Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 165 of 204
Found at i:49769664 original size:10 final size:10
Alignment explanation
Indices: 49769651--49769707 Score: 62
Period size: 10 Copynumber: 5.3 Consensus size: 10
49769641 AAAAGGGAAA
49769651 AAAGAAAAAG
1 AAAGAAAAAG
49769661 AAAGAAAAAG
1 AAAGAAAAAG
49769671 -AAGAAAAAAG
1 AAAG-AAAAAG
49769681 AAAGAAGAAGATG
1 AAAGAA-AA-A-G
49769694 AAAAGAAAAAG
1 -AAAGAAAAAG
49769705 AAA
1 AAA
49769708 AAGGAGAGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
9 3 0.07
10 21 0.51
11 6 0.15
12 2 0.05
13 3 0.07
14 6 0.15
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (10 bp):
AAAGAAAAAG
Found at i:49769680 original size:20 final size:20
Alignment explanation
Indices: 49769655--49769710 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
49769645 GGGAAAAAAG
49769655 AAAAAGAAAGAAAAAGAAGA
1 AAAAAGAAAGAAAAAGAAGA
* *
49769675 AAAAAGAAAGAAGAAGATGA
1 AAAAAGAAAGAAAAAGAAGA
49769695 AAAGAA-AAAGAAAAAG
1 AAA-AAGAAAGAAAAAG
49769711 GAGAGACCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAGAAAAAGAAGA
Found at i:49771043 original size:44 final size:44
Alignment explanation
Indices: 49770973--49771192 Score: 151
Period size: 44 Copynumber: 5.0 Consensus size: 44
49770963 GATAGCAGAT
* *
49770973 CTTGCCTTTCTGTACTGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGTACTCACAGCGAAGCAGATCGAAGACACCAGC
* * * * *
49771017 CTTGCCTTCCTATACTCACAGTGAAGCAGA-CTGAAGATAACAGAT
1 CTTGCCTTCCTGTACTCACAGCGAAGCAGATC-GAAGACACCAG-C
* ** * *
49771062 CATGCCTTCCTGTA-TCGGTAGCGAAGTAGATCGAAGACACCTGC
1 CTTGCCTTCCTGTACTC-ACAGCGAAGCAGATCGAAGACACCAGC
* * * * * * **
49771106 CTTGCCTTTCTGTACTAATAGC-AGAGCA-AACTGAAGATAGCAAAT
1 CTTGCCTTCCTGTACTCACAGCGA-AGCAGATC-GAAGACA-CCAGC
* * *
49771151 CTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGACACCA
1 CTTGCCTTCCTGTACTCACAGCGAAGCAGATCGAAGACACCA
49771193 TAGTTTGCAA
Statistics
Matches: 130, Mismatches: 36, Indels: 20
0.70 0.19 0.11
Matches are distributed among these distances:
43 4 0.03
44 64 0.49
45 59 0.45
46 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (44 bp):
CTTGCCTTCCTGTACTCACAGCGAAGCAGATCGAAGACACCAGC
Found at i:49771085 original size:89 final size:89
Alignment explanation
Indices: 49770928--49771192 Score: 309
Period size: 89 Copynumber: 3.0 Consensus size: 89
49770918 AGTTACAGAT
* * * * * *
49770928 CTTGTCTTCCTGTACTGACTGCAGAGTAGACTGAAGATAGCAGATCTTGCCTTTCTGTACTGACA
1 CTTGCCTTCCTATACTAACAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
49770993 GCGAAGCAGATCGAAGACACCAGC
66 GCGAAGCAGATCGAAGACACCAGC
* * * * *
49771017 CTTGCCTTCCTATACTCACAG-TGAAGCAGACTGAAGATAACAGATCATGCCTTCCTGTA-TCGG
1 CTTGCCTTCCTATACTAACAGCAG-AGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACT-GA
* * *
49771080 TAGCGAAGTAGATCGAAGACACCTGC
64 CAGCGAAGCAGATCGAAGACACCAGC
* * * * *
49771106 CTTGCCTTTCTGTACTAATAGCAGAGCAAACTGAAGATAGCAAATCTTGCCTTCCTGTACTGACA
1 CTTGCCTTCCTATACTAACAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
* *
49771171 GTGAAGCAGATTGAAGACACCA
66 GCGAAGCAGATCGAAGACACCA
49771193 TAGTTTGCAA
Statistics
Matches: 144, Mismatches: 28, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
88 2 0.01
89 140 0.97
90 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (89 bp):
CTTGCCTTCCTATACTAACAGCAGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTACTGACA
GCGAAGCAGATCGAAGACACCAGC
Found at i:49771186 original size:45 final size:44
Alignment explanation
Indices: 49770921--49771187 Score: 150
Period size: 45 Copynumber: 6.0 Consensus size: 44
49770911 TCAATAAAGT
* * *
49770921 TACAGATCTTGTCTTCCTGTACTGAC--TGCAGAGTAGACTGAAGA
1 TACAAATCTTGCCTTCCTGTACTGACAGTG-A-AGCAGACTGAAGA
* * *
49770965 TAGCAGATCTTGCCTTTCTGTACTGACAGCGAAGCAGA-TCGAAGA
1 TA-CAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGACT-GAAGA
* * ** * *
49771010 CACCAGCCTTGCCTTCCTATACTCACAGTGAAGCAGACTGAAGA
1 TACAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGA
* * ** * *
49771054 TAACAGATCATGCCTTCCTGTA-TCGGTAGCGAAGTAGA-TCGAAGA
1 T-ACAAATCTTGCCTTCCTGTACT-GACAGTGAAGCAGACT-GAAGA
* **** * * * * *
49771099 CACCTGCCTTGCCTTTCTGTACTAATAG-CAGAGCAAACTGAAGA
1 TACAAATCTTGCCTTCCTGTACTGACAGTGA-AGCAGACTGAAGA
*
49771143 TAGCAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGATTGAAGA
1 TA-CAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGA
49771188 CACCATAGTT
Statistics
Matches: 162, Mismatches: 48, Indels: 25
0.69 0.20 0.11
Matches are distributed among these distances:
43 1 0.01
44 64 0.40
45 94 0.58
46 2 0.01
47 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.25
Consensus pattern (44 bp):
TACAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGACTGAAGA
Found at i:49771465 original size:44 final size:44
Alignment explanation
Indices: 49771398--49771801 Score: 292
Period size: 44 Copynumber: 9.4 Consensus size: 44
49771388 AACCAACAAA
* * *
49771398 TCTTATCTCCCTGAAGTTCCAGTAGAGCAGATTGAAGTTACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG
* * * * * *
49771442 TCCTATCTCCCTGAAGTTGCAGTAGAGCAGA-TCACA--T-CCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGA-AGTTACTAG
*
49771483 TCTTATCTCCCTGATGTTGCAGTGGAGTAGATTGAAGTTACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG
* * * * * ***
49771527 TCCTATCTTCCTGAAGTTGCACTGGAGTGGATTAAAACCAC-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG
* * *** * *
49771570 ATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCCCA--T-CCAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG
* **
49771612 TCTTATCTCCCTAAAGTTTTAGTGGAGTAGATTGAAGTTACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG
* * * * ***
49771656 TCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCAC-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG
* * * * * * *
49771699 ATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCA--T-CCAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG
*
49771741 TCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG
* *
49771785 TCCTATCTTCCTGAAGT
1 TCTTATCTCCCTGAAGT
49771802 AGAGCAGATC
Statistics
Matches: 273, Mismatches: 72, Indels: 30
0.73 0.19 0.08
Matches are distributed among these distances:
41 92 0.34
42 5 0.02
43 9 0.03
44 167 0.61
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG
Found at i:49771515 original size:85 final size:86
Alignment explanation
Indices: 49771396--49771801 Score: 349
Period size: 85 Copynumber: 4.7 Consensus size: 86
49771386 AAAACCAACA
* * *
49771396 AATCTTATCTCCCTGAAGTTCCAGTAGAGCAGATTGAAGTTACTAGTCCTATCTCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGTCCTATCTCCCTGAAGTTG
49771461 CAGTAGAGCAGA-TCACATCC
66 CAGTAGAGCAGATTCACATCC
* *
49771481 AATCTTATCTCCCTGATGTTGCAGTGGAGTAGATTGAAGTTACTAGTCCTATCTTCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGTCCTATCTCCCTGAAGTTG
* * ** * * *
49771546 CACTGGAGTGGATTAAAACCAC
66 CAGTAGAGCAGATTCACATC-C
* * *** * * * *
49771568 AGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCCCA--T-CCAATCTTATCTCCCTAAAGTT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGTCCTATCTCCCTGAAGTT
** * * * *
49771630 TTAGTGGAGTAGATTGA-AGTTACT
65 GCAGTAGAGCAGATTCACA--T-CC
* * * * * *** * *
49771654 AGTCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCAC-AGATCTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAG-TCCTATCTCCCTGAAGTT
*
49771718 GCAGTAGAGCAGA-TCGCATCC
65 GCAGTAGAGCAGATTCACATCC
* *
49771739 AATCTTATCTCTCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGTCCTATCTTCCTGAAGT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGTCCTATCTCCCTGAAGT
49771802 AGAGCAGATC
Statistics
Matches: 247, Mismatches: 62, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
84 1 0.00
85 174 0.70
86 9 0.04
87 5 0.02
88 58 0.23
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (86 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAGTTACTAGTCCTATCTCCCTGAAGTTG
CAGTAGAGCAGATTCACATCC
Found at i:49771586 original size:129 final size:129
Alignment explanation
Indices: 49771445--49771801 Score: 624
Period size: 129 Copynumber: 2.8 Consensus size: 129
49771435 TTACTAGTCC
* *
49771445 TATCTCCCTGAAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGATGTTGCAGTGGAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAG
49771510 TAGATTGAAGTTACTAGTCCTATCTTCCTGAAGTTGCACTGGAGTGGATTAAAACCACAGATCT
66 TAGATTGAAGTTACTAGTCCTATCTTCCTGAAGTTGCACTGGAGTGGATTAAAACCACAGATCT
* * * **
49771574 TATCTCTCTGAAGTTGCAGTAGAGTAGATCCCATCCAATCTTATCTCCCTAAAGTTTTAGTGGAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAG
*
49771639 TAGATTGAAGTTACTAGTCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACCACAGATCT
66 TAGATTGAAGTTACTAGTCCTATCTTCCTGAAGTTGCACTGGAGTGGATTAAAACCACAGATCT
* *
49771703 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCTCTGAAGTTGCAGTGGAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAG
49771768 TAGATTGAAGTTACTAGTCCTATCTTCCTGAAGT
66 TAGATTGAAGTTACTAGTCCTATCTTCCTGAAGT
49771802 AGAGCAGATC
Statistics
Matches: 214, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 214 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (129 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGCAGTGGAG
TAGATTGAAGTTACTAGTCCTATCTTCCTGAAGTTGCACTGGAGTGGATTAAAACCACAGATCT
Found at i:49773228 original size:20 final size:20
Alignment explanation
Indices: 49773203--49773250 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
49773193 AATTGAAATG
49773203 AATGTGATATTGAGTTATGA
1 AATGTGATATTGAGTTATGA
*
49773223 AATGTGATATTGGGTTATGA
1 AATGTGATATTGAGTTATGA
49773243 AATGTGAT
1 AATGTGAT
49773251 TTTATGGACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.27, T:0.40
Consensus pattern (20 bp):
AATGTGATATTGAGTTATGA
Found at i:49773297 original size:35 final size:35
Alignment explanation
Indices: 49773257--49773500 Score: 185
Period size: 35 Copynumber: 7.1 Consensus size: 35
49773247 TGATTTTATG
**
49773257 GACTAGCATTGGGCACAACTTCTGTCAGTTTATCT
1 GACTAGCGCTGGGCACAACTTCTGTCAGTTTATCT
* * * * *
49773292 GACTAGTGCTGGGCACAACCATC-GT-TGGTTATTT
1 GACTAGCGCTGGGCACAA-CTTCTGTCAGTTTATCT
** ** *
49773326 GACTAGCATTGGGTGCAACTTCTGTCAATTTATCT
1 GACTAGCGCTGGGCACAACTTCTGTCAGTTTATCT
* * * *
49773361 GACTAGTGCTGGGCACAACCATC-GTC-GGTTATCC
1 GACTAGCGCTGGGCACAA-CTTCTGTCAGTTTATCT
* * *
49773395 GAGTAGCACTGGGCGCAACTTCTGTCAGTTTATCT
1 GACTAGCGCTGGGCACAACTTCTGTCAGTTTATCT
* * * * *
49773430 GACTAGTGTTAGACACAACCATC-GTCAG-TTATCT
1 GACTAGCGCTGGGCACAA-CTTCTGTCAGTTTATCT
* *
49773464 GACTACCGCTGGGCGCAACTTCTGTCAGTTTATCT
1 GACTAGCGCTGGGCACAACTTCTGTCAGTTTATCT
49773499 GA
1 GA
49773501 GTAGTGCTAG
Statistics
Matches: 152, Mismatches: 48, Indels: 18
0.70 0.22 0.08
Matches are distributed among these distances:
33 9 0.06
34 66 0.43
35 68 0.45
36 9 0.06
ACGTcount: A:0.22, C:0.24, G:0.23, T:0.31
Consensus pattern (35 bp):
GACTAGCGCTGGGCACAACTTCTGTCAGTTTATCT
Found at i:49773368 original size:69 final size:69
Alignment explanation
Indices: 49773257--49773520 Score: 366
Period size: 69 Copynumber: 3.8 Consensus size: 69
49773247 TGATTTTATG
* * * *
49773257 GACTAGCATTGGGCACAACTTCTGTCAGTTTATCTGACTAGTGCTGGGCACAACCATCGTTGGTT
1 GACTAGCACTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGCTAGGCACAACCATCGTCGGTT
*
49773322 ATTT
66 ATCT
* * * *
49773326 GACTAGCATTGGGTGCAACTTCTGTCAATTTATCTGACTAGTGCTGGGCACAACCATCGTCGGTT
1 GACTAGCACTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGCTAGGCACAACCATCGTCGGTT
*
49773391 ATCC
66 ATCT
* * * *
49773395 GAGTAGCACTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGTTAGACACAACCATCGTCAGTT
1 GACTAGCACTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGCTAGGCACAACCATCGTCGGTT
49773460 ATCT
66 ATCT
* * * *
49773464 GACTACCGCTGGGCGCAACTTCTGTCAGTTTATCTGAGTAGTGCTAGGAACAACCAT
1 GACTAGCACTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGCTAGGCACAACCAT
49773521 TGTCAATTAT
Statistics
Matches: 173, Mismatches: 22, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 173 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (69 bp):
GACTAGCACTGGGCGCAACTTCTGTCAGTTTATCTGACTAGTGCTAGGCACAACCATCGTCGGTT
ATCT
Found at i:49773525 original size:35 final size:35
Alignment explanation
Indices: 49773417--49773525 Score: 98
Period size: 35 Copynumber: 3.1 Consensus size: 35
49773407 GCGCAACTTC
*
49773417 TGTCAGTTTATCTGACTAGTGTTA-GACACAACCAT
1 TGTCAGTTTATCTGACTAGTGCTAGGA-ACAACCAT
* ** * ** *
49773452 CGTCAG-TTATCTGACTACCGCTGGGCGCAA-CTT
1 TGTCAGTTTATCTGACTAGTGCTAGGAACAACCAT
*
49773485 CTGTCAGTTTATCTGAGTAGTGCTAGGAACAACCAT
1 -TGTCAGTTTATCTGACTAGTGCTAGGAACAACCAT
49773521 TGTCA
1 TGTCA
49773526 ATTATCTTGA
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
33 2 0.04
34 21 0.39
35 29 0.54
36 2 0.04
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (35 bp):
TGTCAGTTTATCTGACTAGTGCTAGGAACAACCAT
Found at i:49773995 original size:828 final size:832
Alignment explanation
Indices: 49772693--49774322 Score: 2662
Period size: 828 Copynumber: 2.0 Consensus size: 832
49772683 AACATCCATG
*
49772693 TGAAGTAAATAAATATTTTCTTTAATGCTAATTAAGTAAGTTCGTAATTCTTTAACTTGAACTAT
1 TGAACTAAATAAATATTTTCTTTAATGC--A-TAAGTAAGTTCGTAATTCTTTAACTTGAACTAT
*
49772758 TTAAATATTTACTTGTGAATTTCGATATATATATATATATAAATATGATACTTGTATACATTTAT
63 TTAAATATTTACTTGTGAATTT--ATATAGATATATATAT-AATATGATACTTGTATACATTTAT
* *
49772823 TAGCTATTTGGGGACATGATAAAATGTATATTTAATCCAATGAATGGTTGATAAAATGAATAAAT
125 TAGCCATTTGGAGACATGATAAAATGTATATTTAATCCAATGAATGGTTGATAAAATGAATAAAT
* * * *
49772888 GAATAATTAGCCTTAAACTAATAGTATGGAAATGTTATATATGGAGATGTATTACCGAACTGATG
190 GAACAATTAGCCTTAAACTAATAGTATAGAAATGTTATAGATGGAGATATATTACCGAACTGATG
* *
49772953 AGATTGAAGTTGAATAATGGTTAATGTATGGAGTTAAATAAAGTCTTCTGTCCACATACTAGGTA
255 AGATTGAAGTTGAATAATGGTTAATGTATGCAGTTAAATAAAATCTTCTGTCCACATACTAGGTA
*
49773018 AGTTCGTAGTCTTGGAACTAGAACGTTATTTACTTAACTTAATTAGATAATTGTTAATTATTATT
320 AGTTCATAGTCTTGGAACTAGAACGTTATTTACTTAACTTAATTAGATAATTGTTAATTATTATT
*
49773083 TAACTATGTTTTTATTTGGGTTTGGTTAAGCTCTATTGAACGGATATTGATAAAATCATAAATAG
385 TAACTATGTTTTTATTTGGGTTTGATTAAGCTCTATTGAACGGATATTGATAAAATCATAAATAG
* ** *
49773148 ATAAAACGTGGCTTTATGGAATAAATTAATGGATGATTAATAGATAATTGAAATGAATGTGATAT
450 ATAAAACATGGAATTATGGAATAAATTAATGGATGATTAATAGATAACTGAAATGAATGTGATAT
* *
49773213 TGAGTTATGAAATGTGATATTGGGTTATGAAATGTGATTTTATGGACTAGCATTGGGCACAACTT
515 TAAGTTATGAAATGTGATATTGGGTTATGAAATGTGATTTTATGGACTAGCACTGGGCACAACTT
49773278 CTGTCAGTTTATCTGACTAGTGCTGGGCACAACCATCGTTGGTTATTTGACTAGCATTGGGTGCA
580 CTGTCAGTTTATCTGACTAGTGCTGGGCACAACCATCGTTGGTTATTTGACTAGCATTGGGTGCA
*
49773343 ACTTCTGTCAATTTATCTGACTAGTGCTGGGCACAACCATCGTCGGTTATCCGAGTAGCACTGGG
645 ACTTCTGTCAATTTATCTGACTA--GCTAGGCACAACCATCGTCGGTTATCCGAGTAGCACTGGG
* * *
49773408 CG-CAACTTCTGTCAGTTTATCTGACTAGTGTTAGACACAACCATCGTCAGTTATCTGACTACCG
708 -GTCAACTTCTATCAGTCTATCTGACTAGTGTTAGACACAACCATCGTCAGTTATCCGACTACCG
*
49773472 CTGGGCGCAACTTCTGTCAGTTTATCTGAGTAGTGCTAGGAACAACCATTGTCAATTATCT
772 CTGGGCACAACTTCTGTCAGTTTATCTGAGTAGTGCTAGGAACAACCATTGTCAATTATCT
49773533 TGAACTAAATAAATATTTTCTTTAATGC-TAAGTAAGTTCGTAATTCTTTAACTTGAACTATTTA
1 TGAACTAAATAAATATTTTCTTTAATGCATAAGTAAGTTCGTAATTCTTTAACTTGAACTATTTA
*
49773597 AATATTTACTTGT-TATTT-T-T-GATATATATAT-ATATGATACTTGTATACATTTATTAGCCA
66 AATATTTACTTGTGAATTTATATAGATATATATATAATATGATACTTGTATACATTTATTAGCCA
*
49773657 TTTGGAGATATGATAAAATGTATATTTAATCCAATGAATGGTTGATAAAATGAATAAATGAACAA
131 TTTGGAGACATGATAAAATGTATATTTAATCCAATGAATGGTTGATAAAATGAATAAATGAACAA
