Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 22 of 150
Found at i:5848062 original size:18 final size:19
Alignment explanation
Indices: 5848039--5848080 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
5848029 TTTATCTAAG
* *
5848039 TTTTATAA-TATTAATTTT
1 TTTTATAATTATAAATGTT
5848057 TTTTATAATTATAAATGTT
1 TTTTATAATTATAAATGTT
5848076 TTTTA
1 TTTTA
5848081 GAGTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTATAATTATAAATGTT
Found at i:5849284 original size:13 final size:14
Alignment explanation
Indices: 5849266--5849302 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
5849256 AATGGCATAT
5849266 AAATAATATAAAC-
1 AAATAATATAAACG
5849279 AAATAA-ATAAACG
1 AAATAATATAAACG
5849292 AAATGAATATA
1 AAAT-AATATA
5849303 TATAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 10 0.48
14 2 0.10
15 3 0.14
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.22
Consensus pattern (14 bp):
AAATAATATAAACG
Found at i:5857737 original size:14 final size:14
Alignment explanation
Indices: 5857714--5857746 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5857704 CAAAAGAAAC
5857714 TATAGAGGCCCAAA
1 TATAGAGGCCCAAA
*
5857728 TATAGTGGCCCAAA
1 TATAGAGGCCCAAA
5857742 -ATAGA
1 TATAGA
5857747 TTCAAGAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.18
Consensus pattern (14 bp):
TATAGAGGCCCAAA
Found at i:5858947 original size:26 final size:28
Alignment explanation
Indices: 5858909--5858962 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
5858899 TATAATTTTC
5858909 ATATGTAATTATTTTTTAATCTATATAT
1 ATATGTAATTATTTTTTAATCTATATAT
* *
5858937 ATATGT-A-TATTTTTTTATGTATATAT
1 ATATGTAATTATTTTTTAATCTATATAT
5858963 TTATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 17 0.71
27 1 0.04
28 6 0.25
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (28 bp):
ATATGTAATTATTTTTTAATCTATATAT
Found at i:5859051 original size:29 final size:26
Alignment explanation
Indices: 5859018--5859082 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 26
5859008 ACATATTTAT
*
5859018 TTATTTTATTAATTTTGATAATGTAGATA
1 TTATTTTATT-ATTTT--TAATCTAGATA
* *
5859047 TTATTTAATTATTTTTAATCTATATA
1 TTATTTTATTATTTTTAATCTAGATA
5859073 TATATTTTAT
1 T-TATTTTAT
5859083 ATGTGCATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
26 10 0.32
27 7 0.23
28 5 0.16
29 9 0.29
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (26 bp):
TTATTTTATTATTTTTAATCTAGATA
Found at i:5859171 original size:2 final size:2
Alignment explanation
Indices: 5859125--5859162 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
5859115 TTAATATTCT
5859125 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5859163 CGTATATATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5865483 original size:44 final size:44
Alignment explanation
Indices: 5865433--5865779 Score: 405
Period size: 44 Copynumber: 8.1 Consensus size: 44
5865423 TAAAGCCAGT
* * *
5865433 AATCCTATCTTCCTAGTCAGCAGTGGAATGGGTTGAAGATTGTG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
5865477 AGTCCTATCTCGCTGGTCAGCAGTGGAATAGGTTGAAGATTGT-
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
5865520 AAGTCCTATCTCCCTGGTCAGCAGTGG-A-A---T--AG---GTG
1 AA-TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
5865555 AATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGACGATTGTG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* * * * ****
5865599 AATCCTATCACCCCGGTCAGCAGTGGAATAGGCTGAAAATAAACA
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGAT-TGTG
*
5865644 AATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAA-ATT-TG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
*
5865686 TAAGTCCTATCTTCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 -AA-TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
*
5865732 AATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGTG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
5865776 AATC
1 AATC
5865780 TTACTTCCCC
Statistics
Matches: 256, Mismatches: 30, Indels: 34
0.80 0.09 0.11
Matches are distributed among these distances:
34 25 0.10
35 3 0.01
36 1 0.00
37 2 0.01
39 2 0.01
41 1 0.00
42 1 0.00
43 4 0.02
44 177 0.69
45 38 0.15
46 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
Found at i:5865566 original size:34 final size:34
Alignment explanation
Indices: 5865523--5865587 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
5865513 AGATTGTAAG
*
5865523 TCCTATCTCCCTGGTCAGCAGTGGAATAGGTGAA
1 TCCTATCTCCCTAGTCAGCAGTGGAATAGGTGAA
5865557 TCCTATCTCCCTAGTCAGCAGTGGAATAGGT
1 TCCTATCTCCCTAGTCAGCAGTGGAATAGGT
5865588 TGACGATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (34 bp):
TCCTATCTCCCTAGTCAGCAGTGGAATAGGTGAA
Found at i:5865800 original size:89 final size:88
Alignment explanation
Indices: 5865547--5865806 Score: 294
Period size: 89 Copynumber: 2.9 Consensus size: 88
5865537 TCAGCAGTGG
* * *
5865547 AATAGGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGACGATTGTGAATCCTA-TCACC
1 AATAAGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTACT-TCC
5865611 CCGGTCAGCAGTGGAATAGGCTGAA
65 CC-GTCAGCAGTGGAATAGGCTGAA
***
5865636 AATAAACAAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAA-ATT-TGTAAGTCCTATCTT
1 AATAAGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTG-AA-TCCTA-CTT
** *
5865699 CCTGGTCAGCAGTGGAATAGGTTGAA
63 CCCCGTCAGCAGTGGAATAGGCTGAA
* * * * *
5865725 GAT-TGTGAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGTGAATCTTACTTCCC
1 AATAAGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTACTTCCC
*
5865789 CGACATTGCAGTGGAATA
66 CGTCA--GCAGTGGAATA
5865807 AATTGAAGGT
Statistics
Matches: 143, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
87 10 0.07
88 44 0.31
89 84 0.59
90 4 0.03
91 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (88 bp):
AATAAGTGAATCCTATCTCCCTAGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCCTACTTCCC
CGTCAGCAGTGGAATAGGCTGAA
Found at i:5866329 original size:169 final size:169
Alignment explanation
Indices: 5865848--5866568 Score: 1079
Period size: 169 Copynumber: 4.3 Consensus size: 169
5865838 CTGACGTTAT
* * * *
5865848 AGCGGAGCAGATTAAAGCTGAAGGCAACGAATCTTATCTCCCGGGCGTTAAGACTTGAAATAGCT
1 AGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGTGTTAAGACTTGAAAAAGCT
* * *
5865913 GAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAGTCCTATCTCTTTGGAATTATAGTGGAACAGAT
66 GAAGTGGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTATAGTGGAACAGAT
5865978 TAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGC
131 TAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGC
*
5866017 AGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCT-CCTCGGTGTTAAGACTGGAAAAAAG
1 AGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCT-GGTGTTAAGACTTG-AAAAAG
* * *
5866081 CTGAAGTGGAGCGGATTAAAGCTGTGGGCAAG-GAATCCAATCTCTTTGGCATTATAGTGTAACA
64 CTGAAGTGGAGCGGATTAAAGCTGTGGGC-AGCAAATCCTATCTCTTTGGCATTATAGTGGAACA
* * *
5866145 GATTAAAGTTAAAGGTAGCCAATCTTGTTTCCCTAGCATTGC
128 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGC
* * *
5866187 AGCAGAGCAAATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGCT-TTAAGACTTGAAAAAGC
1 AGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGG-TGTTAAGACTTGAAAAAGC
*
5866251 TGAAGTGGAGCGGATTAAAGTTGTGGGCAGCAAATCCTATCTCTTTGGCATTATAGTGGAACAGA
65 TGAAGTGGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTATAGTGGAACAGA
* *
5866316 TTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGTGTTGT
130 TTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGC
* * *
5866356 AGCGGAGCAGATTAAAGCTGAGGGCAGCGAATTTTATCTCCCTGGTGTTAAGACTTGAAATAGCT
1 AGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGTGTTAAGACTTGAAAAAGCT
* * *
5866421 GAGGTGGAGCGGATTAAAGCTGTGGGTAGCAAATCCTATCTCTTTGGCATTATAGTGGAATAGAT
66 GAAGTGGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTATAGTGGAACAGAT
* * * * * *
5866486 TAAGGCTAAAGGTAGCAAATCTGGTTTCCCTGGTGTTGT
131 TAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGC
* *
5866525 AGCGGGGCAGATTAAAGCTGAAGGCAGCGAATCTCATCTCCCTG
1 AGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTG
5866569 ACGATAAAAT
Statistics
Matches: 504, Mismatches: 41, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
168 5 0.01
169 345 0.68
170 148 0.29
171 6 0.01
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.26
Consensus pattern (169 bp):
AGCGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGTGTTAAGACTTGAAAAAGCT
GAAGTGGAGCGGATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTGGCATTATAGTGGAACAGAT
TAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCGTTGC
Found at i:5871256 original size:14 final size:15
Alignment explanation
Indices: 5871218--5871258 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
5871208 AGGAACAACA
5871218 GAAACAAAAAAGGAG
1 GAAACAAAAAAGGAG
5871233 GAAACAAAAAAGGAG
1 GAAACAAAAAAGGAG
* *
5871248 AAAATAAAAAA
1 GAAACAAAAAA
5871259 CAAAAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.73, C:0.05, G:0.20, T:0.02
Consensus pattern (15 bp):
GAAACAAAAAAGGAG
Found at i:5875397 original size:33 final size:33
Alignment explanation
Indices: 5875354--5875424 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
5875344 CCTCCACCGG
*
5875354 GGTAATGTCTTTCTCATTAGTTTATGGAATGGA
1 GGTAACGTCTTTCTCATTAGTTTATGGAATGGA
*
5875387 GGTAACGTCTTTCTCATTGGTTTATGGAATGGA
1 GGTAACGTCTTTCTCATTAGTTTATGGAATGGA
5875420 GGTAA
1 GGTAA
5875425 TCTTGCCCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.24, C:0.10, G:0.27, T:0.39
Consensus pattern (33 bp):
GGTAACGTCTTTCTCATTAGTTTATGGAATGGA
Found at i:5876886 original size:144 final size:144
Alignment explanation
Indices: 5876690--5876991 Score: 419
Period size: 144 Copynumber: 2.1 Consensus size: 144
5876680 AAATCATTTG
* * * * ** * *
5876690 TCCCTAAAGTTACAGTGGGTTGGATTGAAGTTACCATAGCGAATCTTATCTCCATGAAGTTACAG
1 TCCCTAAAGTTGCAATGGGTCGGATTAAAACTACCATAGCAAATCTTATCTCCATAAAGTTACAG
* *
5876755 TGGAGTAAGATAAAGCTACAAGTCCTATACCCCTGAAGTTATAGTAGGTC-GAATCGAAACTACA
66 TGGAGCAAGATAAAGCTACAAGTCCTATACCCCTGAAGTTACAGTAGGTCAGAAT-GAAACTACA
*
5876819 ACGGCAAATCTTGTC
130 ACGGCAAATCTTATC
* *
5876834 TCCCTAAAGTTGCAATGGGTCGGATTAAAACTA-CAGTAGCAAATCTTATCTCCCTAAAGTTGCA
1 TCCCTAAAGTTGCAATGGGTCGGATTAAAACTACCA-TAGCAAATCTTATCTCCATAAAGTTACA
* * *
5876898 GTGGAGCAAGATAAAGCTACAAGTCCTATACCCCTGAAGTTGCAGTGGGTCAGACTGAAACTACA
65 GTGGAGCAAGATAAAGCTACAAGTCCTATACCCCTGAAGTTACAGTAGGTCAGAATGAAACTACA
*
5876963 ACGGCGAATCTTATC
130 ACGGCAAATCTTATC
5876978 TCCCTAAAGTTGCA
1 TCCCTAAAGTTGCA
5876992 GTAGAGCAAA
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
143 2 0.01
144 134 0.96
145 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (144 bp):
TCCCTAAAGTTGCAATGGGTCGGATTAAAACTACCATAGCAAATCTTATCTCCATAAAGTTACAG
TGGAGCAAGATAAAGCTACAAGTCCTATACCCCTGAAGTTACAGTAGGTCAGAATGAAACTACAA
CGGCAAATCTTATC
Found at i:5876918 original size:50 final size:49
Alignment explanation
Indices: 5876822--5877085 Score: 150
Period size: 50 Copynumber: 5.5 Consensus size: 49
5876812 AACTACAACG
* * * *
5876822 GCAAATCTTGTCTCCCTAAAGTTGCAATGGGTCGGATTAAAACTACAGTA
1 GCAAATCTTATCTCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACA-TA
5876872 GCAAATCTTATCTCCCTAAAGTTGCAGTGGAG-CAAGA-TAAAGCTACA-A
1 GCAAATCTTATCTCCCTAAAGTTGCAGTGG-GTC-AGATTAAAGCTACATA
* * *
5876920 G----TCCTATAC-CCCTGAAGTTGCAGTGGGTCAGACTGAAA-CTACA-A
1 GCAAATCTTAT-CTCCCTAAAGTTGCAGTGGGTCAGA-TTAAAGCTACATA
* * * *
5876964 CGGCGAATCTTATCTCCCTAAAGTTGCAGTAGAG-CAAAATAAAG---C-TA
1 --GCAAATCTTATCTCCCTAAAGTTGCAGT-GGGTCAGATTAAAGCTACATA
* * * *
5877011 -CAAATCCTA-CACCCTTGAAGTTGTAGTGGGTCAGATTGAAA-CTACAGTA
1 GCAAATCTTATCTCCC-TAAAGTTGCAGTGGGTCAGATT-AAAGCTACA-TA
* *
5877060 GCGAATCTTATCTCCTTAAAGTTGCA
1 GCAAATCTTATCTCCCTAAAGTTGCA
5877086 ATGGAGCAAG
Statistics
Matches: 161, Mismatches: 27, Indels: 52
0.67 0.11 0.22
Matches are distributed among these distances:
43 10 0.06
44 49 0.30
45 7 0.04
46 1 0.01
47 3 0.02
48 2 0.01
49 6 0.04
50 75 0.47
51 8 0.05
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (49 bp):
GCAAATCTTATCTCCCTAAAGTTGCAGTGGGTCAGATTAAAGCTACATA
Found at i:5877254 original size:282 final size:282
Alignment explanation
Indices: 5876875--5877382 Score: 748
Period size: 282 Copynumber: 1.8 Consensus size: 282
5876865 TACAGTAGCA
* *
5876875 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAAGATAAAGCTACAAGTCCTATACCCCTGAAGTTG
1 AATCTTATCTCCATAAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTG
*
5876940 CAGTGGGTCAGACTGAAACTACAACGGCGAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAAATA
66 CAGTGGGTCAGACTGAAACTACAACAGCGAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAAATA
* * * * * * ** * *
5877005 AAGCTACAAATCCTACACCCTTGAAGTTGTAGTGGGTCAGATTGAAACTACAGTAGCGAATCTTA
131 AAGCTACAAATCCTACACCCCTAAAGATGCAATGGGTCAGAATGAAACTACAACAACAAATCTTA
5877070 TCTCCTTAAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCGATACCCTTGAAGTTGTAGTGGA
196 TCTCCTTAAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCGATACCCTTGAAGTTGTAGTGGA
5877135 TAGGATTGAAACTACGATGGCG
261 TAGGATTGAAACTACGATGGCG
* * * *
5877157 AATCTTATCTCCATGAAGTTGCAGTGGAGTAAGATAAAGCTACAAATCTTATACCCTTGAAGTTG
1 AATCTTATCTCCATAAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTG
* * * * * *
5877222 CAGTGTGTC-GAATTGAAACTACAATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGAT
66 CAGTGGGTCAG-ACTGAAACTACAACAGCGAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAAAT
* * **
5877286 GAAGCTACAAATCCTATACCCCTAAAGATGCAATGGGTTGGAATGAAACTACAACAACAAATCTT
130 AAAGCTACAAATCCTACACCCCTAAAGATGCAATGGGTCAGAATGAAACTACAACAACAAATCTT
*
5877351 ATCTCTTTAAAGTTGCAATGGAGCAAGATGAA
195 ATCTCCTTAAAGTTGCAATGGAGCAAGATGAA
5877383 ACTGTGACAC
Statistics
Matches: 197, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
281 1 0.01
282 196 0.99
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (282 bp):
AATCTTATCTCCATAAAGTTGCAGTGGAGCAAGATAAAGCTACAAATCCTATACCCCTGAAGTTG
CAGTGGGTCAGACTGAAACTACAACAGCGAATCTTATCTCCCTAAAGTTGCAGTAGAGCAAAATA
AAGCTACAAATCCTACACCCCTAAAGATGCAATGGGTCAGAATGAAACTACAACAACAAATCTTA
TCTCCTTAAAGTTGCAATGGAGCAAGATGAAGCTACAAATCCGATACCCTTGAAGTTGTAGTGGA
TAGGATTGAAACTACGATGGCG
Found at i:5877382 original size:94 final size:94
Alignment explanation
Indices: 5876835--5877379 Score: 667
Period size: 94 Copynumber: 5.8 Consensus size: 94
5876825 AATCTTGTCT
* * * * *
5876835 CCCTAAAGTTGCAATGGGTCGGATTAAAACTACAGTAGCAAATCTTATCTCCCTAAAGTTGCAGT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
*
5876900 GGAGCAAGATAAAGCTACAAGTCCTATAC
66 GGAGCAAGATAAAGCTACAAATCCTATAC
* * **
5876929 CCCTGAAGTTGCAGTGGGTCAGACTGAAACTACAACGGCGAATCTTATCTCCCTAAAGTTGCAGT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
* * *
5876994 AGAGCAAAATAAAGCTACAAATCCTACAC
66 GGAGCAAGATAAAGCTACAAATCCTATAC
* * * * * *
5877023 CCTTGAAGTTGTAGTGGGTCAGATTGAAACTACAGTAGCGAATCTTATCTCCTTAAAGTTGCAAT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
* *
5877088 GGAGCAAGATGAAGCTACAAATCCGATAC
66 GGAGCAAGATAAAGCTACAAATCCTATAC
* * * * * * * *
5877117 CCTTGAAGTTGTAGTGGATAGGATTGAAACTACGATGGCGAATCTTATCTCCATGAAGTTGCAGT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
* *
5877182 GGAGTAAGATAAAGCTACAAATCTTATAC
66 GGAGCAAGATAAAGCTACAAATCCTATAC
* * * *
5877211 CCTTGAAGTTGCAGTGTGTCGAATTGAAACTACAATAGCGAATCTTATCTCCCTGAAGTTGCAGT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
*
5877276 GGAGCAAGATGAAGCTACAAATCCTATAC
66 GGAGCAAGATAAAGCTACAAATCCTATAC
* * * * * * * * ** *
5877305 CCCTAAAGATGCAATGGGTTGGAATGAAACTACAACAACAAATCTTATCTCTTTAAAGTTGCAAT
1 CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
5877370 GGAGCAAGAT
66 GGAGCAAGAT
5877380 GAAACTGTGA
Statistics
Matches: 386, Mismatches: 65, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
94 386 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (94 bp):
CCCTGAAGTTGCAGTGGGTCGGATTGAAACTACAATAGCGAATCTTATCTCCCTAAAGTTGCAGT
GGAGCAAGATAAAGCTACAAATCCTATAC
Found at i:5877620 original size:3 final size:3
Alignment explanation
Indices: 5877606--5877634 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
5877596 TCGTCCGGCC
