 72 0.56
41 2 0.02
43 3 0.02
44 14 0.11
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
Found at i:21357587 original size:30 final size:29
Alignment explanation
Indices: 21357553--21357618 Score: 71
Period size: 31 Copynumber: 2.2 Consensus size: 29
21357543 TTAATTTAAC
21357553 ATATAATTCACACATAT-CATATTCAGCTAT
1 ATATAATTCACACATATCCAT-TTCAGC-AT
* * *
21357583 ATATACATTTACATATTTCCATTTCAGCAT
1 ATATA-ATTCACACATATCCATTTCAGCAT
21357613 ATATAA
1 ATATAA
21357619 CTAACATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 1 0.03
30 12 0.39
31 15 0.48
32 3 0.10
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (29 bp):
ATATAATTCACACATATCCATTTCAGCAT
Found at i:21364828 original size:40 final size:40
Alignment explanation
Indices: 21364752--21365170 Score: 676
Period size: 40 Copynumber: 10.7 Consensus size: 40
21364742 GCAAACACAT
*
21364752 TTGCC-TC-GGTCTTAACCC-GA-ATATCAACT-GCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
21364787 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
21364827 TTGCCTTCGGGTCTTAG-CCAGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21364866 -TGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
21364905 TTGCCTTCAGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21364945 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
21364985 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
21365025 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCTTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
21365065 TTGCCTTC-GGTCTTAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
21365104 TTGCCTTCGGGTCTTAG-CCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
21365143 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
21365171 TCCAATGCTC
Statistics
Matches: 359, Mismatches: 16, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
35 5 0.01
36 2 0.01
37 10 0.03
38 18 0.05
39 124 0.35
40 200 0.56
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:21368243 original size:16 final size:17
Alignment explanation
Indices: 21368211--21368250 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
21368201 TGAATTGAGA
*
21368211 AATTAATTTATTTAAAT
1 AATTAATTGATTTAAAT
21368228 AATTAATTGA-TTAAAT
1 AATTAATTGATTTAAAT
*
21368244 AAATAAT
1 AATTAAT
21368251 ATTTTGGGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
AATTAATTGATTTAAAT
Found at i:21370247 original size:18 final size:19
Alignment explanation
Indices: 21370224--21370261 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
21370214 GAAGGATTGT
21370224 TTGGTGGTTGATTGG-AGG
1 TTGGTGGTTGATTGGTAGG
21370242 TTGGTGGTTGATTGGTAGG
1 TTGGTGGTTGATTGGTAGG
21370261 T
1 T
21370262 GCAAGTGTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.11, C:0.00, G:0.47, T:0.42
Consensus pattern (19 bp):
TTGGTGGTTGATTGGTAGG
Found at i:21382880 original size:13 final size:13
Alignment explanation
Indices: 21382862--21382891 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21382852 ATTAATGAAA
21382862 AAAATATTAAAAT
1 AAAATATTAAAAT
*
21382875 AAAATATTAGAAT
1 AAAATATTAAAAT
21382888 AAAA
1 AAAA
21382892 AAATAACAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (13 bp):
AAAATATTAAAAT
Found at i:21383187 original size:20 final size:21
Alignment explanation
Indices: 21383139--21383214 Score: 56
Period size: 21 Copynumber: 3.7 Consensus size: 21
21383129 AATTAAAAAA
*
21383139 ATACT-ATAT-ATAAATATAT
1 ATACTAATATAATAAATACAT
21383158 ATAC-ATATATAATAAA-ACAT
1 ATACTA-ATATAATAAATACAT
21383178 ATACTAATATTAAT-AATA-AT
1 ATACTAATA-TAATAAATACAT
*
21383198 AATACTAGAAATAATAA
1 -ATACTA-ATATAATAA
21383215 TGAAATACAA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
19 4 0.09
20 18 0.39
21 21 0.46
22 3 0.07
ACGTcount: A:0.58, C:0.07, G:0.01, T:0.34