* *
49773722 TTAGCCTTAAACTAATAGTATAGAAATTTTATAGATGGAGATATATTGCCGAACTGATGAGATTG
196 TTAGCCTTAAACTAATAGTATAGAAATGTTATAGATGGAGATATATTACCGAACTGATGAGATTG
* **
49773787 AAGTTGAATAATGGTTAATGTATGCAGTTAAATAAAATCTTGTGTTTACATACTAGGTAAGTTCA
261 AAGTTGAATAATGGTTAATGTATGCAGTTAAATAAAATCTTCTGTCCACATACTAGGTAAGTTCA
* * * * *
49773852 TAGTCTTGGAACTCGAACGTTCTTTACTTAAGTTAATTAGTTAATTGTTAGTTATTATTTAACTA
326 TAGTCTTGGAACTAGAACGTTATTTACTTAACTTAATTAGATAATTGTTAATTATTATTTAACTA
* *
49773917 TGTTTTTATTTGGGTTTGATTAAGCTCTATTGAACGGATATTGATAAAATCGTATATAGATAAAA
391 TGTTTTTATTTGGGTTTGATTAAGCTCTATTGAACGGATATTGATAAAATCATAAATAGATAAAA
49773982 CATGGAATTATGGAATAAATTAATGGATGATTAATAGATAACTGAAATGAATGTGATATTAAGTT
456 CATGGAATTATGGAATAAATTAATGGATGATTAATAGATAACTGAAATGAATGTGATATTAAGTT
* ** *
49774047 ATGAAATGTGATATTGGGTTATGAAATGTGATTTTATGGTCTAGTGCTGGGCGCAACTTCTGTCA
521 ATGAAATGTGATATTGGGTTATGAAATGTGATTTTATGGACTAGCACTGGGCACAACTTCTGTCA
** *
49774112 GTTTATCTGACTAGTGCTGGGCACAACCATCGTTGGTTATTTGACTAGTGTTGGGTGCAACTTTT
586 GTTTATCTGACTAGTGCTGGGCACAACCATCGTTGGTTATTTGACTAGCATTGGGTGCAACTTCT
* * *
49774177 GTCAATTTATCTGACTAGCTAGGCACAACCATTGTCGGTTATCTGAGTAGCACTGGGGTTAACTT
651 GTCAATTTATCTGACTAGCTAGGCACAACCATCGTCGGTTATCCGAGTAGCACTGGGGTCAACTT
* * * *
49774242 CTATCAGTCTATCTGACTAGTGTTGGGCACAACCATCGTCAGTTATCCGACTAGCGTTGGGCACA
716 CTATCAGTCTATCTGACTAGTGTTAGACACAACCATCGTCAGTTATCCGACTACCGCTGGGCACA
*
49774307 ACTTCTGTTAGTTTAT
781 ACTTCTGTCAGTTTAT
49774323 TTGACCAGTG
Statistics
Matches: 737, Mismatches: 52, Indels: 16
0.92 0.06 0.02
Matches are distributed among these distances:
825 1 0.00
826 114 0.15
828 530 0.72
830 10 0.01
831 1 0.00
832 1 0.00
835 4 0.01
836 49 0.07
840 27 0.04
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (832 bp):
TGAACTAAATAAATATTTTCTTTAATGCATAAGTAAGTTCGTAATTCTTTAACTTGAACTATTTA
AATATTTACTTGTGAATTTATATAGATATATATATAATATGATACTTGTATACATTTATTAGCCA
TTTGGAGACATGATAAAATGTATATTTAATCCAATGAATGGTTGATAAAATGAATAAATGAACAA
TTAGCCTTAAACTAATAGTATAGAAATGTTATAGATGGAGATATATTACCGAACTGATGAGATTG
AAGTTGAATAATGGTTAATGTATGCAGTTAAATAAAATCTTCTGTCCACATACTAGGTAAGTTCA
TAGTCTTGGAACTAGAACGTTATTTACTTAACTTAATTAGATAATTGTTAATTATTATTTAACTA
TGTTTTTATTTGGGTTTGATTAAGCTCTATTGAACGGATATTGATAAAATCATAAATAGATAAAA
CATGGAATTATGGAATAAATTAATGGATGATTAATAGATAACTGAAATGAATGTGATATTAAGTT
ATGAAATGTGATATTGGGTTATGAAATGTGATTTTATGGACTAGCACTGGGCACAACTTCTGTCA
GTTTATCTGACTAGTGCTGGGCACAACCATCGTTGGTTATTTGACTAGCATTGGGTGCAACTTCT
GTCAATTTATCTGACTAGCTAGGCACAACCATCGTCGGTTATCCGAGTAGCACTGGGGTCAACTT
CTATCAGTCTATCTGACTAGTGTTAGACACAACCATCGTCAGTTATCCGACTACCGCTGGGCACA
ACTTCTGTCAGTTTATCTGAGTAGTGCTAGGAACAACCATTGTCAATTATCT
Found at i:49774056 original size:20 final size:20
Alignment explanation
Indices: 49774031--49774078 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
49774021 AACTGAAATG
49774031 AATGTGATATTAAGTTATGA
1 AATGTGATATTAAGTTATGA
**
49774051 AATGTGATATTGGGTTATGA
1 AATGTGATATTAAGTTATGA
49774071 AATGTGAT
1 AATGTGAT
49774079 TTTATGGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (20 bp):
AATGTGATATTAAGTTATGA
Found at i:49774126 original size:35 final size:35
Alignment explanation
Indices: 49774087--49774341 Score: 157
Period size: 35 Copynumber: 7.4 Consensus size: 35
49774077 ATTTTATGGT
*
49774087 CTAGTGCTGGGCGCAACTTCTGTCAGTTTATCTGA
1 CTAGTGCTGGGCACAACTTCTGTCAGTTTATCTGA
* * * *
49774122 CTAGTGCTGGGCACAACCATC-GT-TGGTTATTTGA
1 CTAGTGCTGGGCACAA-CTTCTGTCAGTTTATCTGA
* ** * *
49774156 CTAGTGTTGGGTGCAACTTTTGTCAATTTATCTGA
1 CTAGTGCTGGGCACAACTTCTGTCAGTTTATCTGA
* * *
49774191 CTA--GCTAGGCACAACCAT-TGTC-GGTTATCTGA
1 CTAGTGCTGGGCACAA-CTTCTGTCAGTTTATCTGA
* ** *** * *
49774223 GTAGCACTGGGGTTAACTTCTATCAGTCTATCTGA
1 CTAGTGCTGGGCACAACTTCTGTCAGTTTATCTGA
* * *
49774258 CTAGTGTTGGGCACAACCATC-GTCAG-TTATCCGA
1 CTAGTGCTGGGCACAA-CTTCTGTCAGTTTATCTGA
* * * *
49774292 CTAGCGTTGGGCACAACTTCTGTTAGTTTATTTGA
1 CTAGTGCTGGGCACAACTTCTGTCAGTTTATCTGA
* *
49774327 CCAGTGTTGGGCACA
1 CTAGTGCTGGGCACA
49774342 CTTTTTATAT
Statistics
Matches: 160, Mismatches: 49, Indels: 22
0.69 0.21 0.10
Matches are distributed among these distances:
32 10 0.06
33 18 0.11
34 59 0.37
35 67 0.42
36 6 0.04
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (35 bp):
CTAGTGCTGGGCACAACTTCTGTCAGTTTATCTGA
Found at i:49774287 original size:69 final size:69
Alignment explanation
Indices: 49774099--49774341 Score: 233
Period size: 69 Copynumber: 3.6 Consensus size: 69
49774089 AGTGCTGGGC
* * ** *
49774099 GCAACTTCTGTCAGTTTATCTGACTAGTGCTGGGCACAACCATCGTTGGTTATTTGACTAGTGTT
1 GCAACTTCTGTCAGTTTATCTGACTAGTGCTGGGCACAACCATCGTCGGTTATCTGACTAGACTG
49774164 GGGT
66 GGGT
* * * * *
49774168 GCAACTTTTGTCAATTTATCTGACTA--GCTAGGCACAACCATTGTCGGTTATCTGAGTAGCACT
1 GCAACTTCTGTCAGTTTATCTGACTAGTGCTGGGCACAACCATCGTCGGTTATCTGACTAG-ACT
49774231 GGGGT
65 GGGGT
* * * * * *
49774236 -TAACTTCTATCAGTCTATCTGACTAGTGTTGGGCACAACCATCGTCAGTTATCCGACTAG-CGT
1 GCAACTTCTGTCAGTTTATCTGACTAGTGCTGGGCACAACCATCGTCGGTTATCTGACTAGAC-T
* *
49774299 TGGGC
65 GGGGT
* * * * *
49774304 ACAACTTCTGTTAGTTTATTTGACCAGTGTTGGGCACA
1 GCAACTTCTGTCAGTTTATCTGACTAGTGCTGGGCACA
49774342 CTTTTTATAT
Statistics
Matches: 140, Mismatches: 29, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
67 49 0.35
68 9 0.06
69 82 0.59
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (69 bp):
GCAACTTCTGTCAGTTTATCTGACTAGTGCTGGGCACAACCATCGTCGGTTATCTGACTAGACTG
GGGT
Found at i:49775425 original size:23 final size:23
Alignment explanation
Indices: 49775399--49775456 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 23
49775389 AATTTTCCCA
*
49775399 ACTGTAAAAAAT-GATTTGTAATT
1 ACTGGAAAAAATAG-TTTGTAATT
* *
49775422 ACTGGAAATAATAGTTTGTAACT
1 ACTGGAAAAAATAGTTTGTAATT
* *
49775445 GCTGGAATAAAT
1 ACTGGAAAAAAT
49775457 TTGCAATATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (23 bp):
ACTGGAAAAAATAGTTTGTAATT
Found at i:49777461 original size:3 final size:3
Alignment explanation
Indices: 49777448--49777500 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
49777438 GGTGTACAAG
49777448 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49777494 AAT AAT A
1 AAT AAT A
49777501 GCACACATTA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49779099 original size:44 final size:44
Alignment explanation
Indices: 49779032--49779195 Score: 161
Period size: 44 Copynumber: 3.8 Consensus size: 44
49779022 GTTTTTTCTG
* * * *
49779032 TCTGCTCCGCTACTGCTTTGGGAGATAAGATCTAGCATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAGCGTCTTAGA
* * * * * *
49779076 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAGCGTCTTAGA
* * * * *
49779119 TCTGCTTCACTACTGCTTAGGAAGATGAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAG-CGTCTTAGA
*
49779163 TCTGCTCCACTACTGCTTAGGGAGATAGGATCT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT
49779196 GAAATTCTTC
Statistics
Matches: 93, Mismatches: 24, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
43 34 0.37
44 58 0.62
45 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTAGCGTCTTAGA
Found at i:49779338 original size:134 final size:133
Alignment explanation
Indices: 49779181--49779912 Score: 527
Period size: 134 Copynumber: 5.4 Consensus size: 133
49779171 ACTACTGCTT
* *
49779181 AGGGAGATAGGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
1 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCAT
* * * * *
49779246 ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTACTCCTCTGTAA
66 ATTTAACCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT-TCTTCGATCTACTCCACTGTAA
*
49779311 TCTC
130 CCTC
49779315 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-TCTG-A
1 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACT-TGCA
* * * * * ** * * * ** * * *
49779378 AATTCT-TCGGTCTACTCTACTGTAACCTCAATGAGATAAGACTTGCATATTTAACCTGCCCCAC
65 TATT-TAAC---CTGCTCCACTGTAACTTCAGGGAGATAAGATTTG-TTCTTCGATCTACTCCAC
* *
49779442 TGTAACTTT
125 TGTAACCTC
* * * * * * * ***
49779451 AGGGAGATAAGGTTTG---TGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGATCTAAA
1 AGGGAGATAAGATCTGAAAT-TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-CTTGC
*** * * * *
49779513 AT-TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCA
64 ATAT-TT-AACCTGCTCCACTGTAACTTCAGGGAGATAAGATTTG---TTCTTCGATCTACTCCA
49779577 CTGTAACCTC
124 CTGTAACCTC
* * * * * * * **
49779587 AAGGAGATAAGA-CTTGCATATT-TAAC---CTGCCCCACTGTAACTTTAGGGAGATAAGGTTTG
1 AGGGAGATAAGATC-TG-AAATTCT-TCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTG
**** ** * * * * *
49779647 TGGCTTCGATCTGCTCCTCTGTAA-TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTTCA
63 CATATTTAACCTGCTCCACTGTAACT-TCAGGGAGATAAGATTTG---TTCTTCGATCTACTCCA
49779711 CTGTAACCTC
124 CTGTAACCTC
*
49779721 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
1 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCAT
* * * * * * *
49779786 ATTTAACCTGCCCCATTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
66 ATTTAACCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGT-TCTTCGATCTACTCCACTGTAA
*
49779851 TCTC
130 CCTC
*
49779855 AGGGAGATAAGATCTGAAATTCTTCTGTCTACTCCACTGTAACCTCAGGGAGATAAGA
1 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA
49779913 TCTGAAATTC
Statistics
Matches: 461, Mismatches: 107, Indels: 60
0.73 0.17 0.10
Matches are distributed among these distances:
133 13 0.03
134 272 0.59
135 5 0.01
136 167 0.36
137 1 0.00
138 1 0.00
139 1 0.00
140 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (133 bp):
AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCAT
ATTTAACCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGTTCTTCGATCTACTCCACTGTAAC
CTC
Found at i:49779389 original size:180 final size:180
Alignment explanation
Indices: 49779181--49780092 Score: 1725
Period size: 180 Copynumber: 5.1 Consensus size: 180
49779171 ACTACTGCTT
*
49779181 AGGGAGATAGGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
1 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
*
49779246 ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTACTCCTCTGTAA
66 ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
49779311 TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
131 TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
* *
49779361 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAATGAGATAAGACTTGCAT
1 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
49779426 ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
66 ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
*
49779491 TCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCACTGTAACCTC
131 TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
49779541 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
1 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
49779606 ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
66 ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
*
49779671 TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTTCACTGTAACCTC
131 TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
49779721 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
1 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
*
49779786 ATTTAACCTGCCCCATTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
66 ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
*
49779851 TCTCAGGGAGATAAGATCTGAAATTCTTCTGTCTACTCCACTGTAACCTC
131 TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
*
49779901 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAAGAGATAAGACTTGCAT
1 AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
49779966 ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
66 ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
* *
49780031 TCTCAAGGAGATAAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTC
131 TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
49780081 AGGGAGATAAGA
1 AGGGAGATAAGA
49780093 CTTGCATATT
Statistics
Matches: 715, Mismatches: 17, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
180 715 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (180 bp):
AGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATAAGACTTGCAT
ATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA
TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTC
Found at i:49780127 original size:44 final size:44
Alignment explanation
Indices: 49779934--49780135 Score: 124
Period size: 44 Copynumber: 4.5 Consensus size: 44
49779924 TCGGTCTACT
* **
49779934 CCACTGTAACCTCAAAGAGATAAGACTTGCATATTTAACCTGCC
1 CCACTGTAACTTCAGGGAGATAAGACTTGCATATTTAACCTGCC
* ** **** ** * *
49779978 CCACTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCT
1 CCACTGTAACTTCAGGGAGATAAGACTTGCATATTTAACCTGCC
* * * * * *
49780022 CCTCTGTAA-TCTCAAGGAGATAAGA-TCTG-AAATTCT-TCGGTCTACT
1 CCACTGTAACT-TCAGGGAGATAAGACT-TGCATATT-TAAC---CTGCC
* *
49780068 CTACTGTAACCTCAGGGAGATAAGACTTGCATATTTAACCTGCC
1 CCACTGTAACTTCAGGGAGATAAGACTTGCATATTTAACCTGCC
49780112 CCACTGTAACTTCAGGGAGATAAG
1 CCACTGTAACTTCAGGGAGATAAG
49780136 GCTTTATGTG
Statistics
Matches: 113, Mismatches: 35, Indels: 20
0.67 0.21 0.12
Matches are distributed among these distances:
43 4 0.04
44 76 0.67
46 27 0.24
47 6 0.05
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CCACTGTAACTTCAGGGAGATAAGACTTGCATATTTAACCTGCC
Found at i:49780136 original size:134 final size:133
Alignment explanation
Indices: 49779305--49780135 Score: 625
Period size: 134 Copynumber: 6.2 Consensus size: 133
49779295 ATCTACTCCT
* *
49779305 CTGTAA-TCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGAT
1 CTGTAACT-TCAGGGAGATAAGATTTG---TTCTTCGATCTACTCCACTGTAACCTCAGGGAGAT
* **
49779369 AAGATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAATGAGATAAGACTTGCATATTTAACC
62 AAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTTAACC
49779434 TGCCCCA
127 TGCCCCA
* * * * * *
49779441 CTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAG
1 CTGTAACTTCAGGGAGATAAGATTTGT-TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAG
* * *
49779506 ATCTAAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGA-TCTG-AAATTCT-TCGG
65 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACT-TGCATATT-TAAC--
* *
49779568 TCTACTCCA
126 -CTGCCCCA
* * * * * ** * * * * *
49779577 CTGTAACCTCAAGGAGATAAGACTTGCATATTTAACCTGCCCCACTGTAACTTTAGGGAGATAAG
1 CTGTAACTTCAGGGAGATAAGATTTG-TTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAG
* * * * * * * * *
49779642 GTTTG---TGGCTTCGATCTGCTCCTCTGTAATCTCAGGGAGATAAGA-TCTG-AAATTCT-TCG
65 ATCTGAAAT-TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACT-TGCATATT-TAAC-
* **
49779701 GTCTACTTCA
126 --CTGCCCCA
* * * *
49779711 CTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAGGAGATA
1 CTGTAACTTCAGGGAGATAAGATTTG---TTCTTCGATCTACTCCACTGTAACCTCAGGGAGATA
* * * * * * * ** **** **
49779776 AGA-CTTGCATATT-TAAC---CTGCCCCATTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGA
63 AGATC-TG-AAATTCT-TCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTTAA
* * *
49779836 TCTGCTCCT
125 CCTGCCCCA
*
49779845 CTGTAA-TCTCAGGGAGATAAGATCTGAAATTCTTCTG-TCTACTCCACTGTAACCTCAGGGAGA
1 CTGTAACT-TCAGGGAGATAAGATTTG---TTCTTC-GATCTACTCCACTGTAACCTCAGGGAGA
**
49779908 TAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAAAGAGATAAGACTTGCATATTTAAC
61 TAAGATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTTAAC
49779973 CTGCCCCA
126 CTGCCCCA
* * * * * * *
49779981 CTGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAATCTCAAGGAGATAAG
1 CTGTAACTTCAGGGAGATAAGATTTGT-TCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAG
*
49780046 ATCTGAAATTCTTCGGTCTACTCTACTGTAACCTCAGGGAGATAAGACTTGCATATTTAACCTGC
65 ATCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTTAACCTGC
49780111 CCCA
130 CCCA
49780115 CTGTAACTTCAGGGAGATAAG
1 CTGTAACTTCAGGGAGATAAG
49780136 GCTTTATGTG
Statistics
Matches: 555, Mismatches: 110, Indels: 62
0.76 0.15 0.09
Matches are distributed among these distances:
133 15 0.03
134 344 0.62
135 2 0.00
136 186 0.34
137 5 0.01
138 1 0.00
139 1 0.00
140 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (133 bp):
CTGTAACTTCAGGGAGATAAGATTTGTTCTTCGATCTACTCCACTGTAACCTCAGGGAGATAAGA
TCTGAAATTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTTAACCTGCC
CCA
Found at i:49781593 original size:7 final size:7
Alignment explanation
Indices: 49781540--49781593 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
49781530 TTAGCTTCTC
49781540 CATTTTT
1 CATTTTT
*
49781547 CAATTTT
1 CATTTTT
49781554 CA-TTTT
1 CATTTTT
*
49781560 CTTTTTT
1 CATTTTT
*
49781567 CAATTTT
1 CATTTTT
*
49781574 CA-TTCT
1 CATTTTT
49781580 CATTTTT
1 CATTTTT
49781587 CATTTTT
1 CATTTTT
49781594 TCAGAGTGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
6 10 0.26
7 29 0.74
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:49781593 original size:20 final size:20
Alignment explanation
Indices: 49781535--49781592 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
49781525 TCCCCTTAGC
49781535 TTCTCCATTTTTCAATTTTCA
1 TTCT-CATTTTTCAATTTTCA
* *
49781556 TTTTCTTTTTTCAATTTTCA
1 TTCTCATTTTTCAATTTTCA
49781576 TTCTCATTTTTC-ATTTT
1 TTCTCATTTTTCAATTTT
49781593 TTCAGAGTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.66
Consensus pattern (20 bp):
TTCTCATTTTTCAATTTTCA
Found at i:49782535 original size:6 final size:6
Alignment explanation
Indices: 49782526--49782554 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
49782516 TCTTAATTTC
49782526 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
49782555 TTCCTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
ATTTTG
Found at i:49787007 original size:16 final size:16
Alignment explanation
Indices: 49786988--49787037 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
49786978 ATGTGAAGGG
49786988 ATATATATGTATATAT
1 ATATATATGTATATAT
*
49787004 ATATATATGTATAAAT
1 ATATATATGTATATAT
* * *
49787020 AAAAATATGTATGTAT
1 ATATATATGTATATAT
49787036 AT
1 AT
49787038 GTGTATATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (16 bp):
ATATATATGTATATAT
Found at i:49787096 original size:64 final size:64
Alignment explanation
Indices: 49787014--49787176 Score: 274
Period size: 64 Copynumber: 2.6 Consensus size: 64
49787004 ATATATATGT
* *
49787014 ATAAATAA-AAATATGTATGTATATGTGTATATATATGTACATATAAGGTATAAAATATAAAGC
1 ATAAATAATATATAAGTATGTATATGTGTATATATATGTACATATAAGGTATAAAATATAAAGC
*
49787077 ATAAATAATATATAAGTATGTATATGTGTATATATATGTACATATAAGGTATAAAGTATAAAGC
1 ATAAATAATATATAAGTATGTATATGTGTATATATATGTACATATAAGGTATAAAATATAAAGC
* *
49787141 ATAAATAATATATAAGTATGTATATATATATATATA
1 ATAAATAATATATAAGTATGTATATGTGTATATATA
49787177 GAATAAAAAG
Statistics
Matches: 94, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
63 8 0.09
64 86 0.91
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (64 bp):
ATAAATAATATATAAGTATGTATATGTGTATATATATGTACATATAAGGTATAAAATATAAAGC
Found at i:49787417 original size:3 final size:3
Alignment explanation
Indices: 49787404--49787453 Score: 91
Period size: 3 Copynumber: 16.3 Consensus size: 3
49787394 GGTGTACAAG
49787404 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49787450 AAT A
1 AAT A
49787454 GCACACATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49789699 original size:18 final size:19
Alignment explanation
Indices: 49789678--49789721 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
49789668 TACCTAAATA
49789678 CATTTTATTTTA-TTATAT
1 CATTTTATTTTATTTATAT
49789696 CATTTTA-TTTATTTATAT
1 CATTTTATTTTATTTATAT
*
49789714 CCTTTTAT
1 CATTTTAT
49789722 ATAATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (19 bp):
CATTTTATTTTATTTATAT
Found at i:49789759 original size:3 final size:3
Alignment explanation
Indices: 49789744--49789796 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
49789734 TTTTAGATTT
* * ** * *
49789744 TTA TTA TTG TTA TTA TTA TTA ATA CCA TCA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49789792 TTA TT
1 TTA TT
49789797 CTTAAATTGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:49796418 original size:20 final size:20
Alignment explanation
Indices: 49796393--49796438 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
49796383 GCAATGCTGT
49796393 AAAGGATAAGGTTAACGAGA
1 AAAGGATAAGGTTAACGAGA
49796413 AAAGGATAAGGTTAACGAGA
1 AAAGGATAAGGTTAACGAGA
49796433 AAAGGA
1 AAAGGA
49796439 AAATAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.04, G:0.30, T:0.13
Consensus pattern (20 bp):
AAAGGATAAGGTTAACGAGA
Found at i:49807791 original size:128 final size:129
Alignment explanation
Indices: 49807628--49807886 Score: 421
Period size: 128 Copynumber: 2.0 Consensus size: 129
49807618 TAGTAGACAA
* * *
49807628 GAATTTGATAGGATGCAAACGGATGTTTATTGTGAAATACAAGTCTGATGGTTCTATTGAAAGGT
1 GAATTTGATAGGATGCAAACGGATGTTTACTGTGAAACACAAGTCTGATGGTTCAATTGAAAGGT
*
49807693 ACAAAGCCAGATTGGTTGCTAAAGGTTTCACTCAAACTTAT-AGTAGAATATCAAGAGACGTTT
66 ACAAAGCCAGATTGGTTGCTAAAGGCTTCACTCAAACTTATGAGTAGAATATCAAGAGACGTTT
* * *
49807756 GAATTTGGTAGGATGCATACGGGTGTTTACTGTGAAACACAAGTCTGATGGTTCAATTGAAAGGT
1 GAATTTGATAGGATGCAAACGGATGTTTACTGTGAAACACAAGTCTGATGGTTCAATTGAAAGGT
* *
49807821 ACAAAGTCAGATTGGTTGCTAAAGGCTTCACTCAAACTTATGGAGTAGACTATCAAGAGACGTTT
66 ACAAAGCCAGATTGGTTGCTAAAGGCTTCACTCAAACTTAT-GAGTAGAATATCAAGAGACGTTT
49807886 G
1 G
49807887 CCTCTGTTGC
Statistics
Matches: 120, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
128 98 0.82
130 22 0.18
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (129 bp):
GAATTTGATAGGATGCAAACGGATGTTTACTGTGAAACACAAGTCTGATGGTTCAATTGAAAGGT
ACAAAGCCAGATTGGTTGCTAAAGGCTTCACTCAAACTTATGAGTAGAATATCAAGAGACGTTT
Found at i:49811727 original size:6 final size:6
Alignment explanation
Indices: 49811718--49811744 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49811708 TGGGATTGGC
49811718 ATGAAG ATGAAG ATGAAG ATGAAG ATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATG
49811745 TAACAAAGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.19
Consensus pattern (6 bp):
ATGAAG
Found at i:49812581 original size:16 final size:18
Alignment explanation
Indices: 49812560--49812597 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
49812550 GTCATGGTTT
49812560 AAAATGAAAATT-T-AAA
1 AAAATGAAAATTGTGAAA
*
49812576 AAAATGAATATTGTGAAA
1 AAAATGAAAATTGTGAAA
49812594 AAAA
1 AAAA
49812598 AATGTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 11 0.58
17 1 0.05
18 7 0.37
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.24
Consensus pattern (18 bp):
AAAATGAAAATTGTGAAA
Found at i:49813626 original size:24 final size:24
Alignment explanation
Indices: 49813598--49813643 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
49813588 ATAGTAATAC
*
49813598 ATTTTTATTTAAAAAA-ATATATAA
1 ATTTTT-TATAAAAAATATATATAA
49813622 ATTTTTTATAAAAAATATATAT
1 ATTTTTTATAAAAAATATATAT
49813644 TTAAAAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
ATTTTTTATAAAAAATATATATAA
Found at i:49816079 original size:42 final size:42
Alignment explanation
Indices: 49816031--49816112 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
49816021 CTTAGGTGCT
* *
49816031 ATTTCTTATTTTATAATTGTTAATTAATCCAATTGCATCTGA
1 ATTTCTTATTTGATAATTGTTAATTAAACCAATTGCATCTGA
*
49816073 ATTTCTTATTTGATAGTTGTTAATTAAACCAATTGCATCT
1 ATTTCTTATTTGATAATTGTTAATTAAACCAATTGCATCT
49816113 AAATAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (42 bp):
ATTTCTTATTTGATAATTGTTAATTAAACCAATTGCATCTGA
Found at i:49817998 original size:12 final size:12
Alignment explanation
Indices: 49817983--49818009 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49817973 AGCCTACTAC
49817983 CACAAGCATTGT
1 CACAAGCATTGT
49817995 CACAAGCATTGT
1 CACAAGCATTGT
49818007 CAC
1 CAC
49818010 TGATGCAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (12 bp):
CACAAGCATTGT
Found at i:49822552 original size:46 final size:46
Alignment explanation
Indices: 49822481--49822573 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
49822471 TCAATTAACG
*
49822481 AAGTGAAAACTCATTCTCTGTTTCCAACCTTTTAAGGTTTAATCTC
1 AAGTGAAAACTCATTCTCTGATTCCAACCTTTTAAGGTTTAATCTC
*
49822527 AAGTGAAAACTCATTCTCTGATTCCAGCCTTTTAAGGTTTAATCTC
1 AAGTGAAAACTCATTCTCTGATTCCAACCTTTTAAGGTTTAATCTC
49822573 A
1 A
49822574 CTTCCTTTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.38
Consensus pattern (46 bp):
AAGTGAAAACTCATTCTCTGATTCCAACCTTTTAAGGTTTAATCTC
Found at i:49826281 original size:6 final size:6
Alignment explanation
Indices: 49826266--49826295 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
49826256 AGTAATAATT
49826266 TTTTTA -TTTTA TTTTTA TTTTTA TTTTTA T
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T
49826296 CCATATCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:49840167 original size:20 final size:22
Alignment explanation
Indices: 49840123--49840178 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 22
49840113 TTGAGTTTTA
*
49840123 TCTCAAGACATATGTTGCTTTG
1 TCTCAAGACATATGTTGCATTG
49840145 TCTCAAGACATA-GTT-CATTG
1 TCTCAAGACATATGTTGCATTG
*
49840165 TCTTAAGAC-TATGT
1 TCTCAAGACATATGT
49840179 ATTCAGACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.06
20 14 0.45
21 3 0.10
22 12 0.39
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (22 bp):
TCTCAAGACATATGTTGCATTG
Found at i:49841586 original size:320 final size:320
Alignment explanation
Indices: 49841004--49841645 Score: 1284
Period size: 320 Copynumber: 2.0 Consensus size: 320
49840994 TTACAACAGT
49841004 GACAATATAAATTTCATTGTCCGAACTCCGGACTCTAAGGGATTTAAATTTTTACAACACATATA
1 GACAATATAAATTTCATTGTCCGAACTCCGGACTCTAAGGGATTTAAATTTTTACAACACATATA
49841069 TATATTTGTCCCCATGGGGAAGTTTCTAAATGTACCCTCTTCCTATGTGCATAACACTTTCCTTT
66 TATATTTGTCCCCATGGGGAAGTTTCTAAATGTACCCTCTTCCTATGTGCATAACACTTTCCTTT
49841134 GATGCCTCTTGACTTATCCCGATTTGGCTTAGTCCCTCCCTGAGTTCCTTATCTATCAAGCCCTG
131 GATGCCTCTTGACTTATCCCGATTTGGCTTAGTCCCTCCCTGAGTTCCTTATCTATCAAGCCCTG
49841199 CAATCACAAGTCAACCATTATAAGTTCAAATGAACTTAGAGAGTTTCTTCACTACAAAAAATATT
196 CAATCACAAGTCAACCATTATAAGTTCAAATGAACTTAGAGAGTTTCTTCACTACAAAAAATATT
49841264 CGCCACCTTGTTGAGGTCCAAATAAATAATAATAGATACAACAAACTCCTTGCTCATTTG
261 CGCCACCTTGTTGAGGTCCAAATAAATAATAATAGATACAACAAACTCCTTGCTCATTTG
49841324 GACAATATAAATTTCATTGTCCGAACTCCGGACTCTAAGGGATTTAAATTTTTACAACACATATA
1 GACAATATAAATTTCATTGTCCGAACTCCGGACTCTAAGGGATTTAAATTTTTACAACACATATA
49841389 TATATTTGTCCCCATGGGGAAGTTTCTAAATGTACCCTCTTCCTATGTGCATAACACTTTCCTTT
66 TATATTTGTCCCCATGGGGAAGTTTCTAAATGTACCCTCTTCCTATGTGCATAACACTTTCCTTT
49841454 GATGCCTCTTGACTTATCCCGATTTGGCTTAGTCCCTCCCTGAGTTCCTTATCTATCAAGCCCTG
131 GATGCCTCTTGACTTATCCCGATTTGGCTTAGTCCCTCCCTGAGTTCCTTATCTATCAAGCCCTG
49841519 CAATCACAAGTCAACCATTATAAGTTCAAATGAACTTAGAGAGTTTCTTCACTACAAAAAATATT
196 CAATCACAAGTCAACCATTATAAGTTCAAATGAACTTAGAGAGTTTCTTCACTACAAAAAATATT
49841584 CGCCACCTTGTTGAGGTCCAAATAAATAATAATAGATACAACAAACTCCTTGCTCATTTG
261 CGCCACCTTGTTGAGGTCCAAATAAATAATAATAGATACAACAAACTCCTTGCTCATTTG
49841644 GA
1 GA
49841646 ACATTTCTCT
Statistics
Matches: 322, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
320 322 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (320 bp):
GACAATATAAATTTCATTGTCCGAACTCCGGACTCTAAGGGATTTAAATTTTTACAACACATATA
TATATTTGTCCCCATGGGGAAGTTTCTAAATGTACCCTCTTCCTATGTGCATAACACTTTCCTTT
GATGCCTCTTGACTTATCCCGATTTGGCTTAGTCCCTCCCTGAGTTCCTTATCTATCAAGCCCTG
CAATCACAAGTCAACCATTATAAGTTCAAATGAACTTAGAGAGTTTCTTCACTACAAAAAATATT
CGCCACCTTGTTGAGGTCCAAATAAATAATAATAGATACAACAAACTCCTTGCTCATTTG
Found at i:49842785 original size:67 final size:67
Alignment explanation
Indices: 49842698--49842920 Score: 272
Period size: 67 Copynumber: 3.3 Consensus size: 67
49842688 TTTTATACTT
* *
49842698 CCACAG-CTAACTATGGTCTTACTCGTTAGGTTCCATGTTTAATGTCCTGACGGACTCCATTGGT
1 CCACAGTCTAACTATGGTCTTACTCATTAGGTTCCATGTTTAATGTCCTGGCGGACTCCATTGGT
49842762 TA
66 TA
* * * * *
49842764 CCACAGCCGAACTATGGTCTTAC-CCTTCAGGTTCCATGTTTAATGTCTTGGCGAACTCCATTGG
1 CCACAGTCTAACTATGGTCTTACTCATT-AGGTTCCATGTTTAATGTCCTGGCGGACTCCATTGG
*
49842828 TTG
65 TTA
* * * * * *
49842831 CCATAGTCAAACTATGGTCTTACTCATTAGGTTCCATGTTTAATGTTCTGGTGGATTCCATTAGT
1 CCACAGTCTAACTATGGTCTTACTCATTAGGTTCCATGTTTAATGTCCTGGCGGACTCCATTGGT
49842896 TGA
66 T-A
*
49842899 -CATAGTCTAACTATGGTCTTAC
1 CCACAGTCTAACTATGGTCTTAC
49842921 CCCCATAATC
Statistics
Matches: 135, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
66 9 0.07
67 123 0.91
68 3 0.02
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (67 bp):
CCACAGTCTAACTATGGTCTTACTCATTAGGTTCCATGTTTAATGTCCTGGCGGACTCCATTGGT
TA
Found at i:49843572 original size:69 final size:73
Alignment explanation
Indices: 49843434--49843575 Score: 193
Period size: 69 Copynumber: 2.0 Consensus size: 73
49843424 CAAATTTTAA
* * * *
49843434 AAAAAAAGGGATCACGACCAGTGAGTCAGGACGCGATCTCTTTTTCAAATCCCGAGATCGTTTAG
1 AAAAAAAGGGATCACGACCAGTAAGTCAGGACACGATCTCTTTTTCAAATCCCGAGATCATTTAA
49843499 AACTTGAG
66 AACTTGAG
* * *
49843507 AAAAAAA-GGATCATG-CCAGTAAGTTAGGACACGATCT-TTTTT-AATTCCCGAGATCATTTAA
1 AAAAAAAGGGATCACGACCAGTAAGTCAGGACACGATCTCTTTTTCAAATCCCGAGATCATTTAA
49843568 AACTTGAG
66 AACTTGAG
49843576 TTCGAGAACA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
69 24 0.39
70 5 0.08
71 19 0.31
72 7 0.11
73 7 0.11
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (73 bp):
AAAAAAAGGGATCACGACCAGTAAGTCAGGACACGATCTCTTTTTCAAATCCCGAGATCATTTAA
AACTTGAG
Found at i:49843754 original size:19 final size:21
Alignment explanation
Indices: 49843713--49843760 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
49843703 GGTGCAAAAT
49843713 AATAATAATGATGACAACGAA
1 AATAATAATGATGACAACGAA
49843734 AATAA-AATGAT-ACAA-GCAA
1 AATAATAATGATGACAACG-AA
49843753 AATAATAA
1 AATAATAA
49843761 ACAATAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 1 0.04
19 11 0.44
20 8 0.32
21 5 0.20
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (21 bp):
AATAATAATGATGACAACGAA
Found at i:49844307 original size:8 final size:8
Alignment explanation
Indices: 49844258--49844311 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
49844248 AAAAAGATAG
49844258 AAATATAT
1 AAATATAT
49844266 -AATATAT
1 AAATATAT
*
49844273 ACATATA-
1 AAATATAT
49844280 AAA-ATAT
1 AAATATAT
* *
49844287 ACATATTT
1 AAATATAT
*
49844295 TAATATAT
1 AAATATAT
49844303 AAATATAT
1 AAATATAT
49844311 A
1 A
49844312 TATACGAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
6 3 0.09
7 11 0.31
8 21 0.60
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (8 bp):
AAATATAT
Found at i:49844314 original size:14 final size:15
Alignment explanation
Indices: 49844258--49844315 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 15
49844248 AAAAAGATAG
49844258 AAATATATAATATAT
1 AAATATATAATATAT
* *
49844273 ACATATA-AAAATAT
1 AAATATATAATATAT
* *
49844287 ACATATTTTAATATAT
1 AAATA-TATAATATAT
49844303 AAATATAT-ATATA
1 AAATATATAATATA
49844316 CGAATAAGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
14 16 0.46
