Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold124
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: 1034113
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 2 of 7
Found at i:139226 original size:20 final size:20
Alignment explanation
Indices: 139198--139253 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
139188 ATGTATCAAT
139198 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
139218 ACCATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
139238 ATAATGTATCGATACA
1 ACAATGTATCGATACA
139254 TCTGGGCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:143069 original size:13 final size:13
Alignment explanation
Indices: 143051--143075 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
143041 CATAAAGTGT
143051 TGTATCGATACAA
1 TGTATCGATACAA
143064 TGTATCGATACA
1 TGTATCGATACA
143076 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:143087 original size:33 final size:33
Alignment explanation
Indices: 143031--143097 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
143021 TTCAACGATT
*
143031 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
*** *
143064 TGTATCGATACATATTTTTTTGTATCAATACAA
1 TGTATCGATACATAAAGTGTTGTATCAATACAA
143097 T
1 T
143098 TTAAGCTACT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCAATACAA
Found at i:143156 original size:13 final size:13
Alignment explanation
Indices: 143138--143162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
143128 ATTACTCAAA
143138 TGTATCGATACAT
1 TGTATCGATACAT
143151 TGTATCGATACA
1 TGTATCGATACA
143163 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:143227 original size:52 final size:52
Alignment explanation
Indices: 143171--143299 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
143161 CACTGATCTT
* *
143171 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACACTATAAAA
* *
143223 TGTATCGATACATGCAGGCAAATTTACCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACACTATAAAA
*
143275 TGTATCGATACATGCAGGTAAATTT
1 TGTATCGATACATGCAGGCAAATTT
143300 TCATATTTCG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTACCCAAATGTATCGATACACTATAAAA
Found at i:146498 original size:146 final size:145
Alignment explanation
Indices: 146225--146508 Score: 358
Period size: 146 Copynumber: 1.9 Consensus size: 145
146215 ACCATTGAAG
* * *
146225 ATCAATTAGATGGGCGATTCATCTGCTGATCTTCCCCTTTTAATCAACACACTTCCCATCATGCC
1 ATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCTTTCAAT-AACACACTTCCCACCATGCC
* **
146290 ATAGAAATCCCCAATCGCGAGGGATATTAAGTCGAGCGTGCCTCATTTGCCCTATCGCTGGGGTC
65 ATAGAAATCCCCAATCACGAGGGATATTAAGTCGAGCACGCCTCATTTGCCCTATCGCTGGGGTC
*
146355 GAGCGCACGTTACGAC
130 GAACGCACGTTACGAC
* * * **
146371 ATCAGTTAGATGGGCGATTCATCTACTGATCTTCCCCATTTCAAT-ACATATTTCTTACCATGCC
1 ATCAATTAGATGGGCGATTCATCTACTGATCTTCCCC-TTTCAATAACACACTTCCCACCATGCC
* * * *
146435 ATAGGAATCCCCAAATCATGAAGGG-TATTAAGTC-AGGCACGCCTCATTTTCCCTATCGTTGGG
65 ATAGAAATCCCC-AATCACG-AGGGATATTAAGTCGA-GCACGCCTCATTTGCCCTATCGCTGGG
146498 GTCGAACGCAC
127 GTCGAACGCAC
146509 ATCGCGACAG
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
145 26 0.22
146 82 0.69
147 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (145 bp):
ATCAATTAGATGGGCGATTCATCTACTGATCTTCCCCTTTCAATAACACACTTCCCACCATGCCA
TAGAAATCCCCAATCACGAGGGATATTAAGTCGAGCACGCCTCATTTGCCCTATCGCTGGGGTCG
AACGCACGTTACGAC
Found at i:149490 original size:158 final size:154
Alignment explanation
Indices: 149112--149926 Score: 658
Period size: 156 Copynumber: 5.2 Consensus size: 154
149102 ACGAGAAGAG
* * * * * * *
149112 GAACCTATCCCT-AATACCCACTTTCGGCATAAAAGC-GAACCTAGTGGCAACCTAAGA-ATTGA
1 GAACCTAT-CCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGA-TGACAACCTAGGAGA-CGA
* * * *
149174 TTCTAAAAAATTACGAAATACCCCTATAGGTATACCTTCGACATGAAAGTATCTCGGTAACCCTA
63 TTTTAAAAAATTACTAAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTA
* * *
149239 AAGGACTTAAAAGGTATAGAGATGGGAT
128 AAGGACCTAAAAGAT-TAGAGATAGGAT
* * * * * **
149267 GAACCTATCCTAAATGCCCATCTTCAGCATAGAAGC-GAACCTAGTGACAACCTAGGAGATAATT
1 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGA-TGACAACCTAGGAGACGATT
* *
149331 TTAGAAAAATTACTCAAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCCCAGTAACCCTA
65 TTA-AAAAATTACT-AAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTA
** **
149396 GTGGACACTAAAGAGGCTAGAGATAGGAT
128 AAGGAC-CTAAA-AGATTAGAGATAGGAT
* *** *
149425 GAACCTATCCTAAATGCTCACCTTCGGCATAAAAGCAGAGTTGACGACAACCTAGGAGACGATTT
1 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGATGACAACCTAGGAGACGA-TT
* * * *
149490 TTAAAAAAATTACTAAACTGCCCCTATGGATATACCTTCGACGTGAAAGTATCTCGATAACCTTA
65 TT-AAAAAATTACTAAA-TACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTA
** * * *
149555 GTGAACACTAAAAGATTATAGATGGGAT
128 AAGGAC-CTAAAAGATTAGAGATAGGAT
* * * * * *
149583 GAACCTATACTAAATGCCCACATTTGGCATAAAAGCAGACCCGGTGACAACCTAGGAAACGATTC
1 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGATGACAACCTAGGAGACGATTT
* * * * *
149648 TAAAAAATTA-TGAAAATGCCCTTATGGGTATACCTTCGATGTGAAAGTATCTTGGTACCCCTAA
66 TAAAAAATTACT--AAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTAA
* * * *
149712 AGGACTTAAAAAGATTATAAATAAGAT
129 AGGACCT-AAAAGATTAGAGATAGGAT
* * * ** *
149739 AAACCTATCCTAAATGCCCACCTTCGGCATGAAAA-CAGACTCGGTGACAACCTAGGACTCGGTT
1 GAACCTATCCTAAATGCCCACCTTCGGCAT-AAAAGCAGACCCGATGACAACCTAGGAGACGATT
* * * * * * * * * ** *
149803 CTAAAAAATTACGAAATGCTCATA-GGGGATACTTTCGACAT-AGAACTGCCT-GATAACCCTAA
65 TTAAAAAATTACTAAATACCCCTATGGGTATACCTTCGACGTGA-AAGTATCTCGGTAACCCTAA
* * * * * *
149865 AAGACTTAAAAAGATTATAGCTGGGGT
129 AGGACCT-AAAAGATTAGAGATAGGAT
* *
149892 GAACCTATCCTAAATACTCACCTTCGGCATAAAAG
1 GAACCTATCCTAAATGCCCACCTTCGGCATAAAAG
149927 TGAACCCGGT
Statistics
Matches: 548, Mismatches: 95, Indels: 36
0.81 0.14 0.05
Matches are distributed among these distances:
152 4 0.01
153 58 0.11
154 21 0.04
155 63 0.11
156 140 0.26
157 60 0.11
158 129 0.24
159 72 0.13
160 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (154 bp):
GAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCGATGACAACCTAGGAGACGATTT
TAAAAAATTACTAAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTAAAG
GACCTAAAAGATTAGAGATAGGAT
Found at i:149744 original size:156 final size:155
Alignment explanation
Indices: 149112--150018 Score: 633
Period size: 156 Copynumber: 5.8 Consensus size: 155
149102 ACGAGAAGAG
* * * * **
149112 GAACCTATCCCT-AATACCCACTTTCGGCATAAAAGC-GAACCTAGTGGCAACCTAAGAATTGAT
1 GAACCTAT-CCTAAATGCCCAC-TTCGGCATAAAAGCAG-ACCTGGTGACAACCTAGGAAACGAT
* * *
149175 TCTAAAAAATTACG-AAATACCCCTATAGGTATACCTTCGACATGAAAGTATCTCGGTAACCCTA
63 TCTAAAAAATTATGAAAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTA
* * *
149239 AAGGAC-TTAAAAG-GTATAGAGATGGGAT
128 AAGGACACTAAAAGATTATA-A-ATAGGAT
* * * * **
149267 GAACCTATCCTAAATGCCCATCTTCAGCATAGAAGC-GAACCTAGTGACAACCTAGGAGATAATT
1 GAACCTATCCTAAATGCCCA-CTTCGGCATAAAAGCAG-ACCTGGTGACAACCTAGGAAACGATT
* * * *
149331 TTAGAAAAATTACT-CAAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCCCAGTAACCCT
64 CTA-AAAAATTA-TGAAAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCT
** ** * *
149395 AGTGGACACTAAAGAGGCTAGAGATAGGAT
127 AAAGGACACTAAA-AGATTATAAATAGGAT
* ** ** *
149425 GAACCTATCCTAAATGCTCACCTTCGGCATAAAAGCAGAGTTGACGACAACCTAGGAGACGATTT
1 GAACCTATCCTAAATGCCCA-CTTCGGCATAAAAGCAGACCTGGTGACAACCTAGGAAACGA-TT
* * * * * *
149490 TTAAAAAAATTACT-AAACTGCCCCTATGGATATACCTTCGACGTGAAAGTATCTCGATAACCTT
64 CT-AAAAAATTA-TGAAAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCT
** * * *
149554 AGTGAACACTAAAAGATTATAGATGGGAT
127 AAAGGACACTAAAAGATTATAAATAGGAT
* * *
149583 GAACCTATACTAAATGCCCACATTTGGCATAAAAGCAGACCCGGTGACAACCTAGGAAACGATTC
1 GAACCTATCCTAAATGCCCAC-TTCGGCATAAAAGCAGACCTGGTGACAACCTAGGAAACGATTC
* * * * *
149648 TAAAAAATTATGAAAATGCCCTTATGGGTATACCTTCGATGTGAAAGTATCTTGGTACCCCTAAA
65 TAAAAAATTATGAAAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTAAA
* *
149713 GGAC-TTAAAAAGATTATAAATAAGAT
130 GGACACT-AAAAGATTATAAATAGGAT
* ** *
149739 AAACCTATCCTAAATGCCCACCTTCGGCATGAAAA-CAGA-CTCGGTGACAACCTAGGACTCGGT
1 GAACCTATCCTAAATGCCCA-CTTCGGCAT-AAAAGCAGACCT-GGTGACAACCTAGGAAACGAT
* * * * * * * * ** *
149802 TCTAAAAAATTACG-AAATGCTCATA-GGGGATACTTTCGACAT-AGAACTGCCT-GATAACCCT
63 TCTAAAAAATTATGAAAATACCCCTATGGGTATACCTTCGACGTGA-AAGTATCTCGGTAACCCT
* * ** * *
149863 AAAAGAC-TTAAAAAGATTATAGCTGGGGT
127 AAAGGACACT-AAAAGATTATAAATAGGAT
* * * * * * * *
149892 GAACCTATCCTAAATACTCACCTTCGGCATAAAAG-TGAACCCGGTGACAACTTAAGACACGGTT
1 GAACCTATCCTAAATGCCCA-CTTCGGCATAAAAGCAG-ACCTGGTGACAACCTAGGAAACGATT
* * * * * ** *** *
149956 CTAAAATATCACGAAAATGCCTCTATAAGTATACCTTCGACACAAAAGTATCTCGATAACCCT
64 CTAAAAAATTATGAAAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCT
150019 TGTAGACACT
Statistics
Matches: 611, Mismatches: 116, Indels: 49
0.79 0.15 0.06
Matches are distributed among these distances:
152 5 0.01
153 89 0.15
154 30 0.05
155 81 0.13
156 150 0.25
157 59 0.10
158 122 0.20
159 71 0.12
160 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (155 bp):
GAACCTATCCTAAATGCCCACTTCGGCATAAAAGCAGACCTGGTGACAACCTAGGAAACGATTCT
AAAAAATTATGAAAATACCCCTATGGGTATACCTTCGACGTGAAAGTATCTCGGTAACCCTAAAG
GACACTAAAAGATTATAAATAGGAT
Found at i:150597 original size:22 final size:23
Alignment explanation
Indices: 150553--150597 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
150543 CTAAATAATT
*
150553 AAAATACAAAATTAAGCATCAAA
1 AAAATACAAAATTAAGCAACAAA
150576 AAAAT-CAAAATT-AGCACACAAA
1 AAAATACAAAATTAAGCA-ACAAA
150598 TCAAATCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 4 0.20
22 11 0.55
23 5 0.25
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (23 bp):
AAAATACAAAATTAAGCAACAAA
Found at i:151067 original size:18 final size:18
Alignment explanation
Indices: 151040--151074 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
151030 CATAAAGGTC
151040 CTAAAAATGT-TAAAATG
1 CTAAAAATGTCTAAAATG
151057 CTAAAATATGTCTAAAAT
1 CTAAAA-ATGTCTAAAAT
151075 TCATGAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (18 bp):
CTAAAAATGTCTAAAATG
Found at i:152420 original size:166 final size:164
Alignment explanation
Indices: 152168--152649 Score: 492
Period size: 165 Copynumber: 2.9 Consensus size: 164
152158 TATTATACGT
* * * * * * *
152168 AAAAAAATCAAAAA-TTAAG-AAATAAATTAAATTTTGCAAAACTGATTTATTAGGGATTTAATA
1 AAAAAAATGAAAAACTTATGAAAATAAATT-AATTTTTCAAAACTGATTTAATATGAATTAAATA
* * *
152231 GC-AATATTAGATGAATTTTAAAAATTTTAAGCAGAGAAAAATCCCCTCGAAAACATTTATGGAG
65 -CTAATATTTGATGAATTTTAAAAATTTTAAACA-AGAAAAATCCTCTCGAAAACATTTATGGAG
* * * * *
152295 TAGAAAATTTTATTTTTCGAAAACAGGGAAATTTCGA-
128 AAGAAAACTCTGTATTTCGAAAACAGGG-AATTTCGAG
* ** *
152332 ATAAAATATTCAAAACTTATGAAAATAAATTAATTTTTCAAAAATGATTTAATATGAATTAAATA
1 A-AAAAAATGAAAAACTTATGAAAATAAATTAATTTTTCAAAACTGATTTAATATGAATTAAATA
* * * * *
152397 CTAATATTTGATAAATTTTAAAAA-TTAAAACCAAGAAAAATCCTTTCGAAAACATTTACGGAGC
65 CTAATATTTGATGAATTTTAAAAATTTTAAA-CAAGAAAAATCCTCTCGAAAACATTTATGGAGA
* * * *
152461 AGAAAACTCCGTATTTCAAAAATAAGGGAGTTTCGAG
129 AGAAAACTCTGTATTTCGAAAA-CAGGGAATTTCGAG
* * * * * * *
152498 AAAAAAATGAAAAACTTATGAAGATGAGTAAATTTTTGAAAACTGAATTAATATGAATTAAATAA
1 AAAAAAATGAAAAACTTATGAAAATAAATTAATTTTTCAAAACTGATTTAATATGAATTAAATAC
* * *
152563 TAATATTTGATGAATTTTAGAAATTTTAAA-AAAATGAAAATCCTCTC-AAAAAATTTATGGAGA
66 TAATATTTGATGAATTTTAAAAATTTTAAACAAGA--AAAATCCTCTCGAAAACATTTATGGAGA
152626 AGAAAACTCTGTATTTCGAAAACA
129 AGAAAACTCTGTATTTCGAAAACA
152650 AAAGGATTCT
Statistics
Matches: 260, Mismatches: 48, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
164 5 0.02
165 172 0.66
166 74 0.28
167 9 0.03
ACGTcount: A:0.49, C:0.09, G:0.12, T:0.31
Consensus pattern (164 bp):
AAAAAAATGAAAAACTTATGAAAATAAATTAATTTTTCAAAACTGATTTAATATGAATTAAATAC
TAATATTTGATGAATTTTAAAAATTTTAAACAAGAAAAATCCTCTCGAAAACATTTATGGAGAAG
AAAACTCTGTATTTCGAAAACAGGGAATTTCGAG
Found at i:154925 original size:127 final size:126
Alignment explanation
Indices: 154700--154936 Score: 296
Period size: 127 Copynumber: 1.9 Consensus size: 126
154690 AAGCTAAAGA
* * * * * * * *
154700 GTAGATAAAAAATGAGGTAGTCTTTTGGGTCTGAGCCGATGGGCCGACAAATGATAAAGAAATCT
1 GTAGATAAAAAATGAAGAAGTCTTTCGAGTCTGAACCGACGGGCCAACAAACGATAAAGAAATCT
* * * *
154765 CCCAAGTCTGAGCCGAAGGGTAGATAAAGGATAAAGAAGTCTCCTGAGTTTGAGCTGATAG
66 CCCAAGTCTGAGCCGAAGAGCAAACAAAGGATAAAGAAGTCTCCTGAGTTTGAGCTGATAG
*
154826 GTAGATAAAAAGATGAAGAAGTCTTTCGAGTCTGAACCGACGGGCCAACAAACGATGAAGAAATC
1 GTAGATAAAAA-ATGAAGAAGTCTTTCGAGTCTGAACCGACGGGCCAACAAACGATAAAGAAATC
** * *
154891 TCCCGGGTCTGAGCTGACGAGCAAACATAA-GATAAAGAAGTCTCCT
65 TCCCAAGTCTGAGCCGAAGAGCAAACA-AAGGATAAAGAAGTCTCCT
154937 AGGCTTAAGC
Statistics
Matches: 92, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
126 11 0.12
127 79 0.86
128 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.21
Consensus pattern (126 bp):
GTAGATAAAAAATGAAGAAGTCTTTCGAGTCTGAACCGACGGGCCAACAAACGATAAAGAAATCT
CCCAAGTCTGAGCCGAAGAGCAAACAAAGGATAAAGAAGTCTCCTGAGTTTGAGCTGATAG
Found at i:155819 original size:42 final size:42
Alignment explanation
Indices: 154056--155870 Score: 663
