Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold60
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: 3815296
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 18690 characters in sequence are not A, C, G, or T
File 2 of 21
Found at i:194921 original size:100 final size:100
Alignment explanation
Indices: 194761--194945 Score: 307
Period size: 100 Copynumber: 1.9 Consensus size: 100
194751 CCTTCCGCTT
* ** * *
194761 TTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
1 TTTAGTCCTCAAAAAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCA
194826 GTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCC
66 GTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCC
**
194861 TTTAGTCCTCAAAAAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1 TTTAGTCCTCAAAAAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCA
194926 GTCCTCAAAGAGCAGGACGC
66 GTCCTCAAAGAGCAGGACGC
194946 CTTTCAAAGC
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 78 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (100 bp):
TTTAGTCCTCAAAAAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCA
GTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCC
Found at i:194974 original size:55 final size:55
Alignment explanation
Indices: 194890--195340 Score: 593
Period size: 55 Copynumber: 8.0 Consensus size: 55
194880 GACACCTTCT
*
194890 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
*
194945 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAAGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
* * *
195000 CCTTTCAAAGCCCACACAGGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAG-CAGGACA
195056 CCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCTAGTCCTCAAAGAGCAGGATGCTT
1 ------CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGA--C--
*
195120 TTT
55 --A
* * *
195123 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
*
195178 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCTTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACA
* * *
195233 CCTCTT-AAAGCCCATACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
* * *
195288 CCTTTCAAAGCCTACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
195341 TGCACTTTAT
Statistics
Matches: 350, Mismatches: 27, Indels: 38
0.84 0.07 0.09
Matches are distributed among these distances:
54 5 0.01
55 235 0.67
56 10 0.03
59 1 0.00
61 53 0.15
62 45 0.13
63 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
Found at i:195270 original size:233 final size:226
Alignment explanation
Indices: 194861--195343 Score: 702
Period size: 233 Copynumber: 2.1 Consensus size: 226
194851 CCTTTCGCCC
* ** *
194861 TTTAGTCCTCAAAAAGCAGGACACCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1 TTTAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
* *
194926 GTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
66 GTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
*
194991 AGCAAGACACCTTTCAAAGCCCACACAGGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAAGGACA
131 AGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAG-AAGG--A
*
195056 CCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TT
193 ----CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * *
195093 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 TT-TAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
195158 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCTTCAA
65 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAA
* * *
195222 AGAGCAGGACACCTCTT-AAAGCCCATACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGA
129 AGAGCAAGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGAAGGA
* *
195286 CGCCTTTCAAAGCCTACACGAGTTGGTGGCACTT
193 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
195320 TTTAGTCCTCAAAGAGCAGGATGC
1 TTTAGTCCTCAAAGAGCAGGATGC
195344 ACTTTATTTT
Statistics
Matches: 230, Mismatches: 17, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
226 50 0.22
227 4 0.02
230 1 0.00
232 9 0.04
233 164 0.71
234 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (226 bp):
TTTAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCA
GTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
AGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGAAGGACGC
CTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:196171 original size:19 final size:18
Alignment explanation
Indices: 196147--196209 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
196137 AAATAGAAAA
196147 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
196166 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
196179 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
196198 TGTATCGATACA
1 TGTATCGATACA
196210 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:196184 original size:13 final size:13
Alignment explanation
Indices: 196166--196190 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
196156 ACATAAGTGT
196166 TGTATCGATACAA
1 TGTATCGATACAA
196179 TGTATCGATACA
1 TGTATCGATACA
196191 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:196186 original size:32 final size:32
Alignment explanation
Indices: 196145--196217 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
196135 ACAAATAGAA
196145 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
196177 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
196209 AATGTATCG
1 AATGTATCG
196218 CTACGAAGCT
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:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:198727 original size:51 final size:51
Alignment explanation
Indices: 198627--199015 Score: 232
Period size: 52 Copynumber: 7.5 Consensus size: 51
198617 TCTCAATTGT
* * * * **
198627 TCATAATCAGGGATACTCCAACCTCGGTTTTATTTCCAAAATATTAATTTC
1 TCATAATCCGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTC
*
198678 TCATGATCCGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-
1 TCATAATCCGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTC
* * * * * * *
198728 TCCTTTAATCGGGGATACTCCAACTCTGATTTTATTTCTAAAAACACCAATTTT
1 T-C-ATAATCCGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTC
* * ** **** * * *
198782 TCACAAT-CGAGGATACTCCAACCTCATTATTTCATTGGGGATACTCCAA--CC
1 TCATAATCCG-GGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAATTTC
* * * * * ***
198833 CCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTC
1 TC-ATA-ATCC---GGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTC
*
198889 TCATAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAAATTTC
1 TCATAATCCGGGATACTCCAACCCCGGTTTTATTTTCAAAACACC-AATTTC
* * * * * *
198941 -CTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTT
1 TC-ATAATCCGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTC
*
198993 TCACAAT-CGAGGATACTCCAACC
1 TCATAATCCG-GGATACTCCAACC
199016 TCGTTATTTC
Statistics
Matches: 251, Mismatches: 67, Indels: 39
0.70 0.19 0.11
Matches are distributed among these distances:
50 1 0.00
51 80 0.32
52 100 0.40
53 35 0.14
54 13 0.05
55 5 0.02
56 16 0.06
57 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
TCATAATCCGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTC
Found at i:199000 original size:211 final size:211
Alignment explanation
Indices: 198636--199123 Score: 823
Period size: 211 Copynumber: 2.3 Consensus size: 211
198626 TTCATAATCA
* * * * *
198636 GGGATACTCCAACCTCGGTTTTATTTCCAAAATATTAATTTCTCATGATCCGGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTTCAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
* *
198701 CCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCCAACTCTGATTTTATTTC
66 CCGGTTTTATTTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTC
* * *
198766 TAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATTGGGGATACTCCAA
131 CAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATCGGGGAAACTCCAA
198831 CCCCGTTACCTCCGAG
196 CCCCGTTACCTCCGAG
*
198847 GGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTTCAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
198912 CCGGTTTTATTTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTC
66 CCGGTTTTATTTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTC
*
198977 CAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGAAACTCCAA
131 CAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATCGGGGAAACTCCAA
* *
199042 TCCCGTTACCTTCGAG
196 CCCCGTTACCTCCGAG
* * *
199058 GGGATACTCTAACCCTGGTTTTATTTTCAAAATATTGATTTCTCATAATTGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTTCAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
199123 C
66 C
199124 TGTTATTTCC
Statistics
Matches: 259, Mismatches: 18, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
211 259 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (211 bp):
GGGATACTCCAACCCCGGTTTTATTTTCAAAATATTGATTTCTCATAATCGGGGATACTCCAACC
CCGGTTTTATTTTCAAAACACCAAATTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTC
CAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATCGGGGAAACTCCAA
CCCCGTTACCTCCGAG
Found at i:199140 original size:107 final size:106
Alignment explanation
Indices: 198777--199153 Score: 327
Period size: 107 Copynumber: 3.6 Consensus size: 106
198767 AAAAACACCA
* * * * * * *
198777 ATTTTTCACAATCGAGGATACTCCAACCTCATTATTTCATTGGGGATACTCCAACCCCGTTACCT
1 ATTTCTCATAATCGGGGATACTCCAACCTCGTTATTTCATAGGGGAAACTCCAATCCCGTTACCT
* *
198842 CCGAGGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTG
66 TCGAGGGGATACTCCAA-CCCGGTTTTATTTTCAAAATATTG
* * ***** * * *
198884 ATTTCTCATAATCGGGGATACTCCAACCCCGGT-TTT-ATTTTCAAAACACCAAATTTCCTTTA-
1 ATTTCTCATAATCGGGGATACTCCAACCTCGTTATTTCATAGGGGAAACTCC-AA-TCCCGTTAC
* * * * ***
198946 -ATC--GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCA
64 CTTCGAGGGGATACTCCAAC-CCGGTTTTATTTTC-AAAATATTG
* * * *
198988 ATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGAAACTCCAATCCCGTTACCT
1 ATTTCTCATAATCGGGGATACTCCAACCTCGTTATTTCATAGGGGAAACTCCAATCCCGTTACCT
*
199053 TCGAGGGGATACTCTAACCCTGGTTTTATTTTCAAAATATTG
66 TCGAGGGGATACTCCAACCC-GGTTTTATTTTCAAAATATTG
* ** *
199095 ATTTCTCATAATTGGGGATACTCCAACC-CTGTTATTTCCGAGGGGATACTCCAATCCCG
1 ATTTCTCATAATCGGGGATACTCCAACCTC-GTTATTTCATAGGGGAAACTCCAATCCCG
199154 ATTTTATTTC
Statistics
Matches: 205, Mismatches: 53, Indels: 24
0.73 0.19 0.09
Matches are distributed among these distances:
102 1 0.00
103 24 0.12
104 39 0.19
105 14 0.07
106 16 0.08
107 88 0.43
108 23 0.11
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.32
Consensus pattern (106 bp):
ATTTCTCATAATCGGGGATACTCCAACCTCGTTATTTCATAGGGGAAACTCCAATCCCGTTACCT
TCGAGGGGATACTCCAACCCGGTTTTATTTTCAAAATATTG
Found at i:199159 original size:79 final size:75
Alignment explanation
Indices: 199028--199262 Score: 211
Period size: 79 Copynumber: 3.0 Consensus size: 75
199018 GTTATTTCAT
* * *
199028 CGGGGAAACTCCAATCCCGTTACCTTCGAGGGGATACTCTAACCCTGGTTTTATTTTCAAAATAT
1 CGGGGATACTCCAA-CCCGTTA-TTTCGAGGGGATACTCCAACCC--GTTTTATTTTCAAAATAT
*
199093 TGATTTCTCATAAT
62 TGATTTCTCATAAC
* **
199107 TGGGGATACTCCAACCCTGTTATTTCCGAGGGGATACTCCAATCCCGATTTTA-TTTCCTAATCA
1 CGGGGATACTCCAACCC-GTTATTT-CGAGGGGATACTCCAA-CCCG-TTTTATTTTCAAAAT-A
* * *
199171 TCGATTTTTCACAAC
61 TTGATTTCTCATAAC
* * *
199186 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGTTATTATCTCCAAAATAT
1 CGGGGATACTCCAA-CCCGTTA-TTTCGAGGGGATACTCCAA-CCCGTT-TTATTTTCAAAATAT
*
199251 TAAATTTCTCAT
62 T-GATTTCTCAT
199263 CGGGACATAT
Statistics
Matches: 125, Mismatches: 21, Indels: 19
0.76 0.13 0.12
Matches are distributed among these distances:
78 15 0.12
79 89 0.71
80 21 0.17
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (75 bp):
CGGGGATACTCCAACCCGTTATTTCGAGGGGATACTCCAACCCGTTTTATTTTCAAAATATTGAT
TTCTCATAAC
Found at i:202664 original size:51 final size:52
Alignment explanation
Indices: 202588--202787 Score: 268
Period size: 51 Copynumber: 3.9 Consensus size: 52
202578 TCATTGATGT
* *
202588 TTTTATTTCCAAAATACTGATTTTCCACCATCGA-GGATACTCCAACCCCGA
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGAGGGATACTCCAACCCCGA
*
202639 TTTTATTTCTAAAACA-TCGATTTTCCACCAT-GAGGGATACTCCAACCCTGA
1 TTTTATTTCTAAAACACT-GATTTTCCACCATCGAGGGATACTCCAACCCCGA
* * * *
202690 TTTTATTTCTAAAACATTGATTTTCCACCATC-AGGGATACTCTAACCTCGG
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGAGGGATACTCCAACCCCGA
* *
202741 TTTTATTTCTAAAACACTGATTTTTCACCATCGA--GATACTCTAACCC
1 TTTTATTTCTAAAACACTGATTTTCCACCATCGAGGGATACTCCAACCC
202788 TGTTATTTTC
Statistics
Matches: 134, Mismatches: 10, Indels: 11
0.86 0.06 0.07
Matches are distributed among these distances:
50 15 0.11
51 117 0.87
52 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (52 bp):
TTTTATTTCTAAAACACTGATTTTCCACCATCGAGGGATACTCCAACCCCGA
Found at i:202998 original size:79 final size:77
Alignment explanation
Indices: 202724--202984 Score: 291
Period size: 79 Copynumber: 3.3 Consensus size: 77
202714 CCACCATCAG
* * *
202724 GGATACTCTAACCTCGGTTTTATTTCTAAAACACTGATTTTTCACCATC-GAGATACTCTAACCC
1 GGATACTCCAA-CTCGATTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCTAACCC
*
202788 TGTTATTTTCGAAA
65 TGTTA-TTTCTAAA
* * *
202802 GGATACTCCAA-TCGATTTTATTTCTAAAACA-TCAATTTTCCACCATCGGGGATACTCTAA-GC
1 GGATACTCCAACTCGATTTTATTTCTAAAACACT-GATTTTTCACCATCGGGGATACTCTAACCC
* *
202864 TCGTGATTTTTAAA
65 T-GTTATTTCTAAA
*
202878 TGGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACT-TCAAC
1 -GGATACTCCAA-CTCGATTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCT-AAC
*
202942 CCTATTATTTCTAAGA
63 CCTGTTATTTCTAA-A
202958 GGATACTCCAAGCTC-AGTTTTATTTCT
1 GGATACTCCAA-CTCGA-TTTTATTTCT
202985 GCATCACCTA
Statistics
Matches: 154, Mismatches: 18, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
75 1 0.01
76 39 0.25
77 25 0.16
