Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold424
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: 897778
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 2 of 6
Found at i:156398 original size:39 final size:39
Alignment explanation
Indices: 156349--156425 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
156339 TGGAACCTTC
*
156349 AATACATGGTGATCACCATGGACTTGGTGTTTTATCAAT
1 AATACATGGTGATCACCATGGACTTGGTGGTTTATCAAT
156388 AATACATGGTGATCACCATGGACTTGGTGGTTTATCAA
1 AATACATGGTGATCACCATGGACTTGGTGGTTTATCAA
156426 CAAGTTCTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.34
Consensus pattern (39 bp):
AATACATGGTGATCACCATGGACTTGGTGGTTTATCAAT
Found at i:160127 original size:126 final size:124
Alignment explanation
Indices: 159914--160154 Score: 331
Period size: 126 Copynumber: 1.9 Consensus size: 124
159904 GGTAGGTTAT
* * * *
159914 TCACTAGCCTAAACGAGCTAACACCTCAGAAGGCAGAGTTACTTCACCTCCACTTAGATGTTTAG
1 TCACTAGCCTAAAAGAGCTAACACCTCAGAAGACAGAGTTACTTCACCCCCACTTAGATGATTAG
*
159979 GTACCTATGCCCCTTCTGTATTTAACGGAAGAGAAACTACTACATGAGTGGTAGGCTTC
66 GTACCTATGCCCCTTCTATATTTAACGGAAGAGAAACTACTACATGAGTGGTAGGCTTC
* *
160038 TCACTAGCCTAAATAGAGGCTAACACTTCAGAAGATAGAGTTACTTCACCCCCACTTAGATGATT
1 TCACTAGCCTAAA-AGA-GCTAACACCTCAGAAGACAGAGTTACTTCACCCCCACTTAGATGATT
** * * * *
160103 AGGTATTTATGCCTCTT-TCATATTTGATGGAAGAGAAACTACTTCATGAGTG
64 AGGTACCTATGCCCCTTCT-ATATTTAACGGAAGAGAAACTACTACATGAGTG
160155 CATAGTGTGT
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
124 13 0.13
125 3 0.03
126 85 0.84
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (124 bp):
TCACTAGCCTAAAAGAGCTAACACCTCAGAAGACAGAGTTACTTCACCCCCACTTAGATGATTAG
GTACCTATGCCCCTTCTATATTTAACGGAAGAGAAACTACTACATGAGTGGTAGGCTTC
Found at i:161750 original size:156 final size:156
Alignment explanation
Indices: 161494--161896 Score: 465
Period size: 156 Copynumber: 2.6 Consensus size: 156
161484 TACTTTCAAA
* ** * *
161494 ATAAAAACGGACCCGATGATAACCTAGGACTTAATTCTA-AAAAATTATGAAAATGCCCTAAAGG
1 ATAAAAACGGACCCGGTGATAACCTAGGACTCGATTCTAGAAAAATTATGAAAATACCCTTAAGG
* * * * **
161558 GATACCCTCGATTTAGAAATGCCCGATACCCCTAAAGGACTT-AAAAAGAAATATGGAGGGGAT-
66 GATACCTTCGACTTAGAAGTGCCTGATACCCCTAAAGGACTTAAAAAAG-AATATAAAGGGGATG
*
161621 AAAGCTATCCTAAATACCCACCATTGGC
130 AAA-CGATCCTAAATACCCACCATTGGC
* *
161649 ATAAAAATGGACCCGGTGATAACCTAAGACTCGATTCTAGAAAAATTATGAAAATACCCTTAAGG
1 ATAAAAACGGACCCGGTGATAACCTAGGACTCGATTCTAGAAAAATTATGAAAATACCCTTAAGG
* * * *
161714 GATACTTTCGACTTAGAAGTGCCTGATACCCGTAAAGGACTTAAAAAAGATTATAAATGGGATGA
66 GATACCTTCGACTTAGAAGTGCCTGATACCCCTAAAGGACTTAAAAAAGAATATAAAGGGGATGA
* * *
161779 AACGATCTTAAATGCCCACCTTTGGC
131 AACGATCCTAAATACCCACCATTGGC
* * ** * * * **
161805 ATAAAAGCGGGCTTGGTGACAACCTGGGACTCGATTAT-GAAAAATTACAAAAATACCCTT-AGG
1 ATAAAAACGGACCCGGTGATAACCTAGGACTCGATTCTAGAAAAATTATGAAAATACCCTTAAGG
*
161868 GAATACCTTCGACTTAGAAGTACCTGATA
66 G-ATACCTTCGACTTAGAAGTGCCTGATA
161897 ATCCTAATAA
Statistics
Matches: 210, Mismatches: 34, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
154 4 0.02
155 79 0.38
156 118 0.56
157 9 0.04
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (156 bp):
ATAAAAACGGACCCGGTGATAACCTAGGACTCGATTCTAGAAAAATTATGAAAATACCCTTAAGG
GATACCTTCGACTTAGAAGTGCCTGATACCCCTAAAGGACTTAAAAAAGAATATAAAGGGGATGA
AACGATCCTAAATACCCACCATTGGC
Found at i:162309 original size:12 final size:13
Alignment explanation
Indices: 162288--162319 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
162278 TAAAATAATA
162288 TTTA-TTTATTTT
1 TTTATTTTATTTT
162300 TTT-TTTTATTTT
1 TTTATTTTATTTT
162312 TTTATTTT
1 TTTATTTT
162320 TGAAAATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 14 0.78
13 4 0.22
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTATTTTATTTT
Found at i:162311 original size:8 final size:8
Alignment explanation
Indices: 162288--162320 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
162278 TAAAATAATA
162288 TTTATTTAT
1 TTTATTT-T
162297 TTT-TTTT
1 TTTATTTT
162304 TTTATTTT
1 TTTATTTT
162312 TTTATTTT
1 TTTATTTT
162320 T
1 T
162321 GAAAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 4 0.17
8 16 0.70
9 3 0.13
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTATTTT
Found at i:164168 original size:165 final size:164
Alignment explanation
Indices: 163774--164488 Score: 730
Period size: 165 Copynumber: 4.3 Consensus size: 164
163764 TGAAATAATT
* * * * * *
163774 TGAATTTCTT-AAAACTGATTTAATTTGAACTT-AATGACAATATTAGATGAATTTTAAAAATTT
1 TGAATTT-TTGAAAACTAATTTAATATGAA-TTAAATAATAATATTTGATGAATTTTAAAAATTA
* * * * * * * *
163837 TAAACCAAGAAAAATTCCTTCGAAAACATTTACGAAGTAAAAAAC-TCG-ATTTTTCAAAAATAG
64 AAAACCAAGAAAAATCCCTCCAAAAACATTTATGGAGTAGAAAACTTCGTA-TTTT-GAAAA-AG
* ** * * * *
163900 GGGGTTTCAAAGAAAAAATGAAAAACT-TATGAAAATAAA
126 AGAATTTCAAGGAAAAAATGAAAAA-TGAACGAAAATGAA
* * * *
163939 TGAAATTTTG-GAACTGATTTAATATGATTTAAATAATAATATTTGATGAATTTTAAAAATTAAA
1 TGAATTTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAA
* *
164003 AACCAAGAAAAATCCC-CCCAAAACATTTATGGAGTAGAAAACTTCATATTTTGAAACAAGAGAA
66 AACCAAGAAAAATCCCTCCAAAAACATTTATGGAGTAGAAAACTTCGTATTTTGAAA-AAGAGAA
*
164067 TTTCAAGGAAAAAAATGAAAAACTCAA-GAAAATGAA
130 TTTCAAGG-AAAAAATGAAAAA-TGAACGAAAATGAA
* * *
164103 TGAATTTTTGAAAATTAATTTAATATGAATTAAATAATAATATTTGTTGAATTTTAAATATTAAA
1 TGAATTTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAA
*
164168 AACCAAGAAAAATCCCTCCGAAAACATTTATGGAGTAGAAAACTTCGTATTTTGAAAATAGGAGA
66 AACCAAGAAAAATCCCTCCAAAAACATTTATGGAGTAGAAAACTTCGTATTTTGAAAA-A-GAGA
* * *
164233 ATTTTAAGAAAAAAATG-AAAATGAACGAAAATGAT
129 ATTTCAAGGAAAAAATGAAAAATGAACGAAAATGAA
** * * ** *
164268 TGAATTTTTCCAAACTAGTTTAATGTGAATTTTATAATAATATTTGATGAATTTAAAAAATTAAA
1 TGAATTTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAA
* * * ** * * * **
164333 AACTATGAAAAATCCCTCTAAAAACAACTATGGCGTAGAAAATTTTGTATTTAAAAAATAAGAGA
66 AACCAAGAAAAATCCCTCCAAAAACATTTATGGAGTAGAAAACTTCGTATTT-TGAAA-AAGAGA
*
164398 ATTTCAAGG-AAAAATGAAAAATGAATGAAAATGAA
129 ATTTCAAGGAAAAAATGAAAAATGAACGAAAATGAA
* * * *
164433 TCAATTTTTTAAAACTAATTTACTATGAATTAAATAATAATATTTGATAAATTTTA
1 TGAATTTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTA
164489 GTGTTCCAAA
Statistics
Matches: 464, Mismatches: 71, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
163 36 0.08
164 109 0.23
165 256 0.55
166 51 0.11
167 12 0.03
ACGTcount: A:0.49, C:0.08, G:0.11, T:0.32
Consensus pattern (164 bp):
TGAATTTTTGAAAACTAATTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATTAAA
AACCAAGAAAAATCCCTCCAAAAACATTTATGGAGTAGAAAACTTCGTATTTTGAAAAAGAGAAT
TTCAAGGAAAAAATGAAAAATGAACGAAAATGAA
Found at i:166927 original size:58 final size:58
Alignment explanation
Indices: 166857--167247 Score: 292
Period size: 58 Copynumber: 6.8 Consensus size: 58
166847 ATTTCCCATT
* * * * *
166857 ATTTTCCATGATTTAGGGATTATTTTTCAATTTCATGTATTTTGGAGTCATTTAACTA
1 ATTTTCTATGATTTAGGGATTATTTTTCAATTTCATGCATTTTAGAGTCATTTAAGTC
*
166915 ATTTTCTATGATTTAGGGACTATTTTGT-AATTTCATGCATTTTAGAGTCATTTAAGTC
1 ATTTTCTATGATTTAGGGATTATTTT-TCAATTTCATGCATTTTAGAGTCATTTAAGTC
* * * * * *
166973 ATTGTCGACGATTTAGGGATTATTTTTTAGTTTTATGCATTTTAGAGTC-TTTAAGTC
1 ATTTTCTATGATTTAGGGATTATTTTTCAATTTCATGCATTTTAGAGTCATTTAAGTC
* * ** * * * * *
167030 ATTCTTC-ATGATCTAGAGACAATTTTGCAATTTAATACATTTTAGGGTTATTT-AGTC
1 ATT-TTCTATGATTTAGGGATTATTTTTCAATTTCATGCATTTTAGAGTCATTTAAGTC
* * * * * * * *
167087 ATTTT-TCATAATTTAGGGATTATTTTGCAATTTCATGCAATATAGGGTCATTTTACTT
1 ATTTTCT-ATGATTTAGGGATTATTTTTCAATTTCATGCATTTTAGAGTCATTTAAGTC
* * * * * *
167145 ATTTT-TCATAATTTAAGGACTATTTTAT-AATTTTCATGCATTTTAGGGTCATTTAGGTT
1 ATTTTCT-ATGATTTAGGGATTATTTT-TCAA-TTTCATGCATTTTAGAGTCATTTAAGTC
* * * ** ** *
167204 GTTTTCTATAATCTAGGGACCATTTAGCAATTGCATGCATTTTA
1 ATTTTCTATGATTTAGGGATTATTTTTCAATTTCATGCATTTTA
167248 AAGCCTTTTA
Statistics
Matches: 270, Mismatches: 52, Indels: 22
0.78 0.15 0.06
Matches are distributed among these distances:
56 2 0.01
57 85 0.31
58 137 0.51
59 45 0.17
60 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.48
Consensus pattern (58 bp):
ATTTTCTATGATTTAGGGATTATTTTTCAATTTCATGCATTTTAGAGTCATTTAAGTC
Found at i:167073 original size:115 final size:115
Alignment explanation
Indices: 166866--167149 Score: 304
Period size: 115 Copynumber: 2.5 Consensus size: 115
166856 TATTTTCCAT
* * *
166866 GATTTAGGGATTATTTTTCAATTTCATGTATTTTGGAGTCATTTAACTAATTTTCTATGATTTAG
1 GATTTAGGGATTATTTTTCAATTTCATGCATTTTAGAGTCATTTAACTAATTTTCTATGATCTAG
* * * * *
166931 GGACTATTTTGTAATTTCATGCATTTTAGAGTCATTTAAGTCA-TTGTCGAC
66 AGACAATTTTGCAATTTAATACATTTTAGAGTCATTT-AGTCATTTGTC-AC
* * * * *
166982 GATTTAGGGATTATTTTTTAGTTTTATGCATTTTAGAGTC-TTTAAGTCATTCTTC-ATGATCTA
1 GATTTAGGGATTATTTTTCAATTTCATGCATTTTAGAGTCATTTAACTAATT-TTCTATGATCTA
* * * *
167045 GAGACAATTTTGCAATTTAATACATTTTAGGGTTATTTAGTCATTTTTCAT
65 GAGACAATTTTGCAATTTAATACATTTTAGAGTCATTTAGTCATTTGTCAC
* * * * * * *
167096 AATTTAGGGATTATTTTGCAATTTCATGCAATATAGGGTCATTTTACTTATTTT
1 GATTTAGGGATTATTTTTCAATTTCATGCATTTTAGAGTCATTTAACTAATTTT
167150 TCATAATTTA
Statistics
Matches: 137, Mismatches: 28, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
114 40 0.29
115 59 0.43
116 38 0.28
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.48
Consensus pattern (115 bp):
GATTTAGGGATTATTTTTCAATTTCATGCATTTTAGAGTCATTTAACTAATTTTCTATGATCTAG
AGACAATTTTGCAATTTAATACATTTTAGAGTCATTTAGTCATTTGTCAC
Found at i:167119 original size:29 final size:27
Alignment explanation
Indices: 167070--167159 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 27
167060 TTTAATACAT
*
167070 TTTAGGGTTATTTAGTCATTTTTCATAA
1 TTTAGGGTTATTTTG-CATTTTTCATAA
*
167098 TTTAGGGATTATTTTGCA-ATTTCATGCAA
1 TTTAGGG-TTATTTTGCATTTTTCAT--AA
* * *
167127 TATAGGGTCATTTTACTTATTTTTCATAA
1 TTTAGGGTTATTTTGC--ATTTTTCATAA
167156 TTTA
1 TTTA
167160 AGGACTATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
27 6 0.12
28 16 0.33
29 20 0.41
30 1 0.02
31 6 0.12
ACGTcount: A:0.27, C:0.09, G:0.13, T:0.51
Consensus pattern (27 bp):
TTTAGGGTTATTTTGCATTTTTCATAA
Found at i:167198 original size:29 final size:30
Alignment explanation
Indices: 167118--167198 Score: 78
Period size: 30 Copynumber: 2.7 Consensus size: 30
167108 ATTTTGCAAT
* *
167118 TTCATGCAATATAGGGTCATTTTACTTATTT
1 TTCATGCAATTTAGGGTCATTTTAC-TAATT
* *
167149 TTCAT--AATTTAAGGACTATTTTA-TAATT
1 TTCATGCAATTTAGGGTC-ATTTTACTAATT
*
167177 TTCATGCATTTTAGGGTCATTT
1 TTCATGCAATTTAGGGTCATTT
167199 AGGTTGTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
28 9 0.22
29 12 0.30
30 14 0.35
31 5 0.12
ACGTcount: A:0.27, C:0.11, G:0.12, T:0.49
Consensus pattern (30 bp):
TTCATGCAATTTAGGGTCATTTTACTAATT
Found at i:167353 original size:48 final size:49
Alignment explanation
Indices: 167252--167378 Score: 134
Period size: 48 Copynumber: 2.6 Consensus size: 49
