Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 109 of 163
Found at i:30953701 original size:92 final size:92
Alignment explanation
Indices: 30953590--30954620 Score: 1686
Period size: 92 Copynumber: 11.1 Consensus size: 92
30953580 TGGTGCCGAA
* * *
30953590 GCTTTATCTTGCTCTTACTACAACTTCAGCGAGATAAAGACTTACTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
*
30953655 TCAAGAGGATAGGAATTGATGTTTGAA
66 TCAAGAGGATAGGAATTGATGTTTGAT
* * *
30953682 GCTTCATCTTACTATTACTACAACTTCAGAGAAATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* *
30953747 TCAAGAGGATAAGAATTGATGTTTGAA
66 TCAAGAGGATAGGAATTGATGTTTGAT
* * *
30953774 GCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAAACTTCCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
*
30953839 TCAAGAGGATAGGAATTGATGTTTGAA
66 TCAAGAGGATAGGAATTGATGTTTGAT
* *
30953866 ACTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
30953931 TCAAGAGGATAGGAATTGATGTTTGAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
*
30953958 GCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
*
30954023 TCAAGAGGATAGGAATTGATGTTTGAC
66 TCAAGAGGATAGGAATTGATGTTTGAT
*
30954050 GCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
30954115 TCAAGAGGATAGGAATTGATGTTTGAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
*
30954142 GCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
30954207 TCAAGAGGATAGGAATTGATGTTTGAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
* *
30954234 GCTTCATTTTGCTCTTACTAAAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
30954299 TCAAGAGGATAGGAATTGATGTTTGAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
*
30954326 GCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* * *
30954391 TCAAGAGAACAGGGATTGATG-TTGAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
*
30954417 GCTTCACCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAAAC
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--T---A---T-C--C-AAC
30954482 TTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
54 TTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
30954521 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* * *
30954586 TGAAGAGGATAGAAATTAATGTTTGAT
66 TCAAGAGGATAGGAATTGATGTTTGAT
30954613 GCTTCATC
1 GCTTCATC
30954621 ATGTTTGATG
Statistics
Matches: 887, Mismatches: 39, Indels: 26
0.93 0.04 0.03
Matches are distributed among these distances:
91 48 0.05
92 747 0.84
93 2 0.00
95 1 0.00
96 2 0.00
99 2 0.00
100 1 0.00
102 2 0.00
103 33 0.04
104 49 0.06
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (92 bp):
GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
TCAAGAGGATAGGAATTGATGTTTGAT
Found at i:30953905 original size:184 final size:184
Alignment explanation
Indices: 30953590--30954764 Score: 1805
Period size: 184 Copynumber: 6.2 Consensus size: 184
30953580 TGGTGCCGAA
* * *
30953590 GCTTTATCTTGCTCTTACTACAACTTCAGCGAGATAAAGACTTACTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* * *
30953655 TCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTACTATTACTACAACTTCAGAGAAATAAA
66 TCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
* *
30953720 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAAGAATTGATGTTTGAA
131 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
* * *
30953774 GCTTCATCTTACTCTTACTACAACTTCAGAGAGATAAAAACTTCCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* *
30953839 TCAAGAGGATAGGAATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAA
66 TCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
30953904 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
131 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
*
30953958 GCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* *
30954023 TCAAGAGGATAGGAATTGATGTTTGACGCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAA
66 TCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
30954088 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
131 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
*
30954142 GCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* * *
30954207 TCAAGAGGATAGGAATTGATGTTTGATGCTTCATTTTGCTCTTACTAAAACTTCAGAGAGATAAA
66 TCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
30954272 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
131 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
*
30954326 GCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* * * * *
30954391 TCAAGAGAACAGGGATTGATG-TTGATGCTTCACCTTGCTCTTACTACAACTTCAGAGAGATAAA
66 TCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
30954455 GACTTGCTATCCAACTTTACTACAAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGA
131 GACTTGC--T---A---T-C--C-AACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGA
30954520 T
184 T
30954521 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* * *
30954586 TGAAGAGGATAGAAATTAATGTTTGATGCTTCATCATGTTTGATGCTTCATCTTGCTCTTACTAC
66 TCAAGAGGATAG----GAA----T--TG-------ATGTTTGAAGCTTCATCTTGCTCTTACTAC
*
30954651 AACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGAT-
114 AACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATG
30954715 TTTGAT
179 TTTGAT
30954721 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTG
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTG
30954765 GTATTTTGAT
Statistics
Matches: 925, Mismatches: 36, Indels: 44
0.92 0.04 0.04
Matches are distributed among these distances:
183 47 0.05
184 613 0.66
185 1 0.00
188 1 0.00
191 1 0.00
192 1 0.00
194 1 0.00
195 115 0.12
199 1 0.00
200 50 0.05
201 35 0.04
202 1 0.00
203 1 0.00
204 1 0.00
205 3 0.00
208 1 0.00
211 1 0.00
212 3 0.00
213 48 0.05
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (184 bp):
GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
TCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
Found at i:30954100 original size:276 final size:276
Alignment explanation
Indices: 30953590--30954764 Score: 1832
Period size: 276 Copynumber: 4.2 Consensus size: 276
30953580 TGGTGCCGAA
* * *
30953590 GCTTTATCTTGCTCTTACTACAACTTCAGCGAGATAAAGACTTACTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* * * *
30953655 TCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTACTATTACTACAACTTCAGAGAAATAAA
66 TCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
* * *
30953720 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTTCATCTTA
131 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTG
* * *
30953785 CTCTTACTACAACTTCAGAGAGATAAAAACTTCCTATCCAACTTTACTACAACTTCAAGAGGATA
196 CTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
*
30953850 GGAATTGATGTTTGAA
261 GGAATTGATGTTTGAT
* *
30953866 ACTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
*
30953931 TCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAA
66 TCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
*
30953996 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGACGCTTCATCTTG
131 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTG
30954061 CTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
196 CTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
30954126 GGAATTGATGTTTGAT
261 GGAATTGATGTTTGAT
*
30954142 GCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
* *
30954207 TCAAGAGGATAGGAATTGATGTTTGATGCTTCATTTTGCTCTTACTAAAACTTCAGAGAGATAAA
66 TCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
30954272 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTG
131 GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTG
* *
30954337 CTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGAACA
196 CTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
*
30954402 GGGATTGATG-TTGAT
261 GGAATTGATGTTTGAT
*
30954417 GCTTCACCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAAAC
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGC--T---A---T-C--C-AAC
30954482 TTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTT
54 TTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTT
* *
30954547 CAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTGAAGAGGATAGAAATTAATGTTTGA
119 CAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAG----GAA----T--
30954612 TGCTTCATCATGTTTGATGCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTA
174 TG-------ATGTTTGATGCTTCATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTA
30954677 TCCAACTTTACTACAACTTCAAGAGGATAGGAATTGAT-TTTGAT
232 TCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGAT
30954721 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTG
1 GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTG
30954765 GTATTTTGAT
Statistics
Matches: 834, Mismatches: 35, Indels: 32
0.93 0.04 0.04
Matches are distributed among these distances:
275 48 0.06
276 521 0.62
277 1 0.00
280 1 0.00
283 1 0.00
284 1 0.00
286 1 0.00
287 116 0.14
291 2 0.00
295 1 0.00
297 2 0.00
304 139 0.17
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (276 bp):
GCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACT
TCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
GACTTGCTATCCAACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTG
CTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAGAGGATA
GGAATTGATGTTTGAT
Found at i:30954482 original size:12 final size:12
Alignment explanation
Indices: 30954467--30954491 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30954457 CTTGCTATCC
30954467 AACTTTACTACA
1 AACTTTACTACA
30954479 AACTTTACTACA
1 AACTTTACTACA
30954491 A
1 A
30954492 CTTCAAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.24, G:0.00, T:0.32
Consensus pattern (12 bp):
AACTTTACTACA
Found at i:30954555 original size:104 final size:103
Alignment explanation
Indices: 30954376--30954583 Score: 371
Period size: 104 Copynumber: 2.0 Consensus size: 103
30954366 CTTGCTATCC
*
30954376 AACTTTACTACAACTTCAAGAGAACAGGGATTGATGTTGATGCTTCACCTTGCTCTTACTACAAC
1 AACTTTACTACAACTTCAAGAGAACAGGAATTGATGTTGATGCTTCACCTTGCTCTTACTACAAC
30954441 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
66 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
* * *
30954479 AACTTTACTACAACTTCAAGAGGATAGGAATTGATGTTTGATGCTTCATCTTGCTCTTACTACAA
1 AACTTTACTACAACTTCAAGAGAACAGGAATTGATG-TTGATGCTTCACCTTGCTCTTACTACAA
30954544 CTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
65 CTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
30954583 A
1 A
30954584 CTTGAAGAGG
Statistics
Matches: 100, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
103 33 0.33
104 67 0.67
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (103 bp):
AACTTTACTACAACTTCAAGAGAACAGGAATTGATGTTGATGCTTCACCTTGCTCTTACTACAAC
TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACA
Found at i:30954626 original size:17 final size:17
Alignment explanation
Indices: 30954604--30954637 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
30954594 ATAGAAATTA
30954604 ATGTTTGATGCTTCATC
1 ATGTTTGATGCTTCATC
30954621 ATGTTTGATGCTTCATC
1 ATGTTTGATGCTTCATC
30954638 TTGCTCTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (17 bp):
ATGTTTGATGCTTCATC
Found at i:30963239 original size:147 final size:146
Alignment explanation
Indices: 30962996--30963277 Score: 390
Period size: 147 Copynumber: 1.9 Consensus size: 146
30962986 AAACTCTCGA
* * *
30962996 GGTAAAATGGTAATTTTGGGAAAAATTTAGGGTTAAAAATGACATTTTAGATATTCGGGGATAAA
1 GGTAAAATGATAATTTTGGGAAAAACTTAGGGTTAAAAATGACATTTTAGATAATCGGGGATAAA
* * * * *
30963061 ACGGTAATTTTTGAAAGGATCATGATAAAAAATGAGACTTTTTGGATGCCCAGGGGTAAAA-TGG
66 ACGATAATTTTTGAAAGAATCAGGATAAAAAAT-AGAATTTTTGGATACCC-GGGGTAAAATTGG
30963125 TAATTTTGGACTTTTAGG
129 TAATTTTGGACTTTTAGG
*
30963143 GGTAAAATGATAATTTTGGGAAAAACTTGGGGTTAAAAATGACATTTTAGATAATCGAGGG-TAA
1 GGTAAAATGATAATTTTGGGAAAAACTTAGGGTTAAAAATGACATTTTAGATAATCG-GGGATAA
* * **
30963207 AACGATAATTTTTAGAAA-AATGAGGATCAAAAATAGAATTTTTGGATATTCGGGGTAAAATTGG
65 AACGATAATTTTT-GAAAGAATCAGGATAAAAAATAGAATTTTTGGATACCCGGGGTAAAATTGG
30963271 TAATTTT
129 TAATTTT
30963278 TAGAAAAGTC
Statistics
Matches: 119, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
145 9 0.08
146 23 0.19
147 80 0.67
148 7 0.06
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (146 bp):
GGTAAAATGATAATTTTGGGAAAAACTTAGGGTTAAAAATGACATTTTAGATAATCGGGGATAAA
ACGATAATTTTTGAAAGAATCAGGATAAAAAATAGAATTTTTGGATACCCGGGGTAAAATTGGTA
ATTTTGGACTTTTAGG
Found at i:30963275 original size:59 final size:60
Alignment explanation
Indices: 30963212--30963326 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 60
30963202 GGTAAAACGA
* *
30963212 TAATTTTTAGAAAAAT-GAGGATCAAAAATAGAATTTTTGGATAT-TCGGGGTAAAATTGG
1 TAATTTTTAGAAAAATCGA-GATAAAAAATAGAATTTTTGGACATCTCGGGGTAAAATTGG
* * * *
30963271 TAATTTTTAGAAAAGTCGAGATAAAAAATGGGATTTTTGGACATCTGGGGGTAAAA
1 TAATTTTTAGAAAAATCGAGATAAAAAATAGAATTTTTGGACATCTCGGGGTAAAA
30963327 ACATAATTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
59 36 0.75
60 12 0.25
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.32
Consensus pattern (60 bp):
TAATTTTTAGAAAAATCGAGATAAAAAATAGAATTTTTGGACATCTCGGGGTAAAATTGG
Found at i:30963296 original size:147 final size:147
Alignment explanation
Indices: 30962955--30963296 Score: 372
Period size: 147 Copynumber: 2.3 Consensus size: 147
30962945 AAACAGGACC
* * *** *
30962955 TTTTGGATACCTAGGGGCAAAATGGTAA-TTTA-AACTCTCGAGGTAAAATGGTAATTTTGGGAA
1 TTTTGGATACCCAGGGGTAAAATGGTAATTTTAGAAAAGTCGAGGTAAAATGATAATTTTGGGAA
* * * *
30963018 AAATTTAGGGTTAAAAATGACATTTTAGATATTCGGGGATAAAACGGTAATTTTTGAAAGGATCA
66 AAACTTAGGGTTAAAAATGACATTTTAGATAATCGGGGATAAAACGATAATTTTTGAAAGAATCA
* *
30963083 TGATAAAAAATGAGACT
131 GGATAAAAAATGAGAAT
* * **** * *
30963100 TTTTGGATGCCCAGGGGTAAAATGGTAATTTTGGACTTTTAGGGGTAAAATGATAATTTTGGGAA
1 TTTTGGATACCCAGGGGTAAAATGGTAATTTTAGAAAAGTCGAGGTAAAATGATAATTTTGGGAA
*
30963165 AAACTTGGGGTTAAAAATGACATTTTAGATAATCGAGGG-TAAAACGATAATTTTTAGAAA-AAT
66 AAACTTAGGGTTAAAAATGACATTTTAGATAATCG-GGGATAAAACGATAATTTTT-GAAAGAAT
* *
30963228 GAGGATCAAAAAT-AGAAT
129 CAGGATAAAAAATGAGAAT
** *
30963246 TTTTGGATATTC-GGGGTAAAATTGGTAATTTTTAGAAAAGTCGAGATAAAA
1 TTTTGGATACCCAGGGGTAAAA-TGGTAA-TTTTAGAAAAGTCGAGGTAAAA
30963297 AATGGGATTT
Statistics
Matches: 161, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
145 34 0.21
146 22 0.14
147 98 0.61
148 7 0.04
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (147 bp):
TTTTGGATACCCAGGGGTAAAATGGTAATTTTAGAAAAGTCGAGGTAAAATGATAATTTTGGGAA
AAACTTAGGGTTAAAAATGACATTTTAGATAATCGGGGATAAAACGATAATTTTTGAAAGAATCA
GGATAAAAAATGAGAAT
Found at i:30963334 original size:59 final size:58
Alignment explanation
Indices: 30963201--30963336 Score: 141
Period size: 59 Copynumber: 2.3 Consensus size: 58
30963191 AGATAATCGA
* *
30963201 GGGT-AAAACGATAATTTTTAGAAAAATGAGGATCAAAAATAGAATTTTTGGATATTCG
1 GGGTAAAAAC-ATAATTTTTAGAAAAATGAGGATAAAAAATAGAATTTTTGGACATTCG
*** * * * *
30963259 GGGTAAAATTGGTAATTTTTAGAAAAGTCGA-GATAAAAAATGGGATTTTTGGACATCTGG
