Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1085
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: 1639209
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.20
Warning! 665865 characters in sequence are not A, C, G, or T
File 5 of 7
Found at i:909033 original size:34 final size:34
Alignment explanation
Indices: 908991--909068 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
908981 CTTTGAAGAC
*
908991 AAAA-GAAAAGGAGTGCATCCTACTCTTCAAGGA
1 AAAAGGAAAAGGAGTACATCCTACTCTTCAAGGA
* ** * *
909024 AAAAGGAAAATGAGTATGTCCTGCTCTTCGAGGA
1 AAAAGGAAAAGGAGTACATCCTACTCTTCAAGGA
*
909058 CAAAGGAAAAG
1 AAAAGGAAAAG
909069 AGAATGAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
33 4 0.11
34 32 0.89
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.18
Consensus pattern (34 bp):
AAAAGGAAAAGGAGTACATCCTACTCTTCAAGGA
Found at i:909245 original size:61 final size:61
Alignment explanation
Indices: 909166--909913 Score: 875
Period size: 61 Copynumber: 12.3 Consensus size: 61
909156 CGCATCCTGG
* * * * ** * *
909166 TCTTTGGGGACTAGAAGGTGCCACCAACTTATGTGGGCCTTGCAAGGAGAAA-ACGTCTTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGACGTCCTAC
* * * ** *
909227 TCTTTGAGGACTAAAAGGTGCCACTAGCTCGTGTGGGCTTTAAAAAGG-AAAGGTGTCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGACGTCCTAC
* *
909288 TCTTTGAGGATTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTAC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTAC
* *
909349 TCTTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTGAAAA-G-AAA-ACGTCCTAC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGACGTCCTAC
* *
909408 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACATCCTAC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTAC
* * * * ** * *
909469 TCTTTAAGGACTGAAATGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGTGTCATGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTAC
* * *
909530 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGG-AAAG-CGTCCTAC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTAC
** * * * * * *
909589 TCTTTGAGGACTGGAAGGTGCGAGCAACTTGTATGGGCTTTAAAAAGAAAAGGCGTCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTAC
* * * * * *
909650 TCTTTGAGGATTGAAAGATGCCACCAACTTGTGCGGGCTTTAAAAGGAAAAGACATCCTGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTAC
* * * *
909711 TCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAATGAAAAGACATCCTAC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTAC
* * * * * *
909772 ACTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAACAA--AAAAGAAGTGTCATGC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AAGGAAAAG-A-CGTCCTAC
*
909834 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTAC
1 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTAC
909895 TCTTTGAGGACTAAAAGGT
1 TCTTTGAGGACTAAAAGGT
909914 TAAAAGGTTT
Statistics
Matches: 593, Mismatches: 80, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
58 4 0.01
59 94 0.16
60 28 0.05
61 407 0.69
62 55 0.09
63 5 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (61 bp):
TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTAC
Found at i:909492 original size:181 final size:181
Alignment explanation
Indices: 909166--909913 Score: 941
Period size: 181 Copynumber: 4.1 Consensus size: 181
909156 CGCATCCTGG
* * * * * *
909166 TCTTTGGGGACTAGAAGGTGCCACCAACTTATGTGGGCCTTGCAAGGAGAAAACGTCTTGCTCTT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG-AA-AAGAAAACGTCCTACTCTT
* * * * ***
909231 TGAGGACTAAAAGGTGCCACTAGCTCGTGTGGGCTTTAAAAAGG-AAAGGTGTCCTGCTCTTTGA
64 TGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGACATCCTGCTCTTTGA
*
909295 GGATTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTAC
128 GGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTAC
*
909349 TCTTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAACGTCCTACTCTTTG
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAACGTCCTACTCTTTG
* *
909414 AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACATCCTACTCTTTAAGGA
66 AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACATCCTGCTCTTTGAGGA
* * * * * *
909479 CTGAAATGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGTGTCATGC
131 CTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTAC
* * *
909530 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAAAGCGTCCTACTCTTTG
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAACGTCCTACTCTTTG
* * * * * * *
909595 AGGACTGGAAGGTGCGAGCAACTTGTATGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGA
66 AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACATCCTGCTCTTTGAGGA
* * * * ** *
909660 TTGAAAGATGCCACCAACTTGTGCGGGCTTTAAAAGGAAAAGACATCCTGC
131 CTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTAC
* * *
909711 TCTTTGAGGA-TTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAATGAAAAGACATCCTACAC
1 TCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-G-AAA-ACGTCCTACTC
* *
909774 TTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAACAA--AAAAGA-AGTGTCATGCTC
62 TTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAA-AAGGAAAAGACA---TCCTGCTC
909836 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTAC
123 TTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTAC
*
909895 TCTTTGAGGACTAAAAGGT
1 TCTTTGAGGACTAGAAGGT
909914 TAAAAGGTTT
Statistics
Matches: 487, Mismatches: 68, Indels: 19
0.85 0.12 0.03
Matches are distributed among these distances:
180 11 0.02
181 307 0.63
182 10 0.02
183 82 0.17
184 76 0.16
185 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (181 bp):
TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAACGTCCTACTCTTTG
AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACATCCTGCTCTTTGAGGA
CTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTAC
Found at i:909655 original size:242 final size:241
Alignment explanation
Indices: 909166--909913 Score: 946
Period size: 242 Copynumber: 3.1 Consensus size: 241
909156 CGCATCCTGG
* * * ** * *
909166 TCTTTGGGGACTAGAAGGTGCCACCAACTTATGTGGGCCTTGCAAGGAGAAA-ACGTCTTGCTCT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGACATCCTGCTCT
* * * * *
909230 TTGAGGACTAAAAGGTGCCACTAGCTCGTGTGGGCTTTAAAAAGG-AAAGGTGTCCTGCTCTTTG
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGG-TTTTAAAAGGAAAAGGTGTCCTGCTCTTTG
* *
909294 AGGATTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTACTCTTTGAGGA
129 AGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAG-TGTCCTACTCTTTGAGGA
* *
909359 CTAGAAGATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAA-CGTCCTAC
192 CTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGCGTCCTAC
*
909408 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACATCCTACTCTT
1 TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACATCCTGCTCTT
* * *
909473 TAAGGACTGAAATGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGTGTCATGCTCTTTGAG
66 TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAG
* * * *
909538 GACTAGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAAAGCGTCCTACTCTTTGAGGACTGG
131 GACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCCTACTCTTTGAGGACTAG
* * * *
909603 AAGGTGCGAGCAACTTGTATGGGCTTTAAAAAGAAAAGGCGTCCTGC
196 AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAA-GCGTCCTAC
* * *
909650 TCTTTGAGGA-TTGAAAGATGCCACCAACTTGTGCGGGCTTTAAAAGGAAAAGACATCCTGCTCT
1 TCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACATCCTGCTCT
* * * *** * *
909714 TTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAATGAAAAGACATCCTACACTTTGA
65 TTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGTGTCCTGCTCTTTGA
* ** * *
909779 AGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAACAAAAAAGAAGTGTCATGCTCTTTGAGGA
130 GGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-A-AAAGGA-AAGTGTCCTACTCTTTGAGGA
* * *
909844 CTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCTAC
192 CTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAG-CGTCCTAC
*
909895 TCTTTGAGGACTAAAAGGT
1 TCTTTGAGGACTAGAAGGT
909914 TAAAAGGTTT
Statistics
Matches: 434, Mismatches: 62, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
240 52 0.12
241 18 0.04
242 285 0.66
244 5 0.01
245 73 0.17
246 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (241 bp):
TCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGACATCCTGCTCTT
TGAGGACTGAAAGGTGCCACCAACTTGTGTGGGTTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAG
GACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAGTGTCCTACTCTTTGAGGACTAG
AAGGTGCCACCAACTTGTGTGGGCTTTAAAAAGAAAAGCGTCCTAC
Found at i:910878 original size:23 final size:26
Alignment explanation
Indices: 910851--910906 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
910841 CTTAAATAAG
910851 TTTTTTT-CTT-TTCTCTTTTT-TTC
1 TTTTTTTCCTTCTTCTCTTTTTATTC
* *
910874 TTTTTTTCCTTCTTCTTTTTTTATTG
1 TTTTTTTCCTTCTTCTCTTTTTATTC
910900 TTTTTTT
1 TTTTTTT
910907 TGTTTCGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 7 0.25
24 3 0.11
25 9 0.32
26 9 0.32
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (26 bp):
TTTTTTTCCTTCTTCTCTTTTTATTC
Found at i:912828 original size:28 final size:28
Alignment explanation
Indices: 912795--912861 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
912785 AGGTATGCGA
* *
912795 TTGGAGTATCCCTTCGGAAATAACAGGG
1 TTGGAGTATCCCCTCGGAAATAACAAGG
912823 TTGGAGTATCCCCTCGGAAATAACAAGG
1 TTGGAGTATCCCCTCGGAAATAACAAGG
912851 TTGGAGTATCC
1 TTGGAGTATCC
912862 TCGATGATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (28 bp):
TTGGAGTATCCCCTCGGAAATAACAAGG
Found at i:913367 original size:159 final size:159
Alignment explanation
Indices: 912821--913529 Score: 801
Period size: 159 Copynumber: 4.5 Consensus size: 159
912811 GAAATAACAG
* * * * * **
912821 GGTTGGAGTATCCCCTCGGAAATAACAAGGTTGGAGTATCCTCGATGATGGAAAATCAATGTTTT
1 GGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTT
* * *
912886 AGAAATAAAACTGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTTGAGTATTCCT-GATAGTG
66 AGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTA-TCCTCGATAGTG
** * *
912950 GAAAAATCAATGTTTTAGGAATAAAATTGG
130 GAAAAATTGATGTTTTAGGAATAAAACTGA
* * * *
912980 GGTTAGAGTATCCCCTCGAAAATAA-TGAGGTTGGAGTATCCCCGATTGTGAAAAATCTGTGTTT
1 GGTTAGAGTATCCCCTCGAAAATAACAG-GGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTT
* * *
913044 TAGAAATAAAA-TCAGGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTCGATAGT
65 TAGAAATAAAACT-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATAGT
* *
913108 -GAAAAATTGTTGTTTTA-GAAAAAAACTGA
129 GGAAAAATTGATGTTTTAGGAATAAAACTGA
* * * *
913137 GGTTGGAGTATCCCCTCGGAAGTAAC-GGGATTGGAGTATCCCCGATGGTGAAAAATCGGTGTTT
1 GGTTAGAGTATCCCCTCGAAAATAACAGGG-TTGGAGTATCCCCGATGGTGGAAAATCGGTGTTT
* * * **
913201 TAGAAATAAATCTGGGGTTGGAGTATCCTCTCGAAAATAATGGGGTTAAAGTATCC-CAGATAGT
65 TAGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTC-GATAGT
*
913265 GGAAAAACTGATGTTTTAGGAATAAAACTGA
129 GGAAAAATTGATGTTTTAGGAATAAAACTGA
* * *
913296 GGTTAGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGCTTT
1 GGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTT
* * * * **
913361 GGAAATAAAAACCGGGATTGGAGTTTCCCCTC-AGAAATAACAAGGTTGGAGTATCCTCGAT-G-
66 AGAAAT-AAAACTGGGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCTCGATAGT
* * * *
913423 GAGAAATATTGATGTTTTAGAAATAACA-TTA
129 G-GAAAAATTGATGTTTTAGGAATAAAACTGA
* * * * *
913454 GGGTTAGAGTATCCCCTCGAAAATAACGGGGGTGGTGTATCCTCGATGGTGGAAAATCGGTATTT
1 -GGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTT
913519 TAGAAATAAAA
65 TAGAAATAAAA
913530 ATATGAATGA
Statistics
Matches: 465, Mismatches: 70, Indels: 31
0.82 0.12 0.05
Matches are distributed among these distances:
156 3 0.01
157 116 0.25
158 42 0.09
159 260 0.56
160 43 0.09
161 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (159 bp):
GGTTAGAGTATCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTT
AGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATAGTGG
AAAAATTGATGTTTTAGGAATAAAACTGA
Found at i:913372 original size:80 final size:79
Alignment explanation
Indices: 912821--913529 Score: 676
Period size: 79 Copynumber: 8.9 Consensus size: 79
912811 GAAATAACAG
* ** * * **
912821 GGTTGGAGTATCCCCTCGGAAATAACAAGGTTGGAGTATCCTCGATGATGGAAAATCAATGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTT
*
912886 AGAAATAAAACTGG
66 AGAAATAAAACTGA
* * * * * * **
912900 GGTTGGAGTATCCCCTTGGAAATAACGGGGTTTGAGTATTCCTGATAGTGGAAAAATCAATGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGG-AAAATTGATGTTT
* * *
912965 TAGGAATAAAATTGG
65 TAGAAATAAAACTGA
* * * * *
912980 GGTTAGAGTATCCCCTCGAAAATAATGAGGTTGGAGTATCCCCGATTGTGAAAAATCTG-TGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAAT-TGATGTTT
*
913044 TAGAAATAAAA-TCA
65 TAGAAATAAAACTGA
* * * * * *
913058 GGGTTGGAGTATCCCTTCAAAAATAACGGGGTTGGAGTATCCTCGATAGTGAAAAATTGTTGTTT
1 -GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTT
913123 TAGAAA-AAAACTGA
65 TAGAAATAAAACTGA
* * * * * *
913137 GGTTGGAGTATCCCCTCGGAAGTAACGGGATTGGAGTATCCCCGATGGTGAAAAATCGGTGTTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTT
* *
913202 AGAAATAAATCTGG
66 AGAAATAAAACTGA
* * ** * * *
913216 GGTTGGAGTATCCTCTCGAAAATAATGGGGTTAAAGTATCCCAGATAGTGGAAAAACTGATGTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGG-AAAATTGATGTTT
*
913281 TAGGAATAAAACTGA
65 TAGAAATAAAACTGA
* * * * *
913296 GGTTAGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGCTTT
1 GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTT
* *
913361 GGAAATAAAAACCG-