167242 ATTTTAAAGC
* ** *
167252 CTTTTAAGGTTAGTTTTGTAC--TTTCATCAAAATTGGTTAAAATTGAGT
1 CTTTTAAGGTTAGTTTTGTACTTTTTC-TGAAAATTGGCCAAAACTGAGT
**
167300 CTTTTAAGGTTAGTTTTGTACTTTTTCTGAATTTTGGCCAAAACTGAGT
1 CTTTTAAGGTTAGTTTTGTACTTTTTCTGAAAATTGGCCAAAACTGAGT
* * *
167349 -TTTTAGGGTTACTTTTATACTTTTGTCTGA
1 CTTTTAAGGTTAGTTTTGTACTTTT-TCTGA
167379 CCAAAATCGA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 42 0.63
49 21 0.31
50 4 0.06
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (49 bp):
CTTTTAAGGTTAGTTTTGTACTTTTTCTGAAAATTGGCCAAAACTGAGT
Found at i:173066 original size:12 final size:12
Alignment explanation
Indices: 173049--173082 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
173039 GGTTGATATT
*
173049 TGGCTGATAATG
1 TGGCTGAAAATG
173061 TGGCTGGAAAATG
1 TGGCT-GAAAATG
173074 TGGCTGAAA
1 TGGCTGAAA
173083 GCCAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.29, C:0.09, G:0.35, T:0.26
Consensus pattern (12 bp):
TGGCTGAAAATG
Found at i:177342 original size:4 final size:4
Alignment explanation
Indices: 177335--177364 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
177325 AAAACAAAAA
*
177335 AAAT AAAT AAAT GAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
177365 GCACCTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:179430 original size:28 final size:28
Alignment explanation
Indices: 179385--179450 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
179375 AAATAAGGTC
*
179385 GGAGTACCCCCTCAAAAATAACGGGGTT
1 GGAGTATCCCCTCAAAAATAACGGGGTT
* *
179413 GGAGTATCCCGTCGAAAATAACGGGGTT
1 GGAGTATCCCCTCAAAAATAACGGGGTT
179441 GGAGTATCCC
1 GGAGTATCCC
179451 TAATGGTGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.23, G:0.29, T:0.20
Consensus pattern (28 bp):
GGAGTATCCCCTCAAAAATAACGGGGTT
Found at i:179490 original size:79 final size:77
Alignment explanation
Indices: 179400--179965 Score: 383
Period size: 79 Copynumber: 7.1 Consensus size: 77
179390 ACCCCCTCAA
* * * *
179400 AAAT-AAC-GGGGTTGGAGTATCCCGTCGAAAATAACGGGGTTGGAGTATCCCTAATGGTGGAAA
1 AAATAAACTGGGGTTGGAGTATCCC-TCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAA
*
179463 ATCGATGTTTTGG
65 ATCGATGTTTTAG
* ** * * *
179476 AAATCAGACTGGGGTTAAAGTATCCCCAATTATGGAAATAATGGGGTTGGAGTATCCCCAATTAT
1 AAAT-AAACTGGGGTTGGAGTAT-CCC---T-CGAAAATAATGGGGTTGGAGTATCCCCAATTGT
* *
179541 GAAAATTCGATATTTTAG
60 GAAAAATCGATGTTTTAG
* *
179559 AAATAAAGCCGGGGTTGGAGTATCTCCTCGAAAATAATGGGGTTGAAGTATCCCCAATTGTGAAA
1 AAATAAA-CTGGGGTTGGAGTATC-CCTCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAA
* *
179624 AATCGGTGTTTTAA
64 AATCGATGTTTTAG
* * * * * *
179638 AAATAAAATTGAGGTTGAAGTGTCCC-CGATTATGGCAATAATGGGGTTGGAGTATCCTCGATTG
1 AAAT-AAACTGGGGTTGGAGTATCCCTCGA--A----AATAATGGGGTTGGAGTATCCCCAATTG
*
179702 TGAAAAATCGATATTTTAG
59 TGAAAAATCGATGTTTTAG
* * * * * *
179721 AAATAAAGTCGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGTAAAA
1 AAATAAACT-GGGGTTGGAGTATCC-CTCGAAAATAATGGGGTTGGAGTATCCCCAATTGT-GAA
* *
179786 AAAT-GGTGTTTTGG
63 AAATCGATGTTTTAG
* * *
179800 AAATAAAATCGGGGTTGGAGTATCCC-C-AAATATGGAAATATGGGGTTGGAGTATCCCCGATTA
1 AAATAAACT-GGGGTTGGAGTATCCCTCGAAA-AT----A-ATGGGGTTGGAGTATCCCCAATTG
* * * *
179863 TGGAAATTTGATATTTTAG
59 TGAAAAATCGATGTTTTAG
* * * * * * * *
179882 AAATAAAGCTGGGGTTAGAGCATCTTCTCGGAAA-AATGGGGTTGAAGTAT-CCCGATGGTGGAA
1 AAATAAA-CTGGGGTTGGAGTATC-CCTCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAA
* *
179945 AATCGGTGTTTTGG
64 AATCGATGTTTTAG
179959 AAATAAA
1 AAATAAA
179966 AACATCGATA
Statistics
Matches: 387, Mismatches: 72, Indels: 61
0.74 0.14 0.12
Matches are distributed among these distances:
76 7 0.02
77 33 0.09
78 19 0.05
79 128 0.33
80 13 0.03
81 5 0.01
82 56 0.14
83 119 0.31
84 3 0.01
85 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.28
Consensus pattern (77 bp):
AAATAAACTGGGGTTGGAGTATCCCTCGAAAATAATGGGGTTGGAGTATCCCCAATTGTGAAAAA
TCGATGTTTTAG
Found at i:179523 original size:32 final size:32
Alignment explanation
Indices: 179485--179546 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
179475 GAAATCAGAC
*
179485 TGGGGTTAAAGTATCCCCAATTATGGAAATAA
1 TGGGGTTAAAGTATCCCCAATTATGAAAATAA
**
179517 TGGGGTTGGAGTATCCCCAATTATGAAAAT
1 TGGGGTTAAAGTATCCCCAATTATGAAAAT
179547 TCGATATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (32 bp):
TGGGGTTAAAGTATCCCCAATTATGAAAATAA
Found at i:179551 original size:83 final size:81
Alignment explanation
Indices: 179428--179897 Score: 382
Period size: 83 Copynumber: 5.8 Consensus size: 81
179418 ATCCCGTCGA
* * ** * * * * *
179428 AAATAACGGGGTTGGAGTATCCCTAATGGTGGAAAATCGATGTTTTGGAAATCAGACTGGGGTTA
1 AAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAAT-AAACTGGGGTTG
*
179493 AAGTATCCCCAATTATGG
65 GAGTATCCCC-ATTATGG
* *
179511 AAATAATGGGGTTGGAGTATCCCCAATTATGAAAATTCGATATTTTAGAAATAAAGCCGGGGTTG
1 AAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAA-CTGGGGTTG
* * *
179576 GAGTATCTCC--T-CGA
65 GAGTATCCCCATTATGG
* * * * * * *
179590 AAATAATGGGGTTGAAGTATCCCCAATTGTGAAAAATCGGTGTTTTAAAAATAAAATTGAGGTTG
1 AAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAAT-AAACTGGGGTTG
* *
179655 AAGTGTCCCCGATTATGG
65 GAGTATCCCC-ATTATGG
* * * * *
179673 CAATAATGGGGTTGGAGTATCCTCGATTGTGAAAAATCGATATTTTAGAAATAAAGTCGGGGTTG
1 AAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAACT-GGGGTTG
* * *
179738 GAGTATCCTC-TCA--A
65 GAGTATCCCCATTATGG
* * * * * * *
179752 AAATAACGGGGTTGGAGTATCCCCGATGGTA-AAAAAAT-GGTGTTTTGGAAATAAAATCGGGGT
1 AAATAATGGGGTTGGAGTATCCCCAAT--TATGAAAAATCGATATTTTAGAAATAAACT-GGGGT
*
179815 TGGAGTATCCCCAAATATGG
63 TGGAGTATCCCC-ATTATGG
* * * *
179835 AAAT-ATGGGGTTGGAGTATCCCCGATTATGGAAATTTGATATTTTAGAAATAAAGCTGGGGTT
1 AAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAA-CTGGGGTT
179898 AGAGCATCTT
Statistics
Matches: 307, Mismatches: 64, Indels: 33
0.76 0.16 0.08
Matches are distributed among these distances:
79 116 0.38
80 12 0.04
81 8 0.03
82 48 0.16
83 123 0.40
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (81 bp):
AAATAATGGGGTTGGAGTATCCCCAATTATGAAAAATCGATATTTTAGAAATAAACTGGGGTTGG
AGTATCCCCATTATGG
Found at i:179680 original size:162 final size:161
Alignment explanation
Indices: 179406--179966 Score: 707
Period size: 162 Copynumber: 3.5 Consensus size: 161
179396 TCAAAAATAA
* * * *
179406 CGGGGTTGGAGTATCCCGTCGAAAATAACGGGGTTGGAGTATCCCTAATGGTGGAAAATCGATGT
1 CGGGGTTGGAGTATCCC-TCGAAAATAACGGGGTTGAAGTATCCCCAATGGTGAAAAATCGGTGT
* * * * *
179471 TTTGGAAATCAGACTGGGGTTAAAGTATCCCCAATTATGGAAATAATGGGGTTGGAGTATCCCCA
65 TTTGGAAATAAAATTGGGGTTGAAGTATCCCCAATTATGGAAATAATGGGGTTGGAGTATCCCCG
179536 ATTATGAAAATTCGATATTTTAGAAATAAAGC
130 ATTATGAAAATTCGATATTTTAGAAATAAAGC
* *
179568 CGGGGTTGGAGTATCTCCTCGAAAATAATGGGGTTGAAGTATCCCCAATTGTGAAAAATCGGTGT
1 CGGGGTTGGAGTATC-CCTCGAAAATAACGGGGTTGAAGTATCCCCAATGGTGAAAAATCGGTGT
** * * * * *
179633 TTTAAAAATAAAATTGAGGTTGAAGTGTCCCCGATTATGGCAATAATGGGGTTGGAGTATCCTCG
65 TTTGGAAATAAAATTGGGGTTGAAGTATCCCCAATTATGGAAATAATGGGGTTGGAGTATCCCCG
* * *
179698 ATTGTGAAAAATCGATATTTTAGAAATAAAGT
130 ATTATGAAAATTCGATATTTTAGAAATAAAGC
* * * *
179730 CGGGGTTGGAGTATCCTCTCAAAAATAACGGGGTTGGAGTATCCCCGATGGTAAAAAAAT-GGTG
1 CGGGGTTGGAGTATCC-CTCGAAAATAACGGGGTTGAAGTATCCCCAATGGT-GAAAAATCGGTG
* * *
179794 TTTTGGAAATAAAATCGGGGTTGGAGTATCCCCAAATATGGAAAT-ATGGGGTTGGAGTATCCCC
64 TTTTGGAAATAAAATTGGGGTTGAAGTATCCCCAATTATGGAAATAATGGGGTTGGAGTATCCCC
* *
179858 GATTATGGAAATTTGATATTTTAGAAATAAAGC
129 GATTATGAAAATTCGATATTTTAGAAATAAAGC
* * * * * * * *
179891 TGGGGTTAGAGCATCTTCTCGGAAA-AATGGGGTTGAAGTAT-CCCGATGGTGGAAAATCGGTGT
1 CGGGGTTGGAGTATC-CCTCGAAAATAACGGGGTTGAAGTATCCCCAATGGTGAAAAATCGGTGT
179954 TTTGGAAATAAAA
65 TTTGGAAATAAAA
179967 ACATCGATAA
Statistics
Matches: 342, Mismatches: 52, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
158 5 0.01
159 27 0.08
160 14 0.04
161 65 0.19
162 223 0.65
163 8 0.02
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (161 bp):
CGGGGTTGGAGTATCCCTCGAAAATAACGGGGTTGAAGTATCCCCAATGGTGAAAAATCGGTGTT
TTGGAAATAAAATTGGGGTTGAAGTATCCCCAATTATGGAAATAATGGGGTTGGAGTATCCCCGA
TTATGAAAATTCGATATTTTAGAAATAAAGC
Found at i:179848 original size:31 final size:31
Alignment explanation
Indices: 179810--179869 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
179800 AAATAAAATC
179810 GGGGTTGGAGTATCCCCAAATATGGAAATAT
1 GGGGTTGGAGTATCCCCAAATATGGAAATAT
* *
179841 GGGGTTGGAGTATCCCCGATTATGGAAAT
1 GGGGTTGGAGTATCCCCAAATATGGAAAT
179870 TTGATATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (31 bp):
GGGGTTGGAGTATCCCCAAATATGGAAATAT
Found at i:182389 original size:50 final size:50
Alignment explanation
Indices: 182309--182416 Score: 148
Period size: 50 Copynumber: 2.2 Consensus size: 50
182299 GGTCAAAAAT
* *
182309 ACCT-GAATGTATCGATACATTGAGAAATGTATCGATACATCTAGGTAAA
1 ACCTAGAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTAAA
* *
182358 ACCTAGAATGTATTGATACAAT-AAAAGATGTATCGATACATCTGGGTAAA
1 ACCTAGAATGTATCGATACAATGAAAA-ATGTATCGATACATCTAGGTAAA
*
182408 ACCCAGAAT
1 ACCTAGAAT
182417 TCATCTCCAT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
49 7 0.13
50 45 0.87
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.27
Consensus pattern (50 bp):
ACCTAGAATGTATCGATACAATGAAAAATGTATCGATACATCTAGGTAAA
Found at i:187091 original size:79 final size:78
Alignment explanation
Indices: 186971--187279 Score: 311
Period size: 79 Copynumber: 3.9 Consensus size: 78
186961 TCATCGATGT
* * * * * *
186971 TTTTATTTCCAAAATAT-AATTTTCCACCATCGGGAACACTCCAACCCCT-TTATTTTCTAGAGG
1 TTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAA-CCCTATTATTTTCTAGAGG
187034 ATACTCCAACCCTG
65 ATACTCCAACCCTG
* * *
187048 ATTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCTATTATTTTCAAAAGG
1 -TTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCTATTATTTTCTAGAGG
*
187113 ATACTCCAACCCCGG
65 ATACTCCAA-CCCTG
* * ** ** * * *
187128 TTTTATTTTTAAAATATTGATTTTTCACAATTAGGGATACTCCAACCCTATTATTTCCGAGGGGA
1 TTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCTATTATTTTCTAGAGGA
187193 TACTCCAACCCTG
66 TACTCCAACCCTG
** * * * *
187206 GCTTA-TTTCTAAAACATCGATTATTCACCATCGGGGATACTCCAACCCTATTA-TTTCTAAGGG
1 TTTTATTTTC-AAAACATCAATTTTTCACAATCGGGGATACTCCAACCCTATTATTTTCT-AGAG
187269 GATACTTCCAA
64 GATAC-TCCAA
187280 AACACTGATT
Statistics
Matches: 192, Mismatches: 33, Indels: 11
0.81 0.14 0.05
Matches are distributed among these distances:
77 6 0.03
78 71 0.37
79 111 0.58
80 4 0.02
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (78 bp):
TTTTATTTTCAAAACATCAATTTTTCACAATCGGGGATACTCCAACCCTATTATTTTCTAGAGGA
TACTCCAACCCTG
Found at i:187402 original size:142 final size:140
Alignment explanation
Indices: 187145--187416 Score: 384
Period size: 142 Copynumber: 1.9 Consensus size: 140
187135 TTTAAAATAT
* *
