Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold501
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: 850550
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:146468 original size:13 final size:13
Alignment explanation
Indices: 146450--146474 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
146440 CATTTTATGG
146450 TGTATCGATACAA
1 TGTATCGATACAA
146463 TGTATCGATACA
1 TGTATCGATACA
146475 TACTATGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:146490 original size:32 final size:33
Alignment explanation
Indices: 146427--146494 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
146417 CGTTACAAGC
**
146427 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
146460 CAATGTATCGATACATACTAT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
146492 CAA
1 CAA
146495 GTTTAGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:148249 original size:16 final size:17
Alignment explanation
Indices: 148224--148268 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
148214 AAAAAAAGTC
148224 AAAA-GCAAAAGTACAA
1 AAAATGCAAAAGTACAA
*
148240 AAAATG-AAAAG-AGAA
1 AAAATGCAAAAGTACAA
*
148255 AAAGTGCAAAAGTA
1 AAAATGCAAAAGTA
148269 AAATAGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 8 0.33
16 14 0.58
17 2 0.08
ACGTcount: A:0.67, C:0.07, G:0.18, T:0.09
Consensus pattern (17 bp):
AAAATGCAAAAGTACAA
Found at i:149659 original size:27 final size:27
Alignment explanation
Indices: 149617--150263 Score: 749
Period size: 27 Copynumber: 23.5 Consensus size: 27
149607 TGGCATTCCT
* *
149617 TTTTAAGTCCATAACTCCGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
149644 TTTTAAGTCCACAACTCCATGGCATCG
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
149671 TTTGAAGTCCACAACTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
149698 TTTTAAAGTCCACAACTCCGTGGAACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* * *
149726 TTTTAACTCCACAGCTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
149753 TTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
149780 TTTTAAGTCCACAACTCCGTGGTACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
149807 TTTTAAGTCCATAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* *
149834 TTTTAAAGTCCACAACACCATGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* * *
149862 TTTTAAAGTCCATAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* *
149890 TTTTAAAGTCCACAA-TTCGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
* * * *
149917 TTTAAAGTCCATAACTCCATGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* * *
149944 TTTTAAAATCCATAACTCCGTGGTA-CC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
149971 TTTTATAGTCCACAACTCCGTGGCAACCC
1 TTTTA-AGTCCACAACTCCGTGGC-ACCC
* * *
150000 ATTGAAGTCCACAACTTCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
* **
150027 TTTTAAAGTCCACAAGTCCGCAGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCC
150055 TTTTAAGTCCACAACTCCGTGGCAGCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
* * *
150083 ATTTTAGGTCCACAACTCCATGGCACAC
1 -TTTTAAGTCCACAACTCCGTGGCACCC
* *
150111 TTTGAAAGTCCACAACTTCGTGGCACCC
1 TTT-TAAGTCCACAACTCCGTGGCACCC
**
150139 TTTTAATGTCCACAACTCTATGGCACCC
1 TTTTAA-GTCCACAACTCCGTGGCACCC
*
150167 TTTTAAGTCCACAACTCCATGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCC
*
150194 TTTTAAGTCCACAACTCCGTGGTAGCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC
* * *
150222 TTTTTAAGTCTATAACTCCGTGGCACCT
1 -TTTTAAGTCCACAACTCCGTGGCACCC
150250 TTTTAAGTCCACAA
1 TTTTAAGTCCACAA
150264 GTTAGTGGCA
Statistics
Matches: 529, Mismatches: 77, Indels: 28
0.83 0.12 0.04
Matches are distributed among these distances:
26 10 0.02
27 275 0.52
28 196 0.37
29 48 0.09
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.28
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCC
Found at i:149737 original size:55 final size:55
Alignment explanation
Indices: 149617--150263 Score: 736
Period size: 55 Copynumber: 11.8 Consensus size: 55
149607 TGGCATTCCT
* * * * *
149617 TTTTAAGTCCATAACTCCGTGGCAACCTTTT-AAGTCCACAACTCCATGGCATCG
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
* * *
149671 TTTGAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGAACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
* * *
149726 TTTTAACTCCACAGCTCCGTGGCATCCTTTT-AAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
* *
149780 TTTTAAGTCCACAACTCCGTGGTACCCTTTT-AAGTCCATAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
* * * * *
149834 TTTTAAAGTCCACAACACCATGGCACCCTTTTAAAGTCCATAACTCTGTGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
* * * * *
149890 TTTTAAAGTCCACAA-TTCGTGGCATCC-TTTAAAGTCCATAACTCCATGGCATCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
* * * *
149944 TTTTAAAATCCATAACTCCGTGGTA-CCTTTTATAGTCCACAACTCCGTGGCAACCC
1 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGC-ACCC
* * * * **
150000 ATTGAAGTCCACAACTTCGTGGCACCCTTTTAAAGTCCACAAGTCCGCAGCACCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
* * *
150055 TTTTAAGTCCACAACTCCGTGGCAGCCCATTTT-AGGTCCACAACTCCATGGCACAC
1 TTTTAAGTCCACAACTCCGTGGCA-CCC-TTTTAAAGTCCACAACTCCGTGGCACCC
* * * **
150111 TTTGAAAGTCCACAACTTCGTGGCACCCTTTTAATGTCCACAACTCTATGGCACCC
1 TTT-TAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
* *
150167 TTTTAAGTCCACAACTCCATGGCACCCTTTT-AAGTCCACAACTCCGTGGTAGCCC
1 TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCC
* * *
150222 TTTTTAAGTCTATAACTCCGTGGCA-CCTTTTTAAGTCCACAA
1 -TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAA
150264 GTTAGTGGCA
Statistics
Matches: 507, Mismatches: 72, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
54 158 0.31
55 183 0.36
56 143 0.28
57 23 0.05
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.28
Consensus pattern (55 bp):
TTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCC
Found at i:150273 original size:83 final size:82
Alignment explanation
Indices: 149605--150273 Score: 735
Period size: 83 Copynumber: 8.1 Consensus size: 82
149595 TCCACGATTT
* * * * * *
149605 AGTGGCATTCCTTTTTAAGTCCATAACTCCGTGGCAACCTTTTAAGTCCACAACTCCATGGCATC
1 AGTGGCA-CCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
149670 GTTTGAAGTCCACAACTC
65 CTTTTAAGTCCACAACTC
* * * * *
149688 TGTGGCACCCTTTTAAAGTCCACAACTCCGTGGAACCCTTTTAACTCCACAGCTCCGTGGCATCC
1 AGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
149753 TTTTAAGTCCACAACTC
66 TTTTAAGTCCACAACTC
* * *
149770 CGTGGCACCCTTTT-AAGTCCACAACTCCGTGGTACCCTTTTAAGTCCATAACTCCGTGGCACCC
1 AGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
*
149834 TTTTAAAGTCCACAACACC
66 TTTT-AAGTCCACAAC-TC
* * * * *
149853 A-TGGCACCCTTTTAAAGTCCATAACTCTGTGGCATCCTTTTAAAGTCCACAA-TTCGTGGCATC
1 AGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACC
* *
149916 CTTTAAAGTCCATAACTCC
65 CTTTTAAGTCCACAACT-C
* * * *
149935 A-TGGCATCCTTTTAAAATCCATAACTCCGTGGTA-CCTTTTATAGTCCACAACTCCGTGGCAAC
1 AGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTA-AGTCCACAACTCCGTGGC-AC
* *
149998 CCATTGAAGTCCACAACTTC
64 CCTTTTAAGTCCACAAC-TC
* **
150018 -GTGGCACCCTTTTAAAGTCCACAAGTCCGCAGCACCCTTTTAAGTCCACAACTCCGTGGCAGCC
1 AGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CC
*
150082 CATTTTAGGTCCACAACTCC
65 C-TTTTAAGTCCACAACT-C
* * * **
150102 A-TGGCACACTTTGAAAGTCCACAACTTCGTGGCACCCTTTTAATGTCCACAACTCTATGGCACC
1 AGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAA-GTCCACAACTCCGTGGCACC
150166 CTTTTAAGTCCACAACTCC
65 CTTTTAAGTCCACAACT-C
* * *
150185 A-TGGCACCCTTTT-AAGTCCACAACTCCGTGGTAGCCCTTTTTAAGTCTATAACTCCGTGGCAC
1 AGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCC-TTTTAAGTCCACAACTCCGTGGCAC
* * *
150248 CTTTTTAAGTCCACAAGTT
64 CCTTTTAAGTCCACAACTC
150267 AGTGGCA
1 AGTGGCA
150274 TCTTTTCCAA
Statistics
Matches: 499, Mismatches: 68, Indels: 38
0.82 0.11 0.06
Matches are distributed among these distances:
80 1 0.00
81 64 0.13
82 169 0.34
83 174 0.35
84 75 0.15
85 16 0.03
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (82 bp):
AGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCC
TTTTAAGTCCACAACTC
Found at i:150278 original size:27 final size:27
Alignment explanation
Indices: 149592--150447 Score: 207
Period size: 27 Copynumber: 31.0 Consensus size: 27
149582 AACCTCTTCA
* *
149592 AAGTCCACGATTTAGTGGCATTCCTTTTT
1 AAGTCCACAAGTTAGTGGCA--CCTTTTT
* * **
149621 AAGTCCATAACTCCGTGGCAACC-TTTT
1 AAGTCCACAAGTTAGTGGC-ACCTTTTT
* * * * *
149648 AAGTCCACAACTCCA-TGGCATCGTTTG
1 AAGTCCACAAGT-TAGTGGCACCTTTTT
* *
149675 AAGTCCACAACTCT-GTGGCACCCTTTTA
1 AAGTCCACAAGT-TAGTGGCA-CCTTTTT
* ** * *
149703 AAGTCCACAACTCCGTGGAACCCTTTT
1 AAGTCCACAAGTTAGTGGCACCTTTTT
* **
149730 AACTCCAC-AGCTCCGTGGCATCC-TTTT
1 AAGTCCACAAG-TTAGTGGCA-CCTTTTT
* ** *
149757 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAAGTTAGTGGCACCTTTTT
* ** * *
149784 AAGTCCACAACTCCGTGGTACCCTTTT
1 AAGTCCACAAGTTAGTGGCACCTTTTT
* * ** *
149811 AAGTCCATAACTCCGTGGCACCCTTTTA
1 AAGTCCACAAGTTAGTGGCA-CCTTTTT
*** *
149839 AAGTCCACAACACCA-TGGCACCCTTTTA
1 AAGTCCACAA-GTTAGTGGCA-CCTTTTT
* * *
149867 AAGTCCATAACTCT-GTGGCATCCTTTTA
1 AAGTCCACAAGT-TAGTGGCA-CCTTTTT
* *
149895 AAGTCCACAA-TTCGTGGCATCC-TTTA
1 AAGTCCACAAGTTAGTGGCA-CCTTTTT
* * * *
149921 AAGTCCATAACTCCA-TGGCATCCTTTTA
1 AAGTCCACAAGT-TAGTGGCA-CCTTTTT
* * * ** *
149949 AAATCCATAACTCCGTGGTACC-TTTT
1 AAGTCCACAAGTTAGTGGCACCTTTTT
* ** ** *
149975 ATAGTCCACAACTCCGTGGCAACCCATTG
1 A-AGTCCACAAGTTAGTGGC-ACCTTTTT
* * *
150004 AAGTCCACAACTTCGTGGCACCCTTTTA
1 AAGTCCACAAGTTAGTGGCA-CCTTTTT
** ** *
150032 AAGTCCACAAGTCCGCAGCACCCTTTT
1 AAGTCCACAAGTTAGTGGCACCTTTTT
* ** *
150059 AAGTCCACAACTCCGTGGCAGCCCATTTT
1 AAGTCCACAAGTTAGTGGCA--CCTTTTT
* * * **
150088 AGGTCCACAACTCCA-TGGCACACTTTGA
1 AAGTCCACAAGT-TAGTGGCAC-CTTTTT
* * *
150116 AAGTCCACAACTTCGTGGCACCCTTTT
1 AAGTCCACAAGTTAGTGGCACCTTTTT
* *
150143 AATGTCCACAACTCTA-TGGCACCCTTTT
1 AA-GTCCACAAGT-TAGTGGCACCTTTTT
* * *
150171 AAGTCCACAACTCCA-TGGCACCCTTTT
1 AAGTCCACAAGT-TAGTGGCACCTTTTT
* ** *
150198 AAGTCCACAACTCCGTGGTAGCCCTTTTT
1 AAGTCCACAAGTTAGTGGCA--CCTTTTT
* * * **
150227 AAGTCTATAACTCCGTGGCACCTTTTT
1 AAGTCCACAAGTTAGTGGCACCTTTTT
* *
150254 AAGTCCACAAGTTAGTGGCATCTTTTCC
1 AAGTCCACAAGTTAGTGGCACCTTTT-T
* * * *
150282 AAGCCCACAAGTTAGTGGTATCTTTTCC
1 AAGTCCACAAGTTAGTGGCACCTTTT-T
* *
150310 AAG-CCTACAAGTGAGTGGCATCCTTTTCA
1 AAGTCC-ACAAGTTAGTGGCA-CCTTTT-T
* * * *
150339 AAGCCCACGAA-TCAGTGGCACCCTTTC
1 AAGTCCAC-AAGTTAGTGGCACCTTTTT
* *
150366 ATAGCCCAC-AGTTAGTGGCACCTTTTCA
1 A-AGTCCACAAGTTAGTGGCACCTTTT-T
* * * * *
150394 AAGCCCACGAGTCAGTGGTACCCTTTTA
1 AAGTCCACAAGTTAGTGGCA-CCTTTTT
* * * *
150422 AAGCCCATATGTTAGTGGCATCTTTT
1 AAGTCCACAAGTTAGTGGCACCTTTT
150448 CAAAACCCAC
Statistics
Matches: 675, Mismatches: 109, Indels: 88
0.77 0.12 0.10
Matches are distributed among these distances:
26 25 0.04
27 289 0.43
28 266 0.39
29 89 0.13
30 6 0.01
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (27 bp):
AAGTCCACAAGTTAGTGGCACCTTTTT
Found at i:150296 original size:28 final size:28
Alignment explanation
Indices: 150241--150560 Score: 204
Period size: 28 Copynumber: 11.4 Consensus size: 28
150231 CTATAACTCC
* * * *
150241 GTGGCACCTTTT-TAAGTCCACAAGTTA
1 GTGGCATCTTTTCCAAGCCCACAAGTCA
*
150268 GTGGCATCTTTTCCAAGCCCACAAGTTA
1 GTGGCATCTTTTCCAAGCCCACAAGTCA
* * *
150296 GTGGTATCTTTTCCAAGCCTACAAGTGA
1 GTGGCATCTTTTCCAAGCCCACAAGTCA
*
150324 GTGGCATCCTTTTCAAAGCCCACGAA-TCA
1 GTGGCAT-CTTTTCCAAGCCCAC-AAGTCA
* * *
150353 GTGGCACCCTTT-CATAGCCCAC-AGTTA
1 GTGGCATCTTTTCCA-AGCCCACAAGTCA
* * *
150380 GTGGCACCTTTTCAAAGCCCACGAGTCA
1 GTGGCATCTTTTCCAAGCCCACAAGTCA
* * * * * *
150408 GTGGTACCCTTTT-AAAGCCCATATGTTA
1 GTGGCA-TCTTTTCCAAGCCCACAAGTCA
* * *
150436 GTGGCATCTTTTCAAAACCCACGAGTCA
1 GTGGCATCTTTTCCAAGCCCACAAGTCA
* *
150464 GTGGCATC-CTTCCAAAGCCCACGAGTCA
1 GTGGCATCTTTTCC-AAGCCCACAAGTCA
* **
150492 GTGGCATC-CTTCCAAAGCCCATGAGTCA
1 GTGGCATCTTTTCC-AAGCCCACAAGTCA
* ** * *
150520 GTGGTATCTCATCAAAGCCCACACAAGTCG
1 GTGGCATCTTTTCCAAG-CC-CACAAGTCA
*
150550 GTGGCAACTTT
1 GTGGCATCTTT
150561 CTCTAAAGCC
Statistics
Matches: 237, Mismatches: 43, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.00
27 40 0.17
28 149 0.63
29 32 0.14
30 15 0.06
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (28 bp):
GTGGCATCTTTTCCAAGCCCACAAGTCA
Found at i:150327 original size:56 final size:55
Alignment explanation
Indices: 150248--150542 Score: 286
Period size: 56 Copynumber: 5.3 Consensus size: 55
150238 TCCGTGGCAC
* * * * *
150248 CTTTTTAAGTCCACAAGTTAGTGGCATCTTTTCCAAGCCCACAAGTTAGTGGTAT
1 CTTTTCAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACGAGTCAGTGGTAT
* * * * *
150303 CTTTTCCAAGCCTACAAGTGAGTGGCATCCTTTTCAAAGCCCACGAATCAGTGGCAC
1 CTTTT-CAAGCCCACAAGTTAGTGGCAT-CTTTTCAAAGCCCACGAGTCAGTGGTAT
* * *
150360 CCTTTCATAGCCCAC-AGTTAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGTACC
1 CTTTTCA-AGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACGAGTCAGTGGTA-T
* * * * *
150416 CTTTTAAAGCCCATATGTTAGTGGCATCTTTTCAAAACCCACGAGTCAGTGGCAT
1 CTTTTCAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACGAGTCAGTGGTAT
* * * * * * *
150471 CCTTCCAAAGCCCACGAGTCAGTGGCATCCTTCCAAAGCCCATGAGTCAGTGGTAT
1 CTTTTC-AAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACGAGTCAGTGGTAT
**
150527 CTCATCAAAGCCCACA
1 CTTTTC-AAGCCCACA
150543 CAAGTCGGTG
Statistics
Matches: 193, Mismatches: 41, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
55 39 0.20
56 122 0.63
57 32 0.17
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (55 bp):
CTTTTCAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACGAGTCAGTGGTAT
Found at i:150379 original size:112 final size:110
Alignment explanation
Indices: 150241--150542 Score: 320
Period size: 112 Copynumber: 2.7 Consensus size: 110
150231 CTATAACTCC
* * * * *
150241 GTGGCACCTTTTTAAGTCCACAAGTTAGTGGCATCTTTTCCAAGCCCACAAGTTAGTGGTATCTT
1 GTGGCACCCTTTCAAGCCCACAAGTTAGTGGCATCTTTTCCAAGCCCACGAGTCAGTGGTATCTT
* * *