78 12 0.08
79 73 0.47
80 4 0.03
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (77 bp):
GGATACTCCAACTCGATTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACTCTAACCCT
GTTATTTCTAAA
Found at i:203079 original size:157 final size:154
Alignment explanation
Indices: 202722--203066 Score: 376
Period size: 157 Copynumber: 2.2 Consensus size: 154
202712 TTCCACCATC
**
202722 AGGGATACTCTAACCTCGGTTTTATTTCTAAAACACTGATTTTTCACCATCGAGATACTCTAACC
1 AGGGATACTCTAACC-CCATTTTATTTCTAAAACACTGATTTTTCACCATCGAGATACTCTAACC
* * *
202787 CTGTTATTTTCGAAAGGATACTCCAATCGATTTTATTTCTAAAACATCAATTTTCCACCATCGGG
65 CTATTATTTTCGAAAGGATACTCCAATCGATTTTATTTCTAAAACACCAATTTTCCACCATCGAG
* * * *
202852 GATACTCTAAGCTCGTGATTTTTAA
130 AATACTCCAACCTCGTGATTTTCAA
* * *
202877 ATGGATACTCCAACCCCGATTTTATTTCTAAAACACTGATTTTTCACCATCGGGGATACT-TCAA
1 AGGGATACTCTAACCCC-ATTTTATTTCTAAAACACTGATTTTTCACCATC-GAGATACTCT-AA
* ** * *
202941 CCCTATTA-TTTCTAAGAGGATACTCCAAGCTC-AGTTTTATTTCTGCATCACCTATTTT-CACC
63 CCCTATTATTTTCGAA-AGGATACTCCAA--TCGA-TTTTATTTCTAAAACACCAATTTTCCACC
*
203003 ATCGAGAATACTCCAACCTCGTTG-TTTTCGA
124 ATCGAGAATACTCCAACCTCG-TGATTTTCAA
* * *
203034 GGGGATACTTTAACCCCATTTTTATCTCTAAAA
1 AGGGATACTCTAACCCCA-TTTTATTTCTAAAA
203067 TATTGAATTT
Statistics
Matches: 158, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
154 1 0.01
155 52 0.33
156 29 0.18
157 53 0.34
158 23 0.15
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.36
Consensus pattern (154 bp):
AGGGATACTCTAACCCCATTTTATTTCTAAAACACTGATTTTTCACCATCGAGATACTCTAACCC
TATTATTTTCGAAAGGATACTCCAATCGATTTTATTTCTAAAACACCAATTTTCCACCATCGAGA
ATACTCCAACCTCGTGATTTTCAA
Found at i:205702 original size:15 final size:15
Alignment explanation
Indices: 205682--205711 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
205672 ACATGCTGCA
205682 ATGTATCGATACATG
1 ATGTATCGATACATG
205697 ATGTATCGATACATG
1 ATGTATCGATACATG
205712 TCATTGGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
ATGTATCGATACATG
Found at i:205786 original size:20 final size:20
Alignment explanation
Indices: 205741--205792 Score: 79
Period size: 19 Copynumber: 2.6 Consensus size: 20
205731 GTAGCCAAAC
**
205741 TTGTATCGATACACAAAGTA
1 TTGTATCGATACACAAAAAA
205761 -TGTATCGATACACAAAAAA
1 TTGTATCGATACACAAAAAA
205780 TTGTATCGATACA
1 TTGTATCGATACA
205793 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.29
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:207381 original size:30 final size:30
Alignment explanation
Indices: 207345--207444 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
207335 TATCTACAAC
* *
207345 AAAATAAAGTGCATAGATTAAAATTGCAAG
1 AAAATAAATTGCATAAATTAAAATTGCAAG
* * *
207375 AAAATAAATTGCATAAATTTAAATTGTACG
1 AAAATAAATTGCATAAATTAAAATTGCAAG
*
207405 AAAATTAATTGCATAAATTTAAAATTGCAAG
1 AAAATAAATTGCATAAA-TTAAAATTGCAAG
207436 -AAATAAATT
1 AAAATAAATT
207445 AACTACGTGA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 49 0.83
31 10 0.17
ACGTcount: A:0.53, C:0.06, G:0.11, T:0.30
Consensus pattern (30 bp):
AAAATAAATTGCATAAATTAAAATTGCAAG
Found at i:207430 original size:16 final size:15
Alignment explanation
Indices: 207379--207433 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
207369 TGCAAGAAAA
207379 TAAATTGCATAAATT
1 TAAATTGCATAAATT
* * *
207394 TAAATTGTACGAAAAT
1 TAAATTGCA-TAAATT
207410 T-AATTGCATAAATT
1 TAAATTGCATAAATT
207424 TAAAATTGCA
1 T-AAATTGCA
207434 AGAAATAAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
14 5 0.16
15 14 0.45
16 12 0.39
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.36
Consensus pattern (15 bp):
TAAATTGCATAAATT
Found at i:208892 original size:5 final size:5
Alignment explanation
Indices: 208884--208919 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
208874 AACTAAGTAG
208884 AATTA AATTA AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA AATTA AATTA A
208920 TTGAAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTA
Found at i:209844 original size:20 final size:20
Alignment explanation
Indices: 209821--209858 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
209811 AAAGTATCCA
209821 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
209841 AATGTATCGATACATTTT
1 AATGTATCGATACATTTT
209859 GTCTTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:209900 original size:20 final size:20
Alignment explanation
Indices: 209875--209926 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
209865 TTACCCAGAC
209875 GTATCGATACATTTTTCAAT
1 GTATCGATACATTTTTCAAT
*
209895 GTATCGATACACTTTTCAAT
1 GTATCGATACATTTTTCAAT
209915 GTATCGATACAT
1 GTATCGATACAT
209927 CTAGTTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
GTATCGATACATTTTTCAAT
Found at i:212230 original size:97 final size:97
Alignment explanation
Indices: 212061--212301 Score: 342
Period size: 97 Copynumber: 2.5 Consensus size: 97
212051 AATTTTATTT
* * * * *
212061 ATCGGGGATACTCCAATCCTATTCTTCCGAA-GGGATACTCCAACCCCGCTTTTAAACACATCAA
1 ATCGGGGACACTCCAACCCCATTCAT-CTAAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
*
212125 AGTTTAAATCTTATTCTCACTTAAACTGTTATC
65 AGTTTAAATCTTATTCTCACTTAAACTGTCATC
* * *
212158 ATTGGGGACACTCCAACCCCATTTC-TCTGAGGGGATACTCCAACCCCGCTTTTAAACGCATCAA
1 ATCGGGGACACTCCAACCCCA-TTCATCTAAGGGGATACTCCAACCCCGCTTTTAAACACATCAA
* * *
212222 AGTTTAAATTTTATTCTCGCTTAAATTGTCATC
65 AGTTTAAATCTTATTCTCACTTAAACTGTCATC
212255 ATCGGGGACACTCCAACCCCATTCATCTAAGGGGATACTCCAACCCC
1 ATCGGGGACACTCCAACCCCATTCATCTAAGGGGATACTCCAACCCC
212302 TTTTTTTTAA
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
96 5 0.04
97 120 0.94
98 3 0.02
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (97 bp):
ATCGGGGACACTCCAACCCCATTCATCTAAGGGGATACTCCAACCCCGCTTTTAAACACATCAAA
GTTTAAATCTTATTCTCACTTAAACTGTCATC
Found at i:214675 original size:17 final size:16
Alignment explanation
Indices: 214642--214675 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
214632 CTTACAAAGG
*
214642 AATTATAAGGACTTAT
1 AATTATAAGAACTTAT
214658 AATTATAAGAATCTTAT
1 AATTATAAGAA-CTTAT
214675 A
1 A
214676 CATCAAAGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (16 bp):
AATTATAAGAACTTAT
Found at i:218210 original size:28 final size:28
Alignment explanation
Indices: 218149--218230 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
218139 TTTTAGAGAT
* ***
218149 AATAACGGGGTTGGAGTGTCCCCTCGGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
**
218177 GGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
218205 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
218231 TGTGAAAAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.24, C:0.18, G:0.34, T:0.23
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:218326 original size:52 final size:53
Alignment explanation
Indices: 218213--218389 Score: 173
Period size: 52 Copynumber: 3.4 Consensus size: 53
218203 GAAATAACGA
* ** * * *
218213 GGTTGGAGTATCCTCGATT-GTGAAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTG-TTTTGAAAATAAAACCGG
* * * *
218266 AGCTGGAGTATTCCTGATTAAAGG-AAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
** * * *
218318 GGTTGGAGTATCCCCGATT-GTGGAAAAATTAGTGTTTT-AGCAATAAAACTGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGA-AAATAAAACCGG
218370 GGTTGGAGTATCCCCGATTA
1 GGTTGGAGTATCCCCGATTA
218390 TGAGAAATCA
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
51 3 0.03
52 73 0.72
53 24 0.24
54 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (53 bp):
GGTTGGAGTATCCCCGATTAAAGGAAAAATTGGTGTTTTGAAAATAAAACCGG
Found at i:218428 original size:51 final size:52
Alignment explanation
Indices: 218307--218435 Score: 163
Period size: 51 Copynumber: 2.5 Consensus size: 52
218297 GTGTTTTGAA
* * * * *
218307 AATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGC
1 AATAAAACAGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGC
* *
218359 AATAAAACTGGGGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTAAG-
1 AATAAAACAGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTT-AGC
*
218410 AATAAAGCAGGGGTTGGAGTATCCCC
1 AATAAAACAGGGGTTGGAGTATCCCC
218436 TCAGAAATAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
51 36 0.53
52 32 0.47
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (52 bp):
AATAAAACAGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAGC
Found at i:218481 original size:27 final size:28
Alignment explanation
Indices: 218419--218493 Score: 109
Period size: 27 Copynumber: 2.7 Consensus size: 28
218409 GAATAAAGCA
*
218419 GGGGTTGGAGTATCCCCTCA-GAAATAAC
1 GGGGTTGGAGTATCCCC-GATGAAATAAC
*
218447 GGGGTTGGAGTATCCCCGATG-ATTAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
218474 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
218494 TGTGAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 26 0.59
28 18 0.41
ACGTcount: A:0.23, C:0.20, G:0.33, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:220993 original size:13 final size:13
Alignment explanation
Indices: 220975--221000 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
220965 ACAAAGATCC
220975 ATGTATCGATACA
1 ATGTATCGATACA
220988 ATGTATCGATACA
1 ATGTATCGATACA
221001 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:220996 original size:33 final size:33
Alignment explanation
Indices: 220954--221020 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
220944 AAAATTTCCA
***
220954 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
220987 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
221020 A
1 A
221021 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:221064 original size:19 final size:18
Alignment explanation
Indices: 221040--221107 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
221030 CAGTAGCTAA
221040 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
221059 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
221074 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
221091 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
221108 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:221080 original size:13 final size:13
Alignment explanation
Indices: 221062--221086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
221052 ACAATACTTA
221062 TGTATCGATACAT
1 TGTATCGATACAT
221075 TGTATCGATACA
1 TGTATCGATACA
221087 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:221084 original size:32 final size:32
Alignment explanation
Indices: 221043--221105 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
221033 TAGCTAATTA
*
221043 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
221075 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
221106 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:221169 original size:21 final size:21
Alignment explanation
Indices: 221143--221219 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
221133 GTTGGGACCC
*
221143 TGTATCGATACATTTGTA-AAA
1 TGTATCGATACA-TTCTACAAA
*
221164 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
221185 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
221206 TGTATCGATACATT
1 TGTATCGATACATT
221220 TGGATAAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
20 3 0.06
21 49 0.94
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:221979 original size:55 final size:54
Alignment explanation
Indices: 221895--222045 Score: 196
Period size: 55 Copynumber: 2.7 Consensus size: 54
221885 AATAAAGTGT
* * * *
221895 ATCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGC
1 ATCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGTGGGCTTT-AAGAGGC
* *
221950 ATCCTGCTCTTTGAGGACTGAATGGTGCCACCAACTTGTGTGGGCTTTAAGAGGT
1 ATCCTGCTCTTTGAGGACTGAA-AGTGCCACCAACTTGTGTGGGCTTTAAGAGGC
*
222005 GTCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGT
1 ATCCTGCTCTTTGAGGACT-GAAAGTGCCACCAACTTGTGT
222046 TGTCCTGCTC
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
54 4 0.05
55 78 0.92
56 3 0.04
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (54 bp):
ATCCTGCTCTTTGAGGACTGAAAGTGCCACCAACTTGTGTGGGCTTTAAGAGGC
Found at i:224420 original size:8 final size:8
Alignment explanation
Indices: 224407--224450 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
224397 TCACTCTATT
224407 TTTTTCTC
1 TTTTTCTC
224415 TTTTTCT-
1 TTTTTCTC
*
224422 TTTTTTTC
1 TTTTTCTC
* *
224430 TTTCTGTC
1 TTTTTCTC
224438 TTTTTCTC
1 TTTTTCTC
224446 TTTTT
1 TTTTT
224451 TTTTTCAGCT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 6 0.20
8 24 0.80
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTTCTC
Found at i:224420 original size:31 final size:31
Alignment explanation
Indices: 224385--224450 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
224375 ACTAGCTAAG
*
224385 TTTTCTAATTTTTCACTCTATTTTTTTCTCT
1 TTTTCTAATTTTTCACTCTATCTTTTTCTCT
** ** *
224416 TTTTCTTTTTTTTCTTTCTGTCTTTTTCTCT
1 TTTTCTAATTTTTCACTCTATCTTTTTCTCT
224447 TTTT
1 TTTT
224451 TTTTTCAGCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.74
Consensus pattern (31 bp):
TTTTCTAATTTTTCACTCTATCTTTTTCTCT
Found at i:224439 original size:17 final size:16
Alignment explanation
Indices: 224405--224455 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
224395 TTTCACTCTA
224405 TTTTTTTCTCTTTTTC
1 TTTTTTTCTCTTTTTC
* *
224421 TTTTTTT-TCTTTCTG
1 TTTTTTTCTCTTTTTC
*
224436 TCTTTTTCTCTTTTT-
1 TTTTTTTCTCTTTTTC
224451 TTTTT
1 TTTTT
224456 CAGCTGAACT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 16 0.55
16 13 0.45
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (16 bp):
TTTTTTTCTCTTTTTC
Found at i:224439 original size:23 final size:23
Alignment explanation
Indices: 224405--224456 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
224395 TTTCACTCTA
224405 TTTTTTTC--TCTTTTTCT-TTT
1 TTTTTTTCTGTCTTTTTCTCTTT