5877606 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5877635 AAGTCCATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:5877698 original size:18 final size:18
Alignment explanation
Indices: 5877677--5877715 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
5877667 AATACAAAAA
5877677 AAAAAAAACTAAAAGCCC
1 AAAAAAAACTAAAAGCCC
** *
5877695 AAAAAACCCTTAAAGCCC
1 AAAAAAAACTAAAAGCCC
5877713 AAA
1 AAA
5877716 GACCACTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.26, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAAAAACTAAAAGCCC
Found at i:5878133 original size:21 final size:20
Alignment explanation
Indices: 5878100--5878148 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
5878090 AAAAAAAAAG
*
5878100 AAAAAAAGAAATAGAATACAA
1 AAAAAAACAAATA-AATACAA
* **
5878121 AAAAAAACCAATAAATTTAA
1 AAAAAAACAAATAAATACAA
5878141 AAAAAAAC
1 AAAAAAAC
5878149 GAAGGTAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.76, C:0.08, G:0.04, T:0.12
Consensus pattern (20 bp):
AAAAAAACAAATAAATACAA
Found at i:5888294 original size:32 final size:30
Alignment explanation
Indices: 5888230--5888295 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 30
5888220 TAAATTTCAA
* *
5888230 AAAATTTTAAAAATATGAAACTATTTTTTT
1 AAAATTTTAAAAATATGAAACAATATTTTT
* *
5888260 AAAATTATTAAAAATCATTAAAGAATATTTTT
1 AAAATT-TTAAAAAT-ATGAAACAATATTTTT
5888292 AAAA
1 AAAA
5888296 AAATTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 6 0.20
31 8 0.27
32 16 0.53
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAATTTTAAAAATATGAAACAATATTTTT
Found at i:5889158 original size:16 final size:16
Alignment explanation
Indices: 5889139--5889174 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5889129 TCTCTTTGTT
*
5889139 TTTTTTATATTTTTTC
1 TTTTTTATATTTCTTC
*
5889155 TTTTTTTTATTTCTTC
1 TTTTTTATATTTCTTC
5889171 TTTT
1 TTTT
5889175 ATAATATCAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTTTATATTTCTTC
Found at i:5889483 original size:23 final size:22
Alignment explanation
Indices: 5889438--5889483 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
5889428 CGGTGTTTTG
* *
5889438 TATTTTTAAAATTTTTATGTTT
1 TATTTTTAAAATTTTAATATTT
*
5889460 TATTTTTATGAATTTTAATATTT
1 TATTTTTA-AAATTTTAATATTT
5889483 T
1 T
5889484 TTTAGATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TATTTTTAAAATTTTAATATTT
Found at i:5892427 original size:6 final size:6
Alignment explanation
Indices: 5892408--5892460 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
5892398 CTATAAAATA
* *
5892408 AATATT AA-ATTT AATATT AATATT AATATT AATATC AATATC AATATT
1 AATATT AATA-TT AATATT AATATT AATATT AATATT AATATT AATATT
5892456 AATAT
1 AATAT
5892461 AATCACTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 1 0.02
6 41 0.95
7 1 0.02
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (6 bp):
AATATT
Found at i:5893027 original size:13 final size:13
Alignment explanation
Indices: 5893009--5893033 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5892999 TAATTTTCAA
5893009 GAAAATTCTTTAC
1 GAAAATTCTTTAC
5893022 GAAAATTCTTTA
1 GAAAATTCTTTA
5893034 ATCAAATTCT
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:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (13 bp):
GAAAATTCTTTAC
Found at i:5896761 original size:9 final size:9
Alignment explanation
Indices: 5896747--5896783 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
5896737 TATAGTTTGA
5896747 TATTCGAAT
1 TATTCGAAT
5896756 TATTCGAAT
1 TATTCGAAT
*
5896765 TATTCGAGT
1 TATTCGAAT
5896774 TATTCGAAT
1 TATTCGAAT
5896783 T
1 T
5896784 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:5896854 original size:9 final size:9
Alignment explanation
Indices: 5896837--5896867 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5896827 TCGAGTTGAT
5896837 TCGAATAAC
1 TCGAATAAC
*
5896846 TCGATTAAC
1 TCGAATAAC
5896855 TCGAATAAC
1 TCGAATAAC
5896864 TCGA
1 TCGA
5896868 TTCGTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:5902103 original size:25 final size:24
Alignment explanation
Indices: 5902050--5902097 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
5902040 TAATATATAA
*
5902050 CATTTGAAAAATTCTTATTTGAAG
1 CATTTGAAAAAGTCTTATTTGAAG
*
5902074 AATTTGAAAAAGGTCGTTATTTGA
1 CATTTGAAAAA-GTC-TTATTTGA
5902098 TCATTTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 10 0.50
25 2 0.10
26 8 0.40
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (24 bp):
CATTTGAAAAAGTCTTATTTGAAG
Found at i:5906557 original size:14 final size:14
Alignment explanation
Indices: 5906538--5906568 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
5906528 CAAGGTTCGA
5906538 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
*
5906552 GTTTAGGGTTTGAG
1 GTTTAGGGTTTAAG
5906566 GTT
1 GTT
5906569 CAAATTTAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.39, T:0.45
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:5906568 original size:34 final size:34
Alignment explanation
Indices: 5906530--5906602 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
5906520 CTTAGGTTCA
* * * *
5906530 AGGTTCGAGTTTAGGGTTTAAGGTTTAGGGTTTG
1 AGGTTCAAATTTAAGGTTCAAGGTTTAGGGTTTG
*
5906564 AGGTTCAAATTTAAGGTTCAAGGTTTGGGGTTTG
1 AGGTTCAAATTTAAGGTTCAAGGTTTAGGGTTTG
*
5906598 GGGTT
1 AGGTT
5906603 TGGGGTTCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.19, C:0.04, G:0.37, T:0.40
Consensus pattern (34 bp):
AGGTTCAAATTTAAGGTTCAAGGTTTAGGGTTTG
Found at i:5906595 original size:7 final size:7
Alignment explanation
Indices: 5906585--5906609 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5906575 TAAGGTTCAA
5906585 GGTTTGG
1 GGTTTGG
5906592 GGTTTGG
1 GGTTTGG
5906599 GGTTTGG
1 GGTTTGG
5906606 GGTT
1 GGTT
5906610 CAAGGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.00, G:0.56, T:0.44
Consensus pattern (7 bp):
GGTTTGG
Found at i:5909130 original size:2 final size:2
Alignment explanation
Indices: 5909123--5909157 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5909113 ATATTTGCAA
5909123 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5909158 CAATATAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5911317 original size:44 final size:44
Alignment explanation
Indices: 5911252--5911469 Score: 121
Period size: 44 Copynumber: 5.0 Consensus size: 44
5911242 CTGTATCTTC
5911252 AGGGAGATAAGA-CTTGT-ATCTTCGATCTACTCCACTACTGCCT
1 AGGGAGATAAGATC-TGTAATCTTCGATCTACTCCACTACTGCCT
* * *
5911295 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTATTGTCC-
1 AGGGAGATAAGATCTGTAATCTTCGATCTACTCCACTACTG-CCT
* * * * * * *
5911339 ATGGAGAT-AGA-AT-TATTGACTTCAATGTACTCCACT-GTAACCT
1 AGGGAGATAAGATCTGTAAT--CTTCGATCTACTCCACTACT-GCCT
* * * * * * * *
5911382 CAGTGAGGTAAAATCCGTCATCCTT-GATCTGCTCAACTACTGCTT
1 -AGGGAGATAAGATCTGTAAT-CTTCGATCTACTCCACTACTGCCT
* *
5911427 AGGGAGATAAGATCTGTAATCTTTGATCTA-TCCCACTGCTGCC
1 AGGGAGATAAGATCTGTAATCTTCGATCTACT-CCACTACTGCC
5911470 CATGGGGATA
Statistics
Matches: 126, Mismatches: 35, Indels: 27
0.67 0.19 0.14
Matches are distributed among these distances:
41 3 0.02
42 4 0.03
43 37 0.29
44 61 0.48
45 15 0.12
46 4 0.03
47 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCGATCTACTCCACTACTGCCT
Found at i:5911615 original size:45 final size:42
Alignment explanation
Indices: 5911556--5912769 Score: 626
Period size: 44 Copynumber: 27.4 Consensus size: 42
5911546 TCCAATACAT
* *
5911556 GAAGACAAGGTCTGTTCTTTTCGATCTACTCCACCATCAGTATGG
1 GAAGACAAGATCTGTT-TTTT-GATCTACTTCACCA-CAGTATGG
* ***
5911601 GGAGACAAGATCTGTTGTCTTTGATCTA-TT-A-CAC-GCTAAAT
1 GAAGACAAGATCTGTT-T-TTTGATCTACTTCACCACAG-TATGG
* **
5911642 GAAGACAAGATCTATTTTTTCGATCTGTTTCACCACCAGTATGG
1 GAAGACAAGATCTGTTTTTT-GATCTACTTCACCA-CAGTATGG
* * * * ***
5911686 GAAGACAATATCTATTATCTTTGATCTACTCCACGC-TAGTACAC
1 GAAGACAAGATCTGTT-T-TTTGATCTACTTCAC-CACAGTATGG
*
5911730 GAAGACAAGATCTGCTTTCTTTGATCTGCTTCACCACTAGTATGG
1 GAAGACAAGATCTG-TTT-TTTGATCTACTTCACCAC-AGTATGG
* ***
5911775 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGC-CAGTACAT
1 GAAGACAAGATCTGTT-T-TTTGATCTACTTCAC-CACAGTATGG
*
5911819 GAAGACAAGATCTGTTTTCTTTGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTG-TTT-TTTGATCTACTTCACCA-CAGTATGG
* ***
5911864 GAAGACAAGATCTCGTATCTTTGATCTACTTCACGC-CAGTACAT
1 GAAGACAAGATCT-GT-TTTTTGATCTACTTCAC-CACAGTATGG
**
5911908 GAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAGTATGG
1 GAAGACAAGATCTGTTTT-TT-GATCTACTTCACCA-CAGTATGG
* * ***
5911953 GAATACAAGATCTGGTATCTTTGATCTACTTCACGC-CAGTACAT
1 GAAGACAAGATCT-GT-TTTTTGATCTACTTCAC-CACAGTATGG
* * * * *
5911997 GAAGACAATATCTGCTTTCTTAGATCTGCTTCGCCGCCAGTATGG
1 GAAGACAAGATCTG-TTT-TTTGATCTACTTCACC-ACAGTATGG
* ** * ***
5912042 AAAGGTAAGATTTGTTATCTTTGATCTACTTCACGC-CAGTACAT
1 GAAGACAAGATCTGTT-T-TTTGATCTACTTCAC-CACAGTATGG
*
5912086 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGTTTT-TT-GATCTACTTCACCA-CAGTATGG
* * * ***
5912131 GAAGACAAGATCTGGTATCTTTGATGTACTTCACGC-CAGAACAT
1 GAAGACAAGATCT-GT-TTTTTGATCTACTTCAC-CACAGTATGG
5912175 GAAGACAAGATCTGTTTTCTTTGATCTACTTCAGCGC-CAGTATGG
1 GAAGACAAGATCTG-TTT-TTTGATCTACTTCA-C-CACAGTATGG
* ***
5912220 GAAGACAAGATCTGGTATCTTTGATCTACTTCACGC-CAGTACAT
1 GAAGACAAGATCT-GT-TTTTTGATCTACTTCAC-CACAGTATGG
* * * * *
5912264 GAAGACAAGATCTGCTTTATTCGATCTGCTTCGCCGCCAGTATGA
1 GAAGACAAGATCTG-TTT-TTTGATCTACTTCACC-ACAGTATGG
* * ***
5912309 AAAGGCAAGATCTGTTATCTTTGATCTACTTCACGC-CAGTACAT
1 GAAGACAAGATCTGTT-T-TTTGATCTACTTCAC-CACAGTATGG
* * * *
5912353 GAAGAGAAGATTTGTTTTCTTCGATCTGCTTCACCACCGGTATGG
1 GAAGACAAGATCTGTTTT-TT-GATCTACTTCACCA-CAGTATGG
* ***
5912398 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGC-CAGTACAT
1 GAAGACAAGATCTGTT-T-TTTGATCTACTTCAC-CACAGTATGG
* * * *
5912442 GAAGACAATATCTATTTTTTTCGATCTACTTCGCCACCAGTATAG
1 GAAGACAAGATCT-GTTTTTT-GATCTACTTCACCA-CAGTATGG
* * ***
5912487 GAAGACAAGATCTGTTATCTTTGATCTACGTCACGC-CAATACAT
1 GAAGACAAGATCTGTT-T-TTTGATCTACTTCAC-CACAGTATGG
* * ** * *
5912531 GAAGACAAGATCTACTTTCTTCGATCTGTTTCGCCGCCAGTATGG
1 GAAGACAAGATCT-GTTT-TTTGATCTACTTCACC-ACAGTATGG
* **
5912576 GAAGGCAAGATCTGTTATCTTTGATCTACTTCACGC-CAGTATAT
1 GAAGACAAGATCTGTT-T-TTTGATCTACTTCAC-CACAGTATGG
* * *
5912620 GAAGACAAGATTTGTTTTCTTCGATCTGCTTCACCACCAATATGG
1 GAAGACAAGATCTGTTTT-TT-GATCTACTTCACCA-CAGTATGG
* * ***
5912665 GAAGACAAGATCTGGTATCTTTGATCTACTTCATGC-CAGTACAT
1 GAAGACAAGATCT-GT-TTTTTGATCTACTTCA-CCACAGTATGG
* * * * *
5912709 GAAGATAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATAG
1 GAAGACAAGATCTG-TTT-TTTGATCTACTTCACCA-CAGTATGG
*
5912754 GAAGGCAAGATCTGTT
1 GAAGACAAGATCTGTT
5912770 ATCTTTCAAC
Statistics
Matches: 896, Mismatches: 190, Indels: 167
0.72 0.15 0.13
Matches are distributed among these distances:
39 3 0.00
40 7 0.01
41 19 0.02
42 8 0.01
43 38 0.04
44 389 0.43
45 386 0.43
46 39 0.04
47 7 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (42 bp):
GAAGACAAGATCTGTTTTTTGATCTACTTCACCACAGTATGG
Found at i:5911699 original size:44 final size:44
Alignment explanation
Indices: 5911556--5912775 Score: 707
Period size: 45 Copynumber: 27.5 Consensus size: 44
5911546 TCCAATACAT
* * * *
5911556 GAAGACAAGGTCT-GTTCTTTTCGATCTACTCCACCATCAGTATGG
1 GAAGACAAGATCTATTTC-TTT-GATCTACTTCACCACCAGTATGG
* * *
5911601 GGAGACAAGATCTGTTGTCTTTGATCTA-TT-A-CACGCTA-AAT--
1 GAAGACAAGATCTATT-TCTTTGATCTACTTCACCAC-C-AGTATGG
**
5911642 GAAGACAAGATCTATTT-TTTCGATCTGTTTCACCACCAGTATGG
1 GAAGACAAGATCTATTTCTTT-GATCTACTTCACCACCAGTATGG
* * * * ***
5911686 GAAGACAATATCTATTATCTTTGATCTACTCCA-CGCTAGTACAC
1 GAAGACAAGATCTATT-TCTTTGATCTACTTCACCACCAGTATGG
* * *
5911730 GAAGACAAGATCTGCTTTCTTTGATCTGCTTCACCACTAGTATGG
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * * ***
5911775 GAAGGCAAGATCTGTTATCTTTGATCTACTTCA-CGCCAGTACAT
1 GAAGACAAGATCTATT-TCTTTGATCTACTTCACCACCAGTATGG
* *
5911819 GAAGACAAGATCTGTTTTCTTTGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * * ***
5911864 GAAGACAAGATCTCGTATCTTTGATCTACTTCA-CGCCAGTACAT
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * **
5911908 GAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAGTATGG
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * * * ***
5911953 GAATACAAGATCTGGTATCTTTGATCTACTTCA-CGCCAGTACAT
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * * * * *
5911997 GAAGACAATATCTGCTTTCTTAGATCTGCTTCGCCGCCAGTATGG
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* ** * * * ***
5912042 AAAGGTAAGATTTGTTATCTTTGATCTACTTCA-CGCCAGTACAT
1 GAAGACAAGATCTATT-TCTTTGATCTACTTCACCACCAGTATGG
* * *
5912086 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * * * * ***
5912131 GAAGACAAGATCTGGTATCTTTGATGTACTTCA-CGCCAGAACAT
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * *
5912175 GAAGACAAGATCTGTTTTCTTTGATCTACTTCAGCGCCAGTATGG
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * * ***
5912220 GAAGACAAGATCTGGTATCTTTGATCTACTTCA-CGCCAGTACAT
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * * * * * *
5912264 GAAGACAAGATCTGCTTTATTCGATCTGCTTCGCCGCCAGTATGA
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * * * ***
5912309 AAAGGCAAGATCTGTTATCTTTGATCTACTTCA-CGCCAGTACAT
1 GAAGACAAGATCTATT-TCTTTGATCTACTTCACCACCAGTATGG
* * * * * *
5912353 GAAGAGAAGATTTGTTTTCTTCGATCTGCTTCACCACCGGTATGG
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * * ***
5912398 GAAGGCAAGATCTGTTATCTTTGATCTACTTCA-CGCCAGTACAT
1 GAAGACAAGATCTATT-TCTTTGATCTACTTCACCACCAGTATGG
* * * *
5912442 GAAGACAATATCTATTTTTTTCGATCTACTTCGCCACCAGTATAG
1 GAAGACAAGATCTATTTCTTT-GATCTACTTCACCACCAGTATGG
* * * * ***
5912487 GAAGACAAGATCTGTTATCTTTGATCTACGTCA-CGCCAATACAT
1 GAAGACAAGATCTATT-TCTTTGATCTACTTCACCACCAGTATGG
* ** * *
5912531 GAAGACAAGATCTACTTTCTTCGATCTGTTTCGCCGCCAGTATGG
1 GAAGACAAGATCTA-TTTCTTTGATCTACTTCACCACCAGTATGG
* * * **
5912576 GAAGGCAAGATCTGTTATCTTTGATCTACTTCA-CGCCAGTATAT
1 GAAGACAAGATCTATT-TCTTTGATCTACTTCACCACCAGTATGG
* * * * *
5912620 GAAGACAAGATTTGTTTTCTTCGATCTGCTTCACCACCAATATGG
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * ** ***
5912665 GAAGACAAGATCTGGTATCTTTGATCTACTTCA-TGCCAGTACAT
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* * * * * *
5912709 GAAGATAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATAG
1 GAAGACAAGATCT-ATTTCTTTGATCTACTTCACCACCAGTATGG
* *
5912754 GAAGGCAAGATCTGTTATCTTT
1 GAAGACAAGATCTATT-TCTTT
5912776 CAACCTGCTC
Statistics
Matches: 900, Mismatches: 236, Indels: 78
0.74 0.19 0.06
Matches are distributed among these distances:
39 3 0.00
40 6 0.01
41 17 0.02
42 6 0.01
43 11 0.01
44 420 0.47
45 424 0.47
46 11 0.01
47 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTATTTCTTTGATCTACTTCACCACCAGTATGG
Found at i:5911777 original size:89 final size:89
Alignment explanation
Indices: 5911532--5912775 Score: 1694
Period size: 89 Copynumber: 14.0 Consensus size: 89
5911522 TCTGCTGTGC
* * * * * * *
5911532 TTGATCTACTTCACTCCAATACATGAAGACAAGGTCTGTTCTT-TTCGATCTACTCCACCATCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTT-TTCTTCGATCTGCTTCGCCACCAG
* *
5911596 TATGGGGAGACAAGATCTGTTGTCT
65 TATGGGAAGACAAGATCTGTTATCT
* * * *
5911621 TTGATCTA-TTACACG-C--TAAATGAAGACAAGATCTATTTT-TTCGATCTGTTTCACCACCAG
1 TTGATCTACTT-CACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAG
* *
5911681 TATGGGAAGACAATATCTATTATCT
65 TATGGGAAGACAAGATCTGTTATCT
* * * * * * *
5911706 TTGATCTACTCCACGCTAGTACACGAAGACAAGATCTGCTTTCTTTGATCTGCTTCACCACTAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
*
5911771 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
5911795 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTTGATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
5911860 ATGGGAAGACAAGATCTCG-TATCT
66 ATGGGAAGACAAGATCT-GTTATCT
* *
5911884 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTTGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
* *
5911949 ATGGGAATACAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
5911973 TTGATCTACTTCACGCCAGTACATGAAGACAATATCTGCTTTCTTAGATCTGCTTCGCCGCCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
* ** *
5912038 ATGGAAAGGTAAGATTTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
*
5912062 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
*
5912127 ATGGGAAGACAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * *
5912151 TTGATGTACTTCACGCCAGAACATGAAGACAAGATCTGTTTTCTTTGATCTACTTCAG-CGCCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTC-GCCACCAG
*
5912215 TATGGGAAGACAAGATCTGGTATCT
65 TATGGGAAGACAAGATCTGTTATCT
* * *
5912240 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTATTCGATCTGCTTCGCCGCCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
** *
5912305 ATGAAAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
5912329 TTGATCTACTTCACGCCAGTACATGAAGAGAAGATTTGTTTTCTTCGATCTGCTTCACCACCGGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
*
5912394 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
5912418 TTGATCTACTTCACGCCAGTACATGAAGACAATATCTATTTTTTTCGATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
*
5912483 ATAGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * ** * *
5912507 TTGATCTACGTCACGCCAATACATGAAGACAAGATCTACTTTCTTCGATCTGTTTCGCCGCCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
*
5912572 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * *
5912596 TTGATCTACTTCACGCCAGTATATGAAGACAAGATTTGTTTTCTTCGATCTGCTTCACCACCAAT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
*
5912661 ATGGGAAGACAAGATCTGGTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
5912685 TTGATCTACTTCATGCCAGTACATGAAGATAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
* *
5912750 ATAGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
5912774 TT
1 TT
5912776 CAACCTGCTC
Statistics
Matches: 1023, Mismatches: 122, Indels: 20
0.88 0.10 0.02
Matches are distributed among these distances:
85 52 0.05
86 19 0.02
88 24 0.02
89 926 0.91
90 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:5920864 original size:20 final size:20
Alignment explanation
Indices: 5920839--5920878 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
5920829 TAAAGGTCTT
*
5920839 TAATGCATATGATGCGATGC
1 TAATGCATATGATACGATGC
5920859 TAATGCATATGATACGATGC
1 TAATGCATATGATACGATGC
5920879 ATAAGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (20 bp):
TAATGCATATGATACGATGC
Found at i:5924435 original size:2 final size:2
Alignment explanation
Indices: 5924428--5924466 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
5924418 ATATTTGCAA
5924428 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5924467 CAATATCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5928234 original size:18 final size:16
Alignment explanation
Indices: 5928199--5928238 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 16
5928189 CCCGGCTCAG
5928199 TAAACACCAAAAATAAA
1 TAAA-ACCAAAAATAAA
5928216 TAAAACCAATAAATAAAA
1 TAAAACCAA-AAAT-AAA
5928234 TAAAA
1 TAAAA
5928239 GTCCAAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 8 0.38
18 8 0.38
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.15
Consensus pattern (16 bp):
TAAAACCAAAAATAAA
Found at i:5929361 original size:3 final size:3
Alignment explanation
Indices: 5929353--5929433 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
5929343 ATTAGTTTAA
* * * * * *
5929353 TAT TAT TAT TAG TAT TAT TAT TTT TGT TGT TGT TGT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* ** *
5929401 TAT TAC TAT TAT TAT TGC TAT TAA TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5929434 CTATATATAT
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:5929445 original size:18 final size:17
Alignment explanation
Indices: 5929389--5929449 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
5929379 TTGTTGTTGT
5929389 TATTATTAT-TATTATTA
1 TATTATTATCTATTA-TA
5929406 CTATTATTATTGCTATTA-A
1 -TATTATTA-T-CTATTATA
5929425 TATTATTATCTA-TATA
1 TATTATTATCTATTATA
5929441 TATATATTA
1 TAT-TATTA
5929450 ATTTACTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
15 2 0.05
16 7 0.18
17 6 0.16
18 16 0.42
19 2 0.05
21 5 0.13
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (17 bp):
TATTATTATCTATTATA
Found at i:5934611 original size:16 final size:16
Alignment explanation
Indices: 5934590--5934620 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
5934580 TGTTTTGTTT
5934590 TGATTGCATGGCATTA
1 TGATTGCATGGCATTA
*
5934606 TGATTGCATTGCATT
1 TGATTGCATGGCATT
5934621 TTCATCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.42
Consensus pattern (16 bp):
TGATTGCATGGCATTA
Found at i:5939237 original size:41 final size:40
Alignment explanation
Indices: 5939180--5939295 Score: 133
Period size: 41 Copynumber: 2.8 Consensus size: 40
5939170 TGATTGAATG
* * * *
5939180 TAATTCAGACTTATTGTCTAGCAGGCTTGATGCCGGTGATA
1 TAATTCAGAC-TATTGTCTAGCAGGCTTAAAGCCAGTGAAA
5939221 TAATTCAGACTCATTGTCTAGCAGGCTTAAAGCCAGTGAAA
1 TAATTCAGACT-ATTGTCTAGCAGGCTTAAAGCCAGTGAAA
* * * *
5939262 TTATTCGGACTATAAGTCTAGCAGGCTAAAAGCC
1 TAATTCAGACTAT-TGTCTAGCAGGCTTAAAGCC
5939296 GGTGTATTAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
40 3 0.05
41 62 0.95
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (40 bp):
TAATTCAGACTATTGTCTAGCAGGCTTAAAGCCAGTGAAA
Found at i:5939619 original size:2 final size:2
Alignment explanation
Indices: 5939612--5939644 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5939602 CACTCGGTGT
5939612 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5939645 TGGTAAATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5940479 original size:21 final size:20
Alignment explanation
Indices: 5940437--5940479 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
5940427 TTATGTTTGA
5940437 ATTTGACTACATTTGATCATG
1 ATTTGACTACATTTGA-CATG
5940458 ATTTGAGCTTACATTTGA-ATG
1 ATTTGA-C-TACATTTGACATG
5940479 A
1 A
5940480 GATATTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 10 0.50
22 1 0.05
23 9 0.45
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (20 bp):
ATTTGACTACATTTGACATG
Found at i:5940826 original size:47 final size:46
Alignment explanation
Indices: 5940710--5940828 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 46
5940700 TGTTACAACT
* * * *
5940710 CGCAAAGGGCGTTTTGAGTCT--TAAAAAAGACTAAGGTGAAAACT
1 CGCAAAGGGCGCTTTGAGTCTAAAAAAAAAGACCAAGGTGAAAACC
* * *
5940754 CGCAAGGGGCGCCTTAAGTTCTAAAAAAAAAGACCAAGGTGAAAACC
1 CGCAAAGGGCGCTTTGAG-TCTAAAAAAAAAGACCAAGGTGAAAACC
5940801 CGCAAAGGGCGCTTTGAGTCATAAAAAA
1 CGCAAAGGGCGCTTTGAGTC-TAAAAAA
5940829 TAATATAAAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 14 0.23
45 3 0.05
46 2 0.03
47 42 0.69
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (46 bp):
CGCAAAGGGCGCTTTGAGTCTAAAAAAAAAGACCAAGGTGAAAACC
Found at i:5941821 original size:24 final size:24
Alignment explanation
Indices: 5941775--5941822 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
5941765 TCAAATTTTA
*
5941775 TGAAGATTACAGTGGATTGAATCT
1 TGAAGATTACAGTGGATGGAATCT
*
5941799 TGAAGATTATAGTGGA-GGCAATCT
1 TGAAGATTACAGTGGATGG-AATCT
5941823 GGTTAAGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.31
Consensus pattern (24 bp):
TGAAGATTACAGTGGATGGAATCT
Found at i:5942370 original size:123 final size:123
Alignment explanation
Indices: 5942150--5943582 Score: 864
Period size: 123 Copynumber: 11.0 Consensus size: 123
5942140 GGCGTTACGA
* * *
5942150 CTGAAGACAGCGAATCTTATTTCATTGGCGTTGCAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
1 CTGAAGACAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * ** *
5942215 TATTGTTTCCCTGGCATTATAGTGGAATAGATTAAAGCTGAAATAGAGTGGATTAAAG
66 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAATAGAGTGGATTAAAG
* * ** * *
5942273 CTGAAGGCAGCGAATCTTATCTCATTGGCGTTATGGTGGAACAAATTAAAGCTAAAGGTAGTGAA
1 CTGAAGACAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
** * * * * * *
5942338 TCTTGTTTATCTAGCATTGCAGCGGAGCAGATTAAAGCTGAAAGCAGCGAATCTTATCTCCCTGG
66 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAA-TA--G------A-----GTGG
*
5942403 TGTTAAAG
117 -ATTAAAG
* * * * *
5942411 CTGAAGATAGCGAATCTTATTTCCCTGGCGTTCCAGTGGAACAGATTAAAGTTAAAGGTAGCGAA
1 CTGAAGACAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * * * * *
5942476 TCTCGTTTCTCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAGTGGAGTGGATTAAAG
66 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAATAGAGTGGATTAAAG
* * * * * * * *
5942534 CTCAAGGCAGCGAATCCTATCTCCTTGGTGTTATAGTGTAGCAGATTAAAGCTAAAGGTAGTGAA
1 CTGAAGACAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * * * * ***
5942599 TCTTATTTCCTTAGCGTTGCAGTGGAGCAGATTAAAACTGAAGGCAGCAAATCTTATCTCCTTGG
66 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATT---A---AA-GCTG-AAA---TA---GAGTGG
*
5942664 CGTTAAAG
117 -ATTAAAG
* * * * * * *
5942672 CTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAATGCTAAATGTAGCAAA
1 CTGAAGACAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * * * * **
5942737 TCTTGTTTCCCTGGCGTTGCAATGGAATAAATTAAAGCTAAAATGGAGCAGATTAAAG
66 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAATAGAGTGGATTAAAG
* * ** * * *
5942795 CTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAATAGATTAAAGCTAAATGTAGTGAA
1 CTGAAGACAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * * * ***
5942860 TCTTGTTTCCCTGACGTTGTAGAGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTAG
66 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT----G-A---AA---TA---GAGT-G
5942925 CG-TTAAAG
116 -GATTAAAG
* * * * * *
5942933 CTGAAGATAGCGAATCTTAT-TTCTGTGGCATTGCAGTGGAATAGATTAAAGCTAAAAGTAGCGA
1 CTGAAGACAGCGAATCTTATCTCCT-TGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGA
* * * *
5942997 ATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCT-AAAGTGGAGTGGATTAAAA
65 ATCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAA-TAGAGTGGATTAAAG
* * * * * *
5943056 CTCAAGACAGTGAATCCTATCTCCTTGGTGTTACAGTGGAACAGATTAAAGCTGAAGATCA-CGA
1 CTGAAGACAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGT-AGCGA
* * * * *
5943120 ATCTTATTTCCCTGGCGTTGCAGCGGAGCAGATTAAAGCTGAAGGTAGTGAATCTTATCTCCTTG
65 ATCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAA---A-T--A---GA-----GTG
* *
5943185 GCGTTAAAT
116 G-ATTAAAG
* * * * *
5943194 CTGAAGATAGCGAATCTTATTTTCC-TGGCGTTGCAGTGGAACAGATTAAAACTAAAGGTAGTGA
1 CTGAAGACAGCGAATCTTA-TCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGA
* * * **
5943258 ATCTTGTTTCCTTGGCGTTGCAATGGAATAGATTAAAGCTGAAATAGAGCAGATTAAAG
65 ATCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAATAGAGTGGATTAAAG
* * * * *
5943317 CTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAATAGATTAAAGCTAAATGTAGCGAA
1 CTGAAGACAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
** * * ***
5943382 TCTTGTTTCCCTGATGTTGTAGTGGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGG
66 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCT----G-A---AA---TA---GAGTGG
*
5943447 CGTTAAAG
117 -ATTAAAG
* * * * * * *
5943455 CTGAAGATAGTGAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAAGTAGCGAA
1 CTGAAGACAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
* * * *
5943520 TCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCT-AAAGTGGAGTGGATTGAAG
66 TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAA-TAGAGTGGATTAAAG
5943578 -TGAAG
1 CTGAAG
5943583 TCTTATCTCC
Statistics
Matches: 987, Mismatches: 240, Indels: 167
0.71 0.17 0.12
Matches are distributed among these distances:
122 10 0.01
123 447 0.45
124 16 0.02
126 2 0.00
127 7 0.01
128 2 0.00
129 8 0.01
130 6 0.01
131 8 0.01
132 7 0.01
134 5 0.01
135 3 0.00
137 14 0.01
138 447 0.45
139 5 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (123 bp):
CTGAAGACAGCGAATCTTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAA
TCTTGTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAATAGAGTGGATTAAAG
Found at i:5942423 original size:36 final size:36
Alignment explanation
Indices: 5942369--5942438 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
5942359 GCGGAGCAGA
5942369 TTAAAGCTGAAAGCAGCGAATCTTATCTCCCTGGTG
1 TTAAAGCTGAAAGCAGCGAATCTTATCTCCCTGGTG
* *
5942405 TTAAAGCTG-AAGATAGCGAATCTTATTTCCCTGG
1 TTAAAGCTGAAAG-CAGCGAATCTTATCTCCCTGG
5942439 CGTTCCAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 3 0.10
36 28 0.90
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (36 bp):
TTAAAGCTGAAAGCAGCGAATCTTATCTCCCTGGTG
Found at i:5942522 original size:21 final size:21
Alignment explanation
Indices: 5942496--5942535 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5942486 CTGGCGTTGT
5942496 AGTGGAATAGATTAAAGCTGA
1 AGTGGAATAGATTAAAGCTGA
* *
5942517 AGTGGAGTGGATTAAAGCT
1 AGTGGAATAGATTAAAGCT
5942536 CAAGGCAGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.33, T:0.25
Consensus pattern (21 bp):
AGTGGAATAGATTAAAGCTGA
Found at i:5942592 original size:261 final size:260
Alignment explanation
Indices: 5942128--5943582 Score: 1998
Period size: 261 Copynumber: 5.6 Consensus size: 260
5942118 AAGACACCAG
* * **
5942128 TCTTATCTCCCTGGCGTT-ACGACTGAAGACAGCGAATCTTATTTCATTGGCGTTGCAGTGGAAC
1 TCTTATCTCCCTGGCGTTAAAG-CTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
* * ** *
5942192 AGATTAAAGCTAAAGGTAGCGAATATTGTTTCCCTGGCATTATAGTGGAATAGATTAAAGCTGAA
65 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAA
* * * *
5942257 ATAGAGTGGATTAAAGCTGAAGGCAGCGAATCTTATCTCATTGGCGTTATGGTGGAACAAATTAA
130 ATGGAGTGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAACAGATTAA
** * *
5942322 AGCTAAAGGTAGTGAATCTTGTTTATCTAGCATTGCAGCGGAGCAGATTAAAGCTGAAAGCAGCG
195 AGCTAAAGGTAGTGAATCTTGTTTCCCT-GCGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCG
5942387 AA
259 AA
* *
5942389 TCTTATCTCCCTGGTGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTCCAGTGGAACA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * * * * *
5942454 GATTAAAGTTAAAGGTAGCGAATCTCGTTTCTCTGGCGTTGTAGTGGAATAGATTAAAGCTGAAG
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAAA
* * * * *
5942519 TGGAGTGGATTAAAGCTCAAGGCAGCGAATCCTATCTCCTTGGTGTTATAGTGTAGCAGATTAAA
131 TGGAGTGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAACAGATTAAA
* * * * *
5942584 GCTAAAGGTAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAGCAGATTAAAACTGAAGGCAGCAA
196 GCTAAAGGTAGTGAATCTTGTTTCCCT-GCGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGA
5942649 A
260 A
*
5942650 TCTTATCTCCTTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * * * *
5942715 GATTAATGCTAAATGTAGCAAATCTTGTTTCCCTGGCGTTGCAATGGAATAAATTAAAGCTAAAA
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAAA
** *
5942780 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAATAGATTAAA
131 TGGAGTGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAACAGATTAAA
* * *
5942845 GCTAAATGTAGTGAATCTTGTTTCCCTGACGTTGTAGAGGAGCAGATTAAAGCTGAAGGCAGCGA
196 GCTAAAGGTAGTGAATCTTGTTTCCCTG-CGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGA
5942910 A
260 A
* ** * *
5942911 TCTTATCTCCCTAGCGTTAAAGCTGAAGATAGCGAATCTTATTTCTGTGGCATTGCAGTGGAATA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * *
5942976 GATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAAG
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAAA
* * * * * **
5943041 TGGAGTGGATTAAAACTCAAGACAGTGAATCCTATCTCCTTGGTGTTACAGTGGAACAGATTAAA
131 TGGAGTGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAACAGATTAAA
* * * * * *
5943106 GCTGAAGATCA-CGAATCTTATTTCCCTGGCGTTGCAGCGGAGCAGATTAAAGCTGAAGGTAGTG
196 GCTAAAGGT-AGTGAATCTTGTTTCCCT-GCGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCG
5943170 AA
259 AA
* * *
5943172 TCTTATCTCCTTGGCGTTAAATCTGAAGATAGCGAATCTTATTTTCCTGGCGTTGCAGTGGAACA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * * * *
5943237 GATTAAAACTAAAGGTAGTGAATCTTGTTTCCTTGGCGTTGCAATGGAATAGATTAAAGCTGAAA
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAAA
* ** * *
5943302 TAGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAATAGATTAAA
131 TGGAGTGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAACAGATTAAA
* * * * *
5943367 GCTAAATGTAGCGAATCTTGTTTCCCTGATGTTGTAGTGGAGCAGATTAAAGCTGAAGGCAGCGA
196 GCTAAAGGTAGTGAATCTTGTTTCCCTG-CGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGA
5943432 A
260 A
* *
5943433 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGTGAATCTTTTTTCCCTGGCGTTGCAGTGGAACA
1 TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * *
5943498 GATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAAG
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAAA
*