150306 TTCCAAGCCTACAAGTGAGTGGCATCCTTTTCAAAGCCCACGAATCA
66 TT-AAAGCCCACAAGTGAGTGGCAT-CTTTTCAAAACCCACGAATCA
* * *
150353 GTGGCACCCTTTCATAGCCCAC-AGTTAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGTACCC
1 GTGGCACCCTTTCA-AGCCCACAAGTTAGTGGCATCTTTTCCAAGCCCACGAGTCAGTGGTA-TC
* * * *
150417 TTTTAAAGCCCATATGTTAGTGGCATCTTTTCAAAACCCACGAGTCA
64 TTTTAAAGCCCACAAGTGAGTGGCATCTTTTCAAAACCCACGAATCA
* * * * * *
150464 GTGGCATCCTTCCAAAGCCCACGAGTCAGTGGCATC-CTTCCAAAGCCCATGAGTCAGTGGTATC
1 GTGGCACCCTTTC-AAGCCCACAAGTTAGTGGCATCTTTTCC-AAGCCCACGAGTCAGTGGTATC
* *
150528 TCATCAAAGCCCACA
64 T-TTTAAAGCCCACA
150543 CAAGTCGGTG
Statistics
Matches: 158, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
111 42 0.27
112 105 0.66
113 11 0.07
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (110 bp):
GTGGCACCCTTTCAAGCCCACAAGTTAGTGGCATCTTTTCCAAGCCCACGAGTCAGTGGTATCTT
TTAAAGCCCACAAGTGAGTGGCATCTTTTCAAAACCCACGAATCA
Found at i:150467 original size:84 final size:82
Alignment explanation
Indices: 150241--150542 Score: 277
Period size: 84 Copynumber: 3.6 Consensus size: 82
150231 CTATAACTCC
* * * *
150241 GTGGCA-CCTTTTTAAGTCCACA-AGTTAGTGGCATCTTTTCCAAGCCCACAAGTTAGTGGTATC
1 GTGGCATCCTTTTAAAG-CC-CATAGTTAGTGGCATCTTTTCAAAGCCCAC-AGTTAGTGGCACC
* * * *
150304 TTTTCCAAGCCTACAAGTGA
63 TTTTCAAAGCCCACGAGTCA
* * * * * *
150324 GTGGCATCCTTTTCAAAGCCCACGAATCAGTGGCACCCTTTCATAGCCCACAGTTAGTGGCACCT
1 GTGGCATCCTTTT-AAAGCCCA-TAGTTAGTGGCATCTTTTCAAAGCCCACAGTTAGTGGCACCT
150389 TTTCAAAGCCCACGAGTCA
64 TTTCAAAGCCCACGAGTCA
* * * *
150408 GTGGTACCCTTTTAAAGCCCATATGTTAGTGGCATCTTTTCAAAACCCACGAGTCAGTGGCATCC
1 GTGGCATCCTTTTAAAGCCCATA-GTTAGTGGCATCTTTTCAAAGCCCAC-AGTTAGTGGCA-CC
*
150473 -TTCCAAAGCCCACGAGTCA
63 TTTTCAAAGCCCACGAGTCA
** * * **
150492 GTGGCATCCTTCCAAAGCCCATGAGTCAGTGGTATCTCATCAAAGCCCACA
1 GTGGCATCCTTTTAAAGCCCAT-AGTTAGTGGCATCTTTTCAAAGCCCACA
150543 CAAGTCGGTG
Statistics
Matches: 178, Mismatches: 33, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
82 1 0.01
83 37 0.21
84 113 0.63
85 27 0.15
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (82 bp):
GTGGCATCCTTTTAAAGCCCATAGTTAGTGGCATCTTTTCAAAGCCCACAGTTAGTGGCACCTTT
TCAAAGCCCACGAGTCA
Found at i:153842 original size:13 final size:13
Alignment explanation
Indices: 153824--153856 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
153814 TAGCTTATTT
153824 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
*
153837 GAAAAAAAAAGAA
1 GAAAAAAAAAAAA
153850 GAAAAAA
1 GAAAAAA
153857 TAGGGTGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:154362 original size:20 final size:20
Alignment explanation
Indices: 154319--154370 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
154309 TACCCAAATA
* *
154319 TATCGATACACTGTATGAATG
1 TATCGATACA-TGAATGAAAG
154340 TATCGATACATGAATGAAAG
1 TATCGATACATGAATGAAAG
154360 TATCGATACAT
1 TATCGATACAT
154371 TCTTCAATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.31
Consensus pattern (20 bp):
TATCGATACATGAATGAAAG
Found at i:154382 original size:20 final size:20
Alignment explanation
Indices: 154336--154393 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
154326 ACACTGTATG
*** *
154336 AATGTATCGATACATGAATG
1 AATGTATCGATACATTCTTC
*
154356 AAAGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
*
154376 AATGTATCAATACATTCT
1 AATGTATCGATACATTCT
154394 GTCTTTTTAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:154434 original size:20 final size:20
Alignment explanation
Indices: 154408--154461 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
154398 TTTTACCTAG
154408 ATGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
*
154428 CTGTATCGATACATGTATGA
1 ATGTATCGATACATGTATGA
154448 ATGTATCGATACAT
1 ATGTATCGATACAT
154462 TCTGTCTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (20 bp):
ATGTATCGATACATGTATGA
Found at i:154434 original size:71 final size:71
Alignment explanation
Indices: 154337--154512 Score: 214
Period size: 71 Copynumber: 2.5 Consensus size: 71
154327 CACTGTATGA
*
154337 ATGTATCGATACATGAATGAAAGTATCGATACAT-TCTTCAATGTATCAATACATTCTGTC-TTT
1 ATGTATCGATACATGAATGAAAGTATCGATACATGT-ATCAATGTATCAATACATTCTGTCTTTT
154400 TTACCTAG
65 TTACC-AG
* ** * *
154408 ATGTATCGATACATGTATGACTGTATCGATACATGTATGAATGTATCGATACATTCTGTCTTTTT
1 ATGTATCGATACATGAATGAAAGTATCGATACATGTATCAATGTATCAATACATTCTGTCTTTTT
*
154473 TTCCAG
66 TACCAG
* * *
154479 ATGTATCGATACGTTAGAT-AATGTATCGATACAT
1 ATGTATCGATACATGA-ATGAAAGTATCGATACAT
154513 CTAGTTAATT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
71 81 0.89
72 10 0.11
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (71 bp):
ATGTATCGATACATGAATGAAAGTATCGATACATGTATCAATGTATCAATACATTCTGTCTTTTT
TACCAG
Found at i:154462 original size:91 final size:92
Alignment explanation
Indices: 154286--154464 Score: 288
Period size: 91 Copynumber: 2.0 Consensus size: 92
154276 CATGTATGAT
*
154286 TGTATCGATACATTCTGTCTTTTTACCCAAATATATCGATACACTGTATGAATGTATCGATACAT
1 TGTATCAATACATTCTGTCTTTTTACCCAAATATATCGATACACTGTATGAATGTATCGATACAT
154351 GAATGAAAGTATCGATACATTCTTCAA
66 GAATGAAAGTATCGATACATTCTTCAA
* * * *
154378 TGTATCAATACATTCTGTCTTTTTACCTAGATGTATCGATACA-TGTATGACTGTATCGATACAT
1 TGTATCAATACATTCTGTCTTTTTACCCAAATATATCGATACACTGTATGAATGTATCGATACAT
* *
154442 GTATGAATGTATCGATACATTCT
66 GAATGAAAGTATCGATACATTCT
154465 GTCTTTTTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 41 0.51
92 39 0.49
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (92 bp):
TGTATCAATACATTCTGTCTTTTTACCCAAATATATCGATACACTGTATGAATGTATCGATACAT
GAATGAAAGTATCGATACATTCTTCAA
Found at i:156831 original size:97 final size:96
Alignment explanation
Indices: 156657--156902 Score: 325
Period size: 97 Copynumber: 2.5 Consensus size: 96
156647 AATTTTATTT
* *
156657 ATCGGGGATACTCCAACCCTATTCCTCCGAGGGGATACT-CAACCCCACTTTTAAACACATCAAA
1 ATCGGGGA-ACTTCAACCCTATTCCTCCGAAGGGATACTCCAACCCCACTTTTAAACACATCAAA
*
156721 GTTTAAATCTTATTCTCATTTAAATTGTCACC
65 GTTTAAATCTTATTCTCACTTAAATTGTCACC
* * **
156753 ATCGGGGACACTTCAACCCTATTCCTCCGAAGGGTTACTCCAACCCCGCTTTTAAATGCATCAAA
1 ATCGGGGA-ACTTCAACCCTATTCCTCCGAAGGGATACTCCAACCCCACTTTTAAACACATCAAA
* *
156818 GTTTAAATTTTATTCTCACTTAAATTGTCACT
65 GTTTAAATCTTATTCTCACTTAAATTGTCACC
* * * *
156850 ATCGGGGAAATTCTAACCCCATTCCTGCG-AGAGGATACTCCAACCCCATTTTT
1 ATCGGGGAACTTC-AACCCTATTCCTCCGAAG-GGATACTCCAACCCCACTTTT
156903 CAATCAAAAA
Statistics
Matches: 131, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
96 41 0.31
97 90 0.69
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.30
Consensus pattern (96 bp):
ATCGGGGAACTTCAACCCTATTCCTCCGAAGGGATACTCCAACCCCACTTTTAAACACATCAAAG
TTTAAATCTTATTCTCACTTAAATTGTCACC
Found at i:163173 original size:27 final size:27
Alignment explanation
Indices: 163134--163906 Score: 496
Period size: 27 Copynumber: 28.5 Consensus size: 27
163124 TGGCATTCCG
* *
163134 TTTTAAGTCCACAACTCAATGGCTACC
1 TTTTAAGTCCACAACTCCATGGCAACC
* ***
163161 ATTTAAGTCCACAACTTTGTGGCAACC
1 TTTTAAGTCCACAACTCCATGGCAACC
163188 TTTTAAGTCCACAACTCCATGGCAACC
1 TTTTAAGTCCACAACTCCATGGCAACC
** *
163215 TTTTAAGTCCACAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCATGGCAACC
* * *
163242 TTTGAAGTCCACAACTCCGTGGCATGCC
1 TTTTAAGTCCACAACTCCATGGCA-ACC
* * * *
163270 TTTAAAGTTCACAACTCCATGCCACCC
1 TTTTAAGTCCACAACTCCATGGCAACC
* * *
163297 TTTTAAGTCCACAACTTCGTGGC-ACT
1 TTTTAAGTCCACAACTCCATGGCAACC
**
163323 TTCTTAAGTCCACAACTCTGTGGCAACC
1 TT-TTAAGTCCACAACTCCATGGCAACC
* * * ** *
163351 TCTAAAGTCCTCAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCATGGCAACC
* * * **
163378 TTTTCAG-CCATAGCTCTGTGGC-ACC
1 TTTTAAGTCCACAACTCCATGGCAACC
* * *
163403 -CTT---T----AACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCATGGCAACC
* *
163422 TTTTAAGCCCACAACTCCATGGCACCC
1 TTTTAAGTCCACAACTCCATGGCAACC
* * *
163449 CTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCATGGCAACC
* * *
163476 TTTTAAAGTGCACAACTCCGTGGCATCC
1 TTTT-AAGTCCACAACTCCATGGCAACC
** *
163504 TTTTAAAGTCCACAACTCTGTGGCAAAC
1 TTTT-AAGTCCACAACTCCATGGCAACC
* * *
163532 TTTAAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTCCACAACTCCATGGCAACC
* * * * *
163559 TTTAAAGTCCAGAACTCCGTGGTACCC
1 TTTTAAGTCCACAACTCCATGGCAACC
* * *
163586 TTTTAAGTTCACAACTCCGTGGCAGCCC
1 TTTTAAGTCCACAACTCCATGGCA-ACC
* * *
163614 TTTTTAAGTCCATAACTTCGTGGC-ACC
1 -TTTTAAGTCCACAACTCCATGGCAACC
* * *
163641 ATTTTAAAGTCCACAACTTCGTGGCACCC
1 -TTTT-AAGTCCACAACTCCATGGCAACC
* * **
163670 TTTTAAGTCAACAACTCCGTGGCGGCCC
1 TTTTAAGTCCACAACTCCATGGC-AACC
*
163698 ATTTTAAGTCCACAACTCCGTGGC-ACC
1 -TTTTAAGTCCACAACTCCATGGCAACC
** *
163725 TTTTTAAAGTCCACAACTCCACAGCACCC
1 -TTTT-AAGTCCACAACTCCATGGCAACC
* *
163754 TTTTAAAGTCCATAACTCCATGGCACCC
1 TTTT-AAGTCCACAACTCCATGGCAACC
* *
163782 TTTTAAAGTCCATAACTCCATGGCACCC
1 TTTT-AAGTCCACAACTCCATGGCAACC
* **
163810 TTTTAAGTCCACAACTTCGGGGC-ACAC
1 TTTTAAGTCCACAACTCCATGGCAAC-C
* ** * * *
163837 TTTTAAATCTC-CAACTCTGTTGTAGCCC
1 TTTTAAGTC-CACAACTCCATGGCA-ACC
* *
163865 TTTTTAAGTCCACAACTCCGTGGCACCC
1 -TTTTAAGTCCACAACTCCATGGCAACC
*
163893 TTTTAAGTGCACAA
1 TTTTAAGTCCACAA
163907 GTCAGTGGCA
Statistics
Matches: 613, Mismatches: 105, Indels: 56
0.79 0.14 0.07
Matches are distributed among these distances:
18 9 0.01
19 2 0.00
20 2 0.00
24 2 0.00
25 2 0.00
26 16 0.03
27 335 0.55
28 180 0.29
29 65 0.11
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.28
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCATGGCAACC
Found at i:163201 original size:54 final size:53
Alignment explanation
Indices: 163134--163916 Score: 690
Period size: 54 Copynumber: 14.5 Consensus size: 53
163124 TGGCATTCCG
** * ** *
163134 TTTTAAGTCCACAACTCAATGGCTACCATTTAAGTCCACAACTTTGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGC-ACCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
163188 TTTTAAGTCCACAACTCCATGGCAACCTTTTAAGTCCACAACTCTGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGC-ACCTTTTAAGTCCACAACTCCGTGGCACCC
* * * * *
163242 TTTGAAGTCCACAACTCCGTGGCATGCCTTTAAAGTTCACAACTCCATGCCACCC
1 TTTTAAGTCCACAACTCCGTGGCA--CCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
163297 TTTTAAGTCCACAACTTCGTGGCACTTTCTTAAGTCCACAACTCTGTGGCAACC
1 TTTTAAGTCCACAACTCCGTGGCACCTT-TTAAGTCCACAACTCCGTGGCACCC
* * * * * * * *
163351 TCTAAAGTCCTCAACTCTGTGGCATCCTTTTCAG-CCATAGCTCTGTGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCACCC
* *
163404 --TT---T----AACTCCGTGGCACCCTTTTAAGCCCACAACTCCATGGCACCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCACCC
* * *
163449 CTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTGCACAACTCCGTGGCATCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTT-AAGTCCACAACTCCGTGGCACCC
* * *
163504 TTTTAAAGTCCACAACTCTGTGGCAAACTTTAAAGTCCACAACTCCGTGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGC-ACCTTTTAAGTCCACAACTCCGTGGCACCC
* * * *
163559 TTTAAAGTCCAGAACTCCGTGGTACCCTTTTAAGTTCACAACTCCGTGGCAGCCC
1 TTTTAAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCA-CCC
* * *
163614 TTTTTAAGTCCATAACTTCGTGGCACCATTTTAAAGTCCACAACTTCGTGGCACCC
1 -TTTTAAGTCCACAACTCCGTGGCACC-TTTT-AAGTCCACAACTCCGTGGCACCC
* * *
163670 TTTTAAGTCAACAACTCCGTGGCGGCCCATTTTAAGTCCACAACTCCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGC--ACC-TTTTAAGTCCACAACTCCGTGGCACCC
*** * *
163726 TTTTAAAGTCCACAACTCCACAGCACCCTTTTAAAGTCCATAACTCCATGGCACCC
1 TTTT-AAGTCCACAACTCCGTGGCA-CCTTTT-AAGTCCACAACTCCGTGGCACCC
* * * * *
163782 TTTTAAAGTCCATAACTCCATGGCACCCTTTTAAGTCCACAACTTCGGGGCACAC
1 TTTT-AAGTCCACAACTCCGTGGCA-CCTTTTAAGTCCACAACTCCGTGGCACCC
* *
163837 TTTTAAATCTC-CAACTCTGTTGTAGC-CCTTTTTAAGTCCACAACTCCGTGGCACCC
1 TTTTAAGTC-CACAACTCCG-TG--GCACC-TTTTAAGTCCACAACTCCGTGGCACCC
* * *
163893 TTTTAAGTGCACAAGTCAGTGGCA
1 TTTTAAGTCCACAACTCCGTGGCA
163917 TCTCTTCCAA
Statistics
Matches: 599, Mismatches: 96, Indels: 68
0.79 0.13 0.09
Matches are distributed among these distances:
44 19 0.03
45 15 0.03
47 2 0.00
48 1 0.00
50 1 0.00
51 1 0.00
53 23 0.04
54 179 0.30
55 153 0.26
56 162 0.27
57 43 0.07
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.28
Consensus pattern (53 bp):
TTTTAAGTCCACAACTCCGTGGCACCTTTTAAGTCCACAACTCCGTGGCACCC
Found at i:163493 original size:28 final size:28
Alignment explanation
Indices: 163407--163916 Score: 574
Period size: 28 Copynumber: 18.4 Consensus size: 28
163397 GGCACCCTTT
*
163407 AACTCCGTGGCACCCTTTT-AAGCCCAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
* *
163434 AACTCCATGGCACCCCTTT-AAGTCCAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
*
163461 AACTCCGTGGCACCCTTTTAAAGTGCAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
*
163489 AACTCCGTGGCATCCTTTTAAAGTCCAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
* **
163517 AACTCTGTGGCAAAC-TTTAAAGTCCAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
*
163544 AACTCCGTGGCACCC-TTTAAAGTCCAG
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
* *
163571 AACTCCGTGGTACCCTTTT-AAGTTCAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
* *
163598 AACTCCGTGGCAGCCCTTTTTAAGTCCAT
1 AACTCCGTGGCA-CCCTTTTAAAGTCCAC
* *
163627 AACTTCGTGGCACCATTTTAAAGTCCAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
* *
163655 AACTTCGTGGCACCCTTTT-AAGTCAAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
*
163682 AACTCCGTGGCGGCCCATTTT-AAGTCCAC
1 AACTCCGTGGC-ACCC-TTTTAAAGTCCAC
*
163711 AACTCCGTGGCACCTTTTTAAAGTCCAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
*** *
163739 AACTCCACAGCACCCTTTTAAAGTCCAT
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
* *
163767 AACTCCATGGCACCCTTTTAAAGTCCAT
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
*
163795 AACTCCATGGCACCCTTTT-AAGTCCAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
* * *
163822 AACTTCGGGGCACACTTTTAAA-TCTC-C
1 AACTCCGTGGCACCCTTTTAAAGTC-CAC
* * * *
163849 AACTCTGTTGTAGCCCTTTTTAAGTCCAC
1 AACTCCGTGGCA-CCCTTTTAAAGTCCAC
*
163878 AACTCCGTGGCACCCTTTT-AAGTGCAC
1 AACTCCGTGGCACCCTTTTAAAGTCCAC
* *
163905 AAGTCAGTGGCA
1 AACTCCGTGGCA
163917 TCTCTTCCAA
Statistics