Period size: 42 Copynumber: 43.2 Consensus size: 42
154046 AGGTTGCTCG
* * *
154056 GGTCTGAGTCGACAGGCAGACAAAAGATATAGAAGTCT-CCT
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * * * *
154097 GGGCCTGAGCCAATGGGCAGACAAATGATGAAGAAGTCTCTCG
1 -GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* ** * * * *
154140 GGTCGGAGCTAACGGGCCGACAAAAGATGAAGAAGTCTCGCG
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * *
154182 GGTCTAAGCTGACAGGCAGACAAAAGATGAAGAAGTCT-CCA
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * *
154223 AGTCTAAGCCGACGGGCCGACAAATGATAAAGAAATCT-CCT
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * * * * *
154264 AAGTTTGAGCCGACAGGCAAACAAAGGATAAAGAAGGCCCCCG
1 -GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * *
154307 GGCCTGAGTCGATGGGCCGA-AAAATGATAAAGAAG--TCCCT
1 GGTCTGAGCCGACGGGCAGACAAAA-GATAAAGAAGTCTCCCT
* * * * * *
154347 CGAGTCTGAGCCGACGGACAGACAAAAAATGAAGAAATCTCTCA
1 -G-GTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * ** * * * * *
154391 GGTATGTGCTAACGGGCTGACAAATGATAAAAAAGTCTCTCG
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * ** * *
154433 GGTCTAAGTCGATAGGTAGACAAAAAGATGAAA-AAG--TCCTT
1 GGTCTGAGCCGACGGGCAGAC-AAAAGAT-AAAGAAGTCTCCCT
* * * * * *
154474 GGGTCTGTGCCGATGGGCCGACAAATGGTAAAGAAGTCTCCCG
1 -GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * *
154517 GGTCTAAGCTGACGGGAAGACAAAACATAAAGATGTCTCCC-
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
*
154558 GAG-CTTGAGCCGACGGGTAGACAAAAGATAAAGAAGTCT-CCT
1 G-GTC-TGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * * *
154600 GGGCCTGAGCCAACGGGCAGACAAAAAATAAAAAAGTCTCTCA
1 -GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * * * * *
154643 AGTTTGAGCCGACAGGCCGACAGAAGATAAAAAAGTCTCACG
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * ** * * * * * * * * **
154685 GGCCTAAGCTAAAGAGTAGATAAAAAATGAGGTAGTCT-TTT
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * *
154726 GGGTCTGAGCCGATGGGCCGACAAATGATAAAGAAATCTCCCA
1 -GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * *
154769 AGTCTGAGCCGAAGGGTAGATAAAGGATAAAGAAGTCT-CCT
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * ** * * * **
154810 GAGTTTGAGCTGATAGGTAGATAAAAAGATGAAGAAGTCTTTC-
1 G-GTCTGAGCCGACGGGCAGA-CAAAAGATAAAGAAGTCTCCCT
* * * * *
154853 GAGTCTGAACCGACGGGCCA-ACAAACGATGAAGAAATCTCCCG
1 G-GTCTGAGCCGACGGG-CAGACAAAAGATAAAGAAGTCTCCCT
* * * *
154896 GGTCTGAGCTGACGAGCAAACATAAGATAAAGAAGTCT-CCT
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* ** * * *
154937 AGG-CTTAAGCCGTTGGGCAAACAAACGATAAAGAAGTCTCCCA
1 -GGTC-TGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * **
154980 AGTCTAAGCCGATAGGCAGACAAAAGATAAAGAAGTCTCCC-
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * *
155021 GAGTCTAAGCCAACGGGCCGACAAAAAATAAAGAAATCTCCC-
1 G-GTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
*** * * * **
155063 AAACTTGAGCCGATGGGCAGAAAAAAGAT-AAGAAAGTAT-TTT
1 GGTC-TGAGCCGACGGGCAGACAAAAGATAAAG-AAGTCTCCCT
* * * * * *
155105 AGGTCTAAGCTGACAGGTC-GATAAATGATAAAGAAGTCTCTC-
1 -GGTCTGAGCCGAC-GGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * *
155147 GAGTCTAAGCCGACGGGCAGAGAAAAGATGAAGAAGTCTCTC-
1 G-GTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * *
155189 GAGTCTAAGCCGATGGGTC-GACAAATGATAAAGAAGTCTCCCG
1 G-GTCTGAGCCGACGGG-CAGACAAAAGATAAAGAAGTCTCCCT
* * * * * **
155232 GGTCAGAGCTGATGGTCAAAC-AAAGAATAAAGAAGTCTACAAT
1 GGTCTGAGCCGACGGGCAGACAAAAG-ATAAAGAAGTCT-CCCT
* * * * * ** * *
155275 -TTTTAAGACAATAGGCAGACAAAGGATAAAGAAGTCT-TCT
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * * *
155315 GGGTCAGAGCTGACGGGCAAATAAAAGATGAAA-AAGTCTCTCG
1 -GGTCTGAGCCGACGGGCAGACAAAAGAT-AAAGAAGTCTCCCT
* * * * * * * **
155358 GGTTTGAGCTGACGAGTCA-ACAGATGATGAAGAAATCTATC-
1 GGTCTGAGCCGACG-GGCAGACAAAAGATAAAGAAGTCTCCCT
* * *
155399 GGATTTGAGCTGACGGGCAAACAAAAGATGAAA-AAGTCTCCC-
1 GG-TCTGAGCCGACGGGCAGACAAAAGAT-AAAGAAGTCTCCCT
* ** * * *
155441 GAGTCTGAGCCGACAGGCCTACAAATGATAAAGAAGT-TCTTCA
1 G-GTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTC-CCT
* * * ** * * *
155484 GGCCTTAGCCAACAAGCAAACAAAGGATAAAGAAGTCTCCCG
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * *
155526 GGTCTAAGCCGACGGGCAGACAACAGATAAAGAAGTCTCTC-
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * * *
155567 GAGCCTGAGCCGATGGGCAGATAAAAGATGAATAAGTCTCCCA
1 G-GTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * *
155610 GGAT-TGAGCTGACGGGCCGACAAATGATAAAGAAGTCT-CCT
1 GG-TCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * * * * *
155651 AGGTTTGAGTCAATGGGCAGACAATAGATAAAAAAGTCTCTCA
1 -GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * * * * * *
155694 GGTCTGAACCGACGGGTATACAAAGGGATGAATAATTCT-CCA
1 GGTCTGAGCCGACGGGCAGACAAA-AGATAAAGAAGTCTCCCT
** * * *
155736 GAGTCTGAGCTAACGGGAAGATAAAAGATAAAAAAGTCTCCCT
1 G-GTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * *
155779 GGTCTGAGTCGACGGGCAGAAAAAAGATAAAGAAGTCTCCCA
1 GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
* * * *
155821 AGTCTGAGTCGATGGG-ATGA-AAAATGATAAAAAAAGTCTCCC-
1 GGTCTGAGCCGACGGGCA-GACAAAA-GAT-AAAGAAGTCTCCCT
155863 GAGTCTGA
1 G-GTCTGA
155871 ATCAACCGAC
Statistics
Matches: 1300, Mismatches: 397, Indels: 151
0.70 0.21 0.08
Matches are distributed among these distances:
40 7 0.01
41 92 0.07
42 1060 0.82
43 133 0.10
44 8 0.01
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (42 bp):
GGTCTGAGCCGACGGGCAGACAAAAGATAAAGAAGTCTCCCT
Found at i:155861 original size:127 final size:127
Alignment explanation
Indices: 155503--155870 Score: 354
Period size: 127 Copynumber: 2.9 Consensus size: 127
155493 CAACAAGCAA
* * * * * *
155503 ACAAAGGATAAAGAAGTCTCCCGGGTCTAAGCCGACGGGCAGACAACAGATAAAGAAGTCTCTCG
1 ACAAAAGATAAAGAAGTCTCCCTGGTCTGAGTCGACGGGCAGACAAAAGATAAAGAAGTCTCTCA
* * * **
155568 AGCCTGAGCCGATGGGCA-GATAAAAGATGAATAAGTCTCCCAG-GAT-TGAGCTGACGGGCCG
66 AGTCTGAGCCGATGGGCATGACAAAAGATGAATAAGTCT-CCAGAG-TCTGAGCTAACGGGAAG
* * * * * *
155629 ACAAATGATAAAGAAGTCT-CCTAGGTTTGAGTCAATGGGCAGACAATAGATAAAAAAGTCTCTC
1 ACAAAAGATAAAGAAGTCTCCCT-GGTCTGAGTCGACGGGCAGACAAAAGATAAAGAAGTCTCTC
* * * * * *
155693 AGGTCTGAACCGACGGGTAT-ACAAAGGGATGAATAATTCTCCAGAGTCTGAGCTAACGGGAAG
65 AAGTCTGAGCCGATGGGCATGACAAA-AGATGAATAAGTCTCCAGAGTCTGAGCTAACGGGAAG
* * * *
155756 ATAAAAGATAAAAAAGTCTCCCTGGTCTGAGTCGACGGGCAGAAAAAAGATAAAGAAGTCTCCCA
1 ACAAAAGATAAAGAAGTCTCCCTGGTCTGAGTCGACGGGCAGACAAAAGATAAAGAAGTCTCTCA
* * * *
155821 AGTCTGAGTCGATGGG-ATGA-AAAATGATAAAAAAAGTCTCCCGAGTCTGA
66 AGTCTGAGCCGATGGGCATGACAAAA-GAT-GAATAAGTCTCCAGAGTCTGA
155871 ATCAACCGAC
Statistics
Matches: 193, Mismatches: 40, Indels: 17
0.77 0.16 0.07
Matches are distributed among these distances:
125 2 0.01
126 82 0.42
127 106 0.55
128 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.18
Consensus pattern (127 bp):
ACAAAAGATAAAGAAGTCTCCCTGGTCTGAGTCGACGGGCAGACAAAAGATAAAGAAGTCTCTCA
AGTCTGAGCCGATGGGCATGACAAAAGATGAATAAGTCTCCAGAGTCTGAGCTAACGGGAAG
Found at i:156628 original size:89 final size:90
Alignment explanation
Indices: 156534--156963 Score: 546
Period size: 89 Copynumber: 4.8 Consensus size: 90
156524 GTGTGGGAAG
* * *
156534 CACCCTTG-CCCAAGGAAATCAGGCTTTGTGATGCATTAATACCATTTAGTGGTTGGATGAAGGG
1 CACCCTTGCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGG
*
156598 GATATGATTGGGGATGTGTGGACTA
66 GATATGATTGGGGATGTGTGGGCTA
* * * * * *
156623 TACCC-TACCCTAAGGAAATCAAGCTTTATGATGCATCAATACCATCTAATGGTTGGATGAAAGG
1 CACCCTTGCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGG
* *
156687 GATATGATTAGGGATGTCTGGGCTA
66 GATATGATTGGGGATGTGTGGGCTA
* * * *
156712 CA-CCTGGCCCCAAGAAAATCAAGCTTTGTGATGCATCAATACCATTTAGTGGTTGGATGAAGGA
1 CACCCTTGCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGG
156776 GATATGATTGGGAGATGTGTGGGCTA
66 GATATGATTGGG-GATGTGTGGGCTA
* * * ** **
156802 CACCC-TGCCCCAAAGAAATCAGGCTTTGTGATGCATCAATACTATCTAGTGGTTCTATGAAAAG
1 CACCCTTGCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGG
* *
156866 GATATGATTGGGGATGTATAGGCTA
66 GATATGATTGGGGATGTGTGGGCTA
* * * *
156891 CA-CCTTGCCCCAAGAAAATCAAGTTTTGTGACGCATCAATACCATCTAGTGGTTAGATGAAGGG
1 CACCCTTGCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGG
*
156955 GATTTGATT
66 GATATGATT
156964 AGGTATATGT
Statistics
Matches: 288, Mismatches: 48, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
88 5 0.02
89 207 0.72
90 74 0.26
91 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (90 bp):
CACCCTTGCCCCAAGGAAATCAAGCTTTGTGATGCATCAATACCATCTAGTGGTTGGATGAAGGG
GATATGATTGGGGATGTGTGGGCTA
Found at i:156892 original size:179 final size:178
Alignment explanation
Indices: 156542--156963 Score: 610
Period size: 179 Copynumber: 2.4 Consensus size: 178
156532 AGCACCCTTG
* * *
156542 CCCAAGGAAATCAGGCTTTGTGATGCATTAATACCATTTAGTGGTTGGATGAAGGGGATATGATT
1 CCCAAGAAAATCAAGCTTTGTGATGCATCAATACCATTTAGTGGTTGGATGAAGGGGATATGATT
* * *
156607 GGGGATGTGTGGACTATACCCTACCCTAAGGAAATCAAGCTTTATGATGCATCAATACCATCTAA
66 GGGGATGTGTGGACTACACCCTACCCCAAAGAAATCAAGCTTTATGATGCATCAATACCATCTAA
* * * *
156672 TGGTTGGATGAAAGGGATATGATTAGGGATGTCTGGGCTACACCTGGC
131 TGGTTCGATGAAAAGGATATGATTAGGGATGTATAGGCTACACCTGGC
*
156720 CCCAAGAAAATCAAGCTTTGTGATGCATCAATACCATTTAGTGGTTGGATGAAGGAGATATGATT
1 CCCAAGAAAATCAAGCTTTGTGATGCATCAATACCATTTAGTGGTTGGATGAAGGGGATATGATT
* * * * *
156785 GGGAGATGTGTGGGCTACACCCTGCCCCAAAGAAATCAGGCTTTGTGATGCATCAATACTATCTA
66 GGG-GATGTGTGGACTACACCCTACCCCAAAGAAATCAAGCTTTATGATGCATCAATACCATCTA
* * * *
156850 GTGGTTCTATGAAAAGGATATGATTGGGGATGTATAGGCTACACCTTGC
130 ATGGTTCGATGAAAAGGATATGATTAGGGATGTATAGGCTACACCTGGC
* * * * *
156899 CCCAAGAAAATCAAGTTTTGTGACGCATCAATACCATCTAGTGGTTAGATGAAGGGGATTTGATT
1 CCCAAGAAAATCAAGCTTTGTGATGCATCAATACCATTTAGTGGTTGGATGAAGGGGATATGATT
156964 AGGTATATGT
Statistics
Matches: 217, Mismatches: 26, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
178 64 0.29
179 153 0.71
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (178 bp):
CCCAAGAAAATCAAGCTTTGTGATGCATCAATACCATTTAGTGGTTGGATGAAGGGGATATGATT
GGGGATGTGTGGACTACACCCTACCCCAAAGAAATCAAGCTTTATGATGCATCAATACCATCTAA
TGGTTCGATGAAAAGGATATGATTAGGGATGTATAGGCTACACCTGGC
Found at i:158740 original size:17 final size:16
Alignment explanation
Indices: 158719--158761 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
158709 TTATTTCTTC
*
158719 ATCTTTTTCATTTTTTT
1 ATCTTTTTC-CTTTTTT
*
158736 TTCTTTTTTCCTTTTTT
1 ATC-TTTTTCCTTTTTT
158753 ATCTTTTTC
1 ATCTTTTTC
158762 TTCACTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 6 0.27
17 10 0.45
18 6 0.27
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (16 bp):
ATCTTTTTCCTTTTTT
Found at i:163522 original size:63 final size:63
Alignment explanation
Indices: 163438--163559 Score: 199
Period size: 63 Copynumber: 1.9 Consensus size: 63
163428 GATCTTCCCC
*
163438 TTTTCAACACATATCTCTTACCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGTTGGT
1 TTTTCAACACATACCTCTTACCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGTTGGT
* * * *
163501 TTTTCAACATATACCTTTTACCATGCCATAGAAATTCCTAATCACGAGGGATATTAAGT
1 TTTTCAACACATACCTCTTACCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGT
163560 CGGGCACATC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 54 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (63 bp):
TTTTCAACACATACCTCTTACCATGCCATAGAAATCCCCAATCACGAGGGATATTAAGTTGGT
Found at i:166517 original size:156 final size:155
Alignment explanation
Indices: 166331--167237 Score: 664
Period size: 155 Copynumber: 5.8 Consensus size: 155
166321 ACGAGAAGAG
* ** * *
166331 GAACCTATCCCT-AATACCCACTTTTGGCATAAAAGCAGACCCGGTGGCAACCTAGGA-ATTTAT
1 GAACCTAT-CCTAAATACCCACCTTCAGCATAAAAGCAGACCCGGTGACAACCTAGGAGA-TGAT
* * * *
166394 TCTAAAAAATTACAAAAATGCCCCTGAGGGTATACTTTCGACATGAAAGTATCTCGATAACACTA
64 TCTAAAAAATTACGAAAATGCCCCT-AGGGTATACCTTCGACGTGAAAGTATCTCGATAACCCTA
* *
166459 AAAGACTTAAAAAGGTTAGAGATGGGAT
128 AAGGACTTAAAAAGGTTATAGATGGGAT
* * *** * * * *
166487 GAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGGATAGGGTGACAATCGAGGAAATGATTT
1 GAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAGACCCGGTGACAACCTAGGAGATGATTC
* * * * * *
166552 TAAAAAACTACTAAAATGCCCCCATA-AGTATACCTTCAACGTGAAAGTA-CCCTAGTAACCCTA
66 TAAAAAATTACGAAAATG-CCCC-TAGGGTATACCTTCGACGTGAAAGTATCTCGA-TAACCCTA
** * * * *
166615 GTGGACACTAAAGAGGCTAGAGATGGGAT
128 AAGGAC-TTAAAAAGGTTATAGATGGGAT
* ** * * *
166644 GAACCTATCCTAAATGCCCACCTTCAGCATAAAAGTGGACCCAGTGACAACCTAGGAGACGATTT
1 GAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAGACCCGGTGACAACCTAGGAGATGATTC
* * * * *
166709 TAGAAAAATTACTAAAATCCCCCTATGGATATACCTTCGACGTGAAAGTGTCTCGATAACCCTAG
66 TA-AAAAATTACGAAAATGCCCCTA-GGGTATACCTTCGACGTGAAAGTATCTCGATAACCCTAA
* * * * *
166774 TGGACACT-AGAAGATTATAGATTGGAT
129 AGGAC-TTAAAAAGGTTATAGATGGGAT
* * * * * * *
166801 GAACTTATCATAAATTCCCACCTTCAGCATAAAAGCAAACCCGATGACAACCTAGGAGACGACTC
1 GAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAGACCCGGTGACAACCTAGGAGATGATTC
* * *** * * * * *
166866 TGAAAAATTACGAAAGTGCTTGTAGAGG-ATACCTTCGATGTAAAAGTATCAT-GGTATCCTTAA
66 TAAAAAATTACGAAAATGCCCCTAG-GGTATACCTTCGACGTGAAAGTATC-TCGATAACCCTAA
* * * **