224425 TTTTCTTTCTGTCTTTTTCTCTTT
1 TTTT-TTTCTGTCTTTTTCTCTTT
224449 TTTTTTTC
1 TTTTTTTC
224457 AGCTGAACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.14
21 4 0.14
23 13 0.46
24 7 0.25
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTTTTCTGTCTTTTTCTCTTT
Found at i:225082 original size:165 final size:165
Alignment explanation
Indices: 224775--225082 Score: 350
Period size: 165 Copynumber: 1.9 Consensus size: 165
224765 AATAAAATTC
* * *
224775 AAAATTTATGAAATAAATTGAAATTTTCAAAACTGATTTAATGGGAGTTAAATAACAATATTATA
1 AAAATTCATGAAATAAATTGAAATTTTCAAAACTGATTTAATAGGAGTTAAATAAAAATATTATA
* ** * * *
224840 TGAACTTCAAAAATTTTAAACCAAGAAAAATCCCCCCGAAAACATTTATAAAGTAAAAAACTCAA
66 TAAACTTCAAAAATTAAAAACCAAGAAAAATCCCCCCGAAAACATTAACAAAGCAAAAAACTCAA
224905 TTTTTAAAAAATAGGTGGATTTCAAAGAAAAATAA
131 TTTTTAAAAAATAGGTGGATTTCAAAGAAAAATAA
* ** * * *
224940 AAAATTCATGAAAATAAA-TGAATTTTTTGAAACTGATTTAGTATGATTTAAATAAAAATATT-T
1 AAAATTCATG-AAATAAATTGAAATTTTCAAAACTGATTTAATAGGAGTTAAATAAAAATATTAT
* * * * * * * * *
225003 GATAAATTTTAAAAATTAAAAACTAAGAAAAATCTCCTCGAAAATATTAACAGAGCAAAAAATTT
65 -ATAAACTTCAAAAATTAAAAACCAAGAAAAATCCCCCCGAAAACATTAACAAAGCAAAAAACTC
* *
225068 TATTTTTTAAAAATA
129 AATTTTTAAAAAATA
225083 AAGGAGTTTC
Statistics
Matches: 115, Mismatches: 26, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
164 1 0.01
165 107 0.93
166 7 0.06
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (165 bp):
AAAATTCATGAAATAAATTGAAATTTTCAAAACTGATTTAATAGGAGTTAAATAAAAATATTATA
TAAACTTCAAAAATTAAAAACCAAGAAAAATCCCCCCGAAAACATTAACAAAGCAAAAAACTCAA
TTTTTAAAAAATAGGTGGATTTCAAAGAAAAATAA
Found at i:226311 original size:85 final size:84
Alignment explanation
Indices: 226137--226576 Score: 302
Period size: 85 Copynumber: 5.2 Consensus size: 84
226127 GGTTGACCAA
* * * * * * * * * *
226137 AGACTAAGCTGACAGGTTACCAAAAGGGTAAAGGGTTTA-CTAGGGACTAAGTCAATAGGTAAAC
1 AGACTAAGCTGACAGGTCACCATAGGGGTAAGGGGTTTATCGA-GGACTGAGCCGACAGGTAAAT
* * **
226201 AAGG-GATGAATGGTTAACCAA
65 AAGGAGAT-AAAGGTTGA-CGG
* * * * *
226222 AGACTAAGCCGATAGGTCA-C-TGAGGGGATAAGGGGTTTATCGAGGACTAAGTCGATAGGTAAA
1 AGACTAAGCTGACAGGTCACCAT-AGGGG-TAAGGGGTTTATCGAGGACTGAGCCGACAGGTAAA
*
226285 TAATGAGATAAAGGTTGATCGG
64 TAAGGAGATAAAGGTTGA-CGG
* * * * *
226307 AGACTGAGCTGACAGGTCACCAATAGGTGTAAGGGTTTTA-CTGGGGACTGGGCCGACAGGTAAA
1 AGACTAAGCTGACAGGTCACC-ATAGGGGTAAGGGGTTTATC-GAGGACTGAGCCGACAGGTAAA
*
226371 TAAGGAGATAAAGATTGACAGG
64 TAAGGAGATAAAGGTTGAC-GG
* * * *
226393 AGATTAAGCTGACAGTTCACCATAGGGGTAA-GGGTTATATCGAGGATTGAGCCGACAGGTAAAC
1 AGACTAAGCTGACAGGTCACCATAGGGGTAAGGGGTT-TATCGAGGACTGAGCCGACAGGTAAAT
226457 AAGGAGATAAAGGTTGACCGG
65 AAGGAGATAAAGGTTGA-CGG
* * ** * ** *
226478 AGA-TCGAGCTAACAGGTCACCATAGGGGTAAAAGGTTTA-CTAGGGACTGAGCTAATAGGTAAA
1 AGACT-AAGCTGACAGGTCACCATAGGGGTAAGGGGTTTATCGA-GGACTGAGCCGACAGGTAAA
* * * *
226541 CATGGAGATGAAGGTTGATCAG
64 TAAGGAGATAAAGGTTGA-CGG
* *
226563 AAACTGAGCTGACA
1 AGACTAAGCTGACA
226577 AGGGAAAATT
Statistics
Matches: 287, Mismatches: 52, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
84 12 0.04
85 194 0.68
86 76 0.26
87 4 0.01
88 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.20
Consensus pattern (84 bp):
AGACTAAGCTGACAGGTCACCATAGGGGTAAGGGGTTTATCGAGGACTGAGCCGACAGGTAAATA
AGGAGATAAAGGTTGACGG
Found at i:227674 original size:85 final size:85
Alignment explanation
Indices: 227585--228104 Score: 419
Period size: 85 Copynumber: 6.1 Consensus size: 85
227575 TGAGGGGATA
* * **
227585 AAGGG-TTTATCGGGGACTGAGTCGGTAGGTAAATAATGAGACAAAGGTTGAATGAAGACTGAGC
1 AAGGGTTTTATCGGGGACTGAGTCGATAGGTAAACAATGAGATGAAGGTTGAATGAAGACTGAGC
* *
227649 TAACAGGTCACCAATTGGTGT
66 TAACAGGTCACC-ATAGGGGT
* * * * * * * * *
227670 AAGGGATTTA-CAGGGGACTGGGTCGATAGGTAAATAAGGAGATAAAGATTG-ATAGGAGATTAA
1 AAGGGTTTTATC-GGGGACTGAGTCGATAGGTAAACAATGAGATGAAGGTTGAAT-GAAGACTGA
* * *
227733 GCTGACAGTTCATCATAGGGGT
64 GCTAACAGGTCACCATAGGGGT
* * * * * * * *
227755 CAGGGTTTTATCGGGGACTGAGTCGACAGATAAACAAGGAGATGAAGGTTGACTAAAAATTGAGC
1 AAGGGTTTTATCGGGGACTGAGTCGATAGGTAAACAATGAGATGAAGGTTGAATGAAGACTGAGC
227820 TAACAGGTCACCATAGGGGT
66 TAACAGGTCACCATAGGGGT
* * * ***
227840 AAAGGG-TTTACCGGGGACT-AGGCTAGTAGGTAAAC-ATGGAGATGAAGGTTGACCAAAGACTG
1 -AAGGGTTTTATCGGGGACTGAGTCGA-TAGGTAAACAAT-GAGATGAAGGTTGAATGAAGACTG
*
227902 AGCTGACAGGTCACCATAGGGGT
63 AGCTAACAGGTCACCATAGGGGT
* **
227925 AAGGGTTTTACCAAGGACTGAG-CTGATAGGTAAACAATGAGATGAAGGTTGACCA-G-AGACTG
1 AAGGGTTTTATCGGGGACTGAGTC-GATAGGTAAACAATGAGATGAAGGTTGA--ATGAAGACTG
* ** **
227987 AGCTAACAAGTCATTATATAGGT
63 AGCTAACAGGTCACCATAGGGGT
* * * * * *
228010 AAGGGTTTTATCAGGGAATGAGCCGATAGGTAAACAATGAGATGAAGGCTGACTGAAAACTGAGC
1 AAGGGTTTTATCGGGGACTGAGTCGATAGGTAAACAATGAGATGAAGGTTGAATGAAGACTGAGC
* * * *
228075 TGATAAGTCACTATAGGGGT
66 TAACAGGTCACCATAGGGGT
* *
228095 ATGGGATTTA
1 AAGGGTTTTA
228105 CCAAAGACTA
Statistics
Matches: 354, Mismatches: 64, Indels: 34
0.78 0.14 0.08
Matches are distributed among these distances:
84 11 0.03
85 276 0.78
86 67 0.19
ACGTcount: A:0.34, C:0.12, G:0.31, T:0.23
Consensus pattern (85 bp):
AAGGGTTTTATCGGGGACTGAGTCGATAGGTAAACAATGAGATGAAGGTTGAATGAAGACTGAGC
TAACAGGTCACCATAGGGGT
Found at i:227775 original size:171 final size:170
Alignment explanation
Indices: 227495--227999 Score: 440
Period size: 170 Copynumber: 3.0 Consensus size: 170
227485 GTTAACAAAA
* * * * * * *
227495 GGGTAAAGGGTTCACTA-GGGACTAAGCTGA-TAGGTAAACAAGG-GATGAATGGTTAACCGAGG
1 GGGTAAAGGGTTTAC-AGGGGACTAGGC-GAGTAGGTAAACAAGGAGAT-AAAGATTGACCAAAG
* * * * *
227557 ACTAAGCCGATAGGTCA--TTGAGGGGATAAAGGG-TTTATCGGGGACTGAGTCGGTAGGTAAAT
63 ACTAAGCTGACAGGTCACCAT-AGGGG-T-AAGGGTTTTATCGGGGACTGAGTCGATAGGTAAAC
** *
227619 AATGAGACAAAGGTTGAATGAAGACTGAGCTAACAGGTCACCAATTG
125 AATGAGATGAAGGTTGAATGAAGACTGAGCTAACAGGTCACC-ATAG
* * * * *
227666 GTGT-AAGGGATTTACAGGGGACTGGGTCGA-TAGGTAAATAAGGAGATAAAGATTGA-TAGGAG
1 GGGTAAAGGG-TTTACAGGGGACTAGG-CGAGTAGGTAAACAAGGAGATAAAGATTGACCA-AAG
* * * * * * *
227728 ATTAAGCTGACAGTTCATCATAGGGGTCAGGGTTTTATCGGGGACTGAGTCGACAGATAAACAAG
63 ACTAAGCTGACAGGTCACCATAGGGGTAAGGGTTTTATCGGGGACTGAGTCGATAGGTAAACAAT
* * * *
227793 GAGATGAAGGTTGACTAAAAATTGAGCTAACAGGTCACCATAG
128 GAGATGAAGGTTGAATGAAGACTGAGCTAACAGGTCACCATAG
* * * * *
227836 GGGTAAAGGGTTTACCGGGGACTAGGCTAGTAGGTAAACATGGAGATGAAGGTTGACCAAAGACT
1 GGGTAAAGGGTTTACAGGGGACTAGGCGAGTAGGTAAACAAGGAGATAAAGATTGACCAAAGACT
* * **
227901 GAGCTGACAGGTCACCATAGGGGTAAGGGTTTTACCAAGGACTGAG-CTGATAGGTAAACAATGA
66 AAGCTGACAGGTCACCATAGGGGTAAGGGTTTTATCGGGGACTGAGTC-GATAGGTAAACAATGA
*
227965 GATGAAGGTTGACCA-G-AGACTGAGCTAACAAGTCA
130 GATGAAGGTTGA--ATGAAGACTGAGCTAACAGGTCA
228000 TTATATAGGT
Statistics
Matches: 264, Mismatches: 56, Indels: 29
0.76 0.16 0.08
Matches are distributed among these distances:
169 3 0.01
170 136 0.52
171 115 0.44
172 9 0.03
173 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (170 bp):
GGGTAAAGGGTTTACAGGGGACTAGGCGAGTAGGTAAACAAGGAGATAAAGATTGACCAAAGACT
AAGCTGACAGGTCACCATAGGGGTAAGGGTTTTATCGGGGACTGAGTCGATAGGTAAACAATGAG
ATGAAGGTTGAATGAAGACTGAGCTAACAGGTCACCATAG
Found at i:228151 original size:85 final size:85
Alignment explanation
Indices: 227785--228148 Score: 356
Period size: 85 Copynumber: 4.3 Consensus size: 85
227775 AGTCGACAGA
* * *
227785 TAAACAAGGAGATGAAGGTTGACTAAAAATTGAGCTAACAGGTCACCATAGGGGTAAAGGG-TTT
1 TAAACAAGGAGATGAAGGTTGACTCAAAACTGAGCTAACAAGTCACCATAGGGGT-AAGGGTTTT
** * * *
227849 ACCGGGGACTAGGCTAGTAGG
65 ACCAAGGACTAAGCCAATAGG
* * *
227870 TAAACATGGAGATGAAGGTTGAC-CAAAGACTGAGCTGACAGGTCACCATAGGGGTAAGGGTTTT
1 TAAACAAGGAGATGAAGGTTGACTCAAA-ACTGAGCTAACAAGTCACCATAGGGGTAAGGGTTTT
* **
227934 ACCAAGGACTGAGCTGATAGG
65 ACCAAGGACTAAGCCAATAGG
* * ** **
227955 TAAACAATGAGATGAAGGTTGAC-CAGAGACTGAGCTAACAAGTCATTATATAGGTAAGGGTTTT
1 TAAACAAGGAGATGAAGGTTGACTCA-AAACTGAGCTAACAAGTCACCATAGGGGTAAGGGTTTT
* * * * *
228019 ATCAGGGAATGAGCCGATAGG
65 ACCAAGGACTAAGCCAATAGG
* * * * * * * *
228040 TAAACAATGAGATGAAGGCTGACTGAAAACTGAGCTGATAAGTCACTATAGGGGTATGGGATTTA
1 TAAACAAGGAGATGAAGGTTGACTCAAAACTGAGCTAACAAGTCACCATAGGGGTAAGGGTTTTA
* *
228105 CCAAAGACTAAGCCAACAGG
66 CCAAGGACTAAGCCAATAGG
*
228125 TAAACAAGGAGATAAAGGTTGACT
1 TAAACAAGGAGATGAAGGTTGACT
228149 GAAGGAGATG
Statistics
Matches: 232, Mismatches: 43, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
84 8 0.03
85 222 0.96
86 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (85 bp):
TAAACAAGGAGATGAAGGTTGACTCAAAACTGAGCTAACAAGTCACCATAGGGGTAAGGGTTTTA
CCAAGGACTAAGCCAATAGG
Found at i:228380 original size:273 final size:275
Alignment explanation
Indices: 227877--228380 Score: 597
Period size: 273 Copynumber: 1.8 Consensus size: 275
227867 AGGTAAACAT
*
227877 GGAGATGAAGGTTGACCAAAGACTGAGCTGACAGGTCACCATAGGGGTAAGGGTTTTACCAAGGA
1 GGAGATGAAGGTTGACCAAAGACTAAGCTGACAGGTCACCATAGGGGTAAGGGTTTTACCAAGGA
** * * * **
227942 CTGAGCTGATAGGTAAACAATGAGATGAAGGTTGACCAGAGACTGAGCTAACAAGTCATTATATA
66 CTGAGCCAACAAGTAAACAATAAGATGAAGGTTGACCAGAGACTGAGCTAACAAGTCAACATATA
* * * * *
228007 GGTAAGGGTTTTATCAGGGAATGAGCCGATAGGTAAACAATGAGATGAAGGCTGACTGAAAACTG
131 GGTAAGGGATTTACCAGCGAATGAGCCGACAGGTAAACAAGGAGATGAAGGCTGACTGAAAACTG
* * *
228072 AGCTGATAAGTCACTATAGGGGTATGGGATTTACCAAAGACTAAGCCAACAGGTAAACAAGGAGA
196 AGCTGATAAGTCACCATAAGGGTAAGGGATTTACCAAAGACTAAGCCAACAGGTAAACAAGGAGA
228137 TAAAGGTTGACTGAA
261 TAAAGGTTGACTGAA
** * * * * **
228152 GGAGATGAAGGTTGATTAGAGACTAAGTTGACAGGTCACCATGGGGGTATGGG-TTTA-CTGGGA
1 GGAGATGAAGGTTGACCAAAGACTAAGCTGACAGGTCACCATAGGGGTAAGGGTTTTACCAAGGA
* * * * * *
228215 TTGAGCCAACAAGTAAATAATAAGATGAAGGTTGACTC-GAGATTGAGCTGATATGTCAACATAG
66 CTGAGCCAACAAGTAAACAATAAGATGAAGGTTGAC-CAGAGACTGAGCTAACAAGTCAACATA-
* ** * **
228279 T-GGTAAGGGATTTACCAGCGACTGAGTTGACAGGTAAACAAGGAGATGAAGGTTGACT-AGAGG
129 TAGGTAAGGGATTTACCAGCGAATGAGCCGACAGGTAAACAAGGAGATGAAGGCTGACTGA-AAA
*
228342 CTGAGCTGATAGGTCACCATAAGGGTAAGAGG-TTTACCA
193 CTGAGCTGATAAGTCACCATAAGGGTAAG-GGATTTACCA
228381 GGGATTGAGC
Statistics
Matches: 188, Mismatches: 37, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
272 1 0.01
273 133 0.71
274 8 0.04
275 46 0.24
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (275 bp):
GGAGATGAAGGTTGACCAAAGACTAAGCTGACAGGTCACCATAGGGGTAAGGGTTTTACCAAGGA
CTGAGCCAACAAGTAAACAATAAGATGAAGGTTGACCAGAGACTGAGCTAACAAGTCAACATATA
GGTAAGGGATTTACCAGCGAATGAGCCGACAGGTAAACAAGGAGATGAAGGCTGACTGAAAACTG
AGCTGATAAGTCACCATAAGGGTAAGGGATTTACCAAAGACTAAGCCAACAGGTAAACAAGGAGA
TAAAGGTTGACTGAA
Found at i:228400 original size:85 final size:83
Alignment explanation
Indices: 228150--228410 Score: 256
Period size: 85 Copynumber: 3.1 Consensus size: 83
228140 AGGTTGACTG
* * * * * * *
228150 AAGGAGATGAAGGTTGATTAGAGACTAAGTTGACAGGTCACCATGGGGGTATGGGTTTA-CTGGG
1 AAGGAGATGAAGGTTGACTAGAGACTGAGCTGATAGGTCACCAT-AGGGTAAGGGTTTACCAGGG
* *
228214 ATTGAGCCAACAAGTAAAT
65 ATTGAGCCGACAGGTAAAT
** * * * * *
228233 AATAAGATGAAGGTTGACTCGAGATTGAGCTGATATGTCAACATAGTGGTAAGGGATTTACCAGC
1 AAGGAGATGAAGGTTGACTAGAGACTGAGCTGATAGGTCACCATAG-GGTAAGGG-TTTACCAGG
* ** *
228298 GACTGAGTTGACAGGTAAAC
64 GATTGAGCCGACAGGTAAAT
*
228318 AAGGAGATGAAGGTTGACTAGAGGCTGAGCTGATAGGTCACCATAAGGGTAAGAGGTTTACCAGG
1 AAGGAGATGAAGGTTGACTAGAGACTGAGCTGATAGGTCACCAT-AGGGTAAG-GGTTTACCAGG
**
228383 GATTGAGCCGATGGGTAAAT
64 GATTGAGCCGACAGGTAAAT
228403 AAGG-GATG
1 AAGGAGATG
228411 GAAATCGATA
Statistics
Matches: 139, Mismatches: 34, Indels: 9
0.76 0.19 0.05
Matches are distributed among these distances:
82 1 0.01
83 41 0.29
84 8 0.06
85 85 0.61
86 4 0.03
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.23
Consensus pattern (83 bp):
AAGGAGATGAAGGTTGACTAGAGACTGAGCTGATAGGTCACCATAGGGTAAGGGTTTACCAGGGA
TTGAGCCGACAGGTAAAT
Found at i:228537 original size:46 final size:47
Alignment explanation
Indices: 228485--228634 Score: 153
Period size: 47 Copynumber: 3.2 Consensus size: 47
228475 TGATGATGAA
* * *
228485 AAGAGTTTGATTAAG-ACTAACACCAATATAGTTAAATAAGGGTGAG
1 AAGAGTTTGATTAGGCCCTAACACCAATATAGTTAAACAAGGGTGAG
* * *
228531 AAGAGTTTGACTT-GGCCCTAACACCAATGTAGTCAAACGAGGGTG-G
1 AAGAGTTTGA-TTAGGCCCTAACACCAATATAGTTAAACAAGGGTGAG
** * * * *
228577 AAAGAGTTTGACCAGGTCCTACCACCAATATAGTTAAACAAGAGTGAA
1 -AAGAGTTTGATTAGGCCCTAACACCAATATAGTTAAACAAGGGTGAG
228625 AAGAGTTTGA
1 AAGAGTTTGA
228635 CCAGGTCCTA
Statistics
Matches: 84, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
46 12 0.14
47 72 0.86
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (47 bp):
AAGAGTTTGATTAGGCCCTAACACCAATATAGTTAAACAAGGGTGAG
Found at i:228557 original size:47 final size:47
Alignment explanation
Indices: 228501--228646 Score: 177
Period size: 47 Copynumber: 3.1 Consensus size: 47
228491 TTGATTAAGA
* **
228501 CTAACACCAATATAGTTAAATAAGGGTGAGAAGAGTTTGACTTGGCC
1 CTAACACCAATATAGTTAAACAAGGGTGAGAAGAGTTTGACCAGGCC
* * * *
228548 CTAACACCAATGTAGTCAAACGAGGGTG-GAAAGAGTTTGACCAGGTC
1 CTAACACCAATATAGTTAAACAAGGGTGAG-AAGAGTTTGACCAGGCC
* * * *
228595 CTACCACCAATATAGTTAAACAAGAGTGAAAAGAGTTTGACCAGGTC
1 CTAACACCAATATAGTTAAACAAGGGTGAGAAGAGTTTGACCAGGCC
228642 CTAAC
1 CTAAC
228647 GATAATTCAG
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
46 1 0.01
47 82 0.99
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (47 bp):
CTAACACCAATATAGTTAAACAAGGGTGAGAAGAGTTTGACCAGGCC
Found at i:228614 original size:94 final size:94
Alignment explanation
Indices: 228501--228716 Score: 256
Period size: 94 Copynumber: 2.3 Consensus size: 94
228491 TTGATTAAGA
* * * **
228501 CTAACACCAATATAGTTAAATAAGGGTGAGAAGAGTTTGACTTGGCCCTAAC-ACCAATGT-AGT
1 CTAACACCAATATAGTTAAACAAGAGTGAAAAGAGTTTGACCAGGCCCTAACGA-CAAT-TCAGT
* * * *
228564 CAAACGAGGGTGGAAAGAGTTTGACCAGGTC
64 CAAACGACGATGAAAAAAGTTTGACCAGGTC
* * *
228595 CTACCACCAATATAGTTAAACAAGAGTGAAAAGAGTTTGACCAGGTCCTAACGATAATTCAGTCA
1 CTAACACCAATATAGTTAAACAAGAGTGAAAAGAGTTTGACCAGGCCCTAACGACAATTCAGTCA