Matches: 414, Mismatches: 57, Indels: 24
0.84 0.12 0.05
Matches are distributed among these distances:
27 177 0.43
28 186 0.45
29 51 0.12
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
AACTCCGTGGCACCCTTTTAAAGTCCAC
Found at i:163914 original size:27 final size:27
Alignment explanation
Indices: 163407--163916 Score: 563
Period size: 27 Copynumber: 18.4 Consensus size: 27
163397 GGCACCCTTT
*
163407 AACTCCGTGGCACCCTTTTAAGCCCAC
1 AACTCCGTGGCACCCTTTTAAGTCCAC
* *
163434 AACTCCATGGCACCCCTTTAAGTCCAC
1 AACTCCGTGGCACCCTTTTAAGTCCAC
*
163461 AACTCCGTGGCACCCTTTTAAAGTGCAC
1 AACTCCGTGGCACCCTTTT-AAGTCCAC
*
163489 AACTCCGTGGCATCCTTTTAAAGTCCAC
1 AACTCCGTGGCACCCTTTT-AAGTCCAC
* ** *
163517 AACTCTGTGGCAAACTTTAAAGTCCAC
1 AACTCCGTGGCACCCTTTTAAGTCCAC
* *
163544 AACTCCGTGGCACCCTTTAAAGTCCAG
1 AACTCCGTGGCACCCTTTTAAGTCCAC
* *
163571 AACTCCGTGGTACCCTTTTAAGTTCAC
1 AACTCCGTGGCACCCTTTTAAGTCCAC
*
163598 AACTCCGTGGCAGCCCTTTTTAAGTCCAT
1 AACTCCGTGGCA-CCC-TTTTAAGTCCAC
* *
163627 AACTTCGTGGCACCATTTTAAAGTCCAC
1 AACTCCGTGGCACCCTTTT-AAGTCCAC
* *
163655 AACTTCGTGGCACCCTTTTAAGTCAAC
1 AACTCCGTGGCACCCTTTTAAGTCCAC
*
163682 AACTCCGTGGCGGCCCATTTTAAGTCCAC
1 AACTCCGTGGC-ACCC-TTTTAAGTCCAC
*
163711 AACTCCGTGGCACCTTTTTAAAGTCCAC
1 AACTCCGTGGCACCCTTTT-AAGTCCAC
*** *
163739 AACTCCACAGCACCCTTTTAAAGTCCAT
1 AACTCCGTGGCACCCTTTT-AAGTCCAC
* *
163767 AACTCCATGGCACCCTTTTAAAGTCCAT
1 AACTCCGTGGCACCCTTTT-AAGTCCAC
*
163795 AACTCCATGGCACCCTTTTAAGTCCAC
1 AACTCCGTGGCACCCTTTTAAGTCCAC
* * * *
163822 AACTTCGGGGCACACTTTTAAATCTC-C
1 AACTCCGTGGCACCCTTTTAAGTC-CAC
* * *
163849 AACTCTGTTGTAGCCCTTTTTAAGTCCAC
1 AACTCCGTGGCA-CCC-TTTTAAGTCCAC
*
163878 AACTCCGTGGCACCCTTTTAAGTGCAC
1 AACTCCGTGGCACCCTTTTAAGTCCAC
* *
163905 AAGTCAGTGGCA
1 AACTCCGTGGCA
163917 TCTCTTCCAA
Statistics
Matches: 413, Mismatches: 59, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
27 186 0.45
28 166 0.40
29 61 0.15
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.27
Consensus pattern (27 bp):
AACTCCGTGGCACCCTTTTAAGTCCAC
Found at i:163938 original size:28 final size:28
Alignment explanation
Indices: 163905--164127 Score: 193
Period size: 28 Copynumber: 8.0 Consensus size: 28
163895 TTAAGTGCAC
*
163905 AAGTCAGTGGCATCTCTTCCAAGCCCAT
1 AAGTCAGTGGCATCTCTTCAAAGCCCAT
* * *
163933 AAGTCAATGGCATCTTTTCCAAG-CCAT
1 AAGTCAGTGGCATCTCTTCAAAGCCCAT
* * * *
163960 CAAGTCA-TGGTATCTTTTCAGAGCCCAC
1 -AAGTCAGTGGCATCTCTTCAAAGCCCAT
* * *
163988 AAGTCAGTGGCATCCTTTTCAAAGCCTAC
1 AAGTCAGTGGCAT-CTCTTCAAAGCCCAT
* * * * * *
164017 AAATTATTGGCA-CCCTTTCATAGCCCAC
1 AAGTCAGTGGCATCTC-TTCAAAGCCCAT
* *
164045 AAGTCAGTGGCACCTTTTCAAAGCCCAT
1 AAGTCAGTGGCATCTCTTCAAAGCCCAT
* *
164073 GAGTTAGTGGCATC-CTTTCAAAGCCCAT
1 AAGTCAGTGGCATCTC-TTCAAAGCCCAT
164101 AAGTCAGTGGCATCTCTTCAAAGCCCA
1 AAGTCAGTGGCATCTCTTCAAAGCCCA
164128 CCCAAGTTCG
Statistics
Matches: 158, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
27 24 0.15
28 110 0.70
29 24 0.15
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (28 bp):
AAGTCAGTGGCATCTCTTCAAAGCCCAT
Found at i:164126 original size:56 final size:56
Alignment explanation
Indices: 163905--164127 Score: 227
Period size: 56 Copynumber: 4.0 Consensus size: 56
163895 TTAAGTGCAC
* * * * *
163905 AAGTCAGTGGCAT-CTCTTCCAAGCCCATAAGTCAATGGCATCTTTTCCAAG-CCAT
1 AAGTTAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCAT
* * * * * *
163960 CAAGTCA-TGGTATCTTTTCAGAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCTAC
1 -AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCAT-CTTTTCAAAGCCCAT
* * * * *
164017 AAATTATTGGCACCCTTTCATAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCAT
1 AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCAT
* * *
164073 GAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCTCTTCAAAGCCCA
1 AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCA
164128 CCCAAGTTCG
Statistics
Matches: 137, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
55 26 0.19
56 80 0.58
57 31 0.23
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (56 bp):
AAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCAT
Found at i:164126 original size:84 final size:85
Alignment explanation
Indices: 163902--164161 Score: 244
Period size: 84 Copynumber: 3.0 Consensus size: 85
163892 CTTTTAAGTG
* * * *
163902 CACAAGTCAGTGGCAT-CTCTTCCAAGCCCATAAGTCAATGGCATCTTTTCCAAG-CCATCAAGT
1 CACAAGTCAGTGGCATCCT-TTCAAAGCCCATAAGTCAATGGCATCTCTTCAAAGCCCACCAAGT
* * *
163965 CA-TGGTATCTTTTCAGAGCC
65 CAGTGGCAACTTTTCAAAGCC
* * * * * * *
163985 CACAAGTCAGTGGCATCCTTTTCAAAGCCTACAAATTATTGGCA-CCCTTTCATAGCCCA-CAAG
1 CACAAGTCAGTGGCATCC-TTTCAAAGCCCATAAGTCAATGGCATCTC-TTCAAAGCCCACCAAG
*
164048 TCAGTGGCACCTTTTCAAAGCC
64 TCAGTGGCAACTTTTCAAAGCC
** * *
164070 CATGAGTTAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCTCTTCAAAGCCCACCCAAGT
1 CACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAATGGCATCTCTTCAAAGCCCA-CCAAG-
164135 TC-GTGGCAACTTTCTCTAAAGCC
64 TCAGTGGCAACTTT-TC-AAAGCC
164158 CACA
1 CACA
164162 CAAGTTGGTG
Statistics
Matches: 140, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
83 17 0.12
84 61 0.44
85 36 0.26
86 14 0.10
87 4 0.03
88 8 0.06
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (85 bp):
CACAAGTCAGTGGCATCCTTTCAAAGCCCATAAGTCAATGGCATCTCTTCAAAGCCCACCAAGTC
AGTGGCAACTTTTCAAAGCC
Found at i:174332 original size:22 final size:23
Alignment explanation
Indices: 174304--174349 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
174294 AAATAGTGTT
174304 AACAGTGATGTATCGATAC-ATG
1 AACAGTGATGTATCGATACTATG
174326 AACAGTGATGTATCGATACTATG
1 AACAGTGATGTATCGATACTATG
174349 A
1 A
174350 TGAATAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (23 bp):
AACAGTGATGTATCGATACTATG
Found at i:174426 original size:10 final size:10
Alignment explanation
Indices: 174402--174431 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
174392 GTATCGATAC
174402 ATGAACAGT-
1 ATGAACAGTG
174411 ATGAACAGTG
1 ATGAACAGTG
174421 ATGAACAGTG
1 ATGAACAGTG
174431 A
1 A
174432 AAATGAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.43, C:0.10, G:0.27, T:0.20
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:174476 original size:13 final size:13
Alignment explanation
Indices: 174458--174482 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
174448 CTGCCAGTTT
174458 ATGTATCGATACA
1 ATGTATCGATACA
174471 ATGTATCGATAC
1 ATGTATCGATAC
174483 TAAGCAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:175592 original size:13 final size:13
Alignment explanation
Indices: 175574--175599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
175564 TACAGCAAGT
175574 ATGTATCGATACA
1 ATGTATCGATACA
175587 ATGTATCGATACA
1 ATGTATCGATACA
175600 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:177839 original size:21 final size:21
Alignment explanation
Indices: 177806--177850 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
177796 TTGCAAGTTG
*
177806 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
177828 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
177848 AAA
1 AAA
177851 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:179674 original size:15 final size:15
Alignment explanation
Indices: 179654--179684 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
179644 TAAAAATGTC
*
179654 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
179669 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
179684 C
1 C
179685 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:183750 original size:13 final size:13
Alignment explanation
Indices: 183732--183756 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
183722 CATTTTATGG
183732 TGTATCGATACAA
1 TGTATCGATACAA
183745 TGTATCGATACA
1 TGTATCGATACA
183757 TACTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:183772 original size:32 final size:33
Alignment explanation
Indices: 183709--183776 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
183699 CGTTACAAGC
**
183709 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
*
183742 CAATGTATCGATACATACTGT-GTGTATCGATA
1 CAATGTATCGATACATACTATGGTGTATCGATA
183774 CAA
1 CAA
183777 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (33 bp):
CAATGTATCGATACATACTATGGTGTATCGATA
Found at i:188059 original size:46 final size:46
Alignment explanation
Indices: 187996--188108 Score: 172
Period size: 46 Copynumber: 2.5 Consensus size: 46
187986 AGAATTTGAG
* *
187996 GACTAAATTAGTTATCACCCTGGTCAAACCCTCTTTGTTCTCATTT
1 GACTATATCAGTTATCACCCTGGTCAAACCCTCTTTGTTCTCATTT
* **
188042 GACTATATCAGTTATCACCCTGGTCAAACCCTTTTTGTTCTTGTTT
1 GACTATATCAGTTATCACCCTGGTCAAACCCTCTTTGTTCTCATTT
*
188088 GACTATATCAATTATCACCCT
1 GACTATATCAGTTATCACCCT
188109 AGTGAAATTC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.40
Consensus pattern (46 bp):
GACTATATCAGTTATCACCCTGGTCAAACCCTCTTTGTTCTCATTT
Found at i:190210 original size:13 final size:11
Alignment explanation
Indices: 190196--190235 Score: 50
Period size: 9 Copynumber: 3.9 Consensus size: 11
190186 GAAAAAGTAG
*
190196 AGAGAAAGAAA
1 AGAGAAAAAAA
190207 AGAG-AAAAAA
1 AGAGAAAAAAA
190217 A-AG-AAAAAA
1 AGAGAAAAAAA
190226 AGAGAAAAAA
1 AGAGAAAAAA
190236 TAGAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 9 0.35
10 8 0.31
11 9 0.35
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAGAAAAAAA
Found at i:190221 original size:9 final size:10
Alignment explanation
Indices: 190196--190235 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
190186 GAAAAAGTAG
190196 AGAGAAAGAAA
1 AGAGAAA-AAA
190207 AGAGAAAAAA
1 AGAGAAAAAA
190217 A-AGAAAAAA
1 AGAGAAAAAA
190226 AGAGAAAAAA
1 AGAGAAAAAA
190236 TAGAAAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.32
10 12 0.43
11 7 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AGAGAAAAAA
Found at i:190228 original size:19 final size:19
Alignment explanation
Indices: 190198--190243 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
190188 AAAAGTAGAG
190198 AGAAAGAAAAGAGAAAAAAA
1 AGAAA-AAAAGAGAAAAAAA
*
190218 AGAAAAAAAGAGAAAAAAT
1 AGAAAAAAAGAGAAAAAAA
190237 AGAAAAA
1 AGAAAAA
190244 TTAGTTAGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (19 bp):
AGAAAAAAAGAGAAAAAAA
Found at i:190240 original size:9 final size:9
Alignment explanation
Indices: 190204--190243 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
190194 AGAGAGAAAG
190204 AAAAGAGAA
1 AAAAGAGAA
*
190213 AAAAAAGAAA
1 AAAAGAG-AA
190223 AAAAGAGAA
1 AAAAGAGAA
*
190232 AAAATAGAA
1 AAAAGAGAA
190241 AAA
1 AAA
190244 TTAGTTAGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (9 bp):
AAAAGAGAA
Found at i:195315 original size:13 final size:13
Alignment explanation
Indices: 195297--195323 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
195287 TACATAAATA
195297 ATTGTATCGATAC
1 ATTGTATCGATAC
195310 ATTGTATCGATAC
1 ATTGTATCGATAC
195323 A
1 A
195324 ATTTAAGCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:195384 original size:13 final size:13
Alignment explanation
Indices: 195366--195390 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
195356 ATTACTCAAA
195366 TGTATCGATACAT
1 TGTATCGATACAT
195379 TGTATCGATACA
1 TGTATCGATACA
195391 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:201138 original size:13 final size:13
Alignment explanation
Indices: 201120--201144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
201110 CAAAAAAAAA
201120 TGTATCGATACAT
1 TGTATCGATACAT
201133 TGTATCGATACA
1 TGTATCGATACA
201145 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:201985 original size:67 final size:68
Alignment explanation
Indices: 201863--201989 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 68
201853 ATTGGGTTTT
* *
201863 AAAGATGATGAAGGTGCCAATATGTTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGTTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
201928 AGA
66 AGA
* * * *
201931 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCTAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGTTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
201990 GAAAAAGGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
67 49 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.25
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGTTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:202215 original size:49 final size:49
Alignment explanation
Indices: 202002--202658 Score: 848
Period size: 49 Copynumber: 13.7 Consensus size: 49
201992 AAAAGGATGT
* *
202002 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
202054 CAATATGCTAATTCATGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
** *
202097 CAAGGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
202145 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
202194 CAATGTGCTGAGTCAATGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
202243 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
202292 CAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
202341 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
202390 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TCAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
202433 CAATGTGCTGATTCAAGGCCAGCTACACTGGACTTAGAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
202482 CAATATGCTGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
202531 CAATATGCTGATTCAAGGCTAGCTATATTGGGCTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
202574 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
202623 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
202659 GAAGGGTTGT
Statistics
Matches: 531, Mismatches: 55, Indels: 41
0.85 0.09 0.07
Matches are distributed among these distances:
43 112 0.21
44 1 0.00
45 1 0.00
47 1 0.00
48 48 0.09
49 338 0.64
52 30 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:202489 original size:141 final size:141
Alignment explanation
Indices: 201993--202658 Score: 939
Period size: 141 Copynumber: 4.7 Consensus size: 141