187145 TGATTTTTCACAATTAGGGATACTCCAACCCTATTATTTCCGAGGGGATACTCCAACCCTGGCTT
1 TGATTTTTCACAATCAGGGATACTCCAACCCTATTATTTCCGAGGGGATACTCCAACCCCGGCTT
* * *
187210 ATTTCTAAAACATCGATTATTCACCATCGGGGATACTCCAACCCTATTATTTCTAAGGGGATACT
66 ATTTCTAAAACATCAATTATTCACAATCGGGGATACTCCAACCCCATTATTTCTAAGGGGATACT
187275 TCCAAAACAC
131 TCCAAAACAC
* * * *
187285 TGATTTTTCGCAATCAGGGATACTCCAACCCCTGTTATTTTCGAGGGGATACTCTAACCCCGGCT
1 TGATTTTTCACAATCAGGGATACTCCAA-CCCTATTATTTCCGAGGGGATACTCCAACCCCGGC-
* * * * *
187350 TTATTT-TCAAAACATCAATTTTTCACAATCGTGGATACTCCAACCCCGTTATTTTTGAGGGGAT
64 TTATTTCT-AAAACATCAATTATTCACAATCGGGGATACTCCAACCCCATTATTTCTAAGGGGAT
187414 ACT
128 ACT
187417 CTAACCCCGA
Statistics
Matches: 115, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
140 26 0.23
141 32 0.28
142 57 0.50
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (140 bp):
TGATTTTTCACAATCAGGGATACTCCAACCCTATTATTTCCGAGGGGATACTCCAACCCCGGCTT
ATTTCTAAAACATCAATTATTCACAATCGGGGATACTCCAACCCCATTATTTCTAAGGGGATACT
TCCAAAACAC
Found at i:187433 original size:79 final size:79
Alignment explanation
Indices: 187287--187651 Score: 423
Period size: 79 Copynumber: 4.6 Consensus size: 79
187277 CAAAACACTG
* * *
187287 ATTTTTCGCAATC-AGGGATACTCCAACCCCTGTTATTTTCGAGGGGATACTCTAACCCCGGCTT
1 ATTTTTCACAATCGA-GGATACTCCAACCCC-GTTATTTTCGAGGGGATACTCCAACCCCGACTT
187351 TATTTTCAAAACATCA
64 TATTTTCAAAACATCA
* * * *
187367 ATTTTTCACAATCGTGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCCGATTTTA
1 ATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTA
* * **
187432 TTTCCAAGACATTG
66 TTTTCAAAACATCA
* * * * *
187446 ATTCTTCACAATTGAGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTC-AGTTTT
1 ATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGA-CTTT
*
187510 ATTTTTAAAACATCA
65 ATTTTCAAAACATCA
* * * *
187525 ATTTTTCACAATCGAAGATACTCCAACCCTGTTA-TTTCTGAGGGGATACTCCAACCCTGACCTT
1 ATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGACTTT
*
187589 A-TTTCTAAAACAACA
65 ATTTTC-AAAACATCA
** * *
187604 ATTTTTCACCGTCGAGGATACTCCAACCCCGTTATTTTGGAAGGGATA
1 ATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATA
187652 TTTTCGAAAC
Statistics
Matches: 241, Mismatches: 38, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
78 8 0.03
79 202 0.84
80 31 0.13
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
ATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTA
TTTTCAAAACATCA
Found at i:187567 original size:158 final size:158
Alignment explanation
Indices: 187302--187651 Score: 475
Period size: 158 Copynumber: 2.2 Consensus size: 158
187292 TCGCAATCAG
* * *
187302 GGATACTCCAACCCCTGTTATTTTCGAGGGGATACTCTAACCCCGGCTTTATTTTCAAAACATCA
1 GGATACTCCAACCCC-GTTATTTTCGAAGGGATACTCCAACCCCAGCTTTATTTTCAAAACATCA
** * * **
187367 ATTTTTCACAATCGTGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCTAACCCCGATTTTA
65 ATTTTTCACAATCGAAGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACCTTA
* *** *
187432 TTTCCAAGACATTGATTCTTCACAATTGA
130 TTTCCAAAACAACAATTCTTCACAATCGA
* * *
187461 GGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCTCAGTTTTATTTTTAAAACATCAA
1 GGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCAGCTTTATTTTCAAAACATCAA
* *
187526 TTTTTCACAATCGAAGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCAACCCTGACCTTAT
66 TTTTTCACAATCGAAGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACCTTAT
* * **
187591 TTCTAAAACAACAATTTTTCACCGTCGA
131 TTCCAAAACAACAATTCTTCACAATCGA
*
187619 GGATACTCCAACCCCGTTATTTTGGAAGGGATA
1 GGATACTCCAACCCCGTTATTTTCGAAGGGATA
187652 TTTTCGAAAC
Statistics
Matches: 167, Mismatches: 24, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
158 152 0.91
159 15 0.09
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (158 bp):
GGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCAGCTTTATTTTCAAAACATCAA
TTTTTCACAATCGAAGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACCTTAT
TTCCAAAACAACAATTCTTCACAATCGA
Found at i:187832 original size:191 final size:192
Alignment explanation
Indices: 187487--187832 Score: 432
Period size: 191 Copynumber: 1.8 Consensus size: 192
187477 TTATTTTCGA
* * *
187487 AGGGATACTCCAACCTCAGTTTTATTTTTAAAACATCAATTTTTCACAATCGAAGATACTCCAAC
1 AGGGATACTCAAACCTCAGCTTTATTTCTAAAACATCAATTTTTCACAATCGAAGATACTCCAAC
* * * * * *
187552 CCTGTTATTTCTGAGGGGATACTCCAACCCTGACCTTATTTCTAAAACAACAATTTTTCACCGTC
66 CCCGTTATTTCTGAGGAGATACTCCAACCCCGACCTTATTTCCAAAACAACAATTTTCCACCATC
*
187617 GAGGATACTCCAACCCCGTTATTTTGGAAGGGATATTTTCGAAACACTGACTTTTCACAATC
131 GAGGATACTCCAACCCCATTATTTTGGAAGGGATATTTTCGAAACACTGACTTTTCACAATC
* * *
187679 AGGGATACTCAAACC-CGGCTTTATTTCTAAAACATCGA-TTTTCTACAATC-AGGGATACTCCA
1 AGGGATACTCAAACCTCAGCTTTATTTCTAAAACATCAATTTTTC-ACAATCGA-AGATACTCCA
** * *** *
187741 ACCCCGTTATTT-TCGAGGAGATACTCCAACCCCGATTTTATTTCCAAAGCATTGATTTTCCACT
64 ACCCCGTTATTTCT-GAGGAGATACTCCAACCCCGACCTTATTTCCAAAACAACAATTTTCCACC
*
187805 ATTG-GCGATACTCCAACCCCATTATTTT
128 ATCGAG-GATACTCCAACCCCATTATTTT
187833 CAAGAGAATA
Statistics
Matches: 129, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
190 8 0.06
191 107 0.83
192 14 0.11
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (192 bp):
AGGGATACTCAAACCTCAGCTTTATTTCTAAAACATCAATTTTTCACAATCGAAGATACTCCAAC
CCCGTTATTTCTGAGGAGATACTCCAACCCCGACCTTATTTCCAAAACAACAATTTTCCACCATC
GAGGATACTCCAACCCCATTATTTTGGAAGGGATATTTTCGAAACACTGACTTTTCACAATC
Found at i:187903 original size:80 final size:79
Alignment explanation
Indices: 187698--187948 Score: 274
Period size: 79 Copynumber: 3.2 Consensus size: 79
187688 CAAACCCGGC
* * * ** *
187698 TTTATTTCTAAAACATCGATTTTCTACAATCAGGGATACTCCAACCCCGTTATTTTCGAGGAGAT
1 TTTATTTCCAAAACATCGATTTTCCACTATTGGGGATACTCCAACCCCGTTATTTTCAAGGAGAT
187763 ACTCCAACCCCGAT
66 ACTCCAACCCCGAT
* * * *
187777 TTTATTTCCAAAGCATTGATTTTCCACTATTGGCGATACTCCAACCCCATTATTTTCAA-GAGAA
1 TTTATTTCCAAAACATCGATTTTCCACTATTGGGGATACTCCAACCCCGTTATTTTCAAGGAG-A
* ***
187841 TAGTCCAACTTTGAT
65 TACTCCAACCCCGAT
* *
187856 TTTATTCCCAAAACAGTCGATTTTCCACTATTGGGGATACTCCAACCCCGTTATTCTT-AAGGGG
1 TTTATTTCCAAAACA-TCGATTTTCCACTATTGGGGATACTCCAACCCCGTTATT-TTCAAGGAG
* *
187920 GTACTCCGACCCC-ATT
64 ATACTCCAACCCCGA-T
*
187936 TTTATCTCCAAAA
1 TTTATTTCCAAAA
187949 TATTAATTTT
Statistics
Matches: 139, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
78 3 0.02
79 75 0.54
80 57 0.41
81 4 0.03
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
TTTATTTCCAAAACATCGATTTTCCACTATTGGGGATACTCCAACCCCGTTATTTTCAAGGAGAT
ACTCCAACCCCGAT
Found at i:191702 original size:22 final size:20
Alignment explanation
Indices: 191652--191726 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 20
191642 GCCAAGAAAA
* *
191652 TGTATCGATACA-TAAGTAAA
1 TGTATCGATACATTTA-TAAT
*
191672 TATATCGATACATGCTTATAAT
1 TGTATCGATACAT--TTATAAT
* * *
191694 TGTATCGATGCATTTCTCAT
1 TGTATCGATACATTTATAAT
191714 TGTATCGATACAT
1 TGTATCGATACAT
191727 AATGGGATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
20 28 0.64
22 14 0.32
23 2 0.05
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTATAAT
Found at i:192887 original size:15 final size:16
Alignment explanation
Indices: 192867--192897 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
192857 CACCATGCAC
192867 TTTTTTTTC-TTCCAT
1 TTTTTTTTCTTTCCAT
192882 TTTTTTTTCTTTCCAT
1 TTTTTTTTCTTTCCAT
192898 AAAAATGCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTTTTTCTTTCCAT
Found at i:194400 original size:80 final size:79
Alignment explanation
Indices: 194245--194593 Score: 357
Period size: 79 Copynumber: 4.4 Consensus size: 79
194235 CTTATATAAC
* * * * * * * *
194245 ATTAAAATTTTCATTTCGGGGATACTCCAACCTCGTTATCTCT-AAGGGGATAGTCTAACCCCAT
1 ATTAAAATTTTCATCTC-GGGATACTCCAACCCCATTATTTTTGAAGGGGATACTCCAACCCCGT
194309 TTTTATTTTTGAAAT
65 TTTTATTTTTGAAAT
* * * *
194324 ATTAAATTTTTCATCGCAGGGATACTCCAACCCCATTATTTTTGAAGTGGATACTCTAACCCCGT
1 ATTAAAATTTTCATCTC-GGGATACTCCAACCCCATTATTTTTGAAGGGGATACTCCAACCCCGT
194389 TTTTATTTTTGAAAT
65 TTTTATTTTTGAAAT
**** * * * *
194404 ATTAAAATTTTCATCTCGAGGATACTCCAACCTTGCTATTGTCG-AGGGGATACTCCAACTCTGT
1 ATTAAAATTTTCATCTCG-GGATACTCCAACCCCATTATTTTTGAAGGGGATACTCCAACCCCGT
* *
194468 TTTTAGTTTTGAAAC
65 TTTTATTTTTGAAAT
* * *
194483 ATTAAAATTTTCATCTCGAGGATACTCCAA-CCCATT-TTTTT-AAAGAGATACTCCAACCCTGT
1 ATTAAAATTTTCATCTCG-GGATACTCCAACCCCATTATTTTTGAAGGGGATACTCCAACCCCGT
* *
194545 TTTTATTTCTAAAAT
65 TTTTATTTTTGAAAT
*
194560 ATTAAAATTTTCATCATCGGGGGTACTCCAACCC
1 ATTAAAATTTTCATC-TC-GGGATACTCCAACCC
194594 TGTATTTAGA
Statistics
Matches: 225, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
77 46 0.20
78 14 0.06
79 98 0.44
80 67 0.30
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (79 bp):
ATTAAAATTTTCATCTCGGGATACTCCAACCCCATTATTTTTGAAGGGGATACTCCAACCCCGTT
TTTATTTTTGAAAT
Found at i:198664 original size:20 final size:21
Alignment explanation
Indices: 198617--198673 Score: 98
Period size: 21 Copynumber: 2.8 Consensus size: 21
198607 ATAATGAAAC
198617 ATGTATCGATACATTTACTGT
1 ATGTATCGATACATTTACTGT
*
198638 TTGTATCGATACATTTACT-T
1 ATGTATCGATACATTTACTGT
198658 ATGTATCGATACATTT
1 ATGTATCGATACATTT
198674 CCTTTCCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (21 bp):
ATGTATCGATACATTTACTGT
Found at i:198740 original size:20 final size:20
Alignment explanation
Indices: 198698--198752 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
198688 AGGGTGGTTT
*
198698 TGTATCGATCCATTTCAAGCA
1 TGTATCGATACA-TTCAAGCA
**
198719 TGTATCGATACATTCACTCA
1 TGTATCGATACATTCAAGCA
*
198739 TGTATCAATACATT
1 TGTATCGATACATT
198753 TTCTATTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 19 0.63
21 11 0.37
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTCAAGCA
Found at i:201067 original size:20 final size:20
Alignment explanation
Indices: 201042--201097 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
201032 AATGCTTACA
*
201042 ATTGTATCGATACATTTCTT
1 ATTGTATCGATACATTTCTC
201062 ATTGTATCGATACATTTCTC
1 ATTGTATCGATACATTTCTC
201082 ATTGTATCGATACATT
1 ATTGTATCGATACATT
201098 CTAGGTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (20 bp):
ATTGTATCGATACATTTCTC
Found at i:203271 original size:27 final size:26
Alignment explanation
Indices: 203241--203297 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
203231 AAAGCTCTTC
*
203241 TTTTGTTA-AAAATGATTTTCTCCCCCT
1 TTTTGTTACAAAAT-AATTTCT-CCCCT
203268 TTTTGTTATCAAAATAATTTCTCCCCT
1 TTTTGTTA-CAAAATAATTTCTCCCCT
203295 TTT
1 TTT
203298 GTCAATTGCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 16 0.59
28 6 0.22
29 5 0.19
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (26 bp):
TTTTGTTACAAAATAATTTCTCCCCT
Found at i:205112 original size:13 final size:13
Alignment explanation
Indices: 205090--205126 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
205080 ATAGTAACTC
* *