5943563 TGGAGTGGATTGAAG-TGAAG
131 TGGAGTGGATTAAAGCTGAAG
5943583 TCTTATCTCC
Statistics
Matches: 1044, Mismatches: 144, Indels: 13
0.87 0.12 0.01
Matches are distributed among these distances:
260 8 0.01
261 1032 0.99
262 4 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (260 bp):
TCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAAA
TGGAGTGGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAACAGATTAAA
GCTAAAGGTAGTGAATCTTGTTTCCCTGCGTTGCAGCGGAGCAGATTAAAGCTGAAGGCAGCGAA
Found at i:5942610 original size:51 final size:51
Alignment explanation
Indices: 5942517--5942668 Score: 169
Period size: 51 Copynumber: 3.0 Consensus size: 51
5942507 TTAAAGCTGA
** * * * *
5942517 AGTGGAGTGGATTAAAGCTCAAGGCAGCGAATCCTATCTCCTTGGTGTTAT
1 AGTGGAGCAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCTTGGCGTTAC
* * * * * *
5942568 AGTGTAGCAGATTAAAGCTAAAGGTAGTGAATCTTATTTCCTTAGCGTTGC
1 AGTGGAGCAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCTTGGCGTTAC
* * *
5942619 AGTGGAGCAGATTAAAACTGAAGGCAGCAAATCTTATCTCCTTGGCGTTA
1 AGTGGAGCAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCTTGGCGTTA
5942669 AAGCTGAAGA
Statistics
Matches: 80, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 80 1.00
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (51 bp):
AGTGGAGCAGATTAAAGCTAAAGGCAGCGAATCTTATCTCCTTGGCGTTAC
Found at i:5942677 original size:36 final size:36
Alignment explanation
Indices: 5942630--5942703 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
5942620 GTGGAGCAGA
* *
5942630 TTAAAACTGAAGGCAGCAAATCTTATCTCCTTGGCG
1 TTAAAACTGAAGACAGCAAATCTTATCTCCCTGGCG
* * * *
5942666 TTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCG
1 TTAAAACTGAAGACAGCAAATCTTATCTCCCTGGCG
5942702 TT
1 TT
5942704 GCAGTGGAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (36 bp):
TTAAAACTGAAGACAGCAAATCTTATCTCCCTGGCG
Found at i:5942735 original size:87 final size:87
Alignment explanation
Indices: 5942579--5942754 Score: 226
Period size: 87 Copynumber: 2.0 Consensus size: 87
5942569 GTGTAGCAGA
* * * * *
5942579 TTAAAGCTAAAGGTAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAGCAGATTAAAACTGAAGGC
1 TTAAAGCTAAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAACTAAAGGC
*
5942644 AGCAAATCTTATCTCCTTGGCG
66 AGCAAATCTTATCTCCCTGGCG
* * ** * *
5942666 TTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAATGCTAAATGT
1 TTAAAGCTAAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAACTAAAGGC
* *
5942731 AGCAAATCTTGTTTCCCTGGCG
66 AGCAAATCTTATCTCCCTGGCG
5942753 TT
1 TT
5942755 GCAATGGAAT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
87 75 1.00
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (87 bp):
TTAAAGCTAAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGTGGAACAGATTAAAACTAAAGGC
AGCAAATCTTATCTCCCTGGCG
Found at i:5942763 original size:51 final size:51
Alignment explanation
Indices: 5942666--5942778 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
5942656 CTCCTTGGCG
* * * *
5942666 TTAAAGCTGAA-GATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGA
1 TTAAAGCTAAATG-TAGCAAATCTTATTTCCCTGGCGTTGCAATGGAACAAA
* * *
5942717 TTAATGCTAAATGTAGCAAATCTTGTTTCCCTGGCGTTGCAATGGAATAAA
1 TTAAAGCTAAATGTAGCAAATCTTATTTCCCTGGCGTTGCAATGGAACAAA
5942768 TTAAAGCTAAA
1 TTAAAGCTAAA
5942779 ATGGAGCAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 52 0.98
52 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (51 bp):
TTAAAGCTAAATGTAGCAAATCTTATTTCCCTGGCGTTGCAATGGAACAAA
Found at i:5942913 original size:51 final size:51
Alignment explanation
Indices: 5942781--5942922 Score: 158
Period size: 51 Copynumber: 2.8 Consensus size: 51
5942771 AAGCTAAAAT
* * * * *
5942781 GGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGT
1 GGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGACGTTATAGA
** * * * * * * *
5942832 GGAATAGATTAAAGCTAAATGTAGTGAATCTTGTTTCCCTGACGTTGTAGA
1 GGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGACGTTATAGA
5942883 GGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCT
1 GGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCT
5942923 AGCGTTAAAG
Statistics
Matches: 69, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (51 bp):
GGAGCAGATTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGACGTTATAGA
Found at i:5943003 original size:51 final size:52
Alignment explanation
Indices: 5942927--5943039 Score: 176
Period size: 51 Copynumber: 2.2 Consensus size: 52
5942917 CTCCCTAGCG
* **
5942927 TTAAAGCT-GAAGATAGCGAATCTTATTTCTGTGGCATTGCAGTGGAATAGA
1 TTAAAGCTAAAAGATAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGA
*
5942978 TTAAAGCTAAAAG-TAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGA
1 TTAAAGCTAAAAGATAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGA
5943029 TTAAAGCTAAA
1 TTAAAGCTAAA
5943040 GTGGAGTGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
51 54 0.95
52 3 0.05
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (52 bp):
TTAAAGCTAAAAGATAGCGAATCTTATTTCCCTGGCATTGCAGTGGAATAGA
Found at i:5943103 original size:51 final size:51
Alignment explanation
Indices: 5943048--5943190 Score: 162
Period size: 51 Copynumber: 2.8 Consensus size: 51
5943038 AAGTGGAGTG
* * * * *
5943048 GATTAAAACTCAAGACAGTGAATCCTATCTCCTTGGTGTTACAGTGGAACA
1 GATTAAAGCTGAAGACAGTGAATCTTATCTCCTTGGCGTTACAGCGGAACA
* * * * *
5943099 GATTAAAGCTGAAGATCA-CGAATCTTATTTCCCTGGCGTTGCAGCGGAGCA
1 GATTAAAGCTGAAGA-CAGTGAATCTTATCTCCTTGGCGTTACAGCGGAACA
**
5943150 GATTAAAGCTGAAGGTAGTGAATCTTATCTCCTTGGCGTTA
1 GATTAAAGCTGAAGACAGTGAATCTTATCTCCTTGGCGTTA
5943191 AATCTGAAGA
Statistics
Matches: 74, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
50 1 0.01
51 71 0.96
52 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (51 bp):
GATTAAAGCTGAAGACAGTGAATCTTATCTCCTTGGCGTTACAGCGGAACA
Found at i:5943124 original size:522 final size:522
Alignment explanation
Indices: 5942128--5943573 Score: 2214
Period size: 522 Copynumber: 2.8 Consensus size: 522
5942118 AAGACACCAG
* * * **
5942128 TCTTATCTCCCTGGCGTT-ACGACTGAAGACAGCGAATCTTATTTCATTGGCGTTGCAGTGGAAC
1 TCTTATCTCCTTGGCGTTAAAG-CTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
* * ** *
5942192 AGATTAAAGCTAAAGGTAGCGAATATTGTTTCCCTGGCATTATAGTGGAATAGATTAAAGCTGAA
65 AGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTAAAGCTGAA
** * * * *
5942257 ATAGAGTGGATTAAAGCTGAAGGCAGCGAATCTTATCTCATTGGCGTTATGGTGGAACAAATTAA
130 ATAGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAATAGATTAA
* ** * * * *
5942322 AGCTAAAGGTAGTGAATCTTGTTTATCT-AGCATTGCAGCGGAGCAGATTAAAGCTGAAAGCAGC
195 AGCTAAATGTAGTGAATCTTGTTTCCCTGA-CGTTGTAGAGGAGCAGATTAAAGCTGAAGGCAGC
* *
5942386 GAATCTTATCTCCCTGGTGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTCCAGTGGA
259 GAATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGA
* * ** * * *
5942451 ACAGATTAAAGTTAAAGGTAGCGAATCTCGTTTCTCTGGCGTTGTAGTGGAATAGATTAAAGCTG
324 ACAGATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTA
* * * * *
5942516 AAGTGGAGTGGATTAAAGCTCAAGGCAGCGAATCCTATCTCCTTGGTGTTATAGTGTAGCAGATT
389 AAGTGGAGTGGATTAAAACTCAAGACAGCGAATCCTATCTCCTTGGTGTTACAGTGGAACAGATT
* * * *
5942581 AAAGCTAAAGGTAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAGCAGATTAAAACTGAAGGCAG
454 AAAGCTAAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGCGGAGCAGATTAAAACTGAAGGCAG
5942646 CAAA
519 CAAA
5942650 TCTTATCTCCTTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
1 TCTTATCTCCTTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * * * *
5942715 GATTAATGCTAAATGTAGCAAATCTTGTTTCCCTGGCGTTGCAATGGAATAAATTAAAGCTAAAA
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTAAAGCTGAAA
*
5942780 TGGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAATAGATTAAA
131 TAGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAATAGATTAAA
5942845 GCTAAATGTAGTGAATCTTGTTTCCCTGACGTTGTAGAGGAGCAGATTAAAGCTGAAGGCAGCGA
196 GCTAAATGTAGTGAATCTTGTTTCCCTGACGTTGTAGAGGAGCAGATTAAAGCTGAAGGCAGCGA
* ** * *
5942910 ATCTTATCTCCCTAGCGTTAAAGCTGAAGATAGCGAATCTTATTTCTGTGGCATTGCAGTGGAAT
261 ATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
5942975 AGATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAA
326 AGATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAA
*
5943040 GTGGAGTGGATTAAAACTCAAGACAGTGAATCCTATCTCCTTGGTGTTACAGTGGAACAGATTAA
391 GTGGAGTGGATTAAAACTCAAGACAGCGAATCCTATCTCCTTGGTGTTACAGTGGAACAGATTAA
* * * * *
5943105 AGCTGAAGATCA-CGAATCTTATTTCCCTGGCGTTGCAGCGGAGCAGATTAAAGCTGAAGGTAGT
456 AGCTAAAGAT-AGCGAATCTTATTTCCCTAGCGTTGCAGCGGAGCAGATTAAAACTGAAGGCAGC
*
5943169 GAA
520 AAA
* *
5943172 TCTTATCTCCTTGGCGTTAAATCTGAAGATAGCGAATCTTATTTTCCTGGCGTTGCAGTGGAACA
1 TCTTATCTCCTTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
* * *
5943237 GATTAAAACTAAAGGTAGTGAATCTTGTTTCCTTGGCGTTGCAATGGAATAGATTAAAGCTGAAA
66 GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTAAAGCTGAAA
*
5943302 TAGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTACGGTGGAATAGATTAAA
131 TAGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAATAGATTAAA
* * *
5943367 GCTAAATGTAGCGAATCTTGTTTCCCTGATGTTGTAGTGGAGCAGATTAAAGCTGAAGGCAGCGA
196 GCTAAATGTAGTGAATCTTGTTTCCCTGACGTTGTAGAGGAGCAGATTAAAGCTGAAGGCAGCGA
* *
5943432 ATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGTGAATCTTTTTTCCCTGGCGTTGCAGTGGAAC
261 ATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
5943497 AGATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAA
326 AGATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAA
5943562 GTGGAGTGGATT
391 GTGGAGTGGATT
5943574 GAAGTGAAGT
Statistics
Matches: 840, Mismatches: 81, Indels: 6
0.91 0.09 0.01
Matches are distributed among these distances:
522 836 1.00
523 4 0.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (522 bp):
TCTTATCTCCTTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACA
GATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCGTTGCAATGGAATAGATTAAAGCTGAAA
TAGAGCAGATTAAAGCTGAAGGCAGCGAATCCTATCTCCTTGGCGTTATGGTGGAATAGATTAAA
GCTAAATGTAGTGAATCTTGTTTCCCTGACGTTGTAGAGGAGCAGATTAAAGCTGAAGGCAGCGA
ATCTTATCTCCCTGGCGTTAAAGCTGAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAAC
AGATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGATTAAAGCTAAA
GTGGAGTGGATTAAAACTCAAGACAGCGAATCCTATCTCCTTGGTGTTACAGTGGAACAGATTAA
AGCTAAAGATAGCGAATCTTATTTCCCTAGCGTTGCAGCGGAGCAGATTAAAACTGAAGGCAGCA
AA
Found at i:5943252 original size:87 final size:87
Alignment explanation
Indices: 5943101--5943276 Score: 264
Period size: 87 Copynumber: 2.0 Consensus size: 87
5943091 GTGGAACAGA
* * *
5943101 TTAAAGCTGAAGATCACGAATCTTATTTCCCTGGCGTTGCAGCGGAGCAGATTAAAGCTGAAGGT
1 TTAAAGCTGAAGATCACGAATCTTATTTCCCTGGCGTTGCAGCGGAACAGATTAAAACTAAAGGT
5943166 AGTGAATCTTATCTCCTTGGCG
66 AGTGAATCTTATCTCCTTGGCG
* * *
5943188 TTAAATCTGAAGAT-AGCGAATCTTATTTTCCTGGCGTTGCAGTGGAACAGATTAAAACTAAAGG
1 TTAAAGCTGAAGATCA-CGAATCTTATTTCCCTGGCGTTGCAGCGGAACAGATTAAAACTAAAGG
* *
5943252 TAGTGAATCTTGTTTCCTTGGCG
65 TAGTGAATCTTATCTCCTTGGCG
5943275 TT
1 TT
5943277 GCAATGGAAT
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 1 0.01
87 79 0.99
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (87 bp):
TTAAAGCTGAAGATCACGAATCTTATTTCCCTGGCGTTGCAGCGGAACAGATTAAAACTAAAGGT
AGTGAATCTTATCTCCTTGGCG
Found at i:5943460 original size:36 final size:36
Alignment explanation
Indices: 5943413--5943486 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
5943403 GTGGAGCAGA
*
5943413 TTAAAGCTGAAGGCAGCGAATCTTATCTCCCTGGCG
1 TTAAAGCTGAAGACAGCGAATCTTATCTCCCTGGCG
* * * *
5943449 TTAAAGCTGAAGATAGTGAATCTTTTTTCCCTGGCG
1 TTAAAGCTGAAGACAGCGAATCTTATCTCCCTGGCG
5943485 TT
1 TT
5943487 GCAGTGGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (36 bp):
TTAAAGCTGAAGACAGCGAATCTTATCTCCCTGGCG
Found at i:5943518 original size:87 final size:87
Alignment explanation
Indices: 5943362--5943537 Score: 237
Period size: 87 Copynumber: 2.0 Consensus size: 87
5943352 GTGGAATAGA
* * * * *
5943362 TTAAAGCTAAATGTAGCGAATCTTGTTTCCCTGATGTTGTAGTGGAGCAGATTAAAGCTGAAGGC
1 TTAAAGCTAAATGTAGCGAATCTTGTTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTAAAAGC
5943427 AGCGAATCTTATCTCCCTGGCG
66 AGCGAATCTTATCTCCCTGGCG
* * * *
5943449 TTAAAGCTGAA-GATAGTGAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTAAAAG
1 TTAAAGCTAAATG-TAGCGAATCTTGTTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTAAAAG
* *
5943513 TAGCGAATCTTATTTCCCTGGCG
65 CAGCGAATCTTATCTCCCTGGCG
5943536 TT
1 TT
5943538 GCAGTGGAAT
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
86 1 0.01
87 76 0.99
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (87 bp):
TTAAAGCTAAATGTAGCGAATCTTGTTTCCCTGACGTTGCAGTGGAACAGATTAAAGCTAAAAGC
AGCGAATCTTATCTCCCTGGCG
Found at i:5943529 original size:51 final size:52
Alignment explanation
Indices: 5943449--5943561 Score: 176
Period size: 51 Copynumber: 2.2 Consensus size: 52
5943439 CTCCCTGGCG
* * *
5943449 TTAAAGCT-GAAGATAGTGAATCTTTTTTCCCTGGCGTTGCAGTGGAACAGA
1 TTAAAGCTAAAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGA
*
5943500 TTAAAGCTAAAAG-TAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAATAGA
1 TTAAAGCTAAAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGA
5943551 TTAAAGCTAAA
1 TTAAAGCTAAA
5943562 GTGGAGTGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
51 54 0.95
52 3 0.05
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (52 bp):
TTAAAGCTAAAAGATAGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGA
Found at i:5944208 original size:3 final size:3
Alignment explanation
Indices: 5944200--5944292 Score: 78
Period size: 3 Copynumber: 31.0 Consensus size: 3
5944190 ATTAGTTTAA
* * * * * * * * *
5944200 TAT TAT TAT TAG TAT TAT TAT TGT TGT TGT TGT TGT TGT TGT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
5944248 TAT TAT TAT TAT TAC TAT TAT TAT TGT TAT TAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5944293 CTATATATAT
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 80 1.00
ACGTcount: A:0.25, C:0.01, G:0.11, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:5949384 original size:19 final size:17
Alignment explanation
Indices: 5949360--5949394 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
5949350 AAACAGTTTG
5949360 TAAAGATAAATATAAAAAT
1 TAAAGA-AAATA-AAAAAT
5949379 TAAAGAAAATAAAAAA
1 TAAAGAAAATAAAAAA
5949395 AACGAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (17 bp):
TAAAGAAAATAAAAAAT
Found at i:5949396 original size:19 final size:19
Alignment explanation
Indices: 5949360--5949395 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
5949350 AAACAGTTTG
*
5949360 TAAAGATAAATATAAAAAT
1 TAAAGATAAATAAAAAAAT
5949379 TAAAGA-AAATAAAAAAA
1 TAAAGATAAATAAAAAAA
5949396 ACGAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (19 bp):
TAAAGATAAATAAAAAAAT
Found at i:5953141 original size:9 final size:9
Alignment explanation
Indices: 5953127--5953175 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
5953117 TTTGGTTAAA
5953127 AATTAACCG
1 AATTAACCG
5953136 AATTAACCG
1 AATTAACCG
*
5953145 AATTACCCG
1 AATTAACCG
* *
5953154 AATTTACCA
1 AATTAACCG
*
5953163 AATTAACCA
1 AATTAACCG
5953172 AATT
1 AATT
5953176 GAATCACTAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:5953322 original size:18 final size:18
Alignment explanation
Indices: 5953286--5953325 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5953276 TTTATGATTT
**
5953286 GGTTGGGTTGGGTAATTG
1 GGTTGGGTTGAATAATTG
*
5953304 GGTTGGGTTGAATACTTG
1 GGTTGGGTTGAATAATTG
5953322 GGTT
1 GGTT
5953326 TAGATTGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.12, C:0.03, G:0.45, T:0.40
Consensus pattern (18 bp):
GGTTGGGTTGAATAATTG
Found at i:5955255 original size:52 final size:52
Alignment explanation
Indices: 5955177--5955277 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
5955167 CACTCAACTT
5955177 ATAAATTTACCATTTAAAACTTGATGTAAATTTTCATTGCTTAAGGTTTTTA
1 ATAAATTTACCATTTAAAACTTGATGTAAATTTTCATTGCTTAAGGTTTTTA
**
5955229 ATAAATTTACCATTTAAAACTTGATGTAGTTTTTCATTGCTTAAGGTTT
1 ATAAATTTACCATTTAAAACTTGATGTAAATTTTCATTGCTTAAGGTTT
5955278 GTCATTGCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.47
Consensus pattern (52 bp):