201983 AAGATGAGAA
* *
201993 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
* * **
202058 ATGCTAATTCATGGCCAGCTATATTGGACTT----A--AAGGTGCCAAGGTGCTGATTCAAGGCC
62 ATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCC
*
202117 AGCTACATTGGACTT
127 AGCTATATTGGACTT
202132 AAAGGTGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
1 -AA----AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAA
* * * * *
202197 TGTGCTGAGTCAATGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGC
61 TATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGC
202262 CAGCTATATTGGACTT
126 CAGCTATATTGGACTT
* * *
202278 AATGGTGAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCA
1 -A-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCA
202343 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGG
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGG
*
202408 CCAGCGATATTGGACTT
125 CCAGCTATATTGGACTT
* * *
202425 CAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACACTGGACTTAGAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
202490 TGATTCAAGGCTAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCTAGCT
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
*
202555 ATATTGGGCTT
131 ATATTGGACTT
202566 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
202631 TGATTCAAGGCCAGCTATATTGGGCTTA
66 TGATTCAAGGCCAGCTATATTGGACTTA
202659 GAAGGGTTGT
Statistics
Matches: 474, Mismatches: 37, Indels: 29
0.88 0.07 0.05
Matches are distributed among these distances:
140 38 0.08
141 217 0.46
142 1 0.00
143 42 0.09
144 4 0.01
146 41 0.09
147 130 0.27
151 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (141 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT
ATATTGGACTT
Found at i:202706 original size:33 final size:33
Alignment explanation
Indices: 202658--202778 Score: 174
Period size: 33 Copynumber: 3.7 Consensus size: 33
202648 TATTGGGCTT
*
202658 AGAAGGGTTGTCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
202691 AGAATGGTTGCCACCGACTTTTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
202723 AAAAGGGTTGCCACCGACTTTTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
202756 AAGAA-GGTTGCCACCGACTTGTG
1 -AGAAGGGTTGCCACCGACTTGTG
202779 GACTTAAAAG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 30 0.38
33 46 0.58
34 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.32, T:0.30
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:202923 original size:34 final size:31
Alignment explanation
Indices: 202743--203343 Score: 315
Period size: 34 Copynumber: 19.2 Consensus size: 31
202733 CCACCGACTT
* * *
202743 TTGTGGGCTT-TA-GAAGAAGGTTGCCACCGAC
1 TTGTGGGCTTAAAGGAA-AAGG-TGCCACGGAG
* *
202774 TTGTGGACTTAAAAGGAAAAGAGTGCCACGTAG
1 TTGTGGGCTT-AAAGGAAAAG-GTGCCACGGAG
202807 TTGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAG
1 TTGTGGGC-TTAAAGG--AAAA-GGTGCCACGGAG
* * *
202842 TCGTGGACTT--A--AAAGGGTGCCACGGAG
1 TTGTGGGCTTAAAGGAAAAGGTGCCACGGAG
* * *
202869 TTATAGGCTTAAACG----GGTGCCACGGAG
1 TTGTGGGCTTAAAGGAAAAGGTGCCACGGAG
* *
202896 TTGTGGACTTAGAAGGAAAACGAGTGCCACGAAG
1 TTGTGGGCTTA-AAGGAAAA-G-GTGCCACGGAG
* * *
202930 TTGTGGGCTT-TA--AAAGGGTGCCACGAAG
1 TTGTGGGCTTAAAGGAAAAGGTGCCACGGAG
* ** * * * *
202958 TTGTGGACTTTGATGAGATGGTGCCACTGAG
1 TTGTGGGCTTAAAGGAAAAGGTGCCACGGAG
* *
202989 TTGTGGACTT--A--AAAGGGTGCCACGGAG
1 TTGTGGGCTTAAAGGAAAAGGTGCCACGGAG
203016 TTGTGGGCTTAAACGGGAAAAGAGTGCCACGGAG
1 TTGTGGGCTTAAA--GGAAAAG-GTGCCACGGAG
* *
203050 CTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAG
1 TTGTGGGC-TT--AAAGGAAAAGGTGCCACGGAG
*
203084 TTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAG
1 TTGTGGGC-TT--AAAGGAAAAGGTGCCACGGAG
* * *
203118 TTGTGGACTTAAAGATGAAAAAAGTTCCACGGAG
1 TTGTGGGCTTAAAG--G-AAAAGGTGCCACGGAG
*
203152 TTGTGGGCTT--A-G-AAGGGTGCCACGGAG
1 TTGTGGGCTTAAAGGAAAAGGTGCCACGGAG
* * * *
203179 TAGTAGACTTAAAGATGAAAAAAGTGCCACGGAG
1 TTGTGGGCTTAAAG--G-AAAAGGTGCCACGGAG
*
203213 TTGTGGGCTT--A--AAAGGGTGCCACGGAG
1 TTGTGGGCTTAAAGGAAAAGGTGCCACGGAG
*
203240 TTGTGGGCTTTGAAA--AGAAGGTGCCACGGAG
1 TTGTGGGC-TT-AAAGGAAAAGGTGCCACGGAG
* *
203271 TCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAG
1 TTGTGGGC-TT-AAA-GG-AAAAG-GTGCCACGGAG
203307 TTGTGGGCTTTGAAAGG--AAGGTGCCACGGAG
1 TTGTGGGC-TT-AAAGGAAAAGGTGCCACGGAG
*
203338 TCGTGG
1 TTGTGG
203344 ACTTTGAGCA
Statistics
Matches: 455, Mismatches: 64, Indels: 102
0.73 0.10 0.16
Matches are distributed among these distances:
27 101 0.22
28 28 0.06
29 7 0.02
30 3 0.01
31 78 0.17
32 8 0.02
33 30 0.07
34 139 0.31
35 34 0.07
36 24 0.05
37 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.21
Consensus pattern (31 bp):
TTGTGGGCTTAAAGGAAAAGGTGCCACGGAG
Found at i:202984 original size:31 final size:28
Alignment explanation
Indices: 202825--203021 Score: 152
Period size: 27 Copynumber: 6.8 Consensus size: 28
202815 TTTAAAGGAA
* *
202825 AAAAGGGTGCCACGGAGTCGTGGAC-TT
1 AAAAGGGTGCCACGAAGTTGTGGACTTT
* *
202852 AAAAGGGTGCCACGGAGTTATAGG-C-TT
1 AAAAGGGTGCCACGAAGTTGT-GGACTTT
* * *
202879 AAACGGGTGCCACGGAGTTGTGGACTTAGAAGG
1 AAAAGGGTGCCACGAAGTTGTGGACTT-----T
* *
202912 AAAACGAGTGCCACGAAGTTGTGGGCTTT
1 AAAA-GGGTGCCACGAAGTTGTGGACTTT
202941 AAAAGGGTGCCACGAAGTTGTGGACTTT
1 AAAAGGGTGCCACGAAGTTGTGGACTTT
* *
202969 GATGAGATGGTGCCACTG-AGTTGTGGAC-TT
1 -A--AAAGGGTGCCAC-GAAGTTGTGGACTTT
*
202999 AAAAGGGTGCCACGGAGTTGTGG
1 AAAAGGGTGCCACGAAGTTGTGG
203022 GCTTAAACGG
Statistics
Matches: 140, Mismatches: 16, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
26 3 0.02
27 60 0.43
28 25 0.18
29 6 0.04
30 2 0.01
31 20 0.14
32 1 0.01
33 3 0.02
34 20 0.14
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.22
Consensus pattern (28 bp):
AAAAGGGTGCCACGAAGTTGTGGACTTT
Found at i:203009 original size:120 final size:114
Alignment explanation
Indices: 202759--203064 Score: 326
Period size: 120 Copynumber: 2.5 Consensus size: 114
202749 GCTTTAGAAG
* * * *
202759 AAGGTTGCCACCGACTTGTGGACTTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGA
1 AAGGGTGCCACGGAGTTGTGGACTT-AAAGGAAAAGAGTGCCACGAAGTTGTGGGCTTT------
*
202824 AAAAAGGGTGCCACGGAGTCGTGGACTTAAAAGGGTGCCACGGAGTTATAGGCTTAA
59 -AAAAGGGTGCCACGAAGTCGTGGACTTAAAAGGGTGCCACGGAGTTATAGGCTTAA
*
202881 ACGGGTGCCACGGAGTTGTGGACTTAGAAGGAAAACGAGTGCCACGAAGTTGTGGGCTTTAAAAG
1 AAGGGTGCCACGGAGTTGTGGACTTA-AAGGAAAA-GAGTGCCACGAAGTTGTGGGCTTTAAAAG
* * * * *
202946 GGTGCCACGAAGTTGTGGACTTTGATGAGATGGTGCCACTGAGTTGT-GGACTTAA
64 GGTGCCACGAAGTCGTGGAC-TT-A--AAAGGGTGCCACGGAGTTATAGG-CTTAA
* * *
203001 AAGGGTGCCACGGAGTTGTGGGCTTAAACGGGAAAAGAGTGCCACGGAGCTGTGGGCTTTAAAA
1 AAGGGTGCCACGGAGTTGTGGACTTAAA--GGAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAA
203065 AGAAAAAGGT
Statistics
Matches: 160, Mismatches: 15, Indels: 20
0.82 0.08 0.10
Matches are distributed among these distances:
116 23 0.14
117 2 0.01
118 1 0.01
119 4 0.03
120 71 0.44
121 7 0.04
122 29 0.18
123 23 0.14
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.22
Consensus pattern (114 bp):
AAGGGTGCCACGGAGTTGTGGACTTAAAGGAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAAGGG
TGCCACGAAGTCGTGGACTTAAAAGGGTGCCACGGAGTTATAGGCTTAA
Found at i:203201 original size:61 final size:61
Alignment explanation
Indices: 203101--203240 Score: 235
Period size: 61 Copynumber: 2.3 Consensus size: 61
203091 CTTTAAAAAG
* * * *
203101 AAAAAGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTTCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTAGTAGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
*
203162 AGAAGGGTGCCACGGAGTAGTAGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTAGTAGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
203223 AAAAGGGTGCCACGGAGT
1 AAAAGGGTGCCACGGAGT
203241 TGTGGGCTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
61 73 1.00
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.20
Consensus pattern (61 bp):
AAAAGGGTGCCACGGAGTAGTAGACTTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTT
Found at i:203331 original size:67 final size:67
Alignment explanation
Indices: 203223--203348 Score: 234
Period size: 67 Copynumber: 1.9 Consensus size: 67
203213 TTGTGGGCTT
*
203223 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGG
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGG
203288 GA
66 GA
*
203290 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAGGAAGGTGCCACGGAGTCGTGGACTTT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTT
203349 GAGCAGAGAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.28, C:0.14, G:0.37, T:0.21
Consensus pattern (67 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGG
GA
Found at i:203387 original size:283 final size:279
Alignment explanation
Indices: 202775--203408 Score: 622
Period size: 283 Copynumber: 2.3 Consensus size: 279
202765 GCCACCGACT
* * * * * *
202775 TGTGGAC-TTAAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAAAGGGTGCCACG
1 TGTGGACTTTAAAAAGAAAAG-GTGCCACGGAGTCGTGGACTTTAAAAG-AAAAA-GATGCCACG
* *
202839 GAGTCGTGGACTTAAA-A-G-----GGTGCCACGGAGTTATAGGCTTAAACGGGTGCCACGGAGT
63 GAGTCGTGGACTTAAAGATGAAAAAAGTTCCACGGAGTTATAGGCTTAAACGGGTGCCACGGAGT
* * *
202897 TGTGGACTTAGAAGGAAAACGAGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACGAAGTTGT
128 AGTAGACTTAGAAGGAAAACAAGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACGAAGTTGT
** * * *
202962 GGACTTTGATGAGATGGTGCCACTGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTA
193 GGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTA
203027 AACGGGAAAAGAGTGCCACGGAGC
258 AAC-GG-AAAGAGTGCCACGGAGC
* * * *
203051 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
1 TGTGGACTTTAAAAAG-AAAAGGTGCCACGGAGTCGTGGACTTT-AAAAGAAAAAGATGCCACGG
* * *
203116 AGTTGTGGACTTAAAGATGAAAAAAGTTCCACGGAGTTGTGGGCTTAGAA-GGGTGCCACGGAGT
64 AGTCGTGGACTTAAAGATGAAAAAAGTTCCACGGAGTTATAGGCTTA-AACGGGTGCCACGGAGT
* *
203180 AGTAGACTTA-AAGATGAAAA-AAGTGCCACGGAGTTGTGGGC-TTAAAAGGGTGCCACGGAGTT
128 AGTAGACTTAGAAG--GAAAACAAGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACGAAGTT
*
203242 GTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAG
191 GTGGACTTTGAAAAGAAGGTGCCACGGAGTCGTGGAC-TTAAAA--G-----G-GTGCCACGGAG
203307 TTGTGGGCTTTGAAA-GG-AAG-GTGCCACGGAG-
247 TTGTGGGC-TT-AAACGGAAAGAGTGCCACGGAGC
* ** * * * * * *
203338 TCGTGGACTTTGAGCAG-AGA-TTGCCACTGAGTCGTGGACTTT-GAAGAAAATGATGCCACTGA
1 T-GTGGACTTTAAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTAAAAGAAAAAGATGCCACGGA
203400 GTCGTGGAC
65 GTCGTGGAC
203409 CTTGAGAAAA
Statistics
Matches: 299, Mismatches: 34, Indels: 43
0.80 0.09 0.11
Matches are distributed among these distances:
276 30 0.10
277 34 0.11
278 10 0.03
282 54 0.18
283 90 0.30
284 7 0.02
285 19 0.06
286 2 0.01
287 1 0.00
288 22 0.07
289 3 0.01
290 1 0.00
291 21 0.07
292 2 0.01
293 3 0.01
ACGTcount: A:0.30, C:0.14, G:0.35, T:0.21
Consensus pattern (279 bp):
TGTGGACTTTAAAAAGAAAAGGTGCCACGGAGTCGTGGACTTTAAAAGAAAAAGATGCCACGGAG
TCGTGGACTTAAAGATGAAAAAAGTTCCACGGAGTTATAGGCTTAAACGGGTGCCACGGAGTAGT
AGACTTAGAAGGAAAACAAGTGCCACGAAGTTGTGGGCTTTAAAAGGGTGCCACGAAGTTGTGGA
CTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTAAAAGGGTGCCACGGAGTTGTGGGCTTAAAC
GGAAAGAGTGCCACGGAGC
Found at i:203426 original size:63 final size:63
Alignment explanation
Indices: 203223--203447 Score: 199
Period size: 67 Copynumber: 3.5 Consensus size: 63
203213 TTGTGGGCTT
* * * * *
203223 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAA-AAGAAGGTGCCACGGAGTCGTGGACTTTAAAAG
1 AAAAGAGTGCCACGGAGTCGTGGACTTTGAAGAA-AAGATGCCACGGAGTCGTGGACCTT----G
*
203287 GGA
61 AGA
* * * * *
203290 AAAAGAGTGCCACGGAGTTGTGGGCTTTGAA-AGGAAGGTGCCACGGAGTCGTGGACTTTGAG-
1 AAAAGAGTGCCACGGAGTCGTGGACTTTGAAGA-AAAGATGCCACGGAGTCGTGGACCTTGAGA
* * * * *
203352 CAGAGATTGCCACTGAGTCGTGGACTTTGAAGAAAATGATGCCACTGAGTCGTGGACCTTGAGA
1 AAAAGAGTGCCACGGAGTCGTGGACTTTGAAGAAAA-GATGCCACGGAGTCGTGGACCTTGAGA
*
203416 AAAAG-GTGCCACGGAGTCATGGACTTT-AAGAA
1 AAAAGAGTGCCACGGAGTCGTGGACTTTGAAGAA
203448 GGTATTTGAA
Statistics
Matches: 136, Mismatches: 18, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
62 32 0.24
63 45 0.33
64 3 0.02
67 56 0.41
ACGTcount: A:0.29, C:0.16, G:0.34, T:0.21
Consensus pattern (63 bp):
AAAAGAGTGCCACGGAGTCGTGGACTTTGAAGAAAAGATGCCACGGAGTCGTGGACCTTGAGA
Found at i:203433 original size:31 final size:31
Alignment explanation
Indices: 202743--203447 Score: 307
Period size: 34 Copynumber: 22.5 Consensus size: 31
202733 CCACCGACTT
* * * *
202743 TTGTGGGCTTT-AGAAGAAGGTTGCCACCGAC
1 TTGTGGACTTTGAGAAAAAGG-TGCCACGGAG
** * *
202774 TTGTGGACTTAAAAGGAAAAGAGTGCCACGTAG
1 TTGTGGACTT-TGAGAAAAAG-GTGCCACGGAG
* *
202807 TTGTGGGCTTTAAAGGAAAAAAGGGTGCCACGGAG
1 TTGTGGACTTT-GA-G-AAAAA-GGTGCCACGGAG
* *
202842 TCGTGGAC-TT---AAAAGGGTGCCACGGAG
1 TTGTGGACTTTGAGAAAAAGGTGCCACGGAG
* **
202869 TTATAGG-C-TT---AAACGGGTGCCACGGAG
1 TTGT-GGACTTTGAGAAAAAGGTGCCACGGAG
* * *
202896 TTGTGGACTTAGAAGGAAAACGAGTGCCACGAAG
1 TTGTGGACTTTG-A-GAAAAAG-GTGCCACGGAG
* * *
202930 TTGTGGGCTTT---AAAAGGGTGCCACGAAG
1 TTGTGGACTTTGAGAAAAAGGTGCCACGGAG
* * *
202958 TTGTGGACTTTGATG-AGATGGTGCCACTGAG
1 TTGTGGACTTTGA-GAAAAAGGTGCCACGGAG
*
202989 TTGTGGAC-TT---AAAAGGGTGCCACGGAG
1 TTGTGGACTTTGAGAAAAAGGTGCCACGGAG
* ** *
203016 TTGTGGGCTTAAACGGGAAAAGAGTGCCACGGAG
1 TTGTGGACTTTGA--GAAAAAG-GTGCCACGGAG
* * *
203050 CTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAG
1 TTGTGGACTTT---GAGAAAAAGGTGCCACGGAG
* *
203084 TTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAG
1 TTGTGGACTTT---GAGAAAAAGGTGCCACGGAG
* * *
203118 TTGTGGACTTAAAGATGAAAAAAGTTCCACGGAG
1 TTGTGGACTT--TGA-GAAAAAGGTGCCACGGAG
* *
203152 TTGTGGGC-TT-AG--AAGGGTGCCACGGAG
1 TTGTGGACTTTGAGAAAAAGGTGCCACGGAG
* * * *
203179 TAGTAGACTTAAAGATGAAAAAAGTGCCACGGAG
1 TTGTGGACTT--TGA-GAAAAAGGTGCCACGGAG
* *
203213 TTGTGGGC-TT---AAAAGGGTGCCACGGAG
1 TTGTGGACTTTGAGAAAAAGGTGCCACGGAG
*
203240 TTGTGGGCTTTGA-AAAGAAGGTGCCACGGAG
1 TTGTGGACTTTGAGAAA-AAGGTGCCACGGAG
* *
203271 TCGTGGACTTTAAAAGGGAAAAAGAGTGCCACGGAG