228660 AACGACGATGAAAAAAGTTTGACCAGGTC
66 AACGACGATGAAAAAAGTTTGACCAGGTC
* * * *
228689 CTAACGCCAATACAGTCAAACGAGAGTG
1 CTAACACCAATATAGTTAAACAAGAGTG
228717 GAAATAATTT
Statistics
Matches: 103, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
93 1 0.01
94 101 0.98
95 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (94 bp):
CTAACACCAATATAGTTAAACAAGAGTGAAAAGAGTTTGACCAGGCCCTAACGACAATTCAGTCA
AACGACGATGAAAAAAGTTTGACCAGGTC
Found at i:228776 original size:141 final size:141
Alignment explanation
Indices: 228547--228851 Score: 321
Period size: 141 Copynumber: 2.2 Consensus size: 141
228537 TTGACTTGGC
* ** * * * * *
228547 CCTAACACCAATGTAGTCAAACGAGGGTGGAAAGAGTTTGACCAGGTCCTACCACCAATATAGTT
1 CCTAACGCCAATACAGTCAAACGAGAGTGGAAAGAATTTAACCAGATCCTAACACCAATATAGTT
* * * *
228612 AAACAAGAGTGAAAAGAGTTTGACCAGGTCCTAACGATAAT-TCAGTCAAACGACG-ATGAAAAA
66 AAACAAGAGTGAAAAGAGCTTGACCAGGTCATAACGACAATAT-AGTCAAAC-AAGAATGAAAAA
*
228675 AGTTTGACCAGGT
129 AGTTTGACCAGAT
* * *
228688 CCTAACGCCAATACAGTCAAACGAGAGTGGAAATAATTTAACTAGATCCTAACGCCAATATAG-T
1 CCTAACGCCAATACAGTCAAACGAGAGTGGAAAGAATTTAACCAGATCCTAACACCAATATAGTT
* * * * * *
228752 CAACAAGAGT-AAATTTGAGCTTGACCAGGTCATAACGCCAATATGGTCAAACAAGAATTAAAAG
66 AAACAAGAGTGAAA--AGAGCTTGACCAGGTCATAACGACAATATAGTCAAACAAGAATGAAAAA
228816 AGTTTGACCAGAT
129 AGTTTGACCAGAT
* * *
228829 CCTAATGCTAATACAATCAAACG
1 CCTAACGCCAATACAGTCAAACG
228852 GGGGTAGAAA
Statistics
Matches: 135, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
139 3 0.02
140 12 0.09
141 119 0.88
142 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (141 bp):
CCTAACGCCAATACAGTCAAACGAGAGTGGAAAGAATTTAACCAGATCCTAACACCAATATAGTT
AAACAAGAGTGAAAAGAGCTTGACCAGGTCATAACGACAATATAGTCAAACAAGAATGAAAAAAG
TTTGACCAGAT
Found at i:228849 original size:47 final size:47
Alignment explanation
Indices: 228531--228941 Score: 235
Period size: 47 Copynumber: 8.8 Consensus size: 47
228521 TAAGGGTGAG
** * * ** * ** *
228531 AAGAGTTTGACTTGGCCCTAACACCAATGTAGTCAAACGAGGGTGGA
1 AAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAATGAA
* * * * *
228578 AAGAGTTTGACCAGGTCCTACCACCAATATAGTTAAACAAGAGTGAA
1 AAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAATGAA
** * *
228625 AAGAGTTTGACCAGGTCCTAACGATAATTCAGTCAAACGACG-ATGAA
1 AAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAAC-AAGAATGAA
* * * *
228672 AAAAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACGAGAGTGGA
1 AAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAATGAA
* * * * * * *
228719 AATAATTTAACTAGATCCTAACGCCAATATAGTC-AACAAGAGT-AA
1 AAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAATGAA
* * * ** *
228764 ATTTGAGCTTGACCAGGTCATAACGCCAATATGGTCAAACAAGAATTAA
1 A--AGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAATGAA
* * * * ** **
228813 AAGAGTTTGACCAGATCCTAATGCTAATACAATCAAACGGGGGT-AGA
1 AAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAATGA-A
* * ** * * *
228860 AAGGGTTTGGCCAAGG--CTAACGCCAATGTAGGC-AA-ATGAAGGAA
1 AAGAGTTTGACC-AGGTCCTAACGCCAATACAGTCAAACAAGAATGAA
* * *
228904 AACAGTTTGACTAGGTCCTAATGCCAATACAGTCAAAC
1 AAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAAC
228942 GAGGGTAAAT
Statistics
Matches: 272, Mismatches: 79, Indels: 26
0.72 0.21 0.07
Matches are distributed among these distances:
43 3 0.01
44 10 0.04
45 18 0.07
46 23 0.08
47 203 0.75
48 12 0.04
49 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.21
Consensus pattern (47 bp):
AAGAGTTTGACCAGGTCCTAACGCCAATACAGTCAAACAAGAATGAA
Found at i:230777 original size:21 final size:21
Alignment explanation
Indices: 230751--230792 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
230741 GTTGCATTTT
230751 TGCCTTTAATGTATCAATACA
1 TGCCTTTAATGTATCAATACA
* *
230772 TGCCTTTGATGTATCGATACA
1 TGCCTTTAATGTATCAATACA
230793 AGATCTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (21 bp):
TGCCTTTAATGTATCAATACA
Found at i:230861 original size:21 final size:21
Alignment explanation
Indices: 230830--230884 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
230820 TTCTATAATT
*
230830 TGTATTAATACAAGCA-ATAAA
1 TGTATCAATACAAGCATA-AAA
* * *
230851 TGTATCGATACATGCCTAAAA
1 TGTATCAATACAAGCATAAAA
230872 TGTATCAATACAA
1 TGTATCAATACAA
230885 AACTAACCTG
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (21 bp):
TGTATCAATACAAGCATAAAA
Found at i:230890 original size:21 final size:21
Alignment explanation
Indices: 230848--230890 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
230838 TACAAGCAAT
* ***
230848 AAATGTATCGATACATGCCTA
1 AAATGTATCAATACAAAACTA
230869 AAATGTATCAATACAAAACTA
1 AAATGTATCAATACAAAACTA
230890 A
1 A
230891 CCTGCATACT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.16, G:0.09, T:0.26
Consensus pattern (21 bp):
AAATGTATCAATACAAAACTA
Found at i:230931 original size:20 final size:20
Alignment explanation
Indices: 230903--230942 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
230893 TGCATACTGC
*
230903 CAAGGAAATGTATCGATACA
1 CAAGGAAATGTATCAATACA
*
230923 CAAGTAAATGTATCAATACA
1 CAAGGAAATGTATCAATACA
230943 TGCTTACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.15, G:0.15, T:0.23
Consensus pattern (20 bp):
CAAGGAAATGTATCAATACA
Found at i:233413 original size:51 final size:50
Alignment explanation
Indices: 233354--233466 Score: 181
Period size: 51 Copynumber: 2.2 Consensus size: 50
233344 TTCATCTTAG
** *
233354 AGGGATACTCCAACCCCGCTTTTATTTTTAAAATTTTAAAATTTTCATTTT
1 AGGGATACTCCAACCCCGCTTTTATTTTTAAAATGCTAAAATTTTCA-TCT
233405 AGGGATACTCCAACCCCGCTTTTATTTTTAAAATGCTAAAATTTTCATCT
1 AGGGATACTCCAACCCCGCTTTTATTTTTAAAATGCTAAAATTTTCATCT
*
233455 CGGGATACTCCA
1 AGGGATACTCCA
233467 GCCCTATCAA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 13 0.22
51 45 0.78
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (50 bp):
AGGGATACTCCAACCCCGCTTTTATTTTTAAAATGCTAAAATTTTCATCT
Found at i:235608 original size:31 final size:29
Alignment explanation
Indices: 235573--235645 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 29
235563 ATTATCTACA
*
235573 CTTTTTTATTTCATGCTTTTTTCTTTTTTTT
1 CTTTTTTATTTCAT--TTCTTTCTTTTTTTT
*
235604 CTTTTTCATTTTTCATTTCTTTCTTTTTTTT
1 CTTTTT--TATTTCATTTCTTTCTTTTTTTT
235635 -TGTTTTTATTT
1 CT-TTTTTATTT
235646 AGAAGAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
29 4 0.11
30 1 0.03
31 24 0.67
33 7 0.19
ACGTcount: A:0.07, C:0.12, G:0.03, T:0.78
Consensus pattern (29 bp):
CTTTTTTATTTCATTTCTTTCTTTTTTTT
Found at i:235615 original size:22 final size:22
Alignment explanation
Indices: 235590--235631 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
235580 ATTTCATGCT
* *
235590 TTTTTCTTTTTTTTCTTTTTCA
1 TTTTTCATTTCTTTCTTTTTCA
235612 TTTTTCATTTCTTTCTTTTT
1 TTTTTCATTTCTTTCTTTTT
235632 TTTTGTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTCATTTCTTTCTTTTTCA
Found at i:236852 original size:62 final size:61
Alignment explanation
Indices: 236744--236865 Score: 140
Period size: 61 Copynumber: 2.0 Consensus size: 61
236734 TTGATGTGAT
* * * *
236744 GTCAAAGAAAAAGTTTTGACAATTAGATATGTACATGTATGCATGTAATTAATGTATGTAAG
1 GTCAAAGAAAAAGTTATGACAATTAGAAAAGTACATGTATGCATGT-ATGAATGTATGTAAG
* * *
236806 GTCAAAG-GAAAGTTATGACAATTAGAGGAAAGTA-ATGTATGTATGTATGCATGTATGTAA
1 GTCAAAGAAAAAGTTATGACAATTAGA--AAAGTACATGTATGCATGTATGAATGTATGTAA
236866 TACAAACAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
61 29 0.57
62 18 0.35
63 4 0.08
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.32
Consensus pattern (61 bp):
GTCAAAGAAAAAGTTATGACAATTAGAAAAGTACATGTATGCATGTATGAATGTATGTAAG
Found at i:237782 original size:13 final size:13
Alignment explanation
Indices: 237764--237788 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
237754 CATAAAGTGT
237764 TGTATCGATACAA
1 TGTATCGATACAA
237777 TGTATCGATACA
1 TGTATCGATACA
237789 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:237786 original size:33 final size:33
Alignment explanation
Indices: 237744--237810 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
237734 TTCAACGATT
237744 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
237777 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
237810 T
1 T
237811 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:237869 original size:13 final size:13
Alignment explanation
Indices: 237851--237875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
237841 ATCACTTAAA
237851 TGTATCGATACAT
1 TGTATCGATACAT
237864 TGTATCGATACA
1 TGTATCGATACA
237876 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:237940 original size:52 final size:52
Alignment explanation
Indices: 237884--238012 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
237874 CACTGATCTT
*
237884 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
237936 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
237988 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
238013 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:251811 original size:16 final size:16
Alignment explanation
Indices: 251792--251831 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
251782 TCCTCCACAA
*
251792 AAAAAAAACAAAAACC
1 AAAAAAAACAAAAAAC
251808 AAAAAAAACAAAAAAC
1 AAAAAAAACAAAAAAC
251824 AAAAAAAA
1 AAAAAAAA
251832 AAGGGTCCGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAC
Found at i:251811 original size:17 final size:17
Alignment explanation
Indices: 251791--251832 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
251781 GTCCTCCACA
251791 AAAAAAAAAC-AAAAAC
1 AAAAAAAAACAAAAAAC
*
251807 CAAAAAAAACAAAAAAC
1 AAAAAAAAACAAAAAAC
251824 AAAAAAAAA
1 AAAAAAAAA
251833 AGGGTCCGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAAAAAAC
Found at i:253252 original size:29 final size:29
Alignment explanation
Indices: 253213--253390 Score: 171
Period size: 29 Copynumber: 6.0 Consensus size: 29
253203 TCACCCTTCA
*
253213 AAAGTCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
*
253242 AAAGCCCACAAGTCAGTGGCATTTTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCA---TCTTTTTC
* *
253274 AAAAGCCCACAAGTCAGTGGCAAC--CTTC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
253302 AAAGCCCACAAATCAGTGGCACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
253331 TGAAGCCCACAAGTCGGTGGCATCTTTTCC
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
253361 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
253391 TTTTGTAAGC
Statistics
Matches: 122, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
27 21 0.17
28 3 0.02
29 40 0.33
30 30 0.25
32 7 0.06
33 21 0.17
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:253461 original size:30 final size:30
Alignment explanation
Indices: 253425--253501 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
253415 CACTCTTTTT
253425 CCTTTTCAAAAGCCCACAAGTTAGTGGC-AC
1 CCTTTTCAAAAGCCCACAAGTTAGT-GCAAC
* * *
253455 CCTTTTCAGAAGCACACAAGTTGGTGCAAC
1 CCTTTTCAAAAGCCCACAAGTTAGTGCAAC
253485 CC-TTTCAAAAGCCCACA
1 CCTTTTCAAAAGCCCACA
253502 TAAGTTGGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 15 0.37
30 26 0.63
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (30 bp):
CCTTTTCAAAAGCCCACAAGTTAGTGCAAC
Found at i:253510 original size:31 final size:30
Alignment explanation
Indices: 253425--253511 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
253415 CACTCTTTTT
*
253425 CCTTTTCAAAAGCCCAC-AAGTTAGTGGCAC
1 CCTTTTCAAAAGCCCACAAAGTTGGT-GCAC
* *
253455 CCTTTTCAGAAGCACAC-AAGTTGGTGCAAC
1 CCTTTTCAAAAGCCCACAAAGTTGGTGC-AC
253485 CC-TTTCAAAAGCCCACATAAGTTGGTG
1 CCTTTTCAAAAGCCCACA-AAGTTGGTG
253512 GCATCTTCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
29 14 0.29
30 26 0.53
31 9 0.18
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (30 bp):
CCTTTTCAAAAGCCCACAAAGTTGGTGCAC
Found at i:253580 original size:49 final size:49
Alignment explanation
Indices: 253521--253843 Score: 375
Period size: 49 Copynumber: 6.8 Consensus size: 49
253511 GGCATCTTCT
*
253521 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
253570 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* **
253613 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTC-TCC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCAT-C
* * *
253662 TTTAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCACCTTCATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
253711 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA----C--C
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
*
253754 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATC
* * *
253806 TTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
253844 ATATCCTTTT
Statistics
Matches: 234, Mismatches: 24, Indels: 29
0.82 0.08 0.10
Matches are distributed among these distances:
43 77 0.33
45 2 0.01
47 1 0.00
49 116 0.50
50 2 0.01
52 36 0.15
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:253683 original size:92 final size:92
Alignment explanation
Indices: 253521--253795 Score: 348
Period size: 92 Copynumber: 3.0 Consensus size: 92
253511 GGCATCTTCT
*
253521 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCAT-CTTTAAGTCCAATGTA
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TTC-TCCTTTAAGTCCAATATA
*
253585 GCTGGCCTTGAATCAGCACATTGGCAC-C-
63 GCTGGCCTTGAATCAGCATATTGGCACTCA
253613 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTTTCTCCTTTAAGTCCAATATAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TTCTCCTTTAAGTCCAATATAG
* *
253678 TTGGCCTTGAATCAACATATTGGCACCTTCATA
64 CTGGCCTTGAATCAGCATATTGGCA-C-TC--A
* * * *
253711 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA----CCTTTAAGTCCAATATAGCT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTCTCCTTTAAGTCCAATATAGCT
253772 GGCCTTGAATCAGCATATTGGCAC
66 GGCCTTGAATCAGCATATTGGCAC
253796 ATTTTCCATC