166929 AGGGCTTAAAAAGATTATAAATAAGAT
129 AGGACTTAAAAAGGTTATAGATGGGAT
* * * ** * * * * * ** *
166956 AAACATATCCTAAATACCCAGCTTCAGCATAAAAGTGGGCGCGATGGCAACCGAGGACTTGATTT
1 GAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAGACCCGGTGACAACCTAGGAGATGATTC
* * * ** * * *
167021 TAAAAAATTACGAAAATGCCTCTAGGGCATACCTTCGACGTAAAAGTGCCT-AATAACTCTAAAA
66 TAAAAAATTACGAAAATGCCCCTAGGGTATACCTTCGACGTGAAAGTATCTCGATAACCCTAAAG
* *
167085 GACTTAAAATGGTTATAGCTAGGG-T
131 GACTTAAAAAGGTTATAGAT-GGGAT
* * * * * * * * *
167110 GAACTTATCCTAAATACTCACTTTC-GTCATAAAAACAAACCCGGTGACAACTTAAGACATGGTT
1 GAACCTATCCTAAATACCCACCTTCAG-CATAAAAGCAGACCCGGTGACAACCTAGGAGATGATT
* * *
167174 CTAAAAAATTACGAAAATGCCCTTATGGGTATACCTTTGACGTGAAAGTATCTCGGTAACCCTA
65 CTAAAAAATTACGAAAATGCCCCTA-GGGTATACCTTCGACGTGAAAGTATCTCGATAACCCTA
167238 GTGGAGACTA
Statistics
Matches: 584, Mismatches: 149, Indels: 36
0.76 0.19 0.05
Matches are distributed among these distances:
153 1 0.00
154 93 0.16
155 162 0.28
156 118 0.20
157 156 0.27
158 51 0.09
159 3 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (155 bp):
GAACCTATCCTAAATACCCACCTTCAGCATAAAAGCAGACCCGGTGACAACCTAGGAGATGATTC
TAAAAAATTACGAAAATGCCCCTAGGGTATACCTTCGACGTGAAAGTATCTCGATAACCCTAAAG
GACTTAAAAAGGTTATAGATGGGAT
Found at i:166849 original size:157 final size:154
Alignment explanation
Indices: 166331--166876 Score: 485
Period size: 157 Copynumber: 3.5 Consensus size: 154
166321 ACGAGAAGAG
* * ** * * **
166331 GAACCTATCCCT-AATACCCACTTTTGGCATAAAAGCAGACCCGGTGGCAACCTAGGA-ATTTAT
1 GAACCTAT-CCTAAATGCCCACCTTCAGCATAAAAGCAGACCCGATGACAACCTAGGAGA-CGAT
* * * * * *
166394 TCTAAAAAATTACAAAAATGCCCCTGA-GGGTATACTTTCGACATGAAAGTATCTCGATAACACT
64 TCTAAAAAATTACTAAAATCCCCCT-ATGGATATACCTTCGACGTGAAAGT-TCTCGATAACCCT
*** * *
166458 AAAAGACTTA-AAAAGGTTAGAGATGGGAT
127 AGTGGAC--ACTAAAGATTAGAGATGGGAT
* *** * * * * * *
166487 GAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGGATAGGGTGACAATCGAGGAAATGATTT
1 GAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCAGACCCGATGACAACCTAGGAGACGATTC
* * * * * *
166552 TAAAAAACTACTAAAATGCCCCC-AT-AAGTATACCTTCAACGTGAAAGTACCCTAGTAACCCTA
66 TAAAAAATTACTAAAAT-CCCCCTATGGA-TATACCTTCGACGTGAAAGTTCTCGA-TAACCCTA
*
166615 GTGGACACTAAAGAGGCTAGAGATGGGAT
128 GTGGACACTAAAGA--TTAGAGATGGGAT
**
166644 GAACCTATCCTAAATGCCCACCTTCAGCATAAAAGTGGACCC-AGTGACAACCTAGGAGACGATT
1 GAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCAGACCCGA-TGACAACCTAGGAGACGATT
*
166708 TTAGAAAAATTACTAAAATCCCCCTATGGATATACCTTCGACGTGAAAGTGTCTCGATAACCCTA
65 CTA-AAAAATTACTAAAATCCCCCTATGGATATACCTTCGACGTGAAAGT-TCTCGATAACCCTA
* *
166773 GTGGACACTAGAAGATTATAGATTGGAT
128 GTGGACACTA-AAGATTAGAGATGGGAT
* * * * *
166801 GAACTTATCATAAATTCCCACCTTCAGCATAAAAGCAAACCCGATGACAACCTAGGAGACGACTC
1 GAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCAGACCCGATGACAACCTAGGAGACGATTC
*
166866 TGAAAAATTAC
66 TAAAAAATTAC
166877 GAAAGTGCTT
Statistics
Matches: 316, Mismatches: 58, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
154 1 0.00
155 11 0.03
156 97 0.31
157 145 0.46
158 54 0.17
159 8 0.03
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (154 bp):
GAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCAGACCCGATGACAACCTAGGAGACGATTC
TAAAAAATTACTAAAATCCCCCTATGGATATACCTTCGACGTGAAAGTTCTCGATAACCCTAGTG
GACACTAAAGATTAGAGATGGGAT
Found at i:169759 original size:166 final size:166
Alignment explanation
Indices: 169507--169954 Score: 479
Period size: 166 Copynumber: 2.7 Consensus size: 166
169497 TGAATTTTAT
** * ** * * * *
169507 AAAACTGATTTAATGGGAGTTTGATAACAATATTAGATGAATTTTAAAAATTTTAAACCGAGAAA
1 AAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTAAAACCAAGAAA
* * * * * * *
169572 AATCCTCCCGAAAACATTTATGGAGTAAAAAACTCTATTTTTTGGAAATAGGGGAATTTCGAAGA
66 AATCCTTCCAAAAAAATTTATGGAGTAAAAAACTCCATATTTCGGAAATAAGGGAATTTCGAAGA
* * * *
169637 AAAAATTCAAAACTTATGAAAATAATTTAA-TTTTTC
131 AAAAAATAAAAACTCATGAAAATAA-GTAAGTTTTTC
* * * *
169673 AAAATTGGTTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAA
1 AAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTAAAACCAAGAAA
* * * * * *
169738 AATCCTTCCAAAAATATTTATGGAGTAGAAAACTCCGTATTTCGGAAATAAGGGAGTTTTGAGGA
66 AATCCTTCCAAAAAAATTTATGGAGTAAAAAACTCCATATTTCGGAAATAAGGGAATTTCGAAGA
* * *
169803 AAAAAATAAAAACTCATGAAGATGAGTAAGTTTTTT
131 AAAAAATAAAAACTCATGAAAATAAGTAAGTTTTTC
* * * * *
169839 AAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTTGAAATTTTAAATCGATG-A
1 AAAACTGATTTAATATGAATTAAATAATAATATTTGATGAA-TTTTAAAAATTTAAAACCAAGAA
* * *
169903 AAATCCTTTCAAAAAAATTTATGGAG-AAGAAAACTCCGTATTTCGAAAATAA
65 AAATCCTTCCAAAAAAATTTATGGAGTAA-AAAACTCCATATTTCGGAAATAA
169955 ATGTATTCTA
Statistics
Matches: 234, Mismatches: 45, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
165 4 0.02
166 215 0.92
167 15 0.06
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (166 bp):
AAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTTAAAACCAAGAAA
AATCCTTCCAAAAAAATTTATGGAGTAAAAAACTCCATATTTCGGAAATAAGGGAATTTCGAAGA
AAAAAATAAAAACTCATGAAAATAAGTAAGTTTTTC
Found at i:170029 original size:166 final size:167
Alignment explanation
Indices: 169507--170051 Score: 416
Period size: 166 Copynumber: 3.3 Consensus size: 167
169497 TGAATTTTAT
** * ** * ** *
169507 AAAACTGATTTAATGGGAGTTTGATAACAATA-TTAGATGAA-TTTTAAAAATTTTAAACCGAGA
1 AAAACTGATTTAATATGAATTAAATAATAATATTTA-ATGAATTTTTAAAAATTAAAAACCAAGA
* * * ** * * * * *
169570 AAAATCCTCCCGAAAACATTTATGGAGTAA-AAAACTCTATTTTTTGGAAATAGGGGAATT-TCG
65 AAAATCCTTCCAAAAAAATTTATGGAG-AAGAAAACTCCGTATTTCGAAAATAAGGGAGTTCT-G
* * * **
169633 A-AGAAAAAATTCAAAACTTATGAAAATAATTTAA-TTTTTC
128 AGA-AAAAAAATAAAAACTCATGAAAATAA-GGAAGTTTTTC
* * *
169673 AAAATTGGTTTAATATGAATTAAATAATAATATTTTATGAA-TTTTAAAAATTAAAAACCAAGAA
1 AAAACTGATTTAATATGAATTAAATAATAATATTTAATGAATTTTTAAAAATTAAAAACCAAGAA
* * * * *
169737 AAATCCTTCCAAAAATATTTATGGAGTAGAAAACTCCGTATTTCGGAAATAAGGGAGTTTTGAGG
66 AAATCCTTCCAAAAAAATTTATGGAGAAGAAAACTCCGTATTTCGAAAATAAGGGAGTTCTGAGA
* * * *
169802 AAAAAAATAAAAACTCATGAAGATGAGTAAGTTTTTT
131 AAAAAAATAAAAACTCATGAAAATAAGGAAGTTTTTC
* * * * * * *
169839 AAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTTGAAATTTTAAATCGATG-A
1 AAAACTGATTTAATATGAATTAAATAATAATATTTAATGAATTTTTAAAAATTAAAAACCAAGAA
* * *
169903 AAATCCTTTCAAAAAAATTTATGGAGAAGAAAACTCCGTATTTCGAAAATAAATGTA-TTCT-A-
66 AAATCCTTCCAAAAAAATTTATGGAGAAGAAAACTCCGTATTTCGAAAAT-AAGGGAGTTCTGAG
*
169965 AAAAGAAAATCAATAACTCAT-AAAATAAAAGGAA-TTTTTC
130 AAAA-AAAAT-AAAAACTCATGAAAAT--AAGGAAGTTTTTC
* * * * * *
170005 AAAACTTATTTGATGGTG-ATTAAATGATGATATTTAAAGAATTTTTA
1 AAAACTGATTTAAT-ATGAATTAAATAATAATATTTAATGAATTTTTA
170052 TGTTTGAAAT
Statistics
Matches: 307, Mismatches: 60, Indels: 24
0.79 0.15 0.06
Matches are distributed among these distances:
164 3 0.01
165 14 0.05
166 262 0.85
167 28 0.09
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (167 bp):
AAAACTGATTTAATATGAATTAAATAATAATATTTAATGAATTTTTAAAAATTAAAAACCAAGAA
AAATCCTTCCAAAAAAATTTATGGAGAAGAAAACTCCGTATTTCGAAAATAAGGGAGTTCTGAGA
AAAAAAATAAAAACTCATGAAAATAAGGAAGTTTTTC
Found at i:174871 original size:23 final size:25
Alignment explanation
Indices: 174823--174877 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 25
174813 ATTACATTAT
*
174823 TATAT-TTAAATATTTTAAATATAA
1 TATATATTAAATATTTTAAATAAAA
*
174847 TA-ATATTAAA-ATTTTATATAAAA
1 TATATATTAAATATTTTAAATAAAA
174870 TATATATT
1 TATATATT
174878 CCAATATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 15 0.56
24 12 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TATATATTAAATATTTTAAATAAAA
Found at i:175053 original size:48 final size:46
Alignment explanation
Indices: 174940--175053 Score: 108
Period size: 46 Copynumber: 2.4 Consensus size: 46
174930 TTTAAAAGAT
* * **
174940 TAATAAAATAAGTTTAT-TTTTTATATATTATTAAATATATAATATT
1 TAATTAAATAA-TTTATATTTTTAAATATTATTAAATATATAATAAA
* *
174986 TAATTATATCA-TTACTATTTTTAAATATT-TTAAATATAATACATTAAA
1 TAATTAAATAATTTA-TATTTTTAAATATTATTAAATAT-ATA-A-TAAA
175034 TAATTAAATAATTTATATTT
1 TAATTAAATAATTTATATTT
175054 ATAATTTATA
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
44 3 0.06
45 9 0.17
46 22 0.41
47 1 0.02
48 16 0.30
49 3 0.06
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.51
Consensus pattern (46 bp):
TAATTAAATAATTTATATTTTTAAATATTATTAAATATATAATAAA
Found at i:176090 original size:6 final size:6
Alignment explanation
Indices: 176079--176111 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
176069 TACCAAACAG
176079 GATCTA GATCTA GATCTA GATCTA GATCTA GAT
1 GATCTA GATCTA GATCTA GATCTA GATCTA GAT
176112 ACTGGATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.33
Consensus pattern (6 bp):
GATCTA
Found at i:179713 original size:2 final size:2
Alignment explanation
Indices: 179708--179739 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
179698 GTGTGTGCAC
179708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
179740 TACTATTCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:181468 original size:32 final size:32
Alignment explanation
Indices: 181411--181515 Score: 126
Period size: 32 Copynumber: 3.3 Consensus size: 32
181401 ATATTGATCG
* * *
181411 TAAATTTAAT-AA-ATTAAACATAATTACTTA
1 TAAATTTGATAAATATTAAATAAAATTACTTA
*
181441 TAAATTTGATAAATATTAAATAAAATTACTCA
1 TAAATTTGATAAATATTAAATAAAATTACTTA
* *
181473 TAAATTTGATGAATATTAGATAAAATTA-TTCA
1 TAAATTTGATAAATATTAAATAAAATTACTT-A
181505 TAAATTTGATA
1 TAAATTTGATA
181516 GTCATTAAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 9 0.14
31 3 0.05
32 52 0.81
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (32 bp):
TAAATTTGATAAATATTAAATAAAATTACTTA
Found at i:182042 original size:24 final size:24
Alignment explanation
Indices: 182015--182066 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
182005 TATGAGGAGT
182015 TAAAATATTAAAAAAATAAAA-TAA
1 TAAAAT-TTAAAAAAATAAAATTAA
* *
182039 TAAAATTTAAAGATATAAAATTAA
1 TAAAATTTAAAAAAATAAAATTAA
182063 TAAA
1 TAAA
182067 GTTATTTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (24 bp):
TAAAATTTAAAAAAATAAAATTAA
Found at i:182917 original size:22 final size:21
Alignment explanation
Indices: 182889--182949 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
182879 TTTTTAATAT
182889 TTTTATATTTATATTTAAAAAA
1 TTTTATATTTATATTT-AAAAA
* *
182911 TTTTATA-TTAAATATTAATAA
1 TTTTATATTTATAT-TTAAAAA
182932 TTTTATAATTTTATATTT
1 TTTTAT-A-TTTATATTT
182950 GCATAAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
21 15 0.47
22 10 0.31
23 2 0.06
24 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTATATTTATATTTAAAAA
Found at i:182925 original size:29 final size:29
Alignment explanation
Indices: 182893--182948 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
182883 TAATATTTTT
*
182893 ATATTTAT-ATTTAAAAAATTTTATATTAA
1 ATATTAATAATTT-AAAAATTTTATATTAA
* *
182922 ATATTAATAATTTTATAATTTTATATT
1 ATATTAATAATTTAAAAATTTTATATT
182949 TGCATAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
ATATTAATAATTTAAAAATTTTATATTAA
Found at i:183526 original size:32 final size:32
Alignment explanation
Indices: 183437--183529 Score: 123
Period size: 32 Copynumber: 2.9 Consensus size: 32
183427 AATTTGATGA
* * * * *
183437 ATTAGACATAATTACTTGTAAATTTAATGAAT
1 ATTAGATAAAATTACTTATAAATTTGATAAAT
*
183469 ATTAGATAAAATTATTTATAAATTTGATAAAT
1 ATTAGATAAAATTACTTATAAATTTGATAAAT
*
183501 ATTAGATAAAATTACTCATAAATTTGATA
1 ATTAGATAAAATTACTTATAAATTTGATA
183530 GTCATTAAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.41
Consensus pattern (32 bp):
ATTAGATAAAATTACTTATAAATTTGATAAAT
Found at i:185399 original size:25 final size:24
Alignment explanation
Indices: 185371--185418 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
185361 TATAATTATT
*
185371 AATTTTAATTTTCTTTTAATTTTAA
1 AATTTTAATTTTATTTT-ATTTTAA
*
185396 AATTTTTATTTTATTTTATTTTA
1 AATTTTAATTTTATTTTATTTTA
185419 TTTTTTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (24 bp):
AATTTTAATTTTATTTTATTTTAA
Found at i:185605 original size:15 final size:15
Alignment explanation
Indices: 185585--185625 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
185575 TATCTTTAAT
*
185585 TAATTATAAAAAAAA
1 TAATTACAAAAAAAA
*
185600 TAATTACAAAAATAA
1 TAATTACAAAAAAAA
185615 TAA--ACAAAAAA
1 TAATTACAAAAAA
185626 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 7 0.30
15 16 0.70
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (15 bp):
TAATTACAAAAAAAA
Found at i:187289 original size:49 final size:49
Alignment explanation
Indices: 187217--187584 Score: 400
Period size: 49 Copynumber: 7.4 Consensus size: 49
187207 CCAATATCAC
* *
187217 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGT
* *
187266 TGGCCTGGAATCAGCATATTGGCACCTTAACCATCTTTAAGTCCAATGTAGT
1 TGGCCTTGAATCAGCATATTGGCACCTT---CATCTTTAAGTCCAATGTCGT
* * * * **
187318 TGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCAC
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGT
* * *
187367 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGT
* *
187416 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGT
* * * *
187465 TGGCCTTAAATCAACATATTGGCATCTTTAACAT-TCTTAAGCCCAATGTCGT