1 TTGTGGACTTT----GAGAAAAAG-GTGCCACGGAG
* *
203307 TTGTGGGCTTTGA-AAGGAAGGTGCCACGGAG
1 TTGTGGACTTTGAGAA-AAAGGTGCCACGGAG
* * * * *
203338 TCGTGGACTTTGAG-CAGAGATTGCCACTGAG
1 TTGTGGACTTTGAGAAAAAG-GTGCCACGGAG
* * * *
203369 TCGTGGACTTTGAAGAAAATGATGCCACTGAG
1 TTGTGGACTTTG-AGAAAAAGGTGCCACGGAG
* *
203401 TCGTGGACCTTGAGAAAAAGGTGCCACGGAG
1 TTGTGGACTTTGAGAAAAAGGTGCCACGGAG
** *
203432 TCATGGACTTTAAGAA
1 TTGTGGACTTTGAGAA
203448 GGTATTTGAA
Statistics
Matches: 529, Mismatches: 89, Indels: 112
0.72 0.12 0.15
Matches are distributed among these distances:
26 2 0.00
27 97 0.18
28 32 0.06
29 6 0.01
30 8 0.02
31 126 0.24
32 28 0.05
33 37 0.07
34 137 0.26
35 30 0.06
36 24 0.05
37 2 0.00
ACGTcount: A:0.30, C:0.15, G:0.34, T:0.22
Consensus pattern (31 bp):
TTGTGGACTTTGAGAAAAAGGTGCCACGGAG
Found at i:211693 original size:52 final size:52
Alignment explanation
Indices: 211608--211732 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
211598 ATATGAAAAG
* *
211608 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
211660 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
211712 TTGCCTACATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
211733 AAGATCAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:211743 original size:52 final size:52
Alignment explanation
Indices: 211615--211752 Score: 190
Period size: 52 Copynumber: 2.7 Consensus size: 52
211605 AAGTTGCTTG
* * *
211615 CATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCCTG
1 CATGTATCGATACA-TAAGATAATGTATCGATACATCTGGGCAAATTTGCCTA
***
211667 CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCCTA
1 CATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTGCCTA
211719 CATGTATCGATACA-AAGATCAATGTATCGATACA
1 CATGTATCGATACATAAGAT-AATGTATCGATACA
211753 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (52 bp):
CATGTATCGATACATAAGATAATGTATCGATACATCTGGGCAAATTTGCCTA
Found at i:211756 original size:13 final size:13
Alignment explanation
Indices: 211738--211765 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
211728 ATACAAAGAT
211738 CAATGTATCGATA
1 CAATGTATCGATA
211751 CAATGTATCGATA
1 CAATGTATCGATA
211764 CA
1 CA
211766 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:222584 original size:21 final size:21
Alignment explanation
Indices: 222558--222633 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
222548 CTGCCAAGAA
* *
222558 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTATTTC
****
222579 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTATTTC
*
222599 ATGTATCGATACATCAATTTC
1 ATGTATCGATACATCTATTTC
222620 ATGTATCGATACAT
1 ATGTATCGATACAT
222634 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATCTATTTC
Found at i:222604 original size:20 final size:20
Alignment explanation
Indices: 222579--222651 Score: 105
Period size: 20 Copynumber: 3.6 Consensus size: 20
222569 CATCTTTTTT
222579 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
222599 ATGTATCGATACA-T-CAATTTC
1 ATGTATCGATACATTGCAA---C
222620 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
222640 ATGTATCGATAC
1 ATGTATCGATAC
222652 TTTGAATTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 10
0.83 0.00 0.17
Matches are distributed among these distances:
18 3 0.06
19 1 0.02
20 26 0.54
21 14 0.29
22 1 0.02
23 3 0.06
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:222624 original size:41 final size:41
Alignment explanation
Indices: 222558--222651 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
222548 CTGCCAAGAA
** *
222558 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCAATTTCATGTATCGATACATTGCAAC
222599 ATGTATCGATACATCAATTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCAATTTCATGTATCGATACATTGCAAC
222640 ATGTATCGATAC
1 ATGTATCGATAC
222652 TTTGAATTGT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (41 bp):
ATGTATCGATACATCAATTTCATGTATCGATACATTGCAAC
Found at i:225123 original size:13 final size:13
Alignment explanation
Indices: 225105--225142 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
225095 ATAATCACCC
225105 TGTATCGATACAG
1 TGTATCGATACAG
*
225118 TGTATCGATACAT
1 TGTATCGATACAG
225131 TGTATCGATACA
1 TGTATCGATACA
225143 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:225156 original size:20 final size:20
Alignment explanation
Indices: 225131--225207 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
225121 ATCGATACAT
225131 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
225151 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
*
225176 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
225196 TGTATCGATACA
1 TGTATCGATACA
225208 TTTTGGACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 30 0.64
25 16 0.34
26 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:229090 original size:21 final size:21
Alignment explanation
Indices: 229061--229105 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
229051 AAGTTTTCAT
*
229061 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
229081 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
229103 TTT
1 TTT
229106 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:231340 original size:13 final size:13
Alignment explanation
Indices: 231322--231347 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
231312 CAATTTTTTG
231322 TGTATCGATACAT
1 TGTATCGATACAT
231335 TGTATCGATACAT
1 TGTATCGATACAT
231348 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:231459 original size:20 final size:21
Alignment explanation
Indices: 231405--231461 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
231395 TACATCTTTT
*
231405 TTATGTATCGATACATTGCAA
1 TTATGTATCGATACTTTGCAA
*
231426 -CATGTATCGATACTTTG-AA
1 TTATGTATCGATACTTTGCAA
231445 TTATGTATCGATACTTT
1 TTATGTATCGATACTTT
231462 TAAGGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.94
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (21 bp):
TTATGTATCGATACTTTGCAA
Found at i:234739 original size:81 final size:81
Alignment explanation
Indices: 234597--234880 Score: 239
Period size: 81 Copynumber: 3.4 Consensus size: 81
234587 GACAAATTCG
* * ** * *
234597 ACAAGTCAATAGATGAGAAAGATTAAATTGAGACAAAACCTATAAGTCCACTAAGAGTGAATCGT
1 ACAAGTCAACAGATGAGAAAG-GTCGATAGAGACAAAACCTATAAGTCAACTAAGAGTGAATCGT
*
234662 TGACTAGGACACAACCA
65 TGACTAGGACAAAACCA
* * * * * *
234679 ACAAGTCAATAGATGA-AAAGGGTCGACTAG-GACAAAATCTGTAAGTTAACTAAGATTGAATCA
1 ACAAGTCAACAGATGAGAAA-GGTCGA-TAGAGACAAAACCTATAAGTCAACTAAGAGTGAATCG
* * ***
234742 TTGACTTGGATAAAATTG
64 TTGACTAGGACAAAACCA
* * * *
234760 ACAAGTCAACAGATGAGAAAGGTTGATTGAGACAAAACCTACAAGTCAACTAAGAGTGAATGGTT
1 ACAAGTCAACAGATGAGAAAGGTCGATAGAGACAAAACCTATAAGTCAACTAAGAGTGAATCGTT
* ***
234825 GACTAGGTAGGATAAAATTG
66 GAC----TAGGACAAAACCA
* *
234845 ACAAGTCAATAGATGAGAAAGGTCGATCGAGACAAA
1 ACAAGTCAACAGATGAGAAAGGTCGATAGAGACAAA
234881 CTTACAAGTT
Statistics
Matches: 164, Mismatches: 30, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
80 2 0.01
81 95 0.58
82 22 0.13
85 45 0.27
ACGTcount: A:0.44, C:0.13, G:0.22, T:0.21
Consensus pattern (81 bp):
ACAAGTCAACAGATGAGAAAGGTCGATAGAGACAAAACCTATAAGTCAACTAAGAGTGAATCGTT
GACTAGGACAAAACCA
Found at i:235641 original size:77 final size:76
Alignment explanation
Indices: 235358--235645 Score: 278
Period size: 77 Copynumber: 3.8 Consensus size: 76
235348 GTTGAAAAAT
* * ** ** * *
235358 AAGAACATAATTAGGAAATATGTGGTTTTTTCAATTT-CCATCAATGGCCAAAACAAATTGATAA
1 AAGAACATAA-TAGG-AATATGTGATTTCTAAAATTTCCCATCAACAGCTAAAACAAACTGATAA
235422 CAAGCTAAAGTAG
64 CAAGCTAAAGTAG
* * * * * *
235435 AAGACCATAATAGGAATATGTGA-TTCTACAATTTCCCATCAACA-ATCAAGACAAATTGATAAT
1 AAGAACATAATAGGAATATGTGATTTCTAAAATTTCCCATCAACAGCT-AAAACAAACTGATAAC
235498 AAGCTAAAGTAG
65 AAGCTAAAGTAG
* * **
235510 AAGAACACAATAAGGAATATGTGGTTTCTAAAATTTCCTTTCAACAG-TAGAAACAAACTGATAA
1 AAGAACATAAT-AGGAATATGTGATTTCTAAAATTTCCCATCAACAGCTA-AAACAAACTGATAA
* * *
235574 CAAGATAAAGAAA
64 CAAGCTAAAGTAG
* * *
235587 AAGAACGTGATAGGGAATATGTGATTTCTAAAATTTCCCATCAATAGCTAAAACAAACT
1 AAGAACATAATA-GGAATATGTGATTTCTAAAATTTCCCATCAACAGCTAAAACAAACT
235646 AACAAGAATG
Statistics
Matches: 174, Mismatches: 29, Indels: 16
0.79 0.13 0.07
Matches are distributed among these distances:
74 9 0.05
75 50 0.29
76 17 0.10
77 96 0.55
78 2 0.01
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.26
Consensus pattern (76 bp):
AAGAACATAATAGGAATATGTGATTTCTAAAATTTCCCATCAACAGCTAAAACAAACTGATAACA
AGCTAAAGTAG
Found at i:236132 original size:47 final size:48
Alignment explanation
Indices: 236032--236139 Score: 173
Period size: 47 Copynumber: 2.3 Consensus size: 48
236022 TTTGCCTCCA
*
236032 TGTATCGATACAAAGTCCTAATAGTAAAAATTTTAAATCTCTACAATT
1 TGTATCGATACAAAGTCCCAATAGTAAAAATTTTAAATCTCTACAATT
* * *
236080 TGTATCGATACAAGGTCCCAATAGTAAGAA-TTTAAATTTCTACAATT
1 TGTATCGATACAAAGTCCCAATAGTAAAAATTTTAAATCTCTACAATT
236127 TGTATCGATACAA
1 TGTATCGATACAA
236140 TAAGTTAATG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
47 29 0.52
48 27 0.48
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (48 bp):
TGTATCGATACAAAGTCCCAATAGTAAAAATTTTAAATCTCTACAATT
Found at i:236169 original size:20 final size:20
Alignment explanation
Indices: 236127--236180 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
236117 TTCTACAATT
**
236127 TGTATCGATACAATAAGTTAA
1 TGTATCGATAC-ATAAGCGAA
*
236148 TGTATAGATACATAAGCGAA
1 TGTATCGATACATAAGCGAA
236168 TGTATCGATACAT
1 TGTATCGATACAT
236181 GCTTTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGCGAA
Found at i:236329 original size:20 final size:20
Alignment explanation
Indices: 236257--236330 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
236247 TACATAAGTA
* * *
236257 AATGTATTGATACATGCTCGC
1 AATGTATCGATACATTCT-TC
* *
236278 AATGTATCAATACATTTTTC
1 AATGTATCGATACATTCTTC
*
236298 ATTGTATCGATACATTCTTC
1 AATGTATCGATACATTCTTC
*
236318 AATGTATGGATAC
1 AATGTATCGATAC
236331 GTGTAGGCAA
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
20 29 0.67
21 14 0.33
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:236908 original size:58 final size:58
Alignment explanation
Indices: 236839--236953 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 58
236829 TTTTCAGCCA
*
236839 CTACACAACTCCAATCCACCTCTCCTCGTACCATAACCCAAATAACCCCTTTTTGACT
1 CTACACAACTCCAATCCACCTCTCCTCATACCATAACCCAAATAACCCCTTTTTGACT
**
236897 CTACACAACTCCAATCCACCTCTCCTCATACCATAACCCAAATAACCTTTTTTTGAC
1 CTACACAACTCCAATCCACCTCTCCTCATACCATAACCCAAATAACCCCTTTTTGAC
236954 CCTTTTTCCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.30, C:0.40, G:0.03, T:0.27
Consensus pattern (58 bp):
CTACACAACTCCAATCCACCTCTCCTCATACCATAACCCAAATAACCCCTTTTTGACT
Found at i:238980 original size:97 final size:97
Alignment explanation
Indices: 238740--238981 Score: 253
Period size: 97 Copynumber: 2.5 Consensus size: 97
238730 TAATTTTTGG
* * * * * *
238740 TTAAAAATAGGG-TTAAAGTATCCCTTGA-AAGAATAGGGTTAGAGTGTCCTCGACA--ATGATA
1 TTAAAAA-AGGGATTAGAGTATTCCTTTAGAAGAATAAGGTTAGAGTAT-CTCCA-ATGATGATA
* * *
238801 ATTTAGGCAAAAACAAGATTTAAATCTTGACAAGT
63 ATTTAGGAAAAAACAAGATTTAAATCTTCACAAGA
* * **
238836 TTAAAAATGGGATTGGAGTATTCCTTTAGAAGAATGGGGTTAGAGTATCTCCAATGATGATAATT
1 TTAAAAAAGGGATTAGAGTATTCCTTTAGAAGAATAAGGTTAGAGTATCTCCAATGATGATAATT
*
238901 TAGGAAAAAATAAGATTTAAATCTTCACAAGA
66 TAGGAAAAAACAAGATTTAAATCTTCACAAGA
* *
238933 TTAAAAAAGGGGTTAGAGTA-TCCTCTTGGAAGAATAAGGTT-GAAGTATC
1 TTAAAAAAGGGATTAGAGTATTCCT-TTAGAAGAATAAGGTTAG-AGTATC
238982 CTCGATAAAT
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
95 4 0.03
96 28 0.23
97 90 0.74
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (97 bp):
TTAAAAAAGGGATTAGAGTATTCCTTTAGAAGAATAAGGTTAGAGTATCTCCAATGATGATAATT
TAGGAAAAAACAAGATTTAAATCTTCACAAGA
Found at i:240331 original size:12 final size:12
Alignment explanation
Indices: 240314--240347 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
240304 ATGCTAGAAA
240314 TTTTATGACATG
1 TTTTATGACATG
240326 TTTTATGACATG
1 TTTTATGACATG
**
240338 GGTTATGACA
1 TTTTATGACA
240348 AAGATATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.21, T:0.44
Consensus pattern (12 bp):
TTTTATGACATG
Found at i:241471 original size:52 final size:52
Alignment explanation
Indices: 241350--241476 Score: 175
Period size: 52 Copynumber: 2.4 Consensus size: 52
241340 TAACTAGATG
* *
241350 TATCGATACATTGAAGAATGTATCGATACATTTGGGTCAAAAACCCAAAATA
1 TATCGATACAATGAAGAATGTATCAATACATTTGGGTCAAAAACCCAAAATA
* * * *
241402 TATCAATATAATGAAGAATGTATCAATACATTTGGGTCAAAAACCCAGAATG
1 TATCGATACAATGAAGAATGTATCAATACATTTGGGTCAAAAACCCAAAATA
*
241454 TA-CTGATACAATAAAGAATGTAT
1 TATC-GATACAATGAAGAATGTAT
241477 TGATACTTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
51 1 0.02
52 64 0.98
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (52 bp):
TATCGATACAATGAAGAATGTATCAATACATTTGGGTCAAAAACCCAAAATA
Found at i:246464 original size:29 final size:29
Alignment explanation
Indices: 246421--246488 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
246411 AGTAAAGTAA
* *
246421 CCTTCTCAAATTCCATGACTCAAG-GGCAT
1 CCTTTTCAAAGTCCATGACTC-AGTGGCAT
*
246450 CCTTTTCAAAGTCCATGACTCTGTGGCAT
1 CCTTTTCAAAGTCCATGACTCAGTGGCAT
*
246479 TCTTTTCAAA
1 CCTTTTCAAA
246489 TTCAATGGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 1 0.03
29 33 0.97
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (29 bp):
CCTTTTCAAAGTCCATGACTCAGTGGCAT
Found at i:250061 original size:28 final size:29
Alignment explanation
Indices: 250020--250083 Score: 85
Period size: 28 Copynumber: 2.2 Consensus size: 29
250010 CGACATAAAT
* * *
250020 CCATTTCAAAGTCCATAACTTCGTGGCAC
1 CCATTTCAAAGTCCACAACTTAGAGGCAC
*
250049 CCATTT-AAAGTCCACAATTTAGAGGCAC
1 CCATTTCAAAGTCCACAACTTAGAGGCAC
250077 CCATTTC
1 CCATTTC
250084 CTTTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 24 0.80
29 6 0.20
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (29 bp):
CCATTTCAAAGTCCACAACTTAGAGGCAC
Found at i:250286 original size:66 final size:67