15 9 0.26
16 10 0.29
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATATATAATATAT
Found at i:49844553 original size:3 final size:3
Alignment explanation
Indices: 49844527--49844597 Score: 88
Period size: 3 Copynumber: 23.7 Consensus size: 3
49844517 ATATAAGGGA
* * * * * *
49844527 AAT AAC AAT AAT ATT AAT ACT AAT AAT AAT AGT AGT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49844575 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
49844598 AATTACTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49846167 original size:132 final size:131
Alignment explanation
Indices: 49845997--49846443 Score: 526
Period size: 132 Copynumber: 3.4 Consensus size: 131
49845987 TACACCGTCG
* * * *
49845997 GGGAAG-TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGCTCTACCATC
1 GGGAAGATAAGATT-ACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATC
* * * ** * * *
49846061 TTCAACCAACTCCACTACTACTCAGGGAGATAGGACTAGT-ACTTTCGATCTGCTTCACTACAAG
65 TTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGAC-TTAAATCTGCTTCTCCACTA-
*
49846125 T-AT
128 TCTT
* * * * * * *
49846128 AGGAAGATAAGATCTGCCGTCTTCAATCTACTCCACTACTGTTTAGGGAGACAGGATCTGCAATC
1 GGGAAGATAAGAT-TACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATC
* * * *
49846193 TTCAACCTACTCCACGACTGCTTA-GGAGATAGGACTAATGGCTTAAATCTGTTTCTCCACTATC
65 TTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATC
49846257 TT
130 TT
* * *
49846259 GGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGA-CAGAATCTGCAAT
1 GGGAAGATAAGATT-ACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG-ATCTGCAAT
* *
49846323 CTTCAACCTACTCCACTACTTCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTTTCCACTAT
64 CTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTAT
49846388 CTT
129 CTT
*
49846391 GGGAAGATAAGATTTACCATCTTTGATCTACTCCACTACTGCTTAGGGAGATA
1 GGGAAGATAAGA-TTACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATA
49846444 GGACTAATGG
Statistics
Matches: 267, Mismatches: 40, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
130 3 0.01
131 108 0.40
132 153 0.57
133 3 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (131 bp):
GGGAAGATAAGATTACCATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGCAATCT
TCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATCT
T
Found at i:49846176 original size:88 final size:87
Alignment explanation
Indices: 49846017--49846183 Score: 201
Period size: 88 Copynumber: 1.9 Consensus size: 87
49846007 ATTCACCATC
* * *
49846017 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGCTCTACCATCTTCAACCAACTCCACTACTAC
1 TTCGATCTGCTCCACTACAGCTTAGGAAGATAAGATCTACCATCTTCAACCAACTCCACTACTAC
*
49846082 TCAGGGAGATAGGACTAGTACT
66 TCAGGGAGACAGGACTAGTACT
* * * * *
49846104 TTCGATCTGCTTCACTACAAG-TATAGGAAGATAAGATCTGCCGTCTTCAATCTACTCCACTACT
1 TTCGATCTGCTCCACTAC-AGCT-TAGGAAGATAAGATCTACCATCTTCAACCAACTCCACTACT
** *
49846168 GTTTAGGGAGACAGGA
64 ACTCAGGGAGACAGGA
49846184 TCTGCAATCT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
87 18 0.27
88 48 0.73
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (87 bp):
TTCGATCTGCTCCACTACAGCTTAGGAAGATAAGATCTACCATCTTCAACCAACTCCACTACTAC
TCAGGGAGACAGGACTAGTACT
Found at i:49846187 original size:44 final size:43
Alignment explanation
Indices: 49846138--49846226 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 43
49846128 AGGAAGATAA
** * * *
49846138 GATCTGCCGTCTTCAATCTACTCCACTACTGTTTAGGGAGACAG
1 GATCTGCAATCTTCAACCTACTCCACGACTGCTTA-GGAGACAG
*
49846182 GATCTGCAATCTTCAACCTACTCCACGACTGCTTAGGAGATAG
1 GATCTGCAATCTTCAACCTACTCCACGACTGCTTAGGAGACAG
49846225 GA
1 GA
49846227 CTAATGGCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
43 9 0.23
44 30 0.77
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (43 bp):
GATCTGCAATCTTCAACCTACTCCACGACTGCTTAGGAGACAG
Found at i:49846422 original size:88 final size:88
Alignment explanation
Indices: 49846321--49846529 Score: 310
Period size: 88 Copynumber: 2.4 Consensus size: 88
49846311 AGAATCTGCA
* * * *
49846321 ATCTTCAACCTACTCCACTACTTCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTTTCCACT
1 ATCTTCAATCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTACTTCTCCACT
*
49846386 ATCTTGGGAAGATAAGATTTACC
66 ATCTTGGGAAGATAAGATTCACC
** * *
49846409 ATCTTTGATCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACT
1 ATCTTCAATCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTACTTCTCCACT
*
49846474 ATCTTGGGAAGATAAGATTCGCC
66 ATCTTGGGAAGATAAGATTCACC
**
49846497 ATCTTCAATCTGTTCCACTACTACTTAGGGAGA
1 ATCTTCAATCTACTCCACTACTACTTAGGGAGA
49846530 CAGAATCTGC
Statistics
Matches: 107, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 107 1.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (88 bp):
ATCTTCAATCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTACTTCTCCACT
ATCTTGGGAAGATAAGATTCACC
Found at i:49846487 original size:132 final size:129
Alignment explanation
Indices: 49846333--49846886 Score: 562
Period size: 132 Copynumber: 4.2 Consensus size: 129
49846323 CTTCAACCTA
* * *
49846333 CTCCACTACTTCTTAGGG-AGATAGGACTAATGACTTAAATCTGCTTTTCCACTATCTTGGGAAG
1 CTCCACTA--TCTT-GGGAAGATAAGACTCATGACTTCAATCTG---TTCCACTATCTTGGGAAG
* * * * ** *
49846397 ATA-AGATTTACCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAAT
60 ACAGA-ATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAAT
49846461 CTACTT
124 CTACTT
* ***
49846467 CTCCACTATCTTGGGAAGATAAGATTCGCCATCTTCAATCTGTTCCACTACTACTTAGGG-AGAC
1 CTCCACTATCTTGGGAAGATAAGACTCATGA-CTTCAATCTGTTCCACTA-T-CTT-GGGAAGAC
* * **
49846531 AGAATCTGCAATCTTCAACCTACTTCACTACTACTTAGGGAGATAGGACTAATGTTTTAAATCTA
62 AGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTA
49846596 CTT
127 CTT
* * *
49846599 CTCCACTATCTTGGGAAGATAAGATTCGCCAT-A-TTCGATCTGCTCCACTATTGCTTAGGG-AG
1 CTCCACTATCTTGGGAAGATAAGA--C-TCATGACTTCAATCTGTTCCACTA-T-CTT-GGGAAG
* * *
49846661 ACAGAATCTGCAATCTTCAACCTACTCCACTAGTACTTAGGGAGATATGACTAATGGCTTAAATC
60 ACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATC
*
49846726 TGCTT
125 TACTT
* ** * * *
49846731 CTCCACTATCTTGGGAAGATAAGATTCACAATCTTCGATCTGTTCCACTGCTTCTTAGGAAGACA
1 CTCCACTATCTTGGGAAGATAAGACTCATGA-CTTCAATCTGTTCCACT--ATCTTGGGAAGACA
* *
49846796 GAATCTGCAATCTTCAACCTATTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGC
63 GAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTAC
49846861 TT
128 TT
* * *
49846863 CTCTATTATCTTGGGAAGTTAAGA
1 CTCCACTATCTTGGGAAGATAAGA
49846887 TTCGCCATCT
Statistics
Matches: 360, Mismatches: 45, Indels: 32
0.82 0.10 0.07
Matches are distributed among these distances:
129 2 0.01
130 9 0.03
131 6 0.02
132 319 0.89
133 14 0.04
134 9 0.03
135 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (129 bp):
CTCCACTATCTTGGGAAGATAAGACTCATGACTTCAATCTGTTCCACTATCTTGGGAAGACAGAA
TCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTT
Found at i:49846488 original size:220 final size:220
Alignment explanation
Indices: 49846199--49846661 Score: 739
Period size: 220 Copynumber: 2.1 Consensus size: 220
49846189 AATCTTCAAC
* **
49846199 CTACTCCACGACTGCTTA-GGAGATAGGACTAATGGCTTAAATCTGTTTCTCCACTATCTTGGGA
1 CTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGA
** *
49846263 AGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCA
66 AGATAAGATTCACCATCTTCAATCTGCTCCACTACTACTTAGGGAGACAGAATCTGCAATCTTCA
* * *
49846328 ACCTACTCCACTACTTCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTTTCCACTATCTTGG
131 ACCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTACTTCTCCACTATCTTGG
* * *
49846393 GAAGATAAGATTTACCATCTTTGAT
196 GAAGATAAGATTCACCATATTCGAT
49846418 CTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGA
1 CTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGA
* *
49846483 AGATAAGATTCGCCATCTTCAATCTGTTCCACTACTACTTAGGGAGACAGAATCTGCAATCTTCA
66 AGATAAGATTCACCATCTTCAATCTGCTCCACTACTACTTAGGGAGACAGAATCTGCAATCTTCA
* **
49846548 ACCTACTTCACTACTACTTAGGGAGATAGGACTAATGTTTTAAATCTACTTCTCCACTATCTTGG
131 ACCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTACTTCTCCACTATCTTGG
*
49846613 GAAGATAAGATTCGCCATATTCGAT
196 GAAGATAAGATTCACCATATTCGAT
* *
49846638 CTGCTCCACTATTGCTTAGGGAGA
1 CTACTCCACTACTGCTTAGGGAGA
49846662 CAGAATCTGC
Statistics
Matches: 223, Mismatches: 20, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
219 17 0.08
220 206 0.92
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (220 bp):
CTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGA
AGATAAGATTCACCATCTTCAATCTGCTCCACTACTACTTAGGGAGACAGAATCTGCAATCTTCA
ACCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTACTTCTCCACTATCTTGG
GAAGATAAGATTCACCATATTCGAT
Found at i:49846679 original size:352 final size:351
Alignment explanation
Indices: 49846129--49847063 Score: 1167
Period size: 352 Copynumber: 2.7 Consensus size: 351
49846119 TACAAGTATA
* ** ** *
49846129 GGAAGATAAGATCTGCCGTCTTCAATCTACTCCACTACTGTTTAGGGAGACAGGATCTGCAATCT
1 GGAAGATAAGATC-GCCATCTTCAATCTGTTCCACTACTACTTAGGGAGACAGAATCTGCAATCT
* *
49846194 TCAACCTACTCCACGACTGCTTA-GGAGATAGGACTAATGGCTTAAATCTGTTTCTCCACTATCT
65 TCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCT
* *
49846258 TGGGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
130 TGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
* *
49846323 CTTCAACCTACTCCACTACTTCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTTTCCACTAT
195 CTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTAT
* * * * * *
49846388 CTTGGGAAGATAAGATTTACCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAGGA-CT-AA
260 CTTGGGAAGATAAGATTCACAATCTTCGATCTACTCCACTACTGCTTAGGAAGACAGAATCTCAA
*
49846451 TGGCTTAAATCTACTTCTCCACTA-T-CTT-G
325 T--CTTAAACCTA--T-TCCACTACTGCTTAG
49846480 GGAAGATAAGATTCGCCATCTTCAATCTGTTCCACTACTACTTAGGGAGACAGAATCTGCAATCT
1 GGAAGATAAGA-TCGCCATCTTCAATCTGTTCCACTACTACTTAGGGAGACAGAATCTGCAATCT
* * ** *
49846545 TCAACCTACTTCACTACTACTTAGGGAGATAGGACTAATGTTTTAAATCTACTTCTCCACTATCT
65 TCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCT
* *
49846610 TGGGAAGATAAGATTCGCCATATTCGATCTGCTCCACTATTGCTTAGGGAGACAGAATCTGCAAT
130 TGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAAT
* * *
49846675 CTTCAACCTACTCCACTAGTACTTAGGGAGATATGACTAATGGCTTAAATCTGCTTCTCCACTAT
195 CTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTAT
** * *
49846740 CTTGGGAAGATAAGATTCACAATCTTCGATCTGTTCCACTGCTTCTTAGGAAGACAGAATCTGCA
260 CTTGGGAAGATAAGATTCACAATCTTCGATCTACTCCACTACTGCTTAGGAAGACAGAATCT-CA
*
49846805 ATCTTCAACCTATTCCACTACTGCTTAG
324 ATCTTAAACCTATTCCACTACTGCTTAG
* ** * * * *
49846833 GG-AGATAGGA-C-TAATGGCTTAAATCTGCTT-CTCTATTATCTT-GGGAAGTTA-AGATTC-G
1 GGAAGATAAGATCGCCAT--CTTCAATCTG-TTCCACTACTA-CTTAGGG-AG--ACAGAATCTG
* * * * *
49846891 CCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCTA
59 CAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCA
* *
49846956 TTATCTTGGGAAGTTAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATC
124 CTATCTTGGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATC
* ** * *
49847021 TACAATCTTTGACCTACTCCGCTACTACTTAGAGAGATAGGAC
189 TGCAATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGAC
49847064 CGGTGGTTTC
Statistics
Matches: 507, Mismatches: 62, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
349 2 0.00
350 8 0.02
351 96 0.19
352 379 0.75
353 18 0.04
354 1 0.00
355 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (351 bp):
GGAAGATAAGATCGCCATCTTCAATCTGTTCCACTACTACTTAGGGAGACAGAATCTGCAATCTT
CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
GGGAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATC
TTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGACTTAAATCTGCTTCTCCACTATC
TTGGGAAGATAAGATTCACAATCTTCGATCTACTCCACTACTGCTTAGGAAGACAGAATCTCAAT
CTTAAACCTATTCCACTACTGCTTAG
Found at i:49846764 original size:88 final size:88
Alignment explanation
Indices: 49846319--49846766 Score: 303
Period size: 88 Copynumber: 5.1 Consensus size: 88
49846309 ACAGAATCTG
* * *
49846319 CAATCTTCAACCTACTCCACTACTTCTTAGGGAGATAGGACTAATGACTTAAATCTGCTTTTCCA
1 CAATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCA
*
49846384 CTATCTTGGGAAGATAAGATTTA
66 CTATCTTGGGAAGATAAGATTCA
* ** * * *
49846407 CCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCA
1 CAATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCA
*
49846472 CTATCTTGGGAAGATAAGATTCG
66 CTATCTTGGGAAGATAAGATTCA
* * ** * * * * * *
49846495 CCATCTTCAATCTGTTCCACTACTACTTAGGGAGACAGAATCTGCAAT--CTTCAACCTACTTCA
1 CAATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGA-CT--AATGGCTTAAATCTGCTTCT
* * *
49846558 CTACTA-CTTAGGG-AGATAGGACT-A
63 CCACTATCTT-GGGAAGATAAGATTCA
* * * * * * * * * * *
49846582 -ATGTTTTAAATCTACTTCTCCACTATCTT-GGGAAGATAAGA-T--TCGC-CATAT-TCGATCT
1 CA-ATCTTCAACCTACTCCACTACTA-CTTAGGG-AGATAGGACTAATGGCTTAAATCT-G--CT
* * * *
49846640 GCTCCACTATTGCTTAGGG-AGA-CAGAATCTG
60 TCTCCACTA-T-CTT-GGGAAGATAAGATTC-A
* *
49846671 CAATCTTCAACCTACTCCACTAGTACTTAGGGAGATATGACTAATGGCTTAAATCTGCTTCTCCA
1 CAATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCA
49846736 CTATCTTGGGAAGATAAGATTCA
66 CTATCTTGGGAAGATAAGATTCA
49846759 CAATCTTC
1 CAATCTTC
49846767 GATCTGTTCC
Statistics
Matches: 270, Mismatches: 64, Indels: 52
0.70 0.17 0.13
Matches are distributed among these distances:
82 2 0.01
83 1 0.00
84 1 0.00
85 8 0.03
86 1 0.00
87 24 0.09
88 164 0.61
89 47 0.17
90 11 0.04
91 6 0.02
92 4 0.01
93 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (88 bp):
CAATCTTCAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCA
CTATCTTGGGAAGATAAGATTCA
Found at i:49846887 original size:132 final size:132
Alignment explanation
Indices: 49846422--49846925 Score: 778
Period size: 132 Copynumber: 3.8 Consensus size: 132
49846412 TTTGATCTAC
*
49846422 TCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGAT
1 TCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGAT
* * *
49846487 AAGATTCGCCATCTTCAATCTGTTCCACTACTACTTAGGGAGACAGAATCTGCAATCTTCAACCT
66 AAGATTCGCCATCTTCGATCTGCTCCACTACTTCTTAGGGAGACAGAATCTGCAATCTTCAACCT
49846552 ACT
131 A-T
**
49846555 T-CACTACTACTTAGGGAGATAGGACTAATGTTTTAAATCTACTTCTCCACTATCTTGGGAAGAT
1 TCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGAT
*
49846619 AAGATTCGCCATATTCGATCTGCTCCACTA-TTGCTTAGGGAGACAGAATCTGCAATCTTCAACC
66 AAGATTCGCCATCTTCGATCTGCTCCACTACTT-CTTAGGGAGACAGAATCTGCAATCTTCAACC
*
49846683 TAC
130 TAT
* * *
49846686 TCCACTAGTACTTAGGGAGATATGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGAT
1 TCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGAT
* * * * *
49846751 AAGATTCACAATCTTCGATCTGTTCCACTGCTTCTTAGGAAGACAGAATCTGCAATCTTCAACCT
66 AAGATTCGCCATCTTCGATCTGCTCCACTACTTCTTAGGGAGACAGAATCTGCAATCTTCAACCT
49846816 AT
131 AT
* * * * *
49846818 TCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCTATTATCTTGGGAAGTT
1 TCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGAT
*
49846883 AAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGA
66 AAGATTCGCCATCTTCGATCTGCTCCACTACTTCTTAGGGAGA
49846926 TAGGACTAAT
Statistics
Matches: 336, Mismatches: 32, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
131 2 0.01
132 331 0.99
133 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
TCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTTGGGAAGAT
AAGATTCGCCATCTTCGATCTGCTCCACTACTTCTTAGGGAGACAGAATCTGCAATCTTCAACCT
AT
Found at i:49846917 original size:88 final size:88
Alignment explanation
Indices: 49846818--49847013 Score: 392