1 TGGCCTTGAATCAGCATATTGGCA-CCTT--CATCT-TTAAGTCCAATGTCGT
** * * * * *
187517 TGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATGTCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGT
* *
187564 TGGCCATGAATCAGCACATTG
1 TGGCCTTGAATCAGCATATTG
187585 TCATTCTTTG
Statistics
Matches: 268, Mismatches: 43, Indels: 18
0.81 0.13 0.05
Matches are distributed among these distances:
47 32 0.12
48 1 0.00
49 152 0.57
50 3 0.01
51 1 0.00
52 79 0.29
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTCGT
Found at i:187382 original size:101 final size:100
Alignment explanation
Indices: 187217--187584 Score: 440
Period size: 101 Copynumber: 3.7 Consensus size: 100
187207 CCAATATCAC
* * * *
187217 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCTGGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCA
* *
187282 TATTGGCACCTTAACCATCTTTAAGTCCAATGTAGT
66 TATTGGCACCTTAA-CATCTTTAAGACCAATGTCGT
* **
187318 TGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCCGATATCACTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCA
* *
187383 TATTGGCACCTT--TATCTTTAAGACCAATGTCGC
66 TATTGGCACCTTAACATCTTTAAGACCAATGTCGT
* * *
187416 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTAAATCAACA
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCA
* *
187481 TATTGGCATCTTTAACAT-TCTTAAGCCCAATGTCGT
66 TATTGGCA-CCTTAACATCT-TTAAGACCAATGTCGT
** * * ** * * *
187517 TGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTCAAGTCTAATGTCGCTGGCCATGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCA
*
187580 CATTG
66 TATTG
187585 TCATTCTTTG
Statistics
Matches: 231, Mismatches: 32, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
98 84 0.36
99 38 0.16
100 1 0.00
101 108 0.47
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (100 bp):
TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTGGCCTTGAATCAGCA
TATTGGCACCTTAACATCTTTAAGACCAATGTCGT
Found at i:187505 original size:150 final size:148
Alignment explanation
Indices: 187203--187584 Score: 468
Period size: 150 Copynumber: 2.6 Consensus size: 148
187193 AAATTGGCAC
* * *
187203 AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTG
1 AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTG
* * * * *
187268 GCCTGGAATCAGCATATTGGCACCTTAACCATCTTTAAGTCCAATGTAGTTGGCCTTGAATCAGC
66 GCCTTGAATCAGCACATTGGCACCTT-A-CATCTTTAAGTCCAATATAGTTGGCCTTAAATCAAC
187333 ACATTGGCATCTTCATCTTT
129 ACATTGGCATCTTCATCTTT
* *
187353 AAGTCCGATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTG
1 AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTG
* *
187418 GCCTTGAATCAGCACATTGGCACCTT-CATCTTTAAGTCCAATATCGTTGGCCTTAAATCAACAT
66 GCCTTGAATCAGCACATTGGCACCTTACATCTTTAAGTCCAATATAGTTGGCCTTAAATCAACAC
187482 ATTGGCATCTTTAACAT-TCTT
131 ATTGGCATC-TT--CATCT-TT
* ** ** * * * *
187503 AAGCCCAATGTCGTTGGCCTTGTCTCAGCACATTGGCA--TTCT-TCTTCAAGTCTAATGTCGCT
1 AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTT-TATCTTTAAGACCAATGTCGCT
*
187565 GGCCATGAATCAGCACATTG
65 GGCCTTGAATCAGCACATTG
187585 TCATTCTTTG
Statistics
Matches: 203, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
147 42 0.21
148 40 0.20
149 2 0.01
150 119 0.59
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (148 bp):
AAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCACCTTACATCTTTAAGTCCAATATAGTTGGCCTTAAATCAACAC
ATTGGCATCTTCATCTTT
Found at i:191903 original size:157 final size:155
Alignment explanation
Indices: 191565--191972 Score: 412
Period size: 157 Copynumber: 2.6 Consensus size: 155
191555 TTTTATGTTG
** * * ** * *
191565 AAGGTATACCCTATTGGCATTTTAGTAAC-TTTCCTTAAAATTGAATCTTAGGTCATCACTAGGT
1 AAGGTATACCCTAAGGGCAGTTTAGTAACTTTTCC-TAGAACCGAGTCCTAGGTCATCACTAGGT
* * * * *
191629 CACTTTTATGCCAAAGGTGTGCATTTAGGATAAGTGATCTTTGTCACGTCATTTTCGTGTCTTTT
65 CACTTTTATGCCAAAGGTATGCATTTAGGATAAGTAATCTTTGTCACGTCATTTTCATATCCTTT
* * *
191694 AAGATTACCGAGATACTTTTATGTCG
130 AAGATTACCGAGATACTTTCATATCA
* * * *
191720 AAGGTATACCCTAAGGGTAGTTTAGTAATTTTTTCTAGAACCGAGTCCTAGGTCATCACTAGGTT
1 AAGGTATACCCTAAGGGCAGTTTAGTAACTTTTCCTAGAACCGAGTCCTAGGTCATCACTAGGTC
** * *
191785 ACTTTTATGCTTAAGGTATGCATTTAGGATACGTTAATCCTTT-T-AC-TTATTTTTTTCATATC
66 ACTTTTATGCCAAAGGTATGCATTTAGGATAAG-TAAT-CTTTGTCACGTCA---TTTTCATATC
* *
191847 CTTTAGGATTATCGAGATACTTTCATATCA
126 CTTTAAGATTACCGAGATACTTTCATATCA
* * * * *
191877 AAGGTATACCTTAAGGGCATTTTAGTAACTTTTCCTAGAATCGAGTCCTAGGT-AGTCACCAAGT
1 AAGGTATACCCTAAGGGCAGTTTAGTAACTTTTCCTAGAACCGAGTCCTAGGTCA-TCACTAGGT
* * *
191941 CACTTTTATGCCAAAGGTCTACATATAGGATA
65 CACTTTTATGCCAAAGGTATGCATTTAGGATA
191973 GGTTTGTCAT
Statistics
Matches: 206, Mismatches: 40, Indels: 12
0.80 0.16 0.05
Matches are distributed among these distances:
154 2 0.01
155 79 0.38
156 9 0.04
157 116 0.56
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (155 bp):
AAGGTATACCCTAAGGGCAGTTTAGTAACTTTTCCTAGAACCGAGTCCTAGGTCATCACTAGGTC
ACTTTTATGCCAAAGGTATGCATTTAGGATAAGTAATCTTTGTCACGTCATTTTCATATCCTTTA
AGATTACCGAGATACTTTCATATCA
Found at i:192118 original size:148 final size:150
Alignment explanation
Indices: 191943--192213 Score: 339
Period size: 148 Copynumber: 1.8 Consensus size: 150
191933 CACCAAGTCA
*** * * **
191943 CTTTTATGCCAAAGGTCTACATATAGGATAGGTTTGTCATTTTTATGGTCATTTTTAAGTCTTCT
1 CTTTTATGCCAAAGGTCTACATATAGGATAGGTTCACCATATTAATCATCATTTTTAAGTCTTCT
* * * * *
192008 AGGGTTACT-GGATACTTTCATGTTGAATGTATACTTTAAGG-TATTTTTGTAATTTTCTTAAAA
66 AGGGTCACTGGGATACTTTCATGTCGAAGGTATACCTTAAGGATATTTTGGTAATTTTCTTAAAA
192071 CCGAGGTTATCACCTGGATG
131 CCGAGGTTATCACCTGGATG
* * * * * * *
192091 CTTTTATGCCAAAGGTGTGCATTTAGGATATGTTCACCCTATTAATCATCATTTTTAAGTTTTTT
1 CTTTTATGCCAAAGGTCTACATATAGGATAGGTTCACCATATTAATCATCATTTTTAAGTCTTCT
* *
192156 AGGGTCACTGGGATATTTTCATGTCGAAGGTATACCTTAGGGATATTTTGGTAATTTT
66 AGGGTCACTGGGATACTTTCATGTCGAAGGTATACCTTAAGGATATTTTGGTAATTTT
192214 GCATTAGAAC
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
148 59 0.59
149 27 0.27
150 14 0.14
ACGTcount: A:0.25, C:0.13, G:0.19, T:0.43
Consensus pattern (150 bp):
CTTTTATGCCAAAGGTCTACATATAGGATAGGTTCACCATATTAATCATCATTTTTAAGTCTTCT
AGGGTCACTGGGATACTTTCATGTCGAAGGTATACCTTAAGGATATTTTGGTAATTTTCTTAAAA
CCGAGGTTATCACCTGGATG
Found at i:194028 original size:40 final size:39
Alignment explanation
Indices: 193897--194028 Score: 122
Period size: 40 Copynumber: 3.3 Consensus size: 39
193887 TCGATGAAAA
* * * * *
193897 GTATGAAACTAAGCTTAAAAAGGCTCGGTCTTAATAAAAG
1 GTATGAAACTAAACCTAAAAAGACTTGG-CTTAATAGAAG
* * * *
193937 GTATGAAACTAAACCTAACAA-ACTTGGTTTCGATAGAAT
1 GTATGAAACTAAACCTAAAAAGACTTGGCTT-AATAGAAG
*
193976 GCATGAAACTAAACCTAAAAAGACTTGGCCTTAATAGAAG
1 GTATGAAACTAAACCTAAAAAGACTTGG-CTTAATAGAAG
* *
194016 GTACGAAGCTAAA
1 GTATGAAACTAAA
194029 TGTAATGAAT
Statistics
Matches: 72, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 2 0.03
39 28 0.39
40 40 0.56
41 2 0.03
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (39 bp):
GTATGAAACTAAACCTAAAAAGACTTGGCTTAATAGAAG
Found at i:194045 original size:79 final size:79
Alignment explanation
Indices: 193854--194028 Score: 194
Period size: 79 Copynumber: 2.2 Consensus size: 79
193844 CGATTTCGAC
* * * * * * *
193854 AAAAGGTACTAAAGTAAACCT--CATAACTCGGTTTCGAT-GAAAAGTATGAAACTAAGCTTAAA
1 AAAAGGTACGAAACTAAACCTAACA-AACTTGGTTTCGATAG-AATGCATGAAACTAAACCTAAA
* *
193916 AAGGCTCGGTCTTAAT
64 AAGACTCGGCCTTAAT
*
193932 AAAAGGTATGAAACTAAACCTAACAAACTTGGTTTCGATAGAATGCATGAAACTAAACCTAAAAA
1 AAAAGGTACGAAACTAAACCTAACAAACTTGGTTTCGATAGAATGCATGAAACTAAACCTAAAAA
*
193997 GACTTGGCCTTAAT
66 GACTCGGCCTTAAT
* *
194011 AGAAGGTACGAAGCTAAA
1 AAAAGGTACGAAACTAAA
194029 TGTAATGAAT
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
78 18 0.22
79 59 0.74
80 3 0.04
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (79 bp):
AAAAGGTACGAAACTAAACCTAACAAACTTGGTTTCGATAGAATGCATGAAACTAAACCTAAAAA
GACTCGGCCTTAAT
Found at i:196030 original size:166 final size:165
Alignment explanation
Indices: 195705--196337 Score: 830
Period size: 166 Copynumber: 3.8 Consensus size: 165
195695 TTCAAATATC
* *
195705 AAAATTCATCAAATATTATTATTTATTTCATATTAATTCCGTTTTCAAAAATTCATTCATTTCCA
1 AAAATTCATAAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTCCA
* * *
195770 TGAATTTTGA-TTTTTTCCTTGAAATTTTC-TTTTTCAAAATACGGAGTTTTCTACTCCATAAAT
66 TGAATTTTGATTTTTTTCCTTGAAATTTCCTTTTTTCGAAATACAGAGTTTTCTACTCCATAAAT
*
195833 TTTTTCGGGAGGATTTTTCTTGTTTTTTGATTTTT
131 TTTTTCGGGGGGATTTTTCTTGTTTTTTGATTTTT
* * *
195868 AAAATTCATAAAATATTATTATTTATTTCATATTAATTTAGTTTCCAAAAATTCATTCATTTTCA
1 AAAATTCATAAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTCCA
** *
195933 TTCATTTTGATTTTTTTCCTTGAAATTCTCCTTTTTTCGAAATACAGAGTTTTCTACTCCATAAG
66 TGAATTTTGATTTTTTTCCTTGAAATT-TCCTTTTTTCGAAATACAGAGTTTTCTACTCCATAAA
* *
195998 TTTTTTCGGGGGGATATTTCTTATTTTTTGATTTTT
130 TTTTTTCGGGGGGATTTTTCTTGTTTTTTGATTTTT
* * * *
196034 AAAATTTATCAAATATTATTATTTATTTCATATTAATTTATTTTTCAAAAATTCATTCATTTCCA
1 AAAATTCATAAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTCCA
*
196099 TGAATTTTGATTTTTTT-CTTGAAATTTCCCTTTTTTTCGAAATACAGAGTTTTCTACTCCATAC
66 TGAATTTTGATTTTTTTCCTTGAAATTT-CC-TTTTTTCGAAATACAGAGTTTTCTACTCCATAA
* *
196163 ATTTTTTCGGAGGGATTTTTCTTGGTTTTTGATTTTT
129 ATTTTTTCGGGGGGATTTTTCTTGTTTTTTGATTTTT
* * * * * * * *
196200 AAAATTCAGAAAGTATTATTA-TT-TGTCATATTAATTCATTTTTGAAAATTTGATTCATTTTCA
1 AAAATTCATAAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTCCA
* * * * * * *
196263 TG-AGTTTGAGATTTTTTCTTTGAAATGTCATTTTTCTCGAAAAACCA-AGTTTTCTAATCCATA
66 TGAATTTTGA-TTTTTTTCCTTGAAATTTCCTTTTT-TCGAAATA-CAGAGTTTTCTACTCCATA
*
196326 AATATTTTCGGG
128 AATTTTTTCGGG
196338 AAGATTTTCT
Statistics
Matches: 414, Mismatches: 47, Indels: 17
0.87 0.10 0.04
Matches are distributed among these distances:
163 79 0.19
164 91 0.22
165 25 0.06
166 219 0.53
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (165 bp):
AAAATTCATAAAATATTATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTCCA
TGAATTTTGATTTTTTTCCTTGAAATTTCCTTTTTTCGAAATACAGAGTTTTCTACTCCATAAAT
TTTTTCGGGGGGATTTTTCTTGTTTTTTGATTTTT
Found at i:196424 original size:330 final size:332
Alignment explanation
Indices: 195731--196492 Score: 863
Period size: 330 Copynumber: 2.3 Consensus size: 332
195721 TATTATTTAT
* *
195731 TTCATATT-AATTCCGTTTTCAAAAATTCATTCATTTCCATGAATTTTGATTTTTTCCTTGAAAT
1 TTCATATTAAATT-AGTTTTCAAAAATTCATTCATTTCCATGAATTTTGATTTTTTTCTTGAAAT
* * * *
195795 TT---TCTTTTTCAAAATACGGAGTTTTCTACTCCATAAATTTTTTCGGGAGGATTTTTCTTGTT
65 TTCCCTTTTTTTCGAAATACAGAGTTTTCTACTCCATAAATTTTTTCGGGAGGATTTTTCTTGGT
* * *
195857 TTTTGATTTTTAAAATTCATAAAATATTATTATTTATTTCATATTAATTTAGTTTCCAAAAATTC
130 TTTTGATTTTTAAAATTCAGAAAATATTATTATTTATGTCATATTAATTCAGTTTCCAAAAATTC
* * * *
195922 ATTCATTTTCATTCATTTTGATTTTTTTCCTTGAAATTCTCCTTTTTTCGAAATACAGAGTTTTC
195 ATTCATTTTCATTCAGTTTGAATTTTTTCCTTGAAATTCTCATTTTTTCGAAAAACAGAGTTTTC
* * * ** *** * *
195987 TACTCCATAAGTTTTTTCGGGGGGATATTTCTTATTTTTTGATTTTTAAAATTTATCAAATATTA
260 TAATCCATAAATATTTTCGGGAAGATATTTCTTATTTTAAAATTTTTAAAATGTATCAAATAATA
* ** *
196052 TTATTTAT
325 TCATGAAA
* *
196060 TTCATATTAATTTATTTTTCAAAAATTCATTCATTTCCATGAATTTTGATTTTTTTCTTGAAATT
1 TTCATATTAAATTAGTTTTCAAAAATTCATTCATTTCCATGAATTTTGATTTTTTTCTTGAAATT
*
196125 TCCCTTTTTTTCGAAATACAGAGTTTTCTACTCCATACATTTTTTC-GGAGGGATTTTTCTTGGT
66 TCCCTTTTTTTCGAAATACAGAGTTTTCTACTCCATAAATTTTTTCGGGA-GGATTTTTCTTGGT
* * ** * *
196189 TTTTGATTTTTAAAATTCAGAAAGTATTATTA-TT-TGTCATATTAATTCATTTTTGAAAATTTG
130 TTTTGATTTTTAAAATTCAGAAAATATTATTATTTATGTCATATTAATTCAGTTTCCAAAAATTC
* * *
196252 ATTCATTTTCA-TGAGTTTGAGATTTTTTCTTTGAAA-TGTCATTTTTCTCGAAAAACCA-AGTT
195 ATTCATTTTCATTCAGTTTGA-ATTTTTTCCTTGAAATTCTCATTTTT-TCGAAAAA-CAGAGTT
*
196314 TTCTAATCCATAAATATTTTCGGGAAGAT-TTTCTT-TGGTTTAAAATTTTTAAAATGTATCTAA
257 TTCTAATCCATAAATATTTTCGGGAAGATATTTCTTAT--TTTAAAATTTTTAAAATGTATCAAA
*
196377 TAATGTCATGAAA
320 TAATATCATGAAA
* * * * *
196390 TTC-TCATTAAATTAGTTTTGAAAATTTAATTCATTTTCATGAGTTTTGGATTTTTTT-TTGAAA
1 TTCAT-ATTAAATTAGTTTTCAAAAATTCATTCATTTCCATGAATTTT-GATTTTTTTCTTGAAA
* * * * *
196453 -TGCCC-TTTTCTCGAAAAAACCGAGTTTTCTAATCCATAAA
64 TTTCCCTTTTTTTCG-AAATACAGAGTTTTCTACTCCATAAA
196493 AATTTTCTAG
Statistics
Matches: 366, Mismatches: 54, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
328 8 0.02
329 106 0.29
330 155 0.42
331 16 0.04
332 81 0.22
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (332 bp):
TTCATATTAAATTAGTTTTCAAAAATTCATTCATTTCCATGAATTTTGATTTTTTTCTTGAAATT
TCCCTTTTTTTCGAAATACAGAGTTTTCTACTCCATAAATTTTTTCGGGAGGATTTTTCTTGGTT
TTTGATTTTTAAAATTCAGAAAATATTATTATTTATGTCATATTAATTCAGTTTCCAAAAATTCA
TTCATTTTCATTCAGTTTGAATTTTTTCCTTGAAATTCTCATTTTTTCGAAAAACAGAGTTTTCT
AATCCATAAATATTTTCGGGAAGATATTTCTTATTTTAAAATTTTTAAAATGTATCAAATAATAT
CATGAAA
Found at i:196511 original size:165 final size:164
Alignment explanation
Indices: 196229--196611 Score: 494
Period size: 165 Copynumber: 2.3 Consensus size: 164
196219 TATTTGTCAT
* *
196229 ATTAATTCATTTTTGAAAATTTGATTCATTTTCATGAG-TTTGAGATTTTTTCTTTGAAATGTCA
1 ATTAATTCAATTTTGAAAATTTAATTCATTTTCATGAGTTTTG-GATTTTTT-TTTGAAATGTCA
* *
196293 TTTTTCTCGAAAAACCAAGTTTTCTAATCCATAAATATTTTCGGGAAGATTTTCTTTGGTTTAAA