205090 TGTATGGATACAT
1 TGTATCGATACAA
205103 TGTATCGATACAA
1 TGTATCGATACAA
205116 TGTATCGATAC
1 TGTATCGATAC
205127 TTAGAACATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:205184 original size:16 final size:16
Alignment explanation
Indices: 205163--205193 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
205153 GTTTTTTCAG
205163 AATGTATCGATACATC
1 AATGTATCGATACATC
205179 AATGTATCGATACAT
1 AATGTATCGATACAT
205194 TTTGGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (16 bp):
AATGTATCGATACATC
Found at i:211235 original size:19 final size:20
Alignment explanation
Indices: 211190--211246 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
211180 ATACTTTTTA
211190 CCATGTATCGATACAATGTC
1 CCATGTATCGATACAATGTC
* *
211210 CCATGTATCGATACCA-GTT
1 CCATGTATCGATACAATGTC
*
211229 TCATGTATCGATACAATG
1 CCATGTATCGATACAATG
211247 AACATGTATC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.32
Consensus pattern (20 bp):
CCATGTATCGATACAATGTC
Found at i:211252 original size:19 final size:20
Alignment explanation
Indices: 211191--211261 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 20
211181 TACTTTTTAC
**
211191 CATGTATCGATACAATGTCC
1 CATGTATCGATACAATGTAA
* **
211211 CATGTATCGATACCA-GTTT
1 CATGTATCGATACAATGTAA
211230 CATGTATCGATACAATG-AA
1 CATGTATCGATACAATGTAA
*
211249 CATGTATCAATAC
1 CATGTATCGATAC
211262 TTTCTAGGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
19 28 0.65
20 15 0.35
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.31
Consensus pattern (20 bp):
CATGTATCGATACAATGTAA
Found at i:221833 original size:79 final size:79
Alignment explanation
Indices: 221700--222227 Score: 503
Period size: 79 Copynumber: 6.8 Consensus size: 79
221690 GACTTTTAAG
* * * * *
221700 ATCCCC-TAAGAAATAACGGGGTTAGG-GCATTCCCGATAGTGGAAAATCAGTGTTTTAGAAATA
1 ATCCCCTTAA-AAATAACAGGGTT-GGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATA
* ** *
221763 CAATAGGGGTTGGAGT
64 AAACCGAGGTTGGAGT
* * **
221779 ATCCCCTTGAAAATAACAGAGTTGGAGTATCCCCGATGGTGGAAAATCAATGTTTTAGAAATAAA
1 ATCCCCTTAAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAA
221844 ACCGAGGTTGGAGT
66 ACCGAGGTTGGAGT
* * * * * *
221858 AT-CCCTTCAGAAATAA-AGGGGTTGAAATATCCCCAATGGTGAAAAATCGGTGTTTCAG-AATA
1 ATCCCCTT-AAAAATAACA-GGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATA
**
221920 AAATTGAGGTTGGAGT
64 AAACCGAGGTTGGAGT
* * * * * *
221936 ATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAATCAGTGTTTTAGGAATAAA
1 ATCCCCTTAAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAA
*
222001 ACCGAGATTGGAGT
66 ACCGAGGTTGGAGT
* * * * ** *
222015 ATCCTCTAAAAAATAACAGGGTTAGAGTATCTCCGATGGTACAAAATCGGTGTTTTAGGAATAAA
1 ATCCCCTTAAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAA
* *
222080 ACCAAGGTTGGAAT
66 ACCGAGGTTGGAGT
* ** *
222094 AT-CCCTT--GAA-AA-A----T--AGTATCTTCGATGGTGGAAAATCGGTATTTTAGAAATAAA
1 ATCCCCTTAAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAA
222148 ACCGAGGTTGGAGT
66 ACCGAGGTTGGAGT
* * * *
222162 ATCCCCTCAAAAATAATAGTGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAAAAAA
1 ATCCCCTTAAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAA
222227 A
66 A
222228 ATATCAATGA
Statistics
Matches: 371, Mismatches: 60, Indels: 36
0.79 0.13 0.08
Matches are distributed among these distances:
68 49 0.13
69 4 0.01
70 1 0.00
71 2 0.01
72 2 0.01
73 1 0.00
74 1 0.00
75 2 0.01
76 2 0.01
77 1 0.00
78 75 0.20
79 229 0.62
80 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (79 bp):
ATCCCCTTAAAAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCGGTGTTTTAGAAATAAA
ACCGAGGTTGGAGT
Found at i:221990 original size:157 final size:154
Alignment explanation
Indices: 221731--222226 Score: 523
Period size: 157 Copynumber: 3.2 Consensus size: 154
221721 TTAGGGCATT
* * * * *
221731 CCCGATAGTGGAAAATCAGTGTTTTAGAAATACAATAGGGGTTGGAGTATCCCCTTGAAAATAAC
1 CCCGATGGTGAAAAATCGGTGTTTTAG-AATAAAATAGAGGTTGGAGTATCCCCTTG-AAATAAC
*
221796 AGAGTTGGAGTATCCCCGATGGTGGAAAATCAATGTTTTAGAAATAAAACCGAGGTTGGAGTATC
64 -G-GTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATC
* *
221861 CCTTCAGAAATAA-AGGGGTTGAAATATC
127 CCTTCAAAAATAACA-GGGTTGAAGTATC
* * *
221889 CCCAATGGTGAAAAATCGGTGTTTCAGAATAAAATTGAGGTTGGAGTATCCCCTTAGAAATAACG
1 CCCGATGGTGAAAAATCGGTGTTTTAGAATAAAATAGAGGTTGGAGTATCCCCTT-GAAATAAC-
* * * *
221954 GGGTTGGAGTATCCCCAATGGTGAAAAATCAGTGTTTTAGGAATAAAACCGAGATTGGAGTAT-C
64 -GGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
*
222018 CTCTAAAAAATAACAGGGTT-AGAGTATC
128 CT-TCAAAAATAACAGGGTTGA-AGTATC
* * *
222046 TCCGATGGT-ACAAAATCGGTGTTTTAGGAATAAAACCA-AGGTTGGAATAT-CCCTTGAAA-AA
1 CCCGATGGTGA-AAAATCGGTGTTTTA-GAATAAAA-TAGAGGTTGGAGTATCCCCTTGAAATAA
** * *
222107 ----T--AGTATCTTCGATGGTGGAAAATCGGTATTTTAGAAATAAAACCGAGGTTGGAGTATCC
63 CGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
* * * *
222166 CCTCAAAAATAATAGTGTTGGAGTATC
128 CTTCAAAAATAACAGGGTTGAAGTATC
* *
222193 CCCGATGGTGGAAAATCGGTGTTTTAGAAAAAAA
1 CCCGATGGTGAAAAATCGGTGTTTTAGAATAAAA
222227 AATATCAATG
Statistics
Matches: 288, Mismatches: 39, Indels: 34
0.80 0.11 0.09
Matches are distributed among these distances:
146 7 0.02
147 91 0.32
148 2 0.01
149 1 0.00
155 2 0.01
156 9 0.03
157 132 0.46
158 44 0.15
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.27
Consensus pattern (154 bp):
CCCGATGGTGAAAAATCGGTGTTTTAGAATAAAATAGAGGTTGGAGTATCCCCTTGAAATAACGG
TTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCTT
CAAAAATAACAGGGTTGAAGTATC
Found at i:222149 original size:68 final size:68
Alignment explanation
Indices: 222040--222176 Score: 193
Period size: 68 Copynumber: 2.0 Consensus size: 68
222030 ACAGGGTTAG
* * * *
222040 AGTATCTCCGATGGTACAAAATCGGTGTTTTAGGAATAAAACCAAGGTTGGAATATCCCTTGAAA
1 AGTATCTCCGATGGTACAAAATCGGTATTTTAGAAATAAAACCAAGGTTGGAATATCCCCTCAAA
222105 AAT
66 AAT
* ** * *
222108 AGTATCTTCGATGGTGGAAAATCGGTATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAAA
1 AGTATCTCCGATGGTACAAAATCGGTATTTTAGAAATAAAACCAAGGTTGGAATATCCCCTCAAA
222173 AAT
66 AAT
222176 A
1 A
222177 ATAGTGTTGG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (68 bp):
AGTATCTCCGATGGTACAAAATCGGTATTTTAGAAATAAAACCAAGGTTGGAATATCCCCTCAAA
AAT
Found at i:224637 original size:51 final size:51
Alignment explanation
Indices: 224582--224749 Score: 282
Period size: 51 Copynumber: 3.3 Consensus size: 51
224572 CTATATTGAG
* *
224582 AAATGTATCGATACATCTAGGTAAAAACCTAGAATGTATCGATACAATGAA
1 AAATGTATCGATACATCTAGGTTAAAACCCAGAATGTATCGATACAATGAA
*
224633 AAATGTATCGATACATCTAGGTTAAAACCCAGAATGTATCGATATAATGAA
1 AAATGTATCGATACATCTAGGTTAAAACCCAGAATGTATCGATACAATGAA
* *
224684 AAATGTACCGATACATCTAGGTTACAACCCAGAATGTATCGATACAATGAA
1 AAATGTATCGATACATCTAGGTTAAAACCCAGAATGTATCGATACAATGAA
*
224735 AATTGTATCGATACA
1 AAATGTATCGATACA
224750 AATAGTAAAT
Statistics
Matches: 109, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 109 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (51 bp):
AAATGTATCGATACATCTAGGTTAAAACCCAGAATGTATCGATACAATGAA
Found at i:224698 original size:102 final size:102
Alignment explanation
Indices: 224562--224749 Score: 295
Period size: 102 Copynumber: 1.8 Consensus size: 102
224552 AAAAATGCCT
* * * * * *
224562 GAATGTATTGCTATATTGAGAAATGTATCGATACATCTAGGTAAAAACCTAGAATGTATCGATAC
1 GAATGTATCGATATAATGAAAAATGTACCGATACATCTAGGTAAAAACCCAGAATGTATCGATAC
224627 AATGAAAAATGTATCGATACATCTAGGTTAAAACCCA
66 AATGAAAAATGTATCGATACATCTAGGTTAAAACCCA
* *
224664 GAATGTATCGATATAATGAAAAATGTACCGATACATCTAGGTTACAACCCAGAATGTATCGATAC
1 GAATGTATCGATATAATGAAAAATGTACCGATACATCTAGGTAAAAACCCAGAATGTATCGATAC
*
224729 AATGAAAATTGTATCGATACA
66 AATGAAAAATGTATCGATACA
224750 AATAGTAAAT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 77 1.00
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.28
Consensus pattern (102 bp):
GAATGTATCGATATAATGAAAAATGTACCGATACATCTAGGTAAAAACCCAGAATGTATCGATAC
AATGAAAAATGTATCGATACATCTAGGTTAAAACCCA
Found at i:224764 original size:21 final size:20
Alignment explanation
Indices: 224716--224770 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
224706 TACAACCCAG
224716 AATGTATCGATAC-AATGAA
1 AATGTATCGATACAAATGAA
*
224735 AATTGTATCGATACAAATAGTA
1 AA-TGTATCGATACAAAT-GAA
224757 AATGTATCGATACA
1 AATGTATCGATACA
224771 TTTACTTATG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.06
20 11 0.34
21 15 0.47
22 4 0.12
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACAAATGAA
Found at i:228375 original size:51 final size:52
Alignment explanation
Indices: 228291--228407 Score: 139
Period size: 51 Copynumber: 2.3 Consensus size: 52
228281 CTTGCCAAAA
* ** * *
228291 TTTGTCATCTTTCATTCCAATGTTGTTGACCTTGGATCAGCACGTT-GCACC
1 TTTGTCATCTTTAAGACCAATGTTGTAGACCTTGAATCAGCACGTTGGCACC
*
228342 TTTGTCATCTTTAAGACCAATGTTGCTAG-CCTTGAATCAGCACGTTGGTACC
1 TTTGTCATCTTTAAGACCAATGTTG-TAGACCTTGAATCAGCACGTTGGCACC
**
228394 TTCATCATCTTTAA
1 TTTGTCATCTTTAA
228408 ATTCAATTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
51 38 0.68
52 18 0.32
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.38
Consensus pattern (52 bp):
TTTGTCATCTTTAAGACCAATGTTGTAGACCTTGAATCAGCACGTTGGCACC
Found at i:228825 original size:97 final size:97
Alignment explanation
Indices: 228694--228890 Score: 306
Period size: 97 Copynumber: 2.0 Consensus size: 97
228684 CCACACAAGT
* *
228694 TGGCACTTTTTTTTTTAAAGCCCACAACTTCGTGGCACCTTCCTTTTAAATTCCATAACTCTATG
1 TGGCACTTTTTTTTTTAAAGCCCACAACTCCGTGGCACCTTCCTTTTAAAATCCATAACTCTATG
*
228759 GCACTTTATCCTTTTAAGCCAACACAAGTCGG
66 GCACTTCATCCTTTTAAGCCAACACAAGTCGG
* *
228791 TGGCA-TTTTTTTCTTTAAAGCCCATAACTCCGTGGCACGTTCCTTTTAAAATCCATAACTCTAT
1 TGGCACTTTTTTT-TTTAAAGCCCACAACTCCGTGGCACCTTCCTTTTAAAATCCATAACTCTAT
* * *
228855 GGCACTTCATCTTTTTAAGCCCACACAAGTTGG
65 GGCACTTCATCCTTTTAAGCCAACACAAGTCGG
228888 TGG
1 TGG
228891 TATCCTTTCT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
96 7 0.08
97 84 0.92
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (97 bp):
TGGCACTTTTTTTTTTAAAGCCCACAACTCCGTGGCACCTTCCTTTTAAAATCCATAACTCTATG
GCACTTCATCCTTTTAAGCCAACACAAGTCGG
Found at i:228840 original size:31 final size:31
Alignment explanation
Indices: 228706--228861 Score: 98
Period size: 31 Copynumber: 4.9 Consensus size: 31
228696 GCACTTTTTT
* * *
228706 TTTTAAAGCCCACAACTTCGTGGCACCTTCC
1 TTTTAAAGCCCATAACTCCGTGGCACTTTCC
** **
228737 TTTTAAATTCCATAACTCTATGGCACTTTATCC
1 TTTTAAAGCCCATAACTCCGTGGCAC-TT-TCC
* * * * **
228770 TTTT-AAGCCAACACAAGTCGGTGGCATTTTTT
1 TTTTAAAGCC--CATAACTCCGTGGCACTTTCC
*
228802 TCTTTAAAGCCCATAACTCCGTGGCACGTTCC
1 T-TTTAAAGCCCATAACTCCGTGGCACTTTCC
** **
228834 TTTTAAAATCCATAACTCTATGGCACTT
1 TTTTAAAGCCCATAACTCCGTGGCACTT
228862 CATCTTTTTA
Statistics
Matches: 91, Mismatches: 28, Indels: 12
0.69 0.21 0.09
Matches are distributed among these distances:
31 42 0.46
32 21 0.23
33 12 0.13
34 16 0.18
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.35
Consensus pattern (31 bp):
TTTTAAAGCCCATAACTCCGTGGCACTTTCC
Found at i:229080 original size:32 final size:33
Alignment explanation
Indices: 229002--229089 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
228992 GCTAGACACC
**
229002 AAAGCCCACACAAGTTGGTGGCAACCTTTTTCT
1 AAAGCCCACACAAGTTGGTGGCAACCTTCCTCT
* *
229035 AAAACCCACACAAGCTGGTGGCAACCTTCCT-T
1 AAAGCCCACACAAGTTGGTGGCAACCTTCCTCT
229067 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTTGGTGGCA
229090 TCCCCTTCCA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
32 22 0.45
33 27 0.55
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (33 bp):
AAAGCCCACACAAGTTGGTGGCAACCTTCCTCT
Found at i:229595 original size:52 final size:52
Alignment explanation
Indices: 229483--229598 Score: 128
Period size: 52 Copynumber: 2.2 Consensus size: 52
229473 AAGTTTAATG
* * * * * **
229483 TTTGAATCAACACGTTGGCGTTTTTTTCATCTTTAAGTCCGATATCGTTGGC
1 TTTGAATCAACACATTGGCATTCTTTGCATCTTTAAGTCCAATATCACTGGC
*
229535 -CTGTAATCAACACATTGGCATTCTTTGCATCTTTAAG-CCTAATATCACTGGC
1 TTTG-AATCAACACATTGGCATTCTTTGCATCTTTAAGTCC-AATATCACTGGC
229587 TTTGAATCAACA
1 TTTGAATCAACA
229599 TATTAGCACC
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
51 4 0.08
52 46 0.88
53 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (52 bp):
TTTGAATCAACACATTGGCATTCTTTGCATCTTTAAGTCCAATATCACTGGC
Found at i:229661 original size:62 final size:62
Alignment explanation
Indices: 229553--229755 Score: 241
Period size: 61 Copynumber: 3.3 Consensus size: 62
229543 AACACATTGG
** * * *
229553 CATTCTT-TGCATCTTTAAGCCTAATATCACTGGCTTTGAATCAACATATTAGCACCTTTTAT
1 CATTCTTCT-CATCTTTAAGCCCGATATCACTAGCCTTGAATCAACATATTGGCACCTTTTAT
* *
229615 CATTTTTCTCATCTTTAAGCCCGATATCACTAGCCTTGAATTAACATATTGGCACC-TTTAT
1 CATTCTTCTCATCTTTAAGCCCGATATCACTAGCCTTGAATCAACATATTGGCACCTTTTAT
* * ** * * *
229676 CATTCTTCTCATCTTCAAGCTCGATAAGACTAGCCATGAAGCAGCATATTGGCA-CTTTTAT
1 CATTCTTCTCATCTTTAAGCCCGATATCACTAGCCTTGAATCAACATATTGGCACCTTTTAT
*
229737 CATTCTTCACATCTTTAAG
1 CATTCTTCTCATCTTTAAG
229756 TCTAACGTCA
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
60 1 0.01
61 72 0.60
62 47 0.39
63 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (62 bp):
CATTCTTCTCATCTTTAAGCCCGATATCACTAGCCTTGAATCAACATATTGGCACCTTTTAT
Found at i:230666 original size:52 final size:52
Alignment explanation
Indices: 230588--230704 Score: 173
Period size: 52 Copynumber: 2.2 Consensus size: 52
230578 TGCTTACAAT
* * * *
230588 TGTATCGATATATTTCTCATTGTATCGATACATTCTGGGTTTTTAACCCAAA
1 TGTATTGATACATTTCTCATTGTATCGATACATTATGGGGTTTTAACCCAAA
*
230640 TGTATTGATACATTTCTCATTGTATCGATACATTATGGGGTTTTGACCCAAA
1 TGTATTGATACATTTCTCATTGTATCGATACATTATGGGGTTTTAACCCAAA
230692 TGTATCT-ATACAT
1 TGTAT-TGATACAT
230705 ACAAGCGAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 58 0.98
53 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (52 bp):
TGTATTGATACATTTCTCATTGTATCGATACATTATGGGGTTTTAACCCAAA
Found at i:235807 original size:33 final size:32
Alignment explanation
Indices: 235749--235813 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
235739 ACAATTCACT
* *
235749 ATGTATCGATACCAAGAAAATGTATCGATACA
1 ATGTATCAATACCAAGAAAATGTATCAATACA
* *
235781 ATGTATCAATACTAAGCAATATGTATCAATACA
1 ATGTATCAATACCAAG-AAAATGTATCAATACA
235814 TCTGCGTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (32 bp):
ATGTATCAATACCAAGAAAATGTATCAATACA
Found at i:235944 original size:22 final size:21
Alignment explanation
Indices: 235918--235973 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
235908 GATTATTTTT
235918 ACTTGAAAACATATG-ATTTA
1 ACTTGAAAACATATGTATTTA
*
235938 TAGCTTGAAAAACATTTGTATTTA
1 -A-CTTG-AAAACATATGTATTTA
*
235962 ACTTTAAAACAT
1 ACTTGAAAACAT
235974 CTTTGATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
21 8 0.27
22 7 0.23
23 10 0.33
24 5 0.17
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (21 bp):
ACTTGAAAACATATGTATTTA
Found at i:237505 original size:22 final size:22
Alignment explanation
Indices: 237480--237540 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
237470 ATTCAATAAC
*
237480 AATTAAGCAC-AAAACATCAGCA
1 AATT-AGCACAAAAACACCAGCA
**
237502 AATTTTCACAAAAACACCAGCA
1 AATTAGCACAAAAACACCAGCA
**
237524 AATTTTCACAAAAACAC
1 AATTAGCACAAAAACAC
237541 AAGATCATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 3 0.09
22 32 0.91
ACGTcount: A:0.52, C:0.25, G:0.05, T:0.18
Consensus pattern (22 bp):
AATTAGCACAAAAACACCAGCA
Found at i:237513 original size:21 final size:21
Alignment explanation
Indices: 237487--237536 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
237477 AACAATTAAG
*
237487 CACAAAACATCAGCAAATTTT
1 CACAAAACACCAGCAAATTTT
237508 CACAAAAACACCAGCAAATTTT
1 CAC-AAAACACCAGCAAATTTT
237530 CACAAAA
1 CACAAAA
237537 ACACAAGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.52, C:0.26, G:0.04, T:0.18
Consensus pattern (21 bp):
CACAAAACACCAGCAAATTTT
Found at i:242872 original size:33 final size:32
Alignment explanation
Indices: 242809--242872 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
242799 CAATTCACTG
* **
242809 TGTATCGATACCAAGAACATGTATTGATACAA
1 TGTATCGATAACAAGAACATGTATCAATACAA
* *
242841 TGTATCGATAATAAGCAATATGTATCAATACA
1 TGTATCGATAACAAG-AACATGTATCAATACA
242873 TCTAAGTATG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (32 bp):
TGTATCGATAACAAGAACATGTATCAATACAA
Found at i:244405 original size:21 final size:22
Alignment explanation
Indices: 244381--244445 Score: 69
Period size: 24 Copynumber: 2.9 Consensus size: 22
244371 TTTCCCTTTC
*
244381 TTTCTCATTTTTATT-TTATAT
1 TTTCTCATTATTATTATTATAT
*
244402 TTTCTTATTATTATTATTATTAT
1 TTTCTCATTATTATTATTA-TAT
* *
244425 TATTATTATTATTATTATTAT
1 T-TTCTCATTATTATTATTAT
244446 TATTAATCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 13 0.34
22 3 0.08
23 5 0.13
24 17 0.45
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCTCATTATTATTATTATAT
Found at i:244414 original size:3 final size:3
Alignment explanation
Indices: 244406--244463 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
244396 TTATATTTTC
* *
244406 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA ATC
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
244454 TT- TTA TTA TT
1 TTA TTA TTA TT
244464 TTTGAAGCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:249206 original size:14 final size:14
Alignment explanation
Indices: 249187--249214 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
249177 CCGTCTCTAG
249187 TAATTACTAAACTA
1 TAATTACTAAACTA
249201 TAATTACTAAACTA
1 TAATTACTAAACTA
249215 AGCTAAAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
TAATTACTAAACTA
Found at i:249881 original size:20 final size:20
Alignment explanation
Indices: 249856--249896 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
249846 TCTATTATCT
249856 TCTATTTATACTATATATAA
1 TCTATTTATACTATATATAA
249876 TCTATTTATACTATATATAA
1 TCTATTTATACTATATATAA
249896 T
1 T
249897 GCAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (20 bp):
TCTATTTATACTATATATAA
Found at i:250362 original size:13 final size:13
Alignment explanation
Indices: 250344--250369 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
250334 TACAGCAAGT
250344 ATGTATCGATACA
1 ATGTATCGATACA
250357 ATGTATCGATACA
1 ATGTATCGATACA
250370 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:250454 original size:20 final size:21
Alignment explanation
Indices: 250424--250462 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
250414 CTATATTTTC
250424 AAATATGTATCGATACATTAA
1 AAATATGTATCGATACATTAA
250445 AAAT-TGTATCGATACATT
1 AAATATGTATCGATACATT
250463 TACACGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (21 bp):
AAATATGTATCGATACATTAA
Found at i:252424 original size:15 final size:16
Alignment explanation
Indices: 252404--252437 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
252394 AAACTAAAAG
252404 AAAATAAT-AAATTGA
1 AAAATAATGAAATTGA
*
252419 AAAATATTGAAATTGA
1 AAAATAATGAAATTGA
252435 AAA
1 AAA
252438 TCTAGAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (16 bp):
AAAATAATGAAATTGA
Found at i:257451 original size:15 final size:15
Alignment explanation
Indices: 257433--257477 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
257423 ATATATTTTT
257433 TAAAAATATAATAAC
1 TAAAAATATAATAAC
*
257448 TAAAAAT-TAATAAA
1 TAAAAATATAATAAC
* *
257462 TAAAAAAATGATAAC
1 TAAAAATATAATAAC
257477 T
1 T
257478 TTATAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (15 bp):
TAAAAATATAATAAC
Found at i:257458 original size:14 final size:15
Alignment explanation
Indices: 257433--257467 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
257423 ATATATTTTT
*
257433 TAAAAATATAATAAC
1 TAAAAATATAATAAA
257448 TAAAAAT-TAATAAA
1 TAAAAATATAATAAA
257462 TAAAAA
1 TAAAAA
257468 AATGATAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATAATAAA
Found at i:257749 original size:16 final size:16
Alignment explanation
Indices: 257728--257761 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
257718 AATTACTTAA
*
257728 TATTTATTAGTATAAT
1 TATTTATTAATATAAT
257744 TATTTATTAATATAAT
1 TATTTATTAATATAAT
257760 TA
1 TA
257762 ATTAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TATTTATTAATATAAT
Found at i:257978 original size:29 final size:29
Alignment explanation
Indices: 257917--257978 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
257907 TTTATATGAT
*
257917 AAAATAATAGTATTTTGATAAAATATTTT
1 AAAATAATAGTATTTTGATAAAATATTTA
* **
257946 AAAATAATATTATTTT-ATTAATTTATTTA
1 AAAATAATAGTATTTTGA-TAAAATATTTA
257975 AAAA
1 AAAA
257979 ATAAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (29 bp):
AAAATAATAGTATTTTGATAAAATATTTA
Found at i:258498 original size:17 final size:17
Alignment explanation
Indices: 258464--258502 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
258454 GTCATTACTA
*
258464 TTTTTATTTAATATAAT
1 TTTTTATTTAATAAAAT
**
258481 TTTTTATTTTTTAAAAT
1 TTTTTATTTAATAAAAT
258498 TTTTT
1 TTTTT
258503 TAACATATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTATTTAATAAAAT
Found at i:259052 original size:22 final size:22
Alignment explanation
Indices: 259025--259069 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
259015 ATACGACATG
259025 ATAATACGTGATATAAAATTAA
1 ATAATACGTGATATAAAATTAA
*
259047 ATAATATGTGATATAAAATTAA
1 ATAATACGTGATATAAAATTAA
259069 A
1 A
259070 AGTTATTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (22 bp):
ATAATACGTGATATAAAATTAA
Found at i:259149 original size:21 final size:23
Alignment explanation
Indices: 259115--259157 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
259105 TTGAAATAAT
*