Period size: 88 Copynumber: 2.2 Consensus size: 88
49846808 TTCAACCTAT
49846818 TCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCTATTATCTTGGGAAGTT
1 TCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCTATTATCTTGGGAAGTT
49846883 AAGATTCGCCATCTTCGATCTGC
66 AAGATTCGCCATCTTCGATCTGC
49846906 TCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCTATTATCTTGGGAAGTT
1 TCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCTATTATCTTGGGAAGTT
49846971 AAGATTCGCCATCTTCGATCTGC
66 AAGATTCGCCATCTTCGATCTGC
49846994 TCCACTACTGCTTAGGGAGA
1 TCCACTACTGCTTAGGGAGA
49847014 CAGAATCTAC
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 108 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (88 bp):
TCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCTATTATCTTGGGAAGTT
AAGATTCGCCATCTTCGATCTGC
Found at i:49853784 original size:8 final size:8
Alignment explanation
Indices: 49853735--49853788 Score: 51
Period size: 8 Copynumber: 7.1 Consensus size: 8
49853725 AAAAAGATAG
49853735 AAATATAT
1 AAATATAT
49853743 -AATATAT
1 AAATATAT
*
49853750 ACATATA-
1 AAATATAT
49853757 AAA-ATAT
1 AAATATAT
* *
49853764 ACATATTT
1 AAATATAT
*
49853772 TAATATAT
1 AAATATAT
49853780 AAATATAT
1 AAATATAT
49853788 A
1 A
49853789 TATCCGAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
6 3 0.09
7 11 0.31
8 21 0.60
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (8 bp):
AAATATAT
Found at i:49854033 original size:3 final size:3
Alignment explanation
Indices: 49854007--49854077 Score: 97
Period size: 3 Copynumber: 23.7 Consensus size: 3
49853997 ATATAAGGGA
* * * *
49854007 AAT AAC AAT AAT ATT AAT ACT AAT AAT AAT AGT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
49854055 AAT AAT AAT AGT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
49854078 AATTACTAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49855408 original size:45 final size:45
Alignment explanation
Indices: 49855331--49855456 Score: 144
Period size: 45 Copynumber: 2.8 Consensus size: 45
49855321 CAAGTTTTCA
* *
49855331 CATGATGTCCTAACATCTTTCAGCTATGGTCTTACTCGTTTCTAT
1 CATGATGTCATAACATCTTTCAGCTATGGTCTTACTAGTTTCTAT
* * * * *
49855376 CATTATGTCATAACATCTTTTAGTTATTGTCTTACTAGTTTTTAT
1 CATGATGTCATAACATCTTTCAGCTATGGTCTTACTAGTTTCTAT
**** *
49855421 CATGATGTCATAGTGCCTTTCAGGTATGGTCTTACT
1 CATGATGTCATAACATCTTTCAGCTATGGTCTTACT
49855457 TATTTTAAGC
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.45
Consensus pattern (45 bp):
CATGATGTCATAACATCTTTCAGCTATGGTCTTACTAGTTTCTAT
Found at i:49856778 original size:3 final size:3
Alignment explanation
Indices: 49856770--49856820 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
49856760 AGACCAATTG
49856770 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49856818 ATA
1 ATA
49856821 GTAAGTCATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:49861089 original size:21 final size:20
Alignment explanation
Indices: 49861056--49861094 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
49861046 AAAGTGGTTG
*
49861056 TTTTTTAATAAACGATTTGA
1 TTTTTTAAAAAACGATTTGA
49861076 TTTTATTAAAAAACGATTT
1 TTTT-TTAAAAAACGATTT
49861095 TGGTCTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (20 bp):
TTTTTTAAAAAACGATTTGA
Found at i:49861700 original size:109 final size:109
Alignment explanation
Indices: 49861549--49861807 Score: 383
Period size: 109 Copynumber: 2.4 Consensus size: 109
49861539 GGGTACGACC
* * * *
49861549 TTCTCGAATTTCCAAACGCAAGACATTGCCTTACTTTAAAATTTTAAAAATGATATTTGGCTATT
1 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAAAAGGATATTTGGCTATT
* * * *
49861614 TGGTCGAACGAGAAAAATCGAAACGCAGCACATTAGGGCGCGTT
66 TGGCCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTT
* *
49861658 TTCTCGAATTTTCAAACGCAAAACATTGCCTTATTTTGAAATTTTTAAAAGGATATTTGGCTATT
1 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAAAAGGATATTTGGCTATT
*
49861723 TGGCCAAACGAGAAAAGTCGAAACCCAGCACATTAGGGCACGTT
66 TGGCCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTT
* * * *
49861767 TTCTCAAATTTCCAAACGCAAAATATTACCTTATTTAGAAA
1 TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAA
49861808 AATTTTCCTT
Statistics
Matches: 134, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
109 134 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (109 bp):
TTCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTTTAAAAAGGATATTTGGCTATT
TGGCCAAACGAGAAAAATCGAAACCCAGCACATTAGGGCACGTT
Found at i:49862201 original size:15 final size:16
Alignment explanation
Indices: 49862160--49862201 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
49862150 TATAAAAGTT
49862160 TATACAAG--TATGTA
1 TATACAAGTTTATGTA
*
49862174 TATACACGTTTATGTA
1 TATACAAGTTTATGTA
49862190 TATA-AAGTTTAT
1 TATACAAGTTTAT
49862202 AAAAAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 7 0.29
16 10 0.42
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (16 bp):
TATACAAGTTTATGTA
Found at i:49862316 original size:45 final size:41
Alignment explanation
Indices: 49862216--49862375 Score: 145
Period size: 45 Copynumber: 3.9 Consensus size: 41
49862206 AAACATATAA
49862216 GTATGTATA-TATATATATATAGTATATAAATTAT-AAAATAT
1 GTATGTATAGTATATATATATA-TATAT-AATTATAAAAATAT
* * *
49862257 GTATATATATGTATACATATATATAAATAAGTTATAAAAATAT
1 GTATGTATA-GTATATATATATATATATAA-TTATAAAAATAT
* *
49862300 GTACATGTATAGGTATATATGTGTATATATATATTATAAAAATA-
1 GT--ATGTATA-GTATATATATATATATATA-ATTATAAAAATAT
*
49862344 -TATGTATA--ACATATATATATATA-AATTATAAA
1 GTATGTATAGTATATATATATATATATAATTATAAA
49862376 GTATATAAAG
Statistics
Matches: 100, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
36 8 0.08
37 1 0.01
38 12 0.12
41 17 0.17
42 8 0.08
43 21 0.21
45 32 0.32
46 1 0.01
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (41 bp):
GTATGTATAGTATATATATATATATATAATTATAAAAATAT
Found at i:49862346 original size:13 final size:14
Alignment explanation
Indices: 49862326--49862368 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
49862316 ATATGTGTAT
49862326 ATATATATTATAAAA
1 ATATATA-TATAAAA
* *
49862341 ATATATGTATAACAT
1 ATATATATATAA-AA
49862356 ATATATATATAAA
1 ATATATATATAAA
49862369 TTATAAAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (14 bp):
ATATATATATAAAA
Found at i:49862361 original size:17 final size:15
Alignment explanation
Indices: 49862324--49862373 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 15
49862314 ATATATGTGT
49862324 ATATATATATTATAA
1 ATATATATATTATAA
49862339 A-A-ATATATGTATAA
1 ATATATATAT-TATAA
49862353 CATATATATA-TATAA
1 -ATATATATATTATAA
49862368 AT-TATA
1 ATATATA
49862374 AAGTATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 10 0.32
14 8 0.26
15 7 0.23
16 1 0.03
17 5 0.16
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
ATATATATATTATAA
Found at i:49862373 original size:15 final size:14
Alignment explanation
Indices: 49862210--49862384 Score: 67
Period size: 14 Copynumber: 12.5 Consensus size: 14
49862200 ATAAAAAAAC
* *
49862210 ATATAAGTATGTAT
1 ATATAAATATATAT
*
49862224 ATATATATATATAGT
1 ATATAAATATATA-T
49862239 ATATAAAT-TATA-
1 ATATAAATATATAT
* *
49862251 A-A-ATATGTATAT
1 ATATAAATATATAT
** *
49862263 ATATGTATACATAT
1 ATATAAATATATAT
49862277 ATATAAATA-AGT-T
1 ATATAAATATA-TAT
* *
49862290 ATAAAAATATGTACAT
1 ATATAAATA--TATAT
* **
49862306 GTATAGGTATATAT
1 ATATAAATATATAT
* * *
49862320 GTGTATATATATAT
1 ATATAAATATATAT
*
49862334 -TATAAAAATATAT
1 ATATAAATATATAT
*
49862347 GTATAACATATATAT
1 ATATAA-ATATATAT
*
49862362 ATATAAATTATAAAGT
1 ATATAAA-TATATA-T
49862378 ATATAAA
1 ATATAAA
49862385 GTGTAGAAGT
Statistics
Matches: 121, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
10 3 0.02
11 5 0.04
12 2 0.02
13 21 0.17
14 50 0.41
15 25 0.21
16 15 0.12
ACGTcount: A:0.50, C:0.02, G:0.08, T:0.41
Consensus pattern (14 bp):
ATATAAATATATAT
Found at i:49862382 original size:2 final size:2
Alignment explanation
Indices: 49862221--49862366 Score: 61
Period size: 2 Copynumber: 75.0 Consensus size: 2
49862211 TATAAGTATG
* * *
49862221 TA TA TA TA TA TA TA TA GTA TA TA AA T- TA TA -A AA TA TG TA TA
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
49862262 TA TA TG TA TA CA TA TA TA TA AA TA -A GT- TA TA AA AA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* * ** * * * *
49862303 CA TG TA TA GG TA TA TA TG TG TA TA TA TA TA T- TA TA AA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
49862344 TA TG TA TA -A CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
49862367 AATTATAAAG
Statistics
Matches: 106, Mismatches: 30, Indels: 16
0.70 0.20 0.11
Matches are distributed among these distances:
1 6 0.06
2 98 0.92
3 2 0.02
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.42
Consensus pattern (2 bp):
TA
Found at i:49862521 original size:29 final size:29
Alignment explanation
Indices: 49862466--49862547 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 29
49862456 AATAAGAAAA
* *
49862466 TAATAATAATAATAATAGCAATAATAATAGTAG
1 TAATGATAA-AATAATAGTAATAAT-AT-G-AG
49862499 TAAT-AGTAAAAATAA-AGTAATAATATGAG
1 TAATGA-T-AAAATAATAGTAATAATATGAG
49862528 TAATGATAAAATAATAGTAA
1 TAATGATAAAATAATAGTAA
49862548 GAGAAGTGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
28 7 0.16
29 12 0.27
30 2 0.05
31 2 0.05
32 9 0.20
33 10 0.23
34 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.11, T:0.29
Consensus pattern (29 bp):
TAATGATAAAATAATAGTAATAATATGAG
Found at i:49862562 original size:3 final size:3
Alignment explanation
Indices: 49862464--49862523 Score: 50
Period size: 3 Copynumber: 20.3 Consensus size: 3
49862454 TAAATAAGAA
** * * * *
49862464 AAT AAT AAT AAT AAT AAT AGC AAT AAT AAT AGT AGT AAT AGT AAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
49862512 AA- AGT AAT AAT A
1 AAT AAT AAT AAT A
49862524 TGAGTAATGA
Statistics
Matches: 44, Mismatches: 12, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
2 1 0.02
3 43 0.98
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:49868234 original size:18 final size:17
Alignment explanation
Indices: 49868213--49868255 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
49868203 ACCTGAAGCT
49868213 GCGAGCTCATCCAAAGAC
1 GCGAGCTCAT-CAAAGAC
**
49868231 GCGAGCTCATCAAAGTT
1 GCGAGCTCATCAAAGAC
49868248 GCGAGCTC
1 GCGAGCTC
49868256 GACCTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (17 bp):
GCGAGCTCATCAAAGAC
Found at i:49868251 original size:17 final size:17
Alignment explanation
Indices: 49868212--49868278 Score: 62
Period size: 18 Copynumber: 3.8 Consensus size: 17
49868202 TACCTGAAGC
*
49868212 TGCGAGCTCATCCAAAGA
1 TGCGAGCTCAT-CAAAGT
*
49868230 CGCGAGCTCATCAAAGT
1 TGCGAGCTCATCAAAGT
* *
49868247 TGCGAGCTCGACCTAAGT
1 TGCGAGCTC-ATCAAAGT
* *
49868265 TGTGAGCACATCAA
1 TGCGAGCTCATCAA
49868279 GTGTGAGCTA
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
17 16 0.41
18 23 0.59
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (17 bp):
TGCGAGCTCATCAAAGT
Found at i:49874607 original size:23 final size:23
Alignment explanation
Indices: 49874581--49874655 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
49874571 ATAAGTGCCA
49874581 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
49874604 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
49874627 CACT-AAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
49874649 CACTGAT
1 CACTGAT
49874656 CAATAACACT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
22 21 0.43
23 28 0.57
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:49876164 original size:34 final size:34
Alignment explanation
Indices: 49876124--49876191 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
49876114 AATCAATATT
49876124 TACAGAAATCTCATGTAATATTTGAAATATTTTC
1 TACAGAAATCTCATGTAATATTTGAAATATTTTC
49876158 TACAGAAATCTCATGTAATATTTGAAATATTTTC
1 TACAGAAATCTCATGTAATATTTGAAATATTTTC
49876192 ATTTTAGTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (34 bp):
TACAGAAATCTCATGTAATATTTGAAATATTTTC
Found at i:49879320 original size:36 final size:36
Alignment explanation
Indices: 49879230--49879322 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 36
49879220 TTGGAGCCAT
** * *
49879230 TAGTGTGTTTCAAATGTATTAGCTCTTATGAGCATC
1 TAGTGTGTTTCGGATGGATTAGCTCTTACGAGCATC
*
49879266 TAGTTTGTTTCGGATGGATTAGCTCTTACGAGCATC
1 TAGTGTGTTTCGGATGGATTAGCTCTTACGAGCATC
* * *
49879302 TTGTGTGTTTTGGTTGGATTA
1 TAGTGTGTTTCGGATGGATTA
49879323 TTGATGTACT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.19, C:0.12, G:0.25, T:0.44
Consensus pattern (36 bp):
TAGTGTGTTTCGGATGGATTAGCTCTTACGAGCATC
Found at i:49882167 original size:13 final size:13
Alignment explanation
Indices: 49882149--49882177 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49882139 ATAAAACAAA
49882149 GGTGGCTATGTCT
1 GGTGGCTATGTCT
49882162 GGTGGCTATGTCT
1 GGTGGCTATGTCT
49882175 GGT
1 GGT
49882178 CTCTCTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.41, T:0.38
Consensus pattern (13 bp):
GGTGGCTATGTCT
Found at i:49909293 original size:43 final size:42
Alignment explanation
Indices: 49909198--49909356 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
49909188 AATATGGCAA
* * * *
49909198 ATCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAGCCGACA
1 ATCTTATCTCTCTGAAGTTGCAGTGG-GCAGATTAAAACCTA-G
* * *
49909242 ATCCTATCTCGCTGAAGTTGCAGTGGGCGGATTAAAACCTTAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGGCAGATTAAAACC-TAG
* * * * * *
49909285 ATCTTATCTCTCTGAAGATGCAGAGAGCAGA-TCACATCTAG
1 ATCTTATCTCTCTGAAGTTGCAGTGGGCAGATTAAAACCTAG
*
49909326 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 ATCTTATCTCTCTGAAGTTGCAGTGG-GCAGA
49909357 CTAATTAAGC
Statistics
Matches: 93, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
40 21 0.23
41 8 0.09
42 4 0.04
43 36 0.39
44 24 0.26
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (42 bp):
ATCTTATCTCTCTGAAGTTGCAGTGGGCAGATTAAAACCTAG
Found at i:49909384 original size:44 final size:43
Alignment explanation
Indices: 49909108--49909391 Score: 183
Period size: 44 Copynumber: 6.6 Consensus size: 43
49909098 GATCGCATCT
* * *
49909108 AGTCTTATCTCCCTGAAGTTGCAGTGGAGAAGACTAATTAAACA
1 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAA-TAAGCA
* *
49909152 AGTCTTATC-CTCCTGAAGTTGCAG-CGAGGCAGACTGAATATGGCA
1 AGTCTTATCTCT-CTGAAGTTGCAGTGGA-GCAGACT-AATA-AGCA
* * *
49909197 AATCTTATCTCTTTGAAGTTGCAGTGGAGCAGA-TTA-AAGCCGA
1 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAATAAG-C-A
* * * * * * *
49909240 CAATCCTATCTCGCTGAAGTTGCAGTGG-GCGGATTAA-AACCTT
1 -AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAATAAGC-A
* * * * * *
49909283 AGATCTTATCTCTCTGAAGATGCAG-AGAGCAGA-TCA-CATCT
1 AG-TCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAATAAGCA
*
49909324 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAATTAAGCA
1 AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAA-TAAGCA
*
49909368 AGTCTTATC-CTTCTGAAATTGCAG
1 AGTCTTATCTC-TCTGAAGTTGCAG
49909392 CAAGGCAGAC
Statistics
Matches: 187, Mismatches: 36, Indels: 34
0.73 0.14 0.13
Matches are distributed among these distances:
40 20 0.11
41 11 0.06
42 10 0.05
43 34 0.18
44 80 0.43
45 28 0.15
46 4 0.02
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.28
Consensus pattern (43 bp):
AGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAATAAGCA
Found at i:49913891 original size:20 final size:20
Alignment explanation
Indices: 49913866--49913966 Score: 79