66 AGAAAT-AAAACTGA
* ** * *
913375 GGATTGGAGTTTCCCCTC-AGAAATAACAAGGTTGGAGTATCCTCGATGG-AGAAATATTGATGT
1 GG-TTGGAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCCGATGGTGGAAA-ATTGATGT
* *
913438 TTTAGAAATAACA-TTA
63 TTTAGAAATAAAACTGA
* * * * * * *
913454 GGGTTAGAGTATCCCCTCGAAAATAACGGGGGTGGTGTATCCTCGATGGTGGAAAATCGGTATTT
1 -GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTT
913519 TAGAAATAAAA
65 TAGAAATAAAA
913530 ATATGAATGA
Statistics
Matches: 516, Mismatches: 99, Indels: 30
0.80 0.15 0.05
Matches are distributed among these distances:
78 68 0.13
79 251 0.49
80 197 0.38
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAATTGATGTTTT
AGAAATAAAACTGA
Found at i:916541 original size:34 final size:33
Alignment explanation
Indices: 916503--916595 Score: 98
Period size: 34 Copynumber: 2.8 Consensus size: 33
916493 GTGGGCATCT
*
916503 TGCTCTTTAAAGACAAAAGAAAAGAAGTACGTCC
1 TGCTCTTTAAGGACAAAAGAAAAGAA-TACGTCC
* *
916537 TGCTCTTCAAGGA-AAAAGGAAAATGAATATGTCC
1 TGCTCTTTAAGGACAAAA-GAAAA-GAATACGTCC
* * *
916571 TACTCTTTGAGGACAAAGGAAAAGA
1 TGCTCTTTAAGGACAAAAGAAAAGA
916596 GAATGAAATG
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
33 6 0.12
34 37 0.76
35 6 0.12
ACGTcount: A:0.43, C:0.15, G:0.20, T:0.22
Consensus pattern (33 bp):
TGCTCTTTAAGGACAAAAGAAAAGAATACGTCC
Found at i:916610 original size:40 final size:42
Alignment explanation
Indices: 916545--916684 Score: 171
Period size: 42 Copynumber: 3.4 Consensus size: 42
916535 CCTGCTCTTC
* *
916545 AAGG-AAAAAGGAAAATG-AATATGTCCTACTCTTTGAGGACA
1 AAGGAAAAAAGG-AAATGAAATGTGTCCTGCTCTTTGAGGACA
* *
916586 AAGGAAAAGA-G-AATGAAATGTGTCCTGCTCCTTGAGGACA
1 AAGGAAAAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACA
* * *
916626 AAGGAAAAAAGGAAATAAAATGCGCCCTGCTCTTTGAGGACA
1 AAGGAAAAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACA
916668 AAGGAAAATAAGGAAAT
1 AAGGAAAA-AAGGAAAT
916685 TAAAGCGCAT
Statistics
Matches: 85, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
39 4 0.05
40 30 0.35
41 6 0.07
42 37 0.44
43 8 0.09
ACGTcount: A:0.44, C:0.13, G:0.24, T:0.19
Consensus pattern (42 bp):
AAGGAAAAAAGGAAATGAAATGTGTCCTGCTCTTTGAGGACA
Found at i:916795 original size:61 final size:60
Alignment explanation
Indices: 916694--917382 Score: 778
Period size: 61 Copynumber: 11.4 Consensus size: 60
916684 TTAAAGCGCA
* * * * **
916694 TCCTGGTCTTTGGGGACTAGAAGGTGCTACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGCG
* * * * *
916755 TCCTGCTCTTTGAGGACTAAAAGGTACCACCAGCTCGTGTGGGCTTTAAAAAGGAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGCG
* * * * *
916816 TCATGCTCTTTGAGGATTGAAAGGTG-CACCAACTTGTGTGGGCTTTAAAAGGAAAGGATG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-CG
* * *
916876 TCCTGCTCTTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGG-AAAGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCG
* * *
916935 TCCTGCTCTTTGAGGGCTAGAAGGTG---CCAACTTGTGTGGGCTTTAAAAGGAAAAGACA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-CG
* * * ** *
916993 TCCTACTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGATTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCG
* * * * *
917054 TCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGG-AAAGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCG
* * * * *
917113 TCTTACTCTTTGAGGAATAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCG
* * * * *
917174 TCCTGCTCGTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAATGAAAAGACA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-CG
* * ** *
917235 TCCTGCTCTTTGAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTTAACAAAAAAGAAGTG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAA-AAGGAA-AAGCG
* *
917297 TCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG-CG
* *
917358 TCCTACTCTTTAAGGACTAAAAGGT
1 TCCTGCTCTTTGAGGACTAAAAGGT
917383 TAAAAGGTTT
Statistics
Matches: 531, Mismatches: 82, Indels: 30
0.83 0.13 0.05
Matches are distributed among these distances:
56 23 0.04
57 4 0.01
58 22 0.04
59 85 0.16
60 54 0.10
61 284 0.53
62 56 0.11
63 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.27
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCG
Found at i:917248 original size:181 final size:181
Alignment explanation
Indices: 916692--917382 Score: 854
Period size: 181 Copynumber: 3.8 Consensus size: 181
916682 AATTAAAGCG
* * * * *
916692 CATCCTGGTCTTTGGGGACTAGAAGGTGCTACCAACTTGTGTGGGCTTTGCAAGGAGAAAGCGTC
1 CATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-GAAAGCATC
* * * * *
916757 CTGCTCTTTGAGGACTAAAAGGTACCACCAGCTCGTGTGGGCTTTAAAAAGG-AAAGGTGTCATG
64 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTCCTG
* *
916821 CTCTTTGAGGATTGAAAGGTG-CACCAACTTGTGTGGGCTTTAAAAGGAAAGGA
128 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
** * *
916874 TGTCCTGCTCTTTGAGGACTAGAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCGTCCT
1 CATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCATCCT
* * * * *
916939 GCTCTTTGAGGGCTAGAAGGTG---CCAACTTGTGTGGGCTTTAAAAGGAAAAGACATCCTACTC
66 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTC
* ** *
917001 TTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGATTTTAAAAGGAAAAGG
131 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
** * * *
917052 TGTCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGAAAGCATCTT
1 CATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCATCCT
* * * *
917117 ACTCTTTGAGGAATAGAAGGTGCCACCAACTTGTATGGGCTTTAAAAGGAAAAGGCGTCCTGCTC
66 GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTC
* * *
917182 GTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAATGAAAAGA
131 TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
* ** *
917233 CATCCTGCTCTTTGAGGATTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AACAAAAAAGAAGTG
1 CATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGAAAGCA---
* **
917297 TCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGATGTCCT
62 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
* * *
917362 ACTCTTTAAGGACTAAAAGGT
127 GCTCTTTGAGGACTGAAAGGT
917383 TAAAAGGTTT
Statistics
Matches: 438, Mismatches: 62, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
176 6 0.01
177 42 0.10
178 107 0.24
180 32 0.07
181 133 0.30
182 44 0.10
184 74 0.17
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.26
Consensus pattern (181 bp):
CATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAGCATCCT
GCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTC
TTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGA
Found at i:918388 original size:16 final size:17
Alignment explanation
Indices: 918349--918390 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
918339 TTAAGCAAGT
*
918349 TTTTTTCTTCTCTTTTTT
1 TTTTTT-TTCTCTTTTTG
918367 TCTTTTTTTC-CTTTTTG
1 T-TTTTTTTCTCTTTTTG
918384 TTTTTTT
1 TTTTTTT
918391 GTTGTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 7 0.32
18 4 0.18
19 5 0.23
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.83
Consensus pattern (17 bp):
TTTTTTTTCTCTTTTTG
Found at i:918414 original size:19 final size:20
Alignment explanation
Indices: 918378--918421 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
918368 CTTTTTTTCC
**
918378 TTTTTGTTTTTTTGTTGTTT
1 TTTTTGTTTCGTTGTTGTTT
918398 TTTTTGTTTCGTT-TTGTTT
1 TTTTTGTTTCGTTGTTGTTT
918417 TTTTT
1 TTTTT
918422 AAAAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (20 bp):
TTTTTGTTTCGTTGTTGTTT
Found at i:923888 original size:4 final size:4
Alignment explanation
Indices: 923879--923903 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
923869 AAACAGAACA
923879 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
923904 CCTCAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:926018 original size:27 final size:28
Alignment explanation
Indices: 925965--926027 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 28
925955 AACGGAGTTA
* *
925965 GAGTATCTCTTCGGAAATAACAAGGTTG
1 GAGTATCCCTTCAGAAATAACAAGGTTG
*
925993 GAGTATCCCTTCAG-AATAACAGGGTTG
1 GAGTATCCCTTCAGAAATAACAAGGTTG
926020 GAGTATCC
1 GAGTATCC
926028 TCGATGATGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (28 bp):
GAGTATCCCTTCAGAAATAACAAGGTTG
Found at i:926103 original size:79 final size:79
Alignment explanation
Indices: 925987--926693 Score: 617
Period size: 79 Copynumber: 9.0 Consensus size: 79
925977 GGAAATAACA
* * * * * *
925987 AGGTTGGAGTATCCCTTC-AGAATAACAGGGTTGGAGTATCCTCGATGATGGAAAATCAATGTTC
1 AGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTTT
*
926051 TAGAAATAAAACCG
66 TAGAAATAAAATCG
** * * * * *
926065 AGGTTGGAGTATCCTTTTGGAAATAACGGGGTTTGAGTAT-CTCTGATAGTGAAAAAATCGATGT
1 AGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTC-GATGGTG-AAAAATCAATGT
*
926129 TTTAGGAATAAAATCG
64 TTTAGAAATAAAATCG
* * * * ** *
926145 AGGTTAGAGTATCCCCTCGAAAATAATGTGGTTGGAGTATCCCCGATGGTGAAAAATCTGTGTTA
1 AGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTTT
926210 TAGAAATAAAATCG
66 TAGAAATAAAATCG
* * * *
926224 GGGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCC-CGATGGTAAAAAATCAATGTTT
1 AGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTTT
*
926288 TAAAAATAAAATCG
66 TAGAAATAAAATCG
* * * * * *
926302 AAGTTGGAGTATCCTCTTGAAAATAATGGGGTTGGAGTATCCTCGATGGTGAAATATCGATGTTT
1 AGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTTT
926367 TAGAAATAAAATCG
66 TAGAAATAAAATCG
* * * ** * * * * **
926381 GGGTTTGAGTATTCCCTAAAAAATAACAGGGTTAGAGTATCC-CTAATAGTGGAAAAATGGATGT
1 AGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTC-GATGGT-GAAAAATCAATGT
*
926445 TTTA-AGAATAAAACCG
64 TTTAGA-AATAAAATCG
* * * * *** *
926461 -GGCTTTGAGTATCCCCTCAAAAATAACGGGGTTGAAGTATCCTCGATGGTAAAAAATTGGTGCT
1 AGG-TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTT
* *
926525 TTAAAAATAAAACCG
65 TTAGAAATAAAATCG
* * * * * * *
926540 GGGTTGGAGTTTTCCCC-CGAAAATAACAGGGTT-GA-TAATCCCCGATAGTGAAAAATTATTGT
1 AGGTTGGAG-TATCCCCTCGAAAATAACGGGGTTGGAGT-ATCCTCGATGGTGAAAAATCAATGT
*
926602 TTTAGAAATAAAGTCG
64 TTTAGAAATAAAATCG
* * * * ** *
926618 GGGTTGGAGTATCCCCTCGAAAATAATGAGGG-TGGAGTATCC-CTGATAGTGGAAAATCGGTAT
1 AGGTTGGAGTATCCCCTCGAAAATAACG-GGGTTGGAGTATCCTC-GATGGTGAAAAATCAATGT
926681 TTTAGAAATAAAA
64 TTTAGAAATAAAA
926694 ACATGAATGA
Statistics
Matches: 512, Mismatches: 98, Indels: 37
0.79 0.15 0.06
Matches are distributed among these distances:
77 7 0.01
78 139 0.27
79 230 0.45
80 133 0.26
81 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (79 bp):
AGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATGGTGAAAAATCAATGTTT
TAGAAATAAAATCG
Found at i:926438 original size:237 final size:236
Alignment explanation
Indices: 925988--926693 Score: 804
Period size: 237 Copynumber: 3.0 Consensus size: 236
925978 GAAATAACAA
* * * ** *
925988 GGTTGGAGTATCCCTTC-AGAATAACAGGGTTGGAGTATCCTCGATGATGGAAAATCAATGTTCT
1 GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATGGTAAAAAATCAATGTTTT
* * *
926052 AGAAATAAAACCGAGGTTGGAGTATCCTTTTGGAAATAACGGGGTTTGAGTAT-CTCTGATAGTG
66 AAAAATAAAACCGAGGTTGGAGTATCCTCTTGAAAATAACGGGG-TTGAGTATCCTC-GATAGTG
* * *
926116 AAAAAATCGATGTTTTAGGAATAAAATCGAGGTTAGAGTATCCCCTCGAAAATAATGTGGTTGGA
129 -AAAAATCGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAAAG-GGTTGGA
* * * * *
926181 GTATCCCCGATGGT-GAAAAATCTGTGTTATAGAAATAAAATCGG
192 GTATCCCTGATAGTGGAAAAATCGGTGTTTTAGAAATAAAACCGG
926225 GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCC-CGATGGTAAAAAATCAATGTTTT
1 GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATGGTAAAAAATCAATGTTTT
* * * *
926289 AAAAATAAAATCGAAGTTGGAGTATCCTCTTGAAAATAATGGGGTTGGAGTATCCTCGATGGTGA
66 AAAAATAAAACCGAGGTTGGAGTATCCTCTTGAAAATAACGGGGTT-GAGTATCCTCGATAGTGA
* * * ** *
926354 AATATCGATGTTTTAGAAATAAAATCGGGGTTTGAGTATTCCCTAAAAAATAACAGGGTTAGAGT
130 AAAATCGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAA-AGGGTTGGAGT
*
926419 ATCCCTAATAGTGGAAAAAT-GGATGTTTTA-AGAATAAAACCGG
194 ATCCCTGATAGTGGAAAAATCGG-TGTTTTAGA-AATAAAACCGG
* * * * *** *
926462 GCTTTGAGTATCCCCTCAAAAATAACGGGGTTGAAGTATCCTCGATGGTAAAAAATTGGTGCTTT
1 GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATGGTAAAAAATCAATGTTTT
* * ** * *
926527 AAAAATAAAACCGGGGTTGGAGTTTTCC-CCCGAAAATAACAGGGTTGA-TAATCCCCGATAGTG
66 AAAAATAAAACCGAGGTTGGAG-TATCCTCTTGAAAATAACGGGGTTGAGT-ATCCTCGATAGTG
* * *
926590 AAAAAT-TATTGTTTTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCGAAAATAATGAGGG-TGG
129 AAAAATCGA-TGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAA--AGGGTTGG
*
926653 AGTATCCCTGATAGTGG-AAAATCGGTATTTTAGAAATAAAA
191 AGTATCCCTGATAGTGGAAAAATCGGTGTTTTAGAAATAAAA
926694 ACATGAATGA
Statistics
Matches: 398, Mismatches: 57, Indels: 29
0.82 0.12 0.06
Matches are distributed among these distances:
236 88 0.22
237 225 0.57
238 81 0.20
239 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (236 bp):
GGTTGGAGTATCCCCTCAAAAATAACAGGGTTGGAGTATCCTCGATGGTAAAAAATCAATGTTTT
AAAAATAAAACCGAGGTTGGAGTATCCTCTTGAAAATAACGGGGTTGAGTATCCTCGATAGTGAA
AAATCGATGTTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCGAAAATAAAGGGTTGGAGTAT
CCCTGATAGTGGAAAAATCGGTGTTTTAGAAATAAAACCGG
Found at i:926502 original size:316 final size:315
Alignment explanation
Indices: 925989--926693 Score: 827
Period size: 316 Copynumber: 2.2 Consensus size: 315
925979 AAATAACAAG
* * ** * * *
925989 GTTGGAGTATCCCTTCAGAATAACAGGGTTGGAGTATCCTCGATGATGGAAAATCAATGTTCTAG
1 GTTGGAGTATCCCTTGAAAATAATGGGGTTGGAGTATCCTCGATGGTGGAAAATCGATGTTTTAG
* *** * * * *
926054 AAATAAAACCGAGGTTGGAGTATCCTTTTGGAAATAACGGGGTTTGAGTATCTCTGATAGTGAAA