1 GGGTAAAA-ACATAATTTTTAGAAAAAT-GAGGATAAAAAATAGAATTTTTGGACAT-TCG
30963319 GGGTAAAAACATAATTTT
1 GGGTAAAAACATAATTTT
30963337 GGGAAGTTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
58 4 0.06
59 46 0.74
60 12 0.19
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.32
Consensus pattern (58 bp):
GGGTAAAAACATAATTTTTAGAAAAATGAGGATAAAAAATAGAATTTTTGGACATTCG
Found at i:30963469 original size:29 final size:30
Alignment explanation
Indices: 30963319--30963642 Score: 276
Period size: 30 Copynumber: 10.9 Consensus size: 30
30963309 GGACATCTGG
** * *
30963319 GGGTAAAAACATAATTTTGGGAAGTTATTG-
1 GGGTAAAAATGTAATTTTTGGAAGTT-TCGA
* * *
30963349 GGTTAAAAATAG-AATTTTTAGAAG-TTCGG
1 GGGTAAAAAT-GTAATTTTTGGAAGTTTCGA
*
30963378 GGGCTAAAAATGTAATTTTTGGAAGTTTCGG
1 GGG-TAAAAATGTAATTTTTGGAAGTTTCGA
* *
30963409 GGGTAAAAATGTAATTTTGGGAAGTTT-TA
1 GGGTAAAAATGTAATTTTTGGAAGTTTCGA
30963438 GGGTTAAAAATAG-AA-TTTTGGAAG-TTCGA
1 GGG-TAAAAAT-GTAATTTTTGGAAGTTTCGA
* *
30963467 GGGCAAAAATGTAATTTTTAGAAGTTTCGA
1 GGGTAAAAATGTAATTTTTGGAAGTTTCGA
* *
30963497 --GTCAAAATTGTATTTTTTGGAAGTTTCGA
1 GGGT-AAAAATGTAATTTTTGGAAGTTTCGA
* *
30963526 GGGTAAAAATGTAATTTTGGGAAGTTT-TA
1 GGGTAAAAATGTAATTTTTGGAAGTTTCGA
*
30963555 GGGTTAAAAATGGAATTTTTGGAAGTTTCGA
1 GGG-TAAAAATGTAATTTTTGGAAGTTTCGA
* * * *
30963586 -GGTCAAAATGTAGTTTTAGAGAAG-TTCGG
1 GGGTAAAAATGTAATTTTTG-GAAGTTTCGA
* *
30963615 GGGTCAAAATATAATTTTTGGATAGTTT
1 GGGTAAAAATGTAATTTTTGGA-AGTTT
30963643 AGGGTCTCTA
Statistics
Matches: 240, Mismatches: 34, Indels: 39
0.77 0.11 0.12
Matches are distributed among these distances:
27 1 0.00
28 13 0.05
29 73 0.30
30 139 0.58
31 14 0.06
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (30 bp):
GGGTAAAAATGTAATTTTTGGAAGTTTCGA
Found at i:30963536 original size:117 final size:121
Alignment explanation
Indices: 30963353--30963642 Score: 382
Period size: 117 Copynumber: 2.4 Consensus size: 121
30963343 TTATTGGGTT
* *
30963353 AAAAATAG-AATTTTTAGAAG-TTCGGGGGCTAAAAATGTAATTTTTGGAAGTTTCGGGGGTAAA
1 AAAAAT-GTAATTTTTAGAAGTTTCGGAGGCTAAAAATGTAATTTTTGGAAGTTTCGAGGGTAAA
30963416 AATGTAATTTTGGGAAGTTTTAGGGTTAAAAATAGAA-TTTTGGAAG-TTCGAGGGC
65 AATGTAATTTTGGGAAGTTTTAGGGTTAAAAATAGAATTTTTGGAAGTTTCGAGGGC
* * *
30963471 AAAAATGTAATTTTTAGAAGTTTC-GAGTC-AAAATTGTATTTTTTGGAAGTTTCGAGGGTAAAA
1 AAAAATGTAATTTTTAGAAGTTTCGGAGGCTAAAAATGTAATTTTTGGAAGTTTCGAGGGTAAAA
* *
30963534 ATGTAATTTTGGGAAGTTTTAGGGTTAAAAATGGAATTTTTGGAAGTTTCGAGGTC
66 ATGTAATTTTGGGAAGTTTTAGGGTTAAAAATAGAATTTTTGGAAGTTTCGAGGGC
* * * * *
30963590 -AAAATGTAGTTTTAGAGAAG-TTCGG-GGGTCAAAATATAATTTTTGGATAGTTT
1 AAAAATGTAATTTT-TAGAAGTTTCGGAGGCTAAAAATGTAATTTTTGGA-AGTTT
30963643 AGGGTCTCTA
Statistics
Matches: 149, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
117 67 0.45
118 46 0.31
119 31 0.21
120 5 0.03
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (121 bp):
AAAAATGTAATTTTTAGAAGTTTCGGAGGCTAAAAATGTAATTTTTGGAAGTTTCGAGGGTAAAA
ATGTAATTTTGGGAAGTTTTAGGGTTAAAAATAGAATTTTTGGAAGTTTCGAGGGC
Found at i:30963624 original size:59 final size:59
Alignment explanation
Indices: 30963318--30963642 Score: 272
Period size: 59 Copynumber: 5.5 Consensus size: 59
30963308 TGGACATCTG
** * * * *
30963318 GGGGTAAAAACATAATTTTGGGAAGTTATTG-GGTTAAAAATAG-AATTTTTAGAAG-TTCG
1 GGGGTAAAAATGTAATTTTTGGAAGTT-TCGAGG-TAAAAAT-GTAATTTTGAGAAGTTTCA
* * *
30963377 GGGGCTAAAAATGTAATTTTTGGAAGTTTCGGGGGTAAAAATGTAATTTTGGGAAGTTTTA
1 GGGG-TAAAAATGTAATTTTTGGAAGTTTC-GAGGTAAAAATGTAATTTTGAGAAGTTTCA
* * *
30963438 GGGTTAAAAATAG-AA-TTTTGGAAG-TTCGAGGGCAAAAATGTAATTTTTAGAAGTTTC-
1 GGGGTAAAAAT-GTAATTTTTGGAAGTTTCGA-GGTAAAAATGTAATTTTGAGAAGTTTCA
* * * * *
30963495 -GAGTCAAAATTGTATTTTTTGGAAGTTTCGAGGGTAAAAATGTAATTTTGGGAAGTTTTA
1 GGGGT-AAAAATGTAATTTTTGGAAGTTTCGA-GGTAAAAATGTAATTTTGAGAAGTTTCA
* * * * *
30963555 GGGTTAAAAATGGAATTTTTGGAAGTTTCGAGGTCAAAATGTAGTTTTAGAGAAG-TTCG
1 GGGGTAAAAATGTAATTTTTGGAAGTTTCGAGGTAAAAATGTAATTTT-GAGAAGTTTCA
* *
30963614 GGGGTCAAAATATAATTTTTGGATAGTTT
1 GGGGTAAAAATGTAATTTTTGGA-AGTTT
30963643 AGGGTCTCTA
Statistics
Matches: 215, Mismatches: 36, Indels: 29
0.77 0.13 0.10
Matches are distributed among these distances:
56 3 0.01
57 7 0.03
58 35 0.16
59 80 0.37
60 80 0.37
61 10 0.05
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (59 bp):
GGGGTAAAAATGTAATTTTTGGAAGTTTCGAGGTAAAAATGTAATTTTGAGAAGTTTCA
Found at i:30964848 original size:21 final size:21
Alignment explanation
Indices: 30964822--30964862 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30964812 TTAATGTTTT
30964822 TTAAAACATTAATTATTATTA
1 TTAAAACATTAATTATTATTA
* *
30964843 TTAAAACGTTTATTATTATT
1 TTAAAACATTAATTATTATT
30964863 GATGCCGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAAAACATTAATTATTATTA
Found at i:30965679 original size:17 final size:17
Alignment explanation
Indices: 30965601--30965679 Score: 59
Period size: 17 Copynumber: 4.6 Consensus size: 17
30965591 TTTTCATTTC
* * *
30965601 AAAATAAATATATATTT
1 AAAATAAATTTAAACTT
* *
30965618 AAAATAAATTTTAACTC
1 AAAATAAATTTAAACTT
* * *
30965635 CAAACAAATTTTAAATTT
1 AAAATAAA-TTTAAACTT
*
30965653 ACAATAAATTTAAACTT
1 AAAATAAATTTAAACTT
*
30965670 AAAATGAATT
1 AAAATAAATT
30965680 AAAAATCTAA
Statistics
Matches: 45, Mismatches: 16, Indels: 2
0.71 0.25 0.03
Matches are distributed among these distances:
17 34 0.76
18 11 0.24
ACGTcount: A:0.54, C:0.08, G:0.01, T:0.37
Consensus pattern (17 bp):
AAAATAAATTTAAACTT
Found at i:30965765 original size:13 final size:13
Alignment explanation
Indices: 30965736--30965772 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
30965726 AACACTTATA
30965736 TTAAATTTCTT-T
1 TTAAATTTCTTCT
30965748 TTAAATTTCTTCT
1 TTAAATTTCTTCT
*
30965761 TTAAAATTCTTC
1 TTAAATTTCTTC
30965773 AACTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (13 bp):
TTAAATTTCTTCT
Found at i:30969770 original size:50 final size:50
Alignment explanation
Indices: 30969716--30970080 Score: 217
Period size: 50 Copynumber: 7.3 Consensus size: 50
30969706 TCAATCTGAC
*
30969716 CCACTGCAACTTCAGGGGTTTAGGATTTGATGTTGTAGCTTCATTTTGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGATGTTGTAGCTTCATTTTGAT
* * * * * * * *
30969766 CCACTGCATCTTCAAGGAG-ATAAGATTTGCT-TTCGTAGTTTCAATTAGAC
1 CCACTGCAACTTC-AGGGGTATAGGATTTGATGTT-GTAGCTTCATTTTGAT
* * ** * *
30969816 CCA-TCGCAACCTCAAGGGTATAGGATTTGATGTCATAGCTTCATCTTGCT
1 CCACT-GCAACTTCAGGGGTATAGGATTTGATGTTGTAGCTTCATTTTGAT
* * * * *
30969866 CCATTGCATCTTCAAGGAG-ATAAGATTT-ACT-TCTGTAGCTTCAATTTGAT
1 CCACTGCAACTTC-AGGGGTATAGGATTTGA-TGT-TGTAGCTTCATTTTGAT
* * * * *
30969916 CCACTGCAACCTT-AGGGATATAGGATTTGATGTCGTAGCTTGATCTTGCT
1 CCACTGCAA-CTTCAGGGGTATAGGATTTGATGTTGTAGCTTCATTTTGAT
* * ** * * * * * *
30969966 CCACTGCATCATTAAGAAG-ATAAGATTTGCT-TCTGTAGCTTTAGTTCGAC
1 CCACTGCAAC-TTCAGGGGTATAGGATTTGATGT-TGTAGCTTCATTTTGAT
* * * * *
30970016 CCACTACAACTCCAGGGGTATAGGATTTGATGTGGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGATGTTGTAGCTTCATTTTGAT
*
30970066 CTACTGCAACTTCAG
1 CCACTGCAACTTCAG
30970081 AGAGATAAAG
Statistics
Matches: 223, Mismatches: 74, Indels: 36
0.67 0.22 0.11
Matches are distributed among these distances:
49 17 0.08
50 189 0.85
51 17 0.08
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (50 bp):
CCACTGCAACTTCAGGGGTATAGGATTTGATGTTGTAGCTTCATTTTGAT
Found at i:30969796 original size:100 final size:100
Alignment explanation
Indices: 30969658--30970767 Score: 510
Period size: 100 Copynumber: 11.0 Consensus size: 100
30969648 TTGTAGTTTT
* * * * * * *
30969658 ATCTTGTTCCACTACATCTTCAGGGAGATAGGACTTGCTAATGCAGTTTCAATCT-GACCCACTG
1 ATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGCTACTGTAGTTTCAAT-TAGACCCACTG
* *
30969722 CAACTTCAGGGGTTTAGGATTTGATGTTGTAGCTTC
65 CAACTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
* * *
30969758 ATTTTGATCCACTGCATCTTCAAGGAGATAAGATTTGCT-TTCGTAGTTTCAATTAGACCCA-TC
1 ATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGCTACT-GTAGTTTCAATTAGACCCACT-
* * *
30969821 GCAACCTCAAGGGTATAGGATTTGATGTCATAGCTTC
64 GCAACTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
* * * * * *
30969858 ATCTTGCTCCATTGCATCTTCAAGGAGATAAGATTTACTTCTGTAGCTTCAATTTGATCCACTGC
1 ATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGCTACTGTAGTTTCAATTAGACCCACTGC
* *
30969923 AACCTT-AGGGATATAGGATTTGATGTCGTAGCTTG
66 AA-CTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
* * * *
30969958 ATCTTGCTCCACTGCATCATT-AAGAAGATAAGATTTGCTTCTGTAGCTTT-AGTTCGACCCACT
1 ATCTTGCTCCACTGCATC-TTCAAGGAGATAAGATTTGCTACTGTAG-TTTCAATTAGACCCACT
* * *
30970021 ACAACTCCAGGGGTATAGGATTTGATGTGGTAGCTTC
64 GCAACTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
* * * * *
30970058 ATCTTGCTCTACTGCAACTTC-AGAGAGATAAAGATTTGCTATTGTAGTTTTAATTCA-ATCC-C
1 ATCTTGCTCCACTGCATCTTCAAG-GAGAT-AAGATTTGCTACTGTAGTTTCAATT-AGACCCAC
** * * * * * *
30970120 TATAACTTTAGGGATATAAGATTTGGTGTTGTAGCTTT
63 TGCAACTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
* ** * * * * * *
30970158 ACTCTAT--TCCATTAAAGCTT-TAGAGAGATTAAAATCTGCTACTGTAGTTTTAATCT-GATCC
1 A-TCT-TGCTCCACTGCATCTTCAAG-GAGA-TAAGATTTGCTACTGTAGTTTCAAT-TAGACCC
** * * *
30970219 ACTGCAACTTCAAAGATATAGGATTTGGTGTTGTAGCTTC
61 ACTGCAACTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
* * * * * * * * *
30970259 A-C-TCCATACCACTGCAACTT-TAGAGAGATTGAGGTATGCTACTATTAGTTTTAATTCA-ATC
1 ATCTTGC-T-CCACTGCATCTTCAAG-GAGA-TAAGATTTGCTACT-GTAGTTTCAATT-AGACC
* * * *
30970320 CACTGCAACTTCAGGGATATAGGATTTGATATTGTGGCTTC
60 CACTGCAACTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
* * * * * * * * *
30970361 A-C-TCCATTCCACTGTAACTTCAGGGAGATTGAGATTTGCTATTGTTAGTTTTAATTCGATCCA
1 ATCTTGC--TCCACTGCATCTTCAAGGAGA-TAAGATTTGCTACTG-TAGTTTCAATTAGACCCA
* * * * * * *
30970424 CTACAACTTCAGGGATACAAGATTTTATGTTGTAACTTC
62 CTGCAACTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
* * * * * * * * * * *
30970463 A-CTT-CATTCCATTACAACTTTAGGGAGATTGAGATCTACTACTGTTAGTTTTAATTCGATCCA
1 ATCTTGC--TCCACTGCATCTTCAAGGAGA-TAAGATTTGCTACTG-TAGTTTCAATTAGACCCA
* * * * *
30970526 CTGCAACTTCAGGGATATAGAATTTGGTGTTGTAACTTC
62 CTGCAACTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
* * * * * * * * *
30970565 A-C-TCCATTCCAGTGCAACTTTAAGGAGATTGAGATCTGCTACT-TAGTTTTAATTTGATCCAC
1 ATCTTGC--TCCACTGCATCTTCAAGGAGA-TAAGATTTGCTACTGTAGTTTCAATTAGACCCAC
* * ** * * *
30970627 TACAACTTCAGGGATATATAATTTGGTGTTGTAACTTC
63 TGCAACTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
* * * * ** * * * *
30970665 A-C-TCCATTCCACTGCAACTTTAAGGAGATTGAGATCCGCTACTTTAGTTTTAATTCGATCCAC
1 ATCTTGC--TCCACTGCATCTTCAAGGAGA-TAAGATTTGCTACTGTAGTTTCAATTAGACCCAC
** * * * *
30970728 TATAACTTTAGGGATATATGATTT-AGTGTTGTAGCTTC
63 TGCAACTTCAGGGGTATAGGATTTGA-TGTCGTAGCTTC
30970766 AT
1 AT
30970768 TCCATTCCAC
Statistics
Matches: 846, Mismatches: 127, Indels: 72
0.81 0.12 0.07
Matches are distributed among these distances:
97 1 0.00
99 10 0.01
100 431 0.51
101 147 0.17
102 254 0.30
103 3 0.00
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (100 bp):
ATCTTGCTCCACTGCATCTTCAAGGAGATAAGATTTGCTACTGTAGTTTCAATTAGACCCACTGC
AACTTCAGGGGTATAGGATTTGATGTCGTAGCTTC
Found at i:30970346 original size:102 final size:101
Alignment explanation
Indices: 30970005--30971053 Score: 1024
Period size: 102 Copynumber: 10.4 Consensus size: 101
30969995 CTTCTGTAGC
* * * * * * *
30970005 TTTAGTTCGACCCACTACAACTCCAGGGGTATAGGATTTGATGTGGTAGCTTCA-T-C-TTGCTC
1 TTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATT-C-C
* ** *
30970067 TACTGCAACTTCAGAGAGATAAAGATTTGCTA-TTGTAGT
64 -ACTGCAACTTTAGAGAGATTGAGATCTGCTACTT-TAGT
* * * * * * *
30970106 TTTAATTCAATCC-CTATAACTTTAGGGATATAAGATTTGGTGTTGTAGCTTTACTCTATTCCA-
1 TTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCAC
** * * *
30970169 TTAAAGCTTTAGAGAGATTAAAATCTGCTACTGTAGT
66 TGCAA-CTTTAGAGAGATTGAGATCTGCTACTTTAGT
* ** * *
30970206 TTTAA-TCTGATCCACTGCAACTTCAAAGATATAGGATTTGGTGTTGTAGCTTCACTCCATACCA
1 TTTAATTC-GATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCA
* *
30970270 CTGCAACTTTAGAGAGATTGAGGTATGCTACTATTAGT
65 CTGCAACTTTAGAGAGATTGAGATCTGCTACT-TTAGT
* * * * **
30970308 TTTAATTCAATCCACTGCAACTTCAGGGATATAGGATTTGATATTGTGGCTTCACTCCATTCCAC
1 TTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCAC
* * * * *
30970373 TGTAACTTCAGGGAGATTGAGATTTGCTATTGTTAGT
66 TGCAACTTTAGAGAGATTGAGATCTGCTACT-TTAGT
* * ** * *
30970410 TTTAATTCGATCCACTACAACTTCAGGGATACAAGATTTTATGTTGTAACTTCACTTCATTCCAT
1 TTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCAC
* * *
30970475 TACAACTTTAGGGAGATTGAGATCTACTACTGTTAGT
66 TGCAACTTTAGAGAGATTGAGATCTGCTACT-TTAGT
* * *
30970512 TTTAATTCGATCCACTGCAACTTCAGGGATATAGAATTTGGTGTTGTAACTTCACTCCATTCCAG
1 TTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCAC
30970577 TGCAACTTTA-AGGAGATTGAGATCTGCTAC-TTAGT
66 TGCAACTTTAGA-GAGATTGAGATCTGCTACTTTAGT
* **
30970612 TTTAATTTGATCCACTACAACTTCAGGGATATATAATTTGGTGTTGTAACTTCACTCCATTCCAC
1 TTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCAC
*
30970677 TGCAACTTTA-AGGAGATTGAGATCCGCTACTTTAGT
66 TGCAACTTTAGA-GAGATTGAGATCTGCTACTTTAGT
* * * * * *
30970713 TTTAATTCGATCCACTATAACTTTAGGGATATATGATTTAGTGTTGTAGCTTCATTCCATTCCAC
1 TTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCAC
* * * *
30970778 TGTAACTTTAGGGAGATTGAGATCTGCTATTATTTGT
66 TGCAACTTTAGAGAGATTGAGATCTGCTACT-TTAGT
* ** * * * *
30970815 TTTAATTCGATCCACTACAAATTTGGGGATATAAGATTTGATGTTGTAATTTCATTCCATTCCAC
1 TTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCAC
* * * * *
30970880 CGTAACTTTAGGGTGATTGAGATCTACTACTGTTAGT
66 TGCAACTTTAGAGAGATTGAGATCTGCTACT-TTAGT
* * * * * *
30970917 TTTAATTCAATCCACTATAAATTCAAGGATATAGGATTTGGTGTTATAACTTCACTCCATTACAC
1 TTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCAC
* * * *
30970982 TACAACTTCAG-GAAGATTGAGATCCGCTACTATAGT
66 TGCAACTTTAGAG-AGATTGAGATCTGCTACTTTAGT
* * * ** *
30971018 TCT-ACTCCATTCCACTGTAAATTCAGGGATATAGGA
1 TTTAATTCGA-TCCACTACAACTTCAGGGATATAGGA
30971054 GTTGTCATTT
Statistics
Matches: 800, Mismatches: 132, Indels: 32
0.83 0.14 0.03
Matches are distributed among these distances:
99 5 0.01
100 165 0.21
101 196 0.25
102 430 0.54
103 4 0.00
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (101 bp):
TTTAATTCGATCCACTACAACTTCAGGGATATAGGATTTGGTGTTGTAACTTCACTCCATTCCAC
TGCAACTTTAGAGAGATTGAGATCTGCTACTTTAGT
Found at i:30970683 original size:50 final size:50
Alignment explanation
Indices: 30970522--30970684 Score: 136
Period size: 50 Copynumber: 3.3 Consensus size: 50
30970512 TTTAATTCGA
*
30970522 TCCACTGCAACTTCAGGGATATAGAATTTGGTGTTGTAACTTCACTCCAT
1 TCCACTGCAACTTCAGGGATATATAATTTGGTGTTGTAACTTCACTCCAT
* * * * * * * * * * **
30970572 TCCAGTGCAACTTTAAGGAGAT-TGAGATCTGCTACTTAGT--TTTAATTTGA-
1 TCCACTGCAACTTCAGGGATATAT-A-ATTTGGT-GTT-GTAACTTCACTCCAT
*
30970622 TCCACTACAACTTCAGGGATATATAATTTGGTGTTGTAACTTCACTCCAT
1 TCCACTGCAACTTCAGGGATATATAATTTGGTGTTGTAACTTCACTCCAT
30970672 TCCACTGCAACTT
1 TCCACTGCAACTT
30970685 TAAGGAGATT
Statistics
Matches: 78, Mismatches: 27, Indels: 16
0.64 0.22 0.13