Period size: 20 Copynumber: 5.3 Consensus size: 20
49913856 TTAAAAAAAT
49913866 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
** * *
49913886 TACATAA---TTAAAAACAT
1 TACATAAGTCTTTGAATCAC
*
49913903 TACATAAGTCCTTGAATCAC
1 TACATAAGTCTTTGAATCAC
** * *
49913923 TACATAA---TTAAAAACAT
1 TACATAAGTCTTTGAATCAC
49913940 TACATAAGTCTTTGAATCAC
1 TACATAAGTCTTTGAATCAC
49913960 TACATAA
1 TACATAA
49913967 TTTAAAAACA
Statistics
Matches: 57, Mismatches: 18, Indels: 12
0.66 0.21 0.14
Matches are distributed among these distances:
17 25 0.44
20 32 0.56
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.32
Consensus pattern (20 bp):
TACATAAGTCTTTGAATCAC
Found at i:49913908 original size:17 final size:18
Alignment explanation
Indices: 49913849--49913986 Score: 75
Period size: 20 Copynumber: 7.5 Consensus size: 18
49913839 ATTGAATCAC
*
49913849 TACATAA-TTAAAAAAAT
1 TACATAAGTTAAAAACAT
** * *
49913866 TACATAAGTCTTTGAATCAC
1 TACATAAG--TTAAAAACAT
49913886 TACATAA-TTAAAAACAT
1 TACATAAGTTAAAAACAT
** * *
49913903 TACATAAGTCCTTGAATCAC
1 TACATAAGT--TAAAAACAT
49913923 TACATAA-TTAAAAACAT
1 TACATAAGTTAAAAACAT
** * *
49913940 TACATAAGTCTTTGAATCAC
1 TACATAAG--TTAAAAACAT
*
49913960 TACATAATTTAAAAACAT
1 TACATAAGTTAAAAACAT
49913978 TACATAAGT
1 TACATAAGT
49913987 CTTGAAATTA
Statistics
Matches: 85, Mismatches: 27, Indels: 17
0.66 0.21 0.13
Matches are distributed among these distances:
17 32 0.38
18 15 0.18
19 1 0.01
20 37 0.44
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.32
Consensus pattern (18 bp):
TACATAAGTTAAAAACAT
Found at i:49914006 original size:38 final size:37
Alignment explanation
Indices: 49913840--49913989 Score: 273
Period size: 37 Copynumber: 4.0 Consensus size: 37
49913830 TTTAACCGAA
*
49913840 TTGAATCACTACATAATTAAAAAAATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
*
49913877 TTGAATCACTACATAATTAAAAACATTACATAAGTCC
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
49913914 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAATTAAAAACATTACATAAGTCT
49913951 TTGAATCACTACATAATTTAAAAACATTACATAAGTCT
1 TTGAATCACTACATAA-TTAAAAACATTACATAAGTCT
49913989 T
1 T
49913990 GAAATTAACA
Statistics
Matches: 109, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
37 87 0.80
38 22 0.20
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.33
Consensus pattern (37 bp):
TTGAATCACTACATAATTAAAAACATTACATAAGTCT
Found at i:49916661 original size:22 final size:22
Alignment explanation
Indices: 49916636--49916705 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
49916626 AAATTCAATA
*
49916636 TCAATTTCTTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
* *
49916658 TCAATTCCCTTCAAAATTTCTC
1 TCAATTTCCTTCAAAAATTCTC
* *
49916680 TTAATTTCCTTCCAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
49916702 TCAA
1 TCAA
49916706 ACTCTCAAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:49916748 original size:22 final size:22
Alignment explanation
Indices: 49916707--49916748 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
49916697 TTCTCTCAAA
*
49916707 CTCTCAAATTCATTCCAAAATC
1 CTCTCAAATTCATTCAAAAATC
* *
49916729 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCATTCAAAAA
49916749 ATCTCCAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCATTCAAAAATC
Found at i:49916851 original size:30 final size:29
Alignment explanation
Indices: 49916791--49916852 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
49916781 TTAAATTTCA
**
49916791 TTTTTTAAGAAAATTTTAATTTTTTTTAT
1 TTTTTTAAGAAAATTTTAATTTTTAATAT
*
49916820 TTTTTTAA-ATAATTTTAAAATTTTTAATAT
1 TTTTTTAAGAAAATTTT--AATTTTTAATAT
49916850 TTT
1 TTT
49916853 CAACAATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 7 0.25
29 8 0.29
30 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTTTTAAGAAAATTTTAATTTTTAATAT
Found at i:49916972 original size:14 final size:15
Alignment explanation
Indices: 49916943--49916976 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
49916933 AATTTTTAAA
49916943 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
49916958 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
49916972 TTTTA
1 TTTTA
49916977 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:49918817 original size:24 final size:24
Alignment explanation
Indices: 49918780--49918828 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
49918770 TCCTTTTTAC
* *
49918780 CAATCGCCAGCCGAGGAAAAACAA
1 CAATCACCACCCGAGGAAAAACAA
*
49918804 CAATCACCACCCGAGGAAGAACAA
1 CAATCACCACCCGAGGAAAAACAA
49918828 C
1 C
49918829 CACCGCCGGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.45, C:0.33, G:0.18, T:0.04
Consensus pattern (24 bp):
CAATCACCACCCGAGGAAAAACAA
Found at i:49919775 original size:97 final size:98
Alignment explanation
Indices: 49919025--49919908 Score: 975
Period size: 97 Copynumber: 8.9 Consensus size: 98
49919015 TAAAAACCCT
*
49919025 AACCCTAACCTAATTTAATTAAAAACCCTAACCCT-ACTTAATTAAAAACCCTAATCCTAACCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAACTTAATTAAAAACCCTAACCCTAACCTA
49919089 ATTTAATTAAAAACCCTAACCTAATTTAATTAAA
65 ATTTAATTAAAAACCCTAACCTAATTTAATTAAA
* * *
49919123 AACTTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCCT-A-
1 AAC----CCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAAC
49919186 C----TTAATTAAAAACCCTAACCTAATTTAATTAAA
62 CTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
* * * * *
49919219 AACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAA---AAACCCTAACAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAA--AACCCTAACCCTAACCT
* *
49919281 AACTTAATTAAAAACCCTAACCCT-ACTTAATTAAA
64 AATTTAATTAAAAACCCTAA-CCTAATTTAATTAAA
* * *
49919316 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA-CATAACTTAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
* *
49919380 -TTAA--AAACCTAA-CCTAACTTAATTAAATTAAA
66 TTTAATTAAA---AACCCTAACCTAATTTAATTAAA
* *
49919412 AACCCTAACATAACTTAATTAAAAACCCTAACCCT-ACTTAATTAAAAACCCTAACCCTAACCTA
1 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAACTTAATTAAAAACCCTAACCCTAACCTA
* *
49919476 ATTTAATTAAAAACCCTAACATAACTTAATTAAA
65 ATTTAATTAAAAACCCTAACCTAATTTAATTAAA
*
49919510 AACCCTAACCTAACTTAATTAAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAACCCTAA
1 AACCCTAACCTAA--T--TT-AATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAA
49919575 CCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
61 CCTAATTTAATTAAAAACCCTAACCTAATTTAATTAAA
* * * *
49919613 AACCCTAACATAACTTAATTAAAAAACCTAACCTAACTTAATTAAATTAA---AAACCCTAACCT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAA--AACCCTAACCCTAACCT
49919675 AATTTAATTAAAAACCCTAACCTAATTTAATTAAA
64 AATTTAATTAAAAACCCTAACCTAATTTAATTAAA
* * **
49919710 AACCCTAACCTAATTTAATTAAAAACCCTAACATAACTTAATTAAAAACCCTAA-GCTAATTTAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
49919774 TTTAATTAAAAACCCTAACCCTAACCTAATTTAATTGAAA
66 TTTAATT--AAA----AACCCTAACCTAATTTAATT-AAA
* * *
49919814 TCCCTAA-CCTAACCTAATTTAATTAAAAACCCCAACCCTAACCTATTTTACATGAAAACCCTAA
1 -----AACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAACTTA-ATT--A--AAAACCCTAA
* *
49919878 CCCTAACCTATTTTAATTAAAATCCCTAACC
55 CCCTAACCTAATTTAATTAAAAACCCTAACC
49919909 CTAACCTAAT
Statistics
Matches: 672, Mismatches: 57, Indels: 103
0.81 0.07 0.12
Matches are distributed among these distances:
91 6 0.01
92 39 0.06
94 5 0.01
95 6 0.01
96 100 0.15
97 194 0.29
98 71 0.11
99 5 0.01
100 6 0.01
101 3 0.00
102 52 0.08
103 108 0.16
104 3 0.00
108 27 0.04
109 18 0.03
110 2 0.00
112 1 0.00
113 3 0.00
114 10 0.01
115 13 0.02
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.29
Consensus pattern (98 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCCTAACCTAA
TTTAATTAAAAACCCTAACCTAATTTAATTAAA
Found at i:49919791 original size:23 final size:23
Alignment explanation
Indices: 49919025--49919775 Score: 810
Period size: 23 Copynumber: 30.9 Consensus size: 23
49919015 TAAAAACCCT
49919025 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
49919048 AACCCTAACCCT-ACTTAATTAAA
1 AACCCTAA-CCTAATTTAATTAAA
49919071 AACCCTAATCCTAACCTAATTTAATTAAA
1 AA--C----CCTAACCTAATTTAATTAAA
49919100 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
49919123 AACTTAACCTAACTTAATTAAATTAAA
1 AAC----CCTAACCTAATTTAATTAAA
* *
49919150 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
49919173 AACCCTAACCCT-ACTTAATTAAA
1 AACCCTAA-CCTAATTTAATTAAA
49919196 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
49919219 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
49919242 AAACCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
* *
49919270 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
49919293 AACCCTAACCCT-ACTTAATTAAA
1 AACCCTAA-CCTAATTTAATTAAA
49919316 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
49919339 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
49919362 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
49919385 AA-CCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
* *
49919412 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
49919435 AACCCTAACCCT-ACTTAATTAAAAA
1 AACCCTAA-CCTAATTTAATT--AAA
49919460 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
* *
49919487 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
49919510 AACCCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
* *
49919538 AACCCTAACATAACTTAATTAAAAA
1 AACCCTAACCTAATTTAATT--AAA
49919563 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
49919590 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
49919613 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
49919636 AAACCTAACCTAACTTAATTAAATTAAA
1 AACCCTAACCTAA--T--TT-AATTAAA
49919664 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
49919687 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
49919710 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
49919733 AACCCTAACATAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
49919756 AACCCTAAGCTAATTTAATT
1 AACCCTAACCTAATTTAATT
49919776 TAATTAAAAA
Statistics
Matches: 631, Mismatches: 46, Indels: 102
0.81 0.06 0.13
Matches are distributed among these distances:
22 15 0.02
23 425 0.67
24 17 0.03
25 7 0.01
26 3 0.00
27 43 0.07
28 71 0.11
29 50 0.08
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:49919909 original size:58 final size:57
Alignment explanation
Indices: 49919008--49919930 Score: 490
Period size: 51 Copynumber: 18.2 Consensus size: 57
49918998 TTTTGACATT
* *
49919008 ATTTGATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCT-A-C--
1 ATTTAATTGAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
49919062 --TTAATTAAAAACCCTAATCCTAACCTAATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTGAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * * *
49919112 ATTTAATT-AAAAACTTAACCTAACTTAATTAAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
49919162 ACTTAATTAAAAACCCTAA-C---CCT-ACTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * * *
49919208 ATTTAATTAAAAACCCTAA-C--A--TAACTTAATTAAAAAACCTAA-CCTAACTTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
49919259 ATTAAATTAAAAACCCTAA-C--A--TAACTTAATTAAAAACCCTAACCCT-A-C--
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
49919307 --TTAATT-AAAA----ACCCTAACCTAATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
49919351 ATTTAATTAAAAACCCTAA-C--A--TAACTTAATTAAAAA-CCTAA-CCTAACTTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
49919401 ATTAAATTAAAAACCCTAA-C--A--TAACTTAATTAAAAACCCTAACCCT-A-C--
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
49919449 --TTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTGAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * * *
49919499 ACTTAATTAAAAACCCTAACCTAACTTAATTAAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *
49919550 ACTTAATTAAAAACCCTAACCCTAACCTAATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTGAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * * *
49919602 ATTTAATTAAAAACCCTAA-C--A--TAACTTAATTAAAAAACCTAA-CCTAACTTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *
49919653 ATTAAATT-AAAA----ACCCTAACCTAATTTAATT--AAA----AACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
49919699 ATTTAATT-AAAA----ACCCTAACCTAATTTAATTAAAAACCCTAA--C--A--TA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * * **
49919745 ACTTAATTAAAAACCCTAAGCTAATTTAATTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* *
49919802 ATTTAATTGAAATCCCTAACCTAACCTAATTTAATTAAAAACCCCAACCCTAACCTA
1 ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
* * *
49919859 TTTTACA-TGAAAACCCTAACCCTAACCTATTTTAATTAAAATCCCTAACCCTAACCTA
1 ATTTA-ATTGAAAACCCTAA-CCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
*
49919917 ATTTAATTAAAAAC
1 ATTTAATTGAAAAC
49919931 TCTTACCCTG
Statistics
Matches: 711, Mismatches: 58, Indels: 196
0.74 0.06 0.20
Matches are distributed among these distances:
40 8 0.01
41 2 0.00
42 3 0.00
44 8 0.01
45 7 0.01
46 145 0.20
47 12 0.02
48 18 0.03
49 5 0.01
50 84 0.12
51 173 0.24
52 127 0.18
53 1 0.00
54 1 0.00
55 1 0.00
56 2 0.00
57 68 0.10
58 46 0.06
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (57 bp):
ATTTAATTGAAAACCCTAACCTAACCTAATTTAATTAAAAACCCTAACCCTAACCTA
Found at i:49923616 original size:27 final size:27
Alignment explanation
Indices: 49923568--49923620 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
49923558 ATTTTTTTGA
*
49923568 AAAAAATTGATTTCTTTGCTCTTCAAAG
1 AAAAAATAGATTTCTTTGCTC-TCAAAG
49923596 AAAAAATGAGATTT-TTT-CTCTCAAA
1 AAAAAAT-AGATTTCTTTGCTCTCAAA
49923621 AGCCCCTCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 3 0.13
28 10 0.43
29 5 0.22
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (27 bp):
AAAAAATAGATTTCTTTGCTCTCAAAG
Found at i:49924722 original size:115 final size:115
Alignment explanation
Indices: 49924530--49924752 Score: 304
Period size: 115 Copynumber: 1.9 Consensus size: 115
49924520 CTGTGTTTTG
* * * *
49924530 TTGCGTCAATCCACTCTACTGCACTTTAAAGAGATACGGCTTGTAGCTTCAATCCACTCTGCTGT
1 TTGCGTCAATCCACTCTACTGCACTTTAAAGAGATACGACTTGTAACTTCAATCCACTCTGCAGC
* *
49924595 AACTTTAAGGGGACAAGATTTGTTGTTTTAGTCTACTCCACTGTGTCTCA
66 AACTTTAAGGGGACAAAATTTGTGGTTTTAGTCTACTCCACTGTGTCTCA
* * * * **
49924645 TTGCTTCAATCCACTTTACTGCACTTTAGAGAGATATGACTTGTAACTTCAATCTTCT-TCGCAG
1 TTGCGTCAATCCACTCTACTGCACTTTAAAGAGATACGACTTGTAACTTCAATCCACTCT-GCAG
* *
49924709 CAACTTTAGGGGGACAAAATTTGTGGTTTTAGTCTGCTCCACTG
65 CAACTTTAAGGGGACAAAATTTGTGGTTTTAGTCTACTCCACTG
49924753 AACGTCAGGG
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
114 1 0.01
115 92 0.99
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (115 bp):
TTGCGTCAATCCACTCTACTGCACTTTAAAGAGATACGACTTGTAACTTCAATCCACTCTGCAGC
AACTTTAAGGGGACAAAATTTGTGGTTTTAGTCTACTCCACTGTGTCTCA
Found at i:49924888 original size:44 final size:44
Alignment explanation
Indices: 49924840--49924951 Score: 100
Period size: 44 Copynumber: 2.5 Consensus size: 44
49924830 TCAGTCTACT
*
49924840 CCACTATAACTTCAGAGAGATAAGACTTGCATA-TTCAACCTGCC
1 CCACTACAACTTCAGAGAGATAAGACTTGC-TACTTCAACCTGCC
* * * ** * *
49924884 CCACTGCAACTTCAGGGGGATAAGGTTTGCTACTTCAACCTACA
1 CCACTACAACTTCAGAGAGATAAGACTTGCTACTTCAACCTGCC
* * * *
49924928 CTACTGCAACTTTAGAGACATAAG
1 CCACTACAACTTCAGAGAGATAAG
49924952 GTTTGAGTGA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 2 0.04
44 52 0.96
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (44 bp):