66 AAATAAAACCGAGGTTGGAGTATCCTCTAAAAAATAACAGGGTTAGAGTATCCCTAATAGTGAAA
* * * * * *
926119 AAATCGATGTTTTAGGAATAAAATCGAGGTTAGAGTATCCCCTCGAAAATAATGTGGTTGGAGTA
131 AAATCGATGTTTTAAGAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGAAGTA
* * *
926184 TCCCCGATGGTGAAAAATCT-GTG-TTATAGAAATAAAATCGGGGTTGGAG-TATCCCCTCAAAA
196 TCCCCGATGGTAAAAAAT-TGGTGCTT-TAAAAATAAAACCGGGGTTGGAGTTATCCCC-CAAAA
*
926246 ATAACAGGGTTGGAGT-AT-CCCGATGGTAAAAAATCAATGTTTTAAAAATAAAATCGAA
258 ATAACAGGGTT-GA-TAATCCCCGATAGTAAAAAATCAATGTTTTAAAAATAAAATCGAA
926304 GTTGGAGTATCCTCTTGAAAATAATGGGGTTGGAGTATCCTCGATGGT-GAAATATCGATGTTTT
1 GTTGGAGTATCC-CTTGAAAATAATGGGGTTGGAGTATCCTCGATGGTGGAAA-ATCGATGTTTT
* * *
926368 AGAAATAAAATCGGGGTTTGAGTATTCC-CTAAAAAATAACAGGGTTAGAGTATCCCTAATAGTG
64 AGAAATAAAACCGAGGTTGGAGTA-TCCTCTAAAAAATAACAGGGTTAGAGTATCCCTAATAGTG
* * *
926432 GAAAAATGGATGTTTTAAGAATAAAACCG-GGCTTTGAGTATCCCCTCAAAAATAACGGGGTTGA
128 AAAAAATCGATGTTTTAAGAATAAAACCGAGG-TTAGAGTATCCCCTCAAAAATAACGGGGTTGA
* * *
926496 AGTATCCTCGATGGTAAAAAATTGGTGCTTTAAAAATAAAACCGGGGTTGGAGTTTTCCCCCGAA
192 AGTATCCCCGATGGTAAAAAATTGGTGCTTTAAAAATAAAACCGGGGTTGGAGTTATCCCCCAAA
* * * * * **
926561 AATAACAGGGTTGATAATCCCCGATAGTGAAAAATTATTGTTTTAGAAATAAAGTCGGG
257 AATAACAGGGTTGATAATCCCCGATAGTAAAAAATCAATGTTTTAAAAATAAAATCGAA
* * * *
926620 GTTGGAGTATCCCCTCGAAAATAATGAGGG-TGGAGTATCC-CTGATAGTGGAAAATCGGTATTT
1 GTTGGAGTAT-CCCTTGAAAATAATG-GGGTTGGAGTATCCTC-GATGGTGGAAAATCGATGTTT
926683 TAGAAATAAAA
63 TAGAAATAAAA
926694 ACATGAATGA
Statistics
Matches: 332, Mismatches: 45, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
314 1 0.00
315 24 0.07
316 287 0.86
317 20 0.06
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (315 bp):
GTTGGAGTATCCCTTGAAAATAATGGGGTTGGAGTATCCTCGATGGTGGAAAATCGATGTTTTAG
AAATAAAACCGAGGTTGGAGTATCCTCTAAAAAATAACAGGGTTAGAGTATCCCTAATAGTGAAA
AAATCGATGTTTTAAGAATAAAACCGAGGTTAGAGTATCCCCTCAAAAATAACGGGGTTGAAGTA
TCCCCGATGGTAAAAAATTGGTGCTTTAAAAATAAAACCGGGGTTGGAGTTATCCCCCAAAAATA
ACAGGGTTGATAATCCCCGATAGTAAAAAATCAATGTTTTAAAAATAAAATCGAA
Found at i:928480 original size:19 final size:20
Alignment explanation
Indices: 928413--928487 Score: 80
Period size: 22 Copynumber: 3.6 Consensus size: 20
928403 TTTCAACAAT
* **
928413 TTGTATCGATACAAACAGAAA
1 TTGTATCGATACATA-AGTTA
928434 TTGTATCGATACATAAGTATTA
1 TTGTATCGATACATAAG--TTA
*
928456 TTGTATCGATACATAAG-TG
1 TTGTATCGATACATAAGTTA
928475 TTGTATCGATACA
1 TTGTATCGATACA
928488 ATGTATCGCT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
19 14 0.29
20 2 0.04
21 14 0.29
22 18 0.38
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATAAGTTA
Found at i:928559 original size:13 final size:13
Alignment explanation
Indices: 928541--928565 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
928531 TTACTCAATG
928541 TATCGATACATTA
1 TATCGATACATTA
928554 TATCGATACATT
1 TATCGATACATT
928566 TGATCTCTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:932681 original size:50 final size:50
Alignment explanation
Indices: 932627--932760 Score: 175
Period size: 49 Copynumber: 2.7 Consensus size: 50
932617 AAAAATGCCT
* *
932627 GAATGTATCGATA-CATTAAGAAATGTATCGATACATCTGGGTAAAACCC-A
1 GAATGTATCGATATAATTAA-AAATGTATCGATACATCTAGGT-AAACCCTA
* *
932677 GAATGTATCGATATAATGAACAATGTATCGATACATCTAGGTAAACCCTA
1 GAATGTATCGATATAATTAAAAATGTATCGATACATCTAGGTAAACCCTA
* *
932727 -AATATATCGATATAATTAATAATGTATCGATACA
1 GAATGTATCGATATAATTAAAAATGTATCGATACA
932761 ATTTGTGGAA
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
49 37 0.49
50 34 0.45
51 4 0.05
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (50 bp):
GAATGTATCGATATAATTAAAAATGTATCGATACATCTAGGTAAACCCTA
Found at i:939756 original size:25 final size:25
Alignment explanation
Indices: 939722--939771 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
939712 GTAGTAATTT
939722 GCAATATATTTATTTTAGAACTTTA
1 GCAATATATTTATTTTAGAACTTTA
*
939747 GCAATATATTTGTTTTAGAACTTTA
1 GCAATATATTTATTTTAGAACTTTA
939772 AAAAGGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (25 bp):
GCAATATATTTATTTTAGAACTTTA
Found at i:940485 original size:20 final size:19
Alignment explanation
Indices: 940462--940532 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
940452 ACACCCAAAT
* *
940462 GTATTGATACATATTGCTTA
1 GTATCGATACATATT-CATA
*
940482 GTATCGATACATGTTCATA
1 GTATCGATACATATTCATA
** * *
940501 GTATCGATACACCTTGAAA
1 GTATCGATACATATTCATA
940520 GTATCGATACATA
1 GTATCGATACATA
940533 AAACTAGCAG
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.35
Consensus pattern (19 bp):
GTATCGATACATATTCATA
Found at i:940599 original size:20 final size:20
Alignment explanation
Indices: 940574--940624 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
940564 CGATACGTTG
* *
940574 TATCGATACATGATGAATTA
1 TATCGATACATGATAAAATA
* *
940594 TATCGATACATGGTAAAATG
1 TATCGATACATGATAAAATA
940614 TATCGATACAT
1 TATCGATACAT
940625 TGAGCCCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (20 bp):
TATCGATACATGATAAAATA
Found at i:950262 original size:19 final size:19
Alignment explanation
Indices: 950237--950293 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
950227 TTGTATTGAT
*
950237 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
* *
950256 TCATTGTATCGAGACATGC
1 ACATTGTATCGATACATGC
*
950275 ACAATTATATCGATACATG
1 AC-ATTGTATCGATACATG
950294 AAATTAGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:951294 original size:21 final size:21
Alignment explanation
Indices: 951261--951301 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
951251 CTAAGTAAAA
951261 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
951282 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
951302 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:951470 original size:13 final size:13
Alignment explanation
Indices: 951452--951477 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
951442 TACACCAAGT
951452 ATGTATCGATACA
1 ATGTATCGATACA
951465 ATGTATCGATACA
1 ATGTATCGATACA
951478 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:951475 original size:32 final size:33
Alignment explanation
Indices: 951434--951497 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
951424 TAGCCAAACT
* **
951434 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
951466 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
951498 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:951998 original size:34 final size:35
Alignment explanation
Indices: 951935--952001 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
951925 CTAAGTGATT
951935 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
951971 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
952002 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:955111 original size:13 final size:13
Alignment explanation
Indices: 955093--955117 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
955083 TTTTCCAGAT
955093 TGTATCGATACAA
1 TGTATCGATACAA
955106 TGTATCGATACA
1 TGTATCGATACA
955118 TTACTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:956762 original size:21 final size:21
Alignment explanation
Indices: 956729--956769 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
956719 CTAAGTAAAA
956729 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
956750 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
956770 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:956938 original size:13 final size:13
Alignment explanation
Indices: 956920--956945 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
956910 TACACCAAGT
956920 ATGTATCGATACA
1 ATGTATCGATACA
956933 ATGTATCGATACA
1 ATGTATCGATACA
956946 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:956943 original size:32 final size:33
Alignment explanation
Indices: 956902--956965 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
956892 TAGCCAAACT
* **
956902 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
956934 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
956966 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:957466 original size:34 final size:35
Alignment explanation
Indices: 957403--957469 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
957393 CTAAGTGATT
957403 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
957439 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
957470 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:959124 original size:21 final size:21
Alignment explanation
Indices: 959094--959149 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
959084 AAAGAGGTTT
* *
959094 TGTATCGATACATTTCAGGCA
1 TGTATTGATACATTTCACGCA
* **
959115 TGTATTGATATA-TTCACTTA
1 TGTATTGATACATTTCACGCA
959135 TGTATTGATACATTT
1 TGTATTGATACATTT
959150 ACTGTTTATA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (21 bp):
TGTATTGATACATTTCACGCA
Found at i:959796 original size:31 final size:30
Alignment explanation
Indices: 959723--959827 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 30
959713 CTCGGACTTA
* *
959723 GGTGCCACCAACTTGTGTGGGCTTTGACTCA
1 GGTGCCACCAACTT-TGTGGGCTTAGACTCG
* ***
959754 AGTGATGCCAACTTATGTGGGCTTAGACTCG
1 GGTGCCACCAACTT-TGTGGGCTTAGACTCG
* *
959785 GGTGCCACCAAC-TTGTGCGACTTTA-ACTAG
1 GGTGCCACCAACTTTGTG-GGC-TTAGACTCG
959815 GGTGCCACCAACT
1 GGTGCCACCAACT
959828 CGTGTGGACA
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 4 0.07
30 19 0.33
31 35 0.60
ACGTcount: A:0.21, C:0.26, G:0.27, T:0.27
Consensus pattern (30 bp):
GGTGCCACCAACTTTGTGGGCTTAGACTCG
Found at i:960089 original size:149 final size:149
Alignment explanation
Indices: 959769--960114 Score: 372
Period size: 149 Copynumber: 2.4 Consensus size: 149
959759 TGCCAACTTA
* * * * * *
959769 TGTGGGCTTAGACTCGGGTGCCACCAACTTGTGC-GACTTTA-ACTAGGGTGCCACCAACTCGTG
1 TGTGGGCTTAGACTCAGGTGCCACGAACTTATGCAGGC-TTAGACTAGGGTGCCACCAACTCTTA
* * *
959832 TGG------ACATTCTAAGGCTTAACTTTCTTAGACAACTACCAACTAATTTGGACTTGACTTGA
65 TGGACTTTAACATTCTAAGGCTTAACCTCCTTAGACAACTACCAACTAATTTAGACTTGACTTGA
*
959891 ACTTAGGTGGCACCAGCTTG
130 ACTTAGGTGCCACCAGCTTG
*
959911 TGTGGGCTTAGACTCAGGTGCCACTAACTTATGCAGGCTCT-GACTAGGGTGCCACCAACTCTTA
1 TGTGGGCTTAGACTCAGGTGCCACGAACTTATGCAGGCT-TAGACTAGGGTGCCACCAACTCTTA
* * ** * *
959975 TGGACTTTAACATTCTAAGGGTTGACCTCCTTAGACAGGTGCCAGCTAATTTAGACTTGACTTGA
65 TGGACTTTAACATTCTAAGGCTTAACCTCCTTAGACAACTACCAACTAATTTAGACTTGACTTGA
*
960040 ACTTAGGTGCCACCTA-TTTG
130 ACTTAGGTGCCACC-AGCTTG
* * * * *
960060 TGTGGGCTTTGACTCGGGTGCCGA-GAACTTGTGCGGGCTTAGACTCGGGTGCCAC
1 TGTGGGCTTAGACTCAGGTGCC-ACGAACTTATGCAGGCTTAGACTAGGGTGCCAC
960115 TAGCTTGTGC
Statistics
Matches: 169, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
142 32 0.19
143 26 0.15
148 1 0.01
149 108 0.64
150 2 0.01
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (149 bp):
TGTGGGCTTAGACTCAGGTGCCACGAACTTATGCAGGCTTAGACTAGGGTGCCACCAACTCTTAT
GGACTTTAACATTCTAAGGCTTAACCTCCTTAGACAACTACCAACTAATTTAGACTTGACTTGAA
CTTAGGTGCCACCAGCTTG
Found at i:960122 original size:31 final size:31
Alignment explanation
Indices: 960057--960159 Score: 100
Period size: 31 Copynumber: 3.3 Consensus size: 31
960047 TGCCACCTAT
*
960057 TTGTGTGGGCTTTGACTCGGGTGCCGA-GAAC
1 TTGTGCGGGCTTTGACTCGGGTGCC-ACGAAC
* * *
960088 TTGTGCGGGCTTAGACTCGGGTGCCACTAGC
1 TTGTGCGGGCTTTGACTCGGGTGCCACGAAC
* * * *
960119 TTGTGCGAGCTTTGAATAGGGTGCCACCAAC
1 TTGTGCGGGCTTTGACTCGGGTGCCACGAAC
* *
960150 TCGTGTGGGC
1 TTGTGCGGGC
960160 ATATAAAAGA
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
30 1 0.02
31 57 0.98
ACGTcount: A:0.15, C:0.22, G:0.36, T:0.27
Consensus pattern (31 bp):
TTGTGCGGGCTTTGACTCGGGTGCCACGAAC
Found at i:960315 original size:77 final size:76
Alignment explanation
Indices: 960202--960368 Score: 230
Period size: 77 Copynumber: 2.2 Consensus size: 76
960192 CTACTCTTTA
* ** *
960202 AGGACAAAGGAAAAGGAGTTCGTCTTACCTTTTGAGGACAAAGGGAACAA-AAGAATGAAATGGG
1 AGGACAAAGGAAAAGAAGCACGTCTTACCTTTTGAGGACAAAAGGAA-AAGAAGAATGAAATGGG
960266 GCCTGCTCCTTG
65 GCCTGCTCCTTG
* *
960278 AGGACAAAGGAAAAGAAAGCACGTCTTA-CTCTTTGAGGATAAAAGGAAAAGATGAATGAAATGG
1 AGGACAAAGGAAAAG-AAGCACGTCTTACCT-TTTGAGGACAAAAGGAAAAGAAGAATGAAATGG
*
960342 GTCCTGCTCCTTG
64 GGCCTGCTCCTTG
960355 AGGACAAAGGAAAA
1 AGGACAAAGGAAAA
960369 AGGAAAAAGG
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
76 19 0.23
77 62 0.77
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.19
Consensus pattern (76 bp):
AGGACAAAGGAAAAGAAGCACGTCTTACCTTTTGAGGACAAAAGGAAAAGAAGAATGAAATGGGG
CCTGCTCCTTG
Found at i:960412 original size:42 final size:43
Alignment explanation
Indices: 960306--960412 Score: 112
Period size: 42 Copynumber: 2.5 Consensus size: 43
960296 GCACGTCTTA
* * * *
960306 CTCTTTGAGGATAAAAGGAAAA-GATGAATGAAATGGGTCCTG
1 CTCTTTGAGGACAAAAGGAAAAGGATAAAAGAAATGGGTCATG
* * *
960348 CTCCTTGAGGAC-AAAGGAAAAAGGA-AAAAGGAATGTGTCATG
1 CTCTTTGAGGACAAAAGG-AAAAGGATAAAAGAAATGGGTCATG
*
960390 CTCTTTAAGGACAAAAGGAAAAG
1 CTCTTTGAGGACAAAAGGAAAAG
960413 AAGTATGTCC
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
41 5 0.09
42 41 0.77
43 7 0.13
ACGTcount: A:0.42, C:0.11, G:0.27, T:0.20
Consensus pattern (43 bp):
CTCTTTGAGGACAAAAGGAAAAGGATAAAAGAAATGGGTCATG
Found at i:966088 original size:27 final size:27
Alignment explanation
Indices: 966058--966109 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
966048 CGGATCTTAA
966058 AGAAAAGCAAGATTAGAGTATCCCCTC
1 AGAAAAGCAAGATTAGAGTATCCCCTC
* * * *
966085 AGAAGAGCGAGGTTGGAGTATCCCC
1 AGAAAAGCAAGATTAGAGTATCCCC
966110 GACCATCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (27 bp):