ATAAATTTACCATTTAAAACTTGATGTAAATTTTCATTGCTTAAGGTTTTTA
Found at i:5956087 original size:19 final size:21
Alignment explanation
Indices: 5956046--5956088 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
5956036 ATGAACCCCA
5956046 AACCCCAAACACTAAACCTTG
1 AACCCCAAACACTAAACCTTG
*
5956067 AACCCCAAACTC-AAA-CTTG
1 AACCCCAAACACTAAACCTTG
5956086 AAC
1 AAC
5956089 TTTGGATCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 3 0.14
21 11 0.52
ACGTcount: A:0.44, C:0.37, G:0.05, T:0.14
Consensus pattern (21 bp):
AACCCCAAACACTAAACCTTG
Found at i:5956138 original size:13 final size:14
Alignment explanation
Indices: 5956122--5956159 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
5956112 AGGTTTAGGG
5956122 TTTAGGGTTCAA-A
1 TTTAGGGTTCAAGA
* *
5956135 TTTAGGATTCAAGG
1 TTTAGGGTTCAAGA
5956149 TTTAGGGTTCA
1 TTTAGGGTTCA
5956160 TAGTAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (14 bp):
TTTAGGGTTCAAGA
Found at i:5962195 original size:105 final size:101
Alignment explanation
Indices: 5962003--5962198 Score: 243
Period size: 105 Copynumber: 1.9 Consensus size: 101
5961993 GAATTGACGG
* *
5962003 ATAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACCATAGCTGGTCTATGACATTTTA
1 ATAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACAATAGCTGGTCTATGACATTCTA
*
5962068 ATGAAAAGACCACAATTGGGTTATGGCACCTTGAAC
66 ATGAAAAGACCACAACTGGGTTATGGCACCTTGAAC
* *
5962104 ATAAGACCATGGTTGGACCATGGCAGTATAG-TTACATGTGTAAGACAATAGTTAGG-CTATGAC
1 ATAAGACCATGGTTGGACCATGGCA--AT-GTTTA-A-ATGTAAGACAATAGCT-GGTCTATGAC
* * * *
5962167 ATTCTGATGATAAGATCATAACTGGGTTATGG
60 ATTCTAATGAAAAGACCACAACTGGGTTATGG
5962199 ACTACAAATG
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
101 25 0.31
103 5 0.06
104 2 0.03
105 46 0.57
106 2 0.03
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (101 bp):
ATAAGACCATGGTTGGACCATGGCAATGTTTAAATGTAAGACAATAGCTGGTCTATGACATTCTA
ATGAAAAGACCACAACTGGGTTATGGCACCTTGAAC
Found at i:5962925 original size:33 final size:32
Alignment explanation
Indices: 5962888--5962983 Score: 91
Period size: 33 Copynumber: 3.2 Consensus size: 32
5962878 TGAGTTAATG
5962888 CATGACTTAATTTAATGATGCACACTTAACTAA
1 CATGACTTAATTTAATGATGCA-ACTTAACTAA
* *
5962921 CATGA---AAGTT-A-CAT--AA-TTAAACTAA
1 CATGACTTAATTTAATGATGCAACTT-AACTAA
5962946 CATGACTTAATTTAATGATGCAAACTTAACTAA
1 CATGACTTAATTTAATGATGC-AACTTAACTAA
5962979 CATGA
1 CATGA
5962984 AAGTTACATA
Statistics
Matches: 49, Mismatches: 4, Indels: 20
0.67 0.05 0.27
Matches are distributed among these distances:
24 2 0.04
25 12 0.24
26 1 0.02
28 6 0.12
29 2 0.04
30 6 0.12
33 18 0.37
34 2 0.04
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (32 bp):
CATGACTTAATTTAATGATGCAACTTAACTAA
Found at i:5964285 original size:42 final size:42
Alignment explanation
Indices: 5964227--5964321 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
5964217 ATTAATTATA
* ** *
5964227 AATAAT-AATTATAAAATTAATGGATGTTCACACTATT-TTAC
1 AATAATGATTTATAAAATTAATAAATATTCACACT-TTCTTAC
*
5964268 AATAATGATTTATAAAATTAATAAATATTCACTCTTTCTTAC
1 AATAATGATTTATAAAATTAATAAATATTCACACTTTCTTAC
5964310 AATAATGATTTA
1 AATAATGATTTA
5964322 CTATAATATG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
41 8 0.17
42 39 0.83
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.41
Consensus pattern (42 bp):
AATAATGATTTATAAAATTAATAAATATTCACACTTTCTTAC
Found at i:5967600 original size:68 final size:68
Alignment explanation
Indices: 5967528--5967660 Score: 178
Period size: 68 Copynumber: 2.0 Consensus size: 68
5967518 GAATGTATAT
* * * * *
5967528 ATGTAT-TTCAAAATTATTAAATATAAAAGTTTATGTAAGTATGGATATACACGTATATGTATAT
1 ATGTATATTAAAAATTATAAAATATAAAA-TATATATAAGTATGGATATACACGTATATATATAT
5967592 AAAA
65 AAAA
* * *
5967596 ATGTATATTAAAAATTATAAAATATAAAATATATATAAGTATGTATATATATGTATATATATATA
1 ATGTATATTAAAAATTATAAAATATAAAATATATATAAGTATGGATATACACGTATATATATATA
5967661 TATATAAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
68 36 0.64
69 20 0.36
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (68 bp):
ATGTATATTAAAAATTATAAAATATAAAATATATATAAGTATGGATATACACGTATATATATATA
AAA
Found at i:5967631 original size:2 final size:2
Alignment explanation
Indices: 5967624--5967666 Score: 52
Period size: 2 Copynumber: 21.5 Consensus size: 2
5967614 AAAATATAAA
* *
5967624 AT AT AT AT A- AGT AT GT AT AT AT AT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5967666 A
1 A
5967667 AATTACAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
1 1 0.03
2 33 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5967678 original size:68 final size:68
Alignment explanation
Indices: 5967537--5967676 Score: 158
Period size: 68 Copynumber: 2.1 Consensus size: 68
5967527 TATGTATTTC
* * * * *
5967537 AAAATTATTAAATATAAAAGTTTATGTAAGTATGGATATACACGTATATGTATATAAAAATGTAT
1 AAAATTATAAAATATAAAAGTATATATAAGTATGGATATACACGTATA-GTATATAAAAATATAA
5967602 ATTA
65 ATTA
* * * * *
5967606 AAAATTATAAAATATAAAA-TATATATAAGTATGTATATATATGTATA-TATATATATATATAAA
1 AAAATTATAAAATATAAAAGTATATATAAGTATGGATATACACGTATAGTATATAAAAATATAAA
5967669 TTA
66 TTA
5967672 CAAAA
1 -AAAA
5967677 ATATGTACGT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
66 15 0.25
67 4 0.07
68 23 0.38
69 18 0.30
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.38
Consensus pattern (68 bp):
AAAATTATAAAATATAAAAGTATATATAAGTATGGATATACACGTATAGTATATAAAAATATAAA
TTA
Found at i:5967763 original size:2 final size:2
Alignment explanation
Indices: 5967751--5967787 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
5967741 GAAATTGCAA
*
5967751 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5967788 AATGAGGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5968424 original size:12 final size:11
Alignment explanation
Indices: 5968397--5968430 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
5968387 ATACGTTATT
5968397 TAAAAATAAAA
1 TAAAAATAAAA
*
5968408 GAAAAATACAAA
1 TAAAAATA-AAA
5968420 TAAAAATAAAA
1 TAAAAATAAAA
5968431 AAATCGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:5969597 original size:88 final size:88
Alignment explanation
Indices: 5969466--5970494 Score: 1611
Period size: 88 Copynumber: 11.7 Consensus size: 88
5969456 ACCGCTTAGG
* * * * * ** * *
5969466 GAGGCAAGGCTTGTATCTTCGATCTGCTTCGTTGTCAATGCAAGAAGGCAAGATCTGCTATCTTT
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
5969531 GACCAGCTCCA-CTACAACCGAGA
66 AACCAGCTCCATC-ACAACCGAGA
* * * *
5969554 GAGGTAAGGTTTGTGTCTTCGACCTGCTTCGTTGTCAATGCAAGAAGGCAAGATCTATTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
5969619 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
* * *
5969642 GAGGCAAGGTTTGTCTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGAAAGATCTGTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
5969707 AACCAGCTCCACCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
* *
5969730 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTATCAATGCAGGAAGGCAAGATCTATTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
5969795 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
** *
5969818 GAGGCAAGGTTTACGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGC-A-ATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
5969881 AACCAGCTTCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
* *
5969904 GAGGCAATGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
5969969 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
*
5969992 GAGGTAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
5970057 AACCAGCTCTATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
* * * * *
5970080 GAGGTAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATACAGGAAGGTAAGATCTATTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
5970145 AACCAGCT-C-TGCTACAACTGAGA
66 AACCAGCTCCAT-C-ACAACCGAGA
* * *
5970168 GAGACAAGGTTTGTGTCTTTGACCTACTTCGCT-TCAATGCAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
5970232 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
*
5970255 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
5970320 AACCAGCTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
* *
5970343 GAGGTAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATACAGGAAGGCAAGATCTTTTGTCTTC
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
*
5970408 AACCAACTCCATCACAACCGAGA
66 AACCAGCTCCATCACAACCGAGA
*
5970431 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTT
1 GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTT
5970495 TGATCTGCTT
Statistics
Matches: 870, Mismatches: 63, Indels: 16
0.92 0.07 0.02
Matches are distributed among these distances:
86 79 0.09
87 77 0.09
88 712 0.82
89 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (88 bp):
GAGGCAAGGTTTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTC
AACCAGCTCCATCACAACCGAGA
Found at i:5970178 original size:350 final size:352
Alignment explanation
Indices: 5969481--5970494 Score: 1626
Period size: 350 Copynumber: 2.9 Consensus size: 352
5969471 AAGGCTTGTA
* * * ** * **
5969481 TCTTCGATCTGCTTCGTTGTCAATGCAAGAAGGCAAGATCTGCTATCTTTGACCAGCTCCA-CTA
1 TCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATC-A
* * * *
5969545 CAACCGAGAGAGGTAAGGTTTGTGTCTTCGACCTGCTTCGTTGTCAATGCAAGAAGGCAAGATCT
65 CAACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
* * *
5969610 ATTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTTTGTCTCTTCGACCTGCTTCGCT
130 TTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGTAAGGTTTGTGTCTTCGACCTGCTTCGCT
* * *
5969675 GTCAATGCAGGAAGGAAAGATCTGTTGTCTTCAACCAGCTCCACCACAACCGAGAGAGGCAAGGT
195 GTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGT
*
5969740 TTGTGTCTTCGACCTGCTTCGCTATCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCC
260 TTGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCC
*
5969805 ATCACAACCGAGAGAGGCAAGGTTTACG
325 ATCACAACCGAGAGAGACAAGGTTTACG
* *
5969833 TCTTCGACCTGCTTCGCTGTCAATACAGGAAGGC-A-ATCTTTTGTCTTCAACCAGCTTCATCAC
1 TCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
*
5969896 AACCGAGAGAGGCAATGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTT
66 AACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTT
5969961 TTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGTAAGGTTTGTGTCTTCGACCTGCTTCGCTG
131 TTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGTAAGGTTTGTGTCTTCGACCTGCTTCGCTG
* *
5970026 TCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAGAGAGGTAAGGTT
196 TCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTT
* * *
5970091 TGTGTCTTCGACCTGCTTCACTGTCAATACAGGAAGGTAAGATCTATTGTCTTCAACCAGCT-C-
261 TGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCA
* **
5970154 TGCTACAACTGAGAGAGACAAGGTTTGTG
326 T-C-ACAACCGAGAGAGACAAGGTTTACG
* *
5970183 TCTTTGACCTACTTCGCT-TCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
1 TCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
5970247 AACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTT
66 AACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTT
5970312 TTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGTAAGGTTTGTGTCTTCGACCTGCTTCGCTG
131 TTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGTAAGGTTTGTGTCTTCGACCTGCTTCGCTG
* *
5970377 TCAATACAGGAAGGCAAGATCTTTTGTCTTCAACCAACTCCATCACAACCGAGAGAGGCAAGGTT
196 TCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTT
* *
5970442 TGTGTCTTCGACCTGCTTCGCTGTCAATGTAGGAAGGCAAGATCTTTTGTCTT
261 TGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTT
5970495 TGATCTGCTT
Statistics
Matches: 612, Mismatches: 45, Indels: 11
0.92 0.07 0.02
Matches are distributed among these distances:
348 1 0.00
349 16 0.03
350 298 0.49
351 267 0.44
352 30 0.05
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (352 bp):
TCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCAC
AACCGAGAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTT
TTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGTAAGGTTTGTGTCTTCGACCTGCTTCGCTG
TCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCGAGAGAGGCAAGGTT
TGTGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTATTGTCTTCAACCAGCTCCA
TCACAACCGAGAGAGACAAGGTTTACG
Found at i:5971628 original size:21 final size:21
Alignment explanation
Indices: 5971602--5971648 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
5971592 GGTATTGCAG
5971602 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
5971623 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
5971644 GATCA
1 GATCA
5971649 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:5971753 original size:8 final size:8
Alignment explanation
Indices: 5971742--5971778 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
5971732 CCATTTTTAC
5971742 TTTTTCAT
1 TTTTTCAT
5971750 TTTTTCAT
1 TTTTTCAT
5971758 TTTTTCAT
1 TTTTTCAT
*
5971766 TTTTTAAT
1 TTTTTCAT
5971774 TTTTT
1 TTTTT
5971779 TGACTCAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTCAT
Found at i:5972596 original size:13 final size:13
Alignment explanation
Indices: 5972573--5972605 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
5972563 TTGACCTCTC
5972573 CTTTTTCTTTTTCT
1 CTTTTT-TTTTTCT
5972587 CTTTTTTTTTTCT
1 CTTTTTTTTTTCT
5972600 -TTTTTT
1 CTTTTTT
5972606 CCTATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 7 0.37
14 6 0.32
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
CTTTTTTTTTTCT
Found at i:5972613 original size:19 final size:19
Alignment explanation
Indices: 5972574--5972613 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
5972564 TGACCTCTCC
* *
5972574 TTTTTCTTTTTCTCTTTTT
1 TTTTTCTTTTTCTCCTATT
*
5972593 TTTTTCTTTTTTTCCTATT
1 TTTTTCTTTTTCTCCTATT
5972612 TT
1 TT
5972614 GACTTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTTCTTTTTCTCCTATT
Found at i:5972641 original size:9 final size:9
Alignment explanation
Indices: 5972617--5972705 Score: 102
Period size: 9 Copynumber: 10.3 Consensus size: 9
5972607 CTATTTTGAC
5972617 TTTGA-TTT
1 TTTGATTTT
5972625 TTTG--TTT
1 TTTGATTTT
5972632 TTTG-TTTT
1 TTTGATTTT
5972640 TTTGATTTT
1 TTTGATTTT
5972649 TTTGATTTT
1 TTTGATTTT
5972658 TTTGATTTTTT
1 TTTGA--TTTT
5972669 TTTGATTTT
1 TTTGATTTT
5972678 TTTGA--TT
1 TTTGATTTT
5972685 TTTGATTTT
1 TTTGATTTT
5972694 TTAT-ATTTT
1 TT-TGATTTT
5972703 TTT
1 TTT
5972706 TTGAGTCTGA
Statistics
Matches: 74, Mismatches: 0, Indels: 14
0.84 0.00 0.16
Matches are distributed among these distances:
7 14 0.19
8 12 0.16
9 38 0.51
10 1 0.01
11 9 0.12
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (9 bp):
TTTGATTTT
Found at i:5972668 original size:29 final size:27
Alignment explanation
Indices: 5972617--5972695 Score: 103
Period size: 29 Copynumber: 3.0 Consensus size: 27
5972607 CTATTTTGAC
*
5972617 TTTGA-TTTTTTG-TTTTT--TGTTTT
1 TTTGATTTTTTTGATTTTTGATTTTTT
5972640 TTTGATTTTTTTGATTTTTTTGATTTTTT
1 TTTGATTTTTTTGA--TTTTTGATTTTTT
5972669 TTTGATTTTTTTGATTTTTGATTTTTT
1 TTTGATTTTTTTGATTTTTGATTTTTT
5972696 ATATTTTTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
23 5 0.10
24 7 0.14
27 18 0.37
29 19 0.39
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (27 bp):
TTTGATTTTTTTGATTTTTGATTTTTT
Found at i:5972670 original size:36 final size:36
Alignment explanation
Indices: 5972629--5972709 Score: 121
Period size: 36 Copynumber: 2.2 Consensus size: 36
5972619 TGATTTTTTG
5972629 TTTTTTG-TTTTTTTGATTTTTTTGATTTTTT-TGATTT
1 TTTTTTGATTTTTTTGA--TTTTTGATTTTTTAT-ATTT
5972666 TTTTTTGATTTTTTTGATTTTTGATTTTTTATATTT
1 TTTTTTGATTTTTTTGATTTTTGATTTTTTATATTT
5972702 TTTTTTGA
1 TTTTTTGA
5972710 GTCTGAACTC
Statistics
Matches: 42, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
36 25 0.60
37 8 0.19
38 9 0.21
ACGTcount: A:0.11, C:0.00, G:0.10, T:0.79
Consensus pattern (36 bp):
TTTTTTGATTTTTTTGATTTTTGATTTTTTATATTT
Found at i:5972709 original size:20 final size:20
Alignment explanation
Indices: 5972629--5972687 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
5972619 TGATTTTTTG
5972629 TTTTTTG-TTTTTTTGA--T
1 TTTTTTGATTTTTTTGATTT
5972646 TTTTTTGATTTTTTTGATTT
1 TTTTTTGATTTTTTTGATTT
5972666 TTTTTTGATTTTTTTGATTT
1 TTTTTTGATTTTTTTGATTT
5972686 TT
1 TT
5972688 GATTTTTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
17 7 0.18