Matches are distributed among these distances:
47 2 0.03
48 2 0.03
49 10 0.13
50 49 0.63
51 11 0.14
52 2 0.03
53 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (50 bp):
TCCACTGCAACTTCAGGGATATATAATTTGGTGTTGTAACTTCACTCCAT
Found at i:30970819 original size:405 final size:405
Alignment explanation
Indices: 30970102--30971018 Score: 1211
Period size: 405 Copynumber: 2.3 Consensus size: 405
30970092 TTTGCTATTG
* * * *
30970102 TAGTTTTAATTCAATCC-CTATAACTTTAGGGATATA-AGATTTGGTGTTGTAGCTTTACTCTAT
1 TAGTTTTAATTCAATCCACTATAACTTCAGGGATATAGA-ATTTGGTGTTGTAACTTCACTCCAT
* * * *
30970165 TCCATTA-AAGCTTTAGAGAGATTAAAATCTGCTACTGTAGTTTTAATCTGATCCACTGCAACTT
65 TCCA-TACAA-CTTTAG-GAGATTGAGATCTGCTACTATAGTTTTAATCTGATCCACTACAACTT
* * *
30970229 CAAAGATATAGGATTTGGTGTTGTAGCTTCACTCCATACCACTGCAACTTTAGAGAGATTGAGGT
127 CAAAGATATAGAATTTGGTGTTGTAACTTCACTCCATACCACTGCAACTTTAGAGAGATTGAGAT
* * *
30970294 ATGCTACTATTAGTTTTAATTCAATCCACTGCAACTTCAGGGATATAGGATTTGATATTGTGGCT
192 ACGCTACTATTAGTTTTAATTCAATCCACTACAACTTCAGGGATATAGGATTTGATATTGTAGCT
* *
30970359 TCACTCCATTCCACTGTAACTTCAGGGAGATTGAGATTTGCTATTGTTAGTTTTAATTCGATCCA
257 TCACTCCATTCCACTGTAACTTCAGGGAGATTGAGATCTGCTATTATTAGTTTTAATTCGATCCA
* * **
30970424 CTACAACTTCAGGGATACAAGATTTTATGTTGTAACTTCACTT-CATTCCATTACAACTTTAGGG
322 CTACAAATTCAGGGATACAAGATTTGATGTTGTAACTTCA-TTCCATTCCACCACAACTTTAGGG
30970488 AGATTGAGATCTACTACTGT
386 AGATTGAGATCTACTACTGT
* **
30970508 TAGTTTTAATTCGATCCACTGCAACTTCAGGGATATAGAATTTGGTGTTGTAACTTCACTCCATT
1 TAGTTTTAATTCAATCCACTATAACTTCAGGGATATAGAATTTGGTGTTGTAACTTCACTCCATT
* *
30970573 CCAGTGCAACTTTAAGGAGATTGAGATCTGCTACT-TAGTTTTAATTTGATCCACTACAACTTCA
66 CCA-TACAACTTT-AGGAGATTGAGATCTGCTACTATAGTTTTAATCTGATCCACTACAACTTCA
** * * *
30970637 GGGATATATAATTTGGTGTTGTAACTTCACTCCATTCCACTGCAACTTTA-AGGAGATTGAGATC
129 AAGATATAGAATTTGGTGTTGTAACTTCACTCCATACCACTGCAACTTTAGA-GAGATTGAGATA
* * * * *
30970701 CGCTACT-TTAGTTTTAATTCGATCCACTATAACTTTAGGGATATATGATTT-AGTGTTGTAGCT
193 CGCTACTATTAGTTTTAATTCAATCCACTACAACTTCAGGGATATAGGATTTGA-TATTGTAGCT
* * *
30970764 TCATTCCATTCCACTGTAACTTTAGGGAGATTGAGATCTGCTATTATTTGTTTTAATTCGATCCA
257 TCACTCCATTCCACTGTAACTTCAGGGAGATTGAGATCTGCTATTATTAGTTTTAATTCGATCCA
** * * ** *
30970829 CTACAAATTTGGGGATATAAGATTTGATGTTGTAATTTCATTCCATTCCACCGTAACTTTAGGGT
322 CTACAAATTCAGGGATACAAGATTTGATGTTGTAACTTCATTCCATTCCACCACAACTTTAGGGA
30970894 GATTGAGATCTACTACTGT
387 GATTGAGATCTACTACTGT
* * * *
30970913 TAGTTTTAATTCAATCCACTATAAATTCAAGGATATAGGATTTGGTGTTATAACTTCACTCCATT
1 TAGTTTTAATTCAATCCACTATAACTTCAGGGATATAGAATTTGGTGTTGTAACTTCACTCCATT
* * *
30970978 ACACTACAACTTCAGGAAGATTGAGATCCGCTACTATAGTT
66 CCA-TACAACTTTAGG-AGATTGAGATCTGCTACTATAGTT
30971019 CTACTCCATT
Statistics
Matches: 445, Mismatches: 57, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
404 6 0.01
405 262 0.59
406 108 0.24
407 64 0.14
408 5 0.01
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (405 bp):
TAGTTTTAATTCAATCCACTATAACTTCAGGGATATAGAATTTGGTGTTGTAACTTCACTCCATT
CCATACAACTTTAGGAGATTGAGATCTGCTACTATAGTTTTAATCTGATCCACTACAACTTCAAA
GATATAGAATTTGGTGTTGTAACTTCACTCCATACCACTGCAACTTTAGAGAGATTGAGATACGC
TACTATTAGTTTTAATTCAATCCACTACAACTTCAGGGATATAGGATTTGATATTGTAGCTTCAC
TCCATTCCACTGTAACTTCAGGGAGATTGAGATCTGCTATTATTAGTTTTAATTCGATCCACTAC
AAATTCAGGGATACAAGATTTGATGTTGTAACTTCATTCCATTCCACCACAACTTTAGGGAGATT
GAGATCTACTACTGT
Found at i:30973274 original size:3 final size:3
Alignment explanation
Indices: 30973266--30973296 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
30973256 AAAATAATGT
30973266 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30973297 CATAAACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30977052 original size:25 final size:23
Alignment explanation
Indices: 30977024--30977072 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
30977014 TGAATAATAG
*
30977024 AATAAAGTAAATAACACTAATAAAA
1 AATAAAATAAATAACA-TAA-AAAA
*
30977049 AATAAAATTAATAACATAAAAAA
1 AATAAAATAAATAACATAAAAAA
30977072 A
1 A
30977073 TATATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 3 0.14
25 14 0.64
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (23 bp):
AATAAAATAAATAACATAAAAAA
Found at i:30977083 original size:22 final size:23
Alignment explanation
Indices: 30977032--30977084 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 23
30977022 AGAATAAAGT
30977032 AAATAACACTAATAAAAAATAAA
1 AAATAACACTAATAAAAAATAAA
*
30977055 ATTAATAACA-TAA-AAAAATATATA
1 A--AATAACACTAATAAAAA-ATAAA
30977079 AAATAA
1 AAATAA
30977085 TGATAACCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 5 0.19
23 6 0.23
24 8 0.31
25 7 0.27
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.23
Consensus pattern (23 bp):
AAATAACACTAATAAAAAATAAA
Found at i:30977085 original size:25 final size:25
Alignment explanation
Indices: 30977033--30977085 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
30977023 GAATAAAGTA
*
30977033 AATAACACTAATAAAAAATAAAATT
1 AATAACACTAATAAAAAATAAAAAT
30977058 AATAACA-TAA-AAAAATATATAAAAT
1 AATAACACTAATAAAAA-ATA-AAAAT
30977083 AAT
1 AAT
30977086 GATAACCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 5 0.20
24 6 0.24
25 14 0.56
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.25
Consensus pattern (25 bp):
AATAACACTAATAAAAAATAAAAAT
Found at i:30982406 original size:2 final size:2
Alignment explanation
Indices: 30982399--30982424 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
30982389 AGAGTTTTTC
30982399 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
30982425 TCATTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:30984322 original size:28 final size:28
Alignment explanation
Indices: 30984258--30984322 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
30984248 AAGAAGAAGT
* *
30984258 ATAAACATATTGGGCCATTTATGCAAAAA
1 ATAAAAATATTAGGCCATTTAT-CAAAAA
*
30984287 ATAAAAATATTAGGCCATTTAT-TAAAA
1 ATAAAAATATTAGGCCATTTATCAAAAA
30984314 ATGAAAAAT
1 AT-AAAAAT
30984323 GAAGGACGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 6 0.19
28 6 0.19
29 20 0.62
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (28 bp):
ATAAAAATATTAGGCCATTTATCAAAAA
Found at i:30984490 original size:31 final size:30
Alignment explanation
Indices: 30984452--30984517 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 30
30984442 TTAATGAGCC
30984452 ACTGATTTATCACTTTTTGATAACGTT-AGTG
1 ACTGATTTATCACTTTTTGA-AA-GTTAAGTG
* * *
30984483 ACTGATTTGTTATTTTTTGAAAGTTAAGTG
1 ACTGATTTATCACTTTTTGAAAGTTAAGTG
30984513 ACTGA
1 ACTGA
30984518 ATTGAAACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 3 0.10
30 11 0.35
31 17 0.55
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.45
Consensus pattern (30 bp):
ACTGATTTATCACTTTTTGAAAGTTAAGTG
Found at i:30991587 original size:20 final size:19
Alignment explanation
Indices: 30991550--30991602 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
30991540 TTCTAGATGT
30991550 AATTTTT-AAATATTAAAA
1 AATTTTTAAAATATTAAAA
*
30991568 AATTTTTAAAATTTTTAAAA
1 AATTTTTAAAA-TATTAAAA
* *
30991588 CATTATTAAAA-ATTA
1 AATTTTTAAAATATTA
30991603 TAAATGTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 10 0.34
19 3 0.10
20 16 0.55
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AATTTTTAAAATATTAAAA
Found at i:30993990 original size:19 final size:19
Alignment explanation
Indices: 30993955--30993992 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
30993945 AAAAATTACA
*
30993955 AAAATAATATTTCTTATTT
1 AAAATAATATTTATTATTT
30993974 AAAATAA-ATTATATTATTT
1 AAAATAATATT-TATTATTT
30993993 GAGTTTACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAATAATATTTATTATTT
Found at i:30995999 original size:17 final size:17
Alignment explanation
Indices: 30995974--30996053 Score: 67
Period size: 17 Copynumber: 4.9 Consensus size: 17
30995964 AAAGTTTAAA
* * *
30995974 TTAATTTTAAATTTGTT
1 TTAAATTTAAATTTATC
30995991 TTAAATTTAAATTTATC
1 TTAAATTTAAATTTATC
***
30996008 TTAAATTTAGGGTTA-C
1 TTAAATTTAAATTTATC
*
30996024 TT-AA-TTAAATTTATT
1 TTAAATTTAAATTTATC
*
30996039 TTAGATTTAAATTTA
1 TTAAATTTAAATTTA
30996054 ATCAAATTCA
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 6 0.12
15 4 0.08
16 4 0.08
17 35 0.71
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
TTAAATTTAAATTTATC
Found at i:30996002 original size:28 final size:29
Alignment explanation
Indices: 30995960--30996015 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
30995950 GGGCGTGGGC
*
30995960 TTTTAAAGTTTAAATTAATTTTAAATTTG
1 TTTTAAAGTTTAAATTAATCTTAAATTTG
*
30995989 TTTTAAA-TTTAAATTTATCTTAAATTT
1 TTTTAAAGTTTAAATTAATCTTAAATTT
30996016 AGGGTTACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (29 bp):
TTTTAAAGTTTAAATTAATCTTAAATTTG
Found at i:30998046 original size:29 final size:29
Alignment explanation
Indices: 30998004--30998086 Score: 96
Period size: 29 Copynumber: 2.9 Consensus size: 29
30997994 AACAGTCCAG
* * *
30998004 AAATTACATTTTGAGCCTAAAATTTCAAA
1 AAATTACATTTTGACCCCAAAACTTCAAA
* *
30998033 AAATTACATTTTGACCCCGAAACTTCCAA
1 AAATTACATTTTGACCCCAAAACTTCAAA
*
30998062 AAATTACCATTTT-ACCCCCAAACTT
1 AAATTA-CATTTTGACCCCAAAACTT
30998087 TCCAAAATTC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 41 0.87
30 6 0.13
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.31
Consensus pattern (29 bp):
AAATTACATTTTGACCCCAAAACTTCAAA
Found at i:30998292 original size:59 final size:59
Alignment explanation
Indices: 30998058--30998373 Score: 408
Period size: 59 Copynumber: 5.4 Consensus size: 59
30998048 CCCGAAACTT
* * *
30998058 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAATCCCGAAGATT--
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCG-A-TTTCA
* * *
30998117 -CAAAAATTACCATTTTACCTCTAAACTTTCCAAAATTCCATTTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCA-TTTTTAACCCCGATTTCA
* * * *
30998176 CCAAATATTACTATTTTA-CCCCGAACTTTCC-AAATTCCATTTTTAACCCCAATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
30998233 CCAAAAATTACCATTTTACCCCCAAATTTTCCAAAATTCCATTTTTAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * * *
30998292 CCAAAAATTACCATTTTACCTCCGAATTTTCCAAAATTCCATTTTTGATCCCGATTTCG
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
30998351 CCAAAAAATACCATTTTACCCCC
1 CCAAAAATTACCATTTTACCCCC
30998374 GCGAGTCTAA
Statistics
Matches: 226, Mismatches: 25, Indels: 12
0.86 0.10 0.05
Matches are distributed among these distances:
57 34 0.15
58 57 0.25
59 120 0.53
60 15 0.07
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:30998345 original size:29 final size:28
Alignment explanation
Indices: 30998032--30998337 Score: 171
Period size: 29 Copynumber: 10.5 Consensus size: 28
30998022 AAAATTTCAA
* * **
30998032 AAAATTACATTTTGACCCCGAAACTTCC
1 AAAATTCCATTTTTACCCCGAATTTTCC
* *
30998060 AAAAATTACCA-TTTTACCCCCAAACTTTCC
1 -AAAATT-CCATTTTTA-CCCCGAATTTTCC
* * ** *
30998090 AAAATTCTATTTTTAATCCCGAAGATTCA
1 AAAATTCCATTTTT-ACCCCGAATTTTCC
** *
30998119 AAAATTACCA-TTTTACCTCTAAACTTTCC
1 AAAATT-CCATTTTTACC-CCGAATTTTCC
* *
30998148 AAAATTCCATTTTTTAACCTCG-ATTTCACC
1 AAAATTCCA-TTTTT-ACCCCGAATTT-TCC
* *
30998178 AAATATTAC-TATTTTACCCCGAACTTTCC
1 AAA-ATTCCAT-TTTTACCCCGAATTTTCC
*
30998207 -AAATTCCATTTTTAACCCC-AATTTCACC
1 AAAATTCCATTTTT-ACCCCGAATTT-TCC
*
30998235 AAAAATTACCA-TTTTACCCCCAAATTTTCC
1 -AAAATT-CCATTTTTA-CCCCGAATTTTCC
*
30998265 AAAATTCCATTTTTAACCCCG-ATTTCACC
1 AAAATTCCATTTTT-ACCCCGAATTT-TCC
30998294 AAAAATTACCA-TTTTACCTCCGAATTTTCC
1 -AAAATT-CCATTTTTACC-CCGAATTTTCC
30998324 AAAATTCCATTTTT
1 AAAATTCCATTTTT
30998338 GATCCCGATT
Statistics
Matches: 214, Mismatches: 34, Indels: 58
0.70 0.11 0.19
Matches are distributed among these distances:
27 12 0.06
28 27 0.13
29 91 0.43
30 62 0.29
31 22 0.10
ACGTcount: A:0.34, C:0.27, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTCCATTTTTACCCCGAATTTTCC
Found at i:30998400 original size:27 final size:27
Alignment explanation
Indices: 30998354--30998405 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
30998344 GATTTCGCCA
30998354 AAAAATACCATTTTACCCCCGCGAGTCT
1 AAAAATACCATTTTACCCCC-CGAGTCT
* *
30998382 AAAATTACCATTTT-GCCCCCGAGT
1 AAAAATACCATTTTACCCCCCGAGT
30998406 ATCCAAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.23
27 4 0.18
28 13 0.59
ACGTcount: A:0.31, C:0.31, G:0.12, T:0.27
Consensus pattern (27 bp):
AAAAATACCATTTTACCCCCCGAGTCT
Found at i:30998413 original size:28 final size:28
Alignment explanation
Indices: 30998354--30998413 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
30998344 GATTTCGCCA
* *
30998354 AAAAATACCATTTTACCCCCGCGAGTCT
1 AAAAATACCATTTTACCCCCGAGAGTCC
* *
30998382 AAAATTACCATTTTGCCCCCGAGTA-TCC
1 AAAAATACCATTTTACCCCCGAG-AGTCC
30998410 AAAA
1 AAAA
30998414 GTCCCGTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.35, C:0.30, G:0.10, T:0.25
Consensus pattern (28 bp):
AAAAATACCATTTTACCCCCGAGAGTCC
Found at i:31006993 original size:30 final size:31
Alignment explanation
Indices: 31006919--31006995 Score: 86
Period size: 30 Copynumber: 2.5 Consensus size: 31
31006909 ATTATCGAGG
* * *
31006919 AATTTAAGGGTCAAAATTGAAATTTTTGAAA
1 AATTTAAGGATTAAAATCGAAATTTTTGAAA
* *
31006950 AATTT-GGGATTAAAATCGAAA-TTTTGGAA
1 AATTTAAGGATTAAAATCGAAATTTTTGAAA
*
31006979 AATTTAAGGTTTAAAAT
1 AATTTAAGGATTAAAAT
31006996 GTGATTTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 12 0.32
30 21 0.55
31 5 0.13
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (31 bp):
AATTTAAGGATTAAAATCGAAATTTTTGAAA
Found at i:31007096 original size:30 final size:30
Alignment explanation
Indices: 31007048--31007199 Score: 98
Period size: 30 Copynumber: 5.2 Consensus size: 30
31007038 TTCGGGGGCG
**
31007048 AAAA-GTAATTTTGGAAAAGTTCGGGCA-TC
1 AAAATGTAATTTTAAAAAAGTTCGGG-AGTC
* *
31007077 AAAATGTGATTTTAAAAAAGTTTGGGAGTC
1 AAAATGTAATTTTAAAAAAGTTCGGGAGTC
*** * * **
31007107 AAAATGTAATTTT-GGGAAGTT-TGAAGGG
1 AAAATGTAATTTTAAAAAAGTTCGGGAGTC
* * * *
31007135 AAAATGTAATTTTAGAGAAGTTTGGGGGTC
1 AAAATGTAATTTTAAAAAAGTTCGGGAGTC
* * *
31007165 AAAATGTAATTTTAGAGAAGTTCGAG-GTC
1 AAAATGTAATTTTAAAAAAGTTCGGGAGTC
31007194 AAAATG
1 AAAATG
31007200 AGATTTTTAA
Statistics
Matches: 99, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
28 16 0.16
29 26 0.26
30 57 0.58
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (30 bp):
AAAATGTAATTTTAAAAAAGTTCGGGAGTC
Found at i:31007206 original size:29 final size:29
Alignment explanation
Indices: 31007075--31007199 Score: 137
Period size: 30 Copynumber: 4.3 Consensus size: 29
31007065 AGTTCGGGCA
* * * *
31007075 TCAAAATGTGATTTTAAAAAAGTTTGGGAG
1 TCAAAATGTAATTTTAGAGAAGTTTGAG-G
*
31007105 TCAAAATGTAATTTT-GGGAAGTTTGAAGG
1 TCAAAATGTAATTTTAGAGAAGTTTG-AGG
* *
31007134 -GAAAATGTAATTTTAGAGAAGTTTGGGGG
1 TCAAAATGTAATTTTAGAGAAGTTT-GAGG
*
31007163 TCAAAATGTAATTTTAGAGAAGTTCGAGG
1 TCAAAATGTAATTTTAGAGAAGTTTGAGG
31007192 TCAAAATG
1 TCAAAATG
31007200 AGATTTTTAA
Statistics
Matches: 80, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
28 13 0.16