Statistics
Matches: 164, Mismatches: 12, Indels: 15
0.86 0.06 0.08
Matches are distributed among these distances:
91 2 0.01
92 123 0.75
93 1 0.01
95 1 0.01
98 37 0.23
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATTCTCCTTTAAGTCCAATATAGCT
GGCCTTGAATCAGCATATTGGCACTCA
Found at i:253775 original size:141 final size:142
Alignment explanation
Indices: 253521--253835 Score: 517
Period size: 141 Copynumber: 2.2 Consensus size: 142
253511 GGCATCTTCT
* * *
253521 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATATTTAAGTCCAATGTAG
* *
253586 CTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
66 CTGACCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
253651 G-CATTTTCTC-C
131 GACATTTTC-CAC
*
253662 TTTAAGTCCAATATAGTTGGCCTTGAATCAACATATTGGCACCTTCATATTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATATTTAAGTCCAATGTAG
253727 CTGACCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
66 CTGACCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
253792 GCACATTTTCCATC
131 G-ACATTTTCCA-C
* *
253806 TTTAAGTTCAATGTAGCTGGCCTTGAATCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCA
253836 GCACATTGAT
Statistics
Matches: 161, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
141 125 0.78
142 1 0.01
143 7 0.04
144 28 0.17
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (142 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCATATTTAAGTCCAATGTAG
CTGACCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
GACATTTTCCAC
Found at i:253888 original size:55 final size:52
Alignment explanation
Indices: 253753--253890 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
253743 ACATTGGCAC
* *
253753 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
253805 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGATATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
253860 CTTTAAGCCCAATATCGTTGGCCGTGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
253891 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:254760 original size:20 final size:20
Alignment explanation
Indices: 254716--254769 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
254706 ATTTCAACGA
254716 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
* ***
254736 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATAAAGT
254756 TTTGTATCGATACA
1 TTTGTATCGATACA
254770 ATTCAAGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:254830 original size:13 final size:13
Alignment explanation
Indices: 254812--254836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
254802 ATCACTTAAA
254812 TGTATCGATACAT
1 TGTATCGATACAT
254825 TGTATCGATACA
1 TGTATCGATACA
254837 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:254966 original size:50 final size:51
Alignment explanation
Indices: 254845--254971 Score: 238
Period size: 52 Copynumber: 2.5 Consensus size: 51
254835 CACTGATCTT
254845 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TATAAAA
254897 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-ATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATAAAA
254947 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
254972 TCATATTTCG
Statistics
Matches: 75, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
50 31 0.41
52 44 0.59
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (51 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATAAAA
Found at i:259743 original size:17 final size:17
Alignment explanation
Indices: 259721--259754 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
259711 TAAGTTGATG
259721 AGAAGACGAATGTATCC
1 AGAAGACGAATGTATCC
259738 AGAAGACGAATGTATCC
1 AGAAGACGAATGTATCC
259755 CTAATACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.24, T:0.18
Consensus pattern (17 bp):
AGAAGACGAATGTATCC
Found at i:260707 original size:15 final size:15
Alignment explanation
Indices: 260672--260709 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
260662 ATATTTATTC
260672 ATTT-ATTCATTTTT
1 ATTTAATTCATTTTT
*
260686 TTATTAATTCATTTTT
1 AT-TTAATTCATTTTT
260702 ATTTAATT
1 ATTTAATT
260710 TTGCTTTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
14 1 0.05
15 8 0.40
16 11 0.55
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTAATTCATTTTT
Found at i:267631 original size:21 final size:21
Alignment explanation
Indices: 267598--267647 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
267588 TTGCAAGTTG
*
267598 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
267620 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
267641 AAATAAA
1 AAATAAA
267648 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:269465 original size:15 final size:15
Alignment explanation
Indices: 269445--269483 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
269435 TAAAAATGTC
*
269445 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
269460 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
269475 CCAAATGAA
1 CAAAATGAA
269484 ATTGATGAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:271519 original size:13 final size:13
Alignment explanation
Indices: 271501--271536 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
271491 CATTTTTCTT
271501 TGTATCGATACAA
1 TGTATCGATACAA
*
271514 TGTATCGATACAC
1 TGTATCGATACAA
*
271527 TATATCGATA
1 TGTATCGATA
271537 TAGGGAGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:273168 original size:23 final size:21
Alignment explanation
Indices: 273126--273168 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
273116 GTTTAATGTT
**
273126 TTTGCTTGACTTTGTGTTTTA
1 TTTGCTTGACTTTGAATTTTA
273147 TTTGCATTGTACTTTGAATTTT
1 TTTGC-TTG-ACTTTGAATTTT
273169 TTAATCTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.14, C:0.09, G:0.16, T:0.60
Consensus pattern (21 bp):
TTTGCTTGACTTTGAATTTTA
Found at i:274034 original size:13 final size:13
Alignment explanation
Indices: 274016--274041 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
274006 TACACAAAGT
274016 ATGTATCGATACA
1 ATGTATCGATACA
274029 ATGTATCGATACA
1 ATGTATCGATACA
274042 CAAAAAAAAA
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:275446 original size:169 final size:163
Alignment explanation
Indices: 274909--275601 Score: 531
Period size: 169 Copynumber: 4.1 Consensus size: 163
274899 GAAAACATGG
* * ** * * * *
274909 AAAATCTCCTCGAAAATATTTACGGAGTAGAAAATTCAGTTATTCAAAAATAGGGAGATTTCAA-
1 AAAATCCCCT-GAAAACATTTACTAAGAAGAAAACTCAATTTTTCAAAAATAGGGA-ATTTCAAG
* **
274973 -AGAAAAAT-AAAAATTTCGTGAAAATAAATGAATTTTTTG-AAACTAATTTAATATGAATTAAA
64 GAAAAAAATGAAAAA--TCAAGAAAATAAATGAA-TTTTTGAAAACTAATTTAATAT-AATTAAA
* * *
275035 TAAAAATATTTGATGAATTTTAAAAATTAAAAACCAAGA
125 TAATAATATTTGATGAATTTTAAAAATTATAAACCAAAA
** * * ** *
275074 AAAATCCCCCTGAAAACATTTACGGAGCAGAAAACTCAGTTTTTCGTAAATAGGGGAAATTCAAG
1 AAAAT-CCCCTGAAAACATTTACTAAGAAGAAAACTCAATTTTTCAAAAATA-GGGAATTTCAAG
* * * * * * *
275139 GAAAAAAA-GAAAAATGAATGAAAATGAATGATTTTTTGAAAACTGATTTACTATAAACTAAATG
64 GAAAAAAATGAAAAATCAA-GAAAATAAATGAATTTTTGAAAACTAATTTAATAT-AATTAAATA
* * * * ** * *
275203 ATGATATCTGATGAATTTTCAAAATTTTGGACCGAGA
127 ATAATATTTGATGAATTTTAAAAATTATAAACCAAAA
* * * *
275240 AAAA-CCCCTTCGGAAACCTTTGTGGAATAA-TAGAAAACTCAATTTTTCAAAAATAGGAGAATT
1 AAAATCCCC-T--GAAAACATT-T--ACTAAGAAGAAAACTCAATTTTTCAAAAATAGG-GAATT
* * * * *
275303 TCAAGGGAAAAAAATGAAAAACTCACAAAAAATCAATGAATTTTTGAAAATTGATTTAATGATGA
59 TCAA-GGAAAAAAATGAAAAA-TCA-AGAAAATAAATGAATTTTTGAAAACTAATTTAAT-ATAA
* * *
275368 TTAAATAATAATATTTTATAAATTTTAAAATTTATAAACCAAAA
120 TTAAATAATAATATTTGATGAATTTTAAAAATTATAAACCAAAA
* * *
275412 AAAATCTCCCTGAAAAAATTTACTAAGAAGAAAACTTC-ATATTTCATAACACAAAGGGAATTTC
1 AAAATC-CCCTGAAAACATTTACTAAGAAGAAAAC-TCAATTTTTCA-AA-A-ATAGGGAATTTC
* * * * *
275476 AAGGAAAAAGATGAAAAATTTATGAAAATAAATGAATTTTTAAAAACTAATTTAACATAAGTTAA
61 AAGGAAAAAAATGAAAAA-TCAAGAAAATAAATGAATTTTTGAAAACTAATTTAATATAA-TTAA
* *
275541 ATAATAATATTTTATGAATTTTAAAAATTA-AAAACAAAA
124 ATAATAATATTTGATGAATTTTAAAAATTATAAACCAAAA
* *
275580 AAATTCCCCCGAAAACATTTAC
1 AAAATCCCCTGAAAACATTTAC
275602 GGAGTAGAAA
Statistics
Matches: 419, Mismatches: 82, Indels: 52
0.76 0.15 0.09
Matches are distributed among these distances:
164 4 0.01
165 54 0.13
166 71 0.17
167 32 0.08
168 23 0.05
169 102 0.24
170 33 0.08
171 22 0.05
172 70 0.17
173 5 0.01
174 3 0.01
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (163 bp):
AAAATCCCCTGAAAACATTTACTAAGAAGAAAACTCAATTTTTCAAAAATAGGGAATTTCAAGGA
AAAAAATGAAAAATCAAGAAAATAAATGAATTTTTGAAAACTAATTTAATATAATTAAATAATAA
TATTTGATGAATTTTAAAAATTATAAACCAAAA
Found at i:278530 original size:165 final size:164
Alignment explanation
Indices: 278284--278747 Score: 408
Period size: 165 Copynumber: 2.8 Consensus size: 164
278274 TACTATCAAG
* * ** * *
278284 TCAGTTTTGAAAAATTCATTT-TATCTCATGAG-TTATTGATTTTCTTTTGGAATTTCTCTTA-T
1 TCAGTTTTGAAAAATTCATTTAT-TTTCATAAGTTTACAGTTTTTC-TTT-GAAATTCTCTTATT
* * * *
278346 TTC-CAAAATACAGAGTTTTCT-TCTCTGTAAATTTTTTAAGAGGATTTC-CTCTAGTTTAAAAA
63 TTCGAAAAAT-CA-AGTTTTCTATCTC-ATAAATGTTTTAAGAGGATTTCTCT-TAATTTAAAAA
* *
278408 TTTTAAAATTCATCA-AATATCATCATTTA-ATTCATAGTAAA
124 TTTTAAAATTCAT-ATAACATCATCA-TTAGACTCATAGTAAA
* ** **
278449 TTAGTTTTGAAATTTTCATTTATTTTCATAAGTTTTTTAGTTTTTCTTTGAAATTCTCTTATTTT
1 TCAGTTTTGAAAAATTCATTTATTTTCATAAG-TTTACAGTTTTTCTTTGAAATTCTCTTATTTT
* * ** * * *
278514 TGAAAAA-CTAAGTTTTCTATTTCATAAATGTTTTCGGGGGATTTTTCTTAATTTAAAATTTTTA
65 CGAAAAATC-AAGTTTTCTATCTCATAAATGTTTTAAGAGGATTTCTCTTAATTTAAAAATTTTA
** * **
278578 AAATTCATATAACATTGTCATTAGACTCCTTTTAAA
129 AAATTCATATAACATCATCATTAGACTCATAGTAAA
* * *
278614 TCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTACATTTTTTCTTTGAAATTTTCTTGTTTTC
1 TCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTACAGTTTTTCTTTGAAATTCTCTTATTTTC
* ** * *
278679 GAAAAATCAAGTTTTCTAT-TCCATTAATGTTTTCGGGAGGATTTCTCTTGATTTAAAATTTTTA
66 GAAAAATCAAGTTTTCTATCT-CATAAATGTTTT-AAGAGGATTTCTCTTAATTTAAAAATTTTA
278743 AAATT
129 AAATT
278748 TACCTAATAT
Statistics
Matches: 245, Mismatches: 41, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
163 1 0.00
164 59 0.24
165 159 0.65
166 13 0.05
167 13 0.05
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.50
Consensus pattern (164 bp):
TCAGTTTTGAAAAATTCATTTATTTTCATAAGTTTACAGTTTTTCTTTGAAATTCTCTTATTTTC
GAAAAATCAAGTTTTCTATCTCATAAATGTTTTAAGAGGATTTCTCTTAATTTAAAAATTTTAAA
ATTCATATAACATCATCATTAGACTCATAGTAAA
Found at i:278794 original size:165 final size:166
Alignment explanation
Indices: 278385--278794 Score: 488
Period size: 165 Copynumber: 2.5 Consensus size: 166
278375 AATTTTTTAA
* * * * * * *
278385 GAGGATTTCCTCTAG-TTTAAAAATTTTAAAATTCATCAAATATCATCATTTAATTCATAGTAAA
1 GAGGATTT-CTCTTGATTTAAAATTTTTAAAATTCATCTAATATTATCATTAAATTCACATTAAA
** **
278449 TTAGTTTTGAAATTTTCATTTATTTTCATAAGTTTTTTAGTTTTTCTTTGAAATTCTCTTATTTT
65 TTAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTACAGTTTTTCTTTGAAATTCTCTTATTTT
* *
278514 TGAAAAACTAAGTTTTCTATTTCATAAATGTTTTCGG
130 CGAAAAACTAAGTTTTCTATTCCATAAATGTTTTCGG
* * * * * * * *
278551 G-GGATTTTTCTTAATTTAAAATTTTTAAAATTCATATAACATTGTCATTAGACTC-CTTTTAAA
1 GAGGATTTCTCTTGATTTAAAATTTTTAAAATTCATCTAATATTATCATTAAATTCAC-ATTAAA
* * * *
278614 TCAGTTTTGAAAAATTCATTTATTTTCATAAG-TTTACATTTTTTCTTTGAAATTTTCTTGTTTT
65 TTAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTACAGTTTTTCTTTGAAATTCTCTTATTTT
*
278678 CGAAAAA-TCAAGTTTTCTATTCCATTAATGTTTTCGG
130 CGAAAAACT-AAGTTTTCTATTCCATAAATGTTTTCGG
* * *
278715 GAGGATTTCTCTTGATTTAAAATTTTTAAAATTTACCTAATATTTTCATTAAATTCACATTAAAT
1 GAGGATTTCTCTTGATTTAAAATTTTTAAAATTCATCTAATATTATCATTAAATTCACATTAAAT
*
278780 TAGTTTTCAAAAATT
66 TAGTTTTGAAAAATT
278795 TAAAATATTT
Statistics
Matches: 201, Mismatches: 38, Indels: 11
0.80 0.15 0.04
Matches are distributed among these distances:
163 1 0.00
164 63 0.31
165 135 0.67
166 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.49
Consensus pattern (166 bp):
GAGGATTTCTCTTGATTTAAAATTTTTAAAATTCATCTAATATTATCATTAAATTCACATTAAAT
TAGTTTTGAAAAATTCATTTATTTTCATAAGTTTTACAGTTTTTCTTTGAAATTCTCTTATTTTC
GAAAAACTAAGTTTTCTATTCCATAAATGTTTTCGG
Found at i:279318 original size:13 final size:13
Alignment explanation
Indices: 279297--279345 Score: 53
Period size: 13 Copynumber: 3.6 Consensus size: 13
279287 TAGAAACTTG
279297 GAGAAAAAAAAAA
1 GAGAAAAAAAAAA
*
279310 GAGAGAAAAAAAA
1 GAGAAAAAAAAAA
*
279323 GAAAAAGAGAAAAAA
1 GAGAAA-A-AAAAAA
*
279338 AAGAAAAA
1 GAGAAAAA
279346 CTAAGTCAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
13 17 0.59
14 2 0.07
15 10 0.34
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
GAGAAAAAAAAAA
Found at i:279322 original size:17 final size:17
Alignment explanation
Indices: 279300--279345 Score: 76
Period size: 17 Copynumber: 2.8 Consensus size: 17
279290 AAACTTGGAG
*
279300 AAAAAAA-AAAGAGAGA
1 AAAAAAAGAAAAAGAGA
279316 AAAAAAAGAAAAAGAGA
1 AAAAAAAGAAAAAGAGA
279333 AAAAAAAGAAAAA
1 AAAAAAAGAAAAA
279346 CTAAGTCAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAGA
Found at i:280489 original size:141 final size:141
Alignment explanation
Indices: 280231--280497 Score: 371
Period size: 141 Copynumber: 1.9 Consensus size: 141
280221 ATTTTATCAC
* ** *
280231 TAAATGAAAATTATTATCTTAATTTTATAAGATTCTAATATTCCTATAGTTTTTTGTAGGGGTAT
1 TAAATAAAAATTATTATCTTAATTTTATAAGATTCTAATATTCCTATAGTTTTTCATAGGGGAAT
* * * *
280296 AGAAATCTTCATAACTTTTCGTATCTTTTCGATTCTCTATTAGGATTGGAAATGA-ATTTTTTGG
66 AAAAATCTTAAAAACTTTTCGTATCTTTTCGATTCTCCATTAGGATTGGAAATGAGATTTTTTGG
280360 AAATTAAAAAT
131 AAATTAAAAAT
*
280371 TAAATAAAAATTATTATCTTAATTTT-TCAATATTTCTAATATTCCTATAGTTTTTCATAGGGGA
1 TAAATAAAAATTATTATCTTAATTTTAT-AAGA-TTCTAATATTCCTATAGTTTTTCATAGGGGA
* *
280435 ATAAAAATCTTAAAAACTTTTCGTATCTTTTTGGTTCTCCATTAAGG-TAT-GAAATGAGATTTT