AGAAAAGCAAGATTAGAGTATCCCCTC
Found at i:967862 original size:82 final size:82
Alignment explanation
Indices: 967762--967918 Score: 305
Period size: 82 Copynumber: 1.9 Consensus size: 82
967752 TGCTAGGATG
*
967762 GGGATCTCAAGTTTTTCTAATGTTTGAAGTTGTTTTTGGGAGTGTATGAGGAAGGGGCCAAAAGA
1 GGGATCTCAAGTTTTTCTAATGTTTGAAGTTGTTTTTGGGAGTGTATGAAGAAGGGGCCAAAAGA
967827 TCCTCTAGTGGAGCTAC
66 TCCTCTAGTGGAGCTAC
967844 GGGATCTCAAGTTTTTCTAATGTTTGAAGTTGTTTTTGGGAGTGTATGAAGAAGGGGCCAAAAGA
1 GGGATCTCAAGTTTTTCTAATGTTTGAAGTTGTTTTTGGGAGTGTATGAAGAAGGGGCCAAAAGA
967909 TCCTCTAGTG
66 TCCTCTAGTG
967919 AGATCAAATG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 74 1.00
ACGTcount: A:0.25, C:0.11, G:0.30, T:0.34
Consensus pattern (82 bp):
GGGATCTCAAGTTTTTCTAATGTTTGAAGTTGTTTTTGGGAGTGTATGAAGAAGGGGCCAAAAGA
TCCTCTAGTGGAGCTAC
Found at i:970731 original size:39 final size:39
Alignment explanation
Indices: 970686--970767 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
970676 TGGTATTTTC
* *
970686 CTTTAGACATGTTCGGACGAGCGAATTATGATTTTTAAA
1 CTTTAGAAATGTTCGGACGAGCGAATTATGATTTTCAAA
*
970725 CTTTAGAAATGTTCGGATGAGCGAATTATGATTTTCAAA
1 CTTTAGAAATGTTCGGACGAGCGAATTATGATTTTCAAA
970764 CTTT
1 CTTT
970768 CACTGTCTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (39 bp):
CTTTAGAAATGTTCGGACGAGCGAATTATGATTTTCAAA
Found at i:972302 original size:167 final size:166
Alignment explanation
Indices: 971999--972341 Score: 381
Period size: 167 Copynumber: 2.1 Consensus size: 166
971989 TTCAAACATC
* * * * *
971999 AAAATTAATCAAATATGATCATTTATTTCATATTAATTCAATTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATCAAACATCATCATTTATTTCATATTAATTCAATTTTAAAAAATTAATTCATTTTCA
* * * * *
972064 TTAATTTTTGATTTTTTTCTTGAAATTTCTCTTTTTACGAAATACGGTGTTTTCAACTCCGTAAA
66 TTAAGTTTTGATTTTTCTCTTGAAATATCTCTTTTTACGAAAAACGGAGTTTTCAACTCCGTAAA
* ** *
972129 TTTTTTTCGAGGGAATTTTTCTCCGTTTTCAATTTTT
131 TTTTTTTCGAGGGAATTTTT-TCAGTTTAAAAATTTT
*
972166 AAAATTCATCAAACATCATCATTTGA-TTCATATTAATTCAGTTTTAAAAAATTAATTCATTTTC
1 AAAATTCATCAAACATCATCATTT-ATTTCATATTAATTCAATTTTAAAAAATTAATTCATTTTC
* * * ** *
972230 A-TGAGTTTTGAATTTTTCT-TTGAAA-ATCTTTTTTTTCGTAAAAATC-GAGTTTTCTTCTCTG
65 ATTAAGTTTTG-ATTTTTCTCTTGAAATATCTCTTTTTACG-AAAAA-CGGAGTTTTCAACTCCG
* *
972291 TAAATTTTTTTTGGAGGGACTTTTTTCAGTTTAAAAATTTT
127 TAAA-TTTTTTTCGAGGGAATTTTTTCAGTTTAAAAATTTT
*
972332 AGAATTCATC
1 AAAATTCATC
972342 TAATGATGTC
Statistics
Matches: 147, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
165 10 0.07
166 53 0.36
167 83 0.56
168 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.49
Consensus pattern (166 bp):
AAAATTCATCAAACATCATCATTTATTTCATATTAATTCAATTTTAAAAAATTAATTCATTTTCA
TTAAGTTTTGATTTTTCTCTTGAAATATCTCTTTTTACGAAAAACGGAGTTTTCAACTCCGTAAA
TTTTTTTCGAGGGAATTTTTTCAGTTTAAAAATTTT
Found at i:972904 original size:13 final size:13
Alignment explanation
Indices: 972881--972929 Score: 59
Period size: 12 Copynumber: 3.8 Consensus size: 13
972871 AACTATAAGA
972881 AGAGAAAAAAAAGG
1 AGAG-AAAAAAAGG
972895 AGAG-AAAAAAGG
1 AGAGAAAAAAAGG
972907 -GAGAAAGAAAA-G
1 AGAGAAA-AAAAGG
972919 AGAGAAAAAAA
1 AGAGAAAAAAA
972930 TAAAAACAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.09
12 15 0.47
13 10 0.31
14 4 0.12
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (13 bp):
AGAGAAAAAAAGG
Found at i:972929 original size:25 final size:25
Alignment explanation
Indices: 972882--972928 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
972872 ACTATAAGAA
972882 GAGAAAAAAAAGGAGAGAAAAAAGG
1 GAGAAAAAAAAGGAGAGAAAAAAGG
*
972907 GAGAAAGAAAA-GAGAGAAAAAA
1 GAGAAAAAAAAGGAGAGAAAAAA
972929 ATAAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (25 bp):
GAGAAAAAAAAGGAGAGAAAAAAGG
Found at i:974676 original size:97 final size:97
Alignment explanation
Indices: 974547--974776 Score: 372
Period size: 97 Copynumber: 2.4 Consensus size: 97
974537 TATCGTGAAT
* *
974547 ACTCTAACCCTATTCTTCCGAGGGGATACTCCAACCTCACTTTTAAACACATCAAAGTTTAAATC
1 ACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCTCACTTTTAAACACATCAAAGTTTAAATC
974612 TTATTCTCACTT-AAATTGTCATCATCGGGGAC
66 TTATTCTCACTTCAAA-TGTCATCATCGGGGAC
* * * *
974644 ACTCCAACCCCATTCCTCTGAGGGGATACTCCAACCTCGCTTTTAAATACATCAAAGTTTAAATC
1 ACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCTCACTTTTAAACACATCAAAGTTTAAATC
974709 TTATTCTCACTTCAAATGTCATCATCGGGGAC
66 TTATTCTCACTTCAAATGTCATCATCGGGGAC
* *
974741 ACTCCAACCCTATTCCTCCAAGAGGATACTCCAACC
1 ACTCCAACCCTATTCCTCCGAGGGGATACTCCAACC
974777 CTATTTTTTA
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
97 119 0.98
98 3 0.02
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (97 bp):
ACTCCAACCCTATTCCTCCGAGGGGATACTCCAACCTCACTTTTAAACACATCAAAGTTTAAATC
TTATTCTCACTTCAAATGTCATCATCGGGGAC
Found at i:987657 original size:29 final size:28
Alignment explanation
Indices: 987562--987905 Score: 367
Period size: 29 Copynumber: 12.1 Consensus size: 28
987552 AATGACCATT
987562 TTTCAAAGCCCACAAGTCAATGGCATCC
1 TTTCAAAGCCCACAAGTCAATGGCATCC
* * *
987590 TTTCAAAGGCCACAAGGCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAATGGCATCC
* * *
987617 TTTTTAAAGCCCCCAAGTCAGTGGCATCC
1 -TTTCAAAGCCCACAAGTCAATGGCATCC
987646 TTTCAAAAGCCCACAAGTCAATGGCATCC
1 TTTC-AAAGCCCACAAGTCAATGGCATCC
* *
987675 TTTCAAAAACCTACAAGTCAATGGCATCC
1 TTTC-AAAGCCCACAAGTCAATGGCATCC
* *
987704 TTTCAAAAGCCCGCAAGTCCATGGCATCC
1 TTTC-AAAGCCCACAAGTCAATGGCATCC
* * *
987733 TTTCAAAGCTCATAAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTCAATGGCATCC
* *
987761 TTTCAAAGCCCACAAGTCAGTGGCA-AC
1 TTTCAAAGCCCACAAGTCAATGGCATCC
* *
987788 TTTCAAAGCCCATAAGTCAGTGGCA-CC
1 TTTCAAAGCCCACAAGTCAATGGCATCC
*
987815 TTTTCAAAAGCCAACAAGTCAATGGCGCAT--
1 -TTTC-AAAGCCCACAAGTCAAT-G-GCATCC
* *
987845 TTTCAAAAGCCAATAAGTCAATGGCA-CC
1 TTTC-AAAGCCCACAAGTCAATGGCATCC
987873 TTTTCAAAGCCCACAAGTCAATGGCAATCC
1 -TTTCAAAGCCCACAAGTCAATGGC-ATCC
987903 TTT
1 TTT
987906 TTAAAACCCA
Statistics
Matches: 271, Mismatches: 32, Indels: 25
0.83 0.10 0.08
Matches are distributed among these distances:
27 31 0.11
28 111 0.41
29 123 0.45
30 3 0.01
31 3 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAATGGCATCC
Found at i:987993 original size:31 final size:31
Alignment explanation
Indices: 987912--987994 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 31
987902 CTTTTTAAAA
*
987912 CCCACACAAGTTGGTGGCACCCTAGTCAAAG
1 CCCACACAAGTTGGTGGCACCCGAGTCAAAG
* ** *** *
987943 CCCGCATGAGTTTACGGCACTCGAGTCAAAG
1 CCCACACAAGTTGGTGGCACCCGAGTCAAAG
987974 CCCACACAAGTTGGTGGCACC
1 CCCACACAAGTTGGTGGCACC
987995 TATGTCCGAG
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.17
Consensus pattern (31 bp):
CCCACACAAGTTGGTGGCACCCGAGTCAAAG
Found at i:989495 original size:13 final size:12
Alignment explanation
Indices: 989479--989526 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 12
989469 ACTAAAAATA
989479 AGAGCAAAAAAAG
1 AGAG-AAAAAAAG
989492 AGAG-AAAAAAG
1 AGAGAAAAAAAG
* *
989503 GGAGAAAGAAAAA
1 AGAGAAA-AAAAG
989516 AGAGAAAAAAA
1 AGAGAAAAAAA
989527 TAGAAACAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
11 10 0.33
12 6 0.20
13 14 0.47
ACGTcount: A:0.73, C:0.02, G:0.25, T:0.00
Consensus pattern (12 bp):
AGAGAAAAAAAG
Found at i:990306 original size:19 final size:19
Alignment explanation
Indices: 990267--990350 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
990257 TTTCAACGAT
990267 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
990287 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
990306 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
990320 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
990338 TTGTATCGATACA
1 TTGTATCGATACA
990351 ATGTAAGCTA
Statistics
Matches: 58, Mismatches: 0, Indels: 13
0.82 0.00 0.18
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 2 0.03
19 29 0.50
20 14 0.24
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:990325 original size:13 final size:13
Alignment explanation
Indices: 990307--990331 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
990297 ACATAAGTGT
990307 TGTATCGATACAA
1 TGTATCGATACAA
990320 TGTATCGATACA
1 TGTATCGATACA
990332 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:990329 original size:32 final size:32
Alignment explanation
Indices: 990288--990355 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
990278 CATAAAGTGT
990288 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
990320 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
990352 TGTA
1 TGTA
990356 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:990411 original size:13 final size:13
Alignment explanation
Indices: 990393--990420 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
990383 ATTACTCAAA
990393 TGTATCGATACAT
1 TGTATCGATACAT
990406 TGTATCGATACAT
1 TGTATCGATACAT
990419 TG
1 TG
990421 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1004383 original size:9 final size:9
Alignment explanation
Indices: 1004353--1004400 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
1004343 CCTCCACAAA
1004353 AAAAAAAACC
1 AAAAAAAA-C
* *
1004363 AAATAAACC
1 AAAAAAAAC
1004372 AAAAAAAAC
1 AAAAAAAAC
1004381 AAAAAAAAC
1 AAAAAAAAC
*
1004390 AAAAACAAC
1 AAAAAAAAC
1004399 AA
1 AA
1004401 CAACAAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.81, C:0.17, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:1004393 original size:15 final size:15
Alignment explanation
Indices: 1004375--1004409 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1004365 ATAAACCAAA
1004375 AAAAACAAAAAAAAC
1 AAAAACAAAAAAAAC
* *
1004390 AAAAACAACAACAAC
1 AAAAACAAAAAAAAC
1004405 AAAAA
1 AAAAA
1004410 GGGTCCGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAACAAAAAAAAC
Found at i:1005889 original size:29 final size:29
Alignment explanation
Indices: 1005848--1006655 Score: 976
Period size: 29 Copynumber: 27.7 Consensus size: 29
1005838 TCACCCTTCA
* *
1005848 AAAGCCCACAAGTCAATGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* * * *
1005877 AAAGCCCATAAGTCAGTGGCAGC-CTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1005905 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
1005934 AAAGCCTACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* *
1005964 AAAGCCCACAAGTCAGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
1005993 AAAGCCCACAAGTCAGTGGCACCCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TC-TTTTCC
*
1006024 AAAGCCCACAAGTCAGTGGCAACTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
1006053 AAAGCCCATAAGTCAGTGGCATCTTTTCT
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
1006082 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* *
1006112 AAAGCCTACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
1006142 AAAGCCCACAAGTCAGTGGCATCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCATC-TTTTCC
*
1006172 AAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * *
1006202 AAAGCCCATAAGTCAGTGGTATC-TTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
1006230 AAAGCCCACAA-TTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* *
1006259 AAAGCCCACAAGTCAATGGTATCTTTT-C
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
*
1006287 AAAG-CC-CAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
1006315 AAAGCCCACAA-TCAGTGGCATCTTTT-C
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
1006342 AAAG-CCACAAGTTAGT-GCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
1006370 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
**
1006399 AAAGCCC-CACAGTCAGTGGCCCCCTTTTCC
1 AAAGCCCACA-AGTCAGTGG-CATCTTTTCC
* *
1006429 AAAGCCCACAAGT-AGTGGTATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
1006457 AAAGCCCACAAGTTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* *
1006487 AAAGCCCACAAGTCTA-TGGTATCTTTTCA
1 AAAGCCCACAAGTC-AGTGGCATCTTTTCC
*
1006516 AAAGCCCACAAGTCAGTGGCACCCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TC-TTTTCC
1006547 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
* * *
1006576 AAAACCCACAAGTTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCC
* * * *
1006606 AAAGCCCACAAGTCAATGGTATCTCTTCG
1 AAAGCCCACAAGTCAGTGGCATCTTTTCC
1006635 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
1006656 ACCTTCAAAA
Statistics
Matches: 670, Mismatches: 80, Indels: 58
0.83 0.10 0.07
Matches are distributed among these distances:
26 20 0.03
27 28 0.04
28 80 0.12
29 272 0.41
30 214 0.32
31 56 0.08
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCC
Found at i:1005988 original size:59 final size:59
Alignment explanation
Indices: 1005848--1006660 Score: 1161
Period size: 59 Copynumber: 13.9 Consensus size: 59
1005838 TCACCCTTCA
* * * * *
1005848 AAAGCCCACAAGTCAATGGCATCTTTTTCAAAGCCCATAAGTCAGTGGCAGCC--TTCA
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
1005905 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCTACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
1005964 AAAGCCCACAAGTCAGTGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCC-TTTTCC
* * * *
1006024 AAAGCCCACAAGTCAGTGGCAACTTTTCCAAAGCCCATAAGTCAGTGGCA-TCTTTTCT
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
1006082 AAAGCCCACAAGTCAGTGGCACCCTTTTCCAAAGCCTACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1006142 AAAGCCCACAAGTCAGTGGCATCTTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATC-TTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * * *
1006202 AAAGCCCATAAGTCAGTGGTATC-TTTCAAAAGCCCACAA-TTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