29 29 0.36
30 38 0.47
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (29 bp):
TCAAAATGTAATTTTAGAGAAGTTTGAGG
Found at i:31009399 original size:3 final size:3
Alignment explanation
Indices: 31009384--31009413 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
31009374 TTTCTCATTT
*
31009384 TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG
31009414 GTTCCATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.03, C:0.00, G:0.30, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:31010747 original size:2 final size:2
Alignment explanation
Indices: 31010742--31010776 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
31010732 TCTCTTGGAT
31010742 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
31010777 TATTTTTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31011917 original size:15 final size:15
Alignment explanation
Indices: 31011881--31011935 Score: 51
Period size: 14 Copynumber: 3.6 Consensus size: 15
31011871 ATAAAATTTG
31011881 TAAATTTAAAAAGTATA
1 TAAA-TTAAAAA-TATA
* *
31011898 AAAATTAAAATTA-A
1 TAAATTAAAAATATA
31011912 TTAAA-TAAAAATATA
1 -TAAATTAAAAATATA
31011927 TAAATTAAA
1 TAAATTAAA
31011936 TGTACAACTT
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
14 12 0.39
15 10 0.32
16 6 0.19
17 3 0.10
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
TAAATTAAAAATATA
Found at i:31013222 original size:11 final size:11
Alignment explanation
Indices: 31013206--31013230 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
31013196 TTCCAGCCCC
31013206 ATCCCGTACTA
1 ATCCCGTACTA
31013217 ATCCCGTACTA
1 ATCCCGTACTA
31013228 ATC
1 ATC
31013231 AACCCTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.28
Consensus pattern (11 bp):
ATCCCGTACTA
Found at i:31014916 original size:30 final size:30
Alignment explanation
Indices: 31014880--31014945 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
31014870 ATTTATATTT
* *
31014880 TAGTCCCTCAATTTTGAAAATATGATAAAA
1 TAGTCCCTCAACTTTGAAAATATGACAAAA
*
31014910 TAGTCCCTCAACTTTGAAAATGTGACAAAA
1 TAGTCCCTCAACTTTGAAAATATGACAAAA
*
31014940 CAGTCC
1 TAGTCC
31014946 TTTTCCGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (30 bp):
TAGTCCCTCAACTTTGAAAATATGACAAAA
Found at i:31015071 original size:30 final size:31
Alignment explanation
Indices: 31015035--31015101 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
31015025 ATCACATTTA
*
31015035 ACAAAACAATCACTCAACTT-T-GAAAATGTG
1 ACAAAACAATCACTCAAATTGTCGAAAA-GTG
* *
31015065 ACAAAACAGTCACTTAAATTGTCGAAAAGTG
1 ACAAAACAATCACTCAAATTGTCGAAAAGTG
31015096 ACAAAA
1 ACAAAA
31015102 TAGTCCTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 17 0.53
31 10 0.31
32 5 0.16
ACGTcount: A:0.49, C:0.18, G:0.12, T:0.21
Consensus pattern (31 bp):
ACAAAACAATCACTCAAATTGTCGAAAAGTG
Found at i:31015595 original size:18 final size:18
Alignment explanation
Indices: 31015572--31015606 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
31015562 AGTTTTCGAA
*
31015572 TTCGAATAACTCGAATAG
1 TTCGAATAAATCGAATAG
31015590 TTCGAATAAATCGAATA
1 TTCGAATAAATCGAATA
31015607 TCAAACTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (18 bp):
TTCGAATAAATCGAATAG
Found at i:31015829 original size:29 final size:31
Alignment explanation
Indices: 31015797--31015857 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
31015787 AAAACTTTTT
*
31015797 ATTTTTC-CCAAAAACTTTTA-TTCCCTCCC
1 ATTTTTCTCCAAAAACTTTTACTCCCCTCCC
* *
31015826 A-TTTTCTTCTAAAACTTTTACTCCCCTCCC
1 ATTTTTCTCCAAAAACTTTTACTCCCCTCCC
31015856 AT
1 AT
31015858 CCCACCCCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
28 5 0.19
29 12 0.46
30 9 0.35
ACGTcount: A:0.23, C:0.34, G:0.00, T:0.43
Consensus pattern (31 bp):
ATTTTTCTCCAAAAACTTTTACTCCCCTCCC
Found at i:31016420 original size:19 final size:19
Alignment explanation
Indices: 31016396--31016433 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
31016386 AAAGTTAATA
*
31016396 ATAAATTTGATTACGGTGG
1 ATAAATTTAATTACGGTGG
31016415 ATAAATTTAATTACGGTGG
1 ATAAATTTAATTACGGTGG
31016434 GTGACGGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (19 bp):
ATAAATTTAATTACGGTGG
Found at i:31017311 original size:30 final size:31
Alignment explanation
Indices: 31017243--31017314 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 31
31017233 ACAACAAGAG
* * * * *
31017243 GATTATTTTGTCACTTTTTGATAATTTTAGT
1 GATTGTTTTGTCACATTTTCATAAGTTGAGT
*
31017274 GACTGTTTTGTCACATTTTCA-AAGTTGAGT
1 GATTGTTTTGTCACATTTTCATAAGTTGAGT
31017304 GATTGTTTTGT
1 GATTGTTTTGT
31017315 TAAATGTGAC
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 17 0.50
31 17 0.50
ACGTcount: A:0.21, C:0.08, G:0.18, T:0.53
Consensus pattern (31 bp):
GATTGTTTTGTCACATTTTCATAAGTTGAGT
Found at i:31017628 original size:20 final size:21
Alignment explanation
Indices: 31017588--31017629 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
31017578 TTGCATAAGA
**
31017588 TTTTATAGGAAAAACTTTTTT
1 TTTTATAGGAAAAACCATTTT
31017609 TTTTATA-GAAAAACCATTTT
1 TTTTATAGGAAAAACCATTTT
31017629 T
1 T
31017630 ATCTTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTTATAGGAAAAACCATTTT
Found at i:31017628 original size:21 final size:21
Alignment explanation
Indices: 31017588--31017629 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31017578 TTGCATAAGA
*
31017588 TTTTATAGGAAAAACTTTTTT
1 TTTTATAGGAAAAACATTTTT
31017609 TTTTATA-GAAAAACCATTTTT
1 TTTTATAGGAAAAA-CATTTTT
31017630 ATCTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTTATAGGAAAAACATTTTT
Found at i:31017669 original size:32 final size:33
Alignment explanation
Indices: 31017625--31017691 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
31017615 AGAAAAACCA
* * *
31017625 TTTTTATCTTTTTA-ATTTCATTTATTTTTTTT
1 TTTTTATCTTTTTAGAATTAATTTAATTTTTTT
31017657 TTTTTAAT-TTTTTAGAATTAATTTAATTTTTTT
1 TTTTT-ATCTTTTTAGAATTAATTTAATTTTTTT
31017690 TT
1 TT
31017692 CAAAAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (33 bp):
TTTTTATCTTTTTAGAATTAATTTAATTTTTTT
Found at i:31019289 original size:27 final size:27
Alignment explanation
Indices: 31019211--31019298 Score: 122
Period size: 27 Copynumber: 3.3 Consensus size: 27
31019201 GCCTCTCTAT
*
31019211 CTCCAATCTCAGCTTCTCATTCTCTAA
1 CTCCAATCTCAGCTTCTCATTCTCCAA
*
31019238 TTCCAATCTCAGCTTCTCATTCTCCAA
1 CTCCAATCTCAGCTTCTCATTCTCCAA
* * **
31019265 CTCCAATCTCAGCCTCGCATTCTCCTT
1 CTCCAATCTCAGCTTCTCATTCTCCAA
31019292 CTCCAAT
1 CTCCAAT
31019299 ACATGTTCTC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.20, C:0.40, G:0.05, T:0.35
Consensus pattern (27 bp):
CTCCAATCTCAGCTTCTCATTCTCCAA
Found at i:31022734 original size:17 final size:17
Alignment explanation
Indices: 31022712--31022760 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
31022702 TACAACGAAC
31022712 ATAAATTACACTCTTTA
1 ATAAATTACACTCTTTA
* *
31022729 ATAAATTACTTCTCCTTA
1 ATAAATTAC-ACTCTTTA
* *
31022747 ATAACTTCCACTCT
1 ATAAATTACACTCT
31022761 AACATTCACT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAATTACACTCTTTA
Found at i:31026274 original size:49 final size:49
Alignment explanation
Indices: 31026209--31026326 Score: 157
Period size: 49 Copynumber: 2.4 Consensus size: 49
31026199 TCTTTTACAC
* *
31026209 ATTAATCGCA-TTAATCACATGAGTACTTAAGCATTTAACACAACACAT
1 ATTAATCACATTTAATCACATGAATACTTAAGCATTTAACACAACACAT
* * * * *
31026257 ATTAATCACATTTAATCATATGAATATTTCAGCATTTATCACATCACAT
1 ATTAATCACATTTAATCACATGAATACTTAAGCATTTAACACAACACAT
*
31026306 ATTAATCACATTTAGTCACAT
1 ATTAATCACATTTAATCACAT
31026327 TTAATCACAT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
48 9 0.15
49 51 0.85
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (49 bp):
ATTAATCACATTTAATCACATGAATACTTAAGCATTTAACACAACACAT
Found at i:31026326 original size:10 final size:10
Alignment explanation
Indices: 31026299--31026337 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
31026289 CATTTATCAC
31026299 ATCACATATTA
1 ATCACAT-TTA
31026310 ATCACATTTA
1 ATCACATTTA
*
31026320 GTCACATTTA
1 ATCACATTTA
31026330 ATCACATT
1 ATCACATT
31026338 AATATTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 19 0.73
11 7 0.27
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (10 bp):
ATCACATTTA
Found at i:31026384 original size:23 final size:23
Alignment explanation
Indices: 31026329--31026461 Score: 171
Period size: 23 Copynumber: 5.8 Consensus size: 23
31026319 AGTCACATTT
*
31026329 AATCACATTAATATTTCAA-CATT
1 AATCACATTAATATTT-AAGCATA
*
31026352 TATC-CAATTAATATTTAAGCATA
1 AATCAC-ATTAATATTTAAGCATA
*
31026375 AATCACATTAATATTTAAGTATA
1 AATCACATTAATATTTAAGCATA
* *
31026398 AATCATATTAACATTTAAGCATA
1 AATCACATTAATATTTAAGCATA
* *
31026421 AATCACATTAATATATAAACATA
1 AATCACATTAATATTTAAGCATA
31026444 AATCACATTAATATTTAA
1 AATCACATTAATATTTAA
31026462 CACATTTAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
22 3 0.03
23 91 0.96
24 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (23 bp):
AATCACATTAATATTTAAGCATA
Found at i:31026915 original size:36 final size:36
Alignment explanation
Indices: 31026870--31027054 Score: 190
Period size: 36 Copynumber: 4.9 Consensus size: 36
31026860 TTCACTGTCA
* *
31026870 CATGACATGAATAGCATACCCACATATTTACTGCCT
1 CATGGCATGAATAACATACCCACATATTTACTGCCT
*
31026906 CATGGCATGAATAACATACCCAACATACCCACATATTTACTACCT
1 CATGGCATG----A-AT----AACATACCCACATATTTACTGCCT
* * *
31026951 CATGGCATGAATAACATACCCACATATTTATTGTCA
1 CATGGCATGAATAACATACCCACATATTTACTGCCT
*
31026987 CATGGCATGAATAACATACCCACATATTTACTGTCT
1 CATGGCATGAATAACATACCCACATATTTACTGCCT
* * **
31027023 AATGACATGAATAACATACTTACATATTTACT
1 CATGGCATGAATAACATACCCACATATTTACT
31027055 TTCACAACAG
Statistics
Matches: 127, Mismatches: 13, Indels: 18
0.80 0.08 0.11
Matches are distributed among these distances:
36 90 0.71
40 3 0.02
41 3 0.02
45 31 0.24
ACGTcount: A:0.37, C:0.25, G:0.09, T:0.29
Consensus pattern (36 bp):
CATGGCATGAATAACATACCCACATATTTACTGCCT
Found at i:31026935 original size:45 final size:44
Alignment explanation
Indices: 31026884--31026976 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 44
31026874 ACATGAATAG
*
31026884 CATACCCACATATTTACTGCCTCATGGCATGAATAACATACCCAA
1 CATACCCACATATTTACTACCTCATGGCATGAATAACATACCC-A
31026929 CATACCCACATATTTACTACCTCATGGCATGAATAACATACCCA
1 CATACCCACATATTTACTACCTCATGGCATGAATAACATACCCA
31026973 CATA
1 CATA
31026977 TTTATTGTCA
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 5 0.11
45 42 0.89
ACGTcount: A:0.37, C:0.31, G:0.08, T:0.25
Consensus pattern (44 bp):
CATACCCACATATTTACTACCTCATGGCATGAATAACATACCCA
Found at i:31029821 original size:33 final size:31
Alignment explanation
Indices: 31029746--31029809 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 31
31029736 TTTCGTCTCA
31029746 TTTTCCTTAAGCATCAACAAAAATATATCTT
1 TTTTCCTTAAGCATCAACAAAAATATATCTT
*
31029777 TTTCATCCTTAAGCATCAACCAAAATATATCTT
1 TTT--TCCTTAAGCATCAACAAAAATATATCTT
31029810 ACTTTTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 3 0.10
33 27 0.90
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (31 bp):
TTTTCCTTAAGCATCAACAAAAATATATCTT
Found at i:31031602 original size:11 final size:12
Alignment explanation
Indices: 31031588--31031656 Score: 63
Period size: 11 Copynumber: 5.8 Consensus size: 12
31031578 TATTTCTAAG
31031588 TTTAAATTT-AA
1 TTTAAATTTAAA
31031599 TTTAAATTTAAA
1 TTTAAATTTAAA
* **
31031611 TTTAAAATTCATT
1 TTT-AAATTTAAA
31031624 TTTAAATTTAAA
1 TTTAAATTTAAA
*
31031636 TTT--GTTCTAAA
1 TTTAAATT-TAAA
31031647 TTTAAATTTA
1 TTTAAATTTA
31031657 GCTTAAATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
10 2 0.04
11 16 0.36
12 16 0.36
13 11 0.24
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (12 bp):
TTTAAATTTAAA
Found at i:31031610 original size:17 final size:17
Alignment explanation
Indices: 31031588--31031692 Score: 65
Period size: 17 Copynumber: 6.0 Consensus size: 17
31031578 TATTTCTAAG
31031588 TTTAAATTT-AATTTAAA
1 TTTAAATTTAAATTT-AA
* *
31031605 TTTAAATTTAAAATTCATT
1 TTTAAATTT-AAATTTA-A
*
31031624 TTTAAATTTAAATTT-G
1 TTTAAATTTAAATTTAA
*
31031640 TTCTAAATTTAAATTTAG
1 TT-TAAATTTAAATTTAA
* *
31031658 CTTAAATATGAAA--TAA
1 TTTAAAT-TTAAATTTAA
31031674 TTTTAAATTTTAAATTTAA
1 -TTTAAA-TTTAAATTTAA
31031693 AAAACTAAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
16 4 0.06
17 36 0.52
18 13 0.19
19 16 0.23
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:31031635 original size:42 final size:42
Alignment explanation
Indices: 31031573--31031656 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
31031563 ATTTGGTTTC
* *
31031573 AAATTTATTTCTAAGTTTAAATTTAATT-TAAATTTAAATTTA
1 AAATTCATTTCTAAATTTAAATTT-ATTCTAAATTTAAATTTA
* *
31031615 AAATTCATTTTTAAATTTAAATTTGTTCTAAATTTAAATTTA
1 AAATTCATTTCTAAATTTAAATTTATTCTAAATTTAAATTTA
31031657 GCTTAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.05
42 35 0.95
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (42 bp):
AAATTCATTTCTAAATTTAAATTTATTCTAAATTTAAATTTA
Found at i:31031693 original size:6 final size:6
Alignment explanation
Indices: 31031588--31031656 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
31031578 TATTTCTAAG
* **
31031588 TTTAAA TTT-AA TTTAAA TTTAAA TTTAAAA TTCATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
*
31031636 TTT--G TTCTAAA TTTAAA TTTA
1 TTTAAA TT-TAAA TTTAAA TTTA
31031657 GCTTAAATAT
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 35 0.70
7 7 0.14
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:31032349 original size:24 final size:24
Alignment explanation
Indices: 31032317--31032366 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
31032307 TATTCATTGC
31032317 ATTGTTTTAAATGCATTAATAAGT
1 ATTGTTTTAAATGCATTAATAAGT
*
31032341 ATTGTTTTAAATGCATTAATGAGT
1 ATTGTTTTAAATGCATTAATAAGT
31032365 AT
1 AT
31032367 CAATAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.14, T:0.46
Consensus pattern (24 bp):
ATTGTTTTAAATGCATTAATAAGT
Found at i:31033594 original size:29 final size:30
Alignment explanation
Indices: 31033544--31033719 Score: 123
Period size: 29 Copynumber: 5.9 Consensus size: 30
31033534 TCTAGTCCCT
**
31033544 AAACTTCCCAAAAATTGTATTTTGACCC-CG
1 AAACTT-CCAAAAATTACATTTTGACCCTCG
***
31033574 AAACTTCCAAAAATTACATTTT-TTTCTCG
1 AAACTTCCAAAAATTACATTTTGACCCTCG
* * ** *
31033603 -AGCTTTTCAAAAATTATGTTTTTACCCTCG
1 AAAC-TTCCAAAAATTACATTTTGACCCTCG
31033633 AAACTTCCAAAAATTACATTTTTG-CCCTCG
1 AAACTTCCAAAAATTACA-TTTTGACCCTCG
** * *
31033663 AGCCTTTCAAAAATTACGTTTT-ACCCTCG
1 AAACTTCCAAAAATTACATTTTGACCCTCG
*
31033692 -AACTTTCC-AAAATTCCATTTTTGACCCT
1 AAAC-TTCCAAAAATTACA-TTTTGACCCT
31033720 AATTTCACCA
Statistics
Matches: 111, Mismatches: 26, Indels: 18
0.72 0.17 0.12
Matches are distributed among these distances:
28 11 0.10
29 48 0.43
30 46 0.41
31 6 0.05
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTGACCCTCG
Found at i:31033643 original size:59 final size:60
Alignment explanation
Indices: 31033552--31033719 Score: 211