Consensus pattern (21 bp):
ATACTAATATAATAAATACAT
Found at i:21383194 original size:138 final size:134
Alignment explanation
Indices: 21383100--21383625 Score: 530
Period size: 138 Copynumber: 3.8 Consensus size: 134
21383090 TAAAGGAAGG
21383100 CATATAATATAATAATATTAAAATAAAGTAATTAAAAA-AATACTATATATAA-ATATATATACA
1 CATATAATATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAATATATATATACA
* *
21383163 TATATAATAAAACATATACTAATATTAATAATAATAATACTAGAAATAATAATGAAATACAAAAA
66 TATATAATAAAACATACACTAATATTAATAATAATAA-ATTAGAAATAATAATGAAATACAAAAA
21383228 AA-AA
130 AAGAA
* * *
21383232 CATAAAATAATAATAATATTAAAATAAATTAATTAAAAATAATACTATATGTAAAAATATATATA
1 CATATAAT-ATAATAATATTAAAATAAAGTAATTAAAAATAATACTATA--T-ATAATATATATA
* *
21383297 TACCTATATAATAAAAACATACACTAATATTAATAATAATAATAATACTAGCAATAATAATGAAA
62 TACATATATAAT-AAAACATACACTAATATTAATAATAAT-A-AAT--TAGAAATAATAATGAAA
21383362 TACAAAAAAAGTAA
122 TACAAAAAAAG-AA
* * *
21383376 -ATAT-A-ATAATAATGTTAAAATAAAGTAATTAAAAATAGTATTATATATTAATATATATATAC
1 CATATAATATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATA-TAATATATATATAC
* * * * *
21383438 GTATATAATAAGAATATACACTAATATTAATCATAATAATAATAATAGTAATAATATTGAAATAC
65 ATATATAATAA-AACATACACTAATATT-A--ATAATAATAA-ATTAGAAATAATAATGAAATAC
21383503 --AAAAAGCAA
125 AAAAAAAG-AA
* * *
21383512 -ATGTAATATAATAAAAATATTAAAATAAAGTAATTTAAAAAATAATACTATGTGTAAATATAAA
1 CATATAATATAAT---AATATTAAAATAAAGTAA-TT-AAAAATAATACTATATAT-AATAT--A
* *
21383576 TACATATACGTATATAATAAAAAATATACACTAATATATAATAATAATAA
58 T--ATATACATATATAAT--AAAACATACACTAATAT-TAATAATAATAA
21383626 TTATAATTAT
Statistics
Matches: 335, Mismatches: 25, Indels: 54
0.81 0.06 0.13
Matches are distributed among these distances:
132 7 0.02
133 29 0.09
134 9 0.03
136 12 0.04
137 7 0.02
138 78 0.23
139 28 0.08
140 40 0.12
141 26 0.08
142 30 0.09
143 21 0.06
144 2 0.01
145 2 0.01
146 10 0.03
147 15 0.04
148 16 0.05
149 3 0.01
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.32
Consensus pattern (134 bp):
CATATAATATAATAATATTAAAATAAAGTAATTAAAAATAATACTATATATAATATATATATACA
TATATAATAAAACATACACTAATATTAATAATAATAAATTAGAAATAATAATGAAATACAAAAAA
AGAA
Found at i:21383621 original size:3 final size:3
Alignment explanation
Indices: 21383607--21383681 Score: 84
Period size: 3 Copynumber: 25.7 Consensus size: 3
21383597 AAATATACAC
* * *
21383607 TAA TATA TAA TAA TAA TAA TTA TAA TTA TAA TAA TAA TAA TAA TAG
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
21383653 TAA TAA TAA T-A TAA -AA -AA TAA AAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21383682 GTGTTAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
2 6 0.10
3 52 0.85
4 3 0.05
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:21383631 original size:12 final size:12
Alignment explanation
Indices: 21383588--21383666 Score: 63
Period size: 12 Copynumber: 6.4 Consensus size: 12
21383578 CATATACGTA
* *
21383588 TATAATAAAAAA
1 TATAATAATAAT
21383600 TATACACTAATATAT
1 TATA-A-TAATA-AT
*
21383615 AATAATAATAAT
1 TATAATAATAAT
*
21383627 TATAATTATAAT
1 TATAATAATAAT
*
21383639 AATAATAATAA-
1 TATAATAATAAT
21383650 TAGTAATAATAA-
1 TA-TAATAATAAT
21383662 TATAA
1 TATAA
21383667 AAAATAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
11 4 0.07
12 36 0.65
13 6 0.11
14 5 0.09
15 4 0.07
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (12 bp):
TATAATAATAAT
Found at i:21389113 original size:24 final size:24
Alignment explanation
Indices: 21389086--21389137 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
21389076 TTAGTAAGTC
*
21389086 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
21389110 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
21389134 AAAT
1 AAAT
21389138 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Done.