1006259 AAAGCCCACAAGTCAATGGTATCTTTT-CAAAG-CC-CAAGTCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
1006315 AAAGCCCACAA-TCAGTGGCATCTTTT-CAAAG-CCACAAGTTAGT-GCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
*
1006370 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCC-CACAGTCAGTGGCCCCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACA-AGTCAGTGGCACCCTTTTCC
* * *
1006429 AAAGCCCACAAGT-AGTGGTATCTTTTCAAAAGCCCACAAGTTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
* *
1006487 AAAGCCCACAAGTCTA-TGGTATCTTTTCAAAAGCCCACAAGTCAGTGGCACCCTTTTTCC
1 AAAGCCCACAAGTC-AGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCC-TTTTCC
* *
1006547 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAACCCACAAGTTAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
* * * * *
1006606 AAAGCCCACAAGTCAATGGTATCTCTTCGAAAGCCCACAAGTCAGTGGCAACCTT
1 AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTT
1006661 CAAAAGCACA
Statistics
Matches: 686, Mismatches: 51, Indels: 36
0.89 0.07 0.05
Matches are distributed among these distances:
55 46 0.07
56 53 0.08
57 97 0.14
58 103 0.15
59 198 0.29
60 189 0.28
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (59 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTCC
Found at i:1006775 original size:43 final size:44
Alignment explanation
Indices: 1006723--1007086 Score: 448
Period size: 43 Copynumber: 8.0 Consensus size: 44
1006713 CATCTTCTTC
* * *
1006723 TAAGTCCAATATTGCTGGCCTAGAATCAGTACATTGGCA-CTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
* *
1006766 TAAGTCCAATATAGCTGGCCTTGAGTCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-T-TT
* *
1006815 TAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
* *
1006858 TAAGTCCAATATAGCTGGCCTTGAGTCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-T-TT
*
1006907 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
* *
1006950 TAAGTCCAATATAGCTGGCCTTGAATCAGCATAATGGCACCTTCTTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--C-T-TT
1006999 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
*
1007042 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
1007086 T
1 T
1007087 CCATCTTTAA
Statistics
Matches: 280, Mismatches: 22, Indels: 37
0.83 0.06 0.11
Matches are distributed among these distances:
43 151 0.54
44 5 0.02
46 5 0.02
47 1 0.00
48 4 0.01
49 114 0.41
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTT
Found at i:1006880 original size:92 final size:92
Alignment explanation
Indices: 1006718--1007138 Score: 680
Period size: 92 Copynumber: 4.5 Consensus size: 92
1006708 GGTGGCATCT
* * * * *
1006718 TCTTCTAAGTCCAATATTGCTGGCCTAGAATCAGTACATTGGCACTTTTAAGTCCAATATAGCTG
1 TCTT-TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTG
*
1006783 GCCTTGAGTCAGCATATTGGCACCTTCA
65 GCCTTGAATCAGCATATTGGCACCTTCA
*
1006811 TCTTTAAGTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
*
1006876 CCTTGAGTCAGCATATTGGCACCTTCA
66 CCTTGAATCAGCATATTGGCACCTTCA
1006903 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
* *
1006968 CCTTGAATCAGCATAATGGCACCTTCT
66 CCTTGAATCAGCATATTGGCACCTTCA
*
1006995 TCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
1007060 CCTTGAATCAGCATATTGGCACCTTTTCCA
66 CCTTGAATCAGCATATTGGCACC--TT-CA
* *
1007090 TCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTT
1 TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1007139 TTCTCATCTT
Statistics
Matches: 308, Mismatches: 16, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
92 256 0.83
93 4 0.01
94 2 0.01
95 41 0.13
96 5 0.02
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
TCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGG
CCTTGAATCAGCATATTGGCACCTTCA
Found at i:1007063 original size:22 final size:22
Alignment explanation
Indices: 1006996--1007063 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
1006986 GCACCTTCTT
1006996 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
* * *
1007018 CTTGAA-TCAGCACAT-TGGC--AC
1 CTTTAAGTC--CA-ATATAGCTGGC
1007039 CTTTAAGTCCAATATAGCTGGC
1 CTTTAAGTCCAATATAGCTGGC
1007061 CTT
1 CTT
1007064 GAATCAGCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 14
0.62 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 11 0.33
23 5 0.15
24 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (22 bp):
CTTTAAGTCCAATATAGCTGGC
Found at i:1007117 original size:52 final size:55
Alignment explanation
Indices: 1007039--1007176 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 55
1007029 ACATTGGCAC
* *
1007039 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
1007091 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * * *
1007146 CTTTGAA-CCCAATATCGTTGGCCATGAATCA
1 CTTT-AAGTCCAATATAGCTGGCCTTGAATCA
1007177 ACGTATTGGT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
52 38 0.53
53 2 0.03
54 5 0.07
55 25 0.35
56 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:1007861 original size:13 final size:13
Alignment explanation
Indices: 1007843--1007867 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1007833 CATAAAGTGT
1007843 TGTATCGATACAA
1 TGTATCGATACAA
1007856 TGTATCGATACA
1 TGTATCGATACA
1007868 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1007883 original size:32 final size:33
Alignment explanation
Indices: 1007823--1007891 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
1007813 TTCAACGATT
1007823 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*
1007856 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1007888 TGTA
1 TGTA
1007892 AGCTACTGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1008019 original size:52 final size:52
Alignment explanation
Indices: 1007961--1008141 Score: 335
Period size: 52 Copynumber: 3.5 Consensus size: 52
1007951 AATTGATCTT
* *
1007961 TGTATCGATACATGCAGGCAAGTTTGCCCAGATGTATCAATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1008013 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1008065 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1008117 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1008142 TCATATTTCG
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 126 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1009017 original size:21 final size:22
Alignment explanation
Indices: 1008983--1009023 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1008973 TCATGTTAAC
1008983 AGCTCATGATTCATGCATTTTA
1 AGCTCATGATTCATGCATTTTA
*
1009005 AGCT-ATGCTTCATGCATTT
1 AGCTCATGATTCATGCATTT
1009024 ATGACATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (22 bp):
AGCTCATGATTCATGCATTTTA
Found at i:1017148 original size:7 final size:7
Alignment explanation
Indices: 1017136--1017161 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1017126 AAATGATTTC
1017136 AAAATTG
1 AAAATTG
1017143 AAAATTG
1 AAAATTG
1017150 AAAATTG
1 AAAATTG
1017157 AAAAT
1 AAAAT
1017162 GATTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
AAAATTG
Found at i:1018682 original size:51 final size:51
Alignment explanation
Indices: 1018604--1018703 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
1018594 TTGATATATT
** *
1018604 GCCTTGGCAGTAGCTGTGGTTGGAATTTTCGACAAAATATATCGATACATG
1 GCCTTGGCAGTAGCTACGGTTGAAATTTTCGACAAAATATATCGATACATG
* *
1018655 GCCTTGGCAGTAGCTACGGTTGAAATTTTCGACAAAATGTATTGATACA
1 GCCTTGGCAGTAGCTACGGTTGAAATTTTCGACAAAATATATCGATACA
1018704 CAAGCTAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (51 bp):
GCCTTGGCAGTAGCTACGGTTGAAATTTTCGACAAAATATATCGATACATG
Found at i:1021233 original size:84 final size:82
Alignment explanation
Indices: 1021090--1021344 Score: 251
Period size: 84 Copynumber: 3.0 Consensus size: 82
1021080 AAATGTTGGA
* * * * * * **
1021090 TTTTAGAGAAACTCCATTCCCACTACTCTAAAGGGATACTTTAACCTTGATCTTTAAAAAAATTC
1 TTTTAAAGAAACTTCATCCCCACTCCGCT-AAGGGATACTCTAACCCAGATC-TTAAAAAAATT-
*
1021155 AAACTTTTCTTTCATATAAT
63 AAACTTTTCTTTCGTATAAT
** * *
1021175 TTTTGGA-AAACTTCATCCCCACTCCGCTGAGGGCATACTCTAACCCCGATCTTAAAAAAACTTA
1 TTTTAAAGAAACTTCATCCCCACTCCGCTAAGGG-ATACTCTAACCCAGATCTTAAAAAAA-TTA
1021239 AACTTTTCTTTCGTATAAT
64 AACTTTTCTTTCGTATAAT
* ** * * * *
1021258 TTTTAAAGAAACTTCATCCTCACTCTTCTAAGGGGATACTCTAATCCAGATCTTCGAAAAACTAA
1 TTTTAAAGAAACTTCATCCCCACTCCGCTAA-GGGATACTCTAACCCAGATCTT-AAAAAAATTA
*
1021323 AACTTTTCCTTCGTATAAT
64 AACTTTTCTTTCGTATAAT
1021342 TTT
1 TTT
1021345 ATCTTTAGGG
Statistics
Matches: 143, Mismatches: 22, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
83 37 0.26
84 92 0.64
85 14 0.10
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.36
Consensus pattern (82 bp):
TTTTAAAGAAACTTCATCCCCACTCCGCTAAGGGATACTCTAACCCAGATCTTAAAAAAATTAAA
CTTTTCTTTCGTATAAT
Found at i:1023672 original size:20 final size:21
Alignment explanation
Indices: 1023626--1023681 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
1023616 GTATTAATAC
*
1023626 ATTGTATCGATACATACTTGA
1 ATTGTATCGATACATACGTGA
* *
1023647 ATTGTATAGATACATA-GTGT
1 ATTGTATCGATACATACGTGA
1023667 ATTGTATCGATACAT
1 ATTGTATCGATACAT
1023682 TGAGCCCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.52
21 15 0.48
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (21 bp):
ATTGTATCGATACATACGTGA
Found at i:1024158 original size:38 final size:37
Alignment explanation
Indices: 1024111--1024184 Score: 121
Period size: 38 Copynumber: 2.0 Consensus size: 37
1024101 CTAAGTGATT
**
1024111 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGA
1 GAGAGGTTCTATCTTAGCCCGTGAAAAA-ATAGGGAGA
1024149 GAGAGGTTCTATCTTAGCCCGTGAAAAAATAGGGAG
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAATAGGGAG
1024185 GTTTCTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 8 0.24
38 26 0.76
ACGTcount: A:0.34, C:0.12, G:0.30, T:0.24
Consensus pattern (37 bp):
GAGAGGTTCTATCTTAGCCCGTGAAAAAATAGGGAGA
Found at i:1025814 original size:21 final size:22
Alignment explanation
Indices: 1025767--1025817 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1025757 TGATTGGAAA
1025767 AAAAATAAGTGAGTTACAAAAT
1 AAAAATAAGTGAGTTACAAAAT
* *
1025789 GAAAATAA-TGAGTTA-ACTAAT
1 AAAAATAAGTGAGTTACA-AAAT
1025810 AAAAATAA
1 AAAAATAA
1025818 AAATTTGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.61, C:0.04, G:0.12, T:0.24
Consensus pattern (22 bp):
AAAAATAAGTGAGTTACAAAAT
Found at i:1028844 original size:20 final size:19
Alignment explanation
Indices: 1028821--1028887 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
1028811 ACACCCAGAT
1028821 GTATCGATACATATTGCTTA
1 GTATCGATACATATT-CTTA
1028841 GTATCGATAC--A---TT-
1 GTATCGATACATATTCTTA
*
1028854 GTATCGATACATGTTCTTA
1 GTATCGATACATATTCTTA
*
1028873 GTATCGATATATATT
1 GTATCGATACATATT
1028888 GAATTATATC
Statistics
Matches: 38, Mismatches: 3, Indels: 13
0.70 0.06 0.24
Matches are distributed among these distances:
13 10 0.26
14 2 0.05
18 3 0.08
19 13 0.34
20 10 0.26
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (19 bp):
GTATCGATACATATTCTTA
Found at i:1028859 original size:13 final size:13
Alignment explanation
Indices: 1028841--1028865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1028831 ATATTGCTTA
1028841 GTATCGATACATT
1 GTATCGATACATT
1028854 GTATCGATACAT
1 GTATCGATACAT
1028866 GTTCTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1028878 original size:32 final size:33
Alignment explanation
Indices: 1028820--1028881 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
1028810 CACACCCAGA
1028820 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCTTAGTATCGATACAT
*
1028853 TGTATCGATACATGTT-CTTAGTATCGATA
1 TGTATCGATACATATTGCTTAGTATCGATA
1028882 TATATTGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATATTGCTTAGTATCGATACAT
Found at i:1028954 original size:37 final size:37
Alignment explanation
Indices: 1028910--1028982 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
1028900 TACATGAAAC
* *
1028910 TAGCAGTAGCTAAAACTCACTTTGTACCGATACATTA
1 TAGCAGTAACTAAAACTCACTTTGTACCAATACATTA
*
1028947 TAGCAGTAACTAAAACTCACTTTGTATCAATACATT
1 TAGCAGTAACTAAAACTCACTTTGTACCAATACATT
1028983 GTATCGATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (37 bp):
TAGCAGTAACTAAAACTCACTTTGTACCAATACATTA
Found at i:1029026 original size:20 final size:21
Alignment explanation
Indices: 1028979--1029035 Score: 89
Period size: 20 Copynumber: 2.8 Consensus size: 21
1028969 TGTATCAATA
*
1028979 CATTGTATCGATACATACTTG
1 CATTGTATCGATACATACGTG
*
1029000 AATTGTATCGATACATA-GTG
1 CATTGTATCGATACATACGTG
1029020 CATTGTATCGATACAT
1 CATTGTATCGATACAT
1029036 TGAGCCCAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (21 bp):
CATTGTATCGATACATACGTG
Found at i:1029539 original size:37 final size:38
Alignment explanation
Indices: 1029465--1029539 Score: 116
Period size: 38 Copynumber: 2.0 Consensus size: 38
1029455 CTAAATGATT
**
1029465 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAAGGAGG
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAAGGAGG
*
1029503 GAGAGGTTCTATCTTAGCCCGTG-AAAAGATAGGGAGG
1 GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAAGGAGG
1029540 TTTCTACTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 13 0.38
38 21 0.62
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (38 bp):
GAGAGGTTCTATCTTAGCCCGTGAAAAAGATAAGGAGG
Found at i:1031820 original size:13 final size:13
Alignment explanation
Indices: 1031802--1031828 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1031792 AGAATTAATA
1031802 AAAGAATAAGGCT
1 AAAGAATAAGGCT
1031815 AAAGAATAAGGCT
1 AAAGAATAAGGCT
1031828 A
1 A
1031829 TAGCCAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.15
Consensus pattern (13 bp):
AAAGAATAAGGCT