18 9 0.23
20 23 0.59
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.81
Consensus pattern (20 bp):
TTTTTTGATTTTTTTGATTT
Found at i:5977852 original size:16 final size:15
Alignment explanation
Indices: 5977831--5977878 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
5977821 GAAATAAAAC
5977831 CAATAACAATGAATAA
1 CAATAACAAT-AATAA
*
5977847 CAATAACGATAATAA
1 CAATAACAATAATAA
*
5977862 CATTAA-AATAATGAA
1 CAATAACAATAAT-AA
5977877 CA
1 CA
5977879 CAGTCATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 5 0.18
15 14 0.50
16 9 0.32
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.21
Consensus pattern (15 bp):
CAATAACAATAATAA
Found at i:5979427 original size:44 final size:44
Alignment explanation
Indices: 5979377--5979489 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
5979367 AATCTGACCT
*
5979377 ACTGCAACTTTA-GAAGTATAGGATTCATCATTTTAATCCGCTCC
1 ACTGCAACTTCAGGAAG-ATAGGATTCATCATTTTAATCCGCTCC
* ** *
5979421 ACTGCAACTTCAGGGAGATAGGATTTGTGATTTTAATCCGCTCC
1 ACTGCAACTTCAGGAAGATAGGATTCATCATTTTAATCCGCTCC
* *
5979465 ATTGCAACTTCAGGGAGATAGGATT
1 ACTGCAACTTCAGGAAGATAGGATT
5979490 TGTGACTCTT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
44 59 0.95
45 3 0.05
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (44 bp):
ACTGCAACTTCAGGAAGATAGGATTCATCATTTTAATCCGCTCC
Found at i:5979490 original size:44 final size:44
Alignment explanation
Indices: 5979406--5979494 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
5979396 AGGATTCATC
5979406 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTG
1 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTG
*
5979450 ATTTTAATCCGCTCCATTGCAACTTCAGGGAGATAGGATTTGTG
1 ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTG
5979494 A
1 A
5979495 CTCTTCGTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (44 bp):
ATTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTTGTG
Found at i:5979780 original size:50 final size:49
Alignment explanation
Indices: 5979717--5980494 Score: 167
Period size: 50 Copynumber: 15.7 Consensus size: 49
5979707 TGCAATTTCA
* * *
5979717 GGAAGTAAGATTCACCGTCGTGGCTTTAATCTATTTACTTGCAATGTCGG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCT-TTTACTTGCAATGTCGG
* * * * * * * *
5979767 GGAAATGAGATTCACTGTCGTAGCTTCAATCTGTTCCGCTGCATTGCCTG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTTTTAC-TTGCAATGTCGG
* * * * * * *
5979817 GGAAGTAAGATTCACCATTGTGGCTTCAATCTTTTGAGTTGCGATGTTGG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTTTT-ACTTGCAATGTCGG
* * * * * * *
5979867 GGAAGCGAGATTCACCGTCATAGCTTCAATCTATTCCGCTGC-ATCGCCTG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTTTTAC-TTGCAAT-GTCGG
* * * * * * * *
5979917 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTACAATGTCAG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATC-TTTTACTTGCAATGTCGG
* * * * * ** * * *
5979967 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGCTCCATTGCAACG-CTAG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTTTTAC-TTGCAATGTC-GG
* * * * * * * * *
5980017 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAACGTCAG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATC-TTTTACTTGCAATGTCGG
* * * * * *** **
5980067 GGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC-TGC-ACCACCT
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCT-TT-TACTTGCAATGTCGG
* * * * * * * *
5980116 AGAAATAAGATTCGCCGTTGTGGCCTCAATCTTTTGA-TTGCAATGTCAG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTTTT-ACTTGCAATGTCGG
* * * * * * * * *
5980165 GGAAGTGAGATCCGCCGTTGTAGCTTCAATCTGTTCCGCTACACTGAT-AG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTTTTAC-TTGCAATG-TCGG
* * * * * * * * *
5980215 GAAAGTAAGATCCACTGTTGTAGCTTCCATCTTCTTAATTGTAATGTCAG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTT-TTACTTGCAATGTCGG
* * * * * * *
5980265 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC-TGCAATG-CTAG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCT-TT-TACTTGCAATGTC-GG
* * * * * * * *
5980315 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTT-TTACTTGCAATGTCGG
* * * * * * ** **
5980365 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCAC-TGCACCG-CCT
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCT-TT-TACTTGCAATGTCGG
* * * * * * *
5980414 GGAAATAAGATTCACCGTTGTGGCCTCAATC-TTTAGATTGCAATGTCAG
1 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTTTTA-CTTGCAATGTCGG
* *
5980463 GGAAGTGAGA-TCTGCCGTTGTAGCTTCAATCT
1 GGAAGTGAGATTC-ACCGTCGTAGCTTCAATCT
5980495 GTTCCGTTGC
Statistics
Matches: 554, Mismatches: 141, Indels: 66
0.73 0.19 0.09
Matches are distributed among these distances:
46 1 0.00
47 2 0.00
48 13 0.02
49 121 0.22
50 400 0.72
51 17 0.03
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (49 bp):
GGAAGTGAGATTCACCGTCGTAGCTTCAATCTTTTACTTGCAATGTCGG
Found at i:5979828 original size:100 final size:99
Alignment explanation
Indices: 5979717--5980854 Score: 1171
Period size: 100 Copynumber: 11.4 Consensus size: 99
5979707 TGCAATTTCA
* * * * * * * * * *
5979717 GGAAGTAAGATTCACCGTCGTGGCTTTAATCTATTTACTTGCAATGTCGGGGAAATGAGATTCAC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCT-TTTAATTGCAATGTCAGGGAAGTGAGATCCGC
* * **
5979782 TGTCGTAGCTTCAATCTGTTCCGCTGCATTGCCTG
65 TGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTG
* * * * * * ** * * *
5979817 GGAAGTAAGATTCACCATTGTGGCTTCAATCTTTTGAGTTGCGATGTTGGGGAAGCGAGATTCAC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTT-AATTGCAATGTCAGGGAAGTGAGATCCGC
* ** * * *
5979882 CGTCATAGCTTCAATCTATTCCGCTGCATCGCCTG
65 TGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTG
* * *
5979917 GGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTACAATGTCAGGGAAGTAAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATC-TTTTAATTGCAATGTCAGGGAAGTGAGATCCGC
* * *
5979982 TGTTGTAGCTTCAATCTGCTCCATTGCAACG-CTAG
65 TGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-G
* * *
5980017 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAACGTCAGGGAAGTGAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATC-TTTTAATTGCAATGTCAGGGAAGTGAGATCCGC
*
5980082 TGTTGTAGCTTCAATCTGTTCCACTGCACCACCT-
65 TGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTG
* * * * * * *
5980116 AGAAATAAGATTCGCCGTTGTGGCCTCAATCTTTTGATTGCAATGTCAGGGAAGTGAGATCCGCC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTGAGATCCGCT
* * * *
5980181 GTTGTAGCTTCAATCTGTTCCGCTACACTG-ATAG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-G
* * * * * *
5980215 GAAAGTAAGATCCACTGTTGTAGCTTCCATCTTCTTAATTGTAATGTCAGGGAAGTAAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTT-TTAATTGCAATGTCAGGGAAGTGAGATCCGC
**
5980280 TGTTGTAGCTTCAATCTGTTCCACTGCAATG-CTAG
65 TGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-G
* * *
5980315 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTT-TTAATTGCAATGTCAGGGAAGTGAGATCCGC
5980380 TGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-
65 TGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTG
* * * * * *
5980414 GGAAATAAGATTCACCGTTGTGGCCTCAATC-TTTAGATTGCAATGTCAGGGAAGTGAGATCTGC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTTA-ATTGCAATGTCAGGGAAGTGAGATCCGC
* **
5980478 CGTTGTAGCTTCAATCTGTTCCGTTGCACCG-CTAG
65 TGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-G
* * * * * *
5980513 GAAAGTAAGATCCGCTGTTGTAGCTTCCATCTTCTTAATTGCAATGTTAGGGAAGTAAGATCCGA
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTT-TTAATTGCAATGTCAGGGAAGTGAGATCCGC
*
5980578 TGTTGTAGCTTCAATCTGTTCCACTGCACCACCT-
65 TGTTGTAGCTTCAATCTGTTCCACTGCACCGCCTG
* * * * * * * *
5980612 AGAAATAAGATTCGCCGTTGTGGCCTCAATCTTTTGATTGCAATGTCAGGGAAGTGAGATTCGCC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTGAGATCCGCT
* * * *
5980677 GTTGTAGCTTCAATCTATTCCGCTTCACC-ACTAG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-G
* * * *
5980711 GAAAGTAAGATCCGCTGTTGTAGCTTCCATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGC
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTT-TTAATTGCAATGTCAGGGAAGTGAGATCCGC
**
5980776 TGTTGTAGCTTCAATCTGTTCCACTGCAATG-CTAG
65 TGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-G
* *
5980811 GAAAGTAAGATCCGCTGTTGTAGCTTCAATCATTTTAATTGCAA
1 GGAAGTAAGATCCGCCGTTGTAGCTTCAATC-TTTTAATTGCAA
5980855 ACTATGGTTT
Statistics
Matches: 876, Mismatches: 143, Indels: 38
0.83 0.14 0.04
Matches are distributed among these distances:
97 8 0.01
98 164 0.19
99 150 0.17
100 539 0.62
101 15 0.02
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (99 bp):
GGAAGTAAGATCCGCCGTTGTAGCTTCAATCTTTTAATTGCAATGTCAGGGAAGTGAGATCCGCT
GTTGTAGCTTCAATCTGTTCCACTGCACCGCCTG
Found at i:5980263 original size:298 final size:298
Alignment explanation
Indices: 5979739--5980854 Score: 1456
Period size: 298 Copynumber: 3.7 Consensus size: 298
5979729 CACCGTCGTG
* * * * * * * *
5979739 GCTTTAATCTATTTACTTGCAATGTCGGGGAAATGAGATTCACTGTCGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCC
* *** * * * * * **
5979804 GCTGCATTGCCTGGGAAGTAAGATTCACCATTGTGGCTTCAATCTTTTGAGTTGCGATGTTGGGG
66 ACTGCACCACCT-AGAAATAAGATTCACCGTTGTGGCCTCAATCTTTTGA-TTGCAATGTCAGGG
* * * ** * *
5979869 AAGCGAGATTCACCGTCATAGCTTCAATCTATTCCGCTGCA-TCGCCT-GGGAAGTAAGATCCGC
129 AAGTGAGATCCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACT-G-CTAGGAAAGTAAGATCCGC
* *
5979932 TGTTGTAGCTTCAATCTTTTTAATTACAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAAT
192 TGTTGTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAAT
* *
5979997 CTGCTCCATTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
257 CTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
*
5980039 GCTTCAATCTTTTTAATTGCAACGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCC
*
5980104 ACTGCACCACCTAGAAATAAGATTCGCCGTTGTGGCCTCAATCTTTTGATTGCAATGTCAGGGAA
66 ACTGCACCACCTAGAAATAAGATTCACCGTTGTGGCCTCAATCTTTTGATTGCAATGTCAGGGAA
* * *
5980169 GTGAGATCCGCCGTTGTAGCTTCAATCTGTTCCGCTACACTGATAGGAAAGTAAGATCCACTGTT
131 GTGAGATCCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCTAGGAAAGTAAGATCCGCTGTT
* *
5980234 GTAGCTTCCATCTTCTTAATTGTAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT
196 GTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT
*
5980299 TCCACTGCAATGCTAGGAAAGTAAGATCCGCTGTTGTA
261 TCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
* *
5980337 GCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCC
* * *
5980402 ACTGCACCGCCTGGAAATAAGATTCACCGTTGTGGCCTCAATCTTTAGATTGCAATGTCAGGGAA
66 ACTGCACCACCTAGAAATAAGATTCACCGTTGTGGCCTCAATCTTTTGATTGCAATGTCAGGGAA
* * *
5980467 GTGAGATCTGCCGTTGTAGCTTCAATCTGTTCCGTTGCACCGCTAGGAAAGTAAGATCCGCTGTT
131 GTGAGATCCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCTAGGAAAGTAAGATCCGCTGTT
* * *
5980532 GTAGCTTCCATCTTCTTAATTGCAATGTTAGGGAAGTAAGATCCGATGTTGTAGCTTCAATCTGT
196 GTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT
* * *
5980597 TCCACTGCACCAC-CTA-GAAA-TAAGATTCGCCGTTGTG
261 TCCACTGCA--ACGCTAGGAAAGTAAGATCCGCTGTTGTA
* * * * *
5980634 GCCTCAATC-TTTTGATTGCAATGTCAGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTATTCC
1 GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCC
* * * * * * * * *
5980698 GCTTCACCA-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCCATCTTCTTAATTGCAATGTCAGG
66 ACTGCACCACCTA-GAAA-TAAGATTCACCGTTGTGGCCTCAATCTT-TTGATTGCAATGTCAGG
* * * *
5980762 GAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTAGGAAAGTAAGATCCGCT
128 GAAGTGAGATCCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCTAGGAAAGTAAGATCCGCT
5980827 GTTGTAGCTTCAATCATT-TTAATTGCAA
193 GTTGTAGCTTCAATC-TTCTTAATTGCAA
5980855 ACTATGGTTT
Statistics
Matches: 723, Mismatches: 85, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
295 2 0.00
296 59 0.08
297 45 0.06
298 514 0.71
299 38 0.05
300 65 0.09
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.32
Consensus pattern (298 bp):
GCTTCAATCTTTTTAATTGCAATGTCAGGGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCC
ACTGCACCACCTAGAAATAAGATTCACCGTTGTGGCCTCAATCTTTTGATTGCAATGTCAGGGAA
GTGAGATCCGCCGTTGTAGCTTCAATCTGTTCCGCTGCACTGCTAGGAAAGTAAGATCCGCTGTT
GTAGCTTCAATCTTCTTAATTGCAATGTCAGGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT
TCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
Found at i:5980533 original size:50 final size:50
Alignment explanation
Indices: 5979916--5980841 Score: 766
Period size: 50 Copynumber: 18.6 Consensus size: 50
5979906 TGCATCGCCT
* ** *
5979916 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTACAATG-TCA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT-A
* *
5979966 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGCTCCATTGCAACGCTA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTA
* * ** *
5980016 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTAATTGCAACG-TCA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT-A
* * *
5980066 GGGAAGTGAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCA-CCTA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCA--ATGCTA
* * * * * **
5980117 --GAAATAAGATTCGCCGTTGTGGCCTCAATCT-TTTGATTGCAATG-TCA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT-A
* * ** * * *
5980164 GGGAAGTGAGATCCGCCGTTGTAGCTTCAATCTGTTCCGCTACACTGATA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTA
* * * ** *
5980214 GGAAAGTAAGATCCACTGTTGTAGCTTCCATCT-TCTTAATTGTAATG-TCA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCCATTGCAATGCT-A
*
5980264 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTA
* **
5980314 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATCT-TCTTAATTGCAATG-TCA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCCATTGCAATGCT-A
* **
5980364 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCT-
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATG-CTA
* * * * * * **
5980414 -GGAAATAAGATTCACCGTTGTGGCCTCAATCT-TTAGATTGCAATG-TCA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT-A
* * * * **
5980462 GGGAAGTGAGATCTGCCGTTGTAGCTTCAATCTGTTCCGTTGCACCGCTA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTA
* * ** *
5980512 GGAAAGTAAGATCCGCTGTTGTAGCTTCCATCT-TCTTAATTGCAATGTTA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCCATTGCAATGCTA
* * *
5980562 GGGAAGTAAGATCCGATGTTGTAGCTTCAATCTGTTCCACTGCACCA-CCTA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCA--ATGCTA
* * * * * **
5980613 --GAAATAAGATTCGCCGTTGTGGCCTCAATCT-TTTGATTGCAATG-TCA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCT-A
* * * * * ***
5980660 GGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTATTCCGCTT-CACCACTA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCC-ATTGCAATGCTA
* * **
5980710 GGAAAGTAAGATCCGCTGTTGTAGCTTCCATCT-TCTTAATTGCAATG-TCA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGT-TCCATTGCAATGCT-A
*
5980760 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCACTGCAATGCTA
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTA
*
5980810 GGAAAGTAAGATCCGCTGTTGTAGCTTCAATC
1 GGGAAGTAAGATCCGCTGTTGTAGCTTCAATC
5980842 ATTTTAATTG
Statistics
Matches: 688, Mismatches: 147, Indels: 82
0.75 0.16 0.09
Matches are distributed among these distances:
46 5 0.01
47 2 0.00
48 22 0.03
49 164 0.24
50 476 0.69
51 15 0.02
52 4 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.31
Consensus pattern (50 bp):
GGGAAGTAAGATCCGCTGTTGTAGCTTCAATCTGTTCCATTGCAATGCTA
Found at i:5980940 original size:44 final size:44
Alignment explanation
Indices: 5980859--5981033 Score: 133
Period size: 44 Copynumber: 4.0 Consensus size: 44
5980849 TTGCAAACTA
* * * *
5980859 TGGTTTCTTCGATCTGCTTCGCTGT-TAGTACAAGAAGGCAAGAC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAAG-GCAGGAAGGCAAGAC
5980903 TGGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGATC
1 TGGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGA-C
* * * * * * * * * **
5980948 TGTTGTCTTCAACCAGCTCCACT-ACAA--CCGAGAGAGGTAAGGT
1 TGGTGTCTTCGATCTGCTTCGCTGTCAAGGCAG-GA-AGGCAAGAC
* *
5980991 TTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGA
1 TGGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGA
5981034 TCTTTAACTT
Statistics
Matches: 98, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
42 2 0.02