259115 ATAATTATACAACATGATAAAAA
1 ATAATTATACAACATAATAAAAA
259138 ATAA-TATA-AACATAATAAAA
1 ATAATTATACAACATAATAAAA
259158 TTTGATAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 4 0.21
23 4 0.21
ACGTcount: A:0.65, C:0.07, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAATTATACAACATAATAAAAA
Found at i:265239 original size:42 final size:42
Alignment explanation
Indices: 265184--265302 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
265174 TTCTTCTCTC
* *
265184 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCCGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCCGTCT
* *
265226 CTCCTCCTATCATCCC-CTCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTC-CTCTCTCTACTATCTCTCCCGTCT
* * *
265268 CTCCTTCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
265303 TTGAGGGCTA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.97
43 1 0.01
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCCGTCT
Found at i:265256 original size:21 final size:22
Alignment explanation
Indices: 265225--265283 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 22
265215 CTCTCCCGTC
*
265225 TCTCCTCCTATCATCCCCTCTA
1 TCTCCTACTATCATCCCCTCTA
* * *
265247 TCT-CTACTATC-TCTCCTGTC
1 TCTCCTACTATCATCCCCTCTA
*
265267 TCTCCTTCTATCATCCC
1 TCTCCTACTATCATCCC
265284 TCCTCTCTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 9 0.31
21 14 0.48
22 6 0.21
ACGTcount: A:0.12, C:0.46, G:0.02, T:0.41
Consensus pattern (22 bp):
TCTCCTACTATCATCCCCTCTA
Found at i:268260 original size:27 final size:24
Alignment explanation
Indices: 268217--268267 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 24
268207 TTTAAAAATA
268217 TATAAAAATAAAGATAAATCTATATT
1 TATAAAAATAAAGAT-AA-CTATATT
268243 TATAAAAATTTAAA-ATAACTATATT
1 TATAAAAA--TAAAGATAACTATATT
268268 AATAGGCATG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 7 0.30
26 10 0.43
27 2 0.09
28 4 0.17
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (24 bp):
TATAAAAATAAAGATAACTATATT
Found at i:269460 original size:31 final size:31
Alignment explanation
Indices: 269372--269556 Score: 137
Period size: 31 Copynumber: 5.8 Consensus size: 31
269362 TAAATGATTT
*
269372 AAAATTATATTTATATTATAGAAT--AAAATA
1 AAAATTATATTTATATTA-AAAATAAAAAATA
269402 AAAATTATATTTATGTTCAATAATAAAAATAAAAAATA
1 AAAATTATATTTA---T--AT--TAAAAATAAAAAATA
*
269440 AAAATTATATTTATATTAAAAATAAATAATTA
1 AAAATTATATTTATATTAAAAATAAA-AAATA
* * * * *
269472 AAAA-TAAATTTAT-TT-TAATTAATAACTA
1 AAAATTATATTTATATTAAAAATAAAAAATA
** ** *
269500 AAAATTATATTTATACAAAAAATAAATTATT
1 AAAATTATATTTATATTAAAAATAAAAAATA
*
269531 AAAATAATATTTATATTAAAAATAAA
1 AAAATTATATTTATATTAAAAATAAA
269557 TTAATAATAT
Statistics
Matches: 122, Mismatches: 20, Indels: 25
0.73 0.12 0.15
Matches are distributed among these distances:
28 8 0.07
29 13 0.11
30 15 0.12
31 47 0.39
32 8 0.07
33 3 0.02
35 3 0.02
36 4 0.03
37 2 0.02
38 19 0.16
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (31 bp):
AAAATTATATTTATATTAAAAATAAAAAATA
Found at i:269473 original size:14 final size:14
Alignment explanation
Indices: 269454--269480 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
269444 TTATATTTAT
269454 ATTAAAAATAAATA
1 ATTAAAAATAAATA
269468 ATTAAAAATAAAT
1 ATTAAAAATAAAT
269481 TTATTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
ATTAAAAATAAATA
Found at i:269493 original size:35 final size:38
Alignment explanation
Indices: 269396--269506 Score: 133
Period size: 38 Copynumber: 3.0 Consensus size: 38
269386 ATTATAGAAT
* *
269396 AAAATAAAAATTATATTTATGTTCAAT-AATAAAAATAA
1 AAAATAAAAATTATATTTATATT-AATAAATAAAAATTA
269434 AAAATAAAAATTATATTTATATTAA-AAATAAATAATTA
1 AAAATAAAAATTATATTTATATTAATAAATAAA-AATTA
* *
269472 AAAAT-AAATTTAT-TTTA-ATTAATAACTAAAAATTA
1 AAAATAAAAATTATATTTATATTAATAAATAAAAATTA
269507 TATTTATACA
Statistics
Matches: 66, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
35 10 0.15
36 10 0.15
37 15 0.23
38 31 0.47
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (38 bp):
AAAATAAAAATTATATTTATATTAATAAATAAAAATTA
Found at i:269521 original size:91 final size:91
Alignment explanation
Indices: 269426--269747 Score: 257
Period size: 91 Copynumber: 3.5 Consensus size: 91
269416 GTTCAATAAT
*
269426 AAAAATAAAAAATAAAAATTATATTTATATTAAAAATAAATAATTAAAAATAAATTTATTTTAAT
1 AAAAATAAAAAATTAAAATTATATTTATATTAAAAATAAATAATTAAAAATAAATTTATTTTAAT
269491 TAATAACTAAAAATTATATTTATACA
66 TAATAACTAAAAATTATATTTATACA
** * **
269517 AAAAATAAATTATTAAAATAATATTTATATTAAAAATAAATTAATAATATAAATATAAAAATAAA
1 AAAAATAAAAAATTAAAATTATATTTATATTAAAAATAAA-TAAT--TA-AAA-AT--AAATTTA
* ** ***
269582 GTGCAGGGGCAA-AAC-AAAAATTATATTTATGTTA-A
59 TTTTA--ATTAATAACTAAAAATTATATTTA---TACA
* * *
269617 ATAGTAAATATAAAA-TAAAATTATATTTACATTAAAAATAAA-AA--ATAAA-AAATTTATTTT
1 A-A--AAATAAAAAATTAAAATTATATTTATATTAAAAATAAATAATTAAAAATAAATTTATTTT
*
269677 AATTAATAACTAAAAATTATATTTATACT
63 AATTAATAACTAAAAATTATATTTATACA
** *
269706 AAAAATAAATTATTAAAATCATATATTA-ATTAAACAATAAAT
1 AAAAATAAAAAATTAAAATTATAT-TTATATTAAA-AATAAAT
269748 TAATAATATA
Statistics
Matches: 178, Mismatches: 31, Indels: 46
0.70 0.12 0.18
Matches are distributed among these distances:
86 7 0.04
87 16 0.09
88 12 0.07
89 3 0.02
90 3 0.02
91 57 0.32
92 4 0.02
94 3 0.02
95 5 0.03
96 3 0.02
98 21 0.12
99 3 0.02
100 6 0.03
101 3 0.02
102 25 0.14
103 7 0.04
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.35
Consensus pattern (91 bp):
AAAAATAAAAAATTAAAATTATATTTATATTAAAAATAAATAATTAAAAATAAATTTATTTTAAT
TAATAACTAAAAATTATATTTATACA
Found at i:269528 original size:36 final size:34
Alignment explanation
Indices: 269488--269571 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 34
269478 AATTTATTTT
*
269488 AATTAATAACTAAAAATTATATTTATACAAAAAATA
1 AATTAATAA-T-AAAATAATATTTATACAAAAAATA
**
269524 AATT-AT--TAAAATAATATTTATATTAAAAATA
1 AATTAATAATAAAATAATATTTATACAAAAAATA
269555 AATTAATAATATAAATA
1 AATTAATAATA-AAATA
269572 TAAAAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
31 25 0.61
32 3 0.07
34 2 0.05
35 7 0.17
36 4 0.10
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (34 bp):
AATTAATAATAAAATAATATTTATACAAAAAATA
Found at i:269572 original size:26 final size:25
Alignment explanation
Indices: 269533--269581 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
269523 AAATTATTAA
**
269533 AATAATATTTATATTAAAAATAAATT
1 AATAATATAAATA-TAAAAATAAATT
269559 AATAATATAAATATAAAAATAAA
1 AATAATATAAATATAAAAATAAA
269582 GTGCAGGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AATAATATAAATATAAAAATAAATT
Found at i:269665 original size:35 final size:35
Alignment explanation
Indices: 269598--269693 Score: 87
Period size: 35 Copynumber: 2.9 Consensus size: 35
269588 GGGCAAAACA
** * *
269598 AAAATTATATTTATGTTAAATAGTAAATATAAAAT
1 AAAATTATATTTACATTAAATAATAAAAATAAAAT
*
269633 AAAATTATATTTACATTAAA-AATAAAAA-ATAA-
1 AAAATTATATTTACATTAAATAATAAAAATAAAAT
269665 AAAATT-TATTTTA-ATT-AATAACTAAAAAT
1 AAAATTATA-TTTACATTAAATAA-TAAAAAT
269694 TATATTTATA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
30 2 0.04
31 7 0.13
32 16 0.31
33 3 0.06
34 6 0.12
35 18 0.35
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (35 bp):
AAAATTATATTTACATTAAATAATAAAAATAAAAT
Found at i:269714 original size:24 final size:23
Alignment explanation
Indices: 269657--269714 Score: 55
Period size: 24 Copynumber: 2.4 Consensus size: 23
269647 ATTAAAAATA
*
269657 AAAAATAAAAAATTTATTTTAATT
1 AAAAAT-AAAAATTTATTTTAACT
*
269681 AATAACTAAAAA-TTATATTTATACT
1 AA-AAATAAAAATTTAT-TTTA-ACT
269706 AAAAATAAA
1 AAAAATAAA
269715 TTATTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
23 4 0.14
24 17 0.61
25 7 0.25
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAAATAAAAATTTATTTTAACT
Found at i:269723 original size:32 final size:32
Alignment explanation
Indices: 269689--269749 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
269679 TTAATAACTA
*
269689 AAAATTATAT-TTATACTAAA-AATAAATTATT
1 AAAATCATATATTA-ACTAAACAATAAATTATT
*
269720 AAAATCATATATTAATTAAACAATAAATTA
1 AAAATCATATATTAACTAAACAATAAATTA
269750 ATAATATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (32 bp):
AAAATCATATATTAACTAAACAATAAATTATT
Found at i:269749 original size:16 final size:15
Alignment explanation
Indices: 269705--269751 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
269695 ATATTTATAC
269705 TAAAAATAAATT-AT
1 TAAAAATAAATTAAT
*
269719 TAAAATCATATATTAAT
1 TAAAA--ATAAATTAAT
269736 TAAACAATAAATTAAT
1 TAAA-AATAAATTAAT
269752 AATATAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 5 0.19
16 15 0.56
17 6 0.22
18 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAAATAAATTAAT
Found at i:270507 original size:65 final size:65
Alignment explanation
Indices: 270420--270643 Score: 209
Period size: 65 Copynumber: 3.4 Consensus size: 65
270410 GCTAAATGGA
* * * ** *
270420 GCTTAATATCTTATTTTATGCCAAATTAATTAGGCTTAAGATTCTTATAGAGTCAGTTAAACGAG
1 GCTTAATATCTCATTTTATGCCAACTTAATTAGGCTTAAGATTCTTATAGAGCCAACTAAACAAG
* * * * * * * *
270485 GTTTAATATGTCATTTTGTGCCAACTAAACTATGCTTAATATTCTTATAGTGCCAACTAAACAAG
1 GCTTAATATCTCATTTTATGCCAACTTAATTAGGCTTAAGATTCTTATAGAGCCAACTAAACAAG
* * * * * * *
270550 GCTTAACATCTCATTTTATGCCAACTTAATT-GGGTTAAACATTCCTATA-ATGCTAACTATATA
1 GCTTAATATCTCATTTTATGCCAACTTAATTAGGCTT-AAGATTCTTATAGA-GCCAACTAAACA
*
270613 GG
64 AG
*
270615 GCTTAATATCTCATTTTGTGCCAACTTAA
1 GCTTAATATCTCATTTTATGCCAACTTAA
270644 CTAGTTTTCA
Statistics
Matches: 126, Mismatches: 31, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
64 3 0.02
65 123 0.98
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (65 bp):
GCTTAATATCTCATTTTATGCCAACTTAATTAGGCTTAAGATTCTTATAGAGCCAACTAAACAAG
Found at i:270524 original size:33 final size:32
Alignment explanation
Indices: 270477--270575 Score: 101
Period size: 32 Copynumber: 3.0 Consensus size: 32
270467 TAGAGTCAGT
* *
270477 TAAACGAGGTTTAATATGTCATTTTGTGCCAAC
1 TAAACAAGGCTTAATAT-TCATTTTGTGCCAAC
* * *
270510 TAAACTATGCTTAATATTC-TTATAGTGCCAAC
1 TAAACAAGGCTTAATATTCATT-TTGTGCCAAC
* *
270542 TAAACAAGGCTTAACATCTCATTTTATGCCAAC
1 TAAACAAGGCTTAATAT-TCATTTTGTGCCAAC
270575 T
1 T
270576 TAATTGGGTT
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
31 2 0.04
32 25 0.46
33 25 0.46
34 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (32 bp):
TAAACAAGGCTTAATATTCATTTTGTGCCAAC
Found at i:270591 original size:33 final size:33
Alignment explanation
Indices: 270535--270643 Score: 89
Period size: 33 Copynumber: 3.3 Consensus size: 33
270525 ATTCTTATAG
* * *
270535 TGCCAACTAAACAAGGCTTAACATCTCATTTTA
1 TGCCAACTTAATAGGGCTTAACATCTCATTTTA
* * * *
270568 TGCCAACTTAATTGGG-TTAAACAT-TCCTATAA
1 TGCCAACTTAATAGGGCTT-AACATCTCATTTTA
* * *
270600 TGCTAAC-TATATAGGGCTTAATATCTCATTTTG
1 TGCCAACTTA-ATAGGGCTTAACATCTCATTTTA
270633 TGCCAACTTAA