Period size: 59 Copynumber: 2.9 Consensus size: 60
31033542 CTAAACTTCC
* * * ** *
31033552 CAAAAATTGTATTTTGACCC-CGAAACTTCCAAAAATTACATTTTT-TTCTCGAGCTTTT
1 CAAAAATTATGTTTTTACCCTCGAAACTTCCAAAAATTACATTTTTGCCCTCGAGCCTTT
31033610 CAAAAATTATGTTTTTACCCTCGAAACTTCCAAAAATTACATTTTTGCCCTCGAGCCTTT
1 CAAAAATTATGTTTTTACCCTCGAAACTTCCAAAAATTACATTTTTGCCCTCGAGCCTTT
* *
31033670 CAAAAATTACG-TTTTACCCTCG-AACTTTCC-AAAATTCCATTTTTGACCCT
1 CAAAAATTATGTTTTTACCCTCGAAAC-TTCCAAAAATTACATTTTTG-CCCT
31033720 AATTTCACCA
Statistics
Matches: 98, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
58 34 0.35
59 44 0.45
60 20 0.20
ACGTcount: A:0.30, C:0.24, G:0.08, T:0.38
Consensus pattern (60 bp):
CAAAAATTATGTTTTTACCCTCGAAACTTCCAAAAATTACATTTTTGCCCTCGAGCCTTT
Found at i:31033644 original size:30 final size:30
Alignment explanation
Indices: 31033544--31033878 Score: 147
Period size: 30 Copynumber: 11.4 Consensus size: 30
31033534 TCTAGTCCCT
** *
31033544 AAACTTCCCAAAAATTGTATTTTGACCC-CG
1 AAACTT-CCAAAAATTACATTTTTACCCTCG
**
31033574 AAACTTCCAAAAATTACATTTTT-TTCTCG
1 AAACTTCCAAAAATTACATTTTTACCCTCG
* * **
31033603 -AGCTTTTCAAAAATTATGTTTTTACCCTCG
1 AAAC-TTCCAAAAATTACATTTTTACCCTCG
*
31033633 AAACTTCCAAAAATTACATTTTTGCCCTCG
1 AAACTTCCAAAAATTACATTTTTACCCTCG
** * *
31033663 AGCCTTTCAAAAATTAC-GTTTTACCCTCG
1 AAACTTCCAAAAATTACATTTTTACCCTCG
*
31033692 -AACTTTCC-AAAATTCCATTTTTGACCCT--
1 AAAC-TTCCAAAAATTACATTTTT-ACCCTCG
*
31033720 -AATTTCACCAAAAATTACCA-TTTTACCC-CG
1 AAACTT--CCAAAAATTA-CATTTTTACCCTCG
* * *
31033750 -AGCTTTCC-AAAATTCCATTTTTAACCTCG
1 AAAC-TTCCAAAAATTACATTTTTACCCTCG
** *
31033779 -ATTTTACCAAAAATTACCA-TTTTACCC-CT
1 AAACTT-CCAAAAATTA-CATTTTTACCCTCG
* * *
31033808 AAACTTTC-TAAATTCCATTTTTAACCCT-G
1 AAACTTCCAAAAATTACATTTTT-ACCCTCG
*
31033837 --ATTTCACCAAAAATTACCA-TTTTACCCTC-
1 AAACTT--CCAAAAATTA-CATTTTTACCCTCG
31033866 AAACTTTCCAAAA
1 AAAC-TTCCAAAA
31033879 TTCTATTTTT
Statistics
Matches: 226, Mismatches: 48, Indels: 62
0.67 0.14 0.18
Matches are distributed among these distances:
27 9 0.04
28 37 0.16
29 74 0.33
30 93 0.41
31 11 0.05
32 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.36
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTACCCTCG
Found at i:31033711 original size:58 final size:58
Alignment explanation
Indices: 31033622--31033889 Score: 273
Period size: 58 Copynumber: 4.6 Consensus size: 58
31033612 AAAATTATGT
* * * *
31033622 TTTTACCCTCGAAAC-TTCCAAAAATTACATTTTTGCCCTCGAGCCTTT-CAAAAATTA-CG
1 TTTTACCCTCG-AACTTTCC-AAAATTCCATTTTTACCCTCGA--TTTTCCAAAAATTACCA
* *
31033681 TTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCT-AATTTCACCAAAAATTACCA
1 TTTTACCCTCGAACTTTCCAAAATTCCATTTTT-ACCCTCGATTT-TCCAAAAATTACCA
* *
31033740 TTTTACCC-CGAGCTTTCCAAAATTCCATTTTTAACCTCGATTTTACCAAAAATTACCA
1 TTTTACCCTCGAACTTTCCAAAATTCCATTTTTACCCTCGATTTT-CCAAAAATTACCA
* * *
31033798 TTTTACCC-CTAAACTTT-CTAAATTCCATTTTTAACCCT-GATTTCACCAAAAATTACCA
1 TTTTACCCTC-GAACTTTCCAAAATTCCATTTTT-ACCCTCGATTT-TCCAAAAATTACCA
* *
31033856 TTTTACCCTCAAACTTTCCAAAATTCTATTTTTA
1 TTTTACCCTCGAACTTTCCAAAATTCCATTTTTA
31033890 ACCTTGAATT
Statistics
Matches: 180, Mismatches: 17, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
56 2 0.01
57 4 0.02
58 123 0.68
59 51 0.28
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.37
Consensus pattern (58 bp):
TTTTACCCTCGAACTTTCCAAAATTCCATTTTTACCCTCGATTTTCCAAAAATTACCA
Found at i:31033794 original size:116 final size:117
Alignment explanation
Indices: 31033622--31033893 Score: 340
Period size: 116 Copynumber: 2.3 Consensus size: 117
31033612 AAAATTATGT
* ** * *
31033622 TTTTACCCTCGAAAC-TTCCAAAAATTACATTTTTGCCCTCGAGCCTTT--CAAAAATTA-CGTT
1 TTTTACCCTC-AAACTTTCC-AAAATTCCATTTTTAACCTCGA--TTTTACCAAAAATTACCATT
* *
31033683 TTA-CCCTCGAACTTTCCAAAATTCCATTTTTGACCCTAATTTCACCAAAAATTACCA
62 TTACCCCT-AAACTTT-CAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCA
* *
31033740 TTTTACCC-CGAGCTTTCCAAAATTCCATTTTTAACCTCGATTTTACCAAAAATTACCATTTTAC
1 TTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCAAAAATTACCATTTTAC
* *
31033804 CCCTAAACTTTCTAAATTCCATTTTTAACCCTGATTTCACCAAAAATTACCA
66 CCCTAAACTTTCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCA
*
31033856 TTTTACCCTCAAACTTTCCAAAATTCTATTTTTAACCT
1 TTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCT
31033894 TGAATTTTTC
Statistics
Matches: 134, Mismatches: 14, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
114 3 0.02
116 76 0.57
117 43 0.32
118 12 0.09
ACGTcount: A:0.31, C:0.28, G:0.04, T:0.37
Consensus pattern (117 bp):
TTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTTACCAAAAATTACCATTTTAC
CCCTAAACTTTCAAAATTCCATTTTTAACCCTAATTTCACCAAAAATTACCA
Found at i:31033918 original size:59 final size:58
Alignment explanation
Indices: 31033670--31033892 Score: 308
Period size: 58 Copynumber: 3.8 Consensus size: 58
31033660 TCGAGCCTTT
* * * *
31033670 CAAAAATTA-CGTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCCTAATTTCAC
1 CAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCAC
* * *
31033728 CAAAAATTACCATTTTACCCCGAGCTTTCCAAAATTCCATTTTTAA-CCTCGATTTTAC
1 CAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCT-GATTTCAC
*
31033786 CAAAAATTACCATTTTACCCCTAAACTTT-CTAAATTCCATTTTTAACCCTGATTTCAC
1 CAAAAATTACCATTTTACCCC-AAACTTTCCAAAATTCCATTTTTAACCCTGATTTCAC
*
31033844 CAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCTATTTTTAACC
1 CAAAAATTACCATTTTACCC-CAAACTTTCCAAAATTCCATTTTTAACC
31033893 TTGAATTTTT
Statistics
Matches: 148, Mismatches: 11, Indels: 11
0.87 0.06 0.06
Matches are distributed among these distances:
57 3 0.02
58 110 0.74
59 35 0.24
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCAC
Found at i:31046487 original size:199 final size:199
Alignment explanation
Indices: 31045924--31046745 Score: 1075
Period size: 199 Copynumber: 4.1 Consensus size: 199
31045914 ATATGACAGC
* * * *
31045924 GAGGCGATCATCTTCCTGATGAGATACAGAGAAAGAATACCAACTCAATGTTCAACACGAGCCAA
1 GAGGCGGTCATCTTCCTGATGAGATACAGAG-AAGAATACCAACTCAACGCTCAACACGAGCAAA
* * *
31045989 TCTTCGTACCCAGCTTCCTGATGAGACCCCGAGAATCAGGTCGAAACAATAAAATGGTTAGCTTC
65 TCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTC
* * *
31046054 CTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCTTGAGGAGATCTAGAGAAGCGAATTAAA
130 CTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAA
31046119 ACAAGT
195 ACAA-T
* *
31046125 GAGGCGGTCATCTT-CTGATGAGATACAGAGAAGTATACCAACTCAACGCTCAACACGAGCCAAG
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAG-CAAA
* * * *
31046189 T-TGCGGT---CAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGCAATAAAAAGGTTAGCTT
65 TCTTC-GTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTT
* * *
31046250 CCTGATGAGACACAAAGAAGTGGACCAAATTCGTCTTCCTAAGGAGATCCAGAGAAACGAATTAA
129 CCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAA
*
31046315 AATAAT
194 AACAAT
* ** * *
31046321 AGAGGCTGTCATCTTCCTGATGAGACGCAGAGAAGAATACCAAATCAACGCTCAA-AGTGAGCAA
1 -GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACA-CGAGCAA
*
31046385 ATCTTCGTACCCAACTTCCTGATGAGACACTGAGAAGCAGGT-GAAACAATAAAATGGTTAGCTT
64 ATCTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTT
* * * *
31046449 CCTGATAAGATACAGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCCAGAGAAGCAAATTAA
129 CCTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAA
*
31046514 AACAACA
194 AACAA-T
* ** *
31046521 GAGGCGGTCATGTTCCTGATGAGATACAGAGAAGAATACCAACTCAACATTCAACGCGAGCAAAT
1 GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCAAAT
* * * * * *
31046586 CTTCGAACTCAGCTCCCTGATGAGATACTGAGAAGCAGATCGAAGCAATCAAAA-GGTTAGCTTC
66 CTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAAT-AAAATGGTTAGCTTC
* * * *
31046650 CTAATGAGACATAGAGAAGTGGACCAAATTCGCCTTCCTGAGGAGATCCAGATAAGCGAATTAAA
130 CTGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAA
31046715 ACAGAT
195 ACA-AT
* *
31046721 GATTGTGGTCATCTTCCTGATGAGA
1 GA-GGCGGTCATCTTCCTGATGAGA
31046746 CATAAAGAAG
Statistics
Matches: 537, Mismatches: 69, Indels: 30
0.84 0.11 0.05
Matches are distributed among these distances:
196 1 0.00
197 131 0.24
198 40 0.07
199 199 0.37
200 129 0.24
201 37 0.07
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (199 bp):
GAGGCGGTCATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACACGAGCAAAT
CTTCGTACCCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCC
TGATGAGACACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
CAAT
Found at i:31047148 original size:18 final size:17
Alignment explanation
Indices: 31047122--31047169 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
31047112 TTTAGATTTG
*
31047122 GTTTCAAATTTATTTCTAA
1 GTTT-AAATTTAATT-TAA
31047141 GTTTAAATTTAATTTAA
1 GTTTAAATTTAATTTAA
* *
31047158 ATTTAAAATTAA
1 GTTTAAATTTAA
31047170 AATTCATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 13 0.50
18 9 0.35
19 4 0.15
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (17 bp):
GTTTAAATTTAATTTAA
Found at i:31047160 original size:6 final size:6
Alignment explanation
Indices: 31047142--31047210 Score: 54
Period size: 6 Copynumber: 11.7 Consensus size: 6
31047132 TATTTCTAAG
* * **
31047142 TTTAAA TTT-AA TTTAAA TTTAAAA TTAAAA TTCATT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA TTTAAA
*
31047190 TTT--G TTCTAAA TTTAAA TTTA
1 TTTAAA TT-TAAA TTTAAA TTTA
31047211 GCTTAAATAT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 34 0.69
7 7 0.14
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:31047164 original size:17 final size:17
Alignment explanation
Indices: 31047142--31047246 Score: 56
Period size: 17 Copynumber: 6.0 Consensus size: 17
31047132 TATTTCTAAG
31047142 TTTAAATTT-AATTTAAA
1 TTTAAATTTAAATTT-AA
* * *
31047159 TTTAAAATTAAAATTCATT
1 TTT-AAATTTAAATTTA-A
*
31047178 TTTAAATTTAAATTT-G
1 TTTAAATTTAAATTTAA
*
31047194 TTCTAAATTTAAATTTAG
1 TT-TAAATTTAAATTTAA
* *
31047212 CTTAAATATGAAA--TAA
1 TTTAAAT-TTAAATTTAA
31047228 TTTTAAATTTAAAATTTAA
1 -TTTAAATTT-AAATTTAA
31047247 AAAACTAAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
16 5 0.07
17 30 0.45
18 22 0.33
19 10 0.15
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAAATTTAAATTTAA
Found at i:31047189 original size:42 final size:42
Alignment explanation
Indices: 31047127--31047206 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
31047117 ATTTGGTTTC
* *
31047127 AAATTTATTTCTAAGTTTAAATTTAATT-TAAATTTAAAATTA
1 AAATTCATTTCTAAATTTAAATTT-ATTCTAAATTTAAAATTA
* *
31047169 AAATTCATTTTTAAATTTAAATTTGTTCTAAATTTAAA
1 AAATTCATTTCTAAATTTAAATTTATTCTAAATTTAAA
31047207 TTTAGCTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.06
42 31 0.94
ACGTcount: A:0.44, C:0.04, G:0.03, T:0.50
Consensus pattern (42 bp):
AAATTCATTTCTAAATTTAAATTTATTCTAAATTTAAAATTA
Found at i:31049108 original size:29 final size:28
Alignment explanation
Indices: 31049070--31049379 Score: 118
Period size: 29 Copynumber: 10.6 Consensus size: 28
31049060 ACTTCCCAAG
* *
31049070 AATTATATTTTGACCCCAAAACTTTCAAA
1 AATTACATTTTTACCCC-AAACTTTCAAA
** *
31049099 AATTACATTTTTACCCTTGAGCTTTTCAAA
1 AATTACATTTTTACCC-CAAAC-TTTCAAA
*
31049129 AATTACA-TTTTATCCCCAAACTTTCCAA
1 AATTACATTTTTA-CCCCAAACTTTCAAA
* **
31049157 AATTTCATTTTTACCCCCGA-TTTCACCAAA
1 AATTACATTTTTACCCCAAACTTT---CAAA
*
31049187 AATTAC-TATTTTACCCTCAAACTTTCCAA
1 AATTACAT-TTTTACCC-CAAACTTTCAAA
* * * *
31049216 AATTCCA-TTTTAACCCTAATTTTACCAAA
1 AATTACATTTTTACCCCAAACTTT--CAAA
* * *
31049245 AATTACCA-TTTTACCCTCGAGCTTTCCAA
1 AATTA-CATTTTTACCC-CAAACTTTCAAA
*
31049274 AATT-CTATTTTTAACCCC-GA-TTTCACCAAA
1 AATTAC-ATTTTT-ACCCCAAACTTT---CAAA
* * *
31049304 AATTACCA-TTTTACCCTCGAACATTCCAA
1 AATTA-CATTTTTACCC-CAAACTTTCAAA
* * *
31049333 AATT-CTATTTTTAACCCTAAATTTTCCCAA
1 AATTAC-ATTTTT-ACCCCAAACTTT-CAAA
*
31049363 AATTACATTTTTTCCCC
1 AATTACATTTTTACCCC
31049380 GAGAGCCAAA
Statistics
Matches: 210, Mismatches: 40, Indels: 62
0.67 0.13 0.20
Matches are distributed among these distances:
27 14 0.07
28 26 0.12
29 78 0.37
30 76 0.36
31 10 0.05
32 6 0.03
ACGTcount: A:0.33, C:0.26, G:0.03, T:0.38
Consensus pattern (28 bp):
AATTACATTTTTACCCCAAACTTTCAAA
Found at i:31049165 original size:28 final size:28
Alignment explanation
Indices: 31049053--31049379 Score: 111
Period size: 30 Copynumber: 11.2 Consensus size: 28
31049043 TGCTCTCTAG
* * *
31049053 TCCCTAAACTTCCCAAGAATTATATTTTGA
1 TCCCCAAACTTTCCAA-AATTACATTTT-A
*
31049083 -CCCCAAAACTTTCAAAAATTACATTTT-
1 TCCCC-AAACTTTCCAAAATTACATTTTA
** * *
31049110 TACCCTTGAGCTTTTCAAAAATTACATTTTA
1 T-CCC-CAAAC-TTTCCAAAATTACATTTTA
*
31049141 TCCCCAAACTTTCCAAAATTTCATTTT-
1 TCCCCAAACTTTCCAAAATTACATTTTA
**
31049168 TACCCCCGA-TTTCACCAAAAATTACTATTTTA
1 T-CCCCAAACTTT--CC-AAAATTAC-ATTTTA
*
31049200 -CCCTCAAACTTTCCAAAATTCCATTTTA
1 TCCC-CAAACTTTCCAAAATTACATTTTA
* * *
31049228 -ACCCTAATTTTACCAAAAATTACCATTTTA
1 TCCCCAAACTTT-CC-AAAATTA-CATTTTA
* *
31049258 -CCCTCGAGCTTTCCAAAATT-CTATTTTTA
1 TCCC-CAAACTTTCCAAAATTAC-A-TTTTA
* *
31049287 ACCCC-GA-TTTCACCAAAAATTACCATTTTA
1 TCCCCAAACTTT--CC-AAAATTA-CATTTTA
* *
31049317 -CCCTCGAACATTCCAAAATT-CTATTTTTA
1 TCCC-CAAACTTTCCAAAATTAC-A-TTTTA
* * * *
31049346 ACCCTAAATTTTCCCAAAATTACATTTTT
1 TCCCCAAACTTT-CCAAAATTACATTTTA
31049375 TCCCC
1 TCCCC
31049380 GAGAGCCAAA
Statistics
Matches: 226, Mismatches: 37, Indels: 69
0.68 0.11 0.21
Matches are distributed among these distances:
27 15 0.07
28 33 0.15
29 74 0.33
30 82 0.36
31 16 0.07
32 6 0.03
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (28 bp):
TCCCCAAACTTTCCAAAATTACATTTTA
Found at i:31049169 original size:58 final size:55
Alignment explanation
Indices: 31049070--31049373 Score: 238
Period size: 59 Copynumber: 5.2 Consensus size: 55
31049060 ACTTCCCAAG
* * *
31049070 AATTATATTTTGACCC-CAAAACTTTCAAAAATTACATTTTTACCCTTGAGCTTTTCAAA
1 AATTACATTTT-ACCCTC-AAACTTTCCAAAATTTCATTTTTACCC-TGA--TTTTCAAA
* *
31049129 AATTACATTTTATCCC-CAAACTTTCCAAAATTTCATTTTTACCCCCGATTTCACCAAA
1 AATTACATTTTA-CCCTCAAACTTTCCAAAATTTCATTTTTA-CCCTGATTT--TCAAA
* * *
31049187 AATTACTATTTTACCCTCAAACTTTCCAAAATTCCATTTTAACCCTAATTTTACCAAA
1 AATTAC-ATTTTACCCTCAAACTTTCCAAAATTTCATTTTTACCCTGATTTT--CAAA
* * * *
31049245 AATTACCATTTTACCCTCGAGCTTTCCAAAA-TTCTATTTTTAACCCCGATTTCACCAAA
1 AATTA-CATTTTACCCTCAAACTTTCCAAAATTTC-ATTTTT-ACCCTGATTT--TCAAA
* * * *
31049304 AATTACCATTTTACCCTCGAACATTCCAAAA-TTCTATTTTTAACCCTAAATTTTCCCAA
1 AATTA-CATTTTACCCTCAAACTTTCCAAAATTTC-ATTTTT-ACCCT-GATTTT-CAAA
31049363 AATTACATTTT
1 AATTACATTTT
31049374 TTCCCCGAGA
Statistics
Matches: 207, Mismatches: 23, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
56 3 0.01
57 2 0.01
58 87 0.42
59 111 0.54
60 4 0.02
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.38
Consensus pattern (55 bp):
AATTACATTTTACCCTCAAACTTTCCAAAATTTCATTTTTACCCTGATTTTCAAA
Found at i:31049276 original size:117 final size:116
Alignment explanation
Indices: 31049065--31049379 Score: 372
Period size: 117 Copynumber: 2.7 Consensus size: 116