64 CTTTTCTCGAAAAACCAAGTTTTCTAATCCATAAAAATTTTCGGG-AGATTTTCTTTGGTTTAAA
* * *
196358 -ATTTTTAAAATGTATCTAATAATGTCA-TGAAATTCTC
128 TA-TTTTAAAAGGTATCTAATAATGTCATTG-AACTCCC
* *
196395 ATTAAATT-AGTTTTGAAAATTTAATTCATTTTCATGAGTTTTGGATTTTTTTTTGAAATG-CCC
1 ATT-AATTCAATTTTGAAAATTTAATTCATTTTCATGAGTTTTGGATTTTTTTTTGAAATGTCAC
*
196458 TTTTCTCGAAAAAACCGAGTTTTCTAATCCATAAAAATTTTCTAGGG-GATTTTCTTTGGTTTAA
65 TTTTCTCG-AAAAACCAAGTTTTCTAATCCATAAAAATTTTC--GGGAGATTTTCTTTGGTTTAA
*
196522 ATATTTTAAAAGGTATCTAATATTGTCATTGAACTCCC
127 ATATTTTAAAAGGTATCTAATAATGTCATTGAACTCCC
* * *
196560 ATTAATTCAATTTTGAAAAATTTAATTTA-TTCCATGA-TTTTTGATTTTTTTT
1 ATTAATTCAATTTTG-AAAATTTAATTCATTTTCATGAGTTTTGGATTTTTTTT
196612 GTATATATTG
Statistics
Matches: 194, Mismatches: 14, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
164 27 0.14
165 102 0.53
166 54 0.28
167 11 0.06
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (164 bp):
ATTAATTCAATTTTGAAAATTTAATTCATTTTCATGAGTTTTGGATTTTTTTTTGAAATGTCACT
TTTCTCGAAAAACCAAGTTTTCTAATCCATAAAAATTTTCGGGAGATTTTCTTTGGTTTAAATAT
TTTAAAAGGTATCTAATAATGTCATTGAACTCCC
Found at i:197647 original size:31 final size:31
Alignment explanation
Indices: 197588--197653 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
197578 TGCATGCAAG
* *
197588 GCAATGTAGCATGTAATCATAAGAGACACAT
1 GCAATGTAGCATGCAATCATAAGAGACACAA
** *
197619 GCAATGTAGCATGCAATCATGGGGGACACAA
1 GCAATGTAGCATGCAATCATAAGAGACACAA
197650 GCAA
1 GCAA
197654 ATGGAAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.18, G:0.24, T:0.18
Consensus pattern (31 bp):
GCAATGTAGCATGCAATCATAAGAGACACAA
Found at i:198233 original size:31 final size:30
Alignment explanation
Indices: 198195--198285 Score: 103
Period size: 31 Copynumber: 2.9 Consensus size: 30
198185 CACTCGAAAA
*
198195 CCAGCAGCTCGAGCTTCTTCTAGCTTTCATG
1 CCAGCAGCTCGAGC-TCTTCTAGCTTCCATG
198226 CCAGCAGCTCGAGCCTCTT-TGAGCTTCCATG
1 CCAGCAGCTCGAG-CTCTTCT-AGCTTCCATG
** *
198257 GTAGCAGCTCGAGGCTCTTCCAGCTTCCA
1 CCAGCAGCTCGA-GCTCTTCTAGCTTCCA
198286 CGAACACAGC
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
30 1 0.02
31 49 0.94
32 2 0.04
ACGTcount: A:0.16, C:0.34, G:0.22, T:0.27
Consensus pattern (30 bp):
CCAGCAGCTCGAGCTCTTCTAGCTTCCATG
Found at i:198304 original size:21 final size:21
Alignment explanation
Indices: 198277--198347 Score: 88
Period size: 21 Copynumber: 3.2 Consensus size: 21
198267 GAGGCTCTTC
198277 CAGCTTCCACGAACACAGCAG
1 CAGCTTCCACGAACACAGCAG
*
198298 TAGCTTCCACGAACACGGCAGCAG
1 CAGCTTCCACGAACA---CAGCAG
* *
198322 CAGCATCCACGAACACGGCAG
1 CAGCTTCCACGAACACAGCAG
198343 CAGCT
1 CAGCT
198348 CGAGCCTCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
21 23 0.55
24 19 0.45
ACGTcount: A:0.31, C:0.37, G:0.23, T:0.10
Consensus pattern (21 bp):
CAGCTTCCACGAACACAGCAG
Found at i:198330 original size:24 final size:24
Alignment explanation
Indices: 198277--198346 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
198267 GAGGCTCTTC
198277 CAGCTTCCACGAACA---CAGCAG
1 CAGCTTCCACGAACACGGCAGCAG
*
198298 TAGCTTCCACGAACACGGCAGCAG
1 CAGCTTCCACGAACACGGCAGCAG
*
198322 CAGCATCCACGAACACGGCAGCAG
1 CAGCTTCCACGAACACGGCAGCAG
198346 C
1 C
198347 TCGAGCCTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 14 0.33
24 29 0.67
ACGTcount: A:0.31, C:0.37, G:0.23, T:0.09
Consensus pattern (24 bp):
CAGCTTCCACGAACACGGCAGCAG
Found at i:199256 original size:11 final size:11
Alignment explanation
Indices: 199234--199267 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
199224 AGTAAAATTT
199234 TAAAAAATATAA
1 TAAAAAA-ATAA
199246 TAAAAAAATAA
1 TAAAAAAATAA
*
199257 TAACAAAATAA
1 TAAAAAAATAA
199268 AATAATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (11 bp):
TAAAAAAATAA
Found at i:199280 original size:16 final size:16
Alignment explanation
Indices: 199234--199281 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
199224 AGTAAAATTT
199234 TAAAA-AATATAATAAA
1 TAAAATAATATAA-AAA
199250 -AAAATAATA-ACAAAA
1 TAAAATAATATA-AAAA
199265 TAAAATAATATAAAAA
1 TAAAATAATATAAAAA
199281 T
1 T
199282 TCTTTTCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 8 0.29
16 19 0.68
17 1 0.04
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (16 bp):
TAAAATAATATAAAAA
Found at i:203761 original size:22 final size:23
Alignment explanation
Indices: 203717--203761 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
203707 AGCTTAGTGA
* *
203717 CATTCATTGAATATTTTCATAAT
1 CATTCATTCAATATTTGCATAAT
*
203740 CATTCA-TCAATATTTGCTTAAT
1 CATTCATTCAATATTTGCATAAT
203762 TACTAAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.47
Consensus pattern (23 bp):
CATTCATTCAATATTTGCATAAT
Found at i:207886 original size:33 final size:33
Alignment explanation
Indices: 207844--207908 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
207834 TTTGAAGCAA
207844 TGTATTGATACAAT-T-CATCATGTATCGATACAT
1 TGTATTGATACAATGTGC--CATGTATCGATACAT
207877 TGTATTGATACAATGTGCCATGTATCGATACA
1 TGTATTGATACAATGTGCCATGTATCGATACA
207909 AATAGTGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.37
Consensus pattern (33 bp):
TGTATTGATACAATGTGCCATGTATCGATACAT
Found at i:208004 original size:21 final size:21
Alignment explanation
Indices: 207939--208021 Score: 93
Period size: 21 Copynumber: 4.1 Consensus size: 21
207929 TGCCAGTTTC
*
207939 ATGTATCGATACAATTG--TCC
1 ATGTATCGATAC-ATTGTATCG
* *
207959 ATGTATCGATACAATG-AAC-
1 ATGTATCGATACATTGTATCG
*
207978 ATGTATTGATACATTGTATCG
1 ATGTATCGATACATTGTATCG
207999 ATGTATCGATACATTGTATCG
1 ATGTATCGATACATTGTATCG
208020 AT
1 AT
208022 ACAAAGCATA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
19 17 0.31
20 15 0.28
21 22 0.41
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (21 bp):
ATGTATCGATACATTGTATCG
Found at i:208018 original size:13 final size:13
Alignment explanation
Indices: 208000--208024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
207990 ATTGTATCGA
208000 TGTATCGATACAT
1 TGTATCGATACAT
208013 TGTATCGATACA
1 TGTATCGATACA
208025 AAGCATAATG
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:210428 original size:21 final size:22
Alignment explanation
Indices: 210388--210431 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
210378 TGAAGATTTT
* *
210388 GTGAAAAATGAAGTATTTTGAA
1 GTGAAAAATGAAGAAATTTGAA
210410 GTGAAAAAT-AAGAAATTTGAA
1 GTGAAAAATGAAGAAATTTGAA
210431 G
1 G
210432 AAGATTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (22 bp):
GTGAAAAATGAAGAAATTTGAA
Found at i:215802 original size:13 final size:13
Alignment explanation
Indices: 215784--215809 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
215774 CAATTTTTTG
215784 TGTATCGATACAT
1 TGTATCGATACAT
215797 TGTATCGATACAT
1 TGTATCGATACAT
215810 ACTTGTTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:218172 original size:21 final size:21
Alignment explanation
Indices: 218148--218194 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
218138 TTTGATGCTG
218148 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
218168 -TATTTGAAGTGAAAAACAAGT
1 AT-TTTGAAGTGAAAAACAAGT
218189 ATTTTG
1 ATTTTG
218195 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:218333 original size:13 final size:13
Alignment explanation
Indices: 218315--218353 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
218305 ATAATCACCC
*
218315 TGTATCGATACAG
1 TGTATCGATACAA
218328 TGTATCGATACAA
1 TGTATCGATACAA
218341 TGTATCGATACAA
1 TGTATCGATACAA
218354 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:218364 original size:20 final size:20
Alignment explanation
Indices: 218339--218417 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
218329 GTATCGATAC
218339 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
218359 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
218384 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
218404 CATGTATCGATACA
1 AATGTATCGATACA
218418 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:220460 original size:15 final size:15
Alignment explanation
Indices: 220424--220461 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
220414 TTCATCAATT
* *
220424 TCATTTGGAGCTTCT
1 TCATTTTGAGCTTCC
220439 TCATTTTGAGCTTCC
1 TCATTTTGAGCTTCC
220454 TCATTTTG
1 TCATTTTG
220462 GACATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.21, G:0.16, T:0.50
Consensus pattern (15 bp):
TCATTTTGAGCTTCC
Found at i:222294 original size:21 final size:21
Alignment explanation
Indices: 222265--222309 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
222255 AAGTTTTCAT
*
222265 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
222285 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
222307 TTT
1 TTT
222310 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:224545 original size:13 final size:13
Alignment explanation
Indices: 224527--224552 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
224517 CAATTTTTTG
224527 TGTATCGATACAT
1 TGTATCGATACAT
224540 TGTATCGATACAT
1 TGTATCGATACAT
224553 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:225504 original size:79 final size:79
Alignment explanation
Indices: 225373--225553 Score: 195
Period size: 79 Copynumber: 2.3 Consensus size: 79
225363 TTTTGGAGAT
* ** * * * *
225373 AATAACGGGGTTGGAGTATCCTCGGTTGTGAAAAATCGATGATTAGGAAATAAAATCG-GGATTG
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCGAGG-TTA
225437 GAGTATCCCCTCGAA
65 GAGTATCCCCTCGAA
* * * *
225452 AATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTGGGAATAAAGCCGAGGTTA
1 AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTAGGAAATAAAACCGAGGTTA
*
225516 GAGTATCCCCTCGGA
65 GAGTATCCCCTCGAA
** *
225531 GGTAAAGGGGTTGGAGTATCCCC
1 AATAACGGGGTTGGAGTATCCCC
225554 GATGAAATAA
Statistics
Matches: 85, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 1 0.01
79 82 0.96
80 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.25
Consensus pattern (79 bp):
AATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAATAAAACCGAGGTTAG
AGTATCCCCTCGAA
Found at i:225717 original size:51 final size:51
Alignment explanation
Indices: 225567--225951 Score: 276
Period size: 52 Copynumber: 7.4 Consensus size: 51
225557 GAAATAACGA
** * *
225567 GGTTGGAGTATCCTAGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTTGGAAATAAAATCGG
* ** *
225619 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-GTGGAAAATTGGTGTTTTGGAAATAAAATCGG
* * *
225671 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGG
* *** * * *
225722 GGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTGGGAAT-AAAGCTGG
1 GGTTGGAGTATCCCCGATTGTGGA-AAATTGGTGTTTTGGAAATAAAATC-GG
* ** * * ***** * *
225773 GGTTGGAGTATTCCCTCAGA--G-GTAACGGGGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTA-TCCC-C-GATTGTGGAA---AATTGGTGTTTTGGAAAT-AAA-ATCGG
* *
225829 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTGGTG-TTTTGGAAATAAAATCGG
* * ** *
225881 AGTCGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-GTGGAAAATTGGTGTTTTGGAAATAAAATCGG
225933 GGTTGGAGTATCCCCGATT
1 GGTTGGAGTATCCCCGATT
225952 ATGAACAATT
Statistics
Matches: 254, Mismatches: 61, Indels: 36
0.72 0.17 0.10
Matches are distributed among these distances:
50 6 0.02
51 73 0.29
52 108 0.43
53 33 0.13
54 12 0.05
55 4 0.02
56 16 0.06
57 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:225922 original size:262 final size:262
Alignment explanation
Indices: 225457--225951 Score: 900
Period size: 262 Copynumber: 1.9 Consensus size: 262
225447 TCGAAAATAA
225457 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGAGGTTAGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGAGGTTAGAGTAT
*
225522 CCCCTCGGAGGTAAAGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTAGATTG
66 CCCCTCAGAGGTAAAGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTAGATTG
*
225587 TGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
225652 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAA
196 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAA
225717 AC
261 AC
* * * *
225719 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGGAATAAAGCTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGAGGTTAGAGTAT
* * *
225784 TCCCTCAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCAGAGGTAAAGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTAGATTG
*
225849 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
225914 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT
196 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT
225952 ATGAACAATT
Statistics
Matches: 223, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
262 223 1.00
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (262 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGAGGTTAGAGTAT
CCCCTCAGAGGTAAAGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTAGATTG
TGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTCGGAGTATCCCCGATTAAAGGAAAATTGGT
GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAA
AC
Found at i:228321 original size:21 final size:21
Alignment explanation
Indices: 228295--228335 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
228285 ACAAAGATTG