Alignment explanation
Indices: 250080--250730 Score: 484
Period size: 70 Copynumber: 9.7 Consensus size: 67
250070 GAGGCACCCA
* * *
250080 TTTCCTTTTAAAAAGCTCACGCAAGTTGGTGGCACTCCTTTTTAGTCCTC-AAAGAGCAAGATGC
1 TTTCCTTTT-AAAAGCCCACACAAGTTGGTGGCA--CC-TTTTAGTCCTCAAAAGAACAAGA--C
*
250144 CTTTTT-T
60 GTTTTTCT
* * * * ** * * *
250151 TTTCTTTTTAAAAGGCCATATAAGTTGGTGGCACCTTTTAGTCCTC-AAAGAGTAGGATGCCTTT
1 TTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGAACAAGACG-TTTT
*
250215 CCT
65 TCT
*
250218 TTTCCTTTTAAAA-CCCACACAAGTTGGTGGCACCTTTAAGTCCTCAAAAGAACAAGACGTTTTT
1 TTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGAACAAGACGTTTTT
250282 CT
66 CT
** * * * * * * *
250284 TTTTTTTTTAAAA-CCCACAAAAGTTGGTAGCACCTTTTGGTCCT-TAAAGAGCAGGACACTTTT
1 TTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGAACAAGAC-GTTTT
250347 TC-
65 TCT
* * * * *
250349 ---CTTTTTAAAAGCCCACACAAGTTGGTCGCACCTTTTAGTCCTCAAAA-AGA-AGGATGCTTT
1 TTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGA-ACAAGACGTTTT
250409 TCT
65 TCT
* ** * * *
250412 TTTTCTTTT-AAAGCCCATGCAAGTTGGTGGCACCTTTTAGTCCTCAAAA-AGCAGGACGCTTTT
1 TTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGAACAAGACGTTTTT
250475 CT
66 CT
* * * * * ** *
250477 TTTTCTTTT-AAAGCCCACACAAGCTAGTAGTACCTTTTAGTCCTC-----AACAAGTA-GGATG
1 TTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGAACAAG-ACGTTTT
*
250535 CCT
65 TCT
*
250538 TTTCCTTTTTAAAAGGCCACACAAGTTGGTGGCACCTTTTAGTCCTC-AAAGAACAAGACGTCTG
1 TTTCC-TTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGAACAAGACG--T-
250602 TTTTCTT
62 TTTTC-T
* * *
250609 TTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAA-AAAAAGACCTCTTT
1 TTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGAACAAGA---CGTT
250673 TTTCTT
63 TTTC-T
* * *
250679 TTTCTTTTTAAAGGCTCACACAAGTTGGTGGCACTTCTTTTTAGTCCTCAAA
1 TTTCCTTTTAAAAGCCCACACAAGTTGGTGGCAC--C-TTTTAGTCCTCAAA
250731 GAGGAGAACT
Statistics
Matches: 470, Mismatches: 79, Indels: 60
0.77 0.13 0.10
Matches are distributed among these distances:
61 12 0.03
62 19 0.04
63 64 0.14
64 3 0.01
65 99 0.21
66 85 0.18
67 49 0.10
68 2 0.00
70 104 0.22
71 18 0.04
73 15 0.03
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.35
Consensus pattern (67 bp):
TTTCCTTTTAAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGAACAAGACGTTTTT
CT
Found at i:250437 original size:65 final size:65
Alignment explanation
Indices: 250091--250730 Score: 544
Period size: 65 Copynumber: 9.6 Consensus size: 65
250081 TTCCTTTTAA
* * *
250091 AAAGCTCACGCAAGTTGGTGGCACTCCTTTTTAGTCCTCAAAGAGCAA-GATGCCTTTT-TTTTT
1 AAAGCCCACACAAGTTGGTGGCA--CC-TTTTAGTCCTCAAAAAG-AAGGATG-CTTTTCTTTTT
250154 CTTTTT
61 C-TTTT
* * * * * * *
250160 AAAAGGCCATATAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCTTTCCTTTTCCTT
1 -AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGAAGGATG-CTTTTCTTTTTCTT
250225 TT
64 TT
* * * * * *
250227 AAAACCCACACAAGTTGGTGGCACCTTTAAGTCCTC-AAAAGAACAAGACGTTTTTCTTTTTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAG-A-AGGATGCTTTTCTTTTTCTT
250291 TT
64 TT
* * * * * * * ** ** *
250293 AAAACCCACAAAAGTTGGTAGCACCTTTTGGTCCTTAAAGAGCAGGACACTTTT-TCCTT-TTTA
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGAAGGATGCTTTTCTTTTTCTTTT
*
250356 AAAGCCCACACAAGTTGGTCGCACCTTTTAGTCCTCAAAAAGAAGGATGCTTTTCTTTTTCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGAAGGATGCTTTTCTTTTTCTTTT
** * *
250421 AAAGCCCATGCAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGCAGGACGCTTTTCTTTTTCTTTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGAAGGATGCTTTTCTTTTTCTTTT
* * * * * * *
250486 AAAGCCCACACAAGCTAGTAGTACCTTTTAGTCCTCAACAAGTAGGATGCCTTTTC--CTT-TTT
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGAAGGATG-CTTTTCTTTTTCTTT
*
250548 A
65 T
* * *
250549 AAAGGCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAACAA-GACGTCTGTTTTCTTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAA-AAGAAGGATG-C--TTTTCTTTTT-
250613 CTTTT
61 CTTTT
* * *
250618 AAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAAAAAAAGACCT-CTTTTTTCTTTTT
1 -AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGAAGGA--TGC--TTTTCTTTTT
250682 CTTTTT
61 C-TTTT
*
250688 AAAGGCTCACACAAGTTGGTGGCACTTCTTTTTAGTCCTCAAA
1 AAA-GCCCACACAAGTTGGTGGCAC--C-TTTTAGTCCTCAAA
250731 GAGGAGAACT
Statistics
Matches: 465, Mismatches: 81, Indels: 45
0.79 0.14 0.08
Matches are distributed among these distances:
63 88 0.19
64 11 0.02
65 120 0.26
66 81 0.17
67 40 0.09
68 7 0.02
69 11 0.02
70 93 0.20
73 14 0.03
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (65 bp):
AAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAAAGAAGGATGCTTTTCTTTTTCTTTT
Found at i:251313 original size:20 final size:21
Alignment explanation
Indices: 251269--251315 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
251259 TTCTACAATT
*
251269 TGTATCGATACAGATAGTGAA
1 TGTATCGATACAGATAGTAAA
*
251290 TGTATCGATACATA-AGTAAA
1 TGTATCGATACAGATAGTAAA
251310 TGTATC
1 TGTATC
251316 AGTACATGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (21 bp):
TGTATCGATACAGATAGTAAA
Found at i:251482 original size:51 final size:51
Alignment explanation
Indices: 251427--251591 Score: 134
Period size: 52 Copynumber: 3.2 Consensus size: 51
251417 ATGAATAATG
* * *
251427 TATCGATACATT-TGGATCAAAACCTATAATGTATCGATACATTTTTTATTA
1 TATCGATACATTCTGGATCAAAACCCA-AATGTATCGATACATTATTCATTA
* * *** * *
251478 TATCGATACGTTCTGGGTTTTAACCCAACTGTATCGATACATTATTCATTG
1 TATCGATACATTCTGGATCAAAACCCAAATGTATCGATACATTATTCATTA
* **** * * * *
251529 TATCGATACATTCTGGGTTTTTGACCCAAATGTATCGATACATTCTTTAATG
1 TATCGATACATTCT-GGATCAAAACCCAAATGTATCGATACATTATTCATTA
251581 TATCGATACAT
1 TATCGATACAT
251592 GCAGACAATT
Statistics
Matches: 95, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
51 44 0.46
52 51 0.54
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (51 bp):
TATCGATACATTCTGGATCAAAACCCAAATGTATCGATACATTATTCATTA
Found at i:251572 original size:52 final size:51
Alignment explanation
Indices: 251454--251591 Score: 195
Period size: 52 Copynumber: 2.7 Consensus size: 51
251444 CAAAACCTAT
* * *
251454 AATGTATCGATACATTTTTTATTATATCGATACGTTCTGGGTTTTAACCCA
1 AATGTATCGATACATTATTTATTGTATCGATACATTCTGGGTTTTAACCCA
* * *
251505 ACTGTATCGATACATTATTCATTGTATCGATACATTCTGGGTTTTTGACCCA
1 AATGTATCGATACATTATTTATTGTATCGATACATTCTGGG-TTTTAACCCA
* *
251557 AATGTATCGATACATTCTTTAATGTATCGATACAT
1 AATGTATCGATACATTATTTATTGTATCGATACAT
251592 GCAGACAATT
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
51 36 0.47
52 40 0.53
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (51 bp):
AATGTATCGATACATTATTTATTGTATCGATACATTCTGGGTTTTAACCCA
Found at i:255095 original size:22 final size:22
Alignment explanation
Indices: 255050--255126 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
255040 AGAACCCATA
*
255050 ATGTATCGATACAA-TG-ACA-A
1 ATGTATCGATACAATTGTA-AGC
* *
255070 ATGTATTGATATAATTGTAAGC
1 ATGTATCGATACAATTGTAAGC
255092 ATGTATCGATACAATTGTAAGC
1 ATGTATCGATACAATTGTAAGC
255114 ATGTATCGATACA
1 ATGTATCGATACA
255127 TTGACTAGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
20 12 0.24
21 3 0.06
22 34 0.69
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (22 bp):
ATGTATCGATACAATTGTAAGC
Found at i:255934 original size:31 final size:31
Alignment explanation
Indices: 255896--255976 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
255886 ACTTAAGTGG
* *
255896 ACCAACTCGTGTGGGCTTTGACTCGGGTGTC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
255927 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
1 ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
*
255958 ACCAACTCGTGTAGGCTTT
1 ACCAACTCGTGTGGGCTTT
255977 AACATTCTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (31 bp):
ACCAACTCGTGTGGGCTTTGACTAGGGTGCC
Found at i:256070 original size:87 final size:87
Alignment explanation
Indices: 255952--256113 Score: 263
Period size: 87 Copynumber: 1.9 Consensus size: 87
255942 CTTTGACTAG
* *
255952 GGTGCCACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACTTCCTTCA-ACAAGTGTCAACT
1 GGTGCCACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCTCCTT-AGACAAGTGCCAACT
*
256016 AATGTGGACTTGACTAAAACTTA
65 AAAGTGGACTTGACTAAAACTTA
* *
256039 GGTGCCACCAACTTGTGTGGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTA
1 GGTGCCACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTA
256104 AAGTGGACTT
66 AAGTGGACTT
256114 TAGAAGAGGA
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
86 1 0.01
87 68 0.99
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (87 bp):
GGTGCCACCAACTCGTGTAGGCTTTAACATTCTAAGGCTTAACCTCCTTAGACAAGTGCCAACTA
AAGTGGACTTGACTAAAACTTA
Found at i:256362 original size:43 final size:43
Alignment explanation
Indices: 256140--256630 Score: 277
Period size: 43 Copynumber: 11.8 Consensus size: 43
256130 AGAAGGGGGT
* * * * *
256140 GTCCTACTATTTGAGGACAAAGG-TAAAATGAGAATGAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATGC
* * * *
256182 GTCCTACTCTTTGAGGAC-AA--AAAAAATG-AAATGAATTGG
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATGC
** * * * *
256221 GTCCTTTTCCTTGAGGACAAAAGAAAAAGGGAAAAAGGAAAAT--
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGG-AAAATG-AAATGC
* * * *
256264 GTCTTGCTCCTTGAGGACACAGGGAAAAAA-G--AATAAAATGC
1 GTCCTGCTCTTTGAGGACA-AAGGAAAAAAGGAAAATGAAATGC
* *
256305 GTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATGG
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATGC
* *
256348 GTCCTGCTCCTTGAGGACAAAGG-----A-GAAAAGGAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATGC
* * *
256385 GTCTTGCTCTTTGAGGACTAAA--AACTGAAAAAG-AAATAAAATGC
1 GTCCTGCTCTTTGAGGAC-AAAGGAA---AAAAGGAAAATGAAATGC
* * * *
256429 ATCATGCTCTTTGAGGACAAAAGAGAAAAGG-AAAT-AAAGTGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAA-TGC
* * * *
256471 GTCCTACTCTTTAAGGATAAAGGAAAAAAGGAAAATGATATAG-
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAAT-GC
* * *
256514 GTCCTGCTCCTTGAGGAC-----AAAAGA-GAAAAGGAAATGC
1 GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATGC
* * **
256551 GTCATGCACTTTGAGGACTAAAAGGTGAAAAGG-AAAT-AAACTGC
1 GTCCTGCTCTTTGAGGAC--AAAGGAAAAAAGGAAAATGAAA-TGC
256595 GTCCTGCTCTTTGAGGACAAAGGGAAAAGAAGGAAA
1 GTCCTGCTCTTTGAGGACAAA-GGAAAA-AAGGAAA
256631 TCGTCCTACT
Statistics
Matches: 343, Mismatches: 64, Indels: 81
0.70 0.13 0.17
Matches are distributed among these distances:
36 1 0.00
37 51 0.15
38 9 0.03
39 27 0.08
40 19 0.06
41 22 0.06
42 62 0.18
43 75 0.22
44 69 0.20
45 8 0.02
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (43 bp):
GTCCTGCTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAATGC
Found at i:256365 original size:127 final size:125
Alignment explanation
Indices: 256150--256378 Score: 327
Period size: 127 Copynumber: 1.8 Consensus size: 125
256140 GTCCTACTAT
* * * *
256150 TTGAGGACAAAGGTAAAATGAGAATGAAATGCGTCCTACTCTTTGAGGACAAAAAAAATGAAATG
1 TTGAGGACAAAGGGAAAATAAGAATAAAATGCGTCCTACTCTTTGAGGACAAAAAAAAGGAAATG
* **
256215 AATTGGGTCCTTTTCCTTGAGGACAAAAGA-AAAAGGGAAAAAGGAAAATGTCTTGCTCC
66 AAATGGGTCCTGCTCCTTGAGGACAAAAGAGAAAAGGGAAAAAGGAAAATGTCTTGCTCC
*
256274 TTGAGGACACAGGGAAAA-AAGAATAAAATGCGTCCTACTCTTTGAGGACAAAGGAAAAAAGGAA
1 TTGAGGACAAAGGGAAAATAAGAATAAAATGCGTCCTACTCTTTGAGGAC-AA--AAAAAAGG-A
*
256338 AATGAAATGGGTCCTGCTCCTTGAGGACAAAGGAGAAAAGG
62 AATGAAATGGGTCCTGCTCCTTGAGGACAAAAGAGAAAAGG
256379 AAATGCGTCT
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
123 29 0.32
124 18 0.20
126 7 0.08
127 31 0.34
128 6 0.07
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (125 bp):
TTGAGGACAAAGGGAAAATAAGAATAAAATGCGTCCTACTCTTTGAGGACAAAAAAAAGGAAATG
AAATGGGTCCTGCTCCTTGAGGACAAAAGAGAAAAGGGAAAAAGGAAAATGTCTTGCTCC
Found at i:256382 original size:37 final size:37
Alignment explanation
Indices: 256335--256647 Score: 171
Period size: 44 Copynumber: 7.8 Consensus size: 37
256325 AGGAAAAAAG
* * *
256335 GAAAATGAAATGGGTCCTGCTCCTTGAGGACAAAGGA
1 GAAAAGGAAATGCGTCCTGCTCTTTGAGGACAAAGGA
* *
256372 GAAAAGGAAATGCGTCTTGCTCTTTGAGGACTAAA-AA
1 GAAAAGGAAATGCGTCCTGCTCTTTGAGGAC-AAAGGA
* * * *
256409 CTGAAAAAGAAATAAAATGCATCATGCTCTTTGAGGACAAAAGA
1 --G-AAAAG----GAAATGCGTCCTGCTCTTTGAGGACAAAGGA
* * *
256453 GAAAAGGAAATAAAGTGCGTCCTACTCTTTAAGGATAAAGGA
1 GAAAAGG----AAA-TGCGTCCTGCTCTTTGAGGACAAAGGA
* * * *
256495 AAAAAGGAAAATGATATAGGTCCTGCTCCTTGAGGACAAAAGA
1 GAAAAGG-AAATG-----CGTCCTGCTCTTTGAGGACAAAGGA
* * *
256538 GAAAAGGAAATGCGTCATGCACTTTGAGGACTAAAAGGT
1 GAAAAGGAAATGCGTCCTGCTCTTTGAGGAC--AAAGGA
256577 GAAAAGGAAATAAACTGCGTCCTGCTCTTTGAGGACAAAGGGA
1 GAAAAGG----AAA-TGCGTCCTGCTCTTTGAGGACAAA-GGA
* *
256620 AAAGAAGGAAAT-CGTCCTACTCTTTGAG
1 GAA-AAGGAAATGCGTCCTGCTCTTTGAG
256648 ACTAAAAGGT
Statistics
Matches: 212, Mismatches: 36, Indels: 55
0.70 0.12 0.18
Matches are distributed among these distances:
37 43 0.20
38 20 0.09
39 16 0.08
40 8 0.04
41 8 0.04
42 36 0.17
43 35 0.17
44 46 0.22
ACGTcount: A:0.40, C:0.14, G:0.25, T:0.21
Consensus pattern (37 bp):
GAAAAGGAAATGCGTCCTGCTCTTTGAGGACAAAGGA
Found at i:256419 original size:123 final size:117
Alignment explanation
Indices: 256150--256504 Score: 306
Period size: 123 Copynumber: 2.9 Consensus size: 117
256140 GTCCTACTAT
* * *
256150 TTGAGGACAAA-GGTAAAATGAGAATGAAATGCGTCCTACTCTTTGAGGAC-AA-AAAAAATGAA
1 TTGAGGACAAACGG-AAAA-AAGAATAAAATGCGTCCTACTCTTTGAGGACAAAGAAAAAAGGAA
* ** *
256212 ATGAATTGGGTCCTTTTCCTTGAGGACAAAAGAAAAAGGGAAAAAGGAAAATGTCTTGCTCC
64 ATGAAATGGGTCCTACTCCTTGAGGAC-AAAG-----GAG-AAAAGG-AAATGTCTTGCTCC
* *
256274 TTGAGGACACAGGGAAAAAAGAATAAAATGCGTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAA
1 TTGAGGACAAACGGAAAAAAGAATAAAATGCGTCCTACTCTTTGAGGACAAA-GAAAAAAGG-AA
* *
256339 ATGAAATGGGTCCTGCTCCTTGAGGACAAAGGAGAAAAGGAAATGCGTCTTGCTCT
64 ATGAAATGGGTCCTACTCCTTGAGGACAAAGGAGAAAAGGAAAT--GTCTTGCTCC
* * * * *
256395 TTGAGGACTAAAAACTG-AAAAAGAAATAAAATGCATCATGCTCTTTGAGGACAAAAGAGAAAAG
1 TTGAGGAC---AAACGGAAAAAAG-AATAAAATGCGTCCTACTCTTTGAGGAC-AAAGAAAAAAG