31049055 CCTAAACTTC
* * * * **
31049065 CCAAGAATTA-TATTTTGACCC-CAAAACTTTCAAAAATTACATTTTTACCCTTGAGCTTTT-CA
1 CCAAAAATTACTATTTT-ACCCTC-AAACTTTCCAAAATTCCATTTTAACCC-T-AAATTTTCCA
*
31049127 AAAATTACATTTTATCCCCAAACTTTCCAAAATT-TCATTTTTACCCCCGATTTCA
62 AAAATTACATTTTATCCCCAAACTTTCCAAAATTCT-ATTTTTAACCCCGATTTCA
31049182 CCAAAAATTACTATTTTACCCTCAAACTTTCCAAAATTCCATTTTAACCCT-AATTTTACCAAAA
1 CCAAAAATTACTATTTTACCCTCAAACTTTCCAAAATTCCATTTTAACCCTAAATTTT-CCAAAA
* *
31049246 ATTACCATTTTA-CCCTCGAGCTTTCCAAAATTCTATTTTTAACCCCGATTTCA
65 ATTA-CATTTTATCCC-CAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCA
* * * * *
31049299 CCAAAAATTACCATTTTACCCTCGAACATTCCAAAATTCTATTTTTAACCCTAAATTTTCCCAAA
1 CCAAAAATTACTATTTTACCCTCAAACTTTCCAAAATTCCA-TTTTAACCCTAAATTTTCCAAAA
*
31049364 ATTACATTTTTTCCCC
65 ATTACATTTTATCCCC
31049380 GAGAGCCAAA
Statistics
Matches: 173, Mismatches: 15, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
114 4 0.02
116 13 0.08
117 120 0.69
118 30 0.17
119 6 0.03
ACGTcount: A:0.33, C:0.27, G:0.03, T:0.37
Consensus pattern (116 bp):
CCAAAAATTACTATTTTACCCTCAAACTTTCCAAAATTCCATTTTAACCCTAAATTTTCCAAAAA
TTACATTTTATCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCA
Found at i:31049365 original size:59 final size:60
Alignment explanation
Indices: 31049125--31049373 Score: 302
Period size: 59 Copynumber: 4.3 Consensus size: 60
31049115 TTGAGCTTTT
* *
31049125 CAAAAATTA-CATTTTATCCC-CAAACTTTCCAAAATT-TCATTTTT-ACCCCCGATTTCAC
1 CAAAAATTACCATTTTA-CCCTCAAACTTTCCAAAATTCT-ATTTTTAACCCTCAATTTCAC
* * *
31049183 CAAAAATTACTATTTTACCCTCAAACTTTCCAAAATTCCA-TTTTAACCCT-AATTTTAC
1 CAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCTATTTTTAACCCTCAATTTCAC
* * *
31049241 CAAAAATTACCATTTTACCCTCGAGCTTTCCAAAATTCTATTTTTAACCC-CGATTTCAC
1 CAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCTATTTTTAACCCTCAATTTCAC
* * *
31049300 CAAAAATTACCATTTTACCCTCGAACATTCCAAAATTCTATTTTTAACCCTAAATTTTC-C
1 CAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCTATTTTTAACCCTCAA-TTTCAC
31049360 C-AAAATTA-CATTTT
1 CAAAAATTACCATTTT
31049374 TTCCCCGAGA
Statistics
Matches: 168, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
58 64 0.38
59 97 0.58
60 3 0.02
61 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (60 bp):
CAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCTATTTTTAACCCTCAATTTCAC
Found at i:31050988 original size:28 final size:28
Alignment explanation
Indices: 31050947--31051001 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
31050937 CGATATCCGA
31050947 TTACTCCCTATTGACCCAAAGGTCATGC
1 TTACTCCCTATTGACCCAAAGGTCATGC
*
31050975 TTACTCCCTGTTGACCCAAAGGTCATG
1 TTACTCCCTATTGACCCAAAGGTCATG
31051002 ATGCTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (28 bp):
TTACTCCCTATTGACCCAAAGGTCATGC
Found at i:31058924 original size:24 final size:24
Alignment explanation
Indices: 31058892--31058971 Score: 133
Period size: 24 Copynumber: 3.3 Consensus size: 24
31058882 TTAAACTGTG
*
31058892 TCTGGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGATAATCAT
*
31058916 TCTGGGCTCGTAAGAGTTAATCAT
1 TCTGGGCTCGTAAGAGATAATCAT
*
31058940 TCTAGGCTCGTAAGAGATAATCAT
1 TCTGGGCTCGTAAGAGATAATCAT
31058964 TCTGGGCT
1 TCTGGGCT
31058972 TGTGTTGGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
TCTGGGCTCGTAAGAGATAATCAT
Found at i:31060893 original size:109 final size:109
Alignment explanation
Indices: 31060748--31060954 Score: 337
Period size: 109 Copynumber: 1.9 Consensus size: 109
31060738 GAAAATAAAG
* *
31060748 AACACTTATCGATTTTAAATAGGATATTCAATTACTTAGGTTCGAAGAAAAACTGGAT-C-CAGT
1 AACACTTATCGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAA-T-CATACTCAGT
31060811 ACGTTAGAGCACAATTTCTCGAGTTCCCTAAAATATTAGAACATTA
64 ACGTTAGAGCACAATTTCTCGAGTTCCCTAAAATATTAGAACATTA
* *
31060857 AACATTTATTGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATACTCAGTAC
1 AACACTTATCGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATACTCAGTAC
*
31060922 GTTAGGGCACAATTTCTCGAGTTCCCTAAAATA
66 GTTAGAGCACAATTTCTCGAGTTCCCTAAAATA
31060955 AAAAAACATT
Statistics
Matches: 91, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
107 2 0.02
108 2 0.02
109 87 0.96
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (109 bp):
AACACTTATCGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATACTCAGTAC
GTTAGAGCACAATTTCTCGAGTTCCCTAAAATATTAGAACATTA
Found at i:31061382 original size:19 final size:19
Alignment explanation
Indices: 31061358--31061394 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31061348 CATAAAAGTA
*
31061358 AAATAAAATAAACATAAAT
1 AAATAAAATAAAAATAAAT
*
31061377 AAATAAAGTAAAAATAAA
1 AAATAAAATAAAAATAAA
31061395 AGACTTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (19 bp):
AAATAAAATAAAAATAAAT
Found at i:31061620 original size:23 final size:23
Alignment explanation
Indices: 31061594--31061638 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
31061584 TTTAGATCAA
*
31061594 AATTAAACTTAATTTTAAATTTT
1 AATTAAACTTAAGTTTAAATTTT
* **
31061617 AATTTATTTTAAGTTTAAATTT
1 AATTAAACTTAAGTTTAAATTT
31061639 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
AATTAAACTTAAGTTTAAATTTT
Found at i:31061625 original size:17 final size:17
Alignment explanation
Indices: 31061605--31061690 Score: 118
Period size: 17 Copynumber: 5.1 Consensus size: 17
31061595 ATTAAACTTA
*
31061605 ATTTTAAATTTTAATTT
1 ATTTTAAATTTAAATTT
*
31061622 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
31061639 ATTTTAAATTTAAACTT
1 ATTTTAAATTTAAATTT
* *
31061656 ATTTTGATTTTAAATTT
1 ATTTTAAATTTAAATTT
*
31061673 ATTTTGAATTTAAATTT
1 ATTTTAAATTTAAATTT
31061690 A
1 A
31061691 AAGTTTAATT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 61 1.00
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:31061697 original size:7 final size:6
Alignment explanation
Indices: 31061596--31061698 Score: 61
Period size: 6 Copynumber: 17.7 Consensus size: 6
31061586 TAGATCAAAA
* * * * * *
31061596 TTAAAC TTAATT TTAAAT TTTAAT TT-ATT TTAAGT TTAAAT TT-ATT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * * * * *
31061642 TTAAAT TTAAAC TT-ATT TTGATT TTAAAT TT-ATT TTGAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
31061688 TTAAAGT TTAA
1 TTAAA-T TTAA
31061699 TTAAAAGTCT
Statistics
Matches: 75, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
5 15 0.20
6 55 0.73
7 5 0.07
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:31063475 original size:30 final size:30
Alignment explanation
Indices: 31063439--31063505 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
31063429 GAACTATCCA
* * *
31063439 AAAATCATATTTTGACCCTTAAAGTTTTCC
1 AAAATCATATTTTGACCCCTAAACTTTACC
*
31063469 AAAATCATATTTTGACCCCTAAACTTTACT
1 AAAATCATATTTTGACCCCTAAACTTTACC
31063499 AAAATCA
1 AAAATCA
31063506 CAATTTAACC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.39, C:0.21, G:0.04, T:0.36
Consensus pattern (30 bp):
AAAATCATATTTTGACCCCTAAACTTTACC
Found at i:31063599 original size:58 final size:58
Alignment explanation
Indices: 31063499--31063675 Score: 171
Period size: 58 Copynumber: 3.0 Consensus size: 58
31063489 AAACTTTACT
* * * **
31063499 AAAATCACAATTTAACCCTCAAACTTCTTAAAAATTACATTTTACCCTCAAACTTCTTA
1 AAAATCACATTTTAGCCCTCAAACTTC-CAAAAATTACATTTTACCCTCAAACTTCCAA
* * * * * *
31063558 AAAATTACCTTTTTGCCC-CTAAACTTCCAAAAATTATATTTTTCCCTCGAACTTCCAA
1 AAAATCACATTTTAGCCCTC-AAACTTCCAAAAATTACATTTTACCCTCAAACTTCCAA
* * *
31063616 AAAATCACATTTTAGCCCTCAAATTTCC-AAAATTACCATTTTGCCC-CTAAACATCCAA
1 AAAATCACATTTTAGCCCTCAAACTTCCAAAAATTA-CATTTTACCCTC-AAACTTCCAA
31063674 AA
1 AA
31063676 GTTACCATTT
Statistics
Matches: 95, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
57 8 0.08
58 66 0.69
59 21 0.22
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (58 bp):
AAAATCACATTTTAGCCCTCAAACTTCCAAAAATTACATTTTACCCTCAAACTTCCAA
Found at i:31063644 original size:30 final size:30
Alignment explanation
Indices: 31063499--31063675 Score: 136
Period size: 29 Copynumber: 6.1 Consensus size: 30
31063489 AAACTTTACT
* * * **
31063499 AAAATCACAATTTAACCCTCAAACTTCTTA
1 AAAATTACATTTTAGCCCTCAAACTTCCAA
**
31063529 AAAATTACATTTTA-CCCTCAAACTTCTTA
1 AAAATTACATTTTAGCCCTCAAACTTCCAA
* *
31063558 AAAATTACCTTTTTGCCC-CTAAACTTCC-A
1 AAAATTACATTTTAGCCCTC-AAACTTCCAA
* * *
31063587 AAAATTATATTTT-TCCCTCGAACTTCCAA
1 AAAATTACATTTTAGCCCTCAAACTTCCAA
* *
31063616 AAAATCACATTTTAGCCCTCAAATTTCC--
1 AAAATTACATTTTAGCCCTCAAACTTCCAA
*
31063644 AAAATTACCATTTT-GCCC-CTAAACATCCAA
1 AAAATTA-CATTTTAGCCCTC-AAACTTCCAA
31063674 AA
1 AA
31063676 GTTACCATTT
Statistics
Matches: 121, Mismatches: 17, Indels: 18
0.78 0.11 0.12
Matches are distributed among these distances:
27 1 0.01
28 26 0.21
29 59 0.49
30 35 0.29
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATTACATTTTAGCCCTCAAACTTCCAA
Found at i:31063647 original size:29 final size:29
Alignment explanation
Indices: 31063430--31063735 Score: 128
Period size: 29 Copynumber: 10.4 Consensus size: 29
31063420 AAGGTCCCTG
* *
31063430 AACTATCCAAAAATCATATTTT-GACCCTTA
1 AACT-TCCAAAAATCACATTTTAG-CCCTCA
* * *
31063460 AAGTTTTCC-AAAATCATATTTTGACCCCT-A
1 AA--CTTCCAAAAATCACATTTT-AGCCCTCA
* * * *
31063490 AACTTTACTAAAATCACAATTTAACCCTCA
1 AAC-TTCCAAAAATCACATTTTAGCCCTCA
* *
31063520 AACTTCTTAAAAATTACATTTTA-CCCTCA
1 AACTTC-CAAAAATCACATTTTAGCCCTCA
* * * *
31063549 AACTTCTTAAAAATTACCTTTTTGCCC-CTA
1 AACTTC-CAAAAATCACATTTTAGCCCTC-A
* * * *
31063579 AACTTCCAAAAATTATATTTT-TCCCTCG
1 AACTTCCAAAAATCACATTTTAGCCCTCA
31063607 AACTTCCAAAAAATCACATTTTAGCCCTCA
1 AACTTCC-AAAAATCACATTTTAGCCCTCA
* *
31063637 AATTTCC-AAAATTACCATTTT-GCCC-CTA
1 AACTTCCAAAAATCA-CATTTTAGCCCTC-A
* * * *
31063665 AACATCCAAAAGTTACCATTTTTGCTCC-CA
1 AACTTCCAAAAATCA-CATTTTAGC-CCTCA
* ** * * *
31063695 AATTTTGAAAAGTCACATTTTCGACCTCA
1 AACTTCCAAAAATCACATTTTAGCCCTCA
31063724 AACTTTCCAAAA
1 AAC-TTCCAAAA
31063736 TTACGTTTTA
Statistics
Matches: 218, Mismatches: 38, Indels: 40
0.74 0.13 0.14
Matches are distributed among these distances:
27 1 0.00
28 28 0.13
29 93 0.43
30 85 0.39
31 10 0.05
32 1 0.00
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (29 bp):
AACTTCCAAAAATCACATTTTAGCCCTCA
Found at i:31067856 original size:78 final size:77
Alignment explanation
Indices: 31067716--31067860 Score: 172
Period size: 78 Copynumber: 1.9 Consensus size: 77
31067706 AAAAAATGAG
* * * * *
31067716 AAAAAAAAAGAAAAAAAAACAAATAAAAAAATGGTCAAGATAAAAACCTGCCAAGGATATCTTAA
1 AAAAAAAAAGAAAAAAAAACAAATAAAAAAATAGTCAAGACAAAAACCCGCAAAGGACATCTTAA
31067781 AACCCAAGGCAA
66 AACCCAAGGCAA
31067793 AAAAAAAAAGAAAAAGAAAA-AAA-AAGAAAGGAA-AGTCAAGACAAAAACCCGCAAATGG-CAT
1 AAAAAAAAAGAAAAA-AAAACAAATAA-AAA--AATAGTCAAGACAAAAACCCGCAAA-GGACAT
31067854 CTTAAAA
61 CTTAAAA
31067861 ATTTATTTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
76 2 0.03
77 21 0.36
78 31 0.53
79 4 0.07
ACGTcount: A:0.64, C:0.13, G:0.13, T:0.10
Consensus pattern (77 bp):
AAAAAAAAAGAAAAAAAAACAAATAAAAAAATAGTCAAGACAAAAACCCGCAAAGGACATCTTAA
AACCCAAGGCAA
Found at i:31068700 original size:17 final size:18
Alignment explanation
Indices: 31068674--31068713 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
31068664 TCAATGAAGA
31068674 AAAAATAAATAAAAAAGG
1 AAAAATAAATAAAAAAGG
31068692 AAAAA-AAATAAAAAAGG
1 AAAAATAAATAAAAAAGG
31068709 AAAAA
1 AAAAA
31068714 GGAAAAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (18 bp):
AAAAATAAATAAAAAAGG
Found at i:31068734 original size:21 final size:21
Alignment explanation
Indices: 31068680--31068740 Score: 58
Period size: 21 Copynumber: 3.1 Consensus size: 21
31068670 AAGAAAAAAT
31068680 AAATAAAAAAGG---AAA-AA
1 AAATAAAAAAGGAAAAAAGAA
*
31068697 AAATAAAAAAGGAAAAAGGAA
1 AAATAAAAAAGGAAAAAAGAA
** *
31068718 AAATAAAATGGGGAAAAAGAA
1 AAATAAAAAAGGAAAAAAGAA
31068739 AA
1 AA
31068741 GGAGAGGTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
17 12 0.34
20 2 0.06
21 21 0.60
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (21 bp):
AAATAAAAAAGGAAAAAAGAA
Found at i:31069866 original size:50 final size:50
Alignment explanation
Indices: 31069796--31070372 Score: 226
Period size: 50 Copynumber: 11.7 Consensus size: 50
31069786 TGATGAGAAG
* ** *
31069796 GGTTAAGGCCGCAATAGCGAACTTGGTACCTTAGAAGATATGAAGGGAAA
1 GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAA
* * * *
31069846 GGTTGAGGCTGCAATGGCGAACCCGATACCAT-GAAGATTTGAAGGGAAA
1 GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAA
* * * * *
31069895 GGTTAATGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGACGGGAAA
1 GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAA
* * * * * * * *
31069945 GGTTGAGGACGTAACT-ACCAA-CCTAGTACCAT-GAAGATTTGAAGGG-AA
1 GGTTAAGGCCGCAA-TGGCGAACCCGA-TACCTTAGAAGATATGAAGGGAAA
* * * * * * *
31069993 GGATTGAGGCCGCGA-GGCGAATCCGGTACCTCAAAAGATGTGATA-GGAAA
1 GG-TTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGA-AGGGAAA
* * * * * * * * * *
31070043 GATTGAGGCCGCAACGGTGAATCCGGTACCAT-GAA-ATGTGATGGGTAA
1 GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAA
* ** * * * *
31070091 GGTTGAGGCCGCAACAGTGAACCCGATACCTTAAAAGATGTGACGGGAAA
1 GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAA
* * * * * * * * * **
31070141 GGTTGAGGCTGTAACGGTGAACCCGATACCTCAAAAGATGTGATGAAAAA
1 GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAA
* * * * * * * * * * *
31070191 GATTGAGACCACAACGGCAAATCCGGTACCAT-GAA-ATATGATGGGGAA
1 GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAA
* ** * * * * * *
31070239 GGTT-GGGCCATAATGGTGAACCCGGTACCAT-GGAGATTTTAAGGGAAA
1 GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAA
* * * ** * * * *
31070287 GGTTGAGGCCACAACGGTAAACCTGGTACCTTAAAAGATATAAAGGGAAA
1 GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAA
** * *
31070337 GGTTAAGGCCGCAACAGCAAACCCGGTACCTTAGAA
1 GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAA
31070373 AACAAGATGG
Statistics
Matches: 404, Mismatches: 107, Indels: 32
0.74 0.20 0.06
Matches are distributed among these distances:
47 22 0.05
48 73 0.18
49 116 0.29
50 193 0.48
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.19
Consensus pattern (50 bp):
GGTTAAGGCCGCAATGGCGAACCCGATACCTTAGAAGATATGAAGGGAAA
Found at i:31069876 original size:98 final size:99
Alignment explanation
Indices: 31069774--31070170 Score: 349
Period size: 98 Copynumber: 4.0 Consensus size: 99
31069764 ACGAATCCAG
* * * ** * * *
31069774 TACCATGAA-ATGTGATGAGAAGGGTTAAGGCCGCAATAGCGAACTTGGTACCTTAGAAGATATG
1 TACCATGAAGATGTGAAGGGAAGGGTTAAGGCCGCAACAGCGAACCCGATACCTTAAAAGATGTG
*
31069838 AAGGGAAAGGTTGAGGCTGCAATGGCGAACCCGA
66 AAGGGAAAGGTTGAGGCTGCAACGGCGAACCCGA
* * * * * *
31069872 TACCATGAAGATTTGAAGGGAAAGGTTAATGCCGCAACGGTGAACCCGATACCTTAGAAGATGTG
1 TACCATGAAGATGTGAAGGGAAGGGTTAAGGCCGCAACAGCGAACCCGATACCTTAAAAGATGTG
* * ** * *
31069937 ACGGGAAAGGTTGAGGAC-GTAACTACCAA-CCTA
66 AAGGGAAAGGTTGAGG-CTGCAACGGCGAACCCGA
* * * * * * * *
31069970 GTACCATGAAGATTTGAAGGGAAGGATTGAGGCCGCGA-GGCGAATCCGGTACCTCAAAAGATGT