64 ATAAAAATCTTAAAAACTTTTCGTATCTTTTCGATTCTCCATT-AGGAT-TGGAAATGAGATTTT
280498 CAAAATTTAT
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
139 1 0.01
140 28 0.25
141 73 0.66
142 9 0.08
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (141 bp):
TAAATAAAAATTATTATCTTAATTTTATAAGATTCTAATATTCCTATAGTTTTTCATAGGGGAAT
AAAAATCTTAAAAACTTTTCGTATCTTTTCGATTCTCCATTAGGATTGGAAATGAGATTTTTTGG
AAATTAAAAAT
Found at i:284725 original size:43 final size:43
Alignment explanation
Indices: 284664--284749 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
284654 TGTCTAGGCC
* *
284664 AGTCCCAAAGTACTAAAAAGGAATCCATTTTGTCATTTAAAAT
1 AGTCCCAAAATACTAAAAAAGAATCCATTTTGTCATTTAAAAT
* * **
284707 AGTCCTAAAATACTAAAAAATAATTTATTTTGTCATTTAAAAT
1 AGTCCCAAAATACTAAAAAAGAATCCATTTTGTCATTTAAAAT
284750 TTTTCTATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.44, C:0.13, G:0.08, T:0.35
Consensus pattern (43 bp):
AGTCCCAAAATACTAAAAAAGAATCCATTTTGTCATTTAAAAT
Found at i:285745 original size:21 final size:23
Alignment explanation
Indices: 285719--285760 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
285709 AAGAAAAAAA
285719 AACC-TTATTGCCTTT-TATATG
1 AACCTTTATTGCCTTTGTATATG
*
285740 AACCTTTATTTCCTTTGTATA
1 AACCTTTATTGCCTTTGTATA
285761 ATTATCTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 10 0.56
23 4 0.22
ACGTcount: A:0.24, C:0.19, G:0.07, T:0.50
Consensus pattern (23 bp):
AACCTTTATTGCCTTTGTATATG
Found at i:286668 original size:16 final size:16
Alignment explanation
Indices: 286647--286680 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
286637 TTTCTTCGTG
286647 AAAAGAA-AAGAGAAAA
1 AAAAGAAGAA-AGAAAA
286663 AAAAGAAGAAAGAAAA
1 AAAAGAAGAAAGAAAA
286679 AA
1 AA
286681 TGAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAGAAGAAAGAAAA
Found at i:288796 original size:45 final size:46
Alignment explanation
Indices: 288747--288834 Score: 117
Period size: 45 Copynumber: 1.9 Consensus size: 46
288737 CGGTTTGCCC
* *
288747 TGGTCGAACTCCTTT-AACCTTTGTTTGAATGTATT-GCATTAGTCT
1 TGGTCAAACT-CTTTCAACCCTTGTTTGAATGTATTGGCATTAGTCT
* *
288792 TGGTCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAG
1 TGGTCAAACTCTTTCAACCCTTGTTTGAATGTATTGGCATTAG
288835 GACCTAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
44 4 0.11
45 26 0.70
46 7 0.19
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.42
Consensus pattern (46 bp):
TGGTCAAACTCTTTCAACCCTTGTTTGAATGTATTGGCATTAGTCT
Found at i:288899 original size:46 final size:47
Alignment explanation
Indices: 288796--289467 Score: 184
Period size: 46 Copynumber: 14.7 Consensus size: 47
288786 TAGTCTTGGT
* * *
288796 CAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTAGT
1 CAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
* ** * * *
288843 AAAACTCTTTTCACTGTCGTTTGGCTGTATTGGCGTTA-GTCCTAGC
1 CAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
* * * * * * *
288889 CAAACTCTTTTCATCCTTGTTTAACTATATTGGCGTTAGGACCTGGT
1 CAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
* * * ** ** **
288936 CAAACTATCTT--CCTTCGTTTGGTTGTATTGGTGTTAGGACCTAAT
1 CAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
* * ** * * * *
288981 CAAACT-TTTCCACCCGT-GTTTGACTGTGTTGGGGTTAAGAACTGGT
1 CAAACTCTTTTCACCC-TCGTTTGACTGTATTGGCATTAGGACCTAGC
* * * * * * *
289027 CAAA--C-TATCATCCCTCGTTTGGCT-AATTGGCTTTA-GTCCTGGT
1 CAAACTCTTTTCA-CCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
* * *
289070 CAAACTCTTTCCACCCTCGTTTGACTGTATTGGCATTAGGACCTGGT
1 CAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
* * * * * ** * *
289117 CAAACTATCTT--CCTTCGTTT-AGCTATGTTGGCATTAGTCCCGA-T
1 CAAACTCTTTTCACCCTCGTTTGA-CTGTATTGGCATTAGGACCTAGC
* * ** * * *
289161 CAAACTCTTTCCACCTTTATTTGACTATATTGGCATTAGCACCTAGT
1 CAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
* * * ** * ** * * * * *
289208 CAAATTGTCTT-A-TTTCATTTGGTTGTGTTGGCATTA-GTCTTGGT
1 CAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
* * * ** *
289252 TAAACTCTTTCCACCCTCGTTTGACTATATTGGTGTTAGGACCTAGT
1 CAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
* * * * ** *
289299 TAAACTGTCTT--CCTTCGTTTGGA-TGTATTGGCATTA-GTTC-AGGT
1 CAAACTCTTTTCACCCTCGTTT-GACTGTATTGGCATTAGGACCTA-GC
* * * * * * * * *
289343 CAAGCTCTTTCCATCCTTGTTTGACTGCATTGGCATTAAGACTTGGT
1 CAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
* * * * * * *
289390 CAAACTCTTTTTACCCTAG-TTCAATAGTATTGGCGTTAGGACCTGGT
1 CAAACTCTTTTCACCCTCGTTTGACT-GTATTGGCATTAGGACCTAGC
* * * *
289437 CAAACTTTTTTAACCCTCATTTGACTATATT
1 CAAACTCTTTTCACCCTCGTTTGACTGTATT
289468 AACAATTACT
Statistics
Matches: 448, Mismatches: 148, Indels: 58
0.69 0.23 0.09
Matches are distributed among these distances:
43 11 0.02
44 43 0.10
45 115 0.26
46 139 0.31
47 136 0.30
48 4 0.01
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (47 bp):
CAAACTCTTTTCACCCTCGTTTGACTGTATTGGCATTAGGACCTAGC
Found at i:288973 original size:45 final size:45
Alignment explanation
Indices: 288809--289136 Score: 209
Period size: 46 Copynumber: 7.2 Consensus size: 45
288799 ACTCTTTCCA
* * * * * *
288809 CCCTTGTTTGACTGTATTGGCATTAGGACCTAGTAAAACTCTTTT
1 CCCTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTATCTT
* * * * * * *
288854 CACTGTCGTTTGGCTGTATTGGCGTTA-GTCCTAGCCAAACTCTTTT
1 C-C-CTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTATCTT
* * *
288900 CATCCTTGTTTAACTATATTGGCGTTAGGACCTGGTCAAACTATCTT
1 C--CCTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTATCTT
* ** * **
288947 CCTTCGTTTGGTTGTATTGGTGTTAGGACCTAATCAAACT-T-TT
1 CCCTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTATCTT
* * * * * *
288990 CCACCCGTGTTTGACTGTGTTGGGGTTAAGAACTGGTCAAACTATCAT
1 CC-CTC--GTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTATCTT
* * * * *
289038 CCCTCGTTTGGCT-AATTGGCTTTA-GTCCTGGTCAAACTCT-TT
1 CCCTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTATCTT
*
289080 CCACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTATCTT
1 ---CCCTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTATCTT
*
289128 CCTTCGTTT
1 CCCTCGTTT
289137 AGCTATGTTG
Statistics
Matches: 214, Mismatches: 54, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
42 1 0.00
43 17 0.08
44 9 0.04
45 58 0.27
46 72 0.34
47 52 0.24
48 5 0.02
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (45 bp):
CCCTCGTTTGACTGTATTGGCGTTAGGACCTGGTCAAACTATCTT
Found at i:289026 original size:91 final size:91
Alignment explanation
Indices: 288785--289395 Score: 539
Period size: 91 Copynumber: 6.7 Consensus size: 91
288775 ATGTATTGCA
* * * * *
288785 TTAGTCTTGGTCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTAGTAAAACTC
1 TTAGTCCTAGTCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTA
* *
288850 TTTTCACTGTCGTTTGGCTGTATTGGCG
66 TCTTC-CT-TCGTTTGGCTGTATTGGTG
* * * * * *
288878 TTAGTCCTAGCCAAACTCTTTTCATCCTTGTTTAACTATATTGGCGTTAGGACCTGGTCAAACTA
1 TTAGTCCTAGTCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTA
*
288943 TCTTCCTTCGTTTGGTTGTATTGGTG
66 TCTTCCTTCGTTTGGCTGTATTGGTG
* * * * ** * *
288969 TTAGGACCTAATCAAACT-TTTCCACCCGTGTTTGACTGTGTTGGGGTTAAGAACTGGTCAAACT
1 TTA-GTCCTAGTCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACT
* * *
289033 ATCATCCCTCGTTTGGCT-AATTGGCT-
65 ATCTTCCTTCGTTTGGCTGTATTGG-TG
* *
289059 TTAGTCCTGGTCAAACTCTTTCCACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTA
1 TTAGTCCTAGTCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTA
* * * **
289124 TCTTCCTTCGTTTAGCTATGTTGGCA
66 TCTTCCTTCGTTTGGCTGTATTGGTG
* * * * * * *
289150 TTAGTCC-CGATCAAACTCTTTCCACCTTTATTTGACTATATTGGCATTAGCACCTAGTCAAATT
1 TTAGTCCTAG-TCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACT
* ** * * * **
289214 GTCTTATTTCATTTGGTTGTGTTGGCA
65 ATCTTCCTTCGTTTGGCTGTATTGGTG
* * * * * ** * * *
289241 TTAGTCTTGGTTAAACTCTTTCCACCCTCGTTTGACTATATTGGTGTTAGGACCTAGTTAAACTG
1 TTAGTCCTAGTCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTA
* **
289306 TCTTCCTTCGTTTGGATGTATTGGCA
66 TCTTCCTTCGTTTGGCTGTATTGGTG
* * * * * *
289332 TTAGTTC-AGGTCAAGCTCTTTCCATCCTTGTTTGACTGCATTGGCATTAAGACTTGGTCAAACT
1 TTAGTCCTA-GTCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACT
289396 CTTTTTACCC
Statistics
Matches: 418, Mismatches: 92, Indels: 18
0.79 0.17 0.03
Matches are distributed among these distances:
89 11 0.03
90 63 0.15
91 272 0.65
92 14 0.03
93 58 0.14
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (91 bp):
TTAGTCCTAGTCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTA
TCTTCCTTCGTTTGGCTGTATTGGTG
Found at i:289103 original size:181 final size:182
Alignment explanation
Indices: 288795--289335 Score: 530
Period size: 181 Copynumber: 3.0 Consensus size: 182
288785 TTAGTCTTGG
* * * * * * * ** *
288795 TCAAACTCTTTCCACCCTTGTTTGACTGTATTGGCATTAGGACCTAGTAAAACTCTTTTCACTGT
1 TCAAACTCTTTCCACCCGTATTTGACTATATTGGCATTAGCAACTAGTCAAACTATCAT-AC-CT
* * * * * * *
288860 CGTTTGGCTGTATTGGCGTTAGTCCTAGCCAAACTCTTTTCATCCTTGTTTAACTATATTGGCGT
64 CGTTTGGCTGTATTGGCATTAGTCCTGGTCAAACTCTTTCCACCCTCGTTTGACTATATTGGCGT
* ** *
288925 TAGGACCTGGTCAAACTATCTTCCTTCGTTTGGTTGTATTGGTGTTAGGACCTAA
129 TAGGACCTGGTCAAACTATCTTCCTTCGTTTGGATGTATTGGCATTA-GACCCAA
* * * ** * *
288980 TCAAACT-TTTCCACCCGTGTTTGACTGTGTTGGGGTTAAG-AACTGGTCAAACTATCATCCCTC
1 TCAAACTCTTTCCACCCGTATTTGACTATATTGGCATT-AGCAACTAGTCAAACTATCATACCTC
* * * *
289043 GTTTGGCT-AATTGGCTTTAGTCCTGGTCAAACTCTTTCCACCCTCGTTTGACTGTATTGGCATT
65 GTTTGGCTGTATTGGCATTAGTCCTGGTCAAACTCTTTCCACCCTCGTTTGACTATATTGGCGTT
* * * * * *
289107 AGGACCTGGTCAAACTATCTTCCTTCGTTTAGCTATGTTGGCATTAGTCCCGA
130 AGGACCTGGTCAAACTATCTTCCTTCGTTTGGATGTATTGGCATTAGACCCAA
** * * * * ** *
289160 TCAAACTCTTTCCACCTTTATTTGACTATATTGGCATTAGCACCTAGTCAAATTGTCTTATTTCA
1 TCAAACTCTTTCCACCCGTATTTGACTATATTGGCATTAGCAACTAGTCAAACTATCATACCTCG
* * * * *
289225 TTTGGTTGTGTTGGCATTAGTCTTGGTTAAACTCTTTCCACCCTCGTTTGACTATATTGGTGTTA
66 TTTGGCTGTATTGGCATTAGTCCTGGTCAAACTCTTTCCACCCTCGTTTGACTATATTGGCGTTA
* * *
289290 GGACCTAGTTAAACTGTCTTCCTTCGTTTGGATGTATTGGCATTAG
131 GGACCTGGTCAAACTATCTTCCTTCGTTTGGATGTATTGGCATTAG
289336 TTCAGGTCAA
Statistics
Matches: 289, Mismatches: 63, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
180 13 0.04
181 130 0.45
182 98 0.34
183 1 0.00
184 38 0.13
185 9 0.03
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (182 bp):
TCAAACTCTTTCCACCCGTATTTGACTATATTGGCATTAGCAACTAGTCAAACTATCATACCTCG
TTTGGCTGTATTGGCATTAGTCCTGGTCAAACTCTTTCCACCCTCGTTTGACTATATTGGCGTTA
GGACCTGGTCAAACTATCTTCCTTCGTTTGGATGTATTGGCATTAGACCCAA
Found at i:289150 original size:45 final size:45
Alignment explanation
Indices: 288907--289153 Score: 164
Period size: 45 Copynumber: 5.5 Consensus size: 45
288897 TTTCATCCTT
* *
288907 GTTTAACTATATTGGCGTTAGGACCTGGTCAAACTATCTTCCTTC
1 GTTTAGCTATATTGGCGTTAGGACCTGGTCAAACTATCTTCCCTC
* * * * ** *
288952 GTTTGGTTGTATTGGTGTTAGGACCTAATCAAACT-T-TTCCACCC
1 GTTTAGCTATATTGGCGTTAGGACCTGGTCAAACTATCTTCC-CTC
* * * * * * *
288996 GTGTTTGACTGTGTTGGGGTTAAGAACTGGTCAAACTATCATCCCTC
1 GT-TTAG-CTATATTGGCGTTAGGACCTGGTCAAACTATCTTCCCTC
* * * *
289043 GTTTGGCTA-ATTGGCTTTA-GTCCTGGTCAAACTCT-TTCCACCCTC
1 GTTTAGCTATATTGGCGTTAGGACCTGGTCAAACTATCTT---CCCTC
* * *
289088 GTTT-GACTGTATTGGCATTAGGACCTGGTCAAACTATCTTCCTTC
1 GTTTAG-CTATATTGGCGTTAGGACCTGGTCAAACTATCTTCCCTC
* *
289133 GTTTAGCTATGTTGGCATTAG
1 GTTTAGCTATATTGGCGTTAG
289154 TCCCGATCAA
Statistics
Matches: 154, Mismatches: 35, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 17 0.11
44 12 0.08
45 65 0.42
46 35 0.23
47 19 0.12
48 5 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (45 bp):
GTTTAGCTATATTGGCGTTAGGACCTGGTCAAACTATCTTCCCTC
Found at i:289378 original size:182 final size:182
Alignment explanation
Indices: 288764--289395 Score: 621
Period size: 182 Copynumber: 3.5 Consensus size: 182
288754 ACTCCTTTAA
* * * *
288764 CCTTTGTTTGAATGTATT-GCATTAGT-CTTGGTCAAACTCTTTCCACCCTTGTTTGACTGTATT
1 CCTTCGTTTGGATGTATTGGCATTAGTCCTAGATCAAACTCTTTCCACCCTTGTTTGACTGTATT
* * * * * * *
288827 GGCATTAGGACCTAGTAAAACTCTTTTCACTGTCGTTTGGCTGTATTGGCGTTAGTCCTAGCCAA
66 GGCATTA-GACCTAGTCAAACTATCTT-A-TCTCGTTTGGCTGTATTGGCATTAGTCCTGGTCAA
* * * *
288892 ACTCTTTTCATCCTTGTTTAACTATATTGGCGTTAGGACCTGGTCAAACTATCTT
128 ACTCTTTCCACCCTCGTTTGACTATATTGGCGTTAGGACCTGGTCAAACTATCTT
* ** * * *
288947 CCTTCGTTTGGTTGTATTGGTGTTAGGACCTA-ATCAAACT-TTTCCACCCGTGTTTGACTGTGT
1 CCTTCGTTTGGATGTATTGGCATTA-GTCCTAGATCAAACTCTTTCCACCCTTGTTTGACTGTAT
** * * * ** * *
289010 TGGGGTTAAGAACTGGTCAAACTATCATCCCTCGTTTGGCT-AATTGGCTTTAGTCCTGGTCAAA
65 TGGCATT-AGACCTAGTCAAACTATCTTATCTCGTTTGGCTGTATTGGCATTAGTCCTGGTCAAA
* *
289074 CTCTTTCCACCCTCGTTTGACTGTATTGGCATTAGGACCTGGTCAAACTATCTT
129 CTCTTTCCACCCTCGTTTGACTATATTGGCGTTAGGACCTGGTCAAACTATCTT
* * * * * * * *
289128 CCTTCGTTTAGCTATGTTGGCATTAGTCC-CGATCAAACTCTTTCCACCTTTATTTGACTATATT
1 CCTTCGTTTGGATGTATTGGCATTAGTCCTAGATCAAACTCTTTCCACCCTTGTTTGACTGTATT
* * * * * * * *
289192 GGCATTAGCACCTAGTCAAATTGTCTTATTTCATTTGGTTGTGTTGGCATTAGTCTTGGTTAAAC
66 GGCATTAG-ACCTAGTCAAACTATCTTATCTCGTTTGGCTGTATTGGCATTAGTCCTGGTCAAAC
* * * *
289257 TCTTTCCACCCTCGTTTGACTATATTGGTGTTAGGACCTAGTTAAACTGTCTT
130 TCTTTCCACCCTCGTTTGACTATATTGGCGTTAGGACCTGGTCAAACTATCTT
* * * * *
289310 CCTTCGTTTGGATGTATTGGCATTAGTTC-AGGTCAAGCTCTTTCCATCCTTGTTTGACTGCATT
1 CCTTCGTTTGGATGTATTGGCATTAGTCCTAGATCAAACTCTTTCCACCCTTGTTTGACTGTATT
* *
289374 GGCATTAAGACTTGGTCAAACT
66 GGCATT-AGACCTAGTCAAACT
289396 CTTTTTACCC
Statistics
Matches: 357, Mismatches: 83, Indels: 19
0.78 0.18 0.04
Matches are distributed among these distances:
180 13 0.04
181 130 0.36
182 143 0.40
183 17 0.05
184 43 0.12
185 9 0.03
186 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.40
Consensus pattern (182 bp):
CCTTCGTTTGGATGTATTGGCATTAGTCCTAGATCAAACTCTTTCCACCCTTGTTTGACTGTATT