43 18 0.18
44 54 0.55
45 22 0.22
46 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (44 bp):
TGGTGTCTTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGAC
Found at i:5982161 original size:43 final size:42
Alignment explanation
Indices: 5982072--5982173 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
5982062 TGCCCCGATC
* *
5982072 TGATCAAAATTTGAGCTGCTCTGATCGCCTCATCCCCCAATT
1 TGATCAAAATTTGAGCTGCTCTGATCACCTAATCCCCCAATT
* **
5982114 TGATCCAAAATTTGAG-TCGCTCTGATCACTTAATGTCCC-ATT
1 TGAT-CAAAATTTGAGCT-GCTCTGATCACCTAATCCCCCAATT
5982156 ATGATCAAAAGTTTGAGC
1 -TGATCAAAA-TTTGAGC
5982174 CGCCCTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
42 13 0.26
43 37 0.74
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (42 bp):
TGATCAAAATTTGAGCTGCTCTGATCACCTAATCCCCCAATT
Found at i:5983484 original size:12 final size:11
Alignment explanation
Indices: 5983466--5983496 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
5983456 GTTTTTCGAA
5983466 TTTTTTTTGTT
1 TTTTTTTTGTT
5983477 TTTGTTTTTGTT
1 TTT-TTTTTGTT
5983489 TTTTTTTT
1 TTTTTTTT
5983497 AATCTGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:5987879 original size:12 final size:11
Alignment explanation
Indices: 5987852--5987885 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
5987842 ATACGTTATT
5987852 TAAAAATAAAA
1 TAAAAATAAAA
*
5987863 GAAAAATACAAA
1 TAAAAATA-AAA
5987875 TAAAAATAAAA
1 TAAAAATAAAA
5987886 AAATCGAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:5996192 original size:122 final size:121
Alignment explanation
Indices: 5995986--5996267 Score: 351
Period size: 122 Copynumber: 2.3 Consensus size: 121
5995976 ATTTATTTAA
* * * * * **
5995986 CTTCTTAATTTCATAAAACTTCTAACAATAGTTTTAA--CCCAAAAAATTAGTTCTTTTGCTTCT
1 CTTCTTAATTTCACAAATCTTCTAATAATAGTTTCAACCCCCAAAAAATCACATCTTTTGCTTCT
* * * *
5996049 CAATTTCATAACTTTTTTAACCATAGTTTCA-ACAAAAAAAAAAAAACAACTTC-AG
66 CAATTTCATAAATCTTCTAACCATAGTTTCACAAAAAAAAAAAAAAAC-ACTTCTAG
*
5996104 CTTCTTAATTTGACAAATCTTCTAATAATAGTTTCAACCCCCTAAAAAAATCACATCTTTTGCTT
1 CTTCTTAATTTCACAAATCTTCTAATAATAGTTTCAACCCCC--AAAAAATCACATCTTTTGCTT
5996169 CTCAATTTCATAAATCTTCTAACCATAGTTTCACAAAAAAAAAAAAAAACACTTCTTTAG
64 CTCAATTTCATAAATCTTCTAACCATAGTTTCACAAAAAAAAAAAAAAACACTTC--TAG
5996229 CTTCTTAATTTCACAAAT-TCTCTAACT-ATAGTTTCAACC
1 CTTCTTAATTTCACAAATCT-TCTAA-TAATAGTTTCAACC
5996268 ACCACCCCAA
Statistics
Matches: 141, Mismatches: 13, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
118 32 0.23
120 3 0.02
122 53 0.38
123 15 0.11
124 1 0.01
125 36 0.26
126 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (121 bp):
CTTCTTAATTTCACAAATCTTCTAATAATAGTTTCAACCCCCAAAAAATCACATCTTTTGCTTCT
CAATTTCATAAATCTTCTAACCATAGTTTCACAAAAAAAAAAAAAAACACTTCTAG
Found at i:5996253 original size:63 final size:62
Alignment explanation
Indices: 5996036--5996266 Score: 218
Period size: 63 Copynumber: 3.7 Consensus size: 62
5996026 AAAAAATTAG
* * * * *
5996036 TTCTTTTGCTTCTCAATTTCATAACTTTTTTAACCATAGTTTCAACAAAAAAAAAAAAACAAC
1 TTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACAAAAAAAAAAAAAC-AC
* * ** ***** *
5996099 TTC---AGCTTCTTAATTTGACAAATCTTCTAATAATAGTTTCAACCCCCTAAAAAAATCAC
1 TTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACAAAAAAAAAAAAACAC
* * * *
5996158 ATCTTTTGCTTCTCAATTTCATAAATCTTCTAACCATAGTTTCACAAAAAAAAAAAAAAACAC
1 TTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCA-ACAAAAAAAAAAAAACAC
* *
5996221 TTCTTTAGCTTCTTAATTTCACAAAT-TCTCTAACTATAGTTTCAAC
1 TTCTTTAGCTTCTCAATTTCACAAATCT-TCTAACCATAGTTTCAAC
5996267 CACCACCCCA
Statistics
Matches: 128, Mismatches: 35, Indels: 11
0.74 0.20 0.06
Matches are distributed among these distances:
59 4 0.03
60 39 0.30
62 34 0.27
63 51 0.40
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (62 bp):
TTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACAAAAAAAAAAAAACAC
Found at i:5996471 original size:66 final size:62
Alignment explanation
Indices: 5996401--5996552 Score: 160
Period size: 67 Copynumber: 2.4 Consensus size: 62
5996391 TCTTAAAAAA
* * * *
5996401 AAAAAAAAACTTCTTTAGCTTTTCAATTTAACAAGTCTTTCAAACAATAGTTTCAATCTTTCTCC
1 AAAAAAAAACTTCTTTAGCTTTTAAATTTAACAAATC-TTCAAACAATAGTTTCAA-C--CCTAC
5996466 T
62 T
* * * * * *
5996467 AAAAAACATACTTTTTTAGCTTCTAAATTTCAGAAATCTTCTAACAATAGTTTCAACCCTACT
1 AAAAAA-AAACTTCTTTAGCTTTTAAATTTAACAAATCTTCAAACAATAGTTTCAACCCTACT
*
5996530 AAAAAAACACTTCTTTAGCTTTT
1 AAAAAAAAACTTCTTTAGCTTTT
5996553 TTAGTAGTGA
Statistics
Matches: 72, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
62 14 0.19
63 10 0.14
65 1 0.01
66 23 0.32
67 24 0.33
ACGTcount: A:0.38, C:0.20, G:0.05, T:0.38
Consensus pattern (62 bp):
AAAAAAAAACTTCTTTAGCTTTTAAATTTAACAAATCTTCAAACAATAGTTTCAACCCTACT
Found at i:5996588 original size:23 final size:23
Alignment explanation
Indices: 5996562--5996606 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
5996552 TTTAGTAGTG
* * *
5996562 AAATCTTCTAACCATAGTTTCAA
1 AAATATTCTAAACATAATTTCAA
5996585 AAATATTCTAAACATAATTTCA
1 AAATATTCTAAACATAATTTCA
5996607 CCAAAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (23 bp):
AAATATTCTAAACATAATTTCAA
Found at i:5996913 original size:57 final size:57
Alignment explanation
Indices: 5996846--5996994 Score: 147
Period size: 60 Copynumber: 2.5 Consensus size: 57
5996836 ATTTCTTCAA
* * * *
5996846 CTTCTTAATTTAATAAATCTTCTAACTATAGT-ACCCCAAAAAAATACAGTTCTTTAG
1 CTTCTTAATTTAA-AAATCTTCTAACCATAGTCACCCAAAAAAAAAACAATTCTTTAG
* * * * * *
5996903 TTTCTCAATTTTACAACTCTTTTAACCATAGTTTCACCCAAAAAAAAAATAATTCTTTAG
1 CTTCTTAA-TTTAAAAATCTTCTAACCATAG--TCACCCAAAAAAAAAACAATTCTTTAG
*
5996963 CTTCTTAATTTCAAAAATTTTCTAACCATAGT
1 CTTCTTAATTT-AAAAATCTTCTAACCATAGT
5996995 GTCAACCCCC
Statistics
Matches: 71, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
57 20 0.28
58 5 0.07
59 4 0.06
60 42 0.59
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.39
Consensus pattern (57 bp):
CTTCTTAATTTAAAAATCTTCTAACCATAGTCACCCAAAAAAAAAACAATTCTTTAG
Found at i:5997225 original size:71 final size:71
Alignment explanation
Indices: 5997132--5997395 Score: 308
Period size: 71 Copynumber: 3.8 Consensus size: 71
5997122 TTCAACCCCT
* * * * * *
5997132 AAAAAAACAGTTATTTATCTTCTCAATTTCATAACTCTTTTAACCATAGTTTCAACCCTTCCCCC
1 AAAAAAACACTTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCTTCCCCC
5997197 TACCAC
66 TACCAC
* * * * *
5997203 AAAAAAATACTTCTTTAGCTTCTTATTTTCACAACTCTTTTAACCATAGTTTCAACCCTTCCCCC
1 AAAAAAACACTTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCTTCCCCC
5997268 -ACCA-
66 TACCAC
* * * *
5997272 AAAAAAACACTTTTTTAGCTTCTAAATTTCAAAAATCTTCTAACCATAGTTTCAA-AC--CCCCC
1 AAAAAAACACTTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCTTCCCCC
5997334 T--CAC
66 TACCAC
* ** *
5997338 AAAAAAACACTTCTTTAGCTTCTTAATTTTATAAATCTTCTAATTATAGTTTTAACCC
1 AAAAAAACACTTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCC
5997396 ACACAAAAAA
Statistics
Matches: 167, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
65 2 0.01
66 53 0.32
67 1 0.01
68 1 0.01
69 48 0.29
70 4 0.02
71 58 0.35
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (71 bp):
AAAAAAACACTTCTTTAGCTTCTTAATTTCATAAATCTTCTAACCATAGTTTCAACCCTTCCCCC
TACCAC
Found at i:5997316 original size:69 final size:66
Alignment explanation
Indices: 5996882--5997463 Score: 414
Period size: 61 Copynumber: 9.0 Consensus size: 66
5996872 TATAGTACCC
* * * * *
5996882 CAAAAAAATACAGTTCTTTAGTTTCTCAATTTTACAACTCTTTTAACCATAGTTTC-A-----CC
1 CAAAAAAA-ACACTTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCC
5996941 CA
65 CA
* * * * * * *
5996943 AAAAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACCATAGTGTCAA---CCCCC
1 CAAAAAAAACACTTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCCC
5997005 -
66 A
* * * * * * *
5997005 C-TAAAAAAGAGTTAC-TTATCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAACCCTCCC
1 CAAAAAAAACACTT-CTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCC
5997068 CA
65 CA
* * * * *
5997070 C-AAAGAAACAATTCTTTAGATTCTTAATTTCACAAAATCTTCTAACCATGGTTTCAA-----CC
1 CAAAAAAAACACTTCTTTAGCTTCTCAATTTCAC-AAATCTTCTAACCATAGTTTCAACCCCCCC
5997129 C-
65 CA
* * * * * * *
5997130 CTAAAAAAACAGTTATTTATCTTCTCAATTTCATAACTCTTTTAACCATAGTTTCAACCCTTCCC
1 CAAAAAAAACACTTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACCC--CCC
5997195 CCTA
64 CC-A
* * * * *
5997199 CCACAAAAAAATACTTCTTTAGCTTCTTATTTTCACAACTCTTTTAACCATAGTTTCAACCCTTC
1 -CA-AAAAAAACACTTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACCC--C
5997264 CCCCA
62 CCCCA
* * *
5997269 CCAAAAAAAACACTTTTTTAGCTTCTAAATTTCAAAAATCTTCTAACCATAGTTTCAAACCCCCC
1 -CAAAAAAAACACTTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTC-AACCCCCC
*
5997334 TCA
64 CCA
* * * ** * * *
5997337 C-AAAAAAACACTTCTTTAGCTTCTTAATTTTATAAATCTTCTAATTATAGTTTTAA-CCCACAC
1 CAAAAAAAACACTTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCCC
5997400 A
66 A
* * * * * * *
5997401 AAAAAAAAACACTTTTTTACCTTCTCAATTCCACTAGTCTTCTAACCATAGTTTCAACTCCCC
1 CAAAAAAAACACTTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCC
5997464 TAAAAAACAC
Statistics
Matches: 414, Mismatches: 82, Indels: 45
0.77 0.15 0.08
Matches are distributed among these distances:
60 58 0.14
61 79 0.19
62 1 0.00
63 3 0.01
64 11 0.03
65 70 0.17
66 69 0.17
67 4 0.01
68 5 0.01
69 46 0.11
70 10 0.02
71 58 0.14
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (66 bp):
CAAAAAAAACACTTCTTTAGCTTCTCAATTTCACAAATCTTCTAACCATAGTTTCAACCCCCCCC
A
Found at i:5997442 original size:65 final size:65
Alignment explanation
Indices: 5996942--5997470 Score: 237
Period size: 65 Copynumber: 8.1 Consensus size: 65
5996932 AGTTTCACCC
* * * * * * * *
5996942 AAAAAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACCATAGTGTC-AACCCCCC
1 AAAAAAAAAACACTTTTTTAGCTTCTAAATTTC-ATAATCTTCTAACCATAGTTTCAAACCCCAC
5997006 T
65 T
* * ** * * * *
5997007 ----AAAAAAGAGTTACTTATCTTCTCAATTTCACAACTCTTTTAACCATAGTTTC-AACCCTC-
1 AAAAAAAAAACACTTTTTTAGCTTCTAAATTTCATAA-TCTTCTAACCATAGTTTCAAACCC-CA
*
5997066 CC
64 CT
* * * * * * * * *
5997068 CACAAAGAAACAATTCTTTAGATTCTTAATTTCACAAAATCTTCTAACCATGGTTTC-AA-CCC-
1 AAAAAAAAAACACTTTTTTAGCTTCTAAATTT--CATAATCTTCTAACCATAGTTTCAAACCCCA
5997130 CT
64 CT
* * * * * *
5997132 ---AAAAAAACAGTTATTTATCTTCTCAATTTCATAACTCTTTTAACCATAGTTTCAACCCTTCC
1 AAAAAAAAAACACTTTTTTAGCTTCTAAATTTCATAA-TCTTCTAACCATAGTTTCAA-AC--CC
*
5997194 CCCT
62 CACT
* * * * * * * *
5997198 ACCACAAAAAAATACTTCTTTAGCTTCTTATTTTCACAACTCTTTTAACCATAGTTTCAACCCTT
1 A--AAAAAAAAACACTTTTTTAGCTTCTAAATTTCATAA-TCTTCTAACCATAGTTTCAAACC--
* *
5997263 CCCCC
61 CCACT
* * *
5997268 ACCAAAAAAAACACTTTTTTAGCTTCTAAATTTCAAAAATCTTCTAACCATAGTTTCAAACCCCC
1 A-AAAAAAAAACACTTTTTTAGCTTCTAAATTTC-ATAATCTTCTAACCATAGTTTCAAACCCCA
5997333 CT
64 CT
* * * * * ** *
5997335 CACAAAAAAACACTTCTTTAGCTTCTTAATTTTATAAATCTTCTAATTATAGTTT-TAACCCACA
1 AAAAAAAAAACACTTTTTTAGCTTCTAAATTTCAT-AATCTTCTAACCATAGTTTCAAACCC-CA
5997399 C-
64 CT
* * * *
5997400 AAAAAAAAAACACTTTTTTACCTTCTCAATTCCACTAGTCTTCTAACCATAGTTTC-AACTCCC-
1 AAAAAAAAAACACTTTTTTAGCTTCTAAATTTCA-TAATCTTCTAACCATAGTTTCAAAC-CCCA
5997463 CT
64 CT
5997465 AAAAAA
1 AAAAAA
5997471 CACCTCTTTA
Statistics
Matches: 363, Mismatches: 72, Indels: 58
0.74 0.15 0.12
Matches are distributed among these distances:
59 4 0.01
60 19 0.05
61 68 0.19
62 1 0.00
64 3 0.01
65 84 0.23
66 69 0.19
67 8 0.02
68 1 0.00
69 48 0.13
70 10 0.03
71 48 0.13
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (65 bp):
AAAAAAAAAACACTTTTTTAGCTTCTAAATTTCATAATCTTCTAACCATAGTTTCAAACCCCACT
Found at i:5997453 original size:131 final size:127
Alignment explanation
Indices: 5996846--5997490 Score: 493
Period size: 126 Copynumber: 5.1 Consensus size: 127
5996836 ATTTCTTCAA
* * * * **
5996846 CTTCTTAA-TTTAATAAATCTTCTAACTATAG--T--A-CCCCAAAAAAATACAGTTCTTTAGTT
1 CTTCTTAATTTTAA-AAATCTTCTAACCATAGTTTCAACCCCCAAAAAAAAACACTTTTTTACCT
* * * * * *
5996905 TCTCAATTTTACAACTCTTTTAACCATAGTTTC-A---CCC-AAAAAAAAAATAATTCTTTAG
65 TCTCAATTTCACAACTCTTCTAACCATAGTTTCAACCCCCCTCACAAAAAAACACTTCTTTAG
* * * ** * * ** *
5996963 CTTCTTAATTTCAAAAATTTTCTAACCATAGTGTCAACCCCC-CTAAAAAAGAGTTACTTATCTT
1 CTTCTTAATTTTAAAAATCTTCTAACCATAGTTTCAACCCCCAAAAAAAAACACTTTTTTACCTT
* * *
5997027 CTCAATTTCACAACTCTTTTAACCATAGTTTCAACCCTCCC-CACAAAGAAACAATTCTTTAG
66 CTCAATTTCACAACTCTTCTAACCATAGTTTCAACCC-CCCTCACAAAAAAACACTTCTTTAG
* * * * * * *
5997089 ATTCTTAATTTCACAAAATCTTCTAACCATGGTTTCAA-CCCC-TAAAAAAACAGTTATTTATCT
1 CTTCTTAATTTTA-AAAATCTTCTAACCATAGTTTCAACCCCCAAAAAAAAACACTTTTTTACCT
* * *
5997152 TCTCAATTTCATAACTCTTTTAACCATAGTTTCAACCCTTCCCCCTACCACAAAAAAATACTTCT
65 TCTCAATTTCACAACTCTTCTAACCATAGTTTCAA--C--CCCCCT--CACAAAAAAACACTTCT
5997217 TTAG
124 TTAG
* * *
5997221 CTTCTT-ATTTTCACAACTCTTTTAACCATAGTTTCAACCCTTCCCCCACCAAAAAAAACACTTT
1 CTTCTTAATTTT-AAAAATCTTCTAACCATAGTTTCAA-----CCCCCA--AAAAAAAACACTTT
* * * *
5997285 TTTAGCTTCTAAATTTCAAAAATCTTCTAACCATAGTTTCAAACCCCCCTCACAAAAAAACACTT
58 TTTACCTTCTCAATTTCACAACTCTTCTAACCATAGTTTC-AACCCCCCTCACAAAAAAACACTT
5997350 CTTTAG
122 CTTTAG
* ** *
5997356 CTTCTTAATTTTATAAATCTTCTAATTATAGTTTTAACCCACACAAAAAAAAAACACTTTTTTAC
1 CTTCTTAATTTTAAAAATCTTCTAACCATAGTTTCAACCC-C-C-AAAAAAAAACACTTTTTTAC
* * * * * *
5997421 CTTCTCAATTCCACTAGTCTTCTAACCATAGTTTCAACTCCCCT----AAAAAACACCTCTTTAA
63 CTTCTCAATTTCACAACTCTTCTAACCATAGTTTCAACCCCCCTCACAAAAAAACACTTCTTTAG
5997482 CTTCTTAAT
1 CTTCTTAAT
5997491 GATGTAGTCA
Statistics
Matches: 436, Mismatches: 58, Indels: 59
0.79 0.10 0.11
Matches are distributed among these distances:
117 23 0.05
118 4 0.01
119 1 0.00
121 46 0.11
122 5 0.01
126 111 0.25
127 21 0.05
128 1 0.00
129 3 0.01
130 13 0.03
131 73 0.17
132 25 0.06
133 1 0.00
135 45 0.10
136 5 0.01
137 10 0.02
139 1 0.00
140 46 0.11
141 2 0.00
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.36
Consensus pattern (127 bp):
CTTCTTAATTTTAAAAATCTTCTAACCATAGTTTCAACCCCCAAAAAAAAACACTTTTTTACCTT
CTCAATTTCACAACTCTTCTAACCATAGTTTCAACCCCCCTCACAAAAAAACACTTCTTTAG
Found at i:5997455 original size:200 final size:193
Alignment explanation
Indices: 5996879--5997458 Score: 493
Period size: 200 Copynumber: 3.0 Consensus size: 193
5996869 AACTATAGTA
* * * * * *
5996879 CCCCA-AAAAAATACAGTTCTTTAGTTTCTCAATTTTAC-AACTCTTTTAACCATAGTTTC-ACC
1 CCCCACAAAAAA-ACAATTCTTTAGATTCTAAATTTCACAAAATCTTCTAACCATAGTTTCAACC
** * * * * * * *
5996941 CAAAAAAAAAATAATTCTTTAGCTTCTTAATTTCAAAAATTTTCTAACCATAGTGTCAACCCC-C
65 C-CTAAAAAAACACTTATTTAGCTTCTCAATTTCATAAATCTTCTAACCATAGTTTCAACCCCAC
* * * *
5997005 --C---TAAAAAAGAGTTAC-TTATCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAACCC
129 TACAAAAAAAAAACACTT-CTTTACCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAACCC
5997064 T
193 T
* * *
5997065 CCCCACAAAGAAACAATTCTTTAGATTCTTAATTTCACAAAATCTTCTAACCATGGTTTCAACCC
1 CCCCACAAAAAAACAATTCTTTAGATTCTAAATTTCACAAAATCTTCTAACCATAGTTTCAACCC
* * * *
5997130 CTAAAAAAACAGTTATTTATCTTCTCAATTTCATAACTCTTTTAACCATAGTTTCAACCCTTCCC
66 CTAAAAAAACACTTATTTAGCTTCTCAATTTCATAAATCTTCTAACCATAGTTTCAA--C--CCC
* * * * * * *
5997195 CCTACCACAAAAAAATACTTCTTTAGCTTCTTATTTTCACAACTCTTTTAACCATAGTTTCAACC
127 ACTACAAAAAAAAAACACTTCTTTACCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAACC
5997260 CTT
192 C-T
* * *
5997263 CCCCCACCAAAAAAAACACTTTTTTAGCTTCTAAATTTCA-AAAATCTTCTAACCATAGTTTCAA
1 -CCCCA-C-AAAAAAACAATTCTTTAGATTCTAAATTTCACAAAATCTTCTAACCATAGTTTC-A
* * * ** *
5997327 ACCCCCCTCACAAAAAAACACTTCTTTAGCTTCTTAATTTTATAAATCTTCTAATTATAGTTTTA
62 A--CCCCT---AAAAAAACACTTATTTAGCTTCTCAATTTCATAAATCTTCTAACCATAGTTTCA
* * * * *
5997392 A-CCCAC-ACAAAAAAAAAACACTTTTTTACCTTCTCAATTCCACTAGTCTTCTAACCATAGTTT
122 ACCCCACTACAAAAAAAAAACACTTCTTTACCTTCTCAATTTCACAACTCTTTTAACCATAGTTT
5997455 CAAC
187 CAAC
5997459 TCCCCTAAAA
Statistics
Matches: 316, Mismatches: 54, Indels: 34
0.78 0.13 0.08
Matches are distributed among these distances:
186 27 0.09
187 68 0.22
188 4 0.01
189 1 0.00
191 3 0.01
192 1 0.00
194 1 0.00
196 1 0.00
197 50 0.16
198 1 0.00
199 5 0.02
200 72 0.23
201 32 0.10
203 5 0.02
206 45 0.14
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (193 bp):
CCCCACAAAAAAACAATTCTTTAGATTCTAAATTTCACAAAATCTTCTAACCATAGTTTCAACCC
CTAAAAAAACACTTATTTAGCTTCTCAATTTCATAAATCTTCTAACCATAGTTTCAACCCCACTA