1 -TACCATGAAGATGTGAAGGGAAGGGTTAAGGCCGCAACAGCGAACCCGATACCTTAAAAGATGT
* * * * *
31070034 GATA-GGAAAGATTGAGGCCGCAACGGTGAATCCGG
65 GA-AGGGAAAGGTTGAGGCTGCAACGGCGAACCCGA
* * *
31070069 TACCATGAA-ATGTGATGGGTAA-GGTTGAGGCCGCAACAGTGAACCCGATACCTTAAAAGATGT
1 TACCATGAAGATGTGAAGGG-AAGGGTTAAGGCCGCAACAGCGAACCCGATACCTTAAAAGATGT
* * *
31070132 GACGGGAAAGGTTGAGGCTGTAACGGTGAACCCGA
65 GAAGGGAAAGGTTGAGGCTGCAACGGCGAACCCGA
31070167 TACC
1 TACC
31070171 TCAAAAGATG
Statistics
Matches: 237, Mismatches: 53, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
97 21 0.09
98 117 0.49
99 98 0.41
100 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (99 bp):
TACCATGAAGATGTGAAGGGAAGGGTTAAGGCCGCAACAGCGAACCCGATACCTTAAAAGATGTG
AAGGGAAAGGTTGAGGCTGCAACGGCGAACCCGA
Found at i:31070171 original size:148 final size:145
Alignment explanation
Indices: 31069683--31070247 Score: 473
Period size: 148 Copynumber: 3.8 Consensus size: 145
31069673 AGAAAAACAT
* * * * * * * *
31069683 GAAGATTTGAAGGGAAAGGTTGATGCCGCAACGACAAACCTGGTACCTCAGAA-ATGTGATGGAA
1 GAAGATATGAAGGGAAAGGTTGAGGCTGCAA-GGCGAACCCGATACCTCAAAAGATGTGATGGAA
** * * * *
31069747 AGATTGAGACCGCAACAACGAATCCAGTACCATGAAATGTGATGAGAAGGGTTAAGGCCGCAATA
65 AGATTGAGACCGCAACGGCGAATCCGGTACCATGAAATGTGATGGGAA-GGTTGAGGCCGCAACA
** *
31069812 GCGAACTTGGTACCTTA
129 GCGAACCCGATACCTTA
* * *
31069829 GAAGATATGAAGGGAAAGGTTGAGGCTGCAATGGCGAACCCGATA-C-CATGAAGATTTGAAGGG
1 GAAGATATGAAGGGAAAGGTTGAGGCTGCAA-GGCGAACCCGATACCTCA-AAAGATGTG-ATGG
* * * * * * * *
31069892 AAAGGTTAATG-CCGCAACGGTGAACCCGATACCTTAGAAGATGTGACGGGAAAGGTTGAGGACG
63 AAAGATTGA-GACCGCAACGGCGAATCCGGTACCAT-GAA-ATGTGATGGG-AAGGTTGAGGCCG
* * * *
31069956 TAACTA-CCAA-CCTAGTACCAT-
124 CAAC-AGCGAACCCGA-TACCTTA
* * * * *
31069977 GAAGATTTGAAGGG-AAGGATTGAGGCCGCGAGGCGAATCCGGTACCTCAAAAGATGTGATAGGA
1 GAAGATATGAAGGGAAAGG-TTGAGGCTGCAAGGCGAACCCGATACCTCAAAAGATGTGAT-GGA
* *
31070041 AAGATTGAGGCCGCAACGGTGAATCCGGTACCATGAAATGTGATGGGTAAGGTTGAGGCCGCAAC
64 AAGATTGAGACCGCAACGGCGAATCCGGTACCATGAAATGTGATGGG-AAGGTTGAGGCCGCAAC
*
31070106 AGTGAACCCGATACCTTA
128 AGCGAACCCGATACCTTA
* * * * * *
31070124 AAAGATGTGACGGGAAAGGTTGAGGCTGTAACGGTGAACCCGATACCTCAAAAGATGTGATGAAA
1 GAAGATATGAAGGGAAAGGTTGAGGCTGCAA-GGCGAACCCGATACCTCAAAAGATGTGATG-GA
* * *
31070189 AAGATTGAGACCACAACGGCAAATCCGGTACCATGAAATATGATGGGGAAGGTTG-GGCC
64 AAGATTGAGACCGCAACGGCGAATCCGGTACCATGAAATGTGAT-GGGAAGGTTGAGGCC
31070248 ATAATGGTGA
Statistics
Matches: 331, Mismatches: 67, Indels: 41
0.75 0.15 0.09
Matches are distributed among these distances:
144 2 0.01
145 5 0.02
146 72 0.22
147 75 0.23
148 142 0.43
149 32 0.10
150 3 0.01
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.18
Consensus pattern (145 bp):
GAAGATATGAAGGGAAAGGTTGAGGCTGCAAGGCGAACCCGATACCTCAAAAGATGTGATGGAAA
GATTGAGACCGCAACGGCGAATCCGGTACCATGAAATGTGATGGGAAGGTTGAGGCCGCAACAGC
GAACCCGATACCTTA
Found at i:31070291 original size:196 final size:195
Alignment explanation
Indices: 31069820--31070345 Score: 481
Period size: 196 Copynumber: 2.7 Consensus size: 195
31069810 TAGCGAACTT
* * ** * * *
31069820 GGTACCTTAGAAGATATGA-AGGGAAAGGTTGAGGCTGCAATGGCGAACCCGATACCATGAAGAT
1 GGTACC-TAAAAGATATGATA-GGAAAGATTGAGGCCACAATGGTGAACCCGGTACCATGGAGAT
* * *
31069884 TTGAAGGGAAAGGTTAATGCCGCAACGGTGAACCCGATACCTTAGAAGATGTGACGGGAAAGGTT
64 TTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAAAAGATGTGACGGGAAAGGTT
* * * * ** * * * * *
31069949 GAGGACGTAACTACCAACCTAGTACCATGAAGATTTGAAGGGAAGGATTGAGGCCGCGAGGCGAA
129 GAGG-CGTAACGACCAACCGAGTACCATAAAGATGTGAAGAAAAAGATTGAGACCACAAGGCAAA
31070014 TCC
193 TCC
* * * * * *
31070017 GGTACCTCAAAAGATGTGATAGGAAAGATTGAGGCCGCAACGGTGAATCCGGTACCAT-GAAATG
1 GGTACCT-AAAAGATATGATAGGAAAGATTGAGGCCACAATGGTGAACCCGGTACCATGGAGATT
* * *
31070081 TGATGGGTAAGGTTGAGGCCGCAACAGTGAACCCGATACCTTAAAAGATGTGACGGGAAAGGTTG
65 TGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAAAAGATGTGACGGGAAAGGTTG
*** *
31070146 AGGCTGTAACGGTGAACCCGA-TACC-TCAAAAGATGTGATGAAAAAGATTGAGACCACAACGGC
130 AGGC-GTAACGACCAA-CCGAGTACCAT--AAAGATGTGAAGAAAAAGATTGAGACCACAA-GGC
31070209 AAATCC
190 AAATCC
* * * * *
31070215 GGTACC-ATGAA-ATATGATGGGGAAGGTTG-GGCCATAATGGTGAACCCGGTACCATGGAGATT
1 GGTACCTA-AAAGATATGATAGGAAAGATTGAGGCCACAATGGTGAACCCGGTACCATGGAGATT
* * * * * * * * *
31070277 TTAAGGGAAAGGTTGAGGCCACAACGGTAAACCTGGTACCTTAAAAGATATAAAGGGAAAGGTTA
65 TGAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAAAAGATGTGACGGGAAAGGTTG
31070342 AGGC
130 AGGC
31070346 CGCAACAGCA
Statistics
Matches: 265, Mismatches: 55, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
195 24 0.09
196 153 0.58
197 73 0.28
198 15 0.06
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (195 bp):
GGTACCTAAAAGATATGATAGGAAAGATTGAGGCCACAATGGTGAACCCGGTACCATGGAGATTT
GAAGGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCTTAAAAGATGTGACGGGAAAGGTTGA
GGCGTAACGACCAACCGAGTACCATAAAGATGTGAAGAAAAAGATTGAGACCACAAGGCAAATCC
Found at i:31070680 original size:39 final size:39
Alignment explanation
Indices: 31070633--31071049 Score: 231
Period size: 39 Copynumber: 10.7 Consensus size: 39
31070623 GAAGATTTCG
*
31070633 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACAA
1 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACCA
*
31070672 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACCA
* * * * * ** * * *
31070711 ATCTCTTACCCCAAGCTTGGGGTATATTGCAACCATCCA
1 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACCA
* * * *
31070750 ATCTCTTACCCCGAG-CTTGAGGTAGATCATCATCAACAA
1 ATCTCTTACCCCGAGCCTAG-GGCAGATCACCATCAACCA
* * ****
31070789 ATCTCTTACCTCGAGTCT-GAGGCAGATTGCACC-T-ATTTG
1 ATCTCTTACCCCGAGCCTAG-GGCAGA-T-CACCATCAACCA
* * *
31070828 ATCTCTTACCCCGAACCT-GAGGCAGATTACCA-CTAGCCA
1 ATCTCTTACCCCGAGCCTAG-GGCAGATCACCATC-AACCA
* * * * *****
31070867 ATCTCTTACCTCGAGCCTACGGCAGATTGTA-GAT-GTTTG
1 ATCTCTTACCCCGAGCCTAGGGCAGA-T-CACCATCAACCA
* * * *
31070906 ATCTCTTACCCCGAGCATGGGGCAGATCATCACCAACCA
1 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACCA
* * * * * ** *
31070945 ATCTCTTACCCAGAGCCTGGGGCAGATTACAACCATTCG
1 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACCA
* *
31070984 ATCTCTTACCCCGAGCCTCA-AGCATATCACCATCAACCA
1 ATCTCTTACCCCGAGCCT-AGGGCAGATCACCATCAACCA
* * *
31071023 ATCTCTTATCCCGAGCTTGGGGCAGAT
1 ATCTCTTACCCCGAGCCTAGGGCAGAT
31071050 TGCAGCCATT
Statistics
Matches: 281, Mismatches: 82, Indels: 30
0.72 0.21 0.08
Matches are distributed among these distances:
37 4 0.01
38 5 0.02
39 261 0.93
40 6 0.02
41 5 0.02
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACCA
Found at i:31070753 original size:78 final size:78
Alignment explanation
Indices: 31070672--31071070 Score: 371
Period size: 78 Copynumber: 5.1 Consensus size: 78
31070662 CCATCAACAA
* * * *
31070672 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCAAGCTTGGGGTATA
1 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGA
* *
31070737 TTGCAACCATCCA
66 TTGCAACCATTCG
* * * * * *
31070750 ATCTCTTACCCCGAG-CTTGAGGTAGATCATCATCAACAAATCTCTTACCTCGAG-TCTGAGGCA
1 ATCTCTTACCCCGAGCCTAG-GGCAGATCACCATCAACCAATCTCTTACCCCGAGCT-TGGGGCA
*
31070813 GATTGC-ACCTATTTG
64 GATTGCAACC-ATTCG
* * * * * **
31070828 ATCTCTTACCCCGAACCT-GAGGCAGATTACCA-CTAGCCAATCTCTTACCTCGAGCCTACGGCA
1 ATCTCTTACCCCGAGCCTAG-GGCAGATCACCATC-AACCAATCTCTTACCCCGAGCTTGGGGCA
* ** *
31070891 GATTGTAGA-TGTTTG
64 GATTGCA-ACCATTCG
* * * * * *
31070906 ATCTCTTACCCCGAGCATGGGGCAGATCATCACCAACCAATCTCTTACCCAGAGCCTGGGGCAGA
1 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGA
*
31070971 TTACAACCATTCG
66 TTGCAACCATTCG
* * *
31070984 ATCTCTTACCCCGAGCCTCA-AGCATATCACCATCAACCAATCTCTTATCCCGAGCTTGGGGCAG
1 ATCTCTTACCCCGAGCCT-AGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGGCAG
*
31071048 ATTGCAGCCATTCG
65 ATTGCAACCATTCG
31071062 ATCTCTTAC
1 ATCTCTTAC
31071071 TCCAAGCTTG
Statistics
Matches: 259, Mismatches: 50, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
77 9 0.03
78 245 0.95
79 4 0.02
80 1 0.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACCAATCTCTTACCCCGAGCTTGGGGCAGA
TTGCAACCATTCG
Found at i:31071027 original size:117 final size:114
Alignment explanation
Indices: 31070629--31071161 Score: 359
Period size: 117 Copynumber: 4.6 Consensus size: 114
31070619 GATTGAAGAT
* *
31070629 TTCGATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAACAAATCTCTTACCCCGAGCCTAGGG
1 TTCGATCTCTTACCCCGAGCCTA-GGCAGATCACCATCAACAAATCTCTTACCCCGAGCATGGGG
* * * * *
31070694 CAGA-T-CACCATCAGCCAATCTCTTACCCCAAGCTTGGGGTATATTGCAACCA
65 CAGATTGCACCAT---CCAATCTCTTA-CCCAAGCCTGAGGCAGATTACAACCA
* * * * * * *
31070746 TCCAATCTCTTACCCCGAGCTTGAGGTAGATCATCATCAACAAATCTCTTACCTCGAGTC-TGAG
1 TTCGATCTCTTACCCCGAGCCT-AGGCAGATCACCATCAACAAATCTCTTACCCCGAG-CATGGG
*** * *
31070810 GCAGATTGCACCTATTTGATCTCTTACCCCGAA-CCTGAGGCAGATTACCACTA
64 GCAGATTGCACC-ATCCAATCTCTTA-CCC-AAGCCTGAGGCAGATTACAACCA
** * * * * *****
31070863 GCCAATCTCTTACCTCGAGCCTACGGCAGATTGTA-GAT-GTTTGATCTCTTACCCCGAGCATGG
1 TTCGATCTCTTACCCCGAGCCTA-GGCAGA-T-CACCATCAACAAATCTCTTACCCCGAGCATGG
* *
31070926 GGCAGATCAT-CACCAACCAATCTCTTACCCAGAGCCTGGGGCAGATTACAACCA
63 GGCAGAT--TGCACCATCCAATCTCTTACCCA-AGCCTGAGGCAGATTACAACCA
* * * * *
31070980 TTCGATCTCTTACCCCGAGCCTCAAGCATATCACCATCAACCAATCTCTTATCCCGAGCTTGGGG
1 TTCGATCTCTTACCCCGAGCCT-AGGCAGATCACCATCAACAAATCTCTTACCCCGAGCATGGGG
* * * * *
31071045 CAGATTGCAGCCATTCGATCTCTTACTCCAAGCTTGAGGCAGATTACAGCCG
65 CAGATTGCA-CCATCCAATCTCTTAC-CCAAGCCTGAGGCAGATTACAACCA
* * * * * *
31071097 CTCGATC-CATTACCCCGAG-CTTGGAACAGATCATCATCAACCAATCTC--ACCCCAATCATGG
1 TTCGATCTC-TTACCCCGAGCCTAGG--CAGATCACCATCAACAAATCTCTTACCCCGAGCATGG
31071158 GGCA
63 GGCA
31071162 AATGGCAGTC
Statistics
Matches: 324, Mismatches: 69, Indels: 48
0.73 0.16 0.11
Matches are distributed among these distances:
115 17 0.05
116 14 0.04
117 269 0.83
118 16 0.05
119 6 0.02
120 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (114 bp):
TTCGATCTCTTACCCCGAGCCTAGGCAGATCACCATCAACAAATCTCTTACCCCGAGCATGGGGC
AGATTGCACCATCCAATCTCTTACCCAAGCCTGAGGCAGATTACAACCA
Found at i:31071047 original size:156 final size:154
Alignment explanation
Indices: 31070672--31071088 Score: 428
Period size: 156 Copynumber: 2.7 Consensus size: 154
31070662 CCATCAACAA
* * *
31070672 ATCTCTTACCCCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTACCCCAAGCTTGGGGTATA
1 ATCTCTTACCCCGAGCCTA-GGCAGATCACCATCAGCCAATCTCTTA-CCCGAGCTTGGGGCAGA
* * *
31070737 TTGCAACCATCCAATCTCTTACCCCGAGCTTGAGGTAGATCATCATCAACAAATCTCTTACCTCG
64 TTGCAACCATCCAATCTCTTACCCCGAGCATGAGGCAGATCATCACCAACAAATCTCTTACCTCG
* * *
31070802 AGTCTGAGGCAGATTGCACCTATTTG
129 AGCCTGAGGCAGATTACACCTATTCG
* * * **
31070828 ATCTCTTACCCCGAACCTGAGGCAGATTACCA-CTAGCCAATCTCTTACCTCGAGCCTACGGCAG
1 ATCTCTTACCCCGAGCCT-AGGCAGATCACCATC-AGCCAATCTCTTACC-CGAGCTTGGGGCAG
* ** *** * *
31070892 ATTGTAGA-TGTTTGATCTCTTACCCCGAGCATGGGGCAGATCATCACCAACCAATCTCTTACC-
63 ATTGCA-ACCATCCAATCTCTTACCCCGAGCATGAGGCAGATCATCACCAACAAATCTCTTACCT
*
31070955 CAGAGCCTGGGGCAGATTACAACC-ATTCG
127 C-GAGCCTGAGGCAGATTAC-ACCTATTCG
* * *
31070984 ATCTCTTACCCCGAGCCTCAAGCATATCACCATCAACCAATCTCTTATCCCGAGCTTGGGGCAGA
1 ATCTCTTACCCCGAGCCT-AGGCAGATCACCATCAGCCAATCTCTTA-CCCGAGCTTGGGGCAGA
* * * * * *
31071049 TTGCAGCCATTCGATCTCTTACTCCAAGCTTGAGGCAGAT
64 TTGCAACCATCCAATCTCTTACCCCGAGCATGAGGCAGAT
31071089 TACAGCCGCT
Statistics
Matches: 211, Mismatches: 41, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
155 4 0.02
156 199 0.94
157 8 0.04
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (154 bp):
ATCTCTTACCCCGAGCCTAGGCAGATCACCATCAGCCAATCTCTTACCCGAGCTTGGGGCAGATT
GCAACCATCCAATCTCTTACCCCGAGCATGAGGCAGATCATCACCAACAAATCTCTTACCTCGAG
CCTGAGGCAGATTACACCTATTCG
Found at i:31071127 original size:39 final size:39
Alignment explanation
Indices: 31070905--31071127 Score: 141
Period size: 39 Copynumber: 5.7 Consensus size: 39
31070895 GTAGATGTTT
* * *
31070905 GATCTCTTACCCCGAGCATGGGGCAGATCATCA-CCAAC-C
1 GATCTCTTACCCCGAGCTTGGAGCAGATTA-CAGCC-ACTC
* * * * * *
31070944 AATCTCTTACCCAGAGCCTGGGGCAGATTACAACCATTC
1 GATCTCTTACCCCGAGCTTGGAGCAGATTACAGCCACTC
* ** * * * *
31070983 GATCTCTTACCCCGAGCCTCAAGCATATCACCATCAAC-C
1 GATCTCTTACCCCGAGCTTGGAGCAGATTA-CAGCCACTC
* * * * *
31071022 AATCTCTTATCCCGAGCTTGGGGCAGATTGCAGCCATTC
1 GATCTCTTACCCCGAGCTTGGAGCAGATTACAGCCACTC
* * *
31071061 GATCTCTTACTCCAAGCTT-GAGGCAGATTACAGCCGCTC
1 GATCTCTTACCCCGAGCTTGGA-GCAGATTACAGCCACTC
*
31071100 GATC-CATTACCCCGAGCTTGGAACAGAT
1 GATCTC-TTACCCCGAGCTTGGAGCAGAT
31071128 CATCATCAAC
Statistics
Matches: 139, Mismatches: 38, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
38 9 0.06
39 124 0.89
40 6 0.04
ACGTcount: A:0.26, C:0.33, G:0.19, T:0.23
Consensus pattern (39 bp):
GATCTCTTACCCCGAGCTTGGAGCAGATTACAGCCACTC
Found at i:31071693 original size:17 final size:17
Alignment explanation
Indices: 31071652--31071694 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
31071642 AATTTTAAAT
31071652 TTTAAA-TTATTTTAAG
1 TTTAAATTTATTTTAAG
31071668 TTTAAATTTATTTTGAA-
1 TTTAAATTTATTTT-AAG
31071685 TTTAAATTTA
1 TTTAAATTTA
31071695 AAGTTTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.24
17 17 0.68
18 2 0.08
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTAAATTTATTTTAAG
Found at i:31073514 original size:30 final size:29
Alignment explanation
Indices: 31073473--31073931 Score: 115
Period size: 30 Copynumber: 15.6 Consensus size: 29
31073463 CACTGAATTG
* *
31073473 TCCAGAAATCATATTTTGACCCCTAAACATT
1 TCCA-AAATCACATTTTAACCCCTAAAC-TT
* *
31073504 TCCAAAATCATATTTTAACCCTTAAACTTT
1 TCCAAAATCACATTTTAACCCCTAAAC-TT
* * * *
31073534 TCTAAAATAACATTTTGACCTCTAAACTT
1 TCCAAAATCACATTTTAACCCCTAAACTT
* *
31073563 TCAAAAAATCACATTTTAA-CCCTCAAATTTT
1 TC-CAAAATCACATTTTAACCCCT-AAA-CTT
** * * *
31073594 TTAAAAATTATAATTTT-GCCCCTAAACTT
1 TCCAAAATCA-CATTTTAACCCCTAAACTT
** * *
31073623 CTTAAAAATTACATTTTTA-CCCTCAAAC-T
1 -TCCAAAATCACATTTTAACCCCT-AAACTT
* * *
31073652 TCCAAAAATTACATTTTTA-CCCTAAACTGC
1 TCC-AAAATCACATTTTAACCCCTAAACT-T
* * ** * *
31073682 TCAAAAAATTACATTTTTGCCCTTTAAC-T
1 TC-CAAAATCACATTTTAACCCCTAAACTT
* *
31073711 TCCTAAAATTACATTTT--CTCCCTCGAAC-T
1 TCC-AAAATCACATTTTAAC-CCCT-AAACTT
* *
31073740 TCCAAAAATTACATTTT-GCCCCTAAACTT
1 TCC-AAAATCACATTTTAACCCCTAAACTT
** * * *
31073769 TTAAAAATTACATTTTTA-CCCTCGAACTT
1 TCCAAAATCACATTTTAACCCCT-AAACTT
* **
31073798 CTCAAAAATCACATTTTTGCTCCCT--AC-T
1 -TCCAAAATCACATTTTAAC-CCCTAAACTT
* * * *
31073826 TCAAAAAATTACATTTTTA-CCCTCGAACTT
1 TC-CAAAATCACATTTTAACCCCT-AAACTT
* ** *
31073856 TCAAAAAATCACATTTTGGCCCCCAAAC-T
1 TC-CAAAATCACATTTTAACCCCTAAACTT
* **
31073885 TCCAAAAATCACATTTTTACCCCCGAA-TT
1 TCC-AAAATCACATTTTAACCCCTAAACTT
*
31073914 TCCAAAATTACCATTTTA
1 TCCAAAATCA-CATTTTA
31073932 CCTCCGTACA
Statistics
Matches: 342, Mismatches: 54, Indels: 66
0.74 0.12 0.14
Matches are distributed among these distances:
26 4 0.01
27 3 0.01
28 49 0.14
29 121 0.35
30 136 0.40
31 25 0.07
32 4 0.01