CCACTACAACTTCAGAGAGATAAGACTTGCTACTTCAACCTGCC
Found at i:49925228 original size:89 final size:89
Alignment explanation
Indices: 49925076--49925828 Score: 598
Period size: 89 Copynumber: 8.5 Consensus size: 89
49925066 CTACAAACTA
* * * * * * * *
49925076 TGGTGTCTTTGATCTACTTCGCTGTTAGCACAAGAAGGCAAGATCTGTTATCTTCAATTTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAGTCTGCTCC
*
49925141 GCTGTCAGTACAGAAAGGCAAGGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* * *
49925165 TGGTGTCTTCGATTTGTTTCGCTGTTAGTACAGGAAGGCAAGATCTATTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAGTCTGCTCC
* * *
49925230 GCTATCAATATAGGAAGGCAAGGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* * * *
49925254 TAGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAATATCTACTATCTTCAGTCTGCTCC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAGTCTGCTCC
49925319 GCTGTCAGTACAGGAAGGCAAGGC
66 GCTGTCAGTACAGGAAGGCAAGGC
* * * * *
49925343 TGGTGTCTTCGATCTGCTTCGTTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAGTGTGTTCT
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAGTCTGCTCC
* *
49925408 GCTGTCAGTACATGAAGGCAAGGT
66 GCTGTCAGTACAGGAAGGCAAGGC
* * ** * *
49925432 TGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAAG-GC-GGTGTCTTC-GATCTGCTT
1 TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAG-TCTGCTC
* * *
49925494 CGTTGTCAGTATAGGAAGGCAAGATC
65 CGCTGTCAGTACAGGAAGGCAAG-GC
** * ** * ** * *
49925520 TATTATCTTC-AGTCTGC-TCTGCTGTCAGTACATAAAGGCAAGGT-TGGTGTCTTC-GATCTGT
1 TGGTGTCTTCGA-TCTGCTTC-GCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAG-TCTGC
* *
49925581 TTCGCTGTCAGTACAGGAAGGCAAGATC
63 TCCGCTGTCAGTACAGGAAGGCAAG-GC
* * * * ** *
49925609 TGTTATCTTC-AGTCTGCTCCGCTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTC-GATCTGCT
1 TGGTGTCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAG-TCTGCT
* * * * *
49925671 TCACTGTCAGTATAGGAAGGAAAGATC
64 CCGCTGTCAGTACAGGAAGGCAAG-GC
** * * * * * * ** * * *
49925698 TACTATCTTC-AGTATGCTCCGCTGTCAGTACAAGAAGGCATG-GCTGGTGTCTTCAATCTGCTT
1 TGGTGTCTTCGA-TCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAGTCTGCTC
* * *
49925761 CGCTGTTAGTACAGGAAGGTAAGATC
65 CGCTGTCAGTACAGGAAGGCAAG-GC
* *
49925787 TGTTATCTTC-AGTCTGC-TCTGCTGTCAGTACAGGAAGGCAAG
1 TGGTGTCTTCGA-TCTGCTTC-GCTGTCAGTACAGGAAGGCAAG
49925829 GCTGGTGTCT
Statistics
Matches: 569, Mismatches: 85, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
86 1 0.00
87 32 0.06
88 33 0.06
89 502 0.88
90 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (89 bp):
TGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAGTCTGCTCC
GCTGTCAGTACAGGAAGGCAAGGC
Found at i:49925514 original size:221 final size:222
Alignment explanation
Indices: 49925126--49925828 Score: 720
Period size: 221 Copynumber: 3.2 Consensus size: 222
49925116 AGATCTGTTA
* * * * ** * * * *
49925126 TCTTCAATTTGCTCCGCTGTCAGTACAGAAAGGCAAG-GCTGGTGTCTTC-GATTTGTTTCGCTG
1 TCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAG-TCTGCTCCGCTG
* * ** * * * * * *
49925189 TTAGTACAGGAAGGCAAGATCTATTATCTTC-AGTCTGCTCCGCTATCAATATAGGAAGGCAAGG
65 TCAGTACAGGAAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCACTGTCAGTACAGGAAGGCAAGG
*
49925253 CTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAATATCTACTATCTTCAGTCTGCTC
128 CTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTACTATCTTCAGTCTGCTC
*
49925318 CGCTGTCAGTACAGGAAGGCAAGGCTGGTG
193 CGCTGTCAGTACAGAAAGGCAAGGCTGGTG
* * * *
49925348 TCTTCGATCTGCTTCGTTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAGTGTGTTCTGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAGTCTGCTCCGCTGT
* * * * *
49925413 CAGTACATGAAGGCAAGGTTGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAAGGC-G
66 CAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGGCTA
* * * * *
49925477 GTGTCTTCGATCTGCTTCGTTGTCAGTATAGGAAGGCAAGATCTATTATCTTCAGTCTGCTCTGC
131 GTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTACTATCTTCAGTCTGCTCCGC
* *
49925542 TGTCAGTACATAAAGGCAAGGTTGGTG
196 TGTCAGTACAGAAAGGCAAGGCTGGTG
* * *
49925569 TCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAAGATCTGTTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAGTCTGCTCCGCTGT
* * *
49925634 CAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTATAGGAAGGAAAGATCT
66 CAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAG-GCT
* * * * * * ** * * *
49925699 ACTATCTTC-AGTATGCTCCGCTGTCAGTACAAGAAGGCATG-GCTGGTGTCTTCAATCTGCTTC
130 AGTGTCTTCGA-TCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTACTATCTTCAGTCTGCTCC
* * * * * *
49925762 GCTGTTAGTACAGGAAGGTAAGATCTGTTA
194 GCTGTCAGTACAGAAAGGCAAG-GCTGGTG
*
49925792 TCTTC-AGTCTGC-TCTGCTGTCAGTACAGGAAGGCAAG
1 TCTTCGA-TCTGCTTC-GCTGTCAGTACAGAAAGGCAAG
49925829 GCTGGTGTCT
Statistics
Matches: 400, Mismatches: 72, Indels: 17
0.82 0.15 0.03
Matches are distributed among these distances:
221 196 0.49
222 105 0.26
223 98 0.25
224 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (222 bp):
TCTTCGATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAGTCTGCTCCGCTGT
CAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTACAGGAAGGCAAGGCTA
GTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAGGCAAGATCTACTATCTTCAGTCTGCTCCGC
TGTCAGTACAGAAAGGCAAGGCTGGTG
Found at i:49925728 original size:310 final size:311
Alignment explanation
Indices: 49925095--49925828 Score: 1006
Period size: 310 Copynumber: 2.4 Consensus size: 311
49925085 TGATCTACTT
* * * * * * * *
49925095 CGCTGTTAGCACAAGAAGGCAAGATCTGTTATCTTCAATTTGCTCCGCTGTCAGTACAGAAAGGC
1 CGCTGTCAGTACAAGAAGGCAAG-GCTGGTGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGC
* * *
49925160 AAGGCTGGTGTCTTCGATTTGTTTCGCTGTTAGTACAGGAAGGCAAGATCTATTATCTTCAGTCT
65 AAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAGTCT
* *
49925225 GCTCCGCTATCAATATAGGAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAA
130 GCTCCGCTATCAATACAGAAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAA
*
49925290 GGCAATATCTACTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGA
195 GGCAAGATCTACTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGA
** * * * *
49925355 TCTGCTTCGTTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAGTGTGTTC
260 TCTGCTTCACTGTCAGTACAGAAAGGAAAGATCTACTATCTTCAGTATGCTC
* * * * *
49925407 TGCTGTCAGTACATGAAGGCAAGGTTGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCA
1 CGCTGTCAGTACAAGAAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCA
* *
49925472 AGGC-GGTGTCTTCGATCTGCTTCGTTGTCAGTATAGGAAGGCAAGATCTATTATCTTCAGTCTG
66 AGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAGTCTG
* * * * * * * *
49925536 CTCTGCTGTCAGTACATAAAGGCAAGGTTGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAG
131 CTCCGCTATCAATACAGAAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAG
**
49925601 GCAAGATCTGTTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGAT
196 GCAAGATCTACTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGAT
* *
49925666 CTGCTTCACTGTCAGTATAGGAAGGAAAGATCTACTATCTTCAGTATGCTC
261 CTGCTTCACTGTCAGTACAGAAAGGAAAGATCTACTATCTTCAGTATGCTC
* * *
49925717 CGCTGTCAGTACAAGAAGGCATGGCTGGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGTA
1 CGCTGTCAGTACAAGAAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCA
* * *
49925782 AGATCTGTTATCTTC-AGTCTGC-TCTGCTGTCAGTACAGGAAGGCAAG
66 AG-GCTGGTGTCTTCGA-TCTGCTTC-GCTGTCAGTACAGGAAGGCAAG
49925829 GCTGGTGTCT
Statistics
Matches: 366, Mismatches: 52, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
310 274 0.75
311 41 0.11
312 51 0.14
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (311 bp):
CGCTGTCAGTACAAGAAGGCAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCAGTACAGGAAGGCA
AGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTACAGGAAGGCAAGATCTATTATCTTCAGTCTG
CTCCGCTATCAATACAGAAAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGTCAGTACAAGAAG
GCAAGATCTACTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGAT
CTGCTTCACTGTCAGTACAGAAAGGAAAGATCTACTATCTTCAGTATGCTC
Found at i:49925815 original size:399 final size:399
Alignment explanation
Indices: 49925077--49925872 Score: 1216
Period size: 399 Copynumber: 2.0 Consensus size: 399
49925067 TACAAACTAT
* * * *
49925077 GGTGTCTTTGATCTACTTCGCTGTTAGCACAAGAAGGCAAGATCTGTTATCTTCAATTTGCTCCG
1 GGTGTCTTCGATCTACTTCGCTGTCAGCACAAGAAGGCAAGATCTATTATCTTCAATCTGCTCCG
* *
49925142 CTGTCAGTACAGAAAGGCAAGGCTGGTGTCTTCGATTTGTTTCGCTGTTAGTACAGGAAGGCAAG
66 CTGTCAGTACAGAAAGGCAAGGCTGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAAG
*
49925207 ATCTATTATCTTCAGTCTGCTCCGCTATCAATATAGGAAGGCAAGGCTAGTGTCTTCGATCTGCT
131 ATCTATTATCTTCAGTCTGCTCCGCTATCAATACAGGAAGGCAAGGCTAGTGTCTTCGATCTGCT
* * * * *
49925272 TCGCTGTCAGTACAAGAAGGCAATATCTACTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGG
196 TCACTGTCAGTACAAGAAGGAAAGATCTACTATCTTCAGTATGCTCCGCTGTCAGTACAAGAAGG
* * *
49925337 CAAGGCTGGTGTCTTCGATCTGCTTCGTTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAGTG
261 CAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAGTC
* * * *
49925402 TGTTCTGCTGTCAGTACATGAAGGCAAGGTTGGTGTCTTCGATCTG-TTTCGCTGTCAGTACAGG
326 TGCTCTGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTT-GCTGTCAGTACAGA
49925466 AAGGCAAGGC
390 AAGGCAAGGC
* * * * * * *
49925476 GGTGTCTTCGATCTGCTTCGTTGTCAGTATAGGAAGGCAAGATCTATTATCTTCAGTCTGCTCTG
1 GGTGTCTTCGATCTACTTCGCTGTCAGCACAAGAAGGCAAGATCTATTATCTTCAATCTGCTCCG
* *
49925541 CTGTCAGTACATAAAGGCAAGGTTGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAAG
66 CTGTCAGTACAGAAAGGCAAGGCTGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAAG
* * * *
49925606 ATCTGTTATCTTCAGTCTGCTCCGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCT
131 ATCTATTATCTTCAGTCTGCTCCGCTATCAATACAGGAAGGCAAGGCTAGTGTCTTCGATCTGCT
* *
49925671 TCACTGTCAGTATAGGAAGGAAAGATCTACTATCTTCAGTATGCTCCGCTGTCAGTACAAGAAGG
196 TCACTGTCAGTACAAGAAGGAAAGATCTACTATCTTCAGTATGCTCCGCTGTCAGTACAAGAAGG
* * * * *
49925736 CATGGCTGGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGTAAGATCTGTTATCTTCAGTC
261 CAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAGTC
*
49925801 TGCTCTGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAGTATAGAA
326 TGCTCTGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAGTACAGAA
49925866 AGGCAAG
391 AGGCAAG
49925873 ATCTACTATC
Statistics
Matches: 356, Mismatches: 40, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
399 353 0.99
400 3 0.01
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (399 bp):
GGTGTCTTCGATCTACTTCGCTGTCAGCACAAGAAGGCAAGATCTATTATCTTCAATCTGCTCCG
CTGTCAGTACAGAAAGGCAAGGCTGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCAAG
ATCTATTATCTTCAGTCTGCTCCGCTATCAATACAGGAAGGCAAGGCTAGTGTCTTCGATCTGCT
TCACTGTCAGTACAAGAAGGAAAGATCTACTATCTTCAGTATGCTCCGCTGTCAGTACAAGAAGG
CAAGGCTGGTGTCTTCAATCTGCTTCGCTGTCAGTACAGAAAGGCAAGATCTATTATCTTCAGTC
TGCTCTGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAGTACAGAA
AGGCAAGGC
Found at i:49925832 original size:89 final size:89
Alignment explanation
Indices: 49925184--49925886 Score: 672
Period size: 89 Copynumber: 7.9 Consensus size: 89
49925174 CGATTTGTTT
* * ** * * * *
49925184 CGCTGTTAGTACAGGAAGGCAAGATCTATTATCTTC-AGTCTGCTCCGCTATCAATATAGGAAGG
1 CGCTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTATAGGAAGG
* * * *
49925248 CAAG-GCTAGTGTCTTC-GATCTGCTT
64 CAAGATCTATTATCTTCAG-TCTGCTC
* ** ** * * *
49925273 CGCTGTCAGTACAAGAAGGCAATATCTACTATCTTC-AGTCTGCTCCGCTGTCAGTACAGGAAGG
1 CGCTGTCAGTACAGGAAGGCAA-GGCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGTATAGGAAGG
* ** * *
49925337 CAAG-GCTGGTGTCTTC-GATCTGCTT
64 CAAGATCTATTATCTTCAG-TCTGCTC
* * * ** * * * *
49925362 CGTTGTCAGTACAGAAAGGCAAGATCTATTATCTTC-AGTGTG-TTCTGCTGTCAGTACATGAAG
1 CGCTGTCAGTACAGGAAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTC-GCTGTCAGTATAGGAAG
* ** * * *
49925425 GCAAGGT-TGGTGTCTTC-GATCTGTTT
63 GCAAGATCTATTATCTTCAG-TCTGCTC
*
49925451 CGCTGTCAGTACAGGAAGGCAAGGC-GGTGTCTTCGATCTGCTTCGTTGTCAGTATAGGAAGGCA
1 CGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAGGCA
49925515 AGATCTATTATCTTCAGTCTGCTC
66 AGATCTATTATCTTCAGTCTGCTC
* ** * * *
49925539 TGCTGTCAGTACATAAAGGCAAGGTTGGTGTCTTCGATCTGTTTCGCTGTCAGTACAGGAAGGCA
1 CGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAGGCA
*
49925604 AGATCTGTTATCTTCAGTCTGCTC
66 AGATCTATTATCTTCAGTCTGCTC
* *
49925628 CGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTCAGTATAGGAAGGAA
1 CGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAGGCA
* *
49925693 AGATCTACTATCTTCAGTATGCTC
66 AGATCTATTATCTTCAGTCTGCTC
* * * * * *
49925717 CGCTGTCAGTACAAGAAGGCATGGCTGGTGTCTTCAATCTGCTTCGCTGTTAGTACAGGAAGGTA
1 CGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAGGCA
*
49925782 AGATCTGTTATCTTCAGTCTGCTC
66 AGATCTATTATCTTCAGTCTGCTC
* * *
49925806 TGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAGTATAGAAAGGCA
1 CGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAGGCA
*
49925871 AGATCTACTATCTTCA
66 AGATCTATTATCTTCA
49925887 CTGATCTGTT
Statistics
Matches: 531, Mismatches: 74, Indels: 18
0.85 0.12 0.03
Matches are distributed among these distances:
87 29 0.05
88 40 0.08
89 462 0.87
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.31
Consensus pattern (89 bp):
CGCTGTCAGTACAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTATAGGAAGGCA
AGATCTATTATCTTCAGTCTGCTC
Found at i:49927154 original size:8 final size:7
Alignment explanation
Indices: 49927126--49927238 Score: 76
Period size: 8 Copynumber: 15.7 Consensus size: 7
49927116 TGGCCTCTCA
49927126 TTTTTCT
1 TTTTTCT
49927133 TTTCTTC-
1 TTT-TTCT
*
49927140 TTCTTCT
1 TTTTTCT
49927147 TTCTTTCT
1 TT-TTTCT
49927155 TTTTTCTT
1 TTTTTC-T
*
49927163 TTTTTATT
1 TTTTT-CT
*
49927171 TTTTTAT
1 TTTTTCT
49927178 TTTTTCT
1 TTTTTCT
49927185 TTATTT-T
1 TT-TTTCT
49927192 TTCTTAT-T
1 TT-TT-TCT
49927200 TTTTTC-
1 TTTTTCT
49927206 TTTTTC-
1 TTTTTCT
49927212 TTTTTC-
1 TTTTTCT
49927218 TTTTTCT
1 TTTTTCT
49927225 TTTCTTCT
1 TTT-TTCT
49927233 TATTTT
1 T-TTTT
49927239 TTTGAAATAT
Statistics
Matches: 89, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
6 22 0.25
7 30 0.34
8 35 0.39
9 2 0.02
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTTTCT
Found at i:49927154 original size:11 final size:11
Alignment explanation
Indices: 49927128--49927230 Score: 86
Period size: 11 Copynumber: 9.2 Consensus size: 11
49927118 GCCTCTCATT
49927128 TTTCTTTTCTTC
1 TTTCTTTT-TTC
*
49927140 -TTCTTCTTTC
1 TTTCTTTTTTC
49927150 TTTCTTTTTTC
1 TTTCTTTTTTC
* *
49927161 TTTTTTTATTTT
1 TTTCTTT-TTTC
*
49927173 TTTATTTTTTC
1 TTTCTTTTTTC
*
49927184 TTTATTTTTTC
1 TTTCTTTTTTC
49927195 TTAT-TTTTTTC
1 TT-TCTTTTTTC
*
49927206 TTTTTCTTTTTC
1 TTTCT-TTTTTC
49927218 TTT-TTCTTTTC
1 TTTCTT-TTTTC
49927229 TT
1 TT
49927231 CTTATTTTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
10 5 0.06
11 55 0.70
12 19 0.24
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:49927164 original size:6 final size:6
Alignment explanation
Indices: 49927126--49927227 Score: 92
Period size: 6 Copynumber: 17.7 Consensus size: 6
49927116 TGGCCTCTCA
* *
49927126 TTTTTC -TTTTC TTCTTC TTCTTTC TTTCT- TTTTTC TTTTT- TTATTT-
1 TTTTTC TTTTTC TTTTTC TT-TTTC TTTTTC TTTTTC TTTTTC TT-TTTC
* *
49927172 TTTTAT- TTTTTC TTTAT- TTTTTC TTATT- TTTTTC TTTTTC TTTTTC
1 TTTT-TC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
49927218 TTTTTC TTTT
1 TTTTTC TTTT
49927228 CTTCTTATTT
Statistics