GGCATTAGACCTAGTCAAACTATCTTATCTCGTTTGGCTGTATTGGCATTAGTCCTGGTCAAACT
CTTTCCACCCTCGTTTGACTATATTGGCGTTAGGACCTGGTCAAACTATCTT
Found at i:289656 original size:39 final size:44
Alignment explanation
Indices: 289556--289664 Score: 147
Period size: 45 Copynumber: 2.6 Consensus size: 44
289546 TCATTTAACG
* * *
289556 TGATGGTTTAGCCTTGGTCAAACTCTTTTTCATCTTAGTTTGACT
1 TGATGGTTTAGCCCTAGTCAAACTCTTTTT-ATCTTAGTTTGACA
289601 TGATGGTTTAGCCCTAGTCAAACT-TTTTT-T-TT-GTTTGACA
1 TGATGGTTTAGCCCTAGTCAAACTCTTTTTATCTTAGTTTGACA
289641 TGAT-GTTTAGCCCTAGTCAAACTC
1 TGATGGTTTAGCCCTAGTCAAACTC
289665 GGTACATCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
39 19 0.32
40 11 0.18
41 2 0.03
42 1 0.02
44 5 0.08
45 22 0.37
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.44
Consensus pattern (44 bp):
TGATGGTTTAGCCCTAGTCAAACTCTTTTTATCTTAGTTTGACA
Found at i:290458 original size:12 final size:12
Alignment explanation
Indices: 290443--290477 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
290433 AAAAAAAAGT
290443 AAAAAAAGAAAA
1 AAAAAAAGAAAA
* *
290455 AAAATAAGAATA
1 AAAAAAAGAAAA
290467 AAAAAAAGAAA
1 AAAAAAAGAAA
290478 GGCTAAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.09, T:0.06
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:290785 original size:23 final size:23
Alignment explanation
Indices: 290720--290787 Score: 59
Period size: 23 Copynumber: 3.0 Consensus size: 23
290710 AAATAAGAAG
*
290720 AAGAAATGCATGAAAGAAAAAGAA
1 AAGAAATACATGAAAGAAAAA-AA
** * *
290744 ATTAAGCTACA--AAACAAAAAAA
1 AAGAA-ATACATGAAAGAAAAAAA
290766 AAGAAATACATGAAAGAAAAAA
1 AAGAAATACATGAAAGAAAAAA
290788 CAATTAAGCT
Statistics
Matches: 32, Mismatches: 9, Indels: 7
0.67 0.19 0.15
Matches are distributed among these distances:
21 4 0.12
22 5 0.16
23 17 0.53
24 3 0.09
25 3 0.09
ACGTcount: A:0.69, C:0.07, G:0.13, T:0.10
Consensus pattern (23 bp):
AAGAAATACATGAAAGAAAAAAA
Found at i:297229 original size:79 final size:79
Alignment explanation
Indices: 297098--297721 Score: 412
Period size: 79 Copynumber: 7.9 Consensus size: 79
297088 TCTTCATCTC
* * * *
297098 GAGGATACTCCAACCTCGGTTTTATTTCCAAAACATCAATTTTTTATAATCGGGGATACTCCAAT
1 GAGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
297163 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
297177 GAGGATATTCCAACCCCAGTTTTATTTCCAAAACATCAATTTTTCATAATCGGGGATACTCCAAT
1 GAGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
** *
297242 CTTGTTATTTTTGA
66 CCCGTTATTTTCGA
* * * * * *** **
297256 GGGGATACTCCAACCCCGATTTTA-TTCCTAAAACACCAGTATTTCACAATTACGGATACTGAAA
1 GAGGATACTCCAACCCCGGTTTTATTTCC-AAAACATCAATTTTTCACAATCGGGGATACTCCAA
* *
297320 CCCCGTCATTTCCGA
65 CCCCGTTATTTTCGA
* * *
297335 AAGGATACTCCAACCCCGGTTTTATTTCTAAAACA-CTAATTTTCCACAATCGGGGATACTCCAA
1 GAGGATACTCCAACCCCGGTTTTATTTCCAAAACATC-AATTTTTCACAATCGGGGATACTCCAA
*
297399 CCCCATTATTTCATCG-
65 CCCCGTTATTT--TCGA
* * **** * **** *
297415 G-GGATACTCCAACCCC-GTTAT-TTTCGAGGGGAT--A---CTC-CAACCTCGACTTTATTTCC
1 GAGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCACAA--TCGGGGATA-CTCC
**** *
297471 AA-AATATTGATTTCTCACAA
63 AACCCCGTT-ATTT-T--CGA
* * * * * * *
297491 TTAGGGATACTTCAACCCCGGTCTTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCTA
1 -GA-GGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCA
*
297556 ACCCCGTTATTTTTGA
64 ACCCCGTTATTTTCGA
* ** * * * *
297572 GAGGATACTCCAACCCCGATTTTATTTTTAAAATATCGA-TTTTCTATAATCAGGGATACTCCAA
1 GAGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTC-ACAATCGGGGATACTCCAA
* *
297636 CCCTGTTATTTTTGA
65 CCCCGTTATTTTCGA
* * * * * * *
297651 GGGGATACTCCAACCCCGATTTTATTTTCAGAACACCGATTTTTCATAATCGGGGATACTCCAAC
1 GAGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
297716 CCCGTT
66 CCCGTT
297722 GTTATCTCCA
Statistics
Matches: 418, Mismatches: 100, Indels: 54
0.73 0.17 0.09
Matches are distributed among these distances:
71 3 0.01
72 1 0.00
73 9 0.02
74 9 0.02
75 2 0.00
77 6 0.01
78 14 0.03
79 330 0.79
80 12 0.03
81 10 0.02
83 2 0.00
84 8 0.02
85 7 0.02
86 2 0.00
87 3 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GAGGATACTCCAACCCCGGTTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:297423 original size:28 final size:27
Alignment explanation
Indices: 297383--297456 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 27
297373 ATTTTCCACA
297383 ATCGGGGATACTCCAACCCCATTATTT
1 ATCGGGGATACTCCAACCCCATTATTT
*
297410 CATCGGGGATACTCCAACCCCGTTATTT
1 -ATCGGGGATACTCCAACCCCATTATTT
297438 -TCGAGGGGATACTCCAACC
1 ATC--GGGGATACTCCAACC
297457 TCGACTTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
26 2 0.05
28 41 0.95
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (27 bp):
ATCGGGGATACTCCAACCCCATTATTT
Found at i:297448 original size:107 final size:107
Alignment explanation
Indices: 297309--297509 Score: 242
Period size: 107 Copynumber: 1.9 Consensus size: 107
297299 TCACAATTAC
* ** *
297309 GGATACTGAAACCCCGTCATTTCCGAAAGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAA
1 GGATACTCAAACCCCGTCATTTCCGAAAGGATACTCCAACCCCGACTTTATTTCCAAAACACTAA
*
297374 TTT-TCCACAATCGGGGATACTCCAACCCCATTATTTCATCGG
66 TTTCT-CACAATCAGGGATACTCCAACCCCATTATTTCATCGG
* * * ** * * * *
297416 GGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGACTTTATTTCCAAAATATTGA
1 GGATACTCAAACCCCGTCATTTCCGAAAGGATACTCCAACCCCGACTTTATTTCCAAAACACTAA
* *
297481 TTTCTCACAATTAGGGATACTTCAACCCC
66 TTTCTCACAATCAGGGATACTCCAACCCC
297510 GGTCTTATTT
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
107 76 0.99
108 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.29
Consensus pattern (107 bp):
GGATACTCAAACCCCGTCATTTCCGAAAGGATACTCCAACCCCGACTTTATTTCCAAAACACTAA
TTTCTCACAATCAGGGATACTCCAACCCCATTATTTCATCGG
Found at i:297519 original size:51 final size:51
Alignment explanation
Indices: 297463--297561 Score: 121
Period size: 51 Copynumber: 1.9 Consensus size: 51
297453 AACCTCGACT
* *
297463 TTATTTCCAAAAT-ATTGATTTCTCACAATTAGGGATACT-TCAACCCCGGTC
1 TTATTT-CAAAATCATCGATTTCTCACAATCAGGGATACTCT-AACCCCGGTC
* * *
297514 TTATTTCTAAATCATCGATTTTTCACAATCGGGGATACTCTAACCCCG
1 TTATTTCAAAATCATCGATTTCTCACAATCAGGGATACTCTAACCCCG
297562 TTATTTTTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 5 0.12
51 35 0.85
52 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.35
Consensus pattern (51 bp):
TTATTTCAAAATCATCGATTTCTCACAATCAGGGATACTCTAACCCCGGTC
Found at i:303585 original size:13 final size:13
Alignment explanation
Indices: 303567--303592 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
303557 ACATTTTGTG
303567 ATGTATCGATACA
1 ATGTATCGATACA
303580 ATGTATCGATACA
1 ATGTATCGATACA
303593 TATTGTGTGT
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:303609 original size:32 final size:33
Alignment explanation
Indices: 303545--303612 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
303535 CGTTACAAGC
*
303545 CAATGTATCAATACATTTTGTGATGTATCGATA
1 CAATGTATCAATACATATTGTGATGTATCGATA
*
303578 CAATGTATCGATACATATTGTG-TGTATCGATA
1 CAATGTATCAATACATATTGTGATGTATCGATA
303610 CAA
1 CAA
303613 ATTTAACTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (33 bp):
CAATGTATCAATACATATTGTGATGTATCGATA
Found at i:303670 original size:20 final size:20
Alignment explanation
Indices: 303645--303697 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
303635 CCAATGACTT
* **
303645 GTATCGATAGATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
303665 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
303685 GTATCGATACATT
1 GTATCGATACATT
303698 GTATCGATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:311290 original size:17 final size:16
Alignment explanation
Indices: 311269--311326 Score: 73
Period size: 16 Copynumber: 3.6 Consensus size: 16
311259 AGAGAAAGAG
*
311269 CAAAAAAAAACCAAAA
1 CAAAAAAAAAACAAAA
311285 CAAAAAAAAAACAAAA
1 CAAAAAAAAAACAAAA
*
311301 CAAAGAAAAAAAGAAAA
1 CAAA-AAAAAAACAAAA
311318 -AAAAGAAAA
1 CAAAA-AAAA
311327 GAACCTGCTT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
15 1 0.03
16 26 0.68
17 11 0.29
ACGTcount: A:0.84, C:0.10, G:0.05, T:0.00
Consensus pattern (16 bp):
CAAAAAAAAAACAAAA
Found at i:312601 original size:61 final size:62
Alignment explanation
Indices: 312478--312915 Score: 560
Period size: 62 Copynumber: 7.1 Consensus size: 62
312468 TCAGGACGCC
* * * ** * * *
312478 TTTCGAAGCCCACAGAAGCTGGTGGCATTTTTCTAGTCCTCAAAGGGTAGGACGCTTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* *
312541 TTT-AAAGCCCACACAAGTTGGTGACACCTTCTCGTCCTCAAAGAGCAGGACGCCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * * *
312602 TTT-AAAGCCCACACGAGCTGGTGGCACCTTTTTAGTCCTTAAAGAGCAGGACGCCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * * *
312664 TTTCGAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACACCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* *
312727 TTTCAAAGCCCACACAAGTTGGTGGCACC-TCTTAGTCCTCAAAGAGCAGGATGCCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTC-TAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * * *
312789 TTTCAAAGTCCACACGAGTTGGTGGCACCTTGTAGTCCTCAAAGAGTAGGACGCCTTTT-CT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * * *
312850 TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
312912 TTTC
1 TTTC
312916 TTCTTTATCC
Statistics
Matches: 331, Mismatches: 38, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
61 112 0.34
62 138 0.42
63 81 0.24
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (62 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
Found at i:312653 original size:123 final size:123
Alignment explanation
Indices: 312397--312915 Score: 611
Period size: 123 Copynumber: 4.3 Consensus size: 123
312387 TCCTTTCACC
**
312397 TTTTAGTCCTCAAAGAGCAGGACG------CC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
* * * * * *
312455 CAGTCTTCGAAGATCAGGACG-C----C-TTTCGAAGCCCACA-GAAGCTGGTGGCATT
66 TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACG-AGCTGGTGGCACT
* * * *
312507 TTTCTAGTCCTCAAAGGGTAGGACGCTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGACACCTT
1 TTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
*
312571 CTCGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACGAGCTGGTGGCACCT
65 CTAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACACGAGCTGGTGGCA-CT
* * *
312631 TTTTAGTCCTTAAAGAGCAGGACGCCTTTTCCTTTTCGAAGCCCACACAAGTTGGTGGCACTTTT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCAC-CTT
* * * *
312696 CTAGTCCTCAAAGAGCAGGACACCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACC
65 CTAGTCCTCAAAGAGCAGGACGCC-TTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACT
* * * * * *
312756 TCTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTCAAAGTCCACACGAGTTGGTGGCACCTTG
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
* *
312821 TAGTCCTCAAAGAGTAGGACGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACT
66 TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACT
*
312879 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTC
312916 TTCTTTATCC
Statistics
Matches: 349, Mismatches: 39, Indels: 29
0.84 0.09 0.07
Matches are distributed among these distances:
110 3 0.01
111 19 0.05
117 43 0.12
118 4 0.01
123 118 0.34
124 53 0.15
125 84 0.24
126 25 0.07
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (123 bp):
TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
TAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACGAGCTGGTGGCACT
Found at i:312975 original size:45 final size:45
Alignment explanation
Indices: 312923--313180 Score: 235
Period size: 45 Copynumber: 5.8 Consensus size: 45
312913 TTCTTCTTTA
*
312923 TCCTCAAAGAGCAGGGCACATTTCATTTCCTTCTTTTCCCTTTTG
1 TCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCCTTTTG
* * *
312968 TCTTCAAAGAGCAAGACACACTTT-ATTTTCC-TCTTCT-CC-TTTG
1 TCCTCAAAGAGCAGGACACA-TTTCA-TTTCCTTCTTTTCCCTTTTG
* * * * *
313011 TCCTCAAAGAGCAGGACACGTTCCATTTCCTTATCTTCCCCTTTTTA
1 TCCTCAAAGAGCAGGACACATTTCATTTCCTTCT-TTTCCC-TTTTG
* * * * *
313058 TCCTTAAAGAGCAGGGCATACTTCATTTCCTTCTTTTCCCTTTTT
1 TCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCCTTTTG
* * * *
313103 TCCTCAAACAGCAGGGCGCACTTT-ATTTTCTT-TTTT--CTTTTG
1 TCCTCAAAGAGCAGGACACA-TTTCATTTCCTTCTTTTCCCTTTTG
* *
313145 TCCTCAAAGAGCAGGACACATTTCCTTTCTTTCTTT
1 TCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTT
313181 GTCCTCGAAA
Statistics
Matches: 168, Mismatches: 34, Indels: 24
0.74 0.15 0.11
Matches are distributed among these distances:
41 3 0.02
42 34 0.20
43 27 0.16
44 7 0.04
45 52 0.31
46 15 0.09
47 30 0.18
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.41
Consensus pattern (45 bp):
TCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCCTTTTG
Found at i:313023 original size:88 final size:87
Alignment explanation
Indices: 312905--313164 Score: 242
Period size: 88 Copynumber: 2.9 Consensus size: 87
312895 GCAGGATGCC
* *
312905 TTTTCCTTTTCTTCTTTATCCTCAAAGAGCAGGGCACATTTCATTTCCTTCTTTTCCCTTTTGTC
1 TTTTCCTCTTCTCCTTTATCCTCAAAGAGCAGGGCACATTTCATTTCCTT-TTTTCCCTTTTGTC
* *
312970 TTCAAAGAGCAAGACACACTTTA
65 TTCAAAGAGCAGGACACACTTCA
* * * * * *
312993 TTTTCCTCTTCTCCTTTGTCCTCAAAGAGCAGGACACGTTCCATTTCCTTATCTTCCCCTTTTTA
1 TTTTCCTCTTCTCCTTTATCCTCAAAGAGCAGGGCACATTTCATTTCCTT-T-TTTCCC-TTTTG
* *
313058 TCCTT-AAAGAGCAGGGCATACTTCA
63 T-CTTCAAAGAGCAGGACACACTTCA
* * * * *
313083 -TTTCCTTCTTTTCCCTTTTTTCCTCAAACAGCAGGGCGCACTTT-ATTTTCTTTTTT--CTTTT
1 TTTTCC-TCTTCT-CC-TTTATCCTCAAAGAGCAGGGCACA-TTTCATTTCCTTTTTTCCCTTTT
*
313144 GTCCTCAAAGAGCAGGACACA
62 GTCTTCAAAGAGCAGGACACA
313165 TTTCCTTTCT
Statistics
Matches: 138, Mismatches: 26, Indels: 17
0.76 0.14 0.09
Matches are distributed among these distances:
86 2 0.01
87 18 0.13
88 46 0.33
89 10 0.07
90 28 0.20
91 6 0.04
92 26 0.19
93 2 0.01