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (29 bp):
TCCAAAATCACATTTTAACCCCTAAACTT
Found at i:31073579 original size:60 final size:58
Alignment explanation
Indices: 31073485--31073814 Score: 247
Period size: 60 Copynumber: 5.6 Consensus size: 58
31073475 CAGAAATCAT
* * *
31073485 ATTTTGACCCCTAAACATTTCCAAAATCATATTTTAACCCTTAAACTTTTCTAAAATAAC
1 ATTTTGA-CCCTAAAC-TTTCAAAAATCACATTTTAACCCTTAAACTTTTCTAAAATTAC
* * *
31073545 ATTTTGACCTCTAAACTTTCAAAAAATCACATTTTAACCCTCAAA-TTTTTTAAAAATTATA
1 ATTTTGACC-CTAAACTTTC-AAAAATCACATTTTAACCCTTAAACTTTTCT-AAAATTA-C
* * * * * * *
31073606 ATTTTGCCCCTAAACTTCTTAAAAATTACATTTTTACCCTCAAAC-TTCCAAAAATTAC
1 ATTTTGACCCTAAACTT-TCAAAAATCACATTTTAACCCTTAAACTTTTCTAAAATTAC
* * * ** * *
31073664 ATTTTTACCCTAAACTGCTCAAAAAATTACATTTTTGCCCTTTAAC-TTCCTAAAATTAC
1 ATTTTGACCCTAAACT-TTC-AAAAATCACATTTTAACCCTTAAACTTTTCTAAAATTAC
** * * * * * *
31073723 ATTTTCTCCCTCGAACTTCCAAAAATTACATTTT-GCCCCTAAACTTTT-AAAAATTAC
1 ATTTTGACCCT-AAACTTTCAAAAATCACATTTTAACCCTTAAACTTTTCTAAAATTAC
* *
31073780 ATTTTTACCCTCGAACTTCTCAAAAATCACATTTT
1 ATTTTGACCCT-AAACTT-TCAAAAATCACATTTT
31073815 TGCTCCCTAC
Statistics
Matches: 224, Mismatches: 35, Indels: 24
0.79 0.12 0.08
Matches are distributed among these distances:
57 32 0.14
58 45 0.20
59 62 0.28
60 76 0.34
61 9 0.04
ACGTcount: A:0.36, C:0.24, G:0.02, T:0.38
Consensus pattern (58 bp):
ATTTTGACCCTAAACTTTCAAAAATCACATTTTAACCCTTAAACTTTTCTAAAATTAC
Found at i:31073639 original size:29 final size:29
Alignment explanation
Indices: 31073537--31073901 Score: 205
Period size: 29 Copynumber: 12.4 Consensus size: 29
31073527 AAACTTTTCT
* *
31073537 AAAATAACATTTTGACCTCTAAACTT-TCAA
1 AAAATTACATTTTG-CCCCTAAACTTCT-AA
* ** * * *
31073567 AAAATCACATTTTAACCCTCAAATTTTTTA
1 AAAATTACATTTTGCCCCT-AAACTTCTAA
* *
31073597 AAAATTATAATTTTGCCCCTAAACTTCTTA
1 AAAATTA-CATTTTGCCCCTAAACTTCTAA
** *
31073627 AAAATTACATTTTTACCCTCAAACTTC-CA
1 AAAATTACATTTTGCCCCT-AAACTTCTAA
** *
31073656 AAAATTACATTTTTACCCTAAACTGCTCAA
1 AAAATTACATTTTGCCCCTAAACTTCT-AA
* *
31073686 AAAATTACATTTTTGCCCTTTAACTTCCT--
1 AAAATTACA-TTTTGCCCCTAAACTT-CTAA
* *
31073715 AAAATTACATTTT-CTCCCTCGAACTTC-CA
1 AAAATTACATTTTGC-CCCT-AAACTTCTAA
*
31073744 AAAATTACATTTTGCCCCTAAACTT-TTA
1 AAAATTACATTTTGCCCCTAAACTTCTAA
** * *
31073772 AAAATTACATTTTTACCCTCGAACTTCTCA
1 AAAATTACATTTTGCCCCT-AAACTTCTAA
*
31073802 AAAATCACATTTTTGCTCCCT--ACTTC-AA
1 AAAATTACA-TTTTGC-CCCTAAACTTCTAA
** *
31073830 AAAATTACATTTTTACCCTCGAACTT-TCAA
1 AAAATTACATTTTGCCCCT-AAACTTCT-AA
* * *
31073860 AAAATCACATTTTGGCCCCCAAACTTC-CA
1 AAAATTACATTTT-GCCCCTAAACTTCTAA
*
31073889 AAAATCACATTTT
1 AAAATTACATTTT
31073902 TACCCCCGAA
Statistics
Matches: 266, Mismatches: 44, Indels: 51
0.74 0.12 0.14
Matches are distributed among these distances:
26 4 0.02
27 5 0.02
28 46 0.17
29 91 0.34
30 86 0.32
31 28 0.11
32 6 0.02
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTGCCCCTAAACTTCTAA
Found at i:31073907 original size:29 final size:29
Alignment explanation
Indices: 31073537--31074028 Score: 262
Period size: 30 Copynumber: 16.9 Consensus size: 29
31073527 AAACTTTTCT
* * * * *
31073537 AAAATAACATTTTGACCTCTAAACTTTCAA
1 AAAATTACATTTTTACCCCCAAAC-TTCCA
* * * * **
31073567 AAAATCACATTTTAACCCTCAAATTTTTTA
1 AAAATTACATTTTTACCCCCAAA-CTTCCA
* * * * *
31073597 AAAATTATAATTTTGCCCCTAAACTTCTTA
1 AAAATTACATTTTTACCCCCAAACTTC-CA
*
31073627 AAAATTACATTTTTACCCTCAAACTTCCA
1 AAAATTACATTTTTACCCCCAAACTTCCA
* *
31073656 AAAATTACATTTTTA-CCCTAAACTGCTCAA
1 AAAATTACATTTTTACCCCCAAACT--TCCA
* *** *
31073686 AAAATTACATTTTTGCCCTTTAACTTCCT
1 AAAATTACATTTTTACCCCCAAACTTCCA
* *
31073715 AAAATTACATTTTCT-CCCTCGAACTTCCA
1 AAAATTACATTTT-TACCCCCAAACTTCCA
* * **
31073744 AAAATTACA-TTTTGCCCCTAAACTTTTA
1 AAAATTACATTTTTACCCCCAAACTTCCA
* *
31073772 AAAATTACATTTTTACCCTCGAACTTCTCA
1 AAAATTACATTTTTACCCCCAAACTTC-CA
* * * * *
31073802 AAAATCACATTTTTGCTCCC-TACTTCAA
1 AAAATTACATTTTTACCCCCAAACTTCCA
* * *
31073830 AAAATTACATTTTTACCCTCGAACTTTCAA
1 AAAATTACATTTTTACCCCCAAAC-TTCCA
* **
31073860 AAAATCACATTTTGGCCCCCAAACTTCCA
1 AAAATTACATTTTTACCCCCAAACTTCCA
* * *
31073889 AAAATCACATTTTTACCCCCGAATTTCC-
1 AAAATTACATTTTTACCCCCAAACTTCCA
* ** *
31073917 AAAATTACCA-TTTTACCTCCGTACATCCA
1 AAAATTA-CATTTTTACCCCCAAACTTCCA
* * * * **
31073946 AAAGTTACCATTTTTGCTCCCAAATTTTGA
1 AAAATTA-CATTTTTACCCCCAAACTTCCA
* * * * *
31073976 AAAGTCACATTTTCAACCTCAAACTTTCC-
1 AAAATTACATTTTTACCCCCAAAC-TTCCA
* *
31074005 AAAATTAC-GTTTTAACCCCAAACT
1 AAAATTACATTTTTACCCCCAAACT
31074029 CTTTGAAACT
Statistics
Matches: 352, Mismatches: 95, Indels: 33
0.73 0.20 0.07
Matches are distributed among these distances:
27 2 0.01
28 77 0.22
29 128 0.36
30 138 0.39
31 7 0.02
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.35
Consensus pattern (29 bp):
AAAATTACATTTTTACCCCCAAACTTCCA
Found at i:31073920 original size:59 final size:59
Alignment explanation
Indices: 31073626--31073920 Score: 332
Period size: 59 Copynumber: 5.1 Consensus size: 59
31073616 TAAACTTCTT
* * * *
31073626 AAAAATTACATTTTTACCCTCAAACTTCCAAAAATTACATTTTTACCCT-AAACTGCTCA
1 AAAAATTACATTTTTGCCCCCAAACTTCCAAAAATTACATTTTTACCCTCGAACTTC-CA
*** *
31073685 AAAAATTACATTTTTGCCCTTTAACTTCCTAAAATTACATTTTCT-CCCTCGAACTTCC-
1 AAAAATTACATTTTTGCCCCCAAACTTCCAAAAATTACATTTT-TACCCTCGAACTTCCA
* **
31073743 AAAAATTACA-TTTTGCCCCTAAACTTTTAAAAATTACATTTTTACCCTCGAACTTCTC-
1 AAAAATTACATTTTTGCCCCCAAACTTCCAAAAATTACATTTTTACCCTCGAACTTC-CA
* * * * *
31073801 AAAAATCACATTTTTGCTCCC-TACTTCAAAAAATTACATTTTTACCCTCGAACTTTCA
1 AAAAATTACATTTTTGCCCCCAAACTTCCAAAAATTACATTTTTACCCTCGAACTTCCA
* * * * *
31073859 AAAAATCACATTTTGGCCCCCAAACTTCCAAAAATCACATTTTTACCCCCGAATTTCCA
1 AAAAATTACATTTTTGCCCCCAAACTTCCAAAAATTACATTTTTACCCTCGAACTTCCA
31073918 AAA
1 AAA
31073921 TTACCATTTT
Statistics
Matches: 203, Mismatches: 26, Indels: 14
0.84 0.11 0.06
Matches are distributed among these distances:
56 1 0.00
57 40 0.20
58 70 0.34
59 86 0.42
60 6 0.03
ACGTcount: A:0.35, C:0.27, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAAATTACATTTTTGCCCCCAAACTTCCAAAAATTACATTTTTACCCTCGAACTTCCA
Found at i:31073931 original size:28 final size:28
Alignment explanation
Indices: 31073707--31073959 Score: 101
Period size: 29 Copynumber: 8.8 Consensus size: 28
31073697 TTTGCCCTTT
31073707 AACTTCCTAAAATTA-CATTTT-CTCCCTCG
1 AACTTCC-AAAATTACCATTTTAC-CCC-CG
* **
31073736 AACTTCCAAAAATTA-CATTTTGCCCCTA
1 AACTTCC-AAAATTACCATTTTACCCCCG
** *
31073764 AACTTTTAAAAATTA-CATTTTTACCCTCG
1 AAC-TTCCAAAATTACCA-TTTTACCCCCG
* * *
31073793 AACTTCTCAAAAAT-CACATTTTTGCTCCC-
1 AACTTC-CAAAATTAC-CA-TTTTACCCCCG
* * *
31073822 TACTTCAAAAAATTA-CATTTTTACCCTCG
1 AACTTC-CAAAATTACCA-TTTTACCCCCG
* * * *
31073851 AACTTTCAAAA-AATCACATTTTGGCCCCCA
1 AACTTCCAAAATTA-C-CATTTT-ACCCCCG
*
31073881 AACTTCCAAAAAT-CACATTTTTACCCCCG
1 AACTTCCAAAATTAC-CA-TTTTACCCCCG
* *
31073910 AATTTCCAAAATTACCATTTTACCTCCG
1 AACTTCCAAAATTACCATTTTACCCCCG
* *
31073938 TACATCCAAAAGTTACCATTTT
1 AACTTCCAAAA-TTACCATTTT
31073960 TGCTCCCAAA
Statistics
Matches: 169, Mismatches: 39, Indels: 32
0.70 0.16 0.13
Matches are distributed among these distances:
27 1 0.01
28 46 0.27
29 90 0.53
30 32 0.19
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (28 bp):
AACTTCCAAAATTACCATTTTACCCCCG
Found at i:31074232 original size:19 final size:19
Alignment explanation
Indices: 31074208--31074248 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
31074198 AACTTTATCA
31074208 TTAA-TTGCATAGCTCGTAT
1 TTAATTTGCAT-GCTCGTAT
*
31074227 TTAATTTGCATGCTCGTTT
1 TTAATTTGCATGCTCGTAT
31074246 TTA
1 TTA
31074249 TCTTTATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.49
Consensus pattern (19 bp):
TTAATTTGCATGCTCGTAT
Found at i:31076210 original size:17 final size:18
Alignment explanation
Indices: 31076188--31076237 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
31076178 TATTAAATGA
31076188 TTTTTTGTTTATTTT-AT
1 TTTTTTGTTTATTTTGAT
*
31076205 TTTTTTGTTT-TTTTGGT
1 TTTTTTGTTTATTTTGAT
*
31076222 TTATTTGTTTTATTTT
1 TTTTTTG-TTTATTTT
31076238 TGTTAGGCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 4 0.14
17 17 0.61
18 3 0.11
19 4 0.14
ACGTcount: A:0.08, C:0.00, G:0.10, T:0.82
Consensus pattern (18 bp):
TTTTTTGTTTATTTTGAT
Found at i:31076224 original size:26 final size:27
Alignment explanation
Indices: 31076188--31076241 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
31076178 TATTAAATGA
31076188 TTTTTTGTTTATTT-TATT-TTTTTGT
1 TTTTTTGTTTATTTGTATTATTTTTGT
*
31076213 TTTTTTGGTTTATTTGTTTTATTTTTGT
1 TTTTTT-GTTTATTTGTATTATTTTTGT
31076241 T
1 T
31076242 AGGCCCGACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 8 0.32
27 3 0.12
28 8 0.32
ACGTcount: A:0.07, C:0.00, G:0.11, T:0.81
Consensus pattern (27 bp):
TTTTTTGTTTATTTGTATTATTTTTGT
Found at i:31076474 original size:49 final size:48
Alignment explanation
Indices: 31076415--31076518 Score: 127
Period size: 48 Copynumber: 2.1 Consensus size: 48
31076405 AGACTTGCTT
* * * * *
31076415 TTTGCAGCTTTAATCTGCCTTTCTTTATCTTTAGGGTAGAAGATTCGCC
1 TTTGCGGCTTTAATCTGCC-CTCTTCATCTTTAGAGTAGAAGATTCACC
* * *
31076464 TTTGCGGCTTTAATTTGCCCTCTTCATGTTTAGAGTATAAGATTCACC
1 TTTGCGGCTTTAATCTGCCCTCTTCATCTTTAGAGTAGAAGATTCACC
31076512 TTTGCGG
1 TTTGCGG
31076519 TTTCAGTCTT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 30 0.64
49 17 0.36
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.42
Consensus pattern (48 bp):
TTTGCGGCTTTAATCTGCCCTCTTCATCTTTAGAGTAGAAGATTCACC
Found at i:31076552 original size:49 final size:49
Alignment explanation
Indices: 31076441--31076902 Score: 460
Period size: 49 Copynumber: 9.4 Consensus size: 49
31076431 GCCTTTCTTT
* * * * **
31076441 ATCTTTAGGGTAGAAGATTCGCCTTTGCGGCTTTAAT-TTGCCCTCTTC
1 ATCTTTAGGGTATAAGATTCACCTTTGCGGCTTCAATCTTTCCCTCCAC
* * * * *
31076489 ATGTTTAGAGTATAAGATTCACCTTTGCGGTTTCAGTCTTTCCCTCCAT
1 ATCTTTAGGGTATAAGATTCACCTTTGCGGCTTCAATCTTTCCCTCCAC
* * * * *
31076538 GTCTTTAGGGTATAAGATTCACCTTTGTGACTTCAATCTTTTCCTTCAC
1 ATCTTTAGGGTATAAGATTCACCTTTGCGGCTTCAATCTTTCCCTCCAC
** *
31076587 ATCAATAGGGTATAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCAC
1 ATCTTTAGGGTATAAGATTCACCTTTGCGGCTTCAATCTTTCCCTCCAC
** * * * *
31076636 ATCACTAGGGTATAAGATTTACCTTTGCGACTTCACTCTTTCCCTTCAC
1 ATCTTTAGGGTATAAGATTCACCTTTGCGGCTTCAATCTTTCCCTCCAC
** * *
31076685 ATCACTAGGGTATAAGATTCGCCTTTGCAGCTTCAATCTTTCCCTCCAC
1 ATCTTTAGGGTATAAGATTCACCTTTGCGGCTTCAATCTTTCCCTCCAC
* * *
31076734 ATCTTTAAGGTATAAGATTCATCTTTACGGCTTCAATCTTTCCCTCCAC
1 ATCTTTAGGGTATAAGATTCACCTTTGCGGCTTCAATCTTTCCCTCCAC
* * *** * * *
31076783 ATCTCTAGGGTATATGATTTGTCTTTGCGGTTTCAATTTTTCCCTTCAC
1 ATCTTTAGGGTATAAGATTCACCTTTGCGGCTTCAATCTTTCCCTCCAC
* * * **
31076832 A-CTTTTAGGGTATAAGATTCTCCTTTTTCAGCTTCAATCTTTCCCTTTAC
1 ATC-TTTAGGGTATAAGATTCACC-TTTGCGGCTTCAATCTTTCCCTCCAC
* *
31076882 ATCTCTAGGTGTATTAGATTC
1 ATCTTTAGG-GTATAAGATTC
31076903 GCCCTTGCAG
Statistics
Matches: 340, Mismatches: 69, Indels: 7
0.82 0.17 0.02
Matches are distributed among these distances:
48 31 0.09
49 271 0.80
50 27 0.08
51 11 0.03
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (49 bp):
ATCTTTAGGGTATAAGATTCACCTTTGCGGCTTCAATCTTTCCCTCCAC
Found at i:31076694 original size:147 final size:148
Alignment explanation
Indices: 31076441--31076910 Score: 534
Period size: 147 Copynumber: 3.2 Consensus size: 148
31076431 GCCTTTCTTT
* * * * ** * * *
31076441 ATCTTTAGGGTAGAAGATTCGCCTTTGCGGCTTTAAT-TTGCCCTCTTCATGTTTAGAGTATAAG
1 ATCTATAGGGTATAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAG
* * * ** *
31076505 ATTCACCTTTGCGGTTTCAGTCTTTCCCTCCATGTCTTTAGGGTATAAGATTCACCTTTGTGA-C
66 ATTTACCTTTGCGGTTTCAATCTTTCCCTTCACATCTTTAGGGTATAAGATTCACCTTTGTCAGC
*
31076569 TTCAATCTTTTCCTTCAC
131 TTCAATCTTTCCCTTCAC
* *
31076587 ATCAATAGGGTATAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCACATCACTAGGGTATAAG
1 ATCTATAGGGTATAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAG
** * ** *
31076652 ATTTACCTTTGCGACTTCACTCTTTCCCTTCACATCACTAGGGTATAAGATTCGCCTTTG-CAGC
66 ATTTACCTTTGCGGTTTCAATCTTTCCCTTCACATCTTTAGGGTATAAGATTCACCTTTGTCAGC
*
31076716 TTCAATCTTTCCCTCCAC
131 TTCAATCTTTCCCTTCAC
* * ** * *
31076734 ATCTTTAAGGTATAAGATTCATCTTTACGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATATG
1 ATCTATAGGGTATAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAG
** * * *
31076799 ATTTGTCTTTGCGGTTTCAATTTTTCCCTTCACA-CTTTTAGGGTATAAGATTCTCCTTTTTCAG
66 ATTTACCTTTGCGGTTTCAATCTTTCCCTTCACATC-TTTAGGGTATAAGATTCACCTTTGTCAG
*
31076863 CTTCAATCTTTCCCTTTAC
130 CTTCAATCTTTCCCTTCAC
* * *
31076882 ATCTCTAGGTGTATTAGATTCGCCCTTGC
1 ATCTATAGG-GTATAAGATTCGCCTTTGC
31076911 AGCCTACAGC
Statistics
Matches: 268, Mismatches: 51, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
146 35 0.13
147 192 0.72
148 27 0.10
149 14 0.05
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (148 bp):
ATCTATAGGGTATAAGATTCGCCTTTGCGGCTTCAATCTTTCCCTCCACATCTCTAGGGTATAAG
ATTTACCTTTGCGGTTTCAATCTTTCCCTTCACATCTTTAGGGTATAAGATTCACCTTTGTCAGC
TTCAATCTTTCCCTTCAC
Found at i:31077037 original size:136 final size:136
Alignment explanation
Indices: 31076804--31077049 Score: 311
Period size: 136 Copynumber: 1.8 Consensus size: 136
31076794 ATATGATTTG
* * * * * *
31076804 TCTTTGCGGTTTCAATTTTTCCCTTCACACTTTTAGGGTATAAGATTCTCCTTTTTCAGCTTCAA
1 TCTTTGCGGCTTCAATTCTGCCCTTCACACTTTTAGGGTATAAGATTCGCCTATTACAGCTTCAA
* * * * *
31076869 TCTTTCCCTTTACATCTCTAGGTGTATTAGATTCGCCCTTGCAGCCTACAGCTTTAGGGGTATAA
66 TCTTGCCCTCTACAGCTCTAGGGGTATAAGATTCGCCCTTGCAGCCTACAGCTTTAGGGGTATAA
31076934 ACTTCA
131 ACTTCA
*
31076940 TCTTTGCGGCTTCAA-TCTGCCCTTCTACAGC-TTTAGGTGTATGAGATTCGCC-ATTACAGCTT
1 TCTTTGCGGCTTCAATTCTGCCCTTC-ACA-CTTTTAGG-GTATAAGATTCGCCTATTACAGCTT
*
31077002 CAAT-TTGCTCCTCTACAGCTTTAGGGGTATAAGATTCGCCCTTGCAGC
63 CAATCTTGC-CCTCTACAGCTCTAGGGGTATAAGATTCGCCCTTGCAGC
31077050 TTCAATCTGC
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
135 11 0.12
136 69 0.74
137 13 0.14
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (136 bp):
TCTTTGCGGCTTCAATTCTGCCCTTCACACTTTTAGGGTATAAGATTCGCCTATTACAGCTTCAA
TCTTGCCCTCTACAGCTCTAGGGGTATAAGATTCGCCCTTGCAGCCTACAGCTTTAGGGGTATAA
ACTTCA
Found at i:31077087 original size:50 final size:49
Alignment explanation
Indices: 31076914--31077080 Score: 192
Period size: 50 Copynumber: 3.3 Consensus size: 49
31076904 CCCTTGCAGC
* ** * *
31076914 CTACAGCTTTAGGGGTATAA-ACTTCATCTTTGCGGCTTCAATCTGCCCTT
1 CTACAGCTTTAGGTGTATAAGA-TTCGCCATTGCAGCTTCAATCTGCCC-T
* * *
31076964 CTACAGCTTTAGGTGTATGAGATTCGCCATTACAGCTTCAATTTGCTCCT
1 CTACAGCTTTAGGTGTATAAGATTCGCCATTGCAGCTTCAATCTGC-CCT
* *
31077014 CTACAGCTTTAGGGGTATAAGATTCGCCCTTGCAGCTTCAATCTGCACCT
1 CTACAGCTTTAGGTGTATAAGATTCGCCATTGCAGCTTCAATCTGC-CCT
*
31077064 ATACAGCTTTAGGTGTA
1 CTACAGCTTTAGGTGTA
31077081 ATAGATTTGT
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
50 96 0.97
51 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (49 bp):
CTACAGCTTTAGGTGTATAAGATTCGCCATTGCAGCTTCAATCTGCCCT
Done.