Matches: 80, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
5 22 0.28
6 53 0.66
7 5 0.06
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:49927180 original size:23 final size:22
Alignment explanation
Indices: 49927154--49927241 Score: 81
Period size: 23 Copynumber: 3.9 Consensus size: 22
49927144 TCTTTCTTTC
49927154 TTTTTTCTTTTTTTATTTTTTTA
1 TTTTTTCTTTTTTT-TTTTTTTA
* *
49927177 TTTTTTC-TTTATTTTTTCTTA
1 TTTTTTCTTTTTTTTTTTTTTA
49927198 TTTTTTTCTTTTTCTTTTTCTTTT-
1 -TTTTTTCTTTTT-TTTTT-TTTTA
* * *
49927222 TCTTTTCTTCTTATTTTTTT
1 TTTTTTCTTTTTTTTTTTTT
49927242 GAAATATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
21 10 0.19
22 16 0.30
23 20 0.37
24 5 0.09
25 3 0.06
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (22 bp):
TTTTTTCTTTTTTTTTTTTTTA
Found at i:49927184 original size:34 final size:35
Alignment explanation
Indices: 49927132--49927241 Score: 125
Period size: 34 Copynumber: 3.1 Consensus size: 35
49927122 CTCATTTTTC
* * *
49927132 TTTTCTTCTTCTTCTTTCTTTCTTTTTTCTT-TTT
1 TTTTCTTTTTATTTTTTCTTTCTTTTTTCTTATTT
*
49927166 TTATT-TTTTTATTTTTTCTTTATTTTTTCTTATTT
1 TT-TTCTTTTTATTTTTTCTTTCTTTTTTCTTATTT
* *
49927201 TTTTCTTTTTCTTTTTCTTTTTCTTTTCTTCTTATTT
1 TTTTCTTTTTATTTTT-TCTTTCTTTT-TTCTTATTT
49927238 TTTT
1 TTTT
49927242 GAAATATTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
34 26 0.41
35 17 0.27
36 8 0.12
37 13 0.20
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (35 bp):
TTTTCTTTTTATTTTTTCTTTCTTTTTTCTTATTT
Found at i:49927252 original size:1 final size:1
Alignment explanation
Indices: 49927154--49927241 Score: 50
Period size: 1 Copynumber: 88.0 Consensus size: 1
49927144 TCTTTCTTTC
* * * * * * * * * *
49927154 TTTTTTCTTTTTTTATTTTTTTATTTTTTCTTTATTTTTTCTTATTTTTTTCTTTTTCTTTTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
49927219 TTTTCTTTTCTTCTTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
49927242 GAAATATTTT
Statistics
Matches: 59, Mismatches: 28, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:49928753 original size:72 final size:71
Alignment explanation
Indices: 49928617--49928756 Score: 165
Period size: 72 Copynumber: 1.9 Consensus size: 71
49928607 CTCGAATTTC
* * * * ** *
49928617 AAAAATGGATCATGCCTAGTAAGTTAGGACATGATCTTTTTTTAATTCCCGAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACAAGATCTTCTGATAATTCCCAAGATC-TTTAAAAC
49928682 TTGAGAA
65 TTGAGAA
* *
49928689 AAAAAGGGATCATGCCCAGTAAGTTAGGATAAGATCTTCTGATAATTTCCAAGAT-TTGTAAAAA
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACAAGATCTTCTGATAATTCCCAAGATCTT-T-AAAA
49928753 CTTG
64 CTTG
49928757 TTTGAAAATA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
70 2 0.04
71 1 0.02
72 54 0.95
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (71 bp):
AAAAAGGGATCATGCCCAGTAAGTTAGGACAAGATCTTCTGATAATTCCCAAGATCTTTAAAACT
TGAGAA
Found at i:49929144 original size:19 final size:21
Alignment explanation
Indices: 49929107--49929145 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
49929097 CAAGAAATAA
49929107 ATAAAGAAAAGGAATAAGATT
1 ATAAAGAAAAGGAATAAGATT
*
49929128 ATAAA-AAAAGTAA-AAGAT
1 ATAAAGAAAAGGAATAAGAT
49929146 ATATGTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 7 0.41
21 5 0.29
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.18
Consensus pattern (21 bp):
ATAAAGAAAAGGAATAAGATT
Found at i:49931359 original size:3 final size:3
Alignment explanation
Indices: 49931353--49931378 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49931343 TTTGATATTA
49931353 TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TT
49931379 ATACTTCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:49931715 original size:3 final size:3
Alignment explanation
Indices: 49931707--49931756 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
49931697 TTCAAAAATC
* * * *
49931707 TTA TTA TTA TTA TTA CTA TTA TTA TTA ATA TTA CTA GTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49931754 TTA
1 TTA
49931757 CACTTAAATT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:49931730 original size:18 final size:17
Alignment explanation
Indices: 49931707--49931757 Score: 75
Period size: 18 Copynumber: 2.9 Consensus size: 17
49931697 TTCAAAAATC
49931707 TTATTATTATTATTACTA
1 TTATTATTA-TATTACTA
49931725 TTATTATTAATATTACTA
1 TTATTATT-ATATTACTA
*
49931743 GTATTATTATATTAC
1 TTATTATTATATTAC
49931758 ACTTAAATTG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 7 0.23
18 23 0.74
19 1 0.03
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (17 bp):
TTATTATTATATTACTA
Found at i:49932195 original size:71 final size:71
Alignment explanation
Indices: 49932082--49932215 Score: 232
Period size: 71 Copynumber: 1.9 Consensus size: 71
49932072 TCTTTTCAAA
* * *
49932082 CTCAAGTTTTAAACAATTTCGGGAATTAAGAAGAGATTGTGTCCTAACTTACTGGGCATGATCTT
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTT
49932147 TTTTTC
66 TTTTTC
*
49932153 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATC
1 CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATC
49932216 CCTTTTTTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (71 bp):
CTCAAGTTTTAAACAATCTCGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCTT
TTTTTC
Found at i:49933777 original size:14 final size:16
Alignment explanation
Indices: 49933758--49933789 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
49933748 CCTCTCTTCT
49933758 TTTGCATT-CATG-CA
1 TTTGCATTACATGACA
49933772 TTTGCATTACATGACA
1 TTTGCATTACATGACA
49933788 TT
1 TT
49933790 ATATGCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTGCATTACATGACA
Found at i:49936066 original size:9 final size:9
Alignment explanation
Indices: 49936054--49936101 Score: 55
Period size: 9 Copynumber: 5.4 Consensus size: 9
49936044 AGAGAGAAAA
49936054 AAAAAGAAG
1 AAAAAGAAG
49936063 AAAAA-AGAG
1 AAAAAGA-AG
*
49936072 GAAAA-AAG
1 AAAAAGAAG
49936080 AAAAAGAAG
1 AAAAAGAAG
*
49936089 AAGAAGAAG
1 AAAAAGAAG
49936098 AAAA
1 AAAA
49936102 GAAAAAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 7 0.21
9 26 0.79
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAAGAAG
Found at i:49936066 original size:23 final size:24
Alignment explanation
Indices: 49936040--49936116 Score: 95
Period size: 23 Copynumber: 3.2 Consensus size: 24
49936030 AAATGTTTTT
49936040 AAAAAGAGAGAAAA-AAAAAGAAG
1 AAAAAGAGAGAAAAGAAAAAGAAG
*
49936063 AAAAAAGAGGAAAAAAGAAAAAGAAG
1 -AAAAAGA-GAGAAAAGAAAAAGAAG
* *
49936089 AAGAAGA-AGAAAAGAAAAAGAAA
1 AAAAAGAGAGAAAAGAAAAAGAAG
49936112 AAAAA
1 AAAAA
49936117 AGGAGAGGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
23 18 0.39
24 7 0.15
25 12 0.26
26 9 0.20
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (24 bp):
AAAAAGAGAGAAAAGAAAAAGAAG
Found at i:49936085 original size:6 final size:6
Alignment explanation
Indices: 49936074--49936117 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
49936064 AAAAAGAGGA
* *
49936074 AAAAAG AAAAAG AAGAAG AAGAAG -AAAAG AAAAAG AAAAA- AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
49936118 GGAGAGGTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
5 8 0.23
6 27 0.77
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:49936101 original size:17 final size:17
Alignment explanation
Indices: 49936040--49936110 Score: 66
Period size: 17 Copynumber: 4.5 Consensus size: 17
49936030 AAATGTTTTT
49936040 AAAAAG-AG-AGAAAA-
1 AAAAAGAAGAAGAAAAG
49936054 AAAAAGAAGAA-AAAAG
1 AAAAAGAAGAAGAAAAG
49936070 AGGAAAA-AAG-A-AAAAG
1 A--AAAAGAAGAAGAAAAG
*
49936086 AAGAAGAAGAAGAAAAG
1 AAAAAGAAGAAGAAAAG
49936103 AAAAAGAA
1 AAAAAGAA
49936111 AAAAAAAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
14 9 0.19
15 9 0.19
16 10 0.21
17 15 0.32
18 4 0.09
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AAAAAGAAGAAGAAAAG
Found at i:49936116 original size:32 final size:29
Alignment explanation
Indices: 49936040--49936117 Score: 88
Period size: 32 Copynumber: 2.6 Consensus size: 29
49936030 AAATGTTTTT
49936040 AAAAAGAGAGAAAAAAAAAGAAGAAAAAAG
1 AAAAAGA-AGAAAAAAAAAGAAGAAAAAAG
49936070 AGGAAAA-AAGAAAAAGAAGAAGAAGAAGAAAAG
1 A--AAAAGAAGAAAAA-AA-AAGAAGAA-AAAAG
49936103 AAAAAGAA-AAAAAAA
1 AAAAAGAAGAAAAAAA
49936118 GGAGAGGTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
30 10 0.24
31 12 0.29
32 14 0.33
33 6 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (29 bp):
AAAAAGAAGAAAAAAAAAGAAGAAAAAAG
Found at i:49937599 original size:132 final size:131
Alignment explanation
Indices: 49937370--49938652 Score: 889
Period size: 132 Copynumber: 9.8 Consensus size: 131
49937360 TGAAGCCACC
*
49937370 AGTCCTATCTCCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGT
* * *
49937435 AGTGGAGCAGATCGAAAATGGTGAATCTTATCTTCCTAAGATAGTGGAGAAGCAAATTTAAGCCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAG-CA
49937500 TT
130 TT
* * *
49937502 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCTGTCTCCTTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGT
*
49937567 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAG-CA
49937632 TT
130 TT
49937634 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGT
* * * ** * * * *
49937699 AGTGGAGTAGGTTGAAGATTGCAGATTC-TGTC-TCCCTAAGCAGTAGTGGAGTAG--G-TTAAA
66 AGTGGAGCAGATCGAAGA-TGGTGAATCTTATCTTCCC-AAG-A-TAGTGGAGAAGCAGATTTAA
49937759 G-ATT
127 GCATT
** * * * * * * * * *
49937763 GCAGATTATGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTA-AATCT-TATCTTCTCAA
1 --AG-TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTC-CCT-AA
* ** * * * * *
49937826 G-A-TAGTGAAGAAACAGATTTAAGCCAT--T-AGTCCTACCTCCCCAAGCAGTAGTGGAGTAG-
61 GCAGTAGTG--G-AGCAGATCGAAG--ATGGTGAATCTTATCTTCCCAAG-A-TAGTGGAGAAGC
*
49937885 -G-TTGAAG-ATT
119 AGATTTAAGCATT
* * * * * * * * *
49937895 GCAGATTCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAATATGGTA-AATCTTATCTTCCC-AA
1 --AG-TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC-TGTC-TCCCTAA
** *** * * * *
49937958 G-A-TAGTGGAGAAGCAGATTTAA-ACCATTAGTCCTATC-TCCCTAAGCAGTAGTGGAGTAG--
61 GCAGTAGT-G-G-AGCAGATCGAAGATGGTGAATCTTATCTTCCC-AAG-A-TAGTGGAGAAGCA
*
49938017 G-TTAAAG-ATT
120 GATTTAAGCATT
* * * ** * ** * *
49938027 GCAGATTCTGTCTCCCTAAGCAGTAGTGGAGCATATCGAAGA-TGGTGAATCTTATCTTCCC-AA
1 --AG-TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC-TGTC-TCCCTAA
* ** * * *
49938090 G-A-TAGTGGAGAAGTAGATTTAAGCCAT--T-AGTCCTATC-TCCCTAAGCAGTAGTGGAGTAG
61 GCAGTAGT-G-G-AGCAGATCGAAG--ATGGTGAATCTTATCTTCCC-AAG-A-TAGTGGAGAAG
* *
49938149 --G-TTGAA-TATT
118 CAGATTTAAGCATT
* * * * *
49938159 ACAGATTCTGTCTCCCTAAGCAGTAGTGGAGTAGGTTTAAGATTGTAGATTCTGTCTCCCTAAGA
1 --AG-TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGC
* * *
49938224 AGTAGTGGAGCAAATCGAAGACGGTGAATTTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAG
63 AGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAG
49938289 CCATT
128 -CATT
* * * * *
49938294 AGTCCTATCTCCCTAAGCAGTAGTAGAGTAGGATAAAGATTGCAGCTTTTGTCTCCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGT
* *
49938359 AGTAGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAATCAGATTTAAGCCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAG-CA
49938424 TT
130 TT
* * * *
49938426 AGTCCTATCTCCCTAAGTAGTAATGGAGTAGGTTAAAGATTGCAGA-------ACCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGT
* * * *
49938484 AGTAGAGCAGATCGAATATGGTGAATCTTACCTTCCCAAGATAGTGGAGAAACAGATTTAAGTCA
66 AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAG-CA
49938549 TT
130 TT
* *
49938551 AGTTCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCTGA-TCATGTCTCCCTAAGCAG
1 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTC-TGTCTCCCTAAGCAG
*
49938615 TAGTGGAGCAGATCGAAGATGGCGAATCTTA-CTTCCCA
65 TAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCA
49938653 GGCAGTGCAG
Statistics
Matches: 988, Mismatches: 114, Indels: 99
0.82 0.09 0.08
Matches are distributed among these distances:
125 115 0.12
129 5 0.01
130 18 0.02
131 47 0.05
132 740 0.75
133 39 0.04
134 17 0.02
135 7 0.01
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (131 bp):
AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGT
AGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCAT
T
Found at i:49937718 original size:37 final size:39
Alignment explanation
Indices: 49937641--49937793 Score: 162
Period size: 44 Copynumber: 3.5 Consensus size: 39
49937631 ATTAGTCCTA
49937641 TCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGTT-AA-A-T--AGATTCTG
49937685 TCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTG
1 TCTCCCTAAGCAGTAGTGGAGTAGGTT-AA-A-T--AGATTCTG
*
49937729 TCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTATG
1 TCTCCCTAAGCAGTAGTGGAGTAGGTT-AA-A-T--AGATTCTG
49937773 TCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAG
49937794 CAGATCGAAG
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 107 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (39 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGTTAAATAGATTCTG
Found at i:49938027 original size:352 final size:352
Alignment explanation
Indices: 49937377--49938057 Score: 1175
Period size: 352 Copynumber: 1.9 Consensus size: 352
49937367 ACCAGTCCTA
* * *
49937377 TCTCCCTAAGTAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTATGTCTCCCTAAGCAGTAGTGGAG
* * *
49937442 CAGATCGAAAATGGTGAATCTTATCTTCCTAAGATAGTGGAGAAGCAAATTTAAGCCATTAGTCC
66 CAGATCGAAAATGGTAAATCTTATCTTCCTAAGATAGTGAAGAAACAAATTTAAGCCATTAGTCC
* * * *
49937507 TATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCTGTCTCCTTAAGCAGTAGTGG
131 TACCTCCCCAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCTATCTCCCTAAGCAGTAGTGG
* * *
49937572 AGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGTAGATTTAAGCCATTAGT
196 AGCAGATCGAAGATGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCATTAGT
*
49937637 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGT
261 CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGT
49937702 GGAGTAGGTTGAAGATTGCAGATTCTG
326 GGAGTAGGTTGAAGATTGCAGATTCTG
49937729 TCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTATGTCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTATGTCTCCCTAAGCAGTAGTGGAG
* *
49937794 CAGATCGAAGATGGTAAATCTTATCTT-CTCAAGATAGTGAAGAAACAGATTTAAGCCATTAGTC
66 CAGATCGAAAATGGTAAATCTTATCTTCCT-AAGATAGTGAAGAAACAAATTTAAGCCATTAGTC
* *
49937858 CTACCTCCCCAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTATCTCCCTAAGCAGTAGTG
130 CTACCTCCCCAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCTATCTCCCTAAGCAGTAGTG
*
49937923 GAGCAGATCGAATATGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCATTAG
195 GAGCAGATCGAAGATGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCATTAG
49937988 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGTAG
260 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGTAG
49938053 TGGAG
325 TGGAG
49938058 CATATCGAAG
Statistics
Matches: 309, Mismatches: 19, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
351 2 0.01
352 307 0.99
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (352 bp):
TCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTATGTCTCCCTAAGCAGTAGTGGAG
CAGATCGAAAATGGTAAATCTTATCTTCCTAAGATAGTGAAGAAACAAATTTAAGCCATTAGTCC
TACCTCCCCAAGCAGTAGTGGAGTAGGTTAAAGATTACAGATTCTATCTCCCTAAGCAGTAGTGG
AGCAGATCGAAGATGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAACCATTAGT
CCTATCTCCCTAAGCAGTAGTGGAGTAGGTTAAAGATTGCAGATTCTGTCTCCCTAAGCAGTAGT
GGAGTAGGTTGAAGATTGCAGATTCTG
Done.