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.41
Consensus pattern (87 bp):
TTTTCCTCTTCTCCTTTATCCTCAAAGAGCAGGGCACATTTCATTTCCTTTTTTCCCTTTTGTCT
TCAAAGAGCAGGACACACTTCA
Found at i:313184 original size:37 final size:37
Alignment explanation
Indices: 313127--313198 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 37
313117 GGCGCACTTT
*
313127 ATTTTCTTTTTTCTTTTGTCCTC-AAAGAGCAGGACAC
1 ATTTCCTTTTTTCTTTTGTCCTCGAAA-AGCAGGACAC
313164 ATTTCCTTTCTTTC-TTTGTCCTCGAAAAGCAGGAC
1 ATTTCCTTT-TTTCTTTTGTCCTCGAAAAGCAGGAC
313199 GTACTCTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.78
38 7 0.22
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.42
Consensus pattern (37 bp):
ATTTCCTTTTTTCTTTTGTCCTCGAAAAGCAGGACAC
Found at i:313265 original size:41 final size:40
Alignment explanation
Indices: 313206--313304 Score: 92
Period size: 41 Copynumber: 2.4 Consensus size: 40
313196 GACGTACTCT
* * * * *
313206 TTTTCACTATGTCTTCAAGAAACAGGACAC-TTTCCTTTTC
1 TTTTC-CTTTGTCCTCAAGAAACAAGACACATTTCATTCTC
* * *
313246 TTTCTTCCTTTGTCCTCAAGGAGCAAGACCCATTTCATTCTC
1 -TT-TTCCTTTGTCCTCAAGAAACAAGACACATTTCATTCTC
313288 TTTTCCTTTGTCCTCAA
1 TTTTCCTTTGTCCTCAA
313305 AAGTGGGACG
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
40 15 0.31
41 22 0.46
42 11 0.23
ACGTcount: A:0.20, C:0.28, G:0.10, T:0.41
Consensus pattern (40 bp):
TTTTCCTTTGTCCTCAAGAAACAAGACACATTTCATTCTC
Found at i:316550 original size:79 final size:79
Alignment explanation
Indices: 316249--316550 Score: 385
Period size: 79 Copynumber: 3.8 Consensus size: 79
316239 TCTTCATCTC
* * * * * *
316249 GGGGATACTCAAACCCTAGTTTTATTTTCAAAACATCAATTTTTCATAATTGAGGATACTCCAAT
1 GGGGATACTCTAACCCTGGTTTTATTTCCAAAACACCAATTTTTCATAATTGGGGATACTCCAAC
*
316314 CCTGTTATTT-TCGA
66 CCCGTTATTTCT-GA
* * * *
316328 AGGGACACT-TCAACCCTGGTTTTATTTCCAAAACATCAATTTTTCATAATTGGGGATACTGCAA
1 GGGGATACTCT-AACCCTGGTTTTATTTCCAAAACACCAATTTTTCATAATTGGGGATACTCCAA
*
316392 TCCCGTTATTTCTGA
65 CCCCGTTATTTCTGA
* * * **
316407 GGGGATACTCCAA-CCTCGATTTTATTCCCAAAACACCTTTTTTTCATAATTGGGGATACTCCAA
1 GGGGATACTCTAACCCT-GGTTTTATTTCCAAAACACCAATTTTTCATAATTGGGGATACTCCAA
316471 CCCCGTTATTTCTGA
65 CCCCGTTATTTCTGA
* *
316486 GGGGATACTCTAACCCTGGTTTTATTTCTAAAACACCAATTTTCCATAATTGGGGATACTCCAAC
1 GGGGATACTCTAACCCTGGTTTTATTTCCAAAACACCAATTTTTCATAATTGGGGATACTCCAAC
316551 TCCGATTTTA
Statistics
Matches: 193, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
78 3 0.02
79 186 0.96
80 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (79 bp):
GGGGATACTCTAACCCTGGTTTTATTTCCAAAACACCAATTTTTCATAATTGGGGATACTCCAAC
CCCGTTATTTCTGA
Found at i:316562 original size:51 final size:51
Alignment explanation
Indices: 316486--316603 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
316476 TTATTTCTGA
* * * * *
316486 GGGGATACTCTAACCCTGGTTTTATTTCTAAAACACC-AATTTTCCATAATT
1 GGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAAATTTT-CACAATC
316537 GGGGATACTCCAACTCC-GATTTTATTTCCAAAACACCAAATTTTCACAATC
1 GGGGATACTCCAAC-CCTGATTTTATTTCCAAAACACCAAATTTTCACAATC
* *
316588 GGGGATATTTCAACCC
1 GGGGATACTCCAACCC
316604 CATTATTTCA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 2 0.03
51 48 0.83
52 8 0.14
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAAATTTTCACAATC
Found at i:316620 original size:158 final size:158
Alignment explanation
Indices: 316458--316789 Score: 389
Period size: 158 Copynumber: 2.1 Consensus size: 158
316448 TTTCATAATT
* * *
316458 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCTAACC-CTGGTTTTATTTCTAAAACAC
1 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCAC-GGCTTTATTTCCAAAACAC
* ** * *
316522 CAATTT-TCCATAATTGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAAATTTTCACAA
65 CAATTTCT-CACAATCAGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAAATTTTCACAA
* * * **
316586 TCGGGGATATTTCAACCCCATTATTTCATC
129 TAGGGGATACTCCAACCCCATTATTTCAGA
* * **
316616 GGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCACGGCTTTATTTCCAAAATATT
1 GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCACGGCTTTATTTCCAAAACACC
* * * * * * * *
316681 GATTTCTCACAATCAGGGATACTTCAACCCCGGCTTTATTTCTAAATCATCGATTTTTCACAATA
66 AATTTCTCACAATCAGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAAATTTTCACAATA
* *
316746 GGGGATACTCCAACCCCGTTATTTCCGA
131 GGGGATACTCCAACCCCATTATTTCAGA
316774 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
316790 TGATTTTATT
Statistics
Matches: 145, Mismatches: 27, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
158 143 0.99
159 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (158 bp):
GGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCACGGCTTTATTTCCAAAACACC
AATTTCTCACAATCAGGGATACTCCAACCCCGACTTTATTTCCAAAACACCAAATTTTCACAATA
GGGGATACTCCAACCCCATTATTTCAGA
Found at i:316621 original size:28 final size:28
Alignment explanation
Indices: 316585--316658 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
316575 AATTTTCACA
* *
316585 ATCGGGGATATTTCAACCCCATTATTTC
1 ATCGGGGATACTCCAACCCCATTATTTC
*
316613 ATCGGGGATACTCCAACCCCGTTATTT-
1 ATCGGGGATACTCCAACCCCATTATTTC
* *
316640 TTGAGGGGATACTCCAACC
1 AT-CGGGGATACTCCAACC
316659 ACGGCTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.03
28 39 0.98
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCATTATTTC
Found at i:316761 original size:51 final size:52
Alignment explanation
Indices: 316643--316763 Score: 167
Period size: 51 Copynumber: 2.4 Consensus size: 52
316633 GTTATTTTTG
* *
316643 AGGGGATACTCCAACCACGGCTTTATTTCCAAAATATTGATTTCTCACAATC
1 AGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATCGATTTCTCACAATC
* * *
316695 A-GGGATACTTCAACCCCGGCTTTATTT-CTAAATCATCGATTTTTCACAAT-
1 AGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT-ATCGATTTCTCACAATC
316745 AGGGGATACTCCAACCCCG
1 AGGGGATACTCCAACCCCG
316764 TTATTTCCGA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
50 6 0.10
51 54 0.89
52 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (52 bp):
AGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATCGATTTCTCACAATC
Found at i:321832 original size:49 final size:49
Alignment explanation
Indices: 321661--323054 Score: 1281
Period size: 49 Copynumber: 28.7 Consensus size: 49
321651 AAATGGATGT
* * * * * *
321661 CAATGTGCTGATTCACGGTCAGCGATATTTAGACTTGAAGATGAGAAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT--GAAG-GTGC
* * ** * *
321714 CAATGTGTTGATTCAAGGCCAACGACATTAGGTTTTAAAGATGACGAAGGCGT
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGGTGC
* * * *
321767 TAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
321816 CAATGTGCTGAGTCAAGGCCAGCAACATTGGACTTAAAGATGATAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
321868 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
321917 CAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
321966 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGAAGAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGC
* * * *
322018 CAATATGCTGATTCAAGGCCAGCGATATCGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
322067 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
322119 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAATATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
322168 GAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAGGTGC
* * * * *
322220 CAATATGCTGATGCAAGGCTAACGATATTGGACTTAAAGAT-AAGGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAA-GGTGC
* *
322269 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGATGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * ** *
322318 CAATATGCTGATGCAAGGCCAGCAATACCGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
322367 CAATGTGCTGATTTAAGGCCAGCGACATTGGGC-T-----T--A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* ** *
322406 CAATGTGTTGATTCAAGGCCAATGACATTGGTCTTAAAGATGAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * ** *
322454 CAATATGCTGATTCAAGGCCAGCGATACCGAACTTAAAGATG-AGGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG-TGC
*
322503 CAATGTGCTGATTCAAGGCCAGCGACATTGGGC-T-----T--A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
322542 CAATGTGTTGATTCAAGGTCAACGACATTGGTCTTAAAGATGAA-GTAC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * **
322590 CAATATGCTGATTCAAGGCCAGCGATACCGGACTTAAAGATG-AGGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG-TGC
* *
322639 CAATGTGCTGATTCTAGGCCAGCGACATTGGGC-T-----T--A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
322678 CAATGTGTTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAA-GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * **
322726 CAATATGCTGATTCAAGGCCAGTGATACCGGACTTAAAGATG-AGGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG-TGC
* ** *
322775 CAATGTGCTGATTCAGGGCCAATGACATTGGGCTTAAAGATGACAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
322827 CAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
*
322876 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
322925 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
322974 CAATGTGCTGATTC-A----A-TGACATTGGTCTTAAAGATGACAAAGGCGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
323020 CAATATGCTGATTCAAGGCCAGCGATATTAGACTT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
323055 GTGCCAATAT
Statistics
Matches: 1098, Mismatches: 181, Indels: 125
0.78 0.13 0.09
Matches are distributed among these distances:
39 94 0.09
40 3 0.00
41 1 0.00
42 2 0.00
43 22 0.02
44 1 0.00
45 3 0.00
46 18 0.02
47 7 0.01
48 117 0.11
49 536 0.49
50 3 0.00
51 3 0.00
52 226 0.21
53 58 0.05
54 4 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:321876 original size:101 final size:98
Alignment explanation
Indices: 321661--323054 Score: 1281
Period size: 101 Copynumber: 14.4 Consensus size: 98
321651 AAATGGATGT
* * * * * * *
321661 CAATGTGCTGATTCACGGTCAGCGATATTTAGACTTGAAGATGAGAAGAATGCCAATGTGTTGAT
1 CAATGTGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGAT--GAAG-GTGCCAATGTGCTGAT
* ** * *
321726 TCAAGGCCAACGACATTAGGTTTTAAAGATGACGAAGGCGT
62 TCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGGTGC
* * * * *
321767 TAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGATGAAGGTGCCAATGTGCTGAGTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* *
321832 GGCCAGCAACATTGGACTTAAAGATGATAAAGGCGC
66 GGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
321868 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* *
321933 GGCCAACGACATTGGACTTAAAGATGAAGATGC
66 GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
321966 CAATGTGCTGATTCAAGGCTAGCGACATTGGTCTTAAAGATGAAGAAGGCGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATGTGCTGATT
* * *
322031 CAAGGCCAGCGATATCGGTCTTAAAGATGAAGGTGC
63 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
322067 CAATGTGCTGATTCAAGGCCAGCGACATTAGACTTAAAGATGACAAAGGTGCCAATATGCTGATT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGCCAATGTGCTGATT
* *
322132 CAAGGCCAGCGATATTGGACTTAAATATGAAGGTGC
63 CAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * * *
322168 GAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGGAATGTTAAAGATGCCAATATGCTGATG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAGGTGCCAATGTGCTGATT
* * *
322233 CAAGGCTAACGATATTGGACTTAAAGAT-AAGGGTGC
63 CAAGGCCAGCGACATTGGACTTAAAGATGAA-GGTGC
* * * *
322269 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGATGGTGCCAATATGCTGATGCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * ** *
322334 GGCCAGCAATACCGGACTTAAAGATGAAGATGC
66 GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
322367 CAATGTGCTGATTTAAGGCCAGCGACATTGGGC-T-----T--A--TGCCAATGTGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
** *
322422 GGCCAATGACATTGGTCTTAAAGATGAA-GTGC
66 GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * ** *
322454 CAATATGCTGATTCAAGGCCAGCGATACCGAACTTAAAGATG-AGGATGCCAATGTGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG-TGCCAATGTGCTGATTCA
*
322518 AGGCCAGCGACATTGGGC-T-----T--A--TGC
65 AGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * * *
322542 CAATGTGTTGATTCAAGGTCAACGACATTGGTCTTAAAGATGAA-GTACCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* **
322606 GGCCAGCGATACCGGACTTAAAGATG-AGGATGC
66 GGCCAGCGACATTGGACTTAAAGATGAAGG-TGC
* * *
322639 CAATGTGCTGATTCTAGGCCAGCGACATTGGGC-T-----T--A--TGCCAATGTGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
322694 GGCCAACGACATTAGTCTTAAAGATGAA-GTGC
66 GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * **
322726 CAATATGCTGATTCAAGGCCAGTGATACCGGACTTAAAGATG-AGGATGCCAATGTGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG-TGCCAATGTGCTGATTCA
* ** *
322790 GGGCCAATGACATTGGGCTTAAAGATGACAAAGGTGC
65 AGGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * * *
322827 CAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
*
322892 GGCCAGCGACATTGGACTTAAAGATGAAGATGC
66 GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* *
322925 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGATGCCAATGTGCTGATTC-A
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
322989 ----A-TGACATTGGTCTTAAAGATGACAAAGGCGC
66 GGCCAGCGACATTGGACTTAAAGATG---AAGGTGC
* * *
323020 CAATATGCTGATTCAAGGCCAGCGATATTAGACTT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
323055 GTGCCAATAT
Statistics
Matches: 1081, Mismatches: 153, Indels: 119
0.80 0.11 0.09
Matches are distributed among these distances:
87 88 0.08
88 114 0.11
89 4 0.00
91 2 0.00
92 19 0.02
93 4 0.00
94 3 0.00
95 36 0.03
96 2 0.00
97 105 0.10
98 184 0.17
99 4 0.00
100 4 0.00
101 439 0.41
102 31 0.03
103 6 0.01
104 2 0.00
105 11 0.01
106 23 0.02
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.25
Consensus pattern (98 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Done.