CAAAAAAAAAACACTTCTTTACCTTCTCAATTTCACAACTCTTTTAACCATAGTTTCAACCCT
Found at i:5999363 original size:3 final size:3
Alignment explanation
Indices: 5999355--5999396 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
5999345 ATAAATTTGA
*
5999355 TAT TAT TAT TAT TAT TAT TAC TAT TAT TATT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA
5999397 GTTTTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:5999405 original size:19 final size:19
Alignment explanation
Indices: 5999358--5999393 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5999348 AATTTGATAT
5999358 TATTATTA-TTATTATTAC
1 TATTATTATTTATTATTAC
5999376 TATTATTATTTATTATTA
1 TATTATTATTTATTATTA
5999394 TTAGTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTATTATTTATTATTAC
Found at i:6000276 original size:72 final size:72
Alignment explanation
Indices: 6000159--6000300 Score: 239
Period size: 72 Copynumber: 2.0 Consensus size: 72
6000149 TATTTTCAAA
*
6000159 CAAGTTTTAAACGATCTCAGGAATTAAGAAGAGATCGTGTCCTAACTTACTGGGCATGATCCCTT
1 CAAGTTTTAAACGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTT
6000224 TTTTTCT
66 TTTTTCT
* * * *
6000231 CAAGTTTTAAACGGTCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCTTT
1 CAAGTTTTAAACGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTT
6000296 TTTTT
66 TTTTT
6000301 AAATCTGAGA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (72 bp):
CAAGTTTTAAACGATCTCAGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCCTT
TTTTTCT
Found at i:6006176 original size:238 final size:238
Alignment explanation
Indices: 6005758--6006238 Score: 865
Period size: 238 Copynumber: 2.0 Consensus size: 238
6005748 TGGCATGGGT
*
6005758 TCTTATATGAGTAGTGGGAAACGCTACGATTCGATAAGTCCTCCAGCCGAATTGATAAAGGGAAA
1 TCTTATACGAGTAGTGGGAAACGCTACGATTCGATAAGTCCTCCAGCCGAATTGATAAAGGGAAA
* *
6005823 GGCCATAGTGACGGAGCAAAAGAAGAAAAAAACAGCTGAGCCTGTGTTACCTATTACCGAGCTAG
66 GGCCATAGTGACAGAGCAAAAGAAGAAAAAAACAGCTGAGCCTGTGTTACCTATTACCGAGCCAG
* *
6005888 TGAAAGAGGAGGAAGCTAAGGAATTCCTCAAATTCATGAAGCATAGCGAATATAGTGTTGTGGAG
131 TGAAAGAGGAAGAAGCCAAGGAATTCCTCAAATTCATGAAGCATAGCGAATATAGTGTTGTGGAG
*
6005953 CAATTGCATAAGCAACCATCCCGCATATCCGTGTTAGCCTTGC
196 CAATTGCATAAGCAACCAGCCCGCATATCCGTGTTAGCCTTGC
* *
6005996 TCTTATACGCGTAGTGGGAAACGCTACGATTTGATAAGTCCTCCAGCCGAATTGATAAAGGGAAA
1 TCTTATACGAGTAGTGGGAAACGCTACGATTCGATAAGTCCTCCAGCCGAATTGATAAAGGGAAA
*
6006061 GGCCATAGTGACAGAGCAAAAGAAGAAAAAAATAG-TGAAGCCTGTGTTACCTATTACCGAGCCA
66 GGCCATAGTGACAGAGCAAAAGAAGAAAAAAACAGCTG-AGCCTGTGTTACCTATTACCGAGCCA
6006125 GTGAAAGAGGAAGAAGCCAAGGAATTCCTCAAATTCATGAAGCATAGCGAATATAGTGTTGTGGA
130 GTGAAAGAGGAAGAAGCCAAGGAATTCCTCAAATTCATGAAGCATAGCGAATATAGTGTTGTGGA
6006190 GCAATTGCATAAGCAACCAGCCCGCATATCCGTGTTAGCCTTGC
195 GCAATTGCATAAGCAACCAGCCCGCATATCCGTGTTAGCCTTGC
6006234 TCTTA
1 TCTTA
6006239 AGTTCTGAAG
Statistics
Matches: 233, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
237 2 0.01
238 231 0.99
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (238 bp):
TCTTATACGAGTAGTGGGAAACGCTACGATTCGATAAGTCCTCCAGCCGAATTGATAAAGGGAAA
GGCCATAGTGACAGAGCAAAAGAAGAAAAAAACAGCTGAGCCTGTGTTACCTATTACCGAGCCAG
TGAAAGAGGAAGAAGCCAAGGAATTCCTCAAATTCATGAAGCATAGCGAATATAGTGTTGTGGAG
CAATTGCATAAGCAACCAGCCCGCATATCCGTGTTAGCCTTGC
Found at i:6012628 original size:50 final size:50
Alignment explanation
Indices: 6012510--6013627 Score: 797
Period size: 50 Copynumber: 22.3 Consensus size: 50
6012500 AAGTCATAGC
* * * *
6012510 GGAACAGATTGAAGCTAGAACAGCGAATCTTGCTTCCCCCGACATTGCAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCG-CAGTGCAGT
** * ** * *
6012561 TAAATAGATTGAAGCTACAACAGTAAATCTTACTTCTCTAGCAGTGCAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAGTGCAGT
* * * *
6012611 GGAACAGATTAAAGCTACAACAACGAATCTTGCTT-CCTCGACATTGCAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCG-CAGTGCAGT
** * * * * *
6012661 TAAATAGATTGAAGCTACAATAGCGAATCTTACTTCCCTGGCGGTGTAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAGTGCAGT
* * * * * *
6012711 GGAACAAATTGAAGCTACAACAGTGAATCTTGCTTTCC-CGACATTACAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCG-CAGTGCAGT
** * ** * * *
6012761 TAAATAGATTGAAGCTACAACAATGAATCTTGCTTCCC-CGACATTGTAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCG-CAGTGCAGT
** * ** * * *
6012811 TAAATAGATTGAAGCTACAACAATGAATCTTATTTCCCTGGC-GATGTAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAG-TGCAGT
* * * * * *
6012861 GGAACAGATTGAAGCTACAACATCAAATCTTACGTCCCTAGCGGTGTAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAGTGCAGT
* * *
6012911 GGAACAGATTGAAGCTACAACAACAAATCTTACTTCCC-CGACATTGCAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCG-CAGTGCAGT
** * * * ** *
6012961 TAAATAGATTGAAGCTACAACAGTGAATCTTATTTCCCTAACGGTGCAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAGTGCAGT
* * *
6013011 GGAACAGATTGAAGCTGCAACAGCGAATCTTGCTTCCCT-GACATTGCAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCG-CAGTGCAGT
** * * *
6013061 TAAATAGATTGAAGCTACAACAGCGAATCTTACTTCTCTAGCAGTGCAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAGTGCAGT
* * *
6013111 GGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCC-CGACATTGCAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCG-CAGTGCAGT
** * * * * *
6013161 TAAATAGATTGAAGCTACAATA-CGAATCTTACTTCCCTGGCGGTGTAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAGTGCAGT
* * * *** * *
6013210 GGAACAGATTGAAGCTACAACAGTGAATTTTGCTTTCCC-AAAATTACAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTAC-TTCCCTCGCAGTGCAGT
** * * *
6013260 TAAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCT-GACGGTGTAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCG-CAGTGCAGT
* * *
6013310 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCC-CGACATTGTAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCG-CAGTGCAGT
** * * ** * * *
6013360 TAAATAGATTGAAGTTACAACAATGAATCATACTTCCCTGGCAGTGTAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAGTGCAGT
* * * *
6013410 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCC-CGACATTGTAAT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCG-CAGTGCAGT
** * * ** * * * *
6013460 TAAATAGATTGAAGTTACAACAATGAATCATACTTCCCTGGCGGTGTAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAGTGCAGT
* * * * *
6013510 GGAACAGATTGAAGCTACAACATCAAATCATATTTCCCTGGC-GTGGCAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAGT-GCAGT
* * * * * ** * *
6013560 AGAATAGATTAAAACTA-AATTTAGCGAATCTTGTTTCCCTGGCATTGCAGT
1 GGAACAGATTGAAGCTACAA--CAGCGAATCTTACTTCCCTCGCAGTGCAGT
* *
6013611 GGAATAGATTAAAGCTA
1 GGAACAGATTGAAGCTA
6013628 AAGCAGAGTA
Statistics
Matches: 838, Mismatches: 205, Indels: 48
0.77 0.19 0.04
Matches are distributed among these distances:
49 53 0.06
50 702 0.84
51 82 0.10
52 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.27
Consensus pattern (50 bp):
GGAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCTCGCAGTGCAGT
Found at i:6012690 original size:100 final size:100
Alignment explanation
Indices: 6012510--6013531 Score: 1332
Period size: 100 Copynumber: 10.2 Consensus size: 100
6012500 AAGTCATAGC
*
6012510 GGAACAGATTGAAGCTAGAACAGCGAATCTTGCTTCCCCCGACATTGCAGTTAAATAGATTGAAG
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTT-CCCCGACATTGCAGTTAAATAGATTGAAG
** * * *
6012575 CTACAACAGTAAATCTTACTTCTCTAGCAGTGCAGT
65 CTACAACAGCGAATCTTACTTCCCTAGCGGTGTAGT
* * *
6012611 GGAACAGATTAAAGCTACAACAACGAATCTTGCTTCCTCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* *
6012676 TACAATAGCGAATCTTACTTCCCTGGCGGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTAGCGGTGTAGT
* * * *
6012711 GGAACAAATTGAAGCTACAACAGTGAATCTTGCTTTCCCGACATTACAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
** * * **
6012776 TACAACAATGAATCTTGCTTCCC-CGACATTGTAGT
66 TACAACAGCGAATCTTACTTCCCTAG-CGGTGTAGT
** * ** ** * * * ** *
6012811 TAAATAGATTGAAGCTACAACAATGAATCTTATTTCCCTGGCGA-TGTAGTGGAACAGATTGAAG
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGAC-ATTGCAGTTAAATAGATTGAAG
* * *
6012875 CTACAACATCAAATCTTACGTCCCTAGCGGTGTAGT
65 CTACAACAGCGAATCTTACTTCCCTAGCGGTGTAGT
* * *
6012911 GGAACAGATTGAAGCTACAACAACAAATCTTACTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * * *
6012976 TACAACAGTGAATCTTATTTCCCTAACGGTGCAGT
66 TACAACAGCGAATCTTACTTCCCTAGCGGTGTAGT
* *
6013011 GGAACAGATTGAAGCTGCAACAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* * *
6013076 TACAACAGCGAATCTTACTTCTCTAGCAGTGCAGT
66 TACAACAGCGAATCTTACTTCCCTAGCGGTGTAGT
*
6013111 GGAACAGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
* *
6013176 TACAATA-CGAATCTTACTTCCCTGGCGGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTAGCGGTGTAGT
* * * * * *
6013210 GGAACAGATTGAAGCTACAACAGTGAATTTTGCTTTCCCAAAATTACAGTTAAATAGATTGAAGC
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
6013275 TACAACAGCGAATCTTACTTCCCT-GACGGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTAG-CGGTGTAGT
* *
6013310 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGTAGTTAAATAGATTGAAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
** * * *
6013375 TACAACAATGAATCATACTTCCCTGGCAGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTAGCGGTGTAGT
* * *
6013410 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGTAATTAAATAGATTGAAGT
1 GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
** * *
6013475 TACAACAATGAATCATACTTCCCTGGCGGTGTAGT
66 TACAACAGCGAATCTTACTTCCCTAGCGGTGTAGT
6013510 GGAACAGATTGAAGCTACAACA
1 GGAACAGATTGAAGCTACAACA
6013532 TCAAATCATA
Statistics
Matches: 807, Mismatches: 107, Indels: 15
0.87 0.12 0.02
Matches are distributed among these distances:
99 90 0.11
100 682 0.85
101 35 0.04
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (100 bp):
GGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGC
TACAACAGCGAATCTTACTTCCCTAGCGGTGTAGT
Found at i:6013569 original size:150 final size:150
Alignment explanation
Indices: 6012515--6013549 Score: 938
Period size: 150 Copynumber: 6.9 Consensus size: 150
6012505 ATAGCGGAAC
* * * * * ** *
6012515 AGATTGAAGCTAGAACAGCGAATCTTGCTTCCCCCGACATTGCAGTTAAATAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGCGAATCTTACTT-CCCTGACAGTGTAGTGGAACAGATTGAAGCTACA
* * * * * * *
6012580 ACAGTAAATCTTACTTCTCTAGCAGTGCAGTGGAACAGATTAAAGCTACAACAACGAATCTTGCT
65 ACAGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACATCGAATCTTACT
6012645 T-CCTCGACATTGCAGTTAAAT
130 TCCCT-GACATTGCAGTTAAAT
* * * *
6012666 AGATTGAAGCTACAATAGCGAATCTTACTTCCCTGGCGGTGTAGTGGAACAAATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGTAGTGGAACAGATTGAAGCTACAA
* * * ** ** * *
6012731 CAGTGAATCTTGCTTTCCC-GACATTACAGTTAAATAGATTGAAGCTACAACAAT-GAATCTTGC
66 CAGTGAATCTTAC-TTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAAC-ATCGAATCTTAC
* *
6012794 TTCCCCGACATTGTAGTTAAAT
129 TTCCCTGACATTGCAGTTAAAT
** * *
6012816 AGATTGAAGCTACAACAATGAATCTTATTTCCCTGGC-GATGTAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAG-TGTAGTGGAACAGATTGAAGCTACA
* * * * * *
6012880 ACA-TCAAATCTTACGTCCCTAGCGGTGTAGTGGAACAGATTGAAGCTACAACAACAAATCTTAC
65 ACAGT-GAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACATCGAATCTTAC
*
6012944 TTCCCCGACATTGCAGTTAAAT
129 TTCCCTGACATTGCAGTTAAAT
* * * * * *
6012966 AGATTGAAGCTACAACAGTGAATCTTATTTCCCTAACGGTGCAGTGGAACAGATTGAAGCTGCAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGTAGTGGAACAGATTGAAGCTACAA
* * * * * ** * *
6013031 CAGCGAATCTTGCTTCCCTGACATTGCAGTTAAATAGATTGAAGCTACAACAGCGAATCTTACTT
66 CAGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACATCGAATCTTACTT
* * ** *
6013096 CTCT-AGCAGTGCAGTGGAAC
131 CCCTGA-CATTGCAGTTAAAT
* * * * * ** *
6013116 AGATTGAAGCTACAACAGCAAATCTTGCTTCCCCGACATTGCAGTTAAATAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGTAGTGGAACAGATTGAAGCTACAA
* * * * *
6013181 TA-CGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACAGT-GAATTTTGCT
66 CAGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACA-TCGAATCTTAC-
* * *
6013244 TTCCC-AAAATTACAGTTAAAT
129 TTCCCTGACATTGCAGTTAAAT
*
6013265 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACGGTGTAGTGGAACAGATTGAAGCTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGTAGTGGAACAGATTGAAGCTACAA
* * * * * ** * * *
6013330 CAGCGAATCTTGCTTCCCCGACATTGTAGTTAAATAGATTGAAGTTACAACAAT-GAATCATACT
66 CAGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAAC-ATCGAATCTTACT
* * * ** *
6013394 TCCCTGGCAGTGTAGTGGAAC
130 TCCCTGACATTGCAGTTAAAT
* * * * ** * *
6013415 AGATTGAAGCTACAACAGCGAATCTTGCTTCCCCGACATTGTAATTAAATAGATTGAAGTTACAA
1 AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGTAGTGGAACAGATTGAAGCTACAA
* * * * * *
6013480 CAATGAATCATACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTACAACATCAAATCATATTT
66 CAGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACATCGAATCTTACTT
6013545 CCCTG
131 CCCTG
6013550 GCGTGGCAGT
Statistics
Matches: 710, Mismatches: 157, Indels: 35
0.79 0.17 0.04
Matches are distributed among these distances:
149 128 0.18
150 546 0.77
151 36 0.05
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (150 bp):
AGATTGAAGCTACAACAGCGAATCTTACTTCCCTGACAGTGTAGTGGAACAGATTGAAGCTACAA
CAGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAGATTGAAGCTACAACATCGAATCTTACTT
CCCTGACATTGCAGTTAAAT
Found at i:6013932 original size:132 final size:132
Alignment explanation
Indices: 6013737--6013999 Score: 411
Period size: 132 Copynumber: 2.0 Consensus size: 132
6013727 TCGAAGATAC
* * *
6013737 CAGCCTTGTCTCCTTGAGAAGCAGTAGAGTAGGTTGAAGATTGTATATCCTGTCTCCCTAAGCAG
1 CAGCCTTGTCTCCCTGAGAAGCAGTAGAGTAGATTGAAGATTGTAGATCCTGTCTCCCTAAGCAG
*
6013802 TAGTGGAGCAGATCGAAGAT-GACGAATCTTATTTTCCCAAGATAGTAGGGAAGCAGATTTAAGC
66 TAGTGGAGCAGATCGAAGATAG-CGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGC
6013866 CAA
130 CAA
* *
6013869 CAGCCTTGTCTCCCTGAGAAGCAGTGGAGTAGATTGAATATTGTAGATCCTGTCTCCCTAAGCAG
1 CAGCCTTGTCTCCCTGAGAAGCAGTAGAGTAGATTGAAGATTGTAGATCCTGTCTCCCTAAGCAG
* * * * *
6013934 TAGTGGAGCAGATCGAAGGTAGTGAATCTTATCTTCTCAAGGTAGTAGGGAAGTAGATTTAAGCC
66 TAGTGGAGCAGATCGAAGATAGCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCC
6013999 A
131 A
6014000 CTAGTCTTAT
Statistics
Matches: 119, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
132 118 0.99
133 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (132 bp):
CAGCCTTGTCTCCCTGAGAAGCAGTAGAGTAGATTGAAGATTGTAGATCCTGTCTCCCTAAGCAG
TAGTGGAGCAGATCGAAGATAGCGAATCTTATCTTCCCAAGATAGTAGGGAAGCAGATTTAAGCC
AA
Found at i:6014230 original size:44 final size:44
Alignment explanation
Indices: 6014159--6014267 Score: 119
Period size: 44 Copynumber: 2.5 Consensus size: 44
6014149 GCTACAAGTC
* * * ** *
6014159 TTATCTTTTTGAAGTTACAGTGGAGCAGATTAAAGCCACAAACA
1 TTATCTCTCTGAAGTTGCAGTAAAGCAGATTAAAGCAACAAACA
* * * *
6014203 TTATCTCTCTGAAGTTGCAGTAAAGCAGGTTGAAGTAACAAACG
1 TTATCTCTCTGAAGTTGCAGTAAAGCAGATTAAAGCAACAAACA
*
6014247 TTATCCCTCTGAAGTTGCAGT
1 TTATCTCTCTGAAGTTGCAGT
6014268 GGGACAGGTT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
TTATCTCTCTGAAGTTGCAGTAAAGCAGATTAAAGCAACAAACA
Found at i:6016302 original size:10 final size:10
Alignment explanation
Indices: 6016287--6016327 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
6016277 TATATTTGTC
6016287 TTATTATATA
1 TTATTATATA
6016297 TTATTATATAA
1 TTATTATAT-A
6016308 TTATT-TATA
1 TTATTATATA
6016317 -TATATATATA
1 TTAT-TATATA
6016327 T
1 T
6016328 CTTTTCTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 3 0.11
9 2 0.07
10 16 0.59
11 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTATTATATA
Found at i:6016934 original size:73 final size:73
Alignment explanation
Indices: 6016815--6016957 Score: 232
Period size: 73 Copynumber: 2.0 Consensus size: 73
6016805 TATTTTCAAA
* * * *
6016815 CAAGTTTTAAACAATCTCGTGAATTAATAAGAGATCGTGTCCTAACTTACTATGCATGATCCCTT
1 CAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTT
6016880 TTTTTTCT
66 TTTTTTCT
* *
6016888 CAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCCCTT
1 CAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTT
6016953 TTTTT
66 TTTTT
6016958 AAATCCGAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (73 bp):
CAAGTTTTAAACAATCTCGAGAATTAAGAAAAGATCGTGTCCTAACTTACTAGGCATGATCCCTT
TTTTTTCT
Done.