* * * * *
256459 GAAAT-AAAGTGCGTCCTACTCTTTAAGGATAAAGGAAAAAAGGAAA
61 GAAATGAAA-TGGGTCCTACTCCTTGAGGACAAAGGAGAAAAGGAAA
256505 ATGATATAGG
Statistics
Matches: 196, Mismatches: 22, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
119 4 0.02
120 6 0.03
121 19 0.10
122 3 0.02
123 70 0.36
124 52 0.27
125 5 0.03
126 11 0.06
127 26 0.13
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (117 bp):
TTGAGGACAAACGGAAAAAAGAATAAAATGCGTCCTACTCTTTGAGGACAAAGAAAAAAGGAAAT
GAAATGGGTCCTACTCCTTGAGGACAAAGGAGAAAAGGAAATGTCTTGCTCC
Found at i:256460 original size:124 final size:120
Alignment explanation
Indices: 256289--256654 Score: 361
Period size: 124 Copynumber: 3.0 Consensus size: 120
256279 GACACAGGGA
* * * * *
256289 AAAAAGAATAAAATGCGTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAAATGAAA-TGGGTCCT
1 AAAAAGAATAAAATGCGTCATGCTCTTTGAGGACAAAAGAGAAAAGG-AAAT-AAACTGCGTCCT
* * *
256353 GCTCCTTGAGGACAAAGGAGAAAAGGAAATGCGTCTTGCTCTTTGAGGACTAAAAACTG
64 GCTCTTTGAGGACAAAGGAAAAAAGGAAATGCGTCCTGCTCTTTGAGGACTAAAAA--G
* * *
256412 AAAAAGAAATAAAATGCATCATGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTGCGTCCTA
1 AAAAAG-AATAAAATGCGTCATGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAACTGCGTCCTG
* * * *
256477 CTCTTTAAGGATAAAGGAAAAAAGGAAAATGATATAGGTCCTGCTCCTTGAGGAC--AAAAG
65 CTCTTTGAGGACAAAGGAAAAAAGG-AAATG-----CGTCCTGCTCTTTGAGGACTAAAAAG
* * *
256537 AGAAAAG---GAAATGCGTCATGCACTTTGAGGACTAAAAGGTGAAAAGGAAATAAACTGCGTCC
1 A-AAAAGAATAAAATGCGTCATGCTCTTTGAGGAC-AAAA-GAGAAAAGGAAATAAACTGCGTCC
*
256599 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAAT-CGTCCTACTCTTTGA-GACTAAAA
63 TGCTCTTTGAGGACAAA-GGAAAA-AAGGAAATGCGTCCTGCTCTTTGAGGACTAAAA
256655 GGTGCCACGG
Statistics
Matches: 203, Mismatches: 25, Indels: 33
0.78 0.10 0.13
Matches are distributed among these distances:
118 3 0.01
119 12 0.06
120 3 0.01
122 25 0.12
123 42 0.21
124 77 0.38
125 12 0.06
126 9 0.04
127 4 0.02
129 16 0.08
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (120 bp):
AAAAAGAATAAAATGCGTCATGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAACTGCGTCCTGC
TCTTTGAGGACAAAGGAAAAAAGGAAATGCGTCCTGCTCTTTGAGGACTAAAAAG
Found at i:256477 original size:166 final size:163
Alignment explanation
Indices: 256268--256647 Score: 528
Period size: 166 Copynumber: 2.3 Consensus size: 163
256258 GAAAATGTCT
* * * *
256268 TGCTCCTTGAGGACACAGGGAAAAAAGAATAAAATGCGTCCTACTCTTTGAGGACAAAGGAAAAA
1 TGCTCTTTGAGGACAAAGAGAAAAGA-AAT-AAATGCGTCCTACTCTTTGAGGACAAAGGAAAAA
* * * *
256333 AGGAAAATGAAATGGGTCCTGCTCCTTGAGGACAAAGGAGAAAAGGAAATGCGTCTTGCTCTTTG
64 AGGAAAATGAAATAGGTCCTGCTCCTTGAGGACAAAAGAGAAAAGGAAATGCGTCATGCACTTTG
256398 AGGACTAAAAACTGAAAAAGAAATAAAATGCATCA
129 AGGACTAAAAACTGAAAAAGAAATAAAATGCATCA
* *
256433 TGCTCTTTGAGGACAAAAGAGAAAAGGAAATAAAGTGCGTCCTACTCTTTAAGGATAAAGGAAAA
1 TGCTCTTTGAGGAC-AAAGAGAAAA-GAAATAAA-TGCGTCCTACTCTTTGAGGACAAAGGAAAA
*
256498 AAGGAAAATGATATAGGTCCTGCTCCTTGAGGACAAAAGAGAAAAGGAAATGCGTCATGCACTTT
63 AAGGAAAATGAAATAGGTCCTGCTCCTTGAGGACAAAAGAGAAAAGGAAATGCGTCATGCACTTT
** * * * *
256563 GAGGACTAAAAGGTGAAAAGGAAATAAACTGCGTCC
128 GAGGACTAAAAACTGAAAAAGAAATAAAATGCATCA
* **
256599 TGCTCTTTGAGGACAAAGGGAAAAGAAGGAAAT-CGTCCTACTCTTTGAG
1 TGCTCTTTGAGGACAAAGAGAAAAGAAATAAATGCGTCCTACTCTTTGAG
256648 ACTAAAAGGT
Statistics
Matches: 191, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
162 15 0.08
163 1 0.01
164 6 0.03
165 25 0.13
166 143 0.75
167 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (163 bp):
TGCTCTTTGAGGACAAAGAGAAAAGAAATAAATGCGTCCTACTCTTTGAGGACAAAGGAAAAAAG
GAAAATGAAATAGGTCCTGCTCCTTGAGGACAAAAGAGAAAAGGAAATGCGTCATGCACTTTGAG
GACTAAAAACTGAAAAAGAAATAAAATGCATCA
Found at i:256655 original size:81 final size:84
Alignment explanation
Indices: 256140--256658 Score: 366
Period size: 81 Copynumber: 6.3 Consensus size: 84
256130 AGAAGGGGGT
* * * * *
256140 GTCCTACTATTTGAGGAC--AAAGGT-AAAATGAGAATGAAATGCGTCCTACTCTTTGAGGACAA
1 GTCCTACTCTTTGAGGACTAAAAGGTGAAAAGGAAAATGAAATGCGTCCTGCTCCTTGAGGACAA
* * * *
256202 A--AAAAATGAAATGAATTGG
66 AGGGAAAA-G-AAGGAAATGC
** * * * *
256221 GTCCTTTTCCTTGAGGAC-AAAA-G-AAAAAGGGAAAAAGGAAAAT--GTCTTGCTCCTTGAGGA
1 GTCCTACTCTTTGAGGACTAAAAGGTGAAAA-GG-AAAATG-AAATGCGTCCTGCTCCTTGAGGA
* **
256281 CACAGGGAAAAAAGAATAAAATGC
63 CAAAGGG--AAAAGAAGGAAATGC
** *
256305 GTCCTACTCTTTGAGGAC--AAAGGAAAAAAGGAAAATGAAATGGGTCCTGCTCCTTGAGGACAA
1 GTCCTACTCTTTGAGGACTAAAAGGTGAAAAGGAAAATGAAATGCGTCCTGCTCCTTGAGGACAA
*
256368 A-GGAGAA-AAGGAAATGC
66 AGGGAAAAGAAGGAAATGC
* * ** * * * * *
256385 GTCTTGCTCTTTGAGGACTAAAAACTGAAAAAG-AAATAAAATGCATCATGCTCTTTGAGGACAA
1 GTCCTACTCTTTGAGGACTAAAAGGTGAAAAGGAAAATGAAATGCGTCCTGCTCCTTGAGGAC-A
* **
256449 AAGAGAAAAGGAAATAAAGTGC
65 AAGGGAAAA-GAAGGAAA-TGC
* ** *
256471 GTCCTACTCTTTAAGGA-T-AAAGGAAAAAAGGAAAATGATATAG-GTCCTGCTCCTTGAGGACA
1 GTCCTACTCTTTGAGGACTAAAAGGTGAAAAGGAAAATGAAAT-GCGTCCTGCTCCTTGAGGACA
* *
256533 AA-AGAGAA-AAGGAAATGC
65 AAGGGAAAAGAAGGAAATGC
* * * *
256551 GTCATGCACTTTGAGGACTAAAAGGTGAAAAGG-AAAT-AAACTGCGTCCTGCTCTTTGAGGACA
1 GTCCTACTCTTTGAGGACTAAAAGGTGAAAAGGAAAATGAAA-TGCGTCCTGCTCCTTGAGGACA
256614 AAGGGAAAAGAAGGAAAT-C
65 AAGGGAAAAGAAGGAAATGC
256633 GTCCTACTCTTTGA-GACTAAAAGGTG
1 GTCCTACTCTTTGAGGACTAAAAGGTG
256659 CCACGGAGTT
Statistics
Matches: 341, Mismatches: 69, Indels: 56
0.73 0.15 0.12
Matches are distributed among these distances:
80 43 0.13
81 89 0.26
82 63 0.18
83 31 0.09
84 59 0.17
85 34 0.10
86 22 0.06
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (84 bp):
GTCCTACTCTTTGAGGACTAAAAGGTGAAAAGGAAAATGAAATGCGTCCTGCTCCTTGAGGACAA
AGGGAAAAGAAGGAAATGC
Found at i:256720 original size:33 final size:34
Alignment explanation
Indices: 256651--256728 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
256641 CTTTGAGACT
*
256651 AAAAG-GTGCCACGGAGTTATGGACTTAAAAAGG
1 AAAAGAGTGCCACGGAGTTATGAACTTAAAAAGG
* * *
256684 AAAAGAGTGCCATGGAGTTGTGAACTTTAAAA-G
1 AAAAGAGTGCCACGGAGTTATGAACTTAAAAAGG
256717 AAAA-AGTGCCAC
1 AAAAGAGTGCCAC
256729 TAGGTCATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 7 0.18
33 10 0.26
34 22 0.56
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.19
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTATGAACTTAAAAAGG
Found at i:257503 original size:13 final size:13
Alignment explanation
Indices: 257485--257509 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
257475 CAGAAAGTGG
257485 TGTATCGATACAA
1 TGTATCGATACAA
257498 TGTATCGATACA
1 TGTATCGATACA
257510 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:257590 original size:13 final size:13
Alignment explanation
Indices: 257572--257596 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
257562 ATTACTCAAA
257572 TGTATCGATACAT
1 TGTATCGATACAT
257585 TGTATCGATACA
1 TGTATCGATACA
257597 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:257733 original size:52 final size:52
Alignment explanation
Indices: 257605--257725 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
257595 CACTGATCTT
*
257605 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
257657 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
257709 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
257726 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:261744 original size:15 final size:16
Alignment explanation
Indices: 261726--261758 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
261716 ACCTTTGCAC
261726 TTTTTTTTGTTTG-TT
1 TTTTTTTTGTTTGCTT
*
261741 TTTTTTTTTTTTGCTT
1 TTTTTTTTGTTTGCTT
261757 TT
1 TT
261759 GACTTTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.88
Consensus pattern (16 bp):
TTTTTTTTGTTTGCTT
Found at i:266682 original size:15 final size:15
Alignment explanation
Indices: 266664--266698 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
266654 CAAGTCAACT
266664 TCATCATTATCATCA
1 TCATCATTATCATCA
*
266679 TCATCATTATCTTCA
1 TCATCATTATCATCA
266694 TCATC
1 TCATC
266699 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:268228 original size:24 final size:24
Alignment explanation
Indices: 268193--268238 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
268183 TCTTATTTGG
* *
268193 TGCTTGTTTCCATGC-ATTCATGT
1 TGCTTGTATCCATACAATTCATGT
268216 TGCTATGTATCCATACAATTCAT
1 TGCT-TGTATCCATACAATTCAT
268239 AATGTATCGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 9 0.47
25 6 0.32
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (24 bp):
TGCTTGTATCCATACAATTCATGT
Found at i:268417 original size:19 final size:19
Alignment explanation
Indices: 268374--268429 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
268364 TTGTCAGTTT
*
268374 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAG
268394 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
268413 CATGTATCGATACAATG
1 CATGTATCGATACAATG
268430 TATCGATACA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:268432 original size:13 final size:13
Alignment explanation
Indices: 268414--268440 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
268404 TACAATGAGC
268414 ATGTATCGATACA
1 ATGTATCGATACA
268427 ATGTATCGATACA
1 ATGTATCGATACA
268440 A
1 A
268441 AGCATAATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:268895 original size:79 final size:79
Alignment explanation
Indices: 268749--269322 Score: 525
Period size: 79 Copynumber: 7.3 Consensus size: 79
268739 TCCTAACAAA
* * * * * * *
268749 TTTCAAGGGGATACTCCAACCCCGTTTTTTATTTCCAAAGTATTAACTTTTTCACCGCGAGGA-A
1 TTTCGAGGGGATACTCCAACCCC-ATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATA
*
268813 CTCCAACCCCGTTAT
65 CTCCAACCCCATTAT
* * *
268828 TTTCAAGGGGATACTCCAACCCCATTTTTATTTTCAAAATATCAAATTTTTCATCTCGGGGATAC
1 TTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATAC
* *
268893 TCCAACCTCGTTAT
66 TCCAACCCCATTAT
* ** * * *
268907 TTTTGAGGACATACTCCAACCCCA-TTTT-TTGCAAAAATATTAAATTTTTCATCT-TGGGATAC
1 TTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATAC
*
268969 TCCAACCCCATCA-
66 TCCAACCCCATTAT
* * * * * *
268982 ATTCTGCA-GGGATAGTCTAACCCTATTTTTATTTTCAAAATATTAAATTTTTTATCTCGGGGAT
1 TTTC-G-AGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGAT
** *
269046 ACTCCAACCCTGTTGT
64 ACTCCAACCCCATTAT
* * * * * * * * *
269062 TTCCGAGGGGATACTCCAACCCCGTTTTTATTACAAAAATATTCAATTTTTCATCTTGAGAAAAC
1 TTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATAC
*
269127 TCCAACCCCATCAAT
66 TCCAACCCCAT-TAT
** * *
269142 TTT-GAGGGGATACTCCAACACCTTTTTTTTATTTCCAAAATATTAAAATTTTCATCACGGGGAT
1 TTTCGAGGGGATACTCCAAC-CC-CATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGAT
269206 ACTCCAACCCCATTAT
64 ACTCCAACCCCATTAT
* ** * * * *
269222 TTTCGAGGGGATATTCCAACCCTGTTTTTATTTCCAAAATA-TCAATTTTTCACCATCAGAGATA
1 TTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATC-TCGGGGATA
* * *
269286 CTCCAACCCTATCAG
65 CTCCAACCCCATTAT
* * *
269301 GTCCGACGGGATACTCCAACCC
1 TTTCGAGGGGATACTCCAACCC
269323 TAATTTTCAC
Statistics
Matches: 398, Mismatches: 84, Indels: 26
0.78 0.17 0.05
Matches are distributed among these distances:
75 2 0.01
76 30 0.08
77 27 0.07
78 68 0.17
79 199 0.50
80 14 0.04
81 58 0.15
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (79 bp):
TTTCGAGGGGATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATAC
TCCAACCCCATTAT
Found at i:268976 original size:155 final size:157
Alignment explanation
Indices: 268749--269273 Score: 569
Period size: 155 Copynumber: 3.3 Consensus size: 157
268739 TCCTAACAAA
* * * * * * * ** *
268749 TTTCAAGGGGATACTCCAACCCCGTTTTTTATTTCCAAAGTATTAACTTTTTCACCGCGAG-GAA
1 TTTCGAGGGGATACTCCAACCCCG-ATTTTATTACAAAAATATTAAATTTTTCATCTTGAGAAAA
* * * *
268813 CTCCAACCCCGT-TATTTTCAAGGGGATACTCCAACCCCATTTTTATTTTCAAAATATCAAATTT
65 CTCCAACCCCATCAATTTTC-AGGGGATACTCCAACCCTATTTTTATTTTCAAAATATTAAATTT
268877 TTCATCTCGGGGATACTCCAACCTCGTTAT
129 TTCATCTCGGGGATACTCCAACC-CGTTAT
* ** * * *
268907 TTTTGAGGACATACTCCAACCCC-ATTTT-TTGCAAAAATATTAAATTTTTCATCTTG-GGATAC
1 TTTCGAGGGGATACTCCAACCCCGATTTTATTACAAAAATATTAAATTTTTCATCTTGAGAAAAC
* * *
268969 TCCAACCCCATCAATTCTGCA-GGGATAGTCTAACCCTATTTTTATTTTCAAAATATTAAATTTT
66 TCCAACCCCATCAATT-TTCAGGGGATACTCCAACCCTATTTTTATTTTCAAAATATTAAATTTT
* *
269033 TTATCTCGGGGATACTCCAACCCTGTTGT
130 TCATCTCGGGGATACTCCAACCC-GTTAT
* * *
269062 TTCCGAGGGGATACTCCAACCCCGTTTTTATTACAAAAATATTCAATTTTTCATCTTGAGAAAAC
1 TTTCGAGGGGATACTCCAACCCCGATTTTATTACAAAAATATTAAATTTTTCATCTTGAGAAAAC
* * * *
269127 TCCAACCCCATCAATTTTGAGGGGATACTCCAACACCTTTTTTTTATTTCCAAAATATTAAAATT
66 TCCAACCCCATCAATTTTCAGGGGATACTCCAAC-CC-TATTTTTATTTTCAAAATATTAAATTT
* *
269192 TTCATCACGGGGATACTCCAACCCCATTAT
129 TTCATCTCGGGGATACTCCAA-CCCGTTAT
* * * * * *
269222 TTTCGAGGGGATATTCCAACCCTGTTTTTATTTCCAAAATA-TCAATTTTTCA
1 TTTCGAGGGGATACTCCAACCCCGATTTTATTACAAAAATATTAAATTTTTCA
269274 CCATCAGAGA
Statistics
Matches: 308, Mismatches: 48, Indels: 21
0.82 0.13 0.06
Matches are distributed among these distances:
154 2 0.01
155 116 0.38
156 12 0.04
157 30 0.10
158 50 0.16
159 13 0.04
160 82 0.27
161 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (157 bp):
TTTCGAGGGGATACTCCAACCCCGATTTTATTACAAAAATATTAAATTTTTCATCTTGAGAAAAC
TCCAACCCCATCAATTTTCAGGGGATACTCCAACCCTATTTTTATTTTCAAAATATTAAATTTTT
CATCTCGGGGATACTCCAACCCGTTAT
Found at i:269314 original size:160 final size:156
Alignment explanation
Indices: 268835--269329 Score: 573
Period size: 160 Copynumber: 3.1 Consensus size: 156
268825 TATTTTCAAG
* *
268835 GGGATACTCCAACCCCATTTTTATTTTCAAAATATCAAATTTTTCATCTCGGGGATACTCCAACC
1 GGGATACTCCAACCCTATTTTTATTTTCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACC
* * ** ** * * * *
268900 TCGTTATTTTTGAGGACATACTCCAACCCCATTTT-TTGCAAAAATATTAAATTTTTCATCTTGG
66 CCGTTATTTTCGAGGGGATACTCCAACCCGTTTTTATTACAAAAATATTCAATTTTTCATCTAGA
268964 GATACTCCAACCCCATCAATTCTG-C
131 GATACTCCAACCCCATCAATTCTGAC
* * *
268989 AGGGATAGTCTAACCCTATTTTTATTTTCAAAATATTAAATTTTTTATCTCGGGGATACTCCAAC
1 -GGGATACTCCAACCCTATTTTTATTTTCAAAATATTAAATTTTTCATCTCGGGGATACTCCAAC
* * * *