Found at i:1037099 original size:354 final size:348
Alignment explanation
Indices: 1036463--1037109 Score: 902
Period size: 354 Copynumber: 1.8 Consensus size: 348
1036453 TATGTGTGAA
* * ** *
1036463 GAGTACAATTATATTGCTTAATCGAGCAATCAATTTATTAATAAATTGATTTTATATAAATTATA
1 GAGTACAATTATATTACTTAATCGAACAATCAATTTATTAATAAATTGATCATACATAAATTATA
* * **
1036528 AAAATATGTAAAATTAACTAAATTTTACATCAATAAAAATAAAATCTTTCCTCCTATATATATAT
66 AAAATATATAAAATTAACTAAATTTTACATCAATAAAAATAAAATCTTCCCTAATATATATATAT
* *
1036593 ATATATGAAAGAAAATTTATGTATTATGAATAATAAGCTAGATTTCAATTAATATATTTCATTTA
131 ATATATGAAAAAAAATTTATGTATTATGAATAATAAGCTAGATTTCAATTAATATAGTTCATTTA
*
1036658 ATAAACTCAAGAGATTGCATTAAGTCTAATTCTCTCCCTAATAAAGTTGAAAACTTGTAAAAGGA
196 ATAAACTCAAAAGATTGCATTAAGTCTAATTCTCTCCCTAATAAAGTTGAAAACTTGTAAAAGGA
* *
1036723 GAATGTATTGATTACGAAGGAAAACACAAGTAAAAAAAATGGTAATTACTTTGTATTTTTTTTAC
261 GAATGGACTGATTACGAAGGAAAACACAAGTAAAAAAAATGGTAATTACTTTGTATTTTTTTTAC
1036788 AGAATAAATTTTACATATATAAC
326 AGAATAAATTTTACATATATAAC
* * *
1036811 GAGTATAATTATATTACTTAATCGAACGATCGATTTATTAATAAATTGATCATACATAAATTATA
1 GAGTACAATTATATTACTTAATCGAACAATCAATTTATTAATAAATTGATCATACATAAATTATA
* * ** * *
1036876 AAAATATATAAAATTAACTAAGTTTTATATCAATGGAAGT-GAATCTTCCCACATAAAAATATAT
66 AAAATATATAAAATTAACTAAATTTTACATCAATAAAAATAAAATCTT-CC-C-T---AATATAT
* *
1036940 ATATATATATATGAAAAAAAATTTATGTATTATGAATAATAAGCTTCGATTTTAATTAATATAGT
125 ATATATATATATGAAAAAAAATTTATGTATTATGAATAATAAGC-TAGATTTCAATTAATATAGT
* ** * **
1037005 TCATTTAATATACTCAAAAGATTGTGTTAAGTCTAATTCTTTTTCTAATAAAGTTGAAAACTTGT
189 TCATTTAATAAACTCAAAAGATTGCATTAAGTCTAATTCTCTCCCTAATAAAGTTGAAAACTTGT
** *
1037070 ACTAGGAGAATGGACTGATT-CTGAAGGAAAACACGAGTAA
254 AAAAGGAGAATGGACTGATTAC-GAAGGAAAACACAAGTAA
1037110 CAAACACGGT
Statistics
Matches: 257, Mismatches: 34, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
347 6 0.02
348 92 0.36
349 1 0.00
350 1 0.00
353 49 0.19
354 108 0.42
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (348 bp):
GAGTACAATTATATTACTTAATCGAACAATCAATTTATTAATAAATTGATCATACATAAATTATA
AAAATATATAAAATTAACTAAATTTTACATCAATAAAAATAAAATCTTCCCTAATATATATATAT
ATATATGAAAAAAAATTTATGTATTATGAATAATAAGCTAGATTTCAATTAATATAGTTCATTTA
ATAAACTCAAAAGATTGCATTAAGTCTAATTCTCTCCCTAATAAAGTTGAAAACTTGTAAAAGGA
GAATGGACTGATTACGAAGGAAAACACAAGTAAAAAAAATGGTAATTACTTTGTATTTTTTTTAC
AGAATAAATTTTACATATATAAC
Found at i:1040148 original size:2 final size:2
Alignment explanation
Indices: 1040143--1040172 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1040133 ACACACACGC
1040143 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1040173 CTGCTTACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1046042 original size:21 final size:21
Alignment explanation
Indices: 1046008--1046051 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1045998 GAGACTTTTT
*
1046008 TTAAATATATATATATATATA
1 TTAAATATATATATATAAATA
*
1046029 TTAAATAT-TAATATTTAAATA
1 TTAAATATAT-ATATATAAATA
1046050 TT
1 TT
1046052 TTTAGATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAATATATATATATAAATA
Found at i:1046061 original size:35 final size:34
Alignment explanation
Indices: 1046007--1046083 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 34
1045997 AGAGACTTTT
*
1046007 TTTAAATATATATATATATATA-TTAAATATTAATA
1 TTTAAATATATATAGATATATATTTAAA-ATTAA-A
* *
1046042 TTTAAATATTTTTAGATATATATTTAAAATTAAA
1 TTTAAATATATATAGATATATATTTAAAATTAAA
*
1046076 ATTAAATA
1 TTTAAATA
1046084 AAAAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 8 0.22
35 24 0.65
36 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (34 bp):
TTTAAATATATATAGATATATATTTAAAATTAAA
Found at i:1046646 original size:21 final size:20
Alignment explanation
Indices: 1046621--1046669 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1046611 TGCCATATGT
*
1046621 TTTTTTTTAATATTTTTTTG
1 TTTTTTTTAATAATTTTTTG
*
1046641 GTTTTTTTAATAATTTTTTG
1 TTTTTTTTAATAATTTTTTG
*
1046661 TTTTATTTA
1 TTTTTTTTA
1046670 GTTTTTTATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (20 bp):
TTTTTTTTAATAATTTTTTG
Found at i:1046789 original size:17 final size:17
Alignment explanation
Indices: 1046763--1046795 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1046753 CTTAAGTCAC
1046763 TTTAGGTTTTTTTTTAG
1 TTTAGGTTTTTTTTTAG
*
1046780 TTTAGTTTTTTTTTTA
1 TTTAGGTTTTTTTTTA
1046796 ATTTTGCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (17 bp):
TTTAGGTTTTTTTTTAG
Found at i:1048209 original size:20 final size:20
Alignment explanation
Indices: 1048181--1048279 Score: 101
Period size: 20 Copynumber: 4.8 Consensus size: 20
1048171 ACTGCCAAGG
1048181 AAATGTATCGATACATTACT
1 AAATGTATCGATACATTACT
*
1048201 AAATATATCGATACATTACT
1 AAATGTATCGATACATTACT
*
1048221 AAATGTATTGATACATGCTTAC-
1 AAATGTATCGATACA---TTACT
* *
1048243 AATTGTATCGATACATTTCT
1 AAATGTATCGATACATTACT
* * *
1048263 CATTATATCGATACATT
1 AAATGTATCGATACATT
1048280 CTGGGTTTTT
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.04
20 47 0.70
22 13 0.19
23 4 0.06
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.38
Consensus pattern (20 bp):
AAATGTATCGATACATTACT
Found at i:1052697 original size:28 final size:28
Alignment explanation
Indices: 1052641--1052717 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
1052631 GGAATAAAGC
*** **
1052641 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1052669 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
1052697 CGAGGTTGAAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1052718 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1052764 original size:52 final size:51
Alignment explanation
Indices: 1052700--1052921 Score: 228
Period size: 52 Copynumber: 4.3 Consensus size: 51
1052690 GAAATAACGA
* * * *
1052700 GGTTGAAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATTGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAACTGG
* * * * *
1052752 AGTTGGAGTATCCCCGATTAAAGGAGAATTGGTGTTTTGAAAATAAAACTGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAACTGG
* * * * *
1052804 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGTAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTGGTGTTTTGGAAATAAAACTGG
* *** * * *
1052856 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACTGG
1052907 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1052922 TCGGAGGTAA
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
51 38 0.27
52 93 0.66
53 10 0.07
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACTGG
Found at i:1052967 original size:27 final size:28
Alignment explanation
Indices: 1052904--1052979 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
1052894 GAAATAAAGC
***
1052904 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAGGTAA
* *
1052932 CGAGGTTGGAGTATCCCCGATGA-TTAA
1 CGGGGTTGGAGTATCCCCGATGAGGTAA
1052959 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1052980 TTTGAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAGGTAA
Found at i:1053086 original size:263 final size:263
Alignment explanation
Indices: 1052591--1053086 Score: 759
Period size: 263 Copynumber: 1.9 Consensus size: 263
1052581 CCGAAATAAT
*
1052591 GGGGTTGAGGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATC
1 GGGGTTGAGGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
* *
1052656 CCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGAAGTATCCTCGATTGT
66 CCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGAAGTATCCCCGATTGT
* * *
1052721 GAAAAATTGGTGTTTTTGGAAATAAAATTGGAGTTGGAGTATCCCCGATTAAAGGAGAATTGGTG
131 GAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGTG
* *
1052786 TTTTGAAAATAAAACTGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGTAATAAA
196 TCTTGAAAATAAAACTGGAGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGTAATAAA
1052851 ACC
261 ACC
*
1052854 GGGGTTG-GAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 GGGGTTGAG-GTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * * *
1052918 CCCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTT
65 CCCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGAAGTATCCCCGATTG
** *
1052982 TGAAAAATTGGTGTTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCTTGATTATA-GAAAATTA
130 TGAAAAATTGGTG--TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTA
*
1053046 GTGTCTTGAAAATAAAA-TCGGAGTTGG-GATATCTCCGATTG
193 GTGTCTTGAAAATAAAACT-GGAGTTGGAG-TATCCCCGATTG
1053087 CGGAGAATTG
Statistics
Matches: 211, Mismatches: 17, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
262 39 0.18
263 135 0.64
264 37 0.18
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (263 bp):
GGGGTTGAGGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
CCCTCGGAGGTAACGAGGTTGGAGTATCCCCGATGAAATAACGAGGTTGAAGTATCCCCGATTGT
GAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGTG
TCTTGAAAATAAAACTGGAGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGTAATAAA
ACC
Found at i:1055465 original size:13 final size:13
Alignment explanation
Indices: 1055447--1055472 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1055437 CAAAGAATAG
1055447 ATGTATCGATACA
1 ATGTATCGATACA
1055460 ATGTATCGATACA
1 ATGTATCGATACA
1055473 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1055465 original size:34 final size:33
Alignment explanation
Indices: 1055426--1055490 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
1055416 AACTTCCTAG
* *
1055426 ATGTATTGATACAAAGAATAGATGTATCGATACA
1 ATGTATCGATACAAAGAA-AAATGTATCGATACA
*
1055460 ATGTATCGATACACAGAAAAATGTATCGATA
1 ATGTATCGATACAAAGAAAAATGTATCGATA
1055491 TATTTCTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.45, C:0.11, G:0.17, T:0.28
Consensus pattern (33 bp):
ATGTATCGATACAAAGAAAAATGTATCGATACA
Found at i:1055534 original size:13 final size:13
Alignment explanation
Indices: 1055516--1055567 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1055506 AGCTTCCTAG
1055516 CGATACATTGTAT
1 CGATACATTGTAT
1055529 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1055548 CGATACATTGTAT
1 CGATACATTGTAT
1055561 CGATACA
1 CGATACA
1055568 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1055548 original size:19 final size:19
Alignment explanation
Indices: 1055524--1055609 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
1055514 AGCGATACAT
1055524 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1055543 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
1055556 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
** *
1055575 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
1055596 TGTATCGATACAAA
1 TGTATCGATACAAA
1055610 TTATTGGAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1055557 original size:32 final size:32
Alignment explanation
Indices: 1055516--1055588 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1055506 AGCTTCCTAG
1055516 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
1055548 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1055580 CGATACATT
1 CGATACATT
1055589 TACTGAATGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1056505 original size:26 final size:26
Alignment explanation
Indices: 1056476--1056563 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
1056466 GTGTGGGTTT
1056476 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGCGTCCTGCTCTTTGAGGAC
* ** * * *
1056502 TGAAAGGTG-CCACCAACTTGTGTGGGC
1 TGAAAGGCGTCCTGC-TCTT-TGAGGAC
1056529 TTTGAAAGGCGTCCTGCTCTTTGAGGAC
1 --TGAAAGGCGTCCTGCTCTTTGAGGAC
1056557 TGAAAGG
1 TGAAAGG
1056564 TGCCACCAAC
Statistics
Matches: 45, Mismatches: 12, Indels: 10
0.67 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 18 0.40
27 5 0.11
28 5 0.11
29 11 0.24
30 3 0.07
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (26 bp):
TGAAAGGCGTCCTGCTCTTTGAGGAC
Found at i:1056777 original size:61 final size:60
Alignment explanation
Indices: 1056650--1057082 Score: 528
Period size: 61 Copynumber: 7.3 Consensus size: 60
1056640 TTGAAAGGTG
* * *
1056650 TCCTGCTCTTTGGGGACTAAAAAGTGCCACCAAC-T-CGT-GGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1056708 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
*
1056769 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCA
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
* * * * * * *
1056824 TCCTGCTCTTTGAGGGCTAGAAAATGACACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
* * * *
1056885 TCCTGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
* * * *
1056944 TCTTGCACTTTGGGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
* * * *
1057005 TCCTGCTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAACAGGCA
1 TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAAGCA
1057065 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1057083 AAAAAGTGGA
Statistics
Matches: 329, Mismatches: 32, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
55 49 0.15
56 3 0.01
57 3 0.01
58 28 0.09
59 31 0.09
60 105 0.32
61 106 0.32
62 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (60 bp):
TCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
Found at i:1056819 original size:28 final size:28
Alignment explanation
Indices: 1056788--1056874 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
1056778 TTGAGGACTA
*
1056788 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGACACCAACTTGTGTGGGCTTT
* ** * * *
1056816 G-AAA-GGCATCCTGCTCTTTGAGGGC-TA
1 GAAAATGACA-CCAACT-TGTGTGGGCTTT
1056843 GAAAATGACACCAACTTGTGTGGGCTTT
1 GAAAATGACACCAACTTGTGTGGGCTTT
1056871 GAAA
1 GAAA
1056875 GGAGAAGGCG
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