1 TGCCAACTTAA
270644 CTAGTTTTCA
Statistics
Matches: 56, Mismatches: 15, Indels: 10
0.69 0.19 0.12
Matches are distributed among these distances:
31 2 0.04
32 22 0.39
33 30 0.54
34 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (33 bp):
TGCCAACTTAATAGGGCTTAACATCTCATTTTA
Found at i:270667 original size:65 final size:65
Alignment explanation
Indices: 270487--270689 Score: 203
Period size: 65 Copynumber: 3.1 Consensus size: 65
270477 TAAACGAGGT
* * * * * * *
270487 TTAATATGTCATTTTGTGCCAACTAAACTA-TGCTTAATATTCTTATAGTGCCAACTAAACAAGG
1 TTAATATCTCATTTTGTGCCAACTTAACTAGT-TTTAATATTCATATAATGCCAACTAAATAGGG
270551 C
65 C
* * * * * * * * * *
270552 TTAACATCTCATTTTATGCCAACTTAATTGGGTTAAACATTCCTATAATGCTAACTATATAGGGC
1 TTAATATCTCATTTTGTGCCAACTTAACTAGTTTTAATATTCATATAATGCCAACTAAATAGGGC
* *
270617 TTAATATCTCATTTTGTGCCAACTTAACTAGTTTTCATATTCATACAATGCCAACTAAAT-GAGG
1 TTAATATCTCATTTTGTGCCAACTTAACTAGTTTTAATATTCATATAATGCCAACTAAATAG-GG
270681 C
65 C
270682 TTAATATC
1 TTAATATC
270690 CTTGTATTAA
Statistics
Matches: 108, Mismatches: 28, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
64 1 0.01
65 107 0.99
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (65 bp):
TTAATATCTCATTTTGTGCCAACTTAACTAGTTTTAATATTCATATAATGCCAACTAAATAGGGC
Found at i:272497 original size:21 final size:22
Alignment explanation
Indices: 272479--272521 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
272469 TCCCTATATT
272479 TATAAAACAAAAATATATATCAA
1 TATAAAACAAAAATATATAT-AA
* *
272502 TGTAAAAGAAAAATATATAT
1 TATAAAACAAAAATATATAT
272522 CCCAATACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.28
Consensus pattern (22 bp):
TATAAAACAAAAATATATATAA
Found at i:273922 original size:14 final size:15
Alignment explanation
Indices: 273905--273945 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
273895 ATATATTAAA
273905 ATAATTATAT-TTTT
1 ATAATTATATATTTT
*
273919 ATAATTAAATATTTT
1 ATAATTATATATTTT
273934 A-AATTATATATT
1 ATAATTATATATT
273946 ATTTAGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 19 0.79
15 5 0.21
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATAATTATATATTTT
Found at i:274474 original size:11 final size:11
Alignment explanation
Indices: 274460--274566 Score: 59
Period size: 11 Copynumber: 10.1 Consensus size: 11
274450 ATATGAAAAA
274460 AATATAAATAT
1 AATATAAATAT
*
274471 AATA-CAA-A-
1 AATATAAATAT
274479 AATATAAATAT
1 AATATAAATAT
*
274490 ATTA-AAAT-T
1 AATATAAATAT
*
274499 TATATAATATTAAT
1 AATATAA-A-T-AT
*
274513 TATATAAATAT
1 AATATAAATAT
274524 -ATAATAAAT-T
1 AAT-ATAAATAT
* *
274534 AATTTAAAAAT
1 AATATAAATAT
274545 -ATATAAATAT
1 AATATAAATAT
*
274555 GATATAAATAT
1 AATATAAATAT
274566 A
1 A
274567 TAAATTATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
8 4 0.05
9 6 0.08
10 24 0.32
11 29 0.39
12 2 0.03
13 1 0.01
14 8 0.11
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (11 bp):
AATATAAATAT
Found at i:274491 original size:8 final size:8
Alignment explanation
Indices: 274461--274571 Score: 64
Period size: 8 Copynumber: 13.0 Consensus size: 8
274451 TATGAAAAAA
274461 ATATAAAT
1 ATATAAAT
*
274469 ATAATACAAAA
1 AT-AT--AAAT
274480 ATATAAAT
1 ATATAAAT
274488 ATATTAAAAT
1 ATA-T-AAAT
*
274498 TTATATAAT
1 ATATA-AAT
*
274507 AT-TAATT
1 ATATAAAT
274514 ATATAAAT
1 ATATAAAT
274522 ATAT-AAT
1 ATATAAAT
* *
274529 AAATTAAT
1 ATATAAAT
* *
274537 TTAAAAAT
1 ATATAAAT
274545 ATATAAATAT
1 ATAT-AA-AT
274555 GATATAAAT
1 -ATATAAAT
274564 ATATAAAT
1 ATATAAAT
274572 TATTAAAATT
Statistics
Matches: 79, Mismatches: 13, Indels: 22
0.69 0.11 0.19
Matches are distributed among these distances:
7 10 0.13
8 36 0.46
9 12 0.15
10 12 0.15
11 9 0.11
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (8 bp):
ATATAAAT
Found at i:274586 original size:42 final size:42
Alignment explanation
Indices: 274456--274586 Score: 126
Period size: 42 Copynumber: 3.1 Consensus size: 42
274446 TAAAATATGA
* * *
274456 AAAAAATATAAATATAATACAAAAATATAAATATATTAAAATT
1 AAAATATATAAATAT-ATATAAATATATAAATATATTAAAATT
* * * * *
274499 TATATAATATTAAT-TATATAAATATAT-AATAAATT-AATTT
1 AAAAT-ATATAAATATATATAAATATATAAATATATTAAAATT
274539 AAAAATATATAAATATGATATAAATATATAAAT-TATTAAAATT
1 -AAAATATATAAATAT-ATATAAATATATAAATATATTAAAATT
274582 AAAAT
1 AAAAT
274587 TTTTTTATTT
Statistics
Matches: 69, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
40 11 0.16
41 11 0.16
42 30 0.43
43 10 0.14
44 7 0.10
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.37
Consensus pattern (42 bp):
AAAATATATAAATATATATAAATATATAAATATATTAAAATT
Found at i:275238 original size:17 final size:18
Alignment explanation
Indices: 275211--275245 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
275201 TTCCAAGTGG
275211 ATTTAATTAAGATAATTT
1 ATTTAATTAAGATAATTT
275229 ATTT-ATTAAGATAATTT
1 ATTTAATTAAGATAATTT
275246 CAATAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (18 bp):
ATTTAATTAAGATAATTT
Found at i:280298 original size:2 final size:2
Alignment explanation
Indices: 280291--280332 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
280281 TTACGAACTG
280291 AT AT AT AT AT 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 AT AT AT AT AT
280333 TGTCGAGTGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:282365 original size:2 final size:2
Alignment explanation
Indices: 282358--282384 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
282348 TTAATGAAAA
282358 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
282385 TAATTTGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:286370 original size:25 final size:25
Alignment explanation
Indices: 286319--286375 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
286309 CATATGCTTA
*
286319 TTTA-ATTTATTTATTTGGGT-TAT
1 TTTACATTTATTTATTTGGGTCAAT
*
286342 TTTTCATTTAATTTATTTGGGTCAAT
1 TTTACATTT-ATTTATTTGGGTCAAT
286368 TTTACATT
1 TTTACATT
286376 AAAAATCTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 3 0.11
24 4 0.14
25 12 0.43
26 9 0.32
ACGTcount: A:0.23, C:0.05, G:0.11, T:0.61
Consensus pattern (25 bp):
TTTACATTTATTTATTTGGGTCAAT
Found at i:287388 original size:2 final size:2
Alignment explanation
Indices: 287381--287412 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
287371 AAATAAGGCC
287381 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
287413 TCTATTTTTA
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:299396 original size:81 final size:78
Alignment explanation
Indices: 299240--299415 Score: 185
Period size: 81 Copynumber: 2.2 Consensus size: 78
299230 TAAATCGGGT
* * * * *
299240 GAGGTTGAATAAACATTATCAGTTGTGGTTAGATTTTTATTTCATTCAGAAGATATCATTTTTTA
1 GAGGATGAATGAACATCATCACTTGTGGTAAGATTTTTATTTCATTCAGAAGATATCATTTTTTA
299305 TCCAAATATCAAAC
66 T-CAAATATCAAAC
* *
299319 GATGATGAATGAACATCATCACTTGTGGTAAGATATTTTTATTTCATCTTTAGAAGATATCATCT
1 GAGGATGAATGAACATCATCACTTGTGGTAAG--ATTTTTATTTCA--TTCAGAAGATATCAT-T
**
299384 TTTT-T-AGGTATCAAAC
61 TTTTATCAAATATCAAAC
* *
299400 GGGGATGAACGAACAT
1 GAGGATGAATGAACAT
299416 TATCGCCAAC
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
79 26 0.32
81 34 0.43
83 15 0.19
84 5 0.06
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (78 bp):
GAGGATGAATGAACATCATCACTTGTGGTAAGATTTTTATTTCATTCAGAAGATATCATTTTTTA
TCAAATATCAAAC
Found at i:301600 original size:19 final size:19
Alignment explanation
Indices: 301576--301643 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
301566 AATTCAACAA
301576 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
301595 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
301610 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
301627 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
301644 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:301615 original size:13 final size:13
Alignment explanation
Indices: 301597--301621 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
301587 ACATAAGTTT
301597 TGTATCGATACAA
1 TGTATCGATACAA
301610 TGTATCGATACA
1 TGTATCGATACA
301622 TAAGTATTGT
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:301619 original size:32 final size:32
Alignment explanation
Indices: 301578--301640 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
301568 TTCAACAATT
*
301578 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
301610 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
301641 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:301701 original size:13 final size:13
Alignment explanation
Indices: 301683--301708 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
301673 CATTTTTCTG
301683 TGTATCGATACAT
1 TGTATCGATACAT
301696 TGTATCGATACAT
1 TGTATCGATACAT
301709 GGATCTTTGT
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:304137 original size:51 final size:53
Alignment explanation
Indices: 304060--304180 Score: 156
Period size: 51 Copynumber: 2.3 Consensus size: 53
304050 CAATTCTCCG
* * * * *
304060 CAATCGGGGATATTCCATCTCTGATTTTATTTTC-AAAACACTAATTTTCT-A
1 CAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTCA
* *
304111 TAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTTTCA
1 CAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTCA
*
304164 CAATCGAGGATACTCCA
1 CAATCGGGGATACTCCA
304181 ACCTCGTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
51 29 0.49
52 14 0.24
53 16 0.27
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.35
Consensus pattern (53 bp):
CAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTCA
Found at i:304202 original size:28 final size:28
Alignment explanation
Indices: 304166--304240 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
304156 TTTTTTCACA
* * **
304166 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
304194 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
304222 --CGAGGGATACTCCAACCCC
1 ATCG-GGGATACTCCAACCCC
304241 AGCTTTATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 2 0.05
27 16 0.38
28 24 0.57
ACGTcount: A:0.24, C:0.36, G:0.17, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:304358 original size:79 final size:79
Alignment explanation
Indices: 304196--304397 Score: 221
Period size: 79 Copynumber: 2.6 Consensus size: 79
304186 GTTATTTCAT
** * *
304196 CGGGGATACTCCAACCCCGTTACCTCCGA-GGGATACTCCAACCCCAGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGAGCTTTATTCCCAAAATAT
* *
304260 TGATTTCTCATAAT
66 CGATTTCTCATAAC
* * * * *
304274 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCCCGA-TTTTTTTTCC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCGAGCTTTATTCCCAAAAT-
304337 ATCGATTTCTCATAAC
64 ATCGATTTCTCATAAC
* * * * *
304353 CGGGGATACTCTAGCCCCGTCATTTTCAAGGGGACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCC
304398 CGTTATTATC
Statistics