228295 ATGTATCGATACATTTCCTTC
1 ATGTATCGATACATTTCCTTC
228316 ATGTATCGATACATTTCCTT
1 ATGTATCGATACATTTCCTT
228336 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATTTCCTTC
Found at i:228393 original size:32 final size:32
Alignment explanation
Indices: 228352--228424 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
228342 AGCTTCGTAG
228352 CGATACATTGTATCAATACAAAACTTATGTAT
1 CGATACATTGTATCAATACAAAACTTATGTAT
* *
228384 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCAATACAAAACTTATGTAT
228416 CGATACATT
1 CGATACATT
228425 TTCTGTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCAATACAAAACTTATGTAT
Found at i:228397 original size:13 final size:13
Alignment explanation
Indices: 228379--228403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
228369 ACAAAACTTA
228379 TGTATCGATACAT
1 TGTATCGATACAT
228392 TGTATCGATACA
1 TGTATCGATACA
228404 ACACTTATGT
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:228416 original size:19 final size:19
Alignment explanation
Indices: 228360--228422 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
228350 AGCGATACAT
* *
228360 TGTATCAATACAAAACTTA
1 TGTATCGATACAACACTTA
228379 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
228392 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
228411 TGTATCGATACA
1 TGTATCGATACA
228423 TTTTCTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 9 0.25
14 1 0.03
16 5 0.14
18 1 0.03
19 20 0.56
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:229292 original size:26 final size:26
Alignment explanation
Indices: 229263--229407 Score: 73
Period size: 26 Copynumber: 5.3 Consensus size: 26
229253 GTGTGGGCTT
229263 TGAAAGGTGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGAGGAC
* * *
229289 TGAAAGGTG-CC-ACTAACTTGTGTGGGC
1 TGAAAGGTGTCCTGCT--CTT-TGAGGAC
*
229316 TTTAAGAGGTGTCCTGCTCTTTGAGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGAGGAC
* ** * * *
229344 TGGAAA-ATG-CCACCAACTTGTGTGGGC
1 T-GAAAGGTGTCCTGC-TCTT-TGAGGAC
*
229371 TTTGAAAGGTGTCCTGCTCTTTGGGGAC
1 --TGAAAGGTGTCCTGCTCTTTGAGGAC
229399 TGAAAGGTG
1 TGAAAGGTG
229408 CCACCAACTT
Statistics
Matches: 85, Mismatches: 20, Indels: 28
0.64 0.15 0.21
Matches are distributed among these distances:
24 2 0.02
25 5 0.06
26 26 0.31
27 12 0.14
28 19 0.22
29 14 0.16
30 5 0.06
31 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.30
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGAGGAC
Found at i:229301 original size:55 final size:55
Alignment explanation
Indices: 229217--229818 Score: 681
Period size: 55 Copynumber: 10.4 Consensus size: 55
229207 ATAAAGTGCA
* * * *
229217 TCCTGCTCTTTGAAGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
229272 TCCTGCTCTTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
229327 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* **
229382 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTG
*
229443 TCCTGCTCTTTGAGGACTAGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTG
* **
229504 TCCTACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGACG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
229559 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAATGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AA--AG---GTG
* * *
229620 TCCTACTCTTTGAGGACTGAAAGGAGCCACCAACTTGTGTTGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
229675 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTC
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTG
* * * *
229736 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----GA-AAGGTG
229796 TCCTGCTCTTTGAGGACT-AAAGG
1 TCCTGCTCTTTGAGGACTGAAAGG
229819 GCGAAAGGAG
Statistics
Matches: 479, Mismatches: 38, Indels: 56
0.84 0.07 0.10
Matches are distributed among these distances:
54 6 0.01
55 229 0.48
56 14 0.03
58 4 0.01
59 4 0.01
60 36 0.08
61 177 0.37
62 4 0.01
65 1 0.00
66 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:229563 original size:116 final size:117
Alignment explanation
Indices: 229217--229814 Score: 809
Period size: 116 Copynumber: 5.2 Consensus size: 117
229207 ATAAAGTGCA
* *
229217 TCCTGCTCTTTGAAGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTT-----GA-AAGGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCC
* * *
229275 TGCTCTTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTT-AAGAGGTG
66 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
*
229327 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-----GA-AAGGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCC
* * *
229385 TGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
66 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AAAG-----GCG
229443 TCCTGCTCTTTGAGGACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCC
*
229507 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGACG
66 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
229559 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAATGTGTCC
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCC
* * *
229623 TACTCTTTGAGGACTGAAAGGAGCCACCAACTTGTGTTGGCTTTGAAAGGTG
66 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
229675 TCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTCTCC
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCC
* *
229739 TACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTAGGCTTTAAAGGAGAAGGCG
66 TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT----GA-AAGGCG
229796 TCCTGCTCTTTGAGGACTA
1 TCCTGCTCTTTGAGGACTA
229815 AAGGGCGAAA
Statistics
Matches: 444, Mismatches: 23, Indels: 30
0.89 0.05 0.06
Matches are distributed among these distances:
110 92 0.21
111 6 0.01
112 2 0.00
115 5 0.01
116 256 0.58
120 2 0.00
121 29 0.07
122 52 0.12
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (117 bp):
TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAGGTGTCC
TACTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:230889 original size:1 final size:1
Alignment explanation
Indices: 230883--230961 Score: 59
Period size: 1 Copynumber: 79.0 Consensus size: 1
230873 AAGCAGATTC
* * * ** * * * *
230883 TTTTTTTTTCTTTTTTCTTTGTTTTTTTTTGGTTTTTTTTGTTTGTTTTTTTTGTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
**
230948 TTGCTTTTTTTTTT
1 TTTTTTTTTTTTTT
230962 AGAAAAGAAG
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 59 1.00
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (1 bp):
T
Found at i:230895 original size:10 final size:10
Alignment explanation
Indices: 230880--230960 Score: 67
Period size: 10 Copynumber: 8.2 Consensus size: 10
230870 CTTAAGCAGA
230880 TTCTTTTTTT
1 TTCTTTTTTT
230890 TTCTTTTTTCT
1 TTCTTTTTT-T
*
230901 TTGTTTTTTT
1 TTCTTTTTTT
**
230911 TTGGTTTTTT
1 TTCTTTTTTT
* *
230921 TTGTTTGTTT
1 TTCTTTTTTT
* *
230931 TT-TTTGTTG
1 TTCTTTTTTT
230940 TT-TTTTTTT
1 TTCTTTTTTT
*
230949 TGCTTTTTTT
1 TTCTTTTTTT
230959 TT
1 TT
230961 TAGAAAAGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
9 14 0.23
10 37 0.62
11 9 0.15
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:230910 original size:24 final size:22
Alignment explanation
Indices: 230883--230961 Score: 86
Period size: 24 Copynumber: 3.5 Consensus size: 22
230873 AAGCAGATTC
* *
230883 TTTTTTTTTCTTTTTTCTTTGT
1 TTTTTTTTTTTTTTTTTTTTGT
*
230905 TTTTTTTTGGTTTTTTTTGTTTGT
1 TTTTTTTT--TTTTTTTTTTTTGT
* *
230929 TTTTTTTGTTGTTTTTTTTTTGC
1 TTTTTTT-TTTTTTTTTTTTTGT
230952 TTTTTTTTTT
1 TTTTTTTTTT
230962 AGAAAAGAAG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
22 10 0.21
23 18 0.38
24 19 0.40
25 1 0.02
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (22 bp):
TTTTTTTTTTTTTTTTTTTTGT
Found at i:230911 original size:13 final size:12
Alignment explanation
Indices: 230883--230961 Score: 83
Period size: 11 Copynumber: 6.7 Consensus size: 12
230873 AAGCAGATTC
*
230883 TTTTTTTTT-CT
1 TTTTTTTTTGTT
*
230894 TTTTTCTTTG-T
1 TTTTTTTTTGTT
*
230905 TTTTTTTTGGTT
1 TTTTTTTTTGTT
230917 TTTTTTGTTTGTT
1 TTTTTT-TTTGTT
*
230930 TTTTTTGTTG-T
1 TTTTTTTTTGTT
230941 TTTTTTTTTGCTT
1 TTTTTTTTTG-TT
230954 TTTTTTTT
1 TTTTTTTT
230962 AGAAAAGAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
11 27 0.47
12 10 0.18
13 20 0.35
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:243516 original size:79 final size:77
Alignment explanation
Indices: 243332--243565 Score: 222
Period size: 79 Copynumber: 2.9 Consensus size: 77
243322 ATATGTCCCG
* *
243332 ATGAGAAATTTAATATTTT-GGAGATAATAACAGGGTTGGAGTATCCCCTTGAAAATAACGGGGT
1 ATGAGAAA-TCAATATTTTGGGA-ATAA-AAC-GGGTTGGAGTATCCCCTCGAAAATAACGGGGT
**
243396 TGGAGTATCCCCGGTT
62 TGGAGTATCCCCAATT
* * * * ** **
243412 GTGAAAAATCGATGA-TTAGAAAATAAAATCGGGATTGGAGTATCCCCTCGAAAATAATAGGGTT
1 ATGAGAAATCAAT-ATTTTGGGAATAAAA-CGGG-TTGGAGTATCCCCTCGAAAATAACGGGGTT
243476 GGAGTATCCCCAATT
63 GGAGTATCCCCAATT
* **
243491 ATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTC-AGAGGTAACGGGGTT
1 ATGAGAAATCAATATTTTGGGAATAAA-AC-GGGTTGGAGTATCCCCTCGA-AAATAACGGGGTT
243555 GGAGTATCCCC
63 GGAGTATCCCC
243566 GATGAAATAA
Statistics
Matches: 123, Mismatches: 23, Indels: 17
0.75 0.14 0.10
Matches are distributed among these distances:
78 7 0.06
79 105 0.85
80 11 0.09
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (77 bp):
ATGAGAAATCAATATTTTGGGAATAAAACGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGA
GTATCCCCAATT
Found at i:243560 original size:28 final size:28
Alignment explanation
Indices: 243520--243591 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
243510 GGAATAAAGC
**
243520 CGGGGTTGGAGTATCCCCTCA-GAGGTAA
1 CGGGGTTGGAGTATCCCC-CATGAAATAA
*
243548 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
*
243576 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
243592 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:243649 original size:52 final size:52
Alignment explanation
Indices: 243580--244235 Score: 284
Period size: 52 Copynumber: 12.6 Consensus size: 52
243570 AAATAACGAG
*
243580 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
** * *
243632 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGA-AAATAAAATCAGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTTAGAAATAAAATC-GGA
* * *
243684 GTTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAATAAAA-CAGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATC-GGA
* * *** * * * **
243735 GTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTTGGGAATAAAGCCAGG-
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATC-GGA
* *** * **
243786 GTTGGAGTATCCCCTCGGA-GGT-AACGGGGTTGGAGTATCCTCGATGAAAT--AA-C-GA
1 GTTGGAGTAT-CCC-C-GATTGTGAA--AAATTGGTGT-T--TTTA-GAAATAAAATCGGA
* *
243841 GGTTGGAGTATCCTCC-ATTGTGAACAATTGGTGTTTTTGGAAATAAAATCGGA
1 -GTTGGAGTATCC-CCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
* ** * * *
243894 GTTGGAGTATTCCCGATTAAAGGAAAATTGGTGTTTTGA-AAATAAAATCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
* * * *
243946 GTTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAAT-AAATAGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
* * *** * * * ** *
243996 GTTGGAGTAT-CCCGATTATGAGAAATCAAT-ATTTTGGGAATAAAGCCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
* * * ** *
244046 GTTGGAGTATCCCC--TCG-GAGATAACGGGGTTGGAGTATCCTCG--ATGAACTAA-C-GA
1 GTTGGAGTATCCCCGATTGTGA-A-AA----ATTGGTGT-TTTTAGAAAT-AA--AATCGGA
* * * *
244101 GGTTGGAGTATCCACGATTGTCAAAAATTGGTGTTTTTGGAAATAAAATCGAA
1 -GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
* ** * * *
244154 GTCGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTAAAAATAAAATCGGG
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
* *
244206 GTTGGAGTATCCCCGATTATGAACAATTGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTGG
244236 GAAACTTAAC
Statistics
Matches: 451, Mismatches: 102, Indels: 103
0.69 0.16 0.16
Matches are distributed among these distances:
48 2 0.00
49 29 0.06
50 47 0.10
51 99 0.22
52 150 0.33
53 62 0.14
54 11 0.02
55 8 0.02
56 30 0.07
57 4 0.01
58 4 0.01
59 5 0.01
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGA
Found at i:243729 original size:51 final size:51
Alignment explanation
Indices: 243579--244012 Score: 286
Period size: 51 Copynumber: 8.4 Consensus size: 51
243569 GAAATAACGA
* * *
243579 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATC-G
1 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTG-TTTTAGAAATAAAATCAG
** *
243630 GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAATCAG
1 G-GTTGGAGTATCCCCGATT-GTGGAAAATTAGTGTTTTAG-AAATAAAATCAG
243683 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAA-CAGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAATCA-G
* * * * * * **
243734 GGTTGGAGTATCCCCGATTAT-GAGAAATCAATATTTTGGGAATAAAGCCAG
1 GGTTGGAGTATCCCCGATTGTGGA-AAATTAGTGTTTTAGAAATAAAATCAG
* * ** * ** * * *
243785 GGTTGGAGTATCCCC--TCGGAGGTAACGGGGTTGGAGTATCCTCG--ATGAAATAACG
1 GGTTGGAGTATCCCCGAT-TGTGG-AA---AATT--AGTGTTTTAGAAATAAAATCA-G
* *
243840 AGGTTGGAGTATCCTCC-ATTGT-GAACAATTGGTGTTTTTGGAAATAAAATC-G
1 -GGTTGGAGTATCC-CCGATTGTGGAA-AATTAGTG-TTTTAGAAATAAAATCAG
* ** * *