26 3 0.07
27 16 0.38
28 20 0.48
29 3 0.07
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (28 bp):
GAAAATGACACCAACTTGTGTGGGCTTT
Found at i:1056867 original size:27 final size:27
Alignment explanation
Indices: 1056785--1056868 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
1056775 TCTTTGAGGA
*
1056785 CTAGAAAATGCCACCAACTTGTGTGGG
1 CTAGAAAATGACACCAACTTGTGTGGG
* * ** * *
1056812 CTTTG-AAA-GGCATCCTGCTCTTTGAGGG
1 C-TAGAAAATGACA-CCAACT-TGTGTGGG
1056840 CTAGAAAATGACACCAACTTGTGTGGG
1 CTAGAAAATGACACCAACTTGTGTGGG
1056867 CT
1 CT
1056869 TTGAAAGGAG
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
26 3 0.08
27 18 0.45
28 16 0.40
29 3 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (27 bp):
CTAGAAAATGACACCAACTTGTGTGGG
Found at i:1056972 original size:60 final size:59
Alignment explanation
Indices: 1056430--1057087 Score: 688
Period size: 55 Copynumber: 11.4 Consensus size: 59
1056420 ATAAAGTGTA
* * *
1056430 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGG-TTT---TG-AAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1056485 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
1056540 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
1056595 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
1056650 TCCTGCTCTTTGGGGACTAAAAAGTGCCACCAAC-T-CGT-GGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* * *
1056708 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
*
1056769 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * *
1056824 TCCTGCTCTTTGAGGGCTAGAAAATGACACCAACTTGTGTGGGCTTTGAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
** *
1056885 TCCTGCTCTTTGAGGACTGAAGGTGCCACTAACTTGTGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * * * *
1056944 TCTTGCACTTTGGGGACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* ** * *
1057005 TCCTGCTTTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAACAGGCA
1 TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
*
1057065 TCCTGCTCTTTGAGGACTAAAAA
1 TCCTGCTCTTTGAGGACTGAAAA
1057088 GTGGAAGGAG
Statistics
Matches: 527, Mismatches: 48, Indels: 51
0.84 0.08 0.08
Matches are distributed among these distances:
52 6 0.01
53 3 0.01
54 5 0.01
55 223 0.42
56 7 0.01
57 2 0.00
58 34 0.06
59 31 0.06
60 104 0.20
61 108 0.20
62 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:1058080 original size:10 final size:10
Alignment explanation
Indices: 1058077--1058112 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
1058067 TTTTTCTTTG
1058077 TTTTGTTTTT
1 TTTTGTTTTT
1058087 TTTTGTTTTTT
1 TTTTG-TTTTT
*
1058098 TTTTGCTTTT
1 TTTTGTTTTT
1058108 TTTTG
1 TTTTG
1058113 AAGAGAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:1058085 original size:15 final size:15
Alignment explanation
Indices: 1058067--1058112 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
1058057 CTTTTCTCTC
1058067 TTTTTCTTTGTTTTG
1 TTTTTCTTTGTTTTG
* *
1058082 TTTTTTTTTGTTTTT
1 TTTTTCTTTGTTTTG
*
1058097 TTTTTGCTTTTTTTTG
1 TTTTT-CTTTGTTTTG
1058113 AAGAGAAAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (15 bp):
TTTTTCTTTGTTTTG
Found at i:1058099 original size:12 final size:11
Alignment explanation
Indices: 1058077--1058111 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1058067 TTTTTCTTTG
1058077 TTTTG-TTTTT
1 TTTTGTTTTTT
1058087 TTTTGTTTTTT
1 TTTTGTTTTTT
1058098 TTTTGCTTTTTT
1 TTTTG-TTTTTT
1058110 TT
1 TT
1058112 GAAGAGAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 5 0.22
11 10 0.43
12 8 0.35
ACGTcount: A:0.00, C:0.03, G:0.09, T:0.89
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:1066708 original size:79 final size:79
Alignment explanation
Indices: 1066617--1066801 Score: 207
Period size: 79 Copynumber: 2.3 Consensus size: 79
1066607 GTCTCCTTGA
* * *
1066617 AAATAACGGGGTTGGAGTATCCCCGGTT-GTGAGA-AATCGATGA-TTAGAGAAAAAAATCGGGA
1 AAATAACGGGGTTGGAGTATCCCCGATTAG-GAGAGAATCAAT-ATTTAG-GAAAAAAACCGGGA
1066679 TTGGAGTATCCCCTCCG
63 TTGGAGTATCCCCTCCG
* * * * *
1066696 AAATAACGGGGTTGGAGT-TCCCCAATTAGGAGAGATTCAATATTTTTGGAATAAAGCCGGGATT
1 AAATAACGGGGTTGGAGTATCCCCGATTAGGAGAGAATCAATA-TTTAGGAAAAAAACCGGGATT
*
1066760 GGAGTATCCCCTCGG
65 GGAGTATCCCCTCCG
**
1066775 AGGTAACGGGGTTGGAGTATCCCCGAT
1 AAATAACGGGGTTGGAGTATCCCCGAT
1066802 GAAATAACGA
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
78 12 0.13
79 67 0.75
80 10 0.11
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (79 bp):
AAATAACGGGGTTGGAGTATCCCCGATTAGGAGAGAATCAATATTTAGGAAAAAAACCGGGATTG
GAGTATCCCCTCCG
Found at i:1066876 original size:52 final size:49
Alignment explanation
Indices: 1066813--1066948 Score: 125
Period size: 52 Copynumber: 2.7 Consensus size: 49
1066803 AAATAACGAG
* * *
1066813 GTTGAAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCC-CGATTGTGGAAAATTGGTGTTTTT-GAAAT-AAATCGGA
** * *
1066865 GTTGGAGTATCCCCGATTAAAGGAGAATTGGTG-TTTTGAAATAAATCGGG
1 GTTGGAGTAT-CCCGATT-GTGGAAAATTGGTGTTTTTGAAATAAATCGGA
*
1066915 GTT-G-GTATCCCTGATTGTGGAAAATTAGTGTTTT
1 GTTGGAGTATCCC-GATTGTGGAAAATTGGTGTTTT
1066949 AGCANNNNNN
Statistics
Matches: 69, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
47 13 0.19
48 11 0.16
49 1 0.01
50 9 0.13
51 5 0.07
52 18 0.26
53 12 0.17
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.36
Consensus pattern (49 bp):
GTTGGAGTATCCCGATTGTGGAAAATTGGTGTTTTTGAAATAAATCGGA
Found at i:1424574 original size:13 final size:13
Alignment explanation
Indices: 1424556--1424607 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1424546 AGCTTCGTAG
1424556 CGATACATTGTAT
1 CGATACATTGTAT
1424569 CGATACAGAACTTATGTAT
1 CGATAC---A-TT--GTAT
1424588 CGATACATTGTAT
1 CGATACATTGTAT
1424601 CGATACA
1 CGATACA
1424608 AATCATTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1427810 original size:20 final size:20
Alignment explanation
Indices: 1427767--1427950 Score: 149
Period size: 20 Copynumber: 8.7 Consensus size: 20
1427757 TTTTAACTTG
*
1427767 ATGTATCGATACATT-AATA
1 ATGTATCGATACATTGAAGA
1427786 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
* *
1427806 ATGTATCGATACATTCATA-C
1 ATGTATCGATACATTGA-AGA
* *
1427826 ATGTATCGATAGATTGAAAA
1 ATGTATCGATACATTGAAGA
1427846 ATGTATCGATACATCTGGGTACAAGGATAAA
1 ATGTATCGATACAT-T--G---AA-G----A
1427877 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAGA
** *
1427897 ATGTATCGATACATTCCTA-C
1 ATGTATCGATACATT-GAAGA
*
1427917 ATGTATCGATACATTGACGA
1 ATGTATCGATACATTGAAGA
1427937 ATGTATCGATACAT
1 ATGTATCGATACAT
1427951 CTAAGTAAAA
Statistics
Matches: 134, Mismatches: 15, Indels: 31
0.74 0.08 0.17
Matches are distributed among these distances:
19 16 0.12
20 92 0.69
21 3 0.02
23 1 0.01
24 1 0.01
25 2 0.01
26 2 0.01
28 1 0.01
30 1 0.01
31 15 0.11
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAAGA
Found at i:1427842 original size:40 final size:39
Alignment explanation
Indices: 1427767--1427950 Score: 170
Period size: 40 Copynumber: 4.4 Consensus size: 39
1427757 TTTTAACTTG
*
1427767 ATGTATCGATACATTAATAATGTATCGATACATTGAAGA
1 ATGTATCGATACATTAATAATGTATCGATACATTGAAAA
* *
1427806 ATGTATCGATACATTCATACATGTATCGATAGATTGAAAA
1 ATGTATCGATACATTAATA-ATGTATCGATACATTGAAAA
*
1427846 ATGTATCGATACATCTGGGTACAAGGATAAAATGTATCGATACATTGAAGA
1 ATGTATCGATACA--T---T---A--AT--AATGTATCGATACATTGAAAA
** **
1427897 ATGTATCGATACATTCCTACATGTATCGATACATTGACGA
1 ATGTATCGATACATTAATA-ATGTATCGATACATTGAAAA
1427937 ATGTATCGATACAT
1 ATGTATCGATACAT
1427951 CTAAGTAAAA
Statistics
Matches: 122, Mismatches: 9, Indels: 27
0.77 0.06 0.17
Matches are distributed among these distances:
39 19 0.16
40 64 0.52
41 1 0.01
42 1 0.01
45 1 0.01
46 1 0.01
49 1 0.01
50 2 0.02
51 31 0.25
52 1 0.01
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.32
Consensus pattern (39 bp):
ATGTATCGATACATTAATAATGTATCGATACATTGAAAA
Found at i:1427940 original size:91 final size:91
Alignment explanation
Indices: 1427785--1427952 Score: 300
Period size: 91 Copynumber: 1.8 Consensus size: 91
1427775 ATACATTAAT
*
1427785 AATGTATCGATACATTGAAGAATGTATCGATACATTCATACATGTATCGATAGATTGAAAAATGT
1 AATGTATCGATACATTGAAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGT
1427850 ATCGATACATCTGGGTACAAGGATAA
66 ATCGATACATCTGGGTACAAGGATAA
* **
1427876 AATGTATCGATACATTGAAGAATGTATCGATACATTCCTACATGTATCGATACATTGACGAATGT
1 AATGTATCGATACATTGAAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGT
1427941 ATCGATACATCT
66 ATCGATACATCT
1427953 AAGTAAAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 73 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (91 bp):
AATGTATCGATACATTGAAGAATGTATCGATACATTCATACATGTATCGATACATTGAAAAATGT
ATCGATACATCTGGGTACAAGGATAA
Found at i:1428773 original size:28 final size:28
Alignment explanation
Indices: 1428731--1429970 Score: 750
Period size: 28 Copynumber: 44.7 Consensus size: 28
1428721 AAACTTGTGC
* *
1428731 GGGCTTT-AAATGGATGCAACTAACTTGT
1 GGGCTTTGAAA-GGATGCCACTGACTTGT
* * **
1428759 GGGCTTTGGAAGGATGCCACTAACTCAT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * *
1428787 GGGCTTTGGAAGGATGCCACTAACTCGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
*
1428815 GGACTTTG-AAGAGATGCCACTGACTTGT
1 GGGCTTTGAAAG-GATGCCACTGACTTGT
*
1428843 GGGCTTTGAAAGGATGCCACTGACTCGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* *
1428871 -GGCTTTG-AAGGGTGCCACTAACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
** * *
1428897 GGGCGATGAAAGGGTGCCA-TGAATTCGT
1 GGGCTTTGAAAGGATGCCACTGACTT-GT
1428925 GGGCTTTGAAAAGGATGCCACTGACTTGT
1 GGGCTTTG-AAAGGATGCCACTGACTTGT
* * *
1428954 GGGCTCTAAAAAGATGCCACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
1428982 GGGCTTTGAAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
*
1429010 GGGCTTTGAAAGAATGCCACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
*
1429038 AGGCTTTGAAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
*
1429066 GGGCTTTG-AAGAGATTCCACTGACTTGT
1 GGGCTTTGAAAG-GATGCCACTGACTTGT
* ** *
1429094 GGGTTTTGAAATAATGCAACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
** * *** *
1429122 GGGCTATAAAAATG-TGCTGTTGACATGT
1 GGGCT-TTGAAAGGATGCCACTGACTTGT
* * * * *
1429150 GGGCTTGGAAAAGATACCACTAACTTAT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * *
1429178 GGGATTGGAAAAGATGCCACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* *
1429206 GGGTTTTGAAAAGATGCCACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
*
1429234 GGGCTTTGAAATGATGCCACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* *
1429262 GGGCTTGGAAAAGATGCCACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
*
1429290 GGGCTTTGAAATGATGCCACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * *
1429318 GGGCTTTGAAATGATGCTAATGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * *
1429346 GGAC-TT-AAAAGAGTGCCAC-GAAGTTGT
1 GGGCTTTGAAAGGA-TGCCACTG-ACTTGT
* * * * *
1429373 GGAC-TTAAAATGATGCCAGTAACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
*
1429400 GGGCTTTGAAATGATGCCACTGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* ** * *
1429428 GGAC-TCAAAAGGGTGCCACGGACTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* ** * * *
1429455 GGACTTAAAAAAGGCTGCCACGGAGTTGT
1 GGGCTT-TGAAAGGATGCCACTGACTTGT
* * ** * *
1429484 -GGCCTTAAAAGCG-TTTCACAGAGTTGT
1 GGGCTTTGAAAG-GATGCCACTGACTTGT
* * * * *
1429511 GGACTTTAAAAGGGTGCCACGGAGTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * * * *
1429539 GGACTTTAAAAGGGTGCCACGGAGTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * * * *
1429567 GGACTTTAAAAGGTTACCA-TGGAGTTGT
1 GGGCTTTGAAAGGATGCCACT-GACTTGT
* * * *
1429595 GGAC-TTAAAAGGGTGCCA-TGGAGTTGT
1 GGGCTTTGAAAGGATGCCACT-GACTTGT
* ** * *
1429622 GGACTTAAAAAGGGCTGCCA-TAGAGTTGT
1 GGGCTTTGAAA-GGATGCCACT-GACTTGT
* * * * *
1429651 GGAC-TTAAAAGGGTGCCACAGAGTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * * * *
1429678 GGAC-TTAAAAGGGTGCCACGGATTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * * * *
1429705 GGACTTTAAAAGGGTGCCACGGAGTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * *
1429733 GGACTTTAAAAGGATGCCA-TGAAGTTGT
1 GGGCTTTGAAAGGATGCCACTG-ACTTGT
* * *
1429761 GGACTTT-AAAGGATGCCACGGAGTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * * * * *
1429788 GGACTTTAAAAGGGTGTCACGGAGTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * * * *
1429816 GGACTTTAAAAGGGTGCCACGGAGTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * * * * *
1429844 GGAC-TTAAAAGGGTGCCACGGAGTTAT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * * * * *
1429871 GGAC-TTAAAAGGGTGTCACGGAGTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * ** *
1429898 GGACTTTAAAAGGATGCCACCAAGTTGT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* * * * *
1429926 GGACTTT-AAAGGGTGCCACGGAGTTAT
1 GGGCTTTGAAAGGATGCCACTGACTTGT
* *
1429953 GGAC-TTAAAAGGATGCCA
1 GGGCTTTGAAAGGATGCCA
1429971 TAGAGTTAGT
Statistics
Matches: 1046, Mismatches: 134, Indels: 65
0.84 0.11 0.05
Matches are distributed among these distances:
26 24 0.02
27 270 0.26
28 679 0.65
29 68 0.07
30 5 0.00
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (28 bp):
GGGCTTTGAAAGGATGCCACTGACTTGT
Found at i:1429380 original size:27 final size:27
Alignment explanation
Indices: 1429342--1430153 Score: 951
Period size: 27 Copynumber: 29.4 Consensus size: 27
1429332 TGCTAATGAC
* *
1429342 TTGTGGACTTAAAAGAGTGCCACGAAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * * *
1429369 TTGTGGACTTAAAATGATGCCA-GTAAC
1 TTGTGGACTTAAAAGGGTGCCACG-GAG
* * * * * *
1429396 TTGTGGGCTTTGAAATGATGCCACTGAC
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