269054 CCTGTTGTTTCCGAGGGGATACTCCAACCCCGTTTTTATTACAAAAATATTCAATTTTTCATCTT
65 CCCGTTATTTTCGAGGGGATACTCCAA-CCCGTTTTTATTACAAAAATATTCAATTTTTCATCTA
* * *
269119 GAGAAAACTCCAACCCCATCAATTTTGAG
129 GAG-ATACTCCAACCCCATCAATTCTGAC
* * * *
269148 GGGATACTCCAACACCTTTTTTTTATTTCCAAAATATTAAAATTTTCATCACGGGGATACTCCAA
1 GGGATACTCCAAC-CC-TATTTTTATTTTCAAAATATTAAATTTTTCATCTCGGGGATACTCCAA
* * * * *
269213 CCCCATTATTTTCGAGGGGATATTCCAACCCTGTTTTTATTTCCAAAATA-TCAATTTTTCACCA
64 CCCCGTTATTTTCGAGGGGATACTCCAACCC-GTTTTTATTACAAAAATATTCAATTTTTCATC-
* ** *
269277 TCAGAGATACTCCAACCCTATCAGGTCCGAC
127 T-AGAGATACTCCAACCCCATCAATTCTGAC
*
269308 GGGATACTCCAACCCTAATTTT
1 GGGATACTCCAACCCTATTTTT
269330 CACCAAAAAT
Statistics
Matches: 286, Mismatches: 45, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
155 79 0.28
156 7 0.02
157 27 0.09
158 37 0.13
159 19 0.07
160 114 0.40
161 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (156 bp):
GGGATACTCCAACCCTATTTTTATTTTCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACC
CCGTTATTTTCGAGGGGATACTCCAACCCGTTTTTATTACAAAAATATTCAATTTTTCATCTAGA
GATACTCCAACCCCATCAATTCTGAC
Found at i:269318 original size:239 final size:234
Alignment explanation
Indices: 268756--269322 Score: 535
Period size: 234 Copynumber: 2.4 Consensus size: 234
268746 AAATTTCAAG
* * * *
268756 GGGATACTCCAACCCCGT-TTTTTATTTCCAAAGTATTAACTTTTTCACCGC-GAGGA-ACTCCA
1 GGGATAGTCCAA-CCC-TATTTTTATTTCCAAAATATTAAATTTTTCACCTCAGA-GATACTCCA
* * * * *
268818 ACCCCGT-TA-TTTTCAAGGGGATACTCCAACCCCATTTTTATTTTCAAAATATCAAATTTTTCA
63 A-CCC-TATAGTGTCCGACGGGATACTCCAACCCCATTTTTATTTACAAAATATCAAATTTTTCA
* * * * * * *
268881 TCTCGGGGATACTCCAACCTCGTTATTTTTGAGGACATACTCCAACCCCATTTTTTGCAAAAATA
126 TCTCGAGAAAACTCCAACCCCATCAATTTTGAGGACATACTCCAACCCCATTTTTTGCAAAAATA
* **
268946 TTAAATTTTTCATCTTGGGATACTCCAACCCCATCAATTCTGCA
191 TTAAAATTTTCATCCGGGGATACTCCAACCCCATCAATTCTGCA
* * * * * *
268990 GGGATAGTCTAACCCTATTTTTATTTTCAAAATATTAAATTTTTTATCTCGGGGATACTCCAACC
1 GGGATAGTCCAACCCTATTTTTATTTCCAAAATATTAAATTTTTCACCTCAGAGATACTCCAACC
* * * * *
269055 CTGTTGTTTCCGAGGGGATACTCCAACCCCGTTTTTA-TTACAAAAATATTC-AATTTTTCATCT
66 CTATAGTGTCCGACGGGATACTCCAACCCCATTTTTATTTAC-AAAATA-TCAAATTTTTCATCT
* ** ** * *
269118 TGAGAAAACTCCAACCCCATCAATTTTGAGGGGATACTCCAACACCTTTTTTTTATTTCCAAAAT
129 CGAGAAAACTCCAACCCCATCAATTTTGAGGACATACTCCAAC-CC--CATTTT-TTGCAAAAAT
* *
269183 ATTAAAATTTTCATCACGGGGATACTCCAACCCCAT-TATT-TTCGA
190 ATTAAAATTTTCATC-CGGGGATACTCCAACCCCATCAATTCTGC-A
* * *
269228 GGGGATATTCCAACCCTGTTTTTATTTCCAAAATA-TCAATTTTTCACCATCAGAGATACTCCAA
1 -GGGATAGTCCAACCCTATTTTTATTTCCAAAATATTAAATTTTTCACC-TCAGAGATACTCCAA
269292 CCCTATCAG-GTCCGACGGGATACTCCAACCC
64 CCCTAT-AGTGTCCGACGGGATACTCCAACCC
269323 TAATTTTCAC
Statistics
Matches: 271, Mismatches: 46, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
232 2 0.01
233 39 0.14
234 97 0.36
235 4 0.01
237 6 0.02
238 36 0.13
239 86 0.32
240 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (234 bp):
GGGATAGTCCAACCCTATTTTTATTTCCAAAATATTAAATTTTTCACCTCAGAGATACTCCAACC
CTATAGTGTCCGACGGGATACTCCAACCCCATTTTTATTTACAAAATATCAAATTTTTCATCTCG
AGAAAACTCCAACCCCATCAATTTTGAGGACATACTCCAACCCCATTTTTTGCAAAAATATTAAA
ATTTTCATCCGGGGATACTCCAACCCCATCAATTCTGCA
Found at i:269654 original size:23 final size:22
Alignment explanation
Indices: 269623--269671 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 22
269613 CGTCCCTCTT
**
269623 TTTTATGTATTTTTGTGCATTTA
1 TTTTATGTAAATTTGTGCA-TTA
* *
269646 TTTTGTGTAAATTTGTTCATTA
1 TTTTATGTAAATTTGTGCATTA
269668 TTTT
1 TTTT
269672 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.18, C:0.04, G:0.12, T:0.65
Consensus pattern (22 bp):
TTTTATGTAAATTTGTGCATTA
Found at i:272635 original size:5 final size:5
Alignment explanation
Indices: 272609--272650 Score: 50
Period size: 5 Copynumber: 8.2 Consensus size: 5
272599 ATTTATTCAC
*
272609 TTTAT TTTGAT TATTA- TTTAT TTTAT TTTAT CTTAT TTTAT T
1 TTTAT TTT-AT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT T
272651 AAAAATCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 3 0.09
5 23 0.72
6 4 0.12
7 2 0.06
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTAT
Found at i:272646 original size:15 final size:15
Alignment explanation
Indices: 272609--272651 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
272599 ATTTATTCAC
272609 TTTATTTTGATTATTA
1 TTTATTTT-ATTATTA
272625 TTTATTTTATT-TTA
1 TTTATTTTATTATTA
272639 TCTTATTTTATTA
1 T-TTATTTTATTA
272652 AAAATCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.16
15 13 0.52
16 8 0.32
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTATTTTATTATTA
Found at i:273083 original size:2 final size:2
Alignment explanation
Indices: 273076--273102 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
273066 CTAGTAAAAC
273076 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
273103 AATGATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:275605 original size:20 final size:20
Alignment explanation
Indices: 275554--275646 Score: 91
Period size: 20 Copynumber: 4.6 Consensus size: 20
275544 ACCCTTAAAA
* *
275554 GTATCGATACACAATT-CAAA
1 GTATCGATACA-TATTGCAAT
275574 GTATCGATACATATTGCAAT
1 GTATCGATACATATTGCAAT
***
275594 GTATCGATACATGA-AAAAGAT
1 GTATCGATACAT-ATTGCA-AT
*
275615 GTATCGATACATGTTGCAAT
1 GTATCGATACATATTGCAAT
275635 GTATCGATACAT
1 GTATCGATACAT
275647 GAAAAAGATG
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
19 3 0.05
20 41 0.68
21 16 0.27
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCGATACATATTGCAAT
Found at i:275618 original size:21 final size:21
Alignment explanation
Indices: 275592--275667 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
275582 ACATATTGCA
275592 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
275613 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
275633 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
275654 ATGTATCGATACAT
1 ATGTATCGATACAT
275668 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:275625 original size:41 final size:41
Alignment explanation
Indices: 275574--275667 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
275564 ACAATTCAAA
275574 GTATCGATACATATTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATATTGCAATGTATCGATACATGAAAAAGAT
*
275615 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATATTGCAATGTATCGATACATGAAAAAGAT
275656 GTATCGATACAT
1 GTATCGATACAT
275668 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATATTGCAATGTATCGATACATGAAAAAGAT
Found at i:275647 original size:20 final size:20
Alignment explanation
Indices: 275574--275647 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
275564 ACAATTCAAA
*
275574 GTATCGATACATATTGCAAT
1 GTATCGATACATGTTGCAAT
****
275594 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
275615 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
275635 GTATCGATACATG
1 GTATCGATACATG
275648 AAAAAGATGT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:275724 original size:13 final size:13
Alignment explanation
Indices: 275706--275731 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
275696 TACAGCAAGT
275706 ATGTATCGATACA
1 ATGTATCGATACA
275719 ATGTATCGATACA
1 ATGTATCGATACA
275732 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:277257 original size:144 final size:140
Alignment explanation
Indices: 276895--277270 Score: 500
Period size: 142 Copynumber: 2.6 Consensus size: 140
276885 TTCGAAAATC
* * *
276895 TCATTTCGTACCTTAATGGAGAACCGAAAAGATATGAAAAGTTTCAAAGGTTTCTATACCCGTAT
1 TCATTTCGTACCTTAATGGAGAA-CGAAAAGATACGAAAAGTTTCAAAGATTTCTATACCC-TAC
* * * * *
276960 GACAAACCCTAAGAATATTACAAATCTTGAAAAATTAATATAATAATTTTTATCTAATTTTTAAT
64 GAAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATCTAATTTTTAAT
*
277025 TTCCAAAAAAAT
129 TTCCAAAAAAAA
* * ** *
277037 TCATTTCGTACTTTAATAGAGAACAGAAAAGATACGAAAAGTTTGGAAGAATTCTATAACCCTAC
1 TCATTTCGTACCTTAATGGAGAAC-GAAAAGATACGAAAAGTTTCAAAGATTTCTAT-ACCCTAC
* *
277102 GAAAAACCATAGGAATATTAGAAATCTTGAAAATTTAAGATAATAATTTTTATTTAATTTTTAAT
64 GAAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATCTAATTTTTAAT
277167 TTCCCAAAAAAAAA
129 TT-CC-AAAAAAAA
* * *
277181 TCATTTCGTACCTTAATGGAGAATCGAAGAGATACAAAAAGTTTCAAAGATTTCTGTAGCCCTAC
1 TCATTTCGTACCTTAATGGAGAA-CGAAAAGATACGAAAAGTTTCAAAGATTTCTATA-CCCTAC
*
277246 GAAAAATCATAGGAATATTAGAAAT
64 GAAAAACCATAGGAATATTAGAAAT
277271 ATATAAAAAT
Statistics
Matches: 203, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
141 1 0.00
142 110 0.54
143 7 0.03
144 84 0.41
145 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (140 bp):
TCATTTCGTACCTTAATGGAGAACGAAAAGATACGAAAAGTTTCAAAGATTTCTATACCCTACGA
AAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATCTAATTTTTAATTT
CCAAAAAAAA
Found at i:278357 original size:91 final size:91
Alignment explanation
Indices: 278202--278422 Score: 302
Period size: 91 Copynumber: 2.4 Consensus size: 91
278192 CATTTTTGCT
** * *
278202 TGAATGTATCGATACATGCTTT-TCATGTATCGATACAAGGTCCCAACACTCAAAATTTTCAAAT
1 TGAATGTATCGATACATG-TTTGAAATGTATCGATACAAGGTCCCAACACTCAAAAATTTAAAAT
*
278266 TTCAATAATTTGTATCAATACAATAAG
65 TTCAACAATTTGTATCAATACAATAAG
* * * ***
278293 TGAATGTATCAATACATGTTTGAAATGTATTGATACAAGGTCCTAATGGTCAAAAATTTAAAATT
1 TGAATGTATCGATACATGTTTGAAATGTATCGATACAAGGTCCCAACACTCAAAAATTTAAAATT
* *
278358 TCAACAATTTGTATTAATACAGTAAG
66 TCAACAATTTGTATCAATACAATAAG
278384 TGAATGTATCGATACATGTTTGAAATGTATCGATA-AAGG
1 TGAATGTATCGATACATGTTTGAAATGTATCGATACAAGG
278423 ACCATATTGA
Statistics
Matches: 114, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
90 7 0.06
91 107 0.94
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.34
Consensus pattern (91 bp):
TGAATGTATCGATACATGTTTGAAATGTATCGATACAAGGTCCCAACACTCAAAAATTTAAAATT
TCAACAATTTGTATCAATACAATAAG
Found at i:279203 original size:12 final size:10
Alignment explanation
Indices: 279178--279202 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
279168 GATTTTCCTA
279178 TTTTTCTCTC
1 TTTTTCTCTC
279188 TTTTTCTCTC
1 TTTTTCTCTC
279198 TTTTT
1 TTTTT
279203 TCCCCCTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:282143 original size:18 final size:18
Alignment explanation
Indices: 282120--282156 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
282110 CGTAGAGATA
282120 ATTTCAAAATTTATCAAG
1 ATTTCAAAATTTATCAAG
282138 ATTTCAAAATTTATCAAG
1 ATTTCAAAATTTATCAAG
282156 A
1 A
282157 AATTATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.05, T:0.38
Consensus pattern (18 bp):
ATTTCAAAATTTATCAAG
Found at i:290379 original size:165 final size:166
Alignment explanation
Indices: 290115--290748 Score: 829
Period size: 165 Copynumber: 3.8 Consensus size: 166
290105 AAAGGATGCA
* * * * * *
290115 AAAAGTCTTGAAAGTTTCTATACCCTTATGGAAGGCTATAGGAATAATAGGATTATTTAAAATTG
1 AAAAGTCTTGAAAATTTCTATACCCTTACGGAAGGCTATAGGAATAATAGAAATCTTTAAAAATG
* *
290180 ACTAAAATGATGATTTTACCTTTAAAAGCTAAAATTTGCTATTTAATTCCTAAACTTTTGAAAA-
66 ACTAAAATGATGATTTTACCTTTAAAAACTAAAATTTGCTATTTAATCCCTAAACTTTTGAAAAT
* *
290244 TTTCATTTCATACCTGACGAAAAAAT-AGAAGGATATG
131 TTTCATTTCATACC-GATGAAAAAATAAG-AGGATACG
* ** *
290281 AAAAGTCTTGAAAATTTCTTTACCCTTACAAAAGGCTATAGGAATAATA-TAATCTTTAAAAATG
1 AAAAGTCTTGAAAATTTCTATACCCTTACGGAAGGCTATAGGAATAATAGAAATCTTTAAAAATG
*
290345 ACTAAAATGATGATTTTACCTCTAAAAACTAAAATTTGCTATTTAATCCCTAAACTTTTGAAAA-
66 ACTAAAATGATGATTTTACCTTTAAAAACTAAAATTTGCTATTTAATCCCTAAACTTTTGAAAAT
* *
290409 TTTCTATTTCGTACCCGATGAAAAACTAAGAGGATACG
131 TTTC-ATTTCATA-CCGATGAAAAAATAAGAGGATACG
* * *
290447 AAAAGTCTTGAAAATTACTATACACTTACGGAAGGC-ATAAGAATAATAGAAATCTTTAAAAAT-
1 AAAAGTCTTGAAAATTTCTATACCCTTACGGAAGGCTATAGGAATAATAGAAATCTTTAAAAATG
* * * * * *
290510 ACTAAAATGGTGATTTTGCCTATAAAAACT-AAATTTACTATATAATCCCTAAA-ATTT-AAAAT
66 ACTAAAATGATGATTTTACCTTTAAAAACTAAAATTTGCTATTTAATCCCTAAACTTTTGAAAAT
* * * *
290572 TTTTATTTCATACCCATTGAAAAATTAAGAGGATACA
131 TTTCATTTCATACCGA-TGAAAAAATAAGAGGATACG
* * * *
290609 AAAAGTCTTCAAAATTTCTATACCCCTACGGCAA-GCCATAGGAATAATAGAAATCATTAAAAAT
1 AAAAGTCTTGAAAATTTCTATACCCTTACGG-AAGGCTATAGGAATAATAGAAATCTTTAAAAAT
*
290673 GACTAAAATGATGATTTTACCTTTAAAAACTAAAAGTTGCTATTTAATCCCTAAACTTTTGAAAA
65 GACTAAAATGATGATTTTACCTTTAAAAACTAAAATTTGCTATTTAATCCCTAAACTTTTGAAAA
290738 TTTTCATTTCA
130 TTTTCATTTCA
290749 GTTCCTACAT
Statistics
Matches: 408, Mismatches: 48, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
161 3 0.01
162 58 0.14
163 33 0.08
164 48 0.12
165 134 0.33
166 114 0.28
167 18 0.04
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (166 bp):
AAAAGTCTTGAAAATTTCTATACCCTTACGGAAGGCTATAGGAATAATAGAAATCTTTAAAAATG
ACTAAAATGATGATTTTACCTTTAAAAACTAAAATTTGCTATTTAATCCCTAAACTTTTGAAAAT
TTTCATTTCATACCGATGAAAAAATAAGAGGATACG
Found at i:291911 original size:25 final size:25
Alignment explanation
Indices: 291877--291924 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
291867 AACTAGTTAA
*
291877 AAAAATAAAATAAAATAAAAATTCC
1 AAAAATAAAAGAAAATAAAAATTCC
* *
291902 AAAATTAAAAGAAAATTAAAATT
1 AAAAATAAAAGAAAATAAAAATT
291925 AAAGTTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (25 bp):
AAAAATAAAAGAAAATAAAAATTCC
Found at i:292959 original size:26 final size:26
Alignment explanation
Indices: 292929--292981 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
292919 GAAAAGGACT
292929 TAGATAAAATTAGGTGTCTATACTTG
1 TAGATAAAATTAGGTGTCTATACTTG
292955 TAGATAAAATTAGGTGTCTATACTTG
1 TAGATAAAATTAGGTGTCTATACTTG
292981 T
1 T
292982 CTATTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.40
Consensus pattern (26 bp):
TAGATAAAATTAGGTGTCTATACTTG
Found at i:295123 original size:29 final size:29
Alignment explanation
Indices: 295090--295148 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
295080 TAAGTTAATC
*
295090 AATTTTTTATGGACTAATGAAGTGTATGT
1 AATTTTTTATGGACTAATGAAATGTATGT
295119 AATTTTTTATGGACTAATGAAATGTATGT
1 AATTTTTTATGGACTAATGAAATGTATGT
295148 A
1 A
295149 TGTATATATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (29 bp):
AATTTTTTATGGACTAATGAAATGTATGT
Done.