243892 GAGTTGGAGTATTCCCGATTAAAGGAAAATTGGTGTTTT-GAAAATAAAATCGG
1 G-GTTGGAGTATCCCCGATT-GTGGAAAATTAGTGTTTTAG-AAATAAAATCAG
243945 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAAT-AAAT-AGG
1 GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAATCA-G
243995 GGTTGGAGTAT-CCCGATT
1 GGTTGGAGTATCCCCGATT
244013 ATGAGAAATC
Statistics
Matches: 304, Mismatches: 48, Indels: 64
0.73 0.12 0.15
Matches are distributed among these distances:
49 8 0.03
50 20 0.07
51 106 0.35
52 103 0.34
53 25 0.08
54 15 0.05
55 3 0.01
56 20 0.07
57 3 0.01
58 1 0.00
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAATCAG
Found at i:244098 original size:28 final size:28
Alignment explanation
Indices: 244042--244118 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
244032 GGAATAAAGC
244042 CGGGGTTGGAGTATCCCCTCG--GAGATAA
1 CGGGGTTGGAGTAT--CCTCGATGAGATAA
244070 CGGGGTTGGAGTATCCTCGATGA-ACTAA
1 CGGGGTTGGAGTATCCTCGATGAGA-TAA
* *
244098 CGAGGTTGGAGTATCCACGAT
1 CGGGGTTGGAGTATCCTCGAT
244119 TGTCAAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
26 5 0.11
27 1 0.02
28 38 0.86
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCTCGATGAGATAA
Found at i:244140 original size:260 final size:261
Alignment explanation
Indices: 243463--244223 Score: 1339
Period size: 262 Copynumber: 2.9 Consensus size: 261
243453 ATCCCCTCGA
*
243463 AAAT-AATA-GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGT
1 AAATAAATAGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGT
* *
243526 TGGAGTATCCCCTCAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATC
66 TGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTATC
*
243591 CTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGA
131 CTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGA
*
243656 AAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTA
196 AAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTA
243721 G
261 G
* *
243722 AAATAAAACAGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGGAATAAAGCCAGGG
1 AAAT-AAATAGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGG
243787 TTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTAT
65 TTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTAT
* * *
243852 CCTCCATTGTGAACAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATTCCCGATTAAAGG
130 CCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGG
243917 AAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTT
195 AAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTT
243982 AG
260 AG
243984 AAATAAATAGGGGTTGGAGTAT-CCCGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGT
1 AAATAAATAGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGT
* *
244048 TGGAGTATCCCCTCGGAGATAACGGGGTTGGAGTATCCTCGATGAACTAACGAGGTTGGAGTATC
66 TGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTATC
* * * *
244113 CACGATTGTCAAAAATTGGTGTTTTTGGAAATAAAATCGAAGTCGGAGTATCCCCGATTAAAGGA
131 CTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGA
*
244178 AAATTGGTGTTTTAAAAATAAAATCGGGGTTGGAGTATCCCCGATT
196 AAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT
244224 ATGAACAATT
Statistics
Matches: 477, Mismatches: 22, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
259 4 0.01
260 207 0.43
261 20 0.04
262 246 0.52
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (261 bp):
AAATAAATAGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGT
TGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCTCGATGAAATAACGAGGTTGGAGTATC
CTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGA
AAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTA
G
Found at i:246612 original size:21 final size:21
Alignment explanation
Indices: 246586--246626 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
246576 ACAAAGATCG
246586 ATGTATCGATACATTTCCTTA
1 ATGTATCGATACATTTCCTTA
*
246607 ATGTATTGATACATTTCCTT
1 ATGTATCGATACATTTCCTT
246627 GGCAGTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (21 bp):
ATGTATCGATACATTTCCTTA
Found at i:246661 original size:13 final size:13
Alignment explanation
Indices: 246643--246694 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
246633 AGCTTCGTAG
246643 CGATACATTGTAT
1 CGATACATTGTAT
246656 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
246675 CGATACATTGTAT
1 CGATACATTGTAT
246688 CGATACA
1 CGATACA
246695 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:246675 original size:19 final size:18
Alignment explanation
Indices: 246651--246713 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
246641 AGCGATACAT
246651 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
246670 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
246683 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
246702 TGTGTCGATACA
1 TGTATCGATACA
246714 TTTTCTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
16 2 0.05
18 1 0.03
19 22 0.59
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:246684 original size:32 final size:32
Alignment explanation
Indices: 246643--246715 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
246633 AGCTTCGTAG
246643 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* *
246675 CGATACATTGTATCGATACAACACTTATGTGT
1 CGATACATTGTATCGATACAAAACTTATGTAT
246707 CGATACATT
1 CGATACATT
246716 TTCTGTTTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:246742 original size:19 final size:19
Alignment explanation
Indices: 246682--246743 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
246672 TATCGATACA
246682 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* * **
246701 ATGTGTCGATACATTTTCTGT
1 TTGTATCGATACA--AACTGT
246722 TTGTATCGATACAAACTGT
1 TTGTATCGATACAAACTGT
246741 TTG
1 TTG
246744 AAAATCAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
19 18 0.56
20 2 0.06
21 12 0.38
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:246802 original size:21 final size:21
Alignment explanation
Indices: 246776--246849 Score: 139
Period size: 21 Copynumber: 3.5 Consensus size: 21
246766 GGAACCTTGT
246776 ATCGATACATTCTACAAATGC
1 ATCGATACATTCTACAAATGC
246797 ATCGATACATTCTACAAATGC
1 ATCGATACATTCTACAAATGC
*
246818 ATCGATACATTCTACAAATGT
1 ATCGATACATTCTACAAATGC
246839 ATCGATACATT
1 ATCGATACATT
246850 TGGATAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (21 bp):
ATCGATACATTCTACAAATGC
Found at i:250461 original size:19 final size:20
Alignment explanation
Indices: 250417--250469 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
250407 CTGCCAGTTT
* **
250417 CATGTATCGGTACAATTGTC
1 CATGTATCGATACAATTGAA
250437 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
250456 CATGTATCGATACA
1 CATGTATCGATACA
250470 TTATATCGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 16 0.53
20 14 0.47
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:250482 original size:32 final size:33
Alignment explanation
Indices: 250441--250503 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
250431 ATTGTCCATG
*
250441 TATCGATACAATG-A-ACATGTATCGATACATTA
1 TATCGATACAAAGCATA-ATGTATCGATACATTA
250473 TATCGATACAAAGCATAATGTATCGATACAT
1 TATCGATACAAAGCATAATGTATCGATACAT
250504 CTGGGTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.43
33 15 0.54
34 1 0.04
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (33 bp):
TATCGATACAAAGCATAATGTATCGATACATTA
Found at i:255693 original size:42 final size:42
Alignment explanation
Indices: 255646--256075 Score: 411
Period size: 42 Copynumber: 10.0 Consensus size: 42
255636 TAAATTTCTA
* ** *
255646 GAGACTTTCCTTCCCTTAGTCTGTTTGTTGGCTTTGACCCTG
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTG
255688 GAGACTTTCCTACCCTTAGTCTACCTGTCGGCTTTGTGTCGGCTTTGACCCTG
1 GAGACTTTCCTACCCTTAG--T--CTG-C--C----TGTCGGCTTTGACCCTG
* * *
255741 GAGACTTTCCTTCCCTTATTCTGCCTGTCGGCTTTTACCCTG
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * * *
255783 GAGACTTTCCTTCCTTTAGTCTGCCTGTCGGCTTTGAACTTG
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* ** * *
255825 GAGATTTTCCTACCCTTAGTCTGTTTGTTGGCTTTGACCTTG
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTG
* * * *
255867 GAGACTTTTCTACCCTTAGTCTGCCTATCGACTTTGACCTTG
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTG
*
255909 GAGACTTTCCTTCCCTTAGTCTG-CTCGTCGGC-TTGACCCTG
1 GAGACTTTCCTACCCTTAGTCTGCCT-GTCGGCTTTGACCCTG
* * * *
255950 GAGACTTTTCTACCTTTAGTCTGCCTGT-GGACTTTGACCTTA
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGG-CTTTGACCCTG
* * * *
255992 GAGACTCTT-CTACCTTTAGCCTGCTTGTCGG-TCTTGACCCTA
1 GAGACT-TTCCTACCCTTAGTCTGCCTGTCGGCT-TTGACCCTG
* *
256034 GAGACTTTTCTACCTTTAGTCTGCCTGTCGGCTTTGACCCTG
1 GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTG
256076 AAGATTGCCT
Statistics
Matches: 326, Mismatches: 42, Indels: 40
0.80 0.10 0.10
Matches are distributed among these distances:
40 2 0.01
41 36 0.11
42 240 0.74
43 5 0.02
44 1 0.00
46 4 0.01
48 1 0.00
49 3 0.01
51 1 0.00
53 33 0.10
ACGTcount: A:0.12, C:0.28, G:0.20, T:0.39
Consensus pattern (42 bp):
GAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCCTG
Found at i:255747 original size:53 final size:53
Alignment explanation
Indices: 255675--255775 Score: 175
Period size: 53 Copynumber: 1.9 Consensus size: 53
255665 TCTGTTTGTT
255675 GGCTTTGACCCTGGAGACTTTCCTACCCTTAGTCTACCTGTCGGCTTTGTGTC
1 GGCTTTGACCCTGGAGACTTTCCTACCCTTAGTCTACCTGTCGGCTTTGTGTC
* * *
255728 GGCTTTGACCCTGGAGACTTTCCTTCCCTTATTCTGCCTGTCGGCTTT
1 GGCTTTGACCCTGGAGACTTTCCTACCCTTAGTCTACCTGTCGGCTTT
255776 TACCCTGGAG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.10, C:0.31, G:0.22, T:0.38
Consensus pattern (53 bp):
GGCTTTGACCCTGGAGACTTTCCTACCCTTAGTCTACCTGTCGGCTTTGTGTC
Found at i:255810 original size:95 final size:95
Alignment explanation
Indices: 255646--255818 Score: 274
Period size: 95 Copynumber: 1.8 Consensus size: 95
255636 TAAATTTCTA
** *
255646 GAGACTTTCCTTCCCTTAGTCTGTTTGTTGGCTTTGACCCTGGAGACTTTCCTACCCTTAGTCTA
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTACCCTTAGTCTA
255711 CCTGTCGGCTTTGTGTCGGCTTTGACCCTG
66 CCTGTCGGCTTTGTGTCGGCTTTGACCCTG
* * * * *
255741 GAGACTTTCCTTCCCTTATTCTGCCTGTCGGCTTTTACCCTGGAGACTTTCCTTCCTTTAGTCTG
1 GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTACCCTTAGTCTA
255806 CCTGTCGGCTTTG
66 CCTGTCGGCTTTG
255819 AACTTGGAGA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 70 1.00
ACGTcount: A:0.10, C:0.29, G:0.21, T:0.40
Consensus pattern (95 bp):
GAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTACCCTTAGTCTA
CCTGTCGGCTTTGTGTCGGCTTTGACCCTG
Found at i:255869 original size:84 final size:84
Alignment explanation
Indices: 255724--256072 Score: 454
Period size: 84 Copynumber: 4.2 Consensus size: 84
255714 GTCGGCTTTG
* * * * *
255724 TGTCGGCTTTGACCCTGGAGACTTTCCTTCCCTTATTCTGCCTGTCGGCTTTTACCCTGGAGACT
1 TGTCGGCTTTGACCTTGGAGACTTTCCTACCCTTAGTCTGCTTGTCGGCTTTGACCCTGGAGACT
* *
255789 TTCCTTCCTTTAGTCTGCC
66 TTTCTACCTTTAGTCTGCC
* * * * *
255808 TGTCGGCTTTGAACTTGGAGATTTTCCTACCCTTAGTCTGTTTGTTGGCTTTGACCTTGGAGACT
1 TGTCGGCTTTGACCTTGGAGACTTTCCTACCCTTAGTCTGCTTGTCGGCTTTGACCCTGGAGACT
*
255873 TTTCTACCCTTAGTCTGCC
66 TTTCTACCTTTAGTCTGCC
* * * *
255892 TATCGACTTTGACCTTGGAGACTTTCCTTCCCTTAGTCTGCTCGTCGGC-TTGACCCTGGAGACT
1 TGTCGGCTTTGACCTTGGAGACTTTCCTACCCTTAGTCTGCTTGTCGGCTTTGACCCTGGAGACT
255956 TTTCTACCTTTAGTCTGCC
66 TTTCTACCTTTAGTCTGCC
* * * *
255975 TGT-GGACTTTGACCTTAGAGACTCTT-CTACCTTTAGCCTGCTTGTCGG-TCTTGACCCTAGAG
1 TGTCGG-CTTTGACCTTGGAGACT-TTCCTACCCTTAGTCTGCTTGTCGGCT-TTGACCCTGGAG
256037 ACTTTTCTACCTTTAGTCTGCC
63 ACTTTTCTACCTTTAGTCTGCC
256059 TGTCGGCTTTGACC
1 TGTCGGCTTTGACC
256073 CTGAAGATTG
Statistics
Matches: 229, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
82 1 0.00
83 68 0.30
84 158 0.69
85 2 0.01
ACGTcount: A:0.13, C:0.28, G:0.20, T:0.39
Consensus pattern (84 bp):
TGTCGGCTTTGACCTTGGAGACTTTCCTACCCTTAGTCTGCTTGTCGGCTTTGACCCTGGAGACT
TTTCTACCTTTAGTCTGCC
Found at i:256040 original size:167 final size:168
Alignment explanation
Indices: 255730--256075 Score: 468
Period size: 167 Copynumber: 2.1 Consensus size: 168
255720 TTTGTGTCGG
* * *
255730 CTTTGACCCTGGAGACTTTCCTTCCCTTATTCTGCCTGTCGGCTTTTACCCTGGAGACTTTCCTT
1 CTTTGACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
* * * * *
255795 CCTTTAGTCTGCCTGTCGGCTTTGAACTTGGAGATTTTCCTACCCTTAGTCTGTTTGTTGGCTTT
66 CCTTTAGTCTGCCTGTCGGCTTTGAACTTAGAGATCTTCCTACCCTTAGCCTGCTTGTCGGCTTT
* *
255860 GACCTTGGAGACTTTTCTACCCTTAGTCTGCCTATCGA
131 GACCCTAGAGACTTTTCTACCCTTAGTCTGCCTATCGA
* *
255898 CTTTGACCTTGGAGACTTTCCTTCCCTTAGTCTG-CTCGTCGGC-TTGACCCTGGAGACTTTTCT
1 CTTTGACCCTGGAGACTTTCCTTCCCTTAGTCTGCCT-GTCGGCTTTGACCCTGGAGACTTTCCT
* *
255961 ACCTTTAGTCTGCCTGT-GGACTTTGACCTTAGAGACTCTT-CTACCTTTAGCCTGCTTGTCGG-
65 ACCTTTAGTCTGCCTGTCGG-CTTTGAACTTAGAGA-TCTTCCTACCCTTAGCCTGCTTGTCGGC
* * *
256023 TCTTGACCCTAGAGACTTTTCTACCTTTAGTCTGCCTGTCGG
128 T-TTGACCCTAGAGACTTTTCTACCCTTAGTCTGCCTATCGA
256065 CTTTGACCCTG
1 CTTTGACCCTG
256076 AAGATTGCCT
Statistics
Matches: 156, Mismatches: 18, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
166 3 0.02
167 112 0.72
168 41 0.26
ACGTcount: A:0.13, C:0.29, G:0.20, T:0.39