1429424 TTGTGGACTCAAAAGGGTGCCACGGAC
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
1429451 TTGTGGACTTAAAAAAGGCTGCCACGGAG
1 TTGTGGACTT--AAAAGGGTGCCACGGAG
* * ** *
1429480 TTGTGGCCTTAAAAGCGTTTCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
1429507 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
1429535 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* * *
1429563 TTGTGGACTTTAAAAGGTTACCATGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
1429591 TTGTGGACTTAAAAGGGTGCCATGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
**
1429618 TTGTGGACTTAAAAAGGGCTGCCATAGAG
1 TTGTGGACTT-AAAAGGG-TGCCACGGAG
*
1429647 TTGTGGACTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
1429674 TTGTGGACTTAAAAGGGTGCCACGGAT
1 TTGTGGACTTAAAAGGGTGCCACGGAG
1429701 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* * *
1429729 TTGTGGACTTTAAAAGGATGCCATGAAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
1429757 TTGTGGACTTTAAAGGATGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
*
1429784 TTGTGGACTTTAAAAGGGTGTCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
1429812 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
1429840 TTGTGGACTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
1429867 TTATGGACTTAAAAGGGTGTCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* **
1429894 TTGTGGACTTTAAAAGGATGCCACCAAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
*
1429922 TTGTGGACTTTAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* * *
1429949 TTATGGACTTAAAAGGATGCCATAGAGTTAG
1 TTGTGGACTTAAAAGGGTGCCA-CG-G--AG
*
1429980 TTGTGGACTTTAAAGGGATGCCACGGAG
1 TTGTGGACTTAAAAGGG-TGCCACGGAG
* *
1430008 TTGTGGACTTTAAAGGGGTGACACGGAG
1 TTGTGGAC-TTAAAAGGGTGCCACGGAG
* *
1430036 TTATGGACATAAAAGGGTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
1430063 TTATGGACTTAAAAGGATGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
1430090 CTGTGGACTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
* *
1430117 TTGTGGACTTAAAAGGTTGCCACAGAG
1 TTGTGGACTTAAAAGGGTGCCACGGAG
1430144 TTGTGGACTT
1 TTGTGGACTT
1430154 TGAAATGAAA
Statistics
Matches: 687, Mismatches: 81, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.00
27 348 0.51
28 264 0.38
29 51 0.07
30 1 0.00
31 17 0.02
32 5 0.01
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.26
Consensus pattern (27 bp):
TTGTGGACTTAAAAGGGTGCCACGGAG
Found at i:1429407 original size:82 final size:81
Alignment explanation
Indices: 1428799--1430170 Score: 605
Period size: 84 Copynumber: 16.5 Consensus size: 81
1428789 GCTTTGGAAG
* * * * *
1428799 GATGCCACTAACTCGTGGACTTTGAAGA-GATGCCACTGACTTGTGGGCTTTGAAAG-GATGCCA
1 GATGCCACTGACTTGTGGGCTTTGAA-ATGATGCCACTGACTTGTGGAC-TTAAAAGAG-TGCCA
* ** *
1428862 CTGACTCGTGG-CTTTGAAG
63 C-GACTTGTGGACTTAAAAT
* * ** * * * *
1428881 GGTGCCACTAACTTGTGGGCGATGAAAGGGTGCCA-TGAATTCGTGGGCTTTGAAAAG-GATGCC
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTT-GTGGAC-TT-AAAAGAG-TGCC
* *
1428944 ACTGACTTGTGGGCTCTAAAAA
62 AC-GACTTGTGGACT-TAAAAT
* * * *
1428966 GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAATGCCACT
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGAC-TTAAAAGAGTGCCAC-
* *
1429031 GACTTGTAGG-CTTTGAAAG
64 GACTTGT-GGAC-TTAAAAT
* ** * * * *
1429050 GATGCCACTGACTTGTGGGCTTTGAAGA-GATTCCACTGACTTGTGGGTTTTGAAATAATGCAAC
1 GATGCCACTGACTTGTGGGCTTTGAA-ATGATGCCACTGACTTGT-GGACTTAAAAGAGTGCCAC
*
1429114 TGACTTGTGGGCTATAAAAAT
64 -GACTTGTGGACT-T-AAAAT
*** * * * * * *
1429135 G-TGCTGTTGACATGTGGGCTTGGAAAAGATACCACTAACTTATGGGA-TTGGAAAAGA-TGCCA
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGT-GGACTT--AAAAGAGTGCCA
**
1429197 CTGACTTGTGGGTTTTGAAAA-
63 C-GACTTGT-GGACTT-AAAAT
*
1429218 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGGCTTGGAAAAGA-TGCCAC
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGACTT--AAAAGAGTGCCAC
* *
1429282 TGACTTGTGGGCTTTGAAAT
64 -GACTTGTGGAC-TTAAAAT
* *
1429302 GATGCCACTGACTTGTGGGCTTTGAAATGATGCTAATGACTTGTGGACTTAAAAGAGTGCCACGA
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGACTTAAAAGAGTGCCACG-
*
1429367 AGTTGTGGACTTAAAAT
65 ACTTGTGGACTTAAAAT
* * * *
1429384 GATGCCAGTAACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGACTCAAAAGGGTGCCACGG
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGACTTAAAAGAGTGCCAC-G
*
1429449 ACTTGTGGACTTAAAAAAG
65 ACTTGTGGACTT--AAAAT
* * * * * * ** * * *
1429468 GCTGCCACGGAGTTGT-GGCCTT-AAAAGCGTTTCACAGAGTTGTGGACTTTAAAAGGGTGCCAC
1 GATGCCACTGACTTGTGGGCTTTGAAATG-ATGCCACTGACTTGTGGAC-TTAAAAGAGTGCCAC
* *
1429531 GGAGTTGTGGACTTTAAAAG
64 -GACTTGTGGAC-TTAAAAT
* * * * * * * * * * *
1429551 GGTGCCACGGAGTTGTGGACTTTAAAAGGTTACCA-TGGAGTTGTGGACTTAAAAGGGTGCCATG
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACT-GACTTGTGGACTTAAAAGAGTGCCA-C
* *
1429615 GAGTTGTGGACTTAAAAAGG
64 GACTTGTGGACTT-AAAA-T
* * * * * * * * *
1429635 GCTGCCA-TAGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACG
1 GATGCCACT-GACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGACTTAAAAGAGTGCCAC-
* *
1429698 GATTTGTGGACTTTAAAAG
64 GACTTGTGGAC-TTAAAAT
* * * * * * * *
1429717 GGTGCCACGGAGTTGTGGACTTTAAAAGGATGCCA-TGAAGTTGTGGACTTTAAAG-GATGCCAC
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTG-ACTTGTGGACTTAAAAGAG-TGCCAC
* *
1429780 GGAGTTGTGGACTTTAAAAG
64 -GACTTGTGGAC-TTAAAAT
* * * * * * * * * * *
1429800 GGTGTCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGACTTAAAAGAGTGCCAC-G
* * *
1429865 AGTTATGGACTTAAAAG
65 ACTTGTGGACTTAAAAT
* * * * * * * ** * * *
1429882 GGTGTCACGGAGTTGTGGACTTTAAAAGGATGCCACCAAGTTGTGGACTTTAAAGGGTGCCACGG
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGACTTAAAAGAGTGCCAC-G
* * *
1429947 AGTTATGGACTTAAAAG
65 ACTTGTGGACTTAAAAT
* * * * * *
1429964 GATGCCA-TAGAGTTAGTTGTGGACTTT-AAAGGGATGCCACGGAGTTGTGGACTTTAAAGGGGT
1 GATGCCACT-GACTT-G-TG-GG-CTTTGAAA-TGATGCCACTGACTTGTGGAC-TTAAAAGAGT
* * * * *
1430027 GACACGGAGTTATGGACATAAAAG
59 GCCAC-GACTTGTGGACTTAAAAT
* * * * * * * *
1430051 GGTGCCACGGAGTTATGGAC-TTAAAAGGATGCCACGGAGC-TGTGGACTTAAAAG-GTTGCCAC
1 GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGA-CTTGTGGACTTAAAAGAG-TGCCAC
* *
1430113 GGAGTTGTGGACTTAAAAG
64 -GACTTGTGGACTTAAAAT
* * * *
1430132 GTTGCCACAGAGTTGTGGACTTTGAAATGAAATGCCACT
1 GATGCCACTGACTTGTGGGCTTTGAAATG--ATGCCACT
1430171 AAATCGTGGA
Statistics
Matches: 1089, Mismatches: 141, Indels: 118
0.81 0.10 0.09
Matches are distributed among these distances:
80 1 0.00
81 51 0.05
82 265 0.24
83 294 0.27
84 338 0.31
85 71 0.07
86 28 0.03
87 41 0.04
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.27
Consensus pattern (81 bp):
GATGCCACTGACTTGTGGGCTTTGAAATGATGCCACTGACTTGTGGACTTAAAAGAGTGCCACGA
CTTGTGGACTTAAAAT
Found at i:1429563 original size:83 final size:82
Alignment explanation
Indices: 1429342--1430151 Score: 877
Period size: 83 Copynumber: 9.8 Consensus size: 82
1429332 TGCTAATGAC
* * * * * * * *
1429342 TTGTGGACTTAAAAGAGTGCCACGAAGTTGTGGAC-TTAAAATGATGCCA-GTAACTTGTGGGCT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACG-GAGTTGTGGACC
* * * *
1429405 TTGAAATGATGCCACTGAC
65 TT-AAAAGGTGCCACAGAG
* * * *
1429424 TTGTGGACTCAAAAGGGTGCCACGGACTTGTGGACTTAAAAAAGGCTGCCACGGAGTTGTGG-CC
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-TAAAAGGGTGCCACGGAGTTGTGGACC
**
1429488 TTAAAAGCGTTTCACAGAG
65 TTAAAAG-GTGCCACAGAG
*
1429507 TTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACT
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACC
* **
1429572 TTAAAAGGTTACCATGGAG
65 TTAAAAGG-TGCCACAGAG
* * **
1429591 TTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAAGGGCTGCCATAGAGTTGTGGA-C
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGG-TGCCACGGAGTTGTGGACC
1429655 TTAAAAGGGTGCCACAGAG
65 TTAAAA-GGTGCCACAGAG
* *
1429674 TTGTGGACTTAAAAGGGTGCCACGGATTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACCT
*
1429739 TAAAAGGATGCCA-TGAAG
66 TAAAAGG-TGCCACAG-AG
* * * *
1429757 TTGTGGACTTTAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGTCACGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACCT
*
1429822 TAAAAGGGTGCCACGGAG
66 TAAAA-GGTGCCACAGAG
* * *
1429840 TTGTGGACTTAAAAGGGTGCCACGGAGTTATGGAC-TTAAAAGGGTGTCACGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACCT
1429904 TAAAAGGATGCCACCA-AG
66 TAAAAGG-TGCCA-CAGAG
* * * *
1429922 TTGTGGACTTTAAAGGGTGCCACGGAGTTATGGAC-TTAAAAGGATGCCATAGAGTTAGTTGTGG
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCA-CG-G--AGTTGTGG
* * *
1429986 ACTTTAAAGGGATGCCACGGAG
62 ACCTTAAAAGG-TGCCACAGAG
* * * * *
1430008 TTGTGGACTTTAAAGGGGTGACACGGAGTTATGGAC-ATAAAAGGGTGCCACGGAGTTATGGA-C
1 TTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACC
*
1430071 TTAAAAGGATGCCACGGAG
65 TTAAAAGG-TGCCACAGAG
* * * *
1430090 CTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGAC-TTAAAAGGTTGCCACAGAGTTGTGGAC
1 TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGAC
1430152 TTTGAAATGA
Statistics
Matches: 632, Mismatches: 73, Indels: 46
0.84 0.10 0.06
Matches are distributed among these distances:
81 47 0.07
82 165 0.26
83 259 0.41
84 87 0.14
85 3 0.00
86 35 0.06
87 36 0.06
ACGTcount: A:0.28, C:0.14, G:0.32, T:0.25
Consensus pattern (82 bp):
TTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACCT
TAAAAGGTGCCACAGAG
Found at i:1434941 original size:19 final size:17
Alignment explanation
Indices: 1434917--1434977 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 17
1434907 TCAACAATTT
1434917 TATCGATACATAAGCGTTG
1 TATCGATACATAA--GTTG
1434936 TATCGATAC--AA--TG
1 TATCGATACATAAGTTG
1434949 TATCGATACATAAGTTTTG
1 TATCGATACATAAG--TTG
1434968 TATCGATACA
1 TATCGATACA
1434978 ATATATCGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 21 0.58
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (17 bp):
TATCGATACATAAGTTG
Found at i:1434952 original size:13 final size:13
Alignment explanation
Indices: 1434934--1434958 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1434924 ACATAAGCGT
1434934 TGTATCGATACAA
1 TGTATCGATACAA
1434947 TGTATCGATACA
1 TGTATCGATACA
1434959 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1434953 original size:32 final size:32
Alignment explanation
Indices: 1434917--1434994 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 32
1434907 TCAACAATTT
*
1434917 TATCGATACATAAGCGTTGTATCGATACAATG
1 TATCGATACATAAGCGTTGTATCGATACAATA
**
1434949 TATCGATACATAAGTTTTGTATCGATACAATA
1 TATCGATACATAAGCGTTGTATCGATACAATA
*
1434981 TATCGCTACA-AAGC
1 TATCGATACATAAGC
1434995 TACTACCAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 3 0.07
32 38 0.93
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (32 bp):
TATCGATACATAAGCGTTGTATCGATACAATA
Found at i:1435047 original size:13 final size:13
Alignment explanation
Indices: 1435029--1435054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1435019 CATTATTCCA
1435029 TGTATCGATACAT
1 TGTATCGATACAT
1435042 TGTATCGATACAT
1 TGTATCGATACAT
1435055 GGATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1441333 original size:49 final size:49
Alignment explanation
Indices: 1441242--1441563 Score: 301
Period size: 49 Copynumber: 6.5 Consensus size: 49
1441232 GGACATATGG
* * * *
1441242 TGAATCAACATATTGGCACCTT-GTCTTTAAGACCAATGTCGTTGGCCT
1 TGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCT
* * * *
1441290 TGAATCAACACATTGGCACCCTCATCTTTAAGACCAATTTCGTTGGCCT
1 TGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCT
* * * * * *
1441339 TAAATTAGTACATTGGCACCTTAACCATCTTTAAGTCCAATGTTGCCGGCCT
1 TGAATCAGCACATTGGCACCTT---CATCTTTAAGACCAATGTCGCTGGCCT
* * *
1441391 TGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCT
1 TGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCT
* * * * * * *
1441440 TGAATTAGTATATTAGCA-CTGTTATCTTTAAGACCAATGTAGCTAGCCT
1 TGAATCAGCACATTGGCACCT-TCATCTTTAAGACCAATGTCGCTGGCCT
* * * *
1441489 TGAATCAGCACATTGGCATCTTCATCTTTAAG-CCTAATATCACTAGTCC-
1 TGAATCAGCACATTGGCACCTTCATCTTTAAGACC-AATGTCGCT-GGCCT
*
1441538 TGAATCAGCATATTGGCACCTTCATC
1 TGAATCAGCACATTGGCACCTTCATC
1441564 ACTCTTCTCA
Statistics
Matches: 224, Mismatches: 42, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
48 24 0.11
49 156 0.70
50 4 0.02
52 40 0.18
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.33
Consensus pattern (49 bp):
TGAATCAGCACATTGGCACCTTCATCTTTAAGACCAATGTCGCTGGCCT
Found at i:1441440 original size:101 final size:97
Alignment explanation
Indices: 1441265--1441529 Score: 325
Period size: 101 Copynumber: 2.7 Consensus size: 97
1441255 TGGCACCTTG
* * * * * *
1441265 TCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACATTGGCACCCTCATCTTTAAGACCAATTT
1 TCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAG-CCAATAT
* *
1441330 CGTTGGCCTTAAATTAGTACATTGGCACCT-TAACCA
65 CGCTGGCCTTAAATTAGTACATTAGCA-CTGT---CA
* * *
1441366 TCTTTAAGTCCAATGTTGCCGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCAATAT
1 TCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAG-CCAATAT
* * *
1441431 CGCTGGCCTTGAATTAGTATATTAGCACTGTTA
65 CGCTGGCCTTAAATTAGTACATTAGCACTGTCA
*
1441464 TCTTTAAGACCAATGTAGCTAGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGCCTAATAT
1 TCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGCC-AATAT
1441529 C
65 C
1441530 ACTAGTCCTG
Statistics
Matches: 144, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
97 2 0.01
98 60 0.42
100 2 0.01
101 80 0.56
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (97 bp):
TCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGCCAATATC
GCTGGCCTTAAATTAGTACATTAGCACTGTCA
Done.