Matches: 104, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
78 31 0.30
79 69 0.66
80 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCGAGCTTTATTCCCAAAATAT
CGATTTCTCATAAC
Found at i:316792 original size:13 final size:13
Alignment explanation
Indices: 316774--316823 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 13
316764 ACATTCTCTT
316774 CAAAAAAAAAAAG
1 CAAAAAAAAAAAG
316787 CAAAAAAAAAAGAAG
1 C-AAAAAAAAA-AAG
316802 -AAAAAAACAAAA-
1 CAAAAAAA-AAAAG
316814 CAAAGAAAAA
1 CAAA-AAAAA
316824 GAGAGAAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 14 0.44
14 15 0.47
15 3 0.09
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAG
Found at i:316793 original size:12 final size:12
Alignment explanation
Indices: 316776--316813 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
316766 ATTCTCTTCA
316776 AAAAAAAAAAGC
1 AAAAAAAAAAGC
316788 AAAAAAAAAAG-
1 AAAAAAAAAAGC
*
316799 AAGAAAAAAA-C
1 AAAAAAAAAAGC
316810 AAAA
1 AAAA
316814 CAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 12 0.52
12 11 0.48
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAGC
Found at i:316795 original size:15 final size:14
Alignment explanation
Indices: 316775--316838 Score: 56
Period size: 15 Copynumber: 4.2 Consensus size: 14
316765 CATTCTCTTC
316775 AAAAAAAAAAAGCAA
1 AAAAAAAAAAAG-AA
*
316790 AAAAAAAAGAAGAAA
1 AAAAAAAAAAAG-AA
316805 AAAACAAAACAAAGAA
1 AAAA-AAAA-AAAGAA
* *
316821 AAAGAGAGAAAAGAA
1 AAA-AAAAAAAAGAA
316836 AAA
1 AAA
316839 GAACCTGCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
15 26 0.63
16 11 0.27
17 4 0.10
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAGAA
Found at i:316805 original size:27 final size:26
Alignment explanation
Indices: 316775--316838 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 26
316765 CATTCTCTTC
316775 AAAAAAAAAAAGCAAAAAAAAA-AGAAG
1 AAAAAAAAAAA-CAAAAAAAAAGAG-AG
*
316802 AAAAAAACAAAACAAAGAAAAAGAGAG
1 AAAAAAA-AAAACAAAAAAAAAGAGAG
*
316829 AAAAGAAAAA
1 AAAAAAAAAA
316839 GAACCTGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 3 0.09
27 24 0.73
28 6 0.18
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAACAAAAAAAAAGAGAG
Found at i:316808 original size:17 final size:17
Alignment explanation
Indices: 316778--316823 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
316768 TCTCTTCAAA
*
316778 AAAAAAAAG-CAAAAA-
1 AAAAAAAAGAAAAAAAC
*
316793 AAAAAGAAGAAAAAAAC
1 AAAAAAAAGAAAAAAAC
*
316810 AAAACAAAGAAAAA
1 AAAAAAAAGAAAAA
316824 GAGAGAAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
15 8 0.32
16 5 0.20
17 12 0.48
ACGTcount: A:0.85, C:0.07, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAC
Found at i:317378 original size:20 final size:20
Alignment explanation
Indices: 317353--317406 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
317343 AAAACCCTTA
317353 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
317373 AAAGTATCGATACACAATTC
1 AAAGTATCGATACACAATTC
317393 AAAGTATCGATACA
1 AAAGTATCGATACA
317407 TGTTGCAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAGTATCGATACACAATTC
Found at i:317516 original size:13 final size:13
Alignment explanation
Indices: 317498--317523 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
317488 TACACCAAGT
317498 ATGTATCGATACA
1 ATGTATCGATACA
317511 ATGTATCGATACA
1 ATGTATCGATACA
317524 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:317521 original size:32 final size:33
Alignment explanation
Indices: 317480--317543 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
317470 TAGCCAAACT
* **
317480 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
317512 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
317544 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:319561 original size:21 final size:21
Alignment explanation
Indices: 319528--319577 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
319518 TTGCAAGTTG
*
319528 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
319550 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
319571 AAATAAA
1 AAATAAA
319578 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:323504 original size:13 final size:13
Alignment explanation
Indices: 323482--323519 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
323472 CATTTTTCTT
*
323482 TGTATTGATACAA
1 TGTATCGATACAA
*
323495 TGTATCGATACAC
1 TGTATCGATACAA
323508 TGTATCGATACA
1 TGTATCGATACA
323520 GGGGGATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:323674 original size:20 final size:20
Alignment explanation
Indices: 323631--323676 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
323621 AAATCTTTTG
323631 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
323652 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
323672 CAAAA
1 CAAAA
323677 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:326083 original size:13 final size:13
Alignment explanation
Indices: 326065--326090 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
326055 TACACCAAGT
326065 ATGTATCGATACA
1 ATGTATCGATACA
326078 ATGTATCGATACA
1 ATGTATCGATACA
326091 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:326088 original size:32 final size:33
Alignment explanation
Indices: 326047--326110 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
326037 TAGCCAAACT
* **
326047 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
326079 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
326111 TTAGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:327698 original size:55 final size:55
Alignment explanation
Indices: 327606--328355 Score: 733
Period size: 55 Copynumber: 12.9 Consensus size: 55
327596 ATGCTTTTTT
* * *
327606 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGAC-CC
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACTCC
**
327661 CTTTCGAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAGGA---C-TC-C
* * *
327722 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCGGGACACC
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACTCC
* * * * *
327778 TTTTCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCGGGACGCC
1 ----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACTCC
*
327838 TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCGGGA-TGCC
1 ----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACT-CC
* * **
327897 TTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCATGATGCTTTTT
1 ----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGA--C--TCC
* *
327960 CTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGAC-CC
1 CTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACTCC
*
328016 CTTTCAAAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGCCTTCTC
1 CTTT--TAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGA---C-TC-C
* *
328078 CTCTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCAGGAC-GC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACTCC
328133 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAGGA---C-TC-C
* *
328194 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCTTCAAAGAGCAGGA-TGC
1 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACTCC
* *
328249 CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-AC
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACTCC
* ** **
328304 CTTTCAAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 CTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCAGTCCTCAAAGAGCAGGA
328356 TACACTTTAT
Statistics
Matches: 612, Mismatches: 43, Indels: 80
0.83 0.06 0.11
Matches are distributed among these distances:
54 4 0.01
55 187 0.31
56 33 0.05
57 24 0.04
58 4 0.01
59 79 0.13
60 143 0.23
61 131 0.21
62 6 0.01
64 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (55 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACTCC
Found at i:328212 original size:116 final size:115
Alignment explanation
Indices: 327582--328355 Score: 933
Period size: 116 Copynumber: 6.7 Consensus size: 115
327572 GCTTTTTAGC
* * * * * * *
327582 CCTCAAAGAGCAGGATGCTTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
**
327647 AAAGAGCAGGACCCCTTTCGAAGCCCACACAAGTTGGTGGCACTTCCCAGT
66 AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGT
**
327698 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTC
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
* * *
327763 AAAGAGCGGGACACCTTTTCTTTTAAAGCCCACATAAGTTGGTGGCATTTTCCAGT
66 AAAGAGCAGGAC-CC----CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGT
* * *
327819 CCTTAAAGAGCGGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTC
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
* * *
327882 AAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTT-CAGT
66 AAAGAGCAGGA--CC---CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGT
* * * * * *
327937 CCTCAAAGAGCATGATG-CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCC
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCT
*
328001 CAAAGAGCAGGACCCCTTTCAAAAAGCCCACACAAGTTGGTGGCACTTCCAGT
65 CAAAGAGCAGGACCCCTTT--TAAAGCCCACACAAGTTGGTGGCACTTCCAGT
*
328054 CCTCAAAGAGCAGGACGCCTTCTCCTCTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCT
*
328118 CAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGT
65 CAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CCAGT
*
328170 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCTT
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCT
** *
328234 CAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
65 CAAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGT
* ** * **
328286 CCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACATGAGTTGGTGGCACTTTTTAGTCCTC
1 CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
328345 AAAGAGCAGGA
66 AAAGAGCAGGA
328356 TACACTTTAT
Statistics
Matches: 583, Mismatches: 53, Indels: 50
0.85 0.08 0.07
Matches are distributed among these distances:
110 38 0.07
111 2 0.00
114 1 0.00
115 31 0.05
116 207 0.36
117 95 0.16
118 34 0.06
119 74 0.13
120 49 0.08
121 50 0.09
122 2 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (115 bp):
CCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTC
AAAGAGCAGGACCCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGT
Found at i:329059 original size:21 final size:21
Alignment explanation
Indices: 329033--329109 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
329023 AAATTATCCA
329033 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
329054 AATGTATCGATAAATTTGT-G
1 AATGTATCGATACATTTGTAG
* *
329074 AAATGTATCGATACA-TTCTACA
1 -AATGTATCGATACATTTGTA-G
329096 AATGTATCGATACA
1 AATGTATCGATACA
329110 GGGTTCCAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
20 4 0.08
21 45 0.92
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Done.