Consensus pattern (168 bp):
CTTTGACCCTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTTCCTA
CCTTTAGTCTGCCTGTCGGCTTTGAACTTAGAGATCTTCCTACCCTTAGCCTGCTTGTCGGCTTT
GACCCTAGAGACTTTTCTACCCTTAGTCTGCCTATCGA
Found at i:256713 original size:31 final size:31
Alignment explanation
Indices: 256670--256740 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
256660 TTCCTTGCAT
256670 ACAAGGCAATGTAGAATGCAATCATGGGAGAC
1 ACAA-GCAATGTAGAATGCAATCATGGGAGAC
* * * *
256702 ACATGCAATGTAGCATGCAATTATGGGGGAC
1 ACAAGCAATGTAGAATGCAATCATGGGAGAC
256733 ACAAGCAA
1 ACAAGCAA
256741 ATGGAAAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (31 bp):
ACAAGCAATGTAGAATGCAATCATGGGAGAC
Found at i:257433 original size:31 final size:31
Alignment explanation
Indices: 257283--257433 Score: 123
Period size: 31 Copynumber: 5.0 Consensus size: 31
257273 ACCCAAAACT
* * *
257283 AGCAGCTCGAGCTTTTTCCAGCTTCCACGGC
1 AGCAGCTCGAGCCTCTTCCAGCTTCCACGAC
** *
257314 AATAGCTTGAGCCTCTTCCAGCTTCCACGAC
1 AGCAGCTCGAGCCTCTTCCAGCTTCCACGAC
*
257345 AGCAGCTCGAGCCTCTTCTAGCTTCCACGAAC
1 AGCAGCTCGAGCCTCTTCCAGCTTCCACG-AC
** * ***
257377 A-CAG--C-AGCAAGCATCCA-CAAACACGAC
1 AGCAGCTCGAGC-CTCTTCCAGCTTCCACGAC
*
257404 AGCAGCTCAAGCCTCTTCCAGCTTCCACGA
1 AGCAGCTCGAGCCTCTTCCAGCTTCCACGA
257434 AAACAGTAGC
Statistics
Matches: 90, Mismatches: 23, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
27 3 0.03
28 11 0.12
29 5 0.06
30 6 0.07
31 62 0.69
32 3 0.03
ACGTcount: A:0.25, C:0.37, G:0.18, T:0.20
Consensus pattern (31 bp):
AGCAGCTCGAGCCTCTTCCAGCTTCCACGAC
Found at i:258109 original size:16 final size:16
Alignment explanation
Indices: 258090--258121 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
258080 ATATAATAAC
*
258090 AAAATAATAACAAAAT
1 AAAATAATAAAAAAAT
258106 AAAATAATAAAAAAAT
1 AAAATAATAAAAAAAT
258122 TCTTTTCATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAATAAAAAAAT
Found at i:258121 original size:11 final size:11
Alignment explanation
Indices: 258082--258107 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
258072 TTTAAAAAAT
258082 ATAATAACAAA
1 ATAATAACAAA
258093 ATAATAACAAA
1 ATAATAACAAA
258104 ATAA
1 ATAA
258108 AATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (11 bp):
ATAATAACAAA
Found at i:262099 original size:50 final size:51
Alignment explanation
Indices: 262042--262143 Score: 161
Period size: 50 Copynumber: 2.0 Consensus size: 51
262032 CAAGTAGAAG
* * * *
262042 AGAAAATCTAAAAGAAAATACCTTTGAATATTTTC-TTTTTACTTACTAAA
1 AGAAAATCAAAAAGAAAATACCTTTCAAAATTTTCATTTTTACATACTAAA
262092 AGAAAATCAAAAAGAAAATACCTTTCAAAATTTTCATTTTTACATACTAAA
1 AGAAAATCAAAAAGAAAATACCTTTCAAAATTTTCATTTTTACATACTAAA
262143 A
1 A
262144 CTTTTTTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 32 0.68
51 15 0.32
ACGTcount: A:0.48, C:0.13, G:0.05, T:0.34
Consensus pattern (51 bp):
AGAAAATCAAAAAGAAAATACCTTTCAAAATTTTCATTTTTACATACTAAA
Found at i:262950 original size:11 final size:11
Alignment explanation
Indices: 262913--262956 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
262903 TAATACTTTC
*
262913 AATATAATTAT
1 AATATAAATAT
*
262924 AATATGAAAAAT
1 AATAT-AAATAT
262936 AATATAAATAT
1 AATATAAATAT
*
262947 AATATGAATA
1 AATATAAATA
262957 CGTGAATCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 19 0.68
12 9 0.32
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (11 bp):
AATATAAATAT
Found at i:264236 original size:17 final size:17
Alignment explanation
Indices: 264210--264253 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
264200 ATTCTTGTCA
264210 TAAATAAATATTTACT-
1 TAAATAAATATTTACTC
*
264226 TAAATTAAATATTTATTC
1 TAAA-TAAATATTTACTC
264244 TAAATAAATA
1 TAAATAAATA
264254 ATATGAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 4 0.16
17 17 0.68
18 4 0.16
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAATAAATATTTACTC
Found at i:266890 original size:20 final size:21
Alignment explanation
Indices: 266846--266899 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
266836 TTTTACAATT
* *
266846 TGTATCGATATAAATAGTAAA
1 TGTATCGATACATATAGTAAA
*
266867 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGTAAA
*
266887 TGTATTGATACAT
1 TGTATCGATACAT
266900 GCCTGAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATATAGTAAA
Found at i:266990 original size:42 final size:42
Alignment explanation
Indices: 266943--267022 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
266933 TTCTAGAAAG
*
266943 AAATTGTATCAATACATAAGTGAATGTATCGATACATTGCTT
1 AAATTGTATCAATACATAAGTCAATGTATCGATACATTGCTT
* * * *
266985 AAATTGTATCAATACGTTATTCATTGTATCGATACATT
1 AAATTGTATCAATACATAAGTCAATGTATCGATACATT
267023 TTGGGTTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (42 bp):
AAATTGTATCAATACATAAGTCAATGTATCGATACATTGCTT
Found at i:266994 original size:22 final size:20
Alignment explanation
Indices: 266944--267022 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 20
266934 TCTAGAAAGA
* * *
266944 AATTGTATCAATACATAAGTG
1 AATTGTATCGATACATTA-TT
*
266965 AA-TGTATCGATACATTGCTT
1 AATTGTATCGATACATT-ATT
* *
266985 AAATTGTATCAATACGTTATT
1 -AATTGTATCGATACATTATT
*
267006 CATTGTATCGATACATT
1 AATTGTATCGATACATT
267023 TTGGGTTTTT
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
20 27 0.60
21 6 0.13
22 12 0.27
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (20 bp):
AATTGTATCGATACATTATT
Found at i:269862 original size:20 final size:20
Alignment explanation
Indices: 269839--269911 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
269829 ACAATTCAAA
269839 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
269859 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
269880 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
269900 GTATCGATACAT
1 GTATCGATACAT
269912 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:269882 original size:21 final size:21
Alignment explanation
Indices: 269856--269932 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
269846 TACATGTTGC
269856 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
269877 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
269897 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
269917 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
269933 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:269890 original size:41 final size:41
Alignment explanation
Indices: 269839--269932 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
269829 ACAATTCAAA
269839 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
269880 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
269921 GTATCGATACAT
1 GTATCGATACAT
269933 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:269989 original size:13 final size:13
Alignment explanation
Indices: 269971--269996 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
269961 TACTGCAAGT
269971 ATGTATCGATACA
1 ATGTATCGATACA
269984 ATGTATCGATACA
1 ATGTATCGATACA
269997 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:272246 original size:21 final size:21
Alignment explanation
Indices: 272213--272257 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
272203 TTGCAAGTTG
*
272213 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
272235 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
272255 AAA
1 AAA
272258 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:276190 original size:13 final size:13
Alignment explanation
Indices: 276172--276209 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
276162 CATTTTTATT
276172 TGTATCGATACAA
1 TGTATCGATACAA
*
276185 TGTATCGATACAC
1 TGTATCGATACAA
276198 TGTATCGATACA
1 TGTATCGATACA
276210 GGGTGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:278103 original size:48 final size:48
Alignment explanation
Indices: 278049--278144 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
278039 GGGGAGATAA
278049 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
278097 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
278145 CGTAAAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (48 bp):
AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
Found at i:278721 original size:20 final size:20
Alignment explanation
Indices: 278698--278770 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
278688 ACAATTCAAA
278698 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
278718 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
278739 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
278759 GTATCGATACAT
1 GTATCGATACAT
278771 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:278741 original size:21 final size:21
Alignment explanation
Indices: 278715--278791 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
278705 TACATGTTGC
278715 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
278736 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
278756 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
278776 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
278792 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:278749 original size:41 final size:41
Alignment explanation
Indices: 278698--278791 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
278688 ACAATTCAAA
278698 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
278739 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
278780 GTATCGATACAT
1 GTATCGATACAT
278792 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:278848 original size:13 final size:13
Alignment explanation
Indices: 278830--278855 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
278820 TACAGCAAGT
278830 ATGTATCGATACA
1 ATGTATCGATACA
278843 ATGTATCGATACA
1 ATGTATCGATACA
278856 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:281593 original size:26 final size:26
Alignment explanation
Indices: 281557--281609 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
281547 AATACGAAGA
281557 TATTGCACTTTTGCTTTATGTTCAAG
1 TATTGCACTTTTGCTTTATGTTCAAG
281583 TATTGCACTTTTGCTTTATGTTCAAG
1 TATTGCACTTTTGCTTTATGTTCAAG
281609 T
1 T
281610 CAATGATCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.51
Consensus pattern (26 bp):
TATTGCACTTTTGCTTTATGTTCAAG
Found at i:285020 original size:20 final size:21
Alignment explanation
Indices: 284976--285029 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
284966 TTCTACAATT
*
284976 TGTATCGATACAAATAATAAA
1 TGTATCGATACATATAATAAA
*
284997 TGTATCGATACATA-AATGAA
1 TGTATCGATACATATAATAAA
285017 TGTATCGATACAT
1 TGTATCGATACAT
285030 GCTTAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.58
21 13 0.42
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.31
Consensus pattern (21 bp):
TGTATCGATACATATAATAAA
Found at i:287598 original size:51 final size:50
Alignment explanation
Indices: 287529--287642 Score: 156
Period size: 50 Copynumber: 2.3 Consensus size: 50
287519 TTCTGAGGGG
* * *
287529 ATACTCCAACCCCTTTTTTATTTCAAAAATATTAAATTTTTCATCTCGGGA
1 ATACTCCAACCCCGTTTTTACTTCAAAAATA-TAAATTTTTAATCTCGGGA
* * * *
287580 ATACTCCAACCTCGTTTTTACTTCCAAAATATCAATTTTTAATCTCGGGG
1 ATACTCCAACCCCGTTTTTACTTCAAAAATATAAATTTTTAATCTCGGGA
287630 ATACTCCAACCCC
1 ATACTCCAACCCC
287643 ATCAATTCCA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 28 0.51
51 27 0.49
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (50 bp):
ATACTCCAACCCCGTTTTTACTTCAAAAATATAAATTTTTAATCTCGGGA
Found at i:287638 original size:50 final size:51
Alignment explanation
Indices: 287525--287642 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
287515 TGATTTCTGA
* * *
287525 GGGGATACTCCAACCCCTTTTTTATTTCAAAAATATTAAATTTTTCATCTC
1 GGGGATACTCCAACCCCGTTTTTACTTCAAAAATATTAAATTTTTAATCTC
* * * *
287576 GGGAATACTCCAACCTCGTTTTTACTTCCAAAATA-TCAATTTTTAATCTC
1 GGGGATACTCCAACCCCGTTTTTACTTCAAAAATATTAAATTTTTAATCTC
287626 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
287643 ATCAATTCCA
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
50 28 0.48
51 30 0.52
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGTTTTTACTTCAAAAATATTAAATTTTTAATCTC
Found at i:287720 original size:79 final size:79
Alignment explanation
Indices: 287580--287798 Score: 293
Period size: 79 Copynumber: 2.8 Consensus size: 79
287570 CATCTCGGGA
* * * *
287580 ATACTCCAACCTCGTTTTTACTTCCAAAATA-TCAATTTTTAATCTCGGGGATACTCCAACCCCA
1 ATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTAATCTCGGGGATACTCCAACCCCA
287644 TCA-ATTCCAAGGGG
66 TCACATTCCAA-GGG
*
287658 ATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTCATCTCGGGGATACTCCAACCCCA
1 ATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTAATCTCGGGGATACTCCAACCCCA
* *
287723 TCACTTTCGAAGGG
66 TCACATTCCAAGGG
** *
287737 ATACTCCAA--CCATGTTTTCATTTCCAAAGCATTAAATTTTTTATCTCGGGGATACTCCAACC
1 ATACTCCAACCCCAT-TTTT-ATTTCCAAAATATTAAATTTTTAATCTCGGGGATACTCCAACC
287799 TCGATTTTCA
Statistics
Matches: 127, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
77 4 0.03
78 32 0.25
79 86 0.68
80 5 0.04
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (79 bp):
ATACTCCAACCCCATTTTTATTTCCAAAATATTAAATTTTTAATCTCGGGGATACTCCAACCCCA
TCACATTCCAAGGG
Done.